Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 60 of 279
Found at i:20044138 original size:55 final size:55
Alignment explanation
Indices: 20044058--20044167 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
20044048 ATGGAGTTTG
20044058 AAAGCTTGAAACAAACCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAA
1 AAAGCTTGAAACAAACCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAA
20044113 AAAGCTTGAAACAAACCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAA
1 AAAGCTTGAAACAAACCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAA
20044168 GAATATGGAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (55 bp):
AAAGCTTGAAACAAACCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAA
Found at i:20048358 original size:29 final size:28
Alignment explanation
Indices: 20048293--20048359 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
20048283 AAGTCTACAT
* * *
20048293 ATATGCATATGGCCCACTATGCCCAATC
1 ATATTCATATGGCCCACTAGGCCAAATC
*
20048321 -TCATTCATATGGCCCATTAGGCCGAAATC
1 AT-ATTCATATGGCCCACTAGGCC-AAATC
20048350 ATATTCATAT
1 ATATTCATAT
20048360 ACATGCTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 18 0.56
29 12 0.38
30 1 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (28 bp):
ATATTCATATGGCCCACTAGGCCAAATC
Found at i:20050602 original size:13 final size:13
Alignment explanation
Indices: 20050584--20050611 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20050574 CTCAATATCG
20050584 AGCACACGGCCTA
1 AGCACACGGCCTA
20050597 AGCACACGGCCTA
1 AGCACACGGCCTA
20050610 AG
1 AG
20050612 TACATGGGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.36, G:0.25, T:0.07
Consensus pattern (13 bp):
AGCACACGGCCTA
Found at i:20052473 original size:24 final size:25
Alignment explanation
Indices: 20052418--20052498 Score: 94
Period size: 24 Copynumber: 3.2 Consensus size: 25
20052408 GGAATCACCA
* * *
20052418 CAGCTTGTATGAGCTTATTGATATAT
1 CAGCTCGTAAGAGCTTACT-ATATAT
20052444 CAGCTCGTAAGAGCTTACTAT-TAT
1 CAGCTCGTAAGAGCTTACTATATAT
*
20052468 CAGCTCGTCAA-AGCTTACTATCTAT
1 CAGCTCGT-AAGAGCTTACTATATAT
20052493 CAGCTC
1 CAGCTC
20052499 AAGAGGAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
24 21 0.42
25 13 0.26
26 16 0.32
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACTATATAT
Found at i:20053367 original size:19 final size:20
Alignment explanation
Indices: 20053324--20053367 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
20053314 AAATACATTT
*
20053324 AAAAACATAAAAACAAATAT
1 AAAAACATAAAAACAAATAA
* *
20053344 TAAAACA-AGAAACAAATAA
1 AAAAACATAAAAACAAATAA
20053363 AAAAA
1 AAAAA
20053368 TGAGACTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAACATAAAAACAAATAA
Found at i:20053466 original size:23 final size:23
Alignment explanation
Indices: 20053422--20053466 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
20053412 TTATATTAAA
*
20053422 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAATATAAATATG
*
20053445 ATTAAAAATAAAATATATATAT
1 ATTAAAAATAAAATATAAATAT
20053467 AGTATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
ATTAAAAATAAAATATAAATATG
Found at i:20055382 original size:19 final size:19
Alignment explanation
Indices: 20055355--20055391 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20055345 TGTCATCATA
20055355 AATTCATAGGAATAACTTC
1 AATTCATAGGAATAACTTC
* *
20055374 AATTTATAGGCATAACTT
1 AATTCATAGGAATAACTT
20055392 ACACATTTTC
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:0.14, G:0.11, T:0.35
Consensus pattern (19 bp):
AATTCATAGGAATAACTTC
Found at i:20065758 original size:241 final size:241
Alignment explanation
Indices: 20065314--20065795 Score: 596
Period size: 241 Copynumber: 2.0 Consensus size: 241
20065304 GGGGGAAAGT
* * * ** ** * *
20065314 TGTAACATTCCGAATTATGGTCTAGTTGGAACAGTGGTTTTGAGACCACAAATCTGAAATAGAAA
1 TGTAACATCCCGAATTAGGGCCTAGTCAGAACAGTGGTTTCAAGACCAAAAATCTAAAATAGAAA
* *
20065379 TAATTATTTTATGATTATTTGATGGTCTATGATATAATTGCATGTTTGTGTGAAATTTTCATGCA
66 TAATTATTTTATGATTATTTGATGGTCTATGATATAATTGCATGCTTGTGTGAAAGTTTCATGCA
* * * ** * ***
20065444 AAAATTCTATGCCTAAAGTGTCCAATTTGACTTTAGGGACTAAATTGAATAAGTTGTAAAACTAG
131 AAAATTCTATGCATAAAATATCCAATTACACTTTAGGGACCAAATTGAATAAGTCACAAAACTAG
** * *
20065509 TGTTCTAGAAGCTTCAAGCATGAAATTGCATTGGATAATTAATTAG
196 CATTCTAGAAGCTTCAAGCATGAAATTGCATTAGATAATGAATTAG
20065555 TGTAACATCCCGAATTAGGGCCTAGTCAGAACAGTGGTTTCAAGACCAAAAAT-TAAAGATAGAA
1 TGTAACATCCCGAATTAGGGCCTAGTCAGAACAGTGGTTTCAAGACCAAAAATCTAAA-ATAGAA
* * *
20065619 ATAATTATTTTATGATTATTATGA-GGTTTATGTTATGAA-TGCGTGCTTGTGTGAAAGTTTCAT
65 ATAATTATTTTATGATTATT-TGATGGTCTATGATAT-AATTGCATGCTTGTGTGAAAGTTTCAT
* *
20065682 G-AAGAAATTCTATGCATAAAATATCTAATTACATTTTAGGGACCAAATTGAATAAAG-CACAAA
128 GCAA-AAATTCTATGCATAAAATATCCAATTACACTTTAGGGACCAAATTGAAT-AAGTCACAAA
* * *
20065745 ACTTGCATTCTAGAAGCTTTAAGCATGAAATTGCATTAGATTATGAATTAG
191 ACTAGCATTCTAGAAGCTTCAAGCATGAAATTGCATTAGATAATGAATTAG
20065796 AAGGTCCTAA
Statistics
Matches: 204, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
240 5 0.02
241 191 0.94
242 8 0.04
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (241 bp):
TGTAACATCCCGAATTAGGGCCTAGTCAGAACAGTGGTTTCAAGACCAAAAATCTAAAATAGAAA
TAATTATTTTATGATTATTTGATGGTCTATGATATAATTGCATGCTTGTGTGAAAGTTTCATGCA
AAAATTCTATGCATAAAATATCCAATTACACTTTAGGGACCAAATTGAATAAGTCACAAAACTAG
CATTCTAGAAGCTTCAAGCATGAAATTGCATTAGATAATGAATTAG
Found at i:20066914 original size:43 final size:43
Alignment explanation
Indices: 20066861--20066946 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
20066851 GAGATATGTG
*
20066861 GCATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGAGGTCCGAGTTCATAATGGATGCGA
* * *
20066904 GCATCTGAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCATTGAGAGGTCCGAGTTCATAATGGATGCGA
20066947 CTCATGTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGAGGTCCGAGTTCATAATGGATGCGA
Found at i:20071505 original size:79 final size:81
Alignment explanation
Indices: 20071365--20071549 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
20071355 TTGAATGATG
* * *
20071365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATTCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
20071429 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
20071444 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
20071506 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
20071524 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20071550 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:20071563 original size:40 final size:40
Alignment explanation
Indices: 20071366--20071549 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
20071356 TGAATGATGT
* * * *
20071366 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
20071406 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
20071446 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
20071484 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20071525 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20071550 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:20071571 original size:79 final size:79
Alignment explanation
Indices: 20071418--20071572 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
20071408 GGACTAAGAT
* * **
20071418 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
20071483 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
20071497 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
20071560 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
20071573 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:20074023 original size:20 final size:18
Alignment explanation
Indices: 20073998--20074034 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
20073988 ATTGCTAAGT
20073998 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
20074018 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
20074035 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:20074643 original size:46 final size:46
Alignment explanation
Indices: 20074591--20074766 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
20074581 TGGTTGAGCA
20074591 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
20074637 TTCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
20074682 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
20074730 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20074767 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 2 0.02
46 60 0.55
47 23 0.21
48 2 0.02
50 5 0.05
51 6 0.06
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20074747 original size:93 final size:93
Alignment explanation
Indices: 20074588--20074757 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
20074578 GGATGGTTGA
**
20074588 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
20074653 TGAGTCTGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
20074681 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
20074746 TGAGTCCGAGTT
66 TGAGTCCGAGTT
20074758 CACTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:20084242 original size:46 final size:46
Alignment explanation
Indices: 20084102--20084271 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
20084092 ACGAGTGCTT
* * * * *
20084102 GTGTAAGACATGTCTGGGACATGCATCCGCCTTG-GGTAGTAAGCTA
1 GTGTAAGACATGTCTGGGACATGCATTCGACTTGAGATA-TGAGCCA
* * * *
20084148 GTGTAAGACATGCCTGGGTCATGCATT-GGC-T-ACGATATGATAGTCA
1 GTGTAAGACATGTCTGGGACATGCATTCGACTTGA-GATATG--AGCCA
20084194 GTGTAAGACAATGTCTGGGACATGC-TTCGACTTGAGATATGAGCCA
1 GTGTAAGAC-ATGTCTGGGACATGCATTCGACTTGAGATATGAGCCA
*
20084240 GTGTAAGACCGTGTCTGGGACATGGCA-TCGAC
1 GTGTAAGA-CATGTCTGGGACAT-GCATTCGAC
20084272 ACCTTACCCA
Statistics
Matches: 100, Mismatches: 13, Indels: 21
