Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 105 of 333
Found at i:33613504 original size:30 final size:30
Alignment explanation
Indices: 33613470--33613527 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33613460 TCCTTAACTC
33613470 AAACTTTTGAAAAATTACAATTTTGCCCAT
1 AAACTTTTGAAAAATTACAATTTTGCCCAT
* * * *
33613500 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGAAAAATTACAATTTTGCCC
33613528 CTAGGCTCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCAT
Found at i:33615673 original size:47 final size:46
Alignment explanation
Indices: 33615609--33615719 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 46
33615599 GACATTGAGT
*
33615609 CGATG-AGACACTATGTGTCGACTAT-TGTTAAAGTTCTGGATTTGTTC
1 CGATGAAG-CACTATGTGT--ACTATATGTTAAAGTTCCGGATTTGTTC
* *
33615656 CGATGAAGTACTTTGTGTACTATGATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACTAT-ATGTTAAAGTTCCGGATTTGTTC
33615703 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
33615720 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
45 5 0.09
47 49 0.88
48 2 0.04
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (46 bp):
CGATGAAGCACTATGTGTACTATATGTTAAAGTTCCGGATTTGTTC
Found at i:33623677 original size:44 final size:43
Alignment explanation
Indices: 33623527--33623691 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
33623517 AGCTCGTACA
* * *
33623527 ATGCCAACGTCCCAAACGTGGTCTTCCATGTAATCACATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACAAATCG
* * *
33623570 ATACC-ACTGTCCCAGACAG-GGTCTTACAC-CAAT--CAAATACG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACACGTAATCACAAAT-CG
* ** * *
33623611 ATGCCGATATCCCAGACATGGTCTTACACGTAAATCACAAATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGT-AATCACAAATCG
33623655 ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCAC
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCAC
33623692 CTATAAGAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
40 4 0.04
41 24 0.25
42 6 0.06
43 29 0.30
44 29 0.30
45 5 0.05
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGTAATCACAAATCG
Found at i:33624458 original size:17 final size:17
Alignment explanation
Indices: 33624436--33624479 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
33624426 CATCTTCAAG
33624436 CTCTTTCTTGCTAAGAT
1 CTCTTTCTTGCTAAGAT
33624453 CTCTTTCTTGCTAAGAT
1 CTCTTTCTTGCTAAGAT
33624470 CTCTTTCTTG
1 CTCTTTCTTG
33624480 GAGGGGGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.11, T:0.50
Consensus pattern (17 bp):
CTCTTTCTTGCTAAGAT
Found at i:33629110 original size:24 final size:24
Alignment explanation
Indices: 33629078--33629124 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
33629068 GTCGCACACG
33629078 GCTAAGACACACGCCTGTGTCCCA
1 GCTAAGACACACGCCTGTGTCCCA
33629102 GCTAAGACACACGCCTGTGTCCC
1 GCTAAGACACACGCCTGTGTCCC
33629125 TACCCGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.17
Consensus pattern (24 bp):
GCTAAGACACACGCCTGTGTCCCA
Found at i:33633456 original size:39 final size:39
Alignment explanation
Indices: 33633409--33633663 Score: 377
Period size: 39 Copynumber: 6.5 Consensus size: 39
33633399 GTGTGAGATA
* *
33633409 TATATCCGGGCTAATTCCCGAAGGCATTCATGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
33633448 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
33633487 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
33633526 TATATCCGGGCTAAGTCCCGAAGCCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* *
33633565 TATACCCGGGCTAAGTCCCGAAGGCACTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* ** * *
33633604 TATATCCGAGCTAAGTCCTAAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
33633642 TACATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
33633664 CATGCTTTGT
Statistics
Matches: 195, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
38 19 0.10
39 170 0.87
40 6 0.03
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.28
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:33633680 original size:78 final size:78
Alignment explanation
Indices: 33633376--33633663 Score: 386
Period size: 78 Copynumber: 3.7 Consensus size: 78
33633366 AGGATTTTAA
* * * *
33633376 CCGGGCTAAGACCCGCAGGCCTT-GTG-TGAG-ATATATATCCGGGCTAATTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTG-GTAT-TATATCCGGGCTAAGTCCCGAAGGCATTC
*
33633438 ATGCTGGTGTTATAT
64 GTGCTGGTGTTATAT
33633453 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
33633518 GCTGGTGTTATAT
66 GCTGGTGTTATAT
* * * *
33633531 CCGGGCTAAGTCCCGAAGCCATTCGTGCTGGTGTTATACCCGGGCTAAGTCCCGAAGGCACTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
33633596 GCTGGTGTTATAT
66 GCTGGTGTTATAT
* ** * *
33633609 CCGAGCTAAGTCCTAAAGGC-TTTGTGCTGGTATTACATCCGGGCTTAAAGTCCCG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGC-T-AAGTCCCG
33633664 CATGCTTTGT
Statistics
Matches: 189, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
77 40 0.21
78 137 0.72
79 12 0.06
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGT
GCTGGTGTTATAT
Found at i:33636627 original size:28 final size:28
Alignment explanation
Indices: 33636594--33636652 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
33636584 TCGATCATTC
33636594 ACTCTACAACTGGCTATTCACCATTTGA
1 ACTCTACAACTGGCTATTCACCATTTGA
33636622 ACTCTACAACTGGCTATTCACCATTTGA
1 ACTCTACAACTGGCTATTCACCATTTGA
33636650 ACT
1 ACT
33636653 TGTTTATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (28 bp):
ACTCTACAACTGGCTATTCACCATTTGA
Found at i:33640157 original size:11 final size:11
Alignment explanation
Indices: 33640141--33640168 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33640131 GATAGACAAC
33640141 ATTTTCACTTG
1 ATTTTCACTTG
33640152 ATTTTCACTTG
1 ATTTTCACTTG
33640163 ATTTTC
1 ATTTTC
33640169 CCTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (11 bp):
ATTTTCACTTG
Found at i:33652303 original size:21 final size:22
Alignment explanation
Indices: 33652263--33652312 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
33652253 TACAAATTAA
*
33652263 AACACAAACTTATAAAAACATAT
1 AACACAAACTAATAAAAACAT-T
33652286 AACACAAA-TAAT-AAAACATT
1 AACACAAACTAATAAAAACATT
33652306 AA-ACAAA
1 AACACAAA
33652313 AGTTGATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 5 0.19
20 3 0.12
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (22 bp):
AACACAAACTAATAAAAACATT
Found at i:33653058 original size:20 final size:21
Alignment explanation
Indices: 33653019--33653060 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33653009 CATTGATATA
*
33653019 CAAAAAGTATTAATACCTTTT
1 CAAAAAGTATCAATACCTTTT
* *
33653040 CAAAAAGTATCGATACTTTTT
1 CAAAAAGTATCAATACCTTTT
33653061 ACCAGGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
CAAAAAGTATCAATACCTTTT
Found at i:33661559 original size:24 final size:23
Alignment explanation
Indices: 33661512--33661561 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
33661502 TAAAGTAAGT
*
33661512 TATATATTATTTTTTTAATATTA
1 TATATATGATTTTTTTAATATTA
33661535 TATATAATGATTTTTATTAAT-TTA
1 TATAT-ATGATTTTT-TTAATATTA
33661559 TAT
1 TAT
33661562 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATATATGATTTTTTTAATATTA
Found at i:33661699 original size:59 final size:58
Alignment explanation
Indices: 33661535--33661699 Score: 217
Period size: 59 Copynumber: 2.8 Consensus size: 58
33661525 TTTAATATTA
* * * *
33661535 TATATAATGATTTTTATTAATTTATATTTTAAAAATAATTATATTAAGAATGTTATTAAAT
1 TATAT-ATTATTTTTATTAAATTATA-TTTAATAATAATTATATTAA-AATATTATTAAAT
*
33661596 TATATATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATTATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATTATTAAAT
*
33661653 TATATCATTATTTTTATTAAATTATATTTAGTAATAATCT-TATTAAA
1 TATAT-ATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAA
33661700 TTTTAATAAC
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
57 17 0.18
58 22 0.23
59 46 0.49
60 4 0.04
61 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (58 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATTATTAAAT
Found at i:33661918 original size:16 final size:16
Alignment explanation
Indices: 33661899--33661934 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
33661889 AACTATGTTA
33661899 CATTACA-TCTCTATTC
1 CATTACAGTCT-TATTC
33661915 CATTACAGTCTTATTC
1 CATTACAGTCTTATTC
33661931 CATT
1 CATT
33661935 CACCCTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.44
Consensus pattern (16 bp):
CATTACAGTCTTATTC
Found at i:33662561 original size:22 final size:22
Alignment explanation
Indices: 33662533--33662576 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
33662523 AAATTAGCCC
