Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 45 of 187
Found at i:13651664 original size:47 final size:46
Alignment explanation
Indices: 13651613--13651758 Score: 124
Period size: 47 Copynumber: 3.2 Consensus size: 46
13651603 TAAAATTCTT
*
13651613 AATAATTATAACTAATAAATTTTCTTATATGAATTTGTATAATTTAA
1 AATAATTATAA-TAATAAATTTTCTTATATGAATTTATATAATTTAA
* ** *
13651660 AATAATTATTATTACATATAA-TTTAATA-AT-AA--TATATAATTTCAT
1 AATAATTA-TAATA-ATA-AATTTTCTTATATGAATTTATATAATTT-AA
* * *
13651705 AA-AATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAA
1 AATAATT-ATAATAATAAATTTTCTTATATGAATTTATATAATTTAA
13651751 AATAATTA
1 AATAATTA
13651759 ATATTAAATA
Statistics
Matches: 75, Mismatches: 13, Indels: 23
0.68 0.12 0.21
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 18 0.24
45 5 0.07
46 5 0.07
47 25 0.33
48 10 0.13
49 2 0.03
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (46 bp):
AATAATTATAATAATAAATTTTCTTATATGAATTTATATAATTTAA
Found at i:13651720 original size:91 final size:91
Alignment explanation
Indices: 13651625--13651832 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
13651615 TAATTATAAC
* * * *
13651625 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
13651690 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
13651716 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
13651781 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
13651807 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
13651833 CTAAAATCAA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 89 0.82
92 20 0.18
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:13651767 original size:44 final size:43
Alignment explanation
Indices: 13651628--13651767 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 43
13651618 TTATAACTAA
* *
13651628 TAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTAT
1 TAAATTTTCTTATATGAATTTATA-AATTTAAAATAATTAATAT
* * * * ** * *
13651672 TACATATAATT-TAATAAT-AATATATAATTTCATAAAATTCTTGATAA
1 TA-A-AT-TTTCTTAT-ATGAATTTATAAATT--TAAAATAATTAATAT
13651719 TAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATAT
1 TAAATTTTCTTATATGAATTTATA-AATTTAAAATAATTAATAT
13651763 TAAAT
1 TAAAT
13651768 ATAATTTAAT
Statistics
Matches: 69, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
44 22 0.32
45 16 0.23
46 15 0.22
47 16 0.23
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (43 bp):
TAAATTTTCTTATATGAATTTATAAATTTAAAATAATTAATAT
Found at i:13651792 original size:44 final size:43
Alignment explanation
Indices: 13651650--13651792 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
13651640 TATGAATTTG
* *
13651650 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
13651694 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
13651741 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
13651785 TATAATTT
1 TATAATTT
13651793 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:13651807 original size:47 final size:47
Alignment explanation
Indices: 13651675--13651813 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
13651665 TTATTATTAC
* *
13651675 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
13651722 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
13651766 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
13651813 A
1 A
13651814 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:13653255 original size:11 final size:11
Alignment explanation
Indices: 13653241--13653267 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13653231 AAAAATCAAT
13653241 ACAAAAGTTTC
1 ACAAAAGTTTC
13653252 ACAAAAGTTTC
1 ACAAAAGTTTC
13653263 ACAAA
1 ACAAA
13653268 CTAAGTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:13654865 original size:33 final size:33
Alignment explanation
Indices: 13654828--13654893 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
13654818 ATCATAAAGC
13654828 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
*
13654861 ATGTATAATTTACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
13654894 TTGTTAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:13655193 original size:37 final size:37
Alignment explanation
Indices: 13655108--13655194 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 37
13655098 GTATAAATAT
* * *
13655108 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
13655145 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
13655182 ATTGATTAGTTTA
1 ATTGATTAGTTTA
13655195 TTTATTTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (37 bp):
ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
Found at i:13656149 original size:26 final size:26
Alignment explanation
Indices: 13656113--13656164 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13656103 TTATTATGGT
13656113 TTATGTTCAAAACACATGCTCTTGAA
1 TTATGTTCAAAACACATGCTCTTGAA
13656139 TTATGTTCAAAACACATGCTCTTGAA
1 TTATGTTCAAAACACATGCTCTTGAA
13656165 ATCATACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
TTATGTTCAAAACACATGCTCTTGAA
Found at i:13656430 original size:23 final size:23
Alignment explanation
Indices: 13656391--13656453 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 23
13656381 TCTACTGACT
13656391 AACAAATCAAGAACAATTTCCAG
1 AACAAATCAAGAACAATTTCCAG
13656414 CAGAC-AATCAA-AACAATTTCCAG
1 -A-ACAAATCAAGAACAATTTCCAG
13656437 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
13656454 ATCAAAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.06
22 7 0.19
23 18 0.50
24 7 0.19
25 2 0.06
ACGTcount: A:0.54, C:0.22, G:0.08, T:0.16
Consensus pattern (23 bp):
AACAAATCAAGAACAATTTCCAG
Found at i:13656498 original size:107 final size:107
Alignment explanation
Indices: 13656380--13656656 Score: 455
Period size: 107 Copynumber: 2.6 Consensus size: 107
13656370 CAATTCCATA
*
13656380 TTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACAATCAAAACAATTTCCAGAACAAATC
1 TTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATTTCCAGAACAAATC
*
13656445 AAGAACAATATCAAAACAAATGCAACAATTTCCAGTTTCATC
66 AAGAACAATATCAAAACAAATGCAACAACTTCCAGTTTCATC
* * *
13656487 TTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAACTGCCAGAACAATTC
1 TTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATTTCCAGAACAAATC
13656552 AAGAACAATATCAAAACAAATGCAACAACTTCCAGTTTCATC
66 AAGAACAATATCAAAACAAATGCAACAACTTCCAGTTTCATC
* * * * * *
13656594 TTCTACTCACTAACAAATCAATAACATTTTCTAGTAGACTATCAAAATAATTTCCAGAACAAA
1 TTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATTTCCAGAACAAA
13656657 CCAACAAAAT
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 156 1.00
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.24
Consensus pattern (107 bp):
TTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATTTCCAGAACAAATC
AAGAACAATATCAAAACAAATGCAACAACTTCCAGTTTCATC
Found at i:13662124 original size:5 final size:5
Alignment explanation
Indices: 13662114--13662170 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
13662104 TTTACTTAAG
13662114 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
13662164 TATTA TA
1 TATTA TA
13662171 ATGATAGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:13662252 original size:20 final size:19
Alignment explanation
Indices: 13662182--13662253 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 19
13662172 TGATAGAATA
*
13662182 AAAGAAAAAGAAAGA-AAG
1 AAAGAAAGAGAAAGAGAAG
* *
13662200 AAAGAAACAGAGAAGCAAAACG
1 AAAGAAAGAGA-AAG-AGAA-G
13662222 -AA-AAAGAGAAAGAGAAG
1 AAAGAAAGAGAAAGAGAAG
13662239 AAAGAAAGGAGAAAG
1 AAAGAAA-GAGAAAG
13662254 CAAGGCTTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.02
18 15 0.34
19 9 0.20
20 14 0.32
21 4 0.09
22 1 0.02
ACGTcount: A:0.69, C:0.04, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAGAAAGAGAAG
Found at i:13662963 original size:24 final size:26
Alignment explanation
Indices: 13662909--13662963 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
13662899 GTGTTTTGCA
13662909 ATTGAAATGGATTGATTTAGTATGTG
1 ATTGAAATGGATTGATTTAGTATGTG
*
13662935 A-TGAAAT-TATTGAATTTA-TAT-TG
1 ATTGAAATGGATTG-ATTTAGTATGTG
13662958 ATTGAA
1 ATTGAA
13662964 TTGGTATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.12
24 11 0.42
25 11 0.42
26 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (26 bp):
ATTGAAATGGATTGATTTAGTATGTG
Found at i:13663165 original size:41 final size:39
Alignment explanation
Indices: 13663121--13663261 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 39
13663111 GACTTCGAGT
*
13663121 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATT-ATC
* * * * *
13663162 CGATGAGGCACTGGTTGCCAA-TT-TACTTCGGTTTTTAGC
1 CGATGAGACACTGGGTGTCAATTTATACTTCGG--ATTATC
* * * *
13663201 CAATGAGACACTGGGTGTCAGTTTATTATTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTATC
* *
13663241 CGATGAGGCATTGGGTGTCAA
1 CGATGAGACACTGGGTGTCAA
13663262 ACTGGTGTGT
Statistics
Matches: 76, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
38 8 0.11
39 17 0.22
40 27 0.36
41 18 0.24
42 6 0.08
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCGGATTATC
Found at i:13664457 original size:29 final size:28
Alignment explanation
Indices: 13664401--13664507 Score: 83
Period size: 28 Copynumber: 3.8 Consensus size: 28
13664391 AATTTTTAAA
* * * *
13664401 AATTCAAAAATTCAAAAAGTTTATAAAT
1 AATTTAAAAATTCAAAAAATATAGAAAT
*
13664429 AATTTAAAAATTCAGAAAATATAGGAAAT
1 AATTTAAAAATTCAAAAAATATA-GAAAT
* ** ** *
13664458 CATTTAAATTTTCTCAATAT-TAGAAA-
1 AATTTAAAAATTCAAAAAATATAGAAAT
13664484 AATATTAAAAATTCAAAAAATATA
1 AAT-TTAAAAATTCAAAAAATATA
