Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 100 of 145
Found at i:33956966 original size:16 final size:16
Alignment explanation
Indices: 33956930--33956968 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33956920 CTTTAATTTA
33956930 TATATATACATACTTT
1 TATATATACATACTTT
* **
33956946 CATATATACATGTTTT
1 TATATATACATACTTT
33956962 TATATAT
1 TATATAT
33956969 TTCCATTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:33959563 original size:17 final size:17
Alignment explanation
Indices: 33959537--33959605 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
33959527 ATTAATTTTT
*
33959537 AAATTTTAAAAAATAAA
1 AAATTATAAAAAATAAA
*
33959554 AAATTATAAATAATGAAA
1 AAATTATAAAAAAT-AAA
* *
33959572 ATGATT-TAAAAAGTATAA
1 A-AATTATAAAAAATA-AA
33959590 AAATTATAAAACAATA
1 AAATTATAAAA-AATA
33959606 TTTTTAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
17 16 0.40
18 18 0.45
19 6 0.15
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (17 bp):
AAATTATAAAAAATAAA
Found at i:33963854 original size:7 final size:7
Alignment explanation
Indices: 33963842--33963866 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33963832 ATATATACAC
33963842 ATATATT
1 ATATATT
33963849 ATATATT
1 ATATATT
33963856 ATATATT
1 ATATATT
33963863 ATAT
1 ATAT
33963867 CCCATCAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATATT
Found at i:33972375 original size:91 final size:92
Alignment explanation
Indices: 33972254--33972438 Score: 363
Period size: 91 Copynumber: 2.0 Consensus size: 92
33972244 CATAAAATAA
33972254 ATAATAAAATGTATAGTTTGAAACTAATTAATAATAACACATTAAATATCTACGTTATTAAAATG
1 ATAATAAAATGTATAGTTTGAAACTAATTAATAATAACACATTAAATATCTACGTTATTAAAATG
33972319 AAAAAAAATTAAATTAATTTGTTTATC
66 AAAAAAAATTAAATTAATTTGTTTATC
33972346 ATAATAAAATG-ATAGTTTGAAACTAATTAATAATAACACATTAAATATCTACGTTATTAAAATG
1 ATAATAAAATGTATAGTTTGAAACTAATTAATAATAACACATTAAATATCTACGTTATTAAAATG
33972410 AAAAAAAATTAAATTAATTTGTTTATC
66 AAAAAAAATTAAATTAATTTGTTTATC
33972437 AT
1 AT
33972439 GGTGTTGTCA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 82 0.88
92 11 0.12
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (92 bp):
ATAATAAAATGTATAGTTTGAAACTAATTAATAATAACACATTAAATATCTACGTTATTAAAATG
AAAAAAAATTAAATTAATTTGTTTATC
Found at i:33981858 original size:22 final size:22
Alignment explanation
Indices: 33981830--33981871 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
33981820 TTTCCCTTTT
33981830 AAAATAAA-ATAAAATAACATAA
1 AAAATAAATATAAAA-AACATAA
33981852 AAAATAAATATAAAAAACAT
1 AAAATAAATATAAAAAACAT
33981872 TCATAAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAATAAATATAAAAAACATAA
Found at i:33982391 original size:41 final size:40
Alignment explanation
Indices: 33982346--33982546 Score: 224
Period size: 41 Copynumber: 4.9 Consensus size: 40
33982336 ACACTAGTAT
* * *
33982346 GAAGCCTGCTAGGCTCAAAGCCTGATGTAACACATCGACAC
1 GAAGCCTGCTAGGCACAAAGCCTGATATAATACA-CGACAC
* * * *
33982387 GAAGCTTGTTAGGCACAAAGCTTGATATAATACATCGACAT
1 GAAGCCTGCTAGGCACAAAGCCTGATATAATACA-CGACAC
* * * *
33982428 GCAGCCCGCTAGGCACAAAGTCTGATATAATACACTAGCAC
1 GAAGCCTGCTAGGCACAAAGCCTGATATAATACACGA-CAC
*
33982469 GAAGCCTGCTAGGCACAACA-CCTGATATAATACACAGGCAC
1 GAAGCCTGCTAGGCACAA-AGCCTGATATAATACAC-GACAC
* *
33982510 GAAGCCTACTAGGCACAATGCCTGATATAATACACGA
1 GAAGCCTGCTAGGCACAAAGCCTGATATAATACACGA
33982547 AATCTAGAAT
Statistics
Matches: 133, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
40 3 0.02
41 129 0.97
42 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (40 bp):
GAAGCCTGCTAGGCACAAAGCCTGATATAATACACGACAC
Found at i:33985362 original size:13 final size:13
Alignment explanation
Indices: 33985346--33985417 Score: 56
Period size: 13 Copynumber: 5.5 Consensus size: 13
33985336 ATCACGATAC
*
33985346 CACTTAGTAGTAT
1 CACTTAGTGGTAT
* *
33985359 CACTTTA-TTGTAG
1 CAC-TTAGTGGTAT
*
33985372 CACTTAGCGGTAT
1 CACTTAGTGGTAT
* * *
33985385 AACTTAGTGTTGT
1 CACTTAGTGGTAT
33985398 CACTTAGTGGTAT
1 CACTTAGTGGTAT
*
33985411 CATTTAG
1 CACTTAG
33985418 CTCCATGTTT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
12 3 0.07
13 38 0.86
14 3 0.07
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (13 bp):
CACTTAGTGGTAT
Found at i:33985384 original size:26 final size:27
Alignment explanation
Indices: 33985346--33985417 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 27
33985336 ATCACGATAC
* *
33985346 CACTTAGTAGTATCACTTTATTGTAG-
1 CACTTAGTGGTATCACTTTAGTGTAGT
* * *
33985372 CACTTAGCGGTATAAC-TTAGTGTTGT
1 CACTTAGTGGTATCACTTTAGTGTAGT
33985398 CACTTAGTGGTATCA-TTTAG
1 CACTTAGTGGTATCACTTTAG
33985418 CTCCATGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 7 0.19
26 30 0.81
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
CACTTAGTGGTATCACTTTAGTGTAGT
Found at i:33990063 original size:9 final size:9
Alignment explanation
Indices: 33990049--33990079 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33990039 GTTAAACGAA
33990049 TCGAGTTAT
1 TCGAGTTAT
*
33990058 TCGAGTTAA
1 TCGAGTTAT
33990067 TCGAGTTAT
1 TCGAGTTAT
33990076 TCGA
1 TCGA
33990080 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:33992776 original size:16 final size:16
Alignment explanation
Indices: 33992755--33992800 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
33992745 AATTGGGATG
33992755 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
*
33992771 AGAAAATTAATTAATT
1 AGAAAATTATTTAATT
33992787 --AAAATTAATTTAAT
1 AGAAAATT-ATTTAAT
33992801 AAATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:33995557 original size:21 final size:21
Alignment explanation
Indices: 33995515--33995558 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
33995505 AGGATTAGAG
* *
33995515 TTGGGAACATTATGTCCGACA
1 TTGGGAACATCATGTCCAACA
*
33995536 TTGGGAACATCATGTCTAACA
1 TTGGGAACATCATGTCCAACA
33995557 TT
1 TT
33995559 TTCCAATAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (21 bp):
TTGGGAACATCATGTCCAACA
Found at i:33997970 original size:13 final size:13
Alignment explanation
Indices: 33997952--33997976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33997942 AAATAGATAT
33997952 TTATTATATTATA
1 TTATTATATTATA
33997965 TTATTATATTAT
1 TTATTATATTAT
33997977 TATTGTTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:33999292 original size:23 final size:23
Alignment explanation
Indices: 33999266--33999320 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
33999256 GGTTTTGCCG
*
33999266 ATCAGGCACTTTATGTTTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
33999289 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
33999312 TTCAGGCAC
1 ATCAGGCAC
33999321 CTCGTATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:33999351 original size:21 final size:22
Alignment explanation
Indices: 33999302--33999351 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
33999292 AGGCACTTTA
*
33999302 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAAGCACCTCG
* *
33999325 TATGTCGTA-TCAAGCACCTGG
1 TGTGTCGTATTCAAGCACCTCG
33999346 TGTGTC
1 TGTGTC
33999352 ATTTCAGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.65
23 8 0.35
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAAGCACCTCG
Found at i:33999362 original size:21 final size:21
Alignment explanation
Indices: 33999310--33999362 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
