Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 63 of 438
Found at i:16411423 original size:8 final size:8
Alignment explanation
Indices: 16411381--16411424 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
16411371 AACTTATTAA
*
16411381 AAATATAA
1 AAATATAT
16411389 AAATATAT
1 AAATATAT
*
16411397 AAAAATAT
1 AAATATAT
16411405 AAATATTTAT
1 AAATA--TAT
16411415 AAATATAT
1 AAATATAT
16411423 AA
1 AA
16411425 TTAATTAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
8 23 0.74
10 8 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATATAT
Found at i:16411780 original size:239 final size:237
Alignment explanation
Indices: 16411330--16412588 Score: 1026
Period size: 249 Copynumber: 5.0 Consensus size: 237
16411320 AAAATAAAAT
** *
16411330 AAAATAAAATCAGCAAATATTAAAAATATTAAAATT-ATATAAACTTATTAAAAATAT-AAAAAT
1 AAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT
* * *
16411393 ATATAAAAATATAAATATTTATAAATATATAATTAATTAAG-CCTTCCGTTAATAATTT-TAGTC
66 ATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAATGATTTCT-GTC
* * * *
16411456 ATCGACCACGTTAACCATTAAAATAAACTGACAGATCAATCAGATGGTGACACATGGCAA-TTTC
130 ATTGACCACGTTGACCATTAAAATAAATTGACAGATCAATTA-ATGGTGACACATGG-AAGTTTC
* *
16411520 AGGCACAATCTCATATTTTTCCCTTAAAACTGATTAAAATTACAA
193 AGGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTACAA
16411565 AAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT
1 AAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAA-
* * *
16411630 TATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTTCGTTAACGGTTTCTGTC
65 TATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAATGATTTCTGTC
* *
16411695 ATTGACCACGTTGACCAATAAAATAAATTGACAAATCAATTATATGGTGACACATGGAAGTTTCA
130 ATTGACCACGTTGACCATTAAAATAAATTGACAGATCAATTA-ATGGTGACACATGGAAGTTTCA
* *
16411760 AGCACGATCTAATATTTTTCCCTTAAAACTGATAAAAATTACAAAA
194 GGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTAC--AA
* *
16411806 TAAAATACAAAATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAAATTATTAAAACTA
1 -AAAAT--AAAAT-CAAT----AAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTA
* * *
16411871 TAAAAAAATATATAATAATAGAAATATTTATAAATATATAATCAATTAAGCTCTTCCATTAATGA
58 T-AAAAAATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAATGA
* * * * *
16411936 TTTCAGTCATCT-ATCATGTTGA-CAGTTAAAATAAATTGACAGATCAA-TAA-GATG-GACATG
122 TTTCTGTCAT-TGACCACGTTGACCA-TTAAAATAAATTGACAGATCAATTAATGGTGACACATG
* *
16411996 GCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTAAAAA
185 GAAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATT-ACAA
** ** * * * *
16412050 AAAAGTAAAAAATTTTATAAAATAAAAATAAAATCAATAAATATTAAAAATATTAAAATTAATAT
1 AAAA-T--AAAA-TCAAT-AAAT-ATTA-AAAAT-ATTAAA-ATT---GATA-TAAACTTATTA-
* * * ** **
16412115 AAACTTATTAAAACTATAATAGATTATATAATAATATAAATATTTATCAATATATAATCAATTAA
52 AAAC-TATAAAAAATAT-ATA-ATAATATAA--ATATTTATAAATAT--A----TAATCAATTAA
* * * * *** * * ** *
16412180 GCCATTTCGTTAACGGTTTCTGTCATTGACCACGTTGAAGGTTAAAATAGACTGATGGATCAATC
106 GCCCTTCCGTTAATGATTTCTGTCATTGACCACGTTGACCATTAAAATAAATTGACAGATCAATT
* * ** * * *
16412245 ATATGGTGATACATGGTAGTTTCAAACACGATCTAATATTTTTCTCTTAAAATTGATAAAAATTG
171 A-ATGGTGACACATGGAAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATT-
*
16412310 ATAA
234 ACAA
* *
16412314 AAATTACAAAAATAAAACAATTATAAAAAATAAAATCAGCAAATATTAAAAATATTAAAATTGAT
1 AAA--A-TAAAAT----C-A--AT---AAAT---ATTA--AAA-A-T------ATTAAAATTGAT
*
16412379 ATAAACTTATGAAAACTATAAAAAATATATATAATAATATAAATATTTATAAATATATAATCAAT
40 ATAAACTTATTAAAACTAT-AAAAA-ATATATAATAATATAAATATTTATAAATATATAATCAAT
* * * * * * * **
16412444 TAAGCCCTTCCGTTAACGGTTTCTATCATTGACCACATTGACCGTTTAAATAAAGTGATGGATCA
103 TAAGCCCTTCCGTTAATGATTTCTGTCATTGACCACGTTGACCATTAAAATAAATTGACAGATCA
** * *
16412509 AGCAGATGGTGACACATGGGAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAATTGATAAAAA
168 ATTA-ATGGTGACACATGGAAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAA
*
16412574 TCACAA
232 TTACAA
16412580 AAAATAAAA
1 AAAATAAAA
16412589 AAAAATTATA
Statistics
Matches: 831, Mismatches: 122, Indels: 114
0.78 0.11 0.11
Matches are distributed among these distances:
235 34 0.04
236 20 0.02
237 5 0.01
238 42 0.05
239 109 0.13
240 1 0.00
241 6 0.01
242 7 0.01
243 9 0.01
244 20 0.02
245 58 0.07
246 4 0.00
247 1 0.00
248 7 0.01
249 141 0.17
250 18 0.02
251 6 0.01
252 7 0.01
254 10 0.01
256 1 0.00
259 1 0.00
260 56 0.07
261 1 0.00
262 1 0.00
263 8 0.01
264 59 0.07
266 7 0.01
267 122 0.15
270 2 0.00
271 1 0.00
272 5 0.01
273 10 0.01
274 3 0.00
275 14 0.02
276 12 0.01
277 12 0.01
278 3 0.00
281 3 0.00
282 5 0.01
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (237 bp):
AAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT
ATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAATGATTTCTGTCA
TTGACCACGTTGACCATTAAAATAAATTGACAGATCAATTAATGGTGACACATGGAAGTTTCAGG
CACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTACAA
Found at i:16411816 original size:12 final size:12
Alignment explanation
Indices: 16411794--16411823 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
16411784 AAAACTGATA
16411794 AAAATTACAAAAT
1 AAAA-TACAAAAT
16411807 AAAATACAAAAT
1 AAAATACAAAAT
16411819 AAAAT
1 AAAAT
16411824 CAGCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATACAAAAT
Found at i:16411877 original size:19 final size:19
Alignment explanation
Indices: 16411835--16411877 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
16411825 AGCAAATATT
*
16411835 AAAAATATTAAAATTGATA
1 AAAAATATTAAAACTGATA
*
16411854 TAAAATTATTAAAACT-ATA
1 -AAAAATATTAAAACTGATA
16411873 AAAAA
1 AAAAA
16411878 ATATATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 4 0.20
19 3 0.15
20 13 0.65
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATATTAAAACTGATA
Found at i:16411885 original size:249 final size:251
Alignment explanation
Indices: 16411554--16412581 Score: 1172
Period size: 249 Copynumber: 4.0 Consensus size: 251
16411544 TAAAACTGAT
* *
16411554 TAAAATTACAAAAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAA
1 TAAAA-TATAAAAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAA
* *
16411619 CTATAAAAAATTATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTTCGTTAA
65 CTATAAAAAAATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAA
* * *
16411684 CGGTTTCTGTCATTGACCACGTTGACCAATAAAATAAATTGACAAATCAATTATATGGTGACACA
130 CGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAATTGACAGATCAATCATATGGTGACACA
*
16411749 TGGAAGTTTCAAGCACGATCTAATATTTTTCCCTTAAAACTGATAAAAATTACAAAA
195 TGGAAGTTTCAAGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTACAAAA
* * *
16411806 T-AAA-ATACAAAATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAAATTATTAAAAC
1 TAAAATATAAAAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAAC
* * * *
16411869 TATAAAAAAATATATAATAATAGAAATATTTATAAATATATAATCAATTAAGCTCTTCCATTAAT
66 TATAAAAAAATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAAC
* * * * * *
16411934 GATTTCAGTCATCT-ATCATGTTGA-CAGTTAAAATAAATTGACAGATCAAT-A-A-GATG-GAC
131 GGTTTCTGTCAT-TGACCACGTTGACCA-TTAAAATAAATTGACAGATCAATCATATGGTGACAC
* * *
16411993 ATGGCAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTAAAAAAAAA
194 ATGGAAGTTTCAAGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATT---ACAAAA
* *
16412054 GTAAAAAATTTTATAAAATAAAAATAAAATCAATAAATATTAAAAATATTAAAATTAATATAAAC
1 -T--AAAA---TAT---A-AAAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAAC
* * * * *
16412119 TTATTAAAACTATAATAGATTATATAATAATATAAATATTTATCAATATATAATCAATTAAGCCA
56 TTATTAAAACTATAAAAAAATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCC
* *** * * **
16412184 TTTCGTTAACGGTTTCTGTCATTGACCACGTTGAAGGTTAAAATAGACTGATGGATCAATCATAT
121 TTCCGTTAACGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAATTGACAGATCAATCATAT
* * * * * *
16412249 GGTGATACATGGTAGTTTCAAACACGATCTAATATTTTTCTCTTAAAATTGATAAAAATTGATAA
186 GGTGACACATGGAAGTTTCAAGCACAATCTAATATTTTTC-C------CT--T-AAAACTGATAA
16412314 AAATTACAAAAA
241 AAATTAC-AAAA
* *
16412326 TAAAACAATTATAAAAAATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAACTTATGA
1 T--AA-AA-TATAAAAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTA
16412391 AAACTATAAAAAATATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCG
62 AAACTATAAAAAA-ATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCG
* * * * * ** * *
16412456 TTAACGGTTTCTATCATTGACCACATTGACCGTTTAAATAAAGTGATGGATCAAGCAGATGGTGA
126 TTAACGGTTTCTGTCATTGACCACGTTGACCATTAAAATAAATTGACAGATCAATCATATGGTGA
* * * *
16412521 CACATGGGAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAATTGATAAAAATCACAAAA
191 CACATGGAAGTTTCAAGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTACAAAA
16412582 AATAAAAAAA
Statistics
Matches: 657, Mismatches: 83, Indels: 68
0.81 0.10 0.08
Matches are distributed among these distances:
245 51 0.08
246 3 0.00
247 1 0.00
248 8 0.01
249 153 0.23
250 1 0.00
251 3 0.00
252 4 0.01
256 6 0.01
257 17 0.03
258 1 0.00
259 2 0.00
260 144 0.22
261 1 0.00
262 1 0.00
263 3 0.00
264 30 0.05
265 1 0.00
266 60 0.09
267 134 0.20
270 4 0.01
271 7 0.01
272 6 0.01
273 1 0.00
274 15 0.02
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (251 bp):
TAAAATATAAAAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAAC
TATAAAAAAATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAAC
GGTTTCTGTCATTGACCACGTTGACCATTAAAATAAATTGACAGATCAATCATATGGTGACACAT
GGAAGTTTCAAGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTACAAAA
Found at i:16412175 original size:509 final size:526
Alignment explanation
Indices: 16411564--16412712 Score: 1518
Period size: 509 Copynumber: 2.2 Consensus size: 526
16411554 TAAAATTACA
*
16411564 AAAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAA
1 AAAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTAT-AATAA
*
16411629 TTATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTTCGTTAACGGTTTCTGT
65 TTATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCATTTCGTTAACGGTTTCTGT
* * *
16411694 CATTGACCACGTTGACCAATAAAATAAATTGACAAATCAATTATATGGTGACACATGGAAGTTTC
130 CATTGACCACGTTGAACAATAAAATAAACTGACAAATCAATCATATGGTGACACATGGAAGTTTC
* *
16411759 AAGCACGATCTAATATTTTTC-C-CT-T-AAAACTGATAAAAATTAC-AAAAT-A-AA-ATACAA
195 AAACACGATCTAATATTTTTCTCACTATAAAAACTGATAAAAATTACAAAAATAACAATATAAAA
*
16411816 AATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAAATTATTAAAACTATAAAAAA-AT
260 AATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAAATTATGAAAACTATAAAAAATAT
* *
16411880 ATATAATAATAGAAATATTTATAAATATATAATCAATTAAGCTCTTCCATTAATGATTTC-AGTC
325 ATATAATAATAGAAATATTTATAAATATATAATCAATTAAGCCCTTCCATTAACGATTTCTA-TC
* ** * *
16411944 ATCT-ATCATGTTGACAGTTAAAATAAATTGACAGATCAATAAGAT-G-G-ACATGGCAGTTTCA
389 AT-TGACCACATTGACAGTTAAAATAAAGTGACAGATCAAGAAGATGGTGAACATGGCAGTTTCA
* *
16412005 GGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTA-AAAAAA-AAGTAAAAAATT-T-T
453 GGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATCACAAAAAATAA-AAAAAAATTATAT
16412066 -AT-A-AAAT
517 AATAATAAAT
*
16412073 AAAAATAAAATCAATAAATATTAAAAATATTAAAATTAATATAAACTTATTAAAACTATAATAGA
1 AAAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAATA-A
*
16412138 TTATATAATAATATAAATATTTATCAATATATAATCAATTAAGCCATTTCGTTAACGGTTTCTGT
65 TTATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCATTTCGTTAACGGTTTCTGT
*** * *** * *
16412203 CATTGACCACGTTGAAGGTTAAAATAGACTGATGGATCAATCATATGGTGATACATGGTAGTTTC
130 CATTGACCACGTTGAACAATAAAATAAACTGACAAATCAATCATATGGTGACACATGGAAGTTTC
* *
16412268 AAACACGATCTAATATTTTTCTCTTAAAATTGATAAAAATTGATAAAAATTACAAAAATAAAACA
195 AAACACGATCTAATATTTTTCTC-----ACT-ATAAAAACTGATAAAAATTACAAAAAT--AACA
*
16412333 ATTATAAAAAATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAACTTATGAAAACTAT
252 A-TATAAAAAATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAAATTATGAAAACTAT
* * *
16412398 AAAAAATATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAACGG
316 AAAAAATATATATAATAATAGAAATATTTATAAATATATAATCAATTAAGCCCTTCCATTAACGA