13664508 ATTTTTGAAA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
26 2 0.03
27 16 0.27
28 23 0.39
29 18 0.31
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (28 bp):
AATTTAAAAATTCAAAAAATATAGAAAT
Found at i:13665362 original size:14 final size:14
Alignment explanation
Indices: 13665343--13665370 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13665333 CACTTCCTCC
13665343 ATAGAAATATCATA
1 ATAGAAATATCATA
13665357 ATAGAAATATCATA
1 ATAGAAATATCATA
13665371 TACCAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
ATAGAAATATCATA
Found at i:13671543 original size:76 final size:76
Alignment explanation
Indices: 13671447--13671600 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 76
13671437 GACAAGAATA
* *
13671447 ACGACCTTAGGGTTGGCTTTACTTTAGATTTGTAGATGATATTAGTAAACCCATTGCTAATCTTA
1 ACGACCTTAGGGCTGGCTTTACTTTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
13671512 CCTTACCAACC
66 CCTTACCAACC
*
13671523 ACGACCTTGGGGCTGGCTTTACTTTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
1 ACGACCTTAGGGCTGGCTTTACTTTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
13671588 CCTTACCAACC
66 CCTTACCAACC
13671599 AC
1 AC
13671601 ATTTTTCTGG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (76 bp):
ACGACCTTAGGGCTGGCTTTACTTTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
CCTTACCAACC
Found at i:13677259 original size:2 final size:2
Alignment explanation
Indices: 13677252--13677296 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
13677242 ATTCTAGATT
*
13677252 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13677294 TA T
1 TA T
13677297 GTATGTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13677958 original size:21 final size:21
Alignment explanation
Indices: 13677908--13677958 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13677898 TTACACCATG
*
13677908 TTGTGGATAAACCACTCATCA
1 TTGTGGATGAACCACTCATCA
* *
13677929 TTGTGGATGAACTACTTATCA
1 TTGTGGATGAACCACTCATCA
13677950 TTGTGGATG
1 TTGTGGATG
13677959 CGGTGCAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (21 bp):
TTGTGGATGAACCACTCATCA
Found at i:13678256 original size:21 final size:21
Alignment explanation
Indices: 13678232--13678278 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
13678222 ACGGCATGGG
* *
13678232 TAAACCACTCATC-GATGTAGA
1 TAAACCACTAATCTG-TGCAGA
13678253 TAAACCACTAATCTGTGCAGA
1 TAAACCACTAATCTGTGCAGA
13678274 TAAAC
1 TAAAC
13678279 TGCTCTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (21 bp):
TAAACCACTAATCTGTGCAGA
Found at i:13678368 original size:34 final size:34
Alignment explanation
Indices: 13678329--13678405 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
13678319 TGCAATATGG
*
13678329 CATGCTTATAACAGATCAATACGGTAGCAATAA-A
1 CATGCTTATAACAGATCAATACAGTAGCAA-AAGA
* *
13678363 CATGCTTATAACAGATCAATATAGTAGCAAAAGT
1 CATGCTTATAACAGATCAATACAGTAGCAAAAGA
13678397 CATGCTTAT
1 CATGCTTAT
13678406 CATGTATTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 2 0.05
34 37 0.95
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
CATGCTTATAACAGATCAATACAGTAGCAAAAGA
Found at i:13679234 original size:5 final size:5
Alignment explanation
Indices: 13679224--13679260 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
13679214 TAAGAATGAG
13679224 AGAAA AGAAA AGAGAA AGAAA AGAGAA AGAAA AGAAA
1 AGAAA AGAAA AGA-AA AGAAA AGA-AA AGAAA AGAAA
13679261 TAGGAGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:13679243 original size:11 final size:11
Alignment explanation
Indices: 13679222--13679258 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
13679212 TGTAAGAATG
13679222 AGAGAAAAGAAA
1 AGAG-AAAGAAA
13679234 AGAGAAAGAAA
1 AGAGAAAGAAA
13679245 AGAGAAAGAAA
1 AGAGAAAGAAA
13679256 AGA
1 AGA
13679259 AATAGGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AGAGAAAGAAA
Found at i:13679245 original size:16 final size:16
Alignment explanation
Indices: 13679224--13679260 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
13679214 TAAGAATGAG
13679224 AGAAAAGAAAAGAGAA
1 AGAAAAGAAAAGAGAA
13679240 AGAAAAGAGAAAGA-AA
1 AGAAAAGA-AAAGAGAA
13679256 AGAAA
1 AGAAA
13679261 TAGGAGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAAGAGAA
Found at i:13688166 original size:2 final size:2
Alignment explanation
Indices: 13688159--13688186 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13688149 TAACTTTGAC
13688159 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
13688187 TAGTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13696197 original size:20 final size:20
Alignment explanation
Indices: 13696172--13696217 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
13696162 ATATTTATTG
*
13696172 TTAAATAAATATTATACTTT
1 TTAAATAAATATTATAATTT
* *
13696192 TTAAAT-ACTTTTATAATTT
1 TTAAATAAATATTATAATTT
13696211 TTAAATA
1 TTAAATA
13696218 CTTTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAATAAATATTATAATTT
Found at i:13696201 original size:11 final size:11
Alignment explanation
Indices: 13696185--13696225 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
13696175 AATAAATATT
13696185 ATACTTTTTAA
1 ATACTTTTTAA
13696196 ATAC-TTTT--
1 ATACTTTTTAA
*
13696204 ATAATTTTTAA
1 ATACTTTTTAA
13696215 ATACTTTTTAA
1 ATACTTTTTAA
13696226 TTTAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 3 0.12
9 4 0.16
10 4 0.16
11 14 0.56
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (11 bp):
ATACTTTTTAA
Found at i:13696226 original size:18 final size:19
Alignment explanation
Indices: 13696183--13696228 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
13696173 TAAATAAATA
*
13696183 TTATACTTTTTAAATACTT
1 TTATAATTTTTAAATACTT
13696202 TTATAATTTTTAAATACTT
1 TTATAATTTTTAAATACTT
13696221 TT-TAATTT
1 TTATAATTT
13696229 AAAGAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATAATTTTTAAATACTT
Found at i:13696236 original size:19 final size:19
Alignment explanation
Indices: 13696194--13696236 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13696184 TATACTTTTT
**
13696194 AAATACTTTTATAATTTTT
1 AAATACTTTTATAATTTAA
13696213 AAATACTTTT-TAATTTAA
1 AAATACTTTTATAATTTAA
13696231 AGAATA
1 A-AATA
13696237 ATTAGTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (19 bp):
AAATACTTTTATAATTTAA
Found at i:13700345 original size:19 final size:20
Alignment explanation
Indices: 13700305--13700353 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
13700295 TAGACTAAAA
13700305 TATCGATACTCTACATAAGGG
1 TATCGATACTCTACA-AAGGG
*
13700326 TATCGATACTTTAC-AAGGG
1 TATCGATACTCTACAAAGGG
*
13700345 TATCAATAC
1 TATCGATAC
13700354 ATTTGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 13 0.50
21 13 0.50
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
TATCGATACTCTACAAAGGG
Found at i:13701735 original size:21 final size:22
Alignment explanation
Indices: 13701709--13701758 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
13701699 CAAAACTTAA
*
13701709 TTAATTAAAT-TAA-ATTAAATC
1 TTAATTAAATCTAATACTAAA-C
13701730 TTAATT-AATCTAATACTAAAC
1 TTAATTAAATCTAATACTAAAC
13701751 TTAATTAA
1 TTAATTAA
13701759 TCGAAAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 16 0.64
22 6 0.24
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATTAAATCTAATACTAAAC
Found at i:13706789 original size:19 final size:20
Alignment explanation
Indices: 13706765--13706803 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13706755 AATGTACCTA
13706765 TACCCT-TGTAAAGTATCAG
1 TACCCTATGTAAAGTATCAG
*
13706784 TACCCTAATGTAGAGTATCA
1 TACCCT-ATGTAAAGTATCA
13706804 ATACTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (20 bp):
TACCCTATGTAAAGTATCAG
Found at i:13713303 original size:22 final size:24
Alignment explanation
Indices: 13713266--13713309 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
13713256 TAATTTATAG
13713266 AGAGAAGAGAAGAGAAAATAAAAT
1 AGAGAAGAGAAGAGAAAATAAAAT
*
13713290 AGAGAA-AG-AGAGAACATAAA
1 AGAGAAGAGAAGAGAAAATAAA
13713310 GAAATTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (24 bp):
AGAGAAGAGAAGAGAAAATAAAAT
Found at i:13726650 original size:20 final size:20
Alignment explanation
Indices: 13726631--13726686 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 20
13726621 TTTGTGAATA
13726631 AAAAAATAA-AAATAAAAAT
1 AAAAAATAAGAAATAAAAAT
*
13726650 AAGAAATAAGAAAT--AAAT
1 AAAAAATAAGAAATAAAAAT
*
13726668 AAGAAAT-AGAAATTAAAAA
1 AAAAAATAAGAAA-TAAAAA
13726687 AACAAGTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.16
18 12 0.38
19 8 0.25
20 7 0.22
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (20 bp):
AAAAAATAAGAAATAAAAAT
Found at i:13726654 original size:38 final size:38
Alignment explanation
Indices: 13726580--13726654 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
13726570 AGAAATAAAC
* **
13726580 AAATTTAGTAATAAAGAAATAAAAAATAGTAAAAGAAG
1 AAATTTAGTAATAAAAAAATAAAAAATAAAAAAAGAAG
13726618 AAATTT-GTGAATAAAAAAAT-AAAAATAAAAATAAGAA
1 AAATTTAGT-AATAAAAAAATAAAAAATAAAAA-AAGAA
13726655 ATAAGAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 11 0.34
38 21 0.66
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (38 bp):
AAATTTAGTAATAAAAAAATAAAAAATAAAAAAAGAAG
Found at i:13726674 original size:7 final size:7
Alignment explanation
Indices: 13726634--13726680 Score: 52
Period size: 6 Copynumber: 7.6 Consensus size: 7
13726624 GTGAATAAAA
13726634 AAATAA-
1 AAATAAG
13726640 AAATAA-
1 AAATAAG
13726646 AAATAAG
1 AAATAAG
13726653 AAATAAG
1 AAATAAG
13726660 AAAT---
1 AAATAAG
13726664 AAATAAG
1 AAATAAG
13726671 AAAT-AG
1 AAATAAG
13726677 AAAT
1 AAAT
