Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008966.1 Hibiscus syriacus cultivar Beakdansim tig00112308_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 265444
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:112 original size:20 final size:20
Alignment explanation
Indices: 87--129 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
77 TCTAAGAGTT
*
87 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
107 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
127 CAT
1 CAT
130 GTGGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:7862 original size:3 final size:3
Alignment explanation
Indices: 7836--7886 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
7826 CTACAAAAGA
* *
7836 AAG AAG AA- AATG ATG AAG AA- AAG AAG AAG AAG AAG AAG TAG AAG
1 AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7880 AA- AAG AA
1 AAG AAG AA
7887 AATGTGGTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 6 0.15
3 33 0.82
4 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (3 bp):
AAG
Found at i:7871 original size:12 final size:11
Alignment explanation
Indices: 7830--7878 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
7820 ATGAGACTAC
7830 AAAAGAAAGAAG
1 AAAAG-AAGAAG
*
7842 AAAATGATGAAG
1 AAAA-GAAGAAG
7854 AAAAGAAGAAG
1 AAAAGAAGAAG
*
7865 AAGAAGAAGTAG
1 AA-AAGAAGAAG
7877 AA
1 AA
7879 GAAAAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 8 0.25
12 23 0.72
13 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (11 bp):
AAAAGAAGAAG
Found at i:10220 original size:16 final size:16
Alignment explanation
Indices: 10195--10229 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10185 GGTATTACCC
10195 GACCTATTTTTAACCT
1 GACCTATTTTTAACCT
*
10211 GACCTGTTTTTAACCT
1 GACCTATTTTTAACCT
10227 GAC
1 GAC
10230 ATGTAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (16 bp):
GACCTATTTTTAACCT
Found at i:10810 original size:21 final size:21
Alignment explanation
Indices: 10778--10837 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
10768 TTATATTAGG
**
10778 GTTT-GTGATTTAGGGTTTATT
1 GTTTAGTG-TTTAGGGTTTAAA
**
10799 GTTTAGTGTTTATAGTTTAAA
1 GTTTAGTGTTTAGGGTTTAAA
* *
10820 ATTTAGGGTTTAGGGTTT
1 GTTTAGTGTTTAGGGTTT
10838 TATAAATTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (21 bp):
GTTTAGTGTTTAGGGTTTAAA
Found at i:10971 original size:2 final size:2
Alignment explanation
Indices: 10913--10960 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
10903 TTATATAGTT
10913 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10955 TA TA TA
1 TA TA TA
10961 AAGTTTATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11441 original size:2 final size:2
Alignment explanation
Indices: 11428--11467 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
11418 AGTATTTACT
*
11428 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11468 CATGGTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11546 original size:499 final size:499
Alignment explanation
Indices: 10927--12918 Score: 2528
Period size: 499 Copynumber: 3.9 Consensus size: 499
10917 TATATATATA
* * * *
10927 TATATATATATATATATATATATATATATATATAAAGTTTATATAGG-TTAT-CATACATATTAT
1 TATATATATATATATATATATATATATATATATATACTATACATAGGTTTATACATACATATTAT
* *
10990 ATAAAATTATTTAATAAATTTAAAAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAG
66 ATAAAATTATTTAAAAAATTT--TAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAG
11055 GTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATAT
129 GTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATAT
* * * * *
11120 TAATTTCATTTGTATAATTAGTATTTTAATTGCATGTTATGTTAATTCTCATTAATAGTCCATTT
194 TAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTT
* *
11185 ATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAATCCATTTGCATTAGTGTTAGTC
259 ATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTC
11250 CATTTACATTAGTTTACATAGGCCCAATACATAAGTCCACTCCTTTATTACAAATATATATGCAA
324 CATTTACATTAGTTTACATAGGCCCAATACATAAG-CCACTCCTTTATTACAAATATATATGCAA
* * *
11315 TAGTGCTAGCCCATTTATATTAGGGTTTGTGATTTAGAGTTTAGGGTTTCTATAAACTATATACT
388 TAGTGCTAGTCCATTTATATTAGGGTTTGTGATTTAGGGTTTAGGGTTTATATAAACTATATACT
* * *
11380 TTATATAGTTTATGCTTAGTGTTTCTATAAACTATATAAGTATTTACT
453 TT-TAGAGTTTAGGTTTAGTGTTTCTATAAACTATATAAGTATTTACT
*
11428 TATATTTATATATATATATATATATATATATATATA-TATACAT-GGTTTATACATACATATTAT
1 TATATATATATATATATATATATATATATATATATACTATACATAGGTTTATACATACATATTAT
11491 ATAAAATTATTTAAAAAAATTTT-AAAAATTTAAATGTAAATTATATAAAACATGATTAATTAGG
66 ATAAAATTATTT-AAAAAATTTTAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAGG
* *
11555 TGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTAATAAATAGTAGTATATGTCATATT
130 TGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATT
11620 AATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTA
195 AATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTA
*
11685 TTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTTCATTTGCATTAGTGCTAGTCC
260 TTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCC
* * *
11750 ATTTACATTAGTTTACATAGGCTCAATACATAAGCCACTCTTTTATTACAAATATATATGCATTA
325 ATTTACATTAGTTTACATAGGCCCAATACATAAGCCACTCCTTTATTACAAATATATATGCAATA
** * * * ** * * *
11815 GTGCTAGTTTATTTATATTAGGGTTTGTGATTTAGGGTTTAGTGCTTAGTGTCTA-TGGTTTAAA
390 GTGCTAGTCCATTTATATTAGGGTTTGTGATTTAGGGTTTAGGGTTTA-TATAAACT-ATAT-AC
* *
11879 ATTTAGGGTTTAAGGTTTAAG-GTTTCTATAAACTATATAAGTAATTTACT
452 TTTTAGAGTTT-AGGTTT-AGTGTTTCTATAAACTATATAAGT-ATTTACT
* * * *
11929 T-TATATAGTTTATATATATATATATATATACACTATACTATACATA--ATTATGCATACATATT
1 TATATATA-TATATATATATATATATATATATA-TATACTATACATAGGTTTATACATACATATT
* * * * * *
11991 AAATAAAAATGTTTAATAAATTTTAAAAAATAATTTAAATGTAAATTACAAAAAACATGATTAAT
64 ATATAAAATTATTTAAAAAATTTT--AAAA-AATTTAAATGTAAATTATATAAAACATGATTAAT
*
12056 TAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTACATAAATAGTAGTACATGTCA
126 TAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCA
12121 TATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCA
191 TATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCA
* * * *
12186 TTGATTTTGTTGTTATGAATAAGTAATAATAAAACTCAAAAATAAGTCTATTTGAATTAGTGCTA
256 TTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTA
*
12251 GTCCATTTACATTAGTTTATATAGGCCCAATACATAAGCTCACT-CTTTGATTACAAATATATAT
321 GTCCATTTACATTAGTTTACATAGGCCCAATACATAAGC-CACTCCTTT-ATTACAAATATATAT
* * * * *
12315 GCATTAGTACTAGTCCATTTACATTAGGGTTTGTGATCTAGGGTTTAGGGTTTATGATTTAAAGT
384 GCAATAGTGCTAGTCCATTTATATTAGGGTTTGTGATTTAGGGTTTAGGGTTTAT-A--TAAACT
* * * * *
12380 -T-TAGTGTTTAGGGTTTAGGGTTTA-TGATTTTTATAAACTATAT-ACTTTATTACTT
446 ATATACT-TTTAGAGTTTA-GGTTTAGTG-TTTCTATAAACTATATAAGTAT-TTAC-T
* * * * * * * *
12435 TATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTTATATA
1 TATATA---TAT--ATA-TATATATATATA-TATAT-A-T-ATATACTATACATAG-GTT-TATA
* * * *
12500 TATATATAGTTTATATATTATACATGGTTTATACATACATATTATATAAATTTAAAAAAAATTAA
54 CATACATA--TTATATA--A-A-A----TTAT---T---TA--A-A-AAATTTTAAAAAATTTAA
12565 ATGTAAATTATATAAAACATGATTAATTAGGTGTT-AATAATTAGTATGTCACATTGCATATTAT
99 ATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTAT
12629 ATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCAT
164 ATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCAT
* *
12694 GTTAGGTTAATTCACATTAATAGCCAATTTATTTTGTTGTTATGAATATGTAATAATAAAACCCA
229 GTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCA
* * *
12759 AAAATAAGTCCATTTGCATTAGTGTTAGTCCATTTACATTAGTTTACATAGGCTCAATACATTAG
294 AAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAG
* * * *
12824 CCCACTCTTTTATTA-AAA-ATATATAC-ATCAGTGCTAGTCCATTTATATTAGGGTTTATGGTT
359 -CCACTCCTTTATTACAAATATATATGCAAT-AGTGCTAGTCCATTTATATTAGGGTTTGTGATT
* *
12886 TAGGGTTTAAGGTTTTTATAAACTATATACTTT
422 TAGGGTTTAGGGTTTATATAAACTATATACTTT
12919 ATTACTTTAT
Statistics
Matches: 1304, Mismatches: 118, Indels: 108
0.85 0.08 0.07
Matches are distributed among these distances:
498 71 0.05
499 272 0.21
500 42 0.03
501 99 0.08
502 37 0.03
503 7 0.01
504 4 0.00
505 270 0.21
506 99 0.08
507 5 0.00
508 2 0.00
509 2 0.00
510 2 0.00
511 2 0.00
512 8 0.01
513 5 0.00
514 1 0.00
515 10 0.01
516 1 0.00
518 1 0.00
519 9 0.01
521 6 0.00
523 1 0.00
524 1 0.00
525 1 0.00
529 2 0.00
530 5 0.00
531 3 0.00
532 6 0.00
533 50 0.04
534 3 0.00
535 223 0.17
536 43 0.03
537 5 0.00
539 6 0.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (499 bp):
TATATATATATATATATATATATATATATATATATACTATACATAGGTTTATACATACATATTAT
ATAAAATTATTTAAAAAATTTTAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAGGT
GTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTA
ATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTAT
TTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCA
TTTACATTAGTTTACATAGGCCCAATACATAAGCCACTCCTTTATTACAAATATATATGCAATAG
TGCTAGTCCATTTATATTAGGGTTTGTGATTTAGGGTTTAGGGTTTATATAAACTATATACTTTT
AGAGTTTAGGTTTAGTGTTTCTATAAACTATATAAGTATTTACT
Found at i:12153 original size:505 final size:501
Alignment explanation
Indices: 10929--12894 Score: 2533
Period size: 505 Copynumber: 3.9 Consensus size: 501
10919 TATATATATA
* * * * * *
10929 TATATATATATATATATATATATATATATATAAAGTTTATATAGGTTAT-CATACATATTATATA
1 TATATATATATATATATATATATATATATATATACTATACATA-TTTATACATACATATTAAATA
*
10993 AAATTATTTAATAAA-TTTAAAAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAGGT
65 AAAATATTTAATAAATTTTAAAAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAGGT
*
11057 GTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTA
130 GTTAAATAATTAGTATGTCACATTGCATATTATATGGTACATAAATAGTAGTACATGTCATATTA
* * * * *
11122 ATTTCATTTGTATAATTAGTATTTTAATTGCATGTTATGTTAATTCTCATTAATAGTCCATTTAT
195 ATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTAT
* *
11187 TTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAATCCATTTGCATTAGTGTTAGTCCA
260 TTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCA
* * *
11252 TTTACATTAGTTTACATAGGCCCAATACATAAGTCCACTCCTTTATTACAAATATATATGCAATA
325 TTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTA
* * * * * * **
11317 GTGCTAGCCCATTTATATTAGGGTTTGTGATTTAGAGTTTAGGGTT-TCTATAAACTATATACTT
390 GTGCTAGTCCATTTATATTAGGGTTTGTGATTTAGGGTTTAGGCTTATGTATAAAGTTTA-AAAT
** * *
11381 TATATAGTTT-ATGCTT-AGTGTTTCTATAAACTATATAAGTATTTACTT
454 T-TAGGGTTTAAGGTTTAAG-GTTTCTATAAACTATATAAGTATTTACTT
* * *
11429 ATATTTATATATATATATATATATATATATATATA-TATACATGGTTTATACATACATATTATAT
1 -TATATATATATATATATATATATATATATATATACTATACAT-ATTTATACATACATATTAAAT
* *
11493 AAAATTATTTAAAAAAATTTT----AAAAATTTAAATGTAAATTATATAAAACATGATTAATTAG
64 AAAAATATTT-AATAAATTTTAAAAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAG
*
11554 GTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTA-ATAAATAGTAGTATATGTCATA
