Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 18 of 770
Found at i:4797917 original size:35 final size:35
Alignment explanation
Indices: 4797876--4798040 Score: 206
Period size: 35 Copynumber: 4.7 Consensus size: 35
4797866 TCCATAGAAA
*
4797876 AGTTGTGAAACGTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
* * *
4797911 ATTTGTGAAACGTAGGTATGGTATTAACCATACTA
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
4797946 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
** ** *
4797981 AGTTAAGAAACGTAGGTATGACATT-TCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAT-CCATACTG
***
4798016 AGTTGTGAAATACAGGTATGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
4798041 TCAATAAGGA
Statistics
Matches: 110, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
34 1 0.01
35 109 0.99
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
Found at i:4803018 original size:4 final size:4
Alignment explanation
Indices: 4803004--4803079 Score: 145
Period size: 4 Copynumber: 19.2 Consensus size: 4
4802994 AATTTTGGAT
4803004 TACA T-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
4803051 TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA T
4803080 GTCAAAGTGC
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 3 0.04
4 68 0.96
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:4805272 original size:49 final size:49
Alignment explanation
Indices: 4805219--4805315 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
4805209 ACTTTTACTG
4805219 TTTGCATATTCTACCATCCCAAGTGGCCCAACAATCATGGCTTTGAATA
1 TTTGCATATTCTACCATCCCAAGTGGCCCAACAATCATGGCTTTGAATA
* * *** * *
4805268 TTTGCATATTTTATCATCTTGAGTGGCCTAACAATGATGGCTTTGAAT
1 TTTGCATATTCTACCATCCCAAGTGGCCCAACAATCATGGCTTTGAAT
4805316 CATTATATCG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (49 bp):
TTTGCATATTCTACCATCCCAAGTGGCCCAACAATCATGGCTTTGAATA
Found at i:4822057 original size:9 final size:9
Alignment explanation
Indices: 4822043--4822089 Score: 94
Period size: 9 Copynumber: 5.2 Consensus size: 9
4822033 GGCTTCATTG
4822043 CAACTTGCA
1 CAACTTGCA
4822052 CAACTTGCA
1 CAACTTGCA
4822061 CAACTTGCA
1 CAACTTGCA
4822070 CAACTTGCA
1 CAACTTGCA
4822079 CAACTTGCA
1 CAACTTGCA
4822088 CA
1 CA
4822090 TTGCAACTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.21
Consensus pattern (9 bp):
CAACTTGCA
Found at i:4823500 original size:149 final size:150
Alignment explanation
Indices: 4823293--4823596 Score: 585
Period size: 150 Copynumber: 2.0 Consensus size: 150
4823283 TGAATTAAAG
4823293 ACTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACATGGA
1 ACTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACATGGA
4823358 ATCGA-CCCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCATTATATTTTGGTAC
66 ATCGACCCCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCATTATATTTTGGTAC
4823422 CAAGGTAAGTTCATGTGTGA
131 CAAGGTAAGTTCATGTGTGA
*
4823442 ACTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGA
1 ACTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACATGGA
4823507 ATCGACCCCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCATTATATTTTGGTAC
66 ATCGACCCCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCATTATATTTTGGTAC
4823572 CAAGGTAAGTTCATGTGTGA
131 CAAGGTAAGTTCATGTGTGA
4823592 A-TAAT
1 ACTAAT
4823597 GTAGCATAAT
Statistics
Matches: 153, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
149 73 0.48
150 80 0.52
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (150 bp):
ACTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACATGGA
ATCGACCCCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCATTATATTTTGGTAC
CAAGGTAAGTTCATGTGTGA
Found at i:4831277 original size:93 final size:93
Alignment explanation
Indices: 4831108--4831278 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
4831098 GGATGGTTGA
* * * **
4831108 GCATCCGAACTTGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
4831173 TGAGTTAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
** * *
4831201 GCATCAGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
4831266 TGAGTCCGAGTTC
66 TGAGTCAGAGTTC
4831279 ACTTAGGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCAGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCAGAGTTCGTGAGATGTAACTAG
Found at i:4835016 original size:14 final size:14
Alignment explanation
Indices: 4834995--4835035 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4834985 TTGCAACTTG
4834995 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
4835009 TGCAACTTGCAAAT
1 CACAACTTGCACAT
4835023 CACAACTTGCACA
1 CACAACTTGCACA
4835036 ATCAGGTTAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:4836183 original size:4 final size:4
Alignment explanation
Indices: 4836174--4836331 Score: 244
Period size: 4 Copynumber: 39.5 Consensus size: 4
4836164 GAAATCAAAT
*
4836174 ATAC ATAC ATAC AAAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
4836222 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * **
4836270 ATAC ATGC ATGC AGGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
4836318 ATAT ATGC ATAC AT
1 ATAC ATAC ATAC AT
4836332 GCATGCATAT
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 142 1.00
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:4836784 original size:19 final size:19
Alignment explanation
Indices: 4836749--4836790 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
4836739 TATGGTTAAC
4836749 ATTAGTTAATTATTAATTA
1 ATTAGTTAATTATTAATTA
4836768 ATTATGTTAATTA-TAATTA
1 ATTA-GTTAATTATTAATTA
4836787 ATTA
1 ATTA
4836791 AAGTTTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
ATTAGTTAATTATTAATTA
Found at i:4838475 original size:90 final size:90
Alignment explanation
Indices: 4838312--4838502 Score: 328
Period size: 90 Copynumber: 2.1 Consensus size: 90
4838302 ACACCCAACT
*
4838312 TTAAAAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAAATAAGAAG
1 TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAAATAAGAAG
* *
4838377 ATATGAGTGAATTGTCATAGAATGA
66 ATAGGAGTGAATTGTCATAGAATAA
* * *
4838402 TTAAGAAATCACTATTTATAGGTTTTTCGGGCATTCTAAGACGTATGGTTGACCAAAATAAGAAT
1 TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAAATAAGAAG
4838467 ATAGGAGTGAATTGTCATAGAATAA
66 ATAGGAGTGAATTGTCATAGAATAA
4838492 TTAAGAAATCA
1 TTAAGAAATCA
4838503 ACTTGAAAAA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 95 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (90 bp):
TTAAGAAATCACTATTTATAGGTTTTTCCGGCATTCTAAGACATATGGTTGACCAAAATAAGAAG
ATAGGAGTGAATTGTCATAGAATAA
Found at i:4851262 original size:4 final size:4
Alignment explanation
Indices: 4851253--4852663 Score: 2822
Period size: 4 Copynumber: 352.8 Consensus size: 4
4851243 TGTATAGAAA
4851253 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851301 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851349 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851397 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851445 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851493 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851541 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851589 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851637 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851685 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851733 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851781 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851829 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851877 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851925 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4851973 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852021 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852069 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852117 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852165 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852213 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852261 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852309 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852357 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852405 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852453 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852501 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852549 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852597 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4852645 ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACA
4852664 GAAATTTGAG
Statistics
Matches: 1407, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 1407 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:4853443 original size:40 final size:41
Alignment explanation
Indices: 4853388--4853573 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 41
4853378 TGATTGTTCG
* * *
4853388 GACTATATCCGGGCTAAGTCCCGAAGGAAGTTGTGCTA-CT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
*
4853428 GACTATATCCGGGCTAAGTCACGAAGGC-GTTTGTGCGAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCGAGTT
** *
4853469 G-CTATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAG-T
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
* *
4853508 GACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
1 GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
*
4853549 G-CTATATCC-GGCTAAATCCCGAAGG
1 GACTATATCCGGGCTAAGTCCCGAAGG
4853574 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
39 17 0.13
40 108 0.84
41 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
GACTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTT
Found at i:4853523 original size:80 final size:80
Alignment explanation
Indices: 4853390--4853573 Score: 289
Period size: 80 Copynumber: 2.3 Consensus size: 80
4853380 ATTGTTCGGA
*
4853390 CTATATCCGGGCTAAGTCCCGAAGGAAGTTGTGCTACTGACTATATCCGGGCTAAGTCACGAAGG
1 CTATATCCGGGCTAAGTCCCGAAGGAAGTTGTGCTACTGACTATATCCGGGCTAAGACACGAAGG
*
4853455 CGTTTGTGCGAGTTG
66 CATTTGTGCGAGTTG
*** * *
4853470 CTATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGG
1 CTATATCCGGGCTAAGTCCCGAAGGAAGTTGTGCTACTGACTATATCCGGGCTAAGACACGAAGG
4853535 CATTTGTGCGAGTTG
66 CATTTGTGCGAGTTG
*
4853550 CTATATCC-GGCTAAATCCCGAAGG
1 CTATATCCGGGCTAAGTCCCGAAGG
4853574 TACTTGGGTT
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 15 0.16
80 81 0.84
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CTATATCCGGGCTAAGTCCCGAAGGAAGTTGTGCTACTGACTATATCCGGGCTAAGACACGAAGG
CATTTGTGCGAGTTG
Found at i:4855303 original size:8 final size:7
Alignment explanation
Indices: 4855290--4855347 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 7
4855280 ACCCAAGCAA
4855290 AATAAAGT
1 AATAAA-T
4855298 AATAAAT
1 AATAAAT
4855305 AA-AAA-
1 AATAAAT
4855310 AATAAAGT
1 AATAAA-T
*
4855318 AATGAAT
1 AATAAAT
*
4855325 AAAAAAT
1 AATAAAT
4855332 AATAAAAT
1 AAT-AAAT
4855340 AA-AAAT
1 AATAAAT
4855346 AA
1 AA
4855348 AGAAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.05
6 12 0.29
7 11 0.26
8 17 0.40
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (7 bp):
AATAAAT
Found at i:4855313 original size:20 final size:21
Alignment explanation
Indices: 4855288--4855358 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
4855278 TCACCCAAGC
4855288 AAAATAAAGTAATAAAT-AAA
1 AAAATAAAGTAATAAATAAAA
*
4855308 AAAATAAAGTAATGAATAAAA
1 AAAATAAAGTAATAAATAAAA
*
4855329 AATAATAAAATAA-AAATAAAGA
1 AA-AATAAAGTAATAAATAAA-A
4855351 AAAATAAA
1 AAAATAAA
4855359 AATTGGGTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.36
21 17 0.38
22 12 0.27
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (21 bp):
AAAATAAAGTAATAAATAAAA
Found at i:4855401 original size:22 final size:22
Alignment explanation
Indices: 4855351--4855394 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4855341 AAAATAAAGA
4855351 AAAATAAAAATTGGGTTGCCTC
1 AAAATAAAAATTGGGTTGCCTC
4855373 AAAATAAAAATTGGGTTGCCTC
1 AAAATAAAAATTGGGTTGCCTC
4855395 CTAATAAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
AAAATAAAAATTGGGTTGCCTC
Found at i:4855971 original size:93 final size:93
Alignment explanation
Indices: 4855851--4856033 Score: 303
Period size: 93 Copynumber: 2.0 Consensus size: 93
4855841 AGTGCCATAA
*
4855851 ACGTTAAACTTCACGATCTCAACATCAAACTCCATCGTAAGGGTTCCGCTTCGTACGTCAATCTT
1 ACGTTAAACTTCACAATCTCAACATCAAACTCCATCGTAAGGGTTCCGCTTCGTACGTCAATCTT
* *
4855916 AGTATTTGCAGTACTAAGGAAAGGTCGC
66 AGCATTTGCAGTACTAAGAAAAGGTCGC
* ** *
4855944 ACGTTATACTTCACAATCTCTCCATCAAACTCCATCGTGAGGGTTCCGCTTCGTACGTCAATCTT
1 ACGTTAAACTTCACAATCTCAACATCAAACTCCATCGTAAGGGTTCCGCTTCGTACGTCAATCTT
4856009 AGCATTTGCAGTACTAAGAAAAGGT
66 AGCATTTGCAGTACTAAGAAAAGGT
4856034 TGCCCCAACA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (93 bp):
ACGTTAAACTTCACAATCTCAACATCAAACTCCATCGTAAGGGTTCCGCTTCGTACGTCAATCTT
AGCATTTGCAGTACTAAGAAAAGGTCGC
Found at i:4859103 original size:10 final size:10
Alignment explanation
Indices: 4859084--4859133 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
4859074 TTAAATTCTA
4859084 AAAGATAAAT
1 AAAGATAAAT
4859094 ACAA-ATAAAT
1 A-AAGATAAAT
*
4859104 AAAGATAATT
1 AAAGATAAAT
4859114 AAAGATAAAT
1 AAAGATAAAT
*
4859124 AAAAATAAAT
1 AAAGATAAAT
4859134 CCTAAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:4859183 original size:14 final size:13
Alignment explanation
Indices: 4859147--4859184 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
4859137 AAATTCAAAT
4859147 CTAAATAATTATC
1 CTAAATAATTATC
*
4859160 CTTAATAATTATC
1 CTAAATAATTATC
4859173 CTAACATAATTA
1 CTAA-ATAATTA
4859185 AACATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:4864619 original size:43 final size:43
Alignment explanation
Indices: 4864420--4864608 Score: 243
Period size: 43 Copynumber: 4.4 Consensus size: 43
4864410 CGCAGCTATA
* * *
4864420 GCAAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCCC
1 GCAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCC
* * * *
4864463 ACAAGCGCCACTAAAGACCATGACCTTTAGCGACGCTTTTTCC
1 GCAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCC
** * *
4864506 AAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCT
1 GCAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCC
* * *
4864549 GCAAACACCGTTAAACACCATGACCTTTAGCGACGCTTTTCCC
1 GCAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCC
*
4864592 GCAAATGCCGCTAAAGA
1 GCAAACGCCGCTAAAGA
4864609 ATATAACCTT
Statistics
Matches: 122, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 122 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
GCAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCC
Found at i:4868758 original size:40 final size:40
Alignment explanation
Indices: 4868650--4868822 Score: 183
Period size: 40 Copynumber: 4.3 Consensus size: 40
4868640 GCTACTCGTT
* *
4868650 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
* **
4868690 CAGATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
*
4868730 CAAATGCCTTCGGATCTTAGTCCTGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * * *
4868770 CGAATGCCTTTGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
4868811 CAAA-GCCTTCGG
1 CAAATGCCTTCGG
4868823 GACTTAGCTC
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.03
40 103 0.90
41 9 0.08
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:4868829 original size:40 final size:39
Alignment explanation
Indices: 4868631--4868835 Score: 173
Period size: 40 Copynumber: 5.1 Consensus size: 39
4868621 CAGAGTTTAA
** *
4868631 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAA-GCCTTCGGGACTTAGC
* * *
4868671 CCGGTTATAGTAACTCGCACAGATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACA-AAGCCTTCGGGACTTAGC
* *
4868711 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAA-GCCTTCGGGA-CTTAGC
* * * * *
4868751 CCTGATTTAGTAACTCGCACGAATGCCTT-TGGATCTTAGT
1 CCGGATATAGTAACTCGCAC-AAAGCCTTCGGGA-CTTAGC
* *
4868791 CCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAAGCCTTCGGGACTTAGC
*
4868831 TCGGA
1 CCGGA
4868836 CATCATTCGA
Statistics
Matches: 136, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
39 5 0.04
40 120 0.88
41 11 0.08
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAAGCCTTCGGGACTTAGC
Found at i:4876855 original size:40 final size:39
Alignment explanation
Indices: 4876722--4876905 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 39
4876712 TACTCGTTCA
* *
4876722 AATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCAC
1 AATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCAC
**
4876761 AGATGCCTTCAGGA-CTTAACCCGGATTTAGTAACTCGCAC
1 A-ATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCAC
* *
4876801 AAATGCCTTTGGATCTTAGTCCAGATTTAGTAACTCGCAC
1 -AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCAC
* * *
4876841 GAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCAC
* *
4876882 AAAGCCTTCGGGA-CTTAGCCCGGA
1 AATGCCTTC-GGATCTTAGTCCGGA
4876906 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.03
40 109 0.88
41 11 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCAC
Found at i:4876899 original size:80 final size:80
Alignment explanation
Indices: 4876720--4876901 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
4876710 GCTACTCGTT
* * *
4876720 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAGATGCCTTCAGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCAGATTATAGTAACTCGCACAGATGCCTTCAGGACTTAACCCGG
* *
4876785 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* **
4876800 CAAATGCCTT-TGGATCTTAGTCCAGATT-TAGTAACTCGCAC-GAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CTTAG-CCAGATTATAGTAACTCGCACAG-ATGCCTTCAGGA-CTTAAC
*
4876861 CCGGATATAGTCACTTAGCA
62 CCGGATATAGTAAC-TAGCA
4876881 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
4876902 CGGACATCAT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
79 9 0.10
80 61 0.71
81 16 0.19
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCAGATTATAGTAACTCGCACAGATGCCTTCAGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:4882019 original size:3 final size:3
Alignment explanation
Indices: 4881993--4882056 Score: 51
Period size: 3 Copynumber: 20.3 Consensus size: 3
4881983 TATATCTTTG
*
4881993 TAT TAT ATAT TAT AAT TA- TAT TAT TAT ATAT TAT T-T ATAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT
*
4882039 TATT TAC TAT ATAT TAT T
1 TA-T TAT TAT -TAT TAT T
4882057 TTTCACAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
2 3 0.06
3 34 0.68
4 13 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4882050 original size:50 final size:49
Alignment explanation
Indices: 4881996--4882186 Score: 152
Period size: 50 Copynumber: 3.9 Consensus size: 49
4881986 ATCTTTGTAT
4881996 TATATATTATA-ATTATATTATTATATATTATTTATATTATTATTATTTAC
1 TATATATTATATATTATA-TATTATATATTATTTATA-TATTATTATTTAC
* * * * *
4882046 TATATATTAT-TTTTCACAAATTA-GTATTATTT-TACATTATTATTTA-
1 TATATATTATATATT-ATATATTATATATTATTTATATATTATTATTTAC
*
4882092 TATAATATTATTATATTGTATTATT-TATA-TATATTATATATTATT-TTTAC
1 TAT-ATATTA-TATATTATA-TATTATATATTAT-TTATATATTATTATTTAC
*
4882142 ATATATACTT-TCATATTATATATTATA-ATTATTTTTA-ATTATTAT
1 -TATATA-TTAT-ATATTATATATTATATATTATTTATATATTATTAT
4882187 GTCATTTTTC
Statistics
Matches: 112, Mismatches: 13, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
