Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397292.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_251.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 480488
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.30
Warning! 70979 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:233006 original size:171 final size:168
Alignment explanation
Indices: 231832--233193 Score: 831
Period size: 170 Copynumber: 8.0 Consensus size: 168
231822 ATTTCTATTT
* * * **
231832 AAAATGAAAAATATTTCGATTTAAAGTCATTTATATGATTATAAAACTATTTAAAGTAAGTAATA
1 AAAATGAAAAATATTT-GATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAATA
* ** * * * * * * * *
231897 AGACTTTTTAGGGTATGAATGACTATAAGTGGACCTTTT-TTATCAATAGATGGCA-TCCACTTC
65 AGGCTTTCGAAGGCATGAGTGACTATAAATAGA-CTTTTCTTATCAATGGATGGCATTCGA-TTT
* * * * *
231960 ACGTTT-TATGATAG-AAATATCCAATTATAATC-GATTTTAACAA
128 ATGTTTCCA--AT-GCAAACATCAAATTATGATCAG-TTTTAAC-A
* ** * * *
232003 AAAATGAAATATATTTTGATTTAAAATCATGGATAAGATTATAAAATCATTTAAAGAGAGTAACA
1 AAAATGAAAAATA-TTTGATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAATA
* * * * * * * *
232068 AGGCTTTCGAAGGCCTAAGTGACTATAAATGGACTTTTTTTCTCAATGGATGGCA-CCCACCTCA
65 AGGCTTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTATCAATGGATGGCATTCGA--T-T
** * * **
232132 TAT-TTTATAATGCAAACATCTAATTATGATCAATTTT--TT
127 TATGTTTCCAATGCAAACATCAAATTATGATCAGTTTTAACA
* * ** * * *
232171 TAAA--AAAAAT-TTTGATTGAAGGTCATTGAT-AGCAATATAAAACTATTTAAAGCGA--AAGG
1 AAAATGAAAAATATTTGATTTAAAATCATTTATAAG-ATTATAAAACCATTTAAAGCGAGTAA--
* * * * * * * *
232230 AAAGGCTTTTGAAAGCATAAGTGACTATAAATTGACTTTTCTTATCAATAGATGGCATCCGCTTT
63 TAAGGCTTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTATCAATGGATGGCATTCGATTT
* * * **
232295 ACGTTTCCCAATGCAAACATCCAATTAAGATTTGTTTTAACTA
128 ATGTTT-CCAATGCAAACATCAAATTATGATCAGTTTTAAC-A
* * * * *
232338 AAAATGAAAAAAAAATTGAGTTAAAATCATTTATAAGATTATAAAACTATTTAAAGTGAGTAATA
1 AAAATG-AAAAATATTTGATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAATA
** * ** *
232403 ATACTTT-GATGGCATGAGTGACTATAAATAGACTTTTCTTATCTGTGGATGGCA-TCTGCTTTA
65 AGGCTTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTATCAATGGATGGCATTC-GATTTA
* * * * * *
232466 TGTTTCTCAAAGCAAATAGCTAATTATGAAT-AATTTTAAACC
129 TGTTTC-CAATGCAAACATCAAATTATG-ATCAGTTTT-AACA
* * * * *
232508 AAAAT-AAAGATATTTTTTATTAAAAATCATTTATGAGATTATAAGACCATTTAAAGCGAGTAAT
1 AAAATGAAA-A-ATATTTGATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * * * * * *
232572 AAGGCCTTTAAC-AA--CATGACTAACTATAAATAAAATTATCTTGTCAATAGATGCCTTTTGAT
64 AAGG-CTTT--CGAAGGCATGAGTGACTATAAATAGACTTTTCTTATCAATGGATGGCATTCGAT
*
232634 TTATGTTTCTCAATGCAAACATCAAATTATGGTCAGTTTTAACAA
126 TTATGTTTC-CAATGCAAACATCAAATTATGATCAGTTTTAAC-A
* * * ** ** *
232679 AAAATGAAAAAAATTTGATTCAAAATCATTAATAAGATTATAAAATGATTTAAAGTAAATAACT-
1 AAAATGAAAAATATTTGATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAA-TA
* * * * * * * * *
232743 AGACTTTCAAAGGCATGAGCGACTATAAATGGA-TTTTCCTTGTCAATGCATGGCTTTCAATTCA
65 AGGCTTTCGAAGGCATGAGTGACTATAAATAGACTTTT-CTTATCAATGGATGGCATTCGATTTA
*
232807 TGTTTTCCAATGCAAACATTAAATTATGATCAGTTTTAACTA
129 TG-TTTCCAATGCAAACATCAAATTATGATCAGTTTTAAC-A
** * *
232849 AAAATGAAAAACTATTCAATTTAAAATCATTTATAAGATTATAAAACCATGTAAAGCGAGGAATA
1 AAAATGAAAAA-TATTTGATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAATA
* * * * * *
232914 AGGCTTTCGAAGGTATGAGTGACTATAAATTGACTTTTCTTCTTAATGGATGACATTCGTTTTAT
65 AGGCTTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTATCAATGGATGGCATTCGATTTAT
* ** *
232979 GTTTCCAAATGTAAACATCCGATTATGAGGCA-TTTTAACA
130 GTTTCC-AATGCAAACATCAAATTATGA-TCAGTTTTAACA
* ** * * *
233019 AAAATGAACAAA-ATTTTGATTTAAAATCATTTGTAAGATTATAAAACCATTTAAAATGAATTAG
1 AAAATGAA-AAATA-TTTGATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * * * *
233083 AAGGCTTTTGATGACTTTAGTTACTATAAAT-GAACTTTTCTTGTCAATGGATGGTA-TCTG-TT
64 AAGGCTTTCGAAGGCATGAGTGACTATAAATAG-ACTTTTCTTATCAATGGATGGCATTC-GATT
* * *
233145 TCATGTTTCTCAATACAAACATCAGATTATGAATTA-TTTTAACTA
127 T-ATGTTTC-CAATGCAAACATCAAATTATG-ATCAGTTTTAAC-A
233190 AAAA
1 AAAA
233194 CAAAAATGAT
Statistics
Matches: 926, Mismatches: 209, Indels: 112
0.74 0.17 0.09
Matches are distributed among these distances:
162 4 0.00
163 6 0.01
164 107 0.12
165 2 0.00
166 5 0.01
167 4 0.00
168 8 0.01
169 17 0.02
170 388 0.42
171 359 0.39
172 20 0.02
173 6 0.01
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (168 bp):
AAAATGAAAAATATTTGATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGCGAGTAATAA
GGCTTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTATCAATGGATGGCATTCGATTTATG
TTTCCAATGCAAACATCAAATTATGATCAGTTTTAACA
Found at i:233800 original size:156 final size:156
Alignment explanation
Indices: 233526--233815 Score: 364
Period size: 156 Copynumber: 1.9 Consensus size: 156
233516 ATTAAACAAT
* ** * * *
233526 TTAAAGCGAATAACAAGGCTTTTGAAGGCATGAGTAACTATAAATGAACTTTTCTTGTCAATAGA
1 TTAAAGAGAATAACAAGGCTTTCAAAGGCATGAGTAACTATAAATGAACTATTATTATCAATAGA
* * * * * * *
233591 TGGCATTCGCTTCATGTTTCTAAATGCAAACATCTAATTATGATTAATCTTAACCAAAAATGAAA
66 TGCCATTCGCTTCAAGTTTCTAAATGCAAACATCCAATTAGGATCAATCTTAACAAAAAATAAAA
233656 AAGATTTTATAAGATTGTAAGACTAG
131 AAGATTTTATAAGATTGTAAGACTAG
* * * * *
233682 TTAAAGAGAGTAACAAGGCTTTCAAAGGCATGAGTGACTATAATTGTACTATTATTATTAATAGA
1 TTAAAGAGAATAACAAGGCTTTCAAAGGCATGAGTAACTATAAATGAACTATTATTATCAATAGA
* * ** * *
233747 TGCCATTTGCTTCAAGTTTTTCCATGCAAACATCCAATTAGGATCAGTTTTAACAAAAAATAAAA
66 TGCCATTCGCTTCAAGTTTCTAAATGCAAACATCCAATTAGGATCAATCTTAACAAAAAATAAAA
233812 AAGA
131 AAGA
233816 ATTCTATTTA
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
156 110 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (156 bp):
TTAAAGAGAATAACAAGGCTTTCAAAGGCATGAGTAACTATAAATGAACTATTATTATCAATAGA
TGCCATTCGCTTCAAGTTTCTAAATGCAAACATCCAATTAGGATCAATCTTAACAAAAAATAAAA
AAGATTTTATAAGATTGTAAGACTAG
Found at i:234355 original size:481 final size:487
Alignment explanation
Indices: 233524--234695 Score: 1579
Period size: 481 Copynumber: 2.4 Consensus size: 487
233514 TTATTAAACA
* *
233524 ATTTAAAGCGAATAACAAGGCTTTTGAAGGCATGAGTAACTATAAATGAACTTTTCTTGTCAATA
1 ATTTAAAGCGAATAACAAGGCTTTTGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATG
* *
233589 GATGGCATTCGCTTCATGTTT-CTAAATGCAAACATCTAATTATGATTAATCTTAACCAAAAATG
66 GATGGCATCCGCTTCATGTTTCCT-GATGCAAACATCTAATTATGATTAATCTTAACCAAAAATG
* * * * * **
233653 AAAAAGATTTT---AT--AA-GATTGTAAGACTAGTTAAAGA-GAGTAACA-AG-GCTTTCAAAG
130 AAGAAGATTTTGACATAAAATAATTATAAGA-TTG-T-AAGACTAGTAA-AGAGAG-TAAC-AAG
* * **
233709 GCATGAGTGACTATAATTGTACTATTATTATTAATAGATGCCATTTGCTTCAAGTTTTTCCATGC
189 GCTTGAGTGACTATAATTGTACTATTATTATCAATAGATGCCATTCACTTCAAGTTTTTCCATGC
* * *
233774 AAACATCCAATTAGGATCAGTTTTAACAAAAAATAAAAAAGAATTCTATTTAAAATTATTTATAA
254 AAACATCCAATGAGGATCAGATTTAACAAAAAATAAAAAAGAATTCTATTTAAAATCATTTATAA
* *
233839 GATTATAAAACTATTTAAAGCGAGTAAGTAGACTTTCGAAGGTATTAGTGACTATAAATGGACTT
319 GATTATAAAACCATTTAAAGCGAGTAACTAGACTTTCGAAGGTATTAGTGACTATAAATGGACTT
* * * *
233904 TTCTTGTCAATGGATAGCTTTTGCTTCATTTTCCCTATGTAAGCATCATATTATGGTCAGTTCTA
384 TTCTTGTCAATGGATAGCTTTTGCTTCATTTTCCCAATGCAAGCATCATATTATGATAAGTTCTA
*
233969 ACTAAAAATGAAAACAAATTC-T-A-TT-T-AAA-AT-C
449 ACCAAAAATGAAAACAAATTCATCATTTATAAAATATAC
* * *
234001 ATTTAAAGTGAATAACAAGGCTTTTGGAA-GTATGAGTGACTATAAATGAACTTTTCTTGCCAAT
1 ATTTAAAGCGAATAACAAGGCTTTT-GAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAAT
234065 GGATGGCATCCGCTTCATGTTTCCTGATGCAAACATCTAATTATGATTAATCTTAACCAAAAATG
65 GGATGGCATCCGCTTCATGTTTCCTGATGCAAACATCTAATTATGATTAATCTTAACCAAAAATG
234130 AAGAAGATTTTGACATAAAATAATTATAAGATTGTAAGACTAGTGAAAGAGAGTAACAAGGCTTG
130 AAGAAGATTTTGACATAAAATAATTATAAGATTGTAAGACTAGT-AAAGAGAGTAACAAGGCTTG
* * *
234195 AGTGATTATAATTGTACTATTATTATCAATGGATGCCATTCACTTCAAGTTTTTCCATGCAAAGA
194 AGTGACTATAATTGTACTATTATTATCAATAGATGCCATTCACTTCAAGTTTTTCCATGCAAACA
* * * * *
234260 TCCAATGATGATCAGATTTAACTAAAAATGAAAAGGAATTTTATTTAAAATCATTTATAAGATTA
259 TCCAATGAGGATCAGATTTAACAAAAAATAAAAAAGAATTCTATTTAAAATCATTTATAAGATTA
234325 TAAAACCATTTAAAGCGAGTAACTAGACTTTCGAAGGTATTAGTGACTATAAATGGACTTTTCTT
324 TAAAACCATTTAAAGCGAGTAACTAGACTTTCGAAGGTATTAGTGACTATAAATGGACTTTTCTT
*
234390 GTCAATGGATGGCTTTTGCTTCATTTTCCCAATGCAAGCATCATATTATGATAAGTTCTAACCAA
389 GTCAATGGATAGCTTTTGCTTCATTTTCCCAATGCAAGCATCATATTATGATAAGTTCTAACCAA
234455 AAATGAAAACAAATTCTATTTAAAATCATTTATAAAATTATAAAACC
454 AAATGAAAACAAATTC--------ATCATTTATAAAA-TAT---A-C
* *
234502 ATTTAAAGCGAATAACAAGGTTTTTGAAGGCATGAGTGACTGTAAATGAACTTTTCTTGTCAATG
1 ATTTAAAGCGAATAACAAGGCTTTTGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATG
*** * * *
234567 GACAACACCCGCTTCATGTTTCCCGATGCAAACATCTAATTATGATTAATCTTAACAAAAAATGA
66 GATGGCATCCGCTTCATGTTTCCTGATGCAAACATCTAATTATGATTAATCTTAACCAAAAATGA
* *
234632 AGAAGATTTCGACATAAAATAATGTATAAGATTGTAAGACTAGTTAAAGATAGTAACAAGGCTT
131 AGAAGATTTTGACATAAAATAAT-TATAAGATTGTAAGACTAG-TAAAGAGAGTAACAAGGCTT
234696 TTAAAGGCAT
Statistics
Matches: 610, Mismatches: 50, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
477 125 0.20
478 5 0.01
480 6 0.01
481 266 0.44
482 10 0.02
483 9 0.01
490 1 0.00
491 1 0.00
492 2 0.00
493 1 0.00
494 3 0.00
496 2 0.00
500 3 0.00
501 138 0.23
502 37 0.06
503 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (487 bp):
ATTTAAAGCGAATAACAAGGCTTTTGAAGGCATGAGTGACTATAAATGAACTTTTCTTGTCAATG
GATGGCATCCGCTTCATGTTTCCTGATGCAAACATCTAATTATGATTAATCTTAACCAAAAATGA
AGAAGATTTTGACATAAAATAATTATAAGATTGTAAGACTAGTAAAGAGAGTAACAAGGCTTGAG
TGACTATAATTGTACTATTATTATCAATAGATGCCATTCACTTCAAGTTTTTCCATGCAAACATC
CAATGAGGATCAGATTTAACAAAAAATAAAAAAGAATTCTATTTAAAATCATTTATAAGATTATA
AAACCATTTAAAGCGAGTAACTAGACTTTCGAAGGTATTAGTGACTATAAATGGACTTTTCTTGT
CAATGGATAGCTTTTGCTTCATTTTCCCAATGCAAGCATCATATTATGATAAGTTCTAACCAAAA
ATGAAAACAAATTCATCATTTATAAAATATAC
Found at i:234583 original size:170 final size:171
Alignment explanation
Indices: 234251--234612 Score: 442
Period size: 170 Copynumber: 2.1 Consensus size: 171
234241 AAGTTTTTCC
* * * * * ** *
234251 ATGCAAAGATCCAATGATGATCAGATT-TAACTAAAAATGAAAAGGAATTTTATTTAAAATCATT
1 ATGCAAACATCTAATTATGATAAG-TTCTAACCAAAAATGAAAACAAATTCTATTTAAAATCATT
* * * * *
234315 TATAAGATTATAAAACCATTTAAAGCGAGTAACTAGACTTTCGAAGGTATTAGTGACTATAAATG
65 TATAAAATTATAAAACCATTTAAAGCGAATAACAAGACTTTCGAAGGCATGAGTGACTATAAATG
* *** ****
234380 GACTTTTCTTGTCAATGGATGGCTTTTGCTTCAT-TTTCCCA
130 AACTTTTCTTGTCAATGGACAACACCCGCTTCATGTTTCCCA
*
234421 ATGCAAGCATC-ATATTATGATAAGTTCTAACCAAAAATGAAAACAAATTCTATTTAAAATCATT
1 ATGCAAACATCTA-ATTATGATAAGTTCTAACCAAAAATGAAAACAAATTCTATTTAAAATCATT
** * *
234485 TATAAAATTATAAAACCATTTAAAGCGAATAACAAGGTTTTTGAAGGCATGAGTGACTGTAAATG
65 TATAAAATTATAAAACCATTTAAAGCGAATAACAAGACTTTCGAAGGCATGAGTGACTATAAATG
*
234550 AACTTTTCTTGTCAATGGACAACACCCGCTTCATGTTTCCCG
130 AACTTTTCTTGTCAATGGACAACACCCGCTTCATGTTTCCCA
234592 ATGCAAACATCTAATTATGAT
1 ATGCAAACATCTAATTATGAT
234613 TAATCTTAAC
Statistics
Matches: 161, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
169 3 0.02
170 133 0.83
171 24 0.15
172 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (171 bp):
ATGCAAACATCTAATTATGATAAGTTCTAACCAAAAATGAAAACAAATTCTATTTAAAATCATTT
ATAAAATTATAAAACCATTTAAAGCGAATAACAAGACTTTCGAAGGCATGAGTGACTATAAATGA
ACTTTTCTTGTCAATGGACAACACCCGCTTCATGTTTCCCA
Found at i:236540 original size:171 final size:171
Alignment explanation
Indices: 236376--237441 Score: 487
Period size: 171 Copynumber: 6.3 Consensus size: 171
236366 CATGAAGTAG
* * * * * * * *
236376 ATGCCATCCTTTTACAAGTAATGTCCATTTATGGTCATTCATGCCATCAAAAGCATTGTTACTTA
1 ATGCCATCCTTTGACAAGAAAAGTCCATTTATAGTCACTAATGCCATCAAAAGCATTCTTACTCA
* *
236441 CCGTAAATGATTTGATAATCTTATAGATG-TTTGTAAATCAAAATCATTT-TT-GTTTTTGGTTA
66 CCGTAAATGATTTGATAATCTTATAAATGATTT-TAAATCAAAAT--TTTGTTCATTTTTGGTTA
236503 AAATAATTCACAATCGGATGTTTGTATTGAGAAACATGAAACAA
128 AAATAATTCACAATCGGATGTTTGTATTGAGAAACATGAAACAA
** * *
236547 ATGCCATCCTTTGACAAGAAAAGTCCATTTATAGTCACTAATTTCATCAAAAGCCTTCTTACTCG
1 ATGCCATCCTTTGACAAGAAAAGTCCATTTATAGTCACTAATGCCATCAAAAGCATTCTTACTCA
*** * *
236612 TTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAAAATTTTGTTCATTTTTGGTTAAAA
66 CCGTAAATGATTTGATAATCTTATAAATGATTTTAAATCAAAATTTTGTTCATTTTTGGTTAAAA
*** * * ** ** * *
236677 TCCCTCATAATTGGATGTTTACATTTCGAAACATTAAACGA
131 TAATTCACAATCGGATGTTTGTATTGAGAAACATGAAACAA
** * * * * * * * ** * *
236718 ATGTTATCCATTAAGAAGAAAAGTCAATTTATAGTCACTCATACCTTCGGAAGCCTTATTACTCA
1 ATGCCATCCTTTGACAAGAAAAGTCCATTTATAGTCACTAATGCCATCAAAAGCATTCTTACTCA
** * * * * *
236783 CTTTACATGATTTTATAATCTTATAAATGATTTTAAATTGAATAGTTTT-TT-ATTTTTAGTTAA
66 CCGTAAATGATTTGATAATCTTATAAATGATTTTAAA-TCAA-AATTTTGTTCATTTTTGGTTAA
* * ** * **
236846 AACTGA-TCATAATTTGATGTTTGCATTG-GAAAACATGAATTGAA
129 AA-TAATTCACAATCGGATGTTTGTATTGAG-AAACATGAA-ACAA
* * * * * ** **
236890 A-GCCATGCATTGACAAAGAAAA-TCCATTTATAGTCGCTCATGCCTTTGAAAGTC-TAGTTACT
1 ATGCCATCCTTTGAC-AAGAAAAGTCCATTTATAGTCACTAATGCCATCAAAAG-CATTCTTACT
* ** * * * * * *
236952 TACTTTAAATCACTTT-ATAATCTTATTAATGATTTTGAATC-AAATTTTTTTTATTTTTTGTTA
64 CACCGTAAATGA-TTTGATAATCTTATAAATGATTTTAAATCAAAATTTTGTTCATTTTTGGTTA
* * * ** * *
237015 AAACTGA-CCATAATTTGATGTTTGCATTGATAAACAT-AAATCAA
128 AAA-TAATTCACAATCGGATGTTTGTATTGAGAAACATGAAA-CAA
* * * * * * * * * * * *
237059 AAGGCAT-CTATTGACAAGATAATTCTATTTATAGTCAGTCATGCTATTAAATGCCTTATTACTC
1 ATGCCATCCT-TTGACAAGAAAAGTCCATTTATAGTCACTAATGCCATCAAAAGCATTCTTACTC
* ** * * * * * * *
237123 GCTTTAAATGGTCCT-ATAATCTTATAAATTATTTTAAATAAAAAATATCTT--TGTTTTGGTTT
65 ACCGTAAATGAT-TTGATAATCTTATAAATGATTTTAAATCAAAATTTTGTTCAT-TTTTGG-TT
* * ** * * * *
237185 AAAATTATTCATAATTAGCTATTTGCT-TTGAGAAACAT-AAAGTAG
127 AAAATAATTCACAATCGGATGTTTG-TATTGAGAAACATGAAA-CAA
*** * * * * * *
237230 ATGCCATCCACAGATAAGAAAAGTCTATTTATAGTCACTCATGCCATC-AAAGTATTATTACTCG
1 ATGCCATCCTTTGACAAGAAAAGTCCATTTATAGTCACTAATGCCATCAAAAGCATTCTTACTCA
** *
237294 CTTTAAAT-AGTTCT-ATAATCTTATAAATGATTTTAACTCAAAATTTT-TTCATATTTTGGTTA
66 CCGTAAATGA-TT-TGATAATCTTATAAATGATTTTAAATCAAAATTTTGTTCAT-TTTTGGTTA
* * ** * * * ***
237356 AAAAAAATCTTAATTGGATGTTTGCATTG-GGAACAT-AAAGTGG
128 AAATAATTCACAATCGGATGTTTGTATTGAGAAACATGAAA-CAA
* * *
237399 ATGCCAT-CTATTGATAAGAAAAGT-CAATTATAGTCACTTATGC
1 ATGCCATCCT-TTGACAAGAAAAGTCCATTTATAGTCACTAATGC
237442 TTCAAAGCCT
Statistics
Matches: 707, Mismatches: 156, Indels: 67
0.76 0.17 0.07
Matches are distributed among these distances:
168 22 0.03
169 54 0.08
170 197 0.28
171 406 0.57
172 23 0.03
173 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (171 bp):
ATGCCATCCTTTGACAAGAAAAGTCCATTTATAGTCACTAATGCCATCAAAAGCATTCTTACTCA
CCGTAAATGATTTGATAATCTTATAAATGATTTTAAATCAAAATTTTGTTCATTTTTGGTTAAAA
TAATTCACAATCGGATGTTTGTATTGAGAAACATGAAACAA
Found at i:237038 original size:170 final size:168
Alignment explanation
Indices: 236519--237452 Score: 514
Period size: 171 Copynumber: 5.5 Consensus size: 168
236509 TTCACAATCG
* * *
236519 GATGTTTGTATTGAGAAACATGAAA-C-AAATGCCATCCTTTGAC-AAGAAAAGTCCATTTATAG
1 GATGTTTGCATTGA-AAACAT-AAATCGAAA-GCCAT-CATTGACAAAGAAAA-TCAATTTATAG
* * ** * * * ** ***
236581 TCACTAATTTCATCAAAAGCCTTCTTACTCGTTTTAAATGGTTTTATAATCTTATAAATGATTTT
61 TCGCTCATGCCTTCGAAAGCCTTATTACTCACTTTAAATCACTTTATAATCTTATAAATGATTTT
* * * ** *
236646 AAATCAAAATTTTGTTCATTTTTGGTTAAAA-TCCCTCATAATTG
126 AAATC-AAATTTTTTTTATTTTTAGTTAAAACTGAC-CATAATTT
* * **
236690 GATGTTTACATTTCG-AAACATTAAA-CGAATGTTATCCATT-A-AGAAGAAAAGTCAATTTATA
1 GATGTTTGCA-TT-GAAAACA-TAAATCGAAAGCCAT-CATTGACA-AAGAAAA-TCAATTTATA
* * * * * *
236751 GTCACTCATACCTTCGGAAGCCTTATTACTCACTTTACATGATTTTATAATCTTATAAATGATTT
60 GTCGCTCATGCCTTCGAAAGCCTTATTACTCACTTTAAATCACTTTATAATCTTATAAATGATTT
** * *
236816 TAAATTGAATAGTTTTTTATTTTTAGTTAAAACTGATCATAATTT
125 TAAATCAAAT-TTTTTTTATTTTTAGTTAAAACTGACCATAATTT
* * *
236861 GATGTTTGCATTGGAAAACATGAATTGAAAGCCATGCATTGACAAAGAAAATCCATTTATAGTCG
1 GATGTTTGCATT-GAAAACATAAATCGAAAGCCAT-CATTGACAAAGAAAATCAATTTATAGTCG
* * * * *
236926 CTCATGCCTTTGAAAGTC-TAGTTACTTACTTTAAATCACTTTATAATCTTATTAATGATTTTGA
64 CTCATGCCTTCGAAAGCCTTA-TTACTCACTTTAAATCACTTTATAATCTTATAAATGATTTTAA
*
236990 ATCAAATTTTTTTTATTTTTTGTTAAAACTGACCATAATTT
128 ATCAAATTTTTTTTATTTTTAGTTAAAACTGACCATAATTT
* * * *
237031 GATGTTTGCATTGATAAACATAAATCAAAAGGCATCTATTGAC-AAGATAATTCTATTTATAGTC
1 GATGTTTGCATTGA-AAACATAAATCGAAAGCCATC-ATTGACAAAGA-AAATCAATTTATAGTC
* * ** * *
237095 AG-TCATG-CTAT-TAAATGCCTTATTACTCGCTTTAAAT-GGTCCTATAATCTTATAAATTATT
63 -GCTCATGCCT-TCGAAA-GCCTTATTACTCACTTTAAATCACT-TTATAATCTTATAAATGATT
* * * * * * * * *
237156 TTAAATAAAAAATATCTTT-GTTTTGGTTTAAAA-TTATTCATAATTA
124 TTAAAT-CAAATTTTTTTTATTTTTAG-TTAAAACTGA-CCATAATTT
* * * * * ** * *
237202 GCTATTTGCTTTGAGAAACATAAAGTAG-ATGCCATCCACAGA-TAAGAAAAGTCTATTTATAGT
1 GATGTTTGCATTGA-AAACATAAA-TCGAAAGCCAT-CATTGACAAAGAAAA-TCAATTTATAGT
* * ** * *
237265 CACTCATGCCATC-AAAGTATTATTACTCGCTTTAAAT-AGTTCTATAATCTTATAAATGATTTT
62 CGCTCATGCCTTCGAAAGCCTTATTACTCACTTTAAATCACTT-TATAATCTTATAAATGATTTT
* * * * *** * * *
237328 AACTCAAAATTTTTTCATATTTTGGTTAAAAAAAATCTTAATTG
126 AAATCAAATTTTTTTTAT-TTTTAGTTAAAACTGACCATAATTT
** * * *
237372 GATGTTTGCATTGGGAACATAAAGT-GGATGCCATCTATTGA-TAAGAAAAGTCAA-TTATAGTC
1 GATGTTTGCATTGAAAACATAAA-TCGAAAGCCATC-ATTGACAAAGAAAA-TCAATTTATAGTC
* *
237434 ACTTATG-CTTC-AAAGCCTT
63 GCTCATGCCTTCGAAAGCCTT
237453 TCCTTTTACT
Statistics
Matches: 608, Mismatches: 118, Indels: 78
0.76 0.15 0.10
Matches are distributed among these distances:
167 9 0.01
168 16 0.03
169 53 0.09
170 210 0.35
171 301 0.50
172 17 0.03
173 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (168 bp):
GATGTTTGCATTGAAAACATAAATCGAAAGCCATCATTGACAAAGAAAATCAATTTATAGTCGCT
CATGCCTTCGAAAGCCTTATTACTCACTTTAAATCACTTTATAATCTTATAAATGATTTTAAATC
AAATTTTTTTTATTTTTAGTTAAAACTGACCATAATTT
Found at i:237378 original size:341 final size:338
Alignment explanation
Indices: 236562--237384 Score: 748
Period size: 341 Copynumber: 2.4 Consensus size: 338
236552 ATCCTTTGAC
* ** * * * *
236562 AAGAAAAGTCCATTTATAGTCACTAATTTCATCAAAAGCCTTCTTACTCGTTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCCATC-AAAG-TTTATTACTCGCTTTAAATAG-TTTA
****
236627 TAATCTTATAAATGATTTTAAATCAAAATTTTGTTCATTTTTGGTTAAAATCCCTCATAATTGGA
63 TAATCTTATAAATGATTTT-AATCAAAATTTT-TTCATTTTTGGTTAAAAAAAATCATAATTGGA
* ** * * ** *
236692 TGTTTACATTTCGAAACATTAAACGAATGTTATCCATTAAGAAGAAAAGTCAATTTATAGTCACT
126 TGTTTGCATTGAGAAACATTAAACAAAAGGCATCCATTAACAAGAAAAGTCAATTTATAGTCACT
* * **
236757 CATACCTTCGGAAGCCTTATTACTCACTTTACATGATTTTATAATCTTATAAATGATTTTAAATT
191 CATACCTTCGAAAGCCTTATTACTCACTTTAAATGATCCTATAATCTTATAAATGATTTTAAATT
* * * * * * * * *
236822 GAATAGTTTTTTATTTTTAGTTAAAACTGATCATAATTTGATGTTTGCATTGGAAAACATGAATT
256 AAAAAATTCTTTAGTTTTAGTTAAAACTGATCATAATTAGATATTTGCATTGGAAAACATAAATA
* **
236887 GAAAGCCATGCATTGACA
321 GAAAGCCATCCACAGACA
* * * * ** *
236905 AAGAAAA-TCCATTTATAGTCGCTCATGCCTTTGAAAGTCTAGTTACTTACTTTAAATCACTTTA
1 AAGAAAAGTCCATTTATAGTCACTCATGCC-ATCAAAGTTTA-TTACTCGCTTTAAAT-AGTTTA
* * * * *** * *
236969 TAATCTTATTAATGATTTTGAATCAAATTTTTTTTATTTTTTGTTAAAACTGACCATAATTTGAT
63 TAATCTTATAAATGATTTT-AATCAAAATTTTTTCATTTTTGGTTAAAAAAAATCATAATTGGAT
* * * * * * *
237034 GTTTGCATTGATAAACA-TAAATCAAAAGGCATCTATTGACAAGATAATTCTATTTATAGTCAGT
127 GTTTGCATTGAGAAACATTAAA-CAAAAGGCATCCATTAACAAGAAAAGTCAATTTATAGTCACT
* * * * *
237098 CAT-GCTAT-TAAATGCCTTATTACTCGCTTTAAATGGTCCTATAATCTTATAAATTATTTTAAA
191 CATACCT-TCGAAA-GCCTTATTACTCACTTTAAATGATCCTATAATCTTATAAATGATTTTAAA
* * * *
237161 -TAAAAAATATCTTT-GTTTTGGTTTAAAA-TTATTCATAATTAGCTATTTGC-TTTGAGAAACA
254 TTAAAAAAT-TCTTTAGTTTTAG-TTAAAACTGA-TCATAATTAGATATTTGCATTGGA-AAACA
* *
237222 TAAAGTAG-ATGCCATCCACAGA-T
315 TAAA-TAGAAAGCCATCCACAGACA
*
237245 AAGAAAAGTCTATTTATAGTCACTCATGCCATCAAAGTATTATTACTCGCTTTAAATAGTTCTAT
1 AAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAGT-TTATTACTCGCTTTAAATAGTT-TAT
*
237310 AATCTTATAAATGATTTTAACTCAAAATTTTTTCATATTTTGGTTAAAAAAAATCTTAATTGGAT
64 AATCTTATAAATGATTTTAA-TCAAAATTTTTTCAT-TTTTGGTTAAAAAAAATCATAATTGGAT
237375 GTTTGCATTG
127 GTTTGCATTG
237385 GGAACATAAA
Statistics
Matches: 379, Mismatches: 85, Indels: 34
0.76 0.17 0.07
Matches are distributed among these distances:
339 5 0.01
340 83 0.22
341 214 0.56
342 69 0.18
343 8 0.02
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (338 bp):
AAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAGTTTATTACTCGCTTTAAATAGTTTATAA
TCTTATAAATGATTTTAATCAAAATTTTTTCATTTTTGGTTAAAAAAAATCATAATTGGATGTTT
GCATTGAGAAACATTAAACAAAAGGCATCCATTAACAAGAAAAGTCAATTTATAGTCACTCATAC
CTTCGAAAGCCTTATTACTCACTTTAAATGATCCTATAATCTTATAAATGATTTTAAATTAAAAA
ATTCTTTAGTTTTAGTTAAAACTGATCATAATTAGATATTTGCATTGGAAAACATAAATAGAAAG
CCATCCACAGACA
Found at i:238409 original size:170 final size:168
Alignment explanation
Indices: 238106--240056 Score: 906
Period size: 171 Copynumber: 11.3 Consensus size: 168
238096 TATCCCATCG
** * * *
238106 AAAGCCTTGTTACTTGCTTTAAATGGTTTTATAATCTAATGAATGATTTTAAATCAAAATATTTT
1 AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATC-AAATATTTT
* * * ** * * * ** **
238171 TCGA-TTTTGGTTAAAACCCCTTATAATTGGATGTTTGTATAAAGAAACATGAAGCAAATGCCAT
65 T-TATTTTTTGTTAAAATCAATCATAATTGGATGTTTGCAT-TAGAAATGTGAAGTGAATGCCAT
* *
238235 CCATTGATACGAAAAGTCCATTTATATTCACTCATGCCATT-
128 CCATTGA-AAGAAAAGTCCATTTATAGTCACTCATGCCATTC
* *
238276 AAAGCCTTGTTGCTCACTTTAATTAGTTTTATAATCTTATAAATGATTTTAAATCGAAATATTTT
1 AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATC-AAATATTTT
* *
238341 TTATTTTTTGTTAAAATCAATCAAAATTGGATGTTTGCATTACGAAATGTGAAGTGAATGCAATC
65 TTATTTTTTGTTAAAATCAATCATAATTGGATGTTTGCATTA-GAAATGTGAAGTGAATGCCATC
238406 CATT-ACGAAGAAAAGTCCATTTATAGTCACTCATGCCA-TC
129 CATTGA--AAGAAAAGTCCATTTATAGTCACTCATGCCATTC
* * * * * * * *