* * ** *
16412463 TTTCTATCATTGACCACATTGACCGTTTAAATAAAGTGATGGATCAAGCAGATGGTGACACATGG
381 TTTCTATCATTGACCACATTGACAGTTAAAATAAAGTGACAGATCAAGAAGATGGTGA-ACATGG
* *
16412528 GAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAATTGATAAAAATCACAAAAAATAAAAAAAA
445 CAGTTTCAGGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATCACAAAAAATAAAAAAAA
16412593 ATTATAAAATAAAATAATAAAT
510 ATTAT---AT--AATAATAAAT
* *
16412615 AATAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAATTATACAAT
1 AA-AAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTAT--AAT
* *
16412680 AA-TATA-AATATTATAAATA-TTATAAAAATATAA
63 AATTATATAATAATATAAATATTTATAAATATATAA
16412713 AATTCTAATA
Statistics
Matches: 553, Mismatches: 47, Indels: 48
0.85 0.07 0.07
Matches are distributed among these distances:
508 3 0.01
509 195 0.35
510 1 0.00
516 1 0.00
518 1 0.00
519 17 0.03
520 5 0.01
523 1 0.00
524 2 0.00
526 66 0.12
527 92 0.17
528 2 0.00
529 1 0.00
531 52 0.09
532 14 0.03
533 3 0.01
537 1 0.00
540 2 0.00
541 13 0.02
542 18 0.03
543 58 0.10
544 1 0.00
545 4 0.01
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (526 bp):
AAAAATAAAATCAATAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAATAAT
TATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCATTTCGTTAACGGTTTCTGTC
ATTGACCACGTTGAACAATAAAATAAACTGACAAATCAATCATATGGTGACACATGGAAGTTTCA
AACACGATCTAATATTTTTCTCACTATAAAAACTGATAAAAATTACAAAAATAACAATATAAAAA
ATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAAATTATGAAAACTATAAAAAATATA
TATAATAATAGAAATATTTATAAATATATAATCAATTAAGCCCTTCCATTAACGATTTCTATCAT
TGACCACATTGACAGTTAAAATAAAGTGACAGATCAAGAAGATGGTGAACATGGCAGTTTCAGGC
ACAATCTAATATTTTTCCCTTAAAACTGATAAAAATCACAAAAAATAAAAAAAAATTATATAATA
ATAAAT
Found at i:16412308 original size:10 final size:10
Alignment explanation
Indices: 16412293--16412318 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16412283 TTTTTCTCTT
16412293 AAAATTGATA
1 AAAATTGATA
16412303 AAAATTGATA
1 AAAATTGATA
16412313 AAAATT
1 AAAATT
16412319 ACAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (10 bp):
AAAATTGATA
Found at i:16412341 original size:17 final size:18
Alignment explanation
Indices: 16412315--16412348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16412305 AATTGATAAA
16412315 AATTAC-AAAAATAAAAC
1 AATTACAAAAAATAAAAC
*
16412332 AATTATAAAAAATAAAA
1 AATTACAAAAAATAAAA
16412349 TCAGCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (18 bp):
AATTACAAAAAATAAAAC
Found at i:16412445 original size:267 final size:267
Alignment explanation
Indices: 16411814--16412712 Score: 1025
Period size: 267 Copynumber: 3.4 Consensus size: 267
16411804 AATAAAATAC
* *
16411814 AAAATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAAATTATTAAAACTATAAAAAA-
1 AAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT
* * * * * *
16411878 ATATATAATAATAGAAATATTTATAAATATATAATCAATTAAGCTCTTCCATTAATGATTTCAGT
66 ATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAACGGTTTCTGT
* * * * *
16411943 CATCT-ATCATGTTG-ACAGTTAAAATAAATTGACAGATCAAT-A-A-GATG-GACATGGCAGTT
131 CAT-TGACCACGTTGAAC-GTTAAAATAAATTGACAGATCAATCATATGGTGACACATGGAAGTT
* * ***
16412002 TCAGGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTAAAAAAAAAGTAAAAAATTTTA
194 TCAAGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTAAAAAAAAATTAAAAAATAAAA
*
16412067 TAA-AAT-A
259 TAATTATAA
* * * *
16412074 AAAATAAAATCAATAAATATTAAAAATATTAAAATTAATATAAACTTATTAAAACTATAATAGAT
1 AAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT
* * *
16412139 -TATATAATAATATAAATATTTATCAATATATAATCAATTAAGCCATTTCGTTAACGGTTTCTGT
66 ATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAACGGTTTCTGT
* * * ** * *
16412203 CATTGACCACGTTGAAGGTTAAAATAGACTGATGGATCAATCATATGGTGATACATGGTAGTTTC
131 CATTGACCACGTTGAACGTTAAAATAAATTGACAGATCAATCATATGGTGACACATGGAAGTTTC
* * * * * * *
16412268 AAACACGATCTAATATTTTTCTCTTAAAATTGATAAAAATT-GATAAAAATTACAAAAATAAAAC
196 AAGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTAAAAAAAAATTA-AAAAATAAAAT
16412332 AATTATAA
260 AATTATAA
* *
16412340 AAAATAAAATCAGCAAATATTAAAAATATTAAAATTGATATAAACTTATGAAAACTATAAAAAAT
1 AAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT
*
16412405 ATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAACGGTTTCTAT
66 ATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAACGGTTTCTGT
* * * * ** * * *
16412470 CATTGACCACATTGACCGTTTAAATAAAGTGATGGATCAAGCAGATGGTGACACATGGGAGTTTC
131 CATTGACCACGTTGAACGTTAAAATAAATTGACAGATCAATCATATGGTGACACATGGAAGTTTC
* * *
16412535 AGGCACAATCTAATATTTTTCCCTTAAAATTGATAAAAATCACAAAAAATAAAAAAAAATTATAA
196 AAGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAAT---------TAAAAAAAAATTAAAA
*
16412600 AATAAAATAATAAATAA
252 AATAAAATAAT-TATAA
* * * *
16412617 TAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAATTATACAATA-
1 AAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT
* *
16412681 ATATA-AATATTATAAATA-TTATAAAAATATAA
66 ATATATAATAATATAAATATTTATAAATATATAA
16412713 AATTCTAATA
Statistics
Matches: 542, Mismatches: 75, Indels: 30
0.84 0.12 0.05
Matches are distributed among these distances:
259 1 0.00
260 143 0.26
261 2 0.00
262 1 0.00
263 11 0.02
264 57 0.11
265 2 0.00
266 60 0.11
267 151 0.28
274 13 0.02
275 12 0.02
276 18 0.03
277 71 0.13
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (267 bp):
AAAATAAAATCAACAAATATTAAAAATATTAAAATTGATATAAACTTATTAAAACTATAAAAAAT
ATATATAATAATATAAATATTTATAAATATATAATCAATTAAGCCCTTCCGTTAACGGTTTCTGT
CATTGACCACGTTGAACGTTAAAATAAATTGACAGATCAATCATATGGTGACACATGGAAGTTTC
AAGCACAATCTAATATTTTTCCCTTAAAACTGATAAAAATTAAAAAAAAATTAAAAAATAAAATA
ATTATAA
Found at i:16412634 original size:20 final size:19
Alignment explanation
Indices: 16412581--16412640 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
16412571 AAATCACAAA
*
16412581 AAATAAAA-AA-AAATTAT
1 AAATAAAATAACAAATAAT
*
16412598 AAAATAAAATAATAAATAAT
1 -AAATAAAATAACAAATAAT
*
16412618 AAATAAAATCAACAAATATT
1 AAATAAAAT-AACAAATAAT
16412638 AAA
1 AAA
16412641 AATATTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 8 0.22
19 11 0.31
20 17 0.47
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (19 bp):
AAATAAAATAACAAATAAT
Found at i:16412669 original size:9 final size:9
Alignment explanation
Indices: 16412634--16412775 Score: 51
Period size: 9 Copynumber: 15.1 Consensus size: 9
16412624 AATCAACAAA
*
16412634 TATTAAAAA
1 TATTAAAAT
16412643 TATTAAAAT
1 TATTAAAAT
*
16412652 TGATATAAACT
1 T-AT-TAAAAT
16412663 TATTAAAAT
1 TATTAAAAT
*
16412672 TA-TACAAT
1 TATTAAAAT
*
16412680 AATATAAATAT
1 TAT-TAAA-AT
16412691 TA-TAAATAT
1 TATTAAA-AT
*
16412700 TA-TAAAAA
1 TATTAAAAT
16412708 TA-TAAAAT
1 TATTAAAAT
* *
16412716 TCTAATAAAT
1 TATTA-AAAT
* *
16412726 TATAAAAAA
1 TATTAAAAT
*
16412735 AATTATAAGAT
1 TATTA-AA-AT
*
16412746 TAATAAAACT
1 TATTAAAA-T
16412756 TATTTAAAAT
1 TA-TTAAAAT
16412766 GT-TTAAAAT
1 -TATTAAAAT
16412775 T
1 T
16412776 TAACAAGTAT
Statistics
Matches: 102, Mismatches: 19, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
8 16 0.16
9 44 0.43
10 23 0.23
11 19 0.19
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (9 bp):
TATTAAAAT
Found at i:16412710 original size:11 final size:9
Alignment explanation
Indices: 16412631--16412731 Score: 61
Period size: 9 Copynumber: 11.3 Consensus size: 9
16412621 TAAAATCAAC
*
16412631 AAATATTAA
1 AAATATTAT
16412640 AAATATTA-
1 AAATATTAT
16412648 AAAT-TGATAT
1 AAATAT--TAT
*
16412658 AAA-CTTATT
1 AAATATTA-T
16412667 AAA-ATTAT
1 AAATATTAT
*
16412675 ACAATAATAT
1 A-AATATTAT
16412685 AAATATTAT
1 AAATATTAT
16412694 AAATATTAT
1 AAATATTAT
*
16412703 AAA-AATAT
1 AAATATTAT
*
16412711 AAA-ATTCT
1 AAATATTAT
*
16412719 AATAAATTAT
1 AA-ATATTAT
16412729 AAA
1 AAA
16412732 AAAAATTATA
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
7 1 0.01
8 20 0.26
9 40 0.53
10 15 0.20
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (9 bp):
AAATATTAT
Found at i:16412715 original size:18 final size:18
Alignment explanation
Indices: 16412580--16412715 Score: 57
Period size: 18 Copynumber: 7.3 Consensus size: 18
16412570 AAAATCACAA
*
16412580 AAAATAA-AAAAAAATTAT
1 AAAATAATATAAAAA-TAT
*
16412598 AAAATAAAATAATAAATA-
1 AAAATAATATAA-AAATAT
*
16412616 ATAAATAAAATCAACAAATAT
1 A-AAATAATAT-AA-AAATAT
*
16412637 TAAA-AATATTAAAATTGATAT
1 AAAATAATA-TAAAA---ATAT
* * *
16412658 AAACTTAT-TAAAATTAT
1 AAAATAATATAAAAATAT
* *
16412675 ACAATAATATAAATAT-T
1 AAAATAATATAAAAATAT
*
16412692 ATAAATATTATAAAAATAT
1 A-AAATAATATAAAAATAT
16412711 AAAAT
1 AAAAT
16412716 TCTAATAAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
17 10 0.11
18 31 0.35
19 21 0.24
20 19 0.21
21 6 0.07
22 2 0.02
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAATAATATAAAAATAT
Found at i:16412727 original size:26 final size:26
Alignment explanation
Indices: 16412654--16412733 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 26
16412644 ATTAAAATTG
* *
16412654 ATATAAA-CTTATTAAAATTATACAATA
1 ATATAAATATTATAAAAATTATA-AA-A
*
16412681 ATATAAATATTATAAATATTATAAAA
1 ATATAAATATTATAAAAATTATAAAA
*
16412707 ATATAAA-ATTCTAATAAATTATAAAA
1 ATATAAATATTATAA-AAATTATAAAA
16412733 A
1 A
16412734 AAATTATAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.13
26 19 0.41
27 9 0.20
28 12 0.26
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (26 bp):
ATATAAATATTATAAAAATTATAAAA
Found at i:16412729 original size:18 final size:17
Alignment explanation
Indices: 16412655--16412732 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 17
16412645 TTAAAATTGA
* *
16412655 TATAAACTTATTAAAAT
1 TATAAAATTATAAAAAT
* *
16412672 TATACAATAATATAAATAT
1 TATA-AA-ATTATAAAAAT
16412691 TATAAATATTATAAAAA-
1 TATAAA-ATTATAAAAAT
*
16412708 TATAAAATTCTAATAAAT
1 TATAAAATTATAA-AAAT
16412726 TATAAAA
1 TATAAAA
16412733 AAAATTATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.12
17 13 0.26
18 20 0.40
19 11 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
TATAAAATTATAAAAAT
Found at i:16412825 original size:24 final size:26
Alignment explanation
Indices: 16412798--16412859 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 26
16412788 GAATTCTTAC
16412798 AAAATAATAAAAAATTG-TA-AAAAT
1 AAAATAATAAAAAATTGTTATAAAAT
* * *
16412822 AAAA-ATTATTAAAATTGTTATGAAAT
1 AAAATAATA-AAAAATTGTTATAAAAT
16412848 -AAATAATAAAAA
1 AAAATAATAAAAA
16412860 GAATAAAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
23 3 0.10
24 11 0.38
25 8 0.28
26 7 0.24
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (26 bp):
AAAATAATAAAAAATTGTTATAAAAT
Found at i:16413386 original size:18 final size:17
Alignment explanation
Indices: 16413360--16413402 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
16413350 TTACTTTACT
*
16413360 TTAAGTATAAGATATTTA
1 TTAATTATAAGATA-TTA
*
16413378 TTAATTATAATATATTA
1 TTAATTATAAGATATTA
16413395 TTATATTA
1 TTA-ATTA
16413403 ACTATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TTAATTATAAGATATTA
Found at i:16416540 original size:3 final size:3
Alignment explanation
Indices: 16416532--16416582 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
16416522 TATTGAGGAG
16416532 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16416580 TAA
1 TAA
16416583 AGAAGTAGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16420870 original size:26 final size:26
Alignment explanation
Indices: 16420834--16420966 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
16420824 TGATACAAAT
16420834 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16420860 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16420886 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16420912 TG---ATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16420935 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16420961 TGATAA
1 TGATAA
16420967 GAATTTCATG
Statistics
Matches: 102, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
23 21 0.21
26 81 0.79
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16420940 original size:49 final size:49
