Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 63 of 74
Found at i:12492372 original size:26 final size:26
Alignment explanation
Indices: 12492316--12492393 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
12492306 ATTGAATCCC
12492316 TAAAATTAAAACCCTAAATCGAAACCT
1 TAAAATTAAAACCCTAAAT-GAAACCT
*
12492343 TAAAATTAAAACCTTAAATGAAACCT
1 TAAAATTAAAACCCTAAATGAAACCT
* *
12492369 TAAAATCAAAACCCTAAGTGAAACC
1 TAAAATTAAAACCCTAAATGAAACC
12492394 CGAAACCCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 29 0.62
27 18 0.38
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.22
Consensus pattern (26 bp):
TAAAATTAAAACCCTAAATGAAACCT
Found at i:12492651 original size:14 final size:14
Alignment explanation
Indices: 12492632--12492664 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12492622 AAAAAATTTT
12492632 AATAAAGAATAA-AA
1 AATAAA-AATAATAA
12492646 AATAAAAATAATAA
1 AATAAAAATAATAA
12492660 AATAA
1 AATAA
12492665 GATTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
AATAAAAATAATAA
Found at i:12499409 original size:264 final size:266
Alignment explanation
Indices: 12498279--12503195 Score: 5482
Period size: 264 Copynumber: 18.6 Consensus size: 266
12498269 TGGGAAGTTG
* * *
12498279 ATGAAAAAGTTAATTTTTATGGTCTTACACAATTTTCATCAATATCACATA-AAAGATATTTTAG
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAA-ATATTTTAG
* * * * *
12498343 AAAGAAAATCAACCA-ACATAGTCTTACATCACTCTTGTTTATAAGTTCTTT-CAAAAAAATAAA
65 AAAGAAAATCAA-TATATATAGTCTTGCATCACTCTTGTTTATAAGTT-TTTCCTAAAAAATGAA
** * **
12498406 AGTTAGATATTATGATTATTTGAATTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTAA
128 AGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAA-AAAAAGAGTTTTG
* * *
12498471 TGCTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTTT--T-----TT
191 TGCTACTCTCATATATAAATTTTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAAT
*
12498529 GGAAGTTCTATCA
254 GGAAGTTCTTTCA
* * * ** * * *
12498542 ATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTTTCAATGCCATATAAAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* ** * *
12498607 AAAAAAATCAACCT-TCATAGTATTGCATC-CTTCTTGGTTATAAGTTTTTGCCT-AAAAATGAA
66 AAGAAAATCAATATAT-ATAGTCTTGCATCAC-TCTTGTTTATAAGTTTTT-CCTAAAAAATGAA
* *
12498669 AGTTAGTTATTATGATCCTTTAAATTTC--TTATCA----CTTAAGAAAAAAATAA-AGTTTTGT
128 AGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAA-AAGAGTTTTGT
** * ** **
12498727 GCTACTCTCATATATCATTTTTTTTTTAAATGAAAGTTTTTGTTATGATATTTTCCTAAAAGGTG
192 GCTACTCTCATATAT-AAATTTTTCTT-AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATG
* *
12498792 AAAGTTCTTTTA
255 GAAGTTCTTTCA
* * ** *
12498804 ATGAAAAAGTTAATTTTTATGGTCTTACAACATTTTTGTCAATACCATATATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * * * * *
12498869 GAGAAAATCAATCTTTGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACATGAAATT
66 AAGAAAATCAATATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAGT
* * * *
12498934 TAGATATTATCATCTTTTGAATTTCTTTTATCACTTTCTTATGAGAAAAAAA-AGTTTTGTGCTA
131 TAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCTA
* *
12498998 CTCTCATATATAAATTATTGT-TTAAATGAAAGTGATTGCTATGATATTTTTCTAAAAAATGGAA
196 CTCTCATATATAAATT-TT-TCTT-AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGGAA
12499062 GTTCTTTCA
258 GTTCTTTCA
* * * *
12499071 ATGAAAGAGTTAATTTTTATGGTTTCACATCATTTTCATCAATACCACATATAAAATATTTTATA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * *
12499136 GAGAAAATCAATATATATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAAAAAT-AGAAG
66 AAGAAAATCAATATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGA-AAG
* * * * *
12499200 TTAGATATTATGATCTTTTGAATTTTTTTTATCACTTTCTTAAG-AAAAAAGA-ACTCTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * * *
12499263 ACTCTTATATAAAAATTTTTCTT-ATGAAAGTGATTGTTATTATAATTTTCCTAAAAAATGGAAA
195 ACTCTCATATATAAATTTTTCTTAATGAAAGTGATTGTTATGAT-ATTTTCCTAAAAAATGGAAG
*
12499327 TTCTTTTA
259 TTCTTTCA
* *
12499335 ATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * * * *
12499400 AAAAAAATCAACCA-ACATATTCTTGCATCACTCTTGTTTATAAGTTCTTCC-AGAAAAATAAAA
66 AAGAAAATCAA-TATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTA-AAAAATGAAA
* * *
12499463 GTTAGATATTATGATCATTTGAATTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTTAT
129 GTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAA-AAAAAGAGTTTTGT
* * *
12499528 GCTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATA-ATT--T------TG
192 GCTACTCTCATATATAAATTTTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATG
*
12499584 GAAGTTCTATCA
255 GAAGTTCTTTCA
* * * ** *
12499596 ATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTGTCAATACCATATATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
** * * * *
12499661 AAGAAAATCAACCT-TCATAGTATTGCATCCCTCTTGGTTATAAGTTTTGCCTAAAAAATGAAAG
66 AAGAAAATCAATATAT-ATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
* *
12499725 TTAGTTATTATGATCCTTTGAATTTC--TTATCA----CTTAAGAAAAAAATAGAGTTTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
** * * * **
12499784 ACTCTCATATATAGTTTTTTGTTTTTTGAAATGAAAGTTATTGTTATGATATTGTCCTAAAAGGT
195 ACTCTCATATATA---AATT-TTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAAT
12499849 GGAAGTTCTTTCA
254 GGAAGTTCTTTCA
* * **
12499862 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCAC--ATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * * * *
12499925 GAGAAAATCAATCT-TCGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACATGAAAT
66 AAGAAAATCAATATAT-ATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
*
12499989 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTATG--AAAAAAAGAGTTTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * * *
12500052 ACTCTCATATATAAATTATTTTTTGAATAAAAGTGATTGCTATGATATTTTTCTAAAAAATGGAA
195 ACTCTCATATATAAATT-TTTCTT-AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGGAA
12500117 GTTCTTTCA
258 GTTCTTTCA
* * * *
12500126 ATGAAAAAGTCAATTTTTATGGTTTCACATCATTTTCATCAATACCACATATAAAATATTTTATA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * *
12500191 GAGAAAATCAATATATATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAAAAAT-AGAAG
66 AAGAAAATCAATATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGA-AAG
* * * *
12500255 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAAAAGA-ACTCTTATGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * *
12500318 ACTCTCATATAAAAATTTTTCTT-ATGAAAGTGATTGTTATTATAATTTTCCTAAAAAATGGAAA
195 ACTCTCATATATAAATTTTTCTTAATGAAAGTGATTGTTATGAT-ATTTTCCTAAAAAATGGAAG
*
12500382 TTCTTTTA
259 TTCTTTCA
* * * *
12500390 ATCAAAAGGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * * * * *
12500455 AAAAAAATCAACCA-ACATATTCTTGCATCACTCTTGTTTATAAGTTCTTCCAAAAAAATAAAAG
66 AAGAAAATCAA-TATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
* * *
12500519 TTAGATATTATGATCATTTGAATTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTTATG
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAA-AAAAAGAGTTTTGTG
* *
12500584 CTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATA-TTT--T------TGG
193 CTACTCTCATATATAAATTTTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGG
*
12500640 AAGTTCTATCA
256 AAGTTCTTTCA
* * ** *
12500651 ATGAAAAAGTCAATTTTTATGGTTTTATACCATTTTTGTCAATACCATATATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
** * * * * *
12500716 AAGAAAATCAACCT-TCATAGTATTACATCCCTCTTGGTTATAAGTTTTGCCTAAAAAATGAAAG
66 AAGAAAATCAATATAT-ATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
* *
12500780 TTAGTTATTATGATCCTTTGAATTTC--TTATCA----CTTAAGAAAAAAATAGAGTTTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * * * **
12500839 ACTCTCATATATAATTTTTTATTTTTTGAAATGAAAGTTATTGTTATGATATTGTCCTAAAAGGT
195 ACTCTCATATATAA---ATT-TTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAAT
12500904 GGAAGTTCTTTCA
254 GGAAGTTCTTTCA
* * **
12500917 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCAC--ATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * * * *
12500980 GAGAAAATCAATCT-TCGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACATGAAAT
66 AAGAAAATCAATATAT-ATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
*
12501044 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTATG--AAAAAAAGAGTTTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * *
12501107 ACTCTCATATATAAATTATTTTTTGAATGAAAGTGATTGCTATGATATTTTTCTAAAAAATGGAA
195 ACTCTCATATATAAATT-TTTCTT-AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGGAA
*
12501172 GTTTTTTCA
258 GTTCTTTCA
* * * *
12501181 ATGAAAAAGTCAATTTTTATGGTTTCACATCATTTTCATCAATACCACATATAAAATATTTTATA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * *
12501246 GAGAAAATCAATATATATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAAAAAT-AGAAG
66 AAGAAAATCAATATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGA-AAG
* * * *
12501310 TTAGATACTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAAAAGA-ACTCTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * *
12501373 ACTCTCATATAAAAATTTTTCTT-ATGAAAGTGATTGTTATTATAATTTTCCTAAAAAATGGAAA
195 ACTCTCATATATAAATTTTTCTTAATGAAAGTGATTGTTATGAT-ATTTTCCTAAAAAATGGAAG
*
12501437 TTCTTTTA
259 TTCTTTCA
* *
12501445 ATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * * * * *
12501510 AAAAAAATCAACCA-ACATATTCTTGCATCACTCTTGTTTATAAGTTCTTCCAAAAAAATAAAAG
66 AAGAAAATCAA-TATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
* * * *
12501574 TTAGATATTATGATCATTTGAGTTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTTATG
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAA-AAAAAGAGTTTTGTG
* *
12501639 CTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATA-TTT--T------TGG
193 CTACTCTCATATATAAATTTTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGG
*
12501695 AAGTTCTATCA
256 AAGTTCTTTCA
* * * ** *
12501706 ATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTGTCAATACCATATATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
** * * * *
12501771 AAGAAAATCAACCT-TCATAGTATTGCATCCCTCTTGGTTATAAGTTTTGCCTAAAAAATGAAAG
66 AAGAAAATCAATATAT-ATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
* *
12501835 TTAGTTATTATGATCCTTTGAATTTC--TTATCA----CTTAAGAAAAAAATAGAGTTTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * * * * **
12501894 ACTCTCATATATAATTTTTTATTTTTTGAAATGAAAGTTATTGTTATGATATTGTACTAAAAGGT
195 ACTCTCATATATAA---ATT-TTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAAT
12501959 GGAAGTTCTTTCA
254 GGAAGTTCTTTCA
* * **
12501972 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCAC--ATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * * ** *
12502035 GAGAAAATCAATCT-TCGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACGTGAAAT
66 AAGAAAATCAATATAT-ATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
*
12502099 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTATG--AAAAAAAGAGTTTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * *
12502162 ACTCTCATATATAAATTATTTTTTGAATGAAAGTGATTGCTATGATATTTTTCTAAAAAATGGAA
195 ACTCTCATATATAAATT-TTTCTT-AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGGAA
*
12502227 GTTTTTTCA
258 GTTCTTTCA
* * * *
12502236 ATGAAAAAGTCAATTTTTATGGTTTCACATCATTTTCATCAATACCACATATAAAATATTTTATA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * *
12502301 GAGAAAATCAATATATATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAAAAAT-AGAAG
66 AAGAAAATCAATATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGA-AAG
* * *
12502365 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAAAAGA-ACTCTTGTGCT
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCT
* * *
12502428 ACTCTCATATAAAAATTTTTCTT-ATGAAAGTGATTGTTATTATAATTTTCCTAAAAAATGGAAA
195 ACTCTCATATATAAATTTTTCTTAATGAAAGTGATTGTTATGAT-ATTTTCCTAAAAAATGGAAG
*
12502492 TTCTTTTA
259 TTCTTTCA
* *
12502500 ATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * * *
12502565 AAGAAAATCAACCA-ATGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAATAAATGAAAG
66 AAGAAAATCAA-TATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
* * *
12502629 TTAGATATTATGATCATTTGAATTTCTTTTGTCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATG
130 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAA-AAAAAGAGTTTTGTG
* * *
12502694 CTAGTCTCATATGTAAATTTTTCTTGAAATGAAAGTGATTGTTATGATATTTTCCTATAAAAT-G
193 CTACTCTCATATATAAATTTTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGG
12502758 AAGTTCTTTCA
256 AAGTTCTTTCA
* * *
12502769 ATGAAAAAGTCAATTTTTATGGTTTTATACCATTTTCGTCAATACCACATATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* * *
12502834 AAGAAAATCAACT-TACATAATATTGCATC-CTTCTTGTTTATAAGTTTTTCCTAAAAAATGAAA
66 AAGAAAATCAA-TATATATAGTCTTGCATCAC-TCTTGTTTATAAGTTTTTCCTAAAAAATGAAA
* * * *
12502897 GTTAGATATTAGGATCCTTTAAATTTCTTTTATCACTTTCTTAAAAAAAAAAGATAGAGTTTTAT
129 GTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAA-A-AGAGTTTTGT
* * * * * * *
12502962 ACTACTTTCATGTACAAATTTTTCTTGAAATGAAAGTGATTGTTATGATGTTTACCTAAAAGATG
192 GCTACTCTCATATATAAATTTTTCTT--AATGAAAGTGATTGTTATGATATTTTCCTAAAAAATG
12503027 GAAGTTCTTTCA
255 GAAGTTCTTTCA
* * **
12503039 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCACATATAAAATATTTTA-A
1 ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
* *
12503103 AGAGAAAATCAATCTATATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAG
66 A-AGAAAATCAATATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAG
*
12503168 TTAGATATTATGATCCTTTTAATTTCTT
130 TTAGATATTATGATCCTTTGAATTTCTT
12503196 ATATATTATT
Statistics
Matches: 3991, Mismatches: 507, Indels: 305
0.83 0.11 0.06
Matches are distributed among these distances:
253 86 0.02
254 12 0.00
255 65 0.02
256 20 0.01
257 82 0.02
258 5 0.00
259 18 0.00
260 6 0.00
261 431 0.11
262 145 0.04
263 194 0.05
264 1244 0.31
265 56 0.01
266 633 0.16
267 265 0.07
268 231 0.06
269 238 0.06
270 183 0.05
271 77 0.02
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (266 bp):
ATGAAAAAGTTAATTTTTATGGTTTTACACCATTTTCATCAATACCACATATAAAATATTTTAGA
AAGAAAATCAATATATATAGTCTTGCATCACTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAGT
TAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTGTGCTA
CTCTCATATATAAATTTTTCTTAATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGGAAGTT
CTTTCA
Found at i:12499917 original size:525 final size:522
Alignment explanation
Indices: 12498279--12503195 Score: 5790
Period size: 525 Copynumber: 9.3 Consensus size: 522
12498269 TGGGAAGTTG
* *
12498279 ATGAAAAAGTTAATTTTTATGGTCTTACACAATTTTCATCAATATCACATAAAAGATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACAT-AAA-ATATTTTAGA
* * * *
12498344 AAGAAAATCAACCAACATAGTCTTACATCACTCTTGTTTATAAGTTCTTTCAAAAAAATAAAAGT
64 AAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGT
* * *
12498409 TAGATATTATGATTATTTGAATTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTAATGC
129 TAGATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
* * *
12498474 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTTTTTTGGAAGTTCTA
194 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTTCTATGGAAGTTCTT
** * * *
12498539 TCAATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTTTCAATGCCATATAAAAAATATTTT
259 TCAATGAAAAAGTCAATTTTTATGGT-TTATACCATTTTCATCAATACCACATATAAAATATTTT
* *
12498604 AGAAAAAAAATCAACCTTCATAGTATTGCATCCTTCTTGGTTATAAGTTTTTGCCT-AAAAATGA
323 AGAAAGAAAATCAACCTTCATAGTATTGCATCCTTCTTGTTTATAAGTTTTT-CCTAAAAAATGA
* *
12498668 AAGTTAGTTATTATGATCCTTTAAATTTCTTATCA-CTTAAGAAAAAAATAAAGTTTTGTGCTAC
387 AAGTTAGATATTATGATCCTTTGAATTTCTTATCATCTTAAGAAAAAAAT-AAGTTTTGTGCTAC
* ** * ** * *
12498732 TCTCATATATCATTTTTTTTTTAAATGAAAGTTTTTGTTATGATATTTTCCTAAAAGGTGAAAGT
451 TCTCATATATAAAATTTTTCTTAAATGAAAGTGATTGTTATGATATTTTCCTAAAAGATGGAAGT
12498797 TCTTTTA
516 TCTTTTA
* ** *
12498804 ATGAAAAAGTTAATTTTTATGGTCTTACAACATTTTTGTCAATACCATATATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACC--ACATAAAATATTTTAGA
* * **** * *
12498869 GAGAAAATCAATCTTTGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACATGAAATT
64 AAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGT
* * * * *
12498934 TAGATATTATCATCTTTTGAATTTCTTTTATCACTTTCTTATG-AGAA-AAAAA-AGTTTTGTGC
129 TAGATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
* * * * * *
12498996 TACTCTCATATATAAATTATTGTTTAAATGAAAGTGATTGCTATGATATTTTTCTAAAAAATGGA
194 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTAT--TATATTTCT-----ATGGA
* * * *
12499061 AGTTCTTTCAATGAAAGAGTTAATTTTTATGGTTTCACATCATTTTCATCAATACCACATATAAA
252 AGTTCTTTCAATGAAAAAGTCAATTTTTATGGTTT-ATACCATTTTCATCAATACCACATATAAA
* * ** * * * *
12499126 ATATTTTATAGAGAAAATCAATATAT-ATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAA
316 ATATTTTAGAAAGAAAATCAACCT-TCATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAA
* * *
12499190 AAAAT-AGAAGTTAGATATTATGATCTTTTGAATTTTTTTTATCACTTTCTTAAG-AAAAAAGAA
380 AAAATGA-AAGTTAGATATTATGATCCTTTGAA--TTTCTTATCA---TCTTAAGAAAAAAATAA
* * * *
12499253 CTCTTGTGCTACTCTTATATA-AAAATTTTTCTT--ATGAAAGTGATTGTTATTATAATTTTCCT
439 GTTTTGTGCTACTCTCATATATAAAATTTTTCTTAAATGAAAGTGATTGTTATGAT-ATTTTCCT
* *
12499315 AAAAAATGGAAATTCTTTTA
503 AAAAGATGGAAGTTCTTTTA
* *
12499335 ATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACA--TAAAATATTTTAGA
* * *
12499400 AAAAAAATCAACCAACATATTCTTGCATCACTCTTGTTTATAAGTTCTTCC-AGAAAAATAAAAG
64 AAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTA-AAAAATGAAAG
*
12499464 TTAGATATTATGATCATTTGAATTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTTATG
128 TTAGATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATG
*
12499529 CTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATAATT-T-TGGAAGTTCT
193 CTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTTCTATGGAAGTTCT
* ** *
12499592 ATCAATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTGTCAATACCATATATAAAATATTT
258 TTCAATGAAAAAGTCAATTTTTATGGT-TTATACCATTTTCATCAATACCACATATAAAATATTT
* * *
12499657 TAGAAAGAAAATCAACCTTCATAGTATTGCATCCCTCTTGGTTATAAGTTTTGCCTAAAAAATGA
322 TAGAAAGAAAATCAACCTTCATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAAAAATGA
*
12499722 AAGTTAGTTATTATGATCCTTTGAATTTCTTATCA-CTTAAGAAAAAAATAGAGTTTTGTGCTAC
387 AAGTTAGATATTATGATCCTTTGAATTTCTTATCATCTTAAGAAAAAAATA-AGTTTTGTGCTAC
*** * * * *
12499786 TCTCATATATAGTTTTTTGTTTTTTGAAATGAAAGTTATTGTTATGATATTGTCCTAAAAGGTGG
451 TCTCATATATA--AAATT-TTTCTT-AAATGAAAGTGATTGTTATGATATTTTCCTAAAAGATGG
*
12499851 AAGTTCTTTCA
512 AAGTTCTTTTA
* ** *
12499862 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCACATAAAATATTTTAGAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACATAAAATATTTTAGAAA
* ** * * *
12499927 GAAAATCAATCTTCGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACATGAAATTTA
66 GAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGTTA
* * *
12499992 GATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTATG---AA-AAAAAGAGTTTTGTGCTA
131 GATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGCTA
** * *
12500053 CTCTCATATATAAATTATTT-TTTGAATAAAAGTGATTGCTATGATATTTTTCTAAAAAATGGAA
196 CTCTCATATATAAATT-TTTCTTAAAATAAAAGTGATTGTTAT--TATATTTCT-----ATGGAA
* *
12500117 GTTCTTTCAATGAAAAAGTCAATTTTTATGGTTTCACATCATTTTCATCAATACCACATATAAAA
253 GTTCTTTCAATGAAAAAGTCAATTTTTATGGTTT-ATACCATTTTCATCAATACCACATATAAAA
* * ** * * * *
12500182 TATTTTATAGAGAAAATCAATATAT-ATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAA
317 TATTTTAGAAAGAAAATCAACCT-TCATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAA
* *
12500246 AAAT-AGAAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAAAAGAAC
381 AAATGA-AAGTTAGATATTATGATCCTTTGAATTTC--TTATCA---TCTTAAGAAAAAAATAAG
* * *
12500309 TCTTATGCTACTCTCATATA-AAAATTTTTCTT--ATGAAAGTGATTGTTATTATAATTTTCCTA
440 TTTTGTGCTACTCTCATATATAAAATTTTTCTTAAATGAAAGTGATTGTTATGAT-ATTTTCCTA
* *
12500371 AAAAATGGAAATTCTTTTA
504 AAAGATGGAAGTTCTTTTA
* * * *
12500390 ATCAAAAGGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACA--TAAAATATTTTAGA
* * * *
12500455 AAAAAAATCAACCAACATATTCTTGCATCACTCTTGTTTATAAGTTCTTCCAAAAAAATAAAAGT
64 AAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGT
*
12500520 TAGATATTATGATCATTTGAATTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
129 TAGATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
*
12500585 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTT-T-TGGAAGTTCTA
194 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTTCTATGGAAGTTCTT
** *
12500648 TCAATGAAAAAGTCAATTTTTATGGTTTTATACCATTTTTGTCAATACCATATATAAAATATTTT
259 TCAATGAAAAAGTCAATTTTTATGG-TTTATACCATTTTCATCAATACCACATATAAAATATTTT
* * * *
12500713 AGAAAGAAAATCAACCTTCATAGTATTACATCCCTCTTGGTTATAAGTTTTGCCTAAAAAATGAA
323 AGAAAGAAAATCAACCTTCATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAAAAATGAA
*
12500778 AGTTAGTTATTATGATCCTTTGAATTTCTTATCA-CTTAAGAAAAAAATAGAGTTTTGTGCTACT
388 AGTTAGATATTATGATCCTTTGAATTTCTTATCATCTTAAGAAAAAAATA-AGTTTTGTGCTACT
** * * * *
12500842 CTCATATATAATTTTTTATTTTTTGAAATGAAAGTTATTGTTATGATATTGTCCTAAAAGGTGGA
452 CTCATATATAA--AATT-TTTCTT-AAATGAAAGTGATTGTTATGATATTTTCCTAAAAGATGGA
*
12500907 AGTTCTTTCA
513 AGTTCTTTTA
* ** *
12500917 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCACATAAAATATTTTAGAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACATAAAATATTTTAGAAA
* ** * * *
12500982 GAAAATCAATCTTCGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACATGAAATTTA
66 GAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGTTA
* * *
12501047 GATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTATG---AA-AAAAAGAGTTTTGTGCTA
131 GATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGCTA
** * * *
12501108 CTCTCATATATAAATTATTT-TTTGAATGAAAGTGATTGCTATGATATTTTTCTAAAAAATGGAA
196 CTCTCATATATAAATT-TTTCTTAAAATAAAAGTGATTGTTAT--TATATTTCT-----ATGGAA
* * *
12501172 GTTTTTTCAATGAAAAAGTCAATTTTTATGGTTTCACATCATTTTCATCAATACCACATATAAAA
253 GTTCTTTCAATGAAAAAGTCAATTTTTATGGTTT-ATACCATTTTCATCAATACCACATATAAAA
* * ** * * * *
12501237 TATTTTATAGAGAAAATCAATATAT-ATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAA
317 TATTTTAGAAAGAAAATCAACCT-TCATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAA
* * *
12501301 AAAT-AGAAGTTAGATACTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAAAAGAAC
381 AAATGA-AAGTTAGATATTATGATCCTTTGAATTTC--TTATCA---TCTTAAGAAAAAAATAAG
* *
12501364 TCTTGTGCTACTCTCATATA-AAAATTTTTCTT--ATGAAAGTGATTGTTATTATAATTTTCCTA
440 TTTTGTGCTACTCTCATATATAAAATTTTTCTTAAATGAAAGTGATTGTTATGAT-ATTTTCCTA
* *
12501426 AAAAATGGAAATTCTTTTA
504 AAAGATGGAAGTTCTTTTA
* *
12501445 ATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACA--TAAAATATTTTAGA
* * * *
12501510 AAAAAAATCAACCAACATATTCTTGCATCACTCTTGTTTATAAGTTCTTCCAAAAAAATAAAAGT
64 AAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGT
* *
12501575 TAGATATTATGATCATTTGAGTTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
129 TAGATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
*
12501640 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTT-T-TGGAAGTTCTA
194 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTTCTATGGAAGTTCTT
** *
12501703 TCAATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTGTCAATACCATATATAAAATATTTT
259 TCAATGAAAAAGTCAATTTTTATGGT-TTATACCATTTTCATCAATACCACATATAAAATATTTT
* * *
12501768 AGAAAGAAAATCAACCTTCATAGTATTGCATCCCTCTTGGTTATAAGTTTTGCCTAAAAAATGAA
323 AGAAAGAAAATCAACCTTCATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAAAAATGAA
*
12501833 AGTTAGTTATTATGATCCTTTGAATTTCTTATCA-CTTAAGAAAAAAATAGAGTTTTGTGCTACT
388 AGTTAGATATTATGATCCTTTGAATTTCTTATCATCTTAAGAAAAAAATA-AGTTTTGTGCTACT
** * * * * *
12501897 CTCATATATAATTTTTTATTTTTTGAAATGAAAGTTATTGTTATGATATTGTACTAAAAGGTGGA
452 CTCATATATAA--AATT-TTTCTT-AAATGAAAGTGATTGTTATGATATTTTCCTAAAAGATGGA
*
12501962 AGTTCTTTCA
513 AGTTCTTTTA
* ** *
12501972 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCACATAAAATATTTTAGAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACATAAAATATTTTAGAAA
* ** * ** *
12502037 GAAAATCAATCTTCGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACGTGAAATTTA
66 GAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGTTA
* * *
12502102 GATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTATG---AA-AAAAAGAGTTTTGTGCTA
131 GATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGCTA
** * * *
12502163 CTCTCATATATAAATTATTT-TTTGAATGAAAGTGATTGCTATGATATTTTTCTAAAAAATGGAA
196 CTCTCATATATAAATT-TTTCTTAAAATAAAAGTGATTGTTAT--TATATTTCT-----ATGGAA
* * *
12502227 GTTTTTTCAATGAAAAAGTCAATTTTTATGGTTTCACATCATTTTCATCAATACCACATATAAAA
253 GTTCTTTCAATGAAAAAGTCAATTTTTATGGTTT-ATACCATTTTCATCAATACCACATATAAAA
* * ** * * * *
12502292 TATTTTATAGAGAAAATCAATATAT-ATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAA
317 TATTTTAGAAAGAAAATCAACCT-TCATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAA
* *
12502356 AAAT-AGAAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAAAAGAAC
381 AAATGA-AAGTTAGATATTATGATCCTTTGAATTTC--TTATCA---TCTTAAGAAAAAAATAAG
* *
12502419 TCTTGTGCTACTCTCATATA-AAAATTTTTCTT--ATGAAAGTGATTGTTATTATAATTTTCCTA
440 TTTTGTGCTACTCTCATATATAAAATTTTTCTTAAATGAAAGTGATTGTTATGAT-ATTTTCCTA
* *
12502481 AAAAATGGAAATTCTTTTA
504 AAAGATGGAAGTTCTTTTA
* *
12502500 ATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACA--TAAAATATTTTAGA
** *
12502565 AAGAAAATCAACCAATGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAATAAATGAAAGT
64 AAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGT
*
12502630 TAGATATTATGATCATTTGAATTTCTTTTGTCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
129 TAGATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
* * * * * *
12502695 TAGTCTCATATGTAAATTTTTCTTGAAATGAAAGTGATTGTTATGATATTTTCCTATAAAATGAA
194 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATA-TTT-CTAT----GGAA
*
12502760 GTTCTTTCAATGAAAAAGTCAATTTTTATGGTTTTATACCATTTTCGTCAATACCACATATAAAA
253 GTTCTTTCAATGAAAAAGTCAATTTTTATGG-TTTATACCATTTTCATCAATACCACATATAAAA
*
12502825 TATTTTAGAAAGAAAATCAA-CTTACATAATATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAA
317 TATTTTAGAAAGAAAATCAACCTT-CATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAA
* * *
12502889 AAATGAAAGTTAGATATTAGGATCCTTTAAATTTCTTTTATCACTTTCTTAAAAAAAAAAGATAG
381 AAATGAAAGTTAGATATTATGATCCTTTGAATTTC--TTATCA---TCTT-AAGAAAAAA-ATA-
* * * * * * *
12502954 AGTTTTATACTACTTTCATGTA-CAAATTTTTCTTGAAATGAAAGTGATTGTTATGATGTTTACC
438 AGTTTTGTGCTACTCTCATATATAAAATTTTTCTT-AAATGAAAGTGATTGTTATGATATTTTCC
*
12503018 TAAAAGATGGAAGTTCTTTCA
502 TAAAAGATGGAAGTTCTTTTA
* **
12503039 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCACATATAAAATATTTTA-A
1 ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCAC--ATAAAATATTTTAGA
* * *
12503103 AGAGAAAATCAATCTATATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAG
64 A-AGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAG
* *
12503168 TTAGATATTATGATCCTTTTAATTTCTT
128 TTAGATATTATGATCATTTGAATTTCTT
12503196 ATATATTATT
Statistics
Matches: 3725, Mismatches: 503, Indels: 314
0.82 0.11 0.07
Matches are distributed among these distances:
519 18 0.00
520 21 0.01
521 212 0.06
522 67 0.02
523 43 0.01
524 22 0.01
525 899 0.24
526 14 0.00
527 255 0.07
528 258 0.07
529 145 0.04
530 786 0.21
531 192 0.05
532 49 0.01
533 206 0.06
534 274 0.07
535 32 0.01
536 20 0.01
537 27 0.01
538 2 0.00
539 163 0.04
540 19 0.01
541 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (522 bp):
ATGAAAAAGTTAATTTTTATGGTCTTACACCATTTTCATCAATACCACATAAAATATTTTAGAAA
GAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGTTA
GATATTATGATCATTTGAATTTCTTTTATCACTTTCTTAAGAAAAAGAAAAAGAGTTTTATGCTA
CTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTTCTATGGAAGTTCTTTC
AATGAAAAAGTCAATTTTTATGGTTTATACCATTTTCATCAATACCACATATAAAATATTTTAGA
AAGAAAATCAACCTTCATAGTATTGCATCCTTCTTGTTTATAAGTTTTTCCTAAAAAATGAAAGT
TAGATATTATGATCCTTTGAATTTCTTATCATCTTAAGAAAAAAATAAGTTTTGTGCTACTCTCA
TATATAAAATTTTTCTTAAATGAAAGTGATTGTTATGATATTTTCCTAAAAGATGGAAGTTCTTT
TA
Found at i:12500163 original size:791 final size:787
Alignment explanation
Indices: 12498279--12503195 Score: 5315
Period size: 791 Copynumber: 6.2 Consensus size: 787
12498269 TGGGAAGTTG
*
12498279 ATGAAAAAGTTAATTTTTATGGTCTTACA-CAATTTTCATCAATATCACATAAAAGATATTTTAG