238446 GAAAACCTTATTACT-AGTTTTAAATGGTTTTATAATCTCATAAATGATTTTAAGT-AATTTTTT
1 -AAAGCCTTGTTACTCA-CTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAA-ATATT
* ** * * * **
238509 TTTTCATTTTTGGTTAAAATCCCTCATAATTGGATGTTTGCATTGGGAATTGTGAAGAG-ATGTT
63 TTTT-ATTTTTTGTTAAAATCAATCATAATTGGATGTTTGCATT-AGAAATGTGAAGTGAATGCC
* * * *
238573 ATCCACTGAGAAGAAAAGTCAATTTATAGTCACTCAT-ACTTTC
126 ATCCATTGA-AAGAAAAGTCCATTTATAGTCACTCATGCCATTC
**
238616 GAAAGCCTTGTTACTCACTTTACGT-GATTTTATAATCTTATAAATGATTTTAAATCAAATTATT
1 -AAAGCCTTGTTACTCACTTTAAATAG-TTTTATAATCTTATAAATGATTTTAAATCAAA-TATT
* * * *
238680 TTTT-GTTTTTGATGAAAATCAATCATAATTGGATGTTTGCATTGAAAAATGTGAAGTGGATGCC
63 TTTTATTTTTTG-TTAAAATCAATCATAATTGGATGTTTGCATT-AGAAATGTGAAGTGAATGCC
* * * * * *
238744 ATCTATTAACAAGAAAAGTCTATTTATAATCAATCATACC-TTC
126 ATCCATTGA-AAGAAAAGTCCATTTATAGTCACTCATGCCATTC
* ** * * *
238787 GAAAGCCTAGTTACTTGCATTAAATAGTTTAATAATCTTATAAATGATTTTAAATC-AATTTATT
1 -AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAATAT-TT
* * * *
238851 TTTATTTTTT-TTAAAA-CAAATCATAATTGGATGTATG-ACTT-GCCAAAAGTGAAGCGAAAGC
64 TTTATTTTTTGTTAAAATC-AATCATAATTGGATGTTTGCA-TTAG--AAATGTGAAGTGAATGC
** * * * * *
238912 CATTGACTAACAAGAAAATTTCATTTATAGTCAATCATGCC-TTC
125 CATCCATTGA-AAGAAAAGTCCATTTATAGTCACTCATGCCATTC
* * * * * * *
238956 GAAAGCTTTGTTCCTCACTTTCAATGGTTTTATAATCTTATAAAAGATGTTGAATCAAA-ATCTC
1 -AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAATAT-T-
* * * * *** * **
239020 CTTCA-TTTTTGTTTCAAATTAATCATAACCAGATGTTTG-ATTGGAAAACATGAAGCT-AATGC
63 TTTTATTTTTTG-TTAAAATCAATCATAATTGGATGTTTGCATTAG-AAATGTGAAG-TGAATGC
* * * * * * *
239082 TATCCATTAACAAGAAAAATCTATTTATAGTTACTCACAG-AATT-
125 CATCCATTGA-AAGAAAAGTCCATTTATAGTCACTCA-TGCCATTC
* * * * * * *
239126 GAAGCCTTGTCACTCGCTTTAAGGCCTTATTACTCGCTTTAAGTGATTTTATAATCTTGTAAATG
1 AAAGCCTTGTTACTCACTTTAA------A-TA---G-TTTTA-TAATCTTATAA--ATG---AT-
* * * * * * * * *
239191 ATTTTAAATTGAACTGTTTTTCATTTTTGGTGAAAA-CATATTATAATTTGATGTTTGCATTGGG
48 -TTT-AAA-TCAAATATTTTTTATTTTTTGTTAAAATCA-ATCATAATTGGATGTTTGCATT-AG
** * * *
239255 AAACATGAAGTGAAAGCCATCCATTGACAAGAAAAGTCCATTTGTAGCCACTCATGCC-TTC
108 AAATGTGAAGTGAATGCCATCCATTGA-AAGAAAAGTCCATTTATAGTCACTCATGCCATTC
* ** * * * *
239316 TAGAGCCTAATTACTCACTTTCAATCGTTTTATAAACTTATAAATGATTTTATAT-AGAAT-TTG
1 -AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCA-AATATT-
* * * * * * * ** *
239379 TTTTCATTTATGGTTAGAA-CTGATCATAATTTGATGTTTGCATCAGTAAATATGAAGCAAAAGC
63 TTTT-ATTTTTTGTTAAAATC-AATCATAATTGGATGTTTGCATTAG-AAATGTGAAGTGAATGC
* * * *
239443 CATCCATTCACAAGAAAAGTCTATTTATAGTCACTAATACC-TTC
125 CATCCATTGA-AAGAAAAGTCCATTTATAGTCACTCATGCCATTC
* * * * *
239487 AAAAG-TTTAGTTACTCGCTTTAAATAGTTCTGTAATCTTATAAGTGATTTTAAAT-AGAAT-TC
1 -AAAGCCTT-GTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCA-AATAT-
* * * * * ** * *
239549 CTTTTCATTTTTAGTT-TAACCTTATCATAATTGGATGTTTGCATGGGGAAACT-TGAAGCGAAC
62 -TTTTTATTTTTTGTTAAAATC-AATCATAATTGGATGTTTGCAT-TAGAAA-TGTGAAGTGAAT
** * * * * * * *
239612 AACATCCATTGGCAATAATACTGCATTTATAGTCACTCATGCCTTTG
123 GCCATCCATT-GAAAGAAAAGTCCATTTATAGTCACTCATGCCATTC
* * * * * * * * * * * *
239659 AAAGCTTTGTTATTCGCTTCAAGTGGTCTGACAATCTTATAAATTG-TTTTACATCAGAATCTTC
1 AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAA-TGATTTTAAATCA-AATATTT
* * * * ** * ** ** *
239723 TTCA-TTTTTGCTTAAGATTAATCATAATTAGATGTTTAAATTGGGAAACATGAAACGGATGCCA
64 TTTATTTTTTG-TTAAAATCAATCATAATTGGATGTTTGCATT-AGAAATGTGAAGTGAATGCCA
* * * *
239787 TCCATTGACAAGAAGAGTTCATTTATAGTTATTCATGCC-TTC
127 TCCATTGA-AAGAAAAGTCCATTTATAGTCACTCATGCCATTC
* * * * * * * *
239829 AAAAGCCTTATTATTCACTTTAACTGGTTTAATAATCATATAAATGATTTTAAATTAAA-AATTT
1 -AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAATATTTT
* * * * * *
239893 TTCTTTTTTGCTAAAAT-AGATCATAATTGGTTGTTTGTATTGGGAAATGTGAAGTGAAAGCCAT
65 TTATTTTTTGTTAAAATCA-ATCATAATTGGATGTTTGCATT-AGAAATGTGAAGTGAATGCCAT
* ** *
239957 CCATTGATATGAAAAGTCTGTTTATAGTCAC-CTATACC-TTC
128 CCATTGA-AAGAAAAGTCCATTTATAGTCACTC-ATGCCATTC
* * * * * * * *
239998 GGAAGCCTTGTTACTCGCTTTAGATTGTTATACAATCTTATAACTGATTTTAAACCAAA
1 -AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAA
240057 ATATGTNNNN
Statistics
Matches: 1361, Mismatches: 329, Indels: 183
0.73 0.18 0.10
Matches are distributed among these distances:
168 4 0.00
169 276 0.20
170 348 0.26
171 565 0.42
172 23 0.02
173 2 0.00
174 2 0.00
175 1 0.00
176 1 0.00
177 2 0.00
179 9 0.01
180 8 0.01
181 10 0.01
183 1 0.00
184 1 0.00
185 1 0.00
186 2 0.00
188 3 0.00
189 28 0.02
190 56 0.04
191 18 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (168 bp):
AAAGCCTTGTTACTCACTTTAAATAGTTTTATAATCTTATAAATGATTTTAAATCAAATATTTTT
TATTTTTTGTTAAAATCAATCATAATTGGATGTTTGCATTAGAAATGTGAAGTGAATGCCATCCA
TTGAAAGAAAAGTCCATTTATAGTCACTCATGCCATTC
Found at i:238732 original size:341 final size:342
Alignment explanation
Indices: 238100--238853 Score: 909
Period size: 341 Copynumber: 2.2 Consensus size: 342
238090 GTCATATATC
* * *
238100 CCATCGAAAGCCTTGTTACTTGCTTTAAATGGTTTTATAATCTAATGAATGATTTTAAATCAA-A
1 CCATCGAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTAATAAATGATTTTAAATCAATT
* * * *
238164 ATATTTTTCGATTTTGGTTAAAACCCCTTATAATTGGATGTTTGTATAAAGAAACATGAAGCAAA
66 TTTTTTTTCGATTTTGGTTAAAACCCCTCATAATTGGATGTTTGCATAAAGAAACATGAAGCAAA
* * * * * * *
238229 TGCCATCCATTGATACGAAAAGTCCATTTATATTCACTCATGCCATTAAAGCCTTGTTGCTCACT
131 TGCCATCCACTGAGAAGAAAAGTCAATTTATAGTCACTCATGACATTAAAGCCTTGTTACTCACT
* * *
238294 TTAATTAGTTTTATAATCTTATAAATGATTTTAAATCGAAATATTTTTTATTTTTTGTTAAAATC
196 TTAATGAGTTTTATAATCTTATAAATGATTTTAAATCGAAATATTTTTTAGTTTTTGTGAAAATC
*
238359 AATCAAAATTGGATGTTTGCATTACGAAATGTGAAGTGAATGCAATCCATT-ACGAAGAAAAGTC
261 AATCAAAATTGGATGTTTGCATTACAAAATGTGAAGTGAATGCAATCCATTAAC-AAGAAAAGTC
* * *
238423 CATTTATAGTCACTCATG
325 CATTTATAATCAATCATA
* * * * *
238441 CCATCGAAAACCTTATTACTAGTTTTAAATGGTTTTATAATCTCATAAATGATTTTAAGT-AATT
1 CCATCGAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTAATAAATGATTTTAAATCAATT
* *** *** *
238505 TTTTTTTTC-ATTTTTGGTTAAAATCCCTCATAATTGGATGTTTGCATTGGGAATTGTGAAG-AG
66 TTTTTTTTCGA-TTTTGGTTAAAACCCCTCATAATTGGATGTTTGCATAAAGAAACATGAAGCAA
** *
238568 ATGTTATCCACTGAGAAGAAAAGTCAATTTATAGTCACTCAT-ACTTTCGAAAGCCTTGTTACTC
130 ATGCCATCCACTGAGAAGAAAAGTCAATTTATAGTCACTCATGACATT--AAAGCCTTGTTACTC
*
238632 ACTTTACGTGA-TTTTATAATCTTATAAATGATTTTAAATC-AAATTATTTTTT-GTTTTTGATG
193 ACTTTA-ATGAGTTTTATAATCTTATAAATGATTTTAAATCGAAA-TATTTTTTAGTTTTTG-TG
* * * *
238694 AAAATCAATCATAATTGGATGTTTGCATTGA-AAAATGTGAAGTGGATGCCATCTATTAACAAGA
255 AAAATCAATCAAAATTGGATGTTTGCATT-ACAAAATGTGAAGTGAATGCAATCCATTAACAAGA
*
238758 AAAGTCTATTTATAATCAATCATA
319 AAAGTCCATTTATAATCAATCATA
* * * * *
238782 CCTTCGAAAGCC-TAGTTACTTGCATTAAATAGTTTAATAATCTTATAAATGATTTTAAATCAAT
1 CCATCGAAAGCCTTA-TTACTTGCTTTAAATGGTTTTATAATCTAATAAATGATTTTAAATCAAT
*
238846 TTATTTTT
65 TTTTTTTT
238854 ATTTTTTTTA
Statistics
Matches: 349, Mismatches: 53, Indels: 21
0.83 0.13 0.05
Matches are distributed among these distances:
339 3 0.01
340 50 0.14
341 281 0.81
342 15 0.04
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (342 bp):
CCATCGAAAGCCTTATTACTTGCTTTAAATGGTTTTATAATCTAATAAATGATTTTAAATCAATT
TTTTTTTTCGATTTTGGTTAAAACCCCTCATAATTGGATGTTTGCATAAAGAAACATGAAGCAAA
TGCCATCCACTGAGAAGAAAAGTCAATTTATAGTCACTCATGACATTAAAGCCTTGTTACTCACT
TTAATGAGTTTTATAATCTTATAAATGATTTTAAATCGAAATATTTTTTAGTTTTTGTGAAAATC
AATCAAAATTGGATGTTTGCATTACAAAATGTGAAGTGAATGCAATCCATTAACAAGAAAAGTCC
ATTTATAATCAATCATA
Found at i:244407 original size:340 final size:325
Alignment explanation
Indices: 243787--244439 Score: 674
Period size: 340 Copynumber: 2.0 Consensus size: 325
243777 ATCCATTGAG
* *
243787 AAGAAAAGTCAATTTATAGTCACTTATACCTTCGGAAGCCTTGTTACTTACTTTAAAGGTTTTAT
1 AAGAAAAGTCAATTTATAGCCACTTATACCTTC-GAAGCCTTGTTACTTACTTTAAAAGTTTTAT
* * *
243852 AATTTTATAAATGATTTTAAATCAAAAAATTTTATGTTTTTGGTTAAAATCCCTCATAATTGGAT
65 AATCTTATAAACGATTTTAAATCAAAAAATTTTATATTTTTGGTTAAAATCCCTCATAATTGGAT
* * * * **
243917 TTTTATATTGGAAACATAGAGCAAATACCATCCATTGAGACAGAAAGTTCATTTATAGCCACTCA
130 GTTTACATTGGAAACATAAAG-AAATACCATCCATTGAGACAAAAAAATCATTTATAGCCACTCA
* ** *
243982 TACCATCGAAGTCTTGTTGCACACTCTAAAAGATTTTATAAATTTATAAATGATTGTAAATCGAA
194 TACCATCAAAACCTTGTTACACACTCTAAAAGATTTTATAAATTTATAAATGATTGTAAATCGAA
244047 ATCTTTTTTTGTTTTTGGTTAAAATCAATCATAATGAGATGTTTGCATTGGGAANNNNNNNNNNA
259 A-CTTTTTTTGTTTTTGGTTAAAATCAATCATAATGAGA--TTTGCATTGGGAA----------A
244112 ATGCTATCTATTAAC
311 ATGCTATCTATTAAC
* * *
244127 AAGAAAAGTCCATTTATAGCCACTTATGCCATT-GAATGCCTTGTTACTT-GTTTGAAATAGTTT
1 AAGAAAAGTCAATTTATAGCCACTTATACC-TTCGAA-GCCTTGTTACTTACTTT-AAA-AGTTT
* * *
244190 TCTAATCTTATAAACGATTTTAAATC-AACAATTTTTTCATTTTTGGTTAAAATCCCTCATAATT
62 TATAATCTTATAAACGATTTTAAATCAAAAAATTTTAT-ATTTTTGGTTAAAATCCCTCATAATT
*** * * *
244254 GGATGTTTACATTAGGAAGTGTGAAATG-AATGCTATCTATTGAGA-AAAAAAATCAATTTATAG
126 GGATGTTTACATT-GGAAACAT-AAA-GAAATACCATCCATTGAGACAAAAAAATC-ATTTATAG
* * ** * * * *
244317 TCACTCATACCTTCAAAAACCTTGTTACTTACTTTAAATGATTTTAT-AATCTTCTAAATGATTT
187 CCACTCATACCATC-AAAACCTTGTTACACACTCTAAAAGATTTTATAAAT-TTATAAATGATTG
** *
244381 TAAATC-AAA-TTTTTTTGTTTTTGGTTAAAATCCCTCATAATTAGATTTGCATTGGGAAA
250 TAAATCGAAACTTTTTTTGTTTTTGGTTAAAATCAATCATAATGAGATTTGCATTGGGAAA
244440 TGTGAAGCGA
Statistics
Matches: 264, Mismatches: 38, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
328 1 0.00
338 13 0.05
339 6 0.02
340 84 0.32
341 71 0.27
342 45 0.17
343 43 0.16
344 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.39
Consensus pattern (325 bp):
AAGAAAAGTCAATTTATAGCCACTTATACCTTCGAAGCCTTGTTACTTACTTTAAAAGTTTTATA
ATCTTATAAACGATTTTAAATCAAAAAATTTTATATTTTTGGTTAAAATCCCTCATAATTGGATG
TTTACATTGGAAACATAAAGAAATACCATCCATTGAGACAAAAAAATCATTTATAGCCACTCATA
CCATCAAAACCTTGTTACACACTCTAAAAGATTTTATAAATTTATAAATGATTGTAAATCGAAAC
TTTTTTTGTTTTTGGTTAAAATCAATCATAATGAGATTTGCATTGGGAAAATGCTATCTATTAAC
Found at i:244495 original size:167 final size:169
Alignment explanation
Indices: 243764--244547 Score: 656
Period size: 171 Copynumber: 4.6 Consensus size: 169
243754 NTGGGAAGCA
* * * * * *
243764 TGAAGTGAATGCCATCCATTGAGAAGAAAAGTCAATTTATAGTCACTTATACCTTCGGAAGCCTT
1 TGAAGCGAATGCTATCCATTGAGAAAAAAAGTCCATTTATAGTCACTCATACCTTCGAAAGCCTT
* * * *
243829 GTTACTTACTTT-AAAGGTTTTATAATTTTATAAATGATTTTAAATCAAAAAATTTTATGTTTTT
66 GTTACTTACTTTAAAAGATTTTATAATCTTATAAATGATTTTAAATC-AAAATTTTTTTGTTTTT
* ** * **
243893 GGTTAAAATCCCTCATAATTGGA-TTTTTATATTGGAAACA
130 GGTTAAAATCCCTCATAATTAGAGTTTGCAT-TGGGAAATG
* * * * * * * * *
243933 T-AGAGCAAATACCATCCATTGAGACAGAAAGTTCATTTATAGCCACTCATACCATCG-AAGTCT
1 TGA-AGCGAATGCTATCCATTGAGAAAAAAAGTCCATTTATAGTCACTCATACCTTCGAAAGCCT
* ** * * *
243996 TGTTGCACACTCTAAAAGATTTTATAAAT-TTATAAATGATTGTAAATCGAAATCTTTTTTTGTT
65 TGTTACTTACTTTAAAAGATTTTAT-AATCTTATAAATGATTTTAAATC-AAA-ATTTTTTTGTT
** * ***
244060 TTTGGTTAAAATCAATCATAATGAGATGTTTGCATTGGGAANNN
127 TTTGGTTAAAATCCCTCATAATTAGA-GTTTGCATTGGGAAATG
******* * * * * * * * *
244104 NNNNNNNAATGCTATCTATTAACAAGAAAAGTCCATTTATAGCCACTTATGCCATT-GAATGCCT
1 TGAAGCGAATGCTATCCATTGAGAAAAAAAGTCCATTTATAGTCACTCATACC-TTCGAAAGCCT
* * * **
244168 TGTTACTT-GTTTGAAATAG-TTTTCTAATCTTATAAACGATTTTAAATCAACAATTTTTTCATT
65 TGTTACTTACTTT-AAA-AGATTTTATAATCTTATAAATGATTTTAAATCAA-AATTTTTTTGTT
* * * *
244231 TTTGGTTAAAATCCCTCATAATTGGATGTTTACATTAGGAAGTG
127 TTTGGTTAAAATCCCTCATAATTAGA-GTTTGCATTGGGAAATG
** * * * * *
244275 TGAAATGAATGCTATCTATTGAGAAAAAAAATCAATTTATAGTCACTCATACCTTCAAAAACCTT
1 TGAAGCGAATGCTATCCATTGAGAAAAAAAGTCCATTTATAGTCACTCATACCTTCGAAAGCCTT
* *
244340 GTTACTTACTTTAAATGATTTTATAATCTTCTAAATGATTTTAAATC-AAATTTTTTTGTTTTTG
66 GTTACTTACTTTAAAAGATTTTATAATCTTATAAATGATTTTAAATCAAAATTTTTTTGTTTTTG
244404 GTTAAAATCCCTCATAATTAGA-TTTGCATTGGGAAATG
131 GTTAAAATCCCTCATAATTAGAGTTTGCATTGGGAAATG
* * *
244442 TGAAGCGAATGCTATCCATAGATAAAAAAAGTCCATTAATAGTCACTCATACCTAT-GAATA-CC
1 TGAAGCGAATGCTATCCATTGAGAAAAAAAGTCCATTTATAGTCACTCATACCT-TCGAA-AGCC
* * * * *
244505 TTGTTACTCATTTTAAAAGGTTTTATAAACTTATAAATCATTT
64 TTGTTACTTACTTTAAAAGATTTTATAATCTTATAAATGATTT
244548 ACAGTCAAAT
Statistics
Matches: 480, Mismatches: 117, Indels: 38
0.76 0.18 0.06
Matches are distributed among these distances:
167 99 0.21
168 17 0.04
169 110 0.23
170 37 0.08
171 171 0.36
172 44 0.09
173 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (169 bp):
TGAAGCGAATGCTATCCATTGAGAAAAAAAGTCCATTTATAGTCACTCATACCTTCGAAAGCCTT
GTTACTTACTTTAAAAGATTTTATAATCTTATAAATGATTTTAAATCAAAATTTTTTTGTTTTTG
GTTAAAATCCCTCATAATTAGAGTTTGCATTGGGAAATG
Found at i:246512 original size:19 final size:20
Alignment explanation
Indices: 246490--246531 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
246480 AAAAATAAAA
246490 AAAAGATT-TAAAATCATTT
1 AAAAGATTATAAAATCATTT
246509 AAAAGATTATAAAATCATTT
1 AAAAGATTATAAAATCATTT
246529 AAA
1 AAA
246532 GTAAGTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAGATTATAAAATCATTT
Found at i:246763 original size:171 final size:167
Alignment explanation
Indices: 246335--247116 Score: 490
Period size: 171 Copynumber: 4.6 Consensus size: 167
246325 AGTTATGAAT
* * ** * *
246335 AAATCATTTATAAGTTTATAAAAC-CTTTTAAAGTGAGTAATAAGG-TACTC-ATAGGTATGAGT
1 AAATCATTTATAA-ATTATAAAACTATTTTAAAGCAAGTAACAAGGCT--TCGAT-GGTATAAGT
* * * * * *
246397 GACTATTAATGGACTTTT-TTCATCTATGGATAGCATTCACTTCACATTTCCCAATG-CAA-ATC
62 GGCTATAAATGGACTTTTCTTC-TCAATAGATAGCATTCACTTCACA-CTCCCAATGTAAACATC
* * * **
246459 TAATTATGAGGGATTTTAACCAAAA-ATAAAAAA--AAGATTTA
125 -CATTATGATGGATTTTAACAAAAACATAAAAAATTTTGATTTA
* * * * *
246500 AAATCATTTAAAAGATTATAAAA-TCA-TTTAAAGTAAGT-ACTAAGGCTTTTGAAGGTATGAGT
1 AAATCATTTATAA-ATTATAAAACT-ATTTTAAAGCAAGTAAC-AAGGC-TTCGATGGTATAAGT
* * ********** *
246562 GACTATAAATTGANNNNNNNNNNCAATAGATAGCATTCATTTCACACTACCCAATGTAAACATCC
62 GGCTATAAATGGACTTTTCTTCTCAATAGATAGCATTCACTTCACACT-CCCAATGTAAACATCC
246627 AGTTATGATGGATTTTAACAAAAA-ATGAAAAAATTATTGATTTA
126 A-TTATGATGGATTTTAACAAAAACAT-AAAAAATT-TTGATTTA
* *
246671 AAATCGTTTATAAGATTAGAAAACTATTTTAAA-CAAGTAACAAGGCATTCGATGGTATAAGTGG
1 AAATCATTTATAA-ATTATAAAACTATTTTAAAGCAAGTAACAAGGC-TTCGATGGTATAAGTGG
* * ** * *
246735 CTATAAATGGACTTTTCTTATTAATAGATAGCATTCACTTCATGTCTCCCAATGCAAACGTCTCA
64 CTATAAATGGACTTTTCTTCTCAATAGATAGCATTCACTTCA-CACTCCCAATGTAAACATC-CA
* * *
246800 TTATGATTGATTTTATTCAAAAACAAAAAAAGATTTCT-ATTTA
127 TTATGATGGATTTTA-ACAAAAACATAAAAA-ATTT-TGATTTA
* * * * *
246843 AAATCATTTATAAATTTATAAAA-TCTTTTAAAGCATGCAACAAGACTTCGATGGTACAAGTGGC
1 AAATCATTTATAAA-TTATAAAACTATTTTAAAGCAAGTAACAAGGCTTCGATGGTATAAGTGGC
* * * * ** *** * *
246907 TATAAATGAACTTTT-TGCCTCAATGGAT-GATATTTGC-TCTATGTTTCTAATGTAAACATCCA
65 TATAAATGGACTTTTCT-TCTCAATAGATAG-CATTCACTTC-ACACTCCCAATGTAAACATCC-
* *
246969 ATTATGAGGGATTTTAACCAAAAACATAAAATATTTTGATTTA
126 ATTATGATGGATTTTAA-CAAAAACATAAAAAATTTTGATTTA
* * * * * *
247012 AAATCATTTATAAAATTATAAAACCA--TTAAAGTAAGTAATAAGGCTTCCGAAGGTATAAATGA
1 AAATCATTTAT-AAATTATAAAACTATTTTAAAGCAAGTAACAAGGCTT-CGATGGTATAAGTGG
* * *
247075 CTATAAATTGACTTTTCTTCTCAATGGATGGCATTCACTTCA
64 CTATAAATGGACTTTTCTTCTCAATAGATAGCATTCACTTCA
247117 TGCTTCCCAN
Statistics
Matches: 478, Mismatches: 101, Indels: 72
0.73 0.16 0.11
Matches are distributed among these distances:
164 2 0.00
165 84 0.18
166 4 0.01
167 26 0.05
168 23 0.05
169 69 0.14
170 49 0.10
171 157 0.33
172 59 0.12
173 5 0.01
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (167 bp):
AAATCATTTATAAATTATAAAACTATTTTAAAGCAAGTAACAAGGCTTCGATGGTATAAGTGGCT
ATAAATGGACTTTTCTTCTCAATAGATAGCATTCACTTCACACTCCCAATGTAAACATCCATTAT
GATGGATTTTAACAAAAACATAAAAAATTTTGATTTA
Found at i:247081 original size:169 final size:168
Alignment explanation
Indices: 246611--247118 Score: 505
Period size: 171 Copynumber: 3.0 Consensus size: 168
246601 TTTCACACTA
*
246611 CCCAATGTAAACATCCAGTTATGATGGATTTTAACAAAAA-ATGAAAAAATTATTGATTTAAAAT
1 CCCAATGTAAACATCCAATTATGATGGATTTTAACAAAAACAT-AAAAAATT-TTGATTTAAAAT
* * *
246675 CGTTTATAAGATTAGAAAACTATTTTAAA-CAAGTAACAAGGCATTCGATGGTATAAGTGGCTAT
64 CATTTATAAAATTATAAAACTA--TTAAAGCAAGTAACAAGGC-TTCGATGGTATAAGTGGCTAT
* * *
246739 AAATGGACTTTTCTTATTAATAGAT-AGCATTCACTTCATGTCT
126 AAAT-GACTTTTCTTCTCAATGGATGAGCATTCACTTCATGTCT
* * * * *
246782 CCCAATGCAAACGTCTC-ATTATGATTGATTTTATTCAAAAACAAAAAAAGATTTCT-ATTTAAA
1 CCCAATGTAAACATC-CAATTATGATGGATTTTA-ACAAAAACATAAAAA-ATTT-TGATTTAAA
* * * * * *
246845 ATCATTTATAAATTTATAAAATCTTTTAAAGCATGCAACAAGACTTCGATGGTACAAGTGGCTAT
62 ATCATTTATAAAATTATAAAA-CTATTAAAGCAAGTAACAAGGCTTCGATGGTATAAGTGGCTAT
* * **
246910 AAATGAACTTTT-TGCCTCAATGGATGA-TATTTGC-TCTATGT-T
126 AAATG-ACTTTTCT-TCTCAATGGATGAGCATTCACTTC-ATGTCT
* * * *
246952 TCTAATGTAAACATCCAATTATGAGGGATTTTAACCAAAAACATAAAATATTTTGATTTAAAATC
1 CCCAATGTAAACATCCAATTATGATGGATTTTAA-CAAAAACATAAAAAATTTTGATTTAAAATC
* * * * * *
247017 ATTTATAAAATTATAAAACCATTAAAGTAAGTAATAAGGCTTCCGAAGGTATAAATGACTATAAA
65 ATTTATAAAATTATAAAACTATTAAAGCAAGTAACAAGGCTT-CGATGGTATAAGTGGCTATAAA
247082 TTGACTTTTCTTCTCAATGGATG-GCATTCACTTCATG
129 -TGACTTTTCTTCTCAATGGATGAGCATTCACTTCATG
247119 CTTCCCANNN
Statistics
Matches: 271, Mismatches: 47, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
168 18 0.07
169 74 0.27
170 47 0.17
171 77 0.28
172 48 0.18
173 7 0.03
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (168 bp):
CCCAATGTAAACATCCAATTATGATGGATTTTAACAAAAACATAAAAAATTTTGATTTAAAATCA
TTTATAAAATTATAAAACTATTAAAGCAAGTAACAAGGCTTCGATGGTATAAGTGGCTATAAATG
ACTTTTCTTCTCAATGGATGAGCATTCACTTCATGTCT
Found at i:248086 original size:166 final size:169
Alignment explanation
Indices: 247694--248428 Score: 438
Period size: 171 Copynumber: 4.3 Consensus size: 169
247684 TTAACATGAG
* *
247694 TAACAACGCTTTCGAAAGCATGAGTGACTA-GAAATAGACTTTTCTTATCAATGGATGGCATTCA
1 TAACAAGGCTTTCGAAAGCATGAGTGACTATG-AATAGACTTTTCTTATCAATGGATGGCACTCA
* * * ** *
247758 CTTCATGTTTTCCAATGCAAACATCCAATTCTAATTGATTTTAACTAAAAACAAAAATTATTTTT
65 CTTCACGTTTCCCAATGCAAACATCCAATTATAATCAATTTTAAC-AAAAACAAAAA-TATTTTG
* *
247823 ATTTAAAATCATTCATAAGATTATAAAACCATTTAAAGAGAA
128 ATTTAAAATCATTCATAACATTATAAAACCATTTAAAGAAAA
* * * ** * * * **
247865 TAACAAGGCTTTTGAAGGCATGAGTGACTATCAACGGATTTTTCTTCTTAATGGATGGCAC-CTG
1 TAACAAGGCTTTCGAAAGCATGAGTGACTATGAATAGACTTTTCTTATCAATGGATGGCACTCAC
* * *
247929 TCTCACGTTTCCCAATGTAAACATCCAATTATAATCAATTTTAA-ACAAA-AAAAA-CTTTTGAT
66 T-TCACGTTTCCCAATGCAAACATCCAATTATAATCAATTTTAACAAAAACAAAAATATTTTGAT
** * *
247991 TTAAGGTCATTGATAACATTATAAAATCATTTAAAGCAAAAA
130 TTAAAATCATTCATAACATTATAAAACCATTTAAAG--AAAA
* * * * * * *
248033 TAA-AA-GCTTTCAAAAGTATGAGTGACTATGAATTGACCTTTCTTGTCAATGGATAGCATTCAC
1 TAACAAGGCTTTCGAAAGCATGAGTGACTATGAATAGACTTTTCTTATCAATGGATGGCACTCAC
* * * * * * * * * *
248096 TTCATGTTTCCTAATGCAAACATCCAGGTCA-GATCTATTTGAACCAAAAATGAAAAAAAAATTT
66 TTCACGTTTCCCAATGCAAACATCCA-ATTATAATCAATTTTAA-CAAAAA--CAAAAATATTTT
* * * * * ** * ** *
248160 AATTTAAAATCTTTTATAAGATCATAAAATTATTCAAAGCGAG
127 GATTTAAAATCATTCATAACATTATAAAACCATTTAAAGAAAA
* * * * * * * * **
248203 TAATAATGC-TT--AAAGGCATGAGTGACTATAAATAGACTTTACTTGTTAGTGGATGGCATTGG
1 TAACAAGGCTTTCGAAA-GCATGAGTGACTATGAATAGACTTTTCTTATCAATGGATGGCACTCA
* * * * * *
248265 CTTTATGTTTCTCGATGCAAACATCCAATTATGATTAATTTTAACTAAAAA-AAAAGATAATTTT
65 CTTCACGTTTCCCAATGCAAACATCCAATTATAATCAATTTTAAC-AAAAACAAAA-AT-ATTTT
* * * * * * * *
248329 GACTTAAAATCA-TCTATAAGATTAGAAGATCATTTAAATAGAG
127 GATTTAAAATCATTC-ATAACATTATAAAACCATTTAAAGAAAA
* * * * * * *
248372 TAATAAGGCCTTC-AACGGCATGATTAACTAT-AAGTAAAATTTTCTTATCAATGGATG
1 TAACAAGGCTTTCGAA-AGCATGAGTGACTATGAA-TAGACTTTTCTTATCAATGGATG
248429 CCTTTTGCTT
Statistics
Matches: 433, Mismatches: 107, Indels: 48
0.74 0.18 0.08
Matches are distributed among these distances:
166 109 0.25
167 10 0.02
168 17 0.04
169 52 0.12
170 84 0.19
171 126 0.29
172 35 0.08
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (169 bp):
TAACAAGGCTTTCGAAAGCATGAGTGACTATGAATAGACTTTTCTTATCAATGGATGGCACTCAC
TTCACGTTTCCCAATGCAAACATCCAATTATAATCAATTTTAACAAAAACAAAAATATTTTGATT
TAAAATCATTCATAACATTATAAAACCATTTAAAGAAAA
Found at i:248319 original size:337 final size:336
Alignment explanation
Indices: 247701--248318 Score: 737
Period size: 336 Copynumber: 1.8 Consensus size: 336
247691 GAGTAACAAC
* * *
247701 GCTTTCGAAAGCATGAGTGACTAGAAATAGACTTTTCTTATCAATGGATGGCATTCACTTCATGT
1 GCTTTCAAAAGCATGAGTGACTAGAAATAGACCTTTCTTATCAATGGATAGCATTCACTTCATGT
* * * ** * *
247766 TTTCCAATGCAAACATCCAATTCTAATTGATTTTAACTAAAAACAAAAATTATTTTTATTTAAAA
66 TTTCCAATGCAAACATCCAAGTCTAATTGATTTGAACCAAAAACAAAAAAAAATTTAATTTAAAA
* * *
247831 TCATTCATAAGATTATAAAACCATTTAAAGAGAATAACAAGGCTTTTGAAGGCATGAGTGACTAT
131 TCATTCATAAGATCATAAAACCATTCAAAGAGAATAACAAGGC-TTTAAAGGCATGAGTGACTAT
* * * * * *
247896 CAACGGATTTTTCTTCTTAATGGATGGCACCTGTCTCACGTTTCCCAATGTAAACATCCAATTAT
195 AAACAGACTTTACTTCTTAATGGATGGCACCTGGCTCACGTTTCCCAATGCAAACATCCAATTAT
247961 AATCAATTTTAAACAAAAAAAACTTTTGATTTAAGGTCATTGATAACATTATAAAATCATTTAAA
260 AATCAATTTTAAACAAAAAAAACTTTTGATTTAAGGTCATTGATAACATTATAAAATCATTTAAA
248026 GCAAAAATAAAA
325 GCAAAAATAAAA
* * *
248038 GCTTTCAAAAGTATGAGTGACTATG-AATTGACCTTTCTTGTCAATGGATAGCATTCACTTCATG
1 GCTTTCAAAAGCATGAGTGACTA-GAAATAGACCTTTCTTATCAATGGATAGCATTCACTTCATG
* *
248102 -TTTCCTAATGCAAACATCCAGGTC-AGATCT-ATTTGAACCAAAAATGAAAAAAAAATTTAATT
65 TTTTCC-AATGCAAACATCCAAGTCTA-AT-TGATTTGAACCAAAAA-CAAAAAAAAATTTAATT
* * ** * * * *
248164 TAAAATCTTTTATAAGATCATAAAATTATTCAAAGCGAGTAATAATGC-TTAAAGGCATGAGTGA
126 TAAAATCATTCATAAGATCATAAAACCATTCAAAGAGAATAACAAGGCTTTAAAGGCATGAGTGA
* * * * * * * *
248228 CTATAAATAGACTTTACTTGTTAGTGGATGGCA-TTGGCTTTATGTTTCTCGATGCAAACATCCA
191 CTATAAACAGACTTTACTTCTTAATGGATGGCACCTGGC-TCACGTTTCCCAATGCAAACATCCA
* *
248292 ATTATGATTAATTTT-AACTAAAAAAAA
255 ATTATAATCAATTTTAAAC-AAAAAAAA
248319 AGATAATTTT
Statistics