33999300 TATGTGTCGT
33999310 ATTTCAGGCACCTCGTATGTC
1 ATTTCAGGCACCTCGTATGTC
* * * * *
33999331 GTATCAAGCACCTGGTGTGTC
1 ATTTCAGGCACCTCGTATGTC
33999352 ATTTCAGGCAC
1 ATTTCAGGCAC
33999363 TTATGTGTCG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (21 bp):
ATTTCAGGCACCTCGTATGTC
Found at i:33999643 original size:24 final size:24
Alignment explanation
Indices: 33999614--33999661 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33999604 GAGATTTGAA
* *
33999614 AATGAAATATATGAAATGGTTATT
1 AATGAAATACATGAAATGGATATT
*
33999638 AATGAAATGCATGAAATGGATATT
1 AATGAAATACATGAAATGGATATT
33999662 GATATAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (24 bp):
AATGAAATACATGAAATGGATATT
Found at i:33999997 original size:24 final size:24
Alignment explanation
Indices: 33999970--34000017 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33999960 GTTTTTTGAA
* *
33999970 AATGAAATATATGAAATGGTTATT
1 AATGAAATACATGAAATGGATATT
*
33999994 AATGAAATGCATGAAATGGATATT
1 AATGAAATACATGAAATGGATATT
34000018 GATATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (24 bp):
AATGAAATACATGAAATGGATATT
Found at i:34000701 original size:16 final size:17
Alignment explanation
Indices: 34000676--34000715 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
34000666 AATTTTTTTT
*
34000676 AAATTTTAAATTA-TAA
1 AAATTATAAATTATTAA
*
34000692 AAATTATAAATTATTAT
1 AAATTATAAATTATTAA
34000709 AAATTAT
1 AAATTAT
34000716 TATTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATAAATTATTAA
Found at i:34000709 original size:10 final size:10
Alignment explanation
Indices: 34000685--34000718 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
34000675 TAAATTTTAA
*
34000685 ATTATAAA-A
1 ATTATAAATT
34000694 ATTATAAATT
1 ATTATAAATT
34000704 ATTATAAATT
1 ATTATAAATT
34000714 ATTAT
1 ATTAT
34000719 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTATAAATT
Found at i:34001633 original size:16 final size:17
Alignment explanation
Indices: 34001608--34001647 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
34001598 AATTTTTTTT
*
34001608 AAATTTTAAATTA-TAA
1 AAATTATAAATTATTAA
*
34001624 AAATTATAAATTATTAT
1 AAATTATAAATTATTAA
34001641 AAATTAT
1 AAATTAT
34001648 TATTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTATAAATTATTAA
Found at i:34001641 original size:10 final size:10
Alignment explanation
Indices: 34001617--34001650 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
34001607 TAAATTTTAA
*
34001617 ATTATAAA-A
1 ATTATAAATT
34001626 ATTATAAATT
1 ATTATAAATT
34001636 ATTATAAATT
1 ATTATAAATT
34001646 ATTAT
1 ATTAT
34001651 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTATAAATT
Found at i:34015126 original size:44 final size:44
Alignment explanation
Indices: 34015052--34015142 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
34015042 GTAGGTCAAA
34015052 TAATATTAAAGTAACCTACACTAATAAGAGTTTAAG-TGGAAAAC
1 TAATATTAAAGTAACCTACACTAATAAGAGTTTAAGCTGG-AAAC
* * * *
34015096 TAATATTAATGTAACCTATATTAATCAGAGTTTAAGCTGGAAAC
1 TAATATTAAAGTAACCTACACTAATAAGAGTTTAAGCTGGAAAC
34015140 TAA
1 TAA
34015143 AAGTAGAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 39 0.93
45 3 0.07
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (44 bp):
TAATATTAAAGTAACCTACACTAATAAGAGTTTAAGCTGGAAAC
Found at i:34017086 original size:44 final size:44
Alignment explanation
Indices: 34017036--34017121 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
34017026 TTTGTAGGTC
*
34017036 AAATAATATTAAAATAACCTACACTAATTAGAGTTTAAGTGGAA
1 AAATAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGAA
* *
34017080 AAATAATATTAAAGTAATCTACACTAATCAGAGTTTAAGTGG
1 AAATAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGG
34017122 GGAACTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (44 bp):
AAATAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGAA
Found at i:34030910 original size:30 final size:29
Alignment explanation
Indices: 34030875--34030935 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
34030865 ATGTTAATGG
*
34030875 TAATTAGAATAA-ATTAATTAAATATTTAAT
1 TAATTA-AATAAGATTAATT-AAGATTTAAT
* *
34030905 TAATTAACTAAGGTTAATTAAGATTTAAT
1 TAATTAAATAAGATTAATTAAGATTTAAT
34030934 TA
1 TA
34030936 CTGTATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.43
Consensus pattern (29 bp):
TAATTAAATAAGATTAATTAAGATTTAAT
Found at i:34040772 original size:36 final size:36
Alignment explanation
Indices: 34040732--34040803 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
34040722 TATAATGACT
* * *
34040732 GATGTGAAAGTGAATATGA-GGGTGTGTTGTTCATGC
1 GATGTGAAAGTAAATAT-ATGGGTATGTTATTCATGC
*
34040768 GATGTGACAGTAAATATATGGGTATGTTATTCATGC
1 GATGTGAAAGTAAATATATGGGTATGTTATTCATGC
34040804 CATATGACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.03
36 30 0.97
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.35
Consensus pattern (36 bp):
GATGTGAAAGTAAATATATGGGTATGTTATTCATGC
Found at i:34042681 original size:29 final size:29
Alignment explanation
Indices: 34042640--34042697 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
34042630 TCCTACATAA
34042640 TTTTCTATTGTTGTTCCGATAATCAATGT
1 TTTTCTATTGTTGTTCCGATAATCAATGT
34042669 TTTTCTATTGTTGTTCCGATAATCAATGT
1 TTTTCTATTGTTGTTCCGATAATCAATGT
34042698 AGCATTCCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (29 bp):
TTTTCTATTGTTGTTCCGATAATCAATGT
Found at i:34045257 original size:27 final size:27
Alignment explanation
Indices: 34045237--34045381 Score: 191
Period size: 27 Copynumber: 5.4 Consensus size: 27
34045227 GGGTATAACA
*
34045237 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
34045264 GTCATTCTATCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34045291 GTCATTCTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** * *
34045318 ACCATTTTACCCTATGGTGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
34045345 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
34045372 GTCATTTTAC
1 GTCATTTTAC
34045382 TTTATAGGGT
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:34051319 original size:17 final size:17
Alignment explanation
Indices: 34051297--34051333 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34051287 TAATCTCACA
*
34051297 TTAATAAAATTTTTACT
1 TTAATAAAAATTTTACT
*
34051314 TTAATAAAAATTTTATT
1 TTAATAAAAATTTTACT
34051331 TTA
1 TTA
34051334 TCAGAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAATAAAAATTTTACT
Found at i:34055312 original size:28 final size:28
Alignment explanation
Indices: 34055272--34055332 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
34055262 ACATGCAATG
*
34055272 ACAGTTTGGGCCTGAGCCCTAAGCAGTA
1 ACAGTCTGGGCCTGAGCCCTAAGCAGTA
*
34055300 ACAGTCTGGGCCTTAGCCCTAAGCAGTA
1 ACAGTCTGGGCCTGAGCCCTAAGCAGTA
34055328 ACAGT
1 ACAGT
34055333 GTAATGTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (28 bp):
ACAGTCTGGGCCTGAGCCCTAAGCAGTA
Found at i:34055348 original size:33 final size:31
Alignment explanation
Indices: 34055278--34055367 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 31
34055268 AATGACAGTT
*
34055278 TGGGCCTGAGCCCTAAGCAGTAACA--G-TC
1 TGGGCCTTAGCCCTAAGCAGTAACAGTGTTC
*
34055306 TGGGCCTTAGCCCTAAGCAGTAACAGTGTAATG
1 TGGGCCTTAGCCCTAAGCAGTAACAGTGT--TC
**
34055339 TGGGCCTTAG-CCTATTTCAGTAACAGTGT
1 TGGGCCTTAGCCCTA-AGCAGTAACAGTGT
34055368 GAGCCTTAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
