Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2426039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:793292 original size:3 final size:3
Alignment explanation
Indices: 793284--793309 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
793274 ATATATATAT
793284 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
793310 TTGATTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:796707 original size:36 final size:37
Alignment explanation
Indices: 796648--796720 Score: 139
Period size: 36 Copynumber: 2.0 Consensus size: 37
796638 TATGTGTAGG
796648 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
796685 GGGAACAGATT-CCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
796721 CCTAAATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 25 0.69
37 11 0.31
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.19
Consensus pattern (37 bp):
GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
Found at i:797647 original size:15 final size:16
Alignment explanation
Indices: 797627--797660 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
797617 TCGGGACACA
797627 GATGATA-TCCTTCGG
1 GATGATAGTCCTTCGG
797642 GATGATAGGTCCTTCGG
1 GATGATA-GTCCTTCGG
797659 GA
1 GA
797661 CATTTATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (16 bp):
GATGATAGTCCTTCGG
Found at i:797653 original size:38 final size:39
Alignment explanation
Indices: 797566--797662 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
797556 TATAAGATAT
* *
797566 ATGATAGGTCCTACGGGACACAGATTACATCCTTCGGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGGG
* *
797605 ATGACAGGTCCTTCGGGACACAGATGATATCCTTC-GGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGGG
797643 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
797663 TTTATACGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 22 0.42
39 31 0.58
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGGG
Found at i:800223 original size:32 final size:32
Alignment explanation
Indices: 800199--800276 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
800189 TGCTTATATG
800199 GTAGAGATACTTCTCGTTATTATGCTCATCTC
1 GTAGAGATACTTCTCGTTATTATGCTCATCTC
* *
800231 GTAGAGATACTTCTCGTTGTTATGCTCATCTT
1 GTAGAGATACTTCTCGTTATTATGCTCATCTC
800263 GTAGAGATACTTCT
1 GTAGAGATACTTCT
800277 TGTTTCTAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (32 bp):
GTAGAGATACTTCTCGTTATTATGCTCATCTC
Found at i:803514 original size:14 final size:14
Alignment explanation
Indices: 803497--803530 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
803487 TGTAATTATG
803497 CAAATATGAAAATA
1 CAAATATGAAAATA
*
803511 CAAAAATGAAAATA
1 CAAATATGAAAATA
*
803525 TAAATA
1 CAAATA
803531 CAAACGTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (14 bp):
CAAATATGAAAATA
Found at i:803826 original size:43 final size:43
Alignment explanation
Indices: 803746--803831 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
803736 CTGTGCATCA
* * * *
803746 AACAAAACTTTATATATAGGGGACAACTTTCAGTCCTATCTTC
1 AACAAAACTTTACATATAAGGGACAACTTTCACTCCTAACTTC
* *
803789 AACAAAACTTTACATATAAGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTACATATAAGGGACAACTTTCACTCCTAACTTC
803832 TCTAAAGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (43 bp):
AACAAAACTTTACATATAAGGGACAACTTTCACTCCTAACTTC
Found at i:804974 original size:13 final size:13
Alignment explanation
Indices: 804926--804967 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
804916 TTTAATATCT
*
804926 AAAAATAAAATAA
1 AAAAATATAATAA
*
804939 AAACATAATAATAA
1 AAAAAT-ATAATAA
804953 AAAAATATAATAA
1 AAAAATATAATAA
804966 AA
1 AA
804968 TATTATAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAATATAATAA
Found at i:807312 original size:61 final size:62
Alignment explanation
Indices: 807212--807334 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 62
807202 TGGAATCAGC
807212 GGCTAGGGATAGGGTTAGAAAACTCTAACTGAAATGATATAAACCCTAAAGGGTTTGGGTCT
1 GGCTAGGGATAGGGTTAGAAAACTCTAACTGAAATGATATAAACCCTAAAGGGTTTGGGTCT
807274 GGCTAGGGATAGGGTTAG-AAACTCTAACTGAAATGATATAAACCCTAAAGGGTTTGGGTCT
1 GGCTAGGGATAGGGTTAGAAAACTCTAACTGAAATGATATAAACCCTAAAGGGTTTGGGTCT
807335 TCTGTTGGGC
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 43 0.70
62 18 0.30
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (62 bp):
GGCTAGGGATAGGGTTAGAAAACTCTAACTGAAATGATATAAACCCTAAAGGGTTTGGGTCT
Found at i:807412 original size:3 final size:3
Alignment explanation
Indices: 807406--807471 Score: 75
Period size: 3 Copynumber: 22.7 Consensus size: 3
807396 TTTTTTTATT
*
807406 TAA TAA TAA TAA T-A TATA TAA TAA TAA TAA TAA -AA AAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
807450 TAA -AA AAA TAA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
807472 TGAAAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 6 0.11
3 46 0.84
4 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:807479 original size:14 final size:14
Alignment explanation
Indices: 807413--807463 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
807403 ATTTAATAAT
* *
807413 AATAATATATATAAT
1 AATAATA-ATAAAAA
807428 AATAATAATAAAAA
1 AATAATAATAAAAA
807442 AATAATAATAAAAA
1 AATAATAATAAAAA
807456 AATAATAA
1 AATAATAA
807464 AAATAATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
14 27 0.79
15 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAATAATAAAAA
Found at i:810299 original size:2 final size:2
Alignment explanation
Indices: 810292--810326 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
810282 ATTATATCAT
810292 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
810327 TAATGATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:811747 original size:26 final size:26
Alignment explanation
Indices: 811711--811761 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
811701 CCAAGCAGTC
*
811711 CTGGCTACCAAACTTAACCCTGCTCG
1 CTGGCGACCAAACTTAACCCTGCTCG
811737 CTGGCGACCAAACTTAACCCTGCTC
1 CTGGCGACCAAACTTAACCCTGCTC
811762 CCTCATGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.39, G:0.16, T:0.22
Consensus pattern (26 bp):
CTGGCGACCAAACTTAACCCTGCTCG
Found at i:811806 original size:23 final size:23
Alignment explanation
Indices: 811776--811831 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
811766 ATGCATGTGT
811776 TGCATCCATAGCTGGGAGATTCA
1 TGCATCCATAGCTGGGAGATTCA
811799 TGCATCCATAGCTGGGAGATTCA
1 TGCATCCATAGCTGGGAGATTCA
811822 TGCATCCATA
1 TGCATCCATA
811832 AGCGTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCA
Found at i:812730 original size:15 final size:15
Alignment explanation
Indices: 812710--812739 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
812700 TTCTGTTTAA
*
812710 AAAAATATTGTGTTT
1 AAAAATACTGTGTTT
812725 AAAAATACTGTGTTT
1 AAAAATACTGTGTTT
812740 CTGAAATGGC
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:0.40, C:0.03, G:0.13, T:0.43
Consensus pattern (15 bp):
AAAAATACTGTGTTT
Found at i:815118 original size:49 final size:49
Alignment explanation
Indices: 815061--815294 Score: 225
Period size: 49 Copynumber: 4.3 Consensus size: 49
815051 TTTTAAGATT
*
815061 TAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
815110 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TG--ATT--TGA
*
815168 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* * *
815219 TAGCAATGATTAGTAATGATTAGTAATAATAATTTATAATTAATATTTAATGATTTGA
1 TAGTAATGATTAG---T-A--A-TAATGA-AA-TTATTATTAATATTTAATGATTTGA
*
815277 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
815295 GATTTGATAG
Statistics
Matches: 156, Mismatches: 8, Indels: 39
0.77 0.04 0.19
Matches are distributed among these distances:
49 50 0.32
50 1 0.01
51 3 0.02
52 3 0.02
53 5 0.03
54 2 0.01
55 4 0.03
56 9 0.06
57 3 0.02
58 33 0.21
59 5 0.03
60 38 0.24
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:815153 original size:35 final size:35
Alignment explanation
Indices: 815113--815215 Score: 91
Period size: 35 Copynumber: 3.2 Consensus size: 35
815103 GATTTGATAG
815113 TAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
* * * *
815148 TAATGATT--TGAT-AT----TAATGATT--TA-G
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
*
815173 TAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTAGTAATAATGAAATTATTATTAATATT
815208 TAATGATT
1 TAATGATT
815216 TGATAGCAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 20
0.63 0.12 0.26
Matches are distributed among these distances:
25 8 0.16
26 2 0.04
27 3 0.06
28 8 0.16
32 8 0.16
33 3 0.06
34 1 0.02
35 16 0.33
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.48
Consensus pattern (35 bp):
TAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:815179 original size:60 final size:60
Alignment explanation
Indices: 815110--815298 Score: 319
Period size: 60 Copynumber: 3.2 Consensus size: 60
815100 AATGATTTGA
815110 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
* **
815170 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGCAATGA-T
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
* *
815229 TAGTAATGATTAGTAATAAT-AATTTATAATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
815288 TAGTAATGATT
1 TAGTAATGATT
815299 TGATAGTAAT
Statistics
Matches: 120, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
58 32 0.27
59 33 0.28
60 55 0.46
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (60 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
Found at i:815269 original size:21 final size:22
Alignment explanation
Indices: 815245--815314 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
815235 TGATTAGTAA
815245 TAATAATTT-ATAATTAAT-ATT
1 TAATAATTTGAT-ATTAATGATT
*
815266 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
815289 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
815313 TA
1 TA