Matches: 232, Mismatches: 42, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
335 6 0.03
336 88 0.38
337 86 0.37
338 52 0.22
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (336 bp):
GCTTTCAAAAGCATGAGTGACTAGAAATAGACCTTTCTTATCAATGGATAGCATTCACTTCATGT
TTTCCAATGCAAACATCCAAGTCTAATTGATTTGAACCAAAAACAAAAAAAAATTTAATTTAAAA
TCATTCATAAGATCATAAAACCATTCAAAGAGAATAACAAGGCTTTAAAGGCATGAGTGACTATA
AACAGACTTTACTTCTTAATGGATGGCACCTGGCTCACGTTTCCCAATGCAAACATCCAATTATA
ATCAATTTTAAACAAAAAAAACTTTTGATTTAAGGTCATTGATAACATTATAAAATCATTTAAAG
CAAAAATAAAA
Found at i:249158 original size:4 final size:4
Alignment explanation
Indices: 249149--249253 Score: 72
Period size: 4 Copynumber: 25.5 Consensus size: 4
249139 CCTCTCGGTT
* * *
249149 TTTC TTTC TTTCC TCTC TTT- TCTC TTTCC TTCC TTTC TTTC TTTGC TTTC
1 TTTC TTTC TTT-C TTTC TTTC TTTC TTT-C TTTC TTTC TTTC TTT-C TTTC
* * * *
249199 TTTC TTTCC TCTC TTT- TCTC TTTC CTTC TTTC TTTCC TCTCC TTTC TTT-
1 TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC
249248 TTTC TT
1 TTTC TT
249254 CTTGGTTGTG
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
3 7 0.09
4 53 0.68
5 17 0.22
6 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:249190 original size:33 final size:30
Alignment explanation
Indices: 249149--249256 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 30
249139 CCTCTCGGTT
249149 TTTCTTTCTTTCCTCTCTTTTCTCTTTCCTTCC
1 TTTCTTTCTTTCCT-TC-TTT-TCTTTCCTTCC
*
249182 TTTCTTTCTTTGCTT-TCTTTCTTTCC-TCTC
1 TTTCTTTCTTTCCTTCT-TTTCTTTCCTTC-C
*
249212 TTT-TCTCTTTCCTTC-TTTCTTTCCTCTCC
1 TTTCTTTCTTTCCTTCTTTTCTTTCCT-TCC
249241 TTTCTTT-TTT-CTTCTT
1 TTTCTTTCTTTCCTTCTT
249257 GGTTGTGGGT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
28 13 0.20
29 19 0.30
30 16 0.25
31 2 0.03
32 1 0.02
33 13 0.20
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (30 bp):
TTTCTTTCTTTCCTTCTTTTCTTTCCTTCC
Found at i:249215 original size:46 final size:46
Alignment explanation
Indices: 249149--249251 Score: 165
Period size: 46 Copynumber: 2.3 Consensus size: 46
249139 CCTCTCGGTT
* *
249149 TTTCTTTCTTTCCTCTCTTTTCTCTTTCCTTCCTTTCTTT-CTTTGC
1 TTTCTTTCTTTCCTCTCTTTTCTCTTTCCTT-CTTTCTTTCCTCTCC
249195 TTTCTTTCTTTCCTCTCTTTTCTCTTTCCTTCTTTCTTTCCTCTCC
1 TTTCTTTCTTTCCTCTCTTTTCTCTTTCCTTCTTTCTTTCCTCTCC
249241 TTTCTTT-TTTC
1 TTTCTTTCTTTC
249252 TTCTTGGTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
45 12 0.22
46 42 0.78
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (46 bp):
TTTCTTTCTTTCCTCTCTTTTCTCTTTCCTTCTTTCTTTCCTCTCC
Found at i:249254 original size:28 final size:28
Alignment explanation
Indices: 249171--249256 Score: 111
Period size: 28 Copynumber: 3.0 Consensus size: 28
249161 CTCTCTTTTC
249171 TCTTTCCT-TCCTTTCTTTCTTTGCTTTCTT
1 TCTTTCCTCTCCTTTCTTT-TTT-C-TTCTT
* * *
249201 TCTTTCCTCTCTTTTCTCTTTCCTTCTT
1 TCTTTCCTCTCCTTTCTTTTTTCTTCTT
249229 TCTTTCCTCTCCTTTCTTTTTTCTTCTT
1 TCTTTCCTCTCCTTTCTTTTTTCTTCTT
249257 GGTTGTGGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 30 0.61
29 1 0.02
30 10 0.20
31 8 0.16
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (28 bp):
TCTTTCCTCTCCTTTCTTTTTTCTTCTT
Found at i:249372 original size:5 final size:5
Alignment explanation
Indices: 249362--249395 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
249352 TTTGCCATTA
249362 TTTTC TTTTC TTTTC TTTTC TCTTTAC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC T-TTT-C TTTTC TT
249396 GCANNNNNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 19 0.70
6 6 0.22
7 2 0.07
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:249391 original size:17 final size:15
Alignment explanation
Indices: 249362--249395 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
249352 TTTGCCATTA
249362 TTTTCTTTTCTTTTC
1 TTTTCTTTTCTTTTC
249377 TTTTCTCTTTACTTTTC
1 TTTTCT-TTT-CTTTTC
249394 TT
1 TT
249396 GCANNNNNNN
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 3 0.18
17 8 0.47
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTTTCTTTTC
Found at i:251785 original size:490 final size:490
Alignment explanation
Indices: 250901--251788 Score: 1161
Period size: 490 Copynumber: 1.8 Consensus size: 490
250891 NNNNNNNNNN
** * * **
250901 ATGAACTTTTCTTGTCAATGGATGGCATTCGCTTCATGTTTTCCAATTTAAACATCTAATTATGA
1 ATGAACTTTTCTTCCCAATGAATGGCATCCGCTTCATGTTTTCCAATGCAAACATCTAATTATGA
* * * ** *
250966 TTAATCTTAAGCAAAATGAAGAAGATTTTGATGTAAAACAATTTCTAAGATTGTAAGACCACTTA
66 TTAATCTTAACCAAAATGAAGAAGACTTAGACATAAAACAATTTATAAGATTGTAAGACCACTTA
* * * *
251031 AAGCGAATAACAAAGCTTTCAAAGGCATGAATGACTATAAATGTAGTATTATTGCCAATGGATGC
131 AAGAGAACAACAAAGCTTTCAAAGGCATGAATAACTATAAATGTAGTATTATTACCAATGGATGC
** * *
251096 TGTTCGCTTCAAGTTTCCCCACGCAAACATCCAATTATAATAAGGTTAAACCAAAAATGAAAAGG
196 CATTCGCTTCAAGTTTCCCCACGCAAACATCCAATTATAATAAGATTAAACCAAAAATGAAAAAG
251161 AATTATATTTAAAATCACTTATAAGATTATAGAACCATTTAAAGCGAGTAACTAGACTTTCGAAG
261 AATTATATTTAAAATCACTTATAAGATTATAGAACCATTTAAAGCGAGTAACTAGACTTTCGAAG
********** * * *
251226 GTATTAGNNNNNNNNNNTGGACTTTTCTTGTCAATGGATAGCTTTTGCTTCATTTTCCTATGTAA
326 GTATTAGTGACTATAAATGAACTTTTCTTGTCAATGGATAGCTTTTGCTTCATTTTCCAATGCAA
251291 GCATCATATTATGGTCAGCTCTAACCAAAAATGAAAATAAATTCTATTTAAAATCATTTAAAGCG
391 GCATCATATTATGGTCAGCTCTAACCAAAAATGAAAATAAATTCTATTTAAAATCATTTAAAGCG
251356 AATAACAAGGCTTTTGAAAGCATGAGTGACTATAA
456 AATAACAAGGCTTTTGAAAGCATGAGTGACTATAA
**
251391 ATGAACTTTTCTTCCCAATGAATGGCATCCGCTTCATGTTTTCTGATGCAAACATCTAATTATGA
1 ATGAACTTTTCTTCCCAATGAATGGCATCCGCTTCATGTTTTCCAATGCAAACATCTAATTATGA
* * * *
251456 TTAATCTTAACCAAAAATGAAGAAGACTTAGACATAAAATAA-TTATAAGATTGTACGACTAGTT
66 TTAATCTTAACC-AAAATGAAGAAGACTTAGACATAAAACAATTTATAAGATTGTAAGACCACTT
* * * * ********** *
251520 AAAGAGAGCAACAAGGCTTTCAAAGGCATGAGTAATTATAANNNNNNNNNNATTATCAATGGATG
130 AAAGAGAACAACAAAGCTTTCAAAGGCATGAATAACTATAAATGTAGTATTATTACCAATGGATG
** * * *
251585 CCATTCGCTTCAAGTTTTTCCATGCAAACATCCAATTATGATCAA-ATTTAACCAAAAATGAAAA
195 CCATTCGCTTCAAGTTTCCCCACGCAAACATCCAATTATAAT-AAGATTAAACCAAAAATGAAAA
* *
251649 AGAATTTTATTTAAAATCATTTATAAGATTATA-AACCATTTAAAGCGAGTAACTAGACTTTCGA
259 AGAATTATATTTAAAATCACTTATAAGATTATAGAACCATTTAAAGCGAGTAACTAGACTTTCGA
* *
251713 ATGTATTAGTGACTATAAATGAACTTTTCTTGTCAATGGATGGCTTTTGCTTCATTTTCCCAATG
324 AGGTATTAGTGACTATAAATGAACTTTTCTTGTCAATGGATAGCTTTTGCTTCATTTT-CCAATG
251778 CAAGCATCATA
388 CAAGCATCATA
251789 NNNNNNNNNN
Statistics
Matches: 332, Mismatches: 63, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
489 76 0.23
490 230 0.69
491 26 0.08
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.32
Consensus pattern (490 bp):
ATGAACTTTTCTTCCCAATGAATGGCATCCGCTTCATGTTTTCCAATGCAAACATCTAATTATGA
TTAATCTTAACCAAAATGAAGAAGACTTAGACATAAAACAATTTATAAGATTGTAAGACCACTTA
AAGAGAACAACAAAGCTTTCAAAGGCATGAATAACTATAAATGTAGTATTATTACCAATGGATGC
CATTCGCTTCAAGTTTCCCCACGCAAACATCCAATTATAATAAGATTAAACCAAAAATGAAAAAG
AATTATATTTAAAATCACTTATAAGATTATAGAACCATTTAAAGCGAGTAACTAGACTTTCGAAG
GTATTAGTGACTATAAATGAACTTTTCTTGTCAATGGATAGCTTTTGCTTCATTTTCCAATGCAA
GCATCATATTATGGTCAGCTCTAACCAAAAATGAAAATAAATTCTATTTAAAATCATTTAAAGCG
AATAACAAGGCTTTTGAAAGCATGAGTGACTATAA
Found at i:253358 original size:171 final size:170
Alignment explanation
Indices: 253166--253648 Score: 471
Period size: 178 Copynumber: 2.8 Consensus size: 170
253156 NNNNNNNNNN
* *
253166 TTAAAACGAGTAACAAGGCTTTAAGAGGCATGAGCAACTATAAATAGATTTTTCTTGCCAATGGA
1 TTAAAACGAGTAACAAGGCTTTAAGAGGCATGAGCAACTATAAATAGACTTTTCTTGTCAATGGA
* *
253231 T-GCCTTCGGCTTCATGTTTCCCAATGCAAAGATCAAATTATCATCTGTTTTAA-TGAAAAATGA
66 TGGCCTTC-GCTTCATGTTTCCCAATGCAAAAATCCAATTAT-ATCTGTTTTAACT-AAAAATGA
*
253294 AAAAAATGACAATTTAAAATCAATTATAAGATTATGAAACTAT
128 AAAAAATGACAATTTAAAATCAATTATAAGATTATGAAACTAC
** * * * ** * *
253337 TTAAAATTAGTAACTAGGCTTT-TGAAGGCATGGGTGACTATAAATGGACTTTTCTTGTCAATGT
1 TTAAAACGAGTAACAAGGCTTTAAG-AGGCATGAGCAACTATAAATAGACTTTTCTTGTCAATGG
*
253401 ATGGCTTCTGCTTCATGCTTCATGCTTTCCC-ATGCAAAAATCCAATTATAGTTTGTTTTAACTA
65 ATGG---C--CTTC--GCTTCATG-TTTCCCAATGCAAAAATCCAATTATA-TCTGTTTTAACTA
* ** ** * *
253465 GAAATGAAAGCAATTTCAATTTAAAATCATTTATAAGATTATTAAACTAC
121 AAAATGAAAAAAATGACAATTTAAAATCAATTATAAGATTATGAAACTAC
* *
253515 TTAAAACGAGTAACAAGGCTTTTGAA-A-GCATGAGTGAA-TATAGATAGACTTTTCTTGTCAAT
1 TTAAAACGAGTAACAAGGC-TTT-AAGAGGCATGAG-CAACTATAAATAGACTTTTCTTGTCAAT
* * * * **
253577 GGATGGCATTCACTTCATGTGTCCAAATG-AAAACATCCAATTATGATCAATTTTAACTAAAAAT
63 GGATGGCCTTCGCTTCATGTTTCCCAATGCAAAA-ATCCAATTAT-ATCTGTTTTAACTAAAAAT
253641 -AAAAAAAT
126 GAAAAAAAT
253649 ATTTTGATTT
Statistics
Matches: 251, Mismatches: 43, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
170 15 0.06
171 87 0.35
172 2 0.01
173 3 0.01
175 2 0.01
177 5 0.02
178 125 0.50
179 12 0.05
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (170 bp):
TTAAAACGAGTAACAAGGCTTTAAGAGGCATGAGCAACTATAAATAGACTTTTCTTGTCAATGGA
TGGCCTTCGCTTCATGTTTCCCAATGCAAAAATCCAATTATATCTGTTTTAACTAAAAATGAAAA
AAATGACAATTTAAAATCAATTATAAGATTATGAAACTAC
Found at i:253595 original size:178 final size:176
Alignment explanation
Indices: 253166--253595 Score: 477
Period size: 178 Copynumber: 2.4 Consensus size: 176
253156 NNNNNNNNNN
* * *
253166 TTAAAACGAGTAACAAGGC-TTT-AAGAGGCATGAG-CAACTATAAATAGATTTTTCTTGCCAAT
1 TTAAAACGAGTAACAAGGCTTTTGAA-A-GCATGAGTGAA-TATAAATAGACTTTTCTTGTCAAT
* *
253228 GGAT-G---CCTTC-GGCTTCATGTTTCCCAATGCAAAGATCAAATTATCATCTGTTTTAATGAA
63 GGATGGCTTCCTTCATGCTTCATGTTTCCCAATGCAAAAATCAAATTATCATCTGTTTTAATGAA
*
253288 AAATGAAAAAAATGACAATTTAAAATCAATTATAAGATTATGAAACTAT
128 AAATGAAAAAAATGACAATTTAAAATCAATTATAAGATTATGAAACTAC
** * * * * * *
253337 TTAAAATTAGTAACTAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGTCAATGTA
1 TTAAAACGAGTAACAAGGCTTTTGAAAGCATGAGTGAATATAAATAGACTTTTCTTGTCAATGGA
* *
253402 TGGCTTCTGCTTCATGCTTCATGCTTTCCC-ATGCAAAAATCCAATTAT-AGTTTGTTTTAACT-
66 TGGCTTC--CTTCATGCTTCATG-TTTCCCAATGCAAAAATCAAATTATCA-TCTGTTTTAA-TG
* ** ** * *
253464 AGAAATGAAAGCAATTTCAATTTAAAATCATTTATAAGATTATTAAACTAC
126 AAAAATGAAAAAAATGACAATTTAAAATCAATTATAAGATTATGAAACTAC
*
253515 TTAAAACGAGTAACAAGGCTTTTGAAAGCATGAGTGAATATAGATAGACTTTTCTTGTCAATGGA
1 TTAAAACGAGTAACAAGGCTTTTGAAAGCATGAGTGAATATAAATAGACTTTTCTTGTCAATGGA
253580 TGGCATTCACTTCATG
66 TGGC-TTC-CTTCATG
253596 TGTCCAAATG
Statistics
Matches: 212, Mismatches: 33, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
171 46 0.22
172 5 0.02
173 2 0.01
175 1 0.00
177 5 0.02
178 143 0.67
179 10 0.05
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (176 bp):
TTAAAACGAGTAACAAGGCTTTTGAAAGCATGAGTGAATATAAATAGACTTTTCTTGTCAATGGA
TGGCTTCCTTCATGCTTCATGTTTCCCAATGCAAAAATCAAATTATCATCTGTTTTAATGAAAAA
TGAAAAAAATGACAATTTAAAATCAATTATAAGATTATGAAACTAC
Found at i:254945 original size:170 final size:172
Alignment explanation
Indices: 254550--254946 Score: 400
Period size: 170 Copynumber: 2.3 Consensus size: 172
254540 AGAAATAATT
* * *
254550 TAATTTAAAATCAGTTATAAGATTATAAAACTATTTAAAGTGAGTAATAAGGC-CTCTAAAGGCA
1 TAATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCTAAAGGCA
* ** * * * *
254614 TGAGTAACTATAAATGAATTTTTCTTGTCAATGGATGGCTTTCACTTTATGTTTCTTGATGTAAA
66 TGAGTAACTATAAATGAATCTTTCTTAACAATAGATGGCCTTCACTTCATGTTTCTTCATGTAAA
* * * ** * ***
254679 CATCCAATTATGATATGTTTTAACTAGCAATGAATAAAATTT
131 CATCAAATTATGATATGTTTTAACCAGAAAACAAAAAAAAAA
* * * * *
254721 TAATATAAAATCATTTATAAGATTATTCAAA-CACTTAAAGCGAATAATAAGGCTTTC-AAAGGC
1 TAATTTAAAATCATTTATAAGATTA-TAAAACCATTTAAAGTGAGTAATAAGGCTTTCTAAAGGC
* *
254784 ATGAGTGACTATAAAT-AGA-CTTTCTTAACAATAGATGGCACTT-GCTTCATGTTTC-TCAT-T
65 ATGAGTAACTATAAATGA-ATCTTTCTTAACAATAGATGGC-CTTCACTTCATGTTTCTTCATGT
254844 ACAAACATCAAATTATGAT-TGATTTTAACCA-AAAACAAAAAAAAAA
128 --AAACATCAAATTATGATATG-TTTTAACCAGAAAACAAAAAAAAAA
* * *
254890 TAGATTTAAAATCATTTATAAAATTATAAAACCATTTAAAATGAGTAACAAGGCTTT
1 TA-ATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
254947 TGATGGCATG
Statistics
Matches: 183, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
168 1 0.01
169 19 0.10
170 92 0.50
171 65 0.36
172 6 0.03
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (172 bp):
TAATTTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCTAAAGGCA
TGAGTAACTATAAATGAATCTTTCTTAACAATAGATGGCCTTCACTTCATGTTTCTTCATGTAAA
CATCAAATTATGATATGTTTTAACCAGAAAACAAAAAAAAAA
Found at i:257685 original size:14 final size:14
Alignment explanation
Indices: 257668--257717 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 14
257658 CTCTTTTTTT
257668 TCCTTTCTTTCCTC
1 TCCTTTCTTTCCTC
257682 TCCTTTCTCTTTCCT-
1 TCC-TT-TCTTTCCTC
*
257697 T-ATTTCTTTCCTC
1 TCCTTTCTTTCCTC
257710 TCCTTTCT
1 TCCTTTCT
257718 CTTTTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 8 0.27
13 3 0.10
14 8 0.27
15 3 0.10
16 8 0.27
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (14 bp):
TCCTTTCTTTCCTC
Found at i:263677 original size:13 final size:13
Alignment explanation
Indices: 263661--263685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
263651 TCTTTCCTCC
263661 CTTTCTTTCTTTG
1 CTTTCTTTCTTTG
263674 CTTTCTTTCTTT
1 CTTTCTTTCTTT
263686 CCTCTCCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.04, T:0.72
Consensus pattern (13 bp):
CTTTCTTTCTTTG
Found at i:270772 original size:170 final size:171
Alignment explanation
Indices: 270412--270839 Score: 542
Period size: 170 Copynumber: 2.5 Consensus size: 171
270402 NNNTTTAAAG
* * *
270412 TGAGTAACAAGGCTTTC-AATGGCATGAGTGACTATAAATAGACTTTTTTTCTTAAT-AGATGGC
1 TGAGTAACAAGGCTTTCGAA-GGCATGAGTGACTATAAATGGACTTTTATTCTCAATGA-ATGGC
* *** ** * ** *
270475 ATCTGCCTCATGTTTCTTTATAAAAACATCCAATTATGATTGATTTAAACTAAAAATGAAAAATA
64 ATCCGCCTCATGTTTCCCAATGCAAACATCCAATCATGATCAATTTAAACCAAAAATGAAAAATA
270540 TTTTAATTTAAAGTCATTGATAAGATTATAAAACCACTAAAAA
129 TTTTAATTTAAAGTCATTGATAAGATTATAAAACCACTAAAAA
* * * *
270583 TGTGTAACAAGGCTTTCGAAGGTATGAATGACTATAAATGGACTTTTCTTCTCAATGAATGGCAT
1 TGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTCTCAATGAATGGCAT
*
270648 CCGCCTCACGTTTCCCAATGCAAACATCCAATCATGATCAATGTT-AACCAAAAATG-AAAATAT
66 CCGCCTCATGTTTCCCAATGCAAACATCCAATCATGATCAAT-TTAAACCAAAAATGAAAAATAT
* * *
270711 TTTGATTTAAAGTCGTTGATAAGATTATAAAACCACTGAAAA
130 TTTAATTTAAAGTCATTGATAAGATTATAAAACCACTAAAAA
* ** *
270753 TGAGTAACAAGGTTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTGC-CAATGGGTTGCA
1 TGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATT-CTCAATGAATGGCA
* *
270817 TCCACTTCATGTTTCCCAATGCA
65 TCCGCCTCATGTTTCCCAATGCA
270840 NNNNNNNNNN
Statistics
Matches: 222, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
170 120 0.54
171 97 0.44
172 5 0.02
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (171 bp):
TGAGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTATTCTCAATGAATGGCAT
CCGCCTCATGTTTCCCAATGCAAACATCCAATCATGATCAATTTAAACCAAAAATGAAAAATATT
TTAATTTAAAGTCATTGATAAGATTATAAAACCACTAAAAA
Found at i:279564 original size:20 final size:20
Alignment explanation
Indices: 279524--279563 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
279514 CTACTCGTTT
279524 TAAATGATTTTATAATCATA
1 TAAATGATTTTATAATCATA
279544 TAAATGATTTTA-AATC-TA
1 TAAATGATTTTATAATCATA
279562 TA
1 TA
279564 TCTATTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 4 0.20
20 12 0.60
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAATGATTTTATAATCATA
Found at i:286138 original size:170 final size:169
Alignment explanation
Indices: 285962--286383 Score: 390
Period size: 170 Copynumber: 2.5 Consensus size: 169
285952 TCATGTTTAC
* * * * *
285962 CGATGCAAACATCCAGCTATGATCTATTTTAACTAGAAATGAAAAAAATTTTG-ATTGAAAATCA
1 CGATGCAAACATCCAACTATAAT-GATTTTAACTAAAAACGAAAAAAATTTTGAATT-AAAATCA
* ** * ** * *
286026 TTTATAAGATTTTAAAA-TACTTAAAGTGAGCAACAAGTTTTTCAAAATTG-TGAGTGACTATAA
64 TTTATAAAATTAGAAAACTACTTAAAGCGAGCAACAAGGCTTTC--AATGGATGAGTGACAATAA
* *
286089 ATGGACTTTTCTTGTTAATAGATGGCATTCAATTTACGTTTTT
127 ATAGACTTTTCTTCTTAATAGATGGCATTCAATTTACGTTTTT
* * *
286132 CGATGCAAACATCCAATTATAATGATTTTAACTAAAAACGGAAAAGATTTTGAATTAAAATCATT
1 CGATGCAAACATCCAACTATAATGATTTTAACTAAAAACGAAAAAAATTTTGAATTAAAATCATT
* *
286197 TATAAAATTAGAAAACTATTTAAAGCGAGTAACAAGGCTTTCAATGGCATGAGTGACAATAAATA
66 TATAAAATTAGAAAACTACTTAAAGCGAGCAACAAGGCTTTCAATGG-ATGAGTGACAATAAATA
* * * * *
286262 TACTTTTCTTCTTAATGGATGGCATCTGC--CTCATGTTTCTT
130 GACTTTTCTTCTTAATAGATGGCAT-T-CAATTTACGTTT-TT
* * * * * * *
286303 -TATACAAACATCCAATTATGATTGATTTAAACTAAAAAC-AAAAAATATTTTGATTTAAAGTCA
1 CGATGCAAACATCCAACTAT-AATGATTTTAACTAAAAACGAAAAAA-ATTTTGAATTAAAATCA
* * *
286366 TTGATAAGATTATAAAAC
64 TTTATAAAATTAGAAAAC
286384 CACTAAAANN
Statistics
Matches: 207, Mismatches: 36, Indels: 17
0.80 0.14 0.07
Matches are distributed among these distances:
168 4 0.02
169 45 0.22
170 107 0.52
171 50 0.24
172 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (169 bp):
CGATGCAAACATCCAACTATAATGATTTTAACTAAAAACGAAAAAAATTTTGAATTAAAATCATT
TATAAAATTAGAAAACTACTTAAAGCGAGCAACAAGGCTTTCAATGGATGAGTGACAATAAATAG
ACTTTTCTTCTTAATAGATGGCATTCAATTTACGTTTTT
Found at i:302403 original size:171 final size:169
Alignment explanation
Indices: 301746--303986 Score: 1302
Period size: 171 Copynumber: 13.2 Consensus size: 169
301736 TGGAGCAACA
* * **
301746 TATAAATGGACTTTCCTTCTCAATGGATGCCATCCA-TGTCATGTTTCCCAATGCAAACATCCAA
1 TATAAAT-GACTTTTCTTCTCAATGGATGCCATTCACT-TCACATTT-CCAATGCAAACATCCAA
* * ** * * * *
301810 TTATGATCTATTTT-AGCTAAAAATGAAAAA-A--CTGATTTATAATCATTTGTAAGATTGTAAA
63 TTATGATCAATTTTAATC-AAAAACAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAA
* ** *
301871 ACCATTTAAAGCT-AATAA-AAGGACTTTTAACT-TCATGAGTGAC
127 ACCATTTAAAG-TGAGTAACAAGG-CTTTCGA-TGGCATGAGTGAC
* * *** * ** * ** ** *
301914 TATAAATTGTCCTTTCTTGGAAATAGATG-TTTTCTACTTTATGTTTCTTGATGCAAACACCCAA
1 TATAAA-TGACTTTTCTTCTCAATGGATGCCATTC-ACTTCACATTTC-CAATGCAAACATCCAA
* ** * * * *
301978 TTATGAT-ATGTTTTAA-CTAGAAATGAAACCAATA--TTG-TTTCAAAATCATTTTTAAAATCA
63 TTATGATCA-ATTTTAATC-A-AAAACAAA-AAATATTTTGATTT-AAAATCATTTATAAGATTA
* * * * *
302038 TTAAACCACTTAAAGTGAGTAACAAGGCGTTCGAAGGTATGAGTGAC
123 TAAAACCATTTAAAGTGAGTAACAAGGCTTTCGATGGCATGAGTGAC
* * * *** *
302085 TGTAAATGAAAC-TTTCTTGTCAATGGATGACA-TCTACTTCTTGTTTTCCAATCCAAACATCC-
1 TATAAATG--ACTTTTCTTCTCAATGGATGCCATTC-ACTTC-ACATTTCCAATGCAAACATCCA
* * * * ** *
302147 ---A--ATCAATTTGAACCAAAAATAAAAAAGATTTCAATTTAAAGTCATTTATAAGATTATAAA
62 ATTATGATCAATTTTAATCAAAAACAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAA
* *
302207 ACTATTTAAAGTGAGTAACAAGGCTTTCGATGGCATAAGTGAC
127 ACCATTTAAAGTGAGTAACAAGGCTTTCGATGGCATGAGTGAC
* * * *
302250 TATAAGTCGACTTTTCTTATCAATGAATGCCATTCACTTCACATTTCACAATGCCAACATCCAAT
1 TATAAAT-GACTTTTCTTCTCAATGGATGCCATTCACTTCACATTTC-CAATGCAAACATCCAAT
* * * *
302315 TATGAGCAATTTTAATGAAAAACAAAAAATATTTTGATTTAAAATCATTTATAACATTATAAAAT
64 TATGATCAATTTTAATCAAAAACAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAAC
* * * * *
302380 CATTTAAAGTTAGTAATAAGGCTTTCGATCGTATGGGT-ATC
129 CATTTAAAGTGAGTAACAAGGCTTTCGATGGCATGAGTGA-C
* * * ** ** **
302421 TATATATAGACTTTTCTTGTCAGTGGATGCCATTCACTTCATGTTTCCCAATATAAACATATAAT
1 TATAAAT-GACTTTTCTTCTCAATGGATGCCATTCACTTCACATTT-CCAATGCAAACATCCAAT
* * * * * *
302486 TAGGAT-ATGTTTTAACCAAAAATGAAAAAA-ATTTTGATTTAAAATCATTTATAAGAATATTAA
64 TATGATCA-ATTTTAATCAAAAA-CAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAA
* ** * * * *
302549 ACCACTTAAA-ACATGTAACAAGGCTTTTGAAGGTATGAGTGAA
127 ACCATTTAAAGTGA-GTAACAAGGCTTTCGATGGCATGAGTGAC
* * * * * * *** *
302592 AATAAATAGAGTTTACTTGTTAATGGATGGCATTCACTTCACATTTCCTAATATGATCATCCAAT
1 TATAAAT-GACTTTTCTTCTCAATGGATGCCATTCACTTCACATTTCC-AATGCAAACATCCAAT
** ** * **
302657 TATGATTGATTTTAA-CAAAATATGAAAAAGATTTCAATTTAAAATCATTTATAAGATTATAAAA
64 TATGATCAATTTTAATCAAAA-ACAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAA
** * *
302721 GAATTTAAAGTGAGTAATAAGGCTTTTGATGGCATGAGTGAC
128 CCATTTAAAGTGAGTAACAAGGCTTTCGATGGCATGAGTGAC
** * *
302763 TATAAATTGACTTTTCTTCTCAATGGATGTGATCCACCTCACATTTCCTAATGCAAACATCCAAT
1 TATAAA-TGACTTTTCTTCTCAATGGATGCCATTCACTTCACATTTCC-AATGCAAACATCCAAT
* * * * * * * * *
302828 AATGATCGATTTTAA-CTAAAAATGAAAAAACAATGTTGAATTATAATCATTTACAAGATTGTAA
64 TATGATCAATTTTAATC-AAAAA-CAAAAAA-TATTTTGATTTAAAATCATTTATAAGATTATAA
* * * * *
302892 AACCACTTAAAGCT-TGTAATAAGACTTTCGAAT-GCATGAGTAAC
126 AACCATTTAAAG-TGAGTAACAAGGCTTTCG-ATGGCATGAGTGAC
* ** * *
302936 TTTAAATGAACTATTT-TTGGCAATGGAT-CC-TTC-CTTTCACATTTCTCGATGCAAATATCCA
1 TATAAATG-ACT-TTTCTTCTCAATGGATGCCATTCAC-TTCACATTTC-CAATGCAAACATCCA
* * * * * * *
302997 ATTATGATC-AGTTTAA-CTAGAAACGACAAAA-CTTTTGATTTCAAATCATTCATAAGATTATT
62 ATTATGATCAATTTTAATC-AAAAAC-AAAAAATATTTTGATTTAAAATCATTTATAAGATTATA
* * * * * * * *
303059 AAACTAATTAAAGCGAGTACCAAGGCTTTCGAAGCCATAAAG-AAC
125 AAACCATTTAAAGTGAGTAACAAGGCTTTCGATGGCAT-GAGTGAC
* ** **
303104 TATAAATGAACTTTTCTTCTTAATGGATAG-CATTTGCTTCATGTTTCCTAATGCAAACATCCAA
1 TATAAATG-ACTTTTCTTCTCAATGGAT-GCCATTCACTTCACATTTCC-AATGCAAACATCCAA
* * * * * * * * *
303168 TTATGTTTAATTTGAACCAAAAATAAAAAAGATTTTGATTTGAAATCATTTTTAAGTTTATAAAA
63 TTATGATCAATTTTAATCAAAAACAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAA
* * * **
303233 CCATTTAAAGCGAGTGACAAGGCTTTCTATGATATGAGTGAC
128 CCATTTAAAGTGAGTAACAAGGCTTTCGATGGCATGAGTGAC
** * * * * * *
303275 TATAAATGGAAATTTCTTGTAAATGGATGGCA-TCCCTTTCACATTTCTCAATGTAGACATCCAA
1 TATAAAT-GACTTTTCTTCTCAATGGATGCCATTCAC-TTCACATTTC-CAATGCAAACATCCAA
* * * *
303339 GTATGATCAATTTTAATCCAAAACAAAAAATATTTTGATTTAAAAT-ATTTAGT-AGTTTATAGA
63 TTATGATCAATTTTAATCAAAAACAAAAAATATTTTGATTTAAAATCATTTA-TAAGATTATAAA
* * * * * *
303402 TCCATTTAAAGCGGGCAAAAAGGCTTTCGATGGTATGAGTGAC
127 ACCATTTAAAGTGAGTAACAAGGCTTTCGATGGCATGAGTGAC
* * * **
303445 TATAAATGGACTTTTCTTCTCAATGGATGGCATCCGCTTCATGTTTCCCAATGCAAACATCCAAT
1 TATAAAT-GACTTTTCTTCTCAATGGATGCCATTCACTTCACATTT-CCAATGCAAACATCCAAT
* * ** *** * *