0.75 0.10 0.16
Matches are distributed among these distances:
44 2 0.02
45 5 0.05
46 62 0.62
47 23 0.23
48 7 0.07
49 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATTCGACTTGAGATATGAGCCA
Found at i:20087808 original size:57 final size:57
Alignment explanation
Indices: 20087721--20087885 Score: 163
Period size: 56 Copynumber: 2.9 Consensus size: 57
20087711 AGAAATGGCG
* **
20087721 AAATGGAGAAATAGGAAA-CATTTGGAAATGATTAAGGTTTTCTTGAAAATGAAAATGA
1 AAATGGAGAAATA--AAATCATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAATGA
** * *
20087779 AAATGGAGAAATAAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGGAAATGG
1 AAATGGAGAAATAAAATCATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAATGA
* * * * * ** *
20087836 AAAT-GATAAATGAATTCATTTAGAAATGAACAAGGAATTCTCAAAAATGA
1 AAATGGAGAAATAAAATCATTTGGAAATGAATAAGGTTTTCTCCAAAATGA
20087886 TTGAAAGATT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
56 38 0.43
57 37 0.42
58 13 0.15
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (57 bp):
AAATGGAGAAATAAAATCATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAATGA
Found at i:20089601 original size:43 final size:43
Alignment explanation
Indices: 20089510--20089681 Score: 224
Period size: 43 Copynumber: 4.0 Consensus size: 43
20089500 GAAGCCTTTC
* *
20089510 TTTCACCGGCATT-TCA-CCTGCTAGGCTTGAAGCCCTATATCA
1 TTTCACCAGCATTAT-AGCCTGCTAGGCTTGAAGCCCGATATCA
* * *
20089552 TTTCACCAGCATTATAGCCTGCTAGGCCTGAGGCCCGATATTA
1 TTTCACCAGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCA
*
20089595 TCTCACCAGCATTATAGCCTGCTAGG-TTCGAAGCCCGATATCA
1 TTTCACCAGCATTATAGCCTGCTAGGCTT-GAAGCCCGATATCA
* *
20089638 TTTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGTATATCA
1 TTTCACCAGCATTATAGCCTGCTAGGCTTGAAGCCCG-ATATCA
20089682 CATTTCGATA
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
42 14 0.12
43 92 0.81
44 7 0.06
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTCACCAGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCA
Found at i:20093461 original size:31 final size:31
Alignment explanation
Indices: 20093423--20093486 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
20093413 CCTTTTCATA
20093423 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
20093454 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
20093485 TT
1 TT
20093487 ACTGTAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:20093757 original size:48 final size:49
Alignment explanation
Indices: 20093671--20093801 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 49
20093661 AGCATAGCTG
*
20093671 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCC
1 CTTTAT-A-ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCC
*
20093722 CTTT-TAATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCC
1 CTTTATAATAACTGGGGCATAAGCCCTTT-TAATAACTGGGGCATAAGCC
*
20093771 CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 CTTTATAATAACTGGGGCATAAGCCCTTTTA
20093802 CACTTCCTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
47 8 0.11
48 25 0.35
49 11 0.15
50 24 0.33
51 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (49 bp):
CTTTATAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:20093762 original size:25 final size:25
Alignment explanation
Indices: 20093671--20093799 Score: 167
Period size: 25 Copynumber: 5.2 Consensus size: 25
20093661 AGCATAGCTG
*
20093671 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC
*
20093698 TCTTT-TAATAACTGGGGCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
*
20093722 CTTT-TAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
20093746 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
20093771 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
20093796 CTTT
1 CTTT
20093800 TACACTTCCT
Statistics
Matches: 95, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
23 18 0.19
24 16 0.17
25 56 0.59
27 1 0.01
28 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:20093875 original size:20 final size:20
Alignment explanation
Indices: 20093850--20093916 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
20093840 TTATGAATAC
20093850 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
20093870 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
20093890 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
20093910 ACCATGT
1 ATCATGT
20093917 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:20093881 original size:11 final size:11
Alignment explanation
Indices: 20093850--20093905 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
20093840 TTATGAATAC
20093850 ATCATGTGCAT
1 ATCATGTGCAT
*
20093861 ATCA--TACAT
1 ATCATGTGCAT
20093870 ATCATGTGCAT
1 ATCATGTGCAT
*
20093881 ATCA--TACAT
1 ATCATGTGCAT
*
20093890 GTCATGTGCAT
1 ATCATGTGCAT
20093901 ATCAT
1 ATCAT
20093906 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:20099095 original size:13 final size:13
Alignment explanation
Indices: 20099077--20099102 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20099067 TACATATATC
20099077 ATGATTCATCTTT
1 ATGATTCATCTTT
20099090 ATGATTCATCTTT
1 ATGATTCATCTTT
20099103 TCCTGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
ATGATTCATCTTT
Found at i:20105584 original size:41 final size:41
Alignment explanation
Indices: 20105526--20105621 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
20105516 TTACAAGTTA
*
20105526 CCTGAT-ATAATACACCAGCAAGAAGCCTGTTAGGCACAAAG
1 CCTGATAAT-ATACACCAGCAAGAAGCCTGCTAGGCACAAAG
* * * *
20105567 TCTGATAATATACACCAGCACGAATCCTGCTAGGCAGAAAG
1 CCTGATAATATACACCAGCAAGAAGCCTGCTAGGCACAAAG
*
20105608 CCTAATAATATACA
1 CCTGATAATATACA
20105622 TCGACAACAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
CCTGATAATATACACCAGCAAGAAGCCTGCTAGGCACAAAG
Found at i:20105685 original size:41 final size:41
Alignment explanation
Indices: 20105628--20105772 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 41
20105618 TACATCGACA
* ** * * *
20105628 ACAAAGCCTAATAATATACACCGATAGGAAGCCTGCTCGGT
1 ACAAAGCCTGATAATATACACCGGCACGAAGCCTGCTAGGC
** * *
20105669 ACAAAGCCTGATAATATACATTGGCACGAAGCTTGCTAGAC
1 ACAAAGCCTGATAATATACACCGGCACGAAGCCTGCTAGGC
20105710 ACAAAGCCTGATAATATACACCGGCACGAAGCCTGCTAGGC
1 ACAAAGCCTGATAATATACACCGGCACGAAGCCTGCTAGGC
* * *
20105751 ACAAAGCATGAGAAAATACACC
1 ACAAAGCCTGATAATATACACC
20105773 AGCATAAAGC
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (41 bp):
ACAAAGCCTGATAATATACACCGGCACGAAGCCTGCTAGGC
Found at i:20105783 original size:41 final size:41
Alignment explanation
Indices: 20105692--20105785 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 41
20105682 ATATACATTG
* * * * * *
20105692 GCACGAAGCTTGCTAGACACAAAGCCTGATAATATACACCG
1 GCACAAAGCCTGCTAGACACAAAGCATGAGAAAATACACCA
* *
20105733 GCACGAAGCCTGCTAGGCACAAAGCATGAGAAAATACACCA
1 GCACAAAGCCTGCTAGACACAAAGCATGAGAAAATACACCA
*
20105774 GCATAAAGCCTG
1 GCACAAAGCCTG
20105786 ATGGACTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.38, C:0.27, G:0.21, T:0.14
Consensus pattern (41 bp):
GCACAAAGCCTGCTAGACACAAAGCATGAGAAAATACACCA
Found at i:20106819 original size:13 final size:13
Alignment explanation
Indices: 20106801--20106841 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
20106791 TAAATTTTTC
20106801 CTAAATATTATCA
1 CTAAATATTATCA
20106814 CTAAATA--ATCA
1 CTAAATATTATCA
20106825 -TAAATATTATCA
1 CTAAATATTATCA
20106837 CTAAA
1 CTAAA
20106842 ATTTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.24
11 4 0.16
12 4 0.16
13 11 0.44
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:20107328 original size:41 final size:41
Alignment explanation
Indices: 20107283--20107492 Score: 102
Period size: 41 Copynumber: 5.1 Consensus size: 41
20107273 ATATTATTCG
* * *
20107283 ATTCAGAATTA-CTGAAGTTTAAACAGGGGCACGTATGTGCA
1 ATTCAGAAGTATC-GAAGTATAAACAGGGGCACGCATGTGCA
** *
20107324 ATTCAGGGGTATCGAAGTATAAACAGGGGCATGCATGTGCA
1 ATTCAGAAGTATCGAAGTATAAACAGGGGCACGCATGTGCA
* * * * * * ** *
20107365 ATTAATG-GGTACCAAAGTACAAATAGGGGCACATATGTGTA
1 ATTCA-GAAGTATCGAAGTATAAACAGGGGCACGCATGTGCA
** * * * *
20107406 ATTCAGGGGTA-CTGAAGTACAAATAGAGGCACGTATGTGCA
1 ATTCAGAAGTATC-GAAGTATAAACAGGGGCACGCATGTGCA
* ** * * * * * *
20107447 ATTTAGGGGTACCAAAGTACAAAAAGGGGCACGTATGTACA
1 ATTCAGAAGTATCGAAGTATAAACAGGGGCACGCATGTGCA
20107488 ATTCA
1 ATTCA
20107493 ATAATATTCT
Statistics
Matches: 138, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
40 2 0.01
41 133 0.96
42 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (41 bp):
ATTCAGAAGTATCGAAGTATAAACAGGGGCACGCATGTGCA
Found at i:20107444 original size:82 final size:82
Alignment explanation
Indices: 20107307--20107492 Score: 257
Period size: 82 Copynumber: 2.3 Consensus size: 82
20107297 AAGTTTAAAC
* * * *
20107307 AGGGGCACGTATGTGCAATTCAGGGGTATCGAAGTATAAACAGGGGCATGCATGTGCAATTAATG
1 AGGGGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGAGGCACGCATGTGCAATTAAGG
*
20107372 GGTACCAAAGTACAAAT
66 GGTACCAAAGTACAAAA
* * * * *
20107389 AGGGGCACATATGTGTAATTCAGGGGTA-CTGAAGTACAAATAGAGGCACGTATGTGCAATTTAG
1 AGGGGCACGTATGTGCAATTCAGGGGTATC-GAAGTACAAACAGAGGCACGCATGTGCAATTAAG
20107453 GGGTACCAAAGTACAAAA
65 GGGTACCAAAGTACAAAA
*
20107471 AGGGGCACGTATGTACAATTCA
1 AGGGGCACGTATGTGCAATTCA
20107493 ATAATATTCT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 1 0.01
82 89 0.99
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (82 bp):
AGGGGCACGTATGTGCAATTCAGGGGTATCGAAGTACAAACAGAGGCACGCATGTGCAATTAAGG
GGTACCAAAGTACAAAA
Found at i:20109524 original size:32 final size:32
Alignment explanation
Indices: 20109471--20109531 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
20109461 CAAAACGTTT
20109471 ATTCTATGAGGAATCTTTTAAAACAGTTTGTAA
1 ATTCTATGAGGAATCTTTTAAAACA-TTTGTAA
