Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004123.1 Hibiscus syriacus cultivar Beakdansim tig00009023_pilon, 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: 1596068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:155600 original size:29 final size:29
Alignment explanation
Indices: 155566--155629 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
155556 GTAATAAAAA
155566 GCAATGTGAAAAGGCTAATTGAAAAGCAT
1 GCAATGTGAAAAGGCTAATTGAAAAGCAT
155595 GCAATGTGAAAAGGCTAATTGAAAAGCAT
1 GCAATGTGAAAAGGCTAATTGAAAAGCAT
155624 GCAATG
1 GCAATG
155630 CAAAACTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (29 bp):
GCAATGTGAAAAGGCTAATTGAAAAGCAT
Found at i:159466 original size:11 final size:11
Alignment explanation
Indices: 159450--159485 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
159440 ACAAGAAACA
159450 AGAATCAAGAG
1 AGAATCAAGAG
159461 AGAATCAAGAG
1 AGAATCAAGAG
159472 AGAATCAA-AG
1 AGAATCAAGAG
159482 AGAA
1 AGAA
159486 AGCATCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.58, C:0.08, G:0.25, T:0.08
Consensus pattern (11 bp):
AGAATCAAGAG
Found at i:168976 original size:232 final size:233
Alignment explanation
Indices: 168291--173446 Score: 6771
Period size: 233 Copynumber: 22.2 Consensus size: 233
168281 TGATTTAAAG
* * *
168291 AATTTCAGTTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGATATGTGAAAACATCC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * * * * *
168356 TGCCTGAAA-GTCTTATGGATGGCCCGAAAGACTTATCGTCTTGCTCGAAAGACTTAAAGATGAA
66 TGCC-CAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* * *
168420 CCGAAGAATTTAATCATCATGCTCGAGAGACTTACTGATGGCCTGAAGGACTTATCAATTTTGGA
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
* *
168485 AATAGTTTACTAAGTAAGAAACTTTTTTTACTTTTAAAAA
195 AATAGTTTACTAAGTAAGAAACTTTTCTTACTTTT-CAAA
** * * * * *
168525 AATTT-AGCTTTCATATTTAAATGATAAACTTTTCACATTTTTTGAGAGATATGTGAAAACATCC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * ** *
168589 TGCCCGAAGGTCTTATGGATGGCTCGAATAACTTATCATCTTGCTCGAAATACTTACAGATGACC
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
* * * * * *
168654 TGAAGGATTTTAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACTAATTTTGGAA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
168719 ATAGTTTACTAAGTAAGAAACTTTTCTTA-TATTTCAAA
196 ATAGTTTACTAAGTAAGAAACTTTTCTTACT-TTTCAAA
* * * * * **
168757 ATTTTCAATTTTCAGAATTAAATGAGAAATTTTTCTCATTTTTCGATAGACACGTGAAAACATTA
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * *
168822 TGCCCAATGGTCTTGTGGATGGCACGAAGGACCTATCATCTTGCTCGAAAGACTGACAGATGA-C
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
* * *
168886 CGAAGAATTTAATCATCATGCTTGAGAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGCA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
*
168951 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTTAAAA
196 ATAGTTTACTAAGTAAGAAACTTTTCTTAC-TTTTCAAA
* * * * * * *
168990 AAATT-AGTTTTCATATTTAAATGATAAAC-TTTCACATTTTTTGAGAGATATGTGAAAACATCC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * * *
169053 TGCCCGAAGGTCTTATGGATGGCTCGAATGACTTATCGTCTTGCTCGAAATACTTACAGATGACC
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
* * * * * * *
169118 CGAAGGATTTTAGCATCATGATCGAAAGACTTACTGATGGTCCAAAGGACTTACTAATTTTGGAA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
*
169183 ATAGTTTACTAAGTTAGAAACTTTTCTTACTTTTCAAA
196 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* * * * *
169221 ATTTTTGATTTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTTGAGAGACATGTGAAAACATT
1 A-ATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATC
* * * * *
169286 ATGCCCAAAGGTCTCGTGAATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
65 CTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* *
169351 CC-AGAGAATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTTGG
130 CCGA-AGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGG
* * * *
169415 AAACAGTTTACTAAGTAAGAAACATTTCTTCCTTTTTAAA
194 AAATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* *
169455 AATTTCAATTTTCATATTTAAATGAGAAACTTTTCTCATTTTTTTGAGAGACATGTGAAAACATC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA-TTTTTCGAGAGACATGTGAAAACATC
* * * * *
169520 CTGCCCAAAGGTCTTGTGGATGGCTCGAA-AACTTATCATTTTGCACGAAAAACTTATAGATGAC
65 CTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* * * *
169584 CCGAAGGATTTAAACATCATGCTTGAAAGACTTACTGATGACCCGAAGGACTTACCAATTTTGGA
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
*
169649 AATAGTTTACTAAGTAAGGAAA-TTTTCTTACGTTTC-AA
195 AATAGTTTACTAAGTAA-GAAACTTTTCTTACTTTTCAAA
* *
169687 AATTTCAATTTTCATATTTAAATGAGAAA-TATTTCTCATTTTT-GAGAGACATGTGAAAATATC
1 AATTTCAATTTTCAGATTTAAATGAGAAACT-TTTCTCATTTTTCGAGAGACATGTGAAAACATC
*
169750 CTGCCCAAAGGTCTTGTGGATGGAC-CGAAGGACTTATCATCTTACTCGAAAGACTTACAGATGA
65 CTGCCCAAAGGTCTTGTGGATGG-CTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGA
* *
169814 CCCGAAGAATTTACTCATCATGCTCGAAAGACTTACTGATGGTCCGAAGGACTTACCAATTTTGG
129 CCCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGG
* *
169879 AAATAATTTACTATGTAAGGAAA-TTTTCTTA-TGTTTCAAA
194 AAATAGTTTACTAAGTAA-GAAACTTTTCTTACT-TTTCAAA
* *
169919 AATTTCAATTTTCAGATTTAAATGAG-AAGTTTTCTCATTTTTCGAGAGACATCTGAAAACATCC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * * * * *
169983 TGCCCAAAGGTCTTGTGGATGACACAAAGAACTTATCATCTTGCTCAAAAGACTGACAGATGACG
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
* * * * * *
170048 CTAAGAATTTAATTATCATGCTCGAGAGAGTTACTTATGTCCCGAAGGACTTACCAATTTTGGAA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
* *
170113 ATAGTTTACTAAGTAAGAAACATTTCTT-CATTTTTAAA
196 ATAGTTTACTAAGTAAGAAACTTTTCTTAC-TTTTCAAA
* * * *
170151 AATTTCAAATTTCATATTTAAATGATAAACTTTTCTCATTTTTTCGAGAGACATATGAAAACATC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA-TTTTTCGAGAGACATGTGAAAACATC
* * * * *
170216 CTGCTCAAAGGTCTTGTAGATGGCTCGAAAGACTTATCATTTTGCTTGAAAGACTTACA-ATGAC
65 CTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* * *
170280 CCGAAGGATTTAAACATCATGCTC-AAAGACTTACTGATGACCCGAAGGACTTACCAATTTTGGA
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
*
170344 AATAGTTTACTAAGTAAGGAAA-TTTTCTTACGTTTCAAA
195 AATAGTTTACTAAGTAA-GAAACTTTTCTTACTTTTCAAA
* * *
170383 AATTTCAATTTTCAGATTTAAATGAG-AAGTTTTCTCATTTTTCGAGAGACATCTAAAAACATCC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * * * *
170447 TG-CCAAAGGTCTTGTGGATGACACAAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACG
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
* * * * *
170511 CTAAGAATTTAATTATCATGCTCGAGAGAGTTACTGATGTCCCGAAGGACTTACCAATTTTGGAA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
170576 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
196 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
*** * * ** * *
170614 AATTTTTGTTTTCAGATTTAAATGATAAACTTTTCACATTTTTTTAGAGATATGTGGAAACATCC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * *
170679 TGCCCGAAGGTCTTATGGATGGCTCGAATGACTTATCGTCTTGCTCGAAAGACTTACAGATGACC
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
* * * * *
170744 CGAAGGATTTTAGCATCATGCTTGAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTTGGAA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
*
170809 ATAGTTTACTAACTAAGAAACTTTTCTTACTTTTCAAA
196 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
*
170847 AATTCCAATTTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATC
1 AATTTCAA-TTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATC
* * * * * ** *
170912 ATGCCCAAAGGTCTTG-GGAATGTC-CCAAAGACTTATCATCTTTCTTAAAAGACTTACAAATGA
65 CTGCCCAAAGGTCTTGTGG-ATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGA
* * *
170975 CCCGTAGAATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAATTTTGG
129 CCCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGG
* * *
171040 AAATAGTTTACTAAGTAAGAAACATTTCTTCCTTTTTAAA
194 AAATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* * * * *
171080 AATTTCAAATTTCATATTTAAATGATAAACTTTTCTCATTTTTTCGAGAGACATATGAAAACATA
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA-TTTTTCGAGAGACATGTGAAAACATC
* * * *
171145 CTGCTCAAAGGTCTTGTGGATGGCTCGAAAGACTTATCATTTTGCTTGAAAGACTTACAGATGAC
65 CTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* * *
171210 CCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACCAATTTTGGA
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
*
171275 AATAGTTTACTAAGTAAGGAAA-TTTTCTTACGTTTCAAA
195 AATAGTTTACTAAGTAA-GAAACTTTTCTTACTTTTCAAA
* *** * * *
171314 ATTTTCAATTTTCAGATTTAAATGAGATTTTTTTC-CTATTTTTTGAGAGTCATTTGAAAACATC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTC-ATTTTTCGAGAGACATGTGAAAACATC
* * * * * *
171378 TTGCCCAAAGGTCTTGTGGATTGCACGAAGGACCTATCATCTTGCTTGAAAGACTAACAGATGAC
65 CTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
*
171443 CCGAAGAATTTAATCATCATGCTCGAGAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
*
171508 AATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTAAAAA
195 AATAGTTTACTAAGTAAGAAACTTTTCTTACTTTT-CAAA
* * * * * * *
171548 AATTT-AGTTTTCATATTTAAATGATAAACTTTTCACATTTTTTGAGAGATATGTGAAAACATCA
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * * * *
171612 TGCCCAAAGGTCTTATGGATGGCTCGAATGACTTATCGTATTGCTCGAAATACTTATAGATGACC
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
* * * * * *
171677 CGAAGGATTTTAGCATCATGCTCAAAAGACTTACTGATGGCCCAAAGGACTTACTAA-TTTGGAA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
*
171741 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAGA
196 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* * * *
171779 ATTTTTAATTTTTCAGATTTAAATGAGAAACTTTTCTAATTTTTCGAGAGACATGTGAAAACATT
1 AATTTCAA-TTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATC
* * * * * *
171844 ATGCCCAAAGGTCTTGTGAATGGCCCAAAGTACTTATCATCTTGCTCGAAAGACTTACAGAT-AA
65 CTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* * *
171908 CCGGAGAATTTACTCATCATGCTTGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
* * *
171973 AACAGTTTACTAAGTAAGAAACATTTCTTACTTTTTAAA
195 AATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* * *
172012 AATTTAAATTTTCATATTTAAATGAGAAA-TGTTTCTCATTTTTTCAAGAGACATGTGAAAACAT
1 AATTTCAATTTTCAGATTTAAATGAGAAACT-TTTCTCA-TTTTTCGAGAGACATGTGAAAACAT
* * * * * *
172076 CCTACCCAAAGGTCTTGTGAATGGCTCGAAAGACTTATCATTTTGCTTGAAAGACTTACATATGA
64 CCTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGA
* * *
172141 CCTGAATG-ATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACCAATTTTG
129 CCCGAA-GAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTG
*
172205 GAAATAGTTTACTAAGTAAGAAACTTTTCTTACATTTCAAA
193 GAAATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* * * * *
172246 ATTTTCAATTTTCAGATTCAAATGAGAAATTTTTCTCGTTTTTCGAGAGACATATGAAAACATCC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* *
172311 TG-CCAAAGGTCTTGTGGATAGAC-CGAAGGACTTATCATCTTACTCGAAAGACTTACAGATGAC
66 TGCCCAAAGGTCTTGTGGAT-GGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* *
172374 CCGAAGAATTTACTCATCACGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
* *
172439 AATAGTTTACTTAGTAAGGAAA-TTTTCTTACGTTTCAAA
195 AATAGTTTACTAAGTAA-GAAACTTTTCTTACTTTTCAAA
* * * *
172478 AATTTCAATTTTCATATTTAAATAAG-AAGTTTTCTCATTTTTCGAGAGACATATGAAAACATCC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * *
172542 TGCCCAAAGGTCTTGTGGATGACTCAAAGGACTTATCATCTTGCTCGAAAAACTGACAGATGACC
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
* *
172607 CTAAGAATTTAATCATCATGCTCGAGAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
172672 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTC---
196 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
*** * * * *
172707 AATTTTTTTTTTCAGATTTAAATGATAAACTTTTCACA-TTTT-GTAGAGATATGTGGAAACATC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCG-AGAGACATGTGAAAACATC
* * * * ** * *
172770 CTACCCGAAGGTCTTATGGATGGCTCGAATGACTTATTGTCTTGCACGAAAGACTTACAAATGAC
65 CTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* * * * * *
172835 CCAAAGGATTTTAGCATCATGCTCGAAAGATTTACT-ATTGGCCCGAAGGACTTACTAATTTTGG
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGA-TGGCCCGAAGGACTTACCAATTTTGG
172899 AAATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
194 AAATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* * *
172939 AATTCCAATTTTCAGATTTAAATAAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCA
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
* * * * *
173004 TGCCCAAAGGTCTTGTGAATGTCCCAAAGGACTTATCATCTTTCTCGAAAGACTTACAGAT-ACC
66 TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
** *
173068 CTTAGAATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
131 CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
* * *
173133 ATAGTTTACTAAGTAAGAAACATTTCTTCCTTTTTAAA
196 ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* *
173171 AATTTCAATTTTCATATTTAAATGAGAAACTTTTCTCATTTTTTCGAGAGACATATGAAAACATC
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA-TTTTTCGAGAGACATGTGAAAACATC
* * *