13726681 TAAAAAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.11
6 18 0.49
7 15 0.41
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (7 bp):
AAATAAG
Found at i:13726684 original size:18 final size:18
Alignment explanation
Indices: 13726646--13726680 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13726636 ATAAAAATAA
13726646 AAATAAGAAATAAGAAAT
1 AAATAAGAAATAAGAAAT
13726664 AAATAAGAAAT-AGAAAT
1 AAATAAGAAATAAGAAAT
13726681 TAAAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AAATAAGAAATAAGAAAT
Found at i:13729287 original size:79 final size:79
Alignment explanation
Indices: 13729156--13729382 Score: 294
Period size: 79 Copynumber: 2.9 Consensus size: 79
13729146 ACATGCACGA
* ** * * *
13729156 TTATAAATCAGAATCAGTAACAAGCAATTTAACATATGT-AGATATCGTATATTCTTCATCAATA
1 TTATAAATCAGAATCAGTAACAATCAATCCAACAT-TTTCAGATATCGCATATTCTTCATCAACA
*
13729220 GAGTAACATAAAAGG
65 GAATAACATAAAAGG
* * *
13729235 TTATAAATTAGAATCGGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTTATCAACAG
1 TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
** *
13729300 AATAATGTAAAGGG
66 AATAACATAAAAGG
* * *
13729314 CTATAAATCAAAATCAGTAACAATCAATCCAACATTTTCAAATATCGCATATTCTTCATCAACAG
1 TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
13729379 AATA
66 AATA
13729383 GCGCAGAGGC
Statistics
Matches: 128, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
78 2 0.02
79 126 0.98
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.30
Consensus pattern (79 bp):
TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
AATAACATAAAAGG
Found at i:13738397 original size:16 final size:16
Alignment explanation
Indices: 13738369--13738401 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
13738359 AAGGGTACAG
13738369 TAAAGTATTAAAAAAA
1 TAAAGTATTAAAAAAA
13738385 TAAA-TATTAAAAAAA
1 TAAAGTATTAAAAAAA
13738400 TA
1 TA
13738402 CATGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
TAAAGTATTAAAAAAA
Found at i:13741406 original size:24 final size:24
Alignment explanation
Indices: 13741378--13741429 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13741368 TTAGTAGTTC
*
13741378 AAATAAACTATGCTAATAAATACT
1 AAATAAACTATACTAATAAATACT
* *
13741402 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13741426 AAAT
1 AAAT
13741430 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13749030 original size:18 final size:20
Alignment explanation
Indices: 13748995--13749040 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13748985 TAGTAATTTT
*
13748995 TTATTAAAATTGTTAG-AAA
1 TTATTAAAATTATTAGAAAA
13749014 TTATTAAAA-TATTAGAAAA
1 TTATTAAAATTATTAGAAAA
13749033 TT-TTAAAA
1 TTATTAAAA
13749041 AATGTCCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
TTATTAAAATTATTAGAAAA
Found at i:13751472 original size:15 final size:15
Alignment explanation
Indices: 13751452--13751485 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
13751442 AATCATCTTC
13751452 AACCACAAGTATTTT
1 AACCACAAGTATTTT
13751467 AACCACAAGTATTTT
1 AACCACAAGTATTTT
13751482 AACC
1 AACC
13751486 TAGTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (15 bp):
AACCACAAGTATTTT
Found at i:13755413 original size:30 final size:30
Alignment explanation
Indices: 13755373--13755450 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 30
13755363 TTTTATTTAT
*
13755373 TATATTTACTTATTATAATATATAATATAA
1 TATATATACTTATTATAATATATAATATAA
* *
13755403 TATATATACTTA--ATAAT-TAAAATCTAA
1 TATATATACTTATTATAATATATAATATAA
*
13755430 TAT-TATA-ATATTATAATATAT
1 TATATATACTTATTATAATATAT
13755451 TTTTTAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
25 2 0.05
26 4 0.10
27 16 0.40
28 7 0.17
30 11 0.28
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (30 bp):
TATATATACTTATTATAATATATAATATAA
Found at i:13758171 original size:3 final size:3
Alignment explanation
Indices: 13758163--13758289 Score: 211
Period size: 3 Copynumber: 42.3 Consensus size: 3
13758153 ACTTTGTTAT
*
13758163 TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC -TC TGTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC
* *
13758208 TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
13758256 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
13758290 CACACTTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.02
3 111 0.96
4 3 0.03
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:13761708 original size:16 final size:16
Alignment explanation
Indices: 13761687--13761722 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13761677 TCTTTCTCTT
*
13761687 TTTCTTTTTCTTTTTG
1 TTTCTTTTTCTTTTTA
*
13761703 TTTCTTTTTGTTTTTA
1 TTTCTTTTTCTTTTTA
13761719 TTTC
1 TTTC
13761723 GTTTAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.11, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTA
Found at i:13762114 original size:14 final size:14
Alignment explanation
Indices: 13762097--13762123 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13762087 ATATTTGTAA
13762097 TTTGAAAACTTAAG
1 TTTGAAAACTTAAG
13762111 TTTGAAAACTTAA
1 TTTGAAAACTTAA
13762124 TAAATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
TTTGAAAACTTAAG
Found at i:13762252 original size:13 final size:13
Alignment explanation
Indices: 13762217--13762254 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
13762207 GAGATATTTG
13762217 TAATTTGAAAACT
1 TAATTTGAAAACT
13762230 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
13762244 TAATTTGAAAA
1 TAATTTGAAAA
13762255 TTTGGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:13762555 original size:34 final size:34
Alignment explanation
Indices: 13762507--13762685 Score: 227
Period size: 34 Copynumber: 5.3 Consensus size: 34
13762497 TTTCTTGTCT
* *
13762507 TTTCTTGCAAGGAATATTTCCTGTTCATGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
* *
13762541 TTTCTTGCAGGGAATCTTTCTTGTTCACGC-TCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
* *
13762574 TTTCTTTCAGGGAATCTTTCCTGTTCACCT-CATCT
1 TTTCTTGCAGGGAATCTTTCCTGTTCA--TGCATCA
13762609 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
* * ** *
13762643 TTCCTTGCAGGGAATCTTTCATGTTCACACATCT
1 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
13762677 TTTCTTGCA
1 TTTCTTGCA
13762686 TCATTTCTTC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
33 29 0.23
34 68 0.54
35 28 0.22
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
Found at i:13765526 original size:20 final size:23
Alignment explanation
Indices: 13765491--13765535 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
13765481 GAACAAATTG
13765491 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
13765513 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
13765534 TT
1 TT
13765536 CTTTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:13765592 original size:21 final size:23
Alignment explanation
Indices: 13765568--13765610 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
13765558 TAATTTTTTT
*
13765568 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
13765589 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
13765611 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:13769693 original size:5 final size:5
Alignment explanation
Indices: 13769678--13769708 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
13769668 AAATTCATAA
13769678 GCCCGG GCCCG GCCCG GCCCG GCCCG GCCCG
1 GCCC-G GCCCG GCCCG GCCCG GCCCG GCCCG
13769709 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.00, C:0.58, G:0.42, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:13769792 original size:17 final size:17
Alignment explanation
Indices: 13769770--13769835 Score: 87
Period size: 17 Copynumber: 3.6 Consensus size: 17
13769760 AAAAAGTATT
*
13769770 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
13769787 TTAAAAAAATTTTAAAAAAAA
1 TTAAAAAAATTTT----AAAA
13769808 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
13769825 TTAAAAAAATT
1 TTAAAAAAATT
13769836 AAAAAAGTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
17 27 0.61
21 17 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:13769797 original size:9 final size:9
Alignment explanation
Indices: 13769783--13769841 Score: 66
Period size: 9 Copynumber: 6.3 Consensus size: 9
13769773 AAAATATTTT
13769783 AAAATTAAA
1 AAAATTAAA
13769792 AAAATTTTAAAA
1 AAAA--TT-AAA
13769804 AAAATTAAA
1 AAAATTAAA
**
13769813 AAAATT-TT
1 AAAATTAAA
13769821 AAAATTAAA
1 AAAATTAAA
13769830 AAAATTAAA
1 AAAATTAAA
13769839 AAA
1 AAA
13769842 GTATTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 6 0.14
9 25 0.60
10 2 0.05
11 2 0.05
12 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATTAAA
Found at i:13769801 original size:11 final size:11
Alignment explanation
Indices: 13769787--13769824 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
13769777 TATTTTAAAA
13769787 TTAAAAAAATT
1 TTAAAAAAATT
*
13769798 TTAAAAAAA-A
1 TTAAAAAAATT
13769808 TTAAAAAAATT
1 TTAAAAAAATT
13769819 TTAAAA
1 TTAAAA
13769825 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:13769803 original size:10 final size:10
Alignment explanation
Indices: 13769767--13769824 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
13769757 TAAAAAAAGT
13769767 ATTTTAAAAA
1 ATTTTAAAAA
13769777 TATTTT--AAA
1 -ATTTTAAAAA
*
13769786 A-TTAAAAAA
1 ATTTTAAAAA
13769795 ATTTTAAAAAA
1 ATTTT-AAAAA
* *
13769806 AATTAAAAAA
1 ATTTTAAAAA
13769816 ATTTTAAAA
1 ATTTTAAAA
13769825 TTAAAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
7 2 0.05
8 1 0.03
9 7 0.19
10 14 0.38