*
20109504 ATTC-ATGAGTAAT-TTGTTAAAACATTTG
1 ATTCTATGAGGAATCTT-TTAAAACATTTG
20109532 GTTCTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 6 0.23
32 16 0.62
33 4 0.15
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (32 bp):
ATTCTATGAGGAATCTTTTAAAACATTTGTAA
Found at i:20110406 original size:17 final size:18
Alignment explanation
Indices: 20110377--20110410 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
20110367 TTGTCGGCCT
20110377 GTGTGGACCCACACGTCC
1 GTGTGGACCCACACGTCC
20110395 GTGTGG-CCCACACGTC
1 GTGTGGACCCACACGTC
20110411 TGAAAATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.15, C:0.38, G:0.29, T:0.18
Consensus pattern (18 bp):
GTGTGGACCCACACGTCC
Found at i:20116664 original size:54 final size:54
Alignment explanation
Indices: 20116582--20116716 Score: 261
Period size: 54 Copynumber: 2.5 Consensus size: 54
20116572 ATCTTACGGT
*
20116582 GGGATTAACAGTCCAGGCTAAATCCCTCGTATAGTGAACTCATAAGGTGATGTC
1 GGGATTACCAGTCCAGGCTAAATCCCTCGTATAGTGAACTCATAAGGTGATGTC
20116636 GGGATTACCAGTCCAGGCTAAATCCCTCGTATAGTGAACTCATAAGGTGATGTC
1 GGGATTACCAGTCCAGGCTAAATCCCTCGTATAGTGAACTCATAAGGTGATGTC
20116690 GGGATTACCAGTCCAGGCTAAATCCCT
1 GGGATTACCAGTCCAGGCTAAATCCCT
20116717 TATTGCGACA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCTCGTATAGTGAACTCATAAGGTGATGTC
Found at i:20120589 original size:96 final size:96
Alignment explanation
Indices: 20120481--20120709 Score: 300
Period size: 96 Copynumber: 2.4 Consensus size: 96
20120471 AAGTCTCACG
*
20120481 TCAATG-CTGATGCCATGTCCCAGACATGGTCTTATACTAGCACACATATCAA-AGCCAATGCCA
1 TCAATGTC-GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACA-CCAATGCCA
* * *
20120544 TGTCCCAGGCATGGTCTTACACAGGCTAAAATA
64 TGTCCCAGACAGGGTCTTACACAGGATAAAATA
* * *
20120577 TCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCGATGCCATG
1 TCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCAATGCCATG
* ****
20120642 TCCCAGACAGGGTCTTACGCAGGATCTCTTA
66 TCCCAGACAGGGTCTTACACAGGATAAAATA
* *
20120673 TCAATGTCGATGCCATATCCCAGATATGGTCTTACAC
1 TCAATGTCGATGCCATGTCCCAGACATGGTCTTACAC
20120710 GGGATCTCAA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
96 115 0.98
97 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (96 bp):
TCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCAATGCCATG
TCCCAGACAGGGTCTTACACAGGATAAAATA
Found at i:20120715 original size:48 final size:48
Alignment explanation
Indices: 20120399--20120732 Score: 247
Period size: 48 Copynumber: 7.0 Consensus size: 48
20120389 AAAGATGCCA
* *
20120399 ATGCCATGTCCCAGACGTGGTCTTACA-TGGAATCTACATATCAATGTC-
1 ATGCCATGTCCCAGACATGGTCTTACACAGG-ATCT-CATATCAATGTCG
* * * * **
20120447 AT---A--TCCCGGATATGGTCTTATAC-GAAGTCTCACGTCAATG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGA-TCTCATATCAATGTC-G
* * * * * *
20120490 ATGCCATGTCCCAGACATGGTCTTATACTAGCA-CACATATCAAAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGGATCTCATATCAATGTCG
* * ***
20120538 ATGCCATGTCCCAGGCATGGTCTTACACAGGCTAAAATATCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGATCTCATATCAATGTCG
* * * ***
20120586 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGATCTCATATCAATGTCG
* * *
20120634 ATGCCATGTCCCAGACAGGGTCTTACGCAGGATCTCTTATCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGATCTCATATCAATGTCG
* * *
20120682 ATGCCATATCCCAGATATGGTCTTACACGGGATCTCAATACTCACATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGATCTC-ATA-TCA-ATGTCG
20120733 TGATATTCGT
Statistics
Matches: 224, Mismatches: 46, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.00
42 9 0.04
43 21 0.09
45 1 0.00
46 1 0.00
47 2 0.01
48 175 0.78
49 3 0.01
50 5 0.02
51 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGATCTCATATCAATGTCG
Found at i:20133675 original size:40 final size:39
Alignment explanation
Indices: 20133628--20133707 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
20133618 CCATCACACC
* *
20133628 ATGTGGGGATAAAATCGACCCACCCATCCCTGCACACCAT
1 ATGTGGGGATAAAATCGACCCACCCAACCCTACA-ACCAT
* *
20133668 ATGTGGGGATATAATCGACCCATCCAACCCTACAACCAT
1 ATGTGGGGATAAAATCGACCCACCCAACCCTACAACCAT
20133707 A
1 A
20133708 AGGTACCGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 6 0.17
40 30 0.83
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (39 bp):
ATGTGGGGATAAAATCGACCCACCCAACCCTACAACCAT
Found at i:20143099 original size:9 final size:9
Alignment explanation
Indices: 20143086--20143144 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
20143076 ATAAGTATAA
*
20143086 AATTAACCA
1 AATTAACCG
*
20143095 AATTAACTG
1 AATTAACCG
*
20143104 AATTAATCG
1 AATTAACCG
20143113 AATTAACCG
1 AATTAACCG
*
20143122 AATTACCCG
1 AATTAACCG
20143131 AATTAACCG
1 AATTAACCG
20143140 AATTA
1 AATTA
20143145 TTTGTATAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:20143179 original size:5 final size:6
Alignment explanation
Indices: 20143164--20143216 Score: 79
Period size: 6 Copynumber: 8.5 Consensus size: 6
20143154 AATTATATGT
*
20143164 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA
20143214 TTT
1 TTT
20143217 ATTAAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 34 0.79
7 8 0.19
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:20143198 original size:20 final size:20
Alignment explanation
Indices: 20143175--20143213 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20143165 TTTTATTTTT
20143175 ATTTTTATTTTTAGTTTTAG
1 ATTTTTATTTTTAGTTTTAG
*
20143195 ATTTTTATTTTTATTTTTA
1 ATTTTTATTTTTAGTTTTA
20143214 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTATTTTTAGTTTTAG
Found at i:20144814 original size:13 final size:14
Alignment explanation
Indices: 20144776--20144816 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
20144766 ATAGGGGTAG
20144776 GATTCTGCATATCT
1 GATTCTGCATATCT
* *
20144790 G-TACTGCTTATCT
1 GATTCTGCATATCT
20144803 GATTCTG-ATATCT
1 GATTCTGCATATCT
20144816 G
1 G
20144817 TATCTGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (14 bp):
GATTCTGCATATCT
Found at i:20146709 original size:191 final size:191
Alignment explanation
Indices: 20146384--20146766 Score: 730
Period size: 191 Copynumber: 2.0 Consensus size: 191
20146374 TTGTTTCAAG
*
20146384 GTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGATTTTTACGTTTTTGAGATCC
1 GTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGATTCTTACGTTTTTGAGATCC
* *
20146449 TGGTAACTCCATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTCATATTTGGAAAAATACCC
66 CGGTAACTCCATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTCATATTTGGAAAAATAACC
*
20146514 ATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAGTTATGTTA
131 ATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTTA
20146575 GTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGATTCTTACGTTTTTGAGATCC
1 GTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGATTCTTACGTTTTTGAGATCC
20146640 CGGTAACTCCATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTCATATTTGGAAAAATAACC
66 CGGTAACTCCATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTCATATTTGGAAAAATAACC
20146705 ATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTTA
131 ATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTTA
20146766 G
1 G
20146767 ACAACTTGTA
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
191 188 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (191 bp):
GTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGATTCTTACGTTTTTGAGATCC
CGGTAACTCCATAAAGCTTATGTTAGCAATAATTTAACCTAGGGTTCATATTTGGAAAAATAACC
ATAGGTGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGGGGTTTTAAATTATGTTA
Found at i:20154942 original size:50 final size:50
Alignment explanation
Indices: 20154867--20154967 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
20154857 GAAGACGGCA
20154867 AATGTGAGATCGAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGG
1 AATGTGAGATCGAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGG
20154917 AATGTGAGATCGAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGG
1 AATGTGAGATCGAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGG
20154967 A
1 A
20154968 CACAAGTGAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.22
Consensus pattern (50 bp):
AATGTGAGATCGAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGG
Found at i:20155056 original size:46 final size:46
Alignment explanation
Indices: 20155000--20155240 Score: 482
Period size: 46 Copynumber: 5.2 Consensus size: 46
20154990 TGGTTGAGCA
20155000 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20155046 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20155092 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20155138 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20155184 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20155230 TCCGAACTCGT
1 TCCGAACTCGT
20155241 CGGGTGAAAT
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 195 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:20157531 original size:37 final size:37
Alignment explanation
Indices: 20157481--20157591 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
20157471 CTTTAGCTCA
* *
20157481 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
20157518 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
20157555 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
20157592 AAATATATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:20157876 original size:50 final size:51
Alignment explanation
Indices: 20157739--20157880 Score: 188
Period size: 50 Copynumber: 2.9 Consensus size: 51
20157729 GCACATCGCC
* *
20157739 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCATATCTCA-A
* *