173236 CTGCCCAAAGGTCTTGTGGATGGCTCAAAAGACTTATCAT-TTTCTCGAAAGACTTACAGATGAC
65 CTGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGAC
* * * * * *
173300 CCGGAGGATTTAAACATCATGCTCAAAAGACTTACTGATGACCCGAATGACTTACCAATTTTGGA
130 CCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
**
173365 AATAGTTTACTAAGTAAGAAACCCTTCTTACTTTTCAAA
195 AATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
* * *
173404 ATTTTCAATTTTCAGATTTAAATGAGAAAATTTTCTAATTTTT
1 AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTT
173447 TAACTTATAA
Statistics
Matches: 4283, Mismatches: 571, Indels: 138
0.86 0.11 0.03
Matches are distributed among these distances:
228 2 0.00
229 230 0.05
230 110 0.03
231 390 0.09
232 1209 0.28
233 1672 0.39
234 664 0.16
235 6 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (233 bp):
AATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCGAGAGACATGTGAAAACATCC
TGCCCAAAGGTCTTGTGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACC
CGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
ATAGTTTACTAAGTAAGAAACTTTTCTTACTTTTCAAA
Found at i:169861 original size:42 final size:41
Alignment explanation
Indices: 169768--169868 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
169758 AGGTCTTGTG
* *
169768 GATGGACCGAAGGACTTATCATCTTACTCGAAAGACTTACA
1 GATGGACCGAAGAACTTATCATCATACTCGAAAGACTTACA
* * *
169809 GAT-GACCCGAAGAATTTACTCATCATGCTCGAAAGACTTACT
1 GATGGA-CCGAAGAACTTA-TCATCATACTCGAAAGACTTACA
* *
169851 GATGGTCCGAAGGACTTA
1 GATGGACCGAAGAACTTA
169869 CCAATTTTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.04
41 13 0.27
42 33 0.67
43 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
GATGGACCGAAGAACTTATCATCATACTCGAAAGACTTACA
Found at i:171261 original size:20 final size:20
Alignment explanation
Indices: 171196--171264 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
171186 TTGCTTGAAA
*
171196 GACTTACAGATGACCCGAAG
1 GACTTACTGATGACCCGAAG
* * * *
171216 GATTTAAACATCATG-CTCGAAA
1 GACTT--AC-TGATGACCCGAAG
171238 GACTTACTGATGACCCGAAG
1 GACTTACTGATGACCCGAAG
171258 GACTTAC
1 GACTTAC
171265 CAATTTTGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 4 0.11
20 18 0.50
22 11 0.31
23 3 0.08
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (20 bp):
GACTTACTGATGACCCGAAG
Found at i:176279 original size:18 final size:18
Alignment explanation
Indices: 176256--176303 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
176246 TAATGTAATT
176256 AGTATCGATACTGATGTG
1 AGTATCGATACTGATGTG
*
176274 AGTATCGATATTGATGTG
1 AGTATCGATACTGATGTG
176292 AGTATCGATACT
1 AGTATCGATACT
176304 AAGAGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.35
Consensus pattern (18 bp):
AGTATCGATACTGATGTG
Found at i:176459 original size:94 final size:95
Alignment explanation
Indices: 176292--176491 Score: 289
Period size: 94 Copynumber: 2.1 Consensus size: 95
176282 TATTGATGTG
*
176292 AGTATCGATACTAAGAGAAATGTATCGATACCTTGGAATCCAAAAGGTAGAAATGGTATCGATAC
1 AGTATCGATACTAAGAGAAATGTATCGATACCATGGAATCCAAAAGGTAGAAATGGTATCGATAC
* *
176357 TGATAGGGAGTATCAGTACCATAGTATAGA
66 TGAAAGGGAGTATCAGTACCACAGTATAGA
* * **
176387 AGTATC-AGTACTAGGAGAAA-GATATCGATACCATGG-ATCCAGAATTTAGAAATGGTATCGAT
1 AGTATCGA-TACTAAGAGAAATG-TATCGATACCATGGAATCCAAAAGGTAGAAATGGTATCGAT
*
176449 ACTGAAAGGGAGTATCAGTACCACATTATAGA
64 ACTGAAAGGGAGTATCAGTACCACAGTATAGA
176481 AGTATCGATAC
1 AGTATCGATAC
176492 CATGGTAGGG
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
94 63 0.67
95 31 0.33
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (95 bp):
AGTATCGATACTAAGAGAAATGTATCGATACCATGGAATCCAAAAGGTAGAAATGGTATCGATAC
TGAAAGGGAGTATCAGTACCACAGTATAGA
Found at i:176899 original size:54 final size:54
Alignment explanation
Indices: 176840--177038 Score: 276
Period size: 54 Copynumber: 3.7 Consensus size: 54
176830 ATAGGAATTA
176840 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTG
* * * *
176894 TGTGTGCAACCTAAGAAATTCATAATAAGTTTACGAATTTTCATATTGACACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTG
* * *
176948 TTTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATAGGCACTAG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACT-G
* * *
177003 -GTGTGCAACCTACAG-AATTCATCATATGTTGATGAA
1 TGTGTGCAACCTA-AGAAATTCATAATAAGTTTATGAA
177039 CAATCGTATA
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 125 0.98
55 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (54 bp):
TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTG
Found at i:179740 original size:68 final size:68
Alignment explanation
Indices: 179661--179805 Score: 254
Period size: 68 Copynumber: 2.1 Consensus size: 68
179651 ATAAAGCAAT
179661 ATGAATGAATGATCTTGATATCACTGTCACATAACCCTCCATAAATTATTTCCACGTATTTATAA
1 ATGAATGAATGATCTTGATATCACTGTCACATAACCCTCCATAAATTATTTCCACGTATTTATAA
179726 CTA
66 CTA
* * *
179729 ATGAATGAATGATCTTGATATTACTGTTACATAACCCTCCATAAATTATTTCCATGTATTTATAA
1 ATGAATGAATGATCTTGATATCACTGTCACATAACCCTCCATAAATTATTTCCACGTATTTATAA
179794 CTA
66 CTA
*
179797 ATGCATGAA
1 ATGAATGAA
179806 AAAATACTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.37
Consensus pattern (68 bp):
ATGAATGAATGATCTTGATATCACTGTCACATAACCCTCCATAAATTATTTCCACGTATTTATAA
CTA
Found at i:194524 original size:15 final size:15
Alignment explanation
Indices: 194506--194535 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
194496 ATTTGTTACC
*
194506 ATTCTTTTAGTTAAG
1 ATTCCTTTAGTTAAG
194521 ATTCCTTTAGTTAAG
1 ATTCCTTTAGTTAAG
194536 GGATTCTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (15 bp):
ATTCCTTTAGTTAAG
Found at i:199894 original size:7 final size:7
Alignment explanation
Indices: 199882--199907 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
199872 TAACATTTAT
199882 ATTTAAA
1 ATTTAAA
199889 ATTTAAA
1 ATTTAAA
199896 ATTTAAA
1 ATTTAAA
199903 ATTTA
1 ATTTA
199908 GCATTTTTCG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTAAA
Found at i:200724 original size:11 final size:10
Alignment explanation
Indices: 200700--200733 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
200690 TAAATATTAG
200700 TTATAAAATT
1 TTATAAAATT
200710 TTATAAAACTT
1 TTATAAAA-TT
200721 TTATAAATATT
1 TTATAAA-ATT
200732 TT
1 TT
200734 TTCAAAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.36
11 13 0.59
12 1 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TTATAAAATT
Found at i:201599 original size:20 final size:20
Alignment explanation
Indices: 201577--201673 Score: 99
Period size: 20 Copynumber: 4.8 Consensus size: 20
201567 CACAGGTTCC
201577 AAAATCGCAACGCGAA-AGT
1 AAAATCGCAACGCGAATAGT
* * *
201596 CAAATTTGCAACGCGAATAAT
1 -AAAATCGCAACGCGAATAGT
*
201617 TAAATCGCAACGCGAATAGT
1 AAAATCGCAACGCGAATAGT
* **
201637 TAAATCGCAACGATAATATGT
1 AAAATCGCAACGCGAATA-GT
201658 -AAATCGCAACGCGAAT
1 AAAATCGCAACGCGAAT
201674 TCTCCAAATT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 60 0.94
21 4 0.06
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGAATAGT
Found at i:201622 original size:40 final size:40
Alignment explanation
Indices: 201578--201673 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
201568 ACAGGTTCCA
* *
201578 AAATCGCAACGCGAA-AGTCAAATTTGCAACGCGAATAAT-T
1 AAATCGCAACGCGAATAGTCAAA-TCGCAACGAGAAT-ATGT
* *
201618 AAATCGCAACGCGAATAGTTAAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATAGTCAAATCGCAACGAGAATATGT
201658 AAATCGCAACGCGAAT
1 AAATCGCAACGCGAAT
201674 TCTCCAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 2 0.04
40 42 0.84
41 6 0.12
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGAATAGTCAAATCGCAACGAGAATATGT
Found at i:201861 original size:20 final size:20
Alignment explanation
Indices: 201811--201849 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
201801 TCGCATTGCG
201811 AAAA-TCAAATTCGCAACGC
1 AAAAGTCAAATTCGCAACGC
201830 AAAAGTCAAATTCGCAACGC
1 AAAAGTCAAATTCGCAACGC
201850 GAATAGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (20 bp):
AAAAGTCAAATTCGCAACGC
Found at i:202295 original size:20 final size:19
Alignment explanation
Indices: 202247--202299 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
202237 GAATTTGACT
202247 TTCGCGTTGCGAAATTGGA
1 TTCGCGTTGCGAAATTGGA
** *
202266 ACCTGTGTTGCGAAATTGGA
1 TTC-GCGTTGCGAAATTGGA
202286 GTTCGCGTTGCGAA
1 -TTCGCGTTGCGAA
202300 TTTGTTGGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (19 bp):
TTCGCGTTGCGAAATTGGA
Found at i:204374 original size:17 final size:17
Alignment explanation
Indices: 204352--204388 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
204342 GATTTTTTTT
204352 GGTGTTGATGATATTTG
1 GGTGTTGATGATATTTG
204369 GGTGTTGATGATATTTG
1 GGTGTTGATGATATTTG
204386 GGT
1 GGT
204389 TTTGCTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (17 bp):
GGTGTTGATGATATTTG
Found at i:205182 original size:73 final size:73
Alignment explanation
Indices: 205067--205272 Score: 199
Period size: 75 Copynumber: 2.8 Consensus size: 73
205057 TTTAAAAACG
* * *
205067 TTTTCAAAACTATATAATATA-ATGTTTTCCCAAAATGTTTT-AAA-A-ATATTATATAAGTTTT
1 TTTTAAAAACTATATATTATATATGTTTTCCAAAAATGTTTTAAAACATATATTATATAA-TTTT
205128 CAAAAAAATA
65 -AAAAAAATA
* * * *
205138 TTTTTAAAACTATATATTATATATTTTTTTCAAAAATATTTTTAAAACTATATATTATATAATTT
1 TTTTAAAAACTATATATTATATATGTTTTCCAAAAAT-GTTTTAAAAC-ATATATTATATAATTT
** * *
205203 TTTAAAGATG
64 TAAAAAAATA
* *
205213 TTTTAAAAACTATATATTATATAAGTTTT-CAAAAA-GTTTTAAAAACTATATAATATATAA
1 TTTTAAAAACTATATATTATATATGTTTTCCAAAAATGTTTT-AAAAC-ATATATTATATAA
205273 ATGTTTTTAA
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
71 19 0.17
72 16 0.14
73 22 0.19
74 9 0.08
75 31 0.27
76 5 0.04
77 11 0.10
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (73 bp):
TTTTAAAAACTATATATTATATATGTTTTCCAAAAATGTTTTAAAACATATATTATATAATTTTA
AAAAAATA
Found at i:205296 original size:38 final size:37
Alignment explanation
Indices: 205046--205309 Score: 190
Period size: 38 Copynumber: 7.2 Consensus size: 37
205036 ATTTTTAAAC
* * * *
205046 TATATTATATTTTTAAAAACGTTTTCAAAACTATAT-A
1 TATATAATGTTTTT-AAAATGTTTTAAAAACTATATAA
*
205083 -ATATAATGTTTTCCCAAAATGTTTT-AAAA--ATAT--
1 TATATAATGTTTT--TAAAATGTTTTAAAAACTATATAA
* * * *
205116 TATATAA-GTTTTCAAAAAAATATTTTTAAAACTATATAT
1 TATATAATGTTTT---TAAAATGTTTTAAAAACTATATAA
* * * *
205155 TATAT-ATTTTTTTCAAAAATATTTTTAAAACTATATAT
1 TATATAATGTTTTT--AAAATGTTTTAAAAACTATATAA
*
205193 TATATAAT-TTTTTAAAGATGTTTTAAAAACTATATAT
1 TATATAATGTTTTTAAA-ATGTTTTAAAAACTATATAA
* *
205230 TATATAA-GTTTTCAAAAAGTTTTAAAAACTATATAA
1 TATATAATGTTTTTAAAATGTTTTAAAAACTATATAA
** *
205266 TATATAAATGTTTTTAAAATGTTTCCAAAACTATATTA
1 TATAT-AATGTTTTTAAAATGTTTTAAAAACTATATAA
205304 TATATA
1 TATATA
205310 TATATATATA
Statistics
Matches: 190, Mismatches: 20, Indels: 34
0.78 0.08 0.14
Matches are distributed among these distances:
33 5 0.03
34 19 0.10
35 4 0.02
36 40 0.21
37 48 0.25
38 63 0.33
39 11 0.06
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
TATATAATGTTTTTAAAATGTTTTAAAAACTATATAA
Found at i:205307 original size:109 final size:106
Alignment explanation
Indices: 205055--205307 Score: 264
Period size: 111 Copynumber: 2.3 Consensus size: 106
205045 CTATATTATA
* *
205055 TTTTTAAAAACGTTTTCAAAACTATATAATATAATGTTTTCCCAAAATGTTTTAAAAATATTATA
1 TTTTTAAAAATGTTTTCAAAACTATATTATATAATGTTTT-CCAAAATGTTTTAAAAATATTATA
* * *
205120 TAAGTTTTCAAAAAAATATTTTTAAAACTATATATTATATATT
65 TAAGTTTTC-AAAAAATATTTTAAAAACTATATATTATAAATG
* * *
205163 TTTTTCAAAAATATTTTTAAAACTATATATTATATAAT-TTTT-TAAAGATGTTTTAAAAACTAT
1 TTTTT-AAAAATGTTTTCAAAAC--TATATTATATAATGTTTTCCAAA-ATGTTTT--AAA--A-
*
205226 ATATTATATAAGTTTTC-AAAAA-GTTTTAAAAACTATATAATATATAAATG
57 ATATTATATAAGTTTTCAAAAAATATTTTAAAAACTATAT-AT-TATAAATG
*
205276 TTTTT-AAAATGTTTCCAAAACTATATTATATA
1 TTTTTAAAAATGTTTTCAAAACTATATTATATA
205308 TATATATATA
Statistics
Matches: 122, Mismatches: 12, Indels: 21
0.79 0.08 0.14
Matches are distributed among these distances:
108 8 0.07
109 32 0.26
110 4 0.03
111 42 0.34
112 7 0.06
113 12 0.10
114 17 0.14
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (106 bp):
TTTTTAAAAATGTTTTCAAAACTATATTATATAATGTTTTCCAAAATGTTTTAAAAATATTATAT
AAGTTTTCAAAAAATATTTTAAAAACTATATATTATAAATG
Found at i:205309 original size:2 final size:2
Alignment explanation
Indices: 205297--205393 Score: 55
Period size: 2 Copynumber: 51.0 Consensus size: 2
205287 TTTCCAAAAC
*
205297 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A AA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
205335 T- TT TCA AA AA CCA TA T- TA TA TA TA TA TA TA TA TA TG CA TA TA
1 TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
205377 TA -A TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA
205394 AACAAAATAA
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
1 7 0.09
2 67 0.89
3 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (2 bp):
TA
Found at i:206176 original size:84 final size:83
Alignment explanation
Indices: 205936--207047 Score: 1030
Period size: 84 Copynumber: 13.4 Consensus size: 83
205926 AATTTATTGA
* * * * * * * *
205936 CAGATAGCCCTTCTTGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCGA
*
206001 ACTCGAGGGTCTTT-G-G
66 ACTCGAAGGTCTTTGGTG
* * * * * *
206017 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCGA
*
206081 ACTCAAAGGTCTTTGGTG
66 ACTCGAAGGTCTTTGGTG
* * * * * * * * *
206099 ACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAATTGATGTGCCCTCGAAGCTGAGTATAATCG
1 -CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCG
*
206164 AACTCGAGGGTCTTT-G-G
65 AACTCGAAGGTCTTTGGTG
* * * * *
206181 CAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCGA
206245 ACTCGAAGGTCTTTGGTTGG
66 ACTCGAAGGTCTTTGG-T-G
* * *
206265 CAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATATG-CCTT-AGAGCTGAGTGTAGT-G
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGA-AGCTGAGTGTAGTCG
*
206327 AAACTCGAAGGTCTTTTGGTCA
65 -AACTCGAAGGTC-TTTGGT-G
* * * * * * * * *
206349 CAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTACCCTCGAAGCTGAGTGTAATTGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCGA
*
206414 ACTCGAGGGTCTTT-G-G
66 ACTCGAAGGTCTTTGGTG
* * * * * *
206430 CATATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCGA
206494 ACTC-AATGGTCTTTGGTTGG
66 ACTCGAA-GGTCTTTGG-T-G
* * *
206514 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTT-AGAGCTAAGCGTAGTCG
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGA-AGCTGAGTGTAGTCG
* *
206577 AACTCGAAGTTCTTTTGGAG
65 AACTCGAAGGTC-TTTGGTG
* * * * * * *
206597 ACAGATAACCCTTTTAG-CATTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATC
1 -CAGATAACCCTTCTCGAC-TTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTC
* * *
206661 GAACTAGAGGGTCTTT--AG
64 GAACTCGAAGGTCTTTGGTG
* * * * *
206679 CAGCTAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCGA
*
206743 ACTCAAAGGTCTTTTGGTG
66 ACTCGAAGGTC-TTTGGTG
* * * * * * *
206762 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTAAGTGTAATCG
1 -CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCG
* *
206827 AACTTGAGGGTCTTT-G-G
65 AACTCGAAGGTCTTTGGTG
* * **
206844 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAACGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCGA
*
206908 ACTTGAAGGTCTTTGGTTGG
66 ACTCGAAGGTCTTTGG-T-G
* * *
206928 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAACT-TAGTCG
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTG-AGTGTAGTCG
* *
206991 AACTTGAAGGTCTTTGTTGG
65 AACTCGAAGGTCTTTGGT-G
* * *
207011 CAGATAACCCTTCTAGCCTTAAGTTATGTTGCAAATG
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
207048 TTGCCTTAAA
Statistics
Matches: 841, Mismatches: 153, Indels: 72
0.79 0.14 0.07
Matches are distributed among these distances:
79 1 0.00
80 144 0.17
81 176 0.21
82 6 0.01
83 77 0.09
84 347 0.41
85 87 0.10
86 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (83 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGCTGAGTGTAGTCGA
ACTCGAAGGTCTTTGGTG
Found at i:206424 original size:249 final size:248
Alignment explanation
Indices: 205968--207055 Score: 1340
Period size: 249 Copynumber: 4.4 Consensus size: 248
205958 GTTATGTTGT
* * * * * *
205968 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
* * * * * *
206029 CTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTT
65 CTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTT
* * *
206094 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAATTGATGTGCCCTCGAAGCTGAGTAT
130 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGT
*
206159 AATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTAC
195 AATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGC
206213 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
* * * * *
206278 TCGACTTAAGCTATGTTGCAAATGATATGCCTTAGAGCTGAGTGTAGT-GAAACTCGAAGGTCTT
66 TCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTAAGCGTAATCG-AACTCGAAGGTC-T
* * *
206342 TTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTACCCTCGAAGCTGAGTG
129 TTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * *
206407 TAATTGAACTCGAGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATACTGC
194 TAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGC
206462 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC-AATGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTTGGCAGATAACCCTT
* *
206526 CTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTAAGCGTAGTCGAACTCGAAGTTCTT
65 CTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTC-T
* * * *
206591 TTGGAGACAGATAACCCTTTTAGCATTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTG
129 TTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * * * *
206656 TAATCGAACTAGAGGGTCTTTAGCAGCTAGCCCTTCTCGACTTAAGCTATGCTGC
194 TAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGC
* *
206711 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG-TGACAGATAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTT
* * * * * * * * * *
206775 CTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTAAGTGTAATCGAACTTGAGGGTCT
65 CTCGACTTAAGTTATGCTGCAAATGATATGCCTTAG-AGCTAAGCGTAATCGAACTCGAAGGTCT
* * * * * * * **
206840 TT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAACG
129 TTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * * * *
206901 TAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
194 TAATCGAACTCGAGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATACTGC
* * * *
206960 AAATGATATGCCTTGGAGCTGAACTTAGTCGAACTTGAAGGTCTTT-GTTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
* * *
207024 TAGCCTTAAGTTATGTTGCAAATG-T-TGCCTTA
66 TCGACTTAAGTTATGCTGCAAATGATATGCCTTA
207056 AAAAAATGGC
Statistics
Matches: 744, Mismatches: 83, Indels: 31
0.87 0.10 0.04
Matches are distributed among these distances:
244 28 0.04
245 36 0.05
246 40 0.05
247 5 0.01
248 111 0.15
249 494 0.66
250 30 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (248 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
TCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTT
GGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTA
ATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGC
Found at i:206692 original size:165 final size:164
Alignment explanation
Indices: 205933--207054 Score: 1190
Period size: 165 Copynumber: 6.8 Consensus size: 164
205923 ACAAATTTAT
* * * *
205933 TGACAGATAGCCCTTCTTGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCATTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* *
205998 CGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTT
66 CGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* *
206063 GGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGG
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * *
206097 TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAATTGATGTGCCCTCGAAGCTGAGTATAAT
1 TGACAGATAACCCTTCTAGCATTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* *
206162 CGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATGTGCCTT
66 CGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
206227 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * * * * * *
206261 TTGGCAGATAACCCTTCTCG-ACTTAAGCTATGTTGCAAATGATATGCCTTAG-AGCTGAGTGTA
1 -TGACAGATAACCCTTCTAGCA-TTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTA
* * * * * * * *
206324 GT-GAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGAT
64 ATCG-AACTCGAGGGTC-TTTGG---CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* * * * * * *
206388 GTACCCTCGAAGCTGAGTGTAATTGAACTCGAGGGTCTTT-G
124 GT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * * * * * * * *
206429 -G-CATATAGCCCTTCTCG-ACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
1 TGACAGATAACCCTTCTAGCA-TTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
* * * *
206490 TCGAACTCAATGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
65 TCGAACTCGAGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * *
206555 GCCTTAGAGCTAAGCGTAGTCGAACTCGAAGTTCTTTTGG
126 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
* * *
206595 AGACAGATAACCCTTTTAGCATTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCATTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* * * *
206660 CGAACTAGAGGGTCTTTAGCAGCTAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
66 CGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
*
206725 GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGG
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
* *
206760 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTAAGTGTAAT
1 TGACAGATAACCCTTCTAGCATTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* *
206825 CGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
66 CGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* * *
206890 GAAGCTGAACGTAGTCGAACTTGAAGGTCTTTGG
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * * * * *
206924 TTGGCAGATAACCCTTCTCG-ACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAACT-T
1 -TGACAGATAACCCTTCTAGCA-TTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTG-AGTGT
* * * * * * *
206986 AGTCGAACTTGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTAAGTTATGTTGCAAATG-T-
63 AATCGAACTCGAGGGTC--T-TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
207049 TGCCTT
125 TGCCTT
207055 AAAAAAATGG
Statistics
Matches: 817, Mismatches: 116, Indels: 49
0.83 0.12 0.05
Matches are distributed among these distances:
163 1 0.00
164 234 0.29
165 411 0.50
166 7 0.01
167 38 0.05
168 70 0.09
169 56 0.07
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (164 bp):
TGACAGATAACCCTTCTAGCATTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
CGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:208394 original size:95 final size:94
Alignment explanation
Indices: 208227--208422 Score: 279
Period size: 95 Copynumber: 2.1 Consensus size: 94
208217 GGACAACTTA
** * * * *
208227 ATATATAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAAAACGGGGCTTTTAACCAATTG
1 ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAAACAGGGCGTTTAACCAATTG
*
208292 CCTTAGAGGGACAACTCAAGCTTTATTGT
66 CCTTAGAGGGACAACTCAAGCTTTATTGC
*
208321 ATAGTATAATTACCTTTATCAGGCTAGCTGAATATTATCCAT-AAAGCTAGGGCGTTTAACCAAT
1 ATA-TATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAAAC-AGGGCGTTTAACCAAT
208385 TG-CTCTAGAGGGACAACTCAAGCTTTATTGC
64 TGCCT-TAGAGGGACAACTCAAGCTTTATTGC
208416 ATATATA
1 ATATATA
208423 TAGTATTATA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
94 13 0.14
95 78 0.86
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (94 bp):
ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAAACAGGGCGTTTAACCAATTG
CCTTAGAGGGACAACTCAAGCTTTATTGC
Found at i:211897 original size:8 final size:8
Alignment explanation
Indices: 211883--211912 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
211873 ATAAATAAAT
211883 TAAAATAA
1 TAAAATAA
*
211891 TAGAATAA
1 TAAAATAA
211899 TAAAATAA
1 TAAAATAA
211907 TAAAAT
1 TAAAAT
211913 TAGAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (8 bp):
TAAAATAA
Found at i:211897 original size:29 final size:31
Alignment explanation
Indices: 211857--211919 Score: 71
Period size: 30 Copynumber: 2.1 Consensus size: 31
211847 ATGGTAAAAT
*
211857 AATAATTAAAT-ATTAAATAA-ATAAATTA-A
1 AATAATTAAATAATAAAATAATA-AAATTAGA
211886 AATAA-TAGAATAATAAAATAATAAAATTAGA
1 AATAATTA-AATAATAAAATAATAAAATTAGA
211917 AAT
1 AAT
211920 CAAAGCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
28 2 0.07
29 8 0.28
30 14 0.48
31 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (31 bp):
AATAATTAAATAATAAAATAATAAAATTAGA
Found at i:211950 original size:22 final size:22
Alignment explanation
Indices: 211879--211961 Score: 62
Period size: 22 Copynumber: 3.7 Consensus size: 22
211869 TTAAATAAAT
* *
211879 AAATTAAAATAATAGAATAATAAA
1 AAATAAAAATAA-A-AATAATAAC
* * *
211903 ATAATAAAATTAGAAATCAA-AGC
1 A-AATAAAAATAAAAAT-AATAAC
211926 AAATAAAAATAAAAATAATAAC
1 AAATAAAAATAAAAATAATAAC
*
211948 AAATAATAA-AAAAA
1 AAATAAAAATAAAAA
211962 GAAGTTAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
21 7 0.15
22 23 0.49
23 5 0.11
24 4 0.09
25 8 0.17
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (22 bp):
AAATAAAAATAAAAATAATAAC
Found at i:212017 original size:18 final size:19
Alignment explanation
Indices: 211994--212029 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
211984 AGAAGATATA
211994 CAAATA-TAAAACAAAATT
1 CAAATATTAAAACAAAATT
*
212012 CAAATATTAACACAAAAT
1 CAAATATTAAAACAAAAT
212030 ATGAAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.22
Consensus pattern (19 bp):
CAAATATTAAAACAAAATT
Found at i:213394 original size:71 final size:68
Alignment explanation
Indices: 213303--213500 Score: 195
Period size: 71 Copynumber: 2.8 Consensus size: 68
213293 TTTAAAAACG
*
213303 TTTTCAAAACTATATATTATATAGTTTTCCCAAAATGTTTTAAAAATATTATATAAGTTTTCAAA
1 TTTTAAAAACTATATATTATATAGTTTT-CCAAAATGTTTTAAAAATATTATATAA-TTTTCAAA
213368 CAAATA
64 -AAATA
* * * * * *
213374 TTTTTAAAGCTATATATTATATATTTTTTCAAAAATATTTTTAAAACTATATATATATAATTTTT