33662533 ACAAAAAATTCAAAGAATATTT
1 ACAAAAAATTCAAAGAATATTT
33662555 ACAAAAAATTCAAAGAATATTT
1 ACAAAAAATTCAAAGAATATTT
33662577 TCTCTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (22 bp):
ACAAAAAATTCAAAGAATATTT
Found at i:33662941 original size:26 final size:25
Alignment explanation
Indices: 33662882--33662931 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
33662872 TGTGTATTTG
*
33662882 GAATATTTCACATATAAAAATACTT
1 GAATATTTCACATATAAAAATAATT
*
33662907 GAAATATTTTACATATAAAAATAAT
1 G-AATATTTCACATATAAAAATAAT
33662932 AATGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (25 bp):
GAATATTTCACATATAAAAATAATT
Found at i:33667244 original size:34 final size:38
Alignment explanation
Indices: 33667181--33667251 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 38
33667171 TACAGATGTC
*
33667181 TAGGATTATAAGTTATCTTCAAGGTTTAAATTTAGGGA
1 TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGGA
33667219 TAGGATTATAAG-T-T-TT-AAGGTTTAAATCTAGGG
1 TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGG
33667252 GTAGTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 16 0.50
35 2 0.06
36 1 0.03
37 1 0.03
38 12 0.38
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (38 bp):
TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGGA
Found at i:33674492 original size:40 final size:40
Alignment explanation
Indices: 33674399--33674655 Score: 324
Period size: 40 Copynumber: 6.5 Consensus size: 40
33674389 AAGCCAAGTA
* * *
33674399 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
33674437 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33674477 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33674517 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
33674557 CCTTCGGGACTTAGCCTGGATGTAATAACTCGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
33674597 CCTTGGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33674637 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33674656 TTATCATCCG
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 165 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33682635 original size:40 final size:40
Alignment explanation
Indices: 33682551--33682807 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
33682541 AAGCCAAGTA
* * *
33682551 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
33682589 CCTTCGGGACATAGCCCGAATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33682629 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33682669 CCTTCAGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33682709 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33682749 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
33682789 CCTTCGGGACTTTGCCCGG
1 CCTTCGGGACTTAGCCCGG
33682808 TTATCATCCG
Statistics
Matches: 196, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 168 0.86
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33684965 original size:22 final size:22
Alignment explanation
Indices: 33684940--33684981 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33684930 AATTAACCAC
33684940 ACCATCACCGCACCACCACCTT
1 ACCATCACCGCACCACCACCTT
* *
33684962 ACCATCGCTGCACCACCACC
1 ACCATCACCGCACCACCACC
33684982 GTGATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.55, G:0.07, T:0.12
Consensus pattern (22 bp):
ACCATCACCGCACCACCACCTT
Found at i:33686051 original size:24 final size:24
Alignment explanation
Indices: 33686024--33686071 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33686014 TTTACTGCAA
*
33686024 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
33686048 TATTGAGTGGCTTGACCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
33686072 GCAACTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:33694449 original size:18 final size:17
Alignment explanation
Indices: 33694426--33694468 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
33694416 ATTGATAACA
33694426 TATAAAAGTTTTAAAACT
1 TATAAAAGTTTT-AAACT
* *
33694444 TATAAAAATTTTCAACT
1 TATAAAAGTTTTAAACT
*
33694461 TTTAAAAG
1 TATAAAAG
33694469 GCCACACGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (17 bp):
TATAAAAGTTTTAAACT
Found at i:33695597 original size:44 final size:41
Alignment explanation
Indices: 33695549--33695646 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 41
33695539 AATGATTTCT
*
33695549 CACACTTAGTGCCATCTTAACTAGCCGAAACTAAG-TCAGTATCG
1 CACACTTAGTGCCAT-TT-ACTAGCCGAAACT-AGTTCA-AATCG
* * *
33695593 CACACTTAGTGCC-TTTAGTAGCCGAACCTAGTTTAAATCG
1 CACACTTAGTGCCATTTACTAGCCGAAACTAGTTCAAATCG
33695633 CACACTTAGTGCCA
1 CACACTTAGTGCCA
33695647 ATGCTTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
40 19 0.40
41 13 0.27
42 2 0.04
43 1 0.02
44 13 0.27
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (41 bp):
CACACTTAGTGCCATTTACTAGCCGAAACTAGTTCAAATCG
Found at i:33704596 original size:85 final size:85
Alignment explanation
Indices: 33704467--33704645 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
33704457 TATTTTATTG
33704467 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
33704532 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
33704552 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
33704617 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
33704637 CCCATGCTC
1 CCCATGCTC
33704646 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:33705041 original size:17 final size:17
Alignment explanation
Indices: 33705019--33705051 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33705009 AGTTGTCACA
33705019 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
33705036 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
33705052 GATAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:33712507 original size:49 final size:49
Alignment explanation
Indices: 33712390--33712618 Score: 176
Period size: 49 Copynumber: 4.6 Consensus size: 49
33712380 TGTGAGAACA
* * * * * *
33712390 CATGTGTAGTACCATGTGCAGGCTACTATGTGT-TTAAGATGGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAG--TT-GGTCG
*
33712442 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTT-GGTCG
** * * ** * * * *
33712492 CAT-TGTAGTACTAAGTGCTTGCTACTATGCGTACCCGACAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-TAGTT-GGTCG
* * * *
33712542 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-GTCGGATTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTGGTCG
33712591 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
33712619 TGCATACCAG
Statistics
Matches: 140, Mismatches: 33, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
49 59 0.42
50 19 0.14
51 27 0.19
52 34 0.24
53 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTGGTCG
Found at i:33712568 original size:100 final size:100
Alignment explanation
Indices: 33712439--33712626 Score: 290
Period size: 100 Copynumber: 1.9 Consensus size: 100
33712429 TGGTTTTAGG
33712439 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCGCAT-TGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-CTCAGATAGTT-GGTCGCATGTGTAGTA
** *
33712502 CTAAGTGCTTGCTACTATGCGTACCCGACAACTTCGA
64 CTAAGTGCAGGCTACTATGCATACCCGACAACTTCGA
* * *
33712539 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGTCGGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCTCAGATAGTTGGTCGCATGTGTAGTACT
33712604 AAGTGCAGGCTACTATGCATACC
66 AAGTGCAGGCTACTATGCATACC
33712627 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 9 0.11
100 71 0.89
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCTCAGATAGTTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGACAACTTCGA
Found at i:33712661 original size:100 final size:100
Alignment explanation
Indices: 33712454--33712661 Score: 222
Period size: 100 Copynumber: 2.1 Consensus size: 100
33712444 TGTGTAGTAC
**
33712454 TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCTTGCTACTA
1 TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCAGGCTACTA
* * ** * * *
33712519 TGCGTACCCGACAACTTCGATCACGTGTGTAGTAC
66 TGCATACCAGACAACTTCGATCACAAGGGTAGCAA
* * *
33712554 TAAGTGCAGGCTACTACGTGT-GTCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTAC
1 TAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCGCAT-TGTAGTACTAAGTGCAGGCTAC
* * * * *
33712617 TATGCATACCAGATAGCTTCGGTTACAAGGGTGGCAA
64 TATGCATACCAGACAACTTCGATCACAAGGGTAGCAA
*
33712654 TATGTGCA
1 TAAGTGCA
33712662 AGCAACCGTG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
99 9 0.10
100 79 0.90
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCAGGCTACTA
TGCATACCAGACAACTTCGATCACAAGGGTAGCAA
Found at i:33713055 original size:29 final size:30
Alignment explanation