28 24 0.46
30 1 0.02
32 4 0.08
33 23 0.44
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (31 bp):
TGGGCCTTAGCCCTAAGCAGTAACAGTGTTC
Found at i:34055742 original size:27 final size:26
Alignment explanation
Indices: 34055712--34055891 Score: 200
Period size: 27 Copynumber: 6.7 Consensus size: 26
34055702 TCAACTCCCA
** *
34055712 GGGGTATAACAGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCT-TG
34055739 GGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTT-G
*
34055766 GGGGTATTTCAGTTATTTTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCC-TTG
** *
34055793 GGGGTATTTTGGTTATTTTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCC-TTG
34055820 GGGGTATTTC-GTTCATTTTACCCTTTG
1 GGGGTATTTCAG-TCATTTTACCC-TTG
* *
34055847 GGGGTATTTCGGTTATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTT-G
*
34055874 AGGGTATTTCAGTCATTT
1 GGGGTATTTCAGTCATTT
34055892 GCCCATGAAT
Statistics
Matches: 136, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.03
27 129 0.95
28 3 0.02
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (26 bp):
GGGGTATTTCAGTCATTTTACCCTTG
Found at i:34055784 original size:54 final size:54
Alignment explanation
Indices: 34055712--34055891 Score: 254
Period size: 54 Copynumber: 3.3 Consensus size: 54
34055702 TCAACTCCCA
** * * * *
34055712 GGGGTATAACAGTCATTTTATCCTATGGGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCGGTTATTTTACCCTTCG
* * *
34055766 GGGGTATTTCAGTTATTTTACCCTTTGGGGGTATTTTGGTTATTTTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCGGTTATTTTACCCTTCG
34055820 GGGGTATTTC-GTTCATTTTACCCTTTGGGGGTATTTCGGTTATTTTACCCTTCG
1 GGGGTATTTCAG-TCATTTTACCCTTTGGGGGTATTTCGGTTATTTTACCCTTCG
*
34055874 AGGGTATTTCAGTCATTT
1 GGGGTATTTCAGTCATTT
34055892 GCCCATGAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 109 0.98
55 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (54 bp):
GGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCGGTTATTTTACCCTTCG
Found at i:34055850 original size:81 final size:81
Alignment explanation
Indices: 34055726--34055882 Score: 244
Period size: 81 Copynumber: 1.9 Consensus size: 81
34055716 TATAACAGTC
*
34055726 ATTTTATCCTATGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTT
1 ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTT
* *
34055791 TGGGGGTATTTTGGTT
66 CGAGGGTATTTTGGTT
* * *
34055807 ATTTTACCCTTTGGGGGTATTTC-GTTCATTTTACCCTTTGGGGGTATTTCGGTTATTTTACCCT
1 ATTTTACCCTATGGGGGTATTTCAG-TCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCT
34055871 TCGAGGGTATTT
65 TCGAGGGTATTT
34055883 CAGTCATTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 68 0.99
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.47
Consensus pattern (81 bp):
ATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTT
CGAGGGTATTTTGGTT
Found at i:34056586 original size:5 final size:5
Alignment explanation
Indices: 34056566--34056608 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
34056556 GCACTAGAAT
*
34056566 GAAGA GGAAAA GAAGA GAAGA GAAGA GAAGA GATA-A GAAGA GA
1 GAAGA -GAAGA GAAGA GAAGA GAAGA GAAGA GA-AGA GAAGA GA
34056609 GGATTTGGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
4 1 0.03
5 27 0.82
6 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.02
Consensus pattern (5 bp):
GAAGA
Found at i:34059663 original size:40 final size:38
Alignment explanation
Indices: 34059614--34059708 Score: 93
Period size: 40 Copynumber: 2.5 Consensus size: 38
34059604 AACACAACAG
* *
34059614 TTTGGCACCCAATGCCTCATCAGATAATTCAAAGTAATAA
1 TTTGACACCCAATGCCTCATCAGATAAATCAAAGT-A-AA
** * * *
34059654 TTTGACACCCAATATCTCATCGGCTAAATCGAAGTAAA
1 TTTGACACCCAATGCCTCATCAGATAAATCAAAGTAAA
*
34059692 -TTGACACCCAGTGCCTC
1 TTTGACACCCAATGCCTC
34059709 GTCGAATTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
37 14 0.31
38 2 0.04
39 1 0.02
40 28 0.62
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (38 bp):
TTTGACACCCAATGCCTCATCAGATAAATCAAAGTAAA
Found at i:34060630 original size:13 final size:13
Alignment explanation
Indices: 34060612--34060647 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
34060602 TACGTCTTTC
34060612 TTTCTCTTTTTTG
1 TTTCTCTTTTTTG
34060625 TTTCTCTTTCTTTG
1 TTTCTCTTT-TTTG
34060639 TTT-TCTTTT
1 TTTCTCTTTT
34060648 GGTTTTGGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 14 0.64
14 7 0.32
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (13 bp):
TTTCTCTTTTTTG
Found at i:34063811 original size:2 final size:2
Alignment explanation
Indices: 34063799--34063838 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
34063789 ACGACTTCAG
*
34063799 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34063839 CTTACATCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34071225 original size:6 final size:6
Alignment explanation
Indices: 34071214--34071264 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
34071204 AACGATCTAG
34071214 TTGATA TTGATA TTGATA TTGATA TTGATA TTGATA TTGATA TTGATA
1 TTGATA TTGATA TTGATA TTGATA TTGATA TTGATA TTGATA TTGATA
34071262 TTG
1 TTG
34071265 TGAGGATGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (6 bp):
TTGATA
Found at i:34073772 original size:20 final size:20
Alignment explanation
Indices: 34073743--34073787 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
34073733 AGCACATGAA
34073743 TGGA-ACCCCAAATGCCCAC
1 TGGATACCCCAAATGCCCAC
34073762 TGGATACCCCAAATGCCCAC
1 TGGATACCCCAAATGCCCAC
34073782 TGGATA
1 TGGATA
34073788 ATCATTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.31, C:0.36, G:0.18, T:0.16
Consensus pattern (20 bp):
TGGATACCCCAAATGCCCAC
Found at i:34077543 original size:24 final size:25
Alignment explanation
Indices: 34077505--34077564 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 25
34077495 TAAATTTGAA
34077505 CATTTTAAAT-T-ATAAAT-ATTTT
1 CATTTTAAATATAATAAATCATTTT
*
34077527 CATTTTAAATATAATAAGTCATTTT
1 CATTTTAAATATAATAAATCATTTT
*
34077552 -ATTTT-TATATAAT
1 CATTTTAAATATAAT
34077565 GACAACACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 10 0.30
23 8 0.24
24 10 0.30
25 5 0.15
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (25 bp):
CATTTTAAATATAATAAATCATTTT
Found at i:34077709 original size:18 final size:20
Alignment explanation
Indices: 34077665--34077711 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
34077655 TTATTCTATG
*
34077665 ATATTATATGATTTAATGAT
1 ATATTATATGATTTAATAAT
* *
34077685 TTTTTAT-TG-TTTAATAAT
1 ATATTATATGATTTAATAAT
34077703 ATATTATAT
1 ATATTATAT
34077712 TGAAAATTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
18 13 0.62
19 3 0.14
20 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATATTATATGATTTAATAAT
Found at i:34080245 original size:105 final size:105
Alignment explanation
Indices: 34080055--34080246 Score: 244
Period size: 105 Copynumber: 1.8 Consensus size: 105
34080045 AATATTTTTT
* * **
34080055 ATTATTAATTAAAAATAAAAAAAGCTTGAAACAACATGAAATAAAAAATACAAATGTCTTTAGAA
1 ATTAGTAATTAAAAATAAAAAAAGCTTGAAACAACATGAAATAAAAAATACAAATATCAGTAGAA
* ** ** *
34080120 GAGGAATTGAACTTGGGACTCAAGAAACTTATGTATTGAA
66 CAGGAATCAAACCCGAGACTCAAGAAACTTATGTATTGAA
*
34080160 ATTAGTAATTAAAAATAAAAGTAAAGCTTGAAACAACATG-AA-AAAAAATACAAATATGAGTAG
1 ATTAGTAATTAAAAATAAAA--AAAGCTTGAAACAACATGAAATAAAAAATACAAATATCAGTAG
*
34080223 GACAGGAATCAAACCCGAGACTCA