128 GTGTTAAATAATTAGTATGTCACATTGCATATTATATGG-TACATAAATAGTAGTACATGTCATA
11618 TTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATT
192 TTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATT
*
11683 TATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTTCATTTGCATTAGTGCTAGT
257 TATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGT
*
11748 CCATTTACATTAGTTTACATAGGCTCAATACATAAG-CCACTCTTTTATTACAAATATATATGCA
322 CCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCA
** * **
11812 TTAGTGCTAGTTTATTTATATTAGGGTTTGTGATTTAGGGTTTAGTGCTTAGTGTCTATGGTTTA
387 TTAGTGCTAGTCCATTTATATTAGGGTTTGTGATTTAGGGTTTAG-GCTTA-TGTATAAAGTTTA
11877 AAATTTAGGGTTTAAGGTTTAAGGTTTCTATAAACTATATAAGTAATTTACTT
450 AAATTTAGGGTTTAAGGTTTAAGGTTTCTATAAACTATATAAGT-ATTTACTT
* * * *
11930 TATATAGTTTATATATATATATATATATACACTATACTATACATAATTATGCATACATATTAAAT
1 TATATA-TATATATATATATATATATATATA-TATACTATACATATTTATACATACATATTAAAT
* * * *
11995 AAAAATGTTTAATAAATTTTAAAAAATAATTTAAATGTAAATTACAAAAAACATGATTAATTAGG
64 AAAAATATTTAATAAATTTTAAAAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAGG
12060 TGTTAAATAATTAGTATGTCACATTGCATATTATATGGTACATAAATAGTAGTACATGTCATATT
129 TGTTAAATAATTAGTATGTCACATTGCATATTATATGGTACATAAATAGTAGTACATGTCATATT
*
12125 AATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTGA
194 AATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTA
* * *
12190 TTTTGTTGTTATGAATAAGTAATAATAAAACTCAAAAATAAGTCTATTTGAATTAGTGCTAGTCC
259 TTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCC
* * *
12255 ATTTACATTAGTTTATATAGGCCCAATACATAAGCTCACTCTTTGATTACAAATATATATGCATT
324 ATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATT
* * * * * **
12320 AGTACTAGTCCATTTACATTAGGGTTTGTGATCTAGGGTTTAGGGTTTATGATTTAAAGTTTAGT
389 AGTGCTAGTCCATTTATATTAGGGTTTGTGATTTAGGGTTTA-GGCTTATG-TATAAAGTTTAAA
* * * * * * *
12385 GTTTAGGGTTTAGGGTTTATGATTTTTATAAACTATAT-ACTTTATTACTT
452 ATTTAGGGTTTAAGGTTTAAGGTTTCTATAAACTATATAAGTAT-TTACTT
* * * * * *
12435 TATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTTATATA
1 TATATA---TAT--ATA---TATATATATA-TATAT-A-T-ATATAC--TATACA-TATT-TATA
* * * * * *
12500 TATATATAGTTTATATATTATACATGGTTTATACATACATATTATATAAATTTAAAAAAAATTAA
50 CATACATA--TTA-A-A-TAAAAAT--ATT-TA-ATA-A-ATT-T-T-AA---AAAAAAATTTAA
12565 ATGTAAATTATATAAAACATGATTAATTAGGTGTT-AATAATTAGTATGTCACATTGCATATTAT
98 ATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTAT
*
12629 ATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCAT
163 ATGGTACATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCAT
* *
12694 GTTAGGTTAATTCACATTAATAGCCAATTTATTTTGTTGTTATGAATATGTAATAATAAAACCCA
228 GTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCA
* * *
12759 AAAATAAGTCCATTTGCATTAGTGTTAGTCCATTTACATTAGTTTACATAGGCTCAATACATTAG
293 AAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAG
* * * *
12824 CCCACTCTTTTATTA-AAA-ATATATACATCAGTGCTAGTCCATTTATATTAGGGTTTATGGTTT
358 CCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATATTAGGGTTTGTGATTT
12887 AGGGTTTA
423 AGGGTTTA
12895 AGGTTTTTAT
Statistics
Matches: 1292, Mismatches: 118, Indels: 78
0.87 0.08 0.05
Matches are distributed among these distances:
498 67 0.05
499 266 0.21
500 43 0.03
501 104 0.08
502 34 0.03
503 10 0.01
504 3 0.00
505 272 0.21
506 110 0.09
507 3 0.00
509 3 0.00
512 7 0.01
513 5 0.00
514 1 0.00
515 4 0.00
516 1 0.00
517 5 0.00
518 2 0.00
519 9 0.01
521 3 0.00
522 1 0.00
523 1 0.00
524 5 0.00
526 2 0.00
527 2 0.00
528 3 0.00
529 1 0.00
530 3 0.00
531 1 0.00
532 1 0.00
533 48 0.04
534 3 0.00
535 226 0.17
536 43 0.03
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (501 bp):
TATATATATATATATATATATATATATATATATACTATACATATTTATACATACATATTAAATAA
AAATATTTAATAAATTTTAAAAAAAAATTTAAATGTAAATTATATAAAACATGATTAATTAGGTG
TTAAATAATTAGTATGTCACATTGCATATTATATGGTACATAAATAGTAGTACATGTCATATTAA
TTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATT
TTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCAT
TTACATTAGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAG
TGCTAGTCCATTTATATTAGGGTTTGTGATTTAGGGTTTAGGCTTATGTATAAAGTTTAAAATTT
AGGGTTTAAGGTTTAAGGTTTCTATAAACTATATAAGTATTTACTT
Found at i:12365 original size:7 final size:7
Alignment explanation
Indices: 12353--12403 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
12343 GTTTGTGATC
12353 TAGGGTT
1 TAGGGTT
12360 TAGGGTT
1 TAGGGTT
* *
12367 TATGATT
1 TAGGGTT
**
12374 TAAAGTT
1 TAGGGTT
*
12381 TAGTGTT
1 TAGGGTT
12388 TAGGGTT
1 TAGGGTT
12395 TAGGGTT
1 TAGGGTT
12402 TA
1 TA
12404 TGATTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
TAGGGTT
Found at i:12402 original size:21 final size:21
Alignment explanation
Indices: 12338--12403 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
12328 TCCATTTACA
*
12338 TTAGGGTTT-GTGATCTAGGGT
1 TTAGGGTTTAG-GATTTAGGGT
* **
12359 TTAGGGTTTATGATTTAAAGT
1 TTAGGGTTTAGGATTTAGGGT
* *
12380 TTAGTGTTTAGGGTTTAGGGT
1 TTAGGGTTTAGGATTTAGGGT
12401 TTA
1 TTA
12404 TGATTTTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTAGGATTTAGGGT
Found at i:12505 original size:18 final size:16
Alignment explanation
Indices: 12483--12521 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
12473 GTAATTTACT
12483 TTATATAGTTTTATATA
1 TTATATAG-TTTATATA
12500 TATATATAGTTTATATA
1 T-TATATAGTTTATATA
12517 TTATA
1 TTATA
12522 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 10 0.48
18 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
TTATATAGTTTATATA
Found at i:12529 original size:18 final size:17
Alignment explanation
Indices: 12487--12532 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
12477 TTTACTTTAT
*
12487 ATAGTTTTATATATATAT
1 ATAG-TTTATATATATAC
12505 ATAGTTTATATATTATAC
1 ATAGTTTATATA-TATAC
*
12523 ATGGTTTATA
1 ATAGTTTATA
12533 CATACATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (17 bp):
ATAGTTTATATATATAC
Found at i:12641 original size:535 final size:547
Alignment explanation
Indices: 11900--12900 Score: 1564
Period size: 535 Copynumber: 1.8 Consensus size: 547
11890 AAGGTTTAAG
11900 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATACACTAT
1 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATACACTAT
*
11965 ACTATACATAATTATGCATACATATTAAATAAAAATGTTTAATAAATTTTAAAAAATAATTTAAA
66 ACTATACATAATTAT-CATACA-ATTAAAT---AATGTATAATAAATTTTAAAAAATAATTTAAA
12030 TGTAAATTACAAAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATA
126 TGTAAATTACAAAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATA
12095 TGGTACATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATG
191 TGGTACATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATG
* *
12160 TTAGGTTAATTCACATTAATAGCCCATTGATTTTGTTGTTATGAATAAGTAATAATAAAACTCAA
256 TTAGGTTAATTCACATTAATAGCCAATTGATTTTGTTGTTATGAATAAGTAATAATAAAACCCAA
* *
12225 AAATAAGTCTATTTGAATTAGTGCTAGTCCATTTACATTAGTTTATATAGGCCCAATACATAAGC
321 AAATAAGTCCATTTGAATTAGTGCTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGC
* * * *
12290 TCACTCTTTGATTACAAATATATATGCATTAGTACTAGTCCATTTACATTAGGGTTTGTGATCTA
386 CCACTCTTTGATTA-AAA-ATATATACATCAGTACTAGTCCATTTACATTAGGGTTTATGATCTA
*
12355 GGGTTTAGGGTTTATGATTTAAAGTTTAGTGTTTAGGGTTTAGGGTTTATGATTTTTATAAACTA
449 GGGTTTAAGGTTTATGATTTAAAGTTTAGTGTTTAGGGTTTAGGGTTTATGATTTTTATAAACTA
12420 TATACTTTATTACTTTATATAGTTTATGCATAGT
514 TATACTTTATTACTTTATATAGTTTATGCATAGT
*
12454 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTT-TATATATATATATAGT-T-TA-TA
1 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATATATA-TATACACTA
* ** *
12515 TATTATACATGGTT-T-ATAC-A-TACAT-AT-TAT-ATAAA-TTTAAAAAA-AA-TTAAATGTA
65 TACTATACATAATTATCATACAATTAAATAATGTATAATAAATTTTAAAAAATAATTTAAATGTA
* *
12570 AATTATATAAAACATGATTAATTAGGTGTT-AATAATTAGTATGTCACATTGCATATTATATGGT
130 AATTACAAAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGT
*
12634 TCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAG
195 ACATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAG
* *
12699 GTTAATTCACATTAATAGCCAATTTATTTTGTTGTTATGAATATGTAATAATAAAACCCAAAAAT
260 GTTAATTCACATTAATAGCCAATTGATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAAT
* * * *
12764 AAGTCCATTTGCATTAGTGTTAGTCCATTTACATTAGTTTACATAGGCTCAATACATTAGCCCAC
325 AAGTCCATTTGAATTAGTGCTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCAC
* * * * *
12829 TCTTTTATTAAAAATATATACATCAGTGCTAGTCCATTTATATTAGGGTTTATGGTTTAGGGTTT
390 TCTTTGATTAAAAATATATACATCAGTACTAGTCCATTTACATTAGGGTTTATGATCTAGGGTTT
12894 AAGGTTT
455 AAGGTTT
12901 TTATAAACTA
Statistics
Matches: 417, Mismatches: 29, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
533 51 0.12
534 3 0.01
535 226 0.54
536 37 0.09
537 2 0.00
538 9 0.02
539 5 0.01
540 2 0.00
541 2 0.00
545 4 0.01
546 1 0.00
548 4 0.01
550 1 0.00
551 13 0.03
552 1 0.00
553 15 0.04
554 41 0.10
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (547 bp):
GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATACACTAT
ACTATACATAATTATCATACAATTAAATAATGTATAATAAATTTTAAAAAATAATTTAAATGTAA
ATTACAAAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTA
CATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGG
TTAATTCACATTAATAGCCAATTGATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATA
AGTCCATTTGAATTAGTGCTAGTCCATTTACATTAGTTTACATAGGCCCAATACATAAGCCCACT
CTTTGATTAAAAATATATACATCAGTACTAGTCCATTTACATTAGGGTTTATGATCTAGGGTTTA
AGGTTTATGATTTAAAGTTTAGTGTTTAGGGTTTAGGGTTTATGATTTTTATAAACTATATACTT
TATTACTTTATATAGTTTATGCATAGT
Found at i:12890 original size:14 final size:14
Alignment explanation
Indices: 12871--12900 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12861 TCCATTTATA
*
12871 TTAGGGTTTATGGT
1 TTAGGGTTTAAGGT
12885 TTAGGGTTTAAGGT
1 TTAGGGTTTAAGGT
12899 TT
1 TT
12901 TTATAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:12944 original size:15 final size:16
Alignment explanation
Indices: 12926--12976 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
12916 TTTATTACTT
12926 TATATA-ATTTATATA
1 TATATAGATTTATATA
*
12941 TATATAGGTTATATATA
1 TATATAGATT-TATATA
*
12958 TATATATAGTTTATATA
1 TATATAGA-TTTATATA
12975 TA
1 TA
12977 CCATACATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 20 0.67
18 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TATATAGATTTATATA
Found at i:12959 original size:19 final size:19
Alignment explanation
Indices: 12935--12976 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
12925 TTATATAATT
12935 TATATATATATAGGTTATA
1 TATATATATATAGGTTATA
*
12954 TATATATATATAGTTTATA
1 TATATATATATAGGTTATA
12973 TATA
1 TATA
12977 CCATACATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TATATATATATAGGTTATA
Found at i:13204 original size:8 final size:8
Alignment explanation
Indices: 13193--13558 Score: 672
Period size: 8 Copynumber: 46.5 Consensus size: 8
13183 TAATATAAAT
13193 TACACGCA