46 3 0.03
47 17 0.15
48 13 0.12
49 33 0.29
50 39 0.35
51 7 0.06
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (49 bp):
TATATATTATATATTATATATTATATATTATTTATATATTATTATTTAC
Found at i:4882105 original size:13 final size:13
Alignment explanation
Indices: 4882083--4882136 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
4882073 TATTTTACAT
4882083 TATTATTTATATAA
1 TATTA-TTATATAA
**
4882097 TATTATTATATTG
1 TATTATTATATAA
4882110 TATTATT-TAT-A
1 TATTATTATATAA
*
4882121 TA-TATTATATAT
1 TATTATTATATAA
4882133 TATT
1 TATT
4882137 TTTACATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 5 0.15
12 5 0.15
13 14 0.42
14 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATAA
Found at i:4882113 original size:27 final size:25
Alignment explanation
Indices: 4882083--4882133 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 25
4882073 TATTTTACAT
4882083 TATTATTTATATAATATTATTATATTG
1 TATTATTTATAT-ATATTA-TATATTG
4882110 TATTATTTATATATATTATATATT
1 TATTATTTATATATATTATATATT
4882134 ATTTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TATTATTTATATATATTATATATTG
Found at i:4882508 original size:21 final size:20
Alignment explanation
Indices: 4882471--4882509 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4882461 TTATACATTA
*
4882471 TTTTTTTTAAATCATTATAT
1 TTTTTTTTAAATAATTATAT
*
4882491 TTTTGTTTTATATAATTAT
1 TTTT-TTTTAAATAATTAT
4882510 TATTCTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTTTTTAAATAATTATAT
Found at i:4898638 original size:134 final size:134
Alignment explanation
Indices: 4898476--4898728 Score: 389
Period size: 134 Copynumber: 1.9 Consensus size: 134
4898466 TGAATATGGA
* * *
4898476 GATGCTGAATCTACTATCTTCAACTTGTTCCCTATAAACATACGGATGCCATACTGAAATCTTCG
1 GATGCTAAATCTACTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTTCG
*
4898541 ATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTACTATGTCTTCGATCTGTTTCCTGTAAACA
66 ATCTGCTTCGCTGTAAGCACAAGAATGTCAAATCTACTATGTCTTCGATCTGTTTCCTGTAAACA
4898606 CAAC
131 CAAC
* * * ** *
4898610 GATGCTAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGTCATGTTAAAATCTTTG
1 GATGCTAAATCTACTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTTCG
* * *
4898675 ATCTGCTTCGCTGTAAGTACAGGAATGTCAAATCTGCTATGTCTTCGATCTGTT
66 ATCTGCTTCGCTGTAAGCACAAGAATGTCAAATCTACTATGTCTTCGATCTGTT
4898729 CTCCGTCGAA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 106 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (134 bp):
GATGCTAAATCTACTATCTTCAACTTGTTCCCTATAAACACACGGATGCCATACTAAAATCTTCG
ATCTGCTTCGCTGTAAGCACAAGAATGTCAAATCTACTATGTCTTCGATCTGTTTCCTGTAAACA
CAAC
Found at i:4898858 original size:87 final size:87
Alignment explanation
Indices: 4898761--4898935 Score: 266
Period size: 87 Copynumber: 2.0 Consensus size: 87
4898751 AAATCTGTTA
4898761 TCTTCGATTTG-TCCTCTAACAATACA-GA-GATGCCAAATCATCTTGGATCTGCTTCAGCATAA
1 TCTTCGATTTGCTCCT-T-ACAA-ACACGAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAA
4898823 ACATCTGAAGGTCAGATCTGCTATG
63 ACATCTGAAGGTCAGATCTGCTATG
** *
4898848 TCTTCGATTTGCTCCTTGTAAACACGAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACA
1 TCTTCGATTTGCTCCTTACAAACACGAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAAACA
*
4898913 TCTGAAGGTTAGATCTGCTATG
66 TCTGAAGGTCAGATCTGCTATG
4898935 T
1 T
4898936 GTCTACTCTC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
85 3 0.04
86 4 0.05
87 70 0.86
88 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (87 bp):
TCTTCGATTTGCTCCTTACAAACACGAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAAACA
TCTGAAGGTCAGATCTGCTATG
Found at i:4898978 original size:87 final size:87
Alignment explanation
Indices: 4898887--4899287 Score: 287
Period size: 87 Copynumber: 4.6 Consensus size: 87
4898877 ATGCCAAATC
* *
4898887 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACTCTCTGTCGA
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTCGA
*
4898952 ATATGGAGACGCCAAATCTGTT
66 ATATGGAGACGCTAAATCTGTT
* * * * *
4898974 ATCTTGGATCTGCTTTAGTA-AAATCATCTAAAGGTTAGATCTGTTATGTATCTGCCCTCCGTCG
1 ATCTTGGATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTCG
* *
4899038 AA-ATGGAGATGCTAGATCTGTT
65 AATATGGAGACGCTAAATCTGTT
* ** * * * * * * *
4899060 ATCTTGGATCTACTTTGGTATGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCTA--GT-TGT
1 ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAGGTTAGATCTGCTATGT-GTCTACCCTCCG-
* * * * * ***
4899122 TC--CT-TGTAAACACAAGAATGCAAAAAT
62 TCGAATATGGAGACGCTA-AAT-C--TGTT
* * * * *
4899149 ATCTTAGATATGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCAA
1 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTCGA
*
4899214 ATATGGAGACGCTAGATCTGTT
66 ATATGGAGACGCTAAATCTGTT
* * * * *
4899236 ATCTTGGATCTGCTTTGATGTGAAAAACATCTGAAAGTCAAATCTGCTATGT
1 ATCTTGGATCTGC-TTCA-GT-ATAAACATCTGAAGGTTAGATCTGCTATGT
4899288 CTTCGATTTG
Statistics
Matches: 232, Mismatches: 62, Indels: 37
0.70 0.19 0.11
Matches are distributed among these distances:
85 6 0.03
86 44 0.19
87 94 0.41
88 27 0.12
89 25 0.11
90 29 0.12
91 7 0.03
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCGTCGA
ATATGGAGACGCTAAATCTGTT
Found at i:4899301 original size:177 final size:175
Alignment explanation
Indices: 4898973--4899319 Score: 507
Period size: 177 Copynumber: 2.0 Consensus size: 175
4898963 CCAAATCTGT
* * * * * *
4898973 TATCTTGGATCTGCTTTAGTAAAATCATCTAAAGGTTAGATCTGTTATGTATCTGCCCTCCGTCG
1 TATCTTAGATATGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCTATGTATCTGCCCTCCATCA
* * *
4899038 AAATGGAGATGCTAGATCTGTTATCTTGGATCTACTTTGGTATGAGAACATCCGAAAGTCAAATC
66 AAATGGAGACGCTAGATCTGTTATCTTGGATCTACTTTGATATGAAAACATCCGAAAGTCAAATC
*
4899103 TGCTATGTCTTCTAGTTGTTCCTTGTAAACACAAGAATGCAAAAA
131 TGCTATGTCTTCGAGTTGTTCCTTGTAAACACAAGAATGCAAAAA
* *
4899148 TATCTTAGATATGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATC
1 TATCTTAGATATGCTTCAGTA-AAATCATCTAAAGGTTAGATCTGCTATGTATCTGCCCTCCATC
* * *
4899212 AAATATGGAGACGCTAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAAACATCTGAAAGTCAA
65 AAA-ATGGAGACGCTAGATCTGTTATCTTGGATCTACTTTGATATG-AAAACATCCGAAAGTCAA
* *
4899277 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAAGACAAGAATGC
128 ATCTGCTATGTCTTCGAGTTGTTCCTTGTAAACACAAGAATGC
4899320 CAAATCTTGT
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
175 55 0.36
176 41 0.27
177 56 0.37
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (175 bp):
TATCTTAGATATGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCTATGTATCTGCCCTCCATCA
AAATGGAGACGCTAGATCTGTTATCTTGGATCTACTTTGATATGAAAACATCCGAAAGTCAAATC
TGCTATGTCTTCGAGTTGTTCCTTGTAAACACAAGAATGCAAAAA
Found at i:4904416 original size:118 final size:118
Alignment explanation
Indices: 4904262--4904492 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
4904252 TATTTCCGGT
4904262 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
4904327 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
4904380 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
4904445 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
4904493 ATGGAAAACT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:4905434 original size:17 final size:17
Alignment explanation
Indices: 4905411--4905456 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
4905401 ATATTTAAAT
*
4905411 AAAATAAAATAAAATAA
1 AAAATAAAATAAAAGAA
* *
4905428 TAAATAATA-AAAAGAA
1 AAAATAAAATAAAAGAA
4905444 AAAAT-AAATAAAA
1 AAAATAAAATAAAA
4905457 ATAAAAAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
15 2 0.09
16 14 0.61
17 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAAGAA
Found at i:4905438 original size:20 final size:20
Alignment explanation
Indices: 4905413--4905463 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4905403 ATTTAAATAA
*
4905413 AATAAAATAAAATAATAAAT
1 AATAAAATAAAAAAATAAAT
4905433 AATAAAA-AGAAAAAATAAAT
1 AATAAAATA-AAAAAATAAAT
4905453 -A-AAAATAAAAA
1 AATAAAATAAAAA
4905464 GAAAGATTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 8 0.29
19 3 0.11
20 17 0.61
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (20 bp):
AATAAAATAAAAAAATAAAT
Found at i:4905447 original size:23 final size:23
Alignment explanation
Indices: 4905407--4905467 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
4905397 ATTAATATTT
*
4905407 AAATAAAATAAAATAAAAT-AATAA
1 AAATAAAA-AGAA-AAAATAAATAA
4905431 ATAATAAAAAGAAAAAATAAATAA
1 A-AATAAAAAGAAAAAATAAATAA
4905455 AAATAAAAAGAAA
1 AAATAAAAAGAAA
4905468 GATTGGGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 17 0.50
24 10 0.29
25 7 0.21
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.16
Consensus pattern (23 bp):
AAATAAAAAGAAAAAATAAATAA
Found at i:4905457 original size:17 final size:17
Alignment explanation
Indices: 4905407--4905463 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
4905397 ATTAATATTT
*
4905407 AAATAAAATA-AAAT-A
1 AAATAAAAAATAAATAA
*
4905422 AAATAATAAAT-AATAA
1 AAATAAAAAATAAATAA
*
4905438 AAAGAAAAAATAAATAA
1 AAATAAAAAATAAATAA
4905455 AAATAAAAA
1 AAATAAAAA
4905464 GAAAGATTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 11 0.32
16 10 0.29
17 13 0.38
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.18
Consensus pattern (17 bp):
AAATAAAAAATAAATAA
Found at i:4917141 original size:198 final size:198
Alignment explanation
Indices: 4916803--4917203 Score: 793
Period size: 198 Copynumber: 2.0 Consensus size: 198
4916793 TATGAGGTTT
4916803 TAGTTCTAAATTTGAGGTACCTGAACCAGCAGATTCCTCGATTCTCACCCATTATAGGCTCATTT
1 TAGTTCTAAATTTGAGGTACCTGAACCAGCAGATTCCTCGATTCTCACCCATTATAGGCTCATTT
*
4916868 GAATCGAGTTCAGCTTAGGGGAATACATTTCCCAATAGCTACACGGAGATGAAAATCTCACGAAA
