Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 82 of 93
Found at i:12717920 original size:30 final size:30
Alignment explanation
Indices: 12717879--12717935 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
12717869 TTAATTATTT
* * *
12717879 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
12717909 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
12717936 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:12717938 original size:21 final size:22
Alignment explanation
Indices: 12717908--12717959 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
12717898 GATATTTTTA
12717908 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
12717928 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
12717950 AATATTTTAT
1 AATATTTTAT
12717960 TAATTTCGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:12722568 original size:23 final size:22
Alignment explanation
Indices: 12722520--12722561 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12722510 GATTATCATA
*
12722520 AAAAAGACTCGCTAGGACAAAC
1 AAAAAGACTCGCTAAGACAAAC
* *
12722542 AAAAAGACTTGTTAAGACAA
1 AAAAAGACTCGCTAAGACAA
12722562 TATAAAATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (22 bp):
AAAAAGACTCGCTAAGACAAAC
Found at i:12727050 original size:2 final size:2
Alignment explanation
Indices: 12727038--12727070 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
12727028 CTAGGTATTT
*
12727038 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12727071 GTCTTCCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:12737598 original size:13 final size:13
Alignment explanation
Indices: 12737558--12737599 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
12737548 TTCAAGATAA
*
12737558 TAAAATATTAATT
1 TAAAATTTTAATT
*
12737571 T-AAATTATAATTT
1 TAAAATTTTAA-TT
12737584 TAAAATTTTAATT
1 TAAAATTTTAATT
12737597 TAA
1 TAA
12737600 TTAATTAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 7 0.29
13 9 0.38
14 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAAATTTTAATT
Found at i:12738206 original size:30 final size:30
Alignment explanation
Indices: 12738172--12738228 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12738162 TAATTATGGG
*
12738172 TTTTGATTATT-ACTTGAAATTATATTTTGA
1 TTTTGATTATTGA-TTAAAATTATATTTTGA
*
12738202 TTTTGATTGTTGATTAAAATTATATTT
1 TTTTGATTATTGATTAAAATTATATTT
12738229 GGGTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.58
Consensus pattern (30 bp):
TTTTGATTATTGATTAAAATTATATTTTGA
Found at i:12738252 original size:29 final size:30
Alignment explanation
Indices: 12738188--12738255 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
12738178 TTATTACTTG
* * *
12738188 AAATTATATTTTGATTTTGATTGTTGATTA
1 AAATTATATTTGGATTTTAATTGTTCATTA
*
12738218 AAATTATATTTGGGTTTTAATTGTTCATT-
1 AAATTATATTTGGATTTTAATTGTTCATTA
*
12738247 GAATTATAT
1 AAATTATAT
12738256 CATTTTAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (30 bp):
AAATTATATTTGGATTTTAATTGTTCATTA
Found at i:12745421 original size:12 final size:11
Alignment explanation
Indices: 12745396--12745429 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
12745386 ATAAATTTAC
12745396 AAAAA-AAAAA
1 AAAAAGAAAAA
12745406 AAAAAGAAAGAA
1 AAAAAGAAA-AA
12745418 AAAAAGAAAAA
1 AAAAAGAAAAA
12745429 A
1 A
12745430 GCTTCCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 6 0.27
12 11 0.50
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:12746466 original size:2 final size:2
Alignment explanation
Indices: 12746459--12746497 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
12746449 CATGATCTCT
12746459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12746498 TTCTTCAGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12746947 original size:3 final size:3
Alignment explanation
Indices: 12746941--12746968 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12746931 GTTTTGGAGG
12746941 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
12746969 AGTGGGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12747562 original size:2 final size:2
Alignment explanation
Indices: 12747557--12747593 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
12747547 TAAAAAAAGT
* *
12747557 TA TA TA TA TG GA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12747594 TTCTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:12748171 original size:2 final size:2
Alignment explanation
Indices: 12748164--12748264 Score: 202
Period size: 2 Copynumber: 50.5 Consensus size: 2
12748154 AAAAGGAATA
12748164 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
12748206 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
12748248 TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG T
12748265 AGGCAATATC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 99 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:12748412 original size:14 final size:15
Alignment explanation
Indices: 12748395--12748427 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12748385 TAAATATATT
*
12748395 AAAATTAATAA-TTA
1 AAAATTAAAAATTTA
12748409 AAAATTAAAAATTTA
1 AAAATTAAAAATTTA
12748424 AAAA
1 AAAA
12748428 ATTTACATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATTAAAAATTTA
Found at i:12752924 original size:13 final size:12
Alignment explanation
Indices: 12752863--12752924 Score: 51
Period size: 13 Copynumber: 5.3 Consensus size: 12
12752853 TTTTATATTG
12752863 ATATAAATTATA
1 ATATAAATTATA
* *
12752875 ATATATAATTTTT
1 ATATA-AATTATA
*
12752888 ATATAAAATATA
1 ATATAAATTATA
12752900 ATA-AAA--AT-
1 ATATAAATTATA
12752908 ATATAAATTATTA
1 ATATAAATTA-TA
12752921 ATAT
1 ATAT
12752925 TTTATATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
8 3 0.08
9 5 0.13
11 4 0.10
12 13 0.33
13 14 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATAAATTATA
Found at i:12763338 original size:2 final size:2
Alignment explanation
Indices: 12763331--12763362 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12763321 TAGTTTCTCC
12763331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12763363 AAACTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12765464 original size:21 final size:22
Alignment explanation
Indices: 12765430--12765472 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
12765420 AATAGATCAA
12765430 TAAATAAATATTAAAAAAATAT
1 TAAATAAATATTAAAAAAATAT
* *
12765452 TAAATTAA-ATTAAAATAATAT
1 TAAATAAATATTAAAAAAATAT
12765473 AGAGATTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATAAATATTAAAAAAATAT
Found at i:12773306 original size:13 final size:14
Alignment explanation
Indices: 12773264--12773307 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
12773254 AATATTATTT
*
12773264 ATTTTAATTTAT-A
1 ATTTTATTTTATAA
12773277 ATTTTATTTTATAAA
1 ATTTTATTTTAT-AA
12773292 ATTTT-TTTTATAA
1 ATTTTATTTTATAA
12773305 ATT
1 ATT
12773308 GATATAAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 16 0.57
14 6 0.21
15 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTATTTTATAA
Found at i:12773418 original size:21 final size:22
Alignment explanation
Indices: 12773389--12773433 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
12773379 AATGATGTAT
** *
12773389 GCAACAATAATCAACCTGTGAG
1 GCAACAATAAAAAACCTGCGAG
12773411 GCAA-AATAAAAAACCTGCGAG
1 GCAACAATAAAAAACCTGCGAG
12773432 GC
1 GC
12773434 CATTCATCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.13
Consensus pattern (22 bp):
GCAACAATAAAAAACCTGCGAG
Found at i:12773723 original size:23 final size:23
Alignment explanation
Indices: 12773697--12773769 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 23
12773687 AATATGTCAT
12773697 AAATATTTTATAAAATTATAATA
1 AAATATTTTATAAAATTATAATA
* * *
12773720 AAATATTTGATATAA-TA-ATTA
1 AAATATTTTATAAAATTATAATA
* *
12773741 AAAT-TTTTA-AAATTTTTAATA
1 AAATATTTTATAAAATTATAATA
*
12773762 TAATATTT
1 AAATATTT
12773770 AAATTAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 13 0.34
22 5 0.13
23 13 0.34
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
AAATATTTTATAAAATTATAATA
Found at i:12773777 original size:26 final size:29
Alignment explanation
Indices: 12773749--12773817 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
12773739 TAAAATTTTT
12773749 AAAAT-TT-TTAATATAATATTTAAATTA
1 AAAATATTATTAATATAATATTTAAATTA
*
12773776 AAAATCATTAATTAATATAATATTTATATT-
1 AAAAT-ATT-ATTAATATAATATTTAAATTA
*
12773806 -TAATATTATTAA
1 AAAATATTATTAA
12773818 ATATTTGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
27 10 0.28
28 3 0.08
29 5 0.14
31 18 0.50
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
AAAATATTATTAATATAATATTTAAATTA
Found at i:12773810 original size:18 final size:17
Alignment explanation
Indices: 12773755--12773811 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 17
12773745 TTTTAAAATT
12773755 TTTAATATAATATTTAA
1 TTTAATATAATATTTAA
*
12773772 ATTAA-A-AATCA-TTAA
1 TTTAATATAAT-ATTTAA
12773787 -TTAATATAATATTTATA
1 TTTAATATAATATTTA-A
12773804 TTTAATAT