1 TACACGCA
13201 TACACGCA
1 TACACGCA
13209 TACACGCA
1 TACACGCA
13217 TACACGCA
1 TACACGCA
13225 TACACGCA
1 TACACGCA
13233 TACACGCA
1 TACACGCA
13241 TACACGCA
1 TACACGCA
13249 TACACGCA
1 TACACGCA
13257 TACACGCA
1 TACACGCA
13265 TACACGCA
1 TACACGCA
13273 TACACGCA
1 TACACGCA
13281 TACACG--
1 TACACGCA
13287 --CACGCA
1 TACACGCA
13293 TACACGCA
1 TACACGCA
13301 TACACGCA
1 TACACGCA
13309 TACACGCA
1 TACACGCA
13317 TACACGCA
1 TACACGCA
13325 TACACGCA
1 TACACGCA
13333 TACACGCA
1 TACACGCA
13341 TACACGCA
1 TACACGCA
13349 TACACGCA
1 TACACGCA
13357 TACACGCA
1 TACACGCA
13365 TACACGCA
1 TACACGCA
13373 TACACGCA
1 TACACGCA
13381 TACACGCA
1 TACACGCA
13389 TACACGCA
1 TACACGCA
13397 TACACGCA
1 TACACGCA
13405 TACACGCA
1 TACACGCA
13413 TACACGCA
1 TACACGCA
13421 TACACGCA
1 TACACGCA
13429 TACACGCA
1 TACACGCA
13437 TACACGCA
1 TACACGCA
13445 TACACGCA
1 TACACGCA
13453 TACACGCA
1 TACACGCA
13461 TACACGCA
1 TACACGCA
13469 TACACGCA
1 TACACGCA
13477 TACACGCA
1 TACACGCA
13485 TACACGCA
1 TACACGCA
13493 TACACGCA
1 TACACGCA
13501 TACACGCA
1 TACACGCA
13509 TACACGCA
1 TACACGCA
13517 TACACGCA
1 TACACGCA
13525 TACACGCA
1 TACACGCA
13533 TACA--CA
1 TACACGCA
*
13539 TACACACA
1 TACACGCA
*
13547 TACACACA
1 TACACGCA
13555 TACA
1 TACA
13559 TACACATACA
Statistics
Matches: 352, Mismatches: 0, Indels: 12
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.01
6 6 0.02
8 342 0.97
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.13
Consensus pattern (8 bp):
TACACGCA
Found at i:13292 original size:12 final size:12
Alignment explanation
Indices: 13275--13300 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13265 TACACGCATA
13275 CACGCATACACG
1 CACGCATACACG
13287 CACGCATACACG
1 CACGCATACACG
13299 CA
1 CA
13301 TACACGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.42, G:0.15, T:0.08
Consensus pattern (12 bp):
CACGCATACACG
Found at i:13561 original size:4 final size:4
Alignment explanation
Indices: 13536--13670 Score: 183
Period size: 4 Copynumber: 35.2 Consensus size: 4
13526 ACACGCATAC
* * * * *
13536 ACAT ACAC ACAT ACAC ACAT ACAT ACAC ATAC ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
13584 ACAT AC-- ACAT ACAT ACAT ACAT --AT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
13626 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
13671 TATAATTAAA
Statistics
Matches: 117, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
2 6 0.05
4 111 0.95
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:13927 original size:20 final size:20
Alignment explanation
Indices: 13884--13924 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13874 AATTTTTCTA
* *
13884 TTCCCTCTAATTTTCTCAAT
1 TTCCCTCTAATATTCACAAT
13904 TTCCCTCTAA-ATTCACAAT
1 TTCCCTCTAATATTCACAAT
13923 TT
1 TT
13925 TCCTATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.46
Consensus pattern (20 bp):
TTCCCTCTAATATTCACAAT
Found at i:14046 original size:2 final size:2
Alignment explanation
Indices: 14039--14071 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14029 CACTTTGAAT
14039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14072 TAATATAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14419 original size:18 final size:18
Alignment explanation
Indices: 14396--14454 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
14386 TCATATAAAC
14396 ATAATATATATATAGTTT
1 ATAATATATATATAGTTT
14414 ATAATA-AT-TATAGTTT
1 ATAATATATATATAGTTT
*
14430 ATAATATAAATATAGTTT
1 ATAATATATATATAGTTT
14448 AT-ATATA
1 ATAATATA
14455 ACTTATATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
16 14 0.37
17 8 0.21
18 16 0.42
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
ATAATATATATATAGTTT
Found at i:14461 original size:18 final size:17
Alignment explanation
Indices: 14406--14472 Score: 84
Period size: 18 Copynumber: 3.9 Consensus size: 17
14396 ATAATATATA
14406 TATAGTTTATA-ATAAT
1 TATAGTTTATATATAAT
*
14422 TATAGTTTATAATATAAA
1 TATAGTTTAT-ATATAAT
14440 TATAGTTTATATATAACT
1 TATAGTTTATATATAA-T
14458 TATA-TTATATATATA
1 TATAGTT-TATATATA
14473 TGTTTTTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.22
17 9 0.20
18 26 0.58
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (17 bp):
TATAGTTTATATATAAT
Found at i:14940 original size:209 final size:210
Alignment explanation
Indices: 14540--15041 Score: 645
Period size: 209 Copynumber: 2.4 Consensus size: 210
14530 CATTTTGCAT
* * * * * *
14540 TTATTTTGATTTCATCCTTTTGTGTTTTTTAATTTATTTCAATTTTAAGTCTT-TCATTTTATAT
1 TTATTTTGATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTAA-T-TTGTAATTTCATAT
* * * * ** * * ** *
14604 GTATTCAATTTAGTTCTTAAATTTATATTTGCATCTTCATTTGACCTATTGTTAGTTGTTATTTA
64 TTGTTCAATTTAGTCCTCAAATTTATATTTGCATCTGAAATTGACCCATACTTAGTTCTTATTTA
14669 TATTTTCGTAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTCTTTTTTTATATTAATTTC
129 TATTTTCGTAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTCTTTTTTTATATTAATTTC
14734 AACCTCACAATTTAAAA
194 AACCTCACAATTTAAAA
*
14751 TTATTTTGATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTT
1 TTATTTTGATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTT
14816 GTTCAATTTAGTCCTCCAAA-TTATATTTGCATCTGAAATTGACCCATACTTA-TTACTTATTTA
66 GTTCAATTTAGTCCT-CAAATTTATATTTGCATCTGAAATTGACCCATACTTAGTT-CTTATTTA
** * *
14879 -ATTTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTAC-TTTTTTGTATTAATTT
129 TATTTTCGTAATTGACCCATAACTTTTTAAATGGGTATAATTTAGT-CTTTTTTTATATTAATTT
14942 CAACCTCACAATTTAAAA
193 CAACCTCACAATTTAAAA
**
14960 TTATTTCAATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTT
1 TTATTTTGATTTGAT-CC-C-T---T-TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTT
15025 CATATTTGTTCAATTTA
59 CATATTTGTTCAATTTA
15042 ATTCTTACAT
Statistics
Matches: 255, Mismatches: 25, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
209 92 0.36
210 60 0.24
211 47 0.18
212 1 0.00
215 1 0.00
216 54 0.21
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (210 bp):
TTATTTTGATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTT
GTTCAATTTAGTCCTCAAATTTATATTTGCATCTGAAATTGACCCATACTTAGTTCTTATTTATA
TTTTCGTAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTCTTTTTTTATATTAATTTCAA
CCTCACAATTTAAAA
Found at i:15498 original size:59 final size:59
Alignment explanation
Indices: 15435--15617 Score: 171
Period size: 59 Copynumber: 3.1 Consensus size: 59
15425 CCAAGAGCCA
15435 ACCTGATATGAGTCGAATCATCAAATTTACCTGACTTGACTTGTATCCGATTTTACCCG
1 ACCTGATATGAGTCGAATCATCAAATTTACCTGACTTGACTTGTATCCGATTTTACCCG
* * * * * * * **
15494 ACCTGATAGGA-TCCGACTGAAACCTGAATGATTACCCGACTTGATTTG-A-CC-A--GGACCCG
1 ACCTGATATGAGT-CGAAT--CATC-AAAT--TTACCTGACTTGACTTGTATCCGATTTTACCCG
* *
15553 ACCTGATATGAGTCAAAGCATCAAATTTACCTGACTTGACTTGTATCCGATTTTACCCG
1 ACCTGATATGAGTCGAATCATCAAATTTACCTGACTTGACTTGTATCCGATTTTACCCG
15612 ACCTGA
1 ACCTGA
15618 CAGGATCCGA
Statistics
Matches: 92, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
54 15 0.16
55 1 0.01
56 5 0.05
57 3 0.03
58 1 0.01
59 42 0.46
60 1 0.01
61 3 0.03
62 5 0.05
63 1 0.01
64 15 0.16
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (59 bp):
ACCTGATATGAGTCGAATCATCAAATTTACCTGACTTGACTTGTATCCGATTTTACCCG
Found at i:15579 original size:118 final size:118
Alignment explanation
Indices: 15409--15650 Score: 430
Period size: 118 Copynumber: 2.1 Consensus size: 118
15399 CCTGAAAATG
* * *
15409 ACCCGACTTGATTTGACCAAGAGCCAACCTGATATGAGTCGAATCATCAAATTTACCTGACTTGA
1 ACCCGACTTGATTTGACCAAGACCCAACCTGATATGAGTCAAAGCATCAAATTTACCTGACTTGA
*
15474 CTTGTATCCGATTTTACCCGACCTGATAGGATCCGACTGAAACCTGAATGATT
66 CTTGTATCCGATTTTACCCGACCTGACAGGATCCGACTGAAACCTGAATGATT
* *
15527 ACCCGACTTGATTTGACCAGGACCCGACCTGATATGAGTCAAAGCATCAAATTTACCTGACTTGA
1 ACCCGACTTGATTTGACCAAGACCCAACCTGATATGAGTCAAAGCATCAAATTTACCTGACTTGA
15592 CTTGTATCCGATTTTACCCGACCTGACAGGATCCGACTGAAACCTGAATGATT
66 CTTGTATCCGATTTTACCCGACCTGACAGGATCCGACTGAAACCTGAATGATT
15645 ACCCGA
1 ACCCGA
15651 TTTTACATCC
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (118 bp):
ACCCGACTTGATTTGACCAAGACCCAACCTGATATGAGTCAAAGCATCAAATTTACCTGACTTGA
CTTGTATCCGATTTTACCCGACCTGACAGGATCCGACTGAAACCTGAATGATT
Found at i:18120 original size:24 final size:24
Alignment explanation
Indices: 18073--18121 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
18063 AAAAAATCCT
*
18073 AAAATAATTATAATTTTTAATAAA
1 AAAATAATTATAATTCTTAATAAA
*
18097 AAAATTAATTAT-ATTCTTATTAAA
1 AAAA-TAATTATAATTCTTAATAAA
18121 A
1 A
18122 TTTAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAATAATTATAATTCTTAATAAA
Found at i:27837 original size:14 final size:14
Alignment explanation
Indices: 27795--27837 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
27785 ACGGTCAACG
27795 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
*
27809 ATCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
27823 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
27837 G
1 G
27838 ACCGGTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.09, C:0.21, G:0.49, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:27844 original size:14 final size:14
Alignment explanation
Indices: 27797--27844 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
27787 GGTCAACGGT
27797 CGGGTCGGGTCA-A
1 CGGGTCGGGTCAGA
*
27810 TCGGGTCGGGTCAGT
1 -CGGGTCGGGTCAGA
27825 CGGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
*
27839 CCGGTC
1 CGGGTC
27845 AAATCGGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.10, C:0.25, G:0.46, T:0.19
Consensus pattern (14 bp):
CGGGTCGGGTCAGA
Found at i:27851 original size:19 final size:19
Alignment explanation
Indices: 27829--27881 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
27819 GTCAGTCGGG
27829 TCGGGTCAGACCGGTCAAA
1 TCGGGTCAGACCGGTCAAA
* * *
27848 TCGGTTGAAACCGGTCAAA
1 TCGGGTCAGACCGGTCAAA
*
27867 -CCGGTCAGAACCGGT
1 TCGGGTCAG-ACCGGT
27882 TGAAAACTGG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.17
Consensus pattern (19 bp):
TCGGGTCAGACCGGTCAAA
Found at i:27878 original size:10 final size:9
Alignment explanation
Indices: 27832--27901 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
27822 AGTCGGGTCG
*
27832 GGTCAGACC
1 GGTCAAACC
*
27841 GGTCAAATC
1 GGTCAAACC
*
27850 GGTTGAAACC
1 GG-TCAAACC
27860 GGTCAAACC
1 GGTCAAACC
27869 GGTCAGAACC
1 GGTCA-AACC
* *
27879 GGTTGAAAACT
1 GG-T-CAAACC
27890 GGTCAAACC
1 GGTCAAACC
27899 GGT
1 GGT
27902 TTCCAGCCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
9 27 0.56
10 14 0.29
11 6 0.12
12 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:27896 original size:30 final size:28
Alignment explanation
Indices: 27832--27901 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
27822 AGTCGGGTCG
* *
27832 GGTCAGACCGGTCAAATCGGTTGAAACC
1 GGTCAAACCGGTCAAACCGGTTGAAACC
*