1 ATGAAAAAGTTAATTTTTATGGTCTTACATC-ATTTTCATCAATACCACAT-AAA-ATATTTTAG
* * ** * * * *
12498343 AAAGAAAATCAACCAACATAGTCTTACATCACTCTTGTTTATAAGTTCTTTCAAAAAAATAAAAG
63 AGAGAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAG
** * **
12498408 TTAGATATTATGATTATTTGAATTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTAATG
128 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG--AAA-AAAAAGAGTTTTGTG
* *
12498473 CTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATATTTT--T-----TTGG
190 CTACTCTCATATATAAATTTTT-TT-TAATAAAAGTGATTGTTATTATATTTTCCTAAAAAATGG
* * ** * * *
12498531 AAGTTCTATCAATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTTTCAATGCCATATAAAA
253 AAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCATCAATACCACATATAA
* ** * * *
12498596 AATATTTTAGAAAAAAAATCAACCTTCATAGTATTGCATC-CTTCTTGGTTATAAGTTTTTGCCT
318 AATATTTTAGAAAGAAAATCAACCAACATAGTCTTGCATCAC-TCTTGTTTATAAGTTCTT-CCT
* *
12498660 -AAAAATGAAAGTTAGTTATTATGATCCTTTAAATTTC--TTATCA----CTTAAGAAAAAAATA
381 AAAAAATGAAAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAA-A
* * * * * **
12498718 A-AGTTTTGTGCTACTCTCATATATCATTTTTTTTTTAAATGAAAGTTTTTGTTATGATATTTTC
445 AGAGTTTTATGCTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATGATA-TTT-
* * * * *
12498782 CTAAAAGGTGAAAGTTCTTTTAATGAAAAAGTTAATTTTTATGGTCTTACAACATTTTTGTCAAT
508 CT---A--TGGAAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCGTCAAT
* * **
12498847 ACCATATATAAAATATTTTAGAGAGAAAATCAATCTTTGTAGTCTTGCATCACTCTTGTTTATAA
568 ACCACATATAAAATATTTTAGAAAGAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAA
* * * * *
12498912 GTTCTTCCTAAAACATGAAATTTAGATATTATCATCTTTTGAATTTCTTTTATCACTTTCTTATG
633 GTTCTTCCTAAAAAATGAAAGTTAGATATTATGATCCTTTGAATTTC-TTTATCA---TCTTAAG
* * * *
12498977 AGAAAAAAA-AGTTTTGTGCTACTCTCATATATAAATTATTGTTTAAATGAAAGTGATTGCTATG
694 A-AAAAAAAGAGTTTTGTGCTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATG
*
12499041 ATATTTTTCTAAAAAATGGAAGTTCTTTCA
758 ATATTTTCCTAAAAAATGGAAGTTCTTTCA
* *
12499071 ATGAAAGAGTTAATTTTTATGGT-TTCACATCATTTTCATCAATACCACATATAAAATATTTTAT
1 ATGAAAAAGTTAATTTTTATGGTCTT-ACATCATTTTCATCAATACCAC--ATAAAATATTTTAG
* * * * *
12499135 AGAGAAAATCAATATAT-ATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAAAAAT-AGA
63 AGAGAAAATCAATCT-TCATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGA-A
* * * * *
12499198 AGTTAGATATTATGATCTTTTGAATTTTTTTTATCACTTTCTTAAGAAAAAAGA-ACTCTTGTGC
126 AGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAGAGTTTTGTGC
* * * *
12499262 TACTCTTATATAAAAATTTTTCTT-ATGAAAGTGATTGTTATTATAATTTTCCTAAAAAATGGAA
191 TACTCTCATATATAAATTTTTTTTAATAAAAGTGATTGTTATTAT-ATTTTCCTAAAAAATGGAA
* * ** * *
12499326 ATTCTTTTAATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAA
255 GTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCATCAATACCACATATAAAA
* *
12499391 TATTTTAGAAAAAAAATCAACCAACATATTCTTGCATCACTCTTGTTTATAAGTTCTTCC-AGAA
320 TATTTTAGAAAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTA-AA
* * *
12499455 AAATAAAAGTTAGATATTATGATCATTTGAATTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAG
384 AAATGAAAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAA-AAAAAG
* * * *
12499520 AGTTTTATGCTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATAATT-T-T
447 AGTTTTATGCTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATGATATTTCTAT
* * * *
12499583 GGAAGTTCTATCAATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTGTCAATACCATATAT
512 GGAAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCGTCAATACCACATAT
* * * *
12499648 AAAATATTTTAGAAAGAAAATCAACCTTCATAGTATTGCATCCCTCTTGGTTATAAGTT-TTGCC
577 AAAATATTTTAGAAAGAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAAGTTCTT-CC
*
12499712 TAAAAAATGAAAGTTAGTTATTATGATCCTTTGAATTTC-TTATCA-CTTAAGAAAAAAATAGAG
641 TAAAAAATGAAAGTTAGATATTATGATCCTTTGAATTTCTTTATCATCTTAAGAAAAAAA-AGAG
** * * *
12499775 TTTTGTGCTACTCTCATATATAGTTTTTTGTTTTTTGAAATGAAAGTTATTGTTATGATATTGTC
705 TTTTGTGCTACTCTCATATATA---AATT-TTTCTTGAAATGAAAGTGATTGTTATGATATTTTC
**
12499840 CTAAAAGGTGGAAGTTCTTTCA
766 CTAAAAAATGGAAGTTCTTTCA
**
12499862 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCACATAAAATATTTTAGAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTCATCAATACCACATAAAATATTTTAGAGA
* * *
12499927 GAAAATCAATCTTCGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAACATGAAATTTA
66 GAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGTTA
*
12499992 GATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTATG-AAAAAAAGAGTTTTGTGCTACTC
131 GATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAGAGTTTTGTGCTACTC
* * *
12500056 TCATATATAAATTATTTTTTGAATAAAAGTGATTGCTATGATATTTTTCTAAAAAATGGAAGTTC
196 TCATATATAAATT-TTTTTT-AATAAAAGTGATTGTTATTATATTTTCCTAAAAAATGGAAGTTC
*
12500121 TTTCAATGAAAAAGTCAATTTTTATGGT-TTCACATCATTTTCATCAATACCACATATAAAATAT
259 TTTCAATGAAAAAGTCAATTTTTATGGTCTT-ACACCATTTTCATCAATACCACATATAAAATAT
* * * * * * * *
12500185 TTTATAGAGAAAATCAA-TATATATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAAAAA
323 TTTAGAAAGAAAATCAACCA-ACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAA
* * *
12500249 T-AGAAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAAAAGA-ACTC
387 TGA-AAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTT
* *
12500311 TTATGCTACTCTCATATAAAAATTTTTCTT---ATGAAAGTGATTGTTATTATAATTTTCCTAAA
451 TTATGCTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATGAT-A-TTT-CT---
* * * * ** * *
12500373 AAATGGAAATTCTTTTAATCAAAAGGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCAC
510 --ATGGAAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCGTCAATACCAC
* * * ** *
12500438 ATGTAAAATATTTTAGAAAAAAAATCAACCAACATATTCTTGCATCACTCTTGTTTATAAGTTCT
573 ATATAAAATATTTTAGAAAGAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAAGTTCT
* * *
12500503 TCCAAAAAAATAAAAGTTAGATATTATGATCATTTGAATTTCTTTTATCATTTTCTTAAGAAAAA
638 TCCTAAAAAATGAAAGTTAGATATTATGATCCTTTGAATTTC-TTTATCA---TCTTAAG--AAA
* * * *
12500568 GAAAAAGAGTTTTATGCTACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATA
697 -AAAAAGAGTTTTGTGCTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATGATA
*
12500633 -TTT--T------TGGAAGTTCTATCA
761 TTTTCCTAAAAAATGGAAGTTCTTTCA
* * * * ** *
12500651 ATGAAAAAGTCAATTTTTATGGTTTTATACCATTTTTGTCAATACCATATATAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTCATCAATACC--ACATAAAATATTTTAGA
* * * * * *
12500716 AAGAAAATCAACCTTCATAGTATTACATCCCTCTTGGTTATAAGTT-TTGCCTAAAAAATGAAAG
64 GAGAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAAGTTCTT-CCTAAAAAATGAAAG
*
12500780 TTAGTTATTATGATCCTTTGAATTTC--TTATCA----CTTAAGAAAAAAATAGAGTTTTGTGCT
128 TTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAA-AGAGTTTTGTGCT
* * * * * **
12500839 ACTCTCATATATAATTTTTTATTTTTTGAAATGAAAGTTATTGTTATGATATTGTCCTAAAAGGT
192 ACTCTCATATATAA---ATT-TTTTTT--AATAAAAGTGATTGTTATTATATTTTCCTAAAAAAT
* * **
12500904 GGAAGTTCTTTCAATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCAC--AT
251 GGAAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCATCAATACCACATAT
* * ** *
12500967 AAAATATTTTAGAGAGAAAATCAATCTTCGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCT
316 AAAATATTTTAGAAAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCT
* * *
12501032 AAAACATGAAATTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTATG--AAAAAAA
381 AAAAAATGAAAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAA
* * *
12501095 GAGTTTTGTGCTACTCTCATATATAAATTATTTTTTG-AATGAAAGTGATTGCTATGATATTTTT
446 GAGTTTTATGCTACTCTCATATATAAATT-TTTCTTGAAATGAAAGTGATTGTTATGATA--TTT
* * *
12501159 CTAAAAAATGGAAGTTTTTTCAATGAAAAAGTCAATTTTTATGGT-TTCACATCATTTTCATCAA
508 CT-----ATGGAAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTT-ACACCATTTTCGTCAA
* * * * * *
12501223 TACCACATATAAAATATTTTATAGAGAAAATCAATATAT-ATAGTCTTGTATCATTCTTATTTAT
567 TACCACATATAAAATATTTTAGAAAGAAAATCAATCT-TCATAGTCTTGCATCACTCTTGTTTAT
* *
12501287 AAGTTTTTCCTAAAAAAT-AGAAGTTAGATACTATGATCCTTTGAATTTCTTTTATCACTTTCTT
631 AAGTTCTTCCTAAAAAATGA-AAGTTAGATATTATGATCCTTTGAATTTC-TTTATCA---TCTT
* * * *
12501351 AAGAAAAAAGA-ACTCTTGTGCTACTCTCATATAAAAATTTTTCTT---ATGAAAGTGATTGTTA
691 AAGAAAAAAAAGAGTTTTGTGCTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTA
* * *
12501412 TTATAATTTTCCTAAAAAATGGAAATTCTTTTA
756 TGAT-ATTTTCCTAAAAAATGGAAGTTCTTTCA
* * *
12501445 ATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAATATTTTAGA
1 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTCATCAATACCACA--TAAAATATTTTAGA
* * * ** * * *
12501510 AAAAAAATCAACCAACATATTCTTGCATCACTCTTGTTTATAAGTTCTTCCAAAAAAATAAAAGT
64 GAGAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGT
* * * *
12501575 TAGATATTATGATCATTTGAGTTTCTTTTATCATTTTCTTAAGAAAAAGAAAAAGAGTTTTATGC
129 TAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG--AAA-AAAAAGAGTTTTGTGC
*
12501640 TACTCTCATATATAAATTTTTCTTAAAATAAAAGTGATTGTTATTATA-TTT--T------TGGA
191 TACTCTCATATATAAATTTTT-TT-TAATAAAAGTGATTGTTATTATATTTTCCTAAAAAATGGA
* * ** *
12501696 AGTTCTATCAATGAAAAAGTCAATTTTTATGGTCTTATACCATTTTTGTCAATACCATATATAAA
254 AGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCATCAATACCACATATAAA
** * * *
12501761 ATATTTTAGAAAGAAAATCAACCTTCATAGTATTGCATCCCTCTTGGTTATAAGTT-TTGCCTAA
319 ATATTTTAGAAAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTT-CCTAA
* *
12501825 AAAATGAAAGTTAGTTATTATGATCCTTTGAATTTC--TTATCA----CTTAAGAAAAAAATAGA
383 AAAATGAAAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGA
* * * *
12501884 GTTTTGTGCTACTCTCATATATAATTTTTTATTTTTTGAAATGAAAGTTATTGTTATGATATTGT
448 GTTTTATGCTACTCTCATATATAA---ATT-TTTCTTGAAATGAAAGTGATTGTTATGATATT-T
* * *
12501949 ACTAAAAGGTGGAAGTTCTTTCAATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAA
508 -CT---A--TGGAAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCGTCAA
* *
12502014 TACCAC--ATAAAATATTTTAGAGAGAAAATCAATCTTCGTAGTCTTGCATCACTCTTGTTTATA
567 TACCACATATAAAATATTTTAGAAAGAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATA
** * *
12502077 AGTTCTTCCTAAAACGTGAAATTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAT
632 AGTTCTTCCTAAAAAATGAAAGTTAGATATTATGATCCTTTGAATTTC-TTTATCA---TCTTAA
* *
12502142 G-AAAAAAAGAGTTTTGTGCTACTCTCATATATAAATTATTTTTTG-AATGAAAGTGATTGCTAT
693 GAAAAAAAAGAGTTTTGTGCTACTCTCATATATAAATT-TTTCTTGAAATGAAAGTGATTGTTAT
* *
12502205 GATATTTTTCTAAAAAATGGAAGTTTTTTCA
757 GATATTTTCCTAAAAAATGGAAGTTCTTTCA
* *
12502236 ATGAAAAAGTCAATTTTTATGGT-TTCACATCATTTTCATCAATACCACATATAAAATATTTTAT
1 ATGAAAAAGTTAATTTTTATGGTCTT-ACATCATTTTCATCAATACCAC--ATAAAATATTTTAG
* * * * *
12502300 AGAGAAAATCAATATAT-ATAGTCTTGTATCATTCTTATTTATAAGTTTTTCCTAAAAAAT-AGA
63 AGAGAAAATCAATCT-TCATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGA-A
* * *
12502363 AGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAGA-ACTCTTGTGC
126 AGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAGAGTTTTGTGC
* * *
12502427 TACTCTCATATAAAAATTTTTCTT-ATGAAAGTGATTGTTATTATAATTTTCCTAAAAAATGGAA
191 TACTCTCATATATAAATTTTTTTTAATAAAAGTGATTGTTATTAT-ATTTTCCTAAAAAATGGAA
* * ** * *
12502491 ATTCTTTTAATGAAAAAGTTGATTTTTATGGTTTTACACCATTTTCATCAATACCACATGTAAAA
255 GTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCATCAATACCACATATAAAA
** *
12502556 TATTTTAGAAAGAAAATCAACCAATGTAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAATA
320 TATTTTAGAAAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAA
* *
12502621 AATGAAAGTTAGATATTATGATCATTTGAATTTCTTTTGTCACTTTCTTAAGAAAAAGAAAAAGA
385 AATGAAAGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAG-AAAA-AAAAAGA
* *
12502686 GTTTTATGCTAGTCTCATATGTAAATTTTTCTTGAAATGAAAGTGATTGTTATGATATTTTCCTA
448 GTTTTATGCTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATGATA-TTT-CTA
* * *
12502751 TAAAATGAAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTTTTATACCATTTTCGTCAATACCA
511 T----GGAAGTTCTTTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCGTCAATACCA
* *
12502816 CATATAAAATATTTTAGAAAGAAAATCAA-CTTACATAATATTGCATC-CTTCTTGTTTATAAGT
572 CATATAAAATATTTTAGAAAGAAAATCAATCTT-CATAGTCTTGCATCAC-TCTTGTTTATAAGT
* * * *
12502879 TTTTCCTAAAAAATGAAAGTTAGATATTAGGATCCTTTAAATTTCTTTTATCACTTTCTTAAAAA
635 TCTTCCTAAAAAATGAAAGTTAGATATTATGATCCTTTGAATTTC-TTTATCA---TCTT-AAGA
* * * * *
12502944 AAAAAGATAGAGTTTTATACTACTTTCATGTACAAATTTTTCTTGAAATGAAAGTGATTGTTATG
695 AAAAA-A-AGAGTTTTGTGCTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATG
* * *
12503009 ATGTTTACCTAAAAGATGGAAGTTCTTTCA
758 ATATTTTCCTAAAAAATGGAAGTTCTTTCA
** *
12503039 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTTGTCAATACCACATATAAAATATTTTAAA
1 ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTCATCAATACCAC--ATAAAATATTTTAGA
12503104 GAGAAAATCAATCTAT-ATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAG
64 GAGAAAATCAATCT-TCATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAG
*
12503168 TTAGATATTATGATCCTTTTAATTTCTT
128 TTAGATATTATGATCCTTTGAATTTCTT
12503196 ATATATTATT
Statistics
Matches: 3529, Mismatches: 428, Indels: 325
0.82 0.10 0.08
Matches are distributed among these distances:
784 57 0.02
785 38 0.01
786 27 0.01
787 172 0.05
788 61 0.02
789 537 0.15
790 63 0.02
791 949 0.27
792 355 0.10
793 146 0.04
794 430 0.12
795 15 0.00
796 17 0.00
797 59 0.02
798 83 0.02
799 120 0.03
800 27 0.01
801 61 0.02
802 91 0.03
803 218 0.06
804 3 0.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (787 bp):
ATGAAAAAGTTAATTTTTATGGTCTTACATCATTTTCATCAATACCACATAAAATATTTTAGAGA
GAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAAAGTTA
GATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAGAGTTTTGTGCTACTC
TCATATATAAATTTTTTTTAATAAAAGTGATTGTTATTATATTTTCCTAAAAAATGGAAGTTCTT
TCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCATCAATACCACATATAAAATATTTT
AGAAAGAAAATCAACCAACATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGAA
AGTTAGATATTATGATCCTTTGAATTTCTTTTATCACTTTCTTAAGAAAAAAAAAGAGTTTTATG
CTACTCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATGATATTTCTATGGAAGTTCT
TTCAATGAAAAAGTCAATTTTTATGGTCTTACACCATTTTCGTCAATACCACATATAAAATATTT