303510 TATGATCTATTGTAACTGGAATTGAGAAAAATATTTTTATTTAAAATCATTTATAAGATTATGAA
64 TATGATCAATTTTAA-TCAAAAACA-AAAAATATTTTGATTTAAAATCATTTATAAGATTATAAA
* * * * *
303575 ACCACTTAAAG-AAGGTAACAAGGCTTTCGAAGGTATGAGTGAT
127 ACCATTTAAAGTGA-GTAACAAGGCTTTCGATGGCATGAGTGAC
* * * * * ** * * *
303618 TATAAATGAAATTTTATTTTTAATGGATGGCATTTGCTTCATGATTCCCAATGAAAACATCCAAT
1 TATAAATG-ACTTTTCTTCTCAATGGATGCCATTCACTTCA-CATTTCCAATGCAAACATCCAAT
** * * * *
303683 TATGATTGATTTTAA-CAAAAA-ATCAAAAATATTTTGATTCAATATCATTAACAAGATTATAAA
64 TATGATCAATTTTAATCAAAAACA--AAAAATATTTTGATTTAAAATCATTTATAAGATTATAAA
* * *
303746 ACTATTTAAAGTGAGTAACAAAGCTTTC-ATTGGCATGACTGAC
127 ACCATTTAAAGTGAGTAACAAGGCTTTCGA-TGGCATGAGTGAC
* * ** *
303789 TATAAATGGCCTTTTCTTCTCAATGGATGCCATTCGCTTCATGTTTCCTAAAGCAAACATCCAAT
1 TATAAAT-GACTTTTCTTCTCAATGGATGCCATTCACTTCACATTTCC-AATGCAAACATCCAAT
** * * ** * *
303854 TATGATTGATTTTAAGT-GAACATGAAAAATATTTTGATTTATAATCATTTATAATATTATAAAA
64 TATGATCAATTTTAA-TCAAAAACAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAA
* * * * * * *
303918 CCACTTAAA-TCTAGCAACAAGACTTTCAAAGGCATGCGTGAC
128 CCATTTAAAGT-GAGTAACAAGGCTTTCGATGGCATGAGTGAC
* * *
303960 TATAAATGGATTTTTCTTGTAAATGGA
1 TATAAAT-GACTTTTCTTCTCAATGGA
303987 AAGCTTCTGC
Statistics
Matches: 1601, Mismatches: 381, Indels: 179
0.74 0.18 0.08
Matches are distributed among these distances:
163 3 0.00
164 12 0.01
165 103 0.06
166 8 0.00
167 8 0.00
168 126 0.08
169 13 0.01
170 198 0.12
171 877 0.55
172 62 0.04
173 183 0.11
174 8 0.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (169 bp):
TATAAATGACTTTTCTTCTCAATGGATGCCATTCACTTCACATTTCCAATGCAAACATCCAATTA
TGATCAATTTTAATCAAAAACAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAACCA
TTTAAAGTGAGTAACAAGGCTTTCGATGGCATGAGTGAC
Found at i:302671 original size:342 final size:338
Alignment explanation
Indices: 301746--303986 Score: 1457
Period size: 342 Copynumber: 6.6 Consensus size: 338
301736 TGGAGCAACA
* *
301746 TATAAATGGACTTTCCTTCTCAATGGATGCCA-TC-CATGTCATGTTTCCCAATGCAAACATCCA
1 TATAAATGGACTTTTCTTCTCAATGGATGCCATTCGC-T-TCATGTTTCCTAATGCAAACATCCA
* * * * * * *
301809 ATTATGATCTATTTTAGCTAAAAATG-AAAAA-A--CTGATTTATAATCATTTGTAAGATTGTAA
64 ATTATGAT-TGTTTTAACCAAAAATGAAAAAAGATTTTGATTTAAAATCATTTATAAGATTATAA
* * * * ** * * *
301870 AACCATTTAAAGCTAATAA-AAGGACTTT-TAACTTCATGAGTGACTATAAATTGTCCTTTCTTG
128 AACCACTTAAAAC-AGTAACAAGG-CTTTCGAAGGT-ATGAGTGAATATAAATAG-ACTTTCTTG
** * ** * ** * * * * *
301933 GAAATAGAT-GTTTTCTACTTTATGTTTCTTGATGCAAACACCCAATTATGA-TATGTTTTAA-C
189 TCAATGGATGGCATTC-ACTTCACATTTCCTAAT-AAAACATCCAATTATGATTA-ATTTTAATC
** * * * * * *
301995 TAGAAATGAAACCAATA--TTG-TTTCAAAATCATTTTTAAAATCATTAAACCACTTAAAGTGAG
251 -A-AAAACAAA-AAATATTTTGATTT-AAAATCATTTATAAGATTA-TAAAACATTTAAAGTGAG
* * *
302057 TAACAAGGCGTTCGAAGGTATGAGTGAC
311 TAACAAGGCTTTCGATGGCATGAGTGAC
* * * * * * *
302085 TGTAAATGAAAC-TTTCTTGTCAATGGATGACA-TCTACTTCTTGTTTTCC-AATCCAAACATCC
1 TATAAATG-GACTTTTCTTCTCAATGGATGCCATTC-GCTTCATG-TTTCCTAATGCAAACATCC
* * ** *
302147 AATCA--A---TTTGAACCAAAAAT-AAAAAAGATTTCAATTTAAAGTCATTTATAAGATTATAA
63 AATTATGATTGTTTTAACCAAAAATGAAAAAAGATTTTGATTTAAAATCATTTATAAGATTATAA
* * ** * * * * * * *
302206 AACTATTTAAAGTGAGTAACAAGGCTTTCGATGGCATAAGTGACTATAAGTCGACTTTTCTTATC
128 AACCACTTAAA-ACAGTAACAAGGCTTTCGAAGGTATGAGTGAATATAAATAGAC-TTTCTTGTC
* * ** ** *
302271 AATGAATGCCATTCACTTCACATTTCAC-AATGCCAACATCCAATTATGAGCAATTTTAATGAAA
191 AATGGATGGCATTCACTTCACATTTC-CTAAT-AAAACATCCAATTATGATTAATTTTAATCAAA
* * *
302335 AACAAAAAATATTTTGATTTAAAATCATTTATAACATTATAAAATCATTTAAAGTTAGTAATAAG
254 AACAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAA-CATTTAAAGTGAGTAACAAG
* * *
302400 GCTTTCGATCGTATGGGT-ATC
318 GCTTTCGATGGCATGAGTGA-C
* * * * * * ** **
302421 TATATATAGACTTTTCTTGTCAGTGGATGCCATTCACTTCATGTTTCCCAATATAAACATATAAT
1 TATAAATGGACTTTTCTTCTCAATGGATGCCATTCGCTTCATGTTTCCTAATGCAAACATCCAAT
* * *
302486 TAGGATATGTTTTAACCAAAAATGAAAAAA-ATTTTGATTTAAAATCATTTATAAGAATATTAAA
66 TATGAT-TGTTTTAACCAAAAATGAAAAAAGATTTTGATTTAAAATCATTTATAAGATTATAAAA
* * * *
302550 CCACTTAAAACATGTAACAAGGCTTTTGAAGGTATGAGTGAAAATAAATAGAGTTTACTTGTTAA
130 CCACTTAAAACA-GTAACAAGGCTTTCGAAGGTATGAGTGAATATAAATAGACTTT-CTTGTCAA
* * *
302615 TGGATGGCATTCACTTCACATTTCCTAATATGATCATCCAATTATGATTGATTTTAA-CAAAATA
193 TGGATGGCATTCACTTCACATTTCCTAATA-AAACATCCAATTATGATTAATTTTAATCAAAA-A
** * ** * *
302679 TGAAAAAGATTTCAATTTAAAATCATTTATAAGATTATAAAAGAATTTAAAGTGAGTAATAAGGC
256 CAAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAA-CATTTAAAGTGAGTAACAAGGC
*
302744 TTTTGATGGCATGAGTGAC
320 TTTCGATGGCATGAGTGAC
* ** * * * **
302763 TATAAATTGACTTTTCTTCTCAATGGATGTGATCCACCTCACATTTCCTAATGCAAACATCCAAT
1 TATAAATGGACTTTTCTTCTCAATGGATGCCATTCGCTTCATGTTTCCTAATGCAAACATCCAAT
* * * * * * * * *
302828 AATGATCGATTTTAACTAAAAATGAAAAAACAATGTTGAATTATAATCATTTACAAGATTGTAAA
66 TATGATTG-TTTTAACCAAAAATGAAAAAA-GATTTTGATTTAAAATCATTTATAAGATTATAAA
* * * * * * * * *
302893 ACCACTTAAAGCTTGTAATAAGACTTTCGAATGCATGAGT-AACTTTAAAT-GAACTATTTTTGG
129 ACCACTTAAAAC-AGTAACAAGGCTTTCGAAGGTATGAGTGAA-TATAAATAG-ACT-TTCTTGT
* * * * * *
302956 CAATGGAT--CCTTC-CTTTCACATTT-CTCGATGCAAATATCCAATTATGA-TCAGTTTAA-CT
190 CAATGGATGGCATTCAC-TTCACATTTCCT-AAT-AAAACATCCAATTATGATTAATTTTAATC-
* * * * * * * * *
303015 AGAAACGACAAAA-CTTTTGATTTCAAATCATTCATAAGATTATTAAACTAATTAAAGCGAGTAC
251 AAAAAC-AAAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAAC-ATTTAAAGTGAGTAA
* * * *
303079 CAAGGCTTTCGAAGCCATAAAG-AAC
314 CAAGGCTTTCGATGGCAT-GAGTGAC
* * *
303104 TATAAATGAACTTTTCTTCTTAATGGATAG-CATTTGCTTCATGTTTCCTAATGCAAACATCCAA
1 TATAAATGGACTTTTCTTCTCAATGGAT-GCCATTCGCTTCATGTTTCCTAATGCAAACATCCAA
* * * * * *
303168 TTATGTTTAATTTGAACCAAAAAT-AAAAAAGATTTTGATTTGAAATCATTTTTAAGTTTATAAA
65 TTATGATT-GTTTTAACCAAAAATGAAAAAAGATTTTGATTTAAAATCATTTATAAGATTATAAA
* * * * * * * * * *
303232 ACCATTTAAAGCGAGTGACAAGGCTTTCTATGATATGAGTGACTATAAATGGAAATTTCTTGTAA
129 ACCACTTAAAAC-AGTAACAAGGCTTTCGAAGGTATGAGTGAATATAAATAG-ACTTTCTTGTCA
* * * * * *
303297 ATGGATGGCA-TCCCTTTCACATTT-CTCAATGTAGACATCCAAGTATGATCAATTTTAATCCAA
192 ATGGATGGCATTCAC-TTCACATTTCCT-AAT-AAAACATCCAATTATGATTAATTTTAATCAAA
* ** * * * *
303360 AACAAAAAATATTTTGATTTAAAAT-ATTTAGT-AGTTTATAGATCCATTTAAAGCGGGCAAAAA
254 AACAAAAAATATTTTGATTTAAAATCATTTA-TAAGATTATA-AAACATTTAAAGTGAGTAACAA
*
303423 GGCTTTCGATGGTATGAGTGAC
317 GGCTTTCGATGGCATGAGTGAC
* * *
303445 TATAAATGGACTTTTCTTCTCAATGGATGGCATCCGCTTCATGTTTCCCAATGCAAACATCCAAT
1 TATAAATGGACTTTTCTTCTCAATGGATGCCATTCGCTTCATGTTTCCTAATGCAAACATCCAAT
* * *** * * * *
303510 TATGATCTATTGTAACTGGAATTGAGAAAAATATTTTTATTTAAAATCATTTATAAGATTATGAA
66 TATGAT-TGTTTTAACCAAAAATGA-AAAAAGATTTTGATTTAAAATCATTTATAAGATTATAAA
* * * * * *
303575 ACCACTTAAAGA-AGGTAACAAGGCTTTCGAAGGTATGAGTGATTATAAATGAAATTTTATTTTT
129 ACCACTTAAA-ACA-GTAACAAGGCTTTCGAAGGTATGAGTGAATATAAAT-AGACTTTCTTGTC
** * * *
303639 AATGGATGGCATTTGCTTCATGA-TTCCCAATGAAAACATCCAATTATGATTGATTTTAA-CAAA
191 AATGGATGGCATTCACTTCA-CATTTCCTAAT-AAAACATCCAATTATGATTAATTTTAATCAAA
* * * *
303702 AA-ATCAAAAATATTTTGATTCAATATCATTAACAAGATTATAAAACTATTTAAAGTGAGTAACA
254 AACA--AAAAATATTTTGATTTAAAATCATTTATAAGATTATAAAAC-ATTTAAAGTGAGTAACA
* *
303766 AAGCTTTC-ATTGGCATGACTGAC
316 AGGCTTTCGA-TGGCATGAGTGAC
* *
303789 TATAAATGGCCTTTTCTTCTCAATGGATGCCATTCGCTTCATGTTTCCTAAAGCAAACATCCAAT
1 TATAAATGGACTTTTCTTCTCAATGGATGCCATTCGCTTCATGTTTCCTAATGCAAACATCCAAT
*** * * * *
303854 TATGATTGATTTTAAGTGAACATG-AAAAATATTTTGATTTATAATCATTTATAATATTATAAAA
66 TATGATTG-TTTTAACCAAAAATGAAAAAAGATTTTGATTTAAAATCATTTATAAGATTATAAAA
* * * * * * * * * *
303918 CCACTTAAATCTAGCAACAAGACTTTCAAAGGCATGCGTGACTATAAATGGATTTTTCTTGTAAA
130 CCACTTAAAAC-AGTAACAAGGCTTTCGAAGGTATGAGTGAATATAAATAGA-CTTTCTTGTCAA
303983 TGGA
193 TGGA
303987 AAGCTTCTGC
Statistics
Matches: 1480, Mismatches: 338, Indels: 165
0.75 0.17 0.08
Matches are distributed among these distances:
333 16 0.01
334 5 0.00
335 19 0.01
336 194 0.13
337 15 0.01
338 1 0.00
339 118 0.08
340 24 0.02
341 295 0.20
342 436 0.29
343 158 0.11
344 197 0.13
345 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (338 bp):
TATAAATGGACTTTTCTTCTCAATGGATGCCATTCGCTTCATGTTTCCTAATGCAAACATCCAAT
TATGATTGTTTTAACCAAAAATGAAAAAAGATTTTGATTTAAAATCATTTATAAGATTATAAAAC
CACTTAAAACAGTAACAAGGCTTTCGAAGGTATGAGTGAATATAAATAGACTTTCTTGTCAATGG
ATGGCATTCACTTCACATTTCCTAATAAAACATCCAATTATGATTAATTTTAATCAAAAACAAAA
AATATTTTGATTTAAAATCATTTATAAGATTATAAAACATTTAAAGTGAGTAACAAGGCTTTCGA
TGGCATGAGTGAC
Found at i:305150 original size:16 final size:16
Alignment explanation
Indices: 305125--305156 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
305115 AATCAATATT
*
305125 AGCTAGGAACAAATGA
1 AGCTAAGAACAAATGA
305141 AGCTAAGAACAAATGA
1 AGCTAAGAACAAATGA
305157 GATATGTCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.22, T:0.12
Consensus pattern (16 bp):
AGCTAAGAACAAATGA
Found at i:306277 original size:169 final size:168
Alignment explanation
Indices: 305881--306346 Score: 451
Period size: 169 Copynumber: 2.7 Consensus size: 168
305871 AAAATTGATT
** * * *
305881 ATAATTGGATGTTTCTATTGTGAAACATA-AAGCAAATGCCATCCATTATCAAGAAAAGTCTATT
1 ATAATTGGATGTTTGAATTGAGAAAC-TAGAAGCAAAAGCCATCCATTA-CAAGAAAAGTCCATT
* * * * * *
305945 TATAGTCACTTACGCCTTCAAAAGCCTTGTTACTCATTTAAGTGGTTTTATAATCTTATAAATGA
64 TATAGTCACTTATGCCTTCAAAAGCC-TATTACTCCTTTAAATAGTTTTATAATCTTATAAATAA
** *
306010 TTTTAGCTTGAATTTGTTTTTTCATTTGGCTAAAACAGATC
128 TTTTAGAATCAATTTGTTTTTTCATTTGGCTAAAACAGATC
* * ** * * * *
306051 ACAATTGGATGTTTGCATCAAAAAAC-ATGAAGCGAAAGCCATCCATTAACTAGAAAAGTCCATG
1 ATAATTGGATGTTTGAATTGAGAAACTA-GAAGCAAAAGCCATCCATT-ACAAGAAAAGTCCATT
* * * *
306115 CATAGTGACTTATGCCCTCAAAAGCCTATATACTTCCTTTAAATAGTTTTATAATGTTATAAATA
64 TATAGTCACTTATGCCTTCAAAAGCCTAT-TAC-TCCTTTAAATAGTTTTATAATCTTATAAATA
* *
306180 ATTTTA-AATCAA-TT-TTTTTT-ATTCGTGGTTAAAACATATC
127 ATTTTAGAATCAATTTGTTTTTTCATT--TGGCTAAAACAGATC
* * *
306220 ATAATTGGATGTCTGAATTGAGAAACTAGAAGCAAAAGCTATCCATTGACAAGAAAAGTTCATTT
1 ATAATTGGATGTTTGAATTGAGAAACTAGAAGCAAAAGCCATCCATT-ACAAGAAAAGTCCATTT
* * * *
306285 ATAATCACTAATGCCTTCGAAAA-CCTAGTGACTCGCTTTAAATAGTTTTATAATCTCATAAA
65 ATAGTCACTTATGCCTTC-AAAAGCCTA-TTACTC-CTTTAAATAGTTTTATAATCTTATAAA
306347 ACATTGTTTC
Statistics
Matches: 238, Mismatches: 47, Indels: 23
0.77 0.15 0.07
Matches are distributed among these distances:
167 3 0.01
168 9 0.04
169 112 0.47
170 81 0.34
171 33 0.14
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (168 bp):
ATAATTGGATGTTTGAATTGAGAAACTAGAAGCAAAAGCCATCCATTACAAGAAAAGTCCATTTA
TAGTCACTTATGCCTTCAAAAGCCTATTACTCCTTTAAATAGTTTTATAATCTTATAAATAATTT
TAGAATCAATTTGTTTTTTCATTTGGCTAAAACAGATC
Found at i:306657 original size:171 final size:166
Alignment explanation
Indices: 306366--307404 Score: 676
Period size: 171 Copynumber: 6.1 Consensus size: 166
306356 CTTGCTTTAC
* * * * * *
306366 ATGATTTTAAATGAAAATCTTCTTCATTTTTGGTTAAAATTAATCATAATTGGATGTTTGCATCG
1 ATGATTTTAAATCAAAAT-TTTTTCA-TTTTAGTTAAAA-T-ATCATAATTAGATGTTTTCATAG
* * * * * * * * *
306431 AGAAATATGAAGCAGAAGTCATTCATTGATAAGAAAAATCTATTTATACTCACTCATGTCATCAA
62 GGAAACATGAAGCA-AAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAA
*
306496 AAGCCTTGTTACTTACTTTAAGTGGTTTAATAATCTTATAA
126 AAGCCTTGTTACTTACTTTAAGTGATTTAATAATCTTATAA
* * *
306537 ATGATTTTAAATCAAAATATTTTTTATTTCTAGTTCAAACATATCTTAATTGGATGTTTTCATAG
1 ATGATTTTAAATCAAAAT-TTTTTCATTT-TAGTT-AAA-ATATCATAATTAGATGTTTTCATAG
* * * * *
306602 GGAAACATGAAGCGAAAGCCATCCAATGATAAGAAAAGTCCATTTATAGTCACTCATACCTTCCA
62 GGAAACATGAAGC-AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAA
* * *
306667 AAGTCTTGTTAC-TAGCTTTCAGTGATTTTATAATCTTATAA
126 AAGCCTTGTTACTTA-CTTTAAGTGATTTAATAATCTTATAA
* * * * * *
306708 ATGATTATAAATCAAAATCTTTTCCACCTTTAGTTAAAATTGATCATAATTATATGTTTACATTG
1 ATGATTTTAAATCAAAAT-TTTTTCA-TTTTAGTTAAAA-T-ATCATAATTAGATGTTTTCATAG
* * * * * * * *
306773 GGAAA-A-GAGATGTGAATGGCAACCATTGAGAAGAAAAGTCCATTTATAGTCATTCTTCCCATC
62 GGAAACATGA-A-G-CAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATC
** ** ** *
306836 AAAAGCCTTGTTACTCGCTTTAAACGATTTTTTAATCTTGTAA
124 AAAAGCCTTGTTACTTACTTTAAGTGATTTAATAATCTTATAA
* **
306879 ATGATTTTGAATCAAAATTGTTTTCATTTGTCA-TTAAAATCGATCATAAGCAGATGTTTTCATT
1 ATGATTTTAAATCAAAATT-TTTTCATTT-T-AGTTAAAAT--ATCATAATTAGATGTTTTCA-T
* * ** * * * * * *
306943 A-GGAAACATAAAACAAATGCCATCCATTGACAAGAAAAGTCTGTTTAGAATTACTAATGCCTTT
60 AGGGAAACATGAAGCAAA-GCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATC
* * * * * * *
307007 GAAATCCGTGTTACTTGCTTTAATTGGTTTAATAATATTATAA
124 AAAAGCCTTGTTACTTACTTTAAGTGATTTAATAATCTTATAA
* * * *
307050 ATAATTTTAAATCAAAATTTTTTTCATTTCT-GATTAAAAAGCATCATAATTGGATGCTTGT-AT
1 ATGATTTTAAATCAAAA-TTTTTTCATTT-TAG-TT-AAAA-TATCATAATTAGATG-TTTTCAT
* * ** * * * *
307113 TGAGAAACATGAAGCAAAAGCCATCTTTTGACAAGAAAATTCTATTTATAGTCACTCATACCTTC
60 AGGGAAACATGAAGC-AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATC
* * * * *
307178 AAAAGTCTTGGTA-ATAGCTTTAAGTGGTTTTATAATCTTATAA
124 AAAAGCCTTGTTACTTA-CTTTAAGTGATTTAATAATCTTATAA
* * * * * *
307221 ATGACTATAAATCAAAATCTTTTTCATTTTCAATTAAAACCGATCATAATTAAATGTTTGCATTA
1 ATGATTTTAAATCAAAAT-TTTTTCATTTT-AGTTAAAA--TATCATAATTAGATGTTTTCA-TA
* ** * * ** * * * *
307286 -GGTAATGTGAAGCAGATGACATTTATTGAAAAGAAAA-TCTCATATATAGTCATTCATGACATC
61 GGGAAACATGAAGCA-AAGCCATCCATTGACAAGAAAAGTC-CATTTATAGTCACTCATGCCATC
** * * *
307349 AAAAGCCTTGTTACTCGCTTTAAATGATTTAATATTATTATAA
124 AAAAGCCTTGTTACTTACTTTAAGTGATTTAATAATCTTATAA
*
307392 ATGATTTTTAATC
1 ATGATTTTAAATC
307405 GGCATCCCTT
Statistics
Matches: 668, Mismatches: 162, Indels: 76
0.74 0.18 0.08
Matches are distributed among these distances:
169 3 0.00
170 30 0.04
171 609 0.91
172 24 0.04
173 2 0.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (166 bp):
ATGATTTTAAATCAAAATTTTTTCATTTTAGTTAAAATATCATAATTAGATGTTTTCATAGGGAA
ACATGAAGCAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCC
TTGTTACTTACTTTAAGTGATTTAATAATCTTATAA
Found at i:307617 original size:52 final size:52
Alignment explanation
Indices: 307560--307667 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
307550 ACTTGGGCCA
* * **
307560 ATCACTTATTTGTAAAAAGAAGATAAAAGGGGTGGGTCTCATAGACTCAGTG
1 ATCACTTATCTGTAAAAAGAAGATAAAAAGGGTGAATCTCATAGACTCAGTG
* *
307612 ATCACTTATCTGTAAAAGGAAGATAAAAAGGGTGAATCTCATAGACTCATTG
1 ATCACTTATCTGTAAAAAGAAGATAAAAAGGGTGAATCTCATAGACTCAGTG
307664 ATCA
1 ATCA
307668 TTGGCTCTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (52 bp):
ATCACTTATCTGTAAAAAGAAGATAAAAAGGGTGAATCTCATAGACTCAGTG
Found at i:318162 original size:13 final size:13
Alignment explanation
Indices: 318141--318188 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
318131 TCCAAACAAT
* *
318141 CAAATTTAAATAA
1 CAAAATTAATTAA
318154 CAAAATTAATTAA
1 CAAAATTAATTAA
*
318167 CTAAAACTAATTAA
1 C-AAAATTAATTAA
318181 CCAAAATT
1 -CAAAATT
318189 TATACTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 12 0.41
14 16 0.55
15 1 0.03
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
CAAAATTAATTAA
Found at i:320882 original size:80 final size:80
Alignment explanation
Indices: 320577--320882 Score: 274
Period size: 80 Copynumber: 3.8 Consensus size: 80
320567 ATAACTTCTC
* * * * * * *
320577 CATAAATCA-TCATCATACTTAGCCTATAGTGTACATAACTATCTCAACATACACATCTCATGGC
1 CATAAATCACTTA-CATGCTTAGCCCATAGTATATATGACTATCTCAACATATACATCTCATGGC
*
320641 ATACATTTCATAATCT
65 ATACATTTCATAACCT
*********** * * *
320657 CATGNNNNNNNNNNATGCTTAGCCCATAGTGTATGTGACTATCTCAACACATACATCTCATGGCA
1 CATAAATCACTTACATGCTTAGCCCATAGTATATATGACTATCTCAACATATACATCTCATGGCA
* **
320722 CACATTTCATAGTCT
66 TACATTTCATAACCT
* * * *
320737 CATAAATCATTTACAGGCTTAGCCTATAGTATATATGACCATCTCAACATATACATCTCATGGCA
1 CATAAATCACTTACATGCTTAGCCCATAGTATATATGACTATCTCAACATATACATCTCATGGCA
*
320802 TACATTTCGTAACCT
66 TACATTTCATAACCT
* * * *
320817 CATAAATTACTTACATGCTTCGCCCATAGTATACATGA-TATACTTAACATATACATCTCATGGC
1 CATAAATCACTTACATGCTTAGCCCATAGTATATATGACTAT-CTCAACATATACATCTCATGGC
320881 AT
65 AT
320883 GCATATTACA
Statistics
Matches: 176, Mismatches: 48, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
79 2 0.01
80 174 0.99
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.31
Consensus pattern (80 bp):
CATAAATCACTTACATGCTTAGCCCATAGTATATATGACTATCTCAACATATACATCTCATGGCA
TACATTTCATAACCT
Found at i:322739 original size:36 final size:36
Alignment explanation
Indices: 322652--322834 Score: 144
Period size: 36 Copynumber: 5.2 Consensus size: 36
322642 AATTATTTAA
* * * *
322652 TTTAATCAATTAGTCCCAATATCATAATT-GACAA-
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* * * ** *
322686 TTTATTTAATTAAGCCCACCAATTTAATTAAACAAT
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* *
322722 TTTAATCAATTAGGCCCAATGACTTAATTAAATAAT
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
** * * *
322758 TTTAATCAACAAGGCCCAATGACTTAATCAAACTA-
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
* * *
322793 TTTAATTAATTA-G-AC-AGAACTTAATTAAACAAT
1 TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
322826 TTTAATCAA
1 TTTAATCAA
322835 GTGCTTGAGA
Statistics
Matches: 114, Mismatches: 32, Indels: 7
0.75 0.21 0.05
Matches are distributed among these distances:
32 13 0.11
33 9 0.08
34 21 0.18
35 13 0.11
36 58 0.51
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (36 bp):
TTTAATCAATTAGGCCCAATAACTTAATTAAACAAT
Found at i:326492 original size:171 final size:171
Alignment explanation
Indices: 326315--326622 Score: 384
Period size: 171 Copynumber: 1.8 Consensus size: 171
326305 GTATACATTG
* * * * *
326315 GGAAACACGAAGTCAATGTCATCCAAT-AATATCAAAAGTCCATTTATAGTCACTCATGCCTTCA
1 GGAAACACGAAGTCAATGTCACCCAATGAATA-AAAAAGTCCATTCATAGTCACCCATACCTTCA
* * * * * * *
326379 AAAGCCTCGTTACTTGGTTTAAATGGTTTTATAATCTTCTAAATGATTTTAAATCAAAATCTTTT
65 AAAGCCTCGCTACTCGCTTTAAATGATTTTATAATCCTATAAATGATTTTAAATCAAAATCCTTT
326444 TTGTTTTTAGTAAAAACAAATTATGTTTGGATATCTGCATCA
130 TTGTTTTTAGTAAAAACAAATTATGTTTGGATATCTGCATCA
* * ** * * * **
326486 GGAAACATGAATTGGATGTCACCCATTGACTAAAAAAGTCTATTCATAGTCACCCATACCTTTGA
1 GGAAACACGAAGTCAATGTCACCCAATGAATAAAAAAGTCCATTCATAGTCACCCATACCTTCAA
* * *
326551 AATCCTCGCTACTCGCTTTAAATGATTTTGTAATCCTATAAATGATTTTAACTCAAAATCCTTTT
66 AAGCCTCGCTACTCGCTTTAAATGATTTTATAATCCTATAAATGATTTTAAATCAAAATCCTTTT
326616 TGTTTTT
131 TGTTTTT
326623 GCTTAAAATA
Statistics
Matches: 112, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
171 109 0.97
172 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (171 bp):
GGAAACACGAAGTCAATGTCACCCAATGAATAAAAAAGTCCATTCATAGTCACCCATACCTTCAA
AAGCCTCGCTACTCGCTTTAAATGATTTTATAATCCTATAAATGATTTTAAATCAAAATCCTTTT
TGTTTTTAGTAAAAACAAATTATGTTTGGATATCTGCATCA
Found at i:329185 original size:36 final size:36
Alignment explanation
Indices: 329134--329218 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 36
329124 ATCATAATTG
* * * *
329134 ACAA-TTTAATTAATTAAGCCCACCAATTTAATTAC
1 ACAATTTTAATCAATTAAGCCCAACAACTTAATTAA
* * **
329169 ACAATTTTAATCAATTAGGCCTAATGACTTAATTAA
1 ACAATTTTAATCAATTAAGCCCAACAACTTAATTAA
329205 ACAATTTTAATCAA
1 ACAATTTTAATCAA
329219 CAAGNNNNNN
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (36 bp):
ACAATTTTAATCAATTAAGCCCAACAACTTAATTAA
Found at i:331449 original size:80 final size:78
Alignment explanation
Indices: 331332--331553 Score: 273
Period size: 80 Copynumber: 2.8 Consensus size: 78
331322 TATAACATGC
* * *
331332 ATGCCATGAGATGTATATGTTAAGTATATCATGTATACTATAGGCTAAGCATGTAAGTGATTTAT
1 ATGCCATGAGATGTATATGTTGAG-ATGTCATATATACTAT-GGCTAAGCATGTAAGTGATTTAT
**
331397 GAGGTTACGAAATAT
64 GAGACTACGAAATAT
* *
331412 ATGCCATGAGATGTATATGTTGAGATGGTCATATATACTATGCGCTAAGCCTGTAAATGATTTAT
1 ATGCCATGAGATGTATATGTTGAGAT-GTCATATATACTATG-GCTAAGCATGTAAGTGATTTAT
* *
331477 GAGACTATGAAATGT
64 GAGACTACGAAATAT
* * * *
331492 GTTCCATGAGATGTATATATTGAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATT
1 ATGCCATGAGATGTATATGTTGAGAT-GTCATATATACTAT-GGCTAAGCATGTAAGTGATT
331554 CATGNNNNNN
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 3 0.02
80 119 0.97
81 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.34
Consensus pattern (78 bp):
ATGCCATGAGATGTATATGTTGAGATGTCATATATACTATGGCTAAGCATGTAAGTGATTTATGA
GACTACGAAATAT
Found at i:334753 original size:170 final size:169
Alignment explanation
Indices: 334340--335503 Score: 592
Period size: 170 Copynumber: 6.9 Consensus size: 169
334330 CATGAAGTGG
* * *** * * * *
334340 AAGCCATCCATTGAAAAG-AAACTCCGTTTATAGTCAATCATACCTTCGAAAGCCTCATTACTCG
1 AAGCCATCCATTGATAAGAAAAGTCTACTTATAGTCAATCATGCCTTTGAAAGCCTCATTAATCC
* * ** *
334404 TTTGAAATGGTTTTATAATTTTATAAATGATCTGAAGGT-AAAATCTTTTTTGTTTGTAGTTAAA
66 TTT-AAATGGTTTTATAATCTTATAAATGATTTGAA-GTCAAAATCTTTTTCATTT-TTGTTAAA
* *
334468 ATCGATCATAATTGGATGTTCTCATCAAGAGACATGAAACGG
128 ATCGATCATAATTGGATGTTCGCATCAAGAGACATGAAACGA
* * * * * *
334510 ATGCCATCCATTGATAAGAAATGTCTATTTATAGTCACTCATGCCATTGAAAGCCT-TTTAACTC
1 AAGCCATCCATTGATAAGAAAAGTCTACTTATAGTCAATCATGCCTTTGAAAGCCTCATTAA-TC
*
334574 GCTTTAAATGGTTTTATAATCATATAAATGATTTGAAGTCAAAATCTTTTTCATTTTTGCTTAAA
65 -CTTTAAATGGTTTTATAATCTTATAAATGATTTGAAGTCAAAATCTTTTTCATTTTTG-TTAAA
* * * * *
334639 A-CATATCATAATTAGG-TGTT-GCGTCGAGAGCCATGAAGCGA
128 ATC-GATCATAATT-GGATGTTCGCATCAAGAGACATGAAACGA
* * *
334680 AAGCCATCCATTGATAAGAAAAGTTTACTTATTGTCAATCATGCCTTTGAAAGCCTCGTTAATCA
1 AAGCCATCCATTGATAAGAAAAGTCTACTTATAGTCAATCATGCCTTTGAAAGCCTCATTAATC-
* * *
334745 CTTTAAATGGTTTTATAATCTTATAAATGATTTTTAA-TCAAAATCTTTATCATTTTTGGTCAGA
65 CTTTAAATGGTTTTATAATCTTATAAATGA-TTTGAAGTCAAAATCTTTTTCATTTTT-GTTA-A
* * * * *
334809 AA-C-ACTCATAATTGGATGTTTGCATCGAGAAATAT-AAAGGGA
127 AATCGA-TCATAATTGGATGTTCGCATCAAGAGACATGAAA-CGA
* * * * * * * * * * *
334851 ATGCCATCTACTAATAAGAAAAGTCTACTTTTAGTTATTCTCGTGCCATCGAAAGCCTTATT-A-