27860 GGTCAAACCGGTCAGAACCGGTTGAAAACT
1 GGTCAAACCGGTCA-AACCGGTTG-AAACC
27890 GGTCAAACCGGT
1 GGTCAAACCGGT
27902 TTCCAGCCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 13 0.35
29 8 0.22
30 16 0.43
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (28 bp):
GGTCAAACCGGTCAAACCGGTTGAAACC
Found at i:27900 original size:20 final size:21
Alignment explanation
Indices: 27864--27902 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27854 GAAACCGGTC
27864 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
*
27885 AAACTGGTCA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
27903 TCCAGCCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:34186 original size:9 final size:9
Alignment explanation
Indices: 34166--34215 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
34156 AGTCAGGTTG
*
34166 GGTCAGACC
1 GGTCAAACC
*
34175 GGTCAAATC
1 GGTCAAACC
*
34184 GGTTCATACC
1 GG-TCAAACC
34194 GGTCAAACC
1 GGTCAAACC
34203 GGTCAGAACC
1 GGTCA-AACC
34213 GGT
1 GGT
34216 TGAAAATCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (9 bp):
GGTCAAACC
Found at i:34213 original size:19 final size:18
Alignment explanation
Indices: 34166--34215 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
34156 AGTCAGGTTG
*
34166 GGTCAGACCGGTCAAATC
1 GGTCAGACCGGTCAAACC
*
34184 GGTTCATACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
34203 GGTCAGAACCGGT
1 GGTCAG-ACCGGT
34216 TGAAAATCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:35525 original size:44 final size:44
Alignment explanation
Indices: 35450--35554 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 44
35440 AATGACCCAC
* * * * *
35450 CTCCTTCTATAATGGATTCGAGCCAAATGGTGGTGCTGA-TCCAA
1 CTCCTTCTGTGATGGAATCGAGACAAATGGTGATG-TGATTCCAA
* *
35494 CTCCTTCTGTGATGGAATCGA-ACAAACTGGTGATGTTATTCCAC
1 CTCCTTCTGTGATGGAATCGAGACAAA-TGGTGATGTGATTCCAA
*
35538 CTCATTCTGTGATGGAA
1 CTCCTTCTGTGATGGAA
35555 ATGAGCAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 6 0.12
44 45 0.88
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (44 bp):
CTCCTTCTGTGATGGAATCGAGACAAATGGTGATGTGATTCCAA
Found at i:35571 original size:44 final size:44
Alignment explanation
Indices: 35489--35574 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
35479 GTGGTGCTGA
* *
35489 TCCAACTCCTTCTGTGATGGAATCGAACAAACTGGTGATGTTAT
1 TCCAACTCATTCTGTGATGGAATCGAACAAAATGGTGATGTTAT
* * *
35533 TCCACCTCATTCTGTGATGGAAAT-GAGCAAAATTGTGATGTT
1 TCCAACTCATTCTGTGATGG-AATCGAACAAAATGGTGATGTT
35575 GATCTACCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 33 0.92
45 3 0.08
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (44 bp):
TCCAACTCATTCTGTGATGGAATCGAACAAAATGGTGATGTTAT
Found at i:37682 original size:24 final size:24
Alignment explanation
Indices: 37666--37711 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
37656 CATTTTTCTT
37666 GCACCACTTATTCTCATTGCTCTA
1 GCACCACTTATTCTCATTGCTCTA
* *
37690 GCATCACTTATTCTCCTTGCTC
1 GCACCACTTATTCTCATTGCTC
37712 GAGCTTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.35, G:0.09, T:0.39
Consensus pattern (24 bp):
GCACCACTTATTCTCATTGCTCTA
Found at i:48035 original size:21 final size:23
Alignment explanation
Indices: 48000--48060 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
47990 TTGCTGCAGA
*
48000 GGGAATCGA-TCCCCCCATG-A-
1 GGGAACCGATTCCCCCCATGAAG
* **
48020 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCATGAAG
48043 GGGAACCGATTCCCCCCA
1 GGGAACCGATTCCCCCCA
48061 CAGGGGAATC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 7 0.23
21 8 0.26
22 1 0.03
23 15 0.48
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCATGAAG
Found at i:50067 original size:16 final size:17
Alignment explanation
Indices: 50026--50068 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
50016 TTTTAACATT
*
50026 TTGAATATTTTGGAATGT
1 TTGAAT-TTTTGGAATGA
*
50044 TTGAATTTTTGGATTGA
1 TTGAATTTTTGGAATGA
50061 TTG-ATTTT
1 TTGAATTTT
50069 GAATTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 5 0.22
17 12 0.52
18 6 0.26
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (17 bp):
TTGAATTTTTGGAATGA
Found at i:52362 original size:58 final size:58
Alignment explanation
Indices: 52237--52618 Score: 613
Period size: 58 Copynumber: 6.6 Consensus size: 58
52227 TATATAGAAT
* * *
52237 TTCATACACTTAGTATGAATTTTTTAACATTTTTGCACACCAAGTGCACAATACGGAAA
1 TTCATACACTTAGTATGAATTTCTTAACA-TTTTGCACACGAAGTGCCCAATACGGAAA
* * * *
52296 TCCATACACTTAGTATAAATTTCTTAACATTTTACACACGAAGTGCCCAATACGGAAC
1 TTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACGGAAA
*
52354 TTCATACACTTAGTATGAATTTCTTAACA-TTTGCACACGAAGTGCCCAATACAGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACGGAAA
* * *
52411 TTCATGCACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCTAATATGGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACGGAAA
*
52469 TTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATATGGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACGGAAA
* *
52527 TTCATACACTTAGTATGAATTTCTTAACATTTTGCACATGAAATGCCCAATACGGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACGGAAA
*
52585 TTCATACACTTAGTATGAATTTCTTAACAATTTG
1 TTCATACACTTAGTATGAATTTCTTAACATTTTG
52619 TTAATAACCA
Statistics
Matches: 300, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
57 53 0.18
58 221 0.74
59 26 0.09
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (58 bp):
TTCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACGGAAA
Found at i:52533 original size:173 final size:174
Alignment explanation
Indices: 52232--52618 Score: 616
Period size: 173 Copynumber: 2.2 Consensus size: 174
52222 TTTCCTATAT
* *
52232 AGAATTTCATACACTTAGTATGAATTTTTTAACATTTTTGCACACCAAGTGCACAATACGGAAAT
1 AGAAATTCATACACTTAGTATGAATTTCTTAACA-TTTTGCACACCAAGTGCACAATACGGAAAT
*
52297 CCATACACTTAGTATAAATTTCTTAACATTTTACACACGAAGTGCCCAATACGGAACTTCATACA
65 CCATACACTTAGTATAAATTTCTTAACATTTTACACACGAAGTGCCCAATACGGAAATTCATACA
*
52362 CTTAGTATGAATTTCTTAACA-TTTGCACACGAAGTGCCCAATAC
130 CTTAGTATGAATTTCTTAACATTTTGCACACGAAATGCCCAATAC
* * *
52406 AGAAATTCATGCACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGC-CTAATATGGAAAT
1 AGAAATTCATACACTTAGTATGAATTTCTTAACATTTTGCACACCAAGTGCAC-AATACGGAAAT
* * * *
52470 TCATACACTTAGTATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATATGGAAATTCATACA
65 CCATACACTTAGTATAAATTTCTTAACATTTTACACACGAAGTGCCCAATACGGAAATTCATACA
*
52535 CTTAGTATGAATTTCTTAACATTTTGCACATGAAATGCCCAATAC
130 CTTAGTATGAATTTCTTAACATTTTGCACACGAAATGCCCAATAC
* *
52580 GGAAATTCATACACTTAGTATGAATTTCTTAACAATTTG
1 AGAAATTCATACACTTAGTATGAATTTCTTAACATTTTG
52619 TTAATAACCA
Statistics
Matches: 196, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
172 1 0.01
173 107 0.55
174 88 0.45
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (174 bp):
AGAAATTCATACACTTAGTATGAATTTCTTAACATTTTGCACACCAAGTGCACAATACGGAAATC
CATACACTTAGTATAAATTTCTTAACATTTTACACACGAAGTGCCCAATACGGAAATTCATACAC
TTAGTATGAATTTCTTAACATTTTGCACACGAAATGCCCAATAC
Found at i:53106 original size:94 final size:94
Alignment explanation
Indices: 52936--53107 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 94
52926 AGGCTCTTCA
* * * * * * *
52936 GTATTGATACCCCTACCATGGTATCAATACTACTATACTATGGTACTGATACCCCTTCCGGTATT
1 GTATCGATACCCCTAACATGGTATCAATACTACCATAATATGGTACTGATACCCCCTACGGTATC
*
53001 GATACCAATTTTAGATTCGATGATACCTG
66 GAAACCAATTTTAGATTCGATGATACCTG
* ** *
53030 GTATCGATACCCTTAACATGGTATTGATACTACCATAATATGGTACTGATACCCTCCTATGGTAT
1 GTATCGATACCCCTAACATGGTATCAATACTACCATAATATGGTACTGATACCC-CCTACGGTAT
*
53095 CGAAACCATTTTT
65 CGAAACCAATTTT
53108 GCATTATGTG
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
94 47 0.73
95 17 0.27
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (94 bp):
GTATCGATACCCCTAACATGGTATCAATACTACCATAATATGGTACTGATACCCCCTACGGTATC
GAAACCAATTTTAGATTCGATGATACCTG
Found at i:59552 original size:58 final size:58
Alignment explanation
Indices: 59378--59746 Score: 517
Period size: 58 Copynumber: 6.4 Consensus size: 58
59368 CTTTTTTGCA
* *
59378 TATGAATTTCTTGACATTTTTGCACACGAAGTGCCCAATACGGAAATTCATACACTTAG
1 TATGAATTTCTTAACA-TTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTAG
* * * *
59437 TATGAATTTCTTAACA-TTTGTACACGAATTGCCCAATACTA-AAATTTATATACTTAG
1 TATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATAC-AGAAATTCATACACTTAG
* * * * *
59494 TATGAATTTCTTAACATTTTCCACATGAAGTGCCCAATATACAAATTTATACACTTAG
1 TATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTAG
* * * *
59552 TATGAAATTCTTAACATTTTGCACACGACGAGCCCAATACGGAAATTCATACACTTAG
1 TATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTAG
* *
59610 TATGAATTTCTTAACATTTTGCACACGAAGTGTCCAATACAGAAATTCATACACTTAC
1 TATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTAG
* *
59668 TATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACGGAAATTCGTACACTTAG
1 TATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTAG
* *
59726 TATGAATTTTTTAACAATTTG
1 TATGAATTTCTTAACATTTTG
59747 GTAATAACCA
Statistics
Matches: 274, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
57 52 0.19
58 207 0.76
59 15 0.05
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (58 bp):
TATGAATTTCTTAACATTTTGCACACGAAGTGCCCAATACAGAAATTCATACACTTAG
Found at i:60205 original size:22 final size:20
Alignment explanation
Indices: 60153--60231 Score: 74
Period size: 19 Copynumber: 4.0 Consensus size: 20
60143 AGATTTGATG
60153 ATACC-TGGTATCGATACCC
1 ATACCATGGTATCGATACCC
*
60172 TTACCATGGTATCGATACTACC
1 ATACCATGGTATCGATAC--CC
* *
60194 ATACTATGGTATTGATACCC
1 ATACCATGGTATCGATACCC
*
60214 -T-CCTATGGTATCAATACC
1 ATACC-ATGGTATCGATACC
60232 ATTTTTGCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
18 1 0.02
19 17 0.35
20 14 0.29
22 17 0.35
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (20 bp):
ATACCATGGTATCGATACCC
Found at i:60305 original size:20 final size:20
Alignment explanation
Indices: 60255--60305 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
60245 GTGTTCAAAA
*
60255 TGGTATCGATACCTTCCCTT
1 TGGTATCGATACCTCCCCTT
* * *
60275 CGATATTGATA-CTCCCCCTT
1 TGGTATCGATACCT-CCCCTT
60295 TGGTATCGATA
1 TGGTATCGATA
60306 TTGATTGAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (20 bp):
TGGTATCGATACCTCCCCTT
Found at i:64078 original size:20 final size:20
Alignment explanation
Indices: 64053--64120 Score: 90
Period size: 16 Copynumber: 3.5 Consensus size: 20
64043 GTGTCGAAGG
64053 GTATCCATACACCCTGCAGT
1 GTATCCATACACCCTGCAGT
64073 GTATCCATACA--CTG--GT
1 GTATCCATACACCCTGCAGT
*
64089 GTATCGATACACCCTGCAGGT
1 GTATCCATACACCCTGCA-GT
64110 GTATCCATACA
1 GTATCCATACA
64121 ACTATGATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
16 12 0.29
18 6 0.15
20 11 0.27
21 12 0.29
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (20 bp):