64 AACAGGAATCAAACCCGAGACTCA
34080247 GATAAAATCA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
105 53 0.73
106 2 0.03
107 18 0.25
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (105 bp):
ATTAGTAATTAAAAATAAAAAAAGCTTGAAACAACATGAAATAAAAAATACAAATATCAGTAGAA
CAGGAATCAAACCCGAGACTCAAGAAACTTATGTATTGAA
Found at i:34081268 original size:79 final size:79
Alignment explanation
Indices: 34081172--34081328 Score: 251
Period size: 79 Copynumber: 2.0 Consensus size: 79
34081162 ACTAGTACGT
* * *
34081172 CTCTACGTTACTCTGTTGATGAAGAATGTGCAATATCTGAATATATTGGATTGATGGTTACTGAT
1 CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTGAATATATTAGATTGATGGTTACTGAT
34081237 TCTAATTTATAACA
66 TCTAATTTATAACA
* * *
34081251 CTCTACGTTACTCTGTTGATGAAGAATATACGATATCTGAATATGTTAGATTGATTGTTACTGAT
1 CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTGAATATATTAGATTGATGGTTACTGAT
*
34081316 TCTGATTTATAAC
66 TCTAATTTATAAC
34081329 CGTGCATGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (79 bp):
CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTGAATATATTAGATTGATGGTTACTGAT
TCTAATTTATAACA
Found at i:34081863 original size:25 final size:25
Alignment explanation
Indices: 34081799--34081885 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
34081789 AACGTACATG
* *
34081799 CTCTGCTCTGTTATGTTCAATTCTA
1 CTCTGCTCTGTTATGTTTAGTTCTA
34081824 CTCTGCTCTGTTATGTTTAGTTCTA
1 CTCTGCTCTGTTATGTTTAGTTCTA
** *
34081849 CTCTGCTCTACTATG-TTATGTTCTG
1 CTCTGCTCTGTTATGTTTA-GTTCTA
*
34081874 CTCTGCTATGTT
1 CTCTGCTCTGTT
34081886 CTATTCTCTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 3 0.06
25 50 0.94
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.49
Consensus pattern (25 bp):
CTCTGCTCTGTTATGTTTAGTTCTA
Found at i:34081885 original size:15 final size:15
Alignment explanation
Indices: 34081864--34081907 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
34081854 CTCTACTATG
34081864 TTATGTTCTGCTCTGC
1 TTATGTTCTGCTCT-C
**
34081880 -TATGTTCTATTCTC
1 TTATGTTCTGCTCTC
34081894 TTATGTTCTGCTCT
1 TTATGTTCTGCTCT
34081908 ATCCTGTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.09, C:0.23, G:0.14, T:0.55
Consensus pattern (15 bp):
TTATGTTCTGCTCTC
Found at i:34081892 original size:20 final size:20
Alignment explanation
Indices: 34081843--34081892 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
34081833 GTTATGTTTA
*
34081843 GTTCTACTCTGCTCTACTAT
1 GTTCTATTCTGCTCTACTAT
* * *
34081863 GTTATGTTCTGCTCTGCTAT
1 GTTCTATTCTGCTCTACTAT
34081883 GTTCTATTCT
1 GTTCTATTCT
34081893 CTTATGTTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.14, T:0.50
Consensus pattern (20 bp):
GTTCTATTCTGCTCTACTAT
Found at i:34082787 original size:14 final size:14
Alignment explanation
Indices: 34082770--34082800 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34082760 TAATAAACAC
34082770 AAAAAAATATTTTT
1 AAAAAAATATTTTT
34082784 AAAAAAATATTTTT
1 AAAAAAATATTTTT
34082798 AAA
1 AAA
34082801 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAAAAATATTTTT
Found at i:34083319 original size:17 final size:16
Alignment explanation
Indices: 34083295--34083333 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
34083285 TTATGCACAC
34083295 TTTATTAATAATATAT
1 TTTATTAATAATATAT
*
34083311 TTGTATTAATAATGTAT
1 TT-TATTAATAATATAT
34083328 TTTATT
1 TTTATT
34083334 GAGTTGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTATTAATAATATAT
Found at i:34083703 original size:16 final size:17
Alignment explanation
Indices: 34083684--34083716 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34083674 TAATTTATAG
34083684 ATTTTA-ATAATTATTA
1 ATTTTATATAATTATTA
*
34083700 ATTTTATATATTTATTA
1 ATTTTATATAATTATTA
34083717 TACATGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATATAATTATTA
Found at i:34084231 original size:59 final size:58
Alignment explanation
Indices: 34084166--34084289 Score: 131
Period size: 59 Copynumber: 2.1 Consensus size: 58
34084156 ATTTTTTAGT
*** **
34084166 TTTTAAGGGGCTTTAAAAAAATTTTAACTTTTAAAGGTCAAAAAAAAGTTTTTACCAAC
1 TTTTAAGGGGCCCAAAAAAAACATTAACTTTTAAAGG-CAAAAAAAAGTTTTTACCAAC
* * ** ***
34084225 TTTTAAGTGGCCCAAAAAAAACATTAGCTTTTAAAGGCCCAAAATTTTTTTTACCAAC
1 TTTTAAGGGGCCCAAAAAAAACATTAACTTTTAAAGGCAAAAAAAAGTTTTTACCAAC
34084283 TTTTAAG
1 TTTTAAG
34084290 AGACCTAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
58 23 0.43
59 30 0.57
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (58 bp):
TTTTAAGGGGCCCAAAAAAAACATTAACTTTTAAAGGCAAAAAAAAGTTTTTACCAAC
Found at i:34084326 original size:30 final size:31
Alignment explanation
Indices: 34084252--34084329 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 31
34084242 AAAACATTAG
* * *
34084252 CTTTTAA-AGGCCCAAAATTTTTTTTACCAA
1 CTTTTAAGAGACCTAAAATTTTTTCTACCAA
34084282 CTTTTAAGAGACCTAAAATTTTTTCT-CCAA
1 CTTTTAAGAGACCTAAAATTTTTTCTACCAA
34084312 CTTTTAAG-GAACCTAAAA
1 CTTTTAAGAG-ACCTAAAA
34084330 CCTCATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.02
30 27 0.63
31 15 0.35
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (31 bp):
CTTTTAAGAGACCTAAAATTTTTTCTACCAA
Found at i:34091088 original size:13 final size:13
Alignment explanation
Indices: 34091063--34091096 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
34091053 TTTTCTTTCA
34091063 TTTCTTT-TTGTT
1 TTTCTTTCTTGTT
34091075 TTTCTTTCTTGTT
1 TTTCTTTCTTGTT
*
34091088 TATCTTTCT
1 TTTCTTTCT
34091097 CTTATTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTTGTT
Found at i:34091095 original size:17 final size:16
Alignment explanation
Indices: 34091049--34091096 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
34091039 TTTTTGGCTG
34091049 CTTGTTTTCTTTCATTT
1 CTTGTTTTCTTTC-TTT
*
34091066 CTT-TTTGTTTTTCTTT
1 CTTGTTT-TCTTTCTTT
34091082 CTTGTTTATCTTTCT
1 CTTGTTT-TCTTTCT
34091097 CTTATTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.04, C:0.17, G:0.06, T:0.73
Consensus pattern (16 bp):
CTTGTTTTCTTTCTTT
Found at i:34092186 original size:27 final size:27
Alignment explanation
Indices: 34092140--34092299 Score: 194
Period size: 27 Copynumber: 5.9 Consensus size: 27
34092130 TCTGCTGACT
**
34092140 GAAATACCTTCGAAGGGTAAAATGATC
1 GAAATACCCCCGAAGGGTAAAATGATC
* * ** *
34092167 GAAATACCCTCAAATTGTAAAATGACC
1 GAAATACCCCCGAAGGGTAAAATGATC
* *
34092194 AAAATACCCTCGAAGGGTAAAATGATC
1 GAAATACCCCCGAAGGGTAAAATGATC
* *
34092221 GAAATACCCCCGAAGGGTAAAATAACC
1 GAAATACCCCCGAAGGGTAAAATGATC
34092248 GAAATACCCCCGAAGGGTAAAATGATC
1 GAAATACCCCCGAAGGGTAAAATGATC
***
34092275 GAAATACCTTTGAAGGGTAAAATGA
1 GAAATACCCCCGAAGGGTAAAATGA
34092300 CTGTTATACC
Statistics
Matches: 114, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
GAAATACCCCCGAAGGGTAAAATGATC
Found at i:34092290 original size:54 final size:54
Alignment explanation
Indices: 34092140--34092297 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
34092130 TCTGCTGACT
* * ** *
34092140 GAAATACCTTCGAAGGGTAAAATGATCGAAATACCCTCAAATTGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATAACC
* *
34092194 AAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATAACC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATAACC
* * *
34092248 GAAATACCCCCGAAGGGTAAAATGATCGAAATACCTTTGAAGGGTAAAAT
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAAT
34092298 GACTGTTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (54 bp):
GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATAACC
Found at i:34092508 original size:26 final size:26
Alignment explanation
Indices: 34092479--34092581 Score: 125
Period size: 26 Copynumber: 4.0 Consensus size: 26
34092469 TTGCCACAAA
*
34092479 TACTGTTATTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * * *
34092505 TACTGATACTGGCAGCTCTACTGGGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
34092531 TACTGTTAGTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
34092557 TACTATTACTGGCAGTTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
34092582 ATATTAGTGT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:34092755 original size:30 final size:30
Alignment explanation
Indices: 34092715--34092804 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
34092705 GCTTAAGGCT
34092715 CACACTGTTACTGTATTGGGCTAAGGCCCA
1 CACACTGTTACTGTATTGGGCTAAGGCCCA
* *
34092745 CACTCTGTTACTGTATTGGGCTATGGCCCA
1 CACACTGTTACTGTATTGGGCTAAGGCCCA
* * ** *
34092775 CACACTGCTATTGTATAAGGCTCAGGCCCA
1 CACACTGTTACTGTATTGGGCTAAGGCCCA
34092805 GACTGATTCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (30 bp):
CACACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:34095316 original size:43 final size:42
Alignment explanation
Indices: 34095189--34095304 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 42
34095179 AGCTCGTACA
* * *
34095189 ATGCCATCGTCCCAAACGTGGTCTTATATGTAATCACATATCG
1 ATGCCA-CGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
34095232 ATGCCACTATCCCAGACAG-GGTCTTACACGTAATCAGATATCG
1 ATGCCAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
34095275 ATGCCGACGTCCCAGACGTGGTCTTACACG
1 ATGCC-ACGTCCCAGACGTGGTCTTACACG
34095305 AAAATACATA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.03
43 58 0.92
44 3 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:34096222 original size:28 final size:28
Alignment explanation
Indices: 34096182--34096238 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
34096172 TATGTTTGTT
34096182 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
34096210 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
34096238 T
1 T
34096239 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:34097450 original size:18 final size:18
Alignment explanation
Indices: 34097423--34097462 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34097413 TCCGAGGACA
34097423 GAGCCAATTG-CTAGAGTT
1 GAGCCAATTGTC-AGAGTT
*
34097441 GAGCCTATTGTCAGAGTT
1 GAGCCAATTGTCAGAGTT
34097459 GAGC
1 GAGC
34097463 AGACACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (18 bp):
GAGCCAATTGTCAGAGTT
Found at i:34099111 original size:21 final size:21
Alignment explanation
Indices: 34099085--34099228 Score: 152
Period size: 21 Copynumber: 7.0 Consensus size: 21
34099075 TTTGGGTGAA
*
34099085 TCAGCTCTTACGGGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
* *
34099106 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
* * * *
34099127 TTAGCTCTTAAGAGCTTTTTT
1 TCAGCTCTTACGAGCTTCTGT
* *
34099148 TCAGCT-TT-CAAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
*
34099167 TCAGCT-TT-CAAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
34099186 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
34099207 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
34099228 T
1 T
34099229 GGTGTATGCA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
19 32 0.31
20 4 0.04
21 68 0.65
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:34099163 original size:19 final size:19
Alignment explanation
Indices: 34099139--34099191 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
34099129 AGCTCTTAAG
*
34099139 AGCTTTTTTTCAGCTTTCA
1 AGCTTTTGTTCAGCTTTCA
34099158 AGCTTTTGTTCAGCTTTCA
1 AGCTTTTGTTCAGCTTTCA
*
34099177 AGCTTCTGTTCAGCT
1 AGCTTTTGTTCAGCT
34099192 CTTATGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (19 bp):
AGCTTTTGTTCAGCTTTCA
Found at i:34105080 original size:17 final size:19
Alignment explanation
Indices: 34105060--34105100 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
34105050 ATATAATTTT
*
34105060 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
34105077 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
34105095 AAAATA
1 AAAATA
34105101 AATATTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:34105225 original size:30 final size:30
Alignment explanation
Indices: 34105181--34105240 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34105171 ACTTAACAAG
*
34105181 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAAAAACAAAATTAA
* *
34105211 CAAATGTCTTTAAAATAAAAACAAAATTAA
1 CAAATGCCTCTAAAATAAAAACAAAATTAA
34105241 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAAAAACAAAATTAA
Found at i:34107272 original size:27 final size:27
Alignment explanation
Indices: 34107242--34107567 Score: 272
Period size: 27 Copynumber: 12.1 Consensus size: 27
34107232 TAAAAGTTAA
* *
34107242 TTTAACCTTTGAGGGTATTTCGATCAT
1 TTTAACCTTCGAGGGTATTTTGATCAT
* * *
34107269 TTTACCCTTCAAGGGTATTTTGGTCAT
1 TTTAACCTTCGAGGGTATTTTGATCAT
*
34107296 TTT-ACCATTTC-AGGGTA-TTTCAGTCAT
1 TTTAACC--TTCGAGGGTATTTTGA-TCAT
*
34107323 TTT-ACCTTCCGAGGGTA-TTTCAGTCAT
1 TTTAACCTT-CGAGGGTATTTTGA-TCAT
* * *
34107350 TTTATCTTTCGAGGGTA-TTTCAGTCAT
1 TTTAACCTTCGAGGGTATTTTGA-TCAT
* * *
34107377 TTTATCTTTCGAGGGTATTTTGGTCAT
1 TTTAACCTTCGAGGGTATTTTGATCAT
* * *
34107404 TTTACCCTTCGGGGGTATTTTGGTCAT
1 TTTAACCTTCGAGGGTATTTTGATCAT
* * * *
34107431 TTTACCCTTCGGGGGTATTTTGGTTAT
1 TTTAACCTTCGAGGGTATTTTGATCAT
* * *
34107458 TTTACCCTTTGAGGGTATTTTGGTCAT
1 TTTAACCTTCGAGGGTATTTTGATCAT
* *
34107485 TTTACCCTTCGGGGGTATTTTGATCAT
1 TTTAACCTTCGAGGGTATTTTGATCAT
* *
34107512 TTTACCCTTC-AGGGGTA-TTTCAGTCAT
1 TTTAACCTTCGA-GGGTATTTTGA-TCAT
*
34107539 TTTAACCTTCGAGGGTATTTTGGTCAT
1 TTTAACCTTCGAGGGTATTTTGATCAT
34107566 TT
1 TT
34107568 GCCCATGAAT
Statistics
Matches: 261, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.01
26 10 0.04
27 236 0.90
28 13 0.05
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (27 bp):
TTTAACCTTCGAGGGTATTTTGATCAT
Found at i:34107311 original size:54 final size:53
Alignment explanation
Indices: 34107241--34107567 Score: 388
Period size: 54 Copynumber: 6.1 Consensus size: 53
34107231 ATAAAAGTTA
* * *
34107241 ATTTAACCTTTGAGGGTATTTC-GATCATTTTACCCTTCAAGGGTATTTTGGTC
1 ATTTTACCTTTCAGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTTGGTC
**
34107294 ATTTTACCATTTCAGGGTATTTCAGTCATTTTA-CCTTCCGAGGGTATTTCAGTC
1 ATTTTACC-TTTCAGGGTATTTCAGTCATTTTACCCTT-CGAGGGTATTTTGGTC
* * *
34107348 ATTTTATCTTTCGAGGGTATTTCAGTCATTTTATCTTTCGAGGGTATTTTGGTC
1 ATTTTACCTTTC-AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTC
* * ** * *
34107402 ATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTCGGGGGTATTTTGGTT
1 ATTTTACCTTTC-AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTC
* ** * *
34107456 ATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGGGGGTATTTTGATC
1 ATTTTA-CCTTTCAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTC
* *
34107510 ATTTTACCCTTCAGGGGTATTTCAGTCATTTTAACCTTCGAGGGTATTTTGGTC
1 ATTTTACCTTTCA-GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTC
34107564 ATTT
1 ATTT
34107568 GCCCATGAAT
Statistics
Matches: 237, Mismatches: 30, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