1 AAGCCATCCATTGATAAGAAAAGTCTACTTATAGTCA--ATCATGCCTTTGAAAGCCTCATTAAT
* * * * * **
334914 --GTT---T-CTTTTAT-A-CGTTATATATGATTTAAAGTCGAAATCTTTTTTGTTTTTGGTTAA
64 CCTTTAAATGGTTTTATAATC-TTATAAATGATTTGAAGTCAAAATCTTTTTCATTTTT-GTTAA
* * * *
334971 AA-CAAATCATAATTAGATGTTGGCATCAAG-GAGCAT-AAACAA
127 AATC-GATCATAATTGGATGTTCGCATCAAGAGA-CATGAAACGA
* * * * * * * * * * ** ** * *
335013 AAGTCATTCACTAATAAAAAAAGTCCATTTATAGTTAATTATTCCTTCAAAAGCCTTGTCATATA
1 AAGCCATCCATTGATAAGAAAAGTCTACTTATAGTCAATCATGCCTTTGAAAGCCTCATTA-ATC
* * * * * * * *
335078 TTTTAAATGGATTTATAATCTTGTAAATAATTCT-AAATCAAAGTCTTTTTCATTTCTAGTTCAA
65 CTTTAAATGGTTTTATAATCTTATAAATGATT-TGAAGTCAAAATCTTTTTCATTT-TTGTTAAA
* * * * *
335142 ATCCATCATAATTGGATGTTTGCATTAGGAAAACATGAAACAGA
128 ATCGATCATAATTGGATGTTCGCATCAAG-AGACATGAAAC-GA
* * * * * ** * ** *
335186 TA-CCATCCATTGATAAGAAAAGTCCATTTATAG-CTACTCATGCCATCAAAAGGCTTGTTACTT
1 AAGCCATCCATTGATAAGAAAAGTCTACTTATAGTC-AATCATGCCTTTGAAAGCCTCATTA-AT
* * * * * * ** *
335249 GCTTGAAATGGTATCATAATCTTATAAATGATTTTAAATTC-AAATCTTTTTTGTTTTTTGTTAC
64 CCTTTAAATGGTTTTATAATCTTATAAATGA-TTTGAAGTCAAAATC-TTTTTCATTTTTGTTAA
* * * ** * **
335313 AATCAATCACT-TTTGGATGTTTGCATTGAGAAACATGAAGTGA
127 AATCGATCA-TAATTGGATGTTCGCATCAAGAGACATGAAACGA
* * * * * ** ** *
335356 AGGCCATCCATTGACAAG-AAAGTCCT-TTTATAGTCAATCATGCC-ATCAATAGAGTTGTTACT
1 AAGCCATCCATTGATAAGAAAAGT-CTACTTATAGTCAATCATGCCTTTGAA-AGCCTCATTAAT
* * * *
335418 CACTTTAAATGCTTTTATAATTTTATAAATGATTTCAAATCAAAATCTTCTTT-ATTTTTAGTTA
64 C-CTTTAAATGGTTTTATAATCTTATAAATGATTTGAAGTCAAAATCTT-TTTCATTTTT-GTTA
*
335482 AAATCAATCATAATTGGATGTT
126 AAATCGATCATAATTGGATGTT
335504 GGCTTGGGAA
Statistics
Matches: 771, Mismatches: 169, Indels: 108
0.74 0.16 0.10
Matches are distributed among these distances:
160 15 0.02
162 42 0.05
163 56 0.07
164 7 0.01
165 3 0.00
168 3 0.00
169 26 0.03
170 292 0.38
171 180 0.23
172 113 0.15
173 34 0.04
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (169 bp):
AAGCCATCCATTGATAAGAAAAGTCTACTTATAGTCAATCATGCCTTTGAAAGCCTCATTAATCC
TTTAAATGGTTTTATAATCTTATAAATGATTTGAAGTCAAAATCTTTTTCATTTTTGTTAAAATC
GATCATAATTGGATGTTCGCATCAAGAGACATGAAACGA
Found at i:334763 original size:21 final size:21
Alignment explanation
Indices: 334738--334784 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
334728 GAAAGCCTCG
*
334738 TTAATCACTT-TAAATGGTTT
1 TTAATCACTTATAAATGATTT
334758 TATAAT--CTTATAAATGATTT
1 T-TAATCACTTATAAATGATTT
334778 TTAATCA
1 TTAATCA
334785 AAATCTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
19 7 0.32
20 11 0.50
21 4 0.18
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (21 bp):
TTAATCACTTATAAATGATTT
Found at i:335651 original size:167 final size:166
Alignment explanation
Indices: 335079--335675 Score: 564
Period size: 170 Copynumber: 3.5 Consensus size: 166
335069 TGTCATATAT
* * * * * *
335079 TTTAAATGG-ATTTATAATCTTGTAAATAATTCTAAATCAAAGTCTTTTTCATTTC-TAGTTCAA
1 TTTAAATGGTA-TTATAATCTTATAAATGATTTTAAATCAAAATCTTTTT-AGTTCTTAGTTAAA
* * * * *
335142 ATCCATCATAATTGGATGTTTGCATTAGGAAAACATGAAACAGATACCATCCATTGATAAGAAAA
64 ATCAATCATAATTGGATGTTTGCATT-GGGAAACATGAAGC-GATGCCATCCATTGACAAG-AAA
*
335207 GTCCATTTATAGCTACTCATGCCATCAAAAGGCTTGTTACTTGC
126 GTCCATTTATA-C-AATCATGCCATC-AAAGGCTTGTTACTTGC
* * * * * *
335251 TTGAAATGGTATCATAATCTTATAAATGATTTTAAATTC-AAATCTTTTTTGTTTTTTGTTACAA
1 TTTAAATGGTATTATAATCTTATAAATGATTTTAAA-TCAAAATCTTTTTAGTTCTTAGTTAAAA
* * * *
335315 TCAATCACT-TTTGGATGTTTGCATTGAGAAACATGAAGTGAAGGCCATCCATTGACAAGAAAGT
65 TCAATCA-TAATTGGATGTTTGCATTGGGAAACATGAAGCG-ATGCCATCCATTGACAAGAAAGT
* **
335379 CCTTTTATAGTCAATCATGCCATCAATAGAG-TTGTTACTCAC
128 CCATTTATA--CAATCATGCCATCAA-AG-GCTTGTTACTTGC
* * * * *
335421 TTTAAATGCTTTTATAATTTTATAAATGATTTCAAATCAAAATCTTCTTTA-TTTTTAGTTAAAA
1 TTTAAATGGTATTATAATCTTATAAATGATTTTAAATCAAAATCTT-TTTAGTTCTTAGTTAAAA
* *
335485 TCAATCATAATTGGATGTTGGC-TTGGGAAACATGAAGCGTATGCCATCCATTGACAAGAAATGC
65 TCAATCATAATTGGATGTTTGCATTGGGAAACATGAAGCG-ATGCCATCCATTGACAAGAAA-GT
* * * * *
335549 CCATTTATA-AGTCATGTCTTCGAAGGCTTTGCTACTTGC
128 CCATTTATACAATCATGCCATCAAAGGC-TTGTTACTTGC
* * * * *
335588 TTTAAATGGTATTATAATATTGTAAACT-ATTTTAAATCAAAATCCTTTTAGTTCATGGTTAAAA
1 TTTAAATGGTATTATAATCTTATAAA-TGATTTTAAATCAAAATCTTTTTAGTTCTTAGTTAAAA
*
335652 TTAATCATAATTGGATGTTTGCAT
65 TCAATCATAATTGGATGTTTGCAT
335676 CAAAAAACAT
Statistics
Matches: 347, Mismatches: 61, Indels: 38
0.78 0.14 0.09
Matches are distributed among these distances:
165 1 0.00
166 6 0.02
167 86 0.25
168 2 0.01
169 40 0.12
170 111 0.32
171 32 0.09
172 65 0.19
173 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (166 bp):
TTTAAATGGTATTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTAGTTCTTAGTTAAAAT
CAATCATAATTGGATGTTTGCATTGGGAAACATGAAGCGATGCCATCCATTGACAAGAAAGTCCA
TTTATACAATCATGCCATCAAAGGCTTGTTACTTGC
Found at i:337673 original size:170 final size:169
Alignment explanation
Indices: 336733--338809 Score: 1356
Period size: 171 Copynumber: 12.2 Consensus size: 169
336723 TAACTTGCTT
* * ** *
336733 TAAATGATTTTAAAACAAAATCTTTTTTGTTTTTCCTTAAAATCA-ATC-TTATTGGATGTTCT-
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAAAT-AGATCATAATTGGATGTT-TG
** ** * * * *
336795 CATCAGGAATTTCGAAACAAATGCCATCCATTGATAAAAAAAATATCTATTTATAGTCACTCATA
64 CATTGGGAACAT-GAAGCAAATGCCATCCATTG--ACAAGAAA-ATCTATTTATAGTCACTCATG
* * * * *
336860 CCATCGAAAGCCCTGTTACTTGCTTTAAATGGTTTTATAATCATA
125 CCATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
* * * * *
336905 TAGATGATTTGAAACCAAAATCCTT-TTTG-TTTTGCTTAAAATAGATCATAATTGGATATTT-C
1 TAAATGATTTTAAATCAAAAT-CTTCTTTGTTTTTGGTTAAAATAGATCATAATTGGATGTTTGC
* * *
336967 ATTGGGAATCATCAAGCAAAAGCCATCCATTGACAAGAAAAATCTATTTATATTCAAC-CATGCC
65 ATTGGGAA-CATGAAGCAAATGCCATCCATTGACAAG-AAAATCTATTTATAGTC-ACTCATGCC
* ** * * *
337031 TTTGAAAGCTTTATTATTCGTTTTAAATGGTTTTATAATCTTA
127 ATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
* * * * * * * *
337074 CAAATAATTTTTAATCAAAATATTTTTTATTTTTGGTTAAAATCA-ATCATAATTGAATTTTTGC
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAAAT-AGATCATAATTGGATGTTTGC
*** * * ** * * * * * *
337138 ATTAAAAAACGTGAA-CTAGATGTTATCCATTGTCAATAAAAGTCCATTTATAATCTTTCTCTTG
65 ATT-GGGAACATGAAGC-AAATGCCATCCATTGACAAGAAAA-TCTATTTATAGTC--ACTCATG
* * * * * *
337202 TCATTAAAAGCCTTATTAGTTGCTTTAAATGCTTTCT-T-ATTTTA
125 CCATCAAAAGCCTTATTACTCGCTTTAAATGGTTT-TATAATCTTA
* * * ** *
337246 TAAATGATTTTAAAACAAAATCTT-TTTGTCTGTAATTAAAACAGATCATAATTGGATGTTTGCA
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAAATAGATCATAATTGGATGTTTGCA
* ** * * * * * * * *
337310 TTGAGAAACATGAAATAAAAGCCATCCCTTGACCAGTAAAAAGACCATTCATAGTTAGTCATGCC
66 TTG-GGAACATGAAGCAAATGCCATCCATTGACAAG--AAAA-TCTATTTATAGTCACTCATGCC
* * * *
337375 -TCTAAAAGTCTTA-TACTCACTTTAAATAGTTTTATAATTTTA
127 ATC-AAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
* * * *
337417 TAAATGATTTTAAAGCAAAATCTCTCATT-TTTTT-ATTAAAATTGATCATAATTGGATGTCCTT
1 TAAATGATTTTAAATCAAAATCT-TCTTTGTTTTTGGTTAAAATAGATCATAATTGGATGT--TT
** *
337480 --ATCAGGAACTATGAATG-AAATGCCATCCATTGACAAGAAATATCTATTTATAGTCACTTATG
63 GCATTGGGAAC-ATGAA-GCAAATGCCATCCATTGACAAGAAA-ATCTATTTATAGTCACTCATG
* *
337542 CCATCAAAAGCCCTATTACTCGCTCTAAATGGTTTTATAATCTTA
125 CCATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
* * *
337587 TAAATGATTTCAAATCAAAATCTTCTTTGTTTTTGGTTAAAATTGATCATAATTGGATGTTTACA
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAAATAGATCATAATTGGATGTTTGCA
* * * * * * * * *
337652 ATGGGAACATGATGCAAATGCCATTCACTAATAAGAAAAGTCCATTTATAGTCACTCATGCCTTT
66 TTGGGAACATGAAGCAAATGCCATCCATTGACAAGAAAA-TCTATTTATAGTCACTCATGCCATC
* ** * * *
337717 GAAAGTTTTGTTACTTGCTTTAAATGGTTTTAAAATCTTA
130 AAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
* ** * * * ** *
337757 TAAATGATTTTCAATTGAAATCTT-TTTCATTTATGGTTTAAATAGATCATGTTTGGATATTTGC
1 TAAATGATTTTAAATCAAAATCTTCTTT-GTTTTTGGTTAAAATAGATCATAATTGGATGTTTGC
* * * *
337821 ATTTGGAA-ATGTGAAGCAGATGCCATCCATTGAAAAGAAAAGT-TCACTTATAGT---T-ATGC
65 ATTGGGAACA--TGAAGCAAATGCCATCCATTGACAAGAAAA-TCT-ATTTATAGTCACTCATGC
* * * *
337880 CAACAAAAGCCTTGTAACTCGCTTTAAATGGTTTTATAATAGTT-
126 CATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAAT-CTTA
* ** * * * * * *
337924 TAATTGATTTTAAATTGAAATCTTTTTTATTATTGCTTAAAATAGATCATAATTGTATGTTTGGA
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAAATAGATCATAATTGGATGTTTGCA
* * * * * * * *
337989 TCGAGAAATATGAAGCAGATGACATCCACT-AGCAAGAAAGGTCCATTTATAGTCACAGTCATGC
66 TTG-GGAACATGAAGCAAATGCCATCCATTGA-CAAGAAA-ATCTATTTATAGTCAC--TCATGC
* * * * *
338053 CTTCGAAATCCTTGTTACGT-GATTTAAATGGTTTTATAATCTTA
126 CATCAAAAGCCTTATTAC-TCGCTTTAAATGGTTTTATAATCTTA
* * * * *
338097 TAAATGATTTTAAATCAAAA---TC--T-TTTTT-GTTAAAATAGATTACATTTAGATGTTTGTA
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAAATAGATCATAATTGGATGTTTGCA
* * * * * *
338155 TTAGGAAACTTGAAGCAGATGCCATCCATTGACAAGAAATGTCTATGTATAATCACTCATGCCAT
66 TT-GGGAACATGAAGCAAATGCCATCCATTGACAAGAAA-ATCTATTTATAGTCACTCATGCCAT
* * * *
338220 CAGAAGCCTTGTTGCTCACTTTAAATGGTTTTATAATCTTA
129 CAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
* * * *
338261 CAAATGATTTCAAATCAAAATCTTCTTCAT-TTTTTAGTTAAAATCGATCATAATTGGATGTTTG
1 TAAATGATTTTAAATCAAAATCTTCTT--TGTTTTTGGTTAAAATAGATCATAATTGGATGTTTG
* * * * * *
338325 CAATGGGAA-ATGTGAAGCAGATGCCATCCACTAACAAGAAATGTCCATTTATAGTCACTCATGC
64 CATTGGGAACA--TGAAGCAAATGCCATCCATTGACAAGAAA-ATCTATTTATAGTCACTCATGC
* * * * *
338389 CTTCAAAAGCTTTATTACTTGCTTTAATTGGTTTTAAAATCTTA
126 CATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
** * * ** *
338433 TAAATGATTTTAAATCGGAATCTTTTTTGTTTATGGCTTAAACAT--ATCATGTTTGGGTGTTTG
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGG-TTAAA-ATAGATCATAATTGGATGTTTG
* * * * * *
338496 CATTGGGAAACATGAAGTAGATGCCATCCATTGATAAGAAAAGT-TCATTTATAATTACTCATGT
64 CATTGGG-AACATGAAGCAAATGCCATCCATTGACAAGAAAA-TCT-ATTTATAGTCACTCATGC
* * * * * *
338560 CATCGAAA-CCTTATTAGTTGCTTGAAATGATTTTAT-ATTTTA
126 CATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
* ** * * * *
338602 TAAATGGTTTTAAATTGAAATCTT-TTT-TTTAT-ATTAAAACCA-ATCATAATTAGATGTTTGC
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAAA-TAGATCATAATTGGATGTTTGC
** ** * * * *
338663 ATCAT-AAAATGTGAAGTGAAA-CCCATCCATTGAAAAAAAAATCTATTTATTA-TCACTCATGC
65 AT--TGGGAACATGAAG-CAAATGCCATCCATTGACAAGAAAATCTATTTA-TAGTCACTCATGC
*
338725 CATCAAAAGCCCTATTACTCGCTTTAAATGGTTTTATAATCTTA
126 CATCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
* * *
338769 TAAATGATCTTAAATCAAAATCTTCTTTGTTTCTAGTTAAA
1 TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAA
338810 TGATTTTAAA
Statistics
Matches: 1490, Mismatches: 325, Indels: 182
0.75 0.16 0.09
Matches are distributed among these distances:
163 1 0.00
164 60 0.04
165 26 0.02
166 134 0.09
167 159 0.11
168 19 0.01
169 144 0.10
170 272 0.18
171 362 0.24
172 203 0.14
173 108 0.07
174 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (169 bp):
TAAATGATTTTAAATCAAAATCTTCTTTGTTTTTGGTTAAAATAGATCATAATTGGATGTTTGCA
TTGGGAACATGAAGCAAATGCCATCCATTGACAAGAAAATCTATTTATAGTCACTCATGCCATCA
AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTA
Found at i:337947 original size:337 final size:330
Alignment explanation
Indices: 336860--338552 Score: 1181
Period size: 341 Copynumber: 5.0 Consensus size: 330
336850 GTCACTCATA
* * * * * * *
336860 CCATCGAAAGCCCTGTTACTTGCTTTAAATGGTTTTATAATCATATAGATGATTTGAAACCAAAA
1 CCATCAAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTCAAATCAAAA
* * * * * * *
336925 TCCTT-TTTGTTTTGCTTAAAATAGATCATAATTGGATATTTCATTGGGAATCATCAAGCAAAAG
66 T-CTTCTTTTTTTTGGTTAAAATAGATCATAATTGGATGTTTCAATGGGAA--ATGAAGCAGATG
* * * * * * * * *
336989 CCATCCATTGACAAGAAAAATCTATTTATATTCAAC-CATGCCTTTGAAAGCTTTATTA-TTCGT
128 CCATCCACTAACAAGAAAAGTCCATTTATAGTC-ACTCATGCCTTCGAAAGTTTTGTTACTT-GC
* * * * * * * *
337052 TTTAAATGGTTTTATAATCTTACAAATAATTTTTAATCAAAATATTTTTTATTTTTGGTTAAAAT
191 TTTAAATGGTTTTAAAATCTTATAAATGATTTTAAATCGAAAT-CTTTTT-TTTATGGTTTAAAT
** * * ** * ** ** *
337117 CA-ATCATAATTGAATTTTTGCATTAAAAAACGTGAA-CTAGATGTTATCCATTGTCAATAAAAG
254 -AGATCATGTTTGGATGTTTGCATTAGGAAA-TTGAAGC-AGATGCCATCCATTGAAAAGAAAAG
* *
337180 TCCATTTATAATCTTTCTCTTG
316 TTCA-TTATAA----T-T-ATG
* * * * * * * * *
337202 TCATTAAAAGCCTTATTAGTTGCTTTAAATGCTTTCT-T-ATTTTATAAATGATTTTAAAACAAA
1 CCATCAAAAGCCTTGTTACTCGCTTTAAATGGTTT-TATAATCTTATAAATGATTTCAAATCAAA
* * ** * * * ** *
337265 ATCTT-TTTGTCTGTAATTAAAACAGATCATAATTGGATGTTTGCATTGAGAAACATGAAATAAA
65 ATCTTCTTT-TTTTTGGTTAAAATAGATCATAATTGGATGTTT-CAATG-GGAA-ATGAAGCAGA
* * * * * * * * * *
337329 AGCCATCC-CTTGACCAGTAAAAAGACCATTCATAGTTAGTCATGCC-TCTAAAAGTCTT-ATAC
126 TGCCATCCAC-TAACAAG--AAAAGTCCATTTATAGTCACTCATGCCTTC-GAAAGTTTTGTTAC
** * * * * * *
337391 TCACTTTAAATAGTTTTATAATTTTATAAATGATTTTAAAGCAAAATCTCTCATTTTTT-T-ATT
187 TTGCTTTAAATGGTTTTAAAATCTTATAAATGATTTTAAATCGAAATCT-T--TTTTTTATGGTT
* * ** * * * *
337454 AAAATTGATCATAATTGGATGTCCTT--ATCAGGAACTATGAATG-AAATGCCATCCATTGACAA
249 TAAATAGATCATGTTTGGATGT--TTGCATTAGGAAAT-TGAA-GCAGATGCCATCCATTGAAAA
337516 G-AAA-TATCTATTTATAGTCACTTATG
310 GAAAAGT-TC-A-TTATA---A-TTATG
* * *
337542 CCATCAAAAGCCCTATTACTCGCTCTAAATGGTTTTATAATCTTATAAATGATTTCAAATCAAAA
1 CCATCAAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTCAAATCAAAA
* * *
337607 TCTTCTTTGTTTTTGGTTAAAATTGATCATAATTGGATGTTTACAATGGGAACATGATGCAAATG
66 TCTTCTTT-TTTTTGGTTAAAATAGATCATAATTGGATGTTT-CAATGGGAA-ATGAAGCAGATG
* * *
337672 CCATTCACTAATAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGTTTTGTTACTTGCTT
128 CCATCCACTAACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGTTTTGTTACTTGCTT
* *
337737 TAAATGGTTTTAAAATCTTATAAATGATTTTCAATTGAAATCTTTTTCATTTATGGTTTAAATAG
193 TAAATGGTTTTAAAATCTTATAAATGATTTTAAATCGAAATCTTTTT--TTTATGGTTTAAATAG
* *
337802 ATCATGTTTGGATATTTGCATTTGGAAATGTGAAGCAGATGCCATCCATTGAAAAGAAAAGTTCA
256 ATCATGTTTGGATGTTTGCATTAGGAAAT-TGAAGCAGATGCCATCCATTGAAAAGAAAAGTTCA
*
337867 CTTATAGTTATG
320 -TTATAATTATG
* * * * * **
337879 CCAACAAAAGCCTTGTAACTCGCTTTAAATGGTTTTATAATAGTT-TAATTGATTTTAAATTGAA
1 CCATCAAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAAT-CTTATAAATGATTTCAAATCAAA
* * ** *
337943 ATCTT-TTTTATTATTGCTTAAAATAGATCATAATTGTATGTTTGGATCGAGAAATATGAAGCAG
65 ATCTTCTTTT-TT-TTGGTTAAAATAGATCATAATTGGATGTTTCAAT-G-GGAA-ATGAAGCAG
* * * *
338007 ATGACATCCACTAGCAAGAAAGGTCCATTTATAGTCACAGTCATGCCTTCGAAA-TCCTTGTTAC
125 ATGCCATCCACTAACAAGAAAAGTCCATTTATAGTCAC--TCATGCCTTCGAAAGT-TTTGTTAC
* * * * *
338071 GTGATTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCAAAATC---TTTTT-T-GTTAAA
187 TTGCTTTAAATGGTTTTAAAATCTTATAAATGATTTTAAATCGAAATCTTTTTTTTATGGTTTAA
* ** * * * *
338131 ATAGATTACATTTAGATGTTTGTATTAGGAAACTTGAAGCAGATGCCATCCATTGACAAGAAATG
252 ATAGATCATGTTTGGATGTTTGCATTAGGAAA-TTGAAGCAGATGCCATCCATTGAAAAGAAAAG
338196 -TCTATGTATAATCACTCATG
316 TTC-AT-TATAAT---T-ATG
* * * *
338216 CCATCAGAAGCCTTGTTGCTCACTTTAAATGGTTTTATAATCTTACAAATGATTTCAAATCAAAA
1 CCATCAAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTCAAATCAAAA
* *
338281 TCTTCTTCATTTTTTAGTTAAAATCGATCATAATTGGATGTTTGCAATGGGAAATGTGAAGCAGA
66 TCTTCTT--TTTTTTGGTTAAAATAGATCATAATTGGATGTTT-CAATGGGAAA--TGAAGCAGA
* * * *
338346 TGCCATCCACTAACAAGAAATGTCCATTTATAGTCACTCATGCCTTCAAAAGCTTTATTACTTGC
126 TGCCATCCACTAACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGTTTTGTTACTTGC
* * * *
338411 TTTAATTGGTTTTAAAATCTTATAAATGATTTTAAATCGGAATCTTTTTTGTTTATGGCTTAAAC
191 TTTAAATGGTTTTAAAATCTTATAAATGATTTTAAATCGAAATC-TTTTT-TTTATGGTTTAAAT
* * * * * *
338476 ATATCATGTTTGGGTGTTTGCATTGGGAAACATGAAGTAGATGCCATCCATTGATAAGAAAAGTT
254 AGATCATGTTTGGATGTTTGCATTAGGAAA-TTGAAGCAGATGCCATCCATTGAAAAGAAAAGTT
338541 CATTTATAATTA
318 CA-TTATAATTA
338553 CTCATGTCAT
Statistics
Matches: 1069, Mismatches: 211, Indels: 145
0.75 0.15 0.10
Matches are distributed among these distances:
332 3 0.00
333 65 0.06
334 2 0.00
335 4 0.00
336 72 0.07
337 155 0.14
338 117 0.11
339 43 0.04
340 151 0.14
341 158 0.15
342 151 0.14
343 111 0.10
344 33 0.03
345 4 0.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (330 bp):
CCATCAAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTCAAATCAAAA
TCTTCTTTTTTTTGGTTAAAATAGATCATAATTGGATGTTTCAATGGGAAATGAAGCAGATGCCA
TCCACTAACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGTTTTGTTACTTGCTTTAA
ATGGTTTTAAAATCTTATAAATGATTTTAAATCGAAATCTTTTTTTTATGGTTTAAATAGATCAT
GTTTGGATGTTTGCATTAGGAAATTGAAGCAGATGCCATCCATTGAAAAGAAAAGTTCATTATAA
TTATG
Found at i:338721 original size:336 final size:333
Alignment explanation
Indices: 336733--338810 Score: 1098
Period size: 341 Copynumber: 6.1 Consensus size: 333
336723 TAACTTGCTT
* * **
336733 TAAATGATTTTAAAACAAAATCTTTTTTGTTTTTCCTTAAAATCA-ATC-T-TATTGGATGTTCT
1 TAAATGATTTTAAATCAAAATCTTTTTTGTTTATGGTT-AAAT-AGATCATGT-TTGGATGTT-T
* ** * * * * *
336795 -CATCAGG-AATTTCGAAACAAATGCCATCCATTGATAAA-AAAAATATCTATTTATAGTCACTC
62 GCATTAGGAAACAT-GAAGCAGATGCCATCCATTGA-AAAGAAAAGT-TC-ATTTATAATTACTC
* * * * * * * ***
336857 ATACCATCGAAAGCCCTGTTACTTGCTTTAAATGGTTTTATAATCATATAGATGATTTGAAACCA
123 ATGCCATCGAAA-CCTTGTTAGTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTG
* * * * * *
336922 AAATCCTTTTTGTTT-TGCTTAAAATAGATCATAATTGGATATTT-CAT--TGGGAATCATCAAG
187 AAAT-CTTTTT-TTTAT-ATTAAAACA-ATCATAATT-GATGTTTGCATCAT-GAAAT-GTGAAG
* * * * ** *
336983 CAAAAGCCATCCATTGACAAGAAAAA-TCTATTTATATTCAAC-CATGCCTTTGAAAGCTTTATT
245 GAGAA-CCATCCATTGA-AA-AAAAAGTCCATTTATAGTC-ACTCATGCCTTCAAAAGCCTTATT
* *
337046 A-TTCGTTTTAAATGGTTTTATAATCTTA
306 ACTT-GCTTTAAATGGTTTTAAAATCTTA
* * * * * * ** * *
337074 CAAATAATTTTTAATCAAAATATTTTTTATTTTTGGTTAAAATCA-ATCATAATTGAATTTTTGC
1 TAAATGATTTTAAATCAAAATCTTTTTTGTTTATGGTT-AAAT-AGATCATGTTTGGATGTTTGC
** * ** ** * * * *
337138 ATTAAAAAACGTGAA-CTAGATGTTATCCATTGTCAATAAAAGTCCATTTATAATCTTTCTCTTG
64 ATTAGGAAACATGAAGC-AGATGCCATCCATTGAAAAGAAAAGTTCATTTATAA--TTACTCATG
* ** * * * * ***
337202 TCATTAAAAGCCTTATTAGTTGCTTTAAATGCTTTCT-T-ATTTTATAAATGATTTTAAAACAAA
126 CCATCGAAA-CCTTGTTAGTCGCTTTAAATGGTTT-TATAATCTTATAAATGATTTTAAATTGAA
* ** ** *
337265 ATCTTTTTGTCTGTA-ATTAAAACAGATCATAATTGGATGTTTGCATTGA-GAAACATGAAATAA
189 ATCTTTTT-T-T-TATATTAAAACA-ATCATAATT-GATGTTTGCA-TCATGAAATGTGAAGGAG
* * * * * * *
337328 AAGCCATCCCTTGACCAGTAAAAAGACCATTCATAGTTAGTCATGCC-TCTAAAAGTCTTA-TAC
248 AA-CCATCCATTGA--A-AAAAAAGTCCATTTATAGTCACTCATGCCTTC-AAAAGCCTTATTAC
** * * *
337391 TCACTTTAAATAGTTTTATAATTTTA
308 TTGCTTTAAATGGTTTTAAAATCTTA
* * * **
337417 TAAATGATTTTAAAGCAAAATCTCTCATTTT-TTTAT--TAAAATTGATCATAATTGGATGTCCT
1 TAAATGATTTTAAATCAAAATCT-T--TTTTGTTTATGGTTAAATAGATCATGTTTGGATGT--T
* * * * *
337479 T--ATCAGG-AACTATGAATG-AAATGCCATCCATTGACAAG-AAA-TATCTATTTATAGTCACT
61 TGCATTAGGAAAC-ATGAA-GCAGATGCCATCCATTGAAAAGAAAAGT-TC-ATTTATAATTACT
* * * * * * * *
337538 TATGCCATCAAAAGCCCTATTACTCGCTCTAAATGGTTTTATAATCTTATAAATGATTTCAAATC
122 CATGCCATCGAAA-CCTTGTTAGTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATT
* * * ** * * ** *
337603 AAAATCTTCTTTGTTTTTGGTTAAAATTGATCATAATTGGATGTTTACA--ATGGGAACATGATG
186 GAAATCTT-TTT-TTTAT-ATTAAAA-CAATCATAATT-GATGTTTGCATCAT-GAAATGTGAAG
* * * ** ** *
337666 CA-AATGCCATTCACT-AATAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGTTTTGTT
245 GAGAA--CCATCCATTGAA-AA-AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATT
337729 ACTTGCTTTAAATGGTTTTAAAATCTTA
306 ACTTGCTTTAAATGGTTTTAAAATCTTA
* ** ** *
337757 TAAATGATTTTCAATTGAAATCTTTTTCATTTATGGTTTAAATAGATCATGTTTGGATATTTGCA
1 TAAATGATTTTAAATCAAAATCTTTTTTGTTTATGG-TTAAATAGATCATGTTTGGATGTTTGCA
* ** * * *
337822 TTTGGAAATGTGAAGCAGATGCCATCCATTGAAAAGAAAAGTTCACTTAT-AGT--T-ATGCCAA
65 TTAGGAAACATGAAGCAGATGCCATCCATTGAAAAGAAAAGTTCATTTATAATTACTCATGCCAT
* * * * *
337883 CAAAAGCCTTGTAACTCGCTTTAAATGGTTTTATAATAGTT-TAATTGATTTTAAATTGAAATCT
130 CGAAA-CCTTGTTAGTCGCTTTAAATGGTTTTATAAT-CTTATAAATGATTTTAAATTGAAATCT
* * * * *
337947 TTTTTATTATTGCTTAAAATAGATCATAATTGTATGTTTGGATCGA-GAAATATGAAGCAGATGA
193 TTTTT-TTA-T-ATTAAAACA-ATCATAATTG-ATGTTTGCATC-ATGAAATGTGAAGGAGA--A
* * * * * * * * *
338011 -CATCCACTAGCAAGAAAGGTCCATTTATAGTCACAGTCATGCCTTCGAAATCCTTGTTACGTGA
250 CCATCCA-TTGAAAAAAAAGTCCATTTATAGTCAC--TCATGCCTTCAAAAGCCTTATTACTTGC
*
338075 TTTAAATGGTTTTATAATCTTA
312 TTTAAATGGTTTTAAAATCTTA
* ** * *
338097 TAAATGATTTTAAATCAAAATCTTTTTTG-TTA-----AAATAGATTACATTTAGATGTTTGTAT
1 TAAATGATTTTAAATCAAAATCTTTTTTGTTTATGGTTAAATAGATCATGTTTGGATGTTTGCAT
* * * * *
338156 TAGGAAACTTGAAGCAGATGCCATCCATTGACAAGAAATG-TCTATGTATAATCACTCATGCCAT
66 TAGGAAACATGAAGCAGATGCCATCCATTGAAAAGAAAAGTTC-ATTTATAATTACTCATGCCAT
* * * * **
338220 CAGAAGCCTTGTT-GCTCACTTTAAATGGTTTTATAATCTTACAAATGATTTCAAATCAAAATCT
130 C-GAAACCTTGTTAG-TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAAATCT
* * *
338284 TCTTCATTTTTTAGTTAAAATCGATCATAATTGGATGTTTGCA--ATGGGAAATGTGAAGCAGAT
193 T-TT--TTTTATA-TTAAAA-CAATCATAATT-GATGTTTGCATCAT--GAAATGTGAAGGAGA-
* * * *
338347 GCCATCCACT-AACAAGAAATGTCCATTTATAGTCACTCATGCCTTCAAAAGCTTTATTACTTGC
249 ACCATCCATTGAA-AA-AAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTTGC
*
338411 TTTAATTGGTTTTAAAATCTTA
312 TTTAAATGGTTTTAAAATCTTA
** * * *
338433 TAAATGATTTTAAATCGGAATCTTTTTTGTTTATGGCTTAAACATATCATGTTTGGGTGTTTGCA
1 TAAATGATTTTAAATCAAAATCTTTTTTGTTTATGG-TTAAATAGATCATGTTTGGATGTTTGCA
* * * *
338498 TTGGGAAACATGAAGTAGATGCCATCCATTGATAAGAAAAGTTCATTTATAATTACTCATGTCAT
65 TTAGGAAACATGAAGCAGATGCCATCCATTGAAAAGAAAAGTTCATTTATAATTACTCATGCCAT
* * * * * *
338563 CGAAACCTTATTAGTTGCTTGAAATGATTTTAT-ATTTTATAAATGGTTTTAAATTGAAATCTTT
130 CGAAACCTTGTTAGTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAAATCTTT
*
338627 TTTTTATATTAAAACCAATCATAATTAGATGTTTGCATCATAAAATGTGAAGTGA-AACCCATCC
195 TTTTTATATTAAAA-CAATCATAATT-GATGTTTGCATCATGAAATGTGAAG-GAGAA-CCATCC
* * * * *
338691 ATTGAAAAAAAAATCTATTTATTA-TCACTCATGCCATCAAAAGCCCTATTACTCGCTTTAAATG