GTATCCATACACCCTGCAGT
Found at i:64215 original size:36 final size:36
Alignment explanation
Indices: 64153--64221 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
64143 ATACAAATAG
* *
64153 TGTACCGATACACCTATGAGTTTATCCCTACACTAA
1 TGTACCGATACACCTATGAGTGTATCCATACACTAA
* *
64189 TGTATCGATACACC-CTGTAGTGTATCCATACAC
1 TGTACCGATACACCTATG-AGTGTATCCATACAC
64222 CTTGGCTGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 2 0.07
36 26 0.93
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (36 bp):
TGTACCGATACACCTATGAGTGTATCCATACACTAA
Found at i:64291 original size:21 final size:21
Alignment explanation
Indices: 64265--64305 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64255 TTTGAATTTA
*
64265 ATGAAGGTGTACCGATACCCT
1 ATGAAGGGGTACCGATACCCT
*
64286 ATGAAGGGGTATCGATACCC
1 ATGAAGGGGTACCGATACCC
64306 CATGTTATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
ATGAAGGGGTACCGATACCCT
Found at i:67231 original size:22 final size:21
Alignment explanation
Indices: 67187--67231 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
67177 TATATTTTCC
*
67187 AACAATTGATATCCTTTTGTT
1 AACAATTGATATCCTTTTATT
* *
67208 AACAATTGGTATCTTTTTTATT
1 AACAATTGATATC-CTTTTATT
67230 AA
1 AA
67232 ACATTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (21 bp):
AACAATTGATATCCTTTTATT
Found at i:67558 original size:36 final size:36
Alignment explanation
Indices: 67510--67581 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
67500 CAAATGCAAA
**
67510 TAGTGTACCGATACACCTAT-TAGTGTGTCCATACAC
1 TAGTGTACCGATACACCT-TGTAGTGCATCCATACAC
*
67546 TAGTGTATCGATACACCTTGTAGTGCATCCATACAC
1 TAGTGTACCGATACACCTTGTAGTGCATCCATACAC
67582 CTTGGTTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
TAGTGTACCGATACACCTTGTAGTGCATCCATACAC
Found at i:67579 original size:20 final size:20
Alignment explanation
Indices: 67546--67585 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
67536 GTCCATACAC
* *
67546 TAGTGTATCGATACACCTTG
1 TAGTGCATCCATACACCTTG
67566 TAGTGCATCCATACACCTTG
1 TAGTGCATCCATACACCTTG
67586 GTTGCAACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (20 bp):
TAGTGCATCCATACACCTTG
Found at i:67641 original size:21 final size:21
Alignment explanation
Indices: 67615--67655 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67605 TTTGAATTTA
* *
67615 ATGAAGGTGTATCGATACCCT
1 ATGAAGGGGTACCGATACCCT
67636 ATGAAGGGGTACCGATACCC
1 ATGAAGGGGTACCGATACCC
67656 CATGTTATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
ATGAAGGGGTACCGATACCCT
Found at i:69778 original size:18 final size:18
Alignment explanation
Indices: 69757--69796 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
69747 CAATTGTAAT
69757 TTTTTATTTAATT-ATTTA
1 TTTTTA-TTAATTAATTTA
*
69775 TTTTTATTACTTAATTTA
1 TTTTTATTAATTAATTTA
69793 TTTT
1 TTTT
69797 GTTCGTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATTAATTAATTTA
Found at i:69790 original size:21 final size:21
Alignment explanation
Indices: 69756--69795 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
69746 ACAATTGTAA
*
69756 TTTTTTATTTAA-TTATTTAT
1 TTTTTTACTTAATTTATTTAT
69776 TTTTATTACTTAATTTATTT
1 TTTT-TTACTTAATTTATTT
69796 TGTTCGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTTACTTAATTTATTTAT
Found at i:75927 original size:2 final size:2
Alignment explanation
Indices: 75920--75952 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
75910 TATTTTTATT
*
75920 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75953 TTTATAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:75953 original size:12 final size:12
Alignment explanation
Indices: 75916--75958 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
75906 ATTTTATTTT
75916 TATTTATATATA
1 TATTTATATATA
75928 TA--TATATATA
1 TATTTATATATA
75938 TATTTATATATA
1 TATTTATATATA
75950 TATTT-TATA
1 TATTTATATA
75959 GTATTGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.34
11 4 0.14
12 15 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTATATATA
Found at i:76033 original size:2 final size:2
Alignment explanation
Indices: 76021--76060 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
76011 ATTTATTTGT
76021 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76061 TCACATATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:76132 original size:2 final size:2
Alignment explanation
Indices: 76120--76151 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
76110 GTACGAACTA
*
76120 AT AT TT 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
76152 GTTTTATCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:77371 original size:10 final size:10
Alignment explanation
Indices: 77335--77363 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
77325 TCCTTTACCA
77335 TTTATTTATT
1 TTTATTTATT
77345 TTTATTTATT
1 TTTATTTATT
77355 TTTATTTAT
1 TTTATTTAT
77364 CTCTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTATT
Found at i:86734 original size:8 final size:8
Alignment explanation
Indices: 86721--86775 Score: 62
Period size: 8 Copynumber: 7.2 Consensus size: 8
86711 CTAAGTTGAA
86721 AAAAAAAG
1 AAAAAAAG
86729 AAAAAAA-
1 AAAAAAAG
86736 AAAAAAA-
1 AAAAAAAG
*
86743 AAAAAAAA
1 AAAAAAAG
86751 AAAAAAAG
1 AAAAAAAG
*
86759 -GAAAAAG
1 AAAAAAAG
*
86766 AACAAAAG
1 AAAAAAAG
86774 AA
1 AA
86776 GAGAAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
7 20 0.49
8 21 0.51
ACGTcount: A:0.89, C:0.02, G:0.09, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:86763 original size:11 final size:10
Alignment explanation
Indices: 86718--86764 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
86708 GTCCTAAGTT
86718 GAAAAAAAAA
1 GAAAAAAAAA
86728 GAAAAAAAAA
1 GAAAAAAAAA
*
86738 AAAAAAAAAA
1 GAAAAAAAAA
*
86748 AAAAAAAAAA
1 GAAAAAAAAA
86758 GGAAAAA
1 -GAAAAA
86765 GAACAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
10 29 0.85
11 5 0.15
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:86764 original size:1 final size:1
Alignment explanation
Indices: 86719--86757 Score: 69
Period size: 1 Copynumber: 39.0 Consensus size: 1
86709 TCCTAAGTTG
*
86719 AAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
86758 GGAAAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:87696 original size:105 final size:105
Alignment explanation
Indices: 87514--88248 Score: 1265
Period size: 105 Copynumber: 7.0 Consensus size: 105
87504 TTTTACCCAA
87514 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
87579 AAGGGACTGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
*
87619 AGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
87684 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
** * * *
87724 AGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCATACAACACAAGTTCAACTTCACAACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
87789 AAGGGACCGTTGGTTGTCAACAAATATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
*
87829 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
87894 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
** *
87934 AGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
87999 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
* *
88039 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCGGGCAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
88104 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
** * *
88144 AGCCAATTTCCGCTTCACAACGAAAGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
88209 AAGGGACCGCTGGTTGTCAATAAACAATTTAC-CAATTTCA
66 AAGGGACCGCTGGTTGTCAACAAAC-ATTT-CTCAATTTCA
88249 ACATCGGATT
Statistics
Matches: 594, Mismatches: 34, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
105 581 0.98
106 12 0.02
107 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (105 bp):
AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
Found at i:89534 original size:2 final size:2
Alignment explanation
Indices: 89522--89574 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
89512 ATATTATTGT
89522 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
89563 TA TA TT TA TA TA
1 TA TA TA TA TA TA
89575 GTATTTATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:89620 original size:2 final size:2
Alignment explanation
Indices: 89615--89645 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
89605 TTTCGTACGA
89615 AT AT AT AT -T 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
89646 GTTTTATCCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:90397 original size:18 final size:18
Alignment explanation
Indices: 90374--90411 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
90364 TTTTTGTATG
90374 ATATGGATATAATATA-AT
1 ATATGG-TATAATATACAT
*
90392 ATATGGTTTAATATACAT
1 ATATGGTATAATATACAT
90410 AT
1 AT
90412 GTAACACCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (18 bp):
ATATGGTATAATATACAT
Found at i:92395 original size:24 final size:24
Alignment explanation
Indices: 92368--92417 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
92358 CATCAAAAAC
92368 ATTAACATTATCAACATCAACATT
1 ATTAACATTATCAACATCAACATT
* * *
92392 ATTATCCTTATCAATATCAACATT
1 ATTAACATTATCAACATCAACATT
92416 AT
1 AT
92418 CAATATCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTAACATTATCAACATCAACATT
Found at i:92435 original size:15 final size:15
Alignment explanation
Indices: 92371--92427 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
92361 CAAAAACATT
*
92371 AACATTATCAACATC
1 AACATTATCAATATC
92386 AACATTAT---TATC
1 AACATTATCAATATC
92398 --C-TTATCAATATC
1 AACATTATCAATATC
92410 AACATTATCAATATC
1 AACATTATCAATATC
92425 AAC
1 AAC
92428 TTGCTCAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
9 4 0.11
10 1 0.03
12 7 0.20
14 1 0.03
15 22 0.63
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (15 bp):
AACATTATCAATATC
Found at i:96072 original size:18 final size:18
Alignment explanation
Indices: 96049--96083 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
96039 AAAGCAATGT
*
96049 AATTAAATCAAAAACAAC
1 AATTAAATAAAAAACAAC
96067 AATTAAATAAAAAACAA
1 AATTAAATAAAAAACAA
96084 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (18 bp):
AATTAAATAAAAAACAAC
Found at i:96682 original size:20 final size:20
Alignment explanation
Indices: 96617--96687 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
96607 ATTCAAGAAA
*
96617 TATCGATACTATGCT-AGTAG
1 TATCAATACTATG-TAAGTAG
* *
96637 TATCGATACGTA-GTAAAAGCAG
1 TATCAATAC-TATGT--AAGTAG
96659 TATCAATACTATGTAAGTAG
1 TATCAATACTATGTAAGTAG
96679 TATCAATAC
1 TATCAATAC
96688 CAAGTGCACA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 1 0.02
20 24 0.56
21 4 0.09
22 14 0.33
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (20 bp):
TATCAATACTATGTAAGTAG
Found at i:100309 original size:32 final size:32
Alignment explanation