20157789 TATATATTTCACATT-GACCATTCAACTTTA-C-CATATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGACTTTACCACATATATGCATATCTCAA
20157837 TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCAT
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCAT
20157881 GTTCATATTC
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
48 33 0.41
49 4 0.05
50 43 0.54
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (51 bp):
TACATATTTCACATTAGCCATTCGACTTTACCACATATATGCATATCTCAA
Found at i:20157907 original size:47 final size:47
Alignment explanation
Indices: 20157845--20158038 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
20157835 CATACATATT
* * * * *
20157845 TCACATTAGCCATTCGACTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
20157892 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
20157939 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
20157986 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
20158033 TCACAT
1 TCACAT
20158039 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:20157965 original size:22 final size:22
Alignment explanation
Indices: 20157938--20158009 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
20157928 GCTCACATTC
20157938 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
20157960 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
20157984 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
20158007 ATC
1 ATC
20158010 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:20178207 original size:18 final size:19
Alignment explanation
Indices: 20178167--20178208 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
20178157 AATAAGACCT
*
20178167 CTTT-GGATTTTATTTATA
1 CTTTGGGATTTTAATTATA
*
20178185 ATTTGGGATTTTAATT-TA
1 CTTTGGGATTTTAATTATA
20178203 CTTTGG
1 CTTTGG
20178209 TTATAATCGC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (19 bp):
CTTTGGGATTTTAATTATA
Found at i:20185163 original size:101 final size:101
Alignment explanation
Indices: 20184984--20185273 Score: 528
Period size: 101 Copynumber: 2.9 Consensus size: 101
20184974 CTTCTTAAAC
* *
20184984 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAATATAATAAACAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
*
20185049 TTAATCCACGCATATTGGTCGGCTACTTTCATCTTTT
66 TTAATCCATGCATATTGGTCGGCTACTTT-ATCTTTT
*
20185086 ATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACATAATAAATAATTCAATTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
20185150 TTAATCCATGCATATTGGTCGGCTACTTTATCTTTT
66 TTAATCCATGCATATTGGTCGGCTACTTTATCTTTT
20185186 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
20185251 TTAATCCATGCATATTGGTCGGC
66 TTAATCCATGCATATTGGTCGGC
20185274 CGCTAATTCC
Statistics
Matches: 182, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
100 27 0.15
101 135 0.74
102 20 0.11
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (101 bp):
ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
TTAATCCATGCATATTGGTCGGCTACTTTATCTTTT
Found at i:20190539 original size:19 final size:19
Alignment explanation
Indices: 20190490--20190540 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
20190480 TGACTTAACA
20190490 AAACTAATTGG-TTTTCAT
1 AAACTAATTGGTTTTTCAT
* *
20190508 AAA-TAAGGGTGGTTTTTCCT
1 AAACTAA--TTGGTTTTTCAT
20190528 AAACTAATTGGTT
1 AAACTAATTGGTT
20190541 ACAAAAGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 8 0.31
20 9 0.35
21 3 0.12
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (19 bp):
AAACTAATTGGTTTTTCAT
Found at i:20215737 original size:27 final size:26
Alignment explanation
Indices: 20215693--20215744 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
20215683 CTCCCTGCAA
*
20215693 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
20215720 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
20215745 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:20215837 original size:27 final size:26
Alignment explanation
Indices: 20215785--20215844 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
20215775 ACATATATAT
*
20215785 ATATCTGTTCTGGTGGCTTAGCCACA
1 ATATCTGTTCTGGTGACTTAGCCACA
* *
20215811 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACTTAGCCACA
20215838 ATATCTG
1 ATATCTG
20215845 GTAGCCTCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACTTAGCCACA
Found at i:20217887 original size:27 final size:27
Alignment explanation
Indices: 20217857--20218261 Score: 612
Period size: 27 Copynumber: 15.0 Consensus size: 27
20217847 CAAAATGATA
*
20217857 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
20217884 GAAATACCCCTGTAGGATAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
20217911 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
20217938 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
20217965 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
20217992 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
20218019 GAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
20218046 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
20218073 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
20218100 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
20218127 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* **
20218154 AAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
** *
20218181 GAAATACCCCTGTAGGACAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
20218208 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
20218235 GATATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
20218262 ATTTTGCCCC
Statistics
Matches: 347, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 347 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:20218701 original size:22 final size:22
Alignment explanation
Indices: 20218649--20218713 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
20218639 GCCAATTATT
* *
20218649 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
20218671 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
20218693 CTGATTATGTCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
20218714 ACATATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:20218902 original size:27 final size:27
Alignment explanation
Indices: 20218872--20218972 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
20218862 ATTCTGTTAA
* *
20218872 GTGGCTTTGCCAC-ATTATCTGTTTCTG
1 GTGGCTATGCCACAAATATCTG-TTCTG
*
20218899 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTATGCCACAAATATCTGTTCTG
*
20218926 GTGGCTATGACACAAATATCTGTTCTG
1 GTGGCTATGCCACAAATATCTGTTCTG
*
20218953 GTGGCTCTGCCAC-AATATCT
1 GTGGCTATGCCACAAATATCT
20218973 ATATCTAGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.11
27 53 0.80
28 6 0.09
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAAATATCTGTTCTG
Found at i:20218987 original size:27 final size:26
Alignment explanation
Indices: 20218872--20219006 Score: 126
Period size: 27 Copynumber: 5.0 Consensus size: 26
20218862 ATTCTGTTAA
* * *
20218872 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCT-ATTCTG
20218899 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTATGCCAC-AATATCTATTCTG
* *
20218926 GTGGCTATGACACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTATTCTG
* *
20218953 GTGGCTCTGCCACAATATCTATATCTA
1 GTGGCTATGCCACAATATCTAT-TCTG
* * * * *
20218980 GTGACTCTGTCACAATATTTGTTCTG
1 GTGGCTATGCCACAATATCTATTCTG
20219006 G
1 G
20219007 CAGCCATGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
26 12 0.13
27 74 0.80
28 6 0.07
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTATTCTG
Found at i:20219003 original size:53 final size:54
Alignment explanation
Indices: 20218887--20219006 Score: 154
Period size: 54 Copynumber: 2.2 Consensus size: 54
20218877 TTTGCCACAT
* *
20218887 TATCTGTTTCTGGTGGCTATGCCACAAATATCTATTCTGGTGGCTATGACACAAA
1 TATCTG-TTCTGGTGGCTATGCCACAAATATCTATTCTAGTGACTATGACACAAA
* * *
20218942 TATCTGTTCTGGTGGCTCTGCCAC-AATATCTATATCTAGTGACTCTGTCAC-AA
1 TATCTGTTCTGGTGGCTATGCCACAAATATCTAT-TCTAGTGACTATGACACAAA
*
20218995 TATTTGTTCTGG
1 TATCTGTTCTGG
20219007 CAGCCATGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 22 0.38
54 30 0.52
55 6 0.10
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (54 bp):
TATCTGTTCTGGTGGCTATGCCACAAATATCTATTCTAGTGACTATGACACAAA
Found at i:20219193 original size:25 final size:25
Alignment explanation
Indices: 20219155--20219214 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
20219145 AGTGATACAG
*
20219155 ATTCTAATT-TGTCACCTAATTCTA
1 ATTCTGATTCTGTCACCTAATTCTA
* *
20219179 ATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGTCACCTAATTCTA
20219204 ATTCTGATTCT
1 ATTCTGATTCT
20219215 CATTTTGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 8 0.25
25 24 0.75
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGTCACCTAATTCTA
Found at i:20222690 original size:21 final size:21
Alignment explanation
Indices: 20222649--20222692 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20222639 GATAATTTTT
*
20222649 AAAGATAATTAATAAGGTTAA
1 AAAGATAATTAATAAGATTAA
*
20222670 AAAGGTAATTTAATAA-ATTAA
1 AAAGATAA-TTAATAAGATTAA
20222691 AA
1 AA
20222693 TAGGGTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (21 bp):
AAAGATAATTAATAAGATTAA
Found at i:20223521 original size:41 final size:41
Alignment explanation
Indices: 20223460--20223571 Score: 145
Period size: 41 Copynumber: 2.7 Consensus size: 41
20223450 AGAAGATTAT
20223460 CTTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTA-C
1 CTTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTATC
* * **
20223500 CTTTGAATTGCATATAGGTGCCTATGTTTGTACTTCGGTATC
1 C-TTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTATC
* * *
20223542 CCTGAATTGCGCATACGTGCTCCTGTTTGT
1 CTTGAATTGCACATACGTGCCCCTGTTTGT