Alignment explanation
Indices: 16420834--16420965 Score: 201
Period size: 49 Copynumber: 2.6 Consensus size: 49
16420824 TGATACAAAT
16420834 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATG---ATAGGTTAGGTAAATGTTCCA
* *
16420886 TGATAATAGGTTAGGTAAATGTTCCATGATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAGGTTAGGTAAATGTTCCA
* *
16420935 TGATAATGGGTTAGGTAAATGTTTCATGATA
1 TGATAATAGGTTAGGTAAATGTTCCATGATA
16420966 AGAATTTCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 47 0.63
52 28 0.37
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (49 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAGGTTAGGTAAATGTTCCA
Found at i:16422514 original size:26 final size:26
Alignment explanation
Indices: 16422462--16422514 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
16422452 TTTACAGTTT
*
16422462 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
16422488 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
16422514 T
1 T
16422515 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:16425301 original size:25 final size:24
Alignment explanation
Indices: 16425265--16425317 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
16425255 CACAAACACA
16425265 GCTCTTTATGAGCATCCTGATATAG
1 GCTCTTTATGAGCATCCTGATAT-G
* *
16425290 GCTCTTTTTGAGCTTCCTGATATG
1 GCTCTTTATGAGCATCCTGATATG
16425314 GCTC
1 GCTC
16425318 ACTTGAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCTGATATG
Found at i:16425328 original size:23 final size:24
Alignment explanation
Indices: 16425279--16425341 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
16425269 TTTATGAGCA
** *
16425279 TCCTGATATAGGCTCTTTTTGAGCT
1 TCCTGATAT-GGCTCTACTTGAACT
16425304 TCCTGATATGGCTC-ACTTGAACT
1 TCCTGATATGGCTCTACTTGAACT
16425327 TCCTGTTATATGGCT
1 TCCTG--ATATGGCT
16425342 ATCCGAAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 11 0.33
24 5 0.15
25 17 0.52
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (24 bp):
TCCTGATATGGCTCTACTTGAACT
Found at i:16428691 original size:10 final size:10
Alignment explanation
Indices: 16428678--16428737 Score: 54
Period size: 9 Copynumber: 6.2 Consensus size: 10
16428668 TTTATGATTT
16428678 TTTTTATAAA
1 TTTTTATAAA
16428688 -TTTTATAAA
1 TTTTTATAAA
* * *
16428697 CTTATATCAA
1 TTTTTATAAA
16428707 TTTTTAT-AA
1 TTTTTATAAA
*
16428716 TTTTTAT-GA
1 TTTTTATAAA
16428725 TTTTTATAGAA
1 TTTTTATA-AA
16428736 TT
1 TT
16428738 CTAGTACTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
9 26 0.63
10 12 0.29
11 3 0.07
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:16428851 original size:15 final size:15
Alignment explanation
Indices: 16428808--16428851 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
16428798 ATATTTTTTT
*
16428808 ATAATTTTAT-TATA
1 ATAATTTTATATTTA
*
16428822 AAAATTTTAATATTTA
1 ATAATTTT-ATATTTA
16428838 ATAATTTTATATTT
1 ATAATTTTATATTT
16428852 TATATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 7 0.28
15 8 0.32
16 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATAATTTTATATTTA
Found at i:16438614 original size:18 final size:19
Alignment explanation
Indices: 16438574--16438614 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
16438564 CAAATTAAAT
16438574 TATT-ACCAGATGAGATTA
1 TATTCACCAGATGAGATTA
*
16438592 -GTTCACCA-ATGAGATTA
1 TATTCACCAGATGAGATTA
16438609 TATTCA
1 TATTCA
16438615 ATGATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
TATTCACCAGATGAGATTA
Found at i:16441952 original size:13 final size:13
Alignment explanation
Indices: 16441934--16441971 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
16441924 TTAAAATATA
16441934 TAAAATTATAAAT
1 TAAAATTATAAAT
16441947 TAAAATT-TATAAT
1 TAAAATTATA-AAT
16441960 TAAAA-TATAAAT
1 TAAAATTATAAAT
16441972 AGTATTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATTATAAAT
Found at i:16444587 original size:19 final size:20
Alignment explanation
Indices: 16444560--16444610 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
16444550 GCCAATACAA
*
16444560 TATCAATACTAGACTA-A-AG
1 TATCGATACTAGA-TACATAG
*
16444579 TATCGATACTTGATACCATAG
1 TATCGATACTAGATA-CATAG
16444600 TATCGATACTA
1 TATCGATACTA
16444611 TTGAACTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 11 0.42
20 1 0.04
21 12 0.46
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (20 bp):
TATCGATACTAGATACATAG
Found at i:16445328 original size:22 final size:23
Alignment explanation
Indices: 16445303--16445348 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16445293 CAACCAAATC
16445303 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16445325 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16445348 A
1 A
16445349 CGTCATCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:16445354 original size:23 final size:23
Alignment explanation
Indices: 16445310--16445354 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16445300 ATCAATTCAA
*
16445310 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16445333 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16445355 CACTTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:16445599 original size:254 final size:254
Alignment explanation
Indices: 16445149--16445656 Score: 937
Period size: 254 Copynumber: 2.0 Consensus size: 254
16445139 TTTGTATAAT
*
16445149 TGTAATACCCCTACCCGTATTCATTGCCGGAATAGGGTATGAGGCATTACCGGAGTTTACGAATT
1 TGTAATACCCCTACCCGTATTCATTGCCGGAATAGGGTACGAGGCATTACCGGAGTTTACGAATT
*
16445214 AAATTTTTTTTATATTCAATATAGCCCCTTTATAAATATCTAACCTTCCCTGCAATATTAAATCG
66 AAATTTTTTTTATATTCAATATAACCCCTTTATAAATATCTAACCTTCCCTGCAATATTAAATCG
*
16445279 AGACCAATCCACATCAACCAAATCAATTCAACATATTTTCAAGATAAATTCATGCATATTTATAA
131 AGACCAATCCACATCAACCAAACCAATTCAACATATTTTCAAGATAAATTCATGCATATTTATAA
*
16445344 GATAACGTCATCACTTATCTAAAACCAGGTTTGTTAACCATACTAATGGCTAACTTTAC
196 GATAACGTCATCACCTATCTAAAACCAGGTTTGTTAACCATACTAATGGCTAACTTTAC
16445403 TGTAATACCCCTACCCGTATTCATTGCCGGAATAGGGTACGAGGCATTACCGGAGTTTACGAATT
1 TGTAATACCCCTACCCGTATTCATTGCCGGAATAGGGTACGAGGCATTACCGGAGTTTACGAATT
16445468 AAATTTTTTTTATATTCAATATAACCCCTTTATAAATATCTAACCTTCCCTGCAATATTAAATCG
66 AAATTTTTTTTATATTCAATATAACCCCTTTATAAATATCTAACCTTCCCTGCAATATTAAATCG
* *
16445533 AGACCAATCCACATCAACCAAACCAATTCAACATATTTTCATGATAGATTCATGCAT-TTATATA
131 AGACCAATCCACATCAACCAAACCAATTCAACATATTTTCAAGATAAATTCATGCATATT-TATA
*
16445597 AGATAACGTCATCACCTATCTATAACCAGGTTTGTTAACCATACTAATGGCTAACTTTAC
195 AGATAACGTCATCACCTATCTAAAACCAGGTTTGTTAACCATACTAATGGCTAACTTTAC
16445657 ATTCATTTCA
Statistics
Matches: 246, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
253 2 0.01
254 244 0.99
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (254 bp):
TGTAATACCCCTACCCGTATTCATTGCCGGAATAGGGTACGAGGCATTACCGGAGTTTACGAATT
AAATTTTTTTTATATTCAATATAACCCCTTTATAAATATCTAACCTTCCCTGCAATATTAAATCG
AGACCAATCCACATCAACCAAACCAATTCAACATATTTTCAAGATAAATTCATGCATATTTATAA
GATAACGTCATCACCTATCTAAAACCAGGTTTGTTAACCATACTAATGGCTAACTTTAC
Found at i:16452025 original size:38 final size:38
Alignment explanation
Indices: 16451994--16452165 Score: 240
Period size: 38 Copynumber: 4.5 Consensus size: 38
16451984 CGCAGGTTAT
16451994 ATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTC
1 ATGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTC
*
16452032 ATACTGGTAATATATCCGGGTTAAATCCCGCAGGCTTC
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTC
* *
16452070 GTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTC
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTC
* * *
16452108 GTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCT-
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTC
* *
16452145 AGTGCTGGTATTATATTCGGG
1 A-TGCTGGTAATATATCCGGG
16452166 CCTTTGAGCC
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 121 0.98
39 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
ATGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTC
Found at i:16452222 original size:45 final size:45
Alignment explanation
Indices: 16452158--16452282 Score: 198
Period size: 45 Copynumber: 2.8 Consensus size: 45
16452148 GCTGGTATTA
* *
16452158 TATTCGGGCCTTTGAGCCTAGCAAGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* *
16452203 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
16452248 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCC
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
16452283 AATGAAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
44 4 0.05
45 70 0.95
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:16453738 original size:58 final size:57
Alignment explanation
Indices: 16453667--16453792 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 57
16453657 ATAGAAATGG
*
16453667 TGAAAATGAAGAAATAAGAAACATTT-TGAAATGATTATGGTTTTCTCCAAAATGAA-AA
1 TGAAAATGAAGAAAT-AGAAACATTTGT-AAATGAATATGGTTTTCTCCAAAAT-AATAA
* * * *
16453725 TGAATATGGAGAAATGGAATCATTTGTAAATGAATATGGTTTTCTCCAAAATAATAA
1 TGAAAATGAAGAAATAGAAACATTTGTAAATGAATATGGTTTTCTCCAAAATAATAA
16453782 TGAAAAATGAA
1 TG-AAAATGAA
16453793 AATAATTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 2 0.03
57 36 0.62
58 20 0.34
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (57 bp):
TGAAAATGAAGAAATAGAAACATTTGTAAATGAATATGGTTTTCTCCAAAATAATAA
Found at i:16457803 original size:49 final size:49
Alignment explanation
Indices: 16457731--16457824 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
16457721 GGTGTAGTGC
* *
16457731 CTCTCCTTCCAGGTGCGTTTCCTTTCCCTTCTTACACCATCTTCTGTAA
1 CTCTCCTTCCAAGTGCATTTCCTTTCCCTTCTTACACCATCTTCTGTAA
* *
16457780 CTCTCCTTCCAAGTGCATTTCCTTTCCCTTCTTAGACTATCTTCT
1 CTCTCCTTCCAAGTGCATTTCCTTTCCCTTCTTACACCATCTTCT
16457825 ATAATATTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.13, C:0.36, G:0.09, T:0.43
Consensus pattern (49 bp):
CTCTCCTTCCAAGTGCATTTCCTTTCCCTTCTTACACCATCTTCTGTAA
Found at i:16464536 original size:40 final size:39
Alignment explanation
Indices: 16464474--16464605 Score: 138
Period size: 35 Copynumber: 3.6 Consensus size: 39
16464464 GCAAAGTGTG
*
16464474 AAATGTAGGTATGGTA--TC--ATCCATACTAAGTTGTA
1 AAATGTAGGTATGGTATTTCAAATCCATACTGAGTTGTA
* *
16464509 AAATATAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TCAAATCCATACTGAGTTGTA
* *
16464548 GAAATGTAGGTATGGCATTTC----CCATACCGAGTTGTA
1 -AAATGTAGGTATGGTATTTCAAATCCATACTGAGTTGTA
16464584 AAATGTAGGTATGGTATTTCAA
1 AAATGTAGGTATGGTATTTCAA
16464606 TGAGGAAAAC
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
35 45 0.56
36 1 0.01
38 2 0.03
39 3 0.04
40 29 0.36
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (39 bp):
AAATGTAGGTATGGTATTTCAAATCCATACTGAGTTGTA
Found at i:16471437 original size:2 final size:2
Alignment explanation
Indices: 16471432--16471464 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16471422 TATTTTTTAG
16471432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16471465 AATGTGTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16473682 original size:67 final size:66
Alignment explanation
Indices: 16473609--16473808 Score: 206
Period size: 67 Copynumber: 3.1 Consensus size: 66
16473599 ATTTATAAAA
*
16473609 TTTTAAATTAATAATTATAAAATTATATTCTAACATTAAAATGGTAAAAATTTAATTTAATTTAA
1 TTTTAAATTAATAATTATAAAATTATATT-TAACATTAAAATGATAAAAATTTAATTTAATTTAA
16473674 TT
65 TT
* *
16473676 TTTT--A--AA-AATTATAAAAATATGATTT---ATTAAAATAAT-AAAATTATAA--TAATTTA
1 TTTTAAATTAATAATTATAAAATTAT-ATTTAACATTAAAATGATAAAAATT-TAATTTAA-TT-
**
16473730 TAAAA
62 TAATT
* *
16473735 TTTTAAATTAATAATGATAAAATTATATTTTAACCTTAAAATGATAAAAATTTAATTTAATTTAA
1 TTTTAAATTAATAATTATAAAATTATA-TTTAACATTAAAATGATAAAAATTTAATTTAATTTAA
16473800 TT
65 TT
16473802 TTTTAAA
1 TTTTAAA
16473809 AATTATAAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 32
0.71 0.07 0.21
Matches are distributed among these distances:
57 3 0.03
58 8 0.08
59 19 0.18
61 1 0.01
62 14 0.13
63 8 0.08
64 15 0.14
65 1 0.01
67 26 0.25
68 8 0.08
69 3 0.03
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (66 bp):