Indices: 100273--100334 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
100263 CAAAATCTTG
100273 TATTTTGACTTGCAAATCTTTAA-TCATACTTC
1 TATTTTGACTTGCAAATC-TTAATTCATACTTC
100305 TATTTTGACTTGCAAATCTTAATTCATACT
1 TATTTTGACTTGCAAATCTTAATTCATACT
100335 ATCCAGTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 4 0.14
32 25 0.86
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (32 bp):
TATTTTGACTTGCAAATCTTAATTCATACTTC
Found at i:106386 original size:90 final size:90
Alignment explanation
Indices: 106232--106412 Score: 220
Period size: 90 Copynumber: 2.0 Consensus size: 90
106222 ATGGTGGGAC
* *
106232 TGGGCATCCATCTAATAACATGACCATATGAAGGTTGAGTTAATGTTAGAGTTGGACTTAGGGTG
1 TGGGCATCCATCTAACAACATGACCATATGAAGGTTGAGCTAATGTTAGAGTTGGACTTAGGGTG
* *
106297 GTTCTATCTTGACTTGTTGTTGGGG
66 ATTCTATCTTGACTTGTTGTTAGGG
* * * * * ** * *
106322 TGGGCATCCATCTAACAACATGGCCCTGTTACGGTTGAGCTGGTGTTGGAGTTGG-CTTTGGGGT
1 TGGGCATCCATCTAACAACATGACCATATGAAGGTTGAGCTAATGTTAGAGTTGGAC-TTAGGGT
*
106386 GATTTTATCTTGACTTGTTGTTAGGG
65 GATTCTATCTTGACTTGTTGTTAGGG
106412 T
1 T
106413 AATTCCAGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
89 1 0.01
90 75 0.99
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.36
Consensus pattern (90 bp):
TGGGCATCCATCTAACAACATGACCATATGAAGGTTGAGCTAATGTTAGAGTTGGACTTAGGGTG
ATTCTATCTTGACTTGTTGTTAGGG
Found at i:115374 original size:81 final size:81
Alignment explanation
Indices: 115273--115475 Score: 187
Period size: 81 Copynumber: 2.5 Consensus size: 81
115263 TTCACTTAAA
* * * *
115273 TTGCATATTTGACACTTTTCTGTCAAATGCATAGCTAGTCCATTATTATTTTACTCAACAATGTT
1 TTGCATATTTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTATTATTTTACTCAACAATATT
115338 TAACCATTAATCTAGC
66 TAACCATTAATCTAGC
** * * **
115354 TTGCATCA-TTGACA-TCTTTCTGCCATTTGCACAGTTAGGCCATTATTCTTTTACTCAACGGTA
1 TTGCAT-ATTTGACACT-TTTCTGCCAAATGCACAGCTAGGCCATTATTATTTTACTCAACAATA
* * *
115417 TTTAACCATTCATATAAC
64 TTTAACCATTAATCTAGC
* * * * * *
115435 -TGACATAATTGACACATTCCTACCAATTGCACAGTTAGGCC
1 TTG-CATATTTGACACTTTTCTGCCAAATGCACAGCTAGGCC
115476 TCAAAGGCAC
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
80 4 0.04
81 95 0.95
82 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (81 bp):
TTGCATATTTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTATTATTTTACTCAACAATATT
TAACCATTAATCTAGC
Found at i:115534 original size:68 final size:68
Alignment explanation
Indices: 115462--115680 Score: 375
Period size: 68 Copynumber: 3.2 Consensus size: 68
115452 TCCTACCAAT
* *
115462 TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAGAAATGACACCTTTCTGTC
1 TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATTACACCTTTCTGTC
115527 AAA
66 AAA
* * *
115530 TGCACAGTTAGTCCTCAAAGGAACTTAGCCTTTCATCTAACTGGCTTAAATTACACCTTTCTGTC
1 TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATTACACCTTTCTGTC
115595 AAA
66 AAA
* *
115598 TGCACAGTTAAGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATTACACCTTTATGTC
1 TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATTACACCTTTCTGTC
115663 AAA
66 AAA
115666 TGCACAGTTAGGCCT
1 TGCACAGTTAGGCCT
115681 ATTAATATTT
Statistics
Matches: 140, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 140 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (68 bp):
TGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATTACACCTTTCTGTC
AAA
Found at i:117033 original size:59 final size:59
Alignment explanation
Indices: 115910--117006 Score: 1637
Period size: 59 Copynumber: 18.6 Consensus size: 59
115900 CAAAAATTAT
* * * *
115910 TACACTT-GTATGAGTTTCTTATC-TTTTTGCACATAAAGTGCCCAATACGAAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* * * * *
115967 CACACTTAGTATGAATTTCTTAACATTTTTGCCCACCAAGTGCTCAATACGGAAATTTA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* *
116026 TACACTTAGTATGAATTTTTTAACATTTTTGCACACAAAATGCCCAATACGGAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* *
116085 TACACTTAATATTAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* *
116144 TACACTTAGTATGAATTTCTTAACATATTTGCACACAAAGTGCCCAATACAGAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* *
116203 TACACTTAGTATGAATTTCTTAACATATTTGCACACAAAGTGCCCAATACGGAAATACA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* *
116262 TACACTTAGTATGAATTTCTTAACATATTTGCACACAAAGTGCCCAATATGGAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
** * *
116321 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGGTCAATATGGAAATCCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* * * *
116380 TACACTAAGTATGAATTTCTTAATATTTTTGCACACAAAGTGTCCAATACGGAAAATCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* * *
116439 TATACTTAGTATGAATTTCTTAACA-TTTTGCACACAAAGTACCCAATACGTAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* * *
116497 TACACTTAATATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATATGAAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* * * *
116556 CACACTTAGTAT-AGGTTTATTAACATTTTTGAACACAAAGTGCCCAATACGGAAATTCA
1 TACACTTAGTATGA-ATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* * * *
116615 TACACTTAGTATGAATTTCTTTACATTTTTGCAGACAAAGTGCCCAATATGTAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* *
116674 TACACTTAGTATGAATTTATTAACATTTTTGCACACAAAGTGTCCAATACGGAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
* * *
116733 TGCACTTAGTATGAATTTCTTAACACTTTTGCACACAAAGTGCCCAATACAGAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
***
116792 TACACTTAGTATGAATTTCTTAACATTATTTTGCACACAAAGTGCCCAATATAAAAATTCA
1 TACACTTAGTATGAATTTCTTAACA-T-TTTTGCACACAAAGTGCCCAATACGGAAATTCA
* * * *
116853 TACACTTAGTACGGATTTCTTAACATTTTTGCACGCAAAGTGCCCAATACGAAAATTCA
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
*
116912 TACAC-TACGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTAA
1 TACACTTA-GTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
116971 TACACTTAGTATGAATTTCTTAACATTTTTGCACAC
1 TACACTTAGTATGAATTTCTTAACATTTTTGCACAC
117007 CTAGAGCCAT
Statistics
Matches: 940, Mismatches: 91, Indels: 16
0.90 0.09 0.02
Matches are distributed among these distances:
57 6 0.01
58 69 0.07
59 807 0.86
60 4 0.00
61 54 0.06
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (59 bp):
TACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAATTCA
Found at i:117465 original size:17 final size:19
Alignment explanation
Indices: 117423--117459 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
117413 AGGCTCAATG
117423 TTACC-TGGTATCGATACCC
1 TTACCATGGTATCGATA-CC
117442 TTACCATGGTATCGATAC
1 TTACCATGGTATCGATAC
117460 TACCATACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (19 bp):
TTACCATGGTATCGATACC
Found at i:117482 original size:95 final size:95
Alignment explanation
Indices: 117353--117558 Score: 288
Period size: 95 Copynumber: 2.2 Consensus size: 95
117343 ACTACTCCCC
* * * * * ** *
117353 TGGTATCAATACTTCTATACTATGGTACCGATACCCCCTTCTGGTATTGATACCAATTTTAGGC-
1 TGGTATCGATACTACCATACTATGATACCAATACCCCCTTCCAGTATCGATACCAATTTTA-GCT
*
117417 TCAATGTTACCTGGTATCGATACCCTTACCA
65 TCAATGATACCTGGTATCGATACCCTTACCA
117448 TGGTATCGATACTACCATACTATGATACCAATACCCCCTTCCAGTATCGATACCAATTTTAGCTT
1 TGGTATCGATACTACCATACTATGATACCAATACCCCCTTCCAGTATCGATACCAATTTTAGCTT
* * *
117513 CGATGATGCTTGGTATCGATACCCTTACCA
66 CAATGATACCTGGTATCGATACCCTTACCA
117543 TGGTATCGATACTACC
1 TGGTATCGATACTACC
117559 TCGTCGGTAT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
94 2 0.02
95 96 0.98
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (95 bp):
TGGTATCGATACTACCATACTATGATACCAATACCCCCTTCCAGTATCGATACCAATTTTAGCTT
CAATGATACCTGGTATCGATACCCTTACCA
Found at i:119471 original size:2 final size:2
Alignment explanation
Indices: 119464--119490 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
119454 TTAGAAAAGC
119464 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
119491 CTTTCTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:119672 original size:156 final size:156
Alignment explanation
Indices: 119483--119796 Score: 583
Period size: 156 Copynumber: 2.0 Consensus size: 156
119473 ATATATATAT
*
119483 ATATATATCTTTCTAACCTAATCATCTCTAGAGACAAACAACATATATCCAATATGATCTTAATT
1 ATATATATCTTTCTAACCTAATCATCTCTAGAGACAAACAACATATACCCAATATGATCTTAATT
119548 CAATATATGACAATTCCATCAGATTCACATGGAAAATAGCCCCTGTAATATTTATTAAATGTTCA
66 CAATATATGACAATTCCATCAGATTCACATGGAAAATAGCCCCTGTAATATTTATTAAATGTTCA
*
119613 CTACTTGTCCAACTAACACTTGTACC
131 CTACCTGTCCAACTAACACTTGTACC
119639 ATATATATCTTTCTAACCTAATCATCTCTAGAGACAAACAACATATACCCAATATGATCTTAATT
1 ATATATATCTTTCTAACCTAATCATCTCTAGAGACAAACAACATATACCCAATATGATCTTAATT
* *
119704 CAATATATGACAATTCCATCAGATTCACATGGAAAATAGCCCCTGTAATCTTTATTAAATGTTTA
66 CAATATATGACAATTCCATCAGATTCACATGGAAAATAGCCCCTGTAATATTTATTAAATGTTCA
*
119769 CTACCTGTCCAACTCACACTTGTACC
131 CTACCTGTCCAACTAACACTTGTACC
119795 AT
1 AT
119797 GACCCCCTAG
Statistics
Matches: 153, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 153 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (156 bp):
ATATATATCTTTCTAACCTAATCATCTCTAGAGACAAACAACATATACCCAATATGATCTTAATT
CAATATATGACAATTCCATCAGATTCACATGGAAAATAGCCCCTGTAATATTTATTAAATGTTCA
CTACCTGTCCAACTAACACTTGTACC
Found at i:121717 original size:81 final size:81
Alignment explanation
Indices: 121624--121778 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 81
121614 ACTTGCATAT
* * * * *
121624 TTGACACTTTTCTGTCAAATGCATAGCTAGTCCATTATTCTTTTACTCAACAGT-TCTTAACTGT
1 TTGACACCTTTCTGTCAAATGCACAACTAGGCCATTATTCTTTTACTCAACAGTAT-TTAACCGT
121688 TCATCTAACTAGCATCA
65 TCATCTAACTAGCATCA
** * *
121705 TTGACACCTTTCTGTCATTTGCACAATTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTT
1 TTGACACCTTTCTGTCAAATGCACAACTAGGCCATTATTCTTTTACTCAACAGTATTTAACCGTT
121770 CATCTAACT
66 CATCTAACT
121779 GGCAGAATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 63 0.98
82 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (81 bp):
TTGACACCTTTCTGTCAAATGCACAACTAGGCCATTATTCTTTTACTCAACAGTATTTAACCGTT
CATCTAACTAGCATCA
Found at i:121888 original size:68 final size:68
Alignment explanation
Indices: 121768--121954 Score: 234
Period size: 68 Copynumber: 2.8 Consensus size: 68
121758 TATTTAACCG
* * * * * * *
121768 TTCATCTAACTGGCA-GAATTAAACATTCATGCCAAGTGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTTGCATAAATGACACATTTATGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
121832 CCT
66 CCT
* * * *
121835 TTCATCTAAC-TGACATAAATGACACCTTTCTGTCAAATGCACAATTAGGCCTCAAATGCACTTA
1 TTCATCTAACTTG-CATAAATGACACATTTATGTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
121899 GCCT
65 GCCT
* *
121903 TTCATCTAACTTGCATGAATTACACATTTATGTCAAATGCACAGTTAGGCCT
1 TTCATCTAACTTGCATAAATGACACATTTATGTCAAATGCACAGTTAGGCCT
121955 ATTAATATTT
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