66 GAATCGAGTTCAGCTTAGGGGAATAAATTTCCCAATAGCTACACGGAGATGAAAATCTCACGAAA
4916933 CCATAGGTACGGATGTATCCCGAAAGTGATCCACTATCCTGCACGGAGGCGAAAACCTCACGAAG
131 CCATAGGTACGGATGTATCCCGAAAGTGATCCACTATCCTGCACGGAGGCGAAAACCTCACGAAG
4916998 GCA
196 GCA
4917001 TAGTTCTAAATTTGAGGTACCTGAACCAGCAGATTCCTCGATTCTCACCCATTATAGGCTCATTT
1 TAGTTCTAAATTTGAGGTACCTGAACCAGCAGATTCCTCGATTCTCACCCATTATAGGCTCATTT
4917066 GAATCGAGTTCAGCTTAGGGGAATAAATTTCCCAATAGCTACACGGAGATGAAAATCTCACGAAA
66 GAATCGAGTTCAGCTTAGGGGAATAAATTTCCCAATAGCTACACGGAGATGAAAATCTCACGAAA
4917131 CCATAGGTACGGATGTATCCCGAAAGTGATCCACTATCCTGCACGGAGGCGAAAACCTCACGAAG
131 CCATAGGTACGGATGTATCCCGAAAGTGATCCACTATCCTGCACGGAGGCGAAAACCTCACGAAG
4917196 GCA
196 GCA
4917199 TAGTT
1 TAGTT
4917204 TCTCATTCCC
Statistics
Matches: 202, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 202 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (198 bp):
TAGTTCTAAATTTGAGGTACCTGAACCAGCAGATTCCTCGATTCTCACCCATTATAGGCTCATTT
GAATCGAGTTCAGCTTAGGGGAATAAATTTCCCAATAGCTACACGGAGATGAAAATCTCACGAAA
CCATAGGTACGGATGTATCCCGAAAGTGATCCACTATCCTGCACGGAGGCGAAAACCTCACGAAG
GCA
Found at i:4918384 original size:14 final size:14
Alignment explanation
Indices: 4918365--4918398 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
4918355 TAATAATAAT
4918365 AATATAGTAACATA
1 AATATAGTAACATA
4918379 AATATAGTAACATA
1 AATATAGTAACATA
4918393 AATATA
1 AATATA
4918399 TCAAACGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
AATATAGTAACATA
Found at i:4920701 original size:42 final size:43
Alignment explanation
Indices: 4920589--4920682 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
4920579 TATGTGTACG
* * *
4920589 TGTAAGACCATGTTTGGGACATTGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCTCGGACATTGGCATCAATATGTGATTACA
4920632 TGTAAGACCATGTCTCGGACATTGGCATCAATATGTGATTACA
1 TGTAAGACCATGTCTCGGACATTGGCATCAATATGTGATTACA
4920675 -GTAAGACC
1 TGTAAGACC
4920683 TCGTCTGGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 8 0.17
43 40 0.83
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTCGGACATTGGCATCAATATGTGATTACA
Found at i:4921143 original size:14 final size:15
Alignment explanation
Indices: 4921124--4921180 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
4921114 ATATTAATAT
4921124 GATATG-CAATCTTA
1 GATATGACAATCTTA
4921138 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
4921155 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
4921174 GATATGA
1 GATATGA
4921181 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:4921144 original size:19 final size:19
Alignment explanation
Indices: 4921108--4921202 Score: 142
Period size: 19 Copynumber: 5.1 Consensus size: 19
4921098 TCTTTAAGGC
*
4921108 TATGCAATATTA-ATATGA
1 TATGCAATCTTAGATATGA
4921126 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
4921145 TA--CAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
4921162 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
4921181 TATGCAATCTTGAAGATATGA
1 TATGCAATCTT--AGATATGA
4921202 T
1 T
4921203 CTTGTAATCT
Statistics
Matches: 71, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
17 17 0.24
18 11 0.15
19 34 0.48
21 9 0.13
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:4921161 original size:36 final size:37
Alignment explanation
Indices: 4921111--4921202 Score: 134
Period size: 36 Copynumber: 2.5 Consensus size: 37
4921101 TTAAGGCTAT
*
4921111 GCAATATTA-ATATGATATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
4921147 -CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
4921183 TGCAATCTTGAAGATATGAT
1 -GCAATCTT--AGATATGAT
4921203 CTTGTAATCT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 7 0.14
36 27 0.54
38 7 0.14
40 9 0.18
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
GCAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:4921507 original size:21 final size:20
Alignment explanation
Indices: 4921481--4921521 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
4921471 TGTTTCCCTG
*
4921481 ATTTTTTTTATATATATTTTA
1 ATTTTTTTTAAATA-ATTTTA
4921502 ATTTTTTTTAAATAATTTTA
1 ATTTTTTTTAAATAATTTTA
4921522 GTATCATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTTTTTAAATAATTTTA
Found at i:4923909 original size:12 final size:12
Alignment explanation
Indices: 4923892--4923916 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4923882 TAAAGTTATC
4923892 AAAAAGAGAAAG
1 AAAAAGAGAAAG
4923904 AAAAAGAGAAAG
1 AAAAAGAGAAAG
4923916 A
1 A
4923917 GAGAAGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:4923944 original size:34 final size:34
Alignment explanation
Indices: 4923902--4924015 Score: 212
Period size: 34 Copynumber: 3.4 Consensus size: 34
4923892 AAAAAGAGAA
4923902 AGAAAAAGAGAAAGAGAGAAGAGGGTTATGGCTG
1 AGAAAAAGAGAAAGAGAGAAGAGGGTTATGGCTG
4923936 AGAAAAAGAGAAAGAGAGAAGAGGGTTATGGCTG
1 AGAAAAAGAGAAAGAGAGAAGAGGGTTATGGCTG
4923970 AGAAAAAGAGAAAGAGAGAAGAGGGTTATGGCTG
1 AGAAAAAGAGAAAGAGAGAAGAGGGTTATGGCTG
4924004 AGTAAAAA-AGAA
1 AG-AAAAAGAGAA
4924016 GTTGAATGGG
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
34 74 0.94
35 5 0.06
ACGTcount: A:0.50, C:0.03, G:0.36, T:0.11
Consensus pattern (34 bp):
AGAAAAAGAGAAAGAGAGAAGAGGGTTATGGCTG
Found at i:4927537 original size:44 final size:43
Alignment explanation
Indices: 4927481--4928266 Score: 463
Period size: 44 Copynumber: 17.9 Consensus size: 43
4927471 GATCCAAGAT
* *
4927481 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATACCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CA
*
4927525 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG--ATA-C-A
* * * * * *
4927572 -ATTTGGCTTTTACGTGT-TT-AC-GTTAAAGCAAATCTAAGAT---
1 GATTTGGCATCT-C-TGTATTGGCAG--AGAGCAGATCGAAGATACA
** * *
4927612 GATTTAACGTCTCTGTATTGGCAGAGAGCAGATCGAAGATGACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* *
4927656 GATTTGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATA-CA
* * ** * * *
4927703 GATTTGGC-TTTCATGTGTTTAC-GTTGAAGCAAATCTAAGAT---
1 GATTTGGCATCTC-TGTATTGGCAG-AG-AGCAGATCGAAGATACA
* *
4927744 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATTGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* *
4927788 GATTTGGCATCTCTGTATTGGCAGAGAACAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* * * **
4927832 GATTTGGCATCTCTATATTCGGCGGAGAGTAGATCGAAGAAATAGTT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATA-CA
* * * ** *
4927879 GATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAAGAT---
1 GATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCGAAGATACA
*
4927920 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CA
* * * *
4927964 GATTGGGTATCTCTGTATTGGCAGAGAGCAGATCAAAGAAGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG-ATACA
* *
4928008 GATTTGGCATCTCTGTAGTCGGC-GAAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTA-TTGGCAG-AGAGCAGATCGAAG--ATA-CA
* * * * * * *
4928055 GATTTGGCTTCCACGTGT-TT-AC-GTTAAAACA-AGTCTAA-A-A-T
1 GATTTGGCAT-CTC-TGTATTGGCAG--AGAGCAGA-TCGAAGATACA
* *
4928096 GATTTGGCATCTTTGTATTGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* *
4928140 GATTTGACATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACA
* * * *
4928184 GATTTGGCGTTTCTGTATTGGCAAAGAGCAGATCGAAGATAGAA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CA
* *
4928228 GATTTGGCATCTCTGTATTGTCAGAGAGCATATCGAAGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
4928267 GAAGAACAAC
Statistics
Matches: 575, Mismatches: 107, Indels: 120
0.72 0.13 0.15
Matches are distributed among these distances:
39 12 0.02
40 51 0.09
41 47 0.08
42 6 0.01
43 3 0.01
44 274 0.48
45 60 0.10
46 26 0.05
47 79 0.14
48 12 0.02
49 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATACA
Found at i:4927741 original size:132 final size:130
Alignment explanation
Indices: 4927464--4927826 Score: 528
Period size: 132 Copynumber: 2.8 Consensus size: 130
4927454 GTATTTACAC
* * * *
4927464 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATACCAGATT
1 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CAGATT
* *
4927529 TGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTAATTTGGCTTTTACGTGTTTACG
65 TGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACG
4927594 T
130 T
* ** * *
4927595 TAAAGCAAATCTAAGATGATTTAACGTCTCTGTATTGGCAGAGAGCAGATCGAAGATGACTGATT
1 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACAGATT
* * *
4927660 TGGCATCTCTGTATTCGGTAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTAC
65 TGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTAC
4927725 GT
129 GT
* *
4927727 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGTAGATTGAAGATAACAGATT
1 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACAGATT
* *
4927792 TGGCATCTCTGTATTGGCAGAGAACAGATCAAAGA
65 TGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
4927827 TGACAGATTT
Statistics
Matches: 205, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
131 86 0.42
132 119 0.58
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (130 bp):
TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATACAGATTT
GGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGT
Found at i:4927803 original size:176 final size:176
Alignment explanation
Indices: 4927621--4928222 Score: 902
Period size: 176 Copynumber: 3.4 Consensus size: 176
4927611 TGATTTAACG
* * *
4927621 TCTCTGTATTGGCAGAGAGCAGATCGAAGATGACTGATTTGGCATCTCTGTATTCGGTAGAGAGC
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAGC
* * *
4927686 AGATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAATCTAAGATGATTTGG
66 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
*
4927751 CATCTCTGTATTGGCAGAGAGTAGATTGAAGATAACAGATTTGGCA