1 TTTAATAT
12773812 TATTAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
14 4 0.12
15 9 0.27
16 8 0.24
17 5 0.15
18 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAATATAATATTTAA
Found at i:12773821 original size:23 final size:23
Alignment explanation
Indices: 12773794--12773840 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
12773784 TAATTAATAT
12773794 AATATTTATATTTAATATTATTA
1 AATATTTATATTTAATATTATTA
*
12773817 AATATTTGTATTTAATATTATTA
1 AATATTTATATTTAATATTATTA
12773840 A
1 A
12773841 TAATATTAAA
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:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATATTTATATTTAATATTATTA
Found at i:12773852 original size:7 final size:7
Alignment explanation
Indices: 12773842--12773904 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
12773832 TATTATTAAT
12773842 AATATTA
1 AATATTA
12773849 AATA-TA
1 AATATTA
12773855 AATATT-
1 AATATTA
12773861 -ATATTA
1 AATATTA
* *
12773867 ATTAATA
1 AATATTA
12773874 AAT-TTA
1 AATATTA
12773880 TAAT-TTA
1 -AATATTA
12773887 AATATT-
1 AATATTA
12773893 -ATATTA
1 AATATTA
12773899 AATATT
1 AATATT
12773905 TTATTATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
5 10 0.22
6 11 0.24
7 24 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
AATATTA
Found at i:12773892 original size:32 final size:31
Alignment explanation
Indices: 12773789--12773899 Score: 97
Period size: 32 Copynumber: 3.6 Consensus size: 31
12773779 ATCATTAATT
* *
12773789 AATAT-AATATT-TA-TATTTAATATTATTA
1 AATATAAATATTATATTAATTAATAATATTA
***
12773817 AATATTTGTATTTAATATT-ATTAATAATATTA
1 AATATAAATA-TT-ATATTAATTAATAATATTA
12773849 AATATAAATATTATATTAATTAATAA-ATTTA
1 AATATAAATATTATATTAATTAATAATA-TTA
*
12773880 TAATTTAAATATTATATTAA
1 -AATATAAATATTATATTAA
12773900 ATATTTTATT
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
28 5 0.07
29 2 0.03
30 8 0.12
31 13 0.19
32 38 0.57
33 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (31 bp):
AATATAAATATTATATTAATTAATAATATTA
Found at i:12773904 original size:12 final size:12
Alignment explanation
Indices: 12773794--12773910 Score: 63
Period size: 13 Copynumber: 10.0 Consensus size: 12
12773784 TAATTAATAT
*
12773794 AATATTTATATTT
1 AATA-TTATATTA
12773807 AATA-T-TATTA
1 AATATTATATTA
* *
12773817 AATATTTGTATTT
1 AATA-TTATATTA
*
12773830 AATATTAT-TAA
1 AATATTATATTA
*
12773841 TAATATTAAATATA
1 -AATATTATAT-TA
12773855 AATATTATATT-
1 AATATTATATTA
12773866 -A-ATTA-A-TA
1 AATATTATATTA
12773874 AAT-TTATAATTTA
1 AATATTAT-A-TTA
12773887 AATATTATATTA
1 AATATTATATTA
*
12773899 AATATTTTATTA
1 AATATTATATTA
12773911 TAATTCAAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 29
0.68 0.08 0.24
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 8 0.10
10 9 0.11
11 3 0.04
12 26 0.32
13 28 0.35
14 5 0.06
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (12 bp):
AATATTATATTA
Found at i:12774080 original size:2 final size:2
Alignment explanation
Indices: 12774073--12774103 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12774063 CATCTTTTAA
12774073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12774104 CAAAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12776167 original size:2 final size:2
Alignment explanation
Indices: 12776160--12776188 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12776150 AAGATTGGTT
12776160 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
12776189 TCCTTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12786447 original size:16 final size:16
Alignment explanation
Indices: 12786422--12786452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12786412 CCTGACCTTG
12786422 GTTTTGGGTTATATCA
1 GTTTTGGGTTATATCA
*
12786438 GTTTTTGGTTATATC
1 GTTTTGGGTTATATC
12786453 TATTGCTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.06, G:0.23, T:0.55
Consensus pattern (16 bp):
GTTTTGGGTTATATCA
Found at i:12787407 original size:14 final size:15
Alignment explanation
Indices: 12787388--12787417 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12787378 CATGGCCCCT
12787388 CCAAAATTT-TTTTA
1 CCAAAATTTGTTTTA
12787402 CCAAAATTTGTTTTA
1 CCAAAATTTGTTTTA
12787417 C
1 C
12787418 ATATCGTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (15 bp):
CCAAAATTTGTTTTA
Found at i:12787636 original size:59 final size:59
Alignment explanation
Indices: 12787542--12787661 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
12787532 ATGTACCGCA
* * * *
12787542 AAATGTCATATGGAGCCATCTAGTGAAAGTTTGCTGCAGCATCTCGGTAGTAAAGTTTC
1 AAATGTCATATGGAGCCATCTAATGAAAGTGTGCTGCAGCATATCAGTAGTAAAGTTTC
* *
12787601 AAATGTCATATGGTGCCATCTAATGAAGGTGTGCTGCAGCATATCAGTAGTAAAGTTTC
1 AAATGTCATATGGAGCCATCTAATGAAAGTGTGCTGCAGCATATCAGTAGTAAAGTTTC
12787660 AA
1 AA
12787662 CCTGAACTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (59 bp):
AAATGTCATATGGAGCCATCTAATGAAAGTGTGCTGCAGCATATCAGTAGTAAAGTTTC
Found at i:12788870 original size:5 final size:5
Alignment explanation
Indices: 12788856--12788888 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
12788846 AGCTGAAAGA
12788856 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AA
12788889 TATTCTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12794123 original size:11 final size:11
Alignment explanation
Indices: 12794109--12794141 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
12794099 TAATTTAATA
12794109 AAATTATATAT
1 AAATTATATAT
12794120 AAATTATATAT
1 AAATTATATAT
12794131 ATAATTATATA
1 A-AATTATATA
12794142 ATTTAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AAATTATATAT
Found at i:12794131 original size:13 final size:12
Alignment explanation
Indices: 12794086--12794141 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 12
12794076 AAATTAAAAA
12794086 ATATAATTA-A-
1 ATATAATTATAT
*
12794096 ATTTAATT-TA-
1 ATATAATTATAT
*
12794106 ATAAAATTATAT
1 ATATAATTATAT
12794118 ATA-AATTATAT
1 ATATAATTATAT
12794129 ATATAATTATAT
1 ATATAATTATAT
12794141 A
1 A
12794142 ATTTAATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 14 0.36
11 13 0.33
12 12 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATAATTATAT
Found at i:12794172 original size:15 final size:14
Alignment explanation
Indices: 12794110--12794173 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 14
12794100 AATTTAATAA
12794110 AATTATATATA---
1 AATTATATATATTT
12794121 AATTATATATA--T
1 AATTATATATATTT
12794133 AATTATATA-ATTT
1 AATTATATATATTT
* *
12794146 AATGAAATTATATTT
1 AATTATA-TATATTT
12794161 AATTCATATATAT
1 AATT-ATATATAT
12794174 AAAAAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 12 0.28
12 9 0.21
13 6 0.14
14 2 0.05
15 12 0.28
16 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
AATTATATATATTT
Found at i:12794201 original size:16 final size:16
Alignment explanation
Indices: 12794182--12794232 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
12794172 ATAAAAAATA
12794182 AAAATAATAATTATAT
1 AAAATAATAATTATAT
12794198 AAAATAATAATTA-ATT
1 AAAATAATAATTATA-T
*
12794214 TAAATAA-AA-TATAT
1 AAAATAATAATTATAT
12794228 AAAAT
1 AAAAT
12794233 TTTTATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 20 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAATAATTATAT
Found at i:12794300 original size:35 final size:36
Alignment explanation
Indices: 12794242--12794310 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
12794232 TTTTTATTTT
* *
12794242 TAATTTATATATATTTATCTTTATATATATAAATAAA
1 TAATTTATATATA-TCATATTTATATATATAAATAAA
12794279 TAATTTATATATA-CATATTTATATATATAAAT
1 TAATTTATATATATCATATTTATATATATAAAT
12794311 TTCGATCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 17 0.57
37 13 0.43
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (36 bp):
TAATTTATATATATCATATTTATATATATAAATAAA
Found at i:12805233 original size:2 final size:2
Alignment explanation
Indices: 12805228--12805259 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
12805218 CAGATTTGAT
12805228 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
12805260 CCAATGAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12805902 original size:22 final size:24
Alignment explanation
Indices: 12805850--12805902 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 24
12805840 TAATTATTTT
12805850 ATATATAAA-TTTATTTAAATATA
1 ATATATAAATTTTATTTAAATATA
12805873 ATA-A-AAATTTTA-TTAAA-ATA
1 ATATATAAATTTTATTTAAATATA
12805893 ATATATAAAT
1 ATATATAAAT
12805903 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.22
21 9 0.33
22 9 0.33
23 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATATAAATTTTATTTAAATATA
Found at i:12807305 original size:22 final size:20
Alignment explanation
Indices: 12807266--12807307 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12807256 TGAACCAAAT
*
12807266 TATATATTTTTTAATTTATA
1 TATATATTTTTAAATTTATA
*
12807286 TATATATTTTTAAATTTTTA
1 TATATATTTTTAAATTTATA
12807306 TA
1 TA
12807308 AAATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATATATTTTTAAATTTATA
Found at i:12810763 original size:55 final size:56
Alignment explanation
Indices: 12810661--12810970 Score: 190
Period size: 55 Copynumber: 5.6 Consensus size: 56
12810651 GAATAATAAC
* * * * * * * *
12810661 AATAAATAAATAACCATGAAAATAGATATATTATTAATTATACAATCACACAAATA
1 AATAAATATATAATCATGCAAATAAATATATAATTAAATATATAATCACGCAAATA
* * *
12810717 AATAAAT-TATAATCATGCAAATATATATGTAATTAAATATATAATCACGC-AATT
1 AATAAATATATAATCATGCAAATAAATATATAATTAAATATATAATCACGCAAATA
* * * * * * *
12810771 AA-CAATGTAAAAT-ATGCAATTAAATATCTAATTAAATATATAATTATGCAAAT-
1 AATAAATATATAATCATGCAAATAAATATATAATTAAATATATAATCACGCAAATA
* * * * * *
12810824 AA-AAATATATAAACCATACAAATAAACATACAATTAAATACATAATCATGCAAATA
1 AATAAATATAT-AATCATGCAAATAAATATATAATTAAATATATAATCACGCAAATA
* * * * * * *
12810880 AATATATA-ATCATGCAATTAACATATAAATCATGTAATTAAATATATAATCATGC-AATT
1 AATAAATATATAAT-C-A-T-GCAAATAAAT-ATATAATTAAATATATAATCACGCAAATA
* * *
12810939 AA-CAATATA-AATCATACAAATAAAAATATAAT
1 AATAAATATATAATCATGCAAATAAATATATAAT
12810971 CATACAATCA
Statistics
Matches: 199, Mismatches: 43, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
53 47 0.24
54 23 0.12
55 69 0.35
56 13 0.07
57 6 0.03
58 6 0.03
59 14 0.07
60 21 0.11
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (56 bp):
AATAAATATATAATCATGCAAATAAATATATAATTAAATATATAATCACGCAAATA
Found at i:12810881 original size:20 final size:20
Alignment explanation
Indices: 12810854--12811061 Score: 168
Period size: 20 Copynumber: 10.6 Consensus size: 20
12810844 AATAAACATA
*
12810854 CAATTAAATACATAATCATG
1 CAATTAAATATATAATCATG
*
12810874 CAAATAAATATATAATCATG
1 CAATTAAATATATAATCATG
12810894 CAATTAACATATA-AATCATG
1 CAATTAA-ATATATAATCATG
*
12810914 TAATTAAATATATAATCATG
1 CAATTAAATATATAATCATG
*
12810934 CAATTAACA-ATATAAATCATA
1 CAATTAA-ATATAT-AATCATG
* * *
12810955 CAAATAAAAATATAATCATA
1 CAATTAAATATATAATCATG
*
12810975 CAATCAACA-ATATAA--A--
1 CAATTAA-ATATATAATCATG
*
12810991 CCA-TACAA-ATA-AAT-ATG
1 CAATTA-AATATATAATCATG
12811008 CAATTAAATATATAATCATG
1 CAATTAAATATATAATCATG
* *
12811028 CAAATAAAAATATATAAACCATG
1 C-AAT-TAAATATAT-AATCATG
12811051 CAATTAAATAT
1 CAATTAAATAT
12811062 GCAATTAAAT
Statistics
Matches: 156, Mismatches: 15, Indels: 33
0.76 0.07 0.16
Matches are distributed among these distances:
14 2 0.01
15 6 0.04
16 3 0.02
17 4 0.03
18 6 0.04
19 8 0.05
20 77 0.49
21 32 0.21
22 11 0.07
23 7 0.04
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.29
Consensus pattern (20 bp):
CAATTAAATATATAATCATG
Found at i:12810968 original size:41 final size:41
Alignment explanation
Indices: 12810867--12811006 Score: 201
Period size: 41 Copynumber: 3.4 Consensus size: 41
12810857 TTAAATACAT
*
12810867 AATCATGCAAATAAATATATAATCATGCAATTAAC-ATATA
1 AATCATACAAATAAATATATAATCATGCAATTAACAATATA
** *
12810907 AATCATGTAATTAAATATATAATCATGCAATTAACAATATA
1 AATCATACAAATAAATATATAATCATGCAATTAACAATATA
* * *
12810948 AATCATACAAATAAAAATATAATCATACAATCAACAATATA
1 AATCATACAAATAAATATATAATCATGCAATTAACAATATA
*
12810989 AACCATACAAATAAATAT
1 AATCATACAAATAAATAT
12811007 GCAATTAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 33 0.37
41 56 0.63
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.29
Consensus pattern (41 bp):
AATCATACAAATAAATATATAATCATGCAATTAACAATATA
Found at i:12811041 original size:22 final size:23
Alignment explanation
Indices: 12811013--12811058 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
12811003 ATATGCAATT
*
12811013 AAATATAT-AATCATGCAAATAA
1 AAATATATAAACCATGCAAATAA
*
12811035 AAATATATAAACCATGCAATTAA
1 AAATATATAAACCATGCAAATAA
12811058 A
1 A
12811059 TATGCAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.26
Consensus pattern (23 bp):
AAATATATAAACCATGCAAATAA
Found at i:12811065 original size:12 final size:12
Alignment explanation
Indices: 12811048--12811073 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12811038 TATATAAACC
12811048 ATGCAATTAAAT
1 ATGCAATTAAAT
12811060 ATGCAATTAAAT
1 ATGCAATTAAAT
12811072 AT
1 AT
12811074 ATAATGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
ATGCAATTAAAT
Found at i:12811097 original size:55 final size:55
Alignment explanation
Indices: 12810940--12811088 Score: 185
Period size: 55 Copynumber: 2.7 Consensus size: 55
12810930 CATGCAATTA
* * * * *
12810940 ACAATATAAATCATACAAATAAAAATATAATCATAC-AATCAACA-ATATAAACCAT
1 ACAA-ATAAAT-ATGCAATTAAATATATAATCATACAAATAAAAATATATAAACCAT
*
12810995 ACAAATAAATATGCAATTAAATATATAATCATGCAAATAAAAATATATAAACCAT
1 ACAAATAAATATGCAATTAAATATATAATCATACAAATAAAAATATATAAACCAT
* * *
12811050 GCAATTAAATATGCAATTAAATATATAATGATACAAATA
1 ACAAATAAATATGCAATTAAATATATAATCATACAAATA
12811089 GTATTATATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
53 20 0.24
54 12 0.15
55 50 0.61
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (55 bp):
ACAAATAAATATGCAATTAAATATATAATCATACAAATAAAAATATATAAACCAT
Found at i:12811137 original size:17 final size:16
Alignment explanation
Indices: 12811099--12811144 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
12811089 GTATTATATT
12811099 AATCATG-AAAAAT-A
1 AATCATGCAAAAATAA
12811113 AA-CATGCAAAAATAA
1 AATCATGCAAAAATAA
12811128 ATATCATGCAATAAATA
1 A-ATCATGCAA-AAATA
12811145 TAAAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 4 0.15
14 8 0.30
15 2 0.07
16 1 0.04
17 7 0.26
18 5 0.19
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.22
Consensus pattern (16 bp):
AATCATGCAAAAATAA
Found at i:12811140 original size:154 final size:154
Alignment explanation
Indices: 12810830--12811133 Score: 330
Period size: 154 Copynumber: 2.0 Consensus size: 154
12810820 AAATAAAAAT
* **
12810830 ATATAAACCATACAAATAAACATACAATTAAATACATAATCATGCAAATAAATATATAATCATGC
1 ATATAAACCATACAAATAAACATACAATTAAATACATAATCATGCAAATAAAAATATAATCAAAC
* * * * *
12810895 AATTAACATATAAATCATGTAATTAAATATATAATCATGCAATTAACAATATAAATCATACAAAT
66 AATGAACATATAAATCATGCAATTAAATATATAATCATACAAATAACAATATAAATCATAAAAAT
* ** *
12810960 AAAAATATAATCATACAATCAACA
131 AAAAATACAAAAATAAAATCAACA
* * *
12810984 ATATAAACCATACAAATAAATATGCAATTAAATATATAATCATGCAAATAAAAATAT-AT-AAAC
1 ATATAAACCATACAAATAAACATACAATTAAATACATAATCATGCAAATAAAAATATAATCAAAC
* * * ** *
12811047 CATGCA-AT-TAAAT-ATGCAATTAAATATATAATGATACAAATAGTATTATATTAATCATGAAA
66 AATGAACATATAAATCATGCAATTAAATATATAATCATACAAATA--ACAATATAAATCAT-AAA
* *
12811109 AATAAACATGCAAAAATAAATATCA
128 AATAAAAATACAAAAATAAA-ATCA
12811134 TGCAATAAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
149 25 0.20
150 5 0.04
151 13 0.11
152 21 0.17
153 6 0.05
154 53 0.43
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (154 bp):
ATATAAACCATACAAATAAACATACAATTAAATACATAATCATGCAAATAAAAATATAATCAAAC
AATGAACATATAAATCATGCAATTAAATATATAATCATACAAATAACAATATAAATCATAAAAAT
AAAAATACAAAAATAAAATCAACA
Found at i:12812133 original size:42 final size:42
Alignment explanation
Indices: 12812013--12812272 Score: 251
Period size: 42 Copynumber: 6.1 Consensus size: 42
12812003 TTTTTTTTGA
* **
12812013 AAAATGCTCCCACATAACTGAAACTTTGAAACTTTTGAAAAAT
1 AAAATGCTCCC-CAAAACTGAGGCTTTGAAACTTTTGAAAAAT
**
12812056 AAAATGCTCCCCTAACAACTGAGGCTTTGGTACTTTTG-AAAAT
1 AAAATGCTCCCC-AA-AACTGAGGCTTTGAAACTTTTGAAAAAT
*
12812099 AAAATGTTCCCCTAAAACTGAGGCTTTGAAAC-TTTGAAAAAT
1 AAAATGCTCCCC-AAAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * *
12812141 AAAATGGTCCCCACAATTGAGGCTTT-AGAACTTTT-AAAATT
1 AAAATGCTCCCCAAAACTGAGGCTTTGA-AACTTTTGAAAAAT
* * **
12812182 AAAATACTACCCCATAACTGAGATTTTGAAAC-TTTGAAAAAT
1 AAAATGCT-CCCCAAAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * * *
12812224 AAAATACTCTCCCATAATTGAGGCTTTGAAAGTTTTAAAAAAT
1 AAAATGCTC-CCCAAAACTGAGGCTTTGAAACTTTTGAAAAAT
12812267 AAAATG
1 AAAATG
12812273 AGATTACTCT
Statistics
Matches: 182, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
40 1 0.01
41 34 0.19
42 83 0.46
43 46 0.25
44 18 0.10
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (42 bp):
AAAATGCTCCCCAAAACTGAGGCTTTGAAACTTTTGAAAAAT
Found at i:12812201 original size:83 final size:80
Alignment explanation
Indices: 12812025--12812263 Score: 271
Period size: 83 Copynumber: 2.9 Consensus size: 80
12812015 AATGCTCCCA
* * *
12812025 CATAACTGAAACTTTGAAACTTTTGAAAAATAAAATGCTCCCCTAACAACTGAGGCTTTGGTACT
1 CATAACTGAGACTTTGAAAC-TTTGAAAAATAAAATGCTCCCC--ACAATTGAGGCTTT-GAACT
* *
12812090 TTTGAAAATAAAATGTTCCC
62 TTT-AAAATAAAATCTACCC
* * *
12812110 CTAAAACTGAGGCTTTGAAACTTTGAAAAATAAAATGGTCCCCACAATTGAGGCTTTAGAACTTT
1 C-ATAACTGAGACTTTGAAACTTTGAAAAATAAAATGCTCCCCACAATTGAGGCTTT-GAACTTT
12812175 TAAAATTAAAATACTACCC
64 TAAAA-TAAAAT-CTACCC
* * * *
12812194 CATAACTGAGATTTTGAAACTTTGAAAAATAAAATACTCTCCCATAATTGAGGCTTTGAAAGTTT
1 CATAACTGAGACTTTGAAACTTTGAAAAATAAAATGCTC-CCCACAATTGAGGCTTTG-AACTTT
12812259 TAAAA
64 TAAAA
12812264 AATAAAATGA
Statistics
Matches: 133, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
82 4 0.03
83 60 0.45
84 31 0.23
85 22 0.17
86 16 0.12
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.31
Consensus pattern (80 bp):