66 1 0.01
67 12 0.12
68 86 0.85
69 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (68 bp):
TTCATCTAACTTGCATAAATGACACATTTATGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:122296 original size:59 final size:59
Alignment explanation
Indices: 122175--122464 Score: 356
Period size: 59 Copynumber: 4.9 Consensus size: 59
122165 TCCCATACAT
* * * * *
122175 AAATTCTTACACTTAGTATG-AGTTTCTTATC-TTTTTGCACATAAAGTGCCCAATATGG
1 AAATTCATACACTTAGTATGAATTTTCATA-CATTTTTGCACACAAAGTGCCCAATACGG
* ** * *
122233 AAATTCATACACTTAGTATAAATTTTCATACATTTTTGCACACCGAGTTCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTTCATACATTTTTGCACACAAAGTGCCCAATACGG
* *
122292 AAATTCATACACTTAGTATGAATTTGTGA-ACATTTTTGCACACAAAGTGCCCAATAAGG
1 AAATTCATACACTTAGTATGAATTT-TCATACATTTTTGCACACAAAGTGCCCAATACGG
* * *
122351 AAATTCATACACCTAGTATGAA-TTTCTAAACATTTTTGCACACAAAGTGCCCAATACTG
1 AAATTCATACACTTAGTATGAATTTTC-ATACATTTTTGCACACAAAGTGCCCAATACGG
* *
122410 AAATTCATACACTTAGTATGAATTTT-TTAGCATTTTTGCACACAAAGTGGCCAAT
1 AAATTCATACACTTAGTATGAATTTTCATA-CATTTTTGCACACAAAGTGCCCAAT
122465 TGCACACAAA
Statistics
Matches: 200, Mismatches: 25, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.00
58 23 0.12
59 171 0.86
60 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTTCATACATTTTTGCACACAAAGTGCCCAATACGG
Found at i:122344 original size:118 final size:118
Alignment explanation
Indices: 122175--122464 Score: 397
Period size: 118 Copynumber: 2.5 Consensus size: 118
122165 TCCCATACAT
* * * * *
122175 AAATTCTTACACTTAGTATGAGTTTCTTATC-TTTTTGCACATAAAGTGCCCAATATGGAAATTC
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATAAGGAAATTC
* * ** *
122239 ATACACTTAGTATAAATTT-TCATACATTTTTGCACACCGAGTTCCCAATAC-G
66 ATACACCTAGTATAAATTTCT-AAACATTTTTGCACACAAAGTGCCCAATACTG
* *
122291 AAAATTCATACACTTAGTATGAATTTGTGAACATTTTTGCACACAAAGTGCCCAATAAGGAAATT
1 -AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATAAGGAAATT
*
122356 CATACACCTAGTATGAATTTCTAAACATTTTTGCACACAAAGTGCCCAATACTG
65 CATACACCTAGTATAAATTTCTAAACATTTTTGCACACAAAGTGCCCAATACTG
* * *
122410 AAATTCATACACTTAGTATGAATTTTTTAGCATTTTTGCACACAAAGTGGCCAAT
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAAT
122465 TGCACACAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
117 26 0.17
118 125 0.82
119 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (118 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATAAGGAAATTC
ATACACCTAGTATAAATTTCTAAACATTTTTGCACACAAAGTGCCCAATACTG
Found at i:122469 original size:19 final size:19
Alignment explanation
Indices: 122445--122483 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
122435 TTTAGCATTT
*
122445 TTGCACACAAAGTGGCCAA
1 TTGCACACAAAGTGCCCAA
122464 TTGCACACAAAGTGCCCAA
1 TTGCACACAAAGTGCCCAA
122483 T
1 T
122484 AAGGAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (19 bp):
TTGCACACAAAGTGCCCAA
Found at i:122522 original size:78 final size:78
Alignment explanation
Indices: 122386--122536 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 78
122376 CTAAACATTT
** * * * *
122386 TTGCACACAAAGTGCCCAATACTGAAATTCATACACTTAGTATGAATTTTTTAGCATTTTTGCAC
1 TTGCACACAAAGTGCCCAATAAGGAAATTCATACACTTAGTATAAATTTGTTAACATTTTAGCAC
122451 ACAAAGTGGCCAA
66 ACAAAGTGGCCAA
122464 TTGCACACAAAGTGCCCAATAAGGAAATTCATACACTTAGTATAAATTTGTTAACATTTTAGCAC
1 TTGCACACAAAGTGCCCAATAAGGAAATTCATACACTTAGTATAAATTTGTTAACATTTTAGCAC
122529 ACAAAGTG
66 ACAAAGTG
122537 CCGAATACGG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (78 bp):
TTGCACACAAAGTGCCCAATAAGGAAATTCATACACTTAGTATAAATTTGTTAACATTTTAGCAC
ACAAAGTGGCCAA
Found at i:122980 original size:41 final size:39
Alignment explanation
Indices: 122895--122984 Score: 99
Period size: 41 Copynumber: 2.3 Consensus size: 39
122885 ATGGCTCTAT
* *
122895 AGTATCGATACTACTACCCTGGTACCGATACCCCCTTCC
1 AGTATCGATACTACTACCATGGTACCAATACCCCCTTCC
* * * * *
122934 GGTATCGATACTACCATACTATGGTACCAATACTCCTTTTC
1 AGTATCGATACTA-C-TACCATGGTACCAATACCCCCTTCC
122975 AGTATCGATA
1 AGTATCGATA
122985 ACAATTTTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 12 0.29
40 1 0.02
41 28 0.68
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (39 bp):
AGTATCGATACTACTACCATGGTACCAATACCCCCTTCC
Found at i:124706 original size:23 final size:22
Alignment explanation
Indices: 124631--124717 Score: 149
Period size: 22 Copynumber: 4.0 Consensus size: 22
124621 GGCACGTGCA
*
124631 AACCAA-TGAATAGTTATATTT
1 AACCAATTAAATAGTTATATTT
124652 AACCAATTAAATAGTTATATTT
1 AACCAATTAAATAGTTATATTT
124674 AACCAATTAAATAGTTATATTT
1 AACCAATTAAATAGTTATATTT
124696 AACCCAATTAAATAGTTATATT
1 AA-CCAATTAAATAGTTATATT
124718 ATCATATTAA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
21 6 0.10
22 38 0.60
23 19 0.30
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (22 bp):
AACCAATTAAATAGTTATATTT
Found at i:124727 original size:44 final size:44
Alignment explanation
Indices: 124631--124717 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 44
124621 GGCACGTGCA
*
124631 AACCAA-TGAATAGTTATATTTAACCAATTAAATAGTTATATTT
1 AACCAATTAAATAGTTATATTTAACCAATTAAATAGTTATATTT
124674 AACCAATTAAATAGTTATATTTAACCCAATTAAATAGTTATATT
1 AACCAATTAAATAGTTATATTTAA-CCAATTAAATAGTTATATT
124718 ATCATATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 6 0.15
44 16 0.39
45 19 0.46
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (44 bp):
AACCAATTAAATAGTTATATTTAACCAATTAAATAGTTATATTT
Found at i:124770 original size:20 final size:20
Alignment explanation
Indices: 124747--124794 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
124737 ACAAAAATGA
124747 TGATTATTTAGACAATTTAG
1 TGATTATTTAGACAATTTAG
*
124767 TGATTATTTGGACAATTTAG
1 TGATTATTTAGACAATTTAG
124787 TGATTATT
1 TGATTATT
124795 CATGTAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (20 bp):
TGATTATTTAGACAATTTAG
Found at i:131142 original size:2 final size:2
Alignment explanation
Indices: 131135--131177 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
131125 GTAGTGTGCG
131135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
131177 T
1 T
131178 GAACCAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:131284 original size:60 final size:59
Alignment explanation
Indices: 131219--131345 Score: 136
Period size: 59 Copynumber: 2.1 Consensus size: 59
131209 TAAACTATAT
* *
131219 AAATGGTCCTCCGATTATATG-GTGATGCTTTGTTGA-C-T-TCAACGATTATTAAAAGTTACA
1 AAATGGTCCTCCAACTATA-GAGTGATG-TTTGTTGAGCGTCTCAAC---TATTAAAAGTTACA
* * *
131279 AAATGGTCTTTCAACTATAGAGTGTTGTTTGTTGAGCGTCTCAACTATTAAAAGTTACA
1 AAATGGTCCTCCAACTATAGAGTGATGTTTGTTGAGCGTCTCAACTATTAAAAGTTACA
131338 AAATGGTC
1 AAATGGTC
131346 ACCCGATGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
59 31 0.53
60 21 0.36
61 1 0.02
62 5 0.09
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (59 bp):
AAATGGTCCTCCAACTATAGAGTGATGTTTGTTGAGCGTCTCAACTATTAAAAGTTACA
Found at i:131687 original size:60 final size:61
Alignment explanation
Indices: 131573--131700 Score: 138
Period size: 60 Copynumber: 2.1 Consensus size: 61
131563 TGACCATTTA
* * *
131573 GTAACTTTTAATAGTCAAGGGACTCAACAAAGAAACATTCTGTAGTCGAAGGACTGTTT-T
1 GTAACTTTTAATAGTCAAGGGACTCAACAAAGAAACATCCTATAGTCGAAGGACTATTTGT
** * * *
131633 GTAACTTTTAATAGTTGAGGGATTCAACAAA-ACATCATCCTATATTC-AAGGGACTATTTGT
1 GTAACTTTTAATAGTCAAGGGACTCAACAAAGA-AACATCCTATAGTCGAA-GGACTATTTGT
131694 GT-ACTTT
1 GTAACTTT
131701 ACCCTTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
59 3 0.05
60 51 0.89
61 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (61 bp):
GTAACTTTTAATAGTCAAGGGACTCAACAAAGAAACATCCTATAGTCGAAGGACTATTTGT
Found at i:132129 original size:18 final size:18
Alignment explanation
Indices: 132103--132142 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
132093 TTCAAAATCC
* *
132103 AACAGTGATGGTTCAACA
1 AACAATGATGATTCAACA
132121 AACAATGATGATTCAACA
1 AACAATGATGATTCAACA
132139 AACA
1 AACA
132143 TAAACATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.20
Consensus pattern (18 bp):
AACAATGATGATTCAACA
Found at i:138854 original size:17 final size:16
Alignment explanation
Indices: 138827--138859 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
138817 GTGCTTCAAC
138827 TTTCTTTCTTTTTCTT
1 TTTCTTTCTTTTTCTT
138843 TTTCTGTTCTTTTTCTT
1 TTTCT-TTCTTTTTCTT
138860 CCTTTTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTCTTTCTTTTTCTT
Found at i:138905 original size:23 final size:25
Alignment explanation
Indices: 138853--138907 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
138843 TTTCTGTTCT
138853 TTTTCTTCCTTTTTGAGTGGTTGCA
1 TTTTCTTCCTTTTTGAGTGGTTGCA
* *
138878 ATTTCTT-C-TTTTGAGTGCTTTG-A
1 TTTTCTTCCTTTTTGAGTG-GTTGCA
138901 TTTTCTT
1 TTTTCTT
138908 TGCTGGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 16 0.62
24 4 0.15
25 6 0.23
ACGTcount: A:0.09, C:0.15, G:0.16, T:0.60
Consensus pattern (25 bp):
TTTTCTTCCTTTTTGAGTGGTTGCA
Found at i:143093 original size:10 final size:10
Alignment explanation
Indices: 143080--143113 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
143070 GTTCTTCAAC
143080 TTTCTTTCTT
1 TTTCTTTCTT
143090 TTTCTTTTCTT
1 TTTC-TTTCTT
*
143101 TTTCTTCCTT
1 TTTCTTTCTT
143111 TTT
1 TTT
143114 GAGTGGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:143152 original size:23 final size:25
Alignment explanation
Indices: 143095--143154 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
143085 TTCTTTTTCT
* *
143095 TTTCTTTTTCTTCCTTTTTGAGTGG
1 TTTCATTTTCTTCCTTTTTGAGTGC
*
143120 TTTCAATTTCTT-C-TTTTGAGTGC
1 TTTCATTTTCTTCCTTTTTGAGTGC
*
143143 TTTGATTTTCTT
1 TTTCATTTTCTT
143155 TGCTGGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 19 0.63
24 1 0.03
25 10 0.33
ACGTcount: A:0.08, C:0.15, G:0.13, T:0.63
Consensus pattern (25 bp):
TTTCATTTTCTTCCTTTTTGAGTGC
Found at i:146659 original size:30 final size:30
Alignment explanation
Indices: 146613--146693 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
146603 CACTAAGGAA
* *
146613 AGCTCAACTTAGCTGGAGGAGCTAGCATGT
1 AGCTAAACTTAACTGGAGGAGCTAGCATGT
*
146643 AGTTAAACTTAACTGGAGGAGCTAGCATGT
1 AGCTAAACTTAACTGGAGGAGCTAGCATGT
*
146673 AGCTGAACTTAACTGGAGGAG
1 AGCTAAACTTAACTGGAGGAG
146694 AGCTTTGGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (30 bp):
AGCTAAACTTAACTGGAGGAGCTAGCATGT
Found at i:148601 original size:20 final size:20
Alignment explanation
Indices: 148578--148681 Score: 54
Period size: 18 Copynumber: 5.2 Consensus size: 20
148568 TATCTAGAGT
148578 TAATTAAATATATGTTTTAA
1 TAATTAAATATATGTTTTAA
* * **
148598 TAATCCTGAATATTTAATTT--
1 TAAT--TAAATATATGTTTTAA
*
148618 CAATTAAATATATGTTTTAA
1 TAATTAAATATATGTTTTAA
* * **
148638 TAATCCTGAATATTTAATTT--
1 TAAT--TAAATATATGTTTTAA
*
148658 CAATTAAATATATGTTTTAA
1 TAATTAAATATATGTTTTAA
148678 TAAT
1 TAAT
148682 CCTGAATATT