TTTTAAATTAATAATTATAAAATTATATTTAACATTAAAATGATAAAAATTTAATTTAATTTAAT
T
Found at i:16473692 original size:8 final size:8
Alignment explanation
Indices: 16473681--16473761 Score: 51
Period size: 8 Copynumber: 10.1 Consensus size: 8
16473671 TAATTTTTTA
16473681 AAAATTAT
1 AAAATTAT
*
16473689 AAAAATAT
1 AAAATTAT
* *
16473697 -GATTTATT
1 AAAATTA-T
*
16473705 AAAATAAT
1 AAAATTAT
16473713 AAAATTAT
1 AAAATTAT
16473721 AATAATTTAT
1 AA-AA-TTAT
16473731 AAAATT-T
1 AAAATTAT
*
16473738 TAAATTA-
1 AAAATTAT
* *
16473745 ATAATGAT
1 AAAATTAT
16473753 AAAATTAT
1 AAAATTAT
16473761 A
1 A
16473762 TTTTAACCTT
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
7 13 0.25
8 27 0.51
9 7 0.13
10 6 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
AAAATTAT
Found at i:16473709 original size:59 final size:59
Alignment explanation
Indices: 16473643--16473842 Score: 215
Period size: 59 Copynumber: 3.3 Consensus size: 59
16473633 ATATTCTAAC
*
16473643 ATTAAAATGGTAAAAATTTAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTT
1 ATTAAAATGATAAAAATTTAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTT
* * ** * * *
16473702 ATTAAAATAAT-AAAATTATAATAATTTATAAAATTTTAAATTAATAATGATAAAATTAT-ATTT
1 ATTAAAATGATAAAAATT-TAAT--TTAATTTAATTTT---TTAAAAATTATAAAAATATGA-TT
16473765 T
59 T
16473766 AACCTTAAAATGATAAAAATTTAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTT
1 -A--TTAAAATGATAAAAATTTAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTT
*
16473828 ATTAAAATAATAAAA
1 ATTAAAATGATAAAA
16473843 TTATATTTTA
Statistics
Matches: 113, Mismatches: 16, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
58 6 0.05
59 26 0.23
61 11 0.10
62 19 0.17
63 2 0.02
64 19 0.17
65 11 0.10
67 13 0.12
68 6 0.05
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (59 bp):
ATTAAAATGATAAAAATTTAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTT
Found at i:16473741 original size:26 final size:27
Alignment explanation
Indices: 16473698--16473749 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
16473688 TAAAAATATG
16473698 ATTTATTAAAATAATAAAATT-ATAATA
1 ATTTATTAAAATAAT-AAATTAATAATA
**
16473725 ATTTA-TAAAATTTTAAATTAATAAT
1 ATTTATTAAAATAATAAATTAATAAT
16473750 GATAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTATTAAAATAATAAATTAATAATA
Found at i:16473767 original size:27 final size:27
Alignment explanation
Indices: 16473734--16473800 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
16473724 AATTTATAAA
16473734 ATTTTAAATTAATAATGAT-AAAATTAT
1 ATTTTAAATTAATAATGATAAAAATT-T
*
16473761 ATTTTAACCTTAA-AATGATAAAAATTT
1 ATTTTAA-ATTAATAATGATAAAAATTT
* *
16473788 AATTTAATTTAAT
1 ATTTTAAATTAAT
16473801 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.12
27 20 0.59
28 10 0.29
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (27 bp):
ATTTTAAATTAATAATGATAAAAATTT
Found at i:16473803 original size:126 final size:126
Alignment explanation
Indices: 16473596--16473847 Score: 468
Period size: 126 Copynumber: 2.0 Consensus size: 126
16473586 TAAGTCCTTC
* *
16473596 ATAATTTATAAAATTTTAAATTAATAATTATAAAATTATATTCTAACATTAAAATGGTAAAAATT
1 ATAATTTATAAAATTTTAAATTAATAATGATAAAATTATATTCTAACATTAAAATGATAAAAATT
16473661 TAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTTATTAAAATAATAAAATTATA
66 TAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTTATTAAAATAATAAAATTATA
* *
16473722 ATAATTTATAAAATTTTAAATTAATAATGATAAAATTATATTTTAACCTTAAAATGATAAAAATT
1 ATAATTTATAAAATTTTAAATTAATAATGATAAAATTATATTCTAACATTAAAATGATAAAAATT
16473787 TAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTTATTAAAATAATAAAATTATA
66 TAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTTATTAAAATAATAAAATTATA
16473848 TTTTATTATT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 122 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (126 bp):
ATAATTTATAAAATTTTAAATTAATAATGATAAAATTATATTCTAACATTAAAATGATAAAAATT
TAATTTAATTTAATTTTTTAAAAATTATAAAAATATGATTTATTAAAATAATAAAATTATA
Found at i:16473840 original size:24 final size:24
Alignment explanation
Indices: 16473799--16473869 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
16473789 ATTTAATTTA
*
16473799 ATTTT-TTAAAAATTATAAAAATAT
1 ATTTTATT-AAAATAATAAAAATAT
*
16473823 GA-TTTATTAAAATAATAAAATTAT
1 -ATTTTATTAAAATAATAAAAATAT
** *
16473847 ATTTTATTATTATAAAAAAAATA
1 ATTTTATTAAAATAATAAAAATA
16473870 CAATTTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 34 0.89
25 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (24 bp):
ATTTTATTAAAATAATAAAAATAT
Found at i:16476345 original size:27 final size:27
Alignment explanation
Indices: 16476280--16476365 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
16476270 AGCTCTATTC
* * *
16476280 TATATACAT-TATTGTTTTCATATTATTT
1 TATATAAATATATTCTTTT-ATATT-TAT
*
16476308 TATGTAAATATATTCTTTTATATTTAT
1 TATATAAATATATTCTTTTATATTTAT
* *
16476335 TATATATATATATTCTTTTAAATTTACT
1 TATATAAATATATTCTTTTATATTTA-T
16476363 TAT
1 TAT
16476366 GCATAATTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
27 25 0.51
28 16 0.33
29 8 0.16
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (27 bp):
TATATAAATATATTCTTTTATATTTAT
Found at i:16478683 original size:22 final size:25
Alignment explanation
Indices: 16478633--16478686 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 25
16478623 ATTAATATTT
16478633 TAAAATTCAAAATATATAAACTTTTAA
1 TAAAATTCAAAATATATAAA--TTTAA
16478660 TAAAATT-AAAATATAT-AA-TTAA
1 TAAAATTCAAAATATATAAATTTAA
16478682 TAAAA
1 TAAAA
16478687 ATATAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 9 0.33
25 2 0.07
26 9 0.33
27 7 0.26
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAAATTCAAAATATATAAATTTAA
Found at i:16478891 original size:19 final size:20
Alignment explanation
Indices: 16478846--16478892 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
16478836 TAATATATTA
*
16478846 CATATAT-TTATATATTTTT
1 CATATATATTATAGATTTTT
*
16478865 CA-AAATATTATAGATTTTT
1 CATATATATTATAGATTTTT
16478884 -ATATATATT
1 CATATATATT
16478893 TAATTGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
CATATATATTATAGATTTTT
Found at i:16487246 original size:19 final size:20
Alignment explanation
Indices: 16487200--16487248 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16487190 CAGAAATTCT
*
16487200 AAAATT-TATATTTTTAAAA
1 AAAATTATAAATTTTTAAAA
*
16487219 AAAATTATAAATTTTTTAAA
1 AAAATTATAAATTTTTAAAA
16487239 AAAA-TATAAA
1 AAAATTATAAA
16487249 AATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATTATAAATTTTTAAAA
Found at i:16492344 original size:2 final size:2
Alignment explanation
Indices: 16492337--16492367 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16492327 ATTCATTTGG
16492337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16492368 CTAAGTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16493687 original size:26 final size:26
Alignment explanation
Indices: 16493624--16493689 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
16493614 TATCATTTAT
* *
16493624 TATTATATTTAA-AAATTTTAAAATA
1 TATTATATATAATTAATTTTAAAATA
*
16493649 TATTATGTATAATTAATTTTACAAATA
1 TATTATATATAATTAATTTTA-AAATA
16493676 -ATT-TATACTAATTA
1 TATTATATA-TAATTA
16493690 CTCAAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 13 0.38
26 16 0.47
27 5 0.15
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
TATTATATATAATTAATTTTAAAATA
Found at i:16497306 original size:3 final size:3
Alignment explanation
Indices: 16497288--16497439 Score: 111
Period size: 3 Copynumber: 51.0 Consensus size: 3
16497278 AGGGGGAGAA
* *
16497288 TAT TAT TTT TAA TAT TAT TAT TAT TAT ATAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * *
16497333 TA- TATT TAT T-T TAT TAC TGT TAC TAT TAT T-T TA- TAT ATATT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TAT
* * * * *
16497377 TAC CAT TATT TATT TAT TAT TAT TAT TAG TAA CA- TAT TAT TAT TAT
1 TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16497423 TAT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
16497440 CATGGTACTA
Statistics
Matches: 119, Mismatches: 18, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
2 13 0.11
3 89 0.75
4 16 0.13
5 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:16497331 original size:14 final size:14
Alignment explanation
Indices: 16497287--16497439 Score: 99
Period size: 14 Copynumber: 11.1 Consensus size: 14
16497277 GAGGGGGAGA
* *
16497287 ATATTATTTTTAAT
1 ATATTATTATTATT
16497301 ATTATTATTATTA-T
1 A-TATTATTATTATT
16497315 ATATTATTATTATT
1 ATATTATTATTATT
16497329 ATATTA-TA-T-TT
1 ATATTATTATTATT
* * *
16497340 ATTTTATTACTGTT
1 ATATTATTATTATT
16497354 ACTATTATT-TTATAT
1 A-TATTATTATTAT-T
**
16497369 ATATTTATTACCATT
1 ATA-TTATTATTATT
16497384 AT-TTA-T-TTATT
1 ATATTATTATTATT
* **
16497395 ATTATTATTAGTAAC
1 A-TATTATTATTATT
16497410 ATATTATTATTATT
1 ATATTATTATTATT
16497424 ATTATT-TTATTATT
1 A-TATTATTATTATT
16497438 AT
1 AT
16497440 CATGGTACTA
Statistics
Matches: 110, Mismatches: 15, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
11 11 0.10
12 5 0.05
13 21 0.19
14 38 0.35
15 33 0.30
16 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:16497361 original size:20 final size:18
Alignment explanation
Indices: 16497300--16497437 Score: 86
Period size: 20 Copynumber: 7.2 Consensus size: 18
16497290 TTATTTTTAA
16497300 TATTATTATTAT-TATATAT
1 TATT-TTATTATAT-TATAT
16497319 TATTATTATTATATTATATT
1 TATT-TTATTATATTATA-T
*
16497339 TATTTTATTACTGTTACTAT
1 TATTTTATTA-TATTA-TAT
16497359 TATTTTATATATATT-TAT
1 TATTTTAT-TATATTATAT
**
16497377 TACCATTATT-TATT-TAT
1 TA-TTTTATTATATTATAT
**
16497394 TATTATTATTAGTAACATAT
1 TATT-TTATTA-TATTATAT
*
16497414 TATTATTATTATTATTTTAT
1 TATT-TTATTA-TATTATAT
16497434 TATT
1 TATT
16497438 ATCATGGTAC
Statistics
Matches: 97, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
17 14 0.14
18 6 0.06
19 28 0.29
20 45 0.46
21 4 0.04
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (18 bp):
TATTTTATTATATTATAT
Found at i:16497397 original size:24 final size:23
Alignment explanation
Indices: 16497290--16497401 Score: 68
Period size: 25 Copynumber: 4.7 Consensus size: 23
16497280 GGGGAGAATA
* **
16497290 TTATTT-TTAATATTATTATTAT
1 TTATTTATTATTATTACCATTAT
*
16497312 TATATATTATTATTATTA-TATTATAT
1 T-TAT-TTATTATTATTACCA-T-TAT
* * *
16497338 TTATTTTATTACTGTTACTATTAT
1 TTA-TTTATTATTATTACCATTAT
*
16497362 TT-TATATATATTTATTACCATTAT
1 TTATTTAT-TA-TTATTACCATTAT
16497386 TTATTTATTATTATTA
1 TTATTTATTATTATTA
16497402 TTAGTAACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
22 5 0.07
23 11 0.15
24 23 0.32
25 26 0.36
26 7 0.10
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (23 bp):
TTATTTATTATTATTACCATTAT
Found at i:16501468 original size:65 final size:65
Alignment explanation
Indices: 16501395--16501525 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
16501385 CTCCACAACT
* *
16501395 CTTGAGCCGCTCTACAATCCCAAAGAATATGAATAACATCCTCTCGCACACAACCACAAAGCCGA
1 CTTGAGCCGCTCTACAACCCCAAAGAATATGAATAACATCCTCTCCCACACAACCACAAAGCCGA
16501460 CTTGAGCCGCTCTACAACCCCAAAGAATATGAATAACATCCTCTCCCACACAACCACAAAGCCGA
1 CTTGAGCCGCTCTACAACCCCAAAGAATATGAATAACATCCTCTCCCACACAACCACAAAGCCGA
16501525 C
1 C
16501526 ATGCTTCCGT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.37, C:0.36, G:0.11, T:0.16
Consensus pattern (65 bp):
CTTGAGCCGCTCTACAACCCCAAAGAATATGAATAACATCCTCTCCCACACAACCACAAAGCCGA
Found at i:16509185 original size:2 final size:2
Alignment explanation
Indices: 16509178--16509209 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16509168 ACATATACAA
16509178 AT AT 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 AT AT
16509210 TTATGATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16509185 original size:12 final size:12
Alignment explanation
Indices: 16509165--16509209 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
16509155 CCACAACTAT
* *
16509165 AATACATATACA
1 AATATATATATA
16509177 AATATATATATA
1 AATATATATATA
*
16509189 TATATATATATA
1 AATATATATATA
*
16509201 TATATATAT