CATAACTGAGACTTTGAAACTTTGAAAAATAAAATGCTCCCCACAATTGAGGCTTTGAACTTTTA
AAATAAAATCTACCC
Found at i:12814661 original size:390 final size:390
Alignment explanation
Indices: 12813942--12814721 Score: 1560
Period size: 390 Copynumber: 2.0 Consensus size: 390
12813932 CTCAAACCAA
12813942 ATCTACTTTTAAAGATTATTTATTTGAGCTTAAATGAAAGTCCAATTGTTGTTTTTAAAGTGAAC
1 ATCTACTTTTAAAGATTATTTATTTGAGCTTAAATGAAAGTCCAATTGTTGTTTTTAAAGTGAAC
12814007 TTATTCATTTTGGACTTAATACAATTTTGATAATATTGGTTTTGGGAAATAGATTAACTTAGGAA
66 TTATTCATTTTGGACTTAATACAATTTTGATAATATTGGTTTTGGGAAATAGATTAACTTAGGAA
12814072 AGTTGTTTTACAATAACAAAGTTTTCCAACATTTATTTTATTTTTCTGTATAAATTCACAAGGTT
131 AGTTGTTTTACAATAACAAAGTTTTCCAACATTTATTTTATTTTTCTGTATAAATTCACAAGGTT
12814137 TTAATATTTGAATTTTATATGGTTGGAAAGCTCTTTAAGTCTACTTTCTGATGGATTAAACAAAA
196 TTAATATTTGAATTTTATATGGTTGGAAAGCTCTTTAAGTCTACTTTCTGATGGATTAAACAAAA
12814202 TCAAAATCAAAATTTTTTAAGAAAAGATTTTGAATTTTTACTAGACACTTTGCAGTTGTAAGAAA
261 TCAAAATCAAAATTTTTTAAGAAAAGATTTTGAATTTTTACTAGACACTTTGCAGTTGTAAGAAA
12814267 AACTACACAAGGCATAATTTTGAAAATTCACTATAATTCGTACACAATGAATTAGGTGATGAACT
326 AACTACACAAGGCATAATTTTGAAAATTCACTATAATTCGTACACAATGAATTAGGTGATGAACT
12814332 ATCTACTTTTAAAGATTATTTATTTGAGCTTAAATGAAAGTCCAATTGTTGTTTTTAAAGTGAAC
1 ATCTACTTTTAAAGATTATTTATTTGAGCTTAAATGAAAGTCCAATTGTTGTTTTTAAAGTGAAC
12814397 TTATTCATTTTGGACTTAATACAATTTTGATAATATTGGTTTTGGGAAATAGATTAACTTAGGAA
66 TTATTCATTTTGGACTTAATACAATTTTGATAATATTGGTTTTGGGAAATAGATTAACTTAGGAA
12814462 AGTTGTTTTACAATAACAAAGTTTTCCAACATTTATTTTATTTTTCTGTATAAATTCACAAGGTT
131 AGTTGTTTTACAATAACAAAGTTTTCCAACATTTATTTTATTTTTCTGTATAAATTCACAAGGTT
12814527 TTAATATTTGAATTTTATATGGTTGGAAAGCTCTTTAAGTCTACTTTCTGATGGATTAAACAAAA
196 TTAATATTTGAATTTTATATGGTTGGAAAGCTCTTTAAGTCTACTTTCTGATGGATTAAACAAAA
12814592 TCAAAATCAAAATTTTTTAAGAAAAGATTTTGAATTTTTACTAGACACTTTGCAGTTGTAAGAAA
261 TCAAAATCAAAATTTTTTAAGAAAAGATTTTGAATTTTTACTAGACACTTTGCAGTTGTAAGAAA
12814657 AACTACACAAGGCATAATTTTGAAAATTCACTATAATTCGTACACAATGAATTAGGTGATGAACT
326 AACTACACAAGGCATAATTTTGAAAATTCACTATAATTCGTACACAATGAATTAGGTGATGAACT
12814722 TGATCTGGTT
Statistics
Matches: 390, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
390 390 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (390 bp):
ATCTACTTTTAAAGATTATTTATTTGAGCTTAAATGAAAGTCCAATTGTTGTTTTTAAAGTGAAC
TTATTCATTTTGGACTTAATACAATTTTGATAATATTGGTTTTGGGAAATAGATTAACTTAGGAA
AGTTGTTTTACAATAACAAAGTTTTCCAACATTTATTTTATTTTTCTGTATAAATTCACAAGGTT
TTAATATTTGAATTTTATATGGTTGGAAAGCTCTTTAAGTCTACTTTCTGATGGATTAAACAAAA
TCAAAATCAAAATTTTTTAAGAAAAGATTTTGAATTTTTACTAGACACTTTGCAGTTGTAAGAAA
AACTACACAAGGCATAATTTTGAAAATTCACTATAATTCGTACACAATGAATTAGGTGATGAACT
Found at i:12818431 original size:56 final size:57
Alignment explanation
Indices: 12818264--12818431 Score: 243
Period size: 56 Copynumber: 2.9 Consensus size: 57
12818254 AAATTTATTT
12818264 ATTT-TTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAA
1 ATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAA
* ***
12818321 ATTTTGATCTTTAAGGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTT-GAA
1 A-TTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTGGAA
12818379 ATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 ATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
12818432 TTGGAATTTT
Statistics
Matches: 98, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
56 41 0.42
57 7 0.07
58 7 0.07
59 8 0.08
60 35 0.36
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (57 bp):
ATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAA
Found at i:12818470 original size:11 final size:11
Alignment explanation
Indices: 12818456--12818567 Score: 50
Period size: 12 Copynumber: 9.3 Consensus size: 11
12818446 TTTTATAATA
12818456 AAAAAATAAAT
1 AAAAAATAAAT
12818467 -AAAAATAAAT
1 AAAAAATAAAT
12818477 AAAGAAAAGTAAA-
1 -AA-AAAA-TAAAT
12818490 ACAAAAATAAA-
1 A-AAAAATAAAT
*
12818501 AATAAAATAAAG
1 AA-AAAATAAAT
*
12818513 ATAAAAAGAATATT
1 A-AAAAATAA-A-T
*
12818527 AAATAAACCTAATCT
1 AAA-AAA--TAA-AT
*
12818542 AATAAATAAAT
1 AAAAAATAAAT
12818553 AAATAAATAAAT
1 AAA-AAATAAAT
12818565 AAA
1 AAA
12818568 TTTAAAAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 27
0.70 0.06 0.24
Matches are distributed among these distances:
10 11 0.14
11 16 0.20
12 27 0.34
13 9 0.11
14 11 0.14
15 3 0.04
16 3 0.04
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:12818474 original size:6 final size:6
Alignment explanation
Indices: 12818452--12818519 Score: 54
Period size: 6 Copynumber: 11.3 Consensus size: 6
12818442 TGATTTTTAT
*
12818452 AATAAA AA-AATA AATAAA AATAAA TAA-AGAA AAGT-AA AACAAA AATAAA
1 AATAAA AATAA-A AATAAA AATAAA -AATA-AA AA-TAAA AATAAA AATAAA
*
12818501 AAT-AA AATAAA GATAAA AA
1 AATAAA AATAAA AATAAA AA
12818520 GAATATTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
5 7 0.14
6 37 0.74
7 6 0.12
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:12818549 original size:4 final size:4
Alignment explanation
Indices: 12818542--12818568 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
12818532 AACCTAATCT
12818542 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
12818569 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:12819043 original size:19 final size:19
Alignment explanation
Indices: 12819019--12819056 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12819009 ATTTGGCCAG
*
12819019 AATCCTTGTCGAAAAATTC
1 AATCCTTGCCGAAAAATTC
*
12819038 AATCCTTGCCGGAAAATTC
1 AATCCTTGCCGAAAAATTC
12819057 GTCGGAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (19 bp):
AATCCTTGCCGAAAAATTC
Found at i:12819424 original size:21 final size:22
Alignment explanation
Indices: 12819400--12819444 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
12819390 AAAACTAGAT
12819400 AATTA-GAAAAGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
* *
12819421 AATTATTATAAGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
12819443 AA
1 AA
12819445 ATAATATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (22 bp):
AATTATGAAAAGATAAATAAAA
Found at i:12819434 original size:22 final size:22
Alignment explanation
Indices: 12819408--12819462 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
12819398 ATAATTAGAA
* *
12819408 AAGATAAATAAAAAATTATTAT
1 AAGATAAATAAAAAAATAATAT
12819430 AAGATAAATAAAAAAATAATAT
1 AAGATAAATAAAAAAATAATAT
* *
12819452 CAGATATATAA
1 AAGATAAATAA
12819463 TTAGATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
AAGATAAATAAAAAAATAATAT
Found at i:12819488 original size:26 final size:29
Alignment explanation
Indices: 12819472--12819599 Score: 74
Period size: 28 Copynumber: 4.5 Consensus size: 29
12819462 ATTAGATAAA
*
12819472 TAAAA-ATACAAA-AATAAATAAATAAAA
1 TAAAAGATAAAAATAATAAATAAATAAAA
*
12819499 TAAAAGATAAAAATAAT-AA-AAATATATA
1 TAAAAGATAAAAATAATAAATAAATA-AAA
** *
12819527 TATTAG-TAATAATACATAAAT-AATAAAA
1 TAAAAGATAAAAATA-ATAAATAAATAAAA
* * *
12819555 TACATAGGATATACATAA-AATATAAAATAAAA
1 TA-A-AAGATAAAAATAATAA-AT-AAATAAAA
12819587 TAAAA-ATAAAAAT
1 TAAAAGATAAAAAT
12819600 GACAAAGATA
Statistics
Matches: 74, Mismatches: 15, Indels: 22
0.67 0.14 0.20
Matches are distributed among these distances:
27 17 0.23
28 20 0.27
29 17 0.23
30 5 0.07
31 6 0.08
32 9 0.12
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (29 bp):
TAAAAGATAAAAATAATAAATAAATAAAA
Found at i:12819492 original size:22 final size:21
Alignment explanation
Indices: 12819467--12819522 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
12819457 ATATAATTAG
12819467 ATAAATAAAAATACAAAAATAA
1 ATAAATAAAAATA-AAAAATAA
*
12819489 ATAAAT-AAAATAAAAGATAA
1 ATAAATAAAAATAAAAAATAA
*
12819509 AAATAATAAAAATA
1 ATA-AATAAAAATA
12819523 TATATATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.30
21 9 0.30
22 12 0.40
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
ATAAATAAAAATAAAAAATAA
Found at i:12819521 original size:27 final size:27
Alignment explanation
Indices: 12819481--12819613 Score: 76
Period size: 26 Copynumber: 4.7 Consensus size: 27
12819471 ATAAAAATAC
*
12819481 AAAAATAA-ATAAATAAAATAAAAGAT
1 AAAAATAATAAAAATAAAATAAAAGAT
* **
12819507 AAAAATAATAAAAATATATATATTAG-T
1 AAAAATAATAAAAATA-AAATAAAAGAT
* *
12819534 AATAATACATAAATAATAAAATACATAGGAT
1 AAAAATA-ATAAA-AATAAAATA-A-AAGAT
12819565 ATACATAA-AATATAAAATAAAATAAAA-AT
1 A-A-A-AATAATA-AAAATAAAATAAAAGAT
* * *
12819594 AAAAATGACAAAGATAAAAT
1 AAAAATAATAAAAATAAAAT
12819614 TGAACCTACC
Statistics
Matches: 81, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
26 19 0.23
27 16 0.20
28 16 0.20
29 7 0.09
30 2 0.02
31 3 0.04
32 13 0.16
33 3 0.04
34 2 0.02
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (27 bp):
AAAAATAATAAAAATAAAATAAAAGAT
Found at i:12819599 original size:12 final size:12
Alignment explanation
Indices: 12819569--12819597 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
12819559 TAGGATATAC
12819569 ATAAAATATAAA
1 ATAAAATATAAA
12819581 ATAAAATA-AAA
1 ATAAAATATAAA
12819592 ATAAAA
1 ATAAAA
