Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 122 of 143
Found at i:36307032 original size:24 final size:25
Alignment explanation
Indices: 36306996--36307050 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
36306986 GTGTTGGAAA
36306996 TTCTC-TTCTTTCTTACAT-TGCAG-T
1 TTCTCTTTCTTTCTT-CATCTG-AGTT
36307020 TTCTCTTTC-TTCTTCATCTGAGTT
1 TTCTCTTTCTTTCTTCATCTGAGTT
36307044 TTCTCTT
1 TTCTCTT
36307051 GGGTTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.18
24 20 0.71
25 3 0.11
ACGTcount: A:0.09, C:0.25, G:0.07, T:0.58
Consensus pattern (25 bp):
TTCTCTTTCTTTCTTCATCTGAGTT
Found at i:36322008 original size:22 final size:23
Alignment explanation
Indices: 36321969--36322015 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
36321959 ACCAGCAATC
* *
36321969 AAAAATTGAAATGATTAAGTAAA
1 AAAAATAGAAAAGATTAAGTAAA
*
36321992 AAAAATAGAAAAG-TTAATTAAA
1 AAAAATAGAAAAGATTAAGTAAA
36322014 AA
1 AA
36322016 CGAAAAACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (23 bp):
AAAAATAGAAAAGATTAAGTAAA
Found at i:36328113 original size:25 final size:25
Alignment explanation
Indices: 36328064--36328113 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
36328054 CAATTTATTT
*
36328064 AAAATTCATATTCTATTATATTAAA
1 AAAATTCATATTCTATTATACTAAA
*
36328089 AAAATTCATATTTTATTGA-ACTAAA
1 AAAATTCATATTCTATT-ATACTAAA
36328114 TGAATGGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAATTCATATTCTATTATACTAAA
Found at i:36333341 original size:3 final size:3
Alignment explanation
Indices: 36333333--36333361 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36333323 GGAAGATGCT
36333333 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
36333362 CAGAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36336414 original size:17 final size:17
Alignment explanation
Indices: 36336392--36336429 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
36336382 CGAAATTCAT
36336392 ATATAAA-TATAAATATA
1 ATATAAACTATAAA-ATA
*
36336409 ATATAAACTATTAAATA
1 ATATAAACTATAAAATA
36336426 ATAT
1 ATAT
36336430 TTATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAAACTATAAAATA
Found at i:36337859 original size:22 final size:20
Alignment explanation
Indices: 36337829--36337868 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
36337819 AATTGAGTTT
36337829 ATTTTATTTTATATCTATTAA
1 ATTTTATTTTATAT-TATTAA
36337850 ATTTATATTTTATATTATT
1 ATTT-TATTTTATATTATT
36337869 TTTACATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTATTTTATATTATTAA
Found at i:36338012 original size:46 final size:46
Alignment explanation
Indices: 36337959--36338046 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
36337949 AAGCGAATTG
* ** * *
36337959 ATGATAACTACAATATTTTCCAAGTGTATAACTAGTATTACACCAC
1 ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACACCAC
36338005 ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACA
1 ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACA
36338047 AATTAGTAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (46 bp):
ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACACCAC
Found at i:36339780 original size:17 final size:17
Alignment explanation
Indices: 36339758--36339791 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36339748 CCATATTTAG
36339758 GATAAATTTCAAATTAA
1 GATAAATTTCAAATTAA
*
36339775 GATAAATTTCTAATTAA
1 GATAAATTTCAAATTAA
36339792 ATTAGCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (17 bp):
GATAAATTTCAAATTAA
Found at i:36350951 original size:6 final size:6
Alignment explanation
Indices: 36350936--36350969 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
36350926 AAAGTTTAAA
*
36350936 AAAT-T AAATAT AAATAT AAATAT AGATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATA
36350970 ATTTTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:36353756 original size:32 final size:32
Alignment explanation
Indices: 36353715--36353799 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 32
36353705 GGATTGACAG
*
36353715 GAAATATCTGAAATTATCCTCGGGACTCAGTT
1 GAAATATCTGAAATTATCCTCGGGACTCAATT
*
36353747 GAAATATCTGAAATTTAGTTTATCCTGGGGACTCAATT
1 GAAATATCTG-AA---A--TTATCCTCGGGACTCAATT
36353785 GAAATATCTGAAATT
1 GAAATATCTGAAATT
36353800 GGGTTTGCAG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
32 12 0.27
33 2 0.04
34 1 0.02
36 1 0.02
37 2 0.04
38 27 0.60
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
GAAATATCTGAAATTATCCTCGGGACTCAATT
Found at i:36372315 original size:58 final size:59
Alignment explanation
Indices: 36372230--36372362 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 59
36372220 AATCGAGATC
* ** *
36372230 AAAAAT-GAAATTTTGGACACCTTGGGGTAATTTGGTAATTTTT-GAAAGTTTT-GGGTA
1 AAAAATAGAATTTTTGGACACCTTGGGGTAAAATGATAATTTTTAG-AAGTTTTAGGGTA
* * * *
36372287 AAAAATGGAGTTTTTGGACA-TTTAGGGGTAAAATGATAATTTTTAGAAGTTTTAGGGTC
1 AAAAATAGAATTTTTGGACACCTT-GGGGTAAAATGATAATTTTTAGAAGTTTTAGGGTA
36372346 AAAAATAGAATTTTTGG
1 AAAAATAGAATTTTTGG
36372363 GAGTTCGAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
57 8 0.13
58 35 0.56
59 20 0.32
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (59 bp):
AAAAATAGAATTTTTGGACACCTTGGGGTAAAATGATAATTTTTAGAAGTTTTAGGGTA
Found at i:36372344 original size:29 final size:29
Alignment explanation
Indices: 36372307--36372490 Score: 92
Period size: 30 Copynumber: 6.2 Consensus size: 29
36372297 TTTTTGGACA
36372307 TTTAGGGGT-AAAATGATAATTTTTAGAAGT
1 TTTA-GGGTCAAAAT-ATAATTTTTAGAAGT
* * *
36372337 TTTAGGGTCAAAAATAGAATTTTTGGGAGT
1 TTTAGGGTC-AAAATATAATTTTTAGAAGT
** * ** *
36372367 TCGAGGGTAAAAACGTAATTTTTGGAAGT
1 TTTAGGGTCAAAATATAATTTTTAGAAGT
*
36372396 TTT-GAGGTCAAAA-ATCAAGTTTTTGGAAG-
1 TTTAG-GGTCAAAATAT-AA-TTTTTAGAAGT
* * * *
36372425 TTTGGAGGT-AAAATGTAATTTTGGAAAAGT
1 TTTAG-GGTCAAAATATAATTTT-TAGAAGT
** *
36372455 TTGGGGGTCAAAATATAATTTCTAGATAG-
1 TTTAGGGTCAAAATATAATTTTTAGA-AGT
36372484 TTTAGGG
1 TTTAGGG
36372491 ACCTCTAGGG
Statistics
Matches: 118, Mismatches: 25, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
28 6 0.05
29 52 0.44
30 55 0.47
31 5 0.04
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
TTTAGGGTCAAAATATAATTTTTAGAAGT
Found at i:36372358 original size:30 final size:30
Alignment explanation
Indices: 36372266--36372427 Score: 108
Period size: 30 Copynumber: 5.5 Consensus size: 30
36372256 GTAATTTGGT
* * *
36372266 AATTTTTGAAAGTTTT-GGGTAAAAAATGG
1 AATTTTTGGAAGTTTTAGGGTCAAAAATAG
* *
36372295 AGTTTTTGGACA--TTTAGGGGT--AAAATGAT
1 AATTTTTGGA-AGTTTTA-GGGTCAAAAAT-AG
*
36372324 AATTTTTAGAAGTTTTAGGGTCAAAAATAG
1 AATTTTTGGAAGTTTTAGGGTCAAAAATAG
* ** *
36372354 AATTTTTGGGAGTTCGAGGGT-AAAAA-CG
1 AATTTTTGGAAGTTTTAGGGTCAAAAATAG
36372382 TAATTTTTGGAAGTTTT-GAGGTCAAAAATCA-
1 -AATTTTTGGAAGTTTTAG-GGTCAAAAAT-AG
*
36372413 AGTTTTTGGAAGTTT
1 AATTTTTGGAAGTTT
36372428 GGAGGTAAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
28 11 0.11
29 41 0.40
30 46 0.45
31 5 0.05
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (30 bp):
AATTTTTGGAAGTTTTAGGGTCAAAAATAG
Found at i:36372375 original size:59 final size:55
Alignment explanation
Indices: 36372264--36372446 Score: 188
Period size: 59 Copynumber: 3.1 Consensus size: 55
36372254 GGGTAATTTG
* * *
36372264 GTAATTTTTGAAAGTTTTGGGTAAAAAATGGAGTTTTTGGACATTTAGGGGTAAAAT
1 GTAATTTTTG-AAGTTTTGGGTCAAAAATAGAGTTTTTGGA-AGTTAGGGGTAAAAT
* * * *
36372321 GATAATTTTTAGAAGTTTTAGGGTCAAAAATAGAATTTTTGGGAGTTCGAGGGTAAAAAC
1 G-TAATTTTT-GAAGTTTT-GGGTCAAAAATAGAGTTTTTGGAAGTTAG-GGGT-AAAAT
*
36372381 GTAATTTTTGGAAGTTTTGAGGTCAAAAATCA-AGTTTTTGGAAGTTTGGAGGTAAAAT
1 GTAATTTTT-GAAGTTTTG-GGTCAAAAAT-AGAGTTTTTGGAAGTTAGG-GGTAAAAT
36372439 GTAATTTT
1 GTAATTTT
36372447 GGAAAAGTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
57 1 0.01
58 33 0.31
59 66 0.62
60 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (55 bp):
GTAATTTTTGAAGTTTTGGGTCAAAAATAGAGTTTTTGGAAGTTAGGGGTAAAAT
Found at i:36372455 original size:59 final size:57
Alignment explanation
Indices: 36372264--36372472 Score: 162
Period size: 59 Copynumber: 3.6 Consensus size: 57
36372254 GGGTAATTTG
* * *
36372264 GTAATTTTTGAAAGTTTTG-GGTAAAAAATGGAGTTTTTGGACA-TTTAGG-GGTAAAAT
1 GTAATTTTGGAAAGTTTTGAGGTCAAAAAT-AAGTTTTTGGA-AGTTT-GGAGGTAAAAT
* * * * *
36372321 GATAATTTT-TAGAAGTTTT-AGGGTCAAAAATAGAATTTTTGGGAG-TTCGAGGGTAAAAAC
1 G-TAATTTTGGA-AAGTTTTGA-GGTCAAAAATA-AGTTTTTGGAAGTTTGGA-GGT-AAAAT
36372381 GTAATTTTTGG-AAGTTTTGAGGTCAAAAATCAAGTTTTTGGAAGTTTGGAGGTAAAAT
1 GTAA-TTTTGGAAAGTTTTGAGGTCAAAAAT-AAGTTTTTGGAAGTTTGGAGGTAAAAT
* *
36372439 GTAATTTTGGAAAAGTTTGGGGGTCAAAATATAA
1 GTAATTTTGG-AAAGTTTTGAGGTCAAAA-ATAA
36372473 TTTCTAGATA
Statistics
Matches: 121, Mismatches: 14, Indels: 32
0.72 0.08 0.19
Matches are distributed among these distances:
57 9 0.07
58 25 0.21
59 70 0.58
60 17 0.14
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (57 bp):
GTAATTTTGGAAAGTTTTGAGGTCAAAAATAAGTTTTTGGAAGTTTGGAGGTAAAAT
Found at i:36373572 original size:18 final size:19
Alignment explanation
Indices: 36373549--36373625 Score: 90
Period size: 18 Copynumber: 4.2 Consensus size: 19
36373539 TTCCTTCTTT
36373549 TTTATTATTA-AATTAATA
1 TTTATTATTATAATTAATA
36373567 TTTATTATTATAA-TAATA
1 TTTATTATTATAATTAATA
* *
36373585 TTTATTACTATTATTAATA
1 TTTATTATTATAATTAATA
*
36373604 -TTATTATTCATAA-AAATA
1 TTTATTATT-ATAATTAATA
36373622 TTTA
1 TTTA
36373626 ATACTAAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
18 37 0.74
19 13 0.26
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATTATTATAATTAATA
Found at i:36373603 original size:37 final size:37
Alignment explanation
Indices: 36373560--36373631 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
36373550 TTATTATTAA
* *
36373560 ATTAATATTTATTATT-ATAATAATATTTATTACTATT
1 ATTAATA-TTATTATTCATAAAAATATTTAATACTATT
36373597 ATTAATATTATTATTCATAAAAATATTTAATACTA
1 ATTAATATTATTATTCATAAAAATATTTAATACTA
36373632 AATGTGTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 8 0.25
37 24 0.75
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (37 bp):
ATTAATATTATTATTCATAAAAATATTTAATACTATT
Found at i:36374452 original size:17 final size:17
Alignment explanation
Indices: 36374416--36374465 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
36374406 AATAATTTTT
* * *
36374416 AATTCAAAATAAATTCA
1 AATTTAAAATAAAATAA
36374433 AATTTAAAATAAAATAA
1 AATTTAAAATAAAATAA
36374450 AATTTTAAAATTAAAA
1 AA-TTTAAAA-TAAAA
36374466 GTTAGATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 16 0.57
18 7 0.25
19 5 0.18
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTTAAAATAAAATAA
Found at i:36387564 original size:43 final size:43
Alignment explanation
Indices: 36387509--36387594 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