TAGAAAGAAAATCAATCTTCATAGTCTTGCATCACTCTTGTTTATAAGTTCTTCCTAAAAAATGA
AAGTTAGATATTATGATCCTTTGAATTTCTTTATCATCTTAAGAAAAAAAAGAGTTTTGTGCTAC
TCTCATATATAAATTTTTCTTGAAATGAAAGTGATTGTTATGATATTTTCCTAAAAAATGGAAGT
TCTTTCA
Found at i:12504045 original size:21 final size:22
Alignment explanation
Indices: 12504007--12504051 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
12503997 TGCTTAACTG
12504007 TAAGTTCTAAAAAAGGTAGAGA
1 TAAGTTCTAAAAAAGGTAGAGA
*
12504029 TAAGTTCT-AAAATGGTAGAGA
1 TAAGTTCTAAAAAAGGTAGAGA
12504050 TA
1 TA
12504052 GTTTTACTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (22 bp):
TAAGTTCTAAAAAAGGTAGAGA
Found at i:12504511 original size:14 final size:14
Alignment explanation
Indices: 12504492--12504519 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12504482 GACCAAAGGA
12504492 TGAAGTTTACTTAT
1 TGAAGTTTACTTAT
12504506 TGAAGTTTACTTAT
1 TGAAGTTTACTTAT
12504520 GGCAGCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
TGAAGTTTACTTAT
Found at i:12505757 original size:27 final size:25
Alignment explanation
Indices: 12505727--12505792 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 25
12505717 AAACAATCTT
12505727 ATATAATATTATAATTGTATCATAATC
1 ATATAATATTATAA-T-TATCATAATC
*
12505754 ATATATATTATTTTAATTATCATAATC
1 ATATA-A-TATTATAATTATCATAATC
*
12505781 -TCTAATATTATA
1 ATATAATATTATA
12505793 TTAGATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 6 0.18
25 1 0.03
26 3 0.09
27 15 0.44
28 2 0.06
29 7 0.21
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATAATATTATAATTATCATAATC
Found at i:12505758 original size:29 final size:27
Alignment explanation
Indices: 12505721--12505780 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
12505711 CTAATGAAAC
*
12505721 AATCTTATATAATATTATAATTGTATCAT
1 AATCATATATAATATTATAA-T-TATCAT
* *
12505750 AATCATATATATTATTTTAATTATCAT
1 AATCATATATAATATTATAATTATCAT
12505777 AATC
1 AATC
12505781 TCTAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.36
28 1 0.04
29 17 0.61
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (27 bp):
AATCATATATAATATTATAATTATCAT
Found at i:12517011 original size:12 final size:12
Alignment explanation
Indices: 12516996--12517036 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
12516986 AATATGGAAT
*
12516996 TATATATATATA
1 TATATATATATG
*
12517008 TATATATACATG
1 TATATATATATG
*
12517020 TATATATTTATG
1 TATATATATATG
12517032 TATAT
1 TATAT
12517037 GTATGTGCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (12 bp):
TATATATATATG
Found at i:12517023 original size:18 final size:18
Alignment explanation
Indices: 12517002--12517040 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12516992 GAATTATATA
12517002 TATATATATATATACATG
1 TATATATATATATACATG
* * *
12517020 TATATATTTATGTATATG
1 TATATATATATATACATG
12517038 TAT
1 TAT
12517041 GTGCGCACGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (18 bp):
TATATATATATATACATG
Found at i:12518855 original size:8 final size:8
Alignment explanation
Indices: 12518843--12518886 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
12518833 GCAAAATAGT
*
12518843 TTTTTTAT
1 TTTTTTAA
12518851 TTTTTTAA
1 TTTTTTAA
12518859 TTTTTTAA
1 TTTTTTAA
12518867 TTTTTTAA
1 TTTTTTAA
12518875 TTTTTT-A
1 TTTTTTAA
12518882 TTTTT
1 TTTTT
12518887 ATATGGGCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
7 6 0.17
8 29 0.83
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTAA
Found at i:12519163 original size:15 final size:14
Alignment explanation
Indices: 12519145--12519200 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 14
12519135 TAATATTTAC
12519145 TAATATATTATTTGT
1 TAATATATTATTT-T
*
12519160 TAATATAATATTCTTTT
1 T-A-AT-ATATTATTTT
12519177 TAATATATTA-TTT
1 TAATATATTATTTT
12519190 TAATATATTAT
1 TAATATATTAT
12519201 AAAATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 13 0.37
14 5 0.14
15 3 0.09
16 2 0.06
17 4 0.11
18 8 0.23
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (14 bp):
TAATATATTATTTT
Found at i:12519170 original size:30 final size:30
Alignment explanation
Indices: 12519118--12519196 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 30
12519108 CTTTATTTAT
*
12519118 TATTATTAATAATATAATAATAT-TTACTAATA
1 TATTATT-TTAATATAAT-AT-TCTTACTAATA
**
12519150 TATTATTTGTTAATATAATATTCTTTTTAATA
1 TATTA-TT-TTAATATAATATTCTTACTAATA
12519182 TATTATTTTAATATA
1 TATTATTTTAATATA
12519197 TTATAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 8 0.20
31 3 0.07
32 19 0.46
33 11 0.27
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (30 bp):
TATTATTTTAATATAATATTCTTACTAATA
Found at i:12519181 original size:17 final size:18
Alignment explanation
Indices: 12519149--12519188 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
12519139 ATTTACTAAT
12519149 ATATTATTTGTTAATATA
1 ATATTATTTGTTAATATA
*
12519167 ATATTCTTT-TTAATATA
1 ATATTATTTGTTAATATA
*
12519184 TTATT
1 ATATT
12519189 TTAATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
ATATTATTTGTTAATATA
Found at i:12519839 original size:29 final size:29
Alignment explanation
Indices: 12519784--12519852 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
12519774 TTTTTTAAAT
* *
12519784 ATCATATTAATTAATAAATTTATAATTTAA
1 ATCATA-TATTTAAAAAATTTATAATTTAA
12519814 ATCATATATTTAAAAAATTT-TAAATTTAA
1 ATCATATATTTAAAAAATTTAT-AATTTAA
12519843 AT-ATCATATT
1 ATCAT-ATATT
12519853 AAATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
29 26 0.74
30 6 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (29 bp):
ATCATATATTTAAAAAATTTATAATTTAA
Found at i:12520519 original size:20 final size:17
Alignment explanation
Indices: 12520475--12520518 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
12520465 ATTTATTTAT
*
12520475 AATAA-TTTATTATTAA
1 AATAATTTTACTATTAA
12520491 AATAATTTTACTATTAA
1 AATAATTTTACTATTAA
12520508 TAATTAATTTT
1 -AA-TAATTTT
12520519 TTTCATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 10 0.42
18 2 0.08
19 7 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AATAATTTTACTATTAA
Found at i:12521380 original size:35 final size:34
Alignment explanation
Indices: 12521303--12521386 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 34
12521293 CATTTTTATG
* * * *
12521303 AACTTTAAAAGGTTTTCGAATTTGCAAATCCAAA
1 AACTTTAAAAAGCTTTCAAATTTACAAATCCAAA
* * *
12521337 AACCTTAAAAAGCTTTCAAATTTACATATTCAAA
1 AACTTTAAAAAGCTTTCAAATTTACAAATCCAAA
12521371 AAGCTTT-AAAAGCTTT
1 AA-CTTTAAAAAGCTTT
12521387 AGATTTAGGG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 38 0.93
35 3 0.07
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (34 bp):
AACTTTAAAAAGCTTTCAAATTTACAAATCCAAA
Found at i:12525224 original size:76 final size:76
Alignment explanation
Indices: 12525093--12525249 Score: 253
Period size: 76 Copynumber: 2.1 Consensus size: 76
12525083 GGTAATAATA
* * *
12525093 TCATGTAAGAATCAAAAGTCATGGTATAGGGCCATTATTGTAAGGTTGACGCATAATGTCATGTA
1 TCATGTAAGAATCAAAAGTCATGGTATAGGGCCATTATTATAAGGTTGACACATAACGTCATGTA
*
12525158 GGTGTCCAAAG
66 AGTGTCCAAAG
*
12525169 TCATGTAAGAATCAAAAGTCATGGTGA-GGGGCCATTATTATAAGGTTGACACATAACGTCATGT
1 TCATGTAAGAATCAAAAGTCATGGT-ATAGGGCCATTATTATAAGGTTGACACATAACGTCATGT
12525233 AAGTGTCCAAAG
65 AAGTGTCCAAAG
12525245 TCATG
1 TCATG
12525250 GCATGGGGGC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
76 74 0.99
77 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (76 bp):
TCATGTAAGAATCAAAAGTCATGGTATAGGGCCATTATTATAAGGTTGACACATAACGTCATGTA
AGTGTCCAAAG
Found at i:12525964 original size:9 final size:9
Alignment explanation
Indices: 12525939--12525981 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
12525929 GAATTAGGGT
12525939 AAAAATAAA
1 AAAAATAAA
*
12525948 ATAAAATAAG
1 A-AAAATAAA
12525958 AAAAATAAA
1 AAAAATAAA
12525967 AAAAATAAA
1 AAAAATAAA
*
12525976 CAAAAT
1 AAAAAT
12525982 CTTTAATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAATAAA
Found at i:12525980 original size:19 final size:19
Alignment explanation
Indices: 12525939--12525980 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
12525929 GAATTAGGGT
*
12525939 AAAAATAAAATAAAATAAG
1 AAAAATAAAATAAAATAAC
12525958 AAAAATAAAA-AAAATAAAC
1 AAAAATAAAATAAAAT-AAC
12525977 AAAA
1 AAAA
12525981 TCTTTAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAAATAAAATAAAATAAC
Found at i:12525981 original size:18 final size:19
Alignment explanation
Indices: 12525939--12525974 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12525929 GAATTAGGGT
12525939 AAAAATAAAATAAAATAAG
1 AAAAATAAAATAAAATAAG
12525958 AAAAATAAAA-AAAATAA
1 AAAAATAAAATAAAATAA
12525975 ACAAAATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (19 bp):
AAAAATAAAATAAAATAAG
Found at i:12526277 original size:37 final size:36
Alignment explanation
Indices: 12526226--12526297 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
12526216 ATATGTTTTT
* * *
12526226 AAATATTTATAAAATATGTAATAAAATATAATAAAACA
1 AAATATTTAAAAAATATAT-AT-AAATATAAAAAAACA
12526264 AAAT-TTTAAAAAATATATATAAATATAAAAAAAC
1 AAATATTTAAAAAATATATATAAATATAAAAAAAC
12526298 TTTTATATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 13 0.42
36 2 0.06
37 12 0.39
38 4 0.13
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (36 bp):
AAATATTTAAAAAATATATATAAATATAAAAAAACA
Found at i:12527202 original size:10 final size:10
Alignment explanation
Indices: 12527187--12527225 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
12527177 AAAATTATCT
12527187 TTTTAATAAA
1 TTTTAATAAA
*
12527197 TTTTAATTAA
1 TTTTAATAAA
12527207 TTTTAA-AAA
1 TTTTAATAAA
*
12527216 TTTTATTAAA
1 TTTTAATAAA
12527226 AAGATAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:12527218 original size:19 final size:19
Alignment explanation
Indices: 12527187--12527224 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
12527177 AAAATTATCT
12527187 TTTTAATAAATTTTAATTAA
1 TTTTAATAAATTTT-ATTAA
12527207 TTTTAA-AAATTTTATTAA
1 TTTTAATAAATTTTATTAA
12527225 AAAGATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATAAATTTTATTAA
Found at i:12536923 original size:2 final size:2
Alignment explanation
Indices: 12536916--12536943 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12536906 AGCTCCTAAC
12536916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12536944 TTTTTTTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12543573 original size:18 final size:20
Alignment explanation
Indices: 12543550--12543586 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
12543540 TAAGAAAGAG
12543550 AAAAACT-TAG-TACATCCA
1 AAAAACTATAGTTACATCCA
12543568 AAAAACTATAGTTACATCC
1 AAAAACTATAGTTACATCC
12543587 TCTTATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAACTATAGTTACATCCA
Found at i:12543899 original size:16 final size:18
Alignment explanation
Indices: 12543878--12543913 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
12543868 GTGTAGATCT
12543878 ATTTTTTA-ATTTT-AGC
1 ATTTTTTACATTTTCAGC
12543894 A-TTTTTACATTTTCAGC
1 ATTTTTTACATTTTCAGC
12543911 ATT
1 ATT
12543914 AAATCTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.35
16 6 0.35
17 4 0.24
18 1 0.06
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTTCAGC
Found at i:12547336 original size:15 final size:15
Alignment explanation
Indices: 12547307--12547349 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
12547297 ATAGAGCTTG
*
12547307 AAAAAGAATGAAAAA
1 AAAAAGAAAGAAAAA
* *
12547322 AGAATGAAAGAAAAA
1 AAAAAGAAAGAAAAA
12547337 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
12547350 CAATTCAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAGAAAAA
Found at i:12554212 original size:15 final size:15
Alignment explanation
Indices: 12554192--12554221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12554182 ATCCTAAAAG
12554192 CATGAAACTAAATGA
1 CATGAAACTAAATGA
*
12554207 CATGAAATTAAATGA
1 CATGAAACTAAATGA
12554222 AAGCCAAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
CATGAAACTAAATGA
Found at i:12563692 original size:22 final size:22
Alignment explanation
Indices: 12563667--12563718 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
12563657 TAAAGCCTAA
*
12563667 TCATATTTTGATTAAAAGATTG
1 TCATATTTTGACTAAAAGATTG
12563689 TCATATTTTGACTAAAAGATTG
1 TCATATTTTGACTAAAAGATTG
12563711 TCATATTT
1 TCATATTT
12563719 GTATCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (22 bp):
TCATATTTTGACTAAAAGATTG
Found at i:12566711 original size:19 final size:19
Alignment explanation
Indices: 12566676--12566712 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12566666 TACTTTTCAC
*
12566676 TAATTTTTTTCCTTTCATT
1 TAATTTTTTTCCATTCATT
*
12566695 TAATTTTTTTTCATTCAT
1 TAATTTTTTTCCATTCAT
12566713 ATTACTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.68
Consensus pattern (19 bp):
TAATTTTTTTCCATTCATT
Found at i:12567424 original size:21 final size:20
Alignment explanation
Indices: 12567387--12567429 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
12567377 AAGATCTCAA
*
12567387 TTTTTAAATTTTTTTCTCTT
1 TTTTTAAATTTTCTTCTCTT
*
12567407 TTTTTAGATCTTTCTTCTCTT
1 TTTTTAAAT-TTTCTTCTCTT
12567428 TT
1 TT
12567430 GAGCACTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTTAAATTTTCTTCTCTT
Found at i:12576696 original size:16 final size:16
Alignment explanation
Indices: 12576675--12576705 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12576665 TAAGTCTAAC
12576675 TTAATTTTGCACAATA
1 TTAATTTTGCACAATA
*
12576691 TTAATTTTTCACAAT
1 TTAATTTTGCACAAT
12576706 TGTCTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAATTTTGCACAATA
Found at i:12581306 original size:202 final size:202
Alignment explanation
Indices: 12580960--12581342 Score: 590
Period size: 202 Copynumber: 1.9 Consensus size: 202
12580950 AGTTTTAAAT
* *
12580960 TTTAAATTAGATTCAAAATTATTTTTACTTATTAAAGAATTTAATTGTCTTAATATATTTTAGGA
1 TTTAAATTACATTCAAAATTATTTTTACTTATTAAAGAATTTAATTGTCTCAATATATTTTAGGA
* * *
12581025 CATTGTTTACTCATTTAGAATATTTAATTGTCATAATATATTTAAAGACAAACGTATTGTAAACA
66 CATTGTTTACTCATTTAAAATATTTAATTGTCACAATATATTTAAAGACAAACGCATTGTAAACA