12819598 ATGACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:12819765 original size:1 final size:1
Alignment explanation
Indices: 12819759--12819868 Score: 85
Period size: 1 Copynumber: 110.0 Consensus size: 1
12819749 CAACATTGTC
* ** ** * * * * *
12819759 TTTTTTTTTTGTTTTTTAATTTTTTTGCTTTTTTTTGTGTTGTTTTTTTTTTGTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
12819824 GTTTTTGTTTTTTGTTTTTTTGTTTTGTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12819869 ACCAAAGCTC
Statistics
Matches: 82, Mismatches: 27, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.02, C:0.01, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:12819775 original size:13 final size:13
Alignment explanation
Indices: 12819754--12819868 Score: 126
Period size: 13 Copynumber: 8.7 Consensus size: 13
12819744 CAACTCAACA
*
12819754 TTGTCTTTTTTTT
1 TTGTTTTTTTTTT
12819767 TTGTTTTTTAATTTT
1 TTGTTTTTT--TTTT
*
12819782 TT-TGCTTTTTTTT
1 TTGT-TTTTTTTTT
*
12819795 GTGTTGTTTTTTTT
1 TTGTT-TTTTTTTT
*
12819809 TTGTTTTTGTTTT
1 TTGTTTTTTTTTT
*
12819822 TTGTTTTTGTTTT
1 TTGTTTTTTTTTT
*
12819835 TTGTTTTTTTGTT
1 TTGTTTTTTTTTT
12819848 TTGTTTTTTTTTT
1 TTGTTTTTTTTTT
12819861 TT-TTTTTT
1 TTGTTTTTT
12819869 ACCAAAGCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
12 6 0.07
13 58 0.66
14 14 0.16
15 10 0.11
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (13 bp):
TTGTTTTTTTTTT
Found at i:12819784 original size:20 final size:18
Alignment explanation
Indices: 12819759--12819867 Score: 112
Period size: 19 Copynumber: 5.6 Consensus size: 18
12819749 CAACATTGTC
12819759 TTTTTTTTTTGTTTTTTAAT
1 TTTTTTTTTTGTTTTTT--T
12819779 TTTTTTGCTTTT-TTTTGTGTT
1 TTTTTT--TTTTGTTTT-T-TT
12819800 GTTTTTTTTTTGTTTTTGTT
1 -TTTTTTTTTTGTTTTT-TT
*
12819820 TTTTGTTTTTGTTTTTTGT
1 TTTTTTTTTTGTTTTTT-T
12819839 TTTTTTGTTTTGTTTTTTT
1 TTTTTT-TTTTGTTTTTTT
12819858 TTTTTTTTTT
1 TTTTTTTTTT
12819868 TACCAAAGCT
Statistics
Matches: 79, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
18 5 0.06
19 28 0.35
20 25 0.32
21 9 0.11
22 11 0.14
23 1 0.01
ACGTcount: A:0.02, C:0.01, G:0.11, T:0.86
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTTTT
Found at i:12820007 original size:42 final size:42
Alignment explanation
Indices: 12819899--12820011 Score: 194
Period size: 41 Copynumber: 2.7 Consensus size: 42
12819889 AGGCTCAATA
12819899 ACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACCACG
1 ACTTTGA-AAA-AGTAAATTGCTCCTCTAAACAGAGGCACCACG
12819942 ACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
12819983 ACTTTGAAAAAGTAAATTGCTCCTCTAAA
1 ACTTTGAAAAAGTAAATTGCTCCTCTAAA
12820012 ATTGCTCCTC
Statistics
Matches: 68, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
40 1 0.01
41 39 0.57
42 22 0.32
43 6 0.09
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (42 bp):
ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
Found at i:12820015 original size:14 final size:14
Alignment explanation
Indices: 12819996--12820025 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12819986 TTGAAAAAGT
12819996 AAATTGCTCCTCTA
1 AAATTGCTCCTCTA
12820010 AAATTGCTCCTCTA
1 AAATTGCTCCTCTA
12820024 AA
1 AA
12820026 CAGAGGCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (14 bp):
AAATTGCTCCTCTA
Found at i:12820021 original size:56 final size:56
Alignment explanation
Indices: 12819954--12820067 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
12819944 TTTGAAAAGT
12819954 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTA
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTA
*
12820010 AAATTGCTCCTCTAAACAGAGGCACCATGACTTTGAAAAAGTAAATTGCTCCTCTA
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTA
12820066 AA
1 AA
12820068 CAGAGGCACC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (56 bp):
AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTA
Found at i:12820069 original size:42 final size:42
Alignment explanation
Indices: 12820010--12820270 Score: 418
Period size: 42 Copynumber: 6.2 Consensus size: 42
12820000 TGCTCCTCTA
*
12820010 AAATTGCTCCTCTAAACAGAGGCACCATGACTTTGAAAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGT
*
12820052 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGT
12820093 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGT
* * *
12820135 AAATTGCTCCTCTAAACAGAGGTACCACAACTTTGGAAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGT
* *
12820177 AAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAGT
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGT
*
12820219 AAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAA-T
1 AAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAAGT
*
12820261 AAATTACTCC
1 AAATTGCTCC
12820271 CTGACAATCA
Statistics
Matches: 206, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
41 40 0.19
42 161 0.78
43 5 0.02
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (42 bp):
AAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGT
Found at i:12820126 original size:139 final size:135
Alignment explanation
Indices: 12819875--12820270 Score: 535
Period size: 139 Copynumber: 3.0 Consensus size: 135
12819865 TTTTACCAAA
** * *
12819875 GCTCCTCTACGCAGAGGCTCAATAACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCATAACTTTGA-AAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
*
12819939 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCT
64 ACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATTGCT
12820004 CCTCTAAAATT
128 -C-CT-AAATT
*
12820015 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCATAACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
12820080 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG---AA-AAA--G----T
66 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCT
12820135 AAATT
131 AAATT
* * *
12820140 GCTCCTCTAAACAGAGGTACCACAACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCATAACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
12820205 AACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTACTC
66 GACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGCTC
12820270 C
129 C
12820271 CTGACAATCA
Statistics
Matches: 230, Mismatches: 13, Indels: 29
0.85 0.05 0.11
Matches are distributed among these distances:
125 73 0.32
126 39 0.17
127 1 0.00
130 2 0.01
131 3 0.01
132 1 0.00
134 3 0.01
136 2 0.01
138 1 0.00
139 79 0.34
140 26 0.11
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (135 bp):
GCTCCTCTAAACAGAGGCACCATAACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCT
AAATT
Found at i:12821470 original size:18 final size:18
Alignment explanation
Indices: 12821449--12821485 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
12821439 CCAAAATCTC
12821449 TTTTTTTTCATTTTTTCA
1 TTTTTTTTCATTTTTTCA
*
12821467 TTTTTTTTCTTTTTTTCA
1 TTTTTTTTCATTTTTTCA
12821485 T
1 T
12821486 CATCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCATTTTTTCA
Found at i:12821488 original size:21 final size:19
Alignment explanation
Indices: 12821449--12821511 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 19
12821439 CCAAAATCTC
*
12821449 TTTTTTTTC-ATTTTTTCA
1 TTTTTTTTCTTTTTTTTCA
12821467 TTTTTTTTCTTTTTTTCATCA
1 TTTTTTTTCTTTTTTT--TCA
* **
12821488 TCTTTTTTCTTTTTGCTCA
1 TTTTTTTTCTTTTTTTTCA
12821507 TTTTT
1 TTTTT
12821512 CATCCATTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
18 9 0.24
19 12 0.32
21 16 0.43
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTTCA
Found at i:12821511 original size:18 final size:18
Alignment explanation
Indices: 12821445--12821511 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
12821435 TCTACCAAAA
*
12821445 TCTCTTTTTTTTCATTTT
1 TCTCATTTTTTTCATTTT
*
12821463 T-TCATTTTTTTTCTTTTTT
1 TCTCA-TTTTTTTC-ATTTT
12821482 TCATCATCTTTTTTC-TTTT
1 TC-TCAT-TTTTTTCATTTT
12821501 TGCTCATTTTT
1 T-CTCATTTTT
12821512 CATCCATTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
17 2 0.05
18 13 0.32
19 14 0.34
20 2 0.05
21 10 0.24
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.75
Consensus pattern (18 bp):
TCTCATTTTTTTCATTTT
Found at i:12825276 original size:13 final size:14
Alignment explanation
Indices: 12825258--12825286 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12825248 TCGTCGGATT
12825258 AATT-AAAAAATCA
1 AATTAAAAAAATCA
12825271 AATTAAAAAAATCA
1 AATTAAAAAAATCA
12825285 AA
1 AA
12825287 ATAGAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AATTAAAAAAATCA
Found at i:12825451 original size:60 final size:59
Alignment explanation
Indices: 12825323--12825612 Score: 352
Period size: 60 Copynumber: 4.7 Consensus size: 59
12825313 TTTTGTGTAG
*
12825323 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA--TTTTTTGGAAATTTCGATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGAAAATTT-GATTTTTAA
* *
12825382 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTTGAAAATTT-ATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAT-ATTTTTTTTGAAAATTTGATTTTTAA
*