20223572 GCTCTGGTAC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.02
41 56 0.95
42 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (41 bp):
CTTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTATC
Found at i:20245650 original size:40 final size:40
Alignment explanation
Indices: 20245541--20245721 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 40
20245531 TATTCGGATG
* * *
20245541 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
20245581 A-ATTCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
20245620 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
20245660 ATAACCGGGCTAAGTCCTGAAGGCATTTGAGCAAGTAACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
20245700 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
20245722 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 46 0.37
40 77 0.63
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:20245672 original size:79 final size:80
Alignment explanation
Indices: 20245541--20245721 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 80
20245531 TATTCGGATG
* * *
20245541 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
* * *
20245605 TTTGTGCGAGTTACT
66 TTTGAGCAAGTAACT
* * *
20245620 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTAAGTCCTGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAT-ACCAGGCTAAGTCCCGAAGGC
20245684 ATTTGAGCAAGTAACT
65 ATTTGAGCAAGTAACT
* * *
20245700 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
20245722 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
78 2 0.02
79 60 0.68
80 26 0.30
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
TTTGAGCAAGTAACT
Found at i:20249526 original size:60 final size:60
Alignment explanation
Indices: 20249433--20249547 Score: 230
Period size: 60 Copynumber: 1.9 Consensus size: 60
20249423 CTCAAGAGCT
20249433 TAGAGGACCAAAGTTGGATAAGGGAAAGGAAAAAGTGATCGAATAGCCGCCGAAAAATCG
1 TAGAGGACCAAAGTTGGATAAGGGAAAGGAAAAAGTGATCGAATAGCCGCCGAAAAATCG
20249493 TAGAGGACCAAAGTTGGATAAGGGAAAGGAAAAAGTGATCGAATAGCCGCCGAAA
1 TAGAGGACCAAAGTTGGATAAGGGAAAGGAAAAAGTGATCGAATAGCCGCCGAAA
20249548 TCGTTCGACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.43, C:0.13, G:0.30, T:0.13
Consensus pattern (60 bp):
TAGAGGACCAAAGTTGGATAAGGGAAAGGAAAAAGTGATCGAATAGCCGCCGAAAAATCG
Found at i:20249873 original size:40 final size:40
Alignment explanation
Indices: 20249764--20249888 Score: 173
Period size: 40 Copynumber: 3.1 Consensus size: 40
20249754 TATTCGGATG
* *
20249764 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
20249804 A-ATTCCGGGCTCAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
20249843 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
20249883 ATAACC
1 ATAACC
20249889 ATTCTAGTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 33 0.45
40 40 0.55
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:20259888 original size:32 final size:27
Alignment explanation
Indices: 20259855--20259909 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
20259845 CCAAATACTT
20259855 ATCTTATTTCACCGTATACTAAGCTCA
1 ATCTTATTTCACCGTATACTAAGCTCA
20259882 ATCTTATTTCACCGTATACTAAGCTCA
1 ATCTTATTTCACCGTATACTAAGCTCA
20259909 A
1 A
20259910 CTCCACATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
ATCTTATTTCACCGTATACTAAGCTCA
Found at i:20269720 original size:29 final size:29
Alignment explanation
Indices: 20269658--20269777 Score: 188
Period size: 29 Copynumber: 4.2 Consensus size: 29
20269648 CACATACAAA
* *
20269658 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
20269686 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
20269715 CGTATGGCCCATTAGGCCCAAATTACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
20269744 CATATGGCCCATTAGGCCCAAATCACATC
1 CATATGGCCCATTAGGCCCAAATCACATT
20269773 CATAT
1 CATAT
20269778 TCATGTGTTC
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 18 0.21
29 66 0.79
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:20276016 original size:28 final size:29
Alignment explanation
Indices: 20275979--20276045 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
20275969 AAGTCTACAT
*
20275979 ACATACATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
20276007 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
20276036 ACATTCATAT
1 ACATTCATAT
20276046 TCATGCTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:20276301 original size:16 final size:16
Alignment explanation
Indices: 20276255--20276302 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
20276245 CAAACTTTTA
* *
20276255 GCTTTTTGGCATTTCA
1 GCTTTTCGGCATTTCG
* * *
20276271 ACTTTTCGACCTTTCG
1 GCTTTTCGGCATTTCG
20276287 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCG
20276303 AGATTTACCG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.10, C:0.25, G:0.19, T:0.46
Consensus pattern (16 bp):
GCTTTTCGGCATTTCG
Found at i:20279616 original size:20 final size:20
Alignment explanation
Indices: 20279574--20279616 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
20279564 TTATTTCTGA
* * *
20279574 ATAAATTTTCATTTTCTACC
1 ATAAATTTTAAATTTCCACC
*
20279594 ATAAATTTTAAATTTCCAGC
1 ATAAATTTTAAATTTCCACC
20279614 ATA
1 ATA
20279617 TTCATCTATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAAATTTTAAATTTCCACC
Found at i:20281157 original size:38 final size:38
Alignment explanation
Indices: 20281115--20281190 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
20281105 AGGAAAATAC
20281115 AACTTATATTAGTAGACAAACATAAACATGTCCTTAGT
1 AACTTATATTAGTAGACAAACATAAACATGTCCTTAGT
* *
20281153 AACTTATATTAGTAGACGAACCTAAACATGTCCTTAGT
1 AACTTATATTAGTAGACAAACATAAACATGTCCTTAGT
20281191 CTAATCGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (38 bp):
AACTTATATTAGTAGACAAACATAAACATGTCCTTAGT
Found at i:20284203 original size:112 final size:112
Alignment explanation
Indices: 20284084--20284892 Score: 1618
Period size: 112 Copynumber: 7.2 Consensus size: 112
20284074 AATATTAAAC
20284084 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
1 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
20284149 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
66 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
20284196 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
1 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
20284261 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
66 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
20284308 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
1 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
20284373 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
66 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
20284420 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
1 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
20284485 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
66 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
20284532 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
1 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
20284597 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
66 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
20284644 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
1 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
20284709 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
66 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
20284756 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
1 TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
20284821 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
66 ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
20284868 TAATTTAGGTATTATAATTTAATAA
1 TAATTTAGGTATTATAATTTAATAA
20284893 ACTATTTGAT
Statistics
Matches: 697, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 697 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (112 bp):
TAATTTAGGTATTATAATTTAATAATATCAAATGTAATATATAAGCTGCATGATTATTATAAAAT
ATTGCCACCATACAATCTTATATCATTAAATCATGGACATTCAATCT
Found at i:20286310 original size:41 final size:40
Alignment explanation
Indices: 20286253--20286332 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 40
20286243 TAGTTTGAGT
20286253 AAGGGAACAGATTGCAAATGTTCAGATTTGGACCCGAACCC
1 AAGGGAACAGATTGCAAATGTTCAGATTT-GACCCGAACCC
*
20286294 AAGGGAACAGATTGCAAATGTTCAGATTTGACCTGAACC
1 AAGGGAACAGATTGCAAATGTTCAGATTTGACCCGAACC
20286333 TGAATCATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 9 0.24
41 29 0.76
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (40 bp):
AAGGGAACAGATTGCAAATGTTCAGATTTGACCCGAACCC
Found at i:20295543 original size:17 final size:17
Alignment explanation
Indices: 20295521--20295553 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20295511 TTTCAGTAAA
20295521 TAAATAAATTTCTCAAT
1 TAAATAAATTTCTCAAT
*
20295538 TAAATAATTTTCTCAA
1 TAAATAAATTTCTCAA
20295554 CCCAATCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAAATTTCTCAAT
Found at i:20296280 original size:6 final size:6
Alignment explanation
Indices: 20296269--20296295 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20296259 TATTTTTTTA
20296269 TTTAAT TTTAAT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTT
20296296 CTTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:20301010 original size:40 final size:40
Alignment explanation
Indices: 20300955--20301083 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 40
20300945 AATTATTGAA
* *
20300955 TGATTGCACTTACGTGCCGC-TATTTGTACTTCGATACCCT
1 TGATTGCACTTACGTGCC-CTTGTTTGTACTTCGGTACCCT
* * *
20300995 TGATTGCACTTACGTGCCCTTGTTTGTAATTTGGTGCCCT
1 TGATTGCACTTACGTGCCCTTGTTTGTACTTCGGTACCCT