256 ATTGAAAAAAAAGTCCATTTA-TAGTCACTCATGCCTTCAAAAGCCTTATTACTTGCTTTAAATG
*
338755 GTTTTATAATCTTA
320 GTTTTAAAATCTTA
* * * *
338769 TAAATGATCTTAAATCAAAATCTTCTTTGTTTCTAGTTAAAT
1 TAAATGATTTTAAATCAAAATCTTTTTTGTTTATGGTTAAAT
338811 GATTTTAAAT
Statistics
Matches: 1347, Mismatches: 285, Indels: 216
0.73 0.15 0.12
Matches are distributed among these distances:
332 2 0.00
333 60 0.04
334 1 0.00
335 7 0.01
336 168 0.12
337 192 0.14
338 120 0.09
339 45 0.03
340 172 0.13
341 217 0.16
342 195 0.14
343 133 0.10
344 27 0.02
345 4 0.00
346 4 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (333 bp):
TAAATGATTTTAAATCAAAATCTTTTTTGTTTATGGTTAAATAGATCATGTTTGGATGTTTGCAT
TAGGAAACATGAAGCAGATGCCATCCATTGAAAAGAAAAGTTCATTTATAATTACTCATGCCATC
GAAACCTTGTTAGTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAAATCTTTT
TTTTATATTAAAACAATCATAATTGATGTTTGCATCATGAAATGTGAAGGAGAACCATCCATTGA
AAAAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTA
AAATCTTA
Found at i:339390 original size:171 final size:171
Alignment explanation
Indices: 339213--339611 Score: 398
Period size: 171 Copynumber: 2.3 Consensus size: 171
339203 CATGAAGTGT
* * *
339213 ATGCCATCCATTTATAAG-AAATTTGCATTT-ATAG-CTACTCATGCCATCGAAAG-CTTTGTTA
1 ATGCCATCCATTGATAAGAAAAGTT-C-TTTCATAGTC-ACTCATGCCATCAAAAGCCTTT-TTA
* * * * * * ** *
339274 CACATTTTTAATGGTTTTATAATCTTATAAATGATTTTAAA-CTAAAATCTTTTTTGTTTTTGGT
62 CACACTTTAAATAGTTTTACAATCATATAAATGATTTTAAATC-AAAACCTTTTTCATTTTAGGT
*
339338 TAAAACACATTACATTTTGATGTTTCAATTGGGCAACGTGAAGCAA
126 TAAAACACATTACATTTGGATGTTTCAATTGGGCAACGTGAAGCAA
* ***
339384 ATGCCATCCATTGATAAGAAAAGTTCTTTCATAGTCACTCATTCCATCAAAAGCCTTTTTACTGG
1 ATGCCATCCATTGATAAGAAAAGTTCTTTCATAGTCACTCATGCCATCAAAAGCCTTTTTACACA
*
339449 CTTTAAATATTTTTACAATCATATAAATGATTTTAAATCAAAACCTTTTTCATTTTAGGTTAAAA
66 CTTTAAATAGTTTTACAATCATATAAATGATTTTAAATCAAAACCTTTTTCATTTTAGGTTAAAA
* * ** * * * **
339514 CATATTGCATTTGGATGTTT-ACATCAGGAAAAGTAAAGTGA
131 CACATTACATTTGGATGTTTCA-ATTGGGCAACGTGAAGCAA
** * * *
339555 ATGCTGTCCATTGATAAGAAAAGTCCATTT-ATAGTCACTAATACCATCAAAAGCCTT
1 ATGCCATCCATTGATAAGAAAAGTTC-TTTCATAGTCACTCATGCCATCAAAAGCCTT
339612 GTTAGTAGCT
Statistics
Matches: 189, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
170 4 0.02
171 171 0.90
172 14 0.07
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (171 bp):
ATGCCATCCATTGATAAGAAAAGTTCTTTCATAGTCACTCATGCCATCAAAAGCCTTTTTACACA
CTTTAAATAGTTTTACAATCATATAAATGATTTTAAATCAAAACCTTTTTCATTTTAGGTTAAAA
CACATTACATTTGGATGTTTCAATTGGGCAACGTGAAGCAA
Found at i:339625 original size:171 final size:172
Alignment explanation
Indices: 339288--339633 Score: 421
Period size: 171 Copynumber: 2.0 Consensus size: 172
339278 TTTTTAATGG
* * * ** *
339288 TTTTATAATCTTATAAATGATTTTAAACTAAAATCTTTTTTGTTTTTGGTTAAAACACATTACAT
1 TTTTACAATCATATAAATGATTTTAAACTAAAACCTTTTTCATTTTAGGTTAAAACACATTACAT
* ** * * * *
339353 TTTGATGTTTCAATTGGGCAACGTGAAGCAAATGCCATCCATTGATAAGAAAAGTTCTTTCATAG
66 TTGGATGTTTCAATCAGGAAAAGTAAAGCAAATGCCATCCATTGATAAGAAAAGTCCTTTCATAG
* * * *
339418 TCACTCATTCCATCAAAAGCCTTTTTACTGGCTTTAAAT-AT
131 TCACTAATACCATCAAAAGCCTTGTTACTAGCTTTAAATGAT
* *
339459 TTTTACAATCATATAAATGATTTTAAA-TCAAAACCTTTTTCATTTTAGGTTAAAACATATTGCA
1 TTTTACAATCATATAAATGATTTTAAACT-AAAACCTTTTTCATTTTAGGTTAAAACACATTACA
** **
339523 TTTGGATGTTT-ACATCAGGAAAAGTAAAGTGAATGCTGTCCATTGATAAGAAAAGTCCATTT-A
65 TTTGGATGTTTCA-ATCAGGAAAAGTAAAGCAAATGCCATCCATTGATAAGAAAAGTCC-TTTCA
*
339586 TAGTCACTAATACCATCAAAAGCCTTGTTAGTAGCTTTAAATGAT
128 TAGTCACTAATACCATCAAAAGCCTTGTTACTAGCTTTAAATGAT
339631 TTT
1 TTT
339634 AAATCAAAAT
Statistics
Matches: 147, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
170 2 0.01
171 137 0.93
172 8 0.05
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (172 bp):
TTTTACAATCATATAAATGATTTTAAACTAAAACCTTTTTCATTTTAGGTTAAAACACATTACAT
TTGGATGTTTCAATCAGGAAAAGTAAAGCAAATGCCATCCATTGATAAGAAAAGTCCTTTCATAG
TCACTAATACCATCAAAAGCCTTGTTACTAGCTTTAAATGAT
Found at i:339756 original size:151 final size:152
Alignment explanation
Indices: 339472--339767 Score: 330
Period size: 151 Copynumber: 2.0 Consensus size: 152
339462 TACAATCATA
* *
339472 TAAATGATTTTAAATCAAAACCTTTTTCATTTTAGGTTAAAACATATTGCATTTGGATGTTTACA
1 TAAATGATTTTAAATCAAAACCTTTTTCATTTTAGGTTAAAACATATTGCAATTGGATATTTACA
* * * * *
339537 TCAGGAAAAGTAAAGTGAATGCTGTCCATTGATAAGAAAAGTCCATTTATAGTCACTAATACCAT
66 TCAGGAAAAGTAAAGTGAAAGCTATCCATTCACAAGAAAAGTCCACTTATAGTCACTAATACCAT
*
339602 CAAAA-GCCTTGTTAGTAGCTT
131 CAAAATGCCTCGTTAGTAGCTT
* ** * * * *
339623 TAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTTAAAATATATAT-TAATTGGATATTTGC
1 TAAATGATTTTAAATCAAAACCTTTTTCATTTTAGGTTAAAACATAT-TGCAATTGGATATTTAC
* * * ** * *
339687 TTTAGGAAACA-TCAAGTGGAAAGC-ATCCATTCACAAGAAAAGTTTACTTATAGTCACTCATGC
65 ATCAGGAAA-AGTAAAGT-GAAAGCTATCCATTCACAAGAAAAGTCCACTTATAGTCACTAATAC
*
339750 CTTCAAAATGCCTCGTTA
128 CATCAAAATGCCTCGTTA
339768 CTCATTTTAT
Statistics
Matches: 118, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
151 103 0.87
152 15 0.13
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (152 bp):
TAAATGATTTTAAATCAAAACCTTTTTCATTTTAGGTTAAAACATATTGCAATTGGATATTTACA
TCAGGAAAAGTAAAGTGAAAGCTATCCATTCACAAGAAAAGTCCACTTATAGTCACTAATACCAT
CAAAATGCCTCGTTAGTAGCTT
Found at i:340436 original size:13 final size:13
Alignment explanation
Indices: 340415--340461 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
340405 TGCTAAGCCA
*
340415 TTTCGCTCATTTC
1 TTTCTCTCATTTC
*
340428 TTTCTCTCAATTC
1 TTTCTCTCATTTC
340441 TTTCTCTCCATTTC
1 TTTCTCT-CATTTC
*
340455 TCTCTCT
1 TTTCTCT
340462 AGAAACCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.09, C:0.34, G:0.02, T:0.55
Consensus pattern (13 bp):
TTTCTCTCATTTC
Found at i:344131 original size:511 final size:509
Alignment explanation
Indices: 343365--344472 Score: 1103
Period size: 511 Copynumber: 2.2 Consensus size: 509
343355 AAAAAGCCTC
* ** * * * **
343365 GTTACTTGCTTTAAATAATTTTATAATCTTATAAATGATTTTTAAGCAAAATCTTTTTTGTTTTT
1 GTTACTTGCTTTTAATTGTTCTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTT
* * * * * **
343430 GGTTAAAATCAATCTTAATTGGACGTTTGCATTGGGAAACATGAAGTGAATGCTATCATTAATAA
66 GGTTAAAATCAATCATAATTGGACATTTACATTAGGAAACATGAAGTAAAAACTATCATTAATAA
* * * * *
343495 GAAAAGTCCATTTATAGCCACTCTAGTACCATCGAAAGCCTTGTTAGTTTCTTTAAATGCATTTA
131 GAAAAGTCCATTTACAGCCAATCTAGTACCATCGAAAACCTTGTTAATTACTTTAAATGCATTTA
* * * *** * *
343560 TGTTTTATGAATGATTTTAAATTGAAATATTTGTCTTTTGTTAAAACATATCATAATTGGATGTT
196 TATCTTATAAATGATTTTAAAACAAAATATTTGTATTTTGTTAAAACA-ATCAAAATTGGATGTT
*
343625 TGCATTAAGAAACATAAAGCAGA-AGCCATTC-ATTAACAAGAAA-AGTCCATTTATAGTCAGTC
260 TGCATTAAGAAACATAAAGCAGATA-CCA-TCAATTAACAAGAAATA-TCAATTTATAGTCAGTC
* ** * * * * *
343687 ATGCCTTTGAAAGGCTTATTACTTGCTTTAAGTAGTTTTATAATTTAATAAATAATTTATA-ATC
322 ATGCCATCAAAAGCCCTATTACTTACTTTAAATAATTTTATAATTTAATAAATAATTT-TAGATC
* * *
343751 AAAATCTTCTTAT-TTTTT-GTTTAAAA-ATCAATCATAATTGGATGTTTGCATCAAGAAACACG
386 AAAATCTT-TTATGTTTTTAG-GTAAAACA--AATCACAATTGGATGTTTGAATCAAGAAACACG
* * * * *
343813 AAGCAGATGCTAGCCATTGACAAG-AAAAGTCCATTTGTAGTCACTCAAACTATTG-AAAGCTTT
447 AAGCAGATGCCAGCCATTGA-AAGAAAAAGTCCATTTCTAGTCACTCAAACCATCGAAAATC-TT
343876 GTTACTTGCTTTTAATTGTTCTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTT
1 GTTACTTGCTTTTAATTGTTCTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTT
* * * * ** * * *
343941 GGTTAACATCGATCATATTTGGATATTTACATTAGGAAATGTGGAGTAAAAACTATCTTTTGATA
66 GGTTAAAATCAATCATAATTGGACATTTACATTAGGAAACATGAAGTAAAAACTATC-ATTAATA
* * * * * **
344006 AGAAAAGTCTATTTACAGTCAATC-A-TGCCTTCGAAAACTTTG-TAATTCACTTTAAATGGTTT
130 AGAAAAGTCCATTTACAGCCAATCTAGTACCATCGAAAACCTTGTTAATT-ACTTTAAATGCATT
* *
344068 TATAATCTTATAAATGATTTTAAAACAAAATTTTTTTATTTTGGTTAAAATC-ATCAAAATTGGA
194 TAT-ATCTTATAAATGATTTTAAAACAAAATATTTGTATTTT-GTTAAAA-CAATCAAAATTGGA
* * ** * ** * *
344132 TGTTTTCGTTTGGAAACATGAAGTGGATACCATCAATTGACAAGAAATATCAATTTATAGTCATT
256 TGTTTGCATTAAGAAACATAAAGCAGATACCATCAATTAACAAGAAATATCAATTTATAGTCAGT
* * * *
344197 CATGCCATCAAAAGCCCTATTGCTTACTTTAAATAATTTTATAATTTTATAAATGATTTTAGGTC
321 CATGCCATCAAAAGCCCTATTACTTACTTTAAATAATTTTATAATTTAATAAATAATTTTAGATC
* * *
344262 AAAATCTTTTTTGTTTTTAGGTAAAACAAATTACAATTGGATGTTTGAATCAAGAAACATGAAGC
386 AAAATCTTTTATGTTTTTAGGTAAAACAAATCACAATTGGATGTTTGAATCAAGAAACACGAAGC
* * * *
344327 GGATGCCATCCATTGATAGAAAAAGTCCATTTCTAGTCACTCAAGCCATCGAAAATCTT
451 AGATGCCAGCCATTGAAAGAAAAAGTCCATTTCTAGTCACTCAAACCATCGAAAATCTT
* * * * * * * **
344386 ATTACGTGC-TTTAAATGATACTATAAT-TTGTAAATAATTTTAAGTTGAAATCTTTTTCATTTT
1 GTTACTTGCTTTTAATTG-TTCTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTT
* * *
344449 TGCTTCAAATAAATCATAATTGGA
65 TGGTTAAAATCAATCATAATTGGA
344473 TGTTTGCATT
Statistics
Matches: 484, Mismatches: 98, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
509 62 0.13
510 124 0.26
511 261 0.54
512 36 0.07
513 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (509 bp):
GTTACTTGCTTTTAATTGTTCTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTT
GGTTAAAATCAATCATAATTGGACATTTACATTAGGAAACATGAAGTAAAAACTATCATTAATAA
GAAAAGTCCATTTACAGCCAATCTAGTACCATCGAAAACCTTGTTAATTACTTTAAATGCATTTA
TATCTTATAAATGATTTTAAAACAAAATATTTGTATTTTGTTAAAACAATCAAAATTGGATGTTT
GCATTAAGAAACATAAAGCAGATACCATCAATTAACAAGAAATATCAATTTATAGTCAGTCATGC
CATCAAAAGCCCTATTACTTACTTTAAATAATTTTATAATTTAATAAATAATTTTAGATCAAAAT
CTTTTATGTTTTTAGGTAAAACAAATCACAATTGGATGTTTGAATCAAGAAACACGAAGCAGATG
CCAGCCATTGAAAGAAAAAGTCCATTTCTAGTCACTCAAACCATCGAAAATCTT
Found at i:344400 original size:171 final size:170
Alignment explanation
Indices: 343091--344875 Score: 836
Period size: 171 Copynumber: 10.5 Consensus size: 170
343081 ATTTTGCTTC
* * ** ** * * * * * *
343091 AAACAGATCATAATTGGATG-TTGCAATGGGAAACGCGAAGCAAAAGCCATTCTTTGACAAGAGA
1 AAACAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGAAA
* * ** * * * * * *
343155 AGTCCATTTATAATCACTCAGGCTTTC-AAAAGTCTTGTTACTTGCTCTAAGTGATTTTATAATC
66 AGTCCATTTATAGTCACTCAAGCCATCGAAAA-CCTTATTACTTGCTTTAAATAATTTTATAATT
* ** * *
343219 TTATAAATGATTTTAAGT-TGAATTTTTTTTTTCATTTTGGTTA
130 TTATAAATGATTTTAAATCAAAATCTTTTTTGT--TTTTGG-TA
* * * * * * * * *
343262 AAACAACTCATTATTTGATGTTTGCATTAGGAAACATAAAG-TGAAAGCTATCCATT-AGCAAGA
1 AAACAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAG-ATGCCATCCATTGA-TAAGA
** * * * **
343325 AAAGTTTATTTATAGTCACTCATA-TCTTCAAAAAAGCCTCGTTACTTGCTTTAAATAATTTTAT
64 AAAGTCCATTTATAGTCACTCA-AGCCATC-GAAAA-CCTTATTACTTGCTTTAAATAATTTTAT
* * *
343389 AATCTTATAAATGATTTTTAAGCAAAATCTTTTTTGTTTTTGGTTA
126 AATTTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGG-TA
* * ** * * *
343435 AAATC-AATCTTAATTGGACGTTTGCATTGGGAAACATGAAG-TGAATGCTAT-CATTAATAAGA
1 AAA-CAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAG-ATGCCATCCATTGATAAGA
* * * * * * *
343497 AAAGTCCATTTATAGCCACTCTAGTACCATCGAAAGCCTTGTTAGTTTCTTTAAATGCA-TTTAT
64 AAAGTCCATTTATAGTCACTCAAG--CCATCGAAAACCTTATTACTTGCTTTAAAT-AATTTTAT
* * ** * *
343561 -GTTTTATGAATGATTTTAAATTGAAA---TATTTGTCTTTTGTTA
126 AATTTTATAAATGATTTTAAATCAAAATCTTTTTTGT-TTTTGGTA
* * * * * *
343603 AAACATATCATAATTGGATGTTTGCATTAAGAAACATAAAGCAGAAGCCATTCATTAACAAGAAA
1 AAACAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGAAA
* * * * ** * *
343668 AGTCCATTTATAGTCAGTCATGCCTTTGAAAGGCTTATTACTTGCTTTAAGTAGTTTTATAATTT
66 AGTCCATTTATAGTCACTCAAGCCATCGAAAACCTTATTACTTGCTTTAAATAATTTTATAATTT
* * * *
343733 AATAAAT-AATTTATAATCAAAATCTTCTTAT-TTTTTGTTTA
131 TATAAATGATTTTA-AATCAAAATCTT-TTTTGTTTTTG-GTA
* * * * *
343774 AAA-ATCAATCATAATTGGATGTTTGCATCAAGAAACACGAAGCAGATGCTAGCCATTGACAAGA
1 AAACA--AATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGA
* * * * * * * * ** *
343838 AAAGTCCATTTGTAGTCACTCAAACTATTGAAAGCTTTGTTACTTGCTTTTAATTGTTCTATAAT
64 AAAGTCCATTTATAGTCACTCAAGCCATCGAAAACCTTATTACTTGCTTTAAATAATTTTATAAT
* **
343903 CTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGT-
129 TTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTA
* * * * * * ** * * * ** * **
343944 TAACATCGATCATATTTGGATATTTACATTAGGAAATGTGGAGTAAAAACTATCTTTTGATAAGA
1 AAACA--AATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGA
* * * * * * * **
344009 AAAGTCTATTTACAGTCAATCATGCCTTCGAAAA-CTT-TGTAATTCACTTTAAATGGTTTTATA
64 AAAGTCCATTTATAGTCACTCAAGCCATCGAAAACCTTAT-TACTT-GCTTTAAATAATTTTATA
* * *
344072 ATCTTATAAATGATTTTAAAACAAAAT-TTTTTT-ATTTTGGTTA
127 ATTTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGG-TA
* * * ** ** * * *
344115 AAATC--ATCAAAATTGGATGTTTTCGTTTGGAAACATGAAGTGGATACCATCAATTGACAAGAA
1 AAA-CAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGAA
* * * * * *
344178 ATA-TCAATTTATAGTCATTCATGCCATC-AAAAGCCCTATTGCTTACTTTAAATAATTTTATAA
65 A-AGTCCATTTATAGTCACTCAAGCCATCGAAAA-CCTTATTACTTGCTTTAAATAATTTTATAA
**
344241 TTTTATAAATGATTTTAGGTCAAAATCTTTTTTGTTTTTAGGTA
128 TTTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTT-GGTA
* * * * *
344285 AAACAAATTACAATTGGATGTTTGAATCAAGAAACATGAAGCGGATGCCATCCATTGAT-AGAAA
1 AAACAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAG-AA
* * * * **
344349 AAGTCCATTTCTAGTCACTCAAGCCATCGAAAATCTTATTACGTGCTTTAAATGATACTATAA-T
65 AAGTCCATTTATAGTCACTCAAGCCATCGAAAACCTTATTACTTGCTTTAAATAATTTTATAATT
* * * ** ** * *
344413 TTGTAAATAATTTTAAGTTGAAATCTTTTTCATTTTTGCTTC
130 TTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTG-GTA
* * * * * * * *
344455 AAATAAATCATAATTGGATGTTTGCATTGAGAAA-GTAAAGCAAAAGTCATCCATTGACAA-AAA
1 AAACAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGAAA
* * *** * * * **
344518 ATGTCCATTTATAGTCAATCACGTTTTC-AATAGCCTTGTTACTCGCTTTAAATGGTTTTATAAT
66 A-GTCCATTTATAGTCACTCAAGCCATCGAA-AACCTTATTACTTGCTTTAAATAATTTTATAAT
* * * * * *
344582 CTTACAAATAATTTTAAATTAAAATCTTCTTTGTATTTGGTTA
129 TTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGG-TA
** * ** * * ** * * * * * * * *
344625 AAATTAATTATAATTGGATGTTTTTATCAGGAAATTTAAAACGGGTGCCATCAATTAACAAGCAA
1 AAACAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGAAA
* ** * * * * ** *
344690 TGTCCATTTGCAGTCAACT-AAGCCAT-TAAAAGCCCTGTTA--TACGTTTAAATGGTTTTAAAA
66 AGTCCATTTATAGTC-ACTCAAGCCATCGAAAA-CCTTATTACTTGC-TTTAAATAATTTTATAA
* * * ** *
344751 TCTTATATATGATTTTCAATCAAAATCTTTTTCATTTTTGGCTCC
128 TTTTATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGG-T-A
* * * * * * **
344796 AATC-AATAATAATTGGATGTTAT-CATCAATAAACGTGAAGCAAAAACCATCCATTGATAAGAA
1 AAACAAATCATAATTGGATGTT-TGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGAA
344859 AAGTCCATTTATAGTCA
65 AAGTCCATTTATAGTCA
344876 TCCATGCCTT
Statistics
Matches: 1228, Mismatches: 325, Indels: 124
0.73 0.19 0.07
Matches are distributed among these distances:
167 38 0.03
168 169 0.14
169 120 0.10
170 255 0.21
171 290 0.24
172 235 0.19
173 60 0.05
174 51 0.04
175 10 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (170 bp):
AAACAAATCATAATTGGATGTTTGCATTAAGAAACATGAAGCAGATGCCATCCATTGATAAGAAA
AGTCCATTTATAGTCACTCAAGCCATCGAAAACCTTATTACTTGCTTTAAATAATTTTATAATTT
TATAAATGATTTTAAATCAAAATCTTTTTTGTTTTTGGTA
Found at i:344812 original size:510 final size:508
Alignment explanation
Indices: 343775--344875 Score: 1091
Period size: 510 Copynumber: 2.2 Consensus size: 508
343765 TTTTGTTTAA
* * * * *
343775 AAATCAATCATAATTGGATGTTTGCATCAAGAAACACGAAGCAGATGCTAGCCATTGACAAGAAA
1 AAATCAATAATAATTGGATGTTTGCATCAAGAAACATGAAGCAGATGCCATCCATTGATAAGAAA
* * * * * * *
343840 AGTCCATTTGTAGTCACTCAAACTATTGAAAGCTTTGTTACTTGCTTTTAATTGTTCTATAATCT
66 AGTCCATTTATAGTCACTCAAACCATCGAAAGCTTTATTACGTGCTTTTAAATGTACTATAATCT
* * ** *
343905 TATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGTTAACATCGATCATATTTGGATATTTA
131 TATAAATAATTTTAAATCAAAATCTTTTTCATTTTTGCTTAACATAAATCATAATTGGATATTTA
** * ** * * *
343970 CATTAGGAAATGTGGAGTAAAAACTATCTTTTGATAAGAAAAGTCTATTTACAGTCAATCATGCC
196 CATTAGGAAATGTAAAGCAAAAACTATCCATTGACAAGAAAAGTCCATTTACAGTCAATCACGCC
* * * *
344035 TTCGAAAACTTTGTAATTCACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAAACAAAATT
261 TTCGAAAACCTTGTAACTCACTTTAAATGGTTTTATAATCTTACAAATAATTTTAAAACAAAATT
* * ** * **
344100 TTTTTATTTTGGTTAAAATCATCAAAATTGGATGTTTTCGTTTGGAAACATGAAGTGGATACCAT
326 TTTTTATTTTGGTTAAAATAATCAAAATTGGATGTTTTCATCAGGAAACATAAAACGGATACCAT
* * * * *
344165 CAATTGACAAGAAATATCAATTTATAGTCATTCATGCCATCAAAAGCCCTATTGCTTACTTTAAA
391 CAATTAACAAGAAATATCAATTTACAGTCACTCAAGCCATCAAAAGCCCTATT-CATACTTTAAA
* * * **
344230 TAATTTTATAATTTTATAAATGATTTTAGGTCAAAATCTTTTTTGTTTTTAGGT
455 TAATTTTAAAATCTTATAAATGATTTTAGATCAAAATCTTTTTCATTTTTAGGT
* * * * *
344284 AAAACAAATTACAATTGGATGTTTGAATCAAGAAACATGAAGCGGATGCCATCCATTGAT-AGAA
1 AAATC-AATAATAATTGGATGTTTGCATCAAGAAACATGAAGCAGATGCCATCCATTGATAAG-A
* * *
344348 AAAGTCCATTTCTAGTCACTCAAGCCATCGAAA-ATCTTATTACGTGC-TTTAAATGATACTATA
64 AAAGTCCATTTATAGTCACTCAAACCATCGAAAGCT-TTATTACGTGCTTTTAAATG-TACTATA
* * **
344411 AT-TTGTAAATAATTTTAAGTTGAAATCTTTTTCATTTTTGCTTCAA-ATAAATCATAATTGGAT
127 ATCTTATAAATAATTTTAAATCAAAATCTTTTTCATTTTTGCTT-AACATAAATCATAATTGGAT
* * * *
344474 GTTTGCATT-GAGAAA-GTAAAGC-AAAAGTCATCCATTGACAA-AAAATGTCCATTTATAGTCA
191 ATTTACATTAG-GAAATGTAAAGCAAAAACT-ATCCATTGACAAGAAAA-GTCCATTTACAGTCA
** * * *
344535 ATCACGTTTTC-AATAGCCTTGTTACTCGCTTTAAATGGTTTTATAATCTTACAAATAATTTTAA
253 ATCACGCCTTCGAA-AACCTTGTAACTCACTTTAAATGGTTTTATAATCTTACAAATAATTTTAA
** * * * **
344599 ATTAAAATCTTCTTTGTA-TTTGGTTAAAATTAATTATAATTGGATGTTTTTATCAGGAAATTTA
317 AACAAAAT-TT-TTT-TATTTTGGTTAAAA-TAATCAAAATTGGATGTTTTCATCAGGAAACATA
* * * * * * * *
344663 AAACGGGTGCCATCAATTAACAAGCAATGTCCATTTGCAGTCAACT-AAGCCATTAAAAGCCCTG
378 AAACGGATACCATCAATTAACAAGAAATATCAATTTACAGTC-ACTCAAGCCATCAAAAGCCCTA
** *
344727 TT-ATACGTTTAAATGGTTTTAAAATCTTATATATGATTTTCA-ATCAAAATCTTTTTCATTTTT
442 TTCATAC-TTTAAATAATTTTAAAATCTTATAAATGATTTT-AGATCAAAATCTTTTTCATTTTT
344790 -GGCT
505 AGG-T
* * * * **
344794 CCAATCAATAATAATTGGATGTTAT-CATCAATAAACGTGAAGCAAAAACCATCCATTGATAAGA
1 -AAATCAATAATAATTGGATGTT-TGCATCAAGAAACATGAAGCAGATGCCATCCATTGATAAGA
344858 AAAGTCCATTTATAGTCA
64 AAAGTCCATTTATAGTCA
344876 TCCATGCCTT
Statistics
Matches: 477, Mismatches: 95, Indels: 39
0.78 0.16 0.06
Matches are distributed among these distances:
507 11 0.02
508 84 0.18
509 81 0.17
510 217 0.45
511 82 0.17
512 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (508 bp):
AAATCAATAATAATTGGATGTTTGCATCAAGAAACATGAAGCAGATGCCATCCATTGATAAGAAA
AGTCCATTTATAGTCACTCAAACCATCGAAAGCTTTATTACGTGCTTTTAAATGTACTATAATCT
TATAAATAATTTTAAATCAAAATCTTTTTCATTTTTGCTTAACATAAATCATAATTGGATATTTA
CATTAGGAAATGTAAAGCAAAAACTATCCATTGACAAGAAAAGTCCATTTACAGTCAATCACGCC
TTCGAAAACCTTGTAACTCACTTTAAATGGTTTTATAATCTTACAAATAATTTTAAAACAAAATT
TTTTTATTTTGGTTAAAATAATCAAAATTGGATGTTTTCATCAGGAAACATAAAACGGATACCAT
CAATTAACAAGAAATATCAATTTACAGTCACTCAAGCCATCAAAAGCCCTATTCATACTTTAAAT
AATTTTAAAATCTTATAAATGATTTTAGATCAAAATCTTTTTCATTTTTAGGT
Found at i:347833 original size:80 final size:80
Alignment explanation
Indices: 347627--347836 Score: 273
Period size: 80 Copynumber: 2.6 Consensus size: 80
347617 TTGTAACATG
* * * *
347627 TATGCCATGAGATGTGTGTGTTAAG-TATATCATACACACTATGGGCAAAGCATGTAAGTGGTTT
1 TATGCCATGAGATGTATGTGTTAAGATA-ATCATATACACTATGGGCTAAGCATGTAAGTGATTT
* *
347691 TTGAGGTTATGAAATG
65 ATGAGGTTATGAAATA
* * * *
347707 TATGGCATGAGATGTATGTGATGAGATAGTCATATACACTATGGGCTAAG-AGTGTAAGTGATTT
1 TATGCCATGAGATGTATGTGTTAAGATAATCATATACACTATGGGCTAAGCA-TGTAAGTGATTT
347771 ATGTA-GTTATGAAATA
65 ATG-AGGTTATGAAATA
*
347787 TATGCCATGAGATGTATATGTTAAGATAATCATATACACTATGGGCTAAG
1 TATGCCATGAGATGTATGTGTTAAGATAATCATATACACTATGGGCTAAG
347837 TATGATGATA
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 108 0.96
81 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (80 bp):
TATGCCATGAGATGTATGTGTTAAGATAATCATATACACTATGGGCTAAGCATGTAAGTGATTTA
TGAGGTTATGAAATA
Found at i:352248 original size:51 final size:51
Alignment explanation
Indices: 352189--352291 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
352179 CATTGGCTAA
352189 TGTATCGATCCATTTTGTTGATTTTAGAAAAATAAAAAGGGTGAAAACGTG
1 TGTATCGATCCATTTTGTTGATTTTAGAAAAATAAAAAGGGTGAAAACGTG
352240 TGTATCGATCCATTTTGTTGATTTTAGAAAAATAAAAAGGGTGAAAACGTG
1 TGTATCGATCCATTTTGTTGATTTTAGAAAAATAAAAAGGGTGAAAACGTG
352291 T
1 T
352292 TTTCACACCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (51 bp):
TGTATCGATCCATTTTGTTGATTTTAGAAAAATAAAAAGGGTGAAAACGTG
Found at i:364736 original size:73 final size:73
Alignment explanation
Indices: 364602--364737 Score: 182
Period size: 73 Copynumber: 1.9 Consensus size: 73
364592 AACATTTCCA
* * * *
364602 CTTAGTCAATTAAGTAGTCTTTGTCTCTAAACTCAGTTTTTGGAAATAGGCTTTTAATCGACTAA
1 CTTAGTCAATTAAGTAGTCTTTGTCTCTAAACCCAGTTTCTGGAAATAAGCTCTTAATCGACTAA
364667 AAAAAGTT
66 AAAAAGTT
* * * * * *
364675 CTTAGTTAATTAAGTCGTTTTTGTCTCTAAACCCAGTTTCTGGCAGTAAGCTCTTAGTCGACT
1 CTTAGTCAATTAAGTAGTCTTTGTCTCTAAACCCAGTTTCTGGAAATAAGCTCTTAATCGACT
364738 GACACTGTCT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 53 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (73 bp):
CTTAGTCAATTAAGTAGTCTTTGTCTCTAAACCCAGTTTCTGGAAATAAGCTCTTAATCGACTAA
AAAAAGTT
Found at i:371006 original size:171 final size:171
Alignment explanation
Indices: 370315--373694 Score: 1856
Period size: 171 Copynumber: 19.8 Consensus size: 171
370305 TTTCGGATGC
* * * ** * *
370315 AAACATTCAATTTTGATTGATTTTAATCAAAAATGAAAAAGATTTTCATTAAAAATCATTTATAA
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATAA
* * * * * *
370380 GATTAT-AAACCATTTAAAGCGAGTAACAAGGCTTTCAAAGGCATCACTAACTATAAATGGACTT
66 GATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGACTT
* * * ** * * * *
370444 TTAC-TATCGATAGATATCTTTTGTTTCATGCTTTCC-AGTG-
131 TT-CTTGTCAATGGATGGCATTTGCTTCACG-TTTCCTAATGA
* * * * * * *******
370484 CAACATCCAAATCTAATATG-TTTTAA--AAAAAAATTAAAATGATTTTGATTTCAAANNNNNNN