12825442 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTATTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTGAAAA--T-TTGA----TTTTT
12825507 AA
58 AA
* * * *
12825509 GGAAAATTGATATTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATCTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTGAAAATTTGATTTTTAA
*
12825569 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTG
12825613 GAATTTTTTA
Statistics
Matches: 204, Mismatches: 13, Indels: 27
0.84 0.05 0.11
Matches are distributed among these distances:
58 6 0.03
59 40 0.20
60 85 0.42
61 3 0.01
62 15 0.07
63 1 0.00
64 3 0.01
65 1 0.00
66 3 0.01
67 47 0.23
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGAAAATTTGATTTTTAA
Found at i:12825510 original size:67 final size:65
Alignment explanation
Indices: 12825430--12825627 Score: 262
Period size: 67 Copynumber: 3.1 Consensus size: 65
12825420 TTTTTTGAAA
* * *
12825430 ATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTAT
1 ATTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG-AAATTT-T
12825495 TT
64 TT
* * *
12825497 ATTTTTTTTTAAGGAAAATTGATATTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-TTTTG
1 ATTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTTT
* * *
12825561 A----TCTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTTT
1 ATTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTTT
12825622 ATTTTT
1 ATTTTT
12825628 ATAATAAAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
60 49 0.43
61 5 0.04
64 3 0.03
65 3 0.03
66 3 0.03
67 51 0.45
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (65 bp):
ATTTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTTT
Found at i:12825541 original size:127 final size:125
Alignment explanation
Indices: 12825323--12825627 Score: 403
Period size: 127 Copynumber: 2.5 Consensus size: 125
12825313 TTTTGTGTAG
* * **
12825323 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTGGAAA-TTTCGA----TTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTTTATTTTTTTTTAA
* *
12825382 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTTGAAAATTT-AT-TTCTAA
66 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTGGAAAATTTGATCTT-TAA
12825442 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTATTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTT-TTTATTTTTTTTT
* *
12825507 AAGGAAAATTGATATTTTCAACTTTTCC-CTAAAAATATTTTTTTGGAAATTTTGATCTTTAA
64 AAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGGAAAATTTGATCTTTAA
* * *
12825569 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTTTATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTTTATTTTT
12825628 ATAATAAAAA
Statistics
Matches: 164, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
119 34 0.21
120 7 0.04
121 3 0.02
122 2 0.01
123 2 0.01
125 9 0.05
126 20 0.12
127 85 0.52
128 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (125 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTTTATTTTTTTTTAA
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAAATTTGATCTTTAA
Found at i:12825618 original size:60 final size:60
Alignment explanation
Indices: 12825502--12825628 Score: 193
Period size: 60 Copynumber: 2.1 Consensus size: 60
12825492 TATTTATTTT
*
12825502 TTTTTAAGGAAAATTGATATTTTCAACTTTTCCCTAAAAATA-TTTTTTTGGAAATTTTGA
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGG-AATTTTGA
* * *
12825562 TCTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTTTA
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAA-TTTTGA
12825623 TTTTTA
1 TTTTTA
12825629 TAATAAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
60 41 0.68
61 19 0.32
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.50
Consensus pattern (60 bp):
TTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTGA
Found at i:12826315 original size:26 final size:25
Alignment explanation
Indices: 12826279--12826327 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
12826269 GGAAATTTCT
*
12826279 CAAAAATTTCTAGAAAATTTTTTCGC
1 CAAAAACTTCTA-AAAATTTTTTCGC
12826305 CAAAAACTTCTAAAAATTTTTTC
1 CAAAAACTTCTAAAAATTTTTTC
12826328 TCACTCCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (25 bp):
CAAAAACTTCTAAAAATTTTTTCGC
Found at i:12826627 original size:21 final size:22
Alignment explanation
Indices: 12826603--12826647 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
12826593 AAAACTAGAT
12826603 AATTA-GAAAAGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
* * *
12826624 AATTATTATAGGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
12826646 AA
1 AA
12826648 ATAATATCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (22 bp):
AATTATGAAAAGATAAATAAAA
Found at i:12826660 original size:22 final size:21
Alignment explanation
Indices: 12826612--12826665 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
12826602 TAATTAGAAA
* *
12826612 AGATAAATAAAAAATTATTAT
1 AGATAAATAAAAAAATAATAT
12826633 AGGATAAATAAAAAAATAATAT
1 A-GATAAATAAAAAAATAATAT
*
12826655 CAGATATATAA
1 -AGATAAATAA
12826666 TTAGATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (21 bp):
AGATAAATAAAAAAATAATAT
Found at i:12826690 original size:13 final size:13
Alignment explanation
Indices: 12826672--12826720 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
12826662 ATAATTAGAT
*
12826672 AAATAAAAATACA
1 AAATAAAAATAAA
*
12826685 AAATAAATAA-ATA
1 AAATAAA-AATAAA
12826698 AAATAAAAGATAAA
1 AAATAAAA-ATAAA
12826712 AAATAAAAA
1 AAATAAAAA
12826721 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 1 0.03
13 18 0.58
14 12 0.39
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:12826701 original size:26 final size:26
Alignment explanation
Indices: 12826672--12826723 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
12826662 ATAATTAGAT
*
12826672 AAATAAAA-ATACAAAATAAATAAATA
1 AAATAAAAGATAAAAAATAAA-AAATA
12826698 AAATAAAAGATAAAAAATAAAAAATA
1 AAATAAAAGATAAAAAATAAAAAATA
12826724 TATATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (26 bp):
AAATAAAAGATAAAAAATAAAAAATA
Found at i:12826720 original size:20 final size:21
Alignment explanation
Indices: 12826670--12826720 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
12826660 ATATAATTAG
12826670 ATAAATAAAAATACAAAATAA
1 ATAAATAAAAATACAAAATAA
12826691 ATAAAT-AAAATA-AAAGATAA
1 ATAAATAAAAATACAAA-ATAA
12826711 A-AAATAAAAA
1 ATAAATAAAAA
12826721 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.25
20 15 0.54
21 6 0.21
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (21 bp):
ATAAATAAAAATACAAAATAA
Found at i:12826721 original size:7 final size:7
Alignment explanation
Indices: 12826672--12826723 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
12826662 ATAATTAGAT
12826672 AAAT-AA
1 AAATAAA
*
12826678 AAATACA
1 AAATAAA
12826685 AAATAAA
1 AAATAAA
12826692 TAAAT--A
1 -AAATAAA
12826698 AAATAAA
1 AAATAAA
*
12826705 AGATAAA
1 AAATAAA
12826712 AAATAAA
1 AAATAAA
12826719 AAATA
1 AAATA
12826724 TATATATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
5 4 0.11
6 5 0.13
7 25 0.66
8 4 0.11
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:12826792 original size:6 final size:6
Alignment explanation
Indices: 12826774--12826803 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
12826764 GGATATACAT
12826774 AAAATA TAAAATA AAAATA AAAATA AAAAT
1 AAAATA -AAAATA AAAATA AAAATA AAAAT
12826804 GACAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:12830687 original size:12 final size:12
Alignment explanation
Indices: 12830672--12830697 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12830662 ATTAAATCAT
12830672 ATCATGCAATAA
1 ATCATGCAATAA
12830684 ATCATGCAATAA
1 ATCATGCAATAA
12830696 AT
1 AT
12830698 ATAAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (12 bp):
ATCATGCAATAA
Found at i:12830687 original size:36 final size:36
Alignment explanation
Indices: 12830647--12830738 Score: 123
Period size: 36 Copynumber: 2.5 Consensus size: 36
12830637 AATGTCAAGC
* * *
12830647 AATCATGCAATATATATTAAATCATATCATGCAATA
1 AATCATGCAATATATATAAAATCATACCATGCAAAA
*
12830683 AATCATGCAATAAATATAAAATCATACCATGCAAAA
1 AATCATGCAATATATATAAAATCATACCATGCAAAA
12830719 ATTATCATGCAATA-ATATAA
1 A--ATCATGCAATATATATAA
12830739 TACCATAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 33 0.66
37 6 0.12
38 11 0.22
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.29
Consensus pattern (36 bp):
AATCATGCAATATATATAAAATCATACCATGCAAAA
Found at i:12830774 original size:18 final size:18
Alignment explanation
Indices: 12830745--12830791 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
12830735 ATAATACCAT
*
12830745 AAATATATTCATGCAAAT-
1 AAATATAATCATGC-AATC
*
12830763 ATATATAATCATGCAATC
1 AAATATAATCATGCAATC
12830781 AAATATAATCA
1 AAATATAATCA
12830792 CATAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (18 bp):
AAATATAATCATGCAATC
Found at i:12831132 original size:18 final size:18
Alignment explanation
Indices: 12831103--12831183 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 18