* *
20301035 TGATTGCACTTATGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCTTGTTTGTACTTCGGTACCCT
*
20301075 TGAATGCAC
1 TGATTGCAC
20301084 ATCAATTCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 76 0.99
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCTTGTTTGTACTTCGGTACCCT
Found at i:20301014 original size:20 final size:20
Alignment explanation
Indices: 20300955--20301056 Score: 84
Period size: 20 Copynumber: 5.1 Consensus size: 20
20300945 AATTATTGAA
20300955 TGATTGCACTTACGTGCCGC-
1 TGATTGCACTTACGTGCC-CT
* *
20300975 T-ATTTGTACTT-CGATACCCT
1 TGA-TTGCACTTACG-TGCCCT
20300995 TGATTGCACTTACGTGCCCT
1 TGATTGCACTTACGTGCCCT
* * * **
20301015 TGTTTGTAATTTGGTGCCCT
1 TGATTGCACTTACGTGCCCT
*
20301035 TGATTGCACTTATGTGCCCT
1 TGATTGCACTTACGTGCCCT
20301055 TG
1 TG
20301057 TTTGTACTTC
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
19 4 0.06
20 56 0.89
21 3 0.05
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.40
Consensus pattern (20 bp):
TGATTGCACTTACGTGCCCT
Found at i:20301876 original size:20 final size:20
Alignment explanation
Indices: 20301851--20301904 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
20301841 GTTTATGTTG
*
20301851 AGTAAATGGAATGTAAAGTA
1 AGTAAATGGAATGGAAAGTA
20301871 AGTAAATGGAATGGAAAGTA
1 AGTAAATGGAATGGAAAGTA
*
20301891 AGTAGATGGAATGG
1 AGTAAATGGAATGG
20301905 TTCATAGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.22
Consensus pattern (20 bp):
AGTAAATGGAATGGAAAGTA
Found at i:20304475 original size:42 final size:42
Alignment explanation
Indices: 20304416--20304519 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
20304406 CAATAGGCAC
* *
20304416 GCTTAATATGCAAATCAAATCTAAGATCAACATAGTCTA-CAT
1 GCTTAACATGCAAATCAAATATAAGATCAACATAGTC-AGCAT
* * * * *
20304458 GCTTAACATGCAAATCAAATATCAGTTTATCATAGTCAGCTT
1 GCTTAACATGCAAATCAAATATAAGATCAACATAGTCAGCAT
20304500 GCTTAACATGCAAATCAAAT
1 GCTTAACATGCAAATCAAAT
20304520 GTCAATTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 53 0.98
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (42 bp):
GCTTAACATGCAAATCAAATATAAGATCAACATAGTCAGCAT
Found at i:20304696 original size:153 final size:153
Alignment explanation
Indices: 20304510--20304817 Score: 433
Period size: 153 Copynumber: 2.0 Consensus size: 153
20304500 GCTTAACATG
* *
20304510 CAAATCAAATGTCAATTAATATAACAGTAGCATGATTAAAACATATA-A-ATATCATGCGTAATT
1 CAAATCAAATGTCAATTAATATAACAGTAGCATGATTAAAACATATATATATATCATGCATAATC
* * * * *
20304573 AATTTCACCATAAAATCACATGTAATAAGAATTGGTAA-ATACACATAATTTCACGTTAATCATT
66 AATTTCACCATAAAATCAC--GTAATAAGAATT-GAAATATACACATAATTCCACATTAATAACT
*
20304637 TAATCACATCATTTATAGCATACAAT
128 TAATCACATCATTTATAACATACAAT
*
20304663 CAAATCAAATGTCAATTAATATAATAGTAGCATGATTAAAACATATATATATATCATGCATAATC
1 CAAATCAAATGTCAATTAATATAACAGTAGCATGATTAAAACATATATATATATCATGCATAATC
** * * *
20304728 AATTTCGTCATAAAATCACGTCATGAGAATTGAAATATACACATCATTCCACATTAATAACTTAA
66 AATTTCACCATAAAATCACGTAATAAGAATTGAAATATACACATAATTCCACATTAATAACTTAA
*
20304793 TCACATCATTTATAATATACAAT
131 TCACATCATTTATAACATACAAT
20304816 CA
1 CA
20304818 CCAAAATAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
152 3 0.02
153 103 0.75
154 1 0.01
155 30 0.22
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (153 bp):
CAAATCAAATGTCAATTAATATAACAGTAGCATGATTAAAACATATATATATATCATGCATAATC
AATTTCACCATAAAATCACGTAATAAGAATTGAAATATACACATAATTCCACATTAATAACTTAA
TCACATCATTTATAACATACAAT
Found at i:20308757 original size:18 final size:18
Alignment explanation
Indices: 20308734--20308870 Score: 116
Period size: 18 Copynumber: 7.3 Consensus size: 18
20308724 ATATTTATGT
*
20308734 ATTACGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * * *
20308752 ATTACGATATGATAT-TTA
1 ATTATG-TAAGTTATGTAA
*
20308770 TTTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
20308788 ATT-TGGTAAGTTATGTAA
1 ATTAT-GTAAGTTATGTAA
*
20308806 GTTATGTAAGTTATGATATGA
1 ATTATGTAAGTTATG-TA--A
*
20308827 TATTTATTTAAGTTATGTAA
1 -A-TTATGTAAGTTATGTAA
20308847 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
20308865 GTTATG
1 ATTATG
20308871 CATTAAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
17 7 0.07
18 62 0.65
19 10 0.10
20 1 0.01
21 1 0.01
22 2 0.02
23 13 0.14
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:20308785 original size:9 final size:9
Alignment explanation
Indices: 20308771--20308870 Score: 104
Period size: 9 Copynumber: 11.6 Consensus size: 9
20308761 TGATATTTAT
20308771 TTATGTAAG
1 TTATGTAAG
*
20308780 TTATGTAAA
1 TTATGTAAG
20308789 TT-TGGTAAG
1 TTAT-GTAAG
20308798 TTATGTAAG
1 TTATGTAAG
20308807 TTATGTAAG
1 TTATGTAAG
20308816 TTATG--A-
1 TTATGTAAG
*
20308822 -TATG-ATAT
1 TTATGTA-AG
*
20308830 TTATTTAAG
1 TTATGTAAG
*
20308839 TTATGTAAA
1 TTATGTAAG
20308848 TTATGTAAG
1 TTATGTAAG
20308857 TTATGTAAG
1 TTATGTAAG
20308866 TTATG
1 TTATG
20308871 CATTAAAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.05
7 2 0.03
8 1 0.01
9 68 0.88
10 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:20308859 original size:59 final size:62
Alignment explanation
Indices: 20308739--20308870 Score: 200
Period size: 59 Copynumber: 2.2 Consensus size: 62
20308729 TATGTATTAC
20308739 GTAAGTTATGTAAATTACGATATGATATTTATTTATGTAAGTTATGTAAATTTGGTAAGTTAT
1 GTAAGTTATGTAAATTACGATATGATATTTA-TTATGTAAGTTATGTAAATTTGGTAAGTTAT
* *
20308802 GTAAGTTATGTAAGTTATGATATGATATTTA-T-T-TAAGTTATGTAAATTAT-GTAAGTTAT
1 GTAAGTTATGTAAATTACGATATGATATTTATTATGTAAGTTATGTAAATT-TGGTAAGTTAT
20308861 GTAAGTTATG
1 GTAAGTTATG
20308871 CATTAAAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
59 34 0.52
60 2 0.03
61 1 0.02
63 29 0.44
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (62 bp):
GTAAGTTATGTAAATTACGATATGATATTTATTATGTAAGTTATGTAAATTTGGTAAGTTAT
Found at i:20310724 original size:63 final size:63
Alignment explanation
Indices: 20310657--20310822 Score: 332
Period size: 63 Copynumber: 2.6 Consensus size: 63
20310647 AGCTATTATG
20310657 TTAATATGATTTGGTTTAGCCAAATCCCCAAATTAAATTTACAGCAATTATGTACCTATTACA
1 TTAATATGATTTGGTTTAGCCAAATCCCCAAATTAAATTTACAGCAATTATGTACCTATTACA
20310720 TTAATATGATTTGGTTTAGCCAAATCCCCAAATTAAATTTACAGCAATTATGTACCTATTACA
1 TTAATATGATTTGGTTTAGCCAAATCCCCAAATTAAATTTACAGCAATTATGTACCTATTACA
20310783 TTAATATGATTTGGTTTAGCCAAATCCCCAAATTAAATTT
1 TTAATATGATTTGGTTTAGCCAAATCCCCAAATTAAATTT
20310823 CAGTTCCTAC
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 103 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (63 bp):
TTAATATGATTTGGTTTAGCCAAATCCCCAAATTAAATTTACAGCAATTATGTACCTATTACA
Found at i:20311451 original size:27 final size:27
Alignment explanation
Indices: 20311420--20311489 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
20311410 ACGGCGACGC
*
20311420 AGCAGATGGTCGGGTCAACGACGATGT
1 AGCAGATGGTCGGGTCAACGACGAGGT
* *
20311447 AGCAGATGGTCGGGTCGACGGCGAGGT
1 AGCAGATGGTCGGGTCAACGACGAGGT
20311474 -GACAGATGGTCGGGTC
1 AG-CAGATGGTCGGGTC
20311490 CGGCGATGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.21, C:0.19, G:0.43, T:0.17
Consensus pattern (27 bp):
AGCAGATGGTCGGGTCAACGACGAGGT
Found at i:20312265 original size:41 final size:41
Alignment explanation
Indices: 20312208--20312327 Score: 170
Period size: 41 Copynumber: 2.9 Consensus size: 41
20312198 TTTCTCATAT
* * *
20312208 ATAAATGCCGCTACTACTTGACCTTTTGTGGCGTTTTTCTC
1 ATAAACGCAGCTACTACTTGACCTTTTGCGGCGTTTTTCTC
* *
20312249 ATAAACGCAGCTACTACTTGACCTTTTACGGCATTTTTCTC
1 ATAAACGCAGCTACTACTTGACCTTTTGCGGCGTTTTTCTC
*
20312290 ATAAACGACA-CTACTGCTTGACCTTTTGCGGCGTTTTT
1 ATAAACG-CAGCTACTACTTGACCTTTTGCGGCGTTTTT
20312328 GGTCCAAACG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 68 0.97
42 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (41 bp):
ATAAACGCAGCTACTACTTGACCTTTTGCGGCGTTTTTCTC
Found at i:20319422 original size:28 final size:28
Alignment explanation
Indices: 20319361--20319425 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
20319351 TCAGTGTACG
**
20319361 AAATATTGAGAATGACACTTAATGTGTG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
20319389 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
20319417 AAATATTGA
1 AAATATTGA
20319426 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:20319542 original size:39 final size:39
Alignment explanation
Indices: 20319498--20319788 Score: 458
Period size: 39 Copynumber: 7.5 Consensus size: 39
20319488 GACTTTATAA
*
20319498 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
20319537 TGGTGTTATATCCGGGTTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
20319576 TGGTGTTATATCCGGGCTAAGTCTCGAAGGCATTCGTAC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
20319615 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
20319654 TAGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
20319693 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
20319732 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
20319771 TGGTATTATATCCGGGCT
1 TGGTGTTATATCCGGGCT
20319789 TAAAGTCCTG
Statistics
Matches: 231, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 220 0.95
40 11 0.05
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:20325658 original size:47 final size:47
Alignment explanation
Indices: 20325588--20325717 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
20325578 GTGCGAGTAA
* * ** *
20325588 TACCTTAATTTGGCTAC-AGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTAATTTGGCTACGA-GCCATGGTATAGGTACTCCGAGAGAAGT
* *
20325635 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCCGAGATAAGT
1 TACCTTAATTTGGCTACGAGCCATGGTATAGGTACTCCGAGAGAAGT
*
20325682 TACCTTAATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTAATTTGGCTACGAGCCATGGTATAGGTACT