1 AAACATCCAATTATGAT-TGATTTTAACCAAAAAAA--AAAAAGATTTTGATTTAAAATCATTTA
*** * ** * * * *
370546 NNNGATTATAGAACCATTTAAAGCAAGTAACAAGATTTTTGAAAGG-ATGACTAACTACAAATGG
63 TAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTT-AATGGCATGAGTGACTATAAATGG
* * * ** ** * *
370610 ACATTCCTTGTCAATGGATGGCATCTATTTCTTGTTTCTTGATGA
127 ACTTTTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCTAATGA
* * * *** *
370655 GAACATCTAATTATGATCGA-TTTAACCAAAAAGGGAAAAGATTTT-ATTTTAAAATTATTTATA
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGA-TTTAAAATCATTTATA
* * *** * * * * *
370718 ACATTATAAAACTATTTAAATTGAGTTACAAGGCTTTCGT-A-GGTATTACTAACTATAAATGGA
65 AGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTT--TAATGGCATGAGTGACTATAAATGGA
* * **** * *
370781 CTTTTCTTATTAATGGAATATTTTTTGCTTCATGTTTTCC-AATGT
128 CTTTTCTTGTCAATGG-ATGGCATTTGCTTCACG-TTTCCTAATGA
* * * * **
370826 AAACATCCAATTATGGTCGATTTTAATCAAAAAAAAAAAAGAGTTTGATTTAAAATCATTTATCG
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATAA
* * * * * * *
370891 GATTATGAAACCATTTAAAGCCTA-TAATAAGGCTTTTAATGGCTTGAATGACTACAAATGGACA
66 GATTATAAAACCATTTAAAG-CAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGACT
* *
370955 TTTCTTGTCAATGGATGGCATCTGCTTCACATTTCCTAATGA
130 TTTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCTAATGA
* ** * * ** *
370997 AAACATCCAATTATGATTGATTTTAACCAAACATGAAGAATATTTTGATTTGGAATCATTTATAT
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATAA
* * * ** * * * *
371062 GACTATAAAACTATTTAAAGCGAGTAACAAGATTTTTAAAGGTA-GTACTGACTATAAATGGCCT
66 GATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATG-AGTGACTATAAATGGACT
* * * ** *
371126 TTTCTTGTCAATGAATGTCTTATATGC--CATATTT-CTCGAT-A
130 TTTCTTGTCAATGGATGGC--ATTTGCTTCACGTTTCCT-AATGA
** ** *
371167 CAAACATCCCTTTATGATCTG-TTTTAATGAAAAATGAAAAAAAAAGATTTTGATTTAAAATCTT
1 -AAACATCCAATTATGAT-TGATTTTAA--CCAAA--AAAAAAAAAGATTTTGATTTAAAATCAT
* * * * *
371231 TTATCA-ATTATAAAACCATTTAAAGCAACTAATAAGGCTTTTAATGTCAAGAGAGTGACTATAA
60 TTATAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGC-A-TGAGTGACTATAA
** * * * *
371295 ATAAACTTTTCTTGTAAATGGATGGCATTTGCTTGACGTTTCCTAGTGT
123 ATGGACTTTTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCTAATGA
* * ** *
371344 AAATATCCAATTATTATTGATTTTAACCAAAACCAAAAAAGATTTTGATTAAAAATC-TTTCATA
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTT-ATA
* * * * *
371408 AGAATATAAAATCATTTAAAGCAAGTAACACA-ACTTTTAAAGGCATGAGTGATTATAAATGGAC
65 AGATTATAAAACCATTTAAAGCAAGTAACA-AGGCTTTTAATGGCATGAGTGACTATAAATGGAC
* *
371472 TTTTCTTGTCAATGGATGG-TTTTGCTTCATC-TTTCCAAATG-
129 TTTTCTTGTCAATGGATGGCATTTGCTTCA-CGTTTCCTAATGA
* * * * * **
371513 CAACATCTAATTATGATTTG-TTTTAAAC-AAGAAAAAAAATATTTCAATTGT--AATCATTTAT
1 AAACATCCAATTATGA-TTGATTTTAACCAAAAAAAAAAAAGATTTTGATT-TAAAATCATTTAT
* * * ** * *
371574 ATGATTTTAAAAACATTTAAAGTGAGTAACTAA-GCTTCTGATGGCATGAGTGACTATAAATGGA
64 AAGATTATAAAACCATTTAAAGCAAGTAAC-AAGGCTTTTAATGGCATGAGTGACTATAAATGGA
** * * *
371638 CTTTT-TATGTCAATGGATGGCATTCACCTCATGTTTCCCAAT-A
128 CTTTTCT-TGTCAATGGATGGCATTTGCTTCACGTTTCCTAATGA
* * * * * ** * *
371681 CAAACATCCAAATCTAATCTG-TTTTAACCAAAAATGAAAAAA-ATTTTGATTCAAAGCCTTTTC
1 -AAACATCCAATTATGAT-TGATTTTAACCAAAAA-AAAAAAAGATTTTGATTTAAAATCATTTA
* * ** * *
371744 TAAAATTATAAAACTATTTAAAATAAGTAACAAGGCTTTCGAA-GGCATGCA-TGACTATAAATA
63 TAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTT-TAATGGCATG-AGTGACTATAAATG
* * * * * * * *
371807 GACTTTTCTTATTAGTGGATGGCATTGGATTCATGTTTTC-AATTGG
126 GACTTTTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCTAA-TGA
* * * * * **
371853 AAACATGCAATTATGATTGATTTAAACCAAAGACAAAGAAGA-TTCAATTTAAAATCATTTATAA
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATAA
* * * * *
371917 GATTACAAAACCATTTAAAGCAAGTAATAAAGCTTTTGATTGCATGAGTGACTATAAATGGA-TA
66 GATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGACT-
** * * **
371981 TTTCTCATCAATGGAT-GCCTTTCACTTCACGTTTTTTAAT-A
130 TTTCTTGTCAATGGATGGCATTT-GCTTCACGTTTCCTAATGA
** * * ** *
372022 TAAACATTTAATGATGATCTG-TTTTAACTAAAAATGAAAAAG-TTTTCAATTTAAAATCATTTA
1 -AAACATCCAATTATGAT-TGATTTTAACCAAAAAAAAAAAAGATTTT-GATTTAAAATCATTTA
* * * * * * * *** *
372085 T-ATATTGTAATATCATTTCAAGCAAGAAACAAAGCTTCCCATGGCATGGGTGACTATAAATGGA
63 TAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGA
* * *
372149 -TATTTCTTGTCAATGGATGGCATCTGCTTCTA-GTTTCCCAATGC
128 CT-TTTCTTGTCAATGGATGGCATTTGCTTC-ACGTTTCCTAATGA
* * **
372193 AAACATCCAATTATGATTGATTTTAACTATAAAGGAAAAAGATTTTGA-TTAAAAGTCATTTATA
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAA-TCATTTATA
* * *
372257 AGATCATAAAAGCATTTAAAGTC-AGTAACAAGGCTTTCGAA-GGCATGAGTGACTATAAATGGA
65 AGATTATAAAACCATTTAAAG-CAAGTAACAAGGCTTT-TAATGGCATGAGTGACTATAAATGGA
* ** *
372320 CTTTTCTTGCCAATGGATGGGTTTTGCTTCACATTT-CTAAATG-
128 CTTTTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCT-AATGA
* * ** * ** * * *
372363 CAACATCCAATTATGGTATG-TTTTAAGTAAGAATGAAAAAGATTTCGATTTTAAATAATTTATA
1 AAACATCCAATTATGAT-TGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATA
* * * * * *
372427 TGATTAAAAAACCATTTAAACCAAGTAACTAGGCTTTTGAAT-GCATGACTGACTAGAAATGGAC
65 AGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTT-AATGGCATGAGTGACTATAAATGGAC
* * * ** *
372491 TTTTCTTGTCAATGGATGGC-TCTCGTTTCACATTTTTTAATGC
129 TTTTCTTGTCAATGGATGGCAT-TTGCTTCACGTTTCCTAATGA
* * * * *
372534 ACACATCGAATTATGATTGATTTTAACCAAAAACAGAAAAG-TGTTTTATTTAAAAT-ATTTTAT
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGAT-TTTGATTTAAAATCA-TTTAT
* * * ** * * * *
372597 AAGATTATAAAACTAGTTAAAGCGAGTAACAA-G-TTTATCGAA-GAAATAACTAACTATGAATG
64 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTT-T--AATGGCATGAGTGACTATAAATG
* * ***
372659 AACTTTTCTTGTCAATGGATGGC-TTTCCCTTCATAC-TTATCAGCAT--
126 GACTTTTCTTGTCAATGGATGGCATTT-GCTTC--ACGTT-TCCTAATGA
* * * ** * *
372705 AAACATCCAATTGTGATCT-ATTTTAACTAAAAACAAAAAAGATTTCAATTTAAAATCTTTTGTA
1 AAACATCCAATTATGAT-TGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATA
* * * * * * * ** *
372769 A-ATTATAATATCATTTATAGCGAGAAACAAGACTTTTGATGGCATGAAAGACTATAATTGGACA
65 AGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGAC-
* * *** * * * *
372833 TTTTTTTGTCCATGGATGGCATCCACTTCACGATTCCAAAAGG
129 TTTTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCTAATGA
* * * * * * *
372876 AAACATCCAAATGTAATCTG-TTTTAA-TAAAAAATGGAAACA-ATTTTGATTTAAAGTCATTTA
1 AAACATCCAATTATGAT-TGATTTTAACCAAAAAA--AAAAAAGATTTTGATTTAAAATCATTTA
* * * * * * * * * * *
372938 CAATATTTTAAAACTATTTAAAGCAAATAACAAGGCTTTCAAAGACATGAGTGACTATATATAGT
63 TAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGA
* * * *
373003 CTTTTCTTGTCAGTGGATGGCATTCGCTTCATG-TTCC-AATTGC
128 CTTTTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCTAA-TGA
* * *** * * *
373046 AAACATCCAATTATGATCGATTTTAACTAAAGCCAAAGAAGATTTCGATTTAAAATTATTTATAA
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATAA
* * * *
373111 AATTATAAAACCATTTAACGCAAGTAACAAGGCTTTTGATGGCATGAGTGACTATAAATAGG-CA
66 GATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAAT-GGACT
* * * * * *
373175 TTTCTTATCAATGGATGACTTTTAG-TTCATGTTT-CAAGATGC
130 TTTCTTGTCAATGGATGGCATTT-GCTTCACGTTTCCTA-ATGA
* * * * * * ** *
373217 ATACAACTATTTATGATCT-ATTTTAACTAAAAACAGAAAAAA-AATTCAATTTAAAATTATTTA
1 AAACATCCAATTATGAT-TGATTTTAACCAAAAA-A-AAAAAAGATTTTGATTTAAAATCATTTA
* * * ** * * * *
373280 TAA-ATTATAATATCATTTAAAGAAAAAAAAGTAAGGTTTTTGATGGCATGGGTGA-TAATAAAT
63 TAAGATTATAAAACCATTTAAAG-CAAGTAA-CAAGGCTTTTAATGGCATGAGTGACT-ATAAAT
* ** * *
373343 GGACTTTTCTTG-CTAATGGATGGCATCTATTTCACATTTCGC-AATGC
125 GGACTTTTCTTGTC-AATGGATGGCATTTGCTTCACGTTTC-CTAATGA
*** * * * * *
373390 AAACATCCAAACGTAATTTG-TTTTCACTAAAAACAAAAAATATTTTGATTTAAAA-CTATTTAT
1 AAACATCCAATTATGA-TTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATC-ATTTAT
* *
373453 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAAT--CTATTAAGTGACTACAAATGG
64 AAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGC-A-TGAGTGACTATAAATGG
* * * * *
373516 ACATTTCTTGTCAATGGATGTCATCTGGTTCACGTTT-CTCGATGCA
127 ACTTTTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCT-AATG-A
** * *
373562 AAA-ATCCAATTATGATTGATTTTAACCAAAAACGAAAAAGATTTTGATTAAAAATCAATTATAA
1 AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATAA
* *** ** * * *
373626 GATTATAAAACAATTTAAAGTGTGTAACAAGGCTTTCGACGGCATAAGTGACTATAAATGAACTT
66 GATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGACTT
373691 TTCT
131 TTCT
373695 NNNNNNNNNN
Statistics
Matches: 2434, Mismatches: 619, Indels: 314
0.72 0.18 0.09
Matches are distributed among these distances:
166 1 0.00
167 80 0.03
168 34 0.01
169 121 0.05
170 738 0.30
171 934 0.38
172 250 0.10
173 148 0.06
174 43 0.02
175 28 0.01
176 54 0.02
177 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (171 bp):
AAACATCCAATTATGATTGATTTTAACCAAAAAAAAAAAAGATTTTGATTTAAAATCATTTATAA
GATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGACTT
TTCTTGTCAATGGATGGCATTTGCTTCACGTTTCCTAATGA
Found at i:371365 original size:347 final size:346
Alignment explanation
Indices: 370857--371485 Score: 824
Period size: 347 Copynumber: 1.8 Consensus size: 346
370847 TTTAATCAAA
* * *
370857 AAAAAAAAAGAGTTTGATTTAAAATCATTTATCGGATTATGAAACCATTTAAAGCCTATAATAAG
1 AAAAAAAAAGAGTTTGATTTAAAATCATTTATCGAATTATAAAACCATTTAAAGCCAATAATAAG
** ** *
370922 GCTTTTAATGGCTTGAATGACTACAAATGGACATTTCTTGTCAATGGATGGCATCTGCTTCACAT
66 GCTTTTAATGGCAAGAATGACTACAAATAAACATTTCTTGTAAATGGATGGCATCTGCTTCACAT
* * ***
370987 TTCCTAATGAAAACATCCAATTATGATTGATTTTAACC-AAA-CATGAAGAATATTTTGATTTGG
131 TTCCTAATGAAAACATCCAATTATGATTGATTTTAACCAAAACCA--AAAAAGATTTTGATTAAA
* * * * *
371050 AATCATTT-ATATGACTATAAAA-CTATTTAAAGCGAGTAACA-AGATTTTTAAAGGTA-GTACT
194 AATC-TTTCATAAGAATATAAAATC-ATTTAAAGCAAGTAACACA-ACTTTTAAAGGCATG-ACT
*
371111 GACTATAAATGGCCTTTTCTTGTCAATGAATGTCTTATATGCCATATTTCTCGATACAAACATCC
255 GACTATAAATGGACTTTTCTTGTCAATGAATGTCTTATATGCCATATTTCTCGATACAAACATCC
371176 CTTTATGATCTGTTTTAATGAAAAATG
320 CTTTATGATCTGTTTTAATGAAAAATG
* *
371203 AAAAAAAAAGATTTTGATTTAAAATCTTTTATC-AATTATAAAACCATTTAAAG-CAACTAATAA
1 AAAAAAAAAGAGTTTGATTTAAAATCATTTATCGAATTATAAAACCATTTAAAGCCAA-TAATAA
* * * * *
371266 GGCTTTTAATGTCAAGAGAGTGACTATAAATAAACTTTTCTTGTAAATGGATGGCATTTGCTTGA
65 GGCTTTTAATGGCAAGA-A-TGACTACAAATAAACATTTCTTGTAAATGGATGGCATCTGCTTCA
* * * * *
371331 CGTTTCCTAGTGTAAATATCCAATTATTATTGATTTTAACCAAAACCAAAAAAGATTTTGATTAA
128 CATTTCCTAATGAAAACATCCAATTATGATTGATTTTAACCAAAACCAAAAAAGATTTTGATTAA
* *
371396 AAATCTTTCATAAGAATATAAAATCATTTAAAGCAAGTAACACAACTTTTAAAGGCATGAGTGAT
193 AAATCTTTCATAAGAATATAAAATCATTTAAAGCAAGTAACACAACTTTTAAAGGCATGACTGAC
371461 TATAAATGGACTTTTCTTGTCAATG
258 TATAAATGGACTTTTCTTGTCAATG
371486 GATGGTTTTG
Statistics
Matches: 241, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
344 2 0.01
345 38 0.16
346 35 0.15
347 158 0.66
348 6 0.02
349 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (346 bp):
AAAAAAAAAGAGTTTGATTTAAAATCATTTATCGAATTATAAAACCATTTAAAGCCAATAATAAG
GCTTTTAATGGCAAGAATGACTACAAATAAACATTTCTTGTAAATGGATGGCATCTGCTTCACAT
TTCCTAATGAAAACATCCAATTATGATTGATTTTAACCAAAACCAAAAAAGATTTTGATTAAAAA
TCTTTCATAAGAATATAAAATCATTTAAAGCAAGTAACACAACTTTTAAAGGCATGACTGACTAT
AAATGGACTTTTCTTGTCAATGAATGTCTTATATGCCATATTTCTCGATACAAACATCCCTTTAT
GATCTGTTTTAATGAAAAATG
Found at i:372336 original size:341 final size:338
Alignment explanation
Indices: 370806--373694 Score: 1636
Period size: 341 Copynumber: 8.5 Consensus size: 338
370796 GAATATTTTT
* * * * * *
370806 TGCTTCATGTTTTCC-AATGTAAACATCCAATTATGGTCGATTTTAA-TCAAAAAAAAAAAAGAG
1 TGCTTCACG-TTTCCAAATGCAAACATCCAATTATGATTGATTTTAACT-AAAAAAGAAAAAGAT
** * * * * *
370869 TTTGATTTAAAATCATTTATCGGATTATGAAACCATTTAAAGCCTA-TAATAAGGCTTT-TAATG
64 TTTGA-TTAAAATCATTTATAAGATTATAAAACTATTTAAAG-CAAGTAACAAGGCTTTCGAA-G
* * * * * * *
370932 GCTTGAATGACTACAAATGGACATTTCTTGTCAATGGATGGC-ATCTGCTTCACATTTCCTAATG
126 GCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC-ACTTCACTTTTCC-AAT-
* * * ** * * * **
370996 A-AAACATCCAATTATGAT-TGATTTTAACCAAACATGAAGAATATTTTGATTTGGAATCATTTA
188 ATAAACATCCAATGATGATCTG-TTTTAACTAAAAACCAAAAAGATTTCGATTTAAAATCATTTA
* * * * ** * * *
371059 TATGACTATAAAACTATTTAAAGCGAGTAACAAGATTTTTAAAGGTA-GTACTGACTATAAATGG
252 TA-AATTATAAAACCATTT-AAGCAAGTAACAAGGCTTTTAATGGCATG-AGTGACTATAAATGG
* * * * *
371123 CCTTTTCTTGTCAATGAATGTCTTATA
314 ACATTTCTTGTCAATGGATGGC--ATC
** * * ** *
371150 TGC--CATATTTCTC-GATACAAACATCCCTTTATGATCTG-TTTTAA-TGAAAAATGAAAAAAA
1 TGCTTCACGTTTC-CAAATGCAAACATCCAATTATGAT-TGATTTTAACT---AAA--AAAGAAA
* * * * * *
371210 AAGATTTTGATTTAAAATCTTTTATCA-ATTATAAAACCATTTAAAGCAACTAATAAGGCTTT-T
59 AAGATTTTGA-TTAAAATCATTTATAAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTTCG
* * ** * * * *
371273 AATGTCAAGAGAGTGACTATAAATAAACTTTTCTTGTAAATGGATGGCATTT-GCTTGACGTTTC
123 AA-GGC-A-TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGC-TTTCACTTCACTTTTC
* * * * * * * *
371337 CTAGTGTAAATATCCAATTATTAT-TGATTTTAAC-CAAAACCAAAAAAGATTTTGATTAAAAAT
184 C-AATATAAACATCCAATGATGATCTG-TTTTAACTAAAAACC-AAAAAGATTTCGATTTAAAAT
* * * * *
371400 C-TTTCATAAGAATATAAAATCATTTAAAGCAAGTAACACA-ACTTTTAAAGGCATGAGTGATTA
246 CATTT-ATAA-ATTATAAAACCATTT-AAGCAAGTAACA-AGGCTTTTAATGGCATGAGTGACTA
* * *
371463 TAAATGGACTTTTCTTGTCAATGGATGG-TTT
307 TAAATGGACATTTCTTGTCAATGGATGGCATC
* * *
371494 TGCTTCATC-TTTCCAAATGC-AACATCTAATTATGATTTG-TTTTAAAC-AAGAAA-AAAAATA
1 TGCTTCA-CGTTTCCAAATGCAAACATCCAATTATGA-TTGATTTT-AACTAAAAAAGAAAAAGA
** ** * * ** *
371554 TTTCAATTGTAATCATTTATATGATTTTAAAAAC-ATTTAAAGTGAGTAACTAA-GC-TTCTGAT
63 TTTTGATTAAAATCATTTATAAGATTAT-AAAACTATTTAAAGCAAGTAAC-AAGGCTTTC-GAA
* *
371616 GGCATGAGTGACTATAAATGGACTTTT-TATGTCAATGGATGGCATTCACCTCA-TGTTTCCCAA
125 GGCATGAGTGACTATAAATGGACTTTTCT-TGTCAATGGATGGCTTTCACTTCACT-TTT-CCAA
* * * * ** * * * ** *
371679 TACAAACATCCAAAT-CTAATCTGTTTTAACCAAAAATGAAAAAAATTTTGATTCAAAGCCTTTT
187 TATAAACATCC-AATGATGATCTGTTTTAACTAAAAACCAAAAAGATTTCGATTTAAAATCATTT
* * ** *
371743 CTAAAATTATAAAACTATTTAAAATAAGTAACAAGGCTTTCGAA-GGCATGCA-TGACTATAAAT
251 AT-AAATTATAAAACCATTT-AAGCAAGTAACAAGGCTTT-TAATGGCATG-AGTGACTATAAAT
* * * * *
371806 AGACTTTTCTTATTAGTGGATGGCAT-
312 GGACATTTCTTGTCAATGGATGGCATC
* * * * * * * * * *
371832 TGGATTCATGTTTTCAATTGGAAACATGCAATTATGATTGATTTAAACCAAAGACA-AAGAAGA-
1 T-GCTTCACGTTTCCAAATGCAAACATCCAATTATGATTGATTTTAACTAAA-AAAGAAAAAGAT
** * * * * * **
371895 TTCAATTTAAAATCATTTATAAGATTACAAAACCATTTAAAGCAAGTAATAAAGCTTTTGATTGC
64 TTTGA-TTAAAATCATTTATAAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTTCGAAGGC
** * **
371960 ATGAGTGACTATAAATGGA-TATTTCTCATCAATGGATGCCTTTCACTTCACGTTTTTTAATATA
128 ATGAGTGACTATAAATGGACT-TTTCTTGTCAATGGATGGCTTTCACTTCAC-TTTTCCAATATA
** ** * * *
372024 AACATTTAATGATGATCTGTTTTAACTAAAAATGAAAAAGTTTTCAATTTAAAATCATTTATATA
191 AACATCCAATGATGATCTGTTTTAACTAAAAACCAAAAAGATTTCGATTTAAAATCATTTATAAA
* * * * * *** * *
372089 TTGTAATATCATTTCAAGCAAGAAACAAAGCTTCCCATGGCATGGGTGACTATAAATGGATATTT
256 TTATAAAACCATTT-AAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGACATTT
372154 CTTGTCAATGGATGGCATC
320 CTTGTCAATGGATGGCATC
* * *
372173 TGCTTCTA-GTTTCCCAATGCAAACATCCAATTATGATTGATTTTAACTATAAAGGAAAAAGATT
1 TGCTTC-ACGTTTCCAAATGCAAACATCCAATTATGATTGATTTTAACTAAAAAAGAAAAAGATT
*
372237 TTGATTAAAAGTCATTTATAAGATCATAAAAGC-ATTTAAAGTC-AGTAACAAGGCTTTCGAAGG
65 TTGATTAAAA-TCATTTATAAGATTATAAAA-CTATTTAAAG-CAAGTAACAAGGCTTTCGAAGG
* * ** * * *
372300 CATGAGTGACTATAAATGGACTTTTCTTGCCAATGGATGGGTTTTGCTTCACATTTCTAA-ATGC
127 CATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACTTTTCCAATAT-A
* * * * * ** * * *
372364 AACATCCAATTATGGTATGTTTTAAGTAAGAATGAAAAAGATTTCGATTTTAAATAATTTATATG
191 AACATCCAATGATGATCTGTTTTAACTAAAAACCAAAAAGATTTCGATTTAAAATCATTTATA-A
* * * * * *
372429 ATTAAAAAACCATTTAAACCAAGTAACTAGGCTTTTGAAT-GCATGACTGACTAGAAATGGACTT
255 ATTATAAAACCATTT-AAGCAAGTAACAAGGCTTTT-AATGGCATGAGTGACTATAAATGGACAT
372493 TTCTTGTCAATGGATGGC-TC
318 TTCTTGTCAATGGATGGCATC
* * *** * * *
372513 TCGTTTCACATTTTTTAATGCACACATCGAATTATGATTGATTTTAACCAAAAACAG-AAAAG-T
1 T-GCTTCACGTTTCCAAATGCAAACATCCAATTATGATTGATTTTAACTAAAAA-AGAAAAAGAT
* * * *
372576 GTTTTATTTAAAAT-ATTTTATAAGATTATAAAACTAGTTAAAGCGAGTAACAA-GTTTATCGAA
64 -TTTGA-TTAAAATCA-TTTATAAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTT-TCGAA
** * * * * * * * **
372639 GAAATAACTAACTATGAATGAACTTTTCTTGTCAATGGATGGCTTTCCCTTCATACTTAT-CAGC
125 GGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTC--ACTTTTCCAAT
* * * * *
372703 ATAAACATCCAATTG-TGATCTATTTTAACTAAAAACAAAAAAGATTTCAATTTAAAATCTTTTG
188 ATAAACATCCAA-TGATGATCTGTTTTAACTAAAAACCAAAAAGATTTCGATTTAAAATCATTTA
* * * * * * ** *
372767 TAAATTATAATATCATTTATAGCGAGAAACAAGACTTTTGATGGCATGAAAGACTATAATTGGAC
252 TAAATTATAAAACCATTTA-AGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGAC
* *
372832 ATTTTTTTGTCCATGGATGGCATC
316 A-TTTCTTGTCAATGGATGGCATC
** * * * * * * *
372856 CACTTCACGATTCCAAAAGGAAACATCCAAATGTAATCTG-TTTTAA-TAAAAAATGGAAACA-A
1 TGCTTCACGTTTCCAAATGCAAACATCCAATTATGAT-TGATTTTAACTAAAAAA--GAAAAAGA
* * * * * * *
372918 TTTTGATTTAAAGTCATTTACAATATTTTAAAACTATTTAAAGCAAATAACAAGGCTTTCAAAGA
63 TTTTGA-TTAAAATCATTTATAAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTTCGAAGG
* * * * * * *
372983 CATGAGTGACTATATATAGTCTTTTCTTGTCAGTGGATGGCATTCGCTTCA-TGTTCCAAT-TGC
127 CATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACTTTTCCAATAT--
* * *
373046 AAACATCCAATTATGATC-GATTTTAACT-AAAGCCAAAGAAGATTTCGATTTAAAATTATTTAT
190 AAACATCCAATGATGATCTG-TTTTAACTAAAAACCAAA-AAGATTTCGATTTAAAATCATTTAT
*
373109 AAAATTATAAAACCATTTAACGCAAGTAACAAGGCTTTTGATGGCATGAGTGACTATAAATAGG-
253 -AAATTATAAAACCATTTAA-GCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAAT-GGA
* * * *
373173 CATTTCTTATCAATGGATGACTTT
315 CATTTCTTGTCAATGGATGGCATC
* * * * * *
373197 TAG-TTCATGTTT-CAAGATGCATACAACTATTTATGATCT-ATTTTAACTAAAAACAGAAAAAA
1 T-GCTTCACGTTTCCAA-ATGCAAACATCCAATTATGAT-TGATTTTAACTAAAAA-AGAAAAAG
* ** * * * ** * * *
373259 AATTCAATTTAAAATTATTTATAA-ATTATAATA-TCATTTAAAGAAAAAAAAGTAAGGTTTTTG
62 ATTTTGA-TTAAAATCATTTATAAGATTATAAAACT-ATTTAAAG-CAAGTAA-CAAGGCTTTCG
* * * * *
373322 ATGGCATGGGTGA-TAATAAATGGACTTTTCTTG-CTAATGGATGGC-ATCTATTTCACATTTCG
123 AAGGCATGAGTGACT-ATAAATGGACTTTTCTTGTC-AATGGATGGCTTTC-ACTTCACTTTTC-
** * * * * * * *
373384 CAATGCAAACATCCAAACG-TAATTTGTTTTCACTAAAAACAAAAAATATTTTGATTTAAAA-CT
184 CAATATAAACATCC-AATGATGATCTGTTTTAACTAAAAACCAAAAAGATTTCGATTTAAAATC-
* *
373447 ATTTATAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTAAT--CTATTAAGTGACTAC
247 ATTTATAA-ATTATAAAACCATTT-AAGCAAGTAACAAGGCTTTTAATGGC-A-TGAGTGACTAT
*
373510 AAATGGACATTTCTTGTCAATGGATGTCATC
308 AAATGGACATTTCTTGTCAATGGATGGCATC
* * * * *
373541 TGGTTCACGTTTCTC-GATGCAAAAATCCAATTATGATTGATTTTAACCAAAAACGAAAAAGATT
1 TGCTTCACGTTTC-CAAATGCAAACATCCAATTATGATTGATTTTAACTAAAAAAGAAAAAGATT
* * *** *
373605 TTGATTAAAAATCAATTATAAGATTATAAAACAATTTAAAGTGTGTAACAAGGCTTTCGACGGCA
65 TTGATT-AAAATCATTTATAAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTTCGAAGGCA
* *
373670 TAAGTGACTATAAATGAACTTTTCT
129 TGAGTGACTATAAATGGACTTTTCT
373695 NNNNNNNNNN
Statistics
Matches: 1962, Mismatches: 448, Indels: 272
0.73 0.17 0.10
Matches are distributed among these distances:
337 4 0.00
338 140 0.07
339 60 0.03
340 266 0.14
341 585 0.30
342 347 0.18
343 103 0.05
344 176 0.09
345 71 0.04
346 50 0.03
347 157 0.08
348 2 0.00
349 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (338 bp):
TGCTTCACGTTTCCAAATGCAAACATCCAATTATGATTGATTTTAACTAAAAAAGAAAAAGATTT
TGATTAAAATCATTTATAAGATTATAAAACTATTTAAAGCAAGTAACAAGGCTTTCGAAGGCATG
AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTCACTTTTCCAATATAAACAT
CCAATGATGATCTGTTTTAACTAAAAACCAAAAAGATTTCGATTTAAAATCATTTATAAATTATA
AAACCATTTAAGCAAGTAACAAGGCTTTTAATGGCATGAGTGACTATAAATGGACATTTCTTGTC
AATGGATGGCATC
Found at i:372587 original size:511 final size:506
Alignment explanation
Indices: 370675--372597 Score: 1219
Period size: 511 Copynumber: 3.8 Consensus size: 506
370665 TTATGATCGA
* * ** * *
370675 TTTAACCAAAAAGGGAAAAGATTTT-ATTTTAAAA-TTATTTATAACATTATAAAACTATTTAAA
1 TTTAACCAAAAAGGAAAAAAATTTTGA--TTAAAAGCCATTTATAAAATCATAAAACTATTTAAA
* * * * * * * * ** **
370738 TTGAGTTACAAGGCTTTCGTAGGTAT-TACTAACTATAAATGGACTTTTCTTATTAATGGAATAT
64 ATAAGTAACAAGGCTTTCGAAGGCATGCA-TGACTATAAATAGACTTTTCTTACCAATGG-ATGG
** * * ** * * * * * * * *
370802 TTTTTGCTTCATGTTTTCCAATGTAAACATCCAATTATGGTCGATTTTAATCAAAAAAAAAAAAG
127 CATTGGATTCACATTTTCAAATGGAAACATCCAATTATGATTGATTTAAACCAAAGACAAAAAAG
** * ** ** *
370867 AGTTTGATTTAAAATCATTTATCGGATTATGAAACCATTTAAAGCCTA-TAA-TAAGGCTTTT-A
192 A-TTCAATTTAAAATAATTTATAAGATTAAAAAACCATTTAAAG-CAAGTAACTAA-GCTTTTGA
* * * * * **
370929 ATGGCTTGAATGACTACAAATGGACATTTCTTGTCAATGGATGGC-ATCTGCTTCACATTTCCTA
254 AT-GCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC-GCTTCAC-TTTTTTA
* * * * **
370993 ATGAAAACATCCAATTATGATTGATTTTAACCAAACATGAAGAATA-TTTTGATTTGGAATCATT
316 ATG-CAACATCTAATTATGATTG-TTTTAACCAAA-A--AAGAAAAGTTTTAATTTAAAATCATT
* * * * * *** * * *
371057 TATATGACTAT-AAAACTATTTAAAGCGAGTAAC-AAGATTTTTAAAGGTA-GTACTGACTATAA
376 TATAT-ATTGTAAAAAC-ATTTAAAGCAAGAAACAAAG-CTTCCCATGGCATG-AGTGACTATAA
* * * ** * * * ***
371119 ATGGCCTTTTCT-TGTCAATGAATGTC-TT-ATATGCCATATTTCTCGATACAAACATCCCTTTA
437 ATGGACTTTT-TATGTCAATGGATGGCATTCACCT--CATGTTTCCCAATACAAACATCCAAATA
*
371181 TGATCTGT
499 TAATCTGT
** * * * * * *
371189 TTTAATGAAAAATGAAAAAAAAAGATTTTGATTTAAAA-TCTTTTAT-CAATTATAAAACCATTT
1 TTTAACCAAAAA-G--GAAAAAA-ATTTTGA-TTAAAAGCCATTTATAAAATCATAAAACTATTT
** * * * * * * * ***
371252 AAAGCAACTAATAAGGCTTT-TAATGTCAAGAGAGTGACTATAAATAAACTTTTCTTGTAAATGG
61 AAAATAAGTAACAAGGCTTTCGAA-GGCATG-CA-TGACTATAAATAGACTTTTCTTACCAATGG
* * * * * * * * * * *