11 13 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:13769809 original size:21 final size:21
Alignment explanation
Indices: 13769783--13769824 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13769773 AAAATATTTT
13769783 AAAATTAAAAAAATTTTAAAA
1 AAAATTAAAAAAATTTTAAAA
13769804 AAAATTAAAAAAATTTTAAAA
1 AAAATTAAAAAAATTTTAAAA
13769825 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTAAAAAAATTTTAAAA
Found at i:13769812 original size:38 final size:37
Alignment explanation
Indices: 13769733--13769878 Score: 136
Period size: 38 Copynumber: 3.7 Consensus size: 37
13769723 ACCAAAAATT
13769733 TATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTAAAAAAA-TATT--AAAAA
13769777 TATTTTAAAATTAAAAAAATTTTAAAAAAA-ATTAAAAA
1 TATTTTAAAATTAAAAAAA--TTAAAAAAATATTAAAAA
* * *
13769815 AATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAATTAAAAAA--ATATTAAAAA
*
13769854 TATTTTAAAGTT-AAAAAA-TAAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAA
13769879 TAAAAATATT
Statistics
Matches: 92, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
36 8 0.09
37 7 0.08
38 30 0.33
39 16 0.17
40 8 0.09
41 2 0.02
42 9 0.10
43 6 0.07
44 6 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (37 bp):
TATTTTAAAATTAAAAAAATTAAAAAAATATTAAAAA
Found at i:13769852 original size:11 final size:11
Alignment explanation
Indices: 13769838--13769862 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13769828 AAAAAATTAA
13769838 AAAAGTATTTT
1 AAAAGTATTTT
13769849 AAAAGTATTTT
1 AAAAGTATTTT
13769860 AAA
1 AAA
13769863 GTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:13770164 original size:17 final size:17
Alignment explanation
Indices: 13770142--13770177 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13770132 CTATGTCTTT
13770142 AACATGCCAAGGTATAA
1 AACATGCCAAGGTATAA
13770159 AACATGCCAAGGTATAA
1 AACATGCCAAGGTATAA
13770176 AA
1 AA
13770178 TATCTAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (17 bp):
AACATGCCAAGGTATAA
Found at i:13770534 original size:23 final size:23
Alignment explanation
Indices: 13770508--13770551 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
13770498 CGACATGATT
13770508 GGTGCAAATGAAAGTGGCACTTC
1 GGTGCAAATGAAAGTGGCACTTC
13770531 GGTGCAAATGAAAGTGGCACT
1 GGTGCAAATGAAAGTGGCACT
13770552 AATGGCACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (23 bp):
GGTGCAAATGAAAGTGGCACTTC
Found at i:13774814 original size:9 final size:9
Alignment explanation
Indices: 13774779--13774873 Score: 52
Period size: 9 Copynumber: 10.2 Consensus size: 9
13774769 ACAAAAATTT
13774779 ATTA-AAAA
1 ATTATAAAA
*
13774787 AATATAAAA
1 ATTATAAAA
*
13774796 ATCA-ATAAA
1 ATTATA-AAA
13774805 ATTATAAAA
1 ATTATAAAA
**
13774814 ATTATAACTT
1 ATTATAA-AA
*
13774824 ATAATAAAA
1 ATTATAAAA
13774833 ATT-TAAAAA
1 ATTAT-AAAA
13774842 ATTTATTAAAA
1 A-TTA-TAAAA
* *
13774853 ATAGAAAAAA
1 AT-TATAAAA
13774863 ATTATAAAA
1 ATTATAAAA
13774872 AT
1 AT
13774874 CGTAAAATAT
Statistics
Matches: 64, Mismatches: 14, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
8 5 0.08
9 36 0.56
10 16 0.25
11 6 0.09
12 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
ATTATAAAA
Found at i:13774851 original size:20 final size:19
Alignment explanation
Indices: 13774827--13774873 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
13774817 ATAACTTATA
** *
13774827 ATAAAAATTTAAAAAATTT
1 ATAAAAATAGAAAAAAATT
13774846 ATTAAAAATAGAAAAAAATT
1 A-TAAAAATAGAAAAAAATT
13774866 ATAAAAAT
1 ATAAAAAT
13774874 CGTAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAATAGAAAAAAATT
Found at i:13774880 original size:20 final size:18
Alignment explanation
Indices: 13774779--13774873 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
13774769 ACAAAAATTT
13774779 ATTAAAAAAA-TATAAAA
1 ATTAAAAAAATTATAAAA
* *
13774796 ATCAATAAAATTATAAAA
1 ATTAAAAAAATTATAAAA
*** *
13774814 ATTATAACTTATAATAAAA
1 ATTA-AAAAAATTATAAAA
*
13774833 ATTTAAAAAATTTATTAAAA
1 A-TTAAAAAAATTA-TAAAA
*
13774853 ATAGAAAAAAATTATAAAA
1 AT-TAAAAAAATTATAAAA
13774872 AT
1 AT
13774874 CGTAAAATAT
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
17 8 0.14
18 10 0.17
19 22 0.38
20 18 0.31
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (18 bp):
ATTAAAAAAATTATAAAA
Found at i:13776632 original size:39 final size:38
Alignment explanation
Indices: 13776559--13776636 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 38
13776549 TAATTAATTC
13776559 ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
1 ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
* * *
13776597 ATGGAAGGCATTAC-TAAGGATTATCATTTGCTTTTTTTT
1 ATGGAAGACATTACTTAA--ATTATCATTCGATTTTTTTT
13776636 A
1 A
13776637 ATAAAGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 3 0.09
38 13 0.37
39 19 0.54
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.46
Consensus pattern (38 bp):
ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
Found at i:13778350 original size:2 final size:2
Alignment explanation
Indices: 13778343--13778367 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13778333 TCAAAAAGAA
13778343 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
13778368 GTTGATTGAT
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:13779172 original size:1 final size:1
Alignment explanation
Indices: 13779166--13779190 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13779156 TTCTTTAGTG
13779166 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
13779191 GCAGTTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13779686 original size:25 final size:25
Alignment explanation
Indices: 13779652--13779702 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
13779642 CTTAGTCTAG
13779652 TTTCACTTCACTGCATTTCTCATAT
1 TTTCACTTCACTGCATTTCTCATAT
13779677 TTTCACTTCACTGCATTTCTCATAT
1 TTTCACTTCACTGCATTTCTCATAT
13779702 T
1 T
13779703 CTTTTTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.04, T:0.49
Consensus pattern (25 bp):
TTTCACTTCACTGCATTTCTCATAT
Found at i:13780914 original size:16 final size:16
Alignment explanation
Indices: 13780895--13780927 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13780885 AAATGAAATG
13780895 ATGAAAAT-AAAAGAAA
1 ATGAAAATGAAAA-AAA
13780911 ATGAAAATGAAAAAAA
1 ATGAAAATGAAAAAAA
13780927 A
1 A
13780928 GGGATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAAATGAAAAAAA
Found at i:13785598 original size:2 final size:2
Alignment explanation
Indices: 13785591--13785629 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
13785581 GCCATATACT
*
13785591 TA TA TA TA TA TA TA TA TA TA TA TA TA CA 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
13785630 CTCAAAATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13786467 original size:25 final size:25
Alignment explanation
Indices: 13786337--13786489 Score: 109
Period size: 25 Copynumber: 6.2 Consensus size: 25
13786327 CTGTATAACA
* * *
13786337 GGAAGCTCATGCGAGCCAATAAT-G
1 GGAAGCTCAAGAGAGCCATTAATCG
*
13786361 GGAAGCTTCGA-AGAGCCATTAATCG
1 GGAAGC-TCAAGAGAGCCATTAATCG
** *
13786386 GGAAGCTCCGGATAGCCA-TATATCG
1 GGAAGCTCAAGAGAGCCATTA-ATCG
* * **
13786411 GGAAGTTCAAGCGAGCCA-T-ATTA
1 GGAAGCTCAAGAGAGCCATTAATCG
*
13786434 GGAAGCTCAAGAGAGCCATTAATCT
1 GGAAGCTCAAGAGAGCCATTAATCG
* * *
13786459 GGAAGCTCACAAAGAGCCTTTAATAG
1 GGAAGCTCA-AGAGAGCCATTAATCG
13786485 GGAAG
1 GGAAG
13786490 TTTCGAAGAA
Statistics
Matches: 100, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
23 18 0.18
24 21 0.21
25 44 0.44
26 17 0.17
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (25 bp):
GGAAGCTCAAGAGAGCCATTAATCG
Found at i:13786481 original size:26 final size:25
Alignment explanation
Indices: 13786434--13786482 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
13786424 AGCCATATTA
*
13786434 GGAAGCTCAAGAGAGCCATTAATCT
1 GGAAGCTCAAAAGAGCCATTAATCT
*
13786459 GGAAGCTCACAAAGAGCCTTTAAT
1 GGAAGCTCA-AAAGAGCCATTAAT
13786483 AGGGAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (25 bp):
GGAAGCTCAAAAGAGCCATTAATCT
Found at i:13789841 original size:806 final size:806
Alignment explanation
Indices: 13788289--13789902 Score: 3201
Period size: 806 Copynumber: 2.0 Consensus size: 806
13788279 GAGGTGCTAA
13788289 GAGACCCTTAATTGTAATGACTCGGTTTCCAATGATGTTGAAAAATGTGATTTCGGAGTCTCACT
1 GAGACCCTTAATTGTAATGACTCGGTTTCCAATGATGTTGAAAAATGTGATTTCGGAGTCTCACT
13788354 TGCATAAACTGAGTCTGTAAATATAAAATAAGAATATTTACATTAGAAAAATATATTAAAGTTCG
66 TGCATAAACTGAGTCTGTAAATATAAAATAAGAATATTTACATTAGAAAAATATATTAAAGTTCG
*
13788419 GTTAAGTAATTTAGTCGAAAAAATAGTTAATTAAGGCTTATGGACTAAATTGTAAAAGTTTAATC
131 GTTAAGTAATTTAGTCGAAAAAATAGTTAATTAAGGCTTATGGACTAAATTGTAAAAGTTCAATC
*
13788484 TTTATTGAGTTTTAATTAAGAAAAGGTTTGAGGACTTATATAGCAATTATCCAAAGAACTAAAAT
196 TCTATTGAGTTTTAATTAAGAAAAGGTTTGAGGACTTATATAGCAATTATCCAAAGAACTAAAAT
13788549 GGTTAATAAACCAATTTTAATTAGTGGATAGTGGACTTTGATGATGATGTCCCTTTAATTTGTGT
261 GGTTAATAAACCAATTTTAATTAGTGGATAGTGGACTTTGATGATGATGTCCCTTTAATTTGTGT
13788614 AATTAGGATTAACGAAAATAATTTAGATTAATTAAAGTAATAAATCACAATTAACTAAATTAATC
326 AATTAGGATTAACGAAAATAATTTAGATTAATTAAAGTAATAAATCACAATTAACTAAATTAATC
13788679 AAGATTAAACCTTAGTATAACTAGCTCAATTTAGTGGAAAGAAAGATGAAAAGCAATTTTTCTTC
391 AAGATTAAACCTTAGTATAACTAGCTCAATTTAGTGGAAAGAAAGATGAAAAGCAATTTTTCTTC
13788744 CTCCACCATCAAACAAAAAGAAAAGAAAGGAGAAAAACCTCCATTGCTGAAAGCTCTATTCAGTC
456 CTCCACCATCAAACAAAAAGAAAAGAAAGGAGAAAAACCTCCATTGCTGAAAGCTCTATTCAGTC
13788809 ATTATTTCAAATAAGTCTCTAAGTCATTTTTCTTTGATTTTTATGGAAATTGAATCATGAGAGCT
521 ATTATTTCAAATAAGTCTCTAAGTCATTTTTCTTTGATTTTTATGGAAATTGAATCATGAGAGCT