20325718 TACCGATTGA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 72 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (47 bp):
TACCTTAATTTGGCTACGAGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:20330041 original size:79 final size:82
Alignment explanation
Indices: 20329930--20330114 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20329920 GCTACTCGTT
* *
20329930 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20329993 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20330010 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20330073 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20330090 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20330115 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20330114 original size:40 final size:40
Alignment explanation
Indices: 20329911--20330114 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20329901 CGGAATTTAA
** *
20329911 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20329951 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20329991 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20330030 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20330070 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20330110 CCGGA
1 CCGGA
20330115 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20334351 original size:47 final size:47
Alignment explanation
Indices: 20334300--20335246 Score: 1768
Period size: 47 Copynumber: 20.1 Consensus size: 47
20334290 TTCTAAATTG
* *
20334300 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
*
20334347 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334394 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334441 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334488 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334535 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334582 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334629 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334676 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334723 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334770 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334817 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334864 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334911 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20334958 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20335005 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20335052 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20335099 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
*
20335146 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
*** * * * * * * *
20335193 TGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATG
1 TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
20335240 TGATAAG
1 TGATAAG
20335247 TCCCGAAGGG
Statistics
Matches: 885, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 885 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:20335422 original size:38 final size:37
Alignment explanation
Indices: 20335365--20335443 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
20335355 CTGAGCTCTA
* *
20335365 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
*
20335403 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20335440 AAGA
1 AAGA
20335444 TTTCGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.41
38 21 0.57
39 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20337773 original size:30 final size:30
Alignment explanation
Indices: 20337738--20337797 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
20337728 TCTATTCACT
20337738 AACATTTCAACCACTCAATTCCATATTCAA
1 AACATTTCAACCACTCAATTCCATATTCAA
20337768 AACATTTCAACCACTCAATTCCATATTCAA
1 AACATTTCAACCACTCAATTCCATATTCAA
20337798 GCATACCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (30 bp):
AACATTTCAACCACTCAATTCCATATTCAA
Found at i:20346050 original size:40 final size:40
Alignment explanation
Indices: 20346002--20346207 Score: 344
Period size: 40 Copynumber: 5.2 Consensus size: 40
20345992 GGACTAAGAT
*
20346002 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTT
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
20346042 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
20346082 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
20346122 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
20346162 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
20346201 CCGAAGG
1 CCGAAGG
20346208 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 15 0.09
40 141 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:20349216 original size:17 final size:16
Alignment explanation
Indices: 20349190--20349221 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
20349180 AGTAAAACTT
20349190 AAGTTCTAATAGCTAA
1 AAGTTCTAATAGCTAA
20349206 AAGTGTCTAATAGCTA
1 AAGT-TCTAATAGCTA
20349222 TAGAACCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
AAGTTCTAATAGCTAA
Found at i:20354009 original size:23 final size:22
Alignment explanation
Indices: 20353957--20354031 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
20353947 CCTGATCAGT
*
20353957 ATACGACACA-GAAAGTGCCT-A
1 ATACGACACACG-AGGTGCCTGA
*
20353978 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
20353999 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
20354022 ATACGACACA
1 ATACGACACA
20354032 TAAAGTGCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 36 0.77
22 1 0.02
23 10 0.21
ACGTcount: A:0.39, C:0.27, G:0.23, T:0.12
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:20354039 original size:23 final size:23
Alignment explanation
Indices: 20353957--20354043 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
20353947 CCTGATCAGT
*
20353957 ATACGACACAGAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
20353979 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
20353999 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
20354022 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
20354044 TCAATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:20354043 original size:44 final size:42
Alignment explanation
Indices: 20353957--20354044 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 42
20353947 CCTGATCAGT
* *
20353957 ATACGACACAGAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACAGAAAGTGCCTAAAACGACACACAAAGTGCCTG
* *
20353999 ATACGACACACG-AGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACA-GAAAGTGCCT-AAA-ACGACACACAAAGTGCCTG
20354043 AT
1 AT
20354045 CAATAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 17 0.44
43 4 0.10
44 18 0.46
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (42 bp):
ATACGACACAGAAAGTGCCTAAAACGACACACAAAGTGCCTG
Found at i:20354222 original size:5 final size:5
Alignment explanation
Indices: 20354212--20354261 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
20354202 TTCACAATTC
20354212 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
20354262 TAAAACATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:20354297 original size:8 final size:8
Alignment explanation
Indices: 20354284--20354312 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20354274 TATCTTTATT
20354284 ATATAATA
1 ATATAATA
20354292 ATATAATA
1 ATATAATA
20354300 ATATAATA
1 ATATAATA
20354308 ATATA
1 ATATA
20354313 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:20357265 original size:36 final size:34
Alignment explanation
Indices: 20357172--20357239 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
20357162 CTGTAAGTTT
20357172 CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
1 CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
20357206 CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
1 CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
20357240 TTAGAATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (34 bp):
CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
Found at i:20359880 original size:37 final size:37
Alignment explanation
Indices: 20359820--20359895 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
20359810 TATTACGAAA
* * *
20359820 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
20359857 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
20359894 TC
1 TC
20359896 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:20360094 original size:47 final size:47
Alignment explanation
Indices: 20360016--20360278 Score: 400
Period size: 47 Copynumber: 5.6 Consensus size: 47
20360006 CCCTTCGGGA
* * * * * *
20360016 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
20360063 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20360110 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20360159 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20360206 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20360253 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
20360279 ATGGGTTTAA
Statistics
Matches: 197, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 152 0.77
49 45 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20360195 original size:96 final size:96
Alignment explanation
Indices: 20360016--20360278 Score: 408
Period size: 96 Copynumber: 2.8 Consensus size: 96
20360006 CCCTTCGGGA
* * * * * * * *
20360016 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
20360079 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
*
20360110 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
*
20360175 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
20360206 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
20360269 ACTTTCACAT
66 ACTTTCACAT