1 AATATATAT
16509210 TTATGATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (12 bp):
AATATATATATA
Found at i:16509532 original size:17 final size:17
Alignment explanation
Indices: 16509503--16509535 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16509493 ATTAGTTGTT
16509503 TTGTTGTTGTTTCATTA
1 TTGTTGTTGTTTCATTA
16509520 TTGTT-TTGCTTTCATT
1 TTGTTGTTG-TTTCATT
16509536 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.09, C:0.09, G:0.15, T:0.67
Consensus pattern (17 bp):
TTGTTGTTGTTTCATTA
Found at i:16509541 original size:22 final size:25
Alignment explanation
Indices: 16509516--16509572 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 25
16509506 TTGTTGTTTC
16509516 ATTATTGTTTTGCT-TT-CATT-TT
1 ATTATTGTTTTGCTATTACATTATT
* * *
16509538 ATTATTATATTGCTATTATATTATT
1 ATTATTGTTTTGCTATTACATTATT
16509563 ATTATTGTTT
1 ATTATTGTTT
16509573 AGATATTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 12 0.44
23 2 0.07
24 3 0.11
25 10 0.37
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (25 bp):
ATTATTGTTTTGCTATTACATTATT
Found at i:16512947 original size:15 final size:15
Alignment explanation
Indices: 16512903--16512948 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
16512893 AAACCTAAAT
16512903 AAAATTACAAACCCA
1 AAAATTACAAACCCA
*
16512918 AAATCTTACAAACCCA
1 AAA-ATTACAAACCCA
*
16512934 AAAATTACAGACCCA
1 AAAATTACAAACCCA
16512949 GTAGCCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.54, C:0.28, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAATTACAAACCCA
Found at i:16514777 original size:17 final size:18
Alignment explanation
Indices: 16514727--16514780 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
16514717 AGGCATCTAA
16514727 CATCTTTATTTTTATTTTAT
1 CATCTTTA--TTTATTTTAT
* * *
16514747 TATTTTTATGTATTTTAT
1 CATCTTTATTTATTTTAT
16514765 CA-CTTTATTTATTTTA
1 CATCTTTATTTATTTTA
16514781 CACCACAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 12 0.43
18 10 0.36
20 6 0.21
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (18 bp):
CATCTTTATTTATTTTAT
Found at i:16517782 original size:49 final size:49
Alignment explanation
Indices: 16517644--16517782 Score: 154
Period size: 49 Copynumber: 2.8 Consensus size: 49
16517634 CTTATTGTGT
* * ** *
16517644 GTCAGTGAAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAAA
* * * * * *
16517693 G-CAAGTGTAAGATCTATCTGGGACACGGCATCGGCCTTGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAAA
*
16517742 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGAT
16517783 GTACTAGCTA
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 70 0.97
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAAA
Found at i:16519519 original size:46 final size:44
Alignment explanation
Indices: 16519415--16519522 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16519405 TGTCTTTGAC
** * * *
16519415 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16519459 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16519505 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16519523 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16526905 original size:46 final size:44
Alignment explanation
Indices: 16526801--16526908 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16526791 TGTCTTTGAC
** * * *
16526801 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16526845 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16526891 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16526909 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16537184 original size:94 final size:94
Alignment explanation
Indices: 16537032--16537246 Score: 249
Period size: 94 Copynumber: 2.3 Consensus size: 94
16537022 TGATATGGGT
* * *
16537032 GCTAGTGTAAGACATGTCTGGGACATGCATTGACCACATAATGAGAGCCAGTGTAAGACATGTCT
1 GCTAGTATAAGACATGTCTGGGACATGCATCGACCACATAACGAGAGCCAGTGTAAGACATGTCT
* * *
16537097 GGGACATGGATCGGTCT-GAAGATATACAA
66 GGGACATGCATCAGCCTCG-AGATATACAA
* * *
16537126 G-TCAGTATAAGACATGTCCGGGACATGCATCGA-CA-TTGAGACGAGAGCTAGTGTAAGACATG
1 GCT-AGTATAAGACATGTCTGGGACATGCATCGACCACAT-A-ACGAGAGCCAGTGTAAGACATG
*
16537188 TCTGGGGCATGCATCAGCCTCGAGATATACAA
63 TCTGGGACATGCATCAGCCTCGAGATATACAA
* * *
16537220 GCTTGTGTAAGACCTGTCTGGGACATG
1 GCTAGTATAAGACATGTCTGGGACATG
16537247 GTGTCAGCTT
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
92 1 0.01
93 4 0.04
94 95 0.93
95 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
GCTAGTATAAGACATGTCTGGGACATGCATCGACCACATAACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCTCGAGATATACAA
Found at i:16537338 original size:49 final size:49
Alignment explanation
Indices: 16537035--16537438 Score: 165
Period size: 48 Copynumber: 8.5 Consensus size: 49
16537025 TATGGGTGCT
* * *
16537035 AGTGTAAGACATGTCTGGGACAT-GCATTGACCAC--ATA-ATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CACTGATAGATGAAAGCC
* ** * *
16537081 AGTGTAAGACATGTCTGGGACATGG-ATCG-GTCTGA-AGATATACAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGAT-GA-AAGCC
* * * * * * *
16537129 AGTATAAGACATGTCCGGGACAT-GCATCGACATTG--AGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAAAGCC
* * * * *
16537175 AGTGTAAGACATGTCTGGGGCAT-GCATC-AGC-CTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CACT-GATAGATGA-AAGCC
* * * * * *
16537223 TGTGTAAGACCTGTCTGGGACATGG--T-GTCAGCTTATTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACA-CTGATAGATGAAAGCC
* * *
16537267 AGTGTAAGACCTAT-AGTGGACATGGCATCGACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTG-GGACATGGCATCGACACTGATAGATGAAAGCC
* * * * * *
16537316 AGTGTAGGACCTGTCTGGGACATGGCAACTA-GCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACT-GATAGATGAAAGCC
* * ** *
16537365 AATGTAAGACTTGTCTGGGACATGGCATCGACTTTGAT-G-T-ACTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGA-AAGCC
*
16537412 AGTATAAGACCTTGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
16537439 GTCGGCATCT
Statistics
Matches: 264, Mismatches: 64, Indels: 58
0.68 0.17 0.15
Matches are distributed among these distances:
43 1 0.00
44 22 0.08
45 3 0.01
46 67 0.25
47 24 0.09
48 76 0.29
49 69 0.26
50 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAAAGCC
Found at i:16538614 original size:41 final size:41
Alignment explanation
Indices: 16538554--16538632 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
16538544 AGGTTTTTAC
*
16538554 ACACAGGCTGTGACACGGGCGTGT-CATGGCCGTGTGAGGG
1 ACACAGGCTATGACACGGGCGTGTGCATGGCCGTGTGAGGG
*
16538594 ACACAGGCTATAGACACGGGCGTGTGCCTGGCCGTGTGA
1 ACACAGGCTAT-GACACGGGCGTGTGCATGGCCGTGTGA
16538633 AAACCCCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 10 0.29
41 13 0.37
42 12 0.34
ACGTcount: A:0.19, C:0.24, G:0.39, T:0.18
Consensus pattern (41 bp):
ACACAGGCTATGACACGGGCGTGTGCATGGCCGTGTGAGGG
Found at i:16541143 original size:19 final size:20
Alignment explanation
Indices: 16541119--16541174 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
16541109 AATGCCTCTT
16541119 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTTCATGCA
*
16541138 TTTGCATTACATTGCAT-CA
1 TTTGCATTACATTTCATGCA
* *
16541157 TATGCATTAAATTTCATG
1 TTTGCATTACATTTCATG
16541175 AAAAGACCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.45
Consensus pattern (20 bp):
TTTGCATTACATTTCATGCA
Found at i:16549117 original size:44 final size:44
Alignment explanation
Indices: 16549054--16549441 Score: 224
Period size: 44 Copynumber: 8.8 Consensus size: 44
16549044 ATCGTGGCAA
* *
16549054 ATCTTATCTCTCTAAAGTTGCAGTGGAACAGATTGAAGTTATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAG
* **
16549098 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG--ATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAG
* * ** *
16549140 CAAACATTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAG-TA-ACG
1 --ATC-TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATA-G
* *
16549186 AGTCTTATCTCCTTGAAGTTGCAGT-GAAGCAGACTGAAGATTGA-A-
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAG-TT-ATAG
* * ** * * *
16549231 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAG
* * * * * *
16549275 ACCTTATCCCCCTGAAGTTGCAGTGGGATAGGTTGAAGTTA-CG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAG
* * ** *
16549318 AGTCTTATCTCCCTGAAGGTGCAGCGGGGCA-AGTTGAAGTTACA-
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TTGAAGTTATAG
* * * *
16549362 AGTCTTATCTCCCTGAATTTACAGTGGAGA-AGACTGAAGATAGT-G
1 A-TCTTATCTCCCTGAAGTTGCAGTGGA-ACAGATTGAAGTTA-TAG
* * * *
16549407 AATCTTATTTCTCTGAAGTGGCAGTGAAACAGATT
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT
16549442 AAAGCTACAA
Statistics
Matches: 266, Mismatches: 56, Indels: 43
0.73 0.15 0.12
Matches are distributed among these distances:
42 5 0.02
43 4 0.02
44 189 0.71
45 62 0.23
46 4 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAG
Found at i:16549356 original size:132 final size:132
Alignment explanation
Indices: 16549055--16549378 Score: 350
Period size: 132 Copynumber: 2.4 Consensus size: 132
16549045 TCGTGGCAAA
* * * * * * *
16549055 TCTTATCTCTCTAAAGTTGCAGTGGAA-CAGATTGAAGTTATAGATCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGGTGCAG-CGAAGCAGACTGAAGTTACA-ATCTTATCTCCCTGAAGTTGC
* * * *
16549119 AGTGGAGTAGATTGAAGATAGCAAACATTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGTAA
64 AGTAGAGTAGATTAAAGATAGCAAACATTATCCCCCTAAAGTTGCAGTGGGACAGGTTGAAGTAA
16549184 CGAG
129 CGAG
* * * *
16549188 TCTTATCTCCTTGAAGTTGCAGTGAAGCAGACTGAAGATTGA-AATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGGTGCAGCGAAGCAGACTGAAG-TT-ACAATCTTATCTCCCTGAAGTTGC
* * * * * *
16549252 AGTAGAGTAGATTAAAGCTA-TAAACCTTATCCCCCTGAAGTTGCAGTGGGATAGGTTGAAGTTA
64 AGTAGAGTAGATTAAAGATAGCAAACATTATCCCCCTAAAGTTGCAGTGGGACAGGTTGAAGTAA
16549316 CGAG
129 CGAG
** *
16549320 TCTTATCTCCCTGAAGGTGCAGCGGGGCA-AGTTGAAGTTACAAGTCTTATCTCCCTGAA
1 TCTTATCTCCCTGAAGGTGCAGCGAAGCAGA-CTGAAGTTACAA-TCTTATCTCCCTGAA
16549379 TTTACAGTGG
Statistics
Matches: 161, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
130 1 0.01
131 5 0.03
132 87 0.54
133 64 0.40
134 3 0.02
135 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
TCTTATCTCCCTGAAGGTGCAGCGAAGCAGACTGAAGTTACAATCTTATCTCCCTGAAGTTGCAG
TAGAGTAGATTAAAGATAGCAAACATTATCCCCCTAAAGTTGCAGTGGGACAGGTTGAAGTAACG
AG
Found at i:16549400 original size:88 final size:88
Alignment explanation
Indices: 16549052--16549432 Score: 292
Period size: 88 Copynumber: 4.3 Consensus size: 88
16549042 TCATCGTGGC
* * ** * *
16549052 AAATCTTATCTCTCTAAAGTTGCAGTGGAAC-AGATTGAAGTTA-TAGATCTTATCTCCCTAAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGGGCAAG-TTGAAGTTACAAG-TCTTATCTCCCTGAAG
* * *
16549115 TTGCAGTGGAGTAGATTGAAGATAG
64 TTGCAGTGGAGAAGACTGAAGATTG
* * * * *
16549140 CAAA-CATTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGTAACGAGTCTTATCTCCTTGAAG
1 -AAATC-TTATCTCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAG
* *
16549204 TTGCAGTGAAGCAGACTGAAGATTG
64 TTGCAGTGGAGAAGACTGAAGATTG
* * * * * * * ** *
16549229 AAATCTTATCTCTCTGAAGTTGCAGTAGAG-TAGATTAAAGCTATAAACCTTATCCCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGGGCAAG-TTGAAGTTACAAGTCTTATCTCCCTGAAGT
**
16549293 TGCAGTGG-GATAGGTTGAAG-TT-
65 TGCAGTGGAGA-AGACTGAAGATTG
* * * *
16549315 ACGAGTCTTATCTCCCTGAAGGTGCAGCGGGGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAT
1 A--AATCTTATCTCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAG
*
16549380 TTACAGTGGAGAAGACTGAAGATAGTG
64 TTGCAGTGGAGAAGACTGAAGAT--TG
* * *
16549407 -AATCTTATTTCTCTGAAGTGGCAGTG
1 AAATCTTATCTCCCTGAAGTTGCAGTG
16549433 AAACAGATTA
Statistics
Matches: 224, Mismatches: 54, Indels: 28
0.73 0.18 0.09
Matches are distributed among these distances:
86 1 0.00
87 4 0.02
88 120 0.54
89 95 0.42
90 3 0.01
91 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAGTT
GCAGTGGAGAAGACTGAAGATTG
Found at i:16549413 original size:177 final size:176
Alignment explanation
Indices: 16549052--16549448 Score: 469
Period size: 177 Copynumber: 2.2 Consensus size: 176