Indices: 33713000--33713059 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
33712990 ACGGTGTAAG
33713000 AAAAAGAATTTCATATTATGAGATATTTGA
1 AAAAAGAATTTCATATTATGAGATATTTGA
33713030 AAAAAGAATTTCATATTATGAG-TATTTGA
1 AAAAAGAATTTCATATTATGAGATATTTGA
33713059 A
1 A
33713060 TTTTTGTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (30 bp):
AAAAAGAATTTCATATTATGAGATATTTGA
Found at i:33717893 original size:25 final size:25
Alignment explanation
Indices: 33717862--33717911 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
33717852 AAACGATAAT
33717862 CTCCAAGCTGAATAACAGTAAGCTC
1 CTCCAAGCTGAATAACAGTAAGCTC
* **
33717887 CTCCAAGCTGTATAATGGTAAGCTC
1 CTCCAAGCTGAATAACAGTAAGCTC
33717912 ATACGATCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (25 bp):
CTCCAAGCTGAATAACAGTAAGCTC
Found at i:33727571 original size:48 final size:46
Alignment explanation
Indices: 33727505--33727819 Score: 281
Period size: 48 Copynumber: 6.6 Consensus size: 46
33727495 ACATGTCGAC
* * * * * *
33727505 GCCATATCCCAGATATGGTCTTATACGAAGTCTCATATTAGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACAC-AAG-CACATATTAATGCCGAT
* *
33727553 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATAATCGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACAAGCACATAT-TAAT-GCCGAT
* * *
33727601 GCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGCCGAT
1 GCCATGTCCCAGACATGGTCTTACAC-AA-GCACATATTAATGCCGAT
** * * *
33727649 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACAAG--CACATATTAATGCCGAT
* * * * *
33727697 GCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAACGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACAAGC--ACATATTAATGCCGAT
* * *
33727745 GCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATCTCGGATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACAAGCACAT-AT-T--AATGCCGAT
33727794 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
33727820 GGGATCTCAT
Statistics
Matches: 228, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.00
46 9 0.04
47 5 0.02
48 172 0.75
49 35 0.15
50 6 0.03
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (46 bp):
GCCATGTCCCAGACATGGTCTTACACAAGCACATATTAATGCCGAT
Found at i:33727649 original size:96 final size:97
Alignment explanation
Indices: 33727549--33727819 Score: 422
Period size: 96 Copynumber: 2.8 Consensus size: 97
33727539 ATATTAGTGT
33727549 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT-AATCGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATCGCCGATGCCATGTCCCAG
*
33727613 ACATGGTCTTACACTAACACACATATCAACGC
66 ACATGGTCTTACACTAACAAACATATCAACGC
* *
33727645 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA-CGCTGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATCGCCGATGCCATGTCCCAG
* *
33727709 ACATGATCTTACACTAGCAAACATATCAACGC
66 ACATGGTCTTACACTAACAAACATATCAACGC
* * * * *
33727741 CAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGGAT-GCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-AATCGCCGATGCCATGTCCCA
33727805 GACATGGTCTTACAC
65 GACATGGTCTTACAC
33727820 GGGATCTCAT
Statistics
Matches: 159, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
96 126 0.79
97 33 0.21
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATCGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAACAAACATATCAACGC
Found at i:33727719 original size:144 final size:145
Alignment explanation
Indices: 33727550--33727819 Score: 436
Period size: 144 Copynumber: 1.9 Consensus size: 145
33727540 TATTAGTGTC
* * *
33727550 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT-AATCGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAA-CGCCAATGCCATGTCCCAGA
33727614 CATGGTCTTACACTAACACACATATC-AACGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
65 CATGGTCTTACACTAACACACATATCGAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
33727678 CACACATATCAACGCT
130 CACACATATCAACGCT
33727694 GATGCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAACGCCAATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAACGCCAATGCCATGTCCCAGAC
* * * * * *
33727759 ATGGTCTTACACTAGCTCTCATCTCGGATGCCGATGCCATGTCCCAGACATGGTCTTACAC
66 ATGGTCTTACACTAACACACATATCGAACGCCGATGCCATGTCCCAGACATGGTCTTACAC
33727820 GGGATCTCAT
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
144 80 0.70
145 35 0.30
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (145 bp):
GATGCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAACGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTAACACACATATCGAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
ACACATATCAACGCT
Found at i:33736984 original size:17 final size:17
Alignment explanation
Indices: 33736962--33737016 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
33736952 ATGGCCAGCT
33736962 CGTGTGGCTCACACGGG
1 CGTGTGGCTCACACGGG
33736979 CGTGTGGC-CAGC-C---
1 CGTGTGGCTCA-CACGGG
33736992 CGTGTGGCTCACACGGG
1 CGTGTGGCTCACACGGG
*
33737009 CATGTGGC
1 CGTGTGGC
33737017 AACCCATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
13 9 0.29
14 3 0.10
16 3 0.10
17 16 0.52
ACGTcount: A:0.11, C:0.31, G:0.40, T:0.18
Consensus pattern (17 bp):
CGTGTGGCTCACACGGG
Found at i:33736987 original size:30 final size:30
Alignment explanation
Indices: 33736941--33737016 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
33736931 CATGAGCTGG
* * *
33736941 CACATGGGCATATGGCCAGCTCGTGTGGCT
1 CACACGGGCATGTGGCCAGCCCGTGTGGCT
*
33736971 CACACGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGGCCAGCCCGTGTGGCT
33737001 CACACGGGCATGTGGC
1 CACACGGGCATGTGGC
33737017 AACCCATGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.14, C:0.30, G:0.37, T:0.18
Consensus pattern (30 bp):
CACACGGGCATGTGGCCAGCCCGTGTGGCT
Found at i:33746369 original size:19 final size:21
Alignment explanation
Indices: 33746333--33746380 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
33746323 TAAATAATAT
33746333 ATTTTTAATTATTGTAATT-A
1 ATTTTTAATTATTGTAATTGA
33746353 ATTTTTAATTCA-T-TAATTGA
1 ATTTTTAATT-ATTGTAATTGA
33746373 ATTTTTAA
1 ATTTTTAA
33746381 ATATATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 20 0.77
21 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTTTAATTATTGTAATTGA
Found at i:33759832 original size:19 final size:19
Alignment explanation
Indices: 33759808--33759845 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33759798 NNNNNNNNNN
33759808 TTTCTTCT-TTTGCTTTTCT
1 TTTCTTCTCTTTG-TTTTCT
*
33759827 TTTCTTTTCTTTGTTTTCT
1 TTTCTTCTCTTTGTTTTCT
33759846 CTTTACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTCTTCTCTTTGTTTTCT
Found at i:33762448 original size:30 final size:30
Alignment explanation
Indices: 33762414--33762510 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
33762404 TAAACTAAAA
*
33762414 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT
* * * * *
33762444 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTAAGCTAAAGT
* *
33762474 TGAGCTAAGGTTTAGCTCGTAAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTAAGCT-AAAGT
33762504 TGAGCTA
1 TGAGCTA
33762511 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT
Found at i:33763493 original size:20 final size:20
Alignment explanation
Indices: 33763470--33763523 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33763460 AGTTTTTCCC
*
33763470 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33763490 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33763510 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33763524 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33763505 original size:30 final size:30
Alignment explanation
Indices: 33763470--33763543 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33763460 AGTTTTTCCC
33763470 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33763500 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33763530 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33763544 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33763533 original size:20 final size:20
Alignment explanation
Indices: 33763470--33763534 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33763460 AGTTTTTCCC
* * * *
33763470 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33763490 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33763509 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33763530 AGCTC
1 AGCTC
33763535 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33770252 original size:20 final size:20
Alignment explanation
Indices: 33770227--33770281 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
33770217 ACGAGTTAAA
* *
33770227 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