1 TTTTAAAAACTATATATTATATA-GTTTTCCAAAAT-GTTTTAAAA--ATAT-TATATAATTTTC
* * *
213439 TAAAGATG
61 AAAAAATA
*
213447 TTTTAAAAACTATATATTATATAAGTTTT-CAAAACGTTTT-AAAA-ATTATATAAT
1 TTTTAAAAACTATATATTATAT-AGTTTTCCAAAATGTTTTAAAAATATTATATAAT
213501 ATATAAATGT
Statistics
Matches: 106, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
66 8 0.08
67 2 0.02
68 1 0.01
70 3 0.03
71 31 0.29
72 16 0.15
73 27 0.25
74 11 0.10
75 7 0.07
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (68 bp):
TTTTAAAAACTATATATTATATAGTTTTCCAAAATGTTTTAAAAATATTATATAATTTTCAAAAA
ATA
Found at i:213557 original size:38 final size:37
Alignment explanation
Indices: 213282--213588 Score: 220
Period size: 36 Copynumber: 8.2 Consensus size: 37
213272 TTTTTTAAAC
* *
213282 TATATTATATTTTTAAAAACGTTTTCAAAACTATATAT
1 TATA-TATATTTTTAAAAATGTTTTAAAAACTATATAT
***
213320 TATATAGT-TTTCCCAAAATGTTTTAAAAA-TAT-TA-
1 TATATA-TATTTTTAAAAATGTTTTAAAAACTATATAT
** * * *
213354 TATA-AGT-TTTCAAACAAATATTTTTAAAGCTATATAT
1 TATATA-TATTTTTAA-AAATGTTTTAAAAACTATATAT
* *
213391 TATATAT-TTTTTCAAAAATATTTTTAAAACTATATA-
1 TATATATATTTTT-AAAAATGTTTTAAAAACTATATAT
*
213427 TATATA-ATTTTTTAAAGATGTTTTAAAAACTATATAT
1 TATATATA-TTTTTAAAAATGTTTTAAAAACTATATAT
* * * * *
213464 TATATA-AGTTTTCAAAACGTTTTAAAAATTATATAA
1 TATATATATTTTTAAAAATGTTTTAAAAACTATATAT
* * **
213500 TATATAAATGTTTTTAAAATGTTTCCAAAACTATATAT
1 TATATATAT-TTTTAAAAATGTTTTAAAAACTATATAT
* *
213538 TATATATATATATTAAAAATATTTTCAAAAACATATTATTAT
1 TATATATAT-TTTTAAAAATGTTTT-AAAAAC-TA-TA-TAT
213580 TATATATAT
1 TATATATAT
213589 ATATATATAT
Statistics
Matches: 217, Mismatches: 36, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
33 8 0.04
34 15 0.07
35 5 0.02
36 60 0.28
37 59 0.27
38 49 0.23
39 5 0.02
40 2 0.01
41 2 0.01
42 12 0.06
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATATATTTTTAAAAATGTTTTAAAAACTATATAT
Found at i:213587 original size:2 final size:2
Alignment explanation
Indices: 213580--213605 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
213570 ATATTATTAT
213580 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
213606 ACAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:213948 original size:12 final size:13
Alignment explanation
Indices: 213933--213962 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
213923 AAAATATCTT
213933 TTAAATT-TTAAA
1 TTAAATTCTTAAA
213945 TTAAATTCTTAAA
1 TTAAATTCTTAAA
213958 TTAAA
1 TTAAA
213963 AAATATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAAATTCTTAAA
Found at i:217879 original size:34 final size:34
Alignment explanation
Indices: 217836--217900 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
217826 CTGGTGGCGC
217836 ATATTGAGTGACGCATGAACCAGTTAGGTCTGCT
1 ATATTGAGTGACGCATGAACCAGTTAGGTCTGCT
217870 ATATTGAGTGACGCATGAACCAGTTAGGTCT
1 ATATTGAGTGACGCATGAACCAGTTAGGTCT
217901 AGATCTGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (34 bp):
ATATTGAGTGACGCATGAACCAGTTAGGTCTGCT
Found at i:219947 original size:20 final size:20
Alignment explanation
Indices: 219932--219987 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
219922 CTAAACTGGT
219932 CTGAGTCAACTCAAACCGAA
1 CTGAGTCAACTCAAACCGAA
*
219952 CTGAGTCAAC-CTGAACCGAA
1 CTGAGTCAACTC-AAACCGAA
*
219972 TTGAGTCAACTCAAAC
1 CTGAGTCAACTCAAAC
219988 AGGTCTAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.18
Consensus pattern (20 bp):
CTGAGTCAACTCAAACCGAA
Found at i:220017 original size:17 final size:17
Alignment explanation
Indices: 219995--220047 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
219985 AACAGGTCTA
219995 ACCTGTTGACTTGACCG
1 ACCTGTTGACTTGACCG
*
220012 ACCTGTTGACTTTGATCTG
1 ACCTGTTGAC-TTGA-CCG
*
220031 ACCCGTTGACTTCGACC
1 ACCTGTTGACTT-GACC
220048 AAAGTTGACC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 10 0.33
18 7 0.23
19 13 0.43
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (17 bp):
ACCTGTTGACTTGACCG
Found at i:225077 original size:27 final size:28
Alignment explanation
Indices: 225034--225091 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
225024 TATGTTCTAT
*
225034 ATAACATATCCACTTAGCACATAT-TCAC
1 ATAACATATCCACTTAGAACAT-TGTCAC
*
225062 ATAACAT-TTCACTTAGAACATTGTCAC
1 ATAACATATCCACTTAGAACATTGTCAC
225089 ATA
1 ATA
225092 GCGTTATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 19 0.70
28 7 0.26
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (28 bp):
ATAACATATCCACTTAGAACATTGTCAC
Found at i:228803 original size:33 final size:33
Alignment explanation
Indices: 228766--228828 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
228756 GGAACATGTG
*
228766 CATAATAATTACTTAATCTATTATACCCATGCT
1 CATAATAATTACTTAATCCATTATACCCATGCT
228799 CATAATAATTACTTAATCCATTATACCCAT
1 CATAATAATTACTTAATCCATTATACCCAT
228829 ACTTGACCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (33 bp):
CATAATAATTACTTAATCCATTATACCCATGCT
Found at i:230896 original size:20 final size:20
Alignment explanation
Indices: 230852--230902 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
230842 TTTTCAATTA
*
230852 CAGTATCGATACCTTCCTCT
1 CAGTATCGATACCTTCCACT
*
230872 TAGTATCGATACC-TCCACAT
1 CAGTATCGATACCTTCCAC-T
230892 CAGTATCGATA
1 CAGTATCGATA
230903 TTATTTCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.31
Consensus pattern (20 bp):
CAGTATCGATACCTTCCACT
Found at i:231510 original size:4 final size:4
Alignment explanation
Indices: 231496--231544 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
231486 TAGACTTTTC
* * * *
231496 CTTT ATTT CTTT CTTT -TTT TTTT CTTT CTTT ATTT CTTT ATTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
231543 CT
1 CT
231545 ATCACGTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
3 3 0.08
4 34 0.92
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (4 bp):
CTTT
Found at i:234647 original size:33 final size:33
Alignment explanation
Indices: 234610--234678 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
234600 TAGAAGGGAA
234610 CATGTTCATAATAATTACTTAATCCATTATACC
1 CATGTTCATAATAATTACTTAATCCATTATACC
234643 CATGTTCATAATAATTACTTAATCCATTATACC
1 CATGTTCATAATAATTACTTAATCCATTATACC
234676 CAT
1 CAT
234679 ACTTGACCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (33 bp):
CATGTTCATAATAATTACTTAATCCATTATACC
Found at i:235767 original size:24 final size:24
Alignment explanation
Indices: 235709--235768 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
235699 CACCACTGCT
*
235709 CATATAATTTGCACCGAAGTACCA
1 CATATAATTTTCACCGAAGTACCA
*
235733 CATAGAATTTTCACCGAAGTACCA
1 CATATAATTTTCACCGAAGTACCA
* *
235757 CGTATATTTTTC
1 CATATAATTTTC
235769 CCAAAGGACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (24 bp):
CATATAATTTTCACCGAAGTACCA
Found at i:235789 original size:24 final size:24
Alignment explanation
Indices: 235762--235833 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 24
235752 TACCACGTAT
235762 ATTTTTCCCAAAGGACCGCGTAGA
1 ATTTTTCCCAAAGGACCGCGTAGA
* * * * *
235786 ATTTGTCTCGAATGG-CCACCTAGA
1 ATTTTTC-CCAAAGGACCGCGTAGA
* * *
235810 ATTGTCCCCGAAGGACCGCGTAGA
1 ATTTTTCCCAAAGGACCGCGTAGA
235834 GCCCTCGACT
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
23 4 0.12
24 24 0.73
25 5 0.15
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (24 bp):
ATTTTTCCCAAAGGACCGCGTAGA
Found at i:239718 original size:33 final size:33
Alignment explanation
Indices: 239681--239743 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
239671 GAAGGGAACT
*
239681 TGTTCATAATAATTGCGTAATCCATTATACTCA
1 TGTTCATAATAATTACGTAATCCATTATACTCA
*
239714 TGTTCATAATAATTACTTAATCCATTATAC
1 TGTTCATAATAATTACGTAATCCATTATAC
239744 CCATACTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.41
Consensus pattern (33 bp):
TGTTCATAATAATTACGTAATCCATTATACTCA
Found at i:240966 original size:24 final size:24
Alignment explanation
Indices: 240910--240967 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
240900 CTACTGCTCA
*
240910 TATAATTTGCACCGAAGTACCACG
1 TATAATTTTCACCGAAGTACCACG
* *
240934 TAAAATTTTCACCGAAGTGCCACG
1 TATAATTTTCACCGAAGTACCACG
*
240958 TATATTTTTC
1 TATAATTTTC
240968 CCAAAGGACC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (24 bp):
TATAATTTTCACCGAAGTACCACG
Found at i:241242 original size:27 final size:27
Alignment explanation
Indices: 241211--241262 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
241201 GAACATATCC
*
241211 ACTTAGCACATAT-TCACATAACATTTG
1 ACTTAGAACAT-TGTCACATAACATTTG
241238 ACTTAGAACATTGTCACATAACATT
1 ACTTAGAACATTGTCACATAACATT
241263 ATCAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
ACTTAGAACATTGTCACATAACATTTG
Found at i:245576 original size:2 final size:2
Alignment explanation
Indices: 245569--245599 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
245559 ATATTCATTT
245569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
245600 GAAATTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:247189 original size:3 final size:3
Alignment explanation
Indices: 247181--247213 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
247171 TATGTGAATG
247181 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
247214 TTTTCGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:248152 original size:30 final size:31
Alignment explanation
Indices: 248116--248181 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
248106 ACAATTTAAA
**
248116 ACAAAAAAATTC-ATTC-AAAGTGAATTTTG
1 ACAAAAAAATTCAATTCAAAAGCAAATTTTG
248145 AC-AAAAAATTCAATTCAAAAGCAAATTTTG
1 ACAAAAAAATTCAATTCAAAAGCAAATTTTG
248175 ACAAAAA
1 ACAAAAA
248182 GAAAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 9 0.28
29 6 0.19
30 13 0.41
31 4 0.12
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.26
Consensus pattern (31 bp):
ACAAAAAAATTCAATTCAAAAGCAAATTTTG
Found at i:249000 original size:60 final size:59
Alignment explanation
Indices: 248901--249013 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 59
248891 TAGTTGGGTT
* * * * *
248901 ACCATTTTGTAACTTTAATAGTCAGAGCAGTCAACAAAGCAACACTCTATAGTCGAATG
1 ACCATTTTATAAATTTAATAGTCAAAGCACTCAACAAAGCAACACCCTATAGTCGAATG
* *
248960 ACCATTTTATAATATTTAATAGTCAAATG-ACTCAATAAAGCATCACCCTATAGT
1 ACCATTTTATAA-ATTTAATAGTCAAA-GCACTCAACAAAGCAACACCCTATAGT
249014 TGAGGGACCA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 11 0.24
60 33 0.73
61 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (59 bp):
ACCATTTTATAAATTTAATAGTCAAAGCACTCAACAAAGCAACACCCTATAGTCGAATG
Found at i:249023 original size:60 final size:59
Alignment explanation
Indices: 248901--249026 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 59
248891 TAGTTGGGTT
* * * * * *
248901 ACCATTTTGTAACTTTAATAGTCAGAGCAGTCAACAAAGCAACACTCTATAGTCGAATG
1 ACCATTTTATAAATTTAATAGTCAAAGCACTCAACAAAGCAACACCCTATAGTCGAAGG
* * * *
248960 ACCATTTTATAATATTTAATAGTCAAATG-ACTCAATAAAGCATCACCCTATAGTTGAGGG
1 ACCATTTTATAA-ATTTAATAGTCAAA-GCACTCAACAAAGCAACACCCTATAGTCGAAGG
249020 ACCATTT
1 ACCATTT
249027 GTGTACTCCA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 11 0.20
60 43 0.78
61 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (59 bp):
ACCATTTTATAAATTTAATAGTCAAAGCACTCAACAAAGCAACACCCTATAGTCGAAGG
Found at i:254076 original size:21 final size:20
Alignment explanation
Indices: 254036--254077 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
254026 CCAACTTACA
*
254036 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
254056 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
254077 A
1 A
254078 GTTTATGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:259281 original size:19 final size:19
Alignment explanation
Indices: 259253--259294 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
259243 AACTACGATT
*
259253 AGGCTTCCCAATAAGCTTG
1 AGGCTGCCCAATAAGCTTG
259272 AGGCTGCCCAATAAGCTTG
1 AGGCTGCCCAATAAGCTTG
259291 AGGC
1 AGGC
259295 CACACATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (19 bp):
AGGCTGCCCAATAAGCTTG
Found at i:264162 original size:19 final size:19
Alignment explanation
Indices: 264134--264187 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
264124 TCAACTCTGG
264134 TCAAAGTCAATGGGTCAGA
1 TCAAAGTCAATGGGTCAGA
* * *
264153 TCAAATTCAATGGGTTAGG
1 TCAAAGTCAATGGGTCAGA
*
264172 TCAAAGTCAACGGGTC
1 TCAAAGTCAATGGGTC
264188 GAGTTGGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (19 bp):
TCAAAGTCAATGGGTCAGA
Found at i:265944 original size:20 final size:20
Alignment explanation
Indices: 265919--265959 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
265909 AAATTATTTC
* *
265919 TTTTAAATATTGCATTTTTA
1 TTTTAAATACTGCATTGTTA
*
265939 TTTTAAGTACTGCATTGTTA
1 TTTTAAATACTGCATTGTTA
265959 T
1 T
265960 AAAAATTTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTTAAATACTGCATTGTTA
Found at i:280441 original size:108 final size:108
Alignment explanation
Indices: 280324--280539 Score: 414
Period size: 108 Copynumber: 2.0 Consensus size: 108
280314 TATAAAGTTT
*
280324 GACAAATGACTCATATGAAAAAATTTCCTGCAAAGGAGAAAAAGCTAATATGTCCAAGGCTCGTT