*
12581090 TGGTACAATAAATATATTCTTTAATATGTTAATGT-TAATTTTCTTTTAAATTTTAATCAATTTA
131 TGGTACAATAAATATATTCTTTAATATGTTAATATAT-ATTTTCTTTTAAATTTTAATCAATTTA
12581154 AAAAAAAG
195 AAAAAAAG
* * * * *
12581162 TTTAAATTACATTCAAAATTGTTTTTGCTTATTTAAGAATTTTAATTGTCTCAATGTA-TTTATG
1 TTTAAATTACATTCAAAATTATTTTTACTTATTAAAGAA-TTTAATTGTCTCAATATATTTTAGG
* *
12581226 ACATTGTTTATTCATTTAAAATATTTAATTGTCACAATATATTTAAAGACAAATGCATTGTAAAC
65 ACATTGTTTACTCATTTAAAATATTTAATTGTCACAATATATTTAAAGACAAACGCATTGTAAAC
* * *
12581291 ATGGTATAATAAATATATTTTTTACTATGTTAATATATATTTTCTTTTAAAT
130 ATGGTACAATAAATATATTCTTTAATATGTTAATATATATTTTCTTTTAAAT
12581343 GATTTTTTCC
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
202 146 0.90
203 17 0.10
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (202 bp):
TTTAAATTACATTCAAAATTATTTTTACTTATTAAAGAATTTAATTGTCTCAATATATTTTAGGA
CATTGTTTACTCATTTAAAATATTTAATTGTCACAATATATTTAAAGACAAACGCATTGTAAACA
TGGTACAATAAATATATTCTTTAATATGTTAATATATATTTTCTTTTAAATTTTAATCAATTTAA
AAAAAAG
Found at i:12587903 original size:47 final size:47
Alignment explanation
Indices: 12587845--12587935 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
12587835 TAAATTTGTT
* **
12587845 TTTACTTATTTAAGAAGTTTAGTGTTGTAATATATTTTAGGACATTG
1 TTTACTAATTTAAGAAGTTTAGTGTCCTAATATATTTTAGGACATTG
* * *
12587892 TTTACTAATTTAGGAATTTTATTGTCCTAATATATTTTAGGACA
1 TTTACTAATTTAAGAAGTTTAGTGTCCTAATATATTTTAGGACA
12587936 AATTATTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (47 bp):
TTTACTAATTTAAGAAGTTTAGTGTCCTAATATATTTTAGGACATTG
Found at i:12596921 original size:124 final size:124
Alignment explanation
Indices: 12596701--12596940 Score: 480
Period size: 124 Copynumber: 1.9 Consensus size: 124
12596691 TTCAAATTTT
12596701 TCAAGAAGAGTTTTAGGATTTATGAGAGAGCTAATTGCATTAATTTGTCTAAGTCTAATAAATCT
1 TCAAGAAGAGTTTTAGGATTTATGAGAGAGCTAATTGCATTAATTTGTCTAAGTCTAATAAATCT
12596766 GACGTGTATATTAAAATCAAAATTAGATGACGCGTTAAATATACGAAATAAAATCAAAA
66 GACGTGTATATTAAAATCAAAATTAGATGACGCGTTAAATATACGAAATAAAATCAAAA
12596825 TCAAGAAGAGTTTTAGGATTTATGAGAGAGCTAATTGCATTAATTTGTCTAAGTCTAATAAATCT
1 TCAAGAAGAGTTTTAGGATTTATGAGAGAGCTAATTGCATTAATTTGTCTAAGTCTAATAAATCT
12596890 GACGTGTATATTAAAATCAAAATTAGATGACGCGTTAAATATACGAAATAA
66 GACGTGTATATTAAAATCAAAATTAGATGACGCGTTAAATATACGAAATAA
12596941 GATGGTGATT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 116 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (124 bp):
TCAAGAAGAGTTTTAGGATTTATGAGAGAGCTAATTGCATTAATTTGTCTAAGTCTAATAAATCT
GACGTGTATATTAAAATCAAAATTAGATGACGCGTTAAATATACGAAATAAAATCAAAA
Found at i:12600806 original size:19 final size:19
Alignment explanation
Indices: 12600758--12600813 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
12600748 CAATTTGGTT
*
12600758 AGGGTTTAGTAAAGG-TTA
1 AGGGTTTAGTTAAGGTTTA
**
12600776 A-GGTCAAGGTTAAGGTTTA
1 AGGGTTTA-GTTAAGGTTTA
12600795 AGGGTTTAGTTAAGGTTTA
1 AGGGTTTAGTTAAGGTTTA
12600814 GGCTTGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 15 0.50
20 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (19 bp):
AGGGTTTAGTTAAGGTTTA
Found at i:12600902 original size:13 final size:13
Alignment explanation
Indices: 12600884--12600909 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12600874 CAGGTTTGAA
12600884 AGTTTGGGGTTTT
1 AGTTTGGGGTTTT
12600897 AGTTTGGGGTTTT
1 AGTTTGGGGTTTT
12600910 GTTAAGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.38, T:0.54
Consensus pattern (13 bp):
AGTTTGGGGTTTT
Found at i:12601073 original size:37 final size:37
Alignment explanation
Indices: 12600995--12601119 Score: 123
Period size: 37 Copynumber: 3.4 Consensus size: 37
12600985 TTCAGGTTTT
* * * *
12600995 GGTTTGGGGTTTAAGATA-GGTTTAGGTTTAAGTTTGAG
1 GGTTTGGGGTTT-GGTTAGGGTTTAGGTCT-AGGTTGAG
* *
12601033 GGTTTGGGATTTTGTTTAGGGTTT-GGT-TAGGTATGAG
1 GGTTTGGG-GTTTGGTTAGGGTTTAGGTCTAGGT-TGAG
12601070 GGTTTGGGGTTTGGTTAGGGTTTAGGGTCTAGGTT-AG
1 GGTTTGGGGTTTGGTTAGGGTTTA-GGTCTAGGTTGAG
12601107 GGTTTGGGGTTTG
1 GGTTTGGGGTTTG
12601120 CATGGGTGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
36 16 0.22
37 28 0.38
38 17 0.23
39 13 0.18
ACGTcount: A:0.14, C:0.01, G:0.42, T:0.43
Consensus pattern (37 bp):
GGTTTGGGGTTTGGTTAGGGTTTAGGTCTAGGTTGAG
Found at i:12601174 original size:20 final size:20
Alignment explanation
Indices: 12601107--12601178 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
12601097 TCTAGGTTAG
* *
12601107 GGTTTGGGGTTTGCATGGGT
1 GGTTTAGGGTTTGCATCGGT
* ** *
12601127 GGTTTAGGATTTGTGTTTGG-
1 GGTTTAGGGTTTG-CATCGGT
*
12601147 GGTGTAGGGTTTGCATCGGT
1 GGTTTAGGGTTTGCATCGGT
12601167 GGTTTAGGGTTT
1 GGTTTAGGGTTT
12601179 AGGTTTGTAT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 3 0.08
20 33 0.85
21 3 0.08
ACGTcount: A:0.08, C:0.04, G:0.44, T:0.43
Consensus pattern (20 bp):
GGTTTAGGGTTTGCATCGGT
Found at i:12601185 original size:40 final size:40
Alignment explanation
Indices: 12601088--12601185 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
12601078 GTTTGGTTAG
* * * * *
12601088 GGTTTAGGGTCTAGG-TTAGGGTTTGGGGTTTGCATGGGT
1 GGTTTAGGGTTTAGGTTTGGGGTGTAGGGTTTGCATCGGT
*
12601127 GGTTTAGGATTT-GTGTTTGGGGTGTAGGGTTTGCATCGGT
1 GGTTTAGGGTTTAG-GTTTGGGGTGTAGGGTTTGCATCGGT
12601167 GGTTTAGGGTTTAGGTTTG
1 GGTTTAGGGTTTAGGTTTG
12601186 TATGGGGGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 11 0.22
40 36 0.73
41 1 0.02
ACGTcount: A:0.10, C:0.04, G:0.44, T:0.42
Consensus pattern (40 bp):
GGTTTAGGGTTTAGGTTTGGGGTGTAGGGTTTGCATCGGT
Found at i:12601232 original size:20 final size:20
Alignment explanation
Indices: 12601209--12601282 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
12601199 GTTTGTGTTC
*
12601209 AGGGTTTAGGATTTGCATGA
1 AGGGTTTAGGGTTTGCATGA
* * **
12601229 AGGGTTTGGGGTTTGTATTT
1 AGGGTTTAGGGTTTGCATGA
12601249 A-GGTTTAGGGTTTGCATGA
1 AGGGTTTAGGGTTTGCATGA
12601268 AGGGTTTAGGGTTTG
1 AGGGTTTAGGGTTTG
12601283 TGAATATGCT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 15 0.34
20 29 0.66
ACGTcount: A:0.18, C:0.03, G:0.39, T:0.41
Consensus pattern (20 bp):
AGGGTTTAGGGTTTGCATGA
Found at i:12601235 original size:64 final size:67
Alignment explanation
Indices: 12601103--12601226 Score: 164
Period size: 64 Copynumber: 1.9 Consensus size: 67
12601093 AGGGTCTAGG
* ** *
12601103 TTAGGGTTTGGGGTTTGCATGGGTGGTTTAGGATTTGTGTTTGGGGTGTAGGGTTTGCATCGGTG
1 TTAGGGTTTGAGGTTTGCATGGGTGGTTTAGGATTTGTGTTCAGGGTGTAGGATTTGCATCGGTG
12601168 GT
66 GT
* * *
12601170 TTAGGGTTT-AGGTTTGTATGGG-GG-TTAGGGTTTGTGTTCAGGGTTTAGGATTTGCAT
1 TTAGGGTTTGAGGTTTGCATGGGTGGTTTAGGATTTGTGTTCAGGGTGTAGGATTTGCAT
12601227 GAAGGGTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 28 0.56
65 2 0.04
66 11 0.22
67 9 0.18
ACGTcount: A:0.11, C:0.04, G:0.42, T:0.43
Consensus pattern (67 bp):
TTAGGGTTTGAGGTTTGCATGGGTGGTTTAGGATTTGTGTTCAGGGTGTAGGATTTGCATCGGTG
GT
Found at i:12602349 original size:49 final size:49
Alignment explanation
Indices: 12602145--12602464 Score: 260
Period size: 48 Copynumber: 6.6 Consensus size: 49
12602135 ACTCTTCCTT
* * * *
12602145 AATAGAGGCTTTGAAATTTTAAAAA-ATTAACTTTAGAAAGCTCCTCGA
1 AATAGAGGCTTTGAAACTTTAAAAATCTTAATTTTAGAAAGCTCCTCTA
* * * *
12602193 AATAAAGGCTTTGAAACTTT-GAAATTTTAATTTTGGAAAGCTCCTCTA
1 AATAGAGGCTTTGAAACTTTAAAAATCTTAATTTTAGAAAGCTCCTCTA
* * * * * * * *
12602241 AACAAAGG-TTTTAAAGCTTTACAAATTTTAAATTTA-AAAGCTCTTTTA
1 AATAGAGGCTTTGAAA-CTTTAAAAATCTTAATTTTAGAAAGCTCCTCTA
* * ** **
12602289 AACAAAAACTTTGAAACTTTAAAAATCTTAATTTTAGAAAGCTTTTCTA
1 AATAGAGGCTTTGAAACTTTAAAAATCTTAATTTTAGAAAGCTCCTCTA
* * * *
12602338 AATAGAGACTTT-AAGTCTTTAAAAATCTT-ATCTTTGGAAAGCTCTTCTA
1 AATAGAGGCTTTGAA-ACTTTAAAAATCTTAAT-TTTAGAAAGCTCCTCTA
* * * *
12602387 AACAGAGG-TTTGGAAACTTTTAAAAATC-TCATCTTTGGAAAGCTCCCCTA
1 AATAGAGGCTTT-GAAAC-TTTAAAAATCTTAAT-TTTAGAAAGCTCCTCTA
12602437 AATAGAGGCTTTGAAACTTTAAAAATCT
1 AATAGAGGCTTTGAAACTTTAAAAATCT
12602465 AACAAAGGTT
Statistics
Matches: 225, Mismatches: 34, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
47 9 0.04
48 88 0.39
49 83 0.37
50 42 0.19
51 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (49 bp):
AATAGAGGCTTTGAAACTTTAAAAATCTTAATTTTAGAAAGCTCCTCTA
Found at i:12602358 original size:97 final size:97
Alignment explanation
Indices: 12602201--12602464 Score: 214
Period size: 97 Copynumber: 2.7 Consensus size: 97
12602191 GAAATAAAGG
* * * ** *
12602201 CTTTGAAACTTTGAAATTTTAATTTTGGAAAGCTCCTCTAAACAAAGGTTTTAAAGCTTTACAAA
1 CTTTGAAACTTTAAAATCTTAATTTTAGAAAGCTCCTCTAAACAAAGACTTTAAAGCTTTAAAAA
* *
12602266 TTTTAAATTT-AAAAGCTCTTTTAAACAAAAA
66 TCTTAAATTTGAAAAGCTCTTCTAAACAAAAA
** * *
12602297 CTTTGAAACTTTAAAAATCTTAATTTTAGAAAGCTTTTCTAAATAGAGACTTT-AAGTCTTTAAA
1 CTTTGAAACTTT-AAAATCTTAATTTTAGAAAGCTCCTCTAAACAAAGACTTTAAAG-CTTTAAA
** * * *
12602361 AATCTTATCTTTGGAAAGCTCTTCTAAAC-AGAG
64 AATCTTAAATTTGAAAAGCTCTTCTAAACAAAAA
* * * * * * *
12602394 GTTTGGAAACTTTTAAAAATC-TCATCTTTGGAAAGCTCCCCTAAATAGAGGCTTTGAAA-CTTT
1 CTTT-GAAAC-TTT-AAAATCTTAAT-TTTAGAAAGCTCCTCTAAACAAAGACTTT-AAAGCTTT
12602457 AAAAATCT
61 AAAAATCT
12602465 AACAAAGGTT
Statistics
Matches: 136, Mismatches: 24, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
96 15 0.11
97 51 0.38
98 22 0.16
99 46 0.34
101 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (97 bp):
CTTTGAAACTTTAAAATCTTAATTTTAGAAAGCTCCTCTAAACAAAGACTTTAAAGCTTTAAAAA
TCTTAAATTTGAAAAGCTCTTCTAAACAAAAA
Found at i:12603025 original size:7 final size:7
Alignment explanation
Indices: 12603013--12603083 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
12603003 TTTCTTCAAT
12603013 ATCATTC
1 ATCATTC
12603020 ATCATTC
1 ATCATTC
12603027 ATCATTC
1 ATCATTC
12603034 ATTTTCATTC
1 A---TCATTC
*
12603044 ATCATTT
1 ATCATTC
*
12603051 AT-TTTC
1 ATCATTC
*
12603057 ATTATTC
1 ATCATTC
12603064 ATTCATTC
1 A-TCATTC
* *
12603072 AGCATTT
1 ATCATTC
12603079 ATCAT
1 ATCAT
12603084 CACTTTTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
6 4 0.08
7 34 0.67
8 6 0.12
10 7 0.14
ACGTcount: A:0.27, C:0.21, G:0.01, T:0.51
Consensus pattern (7 bp):
ATCATTC
Found at i:12603028 original size:4 final size:4
Alignment explanation
Indices: 12603014--12603072 Score: 53
Period size: 4 Copynumber: 16.8 Consensus size: 4
12603004 TTCTTCAATA
*
12603014 TCAT TCA- TCAT TCA- TCAT TCAT T--T TCAT TCA- TCAT TTAT T--T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
12603055 TCAT T-AT TCAT TCAT TCA
1 TCAT TCAT TCAT TCAT TCA
12603073 GCATTTATCA
Statistics
Matches: 46, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
2 4 0.09
3 12 0.26
4 30 0.65
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (4 bp):
TCAT
Found at i:12603041 original size:17 final size:17
Alignment explanation
Indices: 12603021--12603070 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
12603011 ATATCATTCA
12603021 TCATTCATCATTCATTT
1 TCATTCATCATTCATTT
*
12603038 TCATTCATCATTTATTT
1 TCATTCATCATTCATTT
12603055 TCATT-ATTCATTCATT
1 TCATTCA-TCATTCATT
12603071 CAGCATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (17 bp):
TCATTCATCATTCATTT
Found at i:12603041 original size:24 final size:24
Alignment explanation
Indices: 12603014--12603069 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
12603004 TTCTTCAATA
12603014 TCATTCATCATTCATCATTCATT-T
1 TCATTCATCATTCAT-ATTCATTAT
* *
12603038 TCATTCATCATTTATTTTCATTAT
1 TCATTCATCATTCATATTCATTAT
12603062 TCATTCAT
1 TCATTCAT
12603070 TCAGCATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.54
Consensus pattern (24 bp):
TCATTCATCATTCATATTCATTAT
Found at i:12603097 original size:28 final size:28
Alignment explanation
Indices: 12603025--12603085 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
12603015 CATTCATCAT
*
12603025 TCATCATTCATT--TTCATTCATCATTTA
1 TCATCATT-ATTCATTCATTCAGCATTTA
**
12603052 TTTTCATTATTCATTCATTCAGCATTTA
1 TCATCATTATTCATTCATTCAGCATTTA
12603080 TCATCA
1 TCATCA
12603086 CTTTTTATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.11
27 6 0.22
28 18 0.67
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (28 bp):
TCATCATTATTCATTCATTCAGCATTTA
Found at i:12603126 original size:9 final size:9
Alignment explanation
Indices: 12603114--12603148 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
12603104 ATCATTTTCA
12603114 TTTCATTTT
1 TTTCATTTT
12603123 TTTCATTTT
1 TTTCATTTT
12603132 TTTCATTTT
1 TTTCATTTT
12603141 TTTCATTT
1 TTTCATTT
12603149 CATTTTCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTCATTTT
Found at i:12606725 original size:75 final size:75
Alignment explanation
Indices: 12606627--12606771 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 75
12606617 TTTTTTTTAA
* * *
12606627 AAAAAAAAAGAAGATACAAAAGCACAACACACTTTTTTTACCATTAACTAAAAATAATTTGATTT
1 AAAAAAAAAGAAAACAAAAAAGCACAACACACTTTTTTTACCATTAACTAAAAATAATTTGATTT
12606692 TTTTTAAAGC
66 TTTTTAAAGC
* * * * * *
12606702 AAAAAAAAAGAAAACAAAAAAGCACACCTCATTTTTTTTACCATTGATTGAAAATAATTTGATTT
1 AAAAAAAAAGAAAACAAAAAAGCACAACACACTTTTTTTACCATTAACTAAAAATAATTTGATTT
12606767 TTTTT
66 TTTTT
12606772 TTTGAAAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (75 bp):
AAAAAAAAAGAAAACAAAAAAGCACAACACACTTTTTTTACCATTAACTAAAAATAATTTGATTT
TTTTTAAAGC
Found at i:12607297 original size:36 final size:34
Alignment explanation
Indices: 12607257--12607330 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
12607247 AAGCTATGAC
*
12607257 ACTTTAAAGAAAGCTCCTCTGACCAAAGGTAATAAA
1 ACTTTAAA-AAA-CTCCTCTAACCAAAGGTAATAAA
* * * *
12607293 ACTTTAAATAACTCTTCTAACCAGAGGTAATGAA
1 ACTTTAAAAAACTCCTCTAACCAAAGGTAATAAA
12607327 ACTT
1 ACTT
12607331 GAAATTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 23 0.70
35 2 0.06
36 8 0.24
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (34 bp):
ACTTTAAAAAACTCCTCTAACCAAAGGTAATAAA
Found at i:12607321 original size:236 final size:236
Alignment explanation
Indices: 12607023--12607477 Score: 576
Period size: 236 Copynumber: 1.9 Consensus size: 236
12607013 CTACAGGATT
* * * * * **
12607023 TTTAAAGAAAACTCTTTTAACCAGAGGCAATAAAACTTTAAGTAGCTCCTTTAATTAGAGGTAAT
1 TTTAAAGAAAACTCCTCTAACCAAAGGCAATAAAACTTTAAATAACTCCTTTAACCAGAGGTAAT
* * *