36387499 AATATTATGA
*
36387509 TGTACAAAGGGATGTGTCATGTATGTATGATATGTAGATGATC
1 TGTACAAAGGGATGTATCATGTATGTATGATATGTAGATGATC
36387552 TGTACAAAGGGATGTATCATGTATGTATGATATGTAGATGATC
1 TGTACAAAGGGATGTATCATGTATGTATGATATGTAGATGATC
36387595 CACTGCTTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTACAAAGGGATGTATCATGTATGTATGATATGTAGATGATC
Found at i:36391937 original size:13 final size:14
Alignment explanation
Indices: 36391913--36391941 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36391903 GTTATACTAG
36391913 ATTTTATAATTTTT
1 ATTTTATAATTTTT
36391927 ATTTT-TAATTTTT
1 ATTTTATAATTTTT
36391940 AT
1 AT
36391942 GAATTCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTATAATTTTT
Found at i:36400963 original size:58 final size:60
Alignment explanation
Indices: 36400893--36401005 Score: 203
Period size: 60 Copynumber: 1.9 Consensus size: 60
36400883 AACATAAATA
*
36400893 CCAACTATAACTTTCAATAGGG-AAA-AAATAAAGCATGCATATAAGCAAAAACCAAAAG
1 CCAACTATAACTTTCAATAGGGAAAATAAAAAAAGCATGCATATAAGCAAAAACCAAAAG
36400951 CCAACTATAACTTTCAATAGGGAAAATAAAAAAAGCATGCATATAAGCAAAAACC
1 CCAACTATAACTTTCAATAGGGAAAATAAAAAAAGCATGCATATAAGCAAAAACC
36401006 CTAAACCAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
58 22 0.42
59 3 0.06
60 27 0.52
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (60 bp):
CCAACTATAACTTTCAATAGGGAAAATAAAAAAAGCATGCATATAAGCAAAAACCAAAAG
Found at i:36405472 original size:16 final size:16
Alignment explanation
Indices: 36405452--36405506 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
36405442 GAAAAATTAT
36405452 ATTTTCTATCTTTCCA
1 ATTTTCTATCTTTCCA
* *
36405468 TTTTTCTACCCTTT-CA
1 ATTTTCTA-TCTTTCCA
*
36405484 ATTTTCTTTCTTTCCA
1 ATTTTCTATCTTTCCA
36405500 ATTTTCT
1 ATTTTCT
36405507 TTCCACTCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 4 0.12
16 24 0.75
17 4 0.12
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTCTATCTTTCCA
Found at i:36406547 original size:3 final size:3
Alignment explanation
Indices: 36406539--36406570 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36406529 AGATAAACAA
36406539 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36406571 GGAAAAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:36411364 original size:1 final size:1
Alignment explanation
Indices: 36411324--36411348 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
36411314 CCAATGGGAG
36411324 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
36411349 GCCTTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:36421232 original size:18 final size:18
Alignment explanation
Indices: 36421205--36421240 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36421195 AACGCTTATT
36421205 TATATATATTATAAATTA
1 TATATATATTATAAATTA
* *
36421223 TATATGTATTATAGATTA
1 TATATATATTATAAATTA
36421241 AAGTTATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TATATATATTATAAATTA
Found at i:36424729 original size:20 final size:19
Alignment explanation
Indices: 36424685--36424738 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
36424675 CCCAAATTAT
*
36424685 TATTCTAGAA-TTTTTTAAG
1 TATT-TAGAATTTTTTTAAA
*
36424704 TTTTTAGAATTTTTTTGAAA
1 TATTTAGAATTTTTTT-AAA
*
36424724 TATTTATAATTTTTT
1 TATTTAGAATTTTTT
36424739 AAAAATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 5 0.17
19 9 0.31
20 15 0.52
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (19 bp):
TATTTAGAATTTTTTTAAA
Found at i:36424744 original size:20 final size:19
Alignment explanation
Indices: 36424711--36424802 Score: 67
Period size: 20 Copynumber: 4.4 Consensus size: 19
36424701 AAGTTTTTAG
**
36424711 AATTTTTTTGAAATATTTAT
1 AATTTTTTAAAAATATTT-T
36424731 AATTTTTTAAAAATATAAATTTT
1 AATTTTTT-AAAA-AT--ATTTT
* *
36424754 AAAATTTTTATAAATATTTT
1 -AATTTTTTAAAAATATTTT
*
36424774 AAATTTTTAAAAATTATTTT
1 AATTTTTTAAAAA-TATTTT
36424794 GAATTTTTT
1 -AATTTTTT
36424803 GTATTTGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
19 12 0.20
20 19 0.32
21 9 0.15
22 4 0.07
23 4 0.07
24 11 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTTTTAAAAATATTTT
Found at i:36424779 original size:19 final size:19
Alignment explanation
Indices: 36424744--36424801 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
36424734 TTTTTAAAAA
*
36424744 TATAAAT-TTTAAAATTTT
1 TATAAATATTTTAAATTTT
36424762 TATAAATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
* *
36424781 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTAAATTTT
36424801 T
1 T
36424802 TGTATTTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
18 7 0.20
19 15 0.43
20 13 0.37
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:36426655 original size:21 final size:21
Alignment explanation
Indices: 36426614--36426655 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36426604 CAAAACGGGT
* *
36426614 AAGAAACTATTTTAGGCCAAA
1 AAGAAACTATTTTAAGACAAA
*
36426635 AAGAAACTATTTTAATACAAA
1 AAGAAACTATTTTAAGACAAA
36426656 TTCTGGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (21 bp):
AAGAAACTATTTTAAGACAAA
Found at i:36428208 original size:32 final size:32
Alignment explanation
Indices: 36428172--36428232 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
36428162 ATTTTGATCT
36428172 ATGAAATAAAATATAATCTATTTTTTTTATAA
1 ATGAAATAAAATATAATCTATTTTTTTTATAA
36428204 ATGAAATAAAATATAATCTATTTTTTTTA
1 ATGAAATAAAATATAATCTATTTTTTTTA
36428233 ATCTTCAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (32 bp):
ATGAAATAAAATATAATCTATTTTTTTTATAA
Found at i:36432157 original size:23 final size:22
Alignment explanation
Indices: 36432122--36432164 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
36432112 TGTTAGTTAA
*
36432122 TTTGATTATTTTAAGTTTTTTGT
1 TTTGATTAATTTAA-TTTTTTGT
*
36432145 TTTGTTTAATTTAATTTTTT
1 TTTGATTAATTTAATTTTTT
36432165 AATTGATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTGATTAATTTAATTTTTTGT
Found at i:36432869 original size:20 final size:19
Alignment explanation
Indices: 36432844--36432885 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
36432834 AACGTAGCTA
36432844 ATTAATTACCAAAATATAAT
1 ATTAATTACCAAAATA-AAT
36432864 ATTAATTACCAAAATAAAT
1 ATTAATTACCAAAATAAAT
36432883 ATT
1 ATT
36432886 TATTTTGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTAATTACCAAAATAAAT
Found at i:36433956 original size:43 final size:43
Alignment explanation
Indices: 36433874--36433957 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
36433864 ATTAACATGT
* * *
36433874 TAAATTATATTACTTGACTTGTGTTAATATGGTTGCATGTTTC
1 TAAATTATATTACTTGACTTGTATTAACATGCTTGCATGTTTC
*
36433917 TAAATTATATTACTTTACTCT-TATTAACAT-CTTGACATGTT
1 TAAATTATATTACTTGACT-TGTATTAACATGCTTG-CATGTT
36433958 ATTAATTGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.09
43 31 0.89
44 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.49
Consensus pattern (43 bp):
TAAATTATATTACTTGACTTGTATTAACATGCTTGCATGTTTC
Found at i:36434590 original size:45 final size:45
Alignment explanation
Indices: 36434526--36434614 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
36434516 ATAGCTCATC
* *
36434526 AAGCCAAGGATATCAGCCTCAATTTGACGAGCCACCGTAATACTT
1 AAGCCAAGGATATAAGCCTCAATTTAACGAGCCACCGTAATACTT
*
36434571 AAGCCAAGGATATAAGCCTCAGTTTAACGAGCCACCGTAATACT
1 AAGCCAAGGATATAAGCCTCAATTTAACGAGCCACCGTAATACT
36434615 CTACTCCTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (45 bp):
AAGCCAAGGATATAAGCCTCAATTTAACGAGCCACCGTAATACTT
Found at i:36438192 original size:20 final size:20
Alignment explanation
Indices: 36438167--36438209 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
36438157 TGCTATATCG
*
36438167 CTTAATAGGAAATATGCACT
1 CTTAATAGAAAATATGCACT
36438187 CTTAATAGAAAATATGCACT
1 CTTAATAGAAAATATGCACT
36438207 CTT
1 CTT
36438210 CCTTGGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (20 bp):
CTTAATAGAAAATATGCACT
Found at i:36439125 original size:4 final size:4
Alignment explanation
Indices: 36439105--36439161 Score: 53
Period size: 4 Copynumber: 14.2 Consensus size: 4
36439095 GACACATTAC
* ** * *
36439105 CTTT CTTT CCTT C-TT CTTT CTTT CGACT CCTT CTTT CTTT TTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT
36439153 CTTT CTTT C
1 CTTT CTTT C
36439162 CCGTTTATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
3 3 0.07
4 38 0.88
5 2 0.05
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:36439139 original size:17 final size:15
Alignment explanation
Indices: 36439105--36439144 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
36439095 GACACATTAC
*
36439105 CTTTCTTTCCTTCTT
1 CTTTCTTTCCTCCTT
36439120 CTTTCTTTCGACTCCTT
1 CTTTCTTTC--CTCCTT
36439137 CTTTCTTT
1 CTTTCTTT
36439145 TTTTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
17 13 0.59
ACGTcount: A:0.03, C:0.33, G:0.03, T:0.62
Consensus pattern (15 bp):
CTTTCTTTCCTCCTT
Found at i:36442609 original size:23 final size:23
Alignment explanation
Indices: 36442583--36442629 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
36442573 GCATCCAATA
36442583 AACAGCTTCTAGAAGGTTCAGTC
1 AACAGCTTCTAGAAGGTTCAGTC
*
36442606 AACAGCTTCTAGAAGGTTTAGTC
1 AACAGCTTCTAGAAGGTTCAGTC
36442629 A
1 A
36442630 GCAAGGATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (23 bp):
AACAGCTTCTAGAAGGTTCAGTC
Found at i:36446738 original size:13 final size:13
Alignment explanation
Indices: 36446720--36446763 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
36446710 TGTTATAATT
36446720 AAGAAAATCAAAA
1 AAGAAAATCAAAA
*
36446733 AAGAAAATAAAAA
1 AAGAAAATCAAAA
* *
36446746 AAGAAAAACGAAA
1 AAGAAAATCAAAA
36446759 AAGAA
1 AAGAA
36446764 GGGTCAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.80, C:0.05, G:0.11, T:0.05
Consensus pattern (13 bp):
AAGAAAATCAAAA
Found at i:36446890 original size:54 final size:53
Alignment explanation
Indices: 36446822--36446933 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 53
36446812 AAAGAAATAC
* * * *
36446822 AAAAAAAGGAAAGAAAGAA-AAAGTCAAAATGAAAACCCACAAAGGGCATCTTT
1 AAAAAAAAGAAAGAAA-AAGAAAGTCAAAACGAAAACCCACAAAGGGCATATTG
* * **
36446875 AAAAAAAAGAGAAGAAAAAGAAAGTTAAGACGAAAACCTGCAAAGGGCATATTG
1 AAAAAAAAGA-AAGAAAAAGAAAGTCAAAACGAAAACCCACAAAGGGCATATTG
36446929 AAAAA
1 AAAAA
36446934 TCTATATATC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
53 11 0.22
54 38 0.78
ACGTcount: A:0.60, C:0.11, G:0.19, T:0.11
Consensus pattern (53 bp):
AAAAAAAAGAAAGAAAAAGAAAGTCAAAACGAAAACCCACAAAGGGCATATTG
Found at i:36448747 original size:49 final size:49
Alignment explanation
Indices: 36448690--36449412 Score: 535
Period size: 49 Copynumber: 14.8 Consensus size: 49
36448680 CAGGTTTCAT
* * *
36448690 TACCACGAAGATATGAAGGGAAAGATTTAAATCGCAACGGTGAATCTAG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * * * **
36448739 TACCACGAAGCTATGGAGGGAAGGGTTTAAGTCGCAACGGCGAACCTTT
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * ** * *
36448788 TACCTC--AGATACATGAAGGGAAAGATTTAAGCCGCAACGATGAATCTAA
1 TACCACGAAGAT--ATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * * * * * *
36448837 TACCATGAAGATATGGAGGGAAAGGTTTAGGTCGCAATGGCAAACCTTG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * * *
36448886 TACCTCAGAA-ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AA
1 TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAG
* * * *
36448935 TACCACGAAGATATGGAGGGAAAGATTTAAGTCGTAACGGTGAACCTTG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * * * **
36448984 TACCTTA-GAA-ACATGAAGGGAAAGATTTAAGCCACAATGGTAAATCC-AG
1 TACC--ACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAG
* * * *
36449033 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGACGAACCTTG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * ** * * *
36449082 TACCTCAGAA-ACATGAAGAAAAAGATTTAAGCCGCAATGGCAAATCC-AG
1 TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAG
* * * *
36449131 TACCACGAAGACAT-AGAGGGAAAGATTTAAGTCGAAACGGTGAACCTTG
1 TACCACGAAGATATGA-AGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * * * *
36449180 TACCTCAGAA-ACATGAAGGGAAAGATTTAAGACGCAATGACGAACC-AG
1 TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * *
36449228 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACAGCGAACCTTA-
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACC-TAG
* * * * * *
36449277 TACCTTA-GAA-ACATGAAGAGAAAGATTTAAGCCGTAACGGCAAATCC-AA
1 TACC--ACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAG
* * *
36449326 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTG
1 TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
* * * *
36449375 TACCTCAGAA-ACATGAGGGGAAAGATTTAAGCCGCAAC
1 TACCAC-GAAGATATGAAGGGAAAGATTTAAGTCGCAAC
36449413 AACAAATCCA
Statistics
Matches: 514, Mismatches: 128, Indels: 64
0.73 0.18 0.09
Matches are distributed among these distances:
47 8 0.02
48 57 0.11
49 415 0.81
50 28 0.05
51 6 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (49 bp):
TACCACGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTAG
Found at i:36448858 original size:98 final size:98
Alignment explanation
Indices: 36448702--36449484 Score: 1003
Period size: 98 Copynumber: 8.1 Consensus size: 98
36448692 CCACGAAGAT
** * * * *
36448702 ATGAAGGGAAAGATTTAAATCGCAACGGTGAATCTAGTACCACGAAGCTATGGAGGGAAGGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
* *
36448767 AAGTCGCAACGGCGAACCTTTTACCTCAGATAC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
** * * *
36448800 ATGAAGGGAAAGATTTAAGCCGCAACGATGAATCTAATACCATGAAGATATGGAGGGAAAGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
* * *
36448865 AGGTCGCAATGGCAAACCTTGTACCTCAGAAAC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
* *
36448898 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAATACCACGAAGATATGGAGGGAAAGATTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
* * *
36448963 AAGTCGTAACGGTGAACCTTGTACCTTAGAAAC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
* * **
36448996 ATGAAGGGAAAGATTTAAGCCACAATGGTAAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
*
36449061 AAGTCGCAACGACGAACCTTGTACCTCAGAAAC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
** * * * * *
36449094 ATGAAGAAAAAGATTTAAGCCGCAATGGCAAATCCAGTACCACGAAGACATAGAGGGAAAGATTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
* *
36449159 AAGTCGAAACGGTGAACCTTGTACCTCAGAAAC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
* * *
36449192 ATGAAGGGAAAGATTTAAGACGCAATGACGAA-CCAGTACCACGAAGATATGGAGGGAAAGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
* * *
36449256 AAGTCGCAACAGCGAACCTTATACCTTAGAAAC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
* * * *
36449289 ATGAAGAGAAAGATTTAAGCCGTAACGGCAAATCCAATACCACGAAGATATGGAGGGAAAGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
36449354 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
* * *
36449387 ATGAGGGGAAAGATTTAAGCCGCAA---C-AA-CAAAT-CCA--ATA-ATATGGAGGGAAA-GTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA-AGATATGGAGGGAAAGGTT
* * * *
36449442 TAAGTCACAACGGTGAACCTTATACTTCAGAAAC
65 TAAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
*
36449476 ATAAAGGGA
1 ATGAAGGGA
36449485 CAGGTTGAAG
Statistics
Matches: 607, Mismatches: 76, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
89 40 0.07
90 14 0.02
91 1 0.00
92 3 0.00
93 4 0.01
94 2 0.00
95 1 0.00
97 83 0.14
98 459 0.76
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (98 bp):
ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
Found at i:36452199 original size:2 final size:2
Alignment explanation
Indices: 36452192--36452217 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36452182 TTCTCTTTAA
36452192 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
36452218 GCATAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36454507 original size:15 final size:16
Alignment explanation
Indices: 36454479--36454526 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
36454469 TAAAACTAAT
36454479 TTTTAAATT-TTTTTC
1 TTTTAAATTATTTTTC
*
36454494 TTTTACATTATTTTTC
1 TTTTAAATTATTTTTC
* *
36454510 TTTT-TATTTTTTTTC
1 TTTTAAATTATTTTTC
36454525 TT
1 TT
36454527 GTTCATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTAAATTATTTTTC
Found at i:36454534 original size:16 final size:15
Alignment explanation
Indices: 36454486--36454535 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
36454476 AATTTTTAAA
36454486 TTTTTTTCTTTTACAT
1 TTTTTTTCTTTT-CAT
* *
36454502 TATTTTTCTTTTTAT
1 TTTTTTTCTTTTCAT
36454517 TTTTTTTCTTGTTCAT
1 TTTTTTTCTT-TTCAT
36454533 TTT
1 TTT
36454536 CCTTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTTTCTTTTCAT
Found at i:36454535 original size:15 final size:14
Alignment explanation
Indices: 36454485--36454535 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
36454475 TAATTTTTAA
36454485 ATTTTTTTCTTTTAC
1 ATTTTTTTCTTTT-C
*
36454500 ATTATTTTTCTTTTT
1 ATT-TTTTTCTTTTC
36454515 ATTTTTTTTCTTGTTC
1 A-TTTTTTTCTT-TTC
36454531 ATTTT
1 ATTTT
36454536 CCTTTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 16 0.52
16 15 0.48
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTTTTTCTTTTC
Found at i:36459941 original size:29 final size:28
Alignment explanation
Indices: 36459872--36459948 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
36459862 TATTTTTTTA
* *
36459872 TAAATTTAAAATTTAATATTTGTACTTT
1 TAAATTTAAAATTTAATTTTTATACTTT
**
36459900 TATTTTTAGAAATTTAATTTTTATACTTT
1 TAAATTTA-AAATTTAATTTTTATACTTT
36459929 TAAATTTCAAAATTTCAATT
1 TAAATTT-AAAATTT-AATT
36459949 CAACTGTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 6 0.15
29 29 0.73
30 5 0.12
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (28 bp):
TAAATTTAAAATTTAATTTTTATACTTT
Found at i:36460163 original size:30 final size:31
Alignment explanation
Indices: 36460129--36460188 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
36460119 GAAGGAAGAC
36460129 TAAATTCTT-AAAA-CTAAAAAGTGTATGGAT
1 TAAATT-TTGAAAATCTAAAAAGTGTATGGAT
* *
36460159 TAAATTTTGAAAATGTAAAGAGTGTATGGA
1 TAAATTTTGAAAATCTAAAAAGTGTATGGA
36460189 CCCCTAGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 10 0.38
31 14 0.54
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (31 bp):
TAAATTTTGAAAATCTAAAAAGTGTATGGAT
Found at i:36462891 original size:17 final size:18
Alignment explanation
Indices: 36462852--36462893 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
36462842 AAACCCCCAG
* *
36462852 AGAACAAAACTAAAACGA
1 AGAACAAAACGAAAAAGA
*
36462870 CGAACAAAA-GAAAAAGA
1 AGAACAAAACGAAAAAGA
36462887 AGAACAA
1 AGAACAA
36462894 GAAATGATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.69, C:0.14, G:0.14, T:0.02
Consensus pattern (18 bp):
AGAACAAAACGAAAAAGA
Found at i:36463635 original size:24 final size:25
Alignment explanation
Indices: 36463595--36463648 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
36463585 TTGAACTGTG
36463595 TAAATCATATTCGAGTTGATCAAAA
1 TAAATCATATTCGAGTTGATCAAAA
*
36463620 TAAATCA-ATTCGAGTTGATCGAAA
1 TAAATCATATTCGAGTTGATCAAAA
36463644 TAAAT
1 TAAAT
36463649 AACTTGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (25 bp):
TAAATCATATTCGAGTTGATCAAAA
Found at i:36464086 original size:6 final size:6
Alignment explanation
Indices: 36464077--36464143 Score: 66
Period size: 6 Copynumber: 11.3 Consensus size: 6
36464067 CAAATTTATT
* **
36464077 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTATCT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
**
36464125 TTT-GC TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TT
36464144 CAATCAAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
5 7 0.15
6 37 0.77
7 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:36464098 original size:17 final size:18
Alignment explanation
Indices: 36464068--36464143 Score: 111
Period size: 17 Copynumber: 4.3 Consensus size: 18
36464058 AAATTGATTC
36464068 AAATTTATTTTTAAATTT
1 AAATTTATTTTTAAATTT
36464086 AAATTTA-TTTTAAATTT
1 AAATTTATTTTTAAATTT
36464103 AAATTTATCTTTTAAATTT
1 AAATTTAT-TTTTAAATTT
**
36464122 AAATTT-GCTTTAAATTT
1 AAATTTATTTTTAAATTT
36464139 AAATT
1 AAATT
36464144 CAATCAAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
17 31 0.57
18 7 0.13
19 16 0.30
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (18 bp):
AAATTTATTTTTAAATTT
Found at i:36464123 original size:36 final size:35
Alignment explanation
Indices: 36464068--36464143 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 35
36464058 AAATTGATTC
*
36464068 AAATTTATTTTTAAATTTAAATTTATTTTAAATTT
1 AAATTTATTTTTAAATTTAAATTTACTTTAAATTT
*
36464103 AAATTTATCTTTTAAATTTAAATTTGCTTTAAATTT
1 AAATTTAT-TTTTAAATTTAAATTTACTTTAAATTT
36464139 AAATT
1 AAATT
36464144 CAATCAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 8 0.21
36 30 0.79
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (35 bp):
AAATTTATTTTTAAATTTAAATTTACTTTAAATTT
Found at i:36469565 original size:31 final size:31
Alignment explanation
Indices: 36469486--36469577 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 31
36469476 ATTTGATTAT
** *
36469486 TAAACTATTCAAAAAATTTCATTTAAGTAAC
1 TAAACTATTCAAAAGTTTTCATTTAAGTCAC
*
36469517 TAAA-TAATTCAAGAGTTTTCATTTAAGTCAC
1 TAAACT-ATTCAAAAGTTTTCATTTAAGTCAC
* *
36469548 TAAACTATTCAAAAGTTTTTATCTAAGTCA
1 TAAACTATTCAAAAGTTTTCATTTAAGTCA
36469578 TTAGGTAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.02
31 50 0.96
32 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (31 bp):
TAAACTATTCAAAAGTTTTCATTTAAGTCAC