33770247 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
33770267 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
33770282 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:33781565 original size:32 final size:33
Alignment explanation
Indices: 33781529--33781597 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
33781519 TAGTTTTTAT
33781529 AAAATATTTT-CAGAAAAT-T-TGCCAAACACTAG
1 AAAATATTTTACA-AAAATCTAT-CCAAACACTAG
*
33781561 AAAATATTTTACAAAGATCTATCCAAACACTAG
1 AAAATATTTTACAAAAATCTATCCAAACACTAG
33781594 AAAA
1 AAAA
33781598 GTAAGTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 14 0.42
33 18 0.55
34 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (33 bp):
AAAATATTTTACAAAAATCTATCCAAACACTAG
Found at i:33786092 original size:25 final size:25
Alignment explanation
Indices: 33786058--33786127 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
33786048 CTCTTTTAAT
*
33786058 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
33786083 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
33786108 AACTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
33786128 AGCACTTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:33786967 original size:27 final size:27
Alignment explanation
Indices: 33786937--33786998 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
33786927 GGGCATATTC
33786937 GTCATTTTACCATACAGGGG-TGTTACG
1 GTCATTTTACCATACAGGGGCT-TTACG
* *
33786964 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
*
33786991 GTCTTTTT
1 GTCATTTT
33786999 GCCTATTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:33787092 original size:27 final size:27
Alignment explanation
Indices: 33787032--33787240 Score: 136
Period size: 27 Copynumber: 7.7 Consensus size: 27
33787022 TTTCATCCTA
* * * *
33787032 CAAGGGTGTTTTGGTAAATCTAC-AAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
**
33787058 CAAGGGTATTTCGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
33787085 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
* ** *
33787114 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
33787141 CAGGGGTAATTT-GGTAATTTTACAAAT
1 CAAGGGT-ATTTCGGTAATTTTACAAAC
** * *
33787168 TGATGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
33787194 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTACAAAC
* *
33787222 TAAGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
33787241 CTACCCTATA
Statistics
Matches: 144, Mismatches: 32, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
26 22 0.15
27 87 0.60
28 20 0.14
29 15 0.10
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:33787308 original size:27 final size:27
Alignment explanation
Indices: 33787272--33787363 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
33787262 ATAATTTCAC
*
33787272 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTGTA
* *
33787299 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTCTGTA
* * *
33787326 AATCAAGGGTAAAATAGTGATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTGTA
*
33787353 TATCGAGGGTA
1 AATCGAGGGTA
33787364 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTGTA
Found at i:33789523 original size:13 final size:13
Alignment explanation
Indices: 33789487--33789578 Score: 62
Period size: 13 Copynumber: 6.9 Consensus size: 13
33789477 ATCCAATGTT
* *
33789487 CCATTTTATATAT
1 CCATTTCATATAA
*
33789500 CTATTTCCATATAA
1 CCATTT-CATATAA
33789514 CCGA-TTCATATAA
1 CC-ATTTCATATAA
33789527 CCATTTCATAT-A
1 CCATTTCATATAA
*
33789539 TCATTTTTCATATAA
1 CCA--TTTCATATAA
* * *
33789554 TCAATTCGTATAA
1 CCATTTCATATAA
*
33789567 CCATTTTATATA
1 CCATTTCATATA
33789579 TTTATTTCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
12 4 0.06
13 37 0.60
14 16 0.26
15 5 0.08
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:33789524 original size:27 final size:24
Alignment explanation
Indices: 33789494--33789611 Score: 58
Period size: 27 Copynumber: 4.5 Consensus size: 24
33789484 GTTCCATTTT
33789494 ATATATCTATTTCCATATAACCGATTC
1 ATATATC-ATTT-CATATAACC-ATTC
* *
33789521 ATATAACCATTTCATAT-ATCATTTTTC
1 ATAT-ATCATTTCATATAACCA---TTC
* * *
33789548 ATATAATCAATTCGTATAACCATTTT
1 ATAT-ATCATTTCATATAACCA-TTC
* *
33789574 ATATATTTATTTCCACATAACCAATTC
1 ATATA-TCATTT-CATATAACC-ATTC
33789601 ATATATCATTT
1 ATATATCATTT
33789612 TTTAGATATC
Statistics
Matches: 70, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
24 1 0.01
25 3 0.04
26 21 0.30
27 39 0.56
28 6 0.09
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATATCATTTCATATAACCATTC
Found at i:33789551 original size:40 final size:39
Alignment explanation
Indices: 33789487--33789605 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 39
33789477 ATCCAATGTT
* *
33789487 CCATTTTATATATCTATTTCCATATAACCGATTCATATAA
1 CCATTTTATATATCT-TTTTCATATAACCAATTCATATAA
* * *
33789527 CCATTTCATATATCATTTTTCATATAATCAATTCGTATAA
1 CCATTTTATATATC-TTTTTCATATAACCAATTCATATAA
*
33789567 CCATTTTATATAT-TTATTTCCACATAACCAATTCATATA
1 CCATTTTATATATCTT-TTT-CATATAACCAATTCATATA
33789606 TCATTTTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 61 0.91
41 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (39 bp):
CCATTTTATATATCTTTTTCATATAACCAATTCATATAA
Found at i:33791114 original size:44 final size:42
Alignment explanation
Indices: 33791066--33791165 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 42
33791056 ATAATAATTC
* * **
33791066 CGCACACTTAGTGCCATCTCAATTAACCGAAGCTATTTCGGTAT
1 CGCACACTTAGTGCCA-CTCAAGTAACCGAAGCTAATTC-AAAT
*
33791110 CGCACACTTAGTG-C-CTCAAGTAGCCGAAGCTAATTCAAAT
1 CGCACACTTAGTGCCACTCAAGTAACCGAAGCTAATTCAAAT
*
33791150 AGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
33791166 AATACCATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
40 14 0.29
41 20 0.42
43 1 0.02
44 13 0.27
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
CGCACACTTAGTGCCACTCAAGTAACCGAAGCTAATTCAAAT
Found at i:33797392 original size:30 final size:30
Alignment explanation
Indices: 33797343--33797414 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
33797333 CAAAATATGG
*
33797343 AAGCCTTTGTGGCCGTTCTCTG-ACAAGTGA
1 AAGCCTTTGTGGCCATTCTC-GAACAAGTGA
* * *
33797373 AAGCCTTTGTGGCTATTCTCGAATAAGTGG
1 AAGCCTTTGTGGCCATTCTCGAACAAGTGA
*
33797403 AAGCCTATGTGG
1 AAGCCTTTGTGG
33797415 TTGTTCTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 1 0.03
30 35 0.97
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (30 bp):
AAGCCTTTGTGGCCATTCTCGAACAAGTGA
Found at i:33797492 original size:56 final size:56
Alignment explanation
Indices: 33797423--33797545 Score: 174
Period size: 56 Copynumber: 2.2 Consensus size: 56
33797413 GGTTGTTCTT
* * *
33797423 TGTTATACATGAGCCCTTGTGGCTGATTTTGTTAAATGCGCCTTCATGATAAAGTA
1 TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
* * ** *
33797479 TGTTATATGTGAGCCCTTGTGGATGATTTTGTTAAATGTGCCTTTGTGACAAAGTT
1 TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
33797535 TGTTATATATG
1 TGTTATATATG
33797546 GCCTCTTCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (56 bp):
TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
Found at i:33800177 original size:47 final size:47
Alignment explanation
Indices: 33800111--33800234 Score: 230
Period size: 47 Copynumber: 2.6 Consensus size: 47
33800101 GATGCGAACG
*
33800111 TCCGAACTCATTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
*
33800158 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
33800205 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
33800235 CTTATGGATG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
Found at i:33800279 original size:46 final size:48
Alignment explanation
Indices: 33800069--33800287 Score: 190
Period size: 47 Copynumber: 4.7 Consensus size: 48
33800059 TGGGCATCCT
* * *
33800069 AACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGA-ACG-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACACGCACCG
* * * * *
33800115 AACTCATTGAGTTGAGTCCGAGTTCA-TGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-ACGCA-CCG
* * * * *
33800162 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-ACGCA-CCG
33800209 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ACGC-CCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACACGCACCG
*
33800255 AGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 A-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33800288 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 4 0.03
46 57 0.38
47 74 0.50
48 5 0.03
50 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (48 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACACGCACCG
Found at i:33806918 original size:26 final size:26