1 GACAAATGACTCATATGAAAAAATTTCCTGCAAAGGAGAAAAAGCTAATATGTCAAAGGCTCGTT
280389 AGGGCTAAAATAGTAACTTTAAGCTTATTGCTAAAGTTCCACC
66 AGGGCTAAAATAGTAACTTTAAGCTTATTGCTAAAGTTCCACC
280432 GACAAATGACTCATATGAAAAAATTTCCTGCAAAGGAGAAAAAGCTAATATGTCAAAGGCTCGTT
1 GACAAATGACTCATATGAAAAAATTTCCTGCAAAGGAGAAAAAGCTAATATGTCAAAGGCTCGTT
*
280497 AGGGCTAAAATTGTAACTTTAAGCTTATTGCTAAAGTTCCACC
66 AGGGCTAAAATAGTAACTTTAAGCTTATTGCTAAAGTTCCACC
280540 AACCTCATTA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (108 bp):
GACAAATGACTCATATGAAAAAATTTCCTGCAAAGGAGAAAAAGCTAATATGTCAAAGGCTCGTT
AGGGCTAAAATAGTAACTTTAAGCTTATTGCTAAAGTTCCACC
Found at i:282511 original size:23 final size:23
Alignment explanation
Indices: 282485--282548 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
282475 CAGAAGTCTT
282485 CTAAATTGCTTCCTTTCTCACAG
1 CTAAATTGCTTCCTTTCTCACAG
*
282508 CTAAATTGCTTCCTTTCTCACTG
1 CTAAATTGCTTCCTTTCTCACAG
282531 CTAAATTGCTTCCTTTCT
1 CTAAATTGCTTCCTTTCT
282549 AACTTGCATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.19, C:0.30, G:0.08, T:0.44
Consensus pattern (23 bp):
CTAAATTGCTTCCTTTCTCACAG
Found at i:285340 original size:94 final size:93
Alignment explanation
Indices: 285234--285420 Score: 259
Period size: 94 Copynumber: 2.0 Consensus size: 93
285224 ATACCGACGA
* * * *
285234 GGTAGTATCGATACCATAGTAAGGGTATCGATACCAAGCATCATCGAAGCTAAAATTGGTATCGA
1 GGTAGTACCGATACCATAGTAAGGGTATCAATACCAAGCAACATCGAACCTAAAATTGGTATCGA
*
285299 TACCAGAAGGG-GTATCGGTACCATAGTAT
66 TA-CAGAAGGGTATATCGGTACCAT-GTAT
* * * *
285328 GGTAGTACCGATACCATGGTAAGGGTATTAATACCAGGCAACGTCGAACCTAAAATTGGTATCGA
1 GGTAGTACCGATACCATAGTAAGGGTATCAATACCAAGCAACATCGAACCTAAAATTGGTATCGA
*
285393 TACTGAAGGGTATATCGGTACCATGTAT
66 TACAGAAGGGTATATCGGTACCATGTAT
285421 AGAAGTATCG
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
93 11 0.13
94 71 0.87
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (93 bp):
GGTAGTACCGATACCATAGTAAGGGTATCAATACCAAGCAACATCGAACCTAAAATTGGTATCGA
TACAGAAGGGTATATCGGTACCATGTAT
Found at i:285449 original size:20 final size:21
Alignment explanation
Indices: 285405--285460 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
285395 CTGAAGGGTA
*
285405 TATCGGTACCATGTATAGAAG
1 TATCGGTACCATGGATAGAAG
* *
285426 TATCGGTACCA-GGGTAGTAG
1 TATCGGTACCATGGATAGAAG
* *
285446 TATCGATACTATGGA
1 TATCGGTACCATGGA
285461 GCCAGAAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (21 bp):
TATCGGTACCATGGATAGAAG
Found at i:285839 original size:54 final size:54
Alignment explanation
Indices: 285781--286184 Score: 483
Period size: 54 Copynumber: 7.5 Consensus size: 54
285771 TAGGCACCAA
*
285781 GTGTGCATTCCACGGAATTCATCATATGTGGATGAATAACTGTTTCGGCACTAT
1 GTGTGCATTCCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGCACTAT
** **
285835 GTGTGCATTCCACAAAATTCATCATATGTGGATGAATAATTGTTTCGGCACTAT
1 GTGTGCATTCCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGCACTAT
* * *
285889 ATGTGCTTTCCACGGAATTCATCATATGTGGATGAATAACCGTTTCGACACTAT
1 GTGTGCATTCCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGCACTAT
* * * *
285943 GTGTACATTCCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGGCGCTAT
1 GTGTGCATTCCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGCACTAT
* * * *
285997 GTGTGCATTCCACGTAATTCATCCTATGTGGATGAATAACCGTTTTGGCACTAA
1 GTGTGCATTCCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGCACTAT
* * *
286051 GTGTGCATTTCACGGAATTCATCATGA-GTTGATGAATAACCG-TACAGGCACTAT
1 GTGTGCATTCCACGGAATTCATCAT-ATGTGGATGAATAACCGTTTC-GGCACTAT
* * * * *
286105 GTGTGCAAATT-CACGGAACTCATCATGA-GTTGATGAATAACCGTATAGGCACGAT
1 GTGTGC--ATTCCACGGAATTCATCAT-ATGTGGATGAATAACCGTTTCGGCACTAT
** * *
286160 GTGTGCAACCCACGAAATCCATCAT
1 GTGTGCATTCCACGGAATTCATCAT
286185 GAGTTGATGA
Statistics
Matches: 304, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
53 2 0.01
54 254 0.84
55 45 0.15
56 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (54 bp):
GTGTGCATTCCACGGAATTCATCATATGTGGATGAATAACCGTTTCGGCACTAT
Found at i:286209 original size:54 final size:54
Alignment explanation
Indices: 285898--286220 Score: 215
Period size: 54 Copynumber: 6.0 Consensus size: 54
285888 TATGTGCTTT
* * *** * * **
285898 CCACGGAATTCATCAT-ATGTGGATGAATAACCGTTTCGACACTATGTGTACATT
1 CCACGGAATCCATCATGA-GTTGATGAATAACCGTAAAGGCACTATGTGTGCAAC
* * * *** * **
285952 CCACGGAATTCATCCT-ACGTGGATGAATAACCGTTTCGGCGCTATGTGTGCATT
1 CCACGGAATCCATCATGA-GTTGATGAATAACCGTAAAGGCACTATGTGTGCAAC
* * * * *** * **
286006 CCACGTAATTCATCCT-ATGTGGATGAATAACCGTTTTGGCACTAAGTGTGCATT
1 CCACGGAATCCATCATGA-GTTGATGAATAACCGTAAAGGCACTATGTGTGCAAC
* * * *
286060 TCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGCAAAT
1 CCACGGAATCCATCATGAGTTGATGAATAACCGTAAAGGCACTATGTGTGC-AAC
* * *
286115 TCACGGAA-CTCATCATGAGTTGATGAATAACCGTATAGGCACGATGTGTGCAAC
1 CCACGGAATC-CATCATGAGTTGATGAATAACCGTAAAGGCACTATGTGTGCAAC
* * *
286169 CCACGAAATCCATCATGAGTTGATGAACT-ATCGTAAAGGCACTACGTGTGCA
1 CCACGGAATCCATCATGAGTTGATGAA-TAACCGTAAAGGCACTATGTGTGCA
286221 TCTTAATAAA
Statistics
Matches: 235, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
54 183 0.78
55 52 0.22
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (54 bp):
CCACGGAATCCATCATGAGTTGATGAATAACCGTAAAGGCACTATGTGTGCAAC
Found at i:286532 original size:106 final size:105
Alignment explanation
Indices: 286339--286532 Score: 237
Period size: 106 Copynumber: 1.8 Consensus size: 105
286329 ACTAGTCCAA
* *
286339 AATAAAAAAATAATGGCCTAACTGTGTAATTGGCAGAAATGTGTCAATTATGCATTAGATGAATA
1 AATAAAAAAATAATGGCCTAA---TGCAATTGGCAGAAAGGTGTCAATTATGCATTAGATGAATA
* ** * *
286404 ATTAAATATTGTTGAGTCAAAGATGAAAGGTCAAACACTGTTG
63 ATTAAAGACCGTTGAATAAAAGATGAAAGGTCAAACACTGTTG
* * **
286447 AATAAAAGAATAATGGCCTAA-GCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAATGG
1 AATAAAAAAATAATGGCCTAATGCAATTGGCAGAAAGGTGTCAATTATG-CA-TTAGATGAATAA
286511 TTAAAGACCGTTGAATAAAAGA
64 TTAAAGACCGTTGAATAAAAGA
286533 ATAATAGCCT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
104 24 0.33
105 2 0.03
106 27 0.37
108 20 0.27
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.27
Consensus pattern (105 bp):
AATAAAAAAATAATGGCCTAATGCAATTGGCAGAAAGGTGTCAATTATGCATTAGATGAATAATT
AAAGACCGTTGAATAAAAGATGAAAGGTCAAACACTGTTG
Found at i:286583 original size:81 final size:77
Alignment explanation
Indices: 286424--286613 Score: 245
Period size: 81 Copynumber: 2.4 Consensus size: 77
286414 GTTGAGTCAA
* * * *
286424 AGATGAAAGGTCAAACACTGTTGAATAAAAGAATAATGGCCTAAGCAATTGGTAGAAAGGTGTCA
1 AGATGAATGGTTAAACACTGTTGAATAAAAGAATAATAGCCTAAGCAATTGGCAGAAAGGTGTCA
*
286489 ATTATGCCAGTT
66 ACTATGCCAGTT
* * *
286501 AGATGAATGGTTAAAGACCGTTGAATAAAAGAATAATAGCCTAACTGTGCAATTGGCATAAAGGT
1 AGATGAATGGTTAAACACTGTTGAATAAAAGAATAATAGCCTAA----GCAATTGGCAGAAAGGT
286566 GTCAACTATGCCAGTT
62 GTCAACTATGCCAGTT
* * *
286582 AGATGAATAGTTAAATATTGTTGAATAAAAGA
1 AGATGAATGGTTAAACACTGTTGAATAAAAGA
286614 TGAAAGGTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
77 39 0.40
81 58 0.60
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (77 bp):
AGATGAATGGTTAAACACTGTTGAATAAAAGAATAATAGCCTAAGCAATTGGCAGAAAGGTGTCA
ACTATGCCAGTT
Found at i:286624 original size:29 final size:29
Alignment explanation
Indices: 286582--286642 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
286572 TATGCCAGTT
* *
286582 AGATGAATAGTTAAATATTGTTGAATAAA
1 AGATGAATAGTTAAACACTGTTGAATAAA
286611 AGATGAA-AGGTTAAACACTGTTGAATAAA
1 AGATGAATA-GTTAAACACTGTTGAATAAA
286640 AGA
1 AGA
286643 ATAATGAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.28
Consensus pattern (29 bp):
AGATGAATAGTTAAACACTGTTGAATAAA
Found at i:286707 original size:110 final size:110
Alignment explanation
Indices: 286501--286708 Score: 249
Period size: 110 Copynumber: 1.9 Consensus size: 110
286491 TATGCCAGTT
* * * * * *
286501 AGATGAATGGTTAAAGACCGTTGAATAAAAGAATAATAGCCTAACTGTGCAATTGGCATAAAGGT
1 AGATGAAAGGTTAAACACCGTTGAATAAAAGAATAATAGACTAACTGTGCAATTGACAGAAAAGT
* * * * *
286566 GTCAACTATGCCAGTTAGATGAATAGTTAAATATTGTTGAATAAA
66 GTAAAATATGCAAGTTAGATGAAAAGATAAATATTGTTGAATAAA
* * *
286611 AGATGAAAGGTTAAACACTGTTGAATAAAAGAATAAT-GAACTAGCTGTGCATTTGACAGAAAAG
1 AGATGAAAGGTTAAACACCGTTGAATAAAAGAATAATAG-ACTAACTGTGCAATTGACAGAAAAG
*
286675 TGTAAAATATGGAAGTTACG-TGAAAAGATAAATA
65 TGTAAAATATGCAAGTTA-GATGAAAAGATAAATA
286709 CCTTTGGGTA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
109 1 0.01
110 79 0.98
111 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (110 bp):
AGATGAAAGGTTAAACACCGTTGAATAAAAGAATAATAGACTAACTGTGCAATTGACAGAAAAGT
GTAAAATATGCAAGTTAGATGAAAAGATAAATATTGTTGAATAAA
Found at i:289531 original size:20 final size:20
Alignment explanation
Indices: 289503--289558 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
289493 ATCAGGTAAA
* *
289503 AATAAGACAAAACCGGGTTC
1 AATATGACAAAACCGGATTC
289523 AATATGACAAAACCGGATTC
1 AATATGACAAAACCGGATTC
289543 AATATGACAAAACCGG
1 AATATGACAAAACCGG
289559 TAAAGTGCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.16
Consensus pattern (20 bp):
AATATGACAAAACCGGATTC
Found at i:291494 original size:14 final size:15
Alignment explanation
Indices: 291459--291491 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
291449 GTAGAAGATA
291459 AAGGAAAAAGTGTTG
1 AAGGAAAAAGTGTTG
291474 AAGGAAAAAGTGTTG
1 AAGGAAAAAGTGTTG
291489 AAG
1 AAG
291492 AAATCATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.18
Consensus pattern (15 bp):
AAGGAAAAAGTGTTG
Found at i:296976 original size:200 final size:200
Alignment explanation
Indices: 296599--297717 Score: 1522
Period size: 200 Copynumber: 5.6 Consensus size: 200
296589 TTTATTACTT
** * * *
296599 TAAAGTAATAGGTAAATTTACAATGTAAGTGGTAAAAATATACC-TTTTAATGACAAAAT-GAGT
1 TAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAG-GT
* * * * **
296662 AAACATAACGTATCGAGACTTTTTTAA-TATGTATCGATACTTTATGTCCAGTATGCTTCCCAAA
65 AAACAAAAAGTATCGATACTTTTTTAAGT-TGTATCGATACTTTTTGTCCAGTATGAATCCCAAA
* * * * ** * *
296726 CGTA-AGTT-A-GTAAAAAAAATATCGAGACAAATATTAAAAGTATCGATCCTTAAAACATTGAA
129 CG-AGA-TTGACG--CATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATTGAA
*
296788 ACTGATTATTA
190 ACCGATTATTA
* * *
296799 TAAAGTAATAAGTAATTTTACAATGTAACCGGTAAAAATATATCGGTTTAATGAGAGAATAGGTA
1 TAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAGGTA
* *
296864 AGCAAAAAGTATCGATACTTTTTTAAGTTGTATCGATACTTTTTGTCTAGTATGAATCCCAAACG
66 AACAAAAAGTATCGATACTTTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACG
* * * *
296929 AGATTGATGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCGAAACTGAG
131 AGATTGACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATTGAAACCGAT
*
296994 GATTA
196 TATTA
*
296999 TAAAGTAATAGGTAAATTTACAATGTAATCGGTAAAAATATACCGGTTTAATGAGAGAATAGGTA
1 TAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAGGTA
*
297064 AACAAAAAGTATCGATACTTTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAACCCCAAACG
66 AACAAAAAGTATCGATACTTTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACG
** * * * * * *
297129 AGATACACACATAAAGTATCAATACATGTATGATAAGTATCCATCCTTAAAACATCGAAACCAAT
131 AGATTGACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATTGAAACCGAT
297194 TATTA
196 TATTA
* * * *
297199 TAAAGTTATAGGTAATTTTACAATGTAACCAGTAAAAATATAACGGTTTAATGAGAGAATAGGTA
1 TAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAGGTA
*
297264 AGCAAAAAGTATCGATACTTTTTTAAGTTGTATCGATACTTTTTTGTCCAGTATGAATCCCAAAC
66 AACAAAAAGTATCGATACTTTTTTAAGTTGTATCGATAC-TTTTTGTCCAGTATGAATCCCAAAC
*
297329 GAGA-TGCACGCATAAAGTA-CGATACATGTATGATAAGTATCGATCCTTAAAAC-TTCGAAACC
130 GAGATTG-ACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATT-GAAACC
*
297391 AATTATTA
193 GATTATTA
* * *
297399 TAAAGTAATAGATAATTTTACAATGTAACCGGTAAAAATATACCGGTGTAATGAGA-AATAGGTA
1 TAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAGGTA
* * *
297463 AGCAAAAAGTATCGATACTTTTTTAAGATGTATCGATACTTTTTGTCCAGTATGAATCCCAAATG
66 AACAAAAAGTATCGATACTTTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACG
* * *
297528 AGATGGACGCTTAAAGTATCGATACATATATGAGAAGTATCGATCCTTAAAACATTG-AACCGAT
131 AGATTGACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATTGAAACCGAT
297592 TATTA
196 TATTA
* * *
297597 TAAAGTAATAGGTAAATTTATAATGTAACCGGTAAAAATATACCGATTTAATGAGAGAATAGATA
1 TAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAGGTA
* * *
297662 AACAAAAAGTATCGATACTTTTTTAAGTTGTATCTATACTTTTTTTCCAATATGAA
66 AACAAAAAGTATCGATACTTTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAA
297718 AACACCGATA
Statistics
Matches: 825, Mismatches: 81, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
198 101 0.12
199 139 0.17
200 471 0.57
201 111 0.13
202 3 0.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (200 bp):
TAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAGGTA
AACAAAAAGTATCGATACTTTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACG
AGATTGACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATTGAAACCGAT
TATTA
Found at i:299002 original size:19 final size:19
Alignment explanation
Indices: 298978--299014 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