Found at i:36471327 original size:18 final size:17
Alignment explanation
Indices: 36471288--36471363 Score: 80
Period size: 18 Copynumber: 4.4 Consensus size: 17
36471278 ATTTCTAAAA
** *
36471288 TTAAATTTACTTTAAAT
1 TTAAATTTAAATTAATT
*
36471305 TTAAATTTAAATTCATTT
1 TTAAATTTAAATT-AATT
36471323 TTAAATTTAAATTAATT
1 TTAAATTTAAATTAATT
*
36471340 CTAAATTTAAATTTAATT
1 TTAAATTTAAA-TTAATT
*
36471358 TGAAAT
1 TTAAAT
36471364 AATTTTTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
17 24 0.49
18 25 0.51
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (17 bp):
TTAAATTTAAATTAATT
Found at i:36471333 original size:41 final size:41
Alignment explanation
Indices: 36471278--36471355 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
36471268 TTTTAGATAT
*
36471278 ATTTCTAAAATTAAATTTACTT-TAAATTTAAATTTAAATTC
1 ATTTCTAAAATTAAA-TTAATTCTAAATTTAAATTTAAATTC
* *
36471319 ATTTTTAAATTTAAATTAATTCTAAATTTAAATTTAA
1 ATTTCTAAAATTAAATTAATTCTAAATTTAAATTTAA
36471356 TTTGAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 5 0.15
41 28 0.85
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (41 bp):
ATTTCTAAAATTAAATTAATTCTAAATTTAAATTTAAATTC
Found at i:36471337 original size:23 final size:23
Alignment explanation
Indices: 36471285--36471379 Score: 88
Period size: 23 Copynumber: 4.1 Consensus size: 23
36471275 TATATTTCTA
* *
36471285 AAATTAAATTTA-CTTTAAATTT
1 AAATTAAATTCATTTTTAAATTT
36471307 AAATTTAAATTCATTTTTAAATTT
1 AAA-TTAAATTCATTTTTAAATTT
**
36471331 AAATT-AATTCTAAATTTAAATTT
1 AAATTAAATTC-ATTTTTAAATTT
* *
36471354 AATTTGAAA-TAATTTTTAAATTT
1 AAATT-AAATTCATTTTTAAATTT
36471377 AAA
1 AAA
36471380 ACTAAAAGCC
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
22 8 0.14
23 36 0.61
24 13 0.22
25 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (23 bp):
AAATTAAATTCATTTTTAAATTT
Found at i:36471379 original size:6 final size:6
Alignment explanation
Indices: 36471283--36471355 Score: 71
Period size: 6 Copynumber: 12.5 Consensus size: 6
36471273 GATATATTTC
* * * **
36471283 TAAAAT TAAATT T-ACTT TAAATT TAAATT TAAATT CATTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
36471330 TAAA-T T-AATT CTAAATT TAAATT TAA
1 TAAATT TAAATT -TAAATT TAAATT TAA
36471356 TTTGAAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
4 2 0.04
5 7 0.13
6 41 0.76
7 4 0.07
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:36472170 original size:3 final size:3
Alignment explanation
Indices: 36472162--36472195 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
36472152 TAAATATATT
*
36472162 TAA TAA TAA TAAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
36472196 GTTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:36472515 original size:22 final size:22
Alignment explanation
Indices: 36472489--36472531 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36472479 AGATCTAAAC
*
36472489 TTTTTTAAAGAAAAAAAAAAGA
1 TTTTTAAAAGAAAAAAAAAAGA
*
36472511 TTTTTAAAAGAAAGAAAAAAG
1 TTTTTAAAAGAAAAAAAAAAG
36472532 GGATGAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.26
Consensus pattern (22 bp):
TTTTTAAAAGAAAAAAAAAAGA
Found at i:36473344 original size:30 final size:30
Alignment explanation
Indices: 36473289--36473556 Score: 187
Period size: 29 Copynumber: 9.1 Consensus size: 30
36473279 AAAAATTGTA
** *
36473289 TTTTAACCTTTAAACTT-TCAAAATTACAT
1 TTTTAACCTCGAAACTTCTAAAAATTACAT
*
36473318 TTTTAACCTTGAAACTTCTAAAAATTACAT
1 TTTTAACCTCGAAACTTCTAAAAATTACAT
* * * *
36473348 TTTTACCCTCG-ATCTTCCAAAAATTCCAT
1 TTTTAACCTCGAAACTTCTAAAAATTACAT
* * * **
36473377 TTTCAACCCCGAAACTTCCT-AAAGTTATGT
1 TTTTAACCTCGAAACTT-CTAAAAATTACAT
* * * *
36473407 TTTTACCCCCG-AACTT-TAAAAAAGTCCAT
1 TTTTAACCTCGAAACTTCT-AAAAATTACAT
*
36473436 TTTTAACCTCGAAACTTTTAAAAAATTACAT
1 TTTTAACCTCGAAACTTCT-AAAAATTACAT
*
36473467 TTTT-ACCTCG-AACTTCCAAAAATTACAT
1 TTTTAACCTCGAAACTTCTAAAAATTACAT
* * *
36473495 TTTTGACC-CCAAACTT-TCAAAAATTCCAT
1 TTTTAACCTCGAAACTTCT-AAAAATTACAT
** **
36473524 TTTTGTCCTCGAAAC-TCTCGAAATTACCAT
1 TTTTAACCTCGAAACTTCTAAAAATTA-CAT
36473554 TTT
1 TTT
36473557 ATCCCCGGAT
Statistics
Matches: 189, Mismatches: 37, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
27 1 0.01
28 16 0.08
29 94 0.50
30 62 0.33
31 16 0.08
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTTAACCTCGAAACTTCTAAAAATTACAT
Found at i:36473378 original size:59 final size:59
Alignment explanation
Indices: 36473308--36473536 Score: 232
Period size: 59 Copynumber: 3.9 Consensus size: 59
36473298 TTAAACTTTC
* *
36473308 AAAATTACATTTTTAACCTTGAAACTTCTAAAAATTACATTTTTACCCTCGATCTTCCA
1 AAAATTACATTTTTAACCTCGAAACTTCTAAAAATTACATTTTTACCCTCGAACTTCCA
* * * * ** * **
36473367 AAAATTCCATTTTCAACCCCGAAACTTCCT-AAAGTTATGTTTTTACCCCCGAACTTTAA
1 AAAATTACATTTTTAACCTCGAAACTT-CTAAAAATTACATTTTTACCCTCGAACTTCCA
* * *
36473426 AAAAGTCCATTTTTAACCTCGAAACTTTTAAAAAATTACATTTTTA-CCTCGAACTTCCA
1 AAAATTACATTTTTAACCTCGAAACTTCT-AAAAATTACATTTTTACCCTCGAACTTCCA
* * * **
36473485 AAAATTACATTTTTGACC-CCAAACTT-TCAAAAATTCCATTTTTGTCCTCGAA
1 AAAATTACATTTTTAACCTCGAAACTTCT-AAAAATTACATTTTTACCCTCGAA
36473537 ACTCTCGAAA
Statistics
Matches: 138, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
57 15 0.11
58 15 0.11
59 94 0.68
60 14 0.10
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (59 bp):
AAAATTACATTTTTAACCTCGAAACTTCTAAAAATTACATTTTTACCCTCGAACTTCCA
Found at i:36475184 original size:13 final size:13
Alignment explanation
Indices: 36475166--36475230 Score: 94
Period size: 13 Copynumber: 4.9 Consensus size: 13
36475156 AAGGTCAACG
36475166 GTCAACGGTCAAA
1 GTCAACGGTCAAA
*
36475179 GTCAACGATCAAA
1 GTCAACGGTCAAA
*
36475192 GTCAACGATCAAA
1 GTCAACGGTCAAA
*
36475205 GTCAACGGTAAACA
1 GTCAACGGTCAA-A
36475219 GTCAACGGTCAA
1 GTCAACGGTCAA
36475231 CGGTCAATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
13 35 0.74
14 12 0.26
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (13 bp):
GTCAACGGTCAAA
Found at i:36475248 original size:21 final size:21
Alignment explanation
Indices: 36475224--36475272 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
36475214 AAACAGTCAA
36475224 CGGTCAACGGTCAATCAACAC
1 CGGTCAACGGTCAATCAACAC
* **
36475245 CGGTCAACGGTCGATCAACGT
1 CGGTCAACGGTCAATCAACAC
36475266 CGGTCAA
1 CGGTCAA
36475273 AGGTTTGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.16
Consensus pattern (21 bp):
CGGTCAACGGTCAATCAACAC
Found at i:36475256 original size:7 final size:7
Alignment explanation
Indices: 36475158--36475237 Score: 76
Period size: 7 Copynumber: 11.9 Consensus size: 7
36475148 TTTTGAAAAA
36475158 GGTCAAC
1 GGTCAAC
36475165 GGTCAAC
1 GGTCAAC
36475172 GGTCAA-
1 GGTCAAC
*
36475178 AGTCAAC
1 GGTCAAC
*
36475185 GATCAA-
1 GGTCAAC
*
36475191 AGTCAAC
1 GGTCAAC
*
36475198 GATCAA-
1 GGTCAAC
*
36475204 AGTCAAC
1 GGTCAAC
*
36475211 GGTAAAC
1 GGTCAAC
*
36475218 AGTCAAC
1 GGTCAAC
36475225 GGTCAAC
1 GGTCAAC
36475232 GGTCAA
1 GGTCAA
36475238 TCAACACCGG
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
6 13 0.23
7 43 0.77
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.15
Consensus pattern (7 bp):
GGTCAAC
Found at i:36475329 original size:15 final size:15
Alignment explanation
Indices: 36475309--36475338 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36475299 TGGTTCATTT
36475309 GGTTTGGTTCAAATG
1 GGTTTGGTTCAAATG
*
36475324 GGTTTGGTTTAAATG
1 GGTTTGGTTCAAATG
36475339 AATTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
GGTTTGGTTCAAATG
Found at i:36475348 original size:21 final size:21
Alignment explanation
Indices: 36475322--36475389 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
36475312 TTGGTTCAAA
36475322 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
*
36475343 TGGGTTTGGTTTAAATGAATC
1 TGGGTTTGGTTTAAATGAATT
*
36475364 TGGGTTTGGTTTAAATAGGATT
1 TGGGTTTGGTTTAAAT-GAATT
36475386 TGGG
1 TGGG
36475390 CTTAATGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 36 0.84
22 7 0.16
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.44
Consensus pattern (21 bp):
TGGGTTTGGTTTAAATGAATT
Found at i:36475793 original size:11 final size:11
Alignment explanation
Indices: 36475760--36475834 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
36475750 AAGTGTGATT
*
36475760 AAAAGAGGAAG
1 AAAAGAGAAAG
*
36475771 AAAATAGAAAAG
1 AAAAGAG-AAAG
36475783 AAAAGAGAAAG
1 AAAAGAGAAAG
36475794 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
36475806 AATGAGAAAAAG
1 AA-AAGAGAAAG
*
36475818 AAAAGTGAAAG
1 AAAAGAGAAAG
*
36475829 GAAAGA
1 AAAAGA
36475835 TGAGAGGCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
11 28 0.57
12 17 0.35
13 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:36482725 original size:58 final size:58
Alignment explanation
Indices: 36482655--36482791 Score: 195
Period size: 58 Copynumber: 2.3 Consensus size: 58
36482645 ATGGATACTC
* * * *
36482655 GGGGGCAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC-
1 GGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTT-AAAACGAAATTTTAAAAGATTCG
* *
36482713 GGGTGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAACGAAATTTTAAAAGATTCG
1 GGGGGTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAACGAAATTTTAAAAGATTCG
36482772 GGGGGTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
36482792 TGGAAGTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
58 38 0.54
59 32 0.46
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (58 bp):
GGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAACGAAATTTTAAAAGATTCG
Found at i:36482751 original size:59 final size:59
Alignment explanation
Indices: 36482655--36482794 Score: 203
Period size: 59 Copynumber: 2.4 Consensus size: 59
36482645 ATGGATACTC
* * * *
36482655 GGGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC-
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAACGAAATTTTAAAAGATTCG
* *
36482713 GGGTGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAACGAAATTTTAAAAGATTCG
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAACGAAATTTTAAAAGATTCG
36482772 GGGGGTAAAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
36482795 AAGTTTTGGG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
58 34 0.47
59 39 0.53
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAACGAAATTTTAAAAGATTCG
Found at i:36483000 original size:30 final size:30
Alignment explanation
Indices: 36482795--36482987 Score: 314
Period size: 30 Copynumber: 6.4 Consensus size: 30
36482785 TAATTTTTGG
*
36482795 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
*
36482825 AAGTTTTGGGGTCAAAATATAATTTTGAAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
36482855 AAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
*