815315 CGACTTGGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 14 0.33
22 5 0.12
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:815282 original size:14 final size:14
Alignment explanation
Indices: 815266--815313 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
815256 AATTAATATT
*
815266 TAATGATTTGATAT
1 TAATGATTTGATAG
815280 TAATGA-TT--TAG
1 TAATGATTTGATAG
815291 TAATGATTTGATAG
1 TAATGATTTGATAG
815305 TAATGATTT
1 TAATGATTT
815314 ACGACTTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:815309 original size:25 final size:25
Alignment explanation
Indices: 815266--815314 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
815256 AATTAATATT
*
815266 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
815291 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
815315 CGACTTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:815411 original size:21 final size:20
Alignment explanation
Indices: 815387--815531 Score: 68
Period size: 21 Copynumber: 7.2 Consensus size: 20
815377 GAAATTATAA
815387 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
* * * *
815408 TAATA-AT-GAAATTATTAT
1 TAATATTTAGTAATGATTAG
* * *
815426 TAATATTTAATATTTGA-TAT
1 TAATATTTAGTA-ATGATTAG
*
815446 TAATGATTTAATAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
* * * *
815467 TAATA-AT-GAAATTATTAT
1 TAATATTTAGTAATGATTAG
* *
815485 TAATATTTAATGATTTGA-TAG
1 TAATATTTAGT-A-ATGATTAG
815506 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
815527 TAATA
1 TAATA
815532 ATGAAATTAT
Statistics
Matches: 89, Mismatches: 24, Indels: 23
0.65 0.18 0.17
Matches are distributed among these distances:
18 25 0.28
19 4 0.04
20 17 0.19
21 35 0.39
22 8 0.09
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.46
Consensus pattern (20 bp):
TAATATTTAGTAATGATTAG
Found at i:815416 original size:13 final size:12
Alignment explanation
Indices: 815380--815535 Score: 66
Period size: 11 Copynumber: 13.1 Consensus size: 12
815370 TAGTAATGAA
815380 ATTATAATAATG
1 ATTATAATAATG
*
815392 ATT-TAGTAATG
1 ATTATAATAATG
815403 ATTAGTAATAATG
1 ATTA-TAATAATG
*
815416 AAATTATTATTAAT-
1 --ATTA-TAATAATG
815430 ATT-TAAT-AT-
1 ATTATAATAATG
*
815439 -TTGATATTAATG
1 ATT-ATAATAATG
815451 ATT-TAATAATG
1 ATTATAATAATG
815462 ATTAGTAATAATG
1 ATTA-TAATAATG
*
815475 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
815489 ATT-TAATGAT-
1 ATTATAATAATG
*
815499 -TTGATAGTAATG
1 ATT-ATAATAATG
*
815511 ATT-TAGTAATG
1 ATTATAATAATG
815522 ATTAGTAATAATG
1 ATTA-TAATAATG
815535 A
1 A
815536 AATTATTATT
Statistics
Matches: 111, Mismatches: 14, Indels: 37
0.69 0.09 0.23
Matches are distributed among these distances:
8 2 0.02
9 4 0.04
10 11 0.10
11 38 0.34
12 9 0.08
13 27 0.24
15 20 0.18
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.45
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:815530 original size:60 final size:60
Alignment explanation
Indices: 815387--815574 Score: 309
Period size: 59 Copynumber: 3.2 Consensus size: 60
815377 GAAATTATAA
815387 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAAT-ATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
* *
815446 TAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
815506 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATT-A-ATTT--TGA-TTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
815561 TAATGA-TTAGTAAT
1 TAATGATTTAGTAAT
815575 AATGAAATTA
Statistics
Matches: 124, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
54 8 0.06
55 12 0.10
56 3 0.02
58 4 0.03
59 50 0.40
60 47 0.38
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (60 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
Found at i:815638 original size:48 final size:48
Alignment explanation
Indices: 815514--815672 Score: 229
Period size: 48 Copynumber: 3.4 Consensus size: 48
815504 AGTAATGATT
815514 TAGTAATGATTAGTAATAATGAAATTATTATTAA-TTT--TGA-TTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGA
*
815558 TATTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAA-TTTTAATGATTTGA
*
815607 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTGA
*
815655 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
815673 GATTTGATAG
Statistics
Matches: 104, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
44 33 0.32
46 3 0.03
47 1 0.01
48 36 0.35
49 31 0.30
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGA
Found at i:815647 original size:21 final size:22
Alignment explanation
Indices: 815623--815692 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
815613 TGATTAGTAA
815623 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
815644 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
815667 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
815691 TA
1 TA
815693 CAACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:815660 original size:14 final size:14
Alignment explanation
Indices: 815644--815691 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
815634 TATTAATATT
*
815644 TAATGATTTGATAT
1 TAATGATTTGATAG
815658 TAATGA-TT--TAG
1 TAATGATTTGATAG
815669 TAATGATTTGATAG
1 TAATGATTTGATAG
815683 TAATGATTT
1 TAATGATTT
815692 ACAACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:815782 original size:319 final size:328
Alignment explanation
Indices: 815446--816106 Score: 1108
Period size: 333 Copynumber: 2.0 Consensus size: 328
815436 TATTTGATAT
815446 TAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
*
815511 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAA-TTT-TGA-TTGATATTAATGATTAGTA
66 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTATGATTTGATAGTAATGATTAGTA
*
815573 ATAATGAAATTATTATTAAT-TTT-T-A-ATG-ATT-TGA-TAGTAATGATTAGTAATAATAATT
131 ATAAT-AAATTATTATTAATATTTATGATATGAATTATGATTAGTAATGATTAATAATAATAATT
815631 TATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACAA
195 TATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACAA
815696 CTTGAACAATGAACAATGTTTGATTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
260 CTTGAACAATGAACAATGTTTGATTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATT
815761 ATAA
325 ATAA
* * *
815765 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTATTG
1 TAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
*
815830 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTATTGATTAG
66 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAA-TTTT-ATGATTTGATAGTAATGATTAG
* *
815895 TAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTAGTAATGATTAATAATAAT
129 TAATAATAAATTATTATTAATATTT-ATGATATGA-ATT-ATGATTAGTAATGATTAATAATAAT
815960 AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTT
191 AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTT
* *
816025 ACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGA
256 ACAACTTGAACAATGAACAATGTTTGATTCAATTAACCATATTTTCGTTACATAACTAGTAATGA
816090 AATTATAA
321 AATTATAA
816098 TAATGATTT
1 TAATGATTT
816107 GATACTAAAA
Statistics
Matches: 317, Mismatches: 10, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
319 99 0.31
321 3 0.01
323 16 0.05
324 25 0.08
326 1 0.00
327 1 0.00
328 2 0.01
330 3 0.01
332 3 0.01
333 164 0.52
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (328 bp):
TAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTATGATTTGATAGTAATGATTAGTA
ATAATAAATTATTATTAATATTTATGATATGAATTATGATTAGTAATGATTAATAATAATAATTT
ATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACAAC
TTGAACAATGAACAATGTTTGATTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATTA
TAA
Found at i:815832 original size:60 final size:59
Alignment explanation
Indices: 815765--816009 Score: 343
Period size: 60 Copynumber: 4.3 Consensus size: 59
815755 GAAATTATAA
815765 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAT
* *
815825 TATTGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG--A-
1 TAATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAT
*
815882 T-A-G---TA-T--TGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAT
* *
815933 TAATGA-TTAGTAATGATTAATAATAATAATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAT
815991 TAATGATTTAGTAATGATT
1 TAATGATTTAGTAATGATT
816010 TGATAGTAAT
Statistics
Matches: 168, Mismatches: 6, Indels: 23
0.85 0.03 0.12
Matches are distributed among these distances:
48 25 0.15
49 14 0.08
50 1 0.01
51 2 0.01
52 3 0.02
53 1 0.01
55 3 0.02
56 1 0.01
57 1 0.01
58 51 0.30
59 12 0.07
60 54 0.32
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (59 bp):
TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAT
Found at i:815897 original size:378 final size:381
Alignment explanation
Indices: 815053--816005 Score: 1447
Period size: 378 Copynumber: 2.5 Consensus size: 381
815043 CTATGTATTT
*
815053 TTAA-GATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 TTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
815117 GATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT--TAGTAATGAT
66 GATTAGTAATAAT-AAATTATTATTAATATTTAATGATTT-A-ATT-TTGATTGATAGTAATGAT
815180 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGCAATGATTAGTAATGATTAGTAA
127 TAGTAATAATGAAATTATTATTAATTTTTAATGA--T--T-----TGA-TAGTAATGATTAGTAA
815245 TAATAATTTATAATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATG
182 TAATAATTTATAATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATG
* * *
815310 ATTTACGACTTGGACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTA
247 ATTTACAACTTGAACAATGAACAATGTTTGATTCAATTAACCATATTTTCGTTACATAACTAGTA
815375 ATGAAATTATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATATT
312 ATGAAATTATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATATT
815440 TGATA
377 TGATA
*
815445 TTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 TTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * * * * * *
815510 GATTTAGTAATGATTAGTAATAATGAA-A-TT-ATTA-TTAATTTTGATTGATATTAATGATTAG
66 GA-TTAGTAATAATAAATTATTATTAATATTTAATGATTTAATTTTGATTGATAGTAATGATTAG
*
815571 TAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTA
130 TAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATAA
815636 TTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACAACTTGA
195 TTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACAACTTGA
815701 ACAATGAACAATGTTTGATTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATTATAAT
260 ACAATGAACAATGTTTGATTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATTATAAT
815766 AATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATA
325 AATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAAT-ATTTGATA
* * *
815824 TTATTGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTATT
1 TTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * * *
815889 GATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATT-AATGATTAGTAATGATTAA
66 GATTAGTAATAATAAATTATTATTAATATTTAATGATTTAATTTTGATTGA-TAGTAATGATTAG
* * *
815953 TAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAAT
130 TAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAAT
816006 GATTTGATAG
Statistics
Matches: 516, Mismatches: 34, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
378 222 0.43
379 75 0.15
380 2 0.00
381 41 0.08
382 32 0.06
384 1 0.00
386 6 0.01
387 3 0.01
388 44 0.09
389 2 0.00
390 3 0.01
391 2 0.00
392 5 0.01
393 68 0.13
394 10 0.02
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (381 bp):
TTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
GATTAGTAATAATAAATTATTATTAATATTTAATGATTTAATTTTGATTGATAGTAATGATTAGT
AATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATAAT
TAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACAACTTGAA
CAATGAACAATGTTTGATTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATTATAATA
ATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATATTTGATA
Found at i:815898 original size:24 final size:24
Alignment explanation
Indices: 815871--815950 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
815861 TATTAATTTT
*
815871 TAATGATTTGATAGTATTGATTAG
1 TAATGATTTGATATTATTGATTAG
* * *
815895 TAATAATAATT--TATTATT-AATATT
1 TAATGAT--TTGATATTATTGATTA-G
*
815919 TAATGATTTGATATTAATGATTAG
1 TAATGATTTGATATTATTGATTAG
815943 TAATGATT
1 TAATGATT
815951 AATAATAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
22 2 0.05
23 3 0.07
24 32 0.76
25 3 0.07
26 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (24 bp):
TAATGATTTGATATTATTGATTAG
Found at i:815922 original size:21 final size:21
Alignment explanation
Indices: 815898--816005 Score: 70
Period size: 21 Copynumber: 5.3 Consensus size: 21
815888 TGATTAGTAA
815898 TAATAATTTATTATTAATATT
1 TAATAATTTATTATTAATATT
*
815919 TAATGATTTGA-TATTAATGA-T
1 TAATAATTT-ATTATTAAT-ATT
* * *
815940 TAGT-A---ATGATTAATA-A
1 TAATAATTTATTATTAATATT
815956 TAATAATTTATTATTAATATT
1 TAATAATTTATTATTAATATT
*
815977 TAATGATTTGA-TATTAATGATT
1 TAATAATTT-ATTATTAAT-ATT
*
815999 TAGTAAT
1 TAATAAT
816006 GATTTGATAG
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
16 5 0.07
17 7 0.10
20 10 0.15
21 34 0.51
22 11 0.16
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (21 bp):
TAATAATTTATTATTAATATT
Found at i:815924 original size:48 final size:48
Alignment explanation
Indices: 815833--816005 Score: 193
Period size: 58 Copynumber: 3.4 Consensus size: 48
815823 ATTATTGATT
* *
815833 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
*
815882 TAGTATTGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTT-A--A--TG--ATT--TGA
*
815939 TTAGTAATGATTAATAATAATAATTTATTATTAATATTTAATGATTTGA
1 -TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
*
815988 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
816006 GATTTGATAG
Statistics
Matches: 106, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
48 24 0.23
49 30 0.28
51 4 0.04
53 4 0.04
55 4 0.04
57 4 0.04
58 36 0.34
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
Found at i:815950 original size:58 final size:60
Alignment explanation
Indices: 815882--816009 Score: 199
Period size: 58 Copynumber: 2.2 Consensus size: 60
815872 AATGATTTGA
* *
815882 TAGTATTGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGA-T
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
* *
815940 TAGTAATGATTAATAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
815999 TAGTAATGATT
1 TAGTAATGATT
816010 TGATAGTAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 55 0.82
59 12 0.18
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (60 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
Found at i:815993 original size:14 final size:14
Alignment explanation
Indices: 815977--816024 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
815967 TATTAATATT
*
815977 TAATGATTTGATAT
1 TAATGATTTGATAG
815991 TAATGA-TT--TAG
1 TAATGATTTGATAG
816002 TAATGATTTGATAG
1 TAATGATTTGATAG
816016 TAATGATTT
1 TAATGATTT
816025 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:816006 original size:25 final size:25
Alignment explanation
Indices: 815977--816025 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
815967 TATTAATATT
*
815977 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
816002 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
816026 CGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:816394 original size:42 final size:42
Alignment explanation
Indices: 816347--816528 Score: 310
Period size: 42 Copynumber: 4.3 Consensus size: 42
816337 CATATTCGCA
*
816347 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
816389 TTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
816431 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
816473 TTGCGGTAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
816515 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
816529 AATCGCAACG
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 132 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:817325 original size:21 final size:21
Alignment explanation
Indices: 817299--817475 Score: 184
Period size: 21 Copynumber: 8.5 Consensus size: 21
817289 GATTTACATA
*
817299 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
817320 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
817341 TTCGTATTGCGAT-TTACATA-
1 TTCGCATTGCGATAGTCCA-AG
**
817361 TTCATATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
817382 TTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
817402 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
817423 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
817444 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
817465 TTCGCGTTGCG
1 TTCGCATTGCG
817476 CATCTGGAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
20 33 0.25
21 97 0.74
22 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:817328 original size:41 final size:42
Alignment explanation
Indices: 817280--817475 Score: 176
Period size: 41 Copynumber: 4.7 Consensus size: 42
817270 ATTTGGACTA
*
817280 TCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTACA-AGTTCGCATTGCGATAGTCGAAGT
* * *
817321 TCGCATTGCGATAGTCCAAGTTCGTATTGCGAT-TTAC-ATA-T
1 TCGCATTGCGATAGTACAAGTTCGCATTGCGATAGT-CGA-AGT
** * *
817362 TCATATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTCGAAGT
* *
817403 ATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTACA-AGTTCGCATTGCGATAGTCGAAGT
*
817445 TCGCATTGCGATAGT-CGAAGTTCGCGTTGCG
1 TCGCATTGCGATAGTAC-AAGTTCGCATTGCG
817476 CATCTGGAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
40 1 0.01
41 82 0.65
42 43 0.34
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (42 bp):
TCGCATTGCGATAGTACAAGTTCGCATTGCGATAGTCGAAGT
Found at i:817357 original size:62 final size:62
Alignment explanation
Indices: 817280--817475 Score: 304
Period size: 62 Copynumber: 3.2 Consensus size: 62
817270 ATTTGGACTA
*
817280 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGT
* ** * *
817342 TCGTATTGCGATTTACATATTCATATTGCGATAGTCCAAGTTCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGT
*
817403 ATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
1 -TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGT
*
817466 TCGCGTTGCG
1 TCGCATTGCG
817476 CATCTGGAAA
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
61 3 0.03
62 114 0.96
63 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (62 bp):
TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGT
Found at i:817495 original size:62 final size:61
Alignment explanation
Indices: 817280--817498 Score: 264
Period size: 62 Copynumber: 3.5 Consensus size: 61
817270 ATTTGGACTA
* *
817280 TCGCATTGCGATTTACATATTCGCA-TTGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATTTACATATT-G-ATTTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
* * *
817342 TCGTATTGCGATTTACATATTCATATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG-ACT
1 TCGCATTGCGATTTACATATTGAT-TTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
817403 ATCGCATTGCGATTTACATATTCGCA-TTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
1 -TCGCATTGCGATTTACATATT-G-ATTTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
* * ** *
817466 TCGCGTTGCGCATCTGGAAATTGATTTGCGATA
1 TCGCATTGCG-ATTTACATATTGATTTGCGATA
817499 CCGGAGATCG
Statistics
Matches: 136, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
60 1 0.01
61 3 0.02
62 122 0.90
63 9 0.07
64 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (61 bp):
TCGCATTGCGATTTACATATTGATTTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGT
Found at i:817495 original size:124 final size:124
Alignment explanation
Indices: 817275--817498 Score: 351
Period size: 124 Copynumber: 1.8 Consensus size: 124
817265 AACGAATTTG
*