131 CATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACAGATTTGGCA
* * * *
4927797 TCTCTGTATTGGCAGAGAACAGATCAAAGATGACAGATTTGGCATCTCTATATTCGGCGGAGAGT
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAGC
* *
4927862 AGATCGAAGAAATAGTTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
66 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
* * *
4927927 CATCTCTGTATTGGCAGAGAGTAGATCGAAGATAGCAGATTGGGTA
131 CATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACAGATTTGGCA
* *
4927973 TCTCTGTATTGGCAGAGAGCAGATCAAAGAAGACAGATTTGGCATCTCTGTAGTCGGC-GAAGAG
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAG-AGAG
* * *
4928037 CAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTAAAACAAGTCTAAAATGATTTG
65 CAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
* * * *
4928102 GCATCTTTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGACA
130 GCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACAGATTTGGCA
* * * * * *
4928149 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCGTTTCTGTATT-GGCAAAGAGC
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAGC
4928213 AGATCGAAGA
66 AGATCGAAGA
4928223 TAGAAGATTT
Statistics
Matches: 383, Mismatches: 41, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
175 19 0.05
176 364 0.95
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (176 bp):
TCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCAGAGAGC
AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
CATCTCTGTATTGGCAGAGAGTAGATCGAAGATAACAGATTTGGCA
Found at i:4928522 original size:46 final size:46
Alignment explanation
Indices: 4928332--4928522 Score: 128
Period size: 44 Copynumber: 4.2 Consensus size: 46
4928322 TTGGCATTCT
* * *
4928332 TGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCC
1 TGTGCTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATCCC
* * *** *
4928378 TGTGCTTACAGCGAAGCAGATC-AA-AGATTTTA-A-CATGGCATCCC
1 TGTGCTTACAGGGAA-CAGATCGAAGACATAGCAGATC-TGACATCCC
* * * * *
4928422 TGTGTTTATAAGGAACA-AGTTGAAG--ATAGCAGATTTTG-CATCCC
1 TGTGCTTACAGGGAACAGA-TCGAAGACATAGCAGA-TCTGACATCCC
* * *
4928466 TGTGTTTACAGGGAACAGATCGAAGACATAGTAGATCTGACATTCC
1 TGTGCTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATCCC
*
4928512 TGTACTTACAG
1 TGTGCTTACAG
4928523 CAAAGCAGAT
Statistics
Matches: 108, Mismatches: 25, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 48 0.44
45 10 0.09
46 36 0.33
47 6 0.06
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (46 bp):
TGTGCTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATCCC
Found at i:4928559 original size:134 final size:134
Alignment explanation
Indices: 4928319--4928597 Score: 441
Period size: 134 Copynumber: 2.1 Consensus size: 134
4928309 GATCCAAAAT
* * *
4928319 GATTTGGCATTCTTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTGTACT
* * *
4928384 TACAGCGAAGCAGATCAAAGATTTTAACATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGAT
66 TACAGCAAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAAGGAACAAGTTAAAGAT
4928449 AGCA
131 AGCA
* * *
4928453 GATTTTGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGTAGATCTGACATTCCTGTACT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTGTACT
** *
4928518 TACAGCAAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTAAAGAT
66 TACAGCAAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAAGGAACAAGTTAAAGAT
*
4928583 AGTA
131 AGCA
4928587 GATTTGGCATC
1 GATTTGGCATC
4928598 TCCATATTCG
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
134 131 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (134 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCAAAGACATAGCAGATCTGACATTCCTGTACT
TACAGCAAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAAGGAACAAGTTAAAGAT
AGCA
Found at i:4928595 original size:44 final size:45
Alignment explanation
Indices: 4928413--4928597 Score: 116
Period size: 44 Copynumber: 4.2 Consensus size: 45
4928403 GATTTTAACA
* *
4928413 TGGCATCCCTGTGTTTATAAGGAACAAG-TTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAAGGAACAAGATTAAAGATAGTAGATT
* * * * * *
4928457 TTGCATCCCTGTGTTTACAGGGAAC-AGATCGAAGACATAGTAGATC
1 TGGCATCCCTGTGTTTATAAGGAACAAGAT-TAA-AGATAGTAGATT
* * ** * * * *
4928503 TGACATTCCTGTACTTA-CAGCAA-AGCAGATTGAAGAT-TTCAGCA--
1 TGGCATCCCTGTGTTTATAAGGAACA--AGATTAAAGATAGT-AG-ATT
4928547 TGGCATCCCTGTGTTTATAAGGAACAAG-TTAAAGATAGTAGATT
1 TGGCATCCCTGTGTTTATAAGGAACAAGATTAAAGATAGTAGATT
4928591 TGGCATC
1 TGGCATC
4928598 TCCATATTCG
Statistics
Matches: 100, Mismatches: 28, Indels: 26
0.65 0.18 0.17
Matches are distributed among these distances:
42 1 0.01
43 11 0.11
44 47 0.47
45 13 0.13
46 24 0.24
47 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
TGGCATCCCTGTGTTTATAAGGAACAAGATTAAAGATAGTAGATT
Found at i:4928788 original size:44 final size:45
Alignment explanation
Indices: 4928661--4928809 Score: 174
Period size: 45 Copynumber: 3.3 Consensus size: 45
4928651 TTTACATCGA
* * * *
4928661 AGCAGATCTAAGATGACAGATTTGGCATCTTTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
* * * *
4928706 AGCAAATCGGAGATAACAGATTTGACATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
* * *
4928751 AGCAGATTGAAGA-AGCAAATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
* *
4928795 ATCAGATCAAAGATA
1 AGCAGATCGAAGATA
4928810 GTAGATATCG
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 37 0.43
45 50 0.57
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
Found at i:4934052 original size:51 final size:51
Alignment explanation
Indices: 4933969--4934077 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
4933959 AAATGAGCTT
* * * *
4933969 TACCATCCAAGAACACGCCTGGGCACTGAGTGCCAAGCCTGTAGGCTAAACA
1 TACC-TCCAAAAACACGCCTAGGCACTAAGTGCCAAGCCTGTAAGCTAAACA
* *
4934021 TACCTCCAAAAACACGCTTAGGCACTAAGTGCCAAGCCTGTAAGCTACACA
1 TACCTCCAAAAACACGCCTAGGCACTAAGTGCCAAGCCTGTAAGCTAAACA
4934072 T-CCTCC
1 TACCTCC
4934078 CGCAGAAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 5 0.10
51 42 0.82
52 4 0.08
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.17
Consensus pattern (51 bp):
TACCTCCAAAAACACGCCTAGGCACTAAGTGCCAAGCCTGTAAGCTAAACA
Found at i:4937132 original size:19 final size:19
Alignment explanation
Indices: 4937108--4937144 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4937098 GTTCATATAA
*
4937108 TAACTAATTTGGTTCAAAC
1 TAACTAATTTGATTCAAAC
4937127 TAACTAATTTGATTCAAA
1 TAACTAATTTGATTCAAA
4937145 ATTCTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (19 bp):
TAACTAATTTGATTCAAAC
Found at i:4943532 original size:10 final size:10
Alignment explanation
Indices: 4943517--4943542 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4943507 ATACATATAA
4943517 AATTATAAAT
1 AATTATAAAT
4943527 AATTATAAAT
1 AATTATAAAT
4943537 AATTAT
1 AATTAT
4943543 CTACTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATTATAAAT
Found at i:4944126 original size:21 final size:22
Alignment explanation
Indices: 4944102--4944144 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4944092 TATTCATTTA
* *
4944102 TTTATAATTC-TATGTGTTTTT
1 TTTATAAATCTTATGTATTTTT
4944123 TTTATAAATCTTATGTATTTTT
1 TTTATAAATCTTATGTATTTTT
4944145 ATCGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (22 bp):
TTTATAAATCTTATGTATTTTT
Found at i:4948592 original size:17 final size:17
Alignment explanation
Indices: 4948572--4948642 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
4948562 ATTTTTAGAG
*
4948572 TTAAATATATAATTTAA
1 TTAAAAATATAATTTAA
* *
4948589 TTAAATAT-TAATTTTAC
1 TTAAAAATATAA-TTTAA
*
4948606 TTGAAAAAAATAAATTT-A
1 TT-AAAAATAT-AATTTAA
*
4948624 TAAAAAATATAATTTAA
1 TTAAAAATATAATTTAA
4948641 TT
1 TT
4948643 TTATAACACT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
16 8 0.19
17 23 0.55
18 5 0.12
19 4 0.10
20 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
TTAAAAATATAATTTAA
Found at i:4948630 original size:16 final size:16
Alignment explanation
Indices: 4948610--4948639 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4948600 TTTTACTTGA
4948610 AAAAAATA-AATTTAT
1 AAAAAATATAATTTAT
4948625 AAAAAATATAATTTA
1 AAAAAATATAATTTA
4948640 ATTTTATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATATAATTTAT
Found at i:4949882 original size:3 final size:3
Alignment explanation
Indices: 4949876--4949924 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
4949866 ACATAGAAAT
4949876 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4949924 A
1 A
4949925 AAGTTTTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4950102 original size:17 final size:15
Alignment explanation
Indices: 4950063--4950107 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
4950053 TATAAATAGG
*
4950063 AATAGAAATACAATA
1 AATAGAAATATAATA
4950078 AATAGAAATATAATA
1 AATAGAAATATAATA
4950093 ATAGTAGAAATATAA
1 A-A-TAGAAATATAA
4950108 GTAGATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.24
Consensus pattern (15 bp):
AATAGAAATATAATA
Found at i:4950107 original size:29 final size:29
Alignment explanation
Indices: 4950075--4950191 Score: 76
Period size: 29 Copynumber: 4.0 Consensus size: 29
4950065 TAGAAATACA
*
4950075 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * * * *
4950104 ATAAGTAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * * *
4950133 AGT-AATAGTATTAGAATGACAAAATAAAT
1 A-TAAATAGAAATATAATAATAATAGAAAT
*
4950162 ATAAATAGAAATATAATAATAATAGCAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
4950191 A
1 A
4950192 ATATATTAAA
Statistics
Matches: 61, Mismatches: 23, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
28 2 0.03
29 56 0.92