20360279 ATGGGTTTAA
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
94 74 0.47
95 1 0.01
96 81 0.52
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:20360221 original size:143 final size:141
Alignment explanation
Indices: 20360016--20360278 Score: 409
Period size: 143 Copynumber: 1.9 Consensus size: 141
20360006 CCCTTCGGGA
** * * * *
20360016 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
20360081 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCACA
20360146 TCGGCTATTAGGC
129 TCGGCTATTAGGC
* * *
20360159 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
20360224 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACAT
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACAT
20360279 ATGGGTTTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
141 18 0.17
143 91 0.83
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCTATTAGGC
Found at i:20364044 original size:40 final size:40
Alignment explanation
Indices: 20364000--20364103 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
20363990 GAATACATGT
* * *
20364000 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
20364040 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
*
20364080 CACTAGCACGAATGCTCTTCGGAA
1 CACCAGCACGAATGCTCTTCGGAA
20364104 TTTAGCCCAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:20364149 original size:40 final size:41
Alignment explanation
Indices: 20364105--20364277 Score: 187
Period size: 40 Copynumber: 4.3 Consensus size: 41
20364095 TCTTCGGAAT
*
20364105 TTAGCCCAGATTTAGT-AACTCGCACCAA-TGCCTTCGGGTC
1 TTAGCCCAGATATA-TCAACTCGCACCAATTGCCTTCGGGTC
* *
20364145 TTAGCCCGGATATATCAACTTGCA-CAATTGCCTTCGGGTC
1 TTAGCCCAGATATATCAACTCGCACCAATTGCCTTCGGGTC
** * *
20364185 TTAGCCTGGATATATCAATTCGCA-CAAATGCCTTCGGGTC
1 TTAGCCCAGATATATCAACTCGCACCAATTGCCTTCGGGTC
* * *
20364225 TTAGCCCAGATATAATC-ACTAGC-TCAATTGCCTTCGGGAC
1 TTAGCCCAGATAT-ATCAACTCGCACCAATTGCCTTCGGGTC
*
20364265 TTAGCCCGGATAT
1 TTAGCCCAGATAT
20364278 CATTCAAATG
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 4 0.03
40 108 0.94
41 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
TTAGCCCAGATATATCAACTCGCACCAATTGCCTTCGGGTC
Found at i:20364180 original size:80 final size:79
Alignment explanation
Indices: 20364079--20364277 Score: 215
Period size: 80 Copynumber: 2.5 Consensus size: 79
20364069 TCCGGATACC
* *
20364079 TCACTAGCACGAA-TGCTCTTCGGAATTTAGCCCAGATTTAGT-AACTCGCACCAATGCCTTCGG
1 TCACTAGCAC-AATTGC-CTTCGG-ATTTAGCCCAGATATA-TCAACTCGCACAAATGCCTTCGG
*
20364142 GTCTTAGCCCGGATAT-A
62 GTCTTAGCCCAGATATAA
* * ** *
20364159 TCAACTTGCACAATTGCCTTCGGGTCTTAGCCTGGATATATCAATTCGCACAAATGCCTTCGGGT
1 TC-ACTAGCACAATTGCCTTCGGAT-TTAGCCCAGATATATCAACTCGCACAAATGCCTTCGGGT
20364224 CTTAGCCCAGATATAA
64 CTTAGCCCAGATATAA
* * *
20364240 TCACTAGCTCAATTGCCTTCGGGACTTAGCCCGGATAT
1 TCACTAGCACAATTGCCTTC-GGATTTAGCCCAGATAT
20364278 CATTCAAATG
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
79 2 0.02
80 83 0.83
81 15 0.15
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (79 bp):
TCACTAGCACAATTGCCTTCGGATTTAGCCCAGATATATCAACTCGCACAAATGCCTTCGGGTCT
TAGCCCAGATATAA
Found at i:20364684 original size:43 final size:43
Alignment explanation
Indices: 20364623--20364727 Score: 192
Period size: 43 Copynumber: 2.4 Consensus size: 43
20364613 CATGCATTTC
20364623 TTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA
1 TTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA
20364666 TTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA
1 TTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA
* *
20364709 TTACTCGCACACTTAGTGC
1 TTGCCCGCACACTTAGTGC
20364728 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (43 bp):
TTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTA
Found at i:20382323 original size:21 final size:21
Alignment explanation
Indices: 20382274--20382324 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
20382264 TCCAACACTC
* *
20382274 ATAATTTATCTAACCCAATAT
1 ATAATTTATATAACCCAAAAT
* * *
20382295 TTATTTTATATTACCCAAAAT
1 ATAATTTATATAACCCAAAAT
20382316 ATAATTTAT
1 ATAATTTAT
20382325 TTAATCAATT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAATTTATATAACCCAAAAT
Found at i:20382511 original size:26 final size:26
Alignment explanation
Indices: 20382452--20382511 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
20382442 TTTAATTTCC
*
20382452 TTATTTAGCATATCCAAAATGACTAA
1 TTATTTATCATATCCAAAATGACTAA
20382478 TTATTTATCATATCCAAAATGACTAA
1 TTATTTATCATATCCAAAATGACTAA
20382504 TTATTTAT
1 TTATTTAT
20382512 TTCCACATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (26 bp):
TTATTTATCATATCCAAAATGACTAA
Found at i:20384511 original size:54 final size:54
Alignment explanation
Indices: 20384423--20384532 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
20384413 CAAAAAGTTT
*
20384423 AACAATTTTGCAAATTGGTACATGGGCTAACTTAATCAAGCTCTCATGACCTCA
1 AACAATTTTGCAAATTGGTACATGAGCTAACTTAATCAAGCTCTCATGACCTCA
* *
20384477 AACAATTTTTCAAATTGGTACATGAGCTAGCTTAATCAAGCTCTCATGACCTCA
1 AACAATTTTGCAAATTGGTACATGAGCTAACTTAATCAAGCTCTCATGACCTCA
20384531 AA
1 AA
20384533 AACATAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (54 bp):
AACAATTTTGCAAATTGGTACATGAGCTAACTTAATCAAGCTCTCATGACCTCA
Found at i:20384713 original size:10 final size:10
Alignment explanation
Indices: 20384698--20384738 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
20384688 ACTTGGATTG
20384698 AACCTTAATT
1 AACCTTAATT
20384708 AACCTTAATT
1 AACCTTAATT
20384718 AA--TTAATT
1 AACCTTAATT
*
20384726 AAACCTTATTT
1 -AACCTTAATT
20384737 AA
1 AA
20384739 TTAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 14 0.52
11 5 0.19
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (10 bp):
AACCTTAATT
Found at i:20384732 original size:19 final size:18
Alignment explanation
Indices: 20384702--20384742 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
20384692 GGATTGAACC
20384702 TTAATTAACCTTAATTAA
1 TTAATTAACCTTAATTAA
*
20384720 TTAATTAAACCTTATTTAA
1 TTAATT-AACCTTAATTAA
20384739 TTAA
1 TTAA
20384743 AATTTAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATTAACCTTAATTAA
Found at i:20390251 original size:20 final size:19
Alignment explanation
Indices: 20390200--20390251 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
20390190 TTATTAAAAT
20390200 AAAAAA-TTTAAAATTATG
1 AAAAAATTTTAAAATTATG
***
20390218 AAAAAATAAAAAAATTTATG
1 AAAAAATTTTAAAA-TTATG
*
20390238 AAAATATTTTAAAA
1 AAAAAATTTTAAAA
20390252 AATAGAAAGT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 6 0.24
19 4 0.16
20 15 0.60
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAAATTTTAAAATTATG
Found at i:20390645 original size:5 final size:5
Alignment explanation
Indices: 20390635--20390659 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20390625 TGTGTTCTTC
20390635 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
20390660 CACATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:20390998 original size:39 final size:36
Alignment explanation
Indices: 20390948--20391078 Score: 104
Period size: 39 Copynumber: 3.4 Consensus size: 36
20390938 GTTTTATATT
*
20390948 TTTTATGATTTTTATAACATTTTATAGTATTTTTTAAAA
1 TTTTATAATTTTT-TAA-ATTTTATA-TATTTTTTAAAA
* * *
20390987 TTTTATTATTTTTTAAATAATTTTCTATATTTTTAAAAA
1 TTTTATAATTTTTT--A-AATTTTATATATTTTTTAAAA
*
20391026 TTTTA-AATTTTTTTAAA-TTTATATAATTTTTTTATAA
1 TTTTATAA-TTTTTTAAATTTTATAT-A-TTTTTTAAAA
*
20391063 TTTAAATAATTTTTTA
1 TTT-TATAATTTTTTA
20391079 TTTTTAATAG
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
35 6 0.08
36 3 0.04
37 12 0.16
38 10 0.13
39 36 0.47
40 8 0.11
41 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (36 bp):
TTTTATAATTTTTTAAATTTTATATATTTTTTAAAA
Found at i:20391038 original size:19 final size:19
Alignment explanation
Indices: 20390977--20391059 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
20390967 TTTTATAGTA
*
20390977 TTTTTT-AAAATTTT-ATT
1 TTTTTTAAAAATTTTAAAT
**
20390994 ATTTTTTAAATAATTTTCTAT
1 -TTTTTTAAA-AATTTTAAAT
*
20391015 ATTTTTAAAAATTTTAAAT
1 TTTTTTAAAAATTTTAAAT
20391034 TTTTTT--AAATTTATATAAT
1 TTTTTTAAAAATTT-TA-AAT
20391053 TTTTTTA
1 TTTTTTA
20391060 TAATTTAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
17 6 0.11
18 8 0.15
19 24 0.45
20 14 0.26
21 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTAAAAATTTTAAAT
Found at i:20391064 original size:20 final size:19
Alignment explanation
Indices: 20390933--20391077 Score: 91
Period size: 20 Copynumber: 7.5 Consensus size: 19
20390923 ACTATATTTC
* *
20390933 TAATTGTTTTATATTTTTTA
1 TAATTTTTTTATA-ATTTTA
* *
20390953 TGATTTTTATA-ACATTTTA
1 TAATTTTTTTATA-ATTTTA
* *
20390972 TAGTATTTTTTAAAATTTTA
1 TAAT-TTTTTTATAATTTTA
* * *
20390992 TTATTTTTTAAATAATTTTC
1 TAATTTTTT-TATAATTTTA
* *
20391012 T-ATATTTTTAAAAATTTTA
1 TAAT-TTTTTTATAATTTTA
20391031 -AATTTTTTTA-AATTTATA
1 TAATTTTTTTATAATTT-TA
*
20391049 TAATTTTTTTATAATTTAAA
1 TAATTTTTTTATAATTT-TA
20391069 TAATTTTTT
1 TAATTTTTT
20391078 ATTTTTAATA
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
17 5 0.05
18 8 0.08
19 35 0.35
20 51 0.51
21 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (19 bp):
TAATTTTTTTATAATTTTA
Found at i:20391794 original size:17 final size:20
Alignment explanation
Indices: 20391755--20391795 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
20391745 TTTACTATTA
20391755 TGTTGTTATTGTATAATTCT
1 TGTTGTTATTGTATAATTCT
20391775 TGTT-TTATTGT-TAATT-T
1 TGTTGTTATTGTATAATTCT
20391792 TGTT
1 TGTT
20391796 ACTATTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 5 0.24
19 7 0.33
20 4 0.19
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (20 bp):
TGTTGTTATTGTATAATTCT
Done.