12831093 TAAACCATGC
12831103 AAATA-AAT-ATGCAATT
1 AAATATAATCATGCAATT
*
12831119 AAATATAATCATGCAAATA
1 AAATATAATCATGC-AATT
*
12831138 AATATATAATCATGTAATT
1 AA-ATATAATCATGCAATT
* *
12831157 AACAATATAAATTATGCAAAT
1 -A-AATAT-AATCATGCAATT
12831178 AAATAT
1 AAATAT
12831184 GCAATTAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 5 0.10
17 3 0.06
18 4 0.08
19 13 0.25
20 17 0.33
21 10 0.19
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (18 bp):
AAATATAATCATGCAATT
Found at i:12831146 original size:20 final size:20
Alignment explanation
Indices: 12831121--12831183 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
12831111 ATGCAATTAA
12831121 ATATAATCATGCAAATAAAT
1 ATATAATCATGCAAATAAAT
* *
12831141 ATATAATCATGTAATTAACA-
1 ATATAATCATGCAAATAA-AT
*
12831161 ATATAAATTATGCAAATAAAT
1 ATAT-AATCATGCAAATAAAT
12831182 AT
1 AT
12831184 GCAATTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATAATCATGCAAATAAAT
Found at i:12831178 original size:55 final size:55
Alignment explanation
Indices: 12831119--12831251 Score: 157
Period size: 55 Copynumber: 2.4 Consensus size: 55
12831109 ATATGCAATT
*
12831119 AAATATAATCATGCAAATAAATATATAATCATG-TAATTA-ACAATATAAATTATGC
1 AAATA-AATCATGCAAATAAATATATAATCATGCTAA-TAGACAATATAAATCATGC
* ** *
12831174 AAATAAAT-ATGCAATTAAATATATAATCATGCTAATAGTATTATATTAATCATGC
1 AAATAAATCATGCAAATAAATATATAATCATGCTAATAG-ACAATATAAATCATGC
12831229 AAATAAA-CATGCAAAATAAATAT
1 AAATAAATCATGC-AAATAAATAT
12831252 CATGCAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
53 24 0.36
54 6 0.09
55 28 0.42
56 9 0.13
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (55 bp):
AAATAAATCATGCAAATAAATATATAATCATGCTAATAGACAATATAAATCATGC
Found at i:12833009 original size:25 final size:25
Alignment explanation
Indices: 12832978--12833034 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
12832968 AAATAATAAT
12832978 AAAAATTATTATAACTACAATT-AA
1 AAAAATTATTATAACTACAATTGAA
* * *
12833002 AAGAAATTATTGTAATTACGATTGAA
1 AA-AAATTATTATAACTACAATTGAA
12833028 AAAAATT
1 AAAAATT
12833035 TAATAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 22 0.79
26 4 0.14
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.33
Consensus pattern (25 bp):
AAAAATTATTATAACTACAATTGAA
Found at i:12833060 original size:26 final size:27
Alignment explanation
Indices: 12833031--12833082 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
12833021 GATTGAAAAA
*
12833031 AATTTAATAAAAATTTATA-TTAAATG
1 AATTTAATAAAAATTAATATTTAAATG
* *
12833057 AATTTTATTAAAATTAATATTTAAAT
1 AATTTAATAAAAATTAATATTTAAAT
12833083 TTAACTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
AATTTAATAAAAATTAATATTTAAATG
Found at i:12836461 original size:2 final size:2
Alignment explanation
Indices: 12836450--12836484 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
12836440 AATATTAACT
12836450 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12836485 ATTGTCAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:12838896 original size:43 final size:43
Alignment explanation
Indices: 12838831--12838912 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
12838821 AGCACAAACA
* * *
12838831 CTGCTAAATTTAGCGGCGTTTTTTGATACAAACGTCATTTACG
1 CTGCTAAATTTAGCGACATTTTTTGATACAAACGCCATTTACG
* *
12838874 CTGCTAAATTTAGCGACATTTTTTTATTCAAACGCCATT
1 CTGCTAAATTTAGCGACATTTTTTGATACAAACGCCATT
12838913 AAATTTAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (43 bp):
CTGCTAAATTTAGCGACATTTTTTGATACAAACGCCATTTACG
Found at i:12843209 original size:61 final size:62
Alignment explanation
Indices: 12842999--12843211 Score: 213
Period size: 62 Copynumber: 3.5 Consensus size: 62
12842989 TACAAAAAAA
* * ** *
12842999 ATTATTGAAGGCGTTTCAGGCAAAAAATATATTCAATAA-TCTTCTTAAATTTTTTA-AAGGGG
1 ATTATTGAAAGCGTTTCAGACAAAAAATACCTTCAATAATTC-TCTTCAATTTTTTATAA-GGG
* * * * *
12843061 ATTATTGAATGTGTTTTATG-CAAAAAATACCTTCAATAATCCCCTTC-ATTTTTTATGAAGGG
1 ATTATTGAAAGCGTTTCA-GACAAAAAATACCTTCAATAATTCTCTTCAATTTTTTAT-AAGGG
* ** *
12843123 ATTATT-AAATG-ATTTTTGATAAAAAATACCTTCAATAATTCTCTTCAATTTTTTATAAGGG
1 ATTATTGAAA-GCGTTTCAGACAAAAAATACCTTCAATAATTCTCTTCAATTTTTTATAAGGG
12843184 ATTATTGAAAGCGTTTCAGACAAAAAAT
1 ATTATTGAAAGCGTTTCAGACAAAAAAT
12843212 GCATTGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
60 1 0.01
61 50 0.40
62 69 0.56
63 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (62 bp):
ATTATTGAAAGCGTTTCAGACAAAAAATACCTTCAATAATTCTCTTCAATTTTTTATAAGGG
Found at i:12844974 original size:16 final size:16
Alignment explanation
Indices: 12844937--12844971 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12844927 ATGTTACTTT
*
12844937 ATTAAAAAAAGTTATA
1 ATTAAAAAAAATTATA
12844953 ATTAAAAAAATATTATA
1 ATTAAAAAAA-ATTATA
12844970 AT
1 AT
12844972 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTAAAAAAAATTATA
Found at i:12849369 original size:5 final size:5
Alignment explanation
Indices: 12849361--12849390 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
12849351 AAATGTTCCA
12849361 TATAT TATAT TATAT TATAT T-TAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
12849391 TAAGAGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:12849387 original size:9 final size:9
Alignment explanation
Indices: 12849363--12849392 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
12849353 ATGTTCCATA
12849363 TATTATATT
1 TATTATATT
12849372 ATATTATATT
1 -TATTATATT
12849382 TATTATATT
1 TATTATATT
12849391 TA
1 TA
12849393 AGAGACCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTATATT
Found at i:12851072 original size:2 final size:2
Alignment explanation
Indices: 12851065--12851098 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
12851055 AATTATGGCC
12851065 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
12851099 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:12853490 original size:21 final size:20
Alignment explanation
Indices: 12853466--12853515 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
12853456 ACCGAAATTT
* *
12853466 AAAAAATTTCCAAAAATTTCC
1 AAAAAATTTACAAAAATCT-C
* *
12853487 AAAAATTTTAGAAAAATCTC
1 AAAAAATTTACAAAAATCTC
12853507 AAAAAATTT
1 AAAAAATTT
12853516 GTTGCTACCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAAATTTACAAAAATCTC
Found at i:12853511 original size:10 final size:10
Alignment explanation
Indices: 12853460--12853515 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
12853450 AAACTCACCG
12853460 AAATTT-AAA
1 AAATTTCAAA
*
12853469 AAATTTCCAA
1 AAATTTCAAA
*
12853479 AAATTTCCAA
1 AAATTTCAAA
*
12853489 AAATTTTAGAA
1 AAATTTCA-AA
*
12853500 AAATCTCAAA
1 AAATTTCAAA
12853510 AAATTT
1 AAATTT
12853516 GTTGCTACCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
9 6 0.15
10 25 0.64
11 8 0.21
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (10 bp):
AAATTTCAAA
Found at i:12858189 original size:40 final size:40
Alignment explanation
Indices: 12858145--12858235 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 40
12858135 TATCTGTTAA
*
12858145 TTTTATCTGATTCTTTT-TTATTATCTGATTATTATT-TTTT
1 TTTTATCTGATTCTTTTCTAATTATCT-ATTATT-TTATTTT
12858185 TTTTATCCT-A-TCTTTTCTAATTATCTATTATTTTATTTT
1 TTTTAT-CTGATTCTTTTCTAATTATCTATTATTTTATTTT
*
12858224 TTTTATTTGATT
1 TTTTATCTGATT
12858236 TTGAAGGGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
38 3 0.07
39 23 0.52
40 16 0.36
41 2 0.05
ACGTcount: A:0.19, C:0.09, G:0.03, T:0.69
Consensus pattern (40 bp):
TTTTATCTGATTCTTTTCTAATTATCTATTATTTTATTTT
Found at i:12860080 original size:17 final size:17
Alignment explanation
Indices: 12860060--12860128 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
12860050 ATTTAATATT
12860060 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
12860077 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
* *
12860094 -CTTT-TCTTTATTTTT
1 TTTTTATCTTTATTTTA
*
12860109 TATTTTA-ATTTATTTT-
1 T-TTTTATCTTTATTTTA
12860125 TTTT
1 TTTT
12860129 ATTATTCTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
15 11 0.27
16 4 0.10
17 26 0.63
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:12860086 original size:22 final size:22
Alignment explanation
Indices: 12860061--12860141 Score: 51
Period size: 22 Copynumber: 3.6 Consensus size: 22
12860051 TTTAATATTT
12860061 TTTTATCTTTATTTTATTTT-TA
1 TTTTAT-TTTATTTTATTTTATA
* * *
12860083 TTTTTGTTTTACTTTT-CTTTATT
1 -TTTTATTTTA-TTTTATTTTATA
* *
12860106 TTTTATTTTAATTTATTTT-TT
1 TTTTATTTTATTTTATTTTATA
*
12860127 TTATTATTCTATTTT
1 TT-TTATTTTATTTT
12860142 CTTTAAATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
21 7 0.15
22 29 0.63
23 10 0.22
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (22 bp):
TTTTATTTTATTTTATTTTATA
Found at i:12860120 original size:27 final size:26
Alignment explanation
Indices: 12860073--12860141 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
12860063 TTATCTTTAT
**
12860073 TTTA-TTTTTATTTTTGTTTTACTTTTC
1 TTTATTTTTTA-TTTTAATTTA-TTTTC
*
12860100 TTTATTTTTTATTTTAATTTATTTTT