298968 GAAGACCACC
* *
298978 AACCGATGGAAGCCGCAAT
1 AACCGATAGAAGACGCAAT
298997 AACCGATAGAAGACGCAA
1 AACCGATAGAAGACGCAA
299015 CAATGGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.24, G:0.24, T:0.08
Consensus pattern (19 bp):
AACCGATAGAAGACGCAAT
Found at i:303220 original size:425 final size:425
Alignment explanation
Indices: 302471--303554 Score: 1352
Period size: 425 Copynumber: 2.5 Consensus size: 425
302461 TTTGGTATAT
302471 GTATCGATAC-TTTGGTTCCAGTATGCTTCCCAAACTAGATACACGTAGGAAATATCGATACCTA
1 GTATCGATACTTTTGGTTCCAGTATGCTTCCCAAACTAGATACACGTAGGAAATATCGATACCTA
* *
302535 TGACACATGCATCGATACATGATAATATAACATGTTAAAAATTGATAAAACCAGTTTTAATATGA
66 TGACACATACATCGATACATGATAATATAACATGCTAAAAATTGATAAAACCAGTTTTAATATGA
* * *
302600 CAAAAATGGTAAATAGCTACCGATTTTGAAAAAAAAAAACGTCTCGAGAGTATCAATATTGTACA
131 CAAAAATGGTAAATAGCTACAGATTTTGAAAAAAAAAAACATCTCGAAAGTATCAATATTGTACA
* *
302665 TAAAAGTATCGATACTTTTATAAGGGTAATGGTATTGATTTTAAAATAACATAACATGTTCATCT
196 TAAAAGTATCGATACTTCTATAAGGGTAATGGTATCGATTTTAAAATAACATAACATGTTCATCT
* * *
302730 TTTTGACAAAATCGGTTTCCATAATTGCGCCTATAAAGTATCGATACACGTATAAAAAATATCGA
261 TTCTGAAAAAATCGATTTCCATAATTGCGCCTATAAAGTATCGATACACGTATAAAAAATATCGA
* *
302795 TTATTAAAAC-ATCGAAACCGATTACTTTAAAGTAATAGGTAAATATACAATGTAAGCTATAAAA
326 TTATTAAAACTA-CAAAACCAATTACTTTAAAGTAATAGGTAAATATACAATGTAAGCTATAAAA
**
302859 ATATACCAGTTTAATGGTGAAATATGTTTATATAAA
390 ATATACCAGTTTAATGGCAAAATATGTTTATATAAA
* * * *
302895 GTATCGATACTTTTTG-TCCAGTATGCTTCTCAAACTAGATGCACGTAGGAAGTATCGATACCTA
1 GTATCGATACTTTTGGTTCCAGTATGCTTCCCAAACTAGATACACGTAGGAAATATCGATACCTA
* * *
302959 TGACACATATATCGATACATGATAATATAACATGCT-AAAATTGATAAAACCGGTTTTGATATGA
66 TGACACATACATCGATACATGATAATATAACATGCTAAAAATTGATAAAACCAGTTTTAATATGA
* *
303023 CAAAAATGGTAAATAGCTACAGGTTTTGAAAAAAAACTAAACATCTCGAAAGTATCGATATTGTA
131 CAAAAATGGTAAATAGCTACAGATTTTGAAAAAAAA--AAACATCTCGAAAGTATCAATATTGTA
* *
303088 CATAAAAGTATCGATACTTCTGTAAGGGTAATGGTATCGATTTTAAAATAATATAACATGTTCAT
194 CATAAAAGTATCGATACTTCTATAAGGGTAATGGTATCGATTTTAAAATAACATAACATGTTCAT
* * * *
303153 CTTTCTGAAAAAA-CTGATTTCCATAATTGCGCCTATAAAGTATTGATACGCGTATGAAAAGTAT
259 CTTTCTGAAAAAATC-GATTTCCATAATTGCGCCTATAAAGTATCGATACACGTATAAAAAATAT
* * *
303217 CGATTCTTAAAACTACAAAACCAATTACTTTAAAGTAATAGGTAAATATACAGTGTAAGCTGTAA
323 CGATTATTAAAACTACAAAACCAATTACTTTAAAGTAATAGGTAAATATACAATGTAAGCTATAA
* *
303282 AAATATATCGGTTTAATGGCAAAATATGTTTATATAAA
388 AAATATACCAGTTTAATGGCAAAATATGTTTATATAAA
* *
303320 GTATTGATACTTTTGGTATATGTATCGATACTTTTTGTCCAGTATGCTTCCCAAAACTAGATGCA
1 GTATCGATAC---T--T-T-TG----G--------T-TCCAGTATGCTTCCC-AAACTAGATACA
* * * ** * * * *
303385 CGTAAGAAGTATCGATACTTATGACACATGTATCGATACATGATGATATAAAAGGTTAAAAATTG
45 CGTAGGAAATATCGATACCTATGACACATACATCGATACATGATAATATAACATGCTAAAAATTG
* * ** * * **
303450 ATAAAATCAGTTTCAATAT-ACAATGTAACCGGTAAATAGCTACCGGTTTTGAAAAAATGAAACA
110 ATAAAACCAGTTTTAATATGACAA---AAATGGTAAATAGCTACAGATTTTGAAAAAAAAAAACA
* ** * *
303514 TCTCCAAAGTATCAATACCGTACACAAAAGTATTGATACTT
172 TCTCGAAAGTATCAATATTGTACATAAAAGTATCGATACTT
303555 TTGTAAAAGT
Statistics
Matches: 570, Mismatches: 59, Indels: 38
0.85 0.09 0.06
Matches are distributed among these distances:
423 60 0.11
424 89 0.16
425 245 0.43
426 1 0.00
428 1 0.00
430 1 0.00
431 1 0.00
432 1 0.00
436 1 0.00
446 14 0.02
447 66 0.12
448 62 0.11
450 28 0.05
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (425 bp):
GTATCGATACTTTTGGTTCCAGTATGCTTCCCAAACTAGATACACGTAGGAAATATCGATACCTA
TGACACATACATCGATACATGATAATATAACATGCTAAAAATTGATAAAACCAGTTTTAATATGA
CAAAAATGGTAAATAGCTACAGATTTTGAAAAAAAAAAACATCTCGAAAGTATCAATATTGTACA
TAAAAGTATCGATACTTCTATAAGGGTAATGGTATCGATTTTAAAATAACATAACATGTTCATCT
TTCTGAAAAAATCGATTTCCATAATTGCGCCTATAAAGTATCGATACACGTATAAAAAATATCGA
TTATTAAAACTACAAAACCAATTACTTTAAAGTAATAGGTAAATATACAATGTAAGCTATAAAAA
TATACCAGTTTAATGGCAAAATATGTTTATATAAA
Found at i:305445 original size:2 final size:2
Alignment explanation
Indices: 305438--305463 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
305428 AAATGTATCG
305438 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
305464 TCCATACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:306266 original size:226 final size:224
Alignment explanation
Indices: 305866--306570 Score: 1108
Period size: 226 Copynumber: 3.1 Consensus size: 224
305856 AAATCAAGTG
* * * * * *
305866 ATTAACCGGTTATATTATCGTTGGATTCCTAAGGCT-TCATCAACTTAAATTTTGTTAACA-TTT
1 ATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCT-ATCAGCTTAAACTTTGGTAACATTTT
* * *
305929 AGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTATTATCAT
65 AGGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGT
* * * * * *
305994 CAGATTTCTAAGGCCCCATCAACTTTAATAATGCGCAACCTATTACGTTACATAAGCACTACCTA
130 CAGATTTCCAAAGCCCCATCAAC-TTAA-AAGGCGCTACCTATTACGTTATATAAGCGCTACCTA
306059 ATATGTTATTATGCTTGATAATGTTTCCAGTA
193 ATATGTTATTATGCTTGATAATGTTTCCAGTA
*
306091 ATTAACCGGTTATGTTATCTTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTTA
1 ATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTTA
* *
306156 GGCGTTACCTAATATGTTGATAATACAAATAACAAATTAAGTAGTTAACCTATTTTGTTATCGTC
66 GGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTC
* * *
306221 GGATTTCCAAAGCCCCATCAACATTAGAAAGGCACTACATATTACGTTATATAAGCGCTACCTAA
131 AGATTTCCAAAGCCCCATCAAC-TTA-AAAGGCGCTACCTATTACGTTATATAAGCGCTACCTAA
* *
306286 TATGTTATTATGTTTGATAATGTTTCTAGTA
194 TATGTTATTATGCTTGATAATGTTTCCAGTA
306317 ATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTTA
1 ATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTTA
306382 GGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTC
66 GGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTC
*
306447 AGATTTCCAAAGCCCCATCAGCTTAAAAAGGCGCTACCTATTACGTTATATAAGCGCTACCTAAT
131 AGATTTCCAAAGCCCCATCAACTT-AAAAGGCGCTACCTATTACGTTATATAAGCGCTACCTAAT
306512 ATGTTATTATGCTTGATAATGTTTCCAGTA
195 ATGTTATTATGCTTGATAATGTTTCCAGTA
**
306542 ATTAACCAATTATGTTATCGTCGGATTTC
1 ATTAACCGGTTATGTTATCGTCGGATTTC
306571 CAAAGCCCCA
Statistics
Matches: 441, Mismatches: 35, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
225 145 0.33
226 295 0.67
227 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (224 bp):
ATTAACCGGTTATGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTTA
GGCGTTACCTAATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTC
AGATTTCCAAAGCCCCATCAACTTAAAAGGCGCTACCTATTACGTTATATAAGCGCTACCTAATA
TGTTATTATGCTTGATAATGTTTCCAGTA
Found at i:306635 original size:118 final size:117
Alignment explanation
Indices: 306421--306681 Score: 398
Period size: 118 Copynumber: 2.2 Consensus size: 117
306411 TAACAAATTA
* *
306421 AGTAATTAACCTATTTTGTTATCGTCAGATTTCCAAAGCCCCATCAGCTTAAAAAGGCGCTACCT
1 AGTAATTAACCAATTATGTTATCGTCAGATTTCCAAAGCCCCATCAGCTTAAAAAGGCGCTACCT
**
306486 ATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCC
66 ATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTAAC
* * *
306538 AGTAATTAACCAATTATGTTATCGTCGGATTTCCAAAGCCCCATCAGCTTTAAATAGGTGCTACC
1 AGTAATTAACCAATTATGTTATCGTCAGATTTCCAAAGCCCCATCAGC-TTAAAAAGGCGCTACC
* *
306603 TATTACGTTATATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTAAC
65 TATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTAAC
* *
306656 GGTAATTAA-CAGGTTATGTTATCGTC
1 AGTAATTAACCA-ATTATGTTATCGTC
306682 TATATTTTTT
Statistics
Matches: 131, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
117 47 0.36
118 84 0.64
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (117 bp):
AGTAATTAACCAATTATGTTATCGTCAGATTTCCAAAGCCCCATCAGCTTAAAAAGGCGCTACCT
ATTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTAAC
Found at i:306965 original size:12 final size:13
Alignment explanation
Indices: 306950--306979 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
306940 AAATTATCTT
306950 TTAAATT-TTAAA
1 TTAAATTCTTAAA
306962 TTAAATTCTTAAA
1 TTAAATTCTTAAA
306975 TTAAA
1 TTAAA
306980 AATTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAAATTCTTAAA
Found at i:309664 original size:77 final size:77
Alignment explanation
Indices: 309559--309706 Score: 201
Period size: 77 Copynumber: 1.9 Consensus size: 77
309549 GTAAATCGCT
* *
309559 CCTCCAACTTGAAGCTATGATAGATGTCTTCAATCCTTCAACTTGAGGCATTG-AGACTTTGAAG
1 CCTCCAACTTGAAGCTATGAGAGATGTCTTCAATCCTTCAACTTGAGGCATTGCA-ACTTTAAAG
309623 AAAGTGAATTATC
65 AAAGTGAATTATC
* * ***
309636 CCTCCACCTTGAAG-TGATGAGATATGTCTTTGGTCCTTCAACTTGAGGCATTGCAACTTTAAAG
1 CCTCCAACTTGAAGCT-ATGAGAGATGTCTTCAATCCTTCAACTTGAGGCATTGCAACTTTAAAG
309700 AAAGTGA
65 AAAGTGA
309707 GTCGTTCCTC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
76 1 0.02
77 60 0.97
78 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (77 bp):
CCTCCAACTTGAAGCTATGAGAGATGTCTTCAATCCTTCAACTTGAGGCATTGCAACTTTAAAGA
AAGTGAATTATC
Found at i:311287 original size:14 final size:14
Alignment explanation
Indices: 311268--311298 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
311258 ATAGTATCGG
311268 TACTACATGAACAA
1 TACTACATGAACAA
311282 TACTACATGAACAA
1 TACTACATGAACAA
311296 TAC
1 TAC
311299 CGATATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.23
Consensus pattern (14 bp):
TACTACATGAACAA
Found at i:313369 original size:18 final size:18
Alignment explanation
Indices: 313346--313388 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
313336 TTAGTGCAAA
313346 TGATATCTCTCTAACAAT
1 TGATATCTCTCTAACAAT
313364 TGATATCTCTCTAACAAT
1 TGATATCTCTCTAACAAT
313382 TGATATC
1 TGATATC
313389 AAATTTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (18 bp):
TGATATCTCTCTAACAAT
Found at i:314685 original size:24 final size:22
Alignment explanation
Indices: 314649--314698 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
314639 TGACTAAAAT
*
314649 AAAATAACATAAAAGC-AACATGC
1 AAAATAAAATAAAA-CAAAC-TGC
314672 AAAATTAAAATAAAACAAACTGC
1 AAAA-TAAAATAAAACAAACTGC
314695 AAAA
1 AAAA
314699 ATCACTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (22 bp):
AAAATAAAATAAAACAAACTGC
Found at i:315762 original size:20 final size:20
Alignment explanation
Indices: 315737--315794 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
315727 ATCCTATTAC
**
315737 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
315757 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
315777 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
315795 GTGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.22, C:0.28, G:0.10, T:0.40
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:316816 original size:6 final size:6
Alignment explanation
Indices: 316805--316889 Score: 91
Period size: 6 Copynumber: 13.7 Consensus size: 6
316795 TGCCACAGAT
* * * *
316805 ATAAAA ATAAAA ATTAAT- ATAAATA ATAAATA ATAATG ATAGTA ATAATA
1 ATAATA ATAATA A-TAATA ATA-ATA AT-AATA ATAATA ATAATA ATAATA
316855 ATAATA ATAATA ATAATA ATAATTA ATAATA ATAA
1 ATAATA ATAATA ATAATA ATAA-TA ATAATA ATAA
316890 AATTAACAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
5 2 0.03
6 50 0.72
7 16 0.23
8 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (6 bp):
ATAATA
Found at i:316828 original size:10 final size:9
Alignment explanation
Indices: 316810--316891 Score: 65
Period size: 9 Copynumber: 8.8 Consensus size: 9
316800 CAGATATAAA
316810 AATAAAAATT
1 AATAAAAA-T
*
316820 AATATAAAT
1 AATAAAAAT
316829 AATAAATAAT
1 AATAAA-AAT
* * *
316839 AATGATAGT
1 AATAAAAAT
*
316848 AATAATAAT
1 AATAAAAAT
*
316857 AATAATAAT
1 AATAAAAAT
*
316866 AATAATAAT
1 AATAAAAAT
*
316875 AATTAATAAT
1 AA-TAAAAAT
316885 AATAAAA
1 AATAAAA
316892 TTAACAAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
9 39 0.63
10 23 0.37
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AATAAAAAT
Found at i:316830 original size:16 final size:16
Alignment explanation
Indices: 316809--316892 Score: 54
Period size: 16 Copynumber: 5.2 Consensus size: 16
316799 ACAGATATAA
316809 AAATAA-AAATTAATAT
1 AAATAATAAA-TAATAT
316825 AAATAATAAATAATAAT
1 AAATAATAAATAAT-AT
*
316842 GATAGTAAT-AATAATA-
1 -A-AATAATAAATAATAT
316858 ATAATAAT-AATAATAAT
1 A-AATAATAAATAAT-AT
*
316875 AATTAAT-AATAATA-
1 AAATAATAAATAATAT
316889 AAAT
1 AAAT
316893 TAACAAGATC
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
14 3 0.05
15 14 0.24
16 22 0.38
17 7 0.12
18 7 0.12
19 5 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAATAATAAATAATAT
Found at i:316839 original size:3 final size:3
Alignment explanation
Indices: 316826--316889 Score: 92
Period size: 3 Copynumber: 20.7 Consensus size: 3
316816 AATTAATATA
* *
316826 AAT AAT AAAT AAT AAT GAT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
316872 AAT AATT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT AA
316890 AATTAACAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:317403 original size:134 final size:133
Alignment explanation
Indices: 317107--317443 Score: 419
Period size: 134 Copynumber: 2.5 Consensus size: 133
317097 ACTCCACTGC
* * * * *
317107 TTCTTCTGGGTAGATTAGATATGGAAACGTTGATTCATTTCACTGTTCTTCAGGGAATATTGAAT