36482885 AAGTTTCGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
* *
36482915 AAGTTTTGGGGTAAAAATATAATTTTGAAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
* *
36482945 AAGTTTTGGGGTAAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
*
36482975 AAGTTTCGGGGTC
1 AAGTTTTGGGGTC
36482988 GAAAGATGAT
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 152 1.00
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATATAATTTTGGAA
Found at i:36483000 original size:90 final size:87
Alignment explanation
Indices: 36482773--36483000 Score: 316
Period size: 90 Copynumber: 2.5 Consensus size: 87
36482763 AAAGATTCGG
*
36482773 GGGGTAAAATGGTAATTTTTGG--AAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGG
1 GGGGTAAAAT-GTAA-TTTTGGAAAAGTTTCGGGGTCAAAATG--ATTTTGGAAAAGTTTTGGGG
*
36482836 TCAAAATATAATTTTGAAAAAGTTTT
62 TAAAAATATAATTTTGAAAAAGTTTT
* *
36482862 GGGGTCAAAATATAATTTTGGAAAAGTTTCGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGT
1 GGGGT-AAAATGTAATTTTGGAAAAGTTTCGGGGTC-AAA-ATGATTTTGGAAAAGTTTTGGGGT
36482927 AAAAATATAATTTTGAAAAAGTTTT
63 AAAAATATAATTTTGAAAAAGTTTT
36482952 GGGGTAAAAATGTAATTTTGGAAAAGTTTCGGGGTCGAAAGATGATTTT
1 GGGGT-AAAATGTAATTTTGGAAAAGTTTCGGGGTC-AAA-ATGATTTT
36483001 TAGACAATTT
Statistics
Matches: 125, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
88 6 0.05
89 8 0.06
90 106 0.85
91 3 0.02
92 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (87 bp):
GGGGTAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAATGATTTTGGAAAAGTTTTGGGGTAAA
AATATAATTTTGAAAAAGTTTT
Found at i:36483344 original size:161 final size:162
Alignment explanation
Indices: 36483075--36483420 Score: 443
Period size: 161 Copynumber: 2.1 Consensus size: 162
36483065 GTATCCAGAG
* * * * *
36483075 GTCAAGGGACTAATTTGA-AAACTTTGAAAAATTTTTGGACCAATTTTGTAATTAACTAAGAGTT
1 GTCAAAGGACTAATTT-ATAAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAGAGTT
* *
36483139 AATTTAAGGACTAAATGAAAATAAATTAAAAATAGAAGGGACTAAATGCAGAAATAAGCCAA-AA
65 AATTTAAGGACTAAATGAAAACAAATTAAAAATAGAAAGGACTAAATGCAGAAATAAGCCAATAA
**
36483203 ATTGACACGTGGCAACCTCTGGTGCAGTCAAACA
130 A-TGACACGTGGCAACCTCTGGCACAGTCAAACA
*
36483237 GTCAAAGGACTAGTTTATAAACCTTGAAAAATTATT-GAGCCAATTTCGTAATTAAAATAA-AGT
1 GTCAAAGGACTAATTTATAAACCTTGAAAAATTATTGGA-CCAATTTCGTAATT-AAATAAGAGT
* * * * * *
36483300 TGATTT-GGGATTAAATTAAAACAAATTAAAAAT-GAAAAGGACTAAATGCATAAATAATCCAAT
64 TAATTTAAGGACTAAATGAAAACAAATTAAAAATAG-AAAGGACTAAATGCAGAAATAAGCCAAT
*
36483363 ACATGACACGTGGCAACCTCTGGCACAGTCAAACA
128 AAATGACACGTGGCAACCTCTGGCACAGTCAAACA
*
36483398 GTCAAAGGACTAAATTATAAACC
1 GTCAAAGGACTAATTTATAAACC
36483421 AATTAAAATT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
160 1 0.01
161 101 0.63
162 53 0.33
163 5 0.03
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (162 bp):
GTCAAAGGACTAATTTATAAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAGAGTTA
ATTTAAGGACTAAATGAAAACAAATTAAAAATAGAAAGGACTAAATGCAGAAATAAGCCAATAAA
TGACACGTGGCAACCTCTGGCACAGTCAAACA
Found at i:36483493 original size:161 final size:161
Alignment explanation
Indices: 36483142--36483504 Score: 368
Period size: 161 Copynumber: 2.3 Consensus size: 161
36483132 AAGAGTTAAT
* *
36483142 TTAAGGACTAAA-TGAAAATAAATTAAAAAT-AGAAGGGACTAAATGCAGAAATAAGCCAAAAAT
1 TTAAGGACTAAATTGAAAACAAATTAAAAATGA-AAAGGACTAAATGCAGAAATAAGCCAAAAAT
** **
36483205 TGACACGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTAGTTTATAAACCTTGAAAAATT
65 TGACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTT-AAAAATT
** * * * *
36483270 ATTGAGCCAATTTCGTAATTAAAATAAAGTTGA
129 ACAGAGCAAATTTCGCAAATAAAATAAAGATGA
** * * * *
36483303 TTTGGGATTAAATT-AAAACAAATTAAAAATGAAAAGGACTAAATGCATAAATAATCCAATACA-
1 TTAAGGACTAAATTGAAAACAAATTAAAAATGAAAAGGACTAAATGCAGAAATAAGCCAA-AAAT
36483366 TGACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCAATT-AAAAT
65 TGACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTAAAAAT
* *
36483430 TACAGGGCAAATTT-GCAAATAATTAA-CAAGATGCCA
128 TACAGAGCAAATTTCGCAAATAA--AATAAAGATG--A
* *
36483466 -TAAGGACTAAATTGAAGA-AAA-TAAAAATGCGAAAGGACT
1 TTAAGGACTAAATTGAAAACAAATTAAAAATG-AAAAGGACT
36483505 GATTGCGCAA
Statistics
Matches: 166, Mismatches: 25, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
160 6 0.04
161 127 0.77
162 27 0.16
163 6 0.04
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (161 bp):
TTAAGGACTAAATTGAAAACAAATTAAAAATGAAAAGGACTAAATGCAGAAATAAGCCAAAAATT
GACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTAAAAATTAC
AGAGCAAATTTCGCAAATAAAATAAAGATGA
Found at i:36485048 original size:6 final size:6
Alignment explanation
Indices: 36485039--36485115 Score: 81
Period size: 6 Copynumber: 13.2 Consensus size: 6
36485029 TTAATTTTTT
* *
36485039 ATTTAA ATTTAA ATTCAA A-GTAA ATTTAA ATAATTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA ATTTAA ATTTAA
*
36485088 A-ATAA ATTTAA ATTTAA A--TAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
36485116 AATCAATTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
4 4 0.07
5 7 0.12
6 42 0.71
8 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:36485064 original size:17 final size:16
Alignment explanation
Indices: 36485042--36485115 Score: 98
Period size: 17 Copynumber: 4.6 Consensus size: 16
36485032 ATTTTTTATT
*
36485042 TAAATTTAAATTCAAA
1 TAAATTTAAATTTAAA
*
36485058 GTAAATTTAAA--TAAT
1 -TAAATTTAAATTTAAA
36485073 TAAATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
36485090 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
36485106 TAAATTTAAA
1 TAAATTTAAA
36485116 AATCAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
16 14 0.27
17 25 0.49
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:36485133 original size:28 final size:27
Alignment explanation
Indices: 36485079--36485134 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
36485069 TAATTAAATT
*
36485079 TAAATTTAAAATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
* *
36485106 TAAATTTAAAAATCAATTTAACTCTAAA
1 TAAATTT-AAAATAAATTTAAATCTAAA
36485134 T
1 T
36485135 TAAACGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCTAAA
Found at i:36485818 original size:20 final size:20
Alignment explanation
Indices: 36485793--36485831 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
36485783 TCTGTTAACG
36485793 GTCAACGGTCAACGGTCAAA
1 GTCAACGGTCAACGGTCAAA
36485813 GTCAACGGTCAACGGTCAA
1 GTCAACGGTCAACGGTCAA
36485832 TTAACACCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (20 bp):
GTCAACGGTCAACGGTCAAA
Found at i:36485850 original size:7 final size:7
Alignment explanation
Indices: 36485789--36485831 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
36485779 GTCATCTGTT
36485789 AACGGTC
1 AACGGTC
36485796 AACGGTC
1 AACGGTC
36485803 AACGGTC
1 AACGGTC
*
36485810 AA-AGTC
1 AACGGTC
36485816 AACGGTC
1 AACGGTC
36485823 AACGGTC
1 AACGGTC
36485830 AA
1 AA
36485832 TTAACACCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.14
Consensus pattern (7 bp):
AACGGTC
Found at i:36485932 original size:21 final size:21
Alignment explanation
Indices: 36485906--36485973 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
36485896 TTGGCTCAAA
36485906 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
*
36485927 TGGGTTTGGTTTAAATGAATC
1 TGGGTTTGGTTTAAATGAATT
*
36485948 TGGGTTTGGTTTAAATAGGATT
1 TGGGTTTGGTTTAAAT-GAATT
36485970 TGGG
1 TGGG
36485974 CTTAATGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 36 0.84
22 7 0.16
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.44
Consensus pattern (21 bp):
TGGGTTTGGTTTAAATGAATT
Found at i:36486376 original size:11 final size:11
Alignment explanation
Indices: 36486343--36486417 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
36486333 AAGTGTGATT
*
36486343 AAAAGAGGAAG
1 AAAAGAGAAAG
*
36486354 AAAATAGAAAAG
1 AAAAGAG-AAAG
36486366 AAAAGAGAAAG
1 AAAAGAGAAAG
36486377 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
36486389 AATGAGAAAAAG
1 AA-AAGAGAAAG
36486401 AAAAGAGAAAG
1 AAAAGAGAAAG
*
36486412 GAAAGA
1 AAAAGA
36486418 TGAGAGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 30 0.59
12 17 0.33
13 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:36486385 original size:23 final size:23
Alignment explanation
Indices: 36486343--36486415 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
36486333 AAGTGTGATT
*
36486343 AAAAGAGGAAGAAAATAGAAAAG
1 AAAAGAGAAAGAAAATAGAAAAG
*
36486366 AAAAGAGAAAG-AAATAAGAAATG
1 AAAAGAGAAAGAAAAT-AGAAAAG
* * * *
36486389 AATGAGAAAAAGAAAAGAGAAAGG
1 AA-AAGAGAAAGAAAATAGAAAAG
36486413 AAA
1 AAA
36486416 GATGAGAGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
22 4 0.10
23 18 0.45
24 15 0.38
25 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (23 bp):
AAAAGAGAAAGAAAATAGAAAAG
Found at i:36488997 original size:29 final size:28
Alignment explanation
Indices: 36488929--36489005 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
36488919 CTACTTTTCG
*
36488929 TAAATTTAAAATTTAA-TCTTGTACTTT
1 TAAATTTAAAATTTAATTCTTATACTTT
** *
36488956 TATTTTTAGAAATTTAATTTTTATACTTT
1 TAAATTTA-AAATTTAATTCTTATACTTT
36488985 TAAATTTCAAAATTTCAATTC
1 TAAATTT-AAAATTT-AATTC
36489006 AACTGTTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 6 0.15
28 8 0.21
29 20 0.51
30 5 0.13
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (28 bp):
TAAATTTAAAATTTAATTCTTATACTTT
Found at i:36489220 original size:30 final size:31
Alignment explanation
Indices: 36489186--36489245 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
36489176 GAAGGAAGAC
*
36489186 TAAATTCTT-AAAAC-TAAAAAGTGTATGGAT
1 TAAATT-TTGAAAACGTAAAAAGTATATGGAT
*
36489216 TAAATTTTGAAAACGTAAAGAGTATATGGA
1 TAAATTTTGAAAACGTAAAAAGTATATGGA
36489246 CTTATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 11 0.42
31 13 0.50
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.32
Consensus pattern (31 bp):
TAAATTTTGAAAACGTAAAAAGTATATGGAT
Found at i:36491725 original size:8 final size:7
Alignment explanation
Indices: 36491687--36491732 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
36491677 TTTTTTAAAA
36491687 AATATTT
1 AATATTT
36491694 ATATTATTTT
1 A-A-TA-TTT
36491704 AATATTT
1 AATATTT
36491711 AATATTT
1 AATATTT
36491718 AATAATTT
1 AAT-ATTT
36491726 AATATTT
1 AATATTT
36491733 CTTTCTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 18 0.51
8 10 0.29
9 3 0.09
10 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATATTT
Found at i:36491725 original size:15 final size:14
Alignment explanation
Indices: 36491687--36491732 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 14
36491677 TTTTTTAAAA
36491687 AATATTTATATTATTTT
1 AATATTTA-A-TA-TTT
36491704 AATATTTAATATTT
1 AATATTTAATATTT