13788874 TGATTTAGCTAGCTTATGTATCAATTTGATCAATTTTTGAAATTTTAGTAAGTTATCATTGTTGA
586 TGATTTAGCTAGCTTATGTATCAATTTGATCAATTTTTGAAATTTTAGTAAGTTATCATTGTTGA
13788939 GAAATTGATGAATTAGGCTTGAATTTGATTTATATTAAGTTTAGATTATGAAAATGACTAAATTG
651 GAAATTGATGAATTAGGCTTGAATTTGATTTATATTAAGTTTAGATTATGAAAATGACTAAATTG
13789004 TAAAGCTTAATAAACTTGGATGTCAACTTTGTAACATTAGGGATCAAATTGAATAAAGTGAAAAC
716 TAAAGCTTAATAAACTTGGATGTCAACTTTGTAACATTAGGGATCAAATTGAATAAAGTGAAAAC
13789069 CTATCATGACATTATGCTAGGAATAG
781 CTATCATGACATTATGCTAGGAATAG
13789095 GAGACCCTTAATTGTAATGACTCGGTTTCCAATGATGTTGAAAAATGTGATTTCGGAGTCTCACT
1 GAGACCCTTAATTGTAATGACTCGGTTTCCAATGATGTTGAAAAATGTGATTTCGGAGTCTCACT
13789160 TGCATAAACTGAGTCTGTAAATATAAAATAAGAATATTTACATTAGAAAAATATATTAAAGTTCG
66 TGCATAAACTGAGTCTGTAAATATAAAATAAGAATATTTACATTAGAAAAATATATTAAAGTTCG
13789225 GTTAAGTAATTTAGTCGAAAAAATAGTTAATTAAGGCTTATGGACTAAATTGTAAAAGTTCAATC
131 GTTAAGTAATTTAGTCGAAAAAATAGTTAATTAAGGCTTATGGACTAAATTGTAAAAGTTCAATC
13789290 TCTATTGAGTTTTAATTAAGAAAAGGTTTGAGGACTTATATAGCAATTATCCAAAGAACTAAAAT
196 TCTATTGAGTTTTAATTAAGAAAAGGTTTGAGGACTTATATAGCAATTATCCAAAGAACTAAAAT
13789355 GGTTAATAAACCAATTTTAATTAGTGGATAGTGGACTTTGATGATGATGTCCCTTTAATTTGTGT
261 GGTTAATAAACCAATTTTAATTAGTGGATAGTGGACTTTGATGATGATGTCCCTTTAATTTGTGT
13789420 AATTAGGATTAACGAAAATAATTTAGATTAATTAAAGTAATAAATCACAATTAACTAAATTAATC
326 AATTAGGATTAACGAAAATAATTTAGATTAATTAAAGTAATAAATCACAATTAACTAAATTAATC
13789485 AAGATTAAACCTTAGTATAACTAGCTCAATTTAGTGGAAAGAAAGATGAAAAGCAATTTTTCTTC
391 AAGATTAAACCTTAGTATAACTAGCTCAATTTAGTGGAAAGAAAGATGAAAAGCAATTTTTCTTC
13789550 CTCCACCATCAAACAAAAAGAAAAGAAAGGAGAAAAACCTCCATTGCTGAAAGCTCTATTCAGTC
456 CTCCACCATCAAACAAAAAGAAAAGAAAGGAGAAAAACCTCCATTGCTGAAAGCTCTATTCAGTC
13789615 ATTATTTCAAATAAGTCTCTAAGTCATTTTTCTTTGATTTTTATGGAAATTGAATCATGAGAGCT
521 ATTATTTCAAATAAGTCTCTAAGTCATTTTTCTTTGATTTTTATGGAAATTGAATCATGAGAGCT
*
13789680 TGATTTAGCTAGTTTATGTATCAATTTGATCAATTTTTGAAATTTTAGTAAGTTATCATTGTTGA
586 TGATTTAGCTAGCTTATGTATCAATTTGATCAATTTTTGAAATTTTAGTAAGTTATCATTGTTGA
13789745 GAAATTGATGAATTAGGCTTGAATTTGATTTATATTAAGTTTAGATTATGAAAATGACTAAATTG
651 GAAATTGATGAATTAGGCTTGAATTTGATTTATATTAAGTTTAGATTATGAAAATGACTAAATTG
13789810 TAAAGCTTAATAAACTTGGATGTCAACTTTGTAACATTAGGGATCAAATTGAATAAAGTGAAAAC
716 TAAAGCTTAATAAACTTGGATGTCAACTTTGTAACATTAGGGATCAAATTGAATAAAGTGAAAAC
13789875 CTATCATGACATTATGCTAGGAATAG
781 CTATCATGACATTATGCTAGGAATAG
13789901 GA
1 GA
13789903 AGTATAGAGT
Statistics
Matches: 805, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
806 805 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (806 bp):
GAGACCCTTAATTGTAATGACTCGGTTTCCAATGATGTTGAAAAATGTGATTTCGGAGTCTCACT
TGCATAAACTGAGTCTGTAAATATAAAATAAGAATATTTACATTAGAAAAATATATTAAAGTTCG
GTTAAGTAATTTAGTCGAAAAAATAGTTAATTAAGGCTTATGGACTAAATTGTAAAAGTTCAATC
TCTATTGAGTTTTAATTAAGAAAAGGTTTGAGGACTTATATAGCAATTATCCAAAGAACTAAAAT
GGTTAATAAACCAATTTTAATTAGTGGATAGTGGACTTTGATGATGATGTCCCTTTAATTTGTGT
AATTAGGATTAACGAAAATAATTTAGATTAATTAAAGTAATAAATCACAATTAACTAAATTAATC
AAGATTAAACCTTAGTATAACTAGCTCAATTTAGTGGAAAGAAAGATGAAAAGCAATTTTTCTTC
CTCCACCATCAAACAAAAAGAAAAGAAAGGAGAAAAACCTCCATTGCTGAAAGCTCTATTCAGTC
ATTATTTCAAATAAGTCTCTAAGTCATTTTTCTTTGATTTTTATGGAAATTGAATCATGAGAGCT
TGATTTAGCTAGCTTATGTATCAATTTGATCAATTTTTGAAATTTTAGTAAGTTATCATTGTTGA
GAAATTGATGAATTAGGCTTGAATTTGATTTATATTAAGTTTAGATTATGAAAATGACTAAATTG
TAAAGCTTAATAAACTTGGATGTCAACTTTGTAACATTAGGGATCAAATTGAATAAAGTGAAAAC
CTATCATGACATTATGCTAGGAATAG
Found at i:13790639 original size:161 final size:161
Alignment explanation
Indices: 13790370--13790691 Score: 565
Period size: 161 Copynumber: 2.0 Consensus size: 161
13790360 CAGACTCTCA
* * **
13790370 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCTT
1 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTATATGCATAATATCCCAAATCGC
*
13790435 CGTTTCTATGGTGTACTACTGACTTGTCTCTCTAGGCGGTCTCATTCATACAGCATAACCTGAAA
66 CGTTTCTATGGTGTACTACTGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTGAAA
*
13790500 CATAAACAAAACATTTATAAGTTACATGAGC
131 CATAAAAAAAACATTTATAAGTTACATGAGC
13790531 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTATATGCATAATATCCCAAATCGC
1 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTATATGCATAATATCCCAAATCGC
*
13790596 CGTTTCTATGGTGTAC-AGCTGACTTGTCTCTCCAGGTGGTCTCATTCATACAGCATAACCTGAA
66 CGTTTCTATGGTGTACTA-CTGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTGAA
13790660 ACATAAAAAAAACATTTATAAGTTACATGAGC
130 ACATAAAAAAAACATTTATAAGTTACATGAGC
13790692 TTAGTGAATT
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
160 1 0.01
161 152 0.99
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (161 bp):
GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTATATGCATAATATCCCAAATCGC
CGTTTCTATGGTGTACTACTGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTGAAA
CATAAAAAAAACATTTATAAGTTACATGAGC
Found at i:13791443 original size:71 final size:71
Alignment explanation
Indices: 13791362--13791506 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 71
13791352 AATACACCAT
* * ** * *
13791362 AAAGGTGACATATATGATACGCCACATAAGCTTAGCAGAAGTACGCCACAAGAACCAATATAATG
1 AAAGGCGACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAAGAACCAACAGAATG
13791427 CGTCAC
66 CGTCAC
* * *
13791433 AAAGGCGACATATAGGATACGCCACATAGGCTTAGCAGAAAAACGTCACAAGGACCAACAGAATG
1 AAAGGCGACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAAGAACCAACAGAATG
13791498 CGTCAC
66 CGTCAC
13791504 AAA
1 AAA
13791507 TGCCAAACAT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (71 bp):
AAAGGCGACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAAGAACCAACAGAATG
CGTCAC
Found at i:13791643 original size:117 final size:117
Alignment explanation
Indices: 13791430--13791646 Score: 312
Period size: 117 Copynumber: 1.9 Consensus size: 117
13791420 TATAATGCGT
* *
13791430 CACAAAGGCGACATATAGGATACGCCACATAGGCTTAGCAGAAAAACGTCACAAGGACCAACAGA
1 CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCAGAAAAACGCCACAAGGACCAACAGA
* * * *
13791495 ATGCGTCACAAATGCCAAACATAATTTACCATAAACATCAAACAGAATATGC
66 ATGCGCCACAAAGGCCAAACAAAATTCACCATAAACATCAAACAGAATATGC
* * *
13791547 CACAAAGGCGACATATAGGATACACCATATAGGCTTAGCA-AAAGTACGCCACAATGG-CCAATA
1 CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCAGAAA-AACGCCACAA-GGACCAACA
*
13791610 GAATGTGCCACAAAGGCCAAACAAAATTCACCATAAA
64 GAATGCGCCACAAAGGCCAAACAAAATTCACCATAAA
13791647 GGTATTACTG
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
116 3 0.03
117 83 0.94
118 2 0.02
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (117 bp):
CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCAGAAAAACGCCACAAGGACCAACAGA
ATGCGCCACAAAGGCCAAACAAAATTCACCATAAACATCAAACAGAATATGC
Found at i:13791664 original size:117 final size:117
Alignment explanation
Indices: 13791421--13791672 Score: 296
Period size: 117 Copynumber: 2.1 Consensus size: 117
13791411 AAGAACCAAT
* *
13791421 ATAATGCGTCACAAAGGCGACATATAGGATACGCCACATAGGCTTAGCAGAAAAACGTCACAAGG
1 ATAATGC--CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCAGAAAAACGCCACAAGG
* * * *
13791486 ACCAACAGAATGCGTCACAAATGCCAAACATAATTTACCATAAACATCAAACAG
64 ACCAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAACATCAAACAG
* *
13791540 A-ATATGCCACAAAGGCGACATATAGGATACACCATATAGGCTTAGCA-AAAGTACGCCACAATG
1 ATA-ATGCCACAAAGGCGACATATAGGATACACCACATAGGCTTAGCAGAAA-AACGCCACAA-G
* * ** * *
13791603 G-CCAATAGAATGTGCCACAAAGGCCAAACAAAATTCACCATAAAGGT-ATTACTG
63 GACCAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAACATCA-AACAG
13791657 ATAATGCCACAAAGGC
1 ATAATGCCACAAAGGC
13791673 CCTATTTGGA
Statistics
Matches: 114, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
116 4 0.04
117 101 0.89
118 4 0.04
119 5 0.04
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (117 bp):
ATAATGCCACAAAGGCGACATATAGGATACACCACATAGGCTTAGCAGAAAAACGCCACAAGGAC
CAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAACATCAAACAG
Found at i:13794019 original size:14 final size:14
Alignment explanation
Indices: 13793997--13794031 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13793987 CACATTTCAC
* *
13793997 TATTATGTCTTTTG
1 TATTTTGTCTTTCG
13794011 TATTTTGTCTTTCG
1 TATTTTGTCTTTCG
13794025 TATTTTG
1 TATTTTG
13794032 CATGTATAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.11, C:0.09, G:0.14, T:0.66
Consensus pattern (14 bp):
TATTTTGTCTTTCG
Found at i:13795649 original size:19 final size:17
Alignment explanation
Indices: 13795642--13795799 Score: 74
Period size: 17 Copynumber: 8.7 Consensus size: 17
13795632 ATTTTAATAG
13795642 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
*
13795659 TTTAATATTAAAGTAATTA
1 TTTAATATTAAATTAA--A
13795678 TTTTAATATTAAATTTAATA
1 -TTTAATATTAAA-TTAA-A
*
13795698 TTT-ATCTTATAGA-TAAA
1 TTTAATATTA-A-ATTAAA
*
13795715 TATTATATTATTTTAA-TAAGA
1 T-TTA-A-TA-TTAAATTAA-A
*
13795736 TTTAATATATAAAATTTAA
1 TTTAATAT-T-AAATTAAA
* *
13795755 TTTAATATT-TATCTTAA
1 TTTAATATTAAAT-TAAA
* *
13795772 -TAAATATTAGATTAAA
1 TTTAATATTAAATTAAA
13795788 TTTAATATTAAA
1 TTTAATATTAAA
13795800 GTGATTAAGT
Statistics
Matches: 110, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
16 12 0.11
17 33 0.30
18 14 0.13
19 17 0.15
20 25 0.23
21 7 0.06
22 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:13795670 original size:12 final size:12
Alignment explanation
Indices: 13795625--13795699 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
13795615 ATTCCAAAAA
*
13795625 TAATATT-ATTT
1 TAATATTAAATT
*
13795636 TAATAGTTTAATAT
1 TAATA-TTAAAT-T
13795650 TAA-ATTAAATT
1 TAATATTAAATT
*
13795661 TAATATTAAA-G
1 TAATATTAAATT
*
13795672 T-A-ATT-ATTT
1 TAATATTAAATT
13795681 TAATATTAAATT