16549042 TCATCGTGGC
* * * * * *
16549052 AAATCTTATCTCTCTAAAGTTGCAGTGGAACAGATTGAAGTTATAGATCTTATCTCCCTAAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGT-GAACAGATTAAAGCTATAAACCTTATCCCCCTAAAGTT
* * *
16549117 GCAGTGGAGTAGATTGAAGATAGCAAACATTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGT
65 GCAGTGGAGTAGATTGAAGATAGCAAACATTATCTCCCTAAAGGTGCAGCGGGGCAAGTTGAAGT
* * * *
16549182 AACGAGTCTTATCTCCTTGAAGTTGCAGTGAAGCAGACTGAAGATTG
130 AACAAGTCTTATCTCCCTGAAGTTACAGTGAAGAAGACTGAAGATTG
** *
16549229 AAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCCCCCTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGT-GAACAGATTAAAGCTATAAACCTTATCCCCCTAAAGTT
* * ** *
16549294 GCAGTGG-GATAGGTTGAAGTTA-CGAGTC-TTATCTCCCTGAAGGTGCAGCGGGGCAAGTTGAA
65 GCAGTGGAG-TAGATTGAAGATAGC-AAACATTATCTCCCTAAAGGTGCAGCGGGGCAAGTTGAA
* * *
16549356 GTTACAAGTCTTATCTCCCTGAATTTACAGTGGAGAAGACTGAAGATAGTG
128 GTAACAAGTCTTATCTCCCTGAAGTTACAGTGAAGAAGACTGAAGAT--TG
* *
16549407 -AATCTTATTTCTCTGAAGTGGCAGTGAAACAGATTAAAGCTA
1 AAATCTTATCTCTCTGAAGTTGCAGTG-AACAGATTAAAGCTA
16549449 CAAATTACAA
Statistics
Matches: 186, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
176 73 0.39
177 111 0.60
178 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (176 bp):
AAATCTTATCTCTCTGAAGTTGCAGTGAACAGATTAAAGCTATAAACCTTATCCCCCTAAAGTTG
CAGTGGAGTAGATTGAAGATAGCAAACATTATCTCCCTAAAGGTGCAGCGGGGCAAGTTGAAGTA
ACAAGTCTTATCTCCCTGAAGTTACAGTGAAGAAGACTGAAGATTG
Found at i:16555663 original size:39 final size:39
Alignment explanation
Indices: 16555578--16555653 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
16555568 CCTGGAAAAG
16555578 AAATAAAA-AAAAACAGAATTAAAAGATTTGATTTGGAA
1 AAATAAAATAAAAACAGAATTAAAAGATTTGATTTGGAA
*
16555616 AAATAAAATAAAAACAGAATTAAAAGTTTTGA-TTGGAA
1 AAATAAAATAAAAACAGAATTAAAAGATTTGATTTGGAA
16555654 TTTTGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 14 0.39
39 22 0.61
ACGTcount: A:0.59, C:0.03, G:0.13, T:0.25
Consensus pattern (39 bp):
AAATAAAATAAAAACAGAATTAAAAGATTTGATTTGGAA
Found at i:16558497 original size:8 final size:8
Alignment explanation
Indices: 16558455--16558479 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16558445 AGAGAGACTA
16558455 AATAAAAT
1 AATAAAAT
16558463 AATAAAAT
1 AATAAAAT
16558471 AATAAAAT
1 AATAAAAT
16558479 A
1 A
16558480 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:16558503 original size:29 final size:31
Alignment explanation
Indices: 16558452--16558524 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
16558442 GAGAGAGAGA
*
16558452 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
16558481 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
16558512 CTAATT-AAATAAT
1 CTAATTAAAATAAT
16558525 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:16558529 original size:29 final size:30
Alignment explanation
Indices: 16558459--16558530 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
16558449 AGACTAAATA
*
16558459 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
16558487 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
16558518 AAATAATTATAAA
1 AAATAATTATAAA
16558531 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:16559780 original size:96 final size:96
Alignment explanation
Indices: 16559643--16559820 Score: 284
Period size: 96 Copynumber: 1.9 Consensus size: 96
16559633 TTTTTTTTAG
* * *
16559643 TTTTGTTTAAGAATATATTGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCG
1 TTTTGTTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCA
*
16559708 GTTACTCAGCCCAACACACTCCTAATTCTTA
66 GTTACTCAGCCAAACACACTCCTAATTCTTA
* * * *
16559739 TTTTTTTTAATAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCACCCCA
1 TTTTGTTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCA
16559804 GTTACTCAGCCAAACAC
66 GTTACTCAGCCAAACAC
16559821 GTTCTTAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (96 bp):
TTTTGTTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCA
GTTACTCAGCCAAACACACTCCTAATTCTTA
Found at i:16560623 original size:37 final size:37
Alignment explanation
Indices: 16560568--16560643 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
16560558 ATCAACATTC
* *
16560568 AAAAATAAAATAGTAAATAATAAAATAAAGTAAAATA
1 AAAAATAAAATAGAAAATAATAAAATAAAATAAAATA
* *
16560605 AAAAATAAAA-AGAAAAATAATAAATTAAAATAAATTA
1 AAAAATAAAATAG-AAAATAATAAAATAAAATAAAATA
16560642 AA
1 AA
16560644 GTTAAGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 2 0.06
37 32 0.94
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (37 bp):
AAAAATAAAATAGAAAATAATAAAATAAAATAAAATA
Found at i:16560627 original size:32 final size:36
Alignment explanation
Indices: 16560568--16560638 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 36
16560558 ATCAACATTC
16560568 AAAAATAAAATAGTAAATAATAAAATAAAGTAAAATA
1 AAAAATAAAATAGTAAATAAT-AAATAAAGTAAAATA
*
16560605 AAAAATAAAA-AG-AAA-AAT-AATAAATTAAAATA
1 AAAAATAAAATAGTAAATAATAAATAAAGTAAAATA
16560637 AA
1 AA
16560639 TTAAAGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 15 0.45
34 3 0.09
35 3 0.09
36 2 0.06
37 10 0.30
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (36 bp):
AAAAATAAAATAGTAAATAATAAATAAAGTAAAATA
Found at i:16560665 original size:10 final size:10
Alignment explanation
Indices: 16560570--16560665 Score: 50
Period size: 10 Copynumber: 9.0 Consensus size: 10
16560560 CAACATTCAA
16560570 AAATAAAATAGT
1 AAATAAAA-A-T
16560582 AAATAATAAAAT
1 AAAT-A-AAAAT
*
16560594 AAAGTAAAATAAA
1 AAA-T-AAA-AAT
*
16560607 AAATAAAAAG
1 AAATAAAAAT
*
16560617 AAA-AATAAT
1 AAATAAAAAT
*
16560626 AAATTAAAAT
1 AAATAAAAAT
* *
16560636 AAATTAAAGT
1 AAATAAAAAT
* *
16560646 TAAGAAAAAT
1 AAATAAAAAT
16560656 AAATAAAAAT
1 AAATAAAAAT
16560666 TGGGTTGCCT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
9 7 0.11
10 32 0.48
11 3 0.05
12 11 0.17
13 10 0.15
14 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:16572222 original size:43 final size:43
Alignment explanation
Indices: 16572173--16572255 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
16572163 GATCTATGTG
16572173 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAA
*
16572216 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
16572256 TATACATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAA
Found at i:16572560 original size:25 final size:25
Alignment explanation
Indices: 16572532--16572582 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16572522 GTTTGAATGA
16572532 TGAATAATATTTATGGTTATGTTAT
1 TGAATAATATTTATGGTTATGTTAT
16572557 TGAATAATATTTATGGTTATGTTAT
1 TGAATAATATTTATGGTTATGTTAT
16572582 T
1 T
16572583 ATGTCTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (25 bp):
TGAATAATATTTATGGTTATGTTAT
Found at i:16575924 original size:46 final size:46
Alignment explanation
Indices: 16575872--16576323 Score: 636
Period size: 46 Copynumber: 9.8 Consensus size: 46
16575862 AGTGTGCTCT
*
16575872 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16575918 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16575964 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16576010 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16576056 GTCATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16576102 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
16576148 GTGATACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
16576194 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *** **
16576240 ATAACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
16576287 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
16576324 TATGACATCA
Statistics
Matches: 375, Mismatches: 30, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
46 335 0.89
47 40 0.11
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16589525 original size:27 final size:27
Alignment explanation
Indices: 16589477--16589635 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
16589467 GCGAGGCTGC
* *
16589477 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
16589504 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
16589530 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
16589557 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
16589584 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
16589611 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
16589636 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:16589570 original size:54 final size:54
Alignment explanation
Indices: 16589495--16589635 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
16589485 GTGACGAAGT
*
16589495 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
16589549 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
16589603 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
16589636 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:16591275 original size:26 final size:26
Alignment explanation
Indices: 16591244--16591351 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16591234 TGAAATGCCC
*
16591244 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16591270 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16591296 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16591322 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16591348 ATCA
1 ATCA
16591352 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16596592 original size:27 final size:26
Alignment explanation
Indices: 16596544--16596621 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 26
16596534 GCGAGGCTGC
* *
16596544 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
16596571 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
16596597 CAGATATATGTGGCAGAGCCACCAG
1 CAGATAT-TGTGGCAGAGCCACCAG
16596622 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
26 8 0.17
27 38 0.81
28 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:16598266 original size:26 final size:26
Alignment explanation
Indices: 16598235--16598341 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
16598225 TGAAATGCCC
*
16598235 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16598261 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
16598286 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16598312 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16598338 ATCA
1 ATCA
16598342 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
25 24 0.33
26 49 0.67
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16598305 original size:51 final size:52
Alignment explanation
Indices: 16598235--16598341 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
16598225 TGAAATGCCC
*
16598235 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
16598286 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
16598338 ATCA
1 ATCA
16598342 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 28 0.54
52 24 0.46
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:16601808 original size:20 final size:21
Alignment explanation
Indices: 16601761--16601808 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
16601751 CGTACATGAG
16601761 AGAAACAAAAACAAAGAAAGAA
1 AGAAA-AAAAACAAAGAAAGAA
* *
16601783 A-AAAAAAAAAAAAGAAAGGA
1 AGAAAAAAAACAAAGAAAGAA
16601803 AGAAAA
1 AGAAAA
16601809 GTGTTCATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 15 0.65
21 7 0.30
22 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAACAAAGAAAGAA
Found at i:16602252 original size:40 final size:40
Alignment explanation
Indices: 16602193--16602299 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
16602183 CAATTGAATG
* * * *
16602193 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
16602233 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
16602273 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
16602300 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:16602319 original size:40 final size:39
Alignment explanation
Indices: 16602234--16602360 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
16602224 CTGGAAATTA
* * *