Alignment explanation
Indices: 33806883--33806943 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
33806873 GAATATATTT
*
33806883 ATCAAAATTTTA-CTAGTGGTAAAATC
1 ATCAAAATTTTACCAAG-GGTAAAATC
*
33806909 ATCAACATTTTACCAAGGGTAAAATC
1 ATCAAAATTTTACCAAGGGTAAAATC
33806935 ATCAAAATT
1 ATCAAAATT
33806944 GTTTTATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (26 bp):
ATCAAAATTTTACCAAGGGTAAAATC
Found at i:33811216 original size:29 final size:29
Alignment explanation
Indices: 33811181--33811254 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
33811171 GTTGTGAGAT
* *
33811181 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
33811210 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
33811239 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33811255 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:33816300 original size:40 final size:40
Alignment explanation
Indices: 33816207--33816424 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
33816197 AAGCCAAGTA
* * *
33816207 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
33816245 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33816285 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33816325 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33816365 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
33816406 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33816425 TTATCATCCA
Statistics
Matches: 161, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.11
40 104 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33825268 original size:17 final size:17
Alignment explanation
Indices: 33825246--33825304 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
33825236 ATGCATGGTG
33825246 AATGTGAATTGTTTGGA
1 AATGTGAATTGTTTGGA
*
33825263 AATGTG-ATT-TATGGCA
1 AATGTGAATTGTTTGG-A
* *
33825279 TGAATGTGAAATGTTTGGT
1 --AATGTGAATTGTTTGGA
33825298 AATGTGA
1 AATGTGA
33825305 GCTATTGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 4 0.12
16 4 0.12
17 13 0.39
18 6 0.18
19 2 0.06
20 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.39
Consensus pattern (17 bp):
AATGTGAATTGTTTGGA
Found at i:33829433 original size:43 final size:42
Alignment explanation
Indices: 33829377--33829457 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
33829367 TTACATGTAA
* * *
33829377 TCTCGTATTGATGCCAATAGGCCA-ACTATAGTCTTACACGAAG
1 TCTCATATCGATGCC-ATAGCCCATA-TATAGTCTTACACGAAG
*
33829420 TCTCATATCGATGCCATATCCCATATATAGTCTTACAC
1 TCTCATATCGATGCCATAGCCCATATATAGTCTTACAC
33829458 ATAATCTCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 19 0.58
43 14 0.42
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
TCTCATATCGATGCCATAGCCCATATATAGTCTTACACGAAG
Found at i:33834303 original size:7 final size:8
Alignment explanation
Indices: 33834283--33834312 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
33834273 TTGATCTAAA
33834283 GAAAAATT
1 GAAAAATT
33834291 GAAAAATT
1 GAAAAATT
33834299 GAAAAATT
1 GAAAAATT
33834307 GAAAAA
1 GAAAAA
33834313 GAAAATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (8 bp):
GAAAAATT
Found at i:33835352 original size:15 final size:17
Alignment explanation
Indices: 33835330--33835367 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
33835320 CGTATAGCCC
33835330 TATATTTT-TTAA-TTT
1 TATATTTTATTAAGTTT
*
33835345 TCTATTTTATTAAGTTT
1 TATATTTTATTAAGTTT
33835362 TATATT
1 TATATT
33835368 CATTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 8 0.42
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATATTTTATTAAGTTT
Found at i:33838562 original size:44 final size:44
Alignment explanation
Indices: 33838499--33838587 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
33838489 CAGCACCTCA
*
33838499 AACAACTTCTAATCTTTATTCCTAGTCCAATAACATGTATTCTG
1 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
33838543 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
1 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
33838587 A
1 A
33838588 GTGTTAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (44 bp):
AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
Found at i:33840594 original size:20 final size:20
Alignment explanation
Indices: 33840571--33840636 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
33840561 TCGAAATTCA
33840571 TAATTTAATTATAAAATAAT
1 TAATTTAATTATAAAATAAT
* ** * *
33840591 TAATTTATAGTCGAAATTCA-
1 TAATTTA-ATTATAAAATAAT
33840611 TAATTTAATTATAAAATAAT
1 TAATTTAATTATAAAATAAT
33840631 TAATTT
1 TAATTT
33840637 GTACTTAAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 7 0.21
20 20 0.59
21 7 0.21
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TAATTTAATTATAAAATAAT
Found at i:33840606 original size:40 final size:40
Alignment explanation
Indices: 33840560--33840636 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
33840550 AGTAAATTTT
33840560 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
1 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
33840600 GTCGAAATTCATAATTTAATTATAAAATAATTAATTT
1 GTCGAAATTCATAATTTAATTATAAAATAATTAATTT
33840637 GTACTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (40 bp):
GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
Found at i:33842165 original size:16 final size:18
Alignment explanation
Indices: 33842144--33842177 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
33842134 ATTGGAATTT
33842144 TTACTTA-TT-ATTTTTA
1 TTACTTAGTTAATTTTTA
33842160 TTACTTAGTTAATTTTTA
1 TTACTTAGTTAATTTTTA
33842178 GTTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
TTACTTAGTTAATTTTTA
Found at i:33843018 original size:6 final size:6
Alignment explanation
Indices: 33843006--33843045 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
33842996 TAGGTTTGTA
* *
33843006 AAAATG GAAATG -GAATG AAAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
33843046 AGGGATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:33843028 original size:17 final size:18
Alignment explanation
Indices: 33843006--33843045 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
33842996 TAGGTTTGTA
* *
33843006 AAAATGGAAATG-GAATG
1 AAAATGAAAATGAAAATG
33843023 AAAATGAAAATGAAAATG
1 AAAATGAAAATGAAAATG
33843041 AAAAT
1 AAAAT
33843046 AGGGATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (18 bp):
AAAATGAAAATGAAAATG
Found at i:33846028 original size:16 final size:15
Alignment explanation
Indices: 33846008--33846050 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
33845998 TTAAAAAAAT
33846008 TAATATTAAAAATT-
1 TAATATTAAAAATTC
*
33846022 TAAAATATAAATAATTC
1 TAATAT-TAAA-AATTC
33846039 TAATATTAAAAA
1 TAATATTAAAAA
33846051 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 5 0.21
15 6 0.25
16 8 0.33
17 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATATTAAAAATTC
Found at i:33848400 original size:51 final size:52
Alignment explanation
Indices: 33848305--33848405 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 52
33848295 ATTAAATTTA
* * * *
33848305 TTTAGTTTAAATTTGAAAAAGTTAATTTAAATAAGTTAAATTATATAAATAT
1 TTTAGTTTAAATTTGAAAAAATTAATATAAATAAATTAAATTATAAAAATAT
*
33848357 TTTA-TTTAATATTTGAAAAAATT-ATGATAAA-AAATTAACTTATAAAAAT
1 TTTAGTTTAA-ATTTGAAAAAATTAAT-ATAAATAAATTAAATTATAAAAAT
33848406 TCACTTAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
51 22 0.52
52 20 0.48
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (52 bp):
TTTAGTTTAAATTTGAAAAAATTAATATAAATAAATTAAATTATAAAAATAT
Found at i:33856143 original size:23 final size:23
Alignment explanation
Indices: 33856061--33856147 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
33856051 CCTGATCAGT
*
33856061 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
33856083 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
33856103 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
33856126 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
33856148 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:33857677 original size:27 final size:30
Alignment explanation
Indices: 33857632--33857686 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
33857622 GCTCGAATGC
*
33857632 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
33857661 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
33857687 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:33864041 original size:23 final size:23
Alignment explanation
Indices: 33863959--33864045 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
33863949 CCTGATCAGT
*
33863959 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