36491718 AATAATTTAATATTT
1 AAT-ATTTAATATTT
36491733 CTTTCTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.21
15 13 0.46
16 1 0.04
17 8 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATATTTAATATTT
Found at i:36495492 original size:29 final size:30
Alignment explanation
Indices: 36495454--36495517 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
36495444 GGTTAGTGTC
36495454 CAATTGTATACAT-AAACTTTGATTTGATA
1 CAATTGTATACATAAAACTTTGATTTGATA
* * *
36495483 CAATTTTATACATAAAATTTTGATTTGATC
1 CAATTGTATACATAAAACTTTGATTTGATA
36495513 CAATT
1 CAATT
36495518 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.44
Consensus pattern (30 bp):
CAATTGTATACATAAAACTTTGATTTGATA
Found at i:36498368 original size:29 final size:30
Alignment explanation
Indices: 36498293--36498403 Score: 100
Period size: 31 Copynumber: 3.7 Consensus size: 30
36498283 GATTAAGTAG
* * * * *
36498293 AAATTAAAGTTTAAAGTATATATTTGAACC
1 AAATTAAAGCTTCATGTATATAATTGCACC
* *
36498323 ACAATTAGAGCTTCATGTGTATAATTGCACC
1 A-AATTAAAGCTTCATGTATATAATTGCACC
*
36498354 AAATTAAAG-TTCATGTATATAATTTCACAC
1 AAATTAAAGCTTCATGTATATAATTGCAC-C
*
36498384 TAAATCAAAG-TTCATGTATA
1 -AAATTAAAGCTTCATGTATA
36498404 ATTTTGAAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.25
30 9 0.13
31 41 0.61
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (30 bp):
AAATTAAAGCTTCATGTATATAATTGCACC
Found at i:36498404 original size:29 final size:27
Alignment explanation
Indices: 36498340--36498407 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
36498330 GAGCTTCATG
* *
36498340 TGTATAATTGCACCAAATTAAAGTTCA
1 TGTATAATTTCACCAAATCAAAGTTCA
36498367 TGTATATAATTTCACACTAAATCAAAGTTCA
1 TG--TATAATTTCAC-C-AAATCAAAGTTCA
36498398 TGTATAATTT
1 TGTATAATTT
36498408 TGAAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.06
29 18 0.51
30 1 0.03
31 14 0.40
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (27 bp):
TGTATAATTTCACCAAATCAAAGTTCA
Found at i:36504321 original size:39 final size:40
Alignment explanation
Indices: 36504267--36504346 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
36504257 TATGCACTCA
*
36504267 ATGGACACCTTTTGAAGAGTCACAACCC-TTTCAAATTGG
1 ATGGACACCTATTGAAGAGTCACAACCCTTTTCAAATTGG
*
36504306 ATGGACACCTATTGAAGAGTCACAACCCTTTTCATATTGG
1 ATGGACACCTATTGAAGAGTCACAACCCTTTTCAAATTGG
36504346 A
1 A
36504347 CATACCTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 27 0.71
40 11 0.29
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (40 bp):
ATGGACACCTATTGAAGAGTCACAACCCTTTTCAAATTGG
Found at i:36504362 original size:39 final size:38
Alignment explanation
Indices: 36504271--36504363 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 38
36504261 CACTCAATGG
* *
36504271 ACACCTTTTGAAGAGTCACAACCCTTTCAAATTGGATGG
1 ACACCTATTGAAGAGTCACAACCCTTTCAAATTGGA-GC
*
36504310 ACACCTATTGAAGAGTCACAACCCTTTTCATATTGGA-C
1 ACACCTATTGAAGAGTCACAACCC-TTTCAAATTGGAGC
* *
36504348 ATACCTCTTGGAAGAG
1 ACACCTATT-GAAGAG
36504364 ACTTGTCCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 7 0.15
39 29 0.62
40 11 0.23
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (38 bp):
ACACCTATTGAAGAGTCACAACCCTTTCAAATTGGAGC
Found at i:36507929 original size:30 final size:29
Alignment explanation
Indices: 36507866--36508088 Score: 168
Period size: 30 Copynumber: 7.5 Consensus size: 29
36507856 AGTTTCAAAG
* * *
36507866 AGTTTAG-GGTCAAAATACAATTTTGGGA
1 AGTTTAGAGGTCAAAATATAATTTTTGAA
*
36507894 AGTTTAGAGGTCAAAATGTAATTTTTAGAA
1 AGTTTAGAGGTCAAAATATAATTTTT-GAA
* **
36507924 AGTTTA-AGGGTCAAAAAATAACTTTTAAAGA
1 AGTTTAGA-GGTCAAAATATAA-TTTTTGA-A
*
36507955 AGTTTA-AGGGTCAAAATGTAATTTTTGGAA
1 AGTTTAGA-GGTCAAAATATAATTTTT-GAA
* *
36507985 AGTTTATG-GGTTAAAATATAATTTTTGTGA
1 AGTTTA-GAGGTCAAAATATAATTTTTG-AA
* *
36508015 AGTTTAGGGGTTAAAATATAATTTTTGAGA
1 AGTTTAGAGGTCAAAATATAATTTTTGA-A
* *
36508045 AGTTT-GAAGTCAAAATGTAATTTTTTTGAA
1 AGTTTAGAGGTCAAAATATAA--TTTTTGAA
* *
36508075 AGTTAAGGGGTCAA
1 AGTTTAGAGGTCAA
36508089 CTGAGTAATA
Statistics
Matches: 158, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
28 7 0.04
29 29 0.18
30 84 0.53
31 38 0.24
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.37
Consensus pattern (29 bp):
AGTTTAGAGGTCAAAATATAATTTTTGAA
Found at i:36508041 original size:60 final size:58
Alignment explanation
Indices: 36507866--36508088 Score: 218
Period size: 61 Copynumber: 3.7 Consensus size: 58
36507856 AGTTTCAAAG
* * *
36507866 AGTTTAGGGTCAAAATACAA-TTTTGGGAAGTTTAGAGGTCAAAATGTAATTTTTAGAA
1 AGTTTAGGGTCAAAATATAATTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTT-GAA
* ** *
36507924 AGTTTAAGGGTCAAAAAATAACTTTTAAAGAAGTTTAAGGGTCAAAATGTAATTTTTGGAA
1 AGTTT-AGGGTCAAAATATAA-TTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTT-GAA
* * * *
36507985 AGTTTATGGGTTAAAATATAATTTTTGTGAAGTTTAGGGGTTAAAATATAATTTTTGAGA
1 AGTTTA-GGGTCAAAATATAATTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTTGA-A
* * *
36508045 AGTTT-GAAGTCAAAATGTAATTTTTTTGA-AAGTTAAGGGGTCAA
1 AGTTTAG-GGTCAAAATATAA--TTTTTGAGAAGTTTAGGGGTCAA
36508089 CTGAGTAATA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
58 6 0.04
59 25 0.19
60 49 0.36
61 55 0.41
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.37
Consensus pattern (58 bp):
AGTTTAGGGTCAAAATATAATTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTTGAA
Found at i:36509324 original size:6 final size:6
Alignment explanation
Indices: 36509315--36509410 Score: 60
Period size: 6 Copynumber: 16.8 Consensus size: 6
36509305 TAATTTTTAA
* * *
36509315 TTAAAT TTAAA- ATAAAT TTAAAT TTAGAA- -TGAAT TTAAAT TCAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT
* * * * * *
36509360 ATAAAT TTAAAG TTAAA- CTAAAT TTAAAC TTAAA- ATAAAT TAAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
36509406 TTAAA
1 TTAAA
36509411 AATGGGTCCA
Statistics
Matches: 67, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
4 2 0.03
5 16 0.24
6 47 0.70
7 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (6 bp):
TTAAAT
Found at i:36509335 original size:17 final size:17
Alignment explanation
Indices: 36509315--36509411 Score: 131
Period size: 17 Copynumber: 5.7 Consensus size: 17
36509305 TAATTTTTAA
36509315 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
* *
36509332 TTAAATTTAGAATGAAT
1 TTAAATTTAAAATAAAT
*
36509349 TTAAATTCAAAATAAAT
1 TTAAATTTAAAATAAAT
* *
36509366 TTAAAGTTAAACTAAAT
1 TTAAATTTAAAATAAAT
*
36509383 TTAAACTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
36509400 TAAAATTTAAAA
1 TTAAATTTAAAA
36509412 ATGGGTCCAA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 68 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:36510306 original size:72 final size:71
Alignment explanation
Indices: 36510211--36510404 Score: 226
Period size: 72 Copynumber: 2.7 Consensus size: 71
36510201 CTCATTTGAG
* * * * * * *
36510211 CTAATTATATTCATGACACGTTACCAGTTTAAGCTACACCTTTAAAATGATACATTCAATTGCTT
1 CTAAATATATACATGTCAAGTTACCA-TCTAAGCTACACCTTTAAAACGATACATTCAAGTGCTT
36510276 GTCCAAA
65 GTCCAAA
* * * * *
36510283 CTGAATATATACATGTCATGTTACTCATCTAAGCTACACCTTTATAACGATACGTTCAAGTGTTT
1 CTAAATATATACATGTCAAGTTAC-CATCTAAGCTACACCTTTAAAACGATACATTCAAGTGCTT
*
36510348 GTCCAAG
65 GTCCAAA
* *
36510355 CTAAATATATACATGTCAAGTTACCCATCCAAGCTAAACCTTTAAAACGA
1 CTAAATATATACATGTCAAGTTA-CCATCTAAGCTACACCTTTAAAACGA
36510405 CATCAGGTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
72 100 0.97
73 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (71 bp):
CTAAATATATACATGTCAAGTTACCATCTAAGCTACACCTTTAAAACGATACATTCAAGTGCTTG
TCCAAA
Found at i:36517740 original size:23 final size:23
Alignment explanation
Indices: 36517714--36517761 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
36517704 AAATTTTTTA
* *
36517714 TTTAATCTTTTAAAAATTATAAT
1 TTTAATATTATAAAAATTATAAT
*
36517737 TTTACTATTATAAAAATTATAAT
1 TTTAATATTATAAAAATTATAAT
36517760 TT
1 TT
36517762 AACTTCGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAATATTATAAAAATTATAAT
Found at i:36518322 original size:38 final size:40
Alignment explanation
Indices: 36518254--36518341 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 40
36518244 TAAAAAGTAT
* * *
36518254 TTATATTAAAAATACTATCATAAATATAATAAATAATTTG
1 TTATATTAAAAACACTATAATAAATATAATAAATAATTTA
*
36518294 TTATATTAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAACACTATAATAAATATAATAAATAATTTA
*
36518332 TTGTATTAAA
1 TTATATTAAA
36518342 TATATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 28 0.65
39 1 0.02
40 14 0.33
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAACACTATAATAAATATAATAAATAATTTA
Found at i:36528541 original size:39 final size:39
Alignment explanation
Indices: 36528487--36528565 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 39
36528477 TATGCACTCA
*
36528487 ATGGACACCTTTTGAAGAGTCACAACCC-TTTCAAATTGG
1 ATGGACACCTATTGAAGAGTCA-AACCCTTTTCAAATTGG
*
36528526 ATGGACACCTATTGAAGAGTCAAACCCTTTTCATATTGG
1 ATGGACACCTATTGAAGAGTCAAACCCTTTTCAAATTGG
36528565 A
1 A
36528566 CATACCTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 5 0.14
39 32 0.86
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (39 bp):
ATGGACACCTATTGAAGAGTCAAACCCTTTTCAAATTGG
Found at i:36528581 original size:38 final size:38
Alignment explanation
Indices: 36528491--36528582 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
36528481 CACTCAATGG
* *
36528491 ACACCTTTTGAAGAGTCACAACCCTTTCAAATTGGATGG
1 ACACCTATTGAAGAGTCACAACCCTTTCAAATTGGA-GC
*
36528530 ACACCTATTGAAGAGTCA-AACCCTTTTCATATTGGA-C
1 ACACCTATTGAAGAGTCACAACCC-TTTCAAATTGGAGC
* *
36528567 ATACCTCTTGGAAGAG
1 ACACCTATT-GAAGAG
36528583 ACTTGTCGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 7 0.15
38 11 0.24
39 28 0.61
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (38 bp):
ACACCTATTGAAGAGTCACAACCCTTTCAAATTGGAGC
Found at i:36532141 original size:30 final size:29
Alignment explanation
Indices: 36532078--36532300 Score: 168
Period size: 30 Copynumber: 7.5 Consensus size: 29
36532068 AGTTTCAAAG
* * *
36532078 AGTTTAG-GGTCAAAATACAATTTTGGGA
1 AGTTTAGAGGTCAAAATATAATTTTTGAA
*
36532106 AGTTTAGAGGTCAAAATGTAATTTTTAGAA
1 AGTTTAGAGGTCAAAATATAATTTTT-GAA
* **
36532136 AGTTTA-AGGGTCAAAAAATAACTTTTAAAGA
1 AGTTTAGA-GGTCAAAATATAA-TTTTTGA-A
*
36532167 AGTTTA-AGGGTCAAAATGTAATTTTTGGAA
1 AGTTTAGA-GGTCAAAATATAATTTTT-GAA
* *
36532197 AGTTTATG-GGTTAAAATATAATTTTTGTGA
1 AGTTTA-GAGGTCAAAATATAATTTTTG-AA
* *
36532227 AGTTTAGGGGTTAAAATATAATTTTTGAGA
1 AGTTTAGAGGTCAAAATATAATTTTTGA-A
* *
36532257 AGTTT-GAAGTCAAAATGTAATTTTTTTGAA
1 AGTTTAGAGGTCAAAATATAA--TTTTTGAA
* *
36532287 AGTTAAGGGGTCAA
1 AGTTTAGAGGTCAA
36532301 CTGAGTAATA
Statistics
Matches: 158, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