817275 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCCAA
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAA
* * *
817340 GTTCGTATTGCGATTTACATATTCATATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
66 GTTCGCATTGCGATCTACAAATTCATATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
*
817399 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAA
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAA
* ** *
817464 GTTCGCGTTGCGCATCTGGAAATTGAT-TTGCGATA
66 GTTCGCATTGCG-ATCTACAAATTCATATTGCGATA
817499 CCGGAGATCG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
124 81 0.90
125 9 0.10
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (124 bp):
GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAA
GTTCGCATTGCGATCTACAAATTCATATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:819737 original size:15 final size:14
Alignment explanation
Indices: 819714--819744 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
819704 TACAACACTG
819714 AACTTTAATATAAT
1 AACTTTAATATAAT
819728 AACTTATAATATAAT
1 AACTT-TAATATAAT
819743 AA
1 AA
819745 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:819752 original size:16 final size:16
Alignment explanation
Indices: 819719--819765 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
819709 CACTGAACTT
*
819719 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
819734 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
819750 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
819766 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:820289 original size:26 final size:26
Alignment explanation
Indices: 820246--820329 Score: 143
Period size: 26 Copynumber: 3.3 Consensus size: 26
820236 CCCTTTCTTT
*
820246 CTTTC-TCGGCTGCAATCTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
*
820271 CTTTCTTCTGCTGCAATCTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
820297 CTTTCTTCAGCTGCAATCTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
820323 CTTTCTT
1 CTTTCTT
820330 TCTTTTATGT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 5 0.09
26 51 0.91
ACGTcount: A:0.08, C:0.38, G:0.08, T:0.45
Consensus pattern (26 bp):
CTTTCTTCAGCTGCAATCTCTTCTCC
Found at i:820952 original size:29 final size:29
Alignment explanation
Indices: 820904--820975 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
820894 AACCAAGCTT
* * *
820904 GGTCGCCGGGACTGCTTGGCGACCTACAA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
***
820933 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
820962 GGTCGCTGGGAGTG
1 GGTCGCTGGGAGTG
820976 GGGAGTGCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.14, C:0.24, G:0.42, T:0.21
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCATGGCGACCTACAA
Found at i:822340 original size:6 final size:6
Alignment explanation
Indices: 822329--822391 Score: 126
Period size: 6 Copynumber: 10.5 Consensus size: 6
822319 TCTCGTTTCG
822329 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
822377 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
822392 AATACGTGTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:822514 original size:21 final size:21
Alignment explanation
Indices: 822490--822608 Score: 86
Period size: 21 Copynumber: 5.7 Consensus size: 21
822480 CTTGGAATAA
822490 ATCGCAACGCGAATTTGGACT
1 ATCGCAACGCGAATTTGGACT
*
822511 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAATTTGGACT
* *
822530 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAATTTGGACT
* *
822553 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAATTTGGACT
* *
822572 AAATCGCAACGTGAACTTCGG-CT
1 --ATCGCAACGCGAA-TTTGGACT
*
822595 ATCGCAATGCGAAT
1 ATCGCAACGCGAAT
822609 ATGTAAATCG
Statistics
Matches: 77, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
19 21 0.27
20 1 0.01
21 39 0.51
23 13 0.17
24 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAATTTGGACT
Found at i:822523 original size:19 final size:19
Alignment explanation
Indices: 822474--822601 Score: 78
Period size: 21 Copynumber: 6.1 Consensus size: 19
822464 CGTCGTTGCG
*
822474 AACGAACTTGGAATAAATCGC
1 AACGAACTTGGACT--ATCGC
*
822495 AACGCGAATTTGGACTATCGC
1 AA--CGAACTTGGACTATCGC
* *
822516 AACGAATTTGGAATAAATCGC
1 AACGAACTTGGACT--ATCGC
*
822537 AACGCGAACTTCGACTATCGC
1 AA--CGAACTTGGACTATCGC
*
822558 AACGAACTTGGAATAAATCGC
1 AACGAACTTGGACT--ATCGC
822579 AACGTGAACTTCGG-CTATCGC
1 AAC--GAACTT-GGACTATCGC
822600 AA
1 AA
822602 TGCGAATATG
Statistics
Matches: 87, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
19 21 0.24
21 38 0.44
23 26 0.30
24 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (19 bp):
AACGAACTTGGACTATCGC
Found at i:822533 original size:42 final size:42
Alignment explanation
Indices: 822474--822601 Score: 195
Period size: 42 Copynumber: 3.0 Consensus size: 42
822464 CGTCGTTGCG
822474 AACGAACTTGGAATAAATCGCAACGCGAATTTGGACTATCGC
1 AACGAACTTGGAATAAATCGCAACGCGAATTTGGACTATCGC
* * *
822516 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
1 AACGAACTTGGAATAAATCGCAACGCGAATTTGGACTATCGC
* *
822558 AACGAACTTGGAATAAATCGCAACGTGAACTTCGG-CTATCGC
1 AACGAACTTGGAATAAATCGCAACGCGAA-TTTGGACTATCGC
822600 AA
1 AA
822602 TGCGAATATG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 75 0.97
43 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (42 bp):
AACGAACTTGGAATAAATCGCAACGCGAATTTGGACTATCGC
Found at i:828726 original size:68 final size:67
Alignment explanation
Indices: 828641--828777 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 67
828631 TATTTTATAG
*
828641 ATTTTTTTAGACCCTTAAATCAATTGGTGCTTGTATCACCAC-AGATGTTCTCATTGCAATAAAA
1 ATTTTTTTAGACACTTAAATCAATTGGTGCTTGTATCACC-CTAGATGTTCTCATTGCAATAAAA
828705 TCA
65 TCA
* ** *
828708 ATTTTTTCTATACACTTAAATTGATTGGTGCTTGTATCACCCTAGATGTTCTCATTGTAATAAAA
1 ATTTTTT-TAGACACTTAAATCAATTGGTGCTTGTATCACCCTAGATGTTCTCATTGCAATAAAA
828773 TCA
65 TCA
828776 AT
1 AT
828778 ATCAATATGC
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
67 8 0.13
68 55 0.87
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.40
Consensus pattern (67 bp):
ATTTTTTTAGACACTTAAATCAATTGGTGCTTGTATCACCCTAGATGTTCTCATTGCAATAAAAT
CA
Found at i:828910 original size:11 final size:11
Alignment explanation
Indices: 828894--828923 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
828884 AACCGTTTCG
828894 TTTATGATTAT
1 TTTATGATTAT
828905 TTTATGATTAT
1 TTTATGATTAT
*
828916 TTAATGAT
1 TTTATGAT
828924 CAATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (11 bp):
TTTATGATTAT
Found at i:831126 original size:18 final size:18
Alignment explanation
Indices: 831103--831147 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
831093 GCCACCCTTT
*
831103 CTTCCTCTTCCTCTTCTC
1 CTTCCTCGTCCTCTTCTC
*
831121 CTTCCTCGTCCTCTTCTT
1 CTTCCTCGTCCTCTTCTC
831139 C-TCCTCGTC
1 CTTCCTCGTC
831148 TCCGACAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.00, C:0.49, G:0.04, T:0.47
Consensus pattern (18 bp):
CTTCCTCGTCCTCTTCTC
Found at i:844923 original size:2 final size:2
Alignment explanation
Indices: 844916--844941 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
844906 AGTGTTTGAT
844916 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
844942 GAAATTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:846713 original size:25 final size:25
Alignment explanation
Indices: 846679--846728 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
846669 AGAATTATAT
846679 ATATATTTGTTTTAGTTTCAATGGG
1 ATATATTTGTTTTAGTTTCAATGGG
846704 ATATATTTGTTTTAGTTTCAATGGG
1 ATATATTTGTTTTAGTTTCAATGGG
846729 CTTCTTATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (25 bp):
ATATATTTGTTTTAGTTTCAATGGG
Found at i:850163 original size:18 final size:19
Alignment explanation
Indices: 850140--850195 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
850130 TTATAAATAA
850140 TATTTTAAAAATTATAT-G
1 TATTTTAAAAATTATATAG
* *
850158 TATTTTAATTAATTTTATAG
1 TATTTTAA-AAATTATATAG
*
850178 TTTATTTAAAAATTATAT
1 TAT-TTTAAAAATTATAT
850196 TCTTATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 8 0.27
19 7 0.23
20 10 0.33
21 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
TATTTTAAAAATTATATAG
Found at i:850220 original size:38 final size:39
Alignment explanation
Indices: 850143--850222 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 39
850133 TAAATAATAT
* *
850143 TTTAAAAATTATATGTATTTTAATTAATTTTATAGTTTA
1 TTTAAAAATTATATGTATTATAATTAATTTTATAATTTA
*
850182 TTTAAAAATTATAT-TCTTAT-ATTATATTTTATAATTTA
1 TTTAAAAATTATATGTATTATAATTA-ATTTTATAATTTA
850220 TTT
1 TTT
850223 TAGGATTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 4 0.11
38 19 0.51
39 14 0.38
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (39 bp):
TTTAAAAATTATATGTATTATAATTAATTTTATAATTTA
Found at i:850221 original size:12 final size:12
Alignment explanation
Indices: 850163--850224 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
850153 ATATGTATTT
*
850163 TAATTAATTTTA
1 TAATTTATTTTA
* *
850175 TAGTTTATTTAA
1 TAATTTATTTTA
*
850187 AAATTATATTCTTA
1 TAATT-TATT-TTA
850201 T-ATTATATTTTA
1 TAATT-TATTTTA
850213 TAATTTATTTTA
1 TAATTTATTTTA
850225 GGATTGATAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
12 23 0.57
13 15 0.38
14 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
TAATTTATTTTA
Found at i:861033 original size:2 final size:2
Alignment explanation
Indices: 861026--861076 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
861016 TAAAGGATGA
861026 AT AT AT AT AT AT 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 AT AT AT
*
861068 AT GT AT AT A
1 AT AT AT AT A
861077 GTACTTGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:872830 original size:16 final size:16
Alignment explanation
Indices: 872806--872836 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
872796 CATTTCTGAA