30 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:4953344 original size:39 final size:39
Alignment explanation
Indices: 4953298--4953522 Score: 229
Period size: 39 Copynumber: 5.7 Consensus size: 39
4953288 TTGTATTGTA
* * * *
4953298 TGATATATGCTTTAATGTTATGTAATTAAATGAGTACTG
1 TGATATATGCTTAAATGTTATGTGATTATATGTGTACTG
* * * ** *
4953337 TGATATATGTTTGAATGCTATGCAATTAGATGTGTA-TCG
1 TGATATATGCTTAAATGTTATGTGATTATATGTGTACT-G
* *
4953376 TGATATATGCTTAAATGTTATGTGATTATATGTTTATTG
1 TGATATATGCTTAAATGTTATGTGATTATATGTGTACTG
* * *
4953415 TGTTATATGCTTAAATGTGATGCGATTATATGTGTACTG
1 TGATATATGCTTAAATGTTATGTGATTATATGTGTACTG
4953454 TGATTATATGCTTAAATGTTATGTGATTATATGTGTAAC-G
1 TGA-TATATGCTTAAATGTTATGTGATTATATGTGT-ACTG
* * * *
4953494 TAATAAATGCTTAAAAGTGAATGTGATTA
1 TGATATATGCTTAAATGT-TATGTGATTA
4953523 CCATGTAAAT
Statistics
Matches: 156, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 110 0.71
40 43 0.28
41 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (39 bp):
TGATATATGCTTAAATGTTATGTGATTATATGTGTACTG
Found at i:4953406 original size:23 final size:23
Alignment explanation
Indices: 4953366--4953486 Score: 83
Period size: 23 Copynumber: 5.8 Consensus size: 23
4953356 ATGCAATTAG
4953366 ATGTGTATCGTGA-TATATGCTTAA
1 ATGT-TAT-GTGATTATATGCTTAA
4953390 ATGTTATGTGATTATATG-TT--
1 ATGTTATGTGATTATATGCTTAA
*
4953410 -T-AT-TGTG-TTATATGCTTAA
1 ATGTTATGTGATTATATGCTTAA
* *
4953429 ATGTGATGCGATTATATG-----
1 ATGTTATGTGATTATATGCTTAA
4953447 -TG-TACTGTGATTATATGCTTAA
1 ATGTTA-TGTGATTATATGCTTAA
4953469 ATGTTATGTGATTATATG
1 ATGTTATGTGATTATATG
4953487 TGTAACGTAA
Statistics
Matches: 75, Mismatches: 6, Indels: 33
0.66 0.05 0.29
Matches are distributed among these distances:
16 8 0.11
17 19 0.25
18 1 0.01
19 1 0.01
20 1 0.01
22 9 0.12
23 30 0.40
24 6 0.08
ACGTcount: A:0.27, C:0.05, G:0.21, T:0.47
Consensus pattern (23 bp):
ATGTTATGTGATTATATGCTTAA
Found at i:4956611 original size:29 final size:30
Alignment explanation
Indices: 4956564--4956631 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4956554 TGGCCCAAGA
* *
4956564 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
4956594 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
4956624 GCAAATAT
1 GTAAATAT
4956632 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:4956924 original size:2 final size:2
Alignment explanation
Indices: 4956917--4956945 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4956907 TATTATTATT
4956917 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 T
4956946 GTAAGGAAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4959114 original size:46 final size:46
Alignment explanation
Indices: 4959062--4959289 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
4959052 AGTGTGCTCT
*
4959062 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
4959108 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
4959154 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4959200 CTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
4959246 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
4959290 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:4966123 original size:12 final size:12
Alignment explanation
Indices: 4966106--4966138 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4966096 TTCCTTGTAA
*
4966106 AATAGTAAAATT
1 AATAGTAAAAAT
4966118 AATAGTAAAAAT
1 AATAGTAAAAAT
4966130 AATAGTAAA
1 AATAGTAAA
4966139 GGGGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:4967075 original size:10 final size:10
Alignment explanation
Indices: 4967056--4967115 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
4967046 TGAAATTCTA
4967056 AAAGATAAAT
1 AAAGATAAAT
4967066 ACAA-ATAAAT
1 A-AAGATAAAT
*
4967076 AAAGATAATT
1 AAAGATAAAT
4967086 AAAGATAAAT
1 AAAGATAAAT
4967096 AAAGATAAAT
1 AAAGATAAAT
4967106 GAAA-ATAAAT
1 -AAAGATAAAT
4967116 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:4971563 original size:20 final size:20
Alignment explanation
Indices: 4971538--4971597 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
4971528 AGAGCTTATC
4971538 TATAAATAATTTTATTTTTA
1 TATAAATAATTTTATTTTTA
* *
4971558 TATAAA-AA--TTA---ATC
1 TATAAATAATTTTATTTTTA
4971572 TATAAATAATTTTATTTTTA
1 TATAAATAATTTTATTTTTA
4971592 TATAAA
1 TATAAA
4971598 ATTTAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
14 7 0.23
15 2 0.07
17 6 0.20
19 2 0.07
20 13 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TATAAATAATTTTATTTTTA
Found at i:4971593 original size:18 final size:18
Alignment explanation
Indices: 4971545--4971606 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
4971535 ATCTATAAAT
4971545 AATTTTATTTTTATATAA
1 AATTTTATTTTTATATAA
* * *
4971563 AA-ATTA-ATCTATA-AA
1 AATTTTATTTTTATATAA
4971578 TAATTTTATTTTTATATAA
1 -AATTTTATTTTTATATAA
*
4971597 AATTTAATTT
1 AATTTTATTT
4971607 AAATCAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
15 2 0.06
16 7 0.21
17 6 0.18
18 16 0.48
19 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTTATTTTTATATAA
Found at i:4971607 original size:16 final size:16
Alignment explanation
Indices: 4971554--4971625 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
4971544 TAATTTTATT
*
4971554 TTTATATAAAAATTAA
1 TTTATATAAAATTTAA
* *
4971570 TCTATA-AATAATTTTATT
1 TTTATATAA-AA-TTTA-A
4971588 TTTATATAAAATTTAA
1 TTTATATAAAATTTAA
* *
4971604 TTTAAATCAAATTTAA
1 TTTATATAAAATTTAA
4971620 TATTAT
1 T-TTAT
4971626 TAATTGATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
15 2 0.05
16 22 0.51
17 10 0.23
18 7 0.16
19 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATATAAAATTTAA
Found at i:4971617 original size:34 final size:34
Alignment explanation
Indices: 4971535--4971604 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
4971525 AAAAGAGCTT
4971535 ATCTATAAATAATTTTATTTTTATATAAAAATTA
1 ATCTATAAATAATTTTATTTTTATATAAAAATTA
*
4971569 ATCTATAAATAATTTTATTTTTATATAAAATTTA
1 ATCTATAAATAATTTTATTTTTATATAAAAATTA
4971603 AT
1 AT
4971605 TTAAATCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (34 bp):
ATCTATAAATAATTTTATTTTTATATAAAAATTA
Found at i:4971885 original size:15 final size:15
Alignment explanation
Indices: 4971851--4971922 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
4971841 ATATTATTGA
4971851 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
4971864 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
4971879 AAATATTTATTATAATTAT
1 AAATA--T-TT-TAATAAT
*
4971898 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
4971913 AAATGTTTTA
1 AAATATTTTA
4971923 TATTATAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 20 0.43
16 1 0.02
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:4971894 original size:19 final size:19
Alignment explanation
Indices: 4971867--4971903 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4971857 TTAATATTAA
*
4971867 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
4971886 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
4971904 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:4971909 original size:34 final size:31
Alignment explanation
Indices: 4971865--4971931 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 31
4971855 ATTTAATATT
* *
4971865 AATATTTTAATAATAAATATTTATTATAATTATA
1 AATATATTAATAATAAAT-GTT-TTAT-ATTATA
4971899 AATATATTAATAATAAATGTTTTATATTATA
1 AATATATTAATAATAAATGTTTTATATTATA
4971930 AA
1 AA
4971932 GGTTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 8 0.26
32 4 0.13
33 2 0.06
34 17 0.55
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
AATATATTAATAATAAATGTTTTATATTATA
Found at i:4972406 original size:14 final size:14
Alignment explanation
Indices: 4972372--4972410 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4972362 CCAGAAAAGT
*
4972372 AAATCACTTTCCAG
1 AAATCATTTTCCAG
*
4972386 AAATCATTTTCTAG
1 AAATCATTTTCCAG
*
4972400 AAGTCATTTTC
1 AAATCATTTTC
4972411 AGTGAAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:4972711 original size:31 final size:31
Alignment explanation
Indices: 4972675--4972733 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
4972665 GTGTAATTTA
4972675 TATTCGAGTTAAACCAAAAAACTTAATTTTT
1 TATTCGAGTTAAACCAAAAAACTTAATTTTT
* * * *
4972706 TATTCGAGTTGATCCGAATAACTTAATT
1 TATTCGAGTTAAACCAAAAAACTTAATT
4972734 AACTCAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (31 bp):
TATTCGAGTTAAACCAAAAAACTTAATTTTT
Found at i:4972794 original size:20 final size:23
Alignment explanation
Indices: 4972746--4972794 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 23
4972736 CTCAAATAAC
4972746 TCAAATTATTTAATTCAAAATTT
1 TCAAATTATTTAATTCAAAATTT
**
4972769 AAAAATT-TTT-A-TCAAAATTT
1 TCAAATTATTTAATTCAAAATTT
4972789 TCAAAT
1 TCAAAT
4972795 CAAATTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 13 0.59
21 1 0.05
22 3 0.14
23 5 0.23
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (23 bp):
TCAAATTATTTAATTCAAAATTT
Found at i:4985174 original size:37 final size:38
Alignment explanation
Indices: 4985115--4985189 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 38
4985105 GTAAGATATT
4985115 GCTACCTCCGGCTCCCGTTGAGAGTTGAACTCAAGACC
1 GCTACCTCCGGCTCCCGTTGAGAGTTGAACTCAAGACC
* *
4985153 GCTACCT-CTGCTCTCGTTGAGAGTTGAACTCAAGACC
1 GCTACCTCCGGCTCCCGTTGAGAGTTGAACTCAAGACC
4985190 TCCCGCTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 28 0.80
38 7 0.20
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (38 bp):
GCTACCTCCGGCTCCCGTTGAGAGTTGAACTCAAGACC
Found at i:5004014 original size:23 final size:23
Alignment explanation
Indices: 5003988--5004031 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5003978 TATTACATTC
5003988 AAAA-CATACCAATTCAACCATCT