12607088 GAAACTTTG-AATTAAAAATCTTAGAGGTCATATAGATTATACCCATTAATCTTACAAATCATGC
66 GAAAC-TTGAAATTAAAAATATAAGAGGTCATATAGATTATACCCATTAATCTTACAAATCACGC
* * * * *
12607152 CTAA-TTTTCAAAGAGTCCTCTAACT-ATAGGCTTTTAAAATTAAAAATTCCTCTAATCAGAGGC
130 CTAACTTTT-AAAGAGTCCTCTAACTAAT-GGCTTTTAAAATTAAAAACTCATCTAACCAAAAGC
* *
12607215 CATAAAACTTTGAAAAGATCTCGTCTAACTATAAGCTATGACAC
193 CAAAAAACTTTGAAAAGAGCTCGTCTAACTATAAGCTATGACAC
* * *
12607259 TTTAAAGAAAGCTCCTCTGACCAAAGGTAATAAAACTTTAAATAACT-CTTCTAACCAGAGGTAA
1 TTTAAAGAAAACTCCTCTAACCAAAGGCAATAAAACTTTAAATAACTCCTT-TAACCAGAGGTAA
* * * * *
12607323 TGAAACTTGAAATTAAAAATATAAGAGGTCTTATAGATTATGCCCTTTAGTCTTACAAATCACGT
65 TGAAACTTGAAATTAAAAATATAAGAGGTCATATAGATTATACCCATTAATCTTACAAATCACGC
* * * *
12607388 CTAACTTTTAAAGAGTTCTGTAACTAATGTCTTTTAAAATTAAAAACTCATCTAACCAAAAGCTA
130 CTAACTTTTAAAGAGTCCTCTAACTAATGGCTTTTAAAATTAAAAACTCATCTAACCAAAAGCCA
*
12607453 AAAAACTTTGAAAAGAGCTCTTCTA
195 AAAAACTTTGAAAAGAGCTCGTCTA
12607478 GCCAAAGGCA
Statistics
Matches: 185, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
235 6 0.03
236 173 0.94
237 6 0.03
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (236 bp):
TTTAAAGAAAACTCCTCTAACCAAAGGCAATAAAACTTTAAATAACTCCTTTAACCAGAGGTAAT
GAAACTTGAAATTAAAAATATAAGAGGTCATATAGATTATACCCATTAATCTTACAAATCACGCC
TAACTTTTAAAGAGTCCTCTAACTAATGGCTTTTAAAATTAAAAACTCATCTAACCAAAAGCCAA
AAAACTTTGAAAAGAGCTCGTCTAACTATAAGCTATGACAC
Found at i:12607601 original size:33 final size:33
Alignment explanation
Indices: 12607564--12607646 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
12607554 TTATTTAAAA
12607564 GATTCCTCTAAATAGAGGTCATGAAACTTGAAT
1 GATTCCTCTAAATAGAGGTCATGAAACTTGAAT
* * * **
12607597 GATTCCTCTAAATAGATGTCCTTAAGTTTGAAT
1 GATTCCTCTAAATAGAGGTCATGAAACTTGAAT
* *
12607630 GATTCCTTTCAATAGAG
1 GATTCCTCTAAATAGAG
12607647 ATAATAAAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (33 bp):
GATTCCTCTAAATAGAGGTCATGAAACTTGAAT
Found at i:12618255 original size:10 final size:10
Alignment explanation
Indices: 12618237--12618279 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
12618227 CAAATACTTA
*
12618237 ATTTTTTATT
1 ATTTATTATT
12618247 ATTTATTATT
1 ATTTATTATT
12618257 ATTTATTATT
1 ATTTATTATT
12618267 -TTTA-TATT
1 ATTTATTATT
12618275 ATTTA
1 ATTTA
12618280 AATAAATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
8 4 0.13
9 8 0.26
10 19 0.61
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTTATTATT
Found at i:12619685 original size:15 final size:16
Alignment explanation
Indices: 12619665--12619697 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12619655 TCAAAAAATT
12619665 CAAAATT-ACCTAATA
1 CAAAATTAACCTAATA
*
12619680 CAAAATTAACCTGATA
1 CAAAATTAACCTAATA
12619696 CA
1 CA
12619698 TTCGATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.52, C:0.21, G:0.03, T:0.24
Consensus pattern (16 bp):
CAAAATTAACCTAATA
Found at i:12627462 original size:21 final size:20
Alignment explanation
Indices: 12627438--12627480 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
12627428 AGATATGTAA
12627438 TTAATGCAATATAA-AAAAAAT
1 TTAATGCAA-A-AATAAAAAAT
*
12627459 TTAATGGAAAAATAAAAAAT
1 TTAATGCAAAAATAAAAAAT
12627479 TT
1 TT
12627481 TGGAATACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 10 0.50
21 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (20 bp):
TTAATGCAAAAATAAAAAAT
Found at i:12627565 original size:2 final size:2
Alignment explanation
Indices: 12627558--12627583 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12627548 GTGTTTTGAA
12627558 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12627584 GGGTTTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12628578 original size:16 final size:17
Alignment explanation
Indices: 12628538--12628578 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
12628528 CAAAATGAAC
12628538 GAAATTTGAAATGATTT
1 GAAATTTGAAATGATTT
* *
12628555 GAAA-TTGAATTGGTTT
1 GAAATTTGAAATGATTT
12628571 -AAATTTGA
1 GAAATTTGA
12628579 CATAGTCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (17 bp):
GAAATTTGAAATGATTT
Found at i:12629434 original size:18 final size:20
Alignment explanation
Indices: 12629391--12629439 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
12629381 GAAATCATAA
12629391 TAAAAATATTATTTTTAATC
1 TAAAAATATTATTTTTAATC
12629411 TAAAAATA-TATATTTT-AT-
1 TAAAAATATTAT-TTTTAATC
12629429 TAAAAATATTA
1 TAAAAATATTA
12629440 AATATCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 12 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAAATATTATTTTTAATC
Found at i:12629696 original size:20 final size:22
Alignment explanation
Indices: 12629673--12629720 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
12629663 AAATTAAGTT
12629673 AAAATTTTC-A-AAATCTTTTA
1 AAAATTTTCTATAAATCTTTTA
* *
12629693 AAAATTTTCTATAGATTTTTTA
1 AAAATTTTCTATAAATCTTTTA
12629715 AAAATT
1 AAAATT
12629721 AAGGAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 1 0.04
22 14 0.58
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATTTTCTATAAATCTTTTA
Found at i:12630084 original size:32 final size:31
Alignment explanation
Indices: 12630016--12630139 Score: 108
Period size: 32 Copynumber: 3.9 Consensus size: 31
12630006 AAAGAATAGA
* * ** *
12630016 TTAATTTTTTAAAATGGTATAAAAAGTTCTAC
1 TTAA-TTTTTAAAATGATATGAAATTTTTTAC
*
12630048 TTAATATTTTAAAATGATATGAAATTTTTTAT
1 TTAAT-TTTTAAAATGATATGAAATTTTTTAC
* *
12630080 TTAATTTTTAAATTGATAT-ACAA-ATTTTAC
1 TTAATTTTTAAAATGATATGA-AATTTTTTAC
* *
12630110 TTAATTTTCTAATATGATATGTAATTTTTT
1 TTAATTTT-TAAAATGATATGAAATTTTTT
12630140 CAAAAGGATT
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
30 14 0.19
31 27 0.36
32 33 0.45
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (31 bp):
TTAATTTTTAAAATGATATGAAATTTTTTAC
Found at i:12630097 original size:31 final size:31
Alignment explanation
Indices: 12630045--12630139 Score: 97
Period size: 31 Copynumber: 3.0 Consensus size: 31
12630035 TAAAAAGTTC
*
12630045 TACTTAATATTTTAAAATGATATGAAATTTTT
1 TACTTAAT-TTTTAAATTGATATGAAATTTTT
* *
12630077 TATTTAATTTTTAAATTGATAT-ACAA-ATTT
1 TACTTAATTTTTAAATTGATATGA-AATTTTT
*
12630107 TACTTAATTTTCT-AATATGATATGTAATTTTT
1 TACTTAATTTT-TAAAT-TGATATGAAATTTTT
12630139 T
1 T
12630140 CAAAAGGATT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
30 17 0.33
31 24 0.46
32 11 0.21
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (31 bp):
TACTTAATTTTTAAATTGATATGAAATTTTT
Found at i:12630127 original size:62 final size:64
Alignment explanation
Indices: 12630016--12630139 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 64
12630006 AAAGAATAGA
*
12630016 TTAATTTTTTAAAATGGTATAAAAAGTTCTACTTAATATTTTAAAATGATATGAAATTTTTTAT
1 TTAATTTTTTAAAATGATATAAAAAGTTCTACTTAATATTTTAAAATGATATGAAATTTTTTAT
* * * * *
12630080 TTAA-TTTTTAAATTGATATACAAA-TTTTACTTAAT-TTTCTAATATGATATGTAATTTTTT
1 TTAATTTTTTAAAATGATATAAAAAGTTCTACTTAATATTT-TAAAATGATATGAAATTTTTT
12630140 CAAAAGGATT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 3 0.06
62 29 0.55
63 17 0.32
64 4 0.08
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (64 bp):
TTAATTTTTTAAAATGATATAAAAAGTTCTACTTAATATTTTAAAATGATATGAAATTTTTTAT
Found at i:12630136 original size:30 final size:28
Alignment explanation
Indices: 12630045--12630137 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 28
12630035 TAAAAAGTTC
12630045 TACTTAATATTTTAAAATGATATGAAATTTTT
1 TACTTAAT-TTTT-AAATGATATGAAA--TTT
* *
12630077 TATTTAATTTTTAAATTGATATACAAATTT
1 TACTTAATTTTTAAA-TGATAT-GAAATTT
*
12630107 TACTTAATTTTCTAATATGATATGTAATTT
1 TACTTAATTTT-TAA-ATGATATGAAATTT
12630137 T
1 T
12630138 TTCAAAAGGA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
30 22 0.42
31 19 0.37
32 11 0.21
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (28 bp):
TACTTAATTTTTAAATGATATGAAATTT
Found at i:12630658 original size:33 final size:33
Alignment explanation
Indices: 12630620--12630685 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
12630610 TAAAATGACT
12630620 TAAAATGAATATATATAATGGGTATACATATCA
1 TAAAATGAATATATATAATGGGTATACATATCA
*
12630653 TAAAATGAATATCTATAATGGGTATACATATCA
1 TAAAATGAATATATATAATGGGTATACATATCA
12630686 ATGTATCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (33 bp):
TAAAATGAATATATATAATGGGTATACATATCA
Found at i:12632099 original size:19 final size:19
Alignment explanation
Indices: 12632075--12632115 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
12632065 TTTGCTTGCC
*
12632075 TTTTTTCTTTCTATTTTCA
1 TTTTTTATTTCTATTTTCA
* *
12632094 TTTTTTATTTTTATTTTTA
1 TTTTTTATTTCTATTTTCA
12632113 TTT
1 TTT
12632116 CATTTTTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTATTTCTATTTTCA
Found at i:12632102 original size:13 final size:13
Alignment explanation
Indices: 12632086--12632123 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
12632076 TTTTTCTTTC
12632086 TATTTTCATTTTT
1 TATTTTCATTTTT
*
12632099 TATTTTTA-TTTT
1 TATTTTCATTTTT
12632111 TA-TTTCATTTTT
1 TATTTTCATTTTT
12632123 T
1 T
12632124 CCTTATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 4 0.18
12 11 0.50
13 7 0.32
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTCATTTTT
Found at i:12632104 original size:24 final size:24
Alignment explanation
Indices: 12632076--12632123 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12632066 TTGCTTGCCT
*
12632076 TTTTTCTTTCTATTTTCATTTTTTA
1 TTTTTATTTCTA-TTTCATTTTTTA
*
12632101 TTTTTATTTTTATTTCATTTTTT
1 TTTTTATTTCTATTTCATTTTTT
12632124 CCTTATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTATTTCTATTTCATTTTTTA
Found at i:12632110 original size:11 final size:12
Alignment explanation
Indices: 12632077--12632122 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
12632067 TGCTTGCCTT
*
12632077 TTTTC-TTTCTA
1 TTTTCATTTTTA
12632088 TTTTCATTTTTTA
1 TTTTCA-TTTTTA
*
12632101 TTTTTATTTTTA
1 TTTTCATTTTTA
12632113 -TTTCATTTTT
1 TTTTCATTTTT
12632123 TCCTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 14 0.47
12 6 0.20
13 10 0.33
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCATTTTTA
Found at i:12632276 original size:26 final size:29
Alignment explanation
Indices: 12632216--12632276 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
12632206 ATTGCAAGAT
*
12632216 TATTATTTATTATTTACATGATCATTAATA
1 TATTAATTATTATTTACATGATCATT-ATA
*
12632246 TATTAATTATTA-TTGCATGAT-ATT-TA
1 TATTAATTATTATTTACATGATCATTATA
12632272 TATTA
1 TATTA
12632277 TTGCATGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.24
28 3 0.10
29 8 0.28
30 11 0.38
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (29 bp):
TATTAATTATTATTTACATGATCATTATA
Found at i:12633741 original size:21 final size:21
Alignment explanation
Indices: 12633717--12633759 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12633707 TAACCTTTTT
12633717 TGTTGTTCATTGTATCTATTA
1 TGTTGTTCATTGTATCTATTA
* *
12633738 TGTTGTTCTTTGTATGTATTA
1 TGTTGTTCATTGTATCTATTA
12633759 T
1 T
12633760 ATGCATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.07, G:0.16, T:0.60
Consensus pattern (21 bp):
TGTTGTTCATTGTATCTATTA
Found at i:12633785 original size:12 final size:12
Alignment explanation
Indices: 12633768--12633792 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12633758 ATATGCATAC
12633768 TTAGATTTATCA
1 TTAGATTTATCA
12633780 TTAGATTTATCA
1 TTAGATTTATCA
12633792 T
1 T
12633793 AAGAAGTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTAGATTTATCA
Found at i:12638816 original size:48 final size:49
Alignment explanation
Indices: 12638723--12638860 Score: 125
Period size: 48 Copynumber: 2.8 Consensus size: 49
12638713 TTTGAAATTC
* * *
12638723 TTGCAAAACTAAAATTCTTGCAAATCTGAAATTTTTATAAATCTTTATA
1 TTGCAAAACTAAAATTCTTGCAAATCTAAAATTCTTACAAATCTTTATA
* * * * *
12638772 TTGCAAATCT-AAGTTCTTGCAAATCTAAAATTCTTGCAATTCTTTAAATTC
1 TTGCAAAACTAAAATTCTTGCAAATCTAAAATTCTTACAAATCTTT--A-TA
* * * *
12638823 TTGCAAATCTGAAAATTCTTGTAAAACTGAAATTCTTA
1 TTGCAAAACT-AAAATTCTTGCAAATCTAAAATTCTTA
12638861 TGAATTTGAA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 29 0.41
49 9 0.13
50 1 0.01
51 11 0.15
53 21 0.30
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (49 bp):
TTGCAAAACTAAAATTCTTGCAAATCTAAAATTCTTACAAATCTTTATA
Found at i:12638856 original size:35 final size:35
Alignment explanation
Indices: 12638714--12638859 Score: 115
Period size: 35 Copynumber: 4.3 Consensus size: 35
12638704 CAATACAAAT
* *
12638714 TTGAAATTCTTGCAAAACTAAAATTCTTGCAAATC
1 TTGAAATTCTTGCAAATCTAAAATTCTTGCAAAAC
* ** ** * *
12638749 -TGAAATTTTTATAAATCT-TTA-TATTGCAAATC
1 TTGAAATTCTTGCAAATCTAAAATTCTTGCAAAAC
* **
12638781 -T-AAGTTCTTGCAAATCTAAAATTCTTGCAATTC
1 TTGAAATTCTTGCAAATCTAAAATTCTTGCAAAAC
* *
12638814 TTTAAATTCTTGCAAATCTGAAAATTCTTGTAAAAC
1 TTGAAATTCTTGCAAATCT-AAAATTCTTGCAAAAC
12638850 -TGAAATTCTT
1 TTGAAATTCTT
12638860 ATGAATTTGA
Statistics
Matches: 86, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
31 12 0.14
32 12 0.14
33 10 0.12
34 15 0.17
35 24 0.28
36 13 0.15
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (35 bp):
TTGAAATTCTTGCAAATCTAAAATTCTTGCAAAAC
Found at i:12638930 original size:53 final size:52
Alignment explanation
Indices: 12638785--12638947 Score: 150
Period size: 53 Copynumber: 3.1 Consensus size: 52
12638775 CAAATCTAAG
* * * * * *
12638785 TTCTTGCAAATCTAAAATTCTTGCAATTCTTTAAATTCTTGCAAATCTGAAAA
1 TTCTTGTAAAACTAAAATTCTTACAAATC-TAAAATTCTTACAAATCTGAAAA
* ** * * *
12638838 TTCTTGTAAAACTGAAATTCTTATGAATTTGAAATTTCTTACAAATCTGAAAG
1 TTCTTGTAAAACTAAAATTCTTACAAATCT-AAAATTCTTACAAATCTGAAAA
* *
12638891 TT-TTTTATGAAACTAAAATTCTTACAAATCTAAAATTCTTACAAATTTG-AAA
1 TTCTTGTA--AAACTAAAATTCTTACAAATCTAAAATTCTTACAAATCTGAAAA
12638943 TTCTT
1 TTCTT
12638948 ACGAATCTTC
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
52 9 0.10
53 59 0.69
54 18 0.21
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.41
Consensus pattern (52 bp):
TTCTTGTAAAACTAAAATTCTTACAAATCTAAAATTCTTACAAATCTGAAAA
Found at i:12638948 original size:17 final size:17
Alignment explanation
Indices: 12638707--12638955 Score: 146