872806 TCATGCATTAAAATAT
1 TCATGCATTAAAATAT
*
872822 TCATTCATTAAAATA
1 TCATGCATTAAAATA
872837 ATGATAATAA
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:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (16 bp):
TCATGCATTAAAATAT
Found at i:876768 original size:38 final size:38
Alignment explanation
Indices: 876721--876834 Score: 147
Period size: 38 Copynumber: 3.0 Consensus size: 38
876711 AGAGATCAAC
*
876721 ATCTCGCTTGAGATAGTATCACTCGAAATAGAAGATTT
1 ATCTCGCTTGAGATAGTATCACTCGAAACAGAAGATTT
* * *
876759 ATCTAGCTTGAGATAATTTCACTCGAAACAGAAGATTT
1 ATCTCGCTTGAGATAGTATCACTCGAAACAGAAGATTT
* * * * *
876797 ATCTCTCTTGAGATAGTTTCGCTTGAAACAAAAGATTT
1 ATCTCGCTTGAGATAGTATCACTCGAAACAGAAGATTT
876835 TAAGAAACTA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (38 bp):
ATCTCGCTTGAGATAGTATCACTCGAAACAGAAGATTT
Found at i:877088 original size:343 final size:345
Alignment explanation
Indices: 876457--877181 Score: 1096
Period size: 343 Copynumber: 2.1 Consensus size: 345
876447 GATCAACATA
* *
876457 TCGCTTGAGATAGTTTCGCTCGAAATAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGATT
1 TCGCTTGAGATAGTTTCGCTTGAAACAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGATT
* * *
876522 CTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCCTAAATCCTTTGGGT
66 CTTGATGAGTAAGTCCTTCGGGCCATCAGTAAATCTTTCGAGCATGATACCTAAATCCTTTGAGT
* * * * * *
876587 CATCTATAAGTCTTTCGGGAAAGATGATAGGTCTTTCGAGCCATCCATAAGACATTTGGGCATGA
131 CATCTATAAGTATTTCGAGAAAGATGATAAGTCATTCGAGCCATCCATAAGACATTCGGGCAGGA
* * *
876652 TGTTTTCGACATTTCCTTTGCTTGATTCACAACATTTCGAATTAACGACGCCTCACTTGAGAGAT
196 TGTTTTAGACATTTCCTTTGATTGATTCACAACATTTCGAATCAACGACGCCTCACTTGAGAGAT
*
876717 CAACATCTCGCTTGAGATAGTATCACTCGAAATAGAAGA-TTTATCTAGCTTGAGATAATTTCAC
261 CAACATCTCGCTTGAGATAGTATCACTCGAAACAGAAGATTTTATCTAGCTTGAGATAATTTCAC
*
876781 TCGAAACAGAAGA-TTTATC
326 TCGAAACAAAAGATTTTATC
* *
876800 TCTCTTGAGATAGTTTCGCTTGAAACAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTT
1 TCGCTTGAGATAGTTTCGCTTGAAACAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGATT
* ** *
876865 CTTGATGAGTAAGTCCTTTGGGCCATCAGTAAATCTTTCGAGCATGATATTTCAATCCTTTGAGT
66 CTTGATGAGTAAGTCCTTCGGGCCATCAGTAAATCTTTCGAGCATGATACCTAAATCCTTTGAGT
* * *
876930 CATCTATAAGTATTTCGAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGCAGGA
131 CATCTATAAGTATTTCGAGAAAGATGATAAGTCATTCGAGCCATCCATAAGACATTCGGGCAGGA
* ** *
876995 TGTTTTTAG-CATTTCCTTTGATTGATTCACAACATTTTGAATCAGTGACGCCTCACTTGAGGGA
196 TG-TTTTAGACATTTCCTTTGATTGATTCACAACATTTCGAATCAACGACGCCTCACTTGAGAGA
* ** * *
877059 TCAACATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTTTCTTGAGATAGTTTCG
260 TCAACATCTCGCTTGAGATAGTATCACTCGAAACAGAAGATTTTATCTAGCTTGAGATAATTTCA
877124 CTCGAAACAAAAGATTTTATC
325 CTCGAAACAAAAGATTTTATC
* *
877145 TCGCTTGAGATAGTTTCGCTTGAAACATAAGACTTTA
1 TCGCTTGAGATAGTTTCGCTTGAAACAAAAGATTTTA
877182 TCTCGCTTGA
Statistics
Matches: 342, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
343 264 0.77
344 38 0.11
345 40 0.12
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (345 bp):
TCGCTTGAGATAGTTTCGCTTGAAACAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGATT
CTTGATGAGTAAGTCCTTCGGGCCATCAGTAAATCTTTCGAGCATGATACCTAAATCCTTTGAGT
CATCTATAAGTATTTCGAGAAAGATGATAAGTCATTCGAGCCATCCATAAGACATTCGGGCAGGA
TGTTTTAGACATTTCCTTTGATTGATTCACAACATTTCGAATCAACGACGCCTCACTTGAGAGAT
CAACATCTCGCTTGAGATAGTATCACTCGAAACAGAAGATTTTATCTAGCTTGAGATAATTTCAC
TCGAAACAAAAGATTTTATC
Found at i:877233 original size:40 final size:39
Alignment explanation
Indices: 877064--877303 Score: 311
Period size: 39 Copynumber: 6.1 Consensus size: 39
877054 AGGGATCAAC
877064 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
** * *
877103 ATCTTTCTTGAGATAGTTTCGCTCGAAACAAAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * * *
877142 ATCTCGCTTGAGATAGTTTCGCTTGAAACATAAGACTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
877181 ATCTCGCTTGAGATAGTTTCACTTGAAACAGTAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
* *
877221 ATCTCGCTTGAGATAGTTTCACTCGAAATAGTAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
** * *
877261 ATCTCATTTGAAATAGTTTCACTCGAAAAAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
877299 ATCTC
1 ATCTC
877304 ACGAGAGATT
Statistics
Matches: 180, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
38 8 0.04
39 101 0.56
40 71 0.39
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:877972 original size:24 final size:23
Alignment explanation
Indices: 877941--877994 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
877931 TAATAATCCC
877941 TTTTTTCTTTTTTTTTTCTTTTCT
1 TTTTTTC-TTTTTTTTTCTTTTCT
877965 TTTTTTCTTTTTTTTTCTTTTCT
1 TTTTTTCTTTTTTTTTCTTTTCT
877988 TTTTTTC
1 TTTTTTC
877995 AGTGTTTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 23 0.77
24 7 0.23
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (23 bp):
TTTTTTCTTTTTTTTTCTTTTCT
Found at i:878002 original size:23 final size:23
Alignment explanation
Indices: 877953--878002 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
877943 TTTTCTTTTT
** *
877953 TTTTTCTTTTCTTTTTTTCTTTT
1 TTTTTCTTTTCTTTTTTTCAGTG
877976 TTTTTCTTTTCTTTTTTTCAGTG
1 TTTTTCTTTTCTTTTTTTCAGTG
877999 TTTT
1 TTTT
878003 CGTTTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (23 bp):
TTTTTCTTTTCTTTTTTTCAGTG
Found at i:878008 original size:23 final size:23
Alignment explanation
Indices: 877954--878017 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
877944 TTTCTTTTTT
** *
877954 TTTTCTTTTCTTTTTTTCTTTTT
1 TTTTCTTTTCTTTTTTTCTAGTG
877977 TTTTCTTTTCTTTTTTTC-AGTG
1 TTTTCTTTTCTTTTTTTCTAGTG
*
877999 TTTTCGTTTTTGTTTTTTT
1 TTTTC--TTTTCTTTTTTT
878018 TTTATCTCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.17
23 18 0.51
24 11 0.31
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (23 bp):
TTTTCTTTTCTTTTTTTCTAGTG
Found at i:878009 original size:1 final size:1
Alignment explanation
Indices: 877941--877993 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
877931 TAATAATCCC
* * * * * *
877941 TTTTTTCTTTTTTTTTTCTTTTCTTTTTTTCTTTTTTTTTCTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
877994 CAGTGTTTTC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:878839 original size:22 final size:22
Alignment explanation
Indices: 878814--878855 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
878804 TTTTATTTTA
878814 ATTTAG-TCACTGTTAGTTTATG
1 ATTTAGCT-ACTGTTAGTTTATG
*
878836 ATTTAGCTACTGTTATTTTA
1 ATTTAGCTACTGTTAGTTTA
878856 ATTTTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (22 bp):
ATTTAGCTACTGTTAGTTTATG
Found at i:881271 original size:37 final size:38
Alignment explanation
Indices: 881230--881312 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 38
881220 GGAAGGTTGA
881230 GTGGTGTTGGAAGTTGTTTTAC-TCAGTTTGGAACTTC
1 GTGGTGTTGGAAGTTGTTTTACATCAGTTTGGAACTTC
*
881267 GTGGTGTTGGAATTTGTTTTACTGATCAGTTTGGAACTTC
1 GTGGTGTTGGAAGTTGTTTTAC--ATCAGTTTGGAACTTC
881307 GTGGTG
1 GTGGTG
881313 AATAAGTAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 21 0.50
40 21 0.50
ACGTcount: A:0.16, C:0.10, G:0.31, T:0.43
Consensus pattern (38 bp):
GTGGTGTTGGAAGTTGTTTTACATCAGTTTGGAACTTC
Found at i:883526 original size:121 final size:121
Alignment explanation
Indices: 883310--883536 Score: 305
Period size: 121 Copynumber: 1.9 Consensus size: 121
883300 TATGTTCGGA
* * * * * *
883310 GGACAAACTTCTAAAATTTTAATATGAGATGAACTTATAAAATTCTAAGGGATGGATATAGATTA
1 GGACAAACTTCTAAAATATTAAGATGAGATGAACTTATAAAATTCTAAAGGATAGAAATAAATTA
* * *
883375 TTAACATAAAATACTAAGAAAATACCTAAAATATATAATAATTTAAAATTTTTAGG
66 TTAACAGAAAATACAAAGAAAATACATAAAATATATAATAATTTAAAATTTTTAGG
* *
883431 GGACAAACTTCTAAAATATTAAGA-GATGATTAACTT-TAAAATTCTAAAAGGATATAAATAAAT
1 GGACAAACTTCTAAAATATTAAGATGA-GATGAACTTATAAAATTCT-AAAGGATAGAAATAAAT
* *
883494 TATTAATAGAAAATACAAAGAAAATATATAAAATATATAATAA
64 TATTAACAGAAAATACAAAGAAAATACATAAAATATATAATAA
883537 ACTCATACAC
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
120 11 0.12
121 80 0.88
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (121 bp):
GGACAAACTTCTAAAATATTAAGATGAGATGAACTTATAAAATTCTAAAGGATAGAAATAAATTA
TTAACAGAAAATACAAAGAAAATACATAAAATATATAATAATTTAAAATTTTTAGG
Found at i:889435 original size:28 final size:29
Alignment explanation
Indices: 889395--889456 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 29
889385 GAAATCTTAA
889395 AAATTAGTTTAAAGTCTCTTAA-TTTTAT
1 AAATTAGTTTAAAGTCTCTTAATTTTTAT
889423 AAATTAGTTTAAAGTCTCTTAATTTTTAT
1 AAATTAGTTTAAAGTCTCTTAATTTTTAT
889452 AAATT
1 AAATT
889457 TTAATTTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 22 0.67
29 11 0.33
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.50
Consensus pattern (29 bp):
AAATTAGTTTAAAGTCTCTTAATTTTTAT
Found at i:902474 original size:21 final size:21
Alignment explanation
Indices: 902447--902508 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
902437 CAGACAAGTA
* *
902447 ATACTCCACAGTAGGTGGAGC
1 ATACTCCAAAATAGGTGGAGC
* *
902468 ATGCTCCAAAACAGGTGGAGC
1 ATACTCCAAAATAGGTGGAGC
902489 ATACTCCAAAATAGGTGGAG
1 ATACTCCAAAATAGGTGGAG
902509 TTTCAGCAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (21 bp):
ATACTCCAAAATAGGTGGAGC
Found at i:902776 original size:13 final size:13
Alignment explanation
Indices: 902758--902783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
902748 AAATGATAAG
902758 TGGAAAACTGCCA
1 TGGAAAACTGCCA
902771 TGGAAAACTGCCA
1 TGGAAAACTGCCA
902784 CGGATAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
TGGAAAACTGCCA
Found at i:904452 original size:33 final size:34
Alignment explanation
Indices: 904414--904479 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
904404 AGTTGGCAAG
904414 TTGGAAATTTCATCTTGGTTGGTGG-CAAACTTA
1 TTGGAAATTTCATCTTGGTTGGTGGCCAAACTTA
904447 TTGGAAATTTCATCTTGGTTGGTGGCCAAACTT