371316 ATGGCATTTGCTTGACGTTTCCTAGTGTAAATATCCAATTATTATTGATTTTAACCAAA-ACCAA
123 ATGGCATTGGATTCACATTTTCAAATGGAAACATCCAATTATGATTGATTTAAACCAAAGA-CAA
** * * * * * *
371380 AAAAGATTTTGATTAAAAAT-CTTTCATAAGAATATAAAATCATTTAAAGCAAGTAAC-ACAACT
187 AAAAGA-TTCAATTTAAAATAATTT-ATAAGATTAAAAAACCATTTAAAGCAAGTAACTA-AGCT
* * * * *
371443 TTTAAAGGCATGAGTGATTATAAATGGACTTTTCTTGTCAATGGATGG-TTTTGCTTCATCTTTC
249 TTTGAATGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCA-CTTTT
** *
371507 CAAATGCAACATCTAATTATGATTTGTTTTAAACAAGAAAA-AAAA-TATTTCAATTGT--AATC
313 TTAATGCAACATCTAATTATGA-TTGTTTTAACCAA-AAAAGAAAAGT-TTT-AATT-TAAAATC
* ** * * **
371568 ATTTATATGATTTTAAAAACATTTAAAGTGAGTAACTAAGCTTCTGATGGCATGAGTGACTATAA
373 ATTTATAT-ATTGTAAAAACATTTAAAGCAAGAAACAAAGCTTCCCATGGCATGAGTGACTATAA
*
371633 ATGGACTTTTTATGTCAATGGATGGCATTCACCTCATGTTTCCCAATACAAACATCCAAATCTAA
437 ATGGACTTTTTATGTCAATGGATGGCATTCACCTCATGTTTCCCAATACAAACATCCAAATATAA
371698 TCTGT
502 TCTGT
* * * * *
371703 TTTAACCAAAAATGAAAAAAATTTTGATTCAAAGCCTTTTCTAAAATTATAAAACTATTTAAAAT
1 TTTAACCAAAAAGGAAAAAAATTTTGATTAAAAGCCATTTATAAAATCATAAAACTATTTAAAAT
** *
371768 AAGTAACAAGGCTTTCGAAGGCATGCATGACTATAAATAGACTTTTCTTATTAGTGGATGGCATT
66 AAGTAACAAGGCTTTCGAAGGCATGCATGACTATAAATAGACTTTTCTTACCAATGGATGGCATT
** * * *
371833 GGATTCATGTTTTCAATTGGAAACATGCAATTATGATTGATTTAAACCAAAGACAAAGAAGATTC
131 GGATTCACATTTTCAAATGGAAACATCCAATTATGATTGATTTAAACCAAAGACAAAAAAGATTC
* * *
371898 AATTTAAAATCATTTATAAGATTACAAAACCATTTAAAGCAAGTAA-TAAAGCTTTTGATTGCAT
196 AATTTAAAATAATTTATAAGATTAAAAAACCATTTAAAGCAAGTAACT-AAGCTTTTGAATGCAT
** * * **
371962 GAGTGACTATAAATGGA-TATTTCTCATCAATGGATGCCTTTCACTTCACGTTTTTTAATATAAA
260 GAGTGACTATAAATGGACT-TTTCTTGTCAATGGATGGCTTTCGCTTCAC-TTTTTTAAT-GCAA
* * * *
372026 CATTTAATGATGATCTGTTTTAACTAAAAATGAAAAAGTTTTCAATTTAAAATCATTTATATATT
322 CATCTAATTATGAT-TGTTTTAACCAAAAAAG-AAAAGTTTT-AATTTAAAATCATTTATATATT
* * * *
372091 GTAATATCATTTCAAGCAAGAAACAAAGCTTCCCATGGCATGGGTGACTATAAATGGA-TATTTC
384 GTAAAAACATTTAAAGCAAGAAACAAAGCTTCCCATGGCATGAGTGACTATAAATGGACT-TTT-
* * * * *
372155 T-TGTCAATGGATGGCA-TCTGCTTC-TAGTTTCCCAATGCAAACATCCAATTATGAT-TGAT
447 TATGTCAATGGATGGCATTC-ACCTCAT-GTTTCCCAATACAAACATCCAAATATAATCTG-T
* * * * * *
372214 TTTAACTATAAAGGAAAAAGATTTTGATTAAAAGTCATTTATAAGATCATAAAAGC-ATTTAAAG
1 TTTAACCAAAAAGGAAAAAAATTTTGATTAAAAGCCATTTATAAAATCATAAAA-CTATTTAAAA
* * * **
372278 TCAGTAACAAGGCTTTCGAAGGCATG-AGTGACTATAAATGGACTTTTCTTGCCAATGGATGGGT
65 TAAGTAACAAGGCTTTCGAAGGCATGCA-TGACTATAAATAGACTTTTCTTACCAATGGATGGCA
* * * * * **
372342 TTTGCTTCACA-TTTCTAAAT-GCAACATCCAATTATGGTATG-TTTTAA-GTAAGA-ATGAAAA
129 TTGGATTCACATTTTC-AAATGGAAACATCCAATTATGAT-TGATTTAAACCAAAGACA--AAAA
* * * * *
372402 AGATTTCGATTTTAAATAATTTATATGATTAAAAAACCATTTAAACCAAGTAACTAGGCTTTTGA
190 AGA-TTCAATTTAAAATAATTTATAAGATTAAAAAACCATTTAAAGCAAGTAACTAAGCTTTTGA
* * * *
372467 ATGCATGACTGACTAGAAATGGACTTTTCTTGTCAATGGATGGCTCTCGTTTCACATTTTTTAAT
254 ATGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCAC-TTTTTTAAT
* *
372532 GCACACATCGAATTATGATTGATTTTAACCAAAAACAGAAAAGTGTTTTATTTAAAAT-ATTT-T
318 GCA-ACATCTAATTATGATTG-TTTTAACCAAAAA-AGAAAAGT-TTTAATTTAAAATCATTTAT
372595 ATA
379 ATA
372598 AGATTATAAA
Statistics
Matches: 1124, Mismatches: 223, Indels: 129
0.76 0.15 0.09
Matches are distributed among these distances:
507 1 0.00
508 82 0.07
509 116 0.10
510 83 0.07
511 411 0.37
512 23 0.02
513 5 0.00
514 122 0.11
515 15 0.01
516 28 0.02
517 59 0.05
518 149 0.13
519 30 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (506 bp):
TTTAACCAAAAAGGAAAAAAATTTTGATTAAAAGCCATTTATAAAATCATAAAACTATTTAAAAT
AAGTAACAAGGCTTTCGAAGGCATGCATGACTATAAATAGACTTTTCTTACCAATGGATGGCATT
GGATTCACATTTTCAAATGGAAACATCCAATTATGATTGATTTAAACCAAAGACAAAAAAGATTC
AATTTAAAATAATTTATAAGATTAAAAAACCATTTAAAGCAAGTAACTAAGCTTTTGAATGCATG
AGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACTTTTTTAATGCAACATC
TAATTATGATTGTTTTAACCAAAAAAGAAAAGTTTTAATTTAAAATCATTTATATATTGTAAAAA
CATTTAAAGCAAGAAACAAAGCTTCCCATGGCATGAGTGACTATAAATGGACTTTTTATGTCAAT
GGATGGCATTCACCTCATGTTTCCCAATACAAACATCCAAATATAATCTGT
Found at i:376407 original size:68 final size:68
Alignment explanation
Indices: 376335--376501 Score: 235
Period size: 68 Copynumber: 2.5 Consensus size: 68
376325 NNNNNNNNNN
* * * * *
376335 ATCATATACATAATCTCATGGCATTCATCATGCATACTTAATCACCTTATATGGTATATGGAATT
1 ATCATATACATAATCTTATAGCATTCATCATGCATACTTAATCACCTCATACGATATATGGAATT
376400 TAC
66 TAC
* * * *
376403 ATCATATGCATAATCTTATAGTATACATCATGCATACTTAATCATCTCATACGATATATGGAATT
1 ATCATATACATAATCTTATAGCATTCATCATGCATACTTAATCACCTCATACGATATATGGAATT
376468 TAC
66 TAC
* *
376471 ATCATATACATAATATTATCGCATTCATCAT
1 ATCATATACATAATCTTATAGCATTCATCAT
376502 ACCAAACATG
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 85 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (68 bp):
ATCATATACATAATCTTATAGCATTCATCATGCATACTTAATCACCTCATACGATATATGGAATT
TAC
Found at i:380080 original size:336 final size:336
Alignment explanation
Indices: 379564--380205 Score: 784
Period size: 336 Copynumber: 1.9 Consensus size: 336
379554 TATTGATAGT
* * * * * * *
379564 AAAAGTCCATTTATAGTTAGTGATGCCTTCGAAAGCCTTGTTACTCGCTTTAGATGATTTATAAT
1 AAAAGTCCATTTACAGTCAGTAATGCCTTCAAAAACCTTGTTACTCGCTTTAAAAGATTTATAAT
* ** * *
379629 CTTATAAATGATTTTTAATTAAAATCTTTTTCATTTTTGATTAAAATCAATCGAAATTGAATGTT
66 ATTATAAATGATTTCAAATCAAAATCTTCTTCATTTTTGATTAAAATCAATCGAAATTGAATGTT
* *
379694 TGCATTCAAAAATGTGAAGCGGATGCCATTCATTAATTACAAAAGTCCATTTAT-T-TCAAGCCA
131 TGCATTCAAAAACGTGAAGCGGA--CCATTCATCAATTACAAAAGTCCATTTATATCTCAAGCCA
* * * *
379757 -TGAAAAGCCGTGCTA-ATTGCTTTGAATGATTTTATAAT-TTATAAATGATTTTGAATCGAAAT
194 TTG-AAAGCCGTGCTACA-TGCTTTAAATGATTTCATAATCTTATAAATGATTTTAAATCAAAAT
**
379819 CTTTTTTGTT-TGTGGTTAAAAT-AGATCATAATGGGAAGTTTGCATCAAGAAACATGATGTATA
257 CTTTTTCATTGT-TGGTTAAAATCA-ATCATAATGGGAAGTTTGCATCAAGAAACATGATGTATA
379882 AGCTATCCATTGACAAC
320 AGCTATCCATTGACAAC
* *
379899 AAAAGTCCATTTACAGTCAGTAATGCCTTCAAAAACTTTGTTACTCGCTTTAAACAGTTTTATAA
1 AAAAGTCCATTTACAGTCAGTAATGCCTTCAAAAACCTTGTTACTCGCTTTAAA-AGATTTATAA
*
379964 TATTATAAATGATTTCAAATCAAAATCTTCTTCATTTTTGGTTAAAATCAATC-ATAATTGAATG
65 TATTATAAATGATTTCAAATCAAAATCTTCTTCATTTTTGATTAAAATCAATCGA-AATTGAATG
* *
380028 TTTGCATT-AAGGAACGTGAAGCGGA-CATT-ATCCATTGACAAGAAATGTCCATTTATAATCAC
129 TTTGCATTCAA-AAACGTGAAGCGGACCATTCATCAATT-AC-A-AAA-GTCCATTTAT-AT--C
* * *
380090 TCAAGCCATTGAAAGCCTTGTTACATGCTTTAAATGGTTTCATAATCTTATAAATGATTTTAAAT
186 TCAAGCCATTGAAAGCCGTGCTACATGCTTTAAATGATTTCATAATCTTATAAATGATTTTAAAT
* * *
380155 CAAAATCTTTTTCATTGTTGGTTAAAATCAATTATAATTGGATGTTTGCAT
251 CAAAATCTTTTTCATTGTTGGTTAAAATCAATCATAATGGGAAGTTTGCAT
380206 TGGGAAATGG
Statistics
Matches: 259, Mismatches: 31, Indels: 27
0.82 0.10 0.09
Matches are distributed among these distances:
332 5 0.02
333 6 0.02
334 1 0.00
335 53 0.20
336 94 0.36
338 1 0.00
341 36 0.14
342 61 0.24
343 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (336 bp):
AAAAGTCCATTTACAGTCAGTAATGCCTTCAAAAACCTTGTTACTCGCTTTAAAAGATTTATAAT
ATTATAAATGATTTCAAATCAAAATCTTCTTCATTTTTGATTAAAATCAATCGAAATTGAATGTT
TGCATTCAAAAACGTGAAGCGGACCATTCATCAATTACAAAAGTCCATTTATATCTCAAGCCATT
GAAAGCCGTGCTACATGCTTTAAATGATTTCATAATCTTATAAATGATTTTAAATCAAAATCTTT
TTCATTGTTGGTTAAAATCAATCATAATGGGAAGTTTGCATCAAGAAACATGATGTATAAGCTAT
CCATTGACAAC
Found at i:380206 original size:171 final size:167
Alignment explanation
Indices: 379594--380206 Score: 558
Period size: 171 Copynumber: 3.6 Consensus size: 167
379584 TGATGCCTTC
* * *
379594 GAAAGCCTTGTTACTCGCTTTAGATGA-TTTATAATCTTATAAATGATTTTTAATTAAAATCTTT
1 GAAAGCCTTGTTACTCGCTTTAAATGATTTTATAATCTTATAAATGATTTTAAATCAAAATCTTT
* *
379658 TTCATTTTTGATTAAAATCAATCGA-AATTGAATGTTTGCATTCAA-AAATGTGAAGCGGATGCC
66 TTCATTTTTGGTTAAAATCAATC-ATAATTGAATGTTTGCATT-AAGAAACGTGAAGCGGA---C
**
379721 ATTCATTAATT-AC-AAAAGTCCATTTAT-T--TCAAGCCA-T
126 ATT-ATCCATTGACAAAAAGTCCATTTATATCATCAAGCCATT
* * * * * * *
379758 GAAAAGCCGTGCTAATTGCTTTGAATGATTTTATAAT-TTATAAATGATTTTGAATCGAAATCTT
1 G-AAAGCCTTGTTACTCGCTTTAAATGATTTTATAATCTTATAAATGATTTTAAATCAAAATCTT
** * * * * * ***
379822 TTTTGTTTGTGGTTAAAAT-AGATCATAATGGGAA-GTTTGCATCAAGAAACATGATGTATA-AG
65 TTTCATTTTTGGTTAAAATCA-ATCATAAT-TGAATGTTTGCATTAAGAAACGTGAAGCGGACA-
* *
379884 CTATCCATTGACAACAAAAGTCCATTTACAGTCAGT-AATGCC-TT
127 TTATCCATTGAC-A-AAAAGTCCATTTATA-TCA-TCAA-GCCATT
* * * * * *
379928 CAAAAACTTTGTTACTCGCTTTAAA-CAGTTTTATAATATTATAAATGATTTCAAATCAAAATCT
1 -GAAAGCCTTGTTACTCGCTTTAAATGA-TTTTATAATCTTATAAATGATTTTAAATCAAAATCT
* *
379992 TCTTCATTTTTGGTTAAAATCAATCATAATTGAATGTTTGCATTAAGGAACGTGAAGCGGACATT
64 TTTTCATTTTTGGTTAAAATCAATCATAATTGAATGTTTGCATTAAGAAACGTGAAGCGGACATT
380057 ATCCATTGACAAGAAATGTCCATTTATAATCACTCAAGCCATT
129 ATCCATTGACAA-AAA-GTCCATTTAT-ATCA-TCAAGCCATT
* *
380100 GAAAGCCTTGTTACAT-GCTTTAAATGGTTTCATAATCTTATAAATGATTTTAAATCAAAATCTT
1 GAAAGCCTTGTTAC-TCGCTTTAAATGATTTTATAATCTTATAAATGATTTTAAATCAAAATCTT
* * *
380164 TTTCATTGTTGGTTAAAATCAATTATAATTGGATGTTTGCATT
65 TTTCATTTTTGGTTAAAATCAATCATAATTGAATGTTTGCATT
380207 GGGAAATGGG
Statistics
Matches: 354, Mismatches: 64, Indels: 55
0.75 0.14 0.12
Matches are distributed among these distances:
161 6 0.02
162 3 0.01
164 5 0.01
165 94 0.27
166 11 0.03
167 1 0.00
169 4 0.01
170 37 0.10
171 185 0.52
172 8 0.02
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (167 bp):
GAAAGCCTTGTTACTCGCTTTAAATGATTTTATAATCTTATAAATGATTTTAAATCAAAATCTTT
TTCATTTTTGGTTAAAATCAATCATAATTGAATGTTTGCATTAAGAAACGTGAAGCGGACATTAT
CCATTGACAAAAAGTCCATTTATATCATCAAGCCATT
Found at i:381911 original size:21 final size:21
Alignment explanation
Indices: 381870--381911 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
381860 GCATGTAATT
*
381870 AAATGATTAAAACATGTTTTA
1 AAATGATTAAAACATGATTTA
*
381891 AAATGTTTAAAATCAT-ATTTA
1 AAATGATTAAAA-CATGATTTA
381912 GTTGATGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (21 bp):
AAATGATTAAAACATGATTTA
Found at i:386428 original size:68 final size:67
Alignment explanation
Indices: 386263--386430 Score: 183
Period size: 68 Copynumber: 2.5 Consensus size: 67
386253 CATGTTTGGT
* * * * * * *
386263 ATGATGAATGCGATAATATTATGTGTATGATGTAAATTCCATATATCGTATGAGATGATTTAGTA
1 ATGATGAATGCCATAAGATTATGT-TATGATGTAAATTCCATATACCATATAAGATGATTAACTA
386328 TGC
65 TGC
* * * * * *
386331 ATGATGTATACTATAAGATTGTGCTTATGATGTAAATTCCGTATACCATATAAGGTGATTAACTA
1 ATGATGAATGCCATAAGATTATG-TTATGATGTAAATTCCATATACCATATAAGATGATTAACTA
386396 TGC
65 TGC
*
386399 ATGATGAATGCCATGAGATTATGTATATGATG
1 ATGATGAATGCCATAAGATTATGT-TATGATG
386431 NNNNNNNNNN
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
67 1 0.01
68 79 0.98
69 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (67 bp):
ATGATGAATGCCATAAGATTATGTTATGATGTAAATTCCATATACCATATAAGATGATTAACTAT
GC
Found at i:386796 original size:26 final size:26
Alignment explanation
Indices: 386739--386796 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
386729 AATGGAATGA
*
386739 TCATATTTATTATGTTTATAGCATGT
1 TCATATTAATTATGTTTATAGCATGT
386765 TGCATATTAATGTA-GTTTA-AGCATTGT
1 T-CATATTAAT-TATGTTTATAGCA-TGT
386792 TCATA
1 TCATA
386797 ATCTGTACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
26 9 0.32
27 17 0.61
28 2 0.07
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (26 bp):
TCATATTAATTATGTTTATAGCATGT
Found at i:391333 original size:73 final size:73
Alignment explanation
Indices: 391229--391368 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 73
391219 AGCAATGCCA
* * *
391229 CTTAGTTGATTAAGTCATCTCTATCTATGAACCC-AGTTTCTGGCAGCAAGCGCTTAGTCGACTA
1 CTTAGTCGATTAAGTCATCTCTATCTATGAACCCGA-TTTCTGACAGCAAGCGCTTAGTCAACTA
391293 ACAAAACTT
65 ACAAAACTT
* * * * * * *
391302 CTTAGTCGATTAAGTCATTTTTGTCTCTGAACTCGATTTCTGACAGTAAGCTCTTAGTCAACTAA
1 CTTAGTCGATTAAGTCATCTCTATCTATGAACCCGATTTCTGACAGCAAGCGCTTAGTCAACTAA
391367 CA
66 CA
391369 CTGTCTCTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 55 0.98
74 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (73 bp):
CTTAGTCGATTAAGTCATCTCTATCTATGAACCCGATTTCTGACAGCAAGCGCTTAGTCAACTAA
CAAAACTT
Found at i:392011 original size:14 final size:14
Alignment explanation
Indices: 391992--392039 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
391982 GAAAATAATT
391992 TCAGCATTCATATA
1 TCAGCATTCATATA
** *
392006 TCAGCA-AAATAATT
1 TCAGCATTCAT-ATA
392020 TCAGCATTCATATA
1 TCAGCATTCATATA
392034 TCAGCA
1 TCAGCA
392040 ACAAAATATC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (14 bp):
TCAGCATTCATATA
Found at i:392023 original size:28 final size:28
Alignment explanation
Indices: 391983--392040 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
391973 AAAAGCATAG
391983 AAAATAATTTCAGCATTCATATATCAGC
1 AAAATAATTTCAGCATTCATATATCAGC
392011 AAAATAATTTCAGCATTCATATATCAGC
1 AAAATAATTTCAGCATTCATATATCAGC
392039 AA
1 AA
392041 CAAAATATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (28 bp):
AAAATAATTTCAGCATTCATATATCAGC
Found at i:393225 original size:73 final size:73
Alignment explanation
Indices: 393075--393231 Score: 179
Period size: 73 Copynumber: 2.2 Consensus size: 73
393065 TAGACAGTGT
* * * *
393075 TAGTCGACTAAGAGCTTACTGTCAGAAACTGAGTTCAGAGACAGAAACGACTTAATTGATTAAGA
1 TAGTCGACTAAGAGCCTACTGCCAGAAACTGAGTTCAGAGACAGAAACGACTTAATCGACTAAGA
*** *
393140 AGTTTTGT
66 AGCAATGC
* * * * * *
393148 TAGTCGACTTAGAGCCTACTGCCAGAAACTGGGTTCATAGACAGAGATGACTTAATCGACTAAGT
1 TAGTCGACTAAGAGCCTACTGCCAGAAACTGAGTTCAGAGACAGAAACGACTTAATCGACTAAGA
*
393213 GGCAATGC
66 AGCAATGC
393221 TAGTCGACTAA
1 TAGTCGACTAA
393232 AAGCATTCTG
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (73 bp):
TAGTCGACTAAGAGCCTACTGCCAGAAACTGAGTTCAGAGACAGAAACGACTTAATCGACTAAGA
AGCAATGC
Found at i:395756 original size:7 final size:7
Alignment explanation
Indices: 395744--395768 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
395734 TAGTGGTCCA
395744 AGAATTT
1 AGAATTT
395751 AGAATTT
1 AGAATTT
395758 AGAATTT
1 AGAATTT
395765 AGAA
1 AGAA
395769 AAGTAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (7 bp):
AGAATTT
Found at i:397784 original size:21 final size:20
Alignment explanation
Indices: 397750--397794 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
397740 TAATTAGTTT
*
397750 ATTTTTATTAATTTATTTTA
1 ATTTTTATTAATTTACTTTA
*
397770 ATTTTATATTTATTTACTTTA
1 ATTTT-TATTAATTTACTTTA
397791 ATTT
1 ATTT
397795 GGCCATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTATTAATTTACTTTA
Found at i:416333 original size:36 final size:36
Alignment explanation
Indices: 416288--416368 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
416278 AATTGTTTAA
* *
416288 TTTAGTTAAG-CCATTGGGCCTAATTGATTAAAATTC
1 TTTAATTAAGTCC-TTGGGCCTAAGTGATTAAAATTC
* *
416324 TTTAATTAAGTCCTTGGGTCTAAGTGATTAAAATTG
1 TTTAATTAAGTCCTTGGGCCTAAGTGATTAAAATTC
416360 TTTAATTAA
1 TTTAATTAA
416369 ATTGTTGGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 38 0.95
37 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (36 bp):
TTTAATTAAGTCCTTGGGCCTAAGTGATTAAAATTC
Found at i:416403 original size:35 final size:35
Alignment explanation
Indices: 416300--416429 Score: 91
Period size: 36 Copynumber: 3.7 Consensus size: 35
416290 TAGTTAAGCC
* * * * *
416300 ATTGGGCCTAATTGATTAAAATTCTTTAATTAAGTC
1 ATTGGGCCTAATTAACT-AAATTATTTAATTAAATT
* * * * * *
416336 CTTGGGTCTAAGTGATTAAAATTGTTTAATTAAATT
1 ATTGGGCCTAATTAACT-AAATTATTTAATTAAATT
* * *
416372 GTTGGG-CTACATTAACTAAATTATTTGATTAAGTT
1 ATTGGGCCTA-ATTAACTAAATTATTTAATTAAATT
*
416407 ATTGGGCCTAATTAATTAAATTA
1 ATTGGGCCTAATTAACTAAATTA
416430 AACAATTAAG
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
35 35 0.45
36 42 0.55
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (35 bp):
ATTGGGCCTAATTAACTAAATTATTTAATTAAATT
Found at i:432059 original size:15 final size:15
Alignment explanation
Indices: 432039--432074 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
432029 GAAACGAATT
432039 TTACTTTTTATTATA
1 TTACTTTTTATTATA
432054 TTACTTTTTATTATA
1 TTACTTTTTATTATA
432069 TTACTT
1 TTACTT
432075 ATTAACGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (15 bp):
TTACTTTTTATTATA
Found at i:435173 original size:52 final size:52
Alignment explanation
Indices: 435095--435196 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
435085 TCAAACGTGA
*
435095 GTTTAACCATGATATGATCCGAACTGGGCAAAGTGATGAACATATAAGTTAC
1 GTTTAACCATGATATGATCCGAACTGGGCAAAGCGATGAACATATAAGTTAC
435147 GTTTAACCATGATATGATCCGAACTGGGCAAAGCGATGAACATATAAGTT
1 GTTTAACCATGATATGATCCGAACTGGGCAAAGCGATGAACATATAAGTT
435197 TTAGCCCTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (52 bp):
GTTTAACCATGATATGATCCGAACTGGGCAAAGCGATGAACATATAAGTTAC
Found at i:455982 original size:111 final size:111
Alignment explanation
Indices: 455838--456053 Score: 312
Period size: 111 Copynumber: 1.9 Consensus size: 111
455828 TTTGGAAAAT
*
455838 TAATATATTTTAGCCTTAGATTAAAAATTATTTTATTTTAGTGTA-CT-TTAATAAGATTAATTA
1 TAATATATTTTAGCCGTAGATTAAAAATTATTTTATTTT-G-GTATCTATTAATAAGATTAATTA
* *
455901 ATTGTACAAAATAAAATTATGTTTCAAATTGGGTTAAAATTAATGAAGC
64 ATTGGACAAAATAAAATTAT-TTACAAATTGGGTTAAAATTAATGAAGC
* * * * *
455950 TAATTTATTTT-GCCGTCGATTGAAAATTATTTTATTTTGGTATTTATTAATGAGATTAATTAAT
1 TAATATATTTTAGCCGTAGATTAAAAATTATTTTATTTTGGTATCTATTAATAAGATTAATTAAT
456014 TGGACAAAATAAAATTATTTACAAATTGGGTTAAAATTAA
66 TGGACAAAATAAAATTATTTACAAATTGGGTTAAAATTAA
456054 AATTAAAATT
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
109 3 0.03
110 23 0.24
111 58 0.62
112 10 0.11
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (111 bp):
TAATATATTTTAGCCGTAGATTAAAAATTATTTTATTTTGGTATCTATTAATAAGATTAATTAAT
TGGACAAAATAAAATTATTTACAAATTGGGTTAAAATTAATGAAGC
Found at i:468644 original size:35 final size:35
Alignment explanation
Indices: 468621--468765 Score: 112
Period size: 35 Copynumber: 4.1 Consensus size: 35
468611 CAAATCATGT
* * *
468621 CGTGTTGAAGCAACGAGCAGAGAAGAGATCAAGCA
1 CGTGTCGAAGCAACGAGCAGAGAACAGATCATGCA
*
468656 CGTGTCGAAGCAACGGGCAGAGAACAGATCATGCA
1 CGTGTCGAAGCAACGAGCAGAGAACAGATCATGCA
* * * * * *
468691 CTTG-CTGAAGCAATGGGTAAATAATCAGATCATGCA
1 CGTGTC-GAAGCAACGAGCAGAGAA-CAGATCATGCA
* * * * ** *
468727 CATGCCGAAGCAATGGGTGGAGAACAGATCACGCA
1 CGTGTCGAAGCAACGAGCAGAGAACAGATCATGCA
468762 CGTG
1 CGTG
468766 CTGAACCAAC
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
34 1 0.01
35 61 0.66
36 29 0.32
37 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.30, T:0.15
Consensus pattern (35 bp):
CGTGTCGAAGCAACGAGCAGAGAACAGATCATGCA
Found at i:468722 original size:36 final size:35
Alignment explanation
Indices: 468662--468770 Score: 119
Period size: 35 Copynumber: 3.1 Consensus size: 35
468652 AGCACGTGTC
* * * *
468662 GAAGCAACGGGCAGAGAACAGATCATGCACTTGCT
1 GAAGCAATGGGTAAAGAACAGATCATGCACATGCT
* *
468697 GAAGCAATGGGTAAATAATCAGATCATGCACATGCC
1 GAAGCAATGGGTAAAGAA-CAGATCATGCACATGCT
** * *
468733 GAAGCAATGGGTGGAGAACAGATCACGCACGTGCT
1 GAAGCAATGGGTAAAGAACAGATCATGCACATGCT
468768 GAA
1 GAA
468771 CCAACGAATG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 31 0.51
36 30 0.49
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (35 bp):
GAAGCAATGGGTAAAGAACAGATCATGCACATGCT
Found at i:480039 original size:29 final size:29
Alignment explanation
Indices: 480006--480349 Score: 281
Period size: 28 Copynumber: 11.9 Consensus size: 29
479996 TTTGTCTTAA
* *
480006 ACAAGAAAATATGTTTTGTTTTAATTTAG
1 ACAAGAAAACATGTTTTGTCTTAATTTAG
** *
480035 ACAAGAAAACATGTTTTGTCCCAATTTAT
1 ACAAGAAAACATGTTTTGTCTTAATTTAG
480064 ACAAGAAAACATGTTTTGTCTT-ATTATAG
1 ACAAGAAAACATGTTTTGTCTTAATT-TAG
*
480093 ACATGAAAACATGTTTGTATGTTTGTCTTAATTTAG
1 ACAAGAAAACA----TG--T-TTTGTCTTAATTTAG
* *
480129 ACAAGAAAACAT-ATTTGTCTTAATGTAG
1 ACAAGAAAACATGTTTTGTCTTAATTTAG
*
480157 ACGAA-AAAACATATTTTGTCTTAATTTAG
1 AC-AAGAAAACATGTTTTGTCTTAATTTAG
480186 ACAAGAAAGA-ATG--TTGTCCTT-A-TTATG
1 ACAAGAAA-ACATGTTTTGT-CTTAATTTA-G
*
480213 A-TAGAAAAACATG-TTTGTCTTAATTTAG
1 ACAAG-AAAACATGTTTTGTCTTAATTTAG
* * *
480241 ACAAGAAAA-ATATATTGTCTTAATTTAA
1 ACAAGAAAACATGTTTTGTCTTAATTTAG
**
480269 ACAAGAAAA-AT-TATCGGT-TTCAATTTAG
1 ACAAGAAAACATGT-TTTGTCTT-AATTTAG
480297 ACAAGAAAACAT-TTTTGT-TTCAATTTAG
1 ACAAGAAAACATGTTTTGTCTT-AATTTAG
*
480325 ACAA-AAAACATGTTTTCTCTTAATT
1 ACAAGAAAACATGTTTTGTCTTAATT
480350 AATGGCAAGG
Statistics
Matches: 261, Mismatches: 27, Indels: 55
0.76 0.08 0.16
Matches are distributed among these distances:
26 6 0.02
27 28 0.11
28 109 0.42
29 89 0.34
30 1 0.00
32 1 0.00
33 2 0.01
35 1 0.00
36 21 0.08
37 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (29 bp):
ACAAGAAAACATGTTTTGTCTTAATTTAG
Found at i:480049 original size:24 final size:25
Alignment explanation
Indices: 480022--480108 Score: 68
Period size: 29 Copynumber: 3.2 Consensus size: 25
480012 AAATATGTTT
480022 TGTTTT-AATTTAGACAAGAAAACA
1 TGTTTTCAATTTAGACAAGAAAACA
*
480046 TGTTTTGTCCCAATTTATACAAGAAAACA
1 TG-TTT-T--CAATTTAGACAAGAAAACA
* *
480075 TGTTTTGTCTTATTATAGACATGAAAACA
1 TG-TTT-TC-AATT-TAGACAAGAAAACA
480104 TGTTT
1 TGTTT
480109 GTATGTTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.04
25 3 0.06
26 1 0.02
27 1 0.02
28 6 0.12
29 39 0.75
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (25 bp):
TGTTTTCAATTTAGACAAGAAAACA
Found at i:480122 original size:36 final size:36
Alignment explanation
Indices: 480078--480146 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
480068 GAAAACATGT
* *
480078 TTTGTCTT-ATTATAGACATGAAAACATGTTTGTATG
1 TTTGTCTTAATT-TAGACAAGAAAACATATTTGTATG
480114 TTTGTCTTAATTTAGACAAGAAAACATATTTGT
1 TTTGTCTTAATTTAGACAAGAAAACATATTTGT
480147 CTTAATGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 27 0.90
37 3 0.10
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTGTCTTAATTTAGACAAGAAAACATATTTGTATG
Done.