33863981 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* * *
33864001 ATACGACGCACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
33864024 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
33864046 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.62
22 1 0.02
23 18 0.34
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:33865572 original size:27 final size:30
Alignment explanation
Indices: 33865527--33865581 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
33865517 GCTCGAATGC
*
33865527 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
33865556 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
33865582 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:33865624 original size:4 final size:4
Alignment explanation
Indices: 33865615--33865646 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
33865605 TATAATAATA
33865615 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
33865647 TACCATCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:33871898 original size:21 final size:21
Alignment explanation
Indices: 33871870--33871952 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
33871860 TGATCAGTAT
*
33871870 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * * *
33871891 ATGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
33871912 ACGACACACGAGGTGCCTCAAA
1 ACGACACACAAAGTGCCT-AAA
*
33871934 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
33871953 GATCAGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 32 0.67
22 1 0.02
23 15 0.31
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:33871936 original size:23 final size:22
Alignment explanation
Indices: 33871868--33871942 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
33871858 CCTGATCAGT
** *
33871868 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
* *
33871890 A-ATGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
33871910 ATACGACACACGAGGTGCCTCAA
1 ATACGACACACGAGGTGCCT-AA
33871933 ATACGACACA
1 ATACGACACA
33871943 TAAAGTGCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.02
21 31 0.72
22 1 0.02
23 10 0.23
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:33873483 original size:27 final size:30
Alignment explanation
Indices: 33873438--33873492 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
33873428 GCTCGAATGC
*
33873438 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
33873467 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
33873493 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:33891603 original size:46 final size:46
Alignment explanation
Indices: 33891541--33891707 Score: 154
Period size: 46 Copynumber: 3.5 Consensus size: 46
33891531 TATTATAAAT
*
33891541 TAGTAGTACACTACATGATAAAAACAATATTTTCCAAGTGCATAAC
1 TAGTAGTACACCACATGATAAAAACAATATTTTCCAAGTGCATAAC
* * * *
33891587 TAGTATTACACCACATGATAACTAAAAATTAATAATATTATCCAAGTACATAAT
1 TAGTAGTACACCACATG---A-TAAAAA-CAAT-AT-TT-TCCAAGTGCATAAC
* * ** * *
33891641 TAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAAC
1 TAGTAGTACACCACATGATAAAAACAATATTTTCCAAGTGCATAAC
*
33891687 TAGTATTACACCACATGATAA
1 TAGTAGTACACCACATGATAA
33891708 CTAAAAATTA
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
46 44 0.46
47 1 0.01
48 2 0.02
49 4 0.04
50 10 0.11
51 3 0.03
52 2 0.02
53 2 0.02
54 27 0.28
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (46 bp):
TAGTAGTACACCACATGATAAAAACAATATTTTCCAAGTGCATAAC
Found at i:33891631 original size:54 final size:54
Alignment explanation
Indices: 33891566--33891759 Score: 215
Period size: 54 Copynumber: 3.7 Consensus size: 54
33891556 TGATAAAAAC
* *
33891566 AATATTTTCCAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAAT
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* * * * *
33891620 AATATTATCCAAGTACATAATTAGTAGTACACCATATGGTAAC-------T-AC
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* *
33891666 AATATTATCTAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAAT
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
*
33891720 AATATTATCCAAGTACATAATTAGTAGTACTACACCACAT
1 AATATTATCCAAGTACATAACTAGTA-T--TACACCACAT
33891760 TAAAGAATAT
Statistics
Matches: 112, Mismatches: 17, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
46 38 0.34
47 1 0.01
53 1 0.01
54 61 0.54
55 1 0.01
57 10 0.09
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (54 bp):
AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
Found at i:33891711 original size:100 final size:100
Alignment explanation
Indices: 33891538--33891749 Score: 361
Period size: 100 Copynumber: 2.1 Consensus size: 100
33891528 TAATATTATA
* *
33891538 AATTAGTAGTACACTACATGATAAAAACAATATTTTCCAAGTGCATAACTAGTATTACACCACAT
1 AATTAGTAGTACACCACATGATAAAAACAATATTATCCAAGTGCATAACTAGTATTACACCACAT
33891603 GATAACTAAAAATTAATAATATTATCCAAGTACAT
66 GATAACTAAAAATTAATAATATTATCCAAGTACAT
* * ** *
33891638 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
1 AATTAGTAGTACACCACATGATAAAAACAATATTATCCAAGTGCATAACTAGTATTACACCACAT
33891703 GATAACTAAAAATTAATAATATTATCCAAGTACAT
66 GATAACTAAAAATTAATAATATTATCCAAGTACAT
33891738 AATTAGTAGTAC
1 AATTAGTAGTAC
33891750 TACACCACAT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 105 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (100 bp):
AATTAGTAGTACACCACATGATAAAAACAATATTATCCAAGTGCATAACTAGTATTACACCACAT
GATAACTAAAAATTAATAATATTATCCAAGTACAT
Found at i:33892745 original size:32 final size:32
Alignment explanation
Indices: 33892704--33892782 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
33892694 TGTCAATCAT
33892704 TTCAATATCCAACAAGC-TTAAAACATAATAAA
1 TTCAATATCCAACAA-CTTTAAAACATAATAAA
*
33892736 TTCAATATCCAACAACTTTAAAACATAATAAT
1 TTCAATATCCAACAACTTTAAAACATAATAAA
*
33892768 TTCAAAATCCAACAA
1 TTCAATATCCAACAA
33892783 ATTAATTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 1 0.02
32 43 0.98
ACGTcount: A:0.52, C:0.20, G:0.01, T:0.27
Consensus pattern (32 bp):
TTCAATATCCAACAACTTTAAAACATAATAAA
Found at i:33892781 original size:21 final size:21
Alignment explanation
Indices: 33892764--33892810 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
33892754 TAAAACATAA
33892764 TAATTTCAAAATCCAACAAAT
1 TAATTTCAAAATCCAACAAAT
*
33892785 TAATTTCAATATCCAACCAATAT
1 TAATTTCAAAATCCAA-CAA-AT
33892808 TAA
1 TAA
33892811 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 3 0.13
23 5 0.22
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATTTCAAAATCCAACAAAT
Found at i:33898218 original size:39 final size:39
Alignment explanation
Indices: 33898164--33898242 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
33898154 ATCCGAAGCG
33898164 GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
1 GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
33898203 GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
1 GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
33898242 G
1 G
33898243 TCTCATTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (39 bp):
GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
Found at i:33905335 original size:19 final size:19
Alignment explanation
Indices: 33905298--33905336 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
33905288 TGTTGATAAC
*
33905298 AAGCACACCCTAGAAGAAG
1 AAGCACACCCAAGAAGAAG
* *
33905317 AAGCACATCCAAGATGAAG
1 AAGCACACCCAAGAAGAAG
33905336 A
1 A
33905337 GGAGAGGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.21, T:0.08
Consensus pattern (19 bp):
AAGCACACCCAAGAAGAAG
Found at i:33907944 original size:40 final size:40
Alignment explanation
Indices: 33907907--33908132 Score: 323
Period size: 40 Copynumber: 5.7 Consensus size: 40
33907897 GCTACTCGTT
* *
33907907 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
33907947 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33907987 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33908027 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
33908067 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33908108 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33908133 CATCATTCAA
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 157 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33915244 original size:40 final size:40
Alignment explanation
Indices: 33915207--33915432 Score: 323
Period size: 40 Copynumber: 5.7 Consensus size: 40
33915197 GCTACTCGTT
* *
33915207 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
33915247 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33915287 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33915327 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