1 TTGGAAATTTCATCTTGGTTGGTGGCCAAACTT
904480 TGAACGTGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 25 0.78
34 7 0.22
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (34 bp):
TTGGAAATTTCATCTTGGTTGGTGGCCAAACTTA
Found at i:905444 original size:76 final size:76
Alignment explanation
Indices: 905337--905477 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 76
905327 ATTTTAAATA
* *
905337 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTT-AGTATTTTAATTAAGTTTT
1 TTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAA-TTTTAAGTATTTTAATTAAGATTT
905401 AGGATATTATTT
65 AGGATATTATTT
*
905413 TTATATTTTATATTTGTTTT-GTGTATTTTAGTTTAAATAATTTTAAGTGTTTTAATTAAGATTT
1 TTATATTTTATATTTGTTTTAG-GTATTTTAGTTTAAATAATTTTAAGTATTTTAATTAAGATTT
905477 A
65 A
905478 AGATGTTTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
75 5 0.08
76 55 0.92
ACGTcount: A:0.28, C:0.01, G:0.11, T:0.60
Consensus pattern (76 bp):
TTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAATTTTAAGTATTTTAATTAAGATTTA
GGATATTATTT
Found at i:906099 original size:17 final size:18
Alignment explanation
Indices: 906077--906118 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
906067 CTTTAAATTA
*
906077 TTTATTTCATTATT-TCT
1 TTTATTTAATTATTATCT
*
906094 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
906112 TTTATTT
1 TTTATTT
906119 TAAAAACTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:906208 original size:19 final size:18
Alignment explanation
Indices: 906172--906213 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
906162 ATATTTTACC
*
906172 TTTTATTTATTATTATCT
1 TTTTATTTATTATAATCT
906190 ATTTTATTTTATTA-AATCT
1 -TTTTA-TTTATTATAATCT
906209 TTTTA
1 TTTTA
906214 ACTTTACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTTATTATAATCT
Found at i:906977 original size:21 final size:21
Alignment explanation
Indices: 906953--907029 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
906943 CGAGTTACCT
906953 GCGACGGCCGCAATAGCGT-CC
1 GCGACGGCCGCAATAGC-TCCC
*
906974 GCGATGGCCGCAATAGCTCCC
1 GCGACGGCCGCAATAGCTCCC
*
906995 GCGACGGCCGTAATAGCTCCC
1 GCGACGGCCGCAATAGCTCCC
*
907016 GCAACGGCCGCAAT
1 GCGACGGCCGCAAT
907030 CACGATAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 1 0.02
21 49 0.98
ACGTcount: A:0.21, C:0.38, G:0.30, T:0.12
Consensus pattern (21 bp):
GCGACGGCCGCAATAGCTCCC
Found at i:908467 original size:248 final size:244
Alignment explanation
Indices: 907997--908488 Score: 948
Period size: 248 Copynumber: 2.0 Consensus size: 244
907987 AATAATGTGA
907997 TAATGAAATCGGGGGAACTCTACCTGTGAAGATTAGTGGATGAATTGATAGTTAGGGGCTTACTA
1 TAATGAAATCGGGGGAACTCTACCTGTGAAGATTAGTGGATGAATTGATAGTTAGGGGCTTACTA
908062 ACTCATGTATGTATATGTCATATTTGATTGTTTTACGAGTTAATCTGTATAATATGTTCTATGGG
66 ACTCATGTATGTATATGTCATATTTGATTGTTTTACGAGTTAATCTGTATAATATGTTCTATGGG
908127 TTATGACAAGTAAGATATGAGAGCTAGAAGAGGGAGAAGAGATAAACAATAAAGGTTTAGCATTT
131 TTATGACAAGTAAGATATGAGAGCTAGAAGAGGGAGAAGAGATAAACAATAAAGGTTTAGCATTT
908192 CCCCTAAAAAATTACTTGATGATGCAAGTAGAAATTAAAGAATTTCAGT
196 CCCCTAAAAAATTACTTGATGATGCAAGTAGAAATTAAAGAATTTCAGT
908241 TAATGAAATCGGGGGAACTCTACCTGTGAAGATTAGTGGATGAATTGATAGTTAGGGGCTTACTA
1 TAATGAAATCGGGGGAACTCTACCTGTGAAGATTAGTGGATGAATTGATAGTTAGGGGCTTACTA
908306 ACTCATGTATGTATATGTCATATTTGATTGTTTTACGAGTTAATCTCTGTATATAATATGTTCTA
66 ACTCATGTATGTATATGTCATATTTGATTGTTTTACGAGTTAA--TCTG--TATAATATGTTCTA
908371 TGGGTTATGACAAGTAAGATATGAGAGCTAGAAGAGGGAGAAGAGATAAACAATAAAGGTTTAGC
127 TGGGTTATGACAAGTAAGATATGAGAGCTAGAAGAGGGAGAAGAGATAAACAATAAAGGTTTAGC
908436 ATTTCCCCTAAAAAATTACTTGATGATGCAAGTAGAAATTAAAGAATTTCAGT
192 ATTTCCCCTAAAAAATTACTTGATGATGCAAGTAGAAATTAAAGAATTTCAGT
908489 CTTATTCTTC
Statistics
Matches: 244, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
244 108 0.44
246 4 0.02
248 132 0.54
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (244 bp):
TAATGAAATCGGGGGAACTCTACCTGTGAAGATTAGTGGATGAATTGATAGTTAGGGGCTTACTA
ACTCATGTATGTATATGTCATATTTGATTGTTTTACGAGTTAATCTGTATAATATGTTCTATGGG
TTATGACAAGTAAGATATGAGAGCTAGAAGAGGGAGAAGAGATAAACAATAAAGGTTTAGCATTT
CCCCTAAAAAATTACTTGATGATGCAAGTAGAAATTAAAGAATTTCAGT
Found at i:918178 original size:2 final size:2
Alignment explanation
Indices: 918173--918206 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
918163 TATACGATCA
918173 AT AT 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
918207 GCTTCGGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:919401 original size:25 final size:24
Alignment explanation
Indices: 919372--919452 Score: 62
Period size: 25 Copynumber: 3.5 Consensus size: 24
919362 AAAAAATAAT
919372 ATTTTAGGTAGCGACCAATATTAAC
1 ATTTTAGGTAGCGA-CAATATTAAC
* * *
919397 ATTTTCGGTA--GA-AA-AATAAT
1 ATTTTAGGTAGCGACAATATTAAC
* *
919417 ATTTTAGATAGCGTTCAATATTAAC
1 ATTTTAGGTAGCG-ACAATATTAAC
*
919442 ATTTTTGGTAG
1 ATTTTAGGTAG
919453 AAAAATAATA
Statistics
Matches: 41, Mismatches: 10, Indels: 10
0.67 0.16 0.16
Matches are distributed among these distances:
20 12 0.29
21 2 0.05
22 1 0.02
23 2 0.05
24 2 0.05
25 22 0.54
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (24 bp):
ATTTTAGGTAGCGACAATATTAAC
Found at i:919429 original size:45 final size:45
Alignment explanation
Indices: 919363--919472 Score: 184
Period size: 45 Copynumber: 2.4 Consensus size: 45
919353 ACTCGGAAGA
*
919363 AAAAATAATATTTTAGGTAGCGACCAATATTAACATTTTCGGTAG
1 AAAAATAATATTTTAGATAGCGACCAATATTAACATTTTCGGTAG
** *
919408 AAAAATAATATTTTAGATAGCGTTCAATATTAACATTTTTGGTAG
1 AAAAATAATATTTTAGATAGCGACCAATATTAACATTTTCGGTAG
919453 AAAAATAATATTTTAGATAG
1 AAAAATAATATTTTAGATAG
919473 TAATTTTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (45 bp):
AAAAATAATATTTTAGATAGCGACCAATATTAACATTTTCGGTAG
Found at i:920966 original size:28 final size:28
Alignment explanation
Indices: 920934--920990 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
920924 AAGCACAAGG
920934 AATATATGAAGAAGATGAACAGCAATAA
1 AATATATGAAGAAGATGAACAGCAATAA
920962 AATATATGAAGAAGATGAACAGCAATAA
1 AATATATGAAGAAGATGAACAGCAATAA
920990 A
1 A
920991 GGGGTGTGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.58, C:0.07, G:0.18, T:0.18
Consensus pattern (28 bp):
AATATATGAAGAAGATGAACAGCAATAA
Found at i:924294 original size:203 final size:203
Alignment explanation
Indices: 923935--924340 Score: 670
Period size: 203 Copynumber: 2.0 Consensus size: 203
923925 ATTTGTAACA
* * * *
923935 TCCTCAATATCGGGTGAGTGAATAAATTATAAAACTTCATAATTTGGTGATTTAAGTAGAATAAT
1 TCCTCAATATCGGGCGAGTGAATAAATTATAAAACTTAAGAATTTGGTAATTTAAGTAGAATAAT
* *
924000 TGAATTGTTCGATGACTTAGTTGAAAATATTTCCTGAAGGGTTATTAGTAATTATTAAAAGAATT
66 TGAATAGTTCGATGACTTAGTTGAAAATATTTCCTGAAGGGTTAATAGTAATTATTAAAAGAATT
*
924065 AAAGGGAAAAATGGTCATTCGACTTAGAAATGGATAAGATAAGGATATATACGGGGATAAAGTCG
131 AAAGGGAAAAATGATCATTCGACTTAGAAATGGATAAGATAAGGATATATACGGGGATAAAGTCG
924130 AGAGATTT
196 AGAGATTT
* *
924138 TCCTCAATA-CTGGGCGAGTGACTAAATTGTAAAACTTAAGAATTTGGTAATTTAAGTAGAATAA
1 TCCTCAATATC-GGGCGAGTGAATAAATTATAAAACTTAAGAATTTGGTAATTTAAGTAGAATAA
*
924202 TTGAATAGTTCGATGACTTATTTGAAAATATTTCCTGAAGGGTTAATAGTAATTATTAAAAGAAT
65 TTGAATAGTTCGATGACTTAGTTGAAAATATTTCCTGAAGGGTTAATAGTAATTATTAAAAGAAT
* * * *
924267 TAAAGGGCAAAATGATCATTTGACTTAGAAATGGATAAGATAAGGATATATACGGGGATAAGGTT
130 TAAAGGGAAAAATGATCATTCGACTTAGAAATGGATAAGATAAGGATATATACGGGGATAAAGTC
924332 GAGAGATTT
195 GAGAGATTT
924341 CTCCCGAAAT
Statistics
Matches: 188, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
202 1 0.01
203 187 0.99
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (203 bp):
TCCTCAATATCGGGCGAGTGAATAAATTATAAAACTTAAGAATTTGGTAATTTAAGTAGAATAAT
TGAATAGTTCGATGACTTAGTTGAAAATATTTCCTGAAGGGTTAATAGTAATTATTAAAAGAATT
AAAGGGAAAAATGATCATTCGACTTAGAAATGGATAAGATAAGGATATATACGGGGATAAAGTCG
AGAGATTT
Found at i:925028 original size:20 final size:19
Alignment explanation
Indices: 924959--925033 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 19
924949 AATGTAATTT
924959 GTGTACCGATACA-TAGGCA
1 GTGTACCGATACACTAGG-A
*
924978 GTGTATCGATACACCAGTTAAGGA
1 GTGTACCGATACA-C---T-AGGA
*
925002 ATGTACCGATACACTATGGA
1 GTGTACCGATACACTA-GGA
925022 GTGTACCGATAC
1 GTGTACCGATAC
925034 CTACCTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
19 13 0.29
20 15 0.33
23 1 0.02
24 13 0.29
25 3 0.07
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (19 bp):
GTGTACCGATACACTAGGA
Found at i:926084 original size:30 final size:31
Alignment explanation
Indices: 925960--926109 Score: 212
Period size: 31 Copynumber: 4.9 Consensus size: 31
925950 GAGTCGAGGG
* * *
925960 TTACCTATGTTCTTCGGGATATATAGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGA
925991 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
926022 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* * * *
926053 TTATCTATGTTCTTC-AGACTTATGGATTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
**
926083 TTACCTATGTTCTTCGAAACATATGGA
1 TTACCTATGTTCTTCGGGACATATGGA
926110 ATGGTCCTTC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
30 26 0.24
31 82 0.76
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.39
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:940735 original size:103 final size:99
Alignment explanation
Indices: 940542--940759 Score: 276
Period size: 103 Copynumber: 2.2 Consensus size: 99
940532 AAAGAATAAA
* *
940542 TTTTATCTCACTTGAGATTGTTTTCTTAAAAAAAATCACCTCACTTGAGGCAGTTTCCCTTGAAA
1 TTTTATCTCACTTGAGATTGTTTTCTTAAAAAAAATCACCTCACTTGAGACAATTTCCCTTGAAA
*
940607 CACAAATTTTGAAATTGTTTCACTCGAAACAATT
66 CACAAATTTTAAAATTGTTTCACTCGAAACAATT
* * * *
940641 TTTTAATCTCACTTGAGGTTGTTTCTCTTTAAACAAAATTTCATCTCACTTGAGACAATTTCTCT
1 TTTT-ATCTCACTTGAGATTGTTT-TC-TTAAA-AAAA-ATCACCTCACTTGAGACAATTTCCCT
* **
940706 TGAAACA-AAATTTTAAAATTGTTTTACTCGAAACAAAAA
61 TGAAACACAAATTTTAAAATTGTTTCACTCGAAAC-AATT
*
940745 TTTTATCCCACTTGA