16602234 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
16602272 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
16602314 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
16602354 TATCCGG
1 TATCCGG
16602361 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:16609454 original size:40 final size:40
Alignment explanation
Indices: 16609395--16609501 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
16609385 CAATTGAATG
* * * *
16609395 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
16609435 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
16609475 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
16609502 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:16609521 original size:40 final size:39
Alignment explanation
Indices: 16609436--16609562 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
16609426 CTGGAAATTA
* * *
16609436 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
16609474 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
16609516 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
16609556 TATCCGG
1 TATCCGG
16609563 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:16612464 original size:13 final size:13
Alignment explanation
Indices: 16612446--16612478 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
16612436 TGGACCTCCT
16612446 CACACGGGCAGAC
1 CACACGGGCAGAC
16612459 CACACGGGCAGAC
1 CACACGGGCAGAC
*
16612472 CAAACGG
1 CACACGG
16612479 CCGTGTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.36, G:0.30, T:0.00
Consensus pattern (13 bp):
CACACGGGCAGAC
Found at i:16629644 original size:2 final size:2
Alignment explanation
Indices: 16629637--16629674 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
16629627 ATATAAGCGC
*
16629637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16629675 GAGTTCAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:16630928 original size:44 final size:45
Alignment explanation
Indices: 16630810--16630929 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
16630800 AATGCTGATG
* *
16630810 TCCCAGACATGGTCTTAC-TCG-TAACTACATATATCAATGCCAACA
1 TCCCAGACGTGGTCTTACAT-GAAAAC-ACATATATCAATGCCAACA
* * *
16630855 TCCCAGACGTGGTCTTACATGAAAGCACATATATCGATGCCAACG
1 TCCCAGACGTGGTCTTACATGAAAACACATATATCAATGCCAACA
*
16630900 TCCTAGA-GTGGTCTTACATGAAAACACATA
1 TCCCAGACGTGGTCTTACATGAAAACACATA
16630930 GCATAGTCCT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 22 0.33
45 41 0.62
46 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (45 bp):
TCCCAGACGTGGTCTTACATGAAAACACATATATCAATGCCAACA
Found at i:16635839 original size:16 final size:16
Alignment explanation
Indices: 16635818--16635849 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16635808 AGGGACAATA
*
16635818 TGATTGATTATGAATG
1 TGATTGATTATAAATG
16635834 TGATTGATTATAAATG
1 TGATTGATTATAAATG
16635850 ACTTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
TGATTGATTATAAATG
Found at i:16652690 original size:99 final size:95
Alignment explanation
Indices: 16652506--16652701 Score: 329
Period size: 99 Copynumber: 2.0 Consensus size: 95
16652496 GTACTTTTAG
*
16652506 TTCCTTTGGGTTTGACAATCTGGTCTTGCTAAAACTATACTACCGATAGGTACACTTGCCTACAT
1 TTCCTTTGGGTTCGACAATCTGGTCTTGCTAAAACTATACTACCGATAGGTACACTTGCCTACAT
*
16652571 CACGATAATAGTTTGTTCAAGAACGAGTAA
66 CACGATAATAGTTAGTTCAAGAACGAGTAA
16652601 TTCCTTTGGGTTCGACAATCTGGTCTTGCTAAAACTATACTACTGTTCGATAGGTACACTTGCCT
1 TTCCTTTGGGTTCGACAATCTGGTCTTGCTAAAACTATACTAC----CGATAGGTACACTTGCCT
*
16652666 ACATCACGATAATAGTTAGTTCAAGAATGAGTAA
62 ACATCACGATAATAGTTAGTTCAAGAACGAGTAA
16652700 TT
1 TT
16652702 ATAAATATTT
Statistics
Matches: 94, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
95 42 0.45
99 52 0.55
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (95 bp):
TTCCTTTGGGTTCGACAATCTGGTCTTGCTAAAACTATACTACCGATAGGTACACTTGCCTACAT
CACGATAATAGTTAGTTCAAGAACGAGTAA
Found at i:16657479 original size:42 final size:41
Alignment explanation
Indices: 16657432--16657545 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 41
16657422 TTTAAGATTA
*
16657432 CGTGTAAAACCATGTCTGGGATGTGGCATCGATATGAGA-CTT
1 CGTGTAAAACCATGTCTGGGAT-TGGCATCGATATGAGATC-C
* *
16657474 CGTGTAAGACCATAG-CTGGGCTATTGGCATCTATATGAGATCC
1 CGTGTAAAACCAT-GTCTGGG--ATTGGCATCGATATGAGATCC
* *
16657517 CATGTAAAACCATATCTGGGATATGGCAT
1 CGTGTAAAACCATGTCTGGGAT-TGGCAT
16657546 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.03
42 23 0.38
43 32 0.53
44 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (41 bp):
CGTGTAAAACCATGTCTGGGATTGGCATCGATATGAGATCC
Found at i:16661046 original size:20 final size:20
Alignment explanation
Indices: 16661016--16661053 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16661006 TCAGAATGAC
16661016 ATTTGAATTTGATTATTTGTT
1 ATTTGAATTTGA-TATTTGTT
16661037 ATTT-AATTTGATATTTG
1 ATTTGAATTTGATATTTG
16661054 AATGGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (20 bp):
ATTTGAATTTGATATTTGTT
Found at i:16662446 original size:32 final size:32
Alignment explanation
Indices: 16662363--16662444 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 32
16662353 TTGTTATTTA
* * *
16662363 TATATATAATATATATATATGCATGCATGGGTGT
1 TATATATAATATATAT-T-TACGTGCATAGGTGT
16662397 TATATATAATATATATTTACGTGCATAGGTGT
1 TATATATAATATATATTTACGTGCATAGGTGT
16662429 TATATGTATAATATAT
1 TATA--TATAATATAT
16662445 TTGCGTGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 16 0.37
33 1 0.02
34 26 0.60
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (32 bp):
TATATATAATATATATTTACGTGCATAGGTGT
Found at i:16662651 original size:15 final size:15
Alignment explanation
Indices: 16662631--16662660 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16662621 ATAGGTATAT
16662631 ATATATATATATGTA
1 ATATATATATATGTA
*
16662646 ATATATATATTTGTA
1 ATATATATATATGTA
16662661 TATGGTTATG
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
ATATATATATATGTA
Found at i:16672880 original size:31 final size:31
Alignment explanation
Indices: 16672845--16672923 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
16672835 GTCACTCTTG
*
16672845 TATTAGTAAGTTTACAATTTGGTCAATTAAA
1 TATTAGTAAATTTACAATTTGGTCAATTAAA
* * * * *
16672876 TATTAGTAAAATTATAATTTGGTCACTTGAC
1 TATTAGTAAATTTACAATTTGGTCAATTAAA
*
16672907 TATTAGCAAATTTACAA
1 TATTAGTAAATTTACAA
16672924 GTCATTCTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (31 bp):
TATTAGTAAATTTACAATTTGGTCAATTAAA
Found at i:16673023 original size:31 final size:31
Alignment explanation
Indices: 16672943--16673026 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
16672933 AGTGTTATTT
*
16672943 AGTGACCAAATTGTAAACATACTAATAGTTG
1 AGTGACCAAATTGTAAACTTACTAATAGTTG
* * *
16672974 AGTTACCAATTTCTAAACTTACTAATAGTTG
1 AGTGACCAAATTGTAAACTTACTAATAGTTG
16673005 AGTGACCAAATTGTAAACTTAC
1 AGTGACCAAATTGTAAACTTAC
16673027 CCATCCCCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (31 bp):
AGTGACCAAATTGTAAACTTACTAATAGTTG
Found at i:16675847 original size:3 final size:3
Alignment explanation
Indices: 16675839--16675876 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
16675829 ATGTGATTTT
16675839 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
16675877 TATATTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:16676837 original size:33 final size:33
Alignment explanation
Indices: 16676800--16676866 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
16676790 TGATCAAAGT
16676800 ATAAAAAACAAAATTATCGGAATGAAAGATAAA
1 ATAAAAAACAAAATTATCGGAATGAAAGATAAA
*
16676833 ATAAAAAACAAAATTATTGGAATGAAAGATAAA
1 ATAAAAAACAAAATTATCGGAATGAAAGATAAA
16676866 A
1 A
16676867 ACATATAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.19
Consensus pattern (33 bp):
ATAAAAAACAAAATTATCGGAATGAAAGATAAA
Found at i:16682828 original size:2 final size:2
Alignment explanation
Indices: 16682821--16682851 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16682811 ATAATAATAC
16682821 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16682852 ATAGAAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16682831 original size:15 final size:15
Alignment explanation
Indices: 16682811--16682851 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
16682801 AGTAAAGTAA
16682811 ATAATA-ATACTATAT
1 ATAATATATA-TATAT
16682826 ATAATATATATATAT
1 ATAATATATATATAT
16682841 AT-ATATATATA
1 ATAATATATATA
16682852 ATAGAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.36
15 13 0.52
16 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATATATATATAT
Found at i:16683217 original size:3 final size:3
Alignment explanation
Indices: 16683204--16683294 Score: 59
Period size: 3 Copynumber: 30.3 Consensus size: 3
16683194 GAGGGTATAT
16683204 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* * *
16683248 ATA ATA ATA GT- ATAA ATA ATA GTA AAA ATA ATA A-A A-A ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16683291 ATA A
1 ATA A
16683295 AGCTCTCAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
2 10 0.14
3 50 0.70
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:16683228 original size:12 final size:12
Alignment explanation
Indices: 16683204--16683293 Score: 73
Period size: 12 Copynumber: 7.5 Consensus size: 12
16683194 GAGGGTATAT
16683204 ATAATAT-AATA
1 ATAATATAAATA
16683215 ATAATATAAATA
1 ATAATATAAATA
16683227 ATAATATATACATGA
1 ATAATATA-A-AT-A
16683242 GA-AATA-ATAATA
1 -ATAATATA-AATA
*
16683254 ATAGTATAAATA
1 ATAATATAAATA
* *
16683266 ATAGTAAAAATA
1 ATAATATAAATA
16683278 ATAA-A-AAATA
1 ATAATATAAATA
16683288 ATAATA
1 ATAATA
16683294 AAGCTCTCAA
Statistics
Matches: 68, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
10 9 0.13
11 10 0.15
12 34 0.50
13 4 0.06
14 5 0.07
15 5 0.07
16 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:16683230 original size:18 final size:18
Alignment explanation
Indices: 16683200--16683294 Score: 93
Period size: 18 Copynumber: 5.1 Consensus size: 18
16683190 TGGAGAGGGT
16683200 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
16683218 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
*
16683237 CATGAGAAATAATAATAATA
1 -AT-ATAAATAATAATAATA
* * *
16683257 GTATAAATAATAGTAAAA
1 ATATAAATAATAATAATA
*
16683275 ATAATAAAAAATAATAATA
1 AT-ATAAATAATAATAATA
16683294 A
1 A
16683295 AGCTCTCAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.05
18 25 0.40
19 18 0.29
20 5 0.08
21 12 0.19
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:16683818 original size:30 final size:30
Alignment explanation
Indices: 16683784--16683842 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
16683774 ATTTGATGGT
*
16683784 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAAGTGGTGGA
*
16683814 GTAGGTGCAAGTGGGAGGCAAAGTGGTGG
1 GTAGGTGCAAGTGGGAGACAAAGTGGTGG
16683843 TTTTGTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.51, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGACAAAGTGGTGGA
Found at i:16684336 original size:68 final size:68
Alignment explanation
Indices: 16684227--16684528 Score: 371
Period size: 68 Copynumber: 4.4 Consensus size: 68
16684217 TCTTCTTCCG
* * *
16684227 CTGAAACTTCAAGGAGATCTG-CTGTGGCTTTTAGCCTCTCCAACGCCAATTCA-GGAAGGAGAA
1 CTGAAACTTCAAGGAGATCTGTC-GTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AAGAA
16684290 ATCCA
64 ATCCA
**
16684295 CTGAAACTTCAAGGAGATCTGTCGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAAGAGG
1 CTGAAACTTCAAGGAGATCTGTCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AAGAAA
*
16684359 TTCA
65 TCCA
* * * *
16684363 CTGAAACTTCAAGGAGATCT-ACTGTGGCTTTTAACCGCTCCAATGCCATTTTAGGGAAAA-AAG
1 CTGAAACTTCAAGGAGATCTGTC-GTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAA-
* *
16684426 TTCCG
64 ATCCA
* * *
16684431 CTGAAACTTCAAGGAGATCTATTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAAAT
*
16684496 CCG
66 CCA
*
16684499 CTGAAACTTCAAGGAGATCTGTTGTGGCTT
1 CTGAAACTTCAAGGAGATCTGTCGTGGCTT
16684529 CAAGAAGATA
Statistics