53 20 0.08
54 209 0.88
55 8 0.03
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (53 bp):
ATTTTACCTTTCAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTC
Found at i:34107350 original size:81 final size:81
Alignment explanation
Indices: 34107242--34107567 Score: 383
Period size: 81 Copynumber: 4.0 Consensus size: 81
34107232 TAAAAGTTAA
* * **
34107242 TTTAACCTTTGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTTGGTCATTTTACCATTTC
1 TTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACC-TTTC
**
34107307 -AGGGTATTTCAGTCAT
65 GAGGGTATTTTGGTCAT
* * * *
34107323 TTTA-CCTTCCGAGGGTATTTC-AGTCATTTTATCTTTCGAGGGTATTTCAGTCATTTTATCTTT
1 TTTACCCTT-CGAGGGTATTTCGA-TCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCTTT
34107386 CGAGGGTATTTTGGTCAT
64 CGAGGGTATTTTGGTCAT
* * * ** ** *
34107404 TTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTCGGGGGTATTTTGGTTATTTTACCCTTT-
1 TTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCATTTTA-CCTTTC
34107468 GAGGGTATTTTGGTCAT
65 GAGGGTATTTTGGTCAT
* * *
34107485 TTTACCCTTCGGGGGTATTTTGATCATTTTACCCTTCAGGGGTATTTCAGTCATTTTAACC-TTC
1 TTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCATTTT-ACCTTTC
34107549 GAGGGTATTTTGGTCAT
65 GAGGGTATTTTGGTCAT
34107566 TT
1 TT
34107568 GCCCATGAAT
Statistics
Matches: 213, Mismatches: 24, Indels: 16
0.84 0.09 0.06
Matches are distributed among these distances:
80 11 0.05
81 193 0.91
82 9 0.04
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (81 bp):
TTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCTTTCG
AGGGTATTTTGGTCAT
Found at i:34111035 original size:177 final size:180
Alignment explanation
Indices: 34110739--34111096 Score: 598
Period size: 177 Copynumber: 2.0 Consensus size: 180
34110729 CTCTTGTGAT
34110739 CTCTGTAAATAGAACACTTCTCACCGTAGAGATAATGCCTCTAAATTTTCAGTGTGAATACCACC
1 CTCTGTAAATAGAACACTTCTCACCGTAGAGATAATGCCTCTAAATTTTCAGTGTGAATACCACC
* *
34110804 GCAGCTAACTCTAAGTCATGAGTAGGGTAATTCGCCTCATGAGGCATCAGCTGACGAGACGCATA
66 GCAGCTAACTCTAAGTCATGAGTAGGGTAATTCACCTCATGAGGCATAAGCTGACGAGACGCATA
34110869 AGC-A-A-TCACCTTACCCTCATGCACCAGCACACAACCCAAACCAACGA
131 AGCAACACTCACCTTACCCTCATGCACCAGCACACAACCCAAACCAACGA
34110916 CTCTGTAAATAGAACACTTCTCACCGTAGAGATAATGCCTCTAAATTTTCAGGTGTGAATA-CAC
1 CTCTGTAAATAGAACACTTCTCACCGTAGAGATAATGCCTCTAAATTTTCA-GTGTGAATACCAC
* *
34110980 CGCAGCTAACTCTAAGTCATGAGTAGGGTAATTCACCTCGTGAGGCTTAAGCTGACGAGACGCAT
65 CGCAGCTAACTCTAAGTCATGAGTAGGGTAATTCACCTCATGAGGCATAAGCTGACGAGACGCAT
* * *
34111045 AAGCAACCACCTTACCTTACCCTCCTGCATCAGCACACAACCCAAACCAACG
130 AAGCAA-CA-CTCACCTTACCCTCATGCACCAGCACACAACCCAAACCAACG
34111097 TGTGATGCAT
Statistics
Matches: 168, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
177 119 0.71
178 10 0.06
180 1 0.01
182 38 0.23
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (180 bp):
CTCTGTAAATAGAACACTTCTCACCGTAGAGATAATGCCTCTAAATTTTCAGTGTGAATACCACC
GCAGCTAACTCTAAGTCATGAGTAGGGTAATTCACCTCATGAGGCATAAGCTGACGAGACGCATA
AGCAACACTCACCTTACCCTCATGCACCAGCACACAACCCAAACCAACGA
Found at i:34113942 original size:17 final size:17
Alignment explanation
Indices: 34113920--34113955 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34113910 CCAGAGTCTA
* *
34113920 CCTACAGTTTCTGTTTT
1 CCTACAGTCTCAGTTTT
34113937 CCTACAGTCTCAGTTTT
1 CCTACAGTCTCAGTTTT
34113954 CC
1 CC
34113956 CTAATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.31, G:0.11, T:0.44
Consensus pattern (17 bp):
CCTACAGTCTCAGTTTT
Found at i:34114825 original size:28 final size:28
Alignment explanation
Indices: 34114771--34114827 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
34114761 AACAGTGTAA
* *
34114771 TGTGGGCCTTAGCCCATTTCAATAACAG
1 TGTGGGCCTTAGCCCAATACAATAACAG
34114799 TGTGGGCCTTAGCCCAATACAGA-AACAG
1 TGTGGGCCTTAGCCCAATACA-ATAACAG
34114827 T
1 T
34114828 ACAGTGCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAATAACAG
Found at i:34115189 original size:27 final size:27
Alignment explanation
Indices: 34115158--34115615 Score: 511
Period size: 27 Copynumber: 17.3 Consensus size: 27
34115148 GGTTATAACA
**
34115158 GTCATTTTACCCTAGGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * **
34115185 ATCATTTTACCCTTCAAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
** * *
34115212 GTCATTTTACATTTTGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
34115239 ATCATTTTACCTTTCGAAGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
34115266 GTTATTTTACCGTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
34115293 ATCATTTTACCCTTCGAGAGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
34115320 GTCATTTTATCCTTCGAGGGTATTTCT
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
34115347 GTCATTTTATCCTTCTAGGGTATTTCT
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
34115374 GTCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
34115401 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
34115428 ATCATTTTACCCTTCG-GGG------G
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
34115448 GTCATTTTATCCTTTGAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
34115475 GTCATTTTACCTTTCGAGGGCATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* **
34115502 GTCATTTTACCCTTCAAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
34115529 GTCATTTTACCCTTCG-GGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
34115555 GTCATTTTACCCTTTG-GGCGTATTTCG
1 GTCATTTTACCCTTCGAGG-GTATTTCG
34115582 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
34115609 GTTATTT
1 GTCATTT
34115616 GCCCATCAAT
Statistics
Matches: 363, Mismatches: 59, Indels: 18
0.82 0.13 0.04
Matches are distributed among these distances:
20 14 0.04
21 3 0.01
26 28 0.08
27 316 0.87
28 2 0.01
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:34115507 original size:74 final size:74
Alignment explanation
Indices: 34115374--34115597 Score: 245
Period size: 74 Copynumber: 2.9 Consensus size: 74
34115364 GGGTATTTCT
* *
34115374 GTCATTTTACCCTTCGAGGGTATTTTGGTTATTTTACCCTTCGAGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAGGGCATTTCGATCATTTTACC
34115439 CTTCGGGGG
66 CTTCGGGGG
* * * * *
34115448 GTCATTTTATCCTTTGAGGGTATTTTGGTCATTTTACCTTTCGAGGGCATTTTGGTCATTTTACC
1 GTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAGGGCATTTCGATCATTTTACC
**
34115513 CTTCAAGGGTATTTTA
66 CTTC--GGG-----GG
* * * *
34115529 GTCATTTTACCCTTCG-GGGTATTTCGGTCATTTTACCCTTTG-GGCGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAGG-GCATTTCGATCATTTTAC
34115592 CCTTCG
65 CCTTCG
34115598 AGGGTATTTC
Statistics
Matches: 126, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
74 62 0.49
76 3 0.02
78 1 0.01
79 2 0.02
80 44 0.35
81 14 0.11
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.44
Consensus pattern (74 bp):
GTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAGGGCATTTCGATCATTTTACC
CTTCGGGGG
Found at i:34115585 original size:80 final size:81
Alignment explanation
Indices: 34115448--34115606 Score: 225
Period size: 80 Copynumber: 2.0 Consensus size: 81
34115438 CCTTCGGGGG
* * * *
34115448 GTCATTTTATCCTTTGAGGGTATTTTGGTCATTTTACCTTTCGAGGGCATTTTGGTCATTTTACC
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCTTTCGAGGGCATTTCGGTCATTTTACC
34115513 CTTCAAGGGTATTTTA
66 CTTCAAGGGTATTTTA
*