1 TAATATTAAATT
13795693 TAATATT
1 TAATATT
13795700 TATCTTATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
8 1 0.02
9 4 0.08
10 2 0.04
11 13 0.26
12 23 0.46
13 3 0.06
14 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (12 bp):
TAATATTAAATT
Found at i:13795680 original size:45 final size:46
Alignment explanation
Indices: 13795627--13795763 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 46
13795617 TCCAAAAATA
13795627 ATATTATTTTAATAGTTTAATATTAAATTAAATTTAATATTAA-AGT
1 ATATTATTTTAATAGTTTAATATTAAATT-AATTTAATATTAATAGT
* * * * *
13795673 A-ATTATTTTAATA-TTAAAT-TTAATATTTATCTTATAGATAAATATT
1 ATATTATTTTAATAGTTTAATATTAA-ATTAAT-TTA-ATATTAATAGT
13795719 ATATTATTTTAATAAGATTTAATATATAAAATTTAATTTAATATT
1 ATATTATTTTAAT-AG-TTTAATAT-T-AAA-TTAATTTAATATT
13795764 TATCTTAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
43 6 0.09
44 11 0.16
45 17 0.24
46 4 0.06
47 11 0.16
48 1 0.01
50 5 0.07
51 4 0.06
52 5 0.07
53 6 0.09
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (46 bp):
ATATTATTTTAATAGTTTAATATTAAATTAATTTAATATTAATAGT
Found at i:13795699 original size:20 final size:19
Alignment explanation
Indices: 13795625--13795700 Score: 84
Period size: 20 Copynumber: 4.0 Consensus size: 19
13795615 ATTCCAAAAA
** *
13795625 TAATATTATTTTAATAGTT
1 TAATATTAAATTAATATTT
13795644 TAATATTAAATTAA-A-TT
1 TAATATTAAATTAATATTT
*
13795661 TAATATTAAAGTAATTATTT
1 TAATATTAAATTAA-TATTT
13795681 TAATATTAAATTTAATATTT
1 TAATATTAAA-TTAATATTT
13795701 ATCTTATAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
17 15 0.31
18 1 0.02
19 13 0.27
20 17 0.35
21 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TAATATTAAATTAATATTT
Found at i:13796589 original size:7 final size:7
Alignment explanation
Indices: 13796579--13796609 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
13796569 GTTTTTGGAT
13796579 TTTAGGG
1 TTTAGGG
13796586 TTTAGGG
1 TTTAGGG
*
13796593 TTTGGGG
1 TTTAGGG
13796600 TTTAGGG
1 TTTAGGG
13796607 TTT
1 TTT
13796610 TTAGGGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:13796863 original size:124 final size:124
Alignment explanation
Indices: 13796643--13796924 Score: 422
Period size: 124 Copynumber: 2.3 Consensus size: 124
13796633 AACAAATAAG
* * * * *
13796643 TCGCGCCCACGTGTACGCACTTTTACTACAGGAGGTCCTGAAAAAATAATTTCGACTTGACGTTT
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACGTTT
* * *
13796708 TTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAG-ATTTTATGAAA
66 TTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCCATTTGAGAAGAATTTGA-GAAA
* * * *
13796767 TCGCGCCTTCGTGGACGCGCTTTTGCTAAAGTAGGTCCTGGAAAAATAATTTCGACTTGATGTTT
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACGTTT
13796832 TTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCCATTTGAGAAGAATTTGAGAAA
66 TTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCCATTTGAGAAGAATTTGAGAAA
**
13796891 TTACGCCCTCGTGGACGCGCTTTTGCTACAGTAG
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
13796925 CATGTTTGGG
Statistics
Matches: 141, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
124 136 0.96
125 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (124 bp):
TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACGTTT
TTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCCATTTGAGAAGAATTTGAGAAA
Found at i:13800002 original size:37 final size:38
Alignment explanation
Indices: 13799953--13800118 Score: 94
Period size: 37 Copynumber: 4.4 Consensus size: 38
13799943 TGATAAATTG
*
13799953 TATTAATGGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
* * * * *
13799990 TATTAATTGTTAGTACCAGTCA-AAACATT-TTTCCAAATC
1 TATTAATTGTTAGTA-AAATTATCAA-ATTATAT-CAAATC
** * * * * * *
13800029 TAACATTATGTGAATGTAAAATTAT-TAACTA-AT-AATTG
1 TATTAAT-TGT-TA-GTAAAATTATCAAATTATATCAAATC
*
13800067 TATTAATGGTTAGTAAAATTATCAAATTATATCAAAT-
1 TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
13800104 TATTAATTGTTAGTA
1 TATTAATTGTTAGTA
13800119 CCAGTCAAAA
Statistics
Matches: 90, Mismatches: 27, Indels: 24
0.64 0.19 0.17
Matches are distributed among these distances:
35 10 0.11
36 5 0.06
37 36 0.40
38 21 0.23
39 4 0.04
40 6 0.07
41 5 0.06
42 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (38 bp):
TATTAATTGTTAGTAAAATTATCAAATTATATCAAATC
Found at i:13800148 original size:114 final size:114
Alignment explanation
Indices: 13799928--13800198 Score: 506
Period size: 114 Copynumber: 2.4 Consensus size: 114
13799918 AAATTATATT
*
13799928 TGTAAAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
1 TGTAAAATTATTAACTGAT-AATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
13799993 TAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
65 TAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
*
13800043 TGTAAAATTATTAACTAATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
*
13800108 AATTGTTAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAA
66 AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
13800157 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
13800199 ATCTTAAGGT
Statistics
Matches: 152, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
114 135 0.89
115 17 0.11
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (114 bp):
TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
Found at i:13800734 original size:21 final size:21
Alignment explanation
Indices: 13800206--13800713 Score: 581
Period size: 21 Copynumber: 24.2 Consensus size: 21
13800196 AAAATCTTAA
*
13800206 GGTTTTTAAGTTAAGGTTTTAG
1 GGTTTTTAAGTTAAGG-GTTAG
13800228 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * *
13800249 GATTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
13800270 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800291 GGTTTTAAAGTTAATGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800312 GGTTTTTAATTTAAGGGTTAC
1 GGTTTTTAAGTTAAGGGTTAG
* * * *
13800333 GATTTTTTAGTTAAGGTTTAC
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800354 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800375 GGTTTTTAA-TTAAGGGGTAT
1 GGTTTTTAAGTTAAGGGTTAG
* * *
13800395 TGTTTTTAAGTTACGGGTTAC
1 GGTTTTTAAGTTAAGGGTTAG
* * * *
13800416 GATTTTTTAGTTAAGGTTTAC
1 GGTTTTTAAGTTAAGGGTTAG
*
13800437 GGTTTTTAAGTTAAGGATTTAG
1 GGTTTTTAAGTTAAGG-GTTAG
*
13800459 GG-TTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800479 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
13800500 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800521 GATTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800542 GGTTTTTTAGGTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
*
13800564 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800585 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
13800606 GGCTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
13800627 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * *
13800648 AGTTTTAAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
13800669 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
13800689 GATTTTGAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
13800710 GGTT
1 GGTT
13800714 AGGGTTTTTT
Statistics
Matches: 414, Mismatches: 67, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
20 41 0.10
21 333 0.80
22 40 0.10
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAG
Found at i:13800997 original size:21 final size:21
Alignment explanation
Indices: 13800973--13801019 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
13800963 CTTTGTCCAG
*
13800973 CTTCTGGCGGCGG-TTGTGGTT
1 CTTCCGGCGG-GGATTGTGGTT
*
13800994 CTTCCGGCGGGGATTTTGGTT
1 CTTCCGGCGGGGATTGTGGTT
13801015 CTTCC
1 CTTCC
13801020 AGTAGGGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.02, C:0.23, G:0.36, T:0.38
Consensus pattern (21 bp):
CTTCCGGCGGGGATTGTGGTT
Found at i:13803180 original size:11 final size:11
Alignment explanation
Indices: 13803166--13803219 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
13803156 TTAAATATGG
13803166 ATTTGAGAGAA
1 ATTTGAGAGAA
*
13803177 ATTTG-GAAGGA
1 ATTTGAG-AGAA
13803188 ATTTGAGAGCAA
1 ATTTGAGAG-AA
13803200 A-TTGAGAGGAA
1 ATTTGAGA-GAA
13803211 A-TTGAGAGA
1 ATTTGAGAGA
13803220 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 3 0.08
11 30 0.81
12 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:13803194 original size:22 final size:21
Alignment explanation
Indices: 13803166--13803219 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
13803156 TTAAATATGG
13803166 ATTTGAGAGAAATTTG-GAAGGA
1 ATTTGAGAGAAA-TTGAG-AGGA
13803188 ATTTGAGAGCAAATTGAGAGGA
1 ATTTGAGAG-AAATTGAGAGGA
*
13803210 AATTGAGAGA
1 ATTTGAGAGA
13803220 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 24 0.83
23 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (21 bp):
ATTTGAGAGAAATTGAGAGGA
Found at i:13815803 original size:32 final size:32
Alignment explanation
Indices: 13815741--13815801 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
13815731 ATATTTATAT
* *
13815741 AAATTTATAAACTTTTAATTCTTAATTTTTAA
1 AAATTTATAAACTTATAATTCATAATTTTTAA
13815773 AAATTTAT-AACTTATATATT-ATAATTTTT
1 AAATTTATAAACTTATA-ATTCATAATTTTT
13815802 TATATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (32 bp):
AAATTTATAAACTTATAATTCATAATTTTTAA
Found at i:13815883 original size:15 final size:15
Alignment explanation
Indices: 13815828--13815883 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
13815818 TTATAGGCTC
13815828 TTTATATATTTA-AT
1 TTTATATATTTATAT
* * *
13815842 TGTATATGCTTTTTAT
1 TTTATAT-ATTTATAT
* *