1 TTTTATCTCACTTGA
940760 AACATTTTCT
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
99 4 0.04
100 18 0.18
101 2 0.02
102 5 0.05
103 39 0.38
104 34 0.33
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (99 bp):
TTTTATCTCACTTGAGATTGTTTTCTTAAAAAAAATCACCTCACTTGAGACAATTTCCCTTGAAA
CACAAATTTTAAAATTGTTTCACTCGAAACAATT
Found at i:940847 original size:69 final size:68
Alignment explanation
Indices: 940676--940967 Score: 363
Period size: 69 Copynumber: 4.3 Consensus size: 68
940666 TCTTTAAACA
* * *
940676 AAATTTCATCTCACTTGAGACAATTTCTCTTGAAACA-AAATTTTAAAATTGTTTTACTCGAAAC
1 AAATTTTATCTCACTTGAGACAATTTCTCTTGAAATACAAATTTTAAAATTGTTTCACTCGAAAC
940740 AA-
66 AAG
* * *
940742 AAATTTTATCCCACTTGAAACATTTTCTCTTGAAATACAAATTTTAAAATTGTTTCACTCGAAAC
1 AAATTTTATCTCACTTGAGACAATTTCTCTTGAAATACAAATTTTAAAATTGTTTCACTCGAAAC
940807 AAG
66 AAG
* * * *
940810 AAACTTTTATCTCACTTGAGACACTTTCTCTTGAAATAAAAATTTTGAAATTGTTTCAATCGAAA
1 AAA-TTTTATCTCACTTGAGACAATTTCTCTTGAAATACAAATTTTAAAATTGTTTCACTCGAAA
940875 CAAG
65 CAAG
* * * ** * * **
940879 AAGTTTTCATCTCACTTAAGACAATTTATCTTGAAATACAAATTTTGGATTTATTTCACTTTAAA
1 AAATTTT-ATCTCACTTGAGACAATTTCTCTTGAAATACAAATTTTAAAATTGTTTCACTCGAAA
940944 CAAG
65 CAAG
*
940948 AAATTTTTATTTCACTTGAG
1 AAA-TTTTATCTCACTTGAG
940968 GTTATTTATT
Statistics
Matches: 195, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
66 32 0.16
67 28 0.14
68 7 0.04
69 124 0.64
70 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (68 bp):
AAATTTTATCTCACTTGAGACAATTTCTCTTGAAATACAAATTTTAAAATTGTTTCACTCGAAAC
AAG
Found at i:942133 original size:17 final size:17
Alignment explanation
Indices: 942114--942169 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
942104 AGTGAGGGAG
*
942114 AAGAAGTTCATAATGAG
1 AAGAAGTTCATAATGAA
942131 AAGAAGTTCATAATGAA
1 AAGAAGTTCATAATGAA
942148 AAGAAGTTCATAATGAA
1 AAGAAGTTCATAATGAA
942165 AAGAA
1 AAGAA
942170 CTTGTTCGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.54, C:0.05, G:0.20, T:0.21
Consensus pattern (17 bp):
AAGAAGTTCATAATGAA
Found at i:943875 original size:2 final size:2
Alignment explanation
Indices: 943868--943892 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
943858 CTCATGAAGC
943868 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
943893 AGCATAGTGT
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:947377 original size:45 final size:46
Alignment explanation
Indices: 947290--947377 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
947280 GAAAAAGCCC
* * *
947290 GAGTGCATCAATGCATGGTCTTTGTGCATCGATGCATCAAATGAACT
1 GAGTGCATCAATGCATGG-CTATATGCATCGATGCATAAAATGAACT
*
947337 GAGTGCATCGATGCATGG-TATATGCATCGATGCATAAAATG
1 GAGTGCATCAATGCATGGCTATATGCATCGATGCATAAAATG
947378 CATTCGATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 20 0.54
47 17 0.46
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (46 bp):
GAGTGCATCAATGCATGGCTATATGCATCGATGCATAAAATGAACT
Found at i:947424 original size:20 final size:20
Alignment explanation
Indices: 947399--947436 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
947389 TGAAAAAATA
947399 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
947419 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
947437 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:954081 original size:22 final size:21
Alignment explanation
Indices: 954039--954078 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
954029 GAATTTATTT
*
954039 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
954060 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
954079 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:956155 original size:45 final size:46
Alignment explanation
Indices: 956067--956157 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
956057 TTGAAAAAGC
* *
956067 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
956113 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
956158 TTCGATGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 22 0.51
46 21 0.49
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:958485 original size:23 final size:23
Alignment explanation
Indices: 958455--958602 Score: 178
Period size: 23 Copynumber: 6.5 Consensus size: 23
958445 GACAAATATA
*
958455 TGGCACTTTGGTGCAAACCTATG
1 TGGCACTTCGGTGCAAACCTATG
*
958478 TGGCACTTTGGTGCAAACCTATG
1 TGGCACTTCGGTGCAAACCTATG
* *
958501 TTGCACTTCGATGCAAACCTATG
1 TGGCACTTCGGTGCAAACCTATG
* *
958524 TTGCACTTCGGTACAAACCTATG
1 TGGCACTTCGGTGCAAACCTATG
*
958547 TTGCACTTCGGTGCAAACCTATG
1 TGGCACTTCGGTGCAAACCTATG
*
958570 TGGTCA-TTCGG-G-ATAA-TTATG
1 TGG-CACTTCGGTGCA-AACCTATG
958591 TGGCACTTCGGT
1 TGGCACTTCGGT
958603 ATAAATTACT
Statistics
Matches: 113, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.02
21 13 0.12
22 3 0.03
23 93 0.82
24 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (23 bp):
TGGCACTTCGGTGCAAACCTATG
Found at i:958592 original size:21 final size:21
Alignment explanation
Indices: 958566--958606 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
958556 GGTGCAAACC
958566 TATGTGGTCA-TTCGGGATAAT
1 TATGTGG-CACTTCGGGATAAT
*
958587 TATGTGGCACTTCGGTATAA
1 TATGTGGCACTTCGGGATAA
958607 ATTACTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (21 bp):
TATGTGGCACTTCGGGATAAT
Found at i:962021 original size:62 final size:63
Alignment explanation
Indices: 961924--962072 Score: 255
Period size: 62 Copynumber: 2.4 Consensus size: 63
961914 TCTTGTTTCC
* *
961924 TAGAGTCAATCTTTGACTTCCTCATGATGAGAAGTCAATCTTTATTATTTTTT-ACTCCTCAG
1 TAGAGTCAATCTTTGACTTCCTCATGAAGAGAAGTCAATCTTTATTATTTTTTGACTCCTCAA
*
961986 TAGAGTCAATCTTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATTTTTTGACTCCTCAA
1 TAGAGTCAATCTTTGACTTCCTCATGAAGAGAAGTCAATCTTTATTATTTTTTGACTCCTCAA
*
962049 TAGAGTCAATTTTTGACTTCCTCA
1 TAGAGTCAATCTTTGACTTCCTCA
962073 AATTATATTG
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 51 0.63
63 30 0.37
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (63 bp):
TAGAGTCAATCTTTGACTTCCTCATGAAGAGAAGTCAATCTTTATTATTTTTTGACTCCTCAA
Found at i:970365 original size:15 final size:15
Alignment explanation
Indices: 970345--970376 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
970335 TTTTTATCTT
*
970345 TTAAAATTATTTTTA
1 TTAAAATTATTTATA
970360 TTAAAATTATTTATA
1 TTAAAATTATTTATA
970375 TT
1 TT
970377 TTTAGGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAAAATTATTTATA
Found at i:971130 original size:31 final size:31
Alignment explanation
Indices: 971095--971164 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
971085 ATACATTTTT
971095 TATATTTTTTATTAAAAATTTTAAATTCTTA
1 TATATTTTTTATTAAAAATTTTAAATTCTTA
971126 TATATTTTTTATTAAAAATTTTAAATTCTTA
1 TATATTTTTTATTAAAAATTTTAAATTCTTA
971157 TATATTTT
1 TATATTTT
971165 AGATATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
TATATTTTTTATTAAAAATTTTAAATTCTTA
Found at i:971150 original size:40 final size:39
Alignment explanation
Indices: 971064--971186 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 39
971054 ATGTCGTCCC
* ****
971064 TTTTAAAAATTTTAAATTTTTATACATTTTTTA-TATTTT
1 TTTTAAAAATTTTAAA-TTTTATATATTTTTTATTAAAAA
971103 TTATTAAAAATTTTAAATTCTTATATATTTTTTATTAAAAA
1 TT-TTAAAAATTTTAAATT-TTATATATTTTTTATTAAAAA
* *
971144 TTTT--AAATTCTTATATATTTTAGATATTTTTTATTAGAAA
1 TTTTAAAAATT-TTA-A-ATTTTATATATTTTTTATTAAAAA
971184 TTT
1 TTT
971187 ATTTTCACCT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
38 5 0.07
39 7 0.10
40 52 0.73
41 7 0.10
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (39 bp):
TTTTAAAAATTTTAAATTTTATATATTTTTTATTAAAAA
Found at i:971165 original size:17 final size:17
Alignment explanation
Indices: 971112--971165 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
971102 TTTATTAAAA
971112 ATTTTAAATTCTTATAT
1 ATTTTAAATTCTTATAT
* * *
971129 ATTTT---TTATTAAAA
1 ATTTTAAATTCTTATAT
971143 ATTTTAAATTCTTATAT
1 ATTTTAAATTCTTATAT
971160 ATTTTA
1 ATTTTA
971166 GATATTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 11 0.39
17 17 0.61
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAAATTCTTATAT
Found at i:972612 original size:40 final size:40
Alignment explanation
Indices: 972544--972858 Score: 208
Period size: 40 Copynumber: 7.8 Consensus size: 40
972534 AAATAACCAA
* * *
972544 CAAATTCGCAACACGAACTCCAATTTCGCAACACAGTTTC
1 CAAATTCGCAACACGAATTTCAAATTCGCAACACAGTTTC
** * *
972584 CAAATTCGCAACGGGAATTTCGAATTCGCAACTC-GATTTC
1 CAAATTCGCAACACGAATTTCAAATTCGCAACACAG-TTTC
** * ** *
972624 TGAATTCGCAACGCGAATTTC-TTTTACGCAACAC-GATTTT
1 CAAATTCGCAACACGAATTTCAAATT-CGCAACACAG-TTTC
* ** * * * *
972664 TAAATTCATAACACGAACTCCAATTTCGCAACGCAGTTTC
1 CAAATTCGCAACACGAATTTCAAATTCGCAACACAGTTTC
* * * * **
972704 CAAATTCGCAACACAAACTCCAATTTCGCAATGCAGTTTC
1 CAAATTCGCAACACGAATTTCAAATTCGCAACACAGTTTC
*
972744 CAAATTCGCAACACCGAATTTCAAATTCGCAACTC-GATTTC
1 CAAATTCGCAACA-CGAATTTCAAATTCGCAACACAG-TTTC
** * *
972785 TGAATTCGCAACACGATTTTTAAATTCGCAACACAAGTTTC
1 CAAATTCGCAACACGAATTTCAAATTCGCAACAC-AGTTTC
** * * * *
972826 C-TTTTCGCAACAAGATTTTCTAATTCACAACAC
1 CAAATTCGCAACACGAATTTCAAATTCGCAACAC
972859 GAATTTTGTT
Statistics
Matches: 221, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.01
40 179 0.81
41 38 0.17
42 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (40 bp):
CAAATTCGCAACACGAATTTCAAATTCGCAACACAGTTTC
Found at i:972792 original size:20 final size:20
Alignment explanation
Indices: 972545--972917 Score: 142
Period size: 20 Copynumber: 18.6 Consensus size: 20
972535 AATAACCAAC
** *
972545 AAATTCGCAACACGAACTCC
1 AAATTCGCAACACGATTTCT
* *
972565 AATTTCGCAACAC-AGTTTCC
1 AAATTCGCAACACGA-TTTCT
**
972585 AAATTCGCAACGGGAATTTC-
1 AAATTCGCAACACG-ATTTCT
* *
972605 GAATTCGCAACTCGATTTCT
1 AAATTCGCAACACGATTTCT
* *
972625 GAATTCGCAACGCGAATTTCT
1 AAATTCGCAACACG-ATTTCT
* *
972646 --TTTACGCAACACGATTTTT