1 AAAAGCATACCAA-TCAACCATCT
*
5004011 AAAAGCATATCAATCAACCAT
1 AAAAGCATACCAATCAACCAT
5004032 TTCTTTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAAGCATACCAATCAACCATCT
Found at i:5005613 original size:16 final size:16
Alignment explanation
Indices: 5005592--5005622 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5005582 ATTGAAACCT
5005592 TGTTCTTTCTCGCCAC
1 TGTTCTTTCTCGCCAC
*
5005608 TGTTCTTTTTCGCCA
1 TGTTCTTTCTCGCCA
5005623 AAAGGTTGAT
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:0.06, C:0.32, G:0.13, T:0.48
Consensus pattern (16 bp):
TGTTCTTTCTCGCCAC
Found at i:5012351 original size:5 final size:5
Alignment explanation
Indices: 5012341--5012372 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5012331 ACATTTGTAA
5012341 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
5012373 GAACACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:5012361 original size:14 final size:14
Alignment explanation
Indices: 5012342--5012372 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
5012332 CATTTGTAAA
5012342 AAATAAAATAAAAT
1 AAATAAAATAAAAT
5012356 AAATAAAATAAAAT
1 AAATAAAATAAAAT
5012370 AAA
1 AAA
5012373 GAACACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:5016789 original size:5 final size:5
Alignment explanation
Indices: 5016779--5016810 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5016769 CAATTTGTGA
5016779 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
5016811 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:5016804 original size:9 final size:9
Alignment explanation
Indices: 5016780--5016810 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
5016770 AATTTGTGAA
5016780 AAATAAAAT
1 AAATAAAAT
5016789 AAAATAAAAT
1 -AAATAAAAT
5016799 AAATAAAAT
1 AAATAAAAT
5016808 AAA
1 AAA
5016811 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:5022364 original size:21 final size:20
Alignment explanation
Indices: 5022313--5022364 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
5022303 AAATCCAAAT
* *
5022313 TAAAATACTAAAATTCAGGA
1 TAAAATACTGAAATTCAGAA
*
5022333 TAAAATTCTGAAATTCAGAA
1 TAAAATACTGAAATTCAGAA
5022353 TAAAAATACTGA
1 T-AAAATACTGA
5022365 TGTAGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGAA
Found at i:5029313 original size:18 final size:19
Alignment explanation
Indices: 5029280--5029316 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5029270 TTGCAATACA
*
5029280 AAAGTAAAAATTAACAATT
1 AAAGTAAAAATGAACAATT
5029299 AAAGTAAAAA-GAACAATT
1 AAAGTAAAAATGAACAATT
5029317 GTAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (19 bp):
AAAGTAAAAATGAACAATT
Found at i:5034669 original size:26 final size:26
Alignment explanation
Indices: 5034633--5034768 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
5034623 CATGATATTC
5034633 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5034659 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5034685 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5034711 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
5034737 TTATCATGGAACATTTACCTAGCCTA
1 TTATCATGAAACATTTACCTAACCCA
5034763 TTATCA
1 TTATCA
5034769 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5036297 original size:41 final size:40
Alignment explanation
Indices: 5036185--5036312 Score: 129
Period size: 37 Copynumber: 3.2 Consensus size: 40
5036175 TACCCAATAC
* *
5036185 CTCATCAGA-TAATTCGAAGTAATAATTTGACACCCAGTGT
1 CTCATCA-ACTAATCCGAAGTAATAAATTGACACCCAGTGT
** * * *
5036225 CTCATCGGCTAAACCGAAG---TAAATTGGCACCCAGTGC
1 CTCATCAACTAATCCGAAGTAATAAATTGACACCCAGTGT
*
5036262 CTCATCTAATTAATCCGAAGTAATAAATTGACACCCAGTGT
1 CTCATC-AACTAATCCGAAGTAATAAATTGACACCCAGTGT
*
5036303 CTCATTAACT
1 CTCATCAACT
5036313 CGAAGTCGAA
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
37 21 0.31
38 9 0.13
40 17 0.25
41 21 0.31
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (40 bp):
CTCATCAACTAATCCGAAGTAATAAATTGACACCCAGTGT
Found at i:5037241 original size:20 final size:20
Alignment explanation
Indices: 5037196--5037242 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
5037186 TTTCTCCTTT
* * *
5037196 TCTTT-TCTTTTTCTTTCTT
1 TCTTTCTCTGTTTCGTTCTA
*
5037215 TCCTTCTCTGTTTCGTTCTA
1 TCTTTCTCTGTTTCGTTCTA
5037235 TCTTTCTC
1 TCTTTCTC
5037243 ATTTTCTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.02, C:0.28, G:0.04, T:0.66
Consensus pattern (20 bp):
TCTTTCTCTGTTTCGTTCTA
Found at i:5037284 original size:5 final size:5
Alignment explanation
Indices: 5037276--5037322 Score: 80
Period size: 5 Copynumber: 9.8 Consensus size: 5
5037266 CTTTTATTAT
5037276 TATAA TATAA TATAA TAT-A -ATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
5037323 CTTAAACATT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 36 0.90
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:5037300 original size:13 final size:14
Alignment explanation
Indices: 5037280--5037322 Score: 70
Period size: 13 Copynumber: 3.1 Consensus size: 14
5037270 TATTATTATA
5037280 ATATAATATAATAT
1 ATATAATATAATAT
5037294 A-ATAATATAATAT
1 ATATAATATAATAT
5037307 AATATAATATAATAT
1 -ATATAATATAATAT
5037322 A
1 A
5037323 CTTAAACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.44
14 3 0.11
15 12 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAATATAATAT
Found at i:5037300 original size:18 final size:18
Alignment explanation
Indices: 5037277--5037315 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
5037267 TTTTATTATT
5037277 ATAATATAATATAATATA
1 ATAATATAATATAATATA
5037295 ATAATATAATATAATATA
1 ATAATATAATATAATATA
5037313 ATA
1 ATA
5037316 TAATATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATATAATATAATATA
Found at i:5037306 original size:23 final size:23
Alignment explanation
Indices: 5037276--5037320 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
5037266 CTTTTATTAT
5037276 TATAATATAATATAATATAATAA
1 TATAATATAATATAATATAATAA
5037299 TATAATATAATATAATATAATA
1 TATAATATAATATAATATAATA
5037321 TACTTAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TATAATATAATATAATATAATAA
Found at i:5043311 original size:2 final size:2
Alignment explanation
Indices: 5043299--5043333 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
5043289 TCAATCTCAC
5043299 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5043334 CACATACCTG
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):
AT
Found at i:5043553 original size:38 final size:38
Alignment explanation
Indices: 5043460--5043595 Score: 152
Period size: 38 Copynumber: 3.5 Consensus size: 38
5043450 CAAACATAAC
* * *
5043460 ACCAGCACGAAGCCTACGGGACTTTAAACTCAGG-TATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTT-AAC-CCGGATATATT
* *
5043500 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
5043538 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT-ATT
*
5043577 -CCAGCA-TATAGCCTGCGGG
1 ACCAGCACGA-AGCCTGCGGG
5043596 TCTTTAAGCC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
37 4 0.05
38 57 0.67
39 6 0.07
40 18 0.21
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:5045655 original size:40 final size:39
Alignment explanation
Indices: 5045611--5045722 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 39
5045601 TTGGATAATT
*
5045611 CGAAGTAATAAGTTGACACCCAGTGTCTCATCGACTAAAC
1 CGAAGTAATAAGTTGACACCCAATG-CTCATCGACTAAAC
* * *
5045651 CGAAGT-A-AA-TTGGCA-CCAATGCCTCATCGAATTAATC
1 CGAAGTAATAAGTTGACACCCAATG-CTCATCG-ACTAAAC
*
5045688 CGAAGTAAT-AGATTGACACCTAATGCTCATCGACT
1 CGAAGTAATAAG-TTGACACCCAATGCTCATCGACT
5045723 CGAGGTCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
36 12 0.21
37 16 0.28
38 4 0.07
39 3 0.05
40 18 0.31
41 5 0.09
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (39 bp):
CGAAGTAATAAGTTGACACCCAATGCTCATCGACTAAAC
Found at i:5046633 original size:18 final size:18
Alignment explanation
Indices: 5046605--5046648 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
5046595 GCTTATTCTT
5046605 TTATT-TATTATAATA-A
1 TTATTATATTATAATATA
5046621 TATATTATATTATAATATA
1 T-TATTATATTATAATATA
5046640 TTATTATAT
1 TTATTATAT
5046649 GCTTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.04
17 4 0.16
18 18 0.72
19 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTATATTATAATATA
Found at i:5055438 original size:14 final size:14
Alignment explanation
Indices: 5055419--5055448 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5055409 TCTACAATTG
*
5055419 TTAATTTAGTGTAT
1 TTAATTTAGTATAT
5055433 TTAATTTAGTATAT
1 TTAATTTAGTATAT
5055447 TT
1 TT
5055449 TTAGACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (14 bp):
TTAATTTAGTATAT
Found at i:5061811 original size:69 final size:70
Alignment explanation
Indices: 5061696--5061829 Score: 216
Period size: 69 Copynumber: 1.9 Consensus size: 70
5061686 TAGTTTATTA
* * * * *
5061696 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGAACAAAATCATGGTG
5061761 CTTAG
66 CTTAG
5061766 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGAACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGAACAAAATCATGGTG
5061830 TTATGTGCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGAACAAAATCATGGTG
CTTAG
Found at i:5062952 original size:45 final size:45
Alignment explanation
Indices: 5062890--5063151 Score: 383
Period size: 45 Copynumber: 5.9 Consensus size: 45
5062880 TTGATTTGAT
*
5062890 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
5062935 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
5062980 TATTTGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
5063025 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