1 TTCTTCAGGGTAGATCAGATATGGAAATGTTGATTCATTCCACTGTTCTTTAGGGAATATTGAAT
317172 CGAGACAGAATTGTTCCACTGTTCTTAGGAAAGATCAAATATGAAAAAAATAAGGGATTTGTTCC
66 CGAGACAGAATTGTTCCACTGTTCTTAGGAAAGATCAAATATG--AAAAATAAGGGATTTGTTCC
317237 GCTGT
129 GCTGT
* * * *
317242 TTCTTTAGGGTATATCAGATTTGGAAATGTTGATTCATTCCACTATTCTTTAGGGAATATTGAAT
1 TTCTTCAGGGTAGATCAGATATGGAAATGTTGATTCATTCCACTGTTCTTTAGGGAATATTGAAT
* * * * *
317307 CGAGGA-AGACTTGTTCCATTGCTTCTTCATGG-AAGATCAAATTTG-GAAATAGGGGATTTGTT
66 CGA-GACAGAATTGTTCCACTG-TTCTT-A-GGAAAGATCAAATATGAAAAATAAGGGATTTGTT
*
317369 CTGCTGT
127 CCGCTGT
* * * * *
317376 TTCTTCAGGGTAGATCAGATCTGGAAATGTTGATTCATTCCACTGTTCTCTAGAGAAGATTGGAT
1 TTCTTCAGGGTAGATCAGATATGGAAATGTTGATTCATTCCACTGTTCTTTAGGGAATATTGAAT
317441 CGA
66 CGA
317444 TTTCGATTTA
Statistics
Matches: 175, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
134 81 0.46
135 72 0.41
136 7 0.04
137 13 0.07
138 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (133 bp):
TTCTTCAGGGTAGATCAGATATGGAAATGTTGATTCATTCCACTGTTCTTTAGGGAATATTGAAT
CGAGACAGAATTGTTCCACTGTTCTTAGGAAAGATCAAATATGAAAAATAAGGGATTTGTTCCGC
TGT
Found at i:324762 original size:21 final size:21
Alignment explanation
Indices: 324738--324777 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
324728 GAGAAATTGT
324738 TTTTAAAATACAAAAATGATA
1 TTTTAAAATACAAAAATGATA
**
324759 TTTTAAAATTGAAAAATGA
1 TTTTAAAATACAAAAATGA
324778 AAATAATCTC
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:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (21 bp):
TTTTAAAATACAAAAATGATA
Found at i:328944 original size:44 final size:44
Alignment explanation
Indices: 328858--328953 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
328848 TTTGTGCTTA
*
328858 ATGCATCGATACACTGAACAGTGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATACACTGAACAGTGCACCGATGCATCCCTTTGAAT
* *
328902 GTGCATCGATACACCATGAA-GGTGCACCGATGCA-CTCC-TTGAAT
1 ATGCATCGATACA-C-TGAACAGTGCACCGATGCATC-CCTTTGAAT
328946 ATGCATCG
1 ATGCATCG
328954 TTGCACAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 26 0.58
45 15 0.33
46 4 0.09
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (44 bp):
ATGCATCGATACACTGAACAGTGCACCGATGCATCCCTTTGAAT
Found at i:330582 original size:22 final size:22
Alignment explanation
Indices: 330552--330593 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
330542 TATATATTTA
*
330552 ATTATATTTAATTTATTTTTTT
1 ATTAAATTTAATTTATTTTTTT
**
330574 ATTAAATTTTTTTTATTTTT
1 ATTAAATTTAATTTATTTTT
330594 CTTTGCGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTAAATTTAATTTATTTTTTT
Found at i:330646 original size:23 final size:24
Alignment explanation
Indices: 330601--330649 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
330591 TTTCTTTGCG
* *
330601 TTATATTATATTATTTTCCTATTA
1 TTATATTATATTATATTACTATTA
*
330625 TTATA-TATATTATATTATTATTA
1 TTATATTATATTATATTACTATTA
330648 TT
1 TT
330650 TTTTTATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATATTATATTATATTACTATTA
Found at i:330656 original size:28 final size:28
Alignment explanation
Indices: 330602--330682 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 28
330592 TTCTTTGCGT
* * *
330602 TATATTATATTATT-TTCCTATTATTATA
1 TATATTATATTATTATT-ATTTTTTTATA
*
330630 TATATTATATTATTATTATTTTTTTATC
1 TATATTATATTATTATTATTTTTTTATA
* *
330658 TATGTT-TACTTATTTACTATTTTTT
1 TATATTATA-TTA-TTATTATTTTTT
330683 ACTATATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.05
28 29 0.66
29 13 0.30
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.65
Consensus pattern (28 bp):
TATATTATATTATTATTATTTTTTTATA
Found at i:330758 original size:75 final size:75
Alignment explanation
Indices: 330612--330756 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 75
330602 TATATTATAT
* *
330612 TATTTTCCTATTATTATATATATTATATTATTATTATTTTTTTATCTATGTTTACTTATTTACTA
1 TATTTTCCTATTATTATATATATTATATTATTATTATTTTTTTATATATGTTTACTGATTTACTA
330677 TTTTTTACTA
66 TTTTTTACTA
*
330687 TATTTTCCTAATT-TTATATATA-TATATTCTTACTTTATTTTATTT-TATAT-TTCTA-TGA-T
1 TATTTTCCT-ATTATTATATATATTATATTATTA--TTATTTT-TTTATATATGTT-TACTGATT
330746 TACTATTTTTT
61 TACTATTTTTT
330757 TAGTTAATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
74 21 0.34
75 22 0.35
76 16 0.26
77 3 0.05
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.64
Consensus pattern (75 bp):
TATTTTCCTATTATTATATATATTATATTATTATTATTTTTTTATATATGTTTACTGATTTACTA
TTTTTTACTA
Found at i:330811 original size:15 final size:14
Alignment explanation
Indices: 330788--330881 Score: 52
Period size: 13 Copynumber: 6.4 Consensus size: 14
330778 TTATTTTTCA
330788 TTTATTTATTATTAT
1 TTTA-TTATTATTAT
*
330803 TGTTATTATTTAGTAT
1 T-TTATTA-TTATTAT
330819 TTTATTA-TATTAT
1 TTTATTATTATTAT
** *
330832 ACATACATTTTTA-TATT
1 ---TTTATTATTATTA-T
330849 TTTATATATT-TTAT
1 TTTAT-TATTATTAT
330863 TTTATTATT-TTAT
1 TTTATTATTATTAT
330876 TTTATT
1 TTTATT
330882 TATACTATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
13 19 0.31
14 9 0.15
15 15 0.24
16 16 0.26
17 3 0.05
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:330865 original size:5 final size:5
Alignment explanation
Indices: 330855--330903 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
330845 TATTTTTATA
330855 TATTT TATTT TA--T TATTT TATTT TATTT ATACTATT TA-TT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT -TA-T-TT TATTT TATTT
330900 TATT
1 TATT
330904 ATGTTTTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 3 0.08
4 4 0.11
5 24 0.63
6 2 0.05
7 3 0.08
8 2 0.05
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:330873 original size:13 final size:14
Alignment explanation
Indices: 330848--330903 Score: 71
Period size: 13 Copynumber: 4.1 Consensus size: 14
330838 ATTTTTATAT
*
330848 TTTTATATATTTTA
1 TTTTATTTATTTTA
330862 TTTTA-TTATTTTA
1 TTTTATTTATTTTA
**
330875 TTTTATTTATACTA
1 TTTTATTTATTTTA
330889 -TTTATTTATTTTA
1 TTTTATTTATTTTA
330902 TT
1 TT
330904 ATGTTTTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 23 0.66
14 12 0.34
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:330874 original size:22 final size:23
Alignment explanation
Indices: 330787--330902 Score: 80
Period size: 22 Copynumber: 4.9 Consensus size: 23
330777 TTTATTTTTC
330787 ATTTAT-TTATTATTATTGTTAT-T
1 ATTTATATT-TTATTATT-TTATAT
* *
330810 ATTTAGTATTTTATTATATTATAC
1 ATTTA-TATTTTATTATTTTATAT
**
330834 ATACAT-TTTTA-TATTTTTATAT
1 ATTTATATTTTATTA-TTTTATAT
*
330856 ATTT-TATTTTATTATTTTATTTT
1 ATTTATATTTTATTATTTTA-TAT
330879 ATTTATACTATTTATTTATTTTAT
1 ATTTATA-T-TTTA-TTATTTTAT
330903 TATGTTTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
21 3 0.04
22 23 0.32
23 18 0.25
24 13 0.18
25 3 0.04
26 5 0.07
27 8 0.11
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTATATTTTATTATTTTATAT
Found at i:330876 original size:18 final size:18
Alignment explanation
Indices: 330855--330905 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
330845 TATTTTTATA
330855 TATTTTATTTTATTATTT
1 TATTTTATTTTATTATTT
*
330873 TATTTTATTTATACTA-TT
1 TATTTTATTT-TATTATTT
330891 TA-TTTATTTTATTAT
1 TATTTTATTTTATTAT
330906 GTTTTTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TATTTTATTTTATTATTT
Found at i:330878 original size:27 final size:27
Alignment explanation
Indices: 330848--330903 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
330838 ATTTTTATAT
**
330848 TTTTATATATTTTATTT-TATTATTTTA
1 TTTTATATATACTATTTAT-TTATTTTA
*
330875 TTTTATTTATACTATTTATTTATTTTA
1 TTTTATATATACTATTTATTTATTTTA
330902 TT
1 TT
330904 ATGTTTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTATATATACTATTTATTTATTTTA
Found at i:331012 original size:26 final size:26
Alignment explanation
Indices: 330962--331014 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
330952 ACACTTTACC
330962 TTTTTTATTCTTTTTTGTATATATAT
1 TTTTTTATTCTTTTTTGTATATATAT
*
330988 TTTTTTCTTCATTTATTT-TAT-TATAT
1 TTTTTTATTC-TTT-TTTGTATATATAT
331014 T
1 T
331015 CAATTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 15 0.62
27 6 0.25
28 3 0.12
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTTTATTCTTTTTTGTATATATAT
Found at i:332231 original size:18 final size:19
Alignment explanation
Indices: 332196--332231 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
332186 ACCTTACTAA
*
332196 CTCTTTTCATTTTTTTCCT
1 CTCTTTTCATTTTATTCCT
332215 CTCTTTT-ATTTTATTCC
1 CTCTTTTCATTTTATTCC
332232 ATCATCTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (19 bp):
CTCTTTTCATTTTATTCCT
Found at i:336299 original size:22 final size:22
Alignment explanation
Indices: 336271--336325 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
336261 GCTACCCCAT
*
336271 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAACATCAAATGC
336293 CAAACCTTTGAACATCAAATGC
1 CAAACCTTTGAACATCAAATGC
336315 CAAACCTTTGA
1 CAAACCTTTGA
336326 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAACATCAAATGC
Found at i:337402 original size:106 final size:106
Alignment explanation
Indices: 337270--338015 Score: 1115
Period size: 106 Copynumber: 7.0 Consensus size: 106
337260 ATATCATGCC
* * *
337270 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
337335 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
337376 ACTCCAGATAACACAAGTTCAACTTCACGACGAAGGGACCGGTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
337441 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
337482 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
337547 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
337588 ACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
337653 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
337694 ACTCCAGACAACGCAAGTTCAACTTCACGAA-GAAGGGACCGCTGGTTGTCAACAAA-AAGCTTC
1 ACTCCAGACAACGCAAGTTCAACTTCAC-AACGAAGGGACCGCTGGTTGTCAACAAACAA-CTTC
*
337757 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
337800 ACTCCAGACAATGCAAGTTCAACTTCACGAA-GAAGGGACCGCTGGTTGTCAACAAACAATTTAC
1 ACTCCAGACAACGCAAGTTCAACTTCAC-AACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* * *
337864 CAATTTCGGAGCCAATTTCAACTTCACAAG-AAAGGATTTTGG
65 CAATTTCAGAGCCAATTTCAACTTCAC-AGCGAAGGATATTGG
* * * * *
337906 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
337971 GATTCCAGAGCCAATTTGAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
338012 ACTC
1 ACTC
338016 GGAATAATGC
Statistics
Matches: 589, Mismatches: 44, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
104 1 0.00
105 4 0.01
106 579 0.98
107 5 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:339320 original size:29 final size:33
Alignment explanation
Indices: 339257--339320 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
339247 TTAACCCTTA
*
339257 TTATTTATATATATATATATTTTTATATTTTAT
1 TTATTTATATATATATATATTTTTATATTTCAT
*
339290 TTATTTATTTAT-TATA-ATTTTT-T-TTTCAT
1 TTATTTATATATATATATATTTTTATATTTCAT
339319 TT
1 TT
339321 TTCTTTACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
30 1 0.03
31 6 0.21
32 4 0.14
33 11 0.38
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (33 bp):
TTATTTATATATATATATATTTTTATATTTCAT
Found at i:341817 original size:65 final size:64
Alignment explanation
Indices: 341738--341897 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 64
341728 GAATAAATTG
* *
341738 AACATCGAATGCATTATATGCATCGATGCACATA-CCATGCATCGATGCACTCAAG-TTTTTATG
1 AACATCGAATGCATTATATGCATCGATGCACA-AGCCATGCATAGATGCACTCAAGCTTGTT-TG
341801 AA
64 -A
**
341803 AACATCGAATGCATT-TGATGCATCGATGCACAAGCCATGCATAGATGCACTCGGGCTTGTTTGA
1 AACATCGAATGCATTAT-ATGCATCGATGCACAAGCCATGCATAGATGCACTCAAGCTTGTTTGA
*
341867 AACATCGAATGGACTTA-ATGCATCGATGCAC
1 AACATCGAATGCA-TTATATGCATCGATGCAC
341898 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
64 29 0.34
65 52 0.61
66 4 0.05
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTATATGCATCGATGCACAAGCCATGCATAGATGCACTCAAGCTTGTTTGA
Found at i:341911 original size:18 final size:19
Alignment explanation
Indices: 341880--341916 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
341870 ATCGAATGGA
341880 CTTAATGCATCGATGCACT
1 CTTAATGCATCGATGCACT
*
341899 CTTAGTGCA-CGATGCACT
1 CTTAATGCATCGATGCACT
341917 AAGGGTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (19 bp):
CTTAATGCATCGATGCACT
Found at i:355860 original size:23 final size:23
Alignment explanation
Indices: 355812--355860 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
355802 TGACTAAAAT
* *
355812 AAAATAACATAAAAGCAACATAC
1 AAAATAAAATAAAAGCAAAATAC
*
355835 AAAATTAAAATAAAA-CAAAATGC
1 AAAA-TAAAATAAAAGCAAAATAC
355858 AAA
1 AAA
355861 TATGACTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.69, C:0.12, G:0.04, T:0.14
Consensus pattern (23 bp):
AAAATAAAATAAAAGCAAAATAC
Found at i:356447 original size:107 final size:109
Alignment explanation
Indices: 356231--356427 Score: 256
Period size: 107 Copynumber: 1.8 Consensus size: 109
356221 CCTAAATAAG
* * *
356231 GGGGACTAAATAGAGAATATTCCAAAACAATACATAACATGCATGAAAATAGGTAAATAAAAACT
1 GGGGACTAAACAGAAAATATTCCAAAACAATACATAACATGCATGAAAATAGGTAAATAAAAACC