13815858 TTTACAAATTTATAT
1 TTTATATATTTATAT
13815873 TTTATATATTT
1 TTTATATATTT
13815884 TCCAAAATAA
Statistics
Matches: 30, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
14 6 0.20
15 18 0.60
16 6 0.20
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (15 bp):
TTTATATATTTATAT
Found at i:13824937 original size:18 final size:18
Alignment explanation
Indices: 13824914--13824950 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13824904 TATAGTTTGA
13824914 TATTCGAATTATTCAAAT
1 TATTCGAATTATTCAAAT
*
13824932 TATTCGAGTTATTCAAAT
1 TATTCGAATTATTCAAAT
13824950 T
1 T
13824951 CGAAAACTCA
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:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (18 bp):
TATTCGAATTATTCAAAT
Found at i:13828638 original size:24 final size:23
Alignment explanation
Indices: 13828611--13828702 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 23
13828601 TTCGTCAATT
*
13828611 CATATTCAGGAATGCTCATGTGAG
1 CATATTCGGGAA-GCTCATGTGAG
**
13828635 CATATAATCGGGAAGCTCATAAGAG
1 CATAT--TCGGGAAGCTCATGTGAG
*
13828660 CCATAATCGGGAAGCTCATGTGAG
1 -CATATTCGGGAAGCTCATGTGAG
13828684 CCA-ATATCGGGAAGCTCAT
1 -CATAT-TCGGGAAGCTCAT
13828703 AAGAGCCATA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 1 0.02
24 37 0.65
25 9 0.16
26 10 0.18
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (23 bp):
CATATTCGGGAAGCTCATGTGAG
Found at i:13828708 original size:24 final size:24
Alignment explanation
Indices: 13828641--13828823 Score: 156
Period size: 24 Copynumber: 7.5 Consensus size: 24
13828631 TGAGCATATA
13828641 ATCGGGAAGCTCATAAGAGCC-AT
1 ATCGGGAAGCTCATAAGAGCCAAT
**
13828664 AATCGGGAAGCTCATGTGAGCCAAT
1 -ATCGGGAAGCTCATAAGAGCCAAT
13828689 ATCGGGAAGCTCATAAGAGCCATAT
1 ATCGGGAAGCTCATAAGAGCCA-AT
* * *
13828714 AAC-AGAATGCTCATAAGAGCTAAAT
1 ATCGGGAA-GCTCATAAGAGC-CAAT
* * * *
13828739 AACGGGAAGCTCGTGAGACCCAAAT
1 ATCGGGAAGCTCATAAGAGCC-AAT
*
13828764 ATCAGGAAGCTCA-AGAGAGCCAAT
1 ATCGGGAAGCTCATA-AGAGCCAAT
* * *
13828788 ATCGAGATGCTCATAAGAGCTAAT
1 ATCGGGAAGCTCATAAGAGCCAAT
* *
13828812 AACGGGACGCTC
1 ATCGGGAAGCTC
13828824 TTGCGAGCTG
Statistics
Matches: 127, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
24 72 0.57
25 51 0.40
26 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (24 bp):
ATCGGGAAGCTCATAAGAGCCAAT
Found at i:13828776 original size:50 final size:50
Alignment explanation
Indices: 13828611--13828807 Score: 188
Period size: 50 Copynumber: 4.0 Consensus size: 50
13828601 TTCGTCAATT
*
13828611 CATAT-TCAGGAATGCTCATGTGAGCATATAATCGGGAAGCTCATAAGAGC
1 CATATATCAGGAATGCTCATGTGAGCAAATAA-CGGGAAGCTCATAAGAGC
* * *
13828661 CATA-ATCGGGAA-GCTCATGTGAGCCAATATCGGGAAGCTCATAAGAGC
1 CATATATCAGGAATGCTCATGTGAGCAAATAACGGGAAGCTCATAAGAGC
* ** * * *
13828709 CATATAACA-GAATGCTCATAAGAGCTAAATAACGGGAAGCTCGTGAGACC
1 CATATATCAGGAATGCTCATGTGAGC-AAATAACGGGAAGCTCATAAGAGC
* * * * * * *
13828759 CAAATATCAGGAA-GCTCAAGAGAGCCAATATCGAGATGCTCATAAGAGC
1 CATATATCAGGAATGCTCATGTGAGCAAATAACGGGAAGCTCATAAGAGC
13828808 TAATAACGGG
Statistics
Matches: 118, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
48 25 0.21
49 44 0.37
50 46 0.39
51 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (50 bp):
CATATATCAGGAATGCTCATGTGAGCAAATAACGGGAAGCTCATAAGAGC
Found at i:13828800 original size:99 final size:98
Alignment explanation
Indices: 13828620--13828807 Score: 243
Period size: 99 Copynumber: 1.9 Consensus size: 98
13828610 TCATATTCAG
** * * * * * *
13828620 GAATGCTCATGTGAGCATATAATCGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATGTGAGC
1 GAATGCTCATAAGAGCAAATAATCGGGAAGCTCATAAGACCCAAAATCAGGAAGCTCAAGAGAGC
*
13828685 CAATATCGGGAAGCTCATAAGAGCCATATAACA
66 CAATATCGAGAAGCTCATAAGAGCCATATAACA
* *
13828718 GAATGCTCATAAGAGCTAAATAA-CGGGAAGCTCGTGAGACCCAAATATCAGGAAGCTCAAGAGA
1 GAATGCTCATAAGAGC-AAATAATCGGGAAGCTCATAAGACCCAAA-ATCAGGAAGCTCAAGAGA
*
13828782 GCCAATATCGAGATGCTCATAAGAGC
64 GCCAATATCGAGAAGCTCATAAGAGC
13828808 TAATAACGGG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
98 32 0.42
99 44 0.58
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (98 bp):
GAATGCTCATAAGAGCAAATAATCGGGAAGCTCATAAGACCCAAAATCAGGAAGCTCAAGAGAGC
CAATATCGAGAAGCTCATAAGAGCCATATAACA
Found at i:13833281 original size:15 final size:15
Alignment explanation
Indices: 13833261--13833294 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13833251 GGTACAAAAT
13833261 AATAAGAT-TTAGAAG
1 AATAAGATATTA-AAG
13833276 AATAAGATATTAAAG
1 AATAAGATATTAAAG
13833291 AATA
1 AATA
13833295 TATCATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (15 bp):
AATAAGATATTAAAG
Found at i:13834991 original size:28 final size:28
Alignment explanation
Indices: 13834936--13835000 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
13834926 TGTATTTTTA
* *
13834936 TAAAATATCTAATGTGATACTTATACTT
1 TAAAATATTTAATGTGATACTGATACTT
13834964 TAAAATATTTAATGTGATATCTGA-ACTT
1 TAAAATATTTAATGTGATA-CTGATACTT
*
13834992 T-CAATATTT
1 TAAAATATTT
13835001 GTATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 7 0.21
28 23 0.70
29 3 0.09
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (28 bp):
TAAAATATTTAATGTGATACTGATACTT
Found at i:13840164 original size:18 final size:18
Alignment explanation
Indices: 13840143--13840185 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
13840133 GGTTTTGAAA
13840143 TTTTTTTATTTT-TTACTT
1 TTTTTTTATTTTCTTA-TT
*
13840161 TTTTTTTGTTTTGCTTATT
1 TTTTTTTATTTT-CTTATT
13840180 TTTTTT
1 TTTTTT
13840186 CCCTTCATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 8 0.36
20 3 0.14
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTTTTATTTTCTTATT
Found at i:13840172 original size:16 final size:15
Alignment explanation
Indices: 13840143--13840185 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
13840133 GGTTTTGAAA
13840143 TTTTTTTATTTTTTAC
1 TTTTTTT-TTTTTTAC
*
13840159 TTTTTTTTTGTTTTGC
1 TTTTTTTTT-TTTTAC
13840175 TTATTTTTTTT
1 TT-TTTTTTTT
13840186 CCCTTCATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 15 0.62
17 7 0.29
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTTTTTAC
Found at i:13840402 original size:38 final size:38
Alignment explanation
Indices: 13840354--13840432 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
13840344 TCGTGGTGTT
*
13840354 GGGTAAGGTTTAAGTTCTATTGTTGGATTTGTCTCTTG
1 GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTCTTG
*
13840392 GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTTTTG
1 GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTCTTG
13840430 GGG
1 GGG
13840433 GACGGTTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.15, C:0.08, G:0.32, T:0.46
Consensus pattern (38 bp):
GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTCTTG
Found at i:13842447 original size:13 final size:14
Alignment explanation
Indices: 13842428--13842465 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
13842418 CAACGGCATA
13842428 GAAATAATATAAAC
1 GAAATAATATAAAC
13842442 -AAATAA-ATAAAC
1 GAAATAATATAAAC
13842454 GAAATGAATATA
1 GAAAT-AATATA
13842466 TAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:13842938 original size:21 final size:22
Alignment explanation
Indices: 13842899--13842940 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
13842889 AAAATTAATT
13842899 AAAAAAATAAATATGTACATAAG
1 AAAAAAATAAATA-GTACATAAG
*
13842922 AAAACAATAAATA-TACATA
1 AAAAAAATAAATAGTACATA
13842941 TATATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (22 bp):
AAAAAAATAAATAGTACATAAG
Found at i:13844907 original size:44 final size:46
Alignment explanation
Indices: 13844791--13844910 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 46
13844781 TAGTTTTAAC
* *
13844791 CTGCTCCACTGCAACTTCAGGGAGATAATA-TTCGCCATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTCGCCATATTCAGT
* * * ** *
13844836 CTACCCCACTGCAACTTCAGGGGGATAAGACTT-G-TTTATTCGGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTCGCCATATTCAGT
*
13844880 CTGCTCCACTGCAACCTCAGGGAGATAAGAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGAC
13844911 CTGATATCTT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
44 33 0.53
45 27 0.44
46 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (46 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTCGCCATATTCAGT
Found at i:13845393 original size:267 final size:266
Alignment explanation
Indices: 13844918--13845730 Score: 1241
Period size: 267 Copynumber: 3.0 Consensus size: 266
13844908 GACCTGATAT
* * ** * *
13844918 CTTCAATCTTTTTAATTGCAATGTGGGGGAAATAAGATTCGCTGTCATAGCTTTAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCTGTCGTAGCTTCAATCTGTTCCA
* * * *
13844983 CTACACCACCAGGGAAGTAAGATTCGTCGTTGCAGCTTTAATCTGCTCCACTGTAACGCCAAAGA
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
* * *
13845048 GATAGGATCCGCTGCCCACAGCTTCAATCTGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAAG
131 GATAGGATTCGCTGCCCACAGCTTTAATCTGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGG
* * *
13845113 GAGATAAGATTCGCCGTTGTGGCTTCAATCTGCTCCGCTACAACATCAGGGAAATAAGATTCGCC
196 GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAAC-CCAGGGAAATAAGATTCACC
13845178 GTTGCTG
260 GTTGCTG
* * *
13845185 CTTCAATCTTTTAAATTACAATGTTGGGGAAACGAGATTCACCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCTGTCGTAGCTTCAATCTGTTCCA
* * * **
13845250 CTACACCGCCAGTGAAGTAAGATTCACCGTCGCGGCTTTAATCTATTCCACTGTAATGCCAAAGA
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
* *
13845315 GATAAGATTCGCTGCCCACAGCTTTAATCCGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGG
131 GATAGGATTCGCTGCCCACAGCTTTAATCTGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGG
* * *
13845380 GAGATAAGATTCGCCGACATGGCTTCAACCTGCTCCGCTACAACGCCAGGGAAATAAGATTCACC
196 GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAAC-CCAGGGAAATAAGATTCACC
*
13845445 GTTGCGG
260 GTTGCTG
*
13845452 CTTCAATCTTTTAAATTGCAATGTTAGGGAAACGAGATTCGCTGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCTGTCGTAGCTTCAATCTGTTCCA
*
13845517 CTACACCGCTAGGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
* *
13845582 GATAGGATTCGCTACCCACAGCTTTAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGG
131 GATAGGATTCGCTGCCCACAGCTTTAATCTGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGG
* * *
13845647 GAGATTAGATTCGCCGTCGTGGCTTCAATCTGTTCCGCTACAACGCTAGGGAAATAAGATTCACC
196 GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAAC-CCAGGGAAATAAGATTCACC
13845712 GTTG-TGG
260 GTTGCT-G
*
13845719 TTTCAATCTTTT
1 CTTCAATCTTTT
13845731 TCTTTGCAAC
Statistics
Matches: 492, Mismatches: 53, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
267 492 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (266 bp):
CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCTGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
GATAGGATTCGCTGCCCACAGCTTTAATCTGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGG
GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACCCAGGGAAATAAGATTCACCG
TTGCTG
Found at i:13845857 original size:44 final size:44
Alignment explanation
Indices: 13845809--13845972 Score: 240
Period size: 44 Copynumber: 3.7 Consensus size: 44
13845799 ATCTGCTATT
* *
13845809 TTCAACCTACTCTACTGCTG-CTCAGGGAGATAAGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAAGATTCACAATC
*
13845853 TTCAACCTATTCCACTGCTGACCAGGGAGATACGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAAGATTCACAATC
* * *
13845897 TTCAACTTATTCCATTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAAGATTCACAATC
* *
13845941 TTCAATCTATTCCACTGTTGACCAGGGAGATA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA
13845973 GGGTTTTGTG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 108 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAAGATTCACAATC
Found at i:13846887 original size:25 final size:26
Alignment explanation
Indices: 13846848--13846896 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
13846838 AGTGTCTTGA
13846848 AAAGAAAAAAATA-TTCAAGAACAGC
1 AAAGAAAAAAATATTTCAAGAACAGC
* *
13846873 AAAGAATAAAGTATTTCAAGAACA
1 AAAGAAAAAAATATTTCAAGAACA
13846897 AACAAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.16
Consensus pattern (26 bp):
AAAGAAAAAAATATTTCAAGAACAGC
Found at i:13852386 original size:21 final size:22
Alignment explanation
Indices: 13852346--13852388 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
13852336 AACATTAGTT
13852346 GAAAAAAATAAATATGTACATAA
1 GAAAAAAATAAATA-GTACATAA
*
13852369 GAAAACAATAAATA-TACATA
1 GAAAAAAATAAATAGTACATA
13852389 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (22 bp):
GAAAAAAATAAATAGTACATAA
Found at i:13854482 original size:148 final size:150
Alignment explanation
Indices: 13854214--13854515 Score: 500
Period size: 148 Copynumber: 2.0 Consensus size: 150
13854204 AATTGTGGAA
* *
13854214 CACGTTGCCATGTCGCAACGTCGCATGCACCTCGTCGAGACGCCATTCTTTACATCGTCGGGACG
1 CACGTTGCCATGTCGCAACGTCGCATGCACCTCGTCGAGACGCCATTCTTCACATCGTCAGGACG
*
13854279 TGGCCAATCTTCTTGTCAAGACGTCGTAGTCGGTTCGTCACAATGTCGGCTCTTCCTCATCGAAA
66 TGGCCAATCTTCTTGTCAAGACATCGTAGTCGGTTCGTCACAATGTCGGCTCTTCCTCATCGAAA
* *
13854344 -T-ATCTCATAAATGCAAAG
131 GTCAGCTCATAAATACAAAG
*
13854362 CACGTTGCCATGTCGCAACGTCGCATGCACCTTGTCGAGACGCCATTCTTCACATCGTCAGGACG
1 CACGTTGCCATGTCGCAACGTCGCATGCACCTCGTCGAGACGCCATTCTTCACATCGTCAGGACG
* * *
13854427 TGGCCAATCTTCTTGTTAAGACATTGTAGTCGTTTCGTCACAATGTCGGCTCTTCCTCATCGAAA
66 TGGCCAATCTTCTTGTCAAGACATCGTAGTCGGTTCGTCACAATGTCGGCTCTTCCTCATCGAAA
13854492 TGTCAGCTCATAAATACAAAG
131 -GTCAGCTCATAAATACAAAG
13854513 CAC
1 CAC
13854516 ACTCCACAAC
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
148 123 0.87
150 1 0.01
151 18 0.13
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (150 bp):
CACGTTGCCATGTCGCAACGTCGCATGCACCTCGTCGAGACGCCATTCTTCACATCGTCAGGACG
TGGCCAATCTTCTTGTCAAGACATCGTAGTCGGTTCGTCACAATGTCGGCTCTTCCTCATCGAAA
GTCAGCTCATAAATACAAAG
Found at i:13863082 original size:15 final size:15
Alignment explanation
Indices: 13863062--13863099 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13863052 TATTCTATCC
*
13863062 TTATTTTCTTTCTAT
1 TTATTTTATTTCTAT
*
13863077 TTATTTTATTTTTAT
1 TTATTTTATTTCTAT
13863092 TTATTTTA
1 TTATTTTA
13863100 CTCCTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTATTTCTAT
Found at i:13864159 original size:21 final size:21
Alignment explanation
Indices: 13864133--13864172 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13864123 TGCCTAAAAC
*
13864133 ATGAATTGGATTGAATTGAAT
1 ATGAATTGGATTAAATTGAAT
*
13864154 ATGAATTGTATTAAATTGA
1 ATGAATTGGATTAAATTGA
13864173 GTTAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
ATGAATTGGATTAAATTGAAT
Found at i:13864816 original size:25 final size:25
Alignment explanation
Indices: 13864756--13864835 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
13864746 TACTCGATAT
* **
13864756 TGGCTCGCATGAGCTT-CCTGAATA
1 TGGCTCACATGAGCTTCCCTTTATA
** *
13864780 TGGCTCTTATGAGCTTCCCTTTACA
1 TGGCTCACATGAGCTTCCCTTTATA
*
13864805 TGGCTCACATGAGCTTCCCGTTATA
1 TGGCTCACATGAGCTTCCCTTTATA
13864830 TGGCTC
1 TGGCTC
13864836 GAGAGAGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 14 0.30
25 32 0.70
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCTTTATA
Found at i:13868979 original size:16 final size:16
Alignment explanation
Indices: 13868958--13868988 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13868948 TTATAGTATA
13868958 TTAACAATTTTTTATG
1 TTAACAATTTTTTATG
13868974 TTAACAATTTTTTAT
1 TTAACAATTTTTTAT
13868989 AATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
TTAACAATTTTTTATG
Found at i:13869027 original size:21 final size:23
Alignment explanation
Indices: 13868982--13869032 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
13868972 TGTTAACAAT
*
13868982 TTTTTATAATATATATATTTAAA
1 TTTTTATAATATATATATATAAA
13869005 TTTATTATAATAT-TATA-AT-AA
1 TTT-TTATAATATATATATATAAA
13869026 TTTTTAT
1 TTTTTAT
13869033 TTTAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 1 0.04
23 7 0.27
24 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTATAATATATATATATAAA
Found at i:13881302 original size:28 final size:28
Alignment explanation
Indices: 13881266--13881324 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
13881256 CAGTAATAGT
*
13881266 ACAGTGTGGACCTTAGCCCGATACAGTA
1 ACAGTGTGGACCTTAGCCCAATACAGTA
**
13881294 ACAGTGTGGGTCTTAGCCCAATACAGTA
1 ACAGTGTGGACCTTAGCCCAATACAGTA
13881322 ACA
1 ACA
13881325 TTGCAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (28 bp):
ACAGTGTGGACCTTAGCCCAATACAGTA
Found at i:13881453 original size:26 final size:26
Alignment explanation
Indices: 13881424--13881478 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
13881414 AACACACCAA
*
13881424 TATCGCAGCAAAGCTGCCAATAATAG
1 TATCGCAGCAAAGCTGCCAATAACAG
* *
13881450 TATCGCAGCGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAATAACAG
13881476 TAT
1 TAT
13881479 ATGTGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATAACAG
Found at i:13881702 original size:26 final size:27
Alignment explanation
Indices: 13881672--13881783 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
13881662 ATAATAGTCA
13881672 ATTTCGGTCATTTTACCCTATG-GGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
***
13881698 ATTTCGGTCATTTTATATTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
*
13881725 ATTTCGGTCATTTTACCTTAT-AGGGGT
1 ATTTCGGTCATTTTACCCTATGA-GGGT
* * *
13881752 ATTTCGATCATTTTAACCTATGAGGTT
1 ATTTCGGTCATTTTACCCTATGAGGGT
13881779 ATTTC
1 ATTTC
13881784 AATCATTTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 20 0.27
27 53 0.72
28 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.46
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTATGAGGGT
Found at i:13881764 original size:54 final size:53
Alignment explanation
Indices: 13881672--13881783 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 53
13881662 ATAATAGTCA
* *
13881672 ATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTTTATA-TTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGGGGTATTTCGATCATTTTA-ACCTATGAGGGT
* *
13881725 ATTTCGGTCATTTTACCTTATAGGGGTATTTCGATCATTTTAACCTATGAGGTT
1 ATTTCGGTCATTTTACCCTAT-GGGGTATTTCGATCATTTTAACCTATGAGGGT
13881779 ATTTC
1 ATTTC
13881784 AATCATTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 21 0.40
54 32 0.60
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.46
Consensus pattern (53 bp):
ATTTCGGTCATTTTACCCTATGGGGTATTTCGATCATTTTAACCTATGAGGGT
Found at i:13886957 original size:33 final size:33
Alignment explanation
Indices: 13886912--13887004 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 33
13886902 AGTAACAGTC
* *
13886912 TGGG-CTTGAGCCCTATTCAGTAATAGTACAATG
1 TGGGCCTT-AGCCCAATACAGTAATAGTACAATG
* *
13886945 TGGGCCTTAGCCCGATACAG---TA--ACAGTG
1 TGGGCCTTAGCCCAATACAGTAATAGTACAATG
*
13886973 TGGGCCTTAGCCCAATACAGTAATAGTGCAAT
1 TGGGCCTTAGCCCAATACAGTAATAGTACAAT
13887005 AATGCAACCC
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
28 24 0.50
30 2 0.04
31 2 0.04
33 17 0.35
34 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (33 bp):
TGGGCCTTAGCCCAATACAGTAATAGTACAATG
Done.