Matches: 206, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
67 2 0.01
68 198 0.96
69 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGTCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAAAT
CCA
Found at i:16684471 original size:136 final size:135
Alignment explanation
Indices: 16684227--16684528 Score: 421
Period size: 136 Copynumber: 2.2 Consensus size: 135
16684217 TCTTCTTCCG
* *
16684227 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAACGCCAATTCAGGAAGGAGAAAT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCCAACGCCAATTCAGGAA-GAGAAAT
*
16684292 CCACTGAAACTTCAAGGAGATCTGTCGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAAG
65 CCACTGAAACTTCAAGGAGATCTATCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AAG
* *
16684356 AGGTTCA
129 AGATCCA
* * * *
16684363 CTGAAACTTCAAGGAGATCTACTGTGGCTTTTAACCGCTCCAATGCCATTTTAGGGAA-A-AAAG
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCCAACGCCAATTCA-GGAAGAGAAA-
* *
16684426 TTCCGCTGAAACTTCAAGGAGATCTATTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAA
64 -TCCACTGAAACTTCAAGGAGATCTATCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAA
*
16684491 GAGATCCG
128 GAGATCCA
*
16684499 CTGAAACTTCAAGGAGATCTGTTGTGGCTT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTT
16684529 CAAGAAGATA
Statistics
Matches: 148, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
134 3 0.02
135 1 0.01
136 136 0.92
137 8 0.05
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (135 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCCAACGCCAATTCAGGAAGAGAAATC
CACTGAAACTTCAAGGAGATCTATCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAG
ATCCA
Found at i:16684838 original size:87 final size:87
Alignment explanation
Indices: 16684646--16685936 Score: 1979
Period size: 87 Copynumber: 14.9 Consensus size: 87
16684636 TTTTAGCCTA
* * * * * * *
16684646 TTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCAATCTATTTTCCTACTGCATAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
16684711 TAAGATCTTGTAAA-TCCAGCCTG
66 TAAGATC-TGTAAATTCCA-CCTG
* * *
16684734 TTACCCTACTACTTAGGGGTTTAAGGTCTATCGCCTTCGATCTGTTTCCCTACTACTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
16684799 TAAGATCTGTAAACTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
* *
16684821 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCACCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
**
16684886 TAAGATCTGTAAATTTAACCTG
66 TAAGATCTGTAAATTCCACCTG
* * **
16684908 TTACCCTACTGTTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTACTTATAGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
16684973 TAAGATCTGTAAATTCCACCTA
66 TAAGATCTGTAAATTCCACCTG
* *
16684995 TTACCCTACTGCTTA-GTGTTTAAGGTCCATCGCCTTCGATCTATTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
16685059 TAAGATCTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
* *
16685081 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGATTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
16685146 TAAGATCTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
*
16685168 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
16685233 TAAGATCTGTAAA-TCCAACTTG
66 TAAGATCTGTAAATTCC-ACCTG
* *
16685255 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTACTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
16685320 TAAGATCTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
*
16685342 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTATTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* *
16685407 TAAGATCTGTAAATTCAACATG
66 TAAGATCTGTAAATTCCACCTG
*
16685429 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGATTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
16685494 AAAGATCTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
*
16685516 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
16685581 TAAGATCTGTAAA-TCCAACCTG
66 TAAGATCTGTAAATTCC-ACCTG
*
16685603 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
16685668 TAAGATCTGTAAATT-TAGCCTG
66 TAAGATCTGTAAATTCCA-CCTG
* * * * *
16685690 TTACCCTACTACTTAGGGAG-TTAAGGCCCGTCGCTTTCGATTTGTTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGG-GTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* *
16685754 TTAAGATCTGTAAATTCAACCTA
65 TTAAGATCTGTAAATTCCACCTG
*
16685777 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* *
16685842 TAAGATCTGTAAATT-TAGCCCG
66 TAAGATCTGTAAATTCCA-CCTG
* * * * *
16685864 TTACCCTACTACTTAGAGAG-TTAAGGCCCGTCGCTTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAG-GGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
16685928 TCAA-ATCTG
65 TTAAGATCTG
16685937 CTATCTTCAA
Statistics
Matches: 1107, Mismatches: 84, Indels: 26
0.91 0.07 0.02
Matches are distributed among these distances:
86 94 0.08
87 939 0.85
88 74 0.07
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (87 bp):
TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
TAAGATCTGTAAATTCCACCTG
Found at i:16686085 original size:44 final size:44
Alignment explanation
Indices: 16685929--16686860 Score: 581
Period size: 44 Copynumber: 21.2 Consensus size: 44
16685919 CTTAGGGGGT
* *
16685929 CAAATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGTTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGC
** * * ** *
16685973 C--ATGCTGAAATCTTCAATCTGCTTCACTGTAAGCACAGTAATGT
1 CAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGC
* * * * *
16686017 CAGATCAGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
* * *
16686061 CAAATCTGCTATTTTTAA-CTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGTTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGC
** ** * * * * *
16686105 C--ATGCTGAAATCTTTGATCTGCTTCACTGTACGCACAGGAATGT
1 CAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGC
* * * * * *
16686149 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACCCAGGAATGC
1 CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
* *
16686193 CAAATCTGTTATTTTCAATTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
* ** * * * *
16686237 CATA-CTGAAATCTTCAATCTGCTTCACTGTAAGCACAGGAATGT
1 CAAATCTGTTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGC
*
16686281 CAGATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
*
16686325 CAAATCTGTTATTTTCAA-CTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGTTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGC
** ** * * * *
16686369 C--ATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGT
1 CAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGC
* *
16686413 CAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGATAC
1 CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
* * * *
16686457 CAAATATGCTATTTTCAA-CTTGTTCCCTATAAGCACAGGAATGC
1 CAAATCTGTTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGC
** * * * * * * *
16686501 C--ATGCTGAAATATTCGATCTGCTTCACTGTAAGTACAGGAATGT
1 CAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGC
* * * * * * **
16686545 TAGATCTGCTATCTTCGATATGTTCCCTACAAATACAGGGATGC
1 CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
* * *
16686589 CAAATCTGTTATTTTCAA-CTTGTTCCCTATAGGCACAGGGATGT
1 CAAATCTGTTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGC
** * * * * * * *
16686633 C--ATGCTGAAACCTTCGATCTGTTTCACTGTAAGCATAGGAATGT
1 CAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGC
* * * *
16686677 CAGATCTGTTATTTTCGATCTATTCCCTATAAGCACAGGGATGC
1 CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
* *
16686721 CAAATCTGCTATTTTCAA-CTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGTTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGC
** * ** * * *
16686765 C--ATGCTGAAATCTTCGATCTGCTTCATTGTAAGTAC-GGGAATGT
1 CAAAT-CTGTTATCTTCAATCTG-TTCCCTATAAGCACAGGG-ATGC
* * ** * * *
16686809 CAGATCTGCTATCTTTGATATGTTCCCTATAAACATAGGGATGC
1 CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
16686853 CAAATCTG
1 CAAATCTG
16686861 CAATCTTCGA
Statistics
Matches: 682, Mismatches: 167, Indels: 78
0.74 0.18 0.08
Matches are distributed among these distances:
42 12 0.02
43 85 0.12
44 476 0.70
45 97 0.14
46 12 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
CAAATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGATGC
Found at i:16686166 original size:132 final size:132
Alignment explanation
Indices: 16685929--16686861 Score: 1443
Period size: 132 Copynumber: 7.1 Consensus size: 132
16685919 CTTAGGGGGT
* * *
16685929 CAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
16685994 CTTCACTGTAAGCACAGTAATGTCAGATCAGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
16686059 GC
131 GC
* *
16686061 CAAATCTGCTATTTTTAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
16686126 CTTCACTGTACGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACCCAGGAAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
16686191 GC
131 GC
* * * *
16686193 CAAATCTGTTATTTTCAATTTGTTCCCTATAAGCACAGGGATGCCATACTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
16686258 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
16686323 GC
131 GC
* *
16686325 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
16686390 CTTCACTGTAAGCACAGGAATGTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
*
16686455 AC
131 GC
* * *
16686457 CAAATATGCTATTTTCAACTTGTTCCCTATAAGCACAGGAATGCCATGCTGAAATATTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * *
16686522 CTTCACTGTAAGTACAGGAATGTTAGATCTGCTATCTTCGATATGTTCCCTACAAATACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
16686587 GC
131 GC
* * * *
16686589 CAAATCTGTTATTTTCAACTTGTTCCCTATAGGCACAGGGATGTCATGCTGAAACCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * * *
16686654 TTTCACTGTAAGCATAGGAATGTCAGATCTGTTATTTTCGATCTATTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
16686719 GC
131 GC
16686721 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * * *
16686786 CTTCATTGTAAGTACGGGAATGTCAGATCTGCTATCTTTGATATGTTCCCTATAAACATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
16686851 GC
131 GC
16686853 CAAATCTGC
1 CAAATCTGC
16686862 AATCTTCGAT
Statistics
Matches: 724, Mismatches: 77, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 724 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
GC
Found at i:16686943 original size:41 final size:41
Alignment explanation
Indices: 16686895--16687032 Score: 118
Period size: 41 Copynumber: 3.2 Consensus size: 41
16686885 CTACAGAGAC
*
16686895 GCCAAATCATCTTGGATTTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
* * * ** * *
16686936 GCCAAATCAGCTATGTCTTTGATCTGCTCTCCACCTGGTACA-GAG-AT
1 GCCAAAT---C-A--TCTTGGATCTGCT-TCAACGT-AAACACGTGAAA
16686983 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
16687024 GCCAAATCA
1 GCCAAATCA
16687033 GCTATGTCTT
Statistics
Matches: 72, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
39 3 0.04
40 7 0.10
41 29 0.40
43 1 0.01
44 2 0.03
45 1 0.01
47 19 0.26
48 7 0.10
49 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
GCCAAATCATCTTGGATCTGCTTCAACGTAAACACGTGAAA
Found at i:16686988 original size:88 final size:88
Alignment explanation
Indices: 16686864--16687095 Score: 367
Period size: 88 Copynumber: 2.6 Consensus size: 88
16686854 AAATCTGCAA
* * * *
16686864 TCTTCGATCTACTCTCCGCC-GCTACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCTCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
16686928 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* * *
16686951 TCTTTGATCTGCTCTCCACCTGGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCTCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
16687016 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* **
16687039 TCTTCGATCTGCTCCCCGGTTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
1 TCTTCGATCTGCTCTCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
16687096 GTGAAGGTCA
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 17 0.13
88 115 0.87
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTCTCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Done.