33915367 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33915408 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33915433 CATCATTCAA
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 157 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33921665 original size:14 final size:14
Alignment explanation
Indices: 33921646--33921673 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33921636 TCAGAACTCT
33921646 TGCTTATTGTCTAA
1 TGCTTATTGTCTAA
33921660 TGCTTATTGTCTAA
1 TGCTTATTGTCTAA
33921674 CTTTACTATG
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:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TGCTTATTGTCTAA
Found at i:33925794 original size:20 final size:20
Alignment explanation
Indices: 33925756--33925803 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
33925746 TAAATTCTAA
* **
33925756 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
33925776 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
33925796 AAA-ATAAA
1 AAAGATAAA
33925804 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:33925844 original size:15 final size:15
Alignment explanation
Indices: 33925824--33925855 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33925814 TAAATAATCC
*
33925824 TAATAATTATCTTAA
1 TAATAATTATCCTAA
33925839 TAATAATTATCCTAA
1 TAATAATTATCCTAA
33925854 TA
1 TA
33925856 TAAATAAAAT
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:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATTATCCTAA
Found at i:33928053 original size:4 final size:4
Alignment explanation
Indices: 33928044--33928068 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
33928034 CCATGATTTA
33928044 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
33928069 GGACTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:33931073 original size:18 final size:18
Alignment explanation
Indices: 33931036--33931073 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33931026 GTAAAAAAGC
**
33931036 ATGCATAAAAATATTGAA
1 ATGCATAAAAATATCAAA
33931054 ATGCATAAAAATATCAAA
1 ATGCATAAAAATATCAAA
33931072 AT
1 AT
33931074 AAAACTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (18 bp):
ATGCATAAAAATATCAAA
Found at i:33934065 original size:25 final size:25
Alignment explanation
Indices: 33934026--33934107 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
33934016 TCATTAGGGT
*
33934026 TACCAATTTATAGCTTGTGAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
* *
33934051 TACGGATTTATAGCTTGTAAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
* *
33934076 TACCGATTCATAGCTCGTGAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
33934101 TACCGAT
1 TACCGAT
33934108 CTTCAGCTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (25 bp):
TACCGATTTATAGCTTGTGAGAGCA
Found at i:33934115 original size:25 final size:24
Alignment explanation
Indices: 33934036--33934116 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
33934026 TACCAATTTA
* * *
33934036 TAGCTTGTGAGAGCATACGGATTT
1 TAGCTCGTGAGAGCATACCGATCT
* * *
33934060 ATAGCTTGTAAGAGCATACCGATTCA
1 -TAGCTCGTGAGAGCATACCGA-TCT
33934086 TAGCTCGTGAGAGCATACCGATCT
1 TAGCTCGTGAGAGCATACCGATCT
33934110 TCAGCTC
1 T-AGCTC
33934117 AAATGAGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 3 0.06
25 43 0.91
26 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
TAGCTCGTGAGAGCATACCGATCT
Found at i:33934124 original size:25 final size:25
Alignment explanation
Indices: 33934096--33934153 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
33934086 TAGCTCGTGA
*
33934096 GAGCATACCGATCTT-CAGCTCAAAT
1 GAGCATACCAAT-TTACAGCTCAAAT
**
33934121 GAGCATACCAATTTACAGCTCGTAT
1 GAGCATACCAATTTACAGCTCAAAT
33934146 GAGCATAC
1 GAGCATAC
33934154 ATGTACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (25 bp):
GAGCATACCAATTTACAGCTCAAAT
Found at i:33937884 original size:79 final size:78
Alignment explanation
Indices: 33937782--33938004 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
33937772 GCTCCTCGTT
* *
33937782 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
33937847 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
33937862 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
33937925 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
33937940 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
33938003 GA
63 GA
33938005 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:33937899 original size:39 final size:40
Alignment explanation
Indices: 33937782--33938004 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
33937772 GCTCCTCGTT
* *
33937782 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
33937822 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
33937862 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
33937901 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
33937940 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
33937981 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33938005 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:33945734 original size:26 final size:26
Alignment explanation
Indices: 33945705--33945769 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
33945695 ATTTTAATCT
*
33945705 AATTTAATATAAAAATATTTATATTA-
1 AATTTAAT-TAAAAATAATTATATTAG
* *
33945731 AATTATATTTAATAATAATTATATTAG
1 AATT-TAATTAAAAATAATTATATTAG
*
33945758 AATATAATTAAA
1 AATTTAATTAAA
33945770 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTTAATTAAAAATAATTATATTAG
Found at i:33945751 original size:21 final size:20
Alignment explanation
Indices: 33945727--33945786 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
33945717 AAATATTTAT
33945727 ATTAAATTATATTTAATAATA
1 ATTAAATTAT-TTTAATAATA
**
33945748 ATT--A-TATTAGAAT-ATA
1 ATTAAATTATTTTAATAATA
33945764 ATTAAATTATTTTTAATAATA
1 ATTAAATTA-TTTTAATAATA
33945785 AT
1 AT
33945787 CCTATTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 6 0.20
17 4 0.13
18 4 0.13
19 3 0.10
20 5 0.17
21 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTAAATTATTTTAATAATA
Found at i:33945764 original size:16 final size:17
Alignment explanation
Indices: 33945731--33945772 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
33945721 ATTTATATTA
*
33945731 AATTATATT-TAATAAT
1 AATTATATTAGAATAAT
33945747 AATTATATTAGAAT-AT
1 AATTATATTAGAATAAT
*
33945763 AATTAAATTA
1 AATTATATTA
33945773 TTTTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AATTATATTAGAATAAT
Found at i:33945793 original size:37 final size:37
Alignment explanation
Indices: 33945727--33945802 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
33945717 AAATATTTAT
* *
33945727 ATTAAATTATATTTAATAATAATTATATTAGAATATA
1 ATTAAATTATATTTAATAATAATCATATTAAAATATA
* * *
33945764 ATTAAATTATTTTTAATAATAATCCTATTAAAATTTA
1 ATTAAATTATATTTAATAATAATCATATTAAAATATA
33945801 AT
1 AT
33945803 AATAATAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTAAATTATATTTAATAATAATCATATTAAAATATA
Found at i:33949263 original size:4 final size:4
Alignment explanation
Indices: 33949254--33949297 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
33949244 TGCTATTGAG
33949254 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
33949298 GCAGATTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:33956128 original size:15 final size:16
Alignment explanation
Indices: 33956108--33956140 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
33956098 ATATATACAT
33956108 AAAAGAAAAA-TTTTG
1 AAAAGAAAAACTTTTG
33956123 AAAAGAAAAACTTTTG
1 AAAAGAAAAACTTTTG
33956139 AA
1 AA
33956141 CCGACAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (16 bp):
AAAAGAAAAACTTTTG
Found at i:33961965 original size:14 final size:14
Alignment explanation
Indices: 33961946--33961972 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33961936 GAAATTGGTT
33961946 TAAATTTGGAAGTC
1 TAAATTTGGAAGTC
33961960 TAAATTTGGAAGT
1 TAAATTTGGAAGT
33961973 TATGATAAGT
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:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (14 bp):
TAAATTTGGAAGTC
Found at i:33968868 original size:20 final size:18
Alignment explanation
Indices: 33968848--33968882 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33968838 GTATCAGAAT
*
33968848 ATAACAACACATGTAATA
1 ATAAAAACACATGTAATA
*
33968866 ATACAAACACATGTAAT
1 ATAAAAACACATGTAAT
33968883 GCAAAGAGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (18 bp):
ATAAAAACACATGTAATA
Found at i:33970432 original size:22 final size:21
Alignment explanation
Indices: 33970397--33970469 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
33970387 AAAAGGTATC
* *