Period size: 17 Copynumber: 14.5 Consensus size: 17
12638697 ATCTTTACAA
*
12638707 TACAAATTTGAAATTCT
1 TACAAATCTGAAATTCT
* * *
12638724 TGCAAAACTAAAATTCT
1 TACAAATCTGAAATTCT
* *
12638741 TGCAAATCTGAAATTTT
1 TACAAATCTGAAATTCT
* ** *
12638758 TATAAATCT-TTA-TAT
1 TACAAATCTGAAATTCT
* *
12638773 TGCAAATCT-AAGTTCT
1 TACAAATCTGAAATTCT
* *
12638789 TGCAAATCTAAAATTCT
1 TACAAATCTGAAATTCT
* * *
12638806 TGCAATTCTTTAAATTCT
1 TACAAATC-TGAAATTCT
*
12638824 TGCAAATCTGAAAATTCT
1 TACAAATCTG-AAATTCT
** *
12638842 TGTAAAACTGAAATTCT
1 TACAAATCTGAAATTCT
** *
12638859 TATGAATTTGAAATTTCT
1 TACAAATCTGAAA-TTCT
*
12638877 TACAAATCTGAAAGTTTTT
1 TACAAATCTGAAA--TTCT
* *
12638896 TATGAAA-CTAAAATTCT
1 TA-CAAATCTGAAATTCT
*
12638913 TACAAATCTAAAATTCT
1 TACAAATCTGAAATTCT
*
12638930 TACAAATTTGAAATTCT
1 TACAAATCTGAAATTCT
*
12638947 TACGAATCT
1 TACAAATCT
12638956 TCCATTCTTA
Statistics
Matches: 183, Mismatches: 41, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
15 9 0.05
16 15 0.08
17 101 0.55
18 44 0.24
19 11 0.06
20 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.40
Consensus pattern (17 bp):
TACAAATCTGAAATTCT
Found at i:12639019 original size:31 final size:33
Alignment explanation
Indices: 12638925--12639019 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 33
12638915 CAAATCTAAA
* * *
12638925 ATTCTTACAAATTTGAAATTCTTACGAATCTTCC
1 ATTCTTACGAATATG-AGTTCTTACGAATCTTCC
* * * * *
12638959 ATTCTTATGAGTTTGAGTTCTTGCAAATCTTCC
1 ATTCTTACGAATATGAGTTCTTACGAATCTTCC
*
12638992 A-T-TTGCGAATATGAGTTCTTACGAATCT
1 ATTCTTACGAATATGAGTTCTTACGAATCT
12639020 GAAGGTCTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
31 20 0.41
32 1 0.02
33 16 0.33
34 12 0.24
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (33 bp):
ATTCTTACGAATATGAGTTCTTACGAATCTTCC
Found at i:12639159 original size:26 final size:26
Alignment explanation
Indices: 12639109--12639159 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
12639099 ATTTGCAAAG
*
12639109 ATATACATATATATATGTGTGTGTGT
1 ATATACATATATATATGGGTGTGTGT
* *
12639135 ATATATATATATATATGGGTTTGTG
1 ATATACATATATATATGGGTGTGTG
12639160 AGAATTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (26 bp):
ATATACATATATATATGGGTGTGTGT
Found at i:12639458 original size:19 final size:19
Alignment explanation
Indices: 12639430--12639468 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12639420 AATGAGATTG
*
12639430 TATTATTAAAAGCTCTTAA
1 TATTACTAAAAGCTCTTAA
*
12639449 TATTACTAAAAGCTTTTAA
1 TATTACTAAAAGCTCTTAA
12639468 T
1 T
12639469 TTTTAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (19 bp):
TATTACTAAAAGCTCTTAA
Found at i:12639573 original size:197 final size:203
Alignment explanation
Indices: 12639232--12639687 Score: 498
Period size: 203 Copynumber: 2.2 Consensus size: 203
12639222 GATCAAATTT
* * * * * * *
12639232 TTAAAATCTGTTAATATTACTAGGAGCCTTTAATTTTCTAAGATTATTAATGTGATTGAATTATT
1 TTAAAAGCTCTTAATATTACTAAGAGCTTTTAATTTT-TAAGATTGTTAATGTAATTGAATCATT
* *
12639297 GCATTATATACTAATTTGTATCAAAGTTTTTAATTAATATTCAATAATTATTAAATTTAACTGAG
65 GCATTATATACTAATTTGTATCAAAG--TTTAA-TAATATTCAATAATCATCAAATTTAACTGAG
*
12639362 CAATTTTAATATTTTG-ATAA-AAATAGGATACTTT-TTTTTGGGTAA-TTTTTAA-ATTATTAA
127 CAATTTTAATATTTTGAATAATAAATAGGAT-CTTTCTTTTTGGGTAACTTTTCAAGATTATTAA
*
12639422 TGAGATTGTATTA
191 TGAAATTGTATTA
*
12639435 TTAAAAGCTCTTAATATTACTAAAAGCTTTTAATTTTTAAGATTGTTAATCG-AATTGAATCATT
1 TTAAAAGCTCTTAATATTACTAAGAGCTTTTAATTTTTAAGATTGTTAAT-GTAATTGAATCATT
* * * * *
12639499 GCATTATATA-TCAATTTTTATTAAAG-TTCA-AATATTCAATAATCATCAAATTTAAGTGAGTA
65 GCATTATATACT-AATTTGTATCAAAGTTTAATAATATTCAATAATCATCAAATTTAACTGAGCA
** * *** * *
12639561 ATTTTAATATTTTGACAATAATAAATATTATTTTTCTTTTTTTTTAACTTTTCAAGGTTATTAGT
129 ATTTTAATATTTTG--AATAATAAATAGGATCTTTCTTTTTGGGTAACTTTTCAAGATTATTAAT
*
12639626 GAAATTGTATTG
192 GAAATTGTATTA
* *
12639638 TTAAAAGCTCTTACTATTTACTAAGAGTTTTTAATTTTTCAAGATTGTTA
1 TTAAAAGCTCTTAATA-TTACTAAGAGCTTTTAATTTTT-AAGATTGTTA
12639688 GTTGTATTAA
Statistics
Matches: 213, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
197 42 0.20
199 3 0.01
200 7 0.03
201 16 0.08
202 50 0.23
203 65 0.31
204 20 0.09
205 10 0.05
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (203 bp):
TTAAAAGCTCTTAATATTACTAAGAGCTTTTAATTTTTAAGATTGTTAATGTAATTGAATCATTG
CATTATATACTAATTTGTATCAAAGTTTAATAATATTCAATAATCATCAAATTTAACTGAGCAAT
TTTAATATTTTGAATAATAAATAGGATCTTTCTTTTTGGGTAACTTTTCAAGATTATTAATGAAA
TTGTATTA
Found at i:12641251 original size:34 final size:35
Alignment explanation
Indices: 12641177--12641251 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 35
12641167 CAAAATCTTT
* * * *
12641177 TAAAAAATTTCTATACATTTTTTTAAAAAATTAAA
1 TAAAAAATTTCTATACATATGTATAAAAAATAAAA
* *
12641212 -GAAAAATTTCTATATA-ATGTATAAAAAATAAAA
1 TAAAAAATTTCTATACATATGTATAAAAAATAAAA
12641245 TAAAAAA
1 TAAAAAA
12641252 CTCCACATCA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (35 bp):
TAAAAAATTTCTATACATATGTATAAAAAATAAAA
Found at i:12641577 original size:31 final size:32
Alignment explanation
Indices: 12641542--12641627 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 32
12641532 CTACTTTATA
*
12641542 TTTTAAAATGATATGAAATTTTTTATTTAA-T
1 TTTTAAAATGATATGAAATTTTTTAGTTAACT
* *
12641573 TTTTAAATTGATAT-ACAA-ATTTTAGTTAACT
1 TTTTAAAATGATATGA-AATTTTTTAGTTAACT
* * *
12641604 TTCTAATATGATATGTAATTTTTT
1 TTTTAAAATGATATGAAATTTTTT
12641628 CAAAAGGATT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
30 10 0.23
31 29 0.67
32 4 0.09
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.53
Consensus pattern (32 bp):
TTTTAAAATGATATGAAATTTTTTAGTTAACT
Found at i:12642588 original size:22 final size:22
Alignment explanation
Indices: 12642561--12642614 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
12642551 AATTTTTTAA
12642561 TTTTAATTTAATTTTGATTTTC
1 TTTTAATTTAATTTTGATTTTC
* * *
12642583 TTTTAATTTGATTTTGTTTTTG
1 TTTTAATTTAATTTTGATTTTC
12642605 TTTTAATTTA
1 TTTTAATTTA
12642615 GTAAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTTAATTTAATTTTGATTTTC
Found at i:12642603 original size:17 final size:17
Alignment explanation
Indices: 12642567--12642602 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
12642557 TTAATTTTAA
12642567 TTTAATTTTGATTTTCT
1 TTTAATTTTGATTTTCT
*
12642584 TTTAA-TTTGATTTTGT
1 TTTAATTTTGATTTTCT
12642600 TTT
1 TTT
12642603 TGTTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (17 bp):
TTTAATTTTGATTTTCT
Found at i:12643053 original size:13 final size:13
Alignment explanation
Indices: 12643029--12643065 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
12643019 TGATTATGGA
12643029 TTGATGTTTTAGGT
1 TTGAT-TTTTAGGT
12643043 TTGATTTTTAGGT
1 TTGATTTTTAGGT
12643056 TTGAATTTTT
1 TTG-ATTTTT
12643066 TTTTTTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (13 bp):
TTGATTTTTAGGT
Found at i:12643548 original size:7 final size:7
Alignment explanation
Indices: 12643536--12643611 Score: 52
Period size: 7 Copynumber: 10.9 Consensus size: 7
12643526 TTGACTTTCA
12643536 TTATTTT
1 TTATTTT
12643543 TTA-TTT
1 TTATTTT
12643549 TTATTTT
1 TTATTTT
12643556 TTATTTT
1 TTATTTT
*
12643563 TAATTTAAT
1 TTATTT--T
12643572 TTCA--TT
1 TT-ATTTT
*
12643578 TT-TTTC
1 TTATTTT
*
12643584 TTACTTT
1 TTATTTT
12643591 TTATTTTT
1 TTA-TTTT
*
12643599 TTATTTA
1 TTATTTT
12643606 TTATTT
1 TTATTT
12643612 AATTGTTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
6 12 0.22
7 32 0.59
8 7 0.13
9 2 0.04
10 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (7 bp):
TTATTTT
Found at i:12643554 original size:13 final size:13
Alignment explanation
Indices: 12643536--12643611 Score: 66
Period size: 13 Copynumber: 5.5 Consensus size: 13
12643526 TTGACTTTCA
12643536 TTATTTTTTATTT
1 TTATTTTTTATTT
12643549 TTATTTTTTATTT
1 TTATTTTTTATTT
12643562 TTAATTTAATTTCA-TT
1 TT-ATTT--TTT-ATTT
*
12643578 TT-TTTCTTACTTT
1 TTATTTTTTA-TTT
12643591 TTATTTTTTTATTT
1 TTA-TTTTTTATTT
12643605 ATTATTT
1 -TTATTT
12643612 AATTGTTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
11 1 0.02
12 2 0.04
13 19 0.37
14 13 0.25
15 9 0.17
16 7 0.13
17 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:12643555 original size:5 final size:6
Alignment explanation
Indices: 12643540--12643622 Score: 55
Period size: 6 Copynumber: 13.5 Consensus size: 6
12643530 CTTTCATTAT
* * * *
12643540 TTTTTA TTTTTA TTTTTTA TTTTTA -ATTTA ATTTCA TTTTT- TTCTTA
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
12643587 CTTTTTA TTTTT- TTATTTA TTATTTAA TTGTTA TTT
1 -TTTTTA TTTTTA TT-TTTA TT-TTT-A TTTTTA TTT
12643623 AATTGTGATA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
5 10 0.16
6 29 0.48
7 19 0.31
8 3 0.05
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:12643564 original size:19 final size:20
Alignment explanation
Indices: 12643536--12643611 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 20
12643526 TTGACTTTCA
*
12643536 TTATTTTTTATTTTTATTTT
1 TTATTTATTATTTTTATTTT
* *
12643556 TTATTT-TTAATTTAATTTCAT
1 TTATTTATTATTTTTATTT--T
* *
12643577 TTTTTTCTTACTTTTTATTTTT
1 TTATTTATTA-TTTTTA-TTTT
12643599 TTATTTATTATTT
1 TTATTTATTATTT
12643612 AATTGTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 10 0.23
20 6 0.14
21 9 0.20
22 12 0.27
23 4 0.09
24 3 0.07
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (20 bp):
TTATTTATTATTTTTATTTT
Found at i:12643612 original size:19 final size:19
Alignment explanation
Indices: 12643539--12643612 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 19
12643529 ACTTTCATTA
*
12643539 TTTTTTATTT-TTATTTTT
1 TTTTTTATTTATTATTTAT
12643557 TATTTTTAATTTA--ATTTCAT
1 T-TTTTT-ATTTATTATTT-AT
*
12643577 TTTTTT-CTTACTT-TTTAT
1 TTTTTTATTTA-TTATTTAT
12643595 TTTTTTATTTATTATTTA
1 TTTTTTATTTATTATTTA
12643613 ATTGTTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 17
0.69 0.05 0.27
Matches are distributed among these distances:
17 3 0.07
18 11 0.25
19 24 0.55
20 6 0.14
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTATTATTTAT
Found at i:12643773 original size:19 final size:19
Alignment explanation
Indices: 12643751--12643789 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12643741 CATTGCATGA
12643751 TTATATTATTGCATGATAT
1 TTATATTATTGCATGATAT
* *
12643770 TTATGTTATTGCATGGTAT
1 TTATATTATTGCATGATAT
12643789 T
1 T
12643790 GTTTGCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (19 bp):
TTATATTATTGCATGATAT
Found at i:12646084 original size:345 final size:345
Alignment explanation
Indices: 12645453--12646488 Score: 1955
Period size: 345 Copynumber: 3.0 Consensus size: 345
12645443 TCAAGCACTT
12645453 GAATAAAAAAAAAGATGAATGGAAGAGTTTGTTCACTGACTTTAAAACAACACAATCATCCACCA
1 GAATAAAAAAAAAGATGAATGGAAGAGTTTGTTCACTGACTTTAAAACAACACAATCATCCACCA
12645518 TTCGAGAACTAGTCTAACTTCTGAAAGAAAATGGACAGTTGCAAATAAAGTTGCAAAAAAAATGA
66 TTCGAGAACTAGTCTAACTTCTGAAAGAAAATGGACAGTTGCAAATAAAGTTGCAAAAAAAATGA
12645583 AAAGGCACTCTTTAAGGCACAAAGGTACATCCAAATGCTGAATGGGGCTGTGGTTGAAATTGAAA
131 AAAGGCACTCTTTAAGGCACAAAGGTACATCCAAATGCTGAATGGGGCTGTGGTTGAAATTGAAA
*
12645648 CATAAATGGGGGCTATGAATGAAGAATATGAGAAAGTAAATGCAGCATATGTGAAAAAGCATGAT
196 CATAAATGGGGGCTATGAATGAAGAATGTGAGAAAGTAAATGCAGCATATGTGAAAAAGCATGAT
12645713 CAATTACAGTACCTATTTAACCAAATCATTATGACTACTTTCAAAGCCAAAGATATAGTAAAAAA
261 CAATTACAGTACCTATTTAACCAAATCATTATGACTACTTTCAAAGCCAAAGATATAGTAAAAAA
12645778 GATTGAAGAATGGAAGAAAG
326 GATTGAAGAATGGAAGAAAG
12645798 GAATAAAAAAAAAGATGAATGGAAGAGTTTGTTCACTGACTTTAAAACAACACAATCATCCACCA
1 GAATAAAAAAAAAGATGAATGGAAGAGTTTGTTCACTGACTTTAAAACAACACAATCATCCACCA
*
12645863 TTCGAGAACTAGTCTAACTTCTGAAAGAAAATGGACAATTGCAAATAAAGTTGCAAAAAAAATGA
66 TTCGAGAACTAGTCTAACTTCTGAAAGAAAATGGACAGTTGCAAATAAAGTTGCAAAAAAAATGA
* *
12645928 AAAGGCACTCTTTAAGGCATAAAGGTACATTCAAATGCTGAATGGGGCTGTGGTTGAAATTGAAA
131 AAAGGCACTCTTTAAGGCACAAAGGTACATCCAAATGCTGAATGGGGCTGTGGTTGAAATTGAAA
12645993 CATAAATGGGGGCTATGAATGAAGAATGTGAGAAAGTAAATGCAGCATATGTGAAAAAGCATGAT
196 CATAAATGGGGGCTATGAATGAAGAATGTGAGAAAGTAAATGCAGCATATGTGAAAAAGCATGAT
*
12646058 CAATTACAGTACCTATTTAACCAAATCATTATGACTACTTTCAAAGCCAAAGATATGGTAAAAAA
261 CAATTACAGTACCTATTTAACCAAATCATTATGACTACTTTCAAAGCCAAAGATATAGTAAAAAA
*
12646123 AATTGAAGAATGGAAGAAAG
326 GATTGAAGAATGGAAGAAAG
*
12646143 GAATAAAAAAAAAGATGAATGGAAGAGTTTGTTCACTGACTTTAAAACAACACAATCATCCATCA
1 GAATAAAAAAAAAGATGAATGGAAGAGTTTGTTCACTGACTTTAAAACAACACAATCATCCACCA
*
12646208 TTCGAGAACTAGCCTAACTTCTGAAAGAAAATGGACAGTTGCAAATAAAGTTGCAAAAAAAATGA
66 TTCGAGAACTAGTCTAACTTCTGAAAGAAAATGGACAGTTGCAAATAAAGTTGCAAAAAAAATGA
* * *
12646273 AGAGGCACTCTTTGAGGCACAAAGGTACATCCAAATGTTGAATGGGGCTGTGGTTGAAATTGAAA
131 AAAGGCACTCTTTAAGGCACAAAGGTACATCCAAATGCTGAATGGGGCTGTGGTTGAAATTGAAA
* *
12646338 CATAAATGAGGGCTATGAATGAAGAATGTGAGAAAGTAAATGCAACATATGTGAAAAAGCATGAT
196 CATAAATGGGGGCTATGAATGAAGAATGTGAGAAAGTAAATGCAGCATATGTGAAAAAGCATGAT
12646403 CAATTACAGTACCTATTTAACCAAATCATTATGACTACTTTCAAAGCCAAAGATATAGTAAAAAA
261 CAATTACAGTACCTATTTAACCAAATCATTATGACTACTTTCAAAGCCAAAGATATAGTAAAAAA
12646468 GATTGAAGAATGGAAGAAAG
326 GATTGAAGAATGGAAGAAAG
12646488 G
1 G
12646489 GTGCCACCAA
Statistics
Matches: 673, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
345 673 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (345 bp):
GAATAAAAAAAAAGATGAATGGAAGAGTTTGTTCACTGACTTTAAAACAACACAATCATCCACCA
TTCGAGAACTAGTCTAACTTCTGAAAGAAAATGGACAGTTGCAAATAAAGTTGCAAAAAAAATGA
AAAGGCACTCTTTAAGGCACAAAGGTACATCCAAATGCTGAATGGGGCTGTGGTTGAAATTGAAA
CATAAATGGGGGCTATGAATGAAGAATGTGAGAAAGTAAATGCAGCATATGTGAAAAAGCATGAT
CAATTACAGTACCTATTTAACCAAATCATTATGACTACTTTCAAAGCCAAAGATATAGTAAAAAA
GATTGAAGAATGGAAGAAAG
Found at i:12648853 original size:42 final size:42
Alignment explanation
Indices: 12648806--12648890 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
12648796 AAAACTTTTG
* * *
12648806 CTCATTGAAAGAGGAAAATGGTACAATATGTGATCTTTATAA
1 CTCATTAAAAGAGGAAAATGATACAATATGTGATCTTCATAA
*
12648848 CTCATTAAAAGAGGAAAATGATGCAATATGTGATCTTCATAA
1 CTCATTAAAAGAGGAAAATGATACAATATGTGATCTTCATAA
12648890 C
1 C
12648891 AAGTCATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (42 bp):