1 AAATT-CGCAACACGATTTCT
** ** *
972665 AAATTCATAACACGAACTCC
1 AAATTCGCAACACGATTTCT
* * *
972685 AATTTCGCAACGC-AGTTTCC
1 AAATTCGCAACACGA-TTTCT
* ** *
972705 AAATTCGCAACACAAACTCC
1 AAATTCGCAACACGATTTCT
* *
972725 AATTTCGCAATGCA-G-TTTCC
1 AAATTCGCAA--CACGATTTCT
972745 AAATTCGCAACACCGAATTTC-
1 AAATTCGCAACA-CG-ATTTCT
*
972766 AAATTCGCAACTCGATTTCT
1 AAATTCGCAACACGATTTCT
* *
972786 GAATTCGCAACACGATTTTT
1 AAATTCGCAACACGATTTCT
*
972806 AAATTCGCAACACAAGTTTCCT
1 AAATTCGCAACACGA-TTT-CT
* *
972828 --TTTCGCAACAAGATTTTCT
1 AAATTCGCAACACGA-TTTCT
*
972847 -AATTCACAACACGAATTT-T
1 AAATTCGCAACACG-ATTTCT
*** * * * *
972866 GTTTTCACAACTCCATTTCC
1 AAATTCGCAACACGATTTCT
*
972886 GAATTCGCAACACGAATTT-T
1 AAATTCGCAACACG-ATTTCT
*
972906 AATTTCGCAACA
1 AAATTCGCAACA
972918 GCTTTTATTT
Statistics
Matches: 267, Mismatches: 62, Indels: 48
0.71 0.16 0.13
Matches are distributed among these distances:
18 2 0.01
19 26 0.10
20 199 0.75
21 32 0.12
22 8 0.03
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (20 bp):
AAATTCGCAACACGATTTCT
Found at i:972915 original size:181 final size:180
Alignment explanation
Indices: 972562--972898 Score: 407
Period size: 181 Copynumber: 1.9 Consensus size: 180
972552 CAACACGAAC
* * * * *
972562 TCCAATTTCGCAACACAGTTTCCAAATTCGCAACGGGAATTTCGAATTCGCAACTCGATTTCTGA
1 TCCAAATTCGCAACACAATTTCCAAATTCGCAACGCGAATTTCGAATTCGCAACACGATTTCTAA
* * * *
972627 ATTCGCAACGCGAATTTCTTTTACGCAACACGATTTTTAAATTCATAACACGAACTCCAATTTCG
66 ATTCGCAACACGAATTTCTTTTACGCAACAAGATTTTTAAATTCACAACACGAACTCCAATTTCA
*
972692 CAACGCAGTTTCCAAATTCGCAACACAAACTCCAATTTCGCAATGCAGTT
131 CAACCCAGTTTCCAAATTCGCAACACAAACTCCAATTTCGCAATGCAGTT
* *
972742 TCCAAATTCGCAACACCGAATTT-CAAATTCGCAACTCG-ATTTCTGAATTCGCAACACGATTTT
1 TCCAAATTCGCAACA-C-AATTTCCAAATTCGCAACGCGAATTTC-GAATTCGCAACACGATTTC
* ***
972805 TAAATTCGCAACAC-AAGTTTCCTTTT-CGCAACAAGATTTTCT-AATTCACAACACGAATTTTG
63 TAAATTCGCAACACGAA-TTT-CTTTTACGCAACAAGATTTT-TAAATTCACAACACGAACTCCA
* *
972867 TTTTCACAACTCCA-TTTCCGAATTCGCAACAC
125 ATTTCACAAC-CCAGTTTCCAAATTCGCAACAC
972899 GAATTTTAAT
Statistics
Matches: 132, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
180 21 0.16
181 99 0.75
182 12 0.09
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (180 bp):
TCCAAATTCGCAACACAATTTCCAAATTCGCAACGCGAATTTCGAATTCGCAACACGATTTCTAA
ATTCGCAACACGAATTTCTTTTACGCAACAAGATTTTTAAATTCACAACACGAACTCCAATTTCA
CAACCCAGTTTCCAAATTCGCAACACAAACTCCAATTTCGCAATGCAGTT
Found at i:973084 original size:14 final size:15
Alignment explanation
Indices: 973065--973102 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
973055 TCCCCATCTC
973065 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
973079 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
973095 TAATTTTT
1 TAATTTTT
973103 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:973715 original size:12 final size:12
Alignment explanation
Indices: 973700--973727 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
973690 TTTCCAATAC
973700 CAAACACAATCT
1 CAAACACAATCT
973712 CAAACACAATCT
1 CAAACACAATCT
973724 CAAA
1 CAAA
973728 ACCCACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (12 bp):
CAAACACAATCT
Found at i:973882 original size:24 final size:24
Alignment explanation
Indices: 973855--973908 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
973845 GTATTTGAAA
*
973855 TTTGATCTTGGTCAATA-TCCGGAC
1 TTTGATATTGGTCAATACT-CGGAC
*
973879 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACTCGGAC
973903 TTTGAT
1 TTTGAT
973909 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCGGAC
Found at i:975908 original size:18 final size:18
Alignment explanation
Indices: 975885--975920 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
975875 AAGCAAAAGG
*
975885 AAATAAAAATCGCAATCA
1 AAATAAAAATCCCAATCA
975903 AAATAAAAATCCCAATCA
1 AAATAAAAATCCCAATCA
975921 CAACCGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATAAAAATCCCAATCA
Found at i:976209 original size:20 final size:20
Alignment explanation
Indices: 976173--976231 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
976163 TTCGCAACTC
*
976173 AAATTCGTAACGCGAAAATA
1 AAATTCGCAACGCGAAAATA
*
976193 AAAGTT-GCAACGTGAAAATA
1 AAA-TTCGCAACGCGAAAATA
976213 AAATTCGCAACGCGAAAAT
1 AAATTCGCAACGCGAAAAT
976232 CGCAACTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAATA
Found at i:976410 original size:16 final size:16
Alignment explanation
Indices: 976389--976424 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
976379 TGCAGATTGA
* *
976389 AATTAAACAACAAATC
1 AATTAAACAAAAAAAC
976405 AATTAAACAAAAAAAC
1 AATTAAACAAAAAAAC
976421 AATT
1 AATT
976425 TTTATTTACA
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:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (16 bp):
AATTAAACAAAAAAAC
Found at i:977852 original size:21 final size:21
Alignment explanation
Indices: 977826--977865 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
977816 ATGTCATATG
*
977826 GATCCTGAACGGTGGGAGGTT
1 GATCCTGAACGATGGGAGGTT
977847 GATCCTGAACGATGGGAGG
1 GATCCTGAACGATGGGAGG
977866 GGCCTCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.42, T:0.20
Consensus pattern (21 bp):
GATCCTGAACGATGGGAGGTT
Found at i:978355 original size:21 final size:21
Alignment explanation
Indices: 978331--978406 Score: 143
Period size: 21 Copynumber: 3.6 Consensus size: 21
978321 GCACCATTTG
978331 TCACGTAAAGCACTGACCTCA
1 TCACGTAAAGCACTGACCTCA
978352 TCACGTAAAGCACTGACCTCA
1 TCACGTAAAGCACTGACCTCA
*
978373 TCACGTAAAGCACTAACCTCA
1 TCACGTAAAGCACTGACCTCA
978394 TCACGTAAAGCAC
1 TCACGTAAAGCAC
978407 CTAACTTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.36, C:0.33, G:0.13, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACTGACCTCA
Found at i:978595 original size:42 final size:42
Alignment explanation
Indices: 978516--978625 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
978506 GTGATGGAAT
* * **
978516 AGGTGATGGCTCTCGGTGTCGAGGTGTAGAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCAAAGTGTAGAAGAGGCTCGATC
*
978558 AGGTGATGGCTCTCGGTGTCAAAGTAG-AGAAGAGGCTCGATG
1 AGGTGATGGCTCTCGGTGTCAAAGT-GTAGAAGAGGCTCGATC
* * * *
978600 AGGTTATCGATCTCGGTGTCCAAGTG
1 AGGTGATGGCTCTCGGTGTCAAAGTG
978626 GGGGTGCTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 56 0.97
43 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.25
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCAAAGTGTAGAAGAGGCTCGATC
Found at i:980156 original size:20 final size:20
Alignment explanation
Indices: 980133--980172 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
980123 AATTCGCAAC
*
980133 ATGAAAATCGCAACTCGAAA
1 ATGAAAATCGCAACACGAAA
*
980153 ATGAAATTCGCAACACGAAA
1 ATGAAAATCGCAACACGAAA
980173 TTCGCAACGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.20, G:0.15, T:0.15
Consensus pattern (20 bp):
ATGAAAATCGCAACACGAAA
Found at i:980165 original size:34 final size:34
Alignment explanation
Indices: 980122--980187 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
980112 CTTGAAACTT
* *
980122 AAATTCGCAACATGAAAATCGCAACTCGAAAATG
1 AAATTCGCAACACGAAAATCGCAACGCGAAAATG
*
980156 AAATTCGCAACACGAAATTCGCAACGCGAAAA
1 AAATTCGCAACACGAAAATCGCAACGCGAAAA
980188 CTAAAATCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (34 bp):
AAATTCGCAACACGAAAATCGCAACGCGAAAATG
Found at i:980172 original size:14 final size:14
Alignment explanation
Indices: 980155--980186 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
980145 ACTCGAAAAT
980155 GAAATTCGCAACAC
1 GAAATTCGCAACAC
*
980169 GAAATTCGCAACGC
1 GAAATTCGCAACAC
980183 GAAA
1 GAAA
980187 ACTAAAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (14 bp):
GAAATTCGCAACAC
Found at i:986422 original size:24 final size:23
Alignment explanation
Indices: 986375--986418 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
986365 CAAACAACCG
*
986375 AAAACGTGTAATAAAGGTAGAGA
1 AAAAAGTGTAATAAAGGTAGAGA
*
986398 AAAAAGTGTCATAAAGGTAGA
1 AAAAAGTGTAATAAAGGTAGA
986419 AGAATTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.25, T:0.18
Consensus pattern (23 bp):
AAAAAGTGTAATAAAGGTAGAGA
Found at i:988518 original size:36 final size:36
Alignment explanation
Indices: 988472--988565 Score: 161
Period size: 36 Copynumber: 2.6 Consensus size: 36
988462 CGTCCTGATC
* *
988472 GATCGAATGGGACTCTCACTTTTGTATTTTCGATTT
1 GATCGAATGGGACTCTCACTTTCGTATTTTCGAATT
988508 GATCGAATGGGACTCTCACTTTCGTATTTTCGAATT
1 GATCGAATGGGACTCTCACTTTCGTATTTTCGAATT
*
988544 GATCGAATGCGACTCTCACTTT
1 GATCGAATGGGACTCTCACTTT
988566 AGACAATGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.39
Consensus pattern (36 bp):
GATCGAATGGGACTCTCACTTTCGTATTTTCGAATT
Found at i:999386 original size:16 final size:18
Alignment explanation
Indices: 999367--999399 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
999357 TTACTACCTA
999367 AATTTA-TT-TATTTTTC
1 AATTTACTTATATTTTTC
999383 AATTTACTTATATTTTT
1 AATTTACTTATATTTTT
999400 GAACTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
AATTTACTTATATTTTTC
Found at i:999588 original size:31 final size:31
Alignment explanation
Indices: 999519--999662 Score: 155
Period size: 31 Copynumber: 4.6 Consensus size: 31
999509 GTTTTAAAAC
* **
999519 TAATAAATTGGTCATTAATATTATCGAATTTA
1 TAATAAATTGGTCACTAACGTTATCG-ATTTA
* *
999551 TGATAAATTGGTCACTAACGTTATCGTTTTA
1 TAATAAATTGGTCACTAACGTTATCGATTTA
* *
999582 TAATAAATTGATCACTAACGTTATCGGTTTA
1 TAATAAATTGGTCACTAACGTTATCGATTTA
* * * *
999613 TAACAAATCGGTCACTAACTTTATCGAATTA
1 TAATAAATTGGTCACTAACGTTATCGATTTA
*
999644 TAACAAA-TGGATCACTAAC
1 TAATAAATTGG-TCACTAAC
999663 ATGAGTATAA
Statistics
Matches: 96, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
30 2 0.02
31 72 0.75
32 22 0.23
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (31 bp):
TAATAAATTGGTCACTAACGTTATCGATTTA
Done.