28 7 0.04
29 29 0.18
30 84 0.53
31 38 0.24
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.37
Consensus pattern (29 bp):
AGTTTAGAGGTCAAAATATAATTTTTGAA
Found at i:36532253 original size:60 final size:58
Alignment explanation
Indices: 36532078--36532300 Score: 218
Period size: 61 Copynumber: 3.7 Consensus size: 58
36532068 AGTTTCAAAG
* * *
36532078 AGTTTAGGGTCAAAATACAA-TTTTGGGAAGTTTAGAGGTCAAAATGTAATTTTTAGAA
1 AGTTTAGGGTCAAAATATAATTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTT-GAA
* ** *
36532136 AGTTTAAGGGTCAAAAAATAACTTTTAAAGAAGTTTAAGGGTCAAAATGTAATTTTTGGAA
1 AGTTT-AGGGTCAAAATATAA-TTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTT-GAA
* * * *
36532197 AGTTTATGGGTTAAAATATAATTTTTGTGAAGTTTAGGGGTTAAAATATAATTTTTGAGA
1 AGTTTA-GGGTCAAAATATAATTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTTGA-A
* * *
36532257 AGTTT-GAAGTCAAAATGTAATTTTTTTGA-AAGTTAAGGGGTCAA
1 AGTTTAG-GGTCAAAATATAA--TTTTTGAGAAGTTTAGGGGTCAA
36532301 CTGAGTAATA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
58 6 0.04
59 25 0.19
60 49 0.36
61 55 0.41
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.37
Consensus pattern (58 bp):
AGTTTAGGGTCAAAATATAATTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTTGAA
Found at i:36533529 original size:6 final size:6
Alignment explanation
Indices: 36533520--36533615 Score: 60
Period size: 6 Copynumber: 16.8 Consensus size: 6
36533510 TAATTTTTAA
* * *
36533520 TTAAAT TTAAA- ATAAAT TTAAAT TTAGAA- -TGAAT TTAAAT TCAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT
* * * * * *
36533565 ATAAAT TTAAAG TTAAA- CTAAAT TTAAAC TTAAA- ATAAAT TAAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
36533611 TTAAA
1 TTAAA
36533616 AATGGGTCCA
Statistics
Matches: 67, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
4 2 0.03
5 16 0.24
6 47 0.70
7 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (6 bp):
TTAAAT
Found at i:36533540 original size:17 final size:17
Alignment explanation
Indices: 36533520--36533616 Score: 131
Period size: 17 Copynumber: 5.7 Consensus size: 17
36533510 TAATTTTTAA
36533520 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
* *
36533537 TTAAATTTAGAATGAAT
1 TTAAATTTAAAATAAAT
*
36533554 TTAAATTCAAAATAAAT
1 TTAAATTTAAAATAAAT
* *
36533571 TTAAAGTTAAACTAAAT
1 TTAAATTTAAAATAAAT
*
36533588 TTAAACTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
36533605 TAAAATTTAAAA
1 TTAAATTTAAAA
36533617 ATGGGTCCAA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 68 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:36534509 original size:72 final size:71
Alignment explanation
Indices: 36534414--36534607 Score: 226
Period size: 72 Copynumber: 2.7 Consensus size: 71
36534404 CTCATTTGAG
* * * * * * *
36534414 CTAATTATATTCATGACACGTTACCAGTTTAAGCTACACCTTTAAAATGATACATTCAATTGCTT
1 CTAAATATATACATGTCAAGTTACCA-TCTAAGCTACACCTTTAAAACGATACATTCAAGTGCTT
36534479 GTCCAAA
65 GTCCAAA
* * * * *
36534486 CTGAATATATACATGTCATGTTACTCATCTAAGCTACACCTTTATAACGATACGTTCAAGTGTTT
1 CTAAATATATACATGTCAAGTTAC-CATCTAAGCTACACCTTTAAAACGATACATTCAAGTGCTT
*
36534551 GTCCAAG
65 GTCCAAA
* *
36534558 CTAAATATATACATGTCAAGTTACCCATCCAAGCTAAACCTTTAAAACGA
1 CTAAATATATACATGTCAAGTTA-CCATCTAAGCTACACCTTTAAAACGA
36534608 CATCAGGTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
72 100 0.97
73 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (71 bp):
CTAAATATATACATGTCAAGTTACCATCTAAGCTACACCTTTAAAACGATACATTCAAGTGCTTG
TCCAAA
Found at i:36541922 original size:23 final size:23
Alignment explanation
Indices: 36541896--36541943 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
36541886 AAATTTTTTA
* *
36541896 TTTAATCTTTTAAAAATTATAAT
1 TTTAATATTATAAAAATTATAAT
*
36541919 TTTACTATTATAAAAATTATAAT
1 TTTAATATTATAAAAATTATAAT
36541942 TT
1 TT
36541944 AACTTCGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAATATTATAAAAATTATAAT
Found at i:36547926 original size:59 final size:57
Alignment explanation
Indices: 36547796--36548214 Score: 498
Period size: 59 Copynumber: 7.4 Consensus size: 57
36547786 TATGGATACC
* * * *
36547796 CGGGGTAAAATGGTAA-TTTTGATGTAATCGGATT-AAAATGGAATTTTAAAAGATT
1 CGGGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAAACGGAATTTTAAAAGATT
* * * *
36547851 C-GGGTATAATGGTAATTTTTGGTGAAATCGGGCTAAAAACGGAATTTTAGAAGCTGT
1 CGGGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAAACGGAATTTTAAAAGAT-T
* *
36547908 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGTTAAAAACAGAATTTTAAAAGATT
1 C-GGGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAAACGGAATTTTAAAAGATT
* *
36547966 CGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAAATGGAATTTTAAAAGCTT
1 CGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGTT-AAAAACGGAATTTTAAAAGATT
* * ** *
36548025 CAGGGTAAAAAT-GTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGGAGCTT
1 CGGGGT-AAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAACGGAATTTTAAAAGATT
36548083 CGGGGT-AAATGGTAA-TTTTGGTGAAATCGGGTTAAAATA--GAA-TTTAAAAGATT
1 CGGGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAA-ACGGAATTTTAAAAGATT
* *
36548136 CGAGGGTAAAATGGTAA-TTTTGATGAAATAAGGGTTAAAAACGGAATTTTTAAAAGATT
1 CG-GGGTAAAATGGTAATTTTTGGTGAAAT-CGGGTTAAAAACGGAA-TTTTAAAAGATT
*
36548195 GGGGGTAAAATGGTAATTTT
1 CGGGGTAAAATGGTAATTTT
36548215 CGAAAGTTTT
Statistics
Matches: 314, Mismatches: 32, Indels: 32
0.83 0.08 0.08
Matches are distributed among these distances:
53 10 0.03
54 20 0.06
55 45 0.14
56 43 0.14
57 38 0.12
58 44 0.14
59 109 0.35
60 5 0.02
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (57 bp):
CGGGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAAACGGAATTTTAAAAGATT
Found at i:36548059 original size:29 final size:29
Alignment explanation
Indices: 36547862--36548074 Score: 76
Period size: 30 Copynumber: 7.3 Consensus size: 29
36547852 GGGTATAATG
* * *
36547862 GTAATTTTTGGTGAAATCGGGCTAAAAAC
1 GTAATTTTTGATGAAATCGGGGTAAAAAT
* * * ***
36547891 GGAATTTTAGAAGCTGTCGGGGGT-AAAAT
1 GTAATTTTTGATGAAATC-GGGGTAAAAAT
* * * *
36547920 GGTAATTTTTGGTGAAATCAGGTTAAAAACA
1 -GTAATTTTTGATGAAATCGGGGTAAAAA-T
** * *
36547951 G-AATTTTAAAAG-ATTCGGGGT-AAAAT
1 GTAATTTTTGATGAAATCGGGGTAAAAAT
* *
36547977 GGTAATTTTTGGTGAAATCAGGGTTAAAAAAT
1 -GTAATTTTTGATGAAATC-GGGGT-AAAAAT
* ** * ** *
36548009 GGAATTTTAAAAG-CTTCAGGGTAAAAAT
1 GTAATTTTTGATGAAATCGGGGTAAAAAT
*
36548037 GTAATTTTTGATGAAATCGGGGTTAAAAAC
1 GTAATTTTTGATGAAATCGGGG-TAAAAAT
*
36548067 GGAATTTT
1 GTAATTTT
36548075 AGGAGCTTCG
Statistics
Matches: 121, Mismatches: 51, Indels: 23
0.62 0.26 0.12
Matches are distributed among these distances:
27 5 0.04
28 28 0.23
29 36 0.30
30 39 0.32
31 8 0.07
32 5 0.04
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (29 bp):
GTAATTTTTGATGAAATCGGGGTAAAAAT
Found at i:36548212 original size:29 final size:28
Alignment explanation
Indices: 36548180--36548418 Score: 198
Period size: 29 Copynumber: 8.2 Consensus size: 28
36548170 TTAAAAACGG
* *
36548180 AATTTTTAAAAGATTGGGGGTAAAATGGT
1 AATTTTGAAAAGTTTGGGGGTAAAAT-GT
*
36548209 AATTTTCG-AAAGTTTTGGGGTTAAAATGT
1 AATTTT-GAAAAG-TTTGGGGGTAAAATGT
**
36548238 AATTTTTGGAAAAGTTT-TAGGTCAAAATGT
1 AA-TTTT-GAAAAGTTTGGGGGT-AAAATGT
* *
36548268 AATTTTGGAAAAGTTT-TGGGTCAAAATAT
1 AATTTT-GAAAAGTTTGGGGGT-AAAATGT
* *
36548297 AATTTTGGAAAAGTTTGAGGTTAAAATGT
1 AATTTT-GAAAAGTTTGGGGGTAAAATGT
* *
36548326 AATTTTGGAAAAGTTTTGGGGTCAAAATAT
1 AATTTT-GAAAAGTTTGGGGGT-AAAATGT
*
36548356 AATTTTGGAAAAGTTTGGGGTTAAAATGT
1 AATTTT-GAAAAGTTTGGGGGTAAAATGT
* * * *
36548385 AATTTTG-GAAGTTTTGAGGTCAAATGT
1 AATTTTGAAAAGTTTGGGGGTAAAATGT
36548412 AATTTTG
1 AATTTTG
36548419 GATTGTTTGG
Statistics
Matches: 179, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
27 22 0.12
28 1 0.01
29 94 0.53
30 58 0.32
31 4 0.02
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (28 bp):
AATTTTGAAAAGTTTGGGGGTAAAATGT
Found at i:36548232 original size:59 final size:56
Alignment explanation
Indices: 36548180--36548417 Score: 223
Period size: 59 Copynumber: 4.1 Consensus size: 56
36548170 TTAAAAACGG
* * *
36548180 AATTTTTAAAAGATTGGGGGTAAAATGGTAATTTTCGAAAGTTTTGGGGTTAAAATGT
1 AATTTTTAAAAGATTGAGGGTAAAAT-GTAATTTT-GAAAGTTTTGGGGTCAAAATAT
* *
36548238 AATTTTTGGAAAAGTTTTA-GGTCAAAATGTAATTTTGGAAAAGTTTT-GGGTCAAAATAT
1 AATTTTT--AAAAGATTGAGGGT-AAAATGTAATTTT-G-AAAGTTTTGGGGTCAAAATAT
* * *
36548297 AATTTTGGAAAAGTTTGAGGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATAT
1 AATTTT-TAAAAGATTGAGGGTAAAATGTAATTTT-G-AAAGTTTTGGGGTCAAAATAT
* * * * *
36548356 AATTTTGGAAAAGTTTG-GGGTTAAAATGTAATTTTGGAAGTTTTGAGGTC-AAATGT
1 AATTTT-TAAAAGATTGAGGG-TAAAATGTAATTTTGAAAGTTTTGGGGTCAAAATAT
36548412 AATTTT
1 AATTTT
36548418 GGATTGTTTG
Statistics
Matches: 159, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
56 11 0.07
57 12 0.08
58 43 0.27
59 73 0.46
60 20 0.13
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (56 bp):
AATTTTTAAAAGATTGAGGGTAAAATGTAATTTTGAAAGTTTTGGGGTCAAAATAT
Found at i:36548272 original size:88 final size:87
Alignment explanation
Indices: 36548187--36548417 Score: 290
Period size: 88 Copynumber: 2.6 Consensus size: 87
36548177 CGGAATTTTT
*
36548187 AAAAGATTGGGGGTAAAATGGTAATTTTCGAAAGTTTTGGGGTTAAAATGTAATTTTTGGAAAAG
1 AAAAG-TTGGGGGTAAAAT-GTAATTTT-GAAAGTTTTGAGGTTAAAATGTAATTTTTGGAAAAG
*
36548252 TTTT-AGGTCAAAATGTAATTTTGG
63 TTTTGAGGTCAAAATATAATTTTGG
** *
36548276 AAAAGTTTTGGGTCAAAATATAATTTTGGAAAAG-TTTGAGGTTAAAATGTAA-TTTTGGAAAAG
1 AAAAGTTGGGGGT-AAAATGTAATTTT-G-AAAGTTTTGAGGTTAAAATGTAATTTTTGGAAAAG
*
36548339 TTTTGGGGTCAAAATATAATTTTGG
63 TTTTGAGGTCAAAATATAATTTTGG
* * *
36548364 AAAAGTTTGGGGTTAAAATGTAATTTTGGAAGTTTTGAGG-TCAAATGTAATTTT
1 AAAAG-TTGGGGGTAAAATGTAATTTTGAAAGTTTTGAGGTTAAAATGTAATTTT
36548418 GGATTGTTTG
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
86 12 0.10
87 26 0.21
88 66 0.54
89 19 0.15
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.38
Consensus pattern (87 bp):
AAAAGTTGGGGGTAAAATGTAATTTTGAAAGTTTTGAGGTTAAAATGTAATTTTTGGAAAAGTTT
TGAGGTCAAAATATAATTTTGG
Found at i:36553397 original size:29 final size:30
Alignment explanation
Indices: 36553367--36553640 Score: 131
Period size: 29 Copynumber: 9.3 Consensus size: 30
36553357 TAAAAGATTC
*
36553367 GGGGTATAATGGTAATTTTTGGTGAAATC-
1 GGGGTAAAATGGTAATTTTTGGTGAAATCA
* * ** ** *
36553396 GGGGCTAAAAACGG-AATTTTAGAAG-CTTCG
1 GGGG-T-AAAATGGTAATTTTTGGTGAAATCA
36553426 GGGGTAAAATGGTAATTTTTGGTGAAATCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCA
* ** **** * *
36553456 GGGTTAAAAACAG-AATTTTAAAAG-ATTCG
1 GGGGT-AAAATGGTAATTTTTGGTGAAATCA
36553485 GGGGTAAAATGGTAATTTTTGGTGAAATCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCA
* **** **