5063070 TATTCGGG-CTTTCGAGCCTAGTAGGCTATAATGCCGGTGA-A-AA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
5063113 GATATCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TAT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
5063152 ATGAATTCAG
Statistics
Matches: 203, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
42 11 0.05
43 16 0.08
44 11 0.05
45 165 0.81
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:5065936 original size:23 final size:21
Alignment explanation
Indices: 5065910--5065958 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
5065900 AAACAAACTG
*
5065910 ACCCATTACAAACTAGACCCAA
1 ACCCATTAC-AACCAGACCCAA
*
5065932 TACCCCTTTACAACCAGACCCAA
1 -A-CCCATTACAACCAGACCCAA
5065955 ACCC
1 ACCC
5065959 CAAAACCCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 3 0.13
22 1 0.04
23 12 0.52
24 7 0.30
ACGTcount: A:0.39, C:0.43, G:0.04, T:0.14
Consensus pattern (21 bp):
ACCCATTACAACCAGACCCAA
Found at i:5065942 original size:24 final size:22
Alignment explanation
Indices: 5065915--5065959 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
5065905 AACTGACCCA
*
5065915 TTACAAACTAGACCCAATACCCCT
1 TTAC-AACCAGACCCAA-ACCCCT
5065939 TTACAACCAGACCCAAACCCC
1 TTACAACCAGACCCAAACCCC
5065960 AAAACCCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.38, C:0.42, G:0.04, T:0.16
Consensus pattern (22 bp):
TTACAACCAGACCCAAACCCCT
Found at i:5067479 original size:11 final size:11
Alignment explanation
Indices: 5067453--5067506 Score: 56
Period size: 11 Copynumber: 4.6 Consensus size: 11
5067443 GTTTTAATAT
5067453 TATATATTTT-
1 TATATATTTTA
*
5067463 TCATATATGTTA
1 T-ATATATTTTA
5067475 TATATAAGTTTTAA
1 TATAT-A-TTTT-A
5067489 TATATATTTTA
1 TATATATTTTA
5067500 TATATAT
1 TATATAT
5067507 ATATATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 1 0.03
11 20 0.54
12 6 0.16
13 4 0.11
14 6 0.16
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (11 bp):
TATATATTTTA
Found at i:5067491 original size:23 final size:23
Alignment explanation
Indices: 5067449--5067503 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
5067439 AAATGTTTTA
*
5067449 ATATTATATAT---TTTTCATAT
1 ATATTATATATAAGTTTTAATAT
*
5067469 ATGTTATATATAAGTTTTAATAT
1 ATATTATATATAAGTTTTAATAT
*
5067492 ATATTTTATATA
1 ATATTATATATA
5067504 TATATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.36
23 18 0.64
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
ATATTATATATAAGTTTTAATAT
Found at i:5067510 original size:17 final size:16
Alignment explanation
Indices: 5067488--5067520 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
5067478 ATAAGTTTTA
5067488 ATATATATTTTATATAT
1 ATATATATTTTA-ATAT
5067505 ATATATATTTTAATAT
1 ATATATATTTTAATAT
5067521 TACTAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATATATTTTAATAT
Found at i:5067580 original size:21 final size:21
Alignment explanation
Indices: 5067489--5067584 Score: 69
Period size: 21 Copynumber: 4.7 Consensus size: 21
5067479 TAAGTTTTAA
5067489 TATATATTTT-ATA-TA-TA-
1 TATATATTTTAATATTACTAT
5067506 TATATATTTTAATATTACTAGT
1 TATATATTTTAATATTACTA-T
* **
5067528 TATAT-TTTTTATGCTACTAT
1 TATATATTTTAATATTACTAT
* *
5067548 ATGTATACTTCTAATATTA-TAT
1 -TATATA-TTTTAATATTACTAT
5067570 TATATATTTCTAATA
1 TATATATTT-TAATA
5067585 CTGTTATTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
17 10 0.17
18 3 0.05
19 2 0.03
20 5 0.08
21 25 0.42
22 8 0.13
23 7 0.12
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (21 bp):
TATATATTTTAATATTACTAT
Found at i:5068840 original size:58 final size:56
Alignment explanation
Indices: 5068771--5068906 Score: 154
Period size: 55 Copynumber: 2.4 Consensus size: 56
5068761 TTAATTCATA
* *
5068771 TAATAACAATTATATTAAGAATTTTA-TTAAA-TTATATATTATTTTGTTAAATTATATT
1 TAATAATAATTATATTAA-AATTTTAGTTAAATTTAT-TA-T-TTTTATTAAATTATATT
* * *
5068829 TAATAATAATTATGTTAAAA-TATAGTTAAATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTATATTAAAATTTTAGTTAAATTTATTATTTTTATTAAATTATATT
5068884 TAATAATAATCT-TATTAAAATTT
1 TAATAATAAT-TATATTAAAATTT
5068907 AATAACAATA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
55 32 0.48
56 6 0.09
57 9 0.13
58 20 0.30
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (56 bp):
TAATAATAATTATATTAAAATTTTAGTTAAATTTATTATTTTTATTAAATTATATT
Found at i:5068845 original size:26 final size:26
Alignment explanation
Indices: 5068815--5068893 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
5068805 TATATTATTT
5068815 TGTTAAATTATATTTAATAATAATTA
1 TGTTAAATTATATTTAATAATAATTA
* * * * *
5068841 TGTTAAAATATAGTTAAATTTATTATTTT
1 TGTTAAATTATA-TTTAA--TAATAATTA
* *
5068870 TATTAAATTATTTTTAATAATAAT
1 TGTTAAATTATATTTAATAATAAT
5068894 CTTATTAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
26 16 0.41
27 4 0.10
28 4 0.10
29 15 0.38
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (26 bp):
TGTTAAATTATATTTAATAATAATTA
Found at i:5081913 original size:15 final size:15
Alignment explanation
Indices: 5081893--5081922 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5081883 GAGTCCTAAG
*
5081893 AAAATAGAATTAGAA
1 AAAATAGAAATAGAA
5081908 AAAATAGAAATAGAA
1 AAAATAGAAATAGAA
5081923 TTTTTAGGAT
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:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAATAGAAATAGAA
Found at i:5083092 original size:15 final size:15
Alignment explanation
Indices: 5083072--5083103 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5083062 CCACGTATCC
5083072 TTGCATTTATCATCT
1 TTGCATTTATCATCT
5083087 TTGCATTTATCATCT
1 TTGCATTTATCATCT
5083102 TT
1 TT
5083104 TTGTTTGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (15 bp):
TTGCATTTATCATCT
Found at i:5086305 original size:27 final size:26
Alignment explanation
Indices: 5086258--5086309 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
5086248 CAAACAATTA
*
5086258 TTTCAAGCCAAAACATGTATAGTTCAT
1 TTTCAAACCAAAACATGTATA-TTCAT
5086285 TTTCAAACACAAAACAT-TATATTCA
1 TTTCAAAC-CAAAACATGTATATTCA
5086310 ACTTACTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 11 0.48
28 8 0.35
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (26 bp):
TTTCAAACCAAAACATGTATATTCAT
Found at i:5086951 original size:52 final size:52
Alignment explanation
Indices: 5086831--5086981 Score: 162
Period size: 52 Copynumber: 2.9 Consensus size: 52
5086821 TATCATACAG
* * * *
5086831 ATGCTATATCCCAGATATGGTATTATACGGAATCACATTATCACATCACACCA
1 ATGCCATAACCCAGCTATGGTCTTATACGGAA-CACATTATCACATCACACCA
* ** *
5086884 ATGCCATAACCCAGCTATGGTCTTATACGGAA-ATATGTATCACATTGCACCG
1 ATGCCATAACCCAGCTATGGTCTTATACGGAACACAT-TATCACATCACACCA
* * *
5086936 ATGCCATAGCTCAGCTATGGTCTTATACGGAAGCACA-TATTACATC
1 ATGCCATAACCCAGCTATGGTCTTATACGGAA-CACATTATCACATC
5086982 TTTTCCGTCA
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
51 3 0.04
52 49 0.60
53 28 0.34
54 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (52 bp):
ATGCCATAACCCAGCTATGGTCTTATACGGAACACATTATCACATCACACCA
Found at i:5087123 original size:24 final size:26
Alignment explanation
Indices: 5087090--5087139 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
5087080 AATGTCCAAT
5087090 TACATAGCCCAA-ATTCAAAACCCTA
1 TACATAGCCCAATATTCAAAACCCTA
*
5087115 TACA-AGCCCAATATTCAAGACCCTA
1 TACATAGCCCAATATTCAAAACCCTA
5087140 AAACCAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.42, C:0.32, G:0.06, T:0.20
Consensus pattern (26 bp):
TACATAGCCCAATATTCAAAACCCTA
Found at i:5087773 original size:24 final size:26
Alignment explanation
Indices: 5087740--5087789 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
5087730 AATGTCCAAT
5087740 TACATAGCCCAA-ATTCAAAACCCTA
1 TACATAGCCCAATATTCAAAACCCTA
*
5087765 TACA-AGCCCAATATTCAAGACCCTA
1 TACATAGCCCAATATTCAAAACCCTA
5087790 AAACCAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.42, C:0.32, G:0.06, T:0.20
Consensus pattern (26 bp):
TACATAGCCCAATATTCAAAACCCTA
Found at i:5089059 original size:20 final size:20
Alignment explanation
Indices: 5089034--5089071 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
5089024 TTTTAAAATT
5089034 TTCTCATACATTGATATTCA
1 TTCTCATACATTGATATTCA
5089054 TTCTCATACATTGATATT
1 TTCTCATACATTGATATT
5089072 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCTCATACATTGATATTCA
Found at i:5089082 original size:20 final size:20
Alignment explanation
Indices: 5089037--5089084 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
5089027 TAAAATTTTC
*
5089037 TCATACATTGATATTCATTC
1 TCATACATTGATATTCATTA
*
5089057 TCATACATTGATATTTATATA
1 TCATACATTGATATTCAT-TA
5089078 T-ATACAT
1 TCATACAT
5089085 ATACATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (20 bp):
TCATACATTGATATTCATTA
Found at i:5090197 original size:131 final size:131
Alignment explanation
Indices: 5090001--5090262 Score: 470
Period size: 131 Copynumber: 2.0 Consensus size: 131
5089991 TAATTATTCA
* *
5090001 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCCATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATGTTCGATGTTTGGCCATTCGGGGAAACGTGCCCTATC
* *
5090066 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATTCCTTTGAAATTTCACTCATGT
66 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGT
5090131 T
131 T
*
5090132 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCCATTCGGGGAAACGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATGTTCGATGTTTGGCCATTCGGGGAAACGTGCCCTATC
*
5090197 GTTCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGT
66 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGT
5090262 T
131 T
5090263 CTCTGAATTC
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATGTTCGATGTTTGGCCATTCGGGGAAACGTGCCCTATC
GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGT
T
Done.