33970397 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
33970418 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
33970441 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
33970460 TGC-AATCATA
1 TACAAATCATA
33970470 ACTAAGATTG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:33970440 original size:23 final size:22
Alignment explanation
Indices: 33970397--33970454 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
33970387 AAAAGGTATC
* *
33970397 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
33970418 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
33970441 TGCATATCATATCT
1 TACAAATCATATCT
33970455 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:33970457 original size:19 final size:19
Alignment explanation
Indices: 33970433--33970555 Score: 195
Period size: 19 Copynumber: 6.8 Consensus size: 19
33970423 AATCATATCT
33970433 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33970452 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
33970470 ACTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
33970487 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33970506 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
33970524 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
33970541 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
33970556 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:33970501 original size:54 final size:54
Alignment explanation
Indices: 33970433--33970555 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
33970423 AATCATATCT
33970433 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
*
33970487 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
33970541 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
33970556 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
Found at i:33970552 original size:35 final size:36
Alignment explanation
Indices: 33970433--33970552 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
33970423 AATCATATCT
*
33970433 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCTATCATA
* *
33970470 ACTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGC-TATCATA
33970506 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
33970541 TCTAAGATTGCA
1 TCTAAGATTGCA
33970553 TATTGAAGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 36 0.47
36 15 0.20
37 25 0.33
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
Found at i:33973742 original size:40 final size:40
Alignment explanation
Indices: 33973694--33973773 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
33973684 AAATTAGATA
33973694 AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
1 AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
33973734 AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
1 AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
33973774 CACCCTAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (40 bp):
AGAATGAATTATTAGTCTAATGGTTAAGTGATAATGGTTT
Found at i:33978159 original size:20 final size:20
Alignment explanation
Indices: 33978134--33978193 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
33978124 AATATATAAT
*
33978134 AATATAAAATATAGTAAATA
1 AATATAAAATATAATAAATA
*
33978154 AATATATAATATAATAAATA
1 AATATAAAATATAATAAATA
* *
33978174 ATAAATAATATATACATAAA
1 A-ATATAAAATATA-ATAAA
33978194 ATATATTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 19 0.58
21 9 0.27
22 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AATATAAAATATAATAAATA
Found at i:33978174 original size:7 final size:7
Alignment explanation
Indices: 33978150--33978193 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
33978140 AAATATAGTA
33978150 AATAAAT
1 AATAAAT
33978157 ATATAATAT
1 A-ATAA-AT
33978166 AATAAAT
1 AATAAAT
33978173 AATAAAT
1 AATAAAT
*
33978180 AATATAT
1 AATAAAT
33978187 ACATAAA
1 A-ATAAA
33978194 ATATATTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 17 0.53
8 12 0.38
9 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (7 bp):
AATAAAT
Found at i:33978174 original size:39 final size:41
Alignment explanation
Indices: 33978124--33978218 Score: 105
Period size: 39 Copynumber: 2.4 Consensus size: 41
33978114 TAATATTTAG
33978124 AATAT-AT-AATAATATAA-AATATAGTAAAT-AAATATA-T
1 AATATAATAAATAATATAATAATATA-TAAATAAAATATATT
*
33978161 AATATAATAAATAATA-AATAATATATACATAAAATATATT
1 AATATAATAAATAATATAATAATATATAAATAAAATATATT
33978201 AGATGATAA-AAATAATAT
1 A-AT-ATAATAAATAATAT
33978219 TTTATGATTG
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
37 5 0.10
38 8 0.16
39 20 0.41
40 2 0.04
41 10 0.20
42 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (41 bp):
AATATAATAAATAATATAATAATATATAAATAAAATATATT
Found at i:33978178 original size:27 final size:27
Alignment explanation
Indices: 33978058--33978196 Score: 81
Period size: 27 Copynumber: 5.0 Consensus size: 27
33978048 TAAATAAAAC
* *
33978058 ATATAATAACATAATATA-ATTAGTAGT-
1 ATATAATAA-ATAATATATAATA-TAATA
*
33978085 ATATAAT-AA-AATATATAATATGAATC
1 ATATAATAAATAATATATAATAT-AATA
* * * *
33978111 GTATAATATTTAGAATATATAATAATATAAA
1 ATATAATA--AATAATATATAAT-ATA-ATA
*
33978142 ATATAGTAAATAAATATATAATATAATA
1 ATATAATAAAT-AATATATAATATAATA
*
33978170 A-ATAATAAATAATATATACATAAAATA
1 ATATAATAAATAATATATA-ATATAATA
33978197 TATTAGATGA
Statistics
Matches: 88, Mismatches: 13, Indels: 22
0.72 0.11 0.18
Matches are distributed among these distances:
24 7 0.08
25 6 0.07
26 15 0.17
27 22 0.25
28 3 0.03
29 5 0.06
30 21 0.24
31 9 0.10
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (27 bp):
ATATAATAAATAATATATAATATAATA
Found at i:33978196 original size:23 final size:23
Alignment explanation
Indices: 33978150--33978193 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33978140 AAATATAGTA
33978150 AATAAATATATAATATAATAAAT
1 AATAAATATATAATATAATAAAT
33978173 AATAAATA-AT-ATATACATAAA
1 AATAAATATATAATATA-ATAAA
33978194 ATATATTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 7 0.35
23 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAAATATATAATATAATAAAT
Found at i:33979425 original size:48 final size:48
Alignment explanation
Indices: 33979361--33979471 Score: 190
Period size: 48 Copynumber: 2.4 Consensus size: 48
33979351 TTGTTTGGGT
33979361 TTGGG-TGTAA-CGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
1 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
* *
33979407 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCTAAAGGTTTAGGCTAA
1 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
33979455 TTGGGTTGTAACCGGGT
1 TTGGGTTGTAACCGGGT
33979472 GCTGGGTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
46 5 0.08
47 5 0.08
48 51 0.84
ACGTcount: A:0.24, C:0.09, G:0.32, T:0.34
Consensus pattern (48 bp):
TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
Found at i:33980585 original size:27 final size:27
Alignment explanation
Indices: 33980538--33980641 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
33980528 CGAGGCTGCT
*
33980538 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGACAG-AGCCACCAGATAC
*
33980565 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGACAGAGCCACCAGATAC
*
33980591 AGAAATATGTGACAGAGCCACCAGAT-C
1 AGATAT-TGTGACAGAGCCACCAGATAC
* * *
33980618 AGATAATTATGGCATAGCCACCAG
1 AGAT-ATTGTGACAGAGCCACCAG
33980642 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 7 0.11
27 55 0.85
28 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
AGATATTGTGACAGAGCCACCAGATAC
Found at i:33982297 original size:26 final size:26
Alignment explanation
Indices: 33982266--33982372 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
33982256 TGAAATTTCC
33982266 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33982292 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33982318 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33982344 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33982369 ATCA
1 ATCA
33982373 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.29
26 56 0.71
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33984617 original size:40 final size:40
Alignment explanation
Indices: 33984562--33984667 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
33984552 TACGAATTGT
* *
33984562 TACACCGGCCTGAAGCTTGCTAGGCACTGAGCCCGATA-A
1 TACACTGGCATGAAGCTTGCTAGGCACTGAGCCCGATAGA
* * * *
33984601 GTACACTGGCATGAAGCTTACTAGGTATTTAGCCCGATAGA
1 -TACACTGGCATGAAGCTTGCTAGGCACTGAGCCCGATAGA
* *
33984642 TACACTAGCACGAAGCTTGCTAGGCA
1 TACACTGGCATGAAGCTTGCTAGGCA
33984668 ACAAGGCCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (40 bp):
TACACTGGCATGAAGCTTGCTAGGCACTGAGCCCGATAGA
Done.