Statistics
Matches: 56, Mismatches: 20, Indels: 16
0.61 0.22 0.17
Matches are distributed among these distances:
18 20 0.36
20 16 0.29
22 20 0.36
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (20 bp):
TAATTAAATATATGTTTTAA
Found at i:148623 original size:40 final size:40
Alignment explanation
Indices: 148579--148704 Score: 252
Period size: 40 Copynumber: 3.1 Consensus size: 40
148569 ATCTAGAGTT
148579 AATTAAATATATGTTTTAATAATCCTGAATATTTAATTTC
1 AATTAAATATATGTTTTAATAATCCTGAATATTTAATTTC
148619 AATTAAATATATGTTTTAATAATCCTGAATATTTAATTTC
1 AATTAAATATATGTTTTAATAATCCTGAATATTTAATTTC
148659 AATTAAATATATGTTTTAATAATCCTGAATATTTAATTTC
1 AATTAAATATATGTTTTAATAATCCTGAATATTTAATTTC
148699 AATTAA
1 AATTAA
148705 TTAAATATAG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (40 bp):
AATTAAATATATGTTTTAATAATCCTGAATATTTAATTTC
Found at i:148790 original size:82 final size:81
Alignment explanation
Indices: 148698--148852 Score: 258
Period size: 82 Copynumber: 1.9 Consensus size: 81
148688 TATTTAATTT
* *
148698 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCTCC-AATATGATTAGGGTAAC
1 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-C-CCTAAAATGATTAGGATAAC
148762 TTGGATATAAGAGGATTC
64 TTGGATATAAGAGGATTC
148780 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAAAATGATTAGGATAACTT
1 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAAAATGATTAGGATAACTT
*
148845 GGCTATAA
66 GGATATAA
148853 AAGGGTGTGT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
80 2 0.03
81 25 0.36
82 42 0.61
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (81 bp):
CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAAAATGATTAGGATAACTT
GGATATAAGAGGATTC
Found at i:152477 original size:13 final size:13
Alignment explanation
Indices: 152461--152492 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
152451 GCCCCGATTA
152461 CCCGATTACCCAC
1 CCCGATTACCCAC
*
152474 CCCGATTACCCGC
1 CCCGATTACCCAC
152487 CCCGAT
1 CCCGAT
152493 ACCTGACCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.53, G:0.12, T:0.16
Consensus pattern (13 bp):
CCCGATTACCCAC
Found at i:152528 original size:2 final size:2
Alignment explanation
Indices: 152516--152627 Score: 99
Period size: 2 Copynumber: 58.5 Consensus size: 2
152506 AATATTAAAA
*
152516 AT AT TT AT AT 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 AT AT AT AT AT
* * * * *
152558 AT AT AT AT AT -T A- AT AA AT TT A- AT TT AA AT A- AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
152596 AT TT AT AT AT TT A- AT TT AA 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
152628 CCCGGCCCGA
Statistics
Matches: 86, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
1 5 0.06
2 81 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:152609 original size:25 final size:25
Alignment explanation
Indices: 152513--152627 Score: 90
Period size: 25 Copynumber: 4.6 Consensus size: 25
152503 ATAAATATTA
* * *
152513 AAAATATTTATATATATATATATAT
1 AAAATATATATATATATATTTAAAT
* * *
152538 ATATATATATATATATATATATATAT
1 A-AAATATATATATATATATTTAAAT
* * * *
152564 ATATTA-ATAAATTTA-ATTTAAAT
1 AAAATATATATATATATATTTAAAT
* *
152587 AAAATATATATTTATATATTTAATT
1 AAAATATATATATATATATTTAAAT
*
152612 TAAATATATATATATA
1 AAAATATATATATATA
152628 CCCGGCCCGA
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
23 10 0.14
24 13 0.19
25 24 0.34
26 23 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATATATATATATATATTTAAAT
Found at i:152672 original size:12 final size:12
Alignment explanation
Indices: 152641--152677 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
152631 GGCCCGATTT
152641 CGGCCCAATA-C
1 CGGCCCAATACC
*
152652 CGACCCAATACC
1 CGGCCCAATACC
152664 CGGCCCAATACC
1 CGGCCCAATACC
152676 CG
1 CG
152678 TTTAAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.27, C:0.49, G:0.16, T:0.08
Consensus pattern (12 bp):
CGGCCCAATACC
Found at i:158619 original size:19 final size:19
Alignment explanation
Indices: 158595--158631 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
158585 CATAATTTTT
158595 TTTTAATGAAAATACATGA
1 TTTTAATGAAAATACATGA
* *
158614 TTTTAATGCATATACATG
1 TTTTAATGAAAATACATG
158632 CTCTTGGCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (19 bp):
TTTTAATGAAAATACATGA
Found at i:160159 original size:20 final size:20
Alignment explanation
Indices: 160123--160160 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
160113 TTTTTATTTA
*
160123 TTTCATTTCTATTCTTATTC
1 TTTCATTTCCATTCTTATTC
160143 TTTCA-TTCCATTACTTAT
1 TTTCATTTCCATT-CTTAT
160161 ATTATTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTCATTTCCATTCTTATTC
Found at i:164762 original size:19 final size:20
Alignment explanation
Indices: 164720--164770 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
164710 GAAACCCCTT
*
164720 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTAAA
164740 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
164759 TGAAGATACATG
1 TGAAAATACATG
164771 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:168175 original size:50 final size:50
Alignment explanation
Indices: 168085--168187 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 50
168075 ATGAAGATAC
**
168085 ATCTCCCTTGGCCAAATGGTGTCATGCTTGTTCATCTTGGCACCAAAGAT
1 ATCTCCCTTGGCCAAATGGTGTCATGCTTCCTCATCTTGGCACCAAAGAT
* * * *
168135 ATCTCCCTTGGCCGAATGGTGT-AGTG-TCTCCTCATGTTGGCGCCAAAGCT
1 ATCTCCCTTGGCCAAATGGTGTCA-TGCT-TCCTCATCTTGGCACCAAAGAT
168185 ATC
1 ATC
168188 ATGTGCAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.04
50 43 0.96
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.31
Consensus pattern (50 bp):
ATCTCCCTTGGCCAAATGGTGTCATGCTTCCTCATCTTGGCACCAAAGAT
Found at i:170653 original size:22 final size:21
Alignment explanation
Indices: 170615--170656 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
170605 AACATCTCCA
170615 TTTCATCATCAACACCATCAT
1 TTTCATCATCAACACCATCAT
*
170636 TTTCATCCATCAAGACCATCA
1 TTTCAT-CATCAACACCATCA
170657 ATTCTGCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (21 bp):
TTTCATCATCAACACCATCAT
Found at i:179016 original size:15 final size:15
Alignment explanation
Indices: 178996--179028 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
178986 TGTTTCCATT
178996 TATCAT-TTATTATGA
1 TATCATGTTA-TATGA
179011 TATCATGTTATATGA
1 TATCATGTTATATGA
179026 TAT
1 TAT
179029 TCACGCAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (15 bp):
TATCATGTTATATGA
Found at i:179958 original size:179 final size:177
Alignment explanation
Indices: 179617--179969 Score: 688
Period size: 179 Copynumber: 2.0 Consensus size: 177
179607 TTATCTTAGC
179617 TTCTAGATGATCATTCATAGCCCATATCACTCAAACATCTCACGACAACGTGCATTTTACCTTAA
1 TTCTAGATGATCATTCATAGCCCATATCACTCAAACATCTCACGACAACGTGCATTTTACCTTAA
179682 ATAAGCAACACATTGCTTACTTGGTTGTTGTTGATTCCTATAGGTGAAACAGAAAGCAAGGCATA
66 ATAAGCAACACATTGCTTACTTGGTTGTTGTTGATTCCTATAGGTGAAACAGAAAGCAAGGCATA
179747 TTATGGTAGCTTGGTTAGCTAAAAGGATAAGCATTGCAGCTCACACT
131 TTATGGTAGCTTGGTTAGCTAAAAGGATAAGCATTGCAGCTCACACT
179794 TTCTAGATGATCATTCATAGCCCATATCACTCAAACATCTCACGACAACGTGCATTTTACCTTAA
1 TTCTAGATGATCATTCATAGCCCATATCACTCAAACATCTCACGACAACGTGCATTTTACCTTAA
179859 ATAAGCTAACACATTGCTTACTTGGTTGTTTGTTGATTCCTATAGGTGAAACAGAAAGCAAGGCA
66 ATAAGC-AACACATTGCTTACTTGGTTG-TTGTTGATTCCTATAGGTGAAACAGAAAGCAAGGCA
179924 TATTATGGTAGCTTGGTTAGCTAAAAGGATAAGCATTGCAGCTCAC
129 TATTATGGTAGCTTGGTTAGCTAAAAGGATAAGCATTGCAGCTCAC
179970 TAGCTCATGA
Statistics
Matches: 174, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
177 71 0.41
178 21 0.12
179 82 0.47
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (177 bp):
TTCTAGATGATCATTCATAGCCCATATCACTCAAACATCTCACGACAACGTGCATTTTACCTTAA
ATAAGCAACACATTGCTTACTTGGTTGTTGTTGATTCCTATAGGTGAAACAGAAAGCAAGGCATA
TTATGGTAGCTTGGTTAGCTAAAAGGATAAGCATTGCAGCTCACACT
Found at i:181359 original size:12 final size:12
Alignment explanation
Indices: 181339--181375 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
181329 AAAGTACTGC
181339 AACAAGAAGAAA
1 AACAAGAAGAAA
*
181351 AAGAAGAAGAAA
1 AACAAGAAGAAA
*
181363 AACAAAAAGAAA
1 AACAAGAAGAAA
181375 A
1 A
181376 GAAAAAGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.00
Consensus pattern (12 bp):
AACAAGAAGAAA
Found at i:181360 original size:6 final size:6
Alignment explanation
Indices: 181345--181383 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
181335 CTGCAACAAG
* *
181345 AAGAAA AAGAAG AAGAAA AACAAA AAG-AA AAGAAA AAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA
181384 CTCCTACATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:181371 original size:18 final size:17
Alignment explanation
Indices: 181348--181381 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
181338 CAACAAGAAG
181348 AAAAAGAAGAAGAAAAAC
1 AAAAAGAA-AAGAAAAAC
181366 AAAAAGAAAAGAAAAA
1 AAAAAGAAAAGAAAAA
181382 GACTCCTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAC
Found at i:188060 original size:35 final size:34
Alignment explanation
Indices: 188016--188124 Score: 137
Period size: 35 Copynumber: 3.1 Consensus size: 34
188006 TAAGATACTA
* * *
188016 CCTAAACATCACCATCTTCCATCACCATTTTCATG
1 CCTATACATCACCATCTTCCATAACCA-TTTCACG
* *
188051 CCTATACATCACCATCTTCCATTACCATTGCACG
1 CCTATACATCACCATCTTCCATAACCATTTCACG
* *
188085 CCTATATCATTACCATCTTCTATAACCATTTCACG
1 CCTATA-CATCACCATCTTCCATAACCATTTCACG
188120 CCTAT
1 CCTAT
188125 GTAACCACCA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
34 11 0.17
35 54 0.83
ACGTcount: A:0.28, C:0.36, G:0.04, T:0.33
Consensus pattern (34 bp):
CCTATACATCACCATCTTCCATAACCATTTCACG
Found at i:188586 original size:11 final size:11
Alignment explanation
Indices: 188567--188620 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
188557 TTTGGAGTAC
*
188567 AAAAAAAAAAG
1 AAAAGAAAAAG
188578 AAAAGAAAATAG
1 AAAAGAAAA-AG
***
188590 AAAATTCAAAG
1 AAAAGAAAAAG
188601 AAAAGAAAAAG
1 AAAAGAAAAAG
*
188612 TAAAGAAAA
1 AAAAGAAAA
188621 GTTGCAAAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
11 26 0.76
12 8 0.24
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:192221 original size:36 final size:35
Alignment explanation
Indices: 192170--192278 Score: 139
Period size: 35 Copynumber: 3.1 Consensus size: 35
192160 TAAGATACTA
192170 CCTA-AACATCACCATCTTCCATCACCATTTTCACG
1 CCTATAACATCACCATCTTCCATCACCA-TTTCACG
* *
192205 CCTATAACATCACCATCTTCCATTACCATTGCACG
1 CCTATAACATCACCATCTTCCATCACCATTTCACG
** * * *
192240 TATATATCATTACCATCTTCTATCACCATTTCACG
1 CCTATAACATCACCATCTTCCATCACCATTTCACG
192275 CCTA
1 CCTA
192279 CATAACCACC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
35 40 0.65
36 22 0.35
ACGTcount: A:0.28, C:0.36, G:0.04, T:0.32
Consensus pattern (35 bp):
CCTATAACATCACCATCTTCCATCACCATTTCACG
Done.