* * *
356296 TAGATCCTGACAGGTGACCAACATGCAAAAACACGTTAAACTAT
66 TAGATCCTCACAGGTGACCAACACGCAAAAACACGTGAAACTAT
* * * *
356340 GGGGTCTAAACAGAAAATA-TCCCAAA-AATACATAACATGCATGAAAATGGGTAAATAACAACC
1 GGGGACTAAACAGAAAATATTCCAAAACAATACATAACATGCATGAAAATAGGTAAATAAAAACC
* * *
356403 TAGGTCCTCCCAGGTGTCCAA-ACGC
66 TAGATCCTCACAGGTGACCAACACGC
356428 TAAACTATGG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
106 3 0.04
107 51 0.67
108 6 0.08
109 16 0.21
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (109 bp):
GGGGACTAAACAGAAAATATTCCAAAACAATACATAACATGCATGAAAATAGGTAAATAAAAACC
TAGATCCTCACAGGTGACCAACACGCAAAAACACGTGAAACTAT
Found at i:356845 original size:2 final size:2
Alignment explanation
Indices: 356840--356868 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
356830 TTTTTTTGGT
356840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
356869 TTCGAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:357399 original size:3 final size:3
Alignment explanation
Indices: 357371--357435 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
357361 CTTCCACATA
* *
357371 AAT AA- AAT AA- AA- AAT ATAT AAAT AAT AAT GAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT
*
357415 AAA AAT AATT AAT AAT AAT AA
1 AAT AAT AA-T AAT AAT AAT AA
357436 AATTAACAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 6 0.12
3 37 0.73
4 7 0.14
5 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:360229 original size:14 final size:15
Alignment explanation
Indices: 360204--360233 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
360194 TGGACGGTTC
360204 TCTCATTTCTCTCTT
1 TCTCATTTCTCTCTT
360219 TCTCATTCTCTCTCT
1 TCTCATT-TCTCTCT
360234 AAGAGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.57
Consensus pattern (15 bp):
TCTCATTTCTCTCTT
Found at i:360978 original size:20 final size:18
Alignment explanation
Indices: 360959--361002 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
360949 CCTGTAAATA
360959 AATAAAATTATATATTAAT
1 AATAAAATTAT-TATTAAT
360978 AATAAAAATTATTATT-AT
1 AAT-AAAATTATTATTAAT
360996 AATAAAA
1 AATAAAA
361003 ATAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 7 0.29
20 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAAAATTATTATTAAT
Found at i:361000 original size:21 final size:20
Alignment explanation
Indices: 360962--361004 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
360952 GTAAATAAAT
360962 AAAATTATATATTAATAATA
1 AAAATTATATATTAATAATA
360982 AAAATTAT-TATT-ATAATA
1 AAAATTATATATTAATAATA
361000 AAAAT
1 AAAAT
361005 AATAAAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTATATATTAATAATA
Found at i:361546 original size:123 final size:123
Alignment explanation
Indices: 361390--362089 Score: 867
Period size: 123 Copynumber: 5.7 Consensus size: 123
361380 GAATTAAGGT
* * *
361390 AAGGCTGACCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
361455 GAACTTTCTTTGGAAATGTTGACGTTTATCTATCTCCTTCTGTGATAGCGTCATGCAA
66 GAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
* *
361513 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * * * * *
361578 GAAC-ACTTATAGAAATGTTGGTGCTGATTTATCTCCTTTTAG-GATAGAATCGA-ACAA
66 GAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTCT-GTGATAGAGTC-ATGCAA
* * *
361635 AAGATTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * *
361700 GAACTTCCTCTGGAAATGTTGGTGCTGATTTATCTCTTTCTGGGATAGAATCGA-GCAA
66 GAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTC-ATGCAA
* * *
361758 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCCTCCTCTTCAGATCAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
361823 GAACTCCCTATGGAAATATTGATGTTGATCTATC-CCTTCTGTGATAGAGTCATGCAA
66 GAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
* * * * *
361880 TAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTATTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * *
361945 GAACTTTCTCAGGCAAA-G-TGTATGCTGATCTATCCCCTTCTGTGATAGAGACATACAA
66 GAACTTCCTCTGG-AAATGTTG-ATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
362003 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* **
362068 GAAC-TCTTCCAGAAATGTTGAT
66 GAACTTCCTCTGGAAATGTTGAT
362090 CCATTGAGTG
Statistics
Matches: 499, Mismatches: 68, Indels: 21
0.85 0.12 0.04
Matches are distributed among these distances:
121 6 0.01
122 204 0.41
123 289 0.58
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
Found at i:361700 original size:245 final size:242
Alignment explanation
Indices: 361399--362089 Score: 879
Period size: 245 Copynumber: 2.8 Consensus size: 242
361389 TAAGGCTGAC
* *
361399 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTATGAACTTTCT
* * *
361464 TTGGAAATGTTGACGTTTATCTATCTCCTTCTGTGATAGCGTCATGCAAAAGGTTGAACAAGTTC
66 CTGGAAATGTTG-CG-TGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGTTC
* *
361529 TTCTCATTATGAACTTCTTCTTCATTTTCAGATGAGTTCTTCTCATTATGAACACTTATAGAAAT
129 TTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACACTTATAGAAAT
* * *
361594 GTTGGTGCTGATTTATCTCCTTTTAG-GATAGAATCGA-ACAAAAGATTGAA
194 GTTGATGCTGATCTATC-CCTTCT-GTGATAGAATC-ATACAAAAGATTGAA
* *
361644 TAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTATGAACTTCCT
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTATGAACTTTCT
* * * * *
361709 CTGGAAATGTTGGTGCTGATTTATCTCTTTCTGGGATAGAATCGA-GCAAAAGGTTGAACAAGTT
66 CTGGAAATGTT-GCG-TGATCTATCTCCTTCTGTGATAGAGTC-ATGCAAAAGGTTGAACAAGTT
* * * * * *
361773 CTTCTTATTATGAACTTCTTCCTCCTCTTCAGATCAGTTCTTCTCATTATGAACTCCCTATGGAA
128 CTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAAC-ACTTATAGAA
* * * * * *
361838 ATATTGATGTTGATCTATCCCTTCTGTGATAGAGTCATGCAATAGGTTGAA
192 ATGTTGATGCTGATCTATCCCTTCTGTGATAGAATCATACAAAAGATTGAA
* * *
361889 CAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT-ATTATTATGAACTTTC
1 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCA-CATTATGAACTTTC
* * * *
361953 TCAGGCAAAGTGTATGC-TGATCTATCCCCTTCTGTGATAGAGACATACAAAAGGTTGAACAAGT
65 TCTGG-AAA-TGT-TGCGTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGT
* **
362017 TCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCAGAA
127 TCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACACTTATAGAA
362082 ATGTTGAT
192 ATGTTGAT
362090 CCATTGAGTG
Statistics
Matches: 383, Mismatches: 53, Indels: 21
0.84 0.12 0.05
Matches are distributed among these distances:
244 16 0.04
245 335 0.87
246 27 0.07
247 4 0.01
248 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (242 bp):
CAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTATGAACTTTCT
CTGGAAATGTTGCGTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGTTCTT
CTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACACTTATAGAAATGT
TGATGCTGATCTATCCCTTCTGTGATAGAATCATACAAAAGATTGAA
Found at i:361839 original size:368 final size:368
Alignment explanation
Indices: 361390--362072 Score: 993
Period size: 368 Copynumber: 1.9 Consensus size: 368
361380 GAATTAAGGT
* * * *
361390 AAGGCTGACCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTAT
1 AAGGCTGAACAAGTTCTTCTCATTATGAACTTCTTCCTCCTCTTCAGATCAGTTCTTCTCATTAT
** * * * *
361455 GAACTTTCTTTGGAAATGTTGACGTTTATCTATCTCCTTCTGTGATAGCGTCATGCAAAAGGTTG
66 GAACTCCCTATGGAAATATTGACGTTGATCTATC-CCTTCTGTGATAGAGTCATGCAAAAGGTTG
* * * *
361520 AACAAGTTCTTCTCATTATGAACTTCTTCTTCATTTTCAGATGAGTTCTTCTCATTATGAACACT
130 AACAAATTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATAAGTTCTTATCATTATGAAC-CT
* * * *
361585 TAT-A-G-AAA-TGTTGGTGCTGATTTATCTCCTTTTAG-GATAGA-ATCGA-ACAAAAGATTGA
194 TATCAGGCAAAGTG-T-ATGCTGATCTATCCCCTTCT-GTGATAGAGA-C-ATACAAAAGATTGA
*
361643 ATAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTATGAACTTCC
254 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTATGAACTTCC
361708 TCTGGAAATGTTGGTGCTGATTTATCTCTTTCTGGGATAGAATCGAGCAA
319 TCTGGAAATGTTGGTGCTGATTTATCTCTTTCTGGGATAGAATCGAGCAA
* *
361758 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCCTCCTCTTCAGATCAGTTCTTCTCATTAT
1 AAGGCTGAACAAGTTCTTCTCATTATGAACTTCTTCCTCCTCTTCAGATCAGTTCTTCTCATTAT
* *
361823 GAACTCCCTATGGAAATATTGATGTTGATCTATCCCTTCTGTGATAGAGTCATGCAATAGGTTGA
66 GAACTCCCTATGGAAATATTGACGTTGATCTATCCCTTCTGTGATAGAGTCATGCAAAAGGTTGA
* * * *
361888 ACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTATTATTATGAACTTTC
131 ACAAATTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATAAGTTCTTATCATTATGAACCTTA
*
361953 TCAGGCAAAGTGTATGCTGATCTATCCCCTTCTGTGATAGAGACATACAAAAGGTTGAACAAGTT
196 TCAGGCAAAGTGTATGCTGATCTATCCCCTTCTGTGATAGAGACATACAAAAGATTGAACAAGTT
*
362018 CTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACT
261 CTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTATGAACT
362073 CTTCCAGAAA
Statistics
Matches: 279, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
366 3 0.01
367 87 0.31
368 182 0.65
369 5 0.02
370 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (368 bp):
AAGGCTGAACAAGTTCTTCTCATTATGAACTTCTTCCTCCTCTTCAGATCAGTTCTTCTCATTAT
GAACTCCCTATGGAAATATTGACGTTGATCTATCCCTTCTGTGATAGAGTCATGCAAAAGGTTGA
ACAAATTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATAAGTTCTTATCATTATGAACCTTA
TCAGGCAAAGTGTATGCTGATCTATCCCCTTCTGTGATAGAGACATACAAAAGATTGAACAAGTT
CTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCACATTATGAACTTCCTCTGGAA
ATGTTGGTGCTGATTTATCTCTTTCTGGGATAGAATCGAGCAA
Found at i:362510 original size:22 final size:22
Alignment explanation
Indices: 362483--362559 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
362473 AGTAAATCTT
362483 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATATA
* *
362505 TTATCTTTGAAGAA-AGAATTTA
1 TCATCTTTGAA-AAGAGAATATA
* * *
362527 TCATCCTTAAAAAGGGAATATA
1 TCATCTTTGAAAAGAGAATATA
362549 TCATCTTTGAA
1 TCATCTTTGAA
362560 GAATGTAGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 2 0.05
22 40 0.91
23 2 0.05
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:363958 original size:75 final size:75
Alignment explanation
Indices: 363835--364089 Score: 341
Period size: 75 Copynumber: 3.4 Consensus size: 75
363825 ATAAGATTAT
* * * * * * *
363835 ATGGGCCTTCAGTATGCCCCAACATTTGCTAATACAGACGTTCAAAATGCGCCAACATTCCTCAT
1 ATGGGCTTTCAGCATACCCCATCATTTGCTAATACAAACGTTCAAAATGCGTCAATATTCCTCAT
363900 TCTGATTGAA
66 TCTGATTGAA
* *
363910 ATGGGCTTTCAGCATACCCCATCATTTGCTGATGCAAACGTTCAAAATGCGTCAATATTCCTCAT
1 ATGGGCTTTCAGCATACCCCATCATTTGCTAATACAAACGTTCAAAATGCGTCAATATTCCTCAT
363975 TCTGATTGAA
66 TCTGATTGAA
* * * * * * *
363985 ATGGGCTTTCAGTATGCCCTAGCATTTACTTATACAAACGTTCAAAATGCATCAATATTCCTCAT
1 ATGGGCTTTCAGCATACCCCATCATTTGCTAATACAAACGTTCAAAATGCGTCAATATTCCTCAT
364050 TCTGATTGAA
66 TCTGATTGAA
*
364060 ATGGGTTTTCAGCATACCCCAGT-ATTTGCT
1 ATGGGCTTTCAGCATACCCCA-TCATTTGCT
364090 TTTTTGTTGA
Statistics
Matches: 156, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
75 156 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (75 bp):
ATGGGCTTTCAGCATACCCCATCATTTGCTAATACAAACGTTCAAAATGCGTCAATATTCCTCAT
TCTGATTGAA
Found at i:366463 original size:16 final size:17
Alignment explanation
Indices: 366442--366479 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
366432 TTTGATTCAA
366442 TTTTTTCTT-TTTTTCC
1 TTTTTTCTTCTTTTTCC
*
366458 TTTTTTCTTCTTTTTTC
1 TTTTTTCTTCTTTTTCC
366475 TTTTT
1 TTTTT
366480 ACGATGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTCTTCTTTTTCC
Found at i:373194 original size:14 final size:13
Alignment explanation
Indices: 373164--373211 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
373154 AAATGAAAAG
*
373164 AAAATAAATTAAGT
1 AAAATAAA-TAAAT
373178 AAAATGAAATAAAT
1 AAAAT-AAATAAAT
* *
373192 AAAACAAATAAAC
1 AAAATAAATAAAT
373205 AAAATAA
1 AAAATAA
373212 TAATAACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 13 0.45
14 13 0.45
15 3 0.10
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:373235 original size:2 final size:2
Alignment explanation
Indices: 373228--373252 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
373218 CAAAGTACAA
373228 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
373253 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:373786 original size:12 final size:11
Alignment explanation
Indices: 373759--373798 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
373749 TAACAAAATA
*
373759 AATAATATAA-
1 AATAATACAAG
373769 AATAATACAAG
1 AATAATACAAG
373780 TAATAATACAAG
1 -AATAATACAAG
373792 AATAATA
1 AATAATA
373799 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.33
11 7 0.26
12 11 0.41
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (11 bp):
AATAATACAAG
Found at i:373844 original size:27 final size:28
Alignment explanation
Indices: 373817--373868 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
373807 GAGAAAGTAA
373817 AAAAAATATA-ATA-ATAATA-AAATAT
1 AAAAAATATACATATATAATATAAATAT
373842 AAAAAATATACATATATAATATAAATA
1 AAAAAATATACATATATAATATAAATA
373869 AGTAGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.42
26 3 0.12
27 6 0.25
28 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAAATATACATATATAATATAAATAT
Done.