36553515 GGGTTAAAAATGG-AATTTTAAAAG-CTTCA
1 GGGGT-AAAATGGTAATTTTTGGTGAAATCA
*
36553544 GGGGTAAAATGGTAATTTTTGATGAAATC-
1 GGGGTAAAATGGTAATTTTTGGTGAAATCA
* * * **
36553573 GGGGTTAAAAACGG-AATTTTAGGAG-CTTC-
1 GGGG-T-AAAATGGTAATTTTTGGTGAAATCA
36553602 GGGGTAAAATGGTAATTTTTGGTGAAATC-
1 GGGGTAAAATGGTAATTTTTGGTGAAATCA
36553631 GGGGTTAAAA
1 GGGG-TAAAA
36553641 ATAGAATTTT
Statistics
Matches: 173, Mismatches: 56, Indels: 31
0.67 0.22 0.12
Matches are distributed among these distances:
27 6 0.03
28 28 0.16
29 60 0.35
30 56 0.32
31 23 0.13
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (30 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCA
Found at i:36553464 original size:59 final size:59
Alignment explanation
Indices: 36553308--36553738 Score: 609
Period size: 59 Copynumber: 7.4 Consensus size: 59
36553298 TATGGATACC
* * *
36553308 CGGGGGTAAAATGGTAA-TTTTGATGTAATC-GGGATTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGG-TTAAAAACGGAATTTTAAAAGATT
* * * * *
36553366 C-GGGGTATAATGGTAATTTTTGGTGAAATCGGGGCTAAAAACGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACGGAATTTTAAAAGATT
*
36553424 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACGGAATTTTAAAAGATT
* *
36553483 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACGGAATTTTAAAAGATT
* * * ** *
36553542 CAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGGAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACGGAATTTTAAAAGATT
* **
36553601 C-GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACGGAATTTTAAAAGATT
* * * *
36553659 CGAGGGTAAAATGGTAATTTTCGATGAAATAAGGGTTAAAAACGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACGGAATTTTAAAAGATT
36553718 CGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
36553739 CGAAAGTTTT
Statistics
Matches: 333, Mismatches: 36, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
57 14 0.04
58 85 0.26
59 234 0.70
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACGGAATTTTAAAAGATT
Found at i:36553480 original size:117 final size:118
Alignment explanation
Indices: 36553308--36553738 Score: 654
Period size: 117 Copynumber: 3.7 Consensus size: 118
36553298 TATGGATACC
* *
36553308 CGGGGGTAAAATGGTAA-TTTTGATGTAATC-GGGATTAAAAATGGAATTTTAAAAGATTC-GGG
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGG-TTAAAAACGGAATTTTAAAAGATTCGGGG
* * * *
36553370 GTATAATGGTAATTTTTGGTGAAATCGGGGCTAAAAACGGAATTTTAGAAGCTT
65 GTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
* *
36553424 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAACAGAATTTTAAAAGATTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAACGGAATTTTAAAAGATTCGGGGG
*
36553489 TAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGCTT
66 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
* * ** *
36553542 CAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGGAGCTTC-GGGG
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAACGGAATTTTAAAAGATTCGGGGG
* *
36553606 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGATT
66 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
* * *
36553659 CGAGGGTAAAATGGTAATTTTCGATGAAATAAGGGTTAAAAACGGAATTTTAAAAGATTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAACGGAATTTTAAAAGATTCGGGGG
36553724 TAAAATGGTAATTTT
66 TAAAATGGTAATTTT
36553739 CGAAAGTTTT
Statistics
Matches: 284, Mismatches: 27, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
116 17 0.06
117 140 0.49
118 127 0.45
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (118 bp):
CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAACGGAATTTTAAAAGATTCGGGGG
TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTT
Found at i:36553638 original size:176 final size:176
Alignment explanation
Indices: 36553308--36553738 Score: 697
Period size: 176 Copynumber: 2.4 Consensus size: 176
36553298 TATGGATACC
*
36553308 CGGGGGTAAAATGGTAA-TTTTGATGTAATC-GGGATTAAAAATGGAATTTTAAAAGATTCGGGG
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGG-TTAAAAATGGAATTTTAAAAGATTCGGGG
* *
36553371 TATAATGGTAATTTTTGGTGAAATCGGGGCTAAAAACGGAATTTTAGAAGCTTCGGGGGTAAAAT
65 TAAAATGGTAATTTTTGATGAAATCGGGGCTAAAAACGGAATTTTAGAAGCTTCGGGGGTAAAAT
36553436 GGTAATTTTTGGTGAAATCAGGGTTAAAAACAGAATTTTAAAAGATT
130 GGTAATTTTTGGTGAAATCAGGGTTAAAAACAGAATTTTAAAAGATT
* *
36553483 CGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGCTTCAGGGG
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTC-GGGG
* *
36553548 TAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGGAGCTTC-GGGGTAAAAT
65 TAAAATGGTAATTTTTGATGAAATCGGGGCTAAAAACGGAATTTTAGAAGCTTCGGGGGTAAAAT
* *
36553612 GGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGATT
130 GGTAATTTTTGGTGAAATCAGGGTTAAAAACAGAATTTTAAAAGATT
* * * *
36553659 CGAGGGTAAAATGGTAATTTTCGATGAAATAAGGGTTAAAAACGGAATTTTAAAAGATTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTC-GGGG
36553724 TAAAATGGTAATTTT
65 TAAAATGGTAATTTT
36553739 CGAAAGTTTT
Statistics
Matches: 237, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
175 17 0.07
176 163 0.69
177 57 0.24
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (176 bp):
CGGGGGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGGGGT
AAAATGGTAATTTTTGATGAAATCGGGGCTAAAAACGGAATTTTAGAAGCTTCGGGGGTAAAATG
GTAATTTTTGGTGAAATCAGGGTTAAAAACAGAATTTTAAAAGATT
Found at i:36553650 original size:29 final size:29
Alignment explanation
Indices: 36553315--36553650 Score: 123
Period size: 29 Copynumber: 11.4 Consensus size: 29
36553305 ACCCGGGGGT
* * *
36553315 AAAATGGTAATTTTGATGTAATCGGGATTA
1 AAAATGG-AATTTTGGTGAAATCGGGGTTA
**
36553345 AAAATGGAATTTT--AAAAGATTCGGGG-T-
1 AAAATGGAATTTTGGTGAA-A-TCGGGGTTA
* *
36553372 ATAATGGTAATTTTTGGTGAAATCGGGGCTA
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTTA
* * * *
36553403 AAAACGGAATTTT--AGAAGCTTCGGGGGT-
1 AAAATGGAATTTTGGTGAA--ATCGGGGTTA
*
36553431 AAAATGGTAATTTTTGGTGAAATCAGGGTTA
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTTA
** ** *
36553462 AAAACAGAATTTT--AAAAGATTCGGGGGT-
1 AAAATGGAATTTTGGTGAA-A-TCGGGGTTA
*
36553490 AAAATGGTAATTTTTGGTGAAATCAGGGTTA
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTTA
*
36553521 AAAATGGAA-TTT--TAAAAGCTTCAGGGG-T-
1 AAAATGGAATTTTGGTGAAA---TC-GGGGTTA
*
36553549 AAAATGGTAATTTTTGATGAAATCGGGGTTA
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTTA
* * **
36553580 AAAACGGAATTTTAG-GAGCTTCGGGG-T-
1 AAAATGGAATTTTGGTGA-AATCGGGGTTA
36553607 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTTA
*
36553638 AAAATAGAATTTT
1 AAAATGGAATTTT
36553651 AAAAGATTCG
Statistics
Matches: 225, Mismatches: 42, Indels: 79
0.65 0.12 0.23
Matches are distributed among these distances:
26 4 0.02
27 18 0.08
28 31 0.14
29 80 0.36
30 48 0.21
31 35 0.16
32 5 0.02
33 4 0.02
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.32
Consensus pattern (29 bp):
AAAATGGAATTTTGGTGAAATCGGGGTTA
Found at i:36553756 original size:235 final size:234
Alignment explanation
Indices: 36553310--36553797 Score: 664
Period size: 235 Copynumber: 2.1 Consensus size: 234
36553300 TGGATACCCG
* * *
36553310 GGGGTAAAATGGTAA-TTTTGATGTAATCGGGATTAAAAATGGAATTTTAAAAGATTCGGGGTAT
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGATTAAAAACGGAATTTTAAAAGATTCGGGGTAA
* * * *
36553374 AATGGTAATTTTTGGTGAAATCGGGGCTAAAAACGGAATTTTAGAAGCTTCGGGGGTAAAATGGT
66 AATGGTAATTTTTGGTGAAATCGGGGCTAAAAACAGAATTTTAAAAGATTCGAGGGTAAAATGGT
* * *
36553439 AATTTTTGGTGAAATCAGGGTTAAAAACAGAATTTTAAAAGATTCGGGGGTAAAATGGTAATTTT
131 AATTTTCGATGAAATAAGGGTTAAAAACAGAATTTTAAAAGATTCGGGGGTAAAATGGTAATTTT
*
36553504 TGGTGAAATCAGGGTTAAAAATGGAATTTT-AAAAGCTTCA
196 T-GCGAAATCAGGGTT-AAAATGGAATTTTGAAAAGCTTCA
* ** *
36553544 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAACGGAATTTTAGGAGCTTCGGGGTAA
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGATTAAAAACGGAATTTTAAAAGATTCGGGGTAA
* *
36553609 AATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAAAAGATTCGAGGGTAAAATGGT
66 AATGGTAATTTTTGGTGAAATCGGGGCTAAAAACAGAATTTTAAAAGATTCGAGGGTAAAATGGT
*
36553674 AATTTTCGATGAAATAAGGGTTAAAAACGGAATTTTAAAAGATTCGGGGGTAAAATGGTAA-TTT
131 AATTTTCGATGAAATAAGGGTTAAAAACAGAATTTTAAAAGATTCGGGGGTAAAATGGTAATTTT
** * * *
36553738 T-CGAAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTA
196 TGCGAAA---TCAGGGTTAAAATGGAATTTT-GAAAAGCTTCA
36553780 -GGGTCAAAAT-GTAATTTT
1 GGGGT-AAAATGGTAATTTT
36553798 GGAAAAGTTT
Statistics
Matches: 224, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
232 4 0.02
234 31 0.14
235 176 0.79
236 13 0.06
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.32
Consensus pattern (234 bp):
GGGGTAAAATGGTAATTTTTGATGAAATCGGGATTAAAAACGGAATTTTAAAAGATTCGGGGTAA
AATGGTAATTTTTGGTGAAATCGGGGCTAAAAACAGAATTTTAAAAGATTCGAGGGTAAAATGGT
AATTTTCGATGAAATAAGGGTTAAAAACAGAATTTTAAAAGATTCGGGGGTAAAATGGTAATTTT
TGCGAAATCAGGGTTAAAATGGAATTTTGAAAAGCTTCA
Found at i:36553760 original size:30 final size:30
Alignment explanation
Indices: 36553720--36553947 Score: 352
Period size: 30 Copynumber: 7.6 Consensus size: 30
36553710 AAAAGATTCG
*
36553720 GGGGT-AAAATGGTAATTTTCG-AAAGTTTT
1 GGGGTCAAAAT-GTAATTTTGGAAAAGTTTT
*
36553749 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
36553779 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
36553809 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
* *
36553839 GAGGTTAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
36553869 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
36553899 GGGGTTAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
36553929 GAGGTCAAAATGTAATTTT
1 GGGGTCAAAATGTAATTTT
36553948 TGGATTGTTT
Statistics
Matches: 182, Mismatches: 15, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
29 14 0.08
30 168 0.92
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:36555723 original size:12 final size:14
Alignment explanation
Indices: 36555704--36555741 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
36555694 TTTAGACTAT
36555704 TGTAATTGGGCC-C
1 TGTAATTGGGCCTC
*
36555717 T-TAATTGGGCCTT
1 TGTAATTGGGCCTC
36555730 TGTAATTGGGCC
1 TGTAATTGGGCC
36555742 GTGGGCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 10 0.45
13 2 0.09
14 10 0.45
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.37
Consensus pattern (14 bp):
TGTAATTGGGCCTC
Found at i:36555842 original size:6 final size:6
Alignment explanation
Indices: 36555819--36555926 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
36555809 TATTTGGACT
* * **
36555819 TTTAAA TTTTAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA
* * *
36555869 -TTCAA TTTAAA TTTAAATA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
36555917 --TAAA TTTAAA
1 TTTAAA TTTAAA
36555927 ATCAATTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Done.