1 TTTATTTTTTATTTTAATTTATTTTC
*
12860126 TTTATTATTCTATTTT
1 TTTATT-TTTTATTTT
12860142 CTTTAAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.28
27 20 0.56
28 6 0.17
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTATTTTTTATTTTAATTTATTTTC
Found at i:12860139 original size:17 final size:17
Alignment explanation
Indices: 12860100--12860146 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
12860090 TTTACTTTTC
12860100 TTTATTTTTTATT-TTAA
1 TTTATTTTTT-TTATTAA
12860117 TTTATTTTTTTTATT-A
1 TTTATTTTTTTTATTAA
*
12860133 TTCTATTTTCTTTA
1 TT-TATTTTTTTTA
12860147 AATGAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTTTTATTAA
Found at i:12860455 original size:177 final size:177
Alignment explanation
Indices: 12860158--12860565 Score: 590
Period size: 177 Copynumber: 2.3 Consensus size: 177
12860148 ATGAAAATCA
* * *
12860158 AAATTTTCAAAAAAAAATATTCTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTAGAAATAAATT
1 AAATTTTC--AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATT
***
12860223 TTCAAAAAGGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTTGA
64 TTCAAAAAGGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAA
*
12860288 AAA-ATAT-TTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
129 AAATATATATTTTAGAGGAAAAGTTGAAACTATCAATTTTCCTT-AAAAT
*
12860335 AAATTTTCAGAAAAAAGGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATT
1 AAATTTTCA-AAAAAA-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATT
* * *
12860400 TTCAAAAAGGGATTTTTGAGGAAAAA-TTGAAAGTATCAATTTTTCTTGGAAATCAAAGTTTCAA
64 TTCAAAAAGGGATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAA
* *
12860464 AAAATATATATTTTTGAGGAAAAGTTGAAACTATCAATTTTTCTTAAAAT
128 AAAATATATATTTTAGAGGAAAAGTTGAAACTATCAATTTTCCTTAAAAT
*
12860514 AAATTTTCAAAAAAATATATTTTTGTGGAAAAGTTGAAAGTATCAATTTTTC
1 AAATTTTCAAAAAAATAT-TTTTAG-GGAAAAGTTGAAAGTATCAATTTTTC
12860566 CTACACAAAA
Statistics
Matches: 208, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
175 1 0.00
176 6 0.03
177 109 0.52
178 21 0.10
179 45 0.22
180 26 0.12
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (177 bp):
AAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTT
CAAAAAGGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAA
ATATATATTTTAGAGGAAAAGTTGAAACTATCAATTTTCCTTAAAAT
Found at i:12860564 original size:59 final size:59
Alignment explanation
Indices: 12860149--12860565 Score: 424
Period size: 59 Copynumber: 7.0 Consensus size: 59
12860139 TTTCTTTAAA
* * * *
12860149 TGAAAATCAAAATTTTCAAAAAAAAATATTCTTAGGGAAAAGTTAAAAGTATCAATTTTCCT
1 TGAAAAT--AAATTTTCAAAAAAAGATATT-TTTGGGAAAAGTTGAAAGTATCAATTTTTCT
** * *
12860211 T-AGAAATAAATTTTC--AAAAAGGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
1 TGA-AAATAAATTTTCAAAAAAAGATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCT
** *
12860269 TGAAAATCAAAATTTT--TGAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TGAAAAT--AAATTTTCAAAAAAAGATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCT
* *
12860328 TAAAAATAAATTTTCAGAAAAAAGGAT-TTTTAGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TGAAAATAAATTTTCA-AAAAAA-GATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCT
** *
12860388 T-AGAAATAAATTTTC--AAAAAGGGATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCT
1 TGA-AAATAAATTTTCAAAAAAAGATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCT
* * * *
12860446 TGGAAATCAAAGTTTCAAAAAATATATATTTTTGAGGAAAAGTTGAAACTATCAATTTTTCT
1 TGAAAAT-AAATTTTCAAAAAA-AGATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCT
*
12860508 T-AAAATAAATTTTCAAAAAAATATATTTTTGTGGAAAAGTTGAAAGTATCAATTTTTC
1 TGAAAATAAATTTTCAAAAAAAGATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTC
12860566 CTACACAAAA
Statistics
Matches: 305, Mismatches: 30, Indels: 43
0.81 0.08 0.11
Matches are distributed among these distances:
56 1 0.00
57 20 0.07
58 69 0.23
59 83 0.27
60 77 0.25
61 13 0.04
62 42 0.14
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (59 bp):
TGAAAATAAATTTTCAAAAAAAGATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCT
Found at i:12862390 original size:62 final size:62
Alignment explanation
Indices: 12862289--12862424 Score: 159
Period size: 62 Copynumber: 2.2 Consensus size: 62
12862279 TTACAAAAAT
* ** *
12862289 GATTATTGAAGGCGTTTCAGGCAAAAAATACATTTAATAATCTTTTTAAATTTTTTA-GAGGG
1 GATTATTGAAGGCGTTTCAGGCAAAAAATACATTCAATAATCCATTT-AATTTTTTATGAGGA
* * * *
12862351 GATTATTGAAGGTGTTTTC-TGCAAAAAATACCTTCAATAATCCATTTCATTTTTTATGAGGA
1 GATTATTGAAGGCG-TTTCAGGCAAAAAATACATTCAATAATCCATTTAATTTTTTATGAGGA
*
12862413 GATTATTAAAGG
1 GATTATTGAAGG
12862425 ATTTTTTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
61 8 0.13
62 51 0.81
63 4 0.06
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (62 bp):
GATTATTGAAGGCGTTTCAGGCAAAAAATACATTCAATAATCCATTTAATTTTTTATGAGGA
Found at i:12863793 original size:18 final size:17
Alignment explanation
Indices: 12863758--12863791 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12863748 AAAATAATTT
* *
12863758 TTTTTAATTTAGATAAA
1 TTTTTAATTTAAAAAAA
12863775 TTTTTAATTTAAAAAAA
1 TTTTTAATTTAAAAAAA
12863792 ATGATATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTTAATTTAAAAAAA
Found at i:12864270 original size:16 final size:16
Alignment explanation
Indices: 12864233--12864267 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12864223 ATGTTACTTT
*
12864233 ATTAAAAAAAGTTATA
1 ATTAAAAAAAATTATA
12864249 ATTAAAAAAATATTATA
1 ATTAAAAAAA-ATTATA
12864266 AT
1 AT
12864268 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTAAAAAAAATTATA
Found at i:12865049 original size:34 final size:33
Alignment explanation
Indices: 12865006--12865076 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
12864996 CCCTATAATG
* *
12865006 ACTTGGTCTTTGTCTGAGTCCTGGGTGAATTGA
1 ACTTGGTCTTTGTCTGAATCCGGGGTGAATTGA
* *
12865039 ACTTGAGTCTTTGTCTGAATCCGGGGTGGATTGG
1 ACTTG-GTCTTTGTCTGAATCCGGGGTGAATTGA
12865073 ACTT
1 ACTT
12865077 TGACTGTAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 5 0.15
34 28 0.85
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (33 bp):
ACTTGGTCTTTGTCTGAATCCGGGGTGAATTGA
Found at i:12867854 original size:4 final size:4
Alignment explanation
Indices: 12867845--12867871 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
12867835 ATTATTATAT
12867845 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
12867872 TTTAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:12867916 original size:27 final size:26
Alignment explanation
Indices: 12867886--12867948 Score: 63
Period size: 29 Copynumber: 2.3 Consensus size: 26
12867876 ATTTATTTAT
* *
12867886 TAATAAAATTATTATTTGATTTTAAAA
1 TAATAAAATTATTA-CTAATTTTAAAA
12867913 TAATTTAATAATTATTACTAATTTTAAAA
1 TAA--TAA-AATTATTACTAATTTTAAAA
*
12867942 TATTAAA
1 TAATAAA
12867949 TAATTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.03
27 6 0.20
29 15 0.50
30 8 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TAATAAAATTATTACTAATTTTAAAA
Found at i:12867952 original size:18 final size:20
Alignment explanation
Indices: 12867910--12867954 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
12867900 TTTGATTTTA
12867910 AAATAA-TTTAATAATTATT
1 AAATAATTTTAATAATTATT
*
12867929 -ACTAATTTTAA-AA-TATT
1 AAATAATTTTAATAATTATT
12867946 AAATAATTT
1 AAATAATTT
12867955 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 4 0.18
18 13 0.59
19 5 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAATTTTAATAATTATT
Found at i:12870426 original size:2 final size:2
Alignment explanation
Indices: 12870421--12870450 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12870411 ACACACACAC
12870421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12870451 CCTCCATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12871935 original size:22 final size:21
Alignment explanation
Indices: 12871902--12871944 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
12871892 TTTCTAGTCT
12871902 CTTTTTATTTTT-ATTTATTTC
1 CTTTTTATTTTTAATTT-TTTC
*
12871923 CTTTTTGTCTTTTAATTTTTTC
1 CTTTTTAT-TTTTAATTTTTTC
12871945 AGATATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (21 bp):
CTTTTTATTTTTAATTTTTTC
Found at i:12872868 original size:2 final size:2
Alignment explanation
Indices: 12872831--12872855 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12872821 CACTAACCAA
12872831 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12872856 GAAGATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12873040 original size:22 final size:22
Alignment explanation
Indices: 12873013--12873063 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
12873003 GATTTAAAAT
12873013 TTTAATAAAAATTATAAA-TAAA
1 TTTAATAAAAATTA-AAATTAAA
12873035 TTTAAT-AAAATTAAAATTTAAA
1 TTTAATAAAAATTAAAA-TTAAA
12873057 TTTAATA
1 TTTAATA
12873064 TTTTTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.12
21 7 0.27
22 16 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAATAAAAATTAAAATTAAA
Done.