34115529 GTCATTTTACCCTTCG-GGGTATTTCGGTCATTTTACCCTTT-G-GGCGTATTTCGGTCATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA-CCTTTCGAGG-GCATTTCGGTCATTTTA
*
34115591 CCCTTCGAGGGTATTT
64 CCCTTCAAGGGTATTT
34115607 CGGTTATTTG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
79 2 0.03
80 49 0.70
81 19 0.27
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.45
Consensus pattern (81 bp):
GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCTTTCGAGGGCATTTCGGTCATTTTACC
CTTCAAGGGTATTTTA
Found at i:34134244 original size:24 final size:24
Alignment explanation
Indices: 34134162--34134245 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
34134152 AGAAGGAAAC
34134162 CCTTGGAGGTGGTTTAGGTGGAGG
1 CCTTGGAGGTGGTTTAGGTGGAGG
* * * * *
34134186 CGTCGGAGGAGGGGTT-GGTGGTGG
1 CCTTGGAGG-TGGTTTAGGTGGAGG
*
34134210 CCAT-GATGGTGGTTTAGGTGGAGG
1 CCTTGGA-GGTGGTTTAGGTGGAGG
*
34134234 CTTTGGAGGTGG
1 CCTTGGAGGTGG
34134246 AAAAGGTGGT
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
23 6 0.14
24 31 0.72
25 6 0.14
ACGTcount: A:0.12, C:0.08, G:0.52, T:0.27
Consensus pattern (24 bp):
CCTTGGAGGTGGTTTAGGTGGAGG
Found at i:34134347 original size:36 final size:36
Alignment explanation
Indices: 34134307--34134805 Score: 241
Period size: 36 Copynumber: 13.7 Consensus size: 36
34134297 CGGCCTTGGA
34134307 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
**** *
34134343 GGTGGTGCTGGTGGAGGTATAGGAGGTGGAGCTGGT
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
* * * * *** *
34134379 GGTGG---TGCTGGAGGCGGT-GCTAATGGTGGTTTTGGA
1 GGTGGAAAAGGTGGAGGC-ATAG--GA-GGTGGAGCTGGT
*
34134415 GGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGT
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
* *
34134451 GGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGTCGGT
1 GGTGGAAAAGGTGGAGGCATA-G-G-AGGTGG-AG-CT-GGT
* ** * * * *** *
34134493 GGTGGCACTGGAGGCGGTGC-T-GGTGGTGGTTTTGGA
1 GGTGGAAAAGGTGG-AG-GCATAGGAGGTGGAGCTGGT
*
34134529 GGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGT
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
* *
34134565 GGTGGAAAAGGTGGAGGCATAGGA-GTAGGTGGTGGT
1 GGTGGAAAAGGTGGAGGCATAGGAGGT-GGAGCTGGT
* * * * *** *
34134601 GCTGG---AGGCGG-TGC-T-GGTGGTGGTTTTGGA
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
*
34134631 GGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGT
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
* * **
34134667 GGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGCA
1 GGTGGAAAAGGTGGAGGCATA-G-G-AGGTGGAGCTGGT
**** * * * * *** *
34134706 GGTGGTGGCGCTGGAGGCGGTGCTGGTGGTGGTTTTGGA
1 GGTGGAAAAGGTGGAGGC-AT--AGGAGGTGGAGCTGGT
*
34134745 GGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGT
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
34134781 GGTGGAAAAGGTGGAGGCATAGGAG
1 GGTGGAAAAGGTGGAGGCATAGGAG
34134806 CAGGTGGTGG
Statistics
Matches: 336, Mismatches: 95, Indels: 64
0.68 0.19 0.13
Matches are distributed among these distances:
30 12 0.04
31 3 0.01
32 2 0.01
33 19 0.06
34 3 0.01
35 6 0.02
36 197 0.59
37 4 0.01
38 4 0.01
39 62 0.18
40 4 0.01
41 3 0.01
42 13 0.04
43 2 0.01
44 2 0.01
ACGTcount: A:0.19, C:0.06, G:0.54, T:0.21
Consensus pattern (36 bp):
GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGT
Found at i:34134352 original size:12 final size:12
Alignment explanation
Indices: 34134331--34134399 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
34134321 AGGCATAGGA
*
34134331 GGTGGAGCTGGT
1 GGTGGTGCTGGT
34134343 GGTGGTGCTGGT
1 GGTGGTGCTGGT
* * *
34134355 GGAGGT-ATAGGA
1 GGTGGTGCT-GGT
*
34134367 GGTGGAGCTGGT
1 GGTGGTGCTGGT
*
34134379 GGTGGTGCTGGA
1 GGTGGTGCTGGT
*
34134391 GGCGGTGCT
1 GGTGGTGCT
34134400 AATGGTGGTT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
11 1 0.02
12 42 0.95
13 1 0.02
ACGTcount: A:0.10, C:0.09, G:0.57, T:0.25
Consensus pattern (12 bp):
GGTGGTGCTGGT
Found at i:34134371 original size:114 final size:112
Alignment explanation
Indices: 34134265--34134995 Score: 698
Period size: 114 Copynumber: 6.7 Consensus size: 112
34134255 TGGGGTAGGA
* ** *
34134265 GTTGGAGGTGGAGCCGGTGCAGGTGGTGGTGGCGGCCTTGGAGGTGGAAAAGGTGGAGGCATAGG
1 GTTGGTGGTGGAGCCGGTGC-GGTGGTGGTGG-GGTTTTGGAGGTGGAAAAGGTGGAGGGATAGG
**** * * *
34134330 AGGTGGAGCTGGTGGTGGTGCTGGTGGAGGTATAGGAGGTGGAGCTGGT
64 AGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGTGGTGGT
* * * **
34134379 GGTGGTGCTGGAGGCGGTGC--TAATGGT--GGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAG
1 GTTGGTGGTGGAGCCGGTGCGGTGGTGGTGGGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAG
**
34134440 GTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGT
66 GTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGTGGTGGT
* * * *
34134487 GTCGGTGGTGGCA-CTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAG
1 GTTGGTGGTGG-AGCCGG-TGCGGTGGTGGTGG-GGTTTTGGAGGTGGAAAAGGTGGAGGGATAG
*
34134551 GAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGA-GT--AGGT-G-
63 GAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGTGGTGGT
* *
34134596 G-TGGTGCTGGAGGCGGTGC--TGGTGGT--GGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAG
1 GTTGGTGGTGGAGCCGGTGCGGTGGTGGTGGGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAG
**
34134656 GTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGT
66 GTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGTGGTGGT
** * * * *
34134703 GCAGGTGGTGGCGCTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGG
1 GTTGGTGGTGGAGCCGG-TGCGGTGGTGGTGG-GGTTTTGGAGGTGGAAAAGGTGGAGGGATAGG
**
34134768 AGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGT
64 AGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGTGGTGGT
** * ** * *
34134817 GCCGGTGGTGGCGTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGG
1 GTTGGTGGTGGAGCCGG-TGCGGTGGTGGTGG-GGTTTTGGAGGTGGAAAAGGTGGAGGGATAGG
34134882 AGGT-G-G-T-GT--TGG---AGGTGGAGG--T-GG-GGTTGGTGGTGGT
64 AGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGG-TGGTGGTGGT
* * * ** *
34134919 GGTGGCGCTGGAGGGGGTGC--TGGTGGT--GGCTTTGGAGGTGGAAAAGGTGGAGGGATAGGAG
1 GTTGGTGGTGGAGCCGGTGCGGTGGTGGTGGGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAG
* *
34134980 GTGGTGCTGGCGGTGG
66 GTGGAGCTGGTGGTGG
34134996 TTTTGGAGGT
Statistics
Matches: 530, Mismatches: 60, Indels: 66
0.81 0.09 0.10
Matches are distributed among these distances:
96 35 0.07
97 1 0.00
98 1 0.00
99 7 0.01
100 1 0.00
101 3 0.01
102 93 0.18
103 1 0.00
105 18 0.03
106 1 0.00
107 4 0.01
108 101 0.19
109 6 0.01
110 3 0.01
111 20 0.04
112 1 0.00
113 1 0.00
114 233 0.44
ACGTcount: A:0.17, C:0.07, G:0.55, T:0.22
Consensus pattern (112 bp):
GTTGGTGGTGGAGCCGGTGCGGTGGTGGTGGGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAG
GTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGTGGTGGT
Found at i:34134376 original size:24 final size:24
Alignment explanation
Indices: 34134343--34134452 Score: 78
Period size: 24 Copynumber: 4.6 Consensus size: 24
34134333 TGGAGCTGGT
*
34134343 GGTGGTGCTGGTGGAGGTATAGGA
1 GGTGGAGCTGGTGGAGGTATAGGA
* *
34134367 GGTGGAGCTGGTGGTGGTGCT-GGA
1 GGTGGAGCTGGTGGAGGT-ATAGGA
* * ** * * *
34134391 GGCGGTGCTAATGGTGGTTTTGGA
1 GGTGGAGCTGGTGGAGGTATAGGA
*** *
34134415 GGTGGAAAAGGTGGAGGGATAGGA
1 GGTGGAGCTGGTGGAGGTATAGGA
34134439 GGTGGAGCTGGTGG
1 GGTGGAGCTGGTGG
34134453 TGGAAAAGGT
Statistics
Matches: 62, Mismatches: 22, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