CTCATTAAAAGAGGAAAATGATACAATATGTGATCTTCATAA
Found at i:12650277 original size:40 final size:41
Alignment explanation
Indices: 12650222--12650309 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 41
12650212 GACATCTACC
* * * *
12650222 TTACATACATTGTGTCTGCATTGTTGTTTGAATAAGTAC-T
1 TTACATACATCGTGTCTACATTGTGGTTTGAACAAGTACAT
12650262 TTACATACATCGTGTCTACATTGTGGTTTGAACAAGTACAT
1 TTACATACATCGTGTCTACATTGTGGTTTGAACAAGTACAT
*
12650303 GTACATA
1 TTACATA
12650310 ATTTGGTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 35 0.83
41 7 0.17
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (41 bp):
TTACATACATCGTGTCTACATTGTGGTTTGAACAAGTACAT
Found at i:12650704 original size:45 final size:44
Alignment explanation
Indices: 12650616--12650794 Score: 198
Period size: 45 Copynumber: 4.0 Consensus size: 44
12650606 CATTAAAATT
* * * *
12650616 TTTTGAATGAAAATCTTTAAAATTTATCAAATGTAAATTTTTGAAA
1 TTTTGGATGTAAATCTTT-AAATTT-TCAAATGAAAATCTTTGAAA
* *
12650662 TTTTGGATGTAAAATCTTTGAATTTTCAAATGAGAATCTTTGAAA
1 TTTTGGATGT-AAATCTTTAAATTTTCAAATGAAAATCTTTGAAA
* * * *
12650707 TTTTAGATGTGAATCCTTAAATTTTTCAAATGAAAATCTTTG-AC
1 TTTTGGATGTAAATCTTTAAA-TTTTCAAATGAAAATCTTTGAAA
* *
12650751 TTTTGGGTGTAAATCTCTAAAATTTTCAAATGAAAATCTTTGAA
1 TTTTGGATGTAAATCT-TTAAATTTTCAAATGAAAATCTTTGAA
12650795 TTCTAGATGT
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
44 41 0.37
45 50 0.45
46 13 0.12
47 8 0.07
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (44 bp):
TTTTGGATGTAAATCTTTAAATTTTCAAATGAAAATCTTTGAAA
Found at i:12650796 original size:22 final size:22
Alignment explanation
Indices: 12650621--12650796 Score: 106
Period size: 22 Copynumber: 7.8 Consensus size: 22
12650611 AAATTTTTTG
*
12650621 AATGAAAATCTTTAAAATTTATCA
1 AATGAAAATCTTT-GAATTT-TCA
* * *
12650645 AATGTAAATTTTTGAAATTTT-G
1 AATGAAAATCTTTG-AATTTTCA
*
12650667 GATGTAAAATCTTTGAATTTTCA
1 AATG-AAAATCTTTGAATTTTCA
*
12650690 AATGAGAATCTTTGAAATTTT-A
1 AATGAAAATCTTTG-AATTTTCA
* ** * *
12650712 GATGTGAATCCTTAAATTTTTCA
1 AATGAAAATCTTTGAA-TTTTCA
* *
12650735 AATGAAAATCTTTGACTTTT-G
1 AATGAAAATCTTTGAATTTTCA
** * **
12650756 GGTGTAAATCTCTAAAATTTTCA
1 AATGAAAATCT-TTGAATTTTCA
12650779 AATGAAAATCTTTGAATT
1 AATGAAAATCTTTGAATT
12650797 CTAGATGTGA
Statistics
Matches: 111, Mismatches: 33, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
21 10 0.09
22 48 0.43
23 37 0.33
24 16 0.14
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (22 bp):
AATGAAAATCTTTGAATTTTCA
Found at i:12651095 original size:18 final size:17
Alignment explanation
Indices: 12651072--12651252 Score: 94
Period size: 18 Copynumber: 10.3 Consensus size: 17
12651062 AGTTATTGCG
*
12651072 AATCTAAAAATTTTTACA
1 AATCT-AAAATTCTTACA
* *
12651090 AATCTAAAATTATTGCA
1 AATCTAAAATTCTTACA
* * *
12651107 AATCTTTAAATTATTAGA
1 AATC-TAAAATTCTTACA
**
12651125 AATCTGAAAATTCTTGTA
1 AATCT-AAAATTCTTACA
* * *
12651143 AAACTGAAATTCTTGA-G
1 AATCTAAAATTCTT-ACA
***
12651160 AATCTAAAAATTCTTGTG
1 AATCT-AAAATTCTTACA
* * *
12651178 AATTTGAAAATTTTTGCA
1 AATCT-AAAATTCTTACA
*
12651196 AATATAAAAATTCTTACA
1 AATCT-AAAATTCTTACA
* ***
12651214 AAACTAAAATTCTTGTG
1 AATCTAAAATTCTTACA
12651231 AATCTAAAATTCTTACA
1 AATCTAAAATTCTTACA
12651248 AATCT
1 AATCT
12651253 TCTATTCTTG
Statistics
Matches: 124, Mismatches: 34, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
17 54 0.44
18 70 0.56
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (17 bp):
AATCTAAAATTCTTACA
Found at i:12651103 original size:35 final size:36
Alignment explanation
Indices: 12651064--12651136 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 36
12651054 CAAATTTAAG
* *
12651064 TTATTGCGAATCTAAAAATTTTTACAAATCT-AAAA
1 TTATTGCAAATCTAAAAATTATTACAAATCTGAAAA
** *
12651099 TTATTGCAAATCTTTAAATTATTAGAAATCTGAAAA
1 TTATTGCAAATCTAAAAATTATTACAAATCTGAAAA
12651135 TT
1 TT
12651137 CTTGTAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 26 0.81
36 6 0.19
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.40
Consensus pattern (36 bp):
TTATTGCAAATCTAAAAATTATTACAAATCTGAAAA
Found at i:12651121 original size:53 final size:53
Alignment explanation
Indices: 12651047--12651252 Score: 167
Period size: 53 Copynumber: 3.9 Consensus size: 53
12651037 GAATTTTTAT
* * *
12651047 ATTCTTGCAAAT-TT-AAGTTATTGCGAATCTAAAAATTTTTACAAATCTAAA
1 ATTCTTGCAAATCTTAAAATTATTGTGAATCTGAAAATTTTTACAAATCTAAA
* * * *
12651098 ATTATTGCAAATCTTTAAATTATTAG-AAATCTGAAAATTCTTGTA-AAA-CTGAA
1 ATTCTTGCAAATCTTAAAATTATT-GTGAATCTGAAAATT-TT-TACAAATCTAAA
* * * * *
12651151 ATTCTTG-AGAATCTAAAAATTCTTGTGAATTTGAAAATTTTTGCAAATATAAAA
1 ATTCTTGCA-AATCTTAAAATTATTGTGAATCTGAAAATTTTTACAAATCT-AAA
* * * *
12651205 ATTCTTACAAAAC-TAAAATTCTTGTGAATCT-AAAATTCTTACAAATCT
1 ATTCTTGCAAATCTTAAAATTATTGTGAATCTGAAAATTTTTACAAATCT
12651253 TCTATTCTTG
Statistics
Matches: 123, Mismatches: 21, Indels: 21
0.75 0.13 0.13
Matches are distributed among these distances:
51 12 0.10
52 23 0.19
53 68 0.55
54 17 0.14
55 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.38
Consensus pattern (53 bp):
ATTCTTGCAAATCTTAAAATTATTGTGAATCTGAAAATTTTTACAAATCTAAA
Found at i:12651153 original size:35 final size:35
Alignment explanation
Indices: 12651079--12651176 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 35
12651069 GCGAATCTAA
* * * * * *
12651079 AAATTTTTACAAATCTAAAATTATTGCAAATCTTT
1 AAATTATTAGAAATCTAAAATTCTTGTAAAACTTG
12651114 AAATTATTAGAAATCTGAAAATTCTTGTAAAAC-TG
1 AAATTATTAGAAATCT-AAAATTCTTGTAAAACTTG
*
12651149 AAATTCTT-GAGAATCTAAAAATTCTTGT
1 AAATTATTAGA-AATCT-AAAATTCTTGT
12651177 GAATTTGAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.04
35 38 0.72
36 13 0.25
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (35 bp):
AAATTATTAGAAATCTAAAATTCTTGTAAAACTTG
Found at i:12651186 original size:35 final size:36
Alignment explanation
Indices: 12651124--12651244 Score: 115
Period size: 35 Copynumber: 3.4 Consensus size: 36
12651114 AAATTATTAG
*
12651124 AAATCTGAAAATTCTTGTAAAACTG-AAATTCTTG-
1 AAATCTAAAAATTCTTGTAAAACTGAAAATTCTTGC
* ** *
12651158 AGAATCTAAAAATTCTTGTGAATTTGAAAATTTTTGC
1 A-AATCTAAAAATTCTTGTAAAACTGAAAATTCTTGC
* ** *
12651195 AAATATAAAAATTCTTACAAAACT-AAAATTCTTGT
1 AAATCTAAAAATTCTTGTAAAACTGAAAATTCTTGC
*
12651230 GAATCT-AAAATTCTT
1 AAATCTAAAAATTCTT
12651245 ACAAATCTTC
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
34 10 0.14
35 33 0.48
36 25 0.36
37 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (36 bp):
AAATCTAAAAATTCTTGTAAAACTGAAAATTCTTGC
Found at i:12651717 original size:17 final size:16
Alignment explanation
Indices: 12651693--12651750 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
12651683 CCCAAAAATT
12651693 TTTTATTTTAATTTGA
1 TTTTATTTTAATTTGA
* *
12651709 TTTTGATTTTGATTCGA
1 TTTT-ATTTTAATTTGA
* *
12651726 TTTTCTTTTAAATTGA
1 TTTTATTTTAATTTGA
12651742 TTTTATTTT
1 TTTTATTTT
12651751 TCGTTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 20 0.59
17 14 0.41
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (16 bp):
TTTTATTTTAATTTGA
Found at i:12651792 original size:16 final size:16
Alignment explanation
Indices: 12651773--12651803 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12651763 GTCAAAAGTA
12651773 AAAAAAAAAAAAAGGC
1 AAAAAAAAAAAAAGGC
*
12651789 AAAAAAAAAAGAAGG
1 AAAAAAAAAAAAAGG
12651804 AAATTAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGGC
Found at i:12651936 original size:14 final size:13
Alignment explanation
Indices: 12651916--12651957 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
12651906 TAGTTCATAT
12651916 AAAATCAAATCAC
1 AAAATCAAATCAC
*
12651929 AGAAATCAAATCCC
1 A-AAATCAAATCAC
12651943 AAAAGTCAAATCAC
1 AAAA-TCAAATCAC
12651957 A
1 A
12651958 TTCAGTCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.57, C:0.24, G:0.05, T:0.14
Consensus pattern (13 bp):
AAAATCAAATCAC
Found at i:12652411 original size:20 final size:20
Alignment explanation
Indices: 12652386--12652423 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12652376 ATTGGGTATT
12652386 GGTTGAACTTCACAGCAGCC
1 GGTTGAACTTCACAGCAGCC
*
12652406 GGTTGAACTTTACAGCAG
1 GGTTGAACTTCACAGCAG
12652424 TTAGATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (20 bp):
GGTTGAACTTCACAGCAGCC
Found at i:12652898 original size:19 final size:19
Alignment explanation
Indices: 12652864--12652916 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
12652854 AAATATTAAT
12652864 TATTATTGCATG---ATTA
1 TATTATTGCATGATAATTA
12652880 TATTATTGCATGATAATTA
1 TATTATTGCATGATAATTA
*
12652899 TATTATTGTATGATAATT
1 TATTATTGCATGATAATT
12652917 TTTATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 12 0.36
19 21 0.64
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (19 bp):
TATTATTGCATGATAATTA
Found at i:12652945 original size:33 final size:35
Alignment explanation
Indices: 12652899--12652963 Score: 107
Period size: 33 Copynumber: 1.9 Consensus size: 35
12652889 ATGATAATTA
*
12652899 TATTATTGTATGATAA-TTTTTA-TTATTTTATGG
1 TATTATTGCATGATAATTTTTTATTTATTTTATGG
12652932 TATTATTGCATGATAATTTTTTATTTATTTTA
1 TATTATTGCATGATAATTTTTTATTTATTTTA
12652964 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 15 0.52
34 6 0.21
35 8 0.28
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.62
Consensus pattern (35 bp):
TATTATTGCATGATAATTTTTTATTTATTTTATGG
Found at i:12654576 original size:4 final size:4
Alignment explanation
Indices: 12654567--12654597 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
12654557 TTTATCTCCT
12654567 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
12654598 GTTATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:12654650 original size:2 final size:2
Alignment explanation
Indices: 12654643--12654681 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
12654633 TGTTTATCCT
*
12654643 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12654682 CTTTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12654701 original size:11 final size:11
Alignment explanation
Indices: 12654683--12654765 Score: 78
Period size: 11 Copynumber: 7.1 Consensus size: 11
12654673 TATATATATC
12654683 TTTATTTTTAT
1 TTTATTTTTAT
*
12654694 TCTA-TTTTAT
1 TTTATTTTTAT
12654704 CTTTATTCTTTAT
1 -TTTATT-TTTAT
*
12654717 TTTACTTTTACT
1 TTTATTTTTA-T
12654729 TTTATTTTTAT
1 TTTATTTTTAT
12654740 TTTATCTCATTTAT
1 TTTAT-T--TTTAT
*
12654754 TTTATTATTAT
1 TTTATTTTTAT
12654765 T
1 T
12654766 GTTGATCTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.10
11 21 0.35
12 17 0.28
13 6 0.10
14 10 0.17
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:12654730 original size:23 final size:22
Alignment explanation
Indices: 12654679--12654744 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 22
12654669 TATATATATA
*
12654679 TATCTTTATTTTTATTCTATTT
1 TATCTTTATTTTTATTTTATTT
12654701 TATCTTTATTCTTTATTTTACTTT
1 TATCTTTATT-TTTATTTTA-TTT
12654725 TA-CTTTTATTTTTATTTTAT
1 TATC-TTTATTTTTATTTTAT
12654745 CTCATTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
22 11 0.28
23 18 0.45
24 11 0.28
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (22 bp):
TATCTTTATTTTTATTTTATTT
Found at i:12654736 original size:5 final size:5
Alignment explanation
Indices: 12654683--12654765 Score: 60
Period size: 6 Copynumber: 15.2 Consensus size: 5
12654673 TATATATATC
*
12654683 TTTATT TTTAT TCTAT TTTAT CTTTATT CTTTAT TTTACT TTTACT TTTATT
1 TTTA-T TTTAT TTTAT TTTAT -TTTA-T -TTTAT TTTA-T TTTA-T TTTA-T
* *
12654735 TTTAT TTTAT CTCA- TTTAT TTTAT TATTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT T
12654766 GTTGATCTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
4 2 0.03
5 27 0.42
6 30 0.46
7 6 0.09
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:12656313 original size:15 final size:15
Alignment explanation
Indices: 12656293--12656329 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
12656283 ATTTTATTTG
12656293 TTTGAAAAAATAAAT
1 TTTGAAAAAATAAAT
12656308 TTTG-AAAAATAAAT
1 TTTGAAAAAATAAAT
12656322 TTATGAAA
1 TT-TGAAA
12656330 TTCGTATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 12 0.60
15 6 0.30
16 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (15 bp):
TTTGAAAAAATAAAT
Found at i:12664057 original size:16 final size:18
Alignment explanation
Indices: 12664025--12664058 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12664015 TTATCGATTG
12664025 ATTTATATTAAATTAAAA
1 ATTTATATTAAATTAAAA
12664043 ATTTAT-TTAAA-TAAAA
1 ATTTATATTAAATTAAAA
12664059 TTAAAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTATATTAAATTAAAA
Found at i:12664541 original size:3 final size:3
Alignment explanation
Indices: 12664527--12664561 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
12664517 CTAGATCTGT
* *
12664527 AGC AGA AGC AGC AGC AGC AGC AGC AGC GGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
12664562 GTTCGGCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.37, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:12664804 original size:3 final size:3
Alignment explanation
Indices: 12664798--12664852 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
12664788 AATAAATGTG
* * * * *
12664798 GAT GAT GAT GAG GAT GAT GAT GAT GAT GAT GGT TAT GAT GAT GGT GAG
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
12664846 GAT GAT G
1 GAT GAT G
12664853 GGGATCAGTC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:12675001 original size:31 final size:31
Alignment explanation
Indices: 12674902--12674997 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
12674892 ACTAAATTCA
*
12674902 ATAATTAATTAAAATATAAAAATCTAATT-T
1 ATAATTAATTAAAATACAAAAATCTAATTAT
*
12674932 A-AA-TACATTAAAATAGAAAAAT-TAATTCA-
1 ATAATTA-ATTAAAATACAAAAATCTAATT-AT
*
12674961 ATCATTTAATTAAAATACAAAAATCT-ATTAT
1 AT-AATTAATTAAAATACAAAAATCTAATTAT
12674992 ATAATT
1 ATAATT
12674998 TAATCTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
28 7 0.13
29 18 0.33
30 5 0.09
31 21 0.39
32 3 0.06
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.36
Consensus pattern (31 bp):
ATAATTAATTAAAATACAAAAATCTAATTAT
Done.