23 1 0.02
24 60 0.97
25 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.55, T:0.24
Consensus pattern (24 bp):
GGTGGAGCTGGTGGAGGTATAGGA
Found at i:34134653 original size:216 final size:218
Alignment explanation
Indices: 34134302--34134995 Score: 971
Period size: 216 Copynumber: 3.2 Consensus size: 218
34134292 GGTGGCGGCC
* **** *
34134302 TTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGGTGGTGCTGGTGGAGGTATAGGA
1 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGA
**
34134367 GGTGGAGCTGGTGGTGGTGCTGGAGGCGGTGCTAATGGTGGTTTTGGAGGTGGAAAAGGTGGAGG
66 GGT-GA---GGTGGTGGTGCTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGG
34134432 GATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGTCGGTGGTG
127 GATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGTCGGTGGTG
*
34134497 GCACTGGAGGCGGTGCTGGTGGTGGTT
192 GCGCTGGAGGCGGTGCTGGTGGTGGTT
34134524 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGA
1 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGA
34134589 -GT-AGGTGGTGGTGCTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATA
66 GGTGAGGTGGTGGTGCTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATA
34134652 GGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTG-CAGGTGGTGGCG
131 GGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGTC-GGTGGTGGCG
34134716 CTGGAGGCGGTGCTGGTGGTGGTT
195 CTGGAGGCGGTGCTGGTGGTGGTT
34134740 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGA
1 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATA-G-
*
34134805 GCAGGTGGTGGTGCCGGTGGTGGCGTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGG
64 G-AGGT-GAGGT---GGTGGT-GC--TGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGG
*
34134870 TGGAGGGATAGGAGGT-G-G-T-GT--TGG---AGGTGGAGG--T-GG-G--GTTGGT-G-GT-G
121 TGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGTCG
* *
34134917 GTGGTGGCGCTGGAGGGGGTGCTGGTGGTGGCT
186 GTGGTGGCGCTGGAGGCGGTGCTGGTGGTGGTT
* *
34134950 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGTGCTGGCGGTGG
1 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGTGGTGG
34134996 TTTTGGAGGT
Statistics
Matches: 443, Mismatches: 15, Indels: 40
0.89 0.03 0.08
Matches are distributed among these distances:
210 76 0.17
211 1 0.00
212 1 0.00
213 5 0.01
215 2 0.00
216 207 0.47
217 2 0.00
218 1 0.00
219 11 0.02
220 2 0.00
221 2 0.00
222 65 0.15
224 2 0.00
225 7 0.02
226 3 0.01
227 1 0.00
228 55 0.12
ACGTcount: A:0.17, C:0.06, G:0.55, T:0.22
Consensus pattern (218 bp):
TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGA
GGTGAGGTGGTGGTGCTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATA
GGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGTCGGTGGTGGCGC
TGGAGGCGGTGCTGGTGGTGGTT
Found at i:34134708 original size:12 final size:12
Alignment explanation
Indices: 34134691--34134738 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
34134681 AGGCATAGGA
34134691 GCAGGTGGTGGT
1 GCAGGTGGTGGT
*
34134703 GCAGGTGGTGGC
1 GCAGGTGGTGGT
* * *
34134715 GCTGGAGGCGGT
1 GCAGGTGGTGGT
*
34134727 GCTGGTGGTGGT
1 GCAGGTGGTGGT
34134739 TTTGGAGGTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.06, C:0.12, G:0.58, T:0.23
Consensus pattern (12 bp):
GCAGGTGGTGGT
Found at i:34134847 original size:24 final size:24
Alignment explanation
Indices: 34134811--34134959 Score: 104
Period size: 24 Copynumber: 6.2 Consensus size: 24
34134801 AGGAGCAGGT
*
34134811 GGTGGTGCCGGTGGTGGCGTTGGA
1 GGTGGTGCTGGTGGTGGCGTTGGA
* **
34134835 GGCGGTGCTGGTGGTGGTTTTGGA
1 GGTGGTGCTGGTGGTGGCGTTGGA
**** * *
34134859 GGTGGAAAAGGTGGAGG-GATAGGA
1 GGTGGTGCTGGTGGTGGCG-TTGGA
* * * *
34134883 GGTGGTGTTGGAGGTGGAGGTGG-
1 GGTGGTGCTGGTGGTGGCGTTGGA
* *
34134906 GGTTGGTGGTGGTGGTGGCGCTGGA
1 GG-TGGTGCTGGTGGTGGCGTTGGA
* *
34134931 GGGGGTGCTGGTGGTGGCTTTGGA
1 GGTGGTGCTGGTGGTGGCGTTGGA
34134955 GGTGG
1 GGTGG
34134960 AAAAGGTGGA
Statistics
Matches: 92, Mismatches: 29, Indels: 8
0.71 0.22 0.06
Matches are distributed among these distances:
23 2 0.02
24 87 0.95
25 3 0.03
ACGTcount: A:0.09, C:0.06, G:0.59, T:0.26
Consensus pattern (24 bp):
GGTGGTGCTGGTGGTGGCGTTGGA
Found at i:34134884 original size:48 final size:48
Alignment explanation
Indices: 34134832--34135043 Score: 212
Period size: 48 Copynumber: 4.4 Consensus size: 48
34134822 TGGTGGCGTT
*
34134832 GGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATA
1 GGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATA
* * *** **** * *
34134880 GGAGGTGGTGTTGGAGGTGGAGGTGG-GGTTGGTGGTGGTGGTGGCGCT-
1 GGAGGTGGTGCTGGTGGTGGTTTTGGAGG-TGGAAAAGGTGGAGG-GATA
* *
34134928 GGAGGGGGTGCTGGTGGTGGCTTTGGAGGTGGAAAAGGTGGAGGGATA
1 GGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATA
* * * *
34134976 GGAGGTGGTGCTGGCGGTGGTTTTGGAGGTGGACAAGGCGGAGGTATA
1 GGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATA
* *
34135024 GGAGGTGGAGTTGGTGGTGG
1 GGAGGTGGTGCTGGTGGTGG
34135044 AGGAGGTGCT
Statistics
Matches: 127, Mismatches: 33, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
47 4 0.03
48 119 0.94
49 4 0.03
ACGTcount: A:0.15, C:0.05, G:0.57, T:0.24
Consensus pattern (48 bp):
GGAGGTGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATA
Found at i:34134887 original size:36 final size:36
Alignment explanation
Indices: 34134403--34134995 Score: 247
Period size: 36 Copynumber: 16.5 Consensus size: 36
34134393 CGGTGCTAAT
*
34134403 GGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * * *
34134439 GGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATA-G-G-A
* * ** * * * *
34134478 GGTGGTGGTGTCGGTGGTGGCACTGGAGGCGGTGCT-GGT
1 GGTGGT-GT-T-GGAGGTGGAAAAGGTGGAGG-GATAGGA
*
34134517 GGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * * *
34134553 GGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * * * * * *
34134589 -GTAGGTGGTGGTGCTGG---AGG-CG-GTGCT-GGT
1 GGT-GGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
*
34134619 GGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * * *
34134655 GGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATA-G-G-A
* * **** * * * *
34134694 GGTGGTGGTGCAGGTGGTGGCGCTGGAGGCGGTGCTGGT
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGG-GAT--AGGA
*
34134733 GGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * * *
34134769 GGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATA-G-G-A
* ** **** * * * *
34134808 GGTGGTGGTGCCGGTGGTGGCGTTGGAGGCGGTGCTGGT
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGG-GAT--AGGA
*
34134847 GGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* *
34134883 GGTGGTGTTGGAGGTGG---AGGT-G-GGG-TTGGT
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * * * * *
34134913 GGTGGTGGTGGCGCTGG---AGG-GG-GTGCT-GGT
1 GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
34134943 GGTGGCT-TTGGAGGTGGAAAAGGTGGAGGGATAGGA
1 GGTGG-TGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* *
34134979 GGTGGTGCTGGCGGTGG
1 GGTGGTGTTGGAGGTGG
34134996 TTTTGGAGGT
Statistics
Matches: 400, Mismatches: 119, Indels: 76
0.67 0.20 0.13
Matches are distributed among these distances:
30 50 0.12
31 9 0.02
32 2 0.00
33 13 0.03
34 3 0.01
35 11 0.03
36 179 0.45
37 4 0.01
38 8 0.02
39 95 0.24
40 6 0.01
41 4 0.01
42 15 0.04
43 1 0.00
ACGTcount: A:0.17, C:0.06, G:0.55, T:0.22
Consensus pattern (36 bp):
GGTGGTGTTGGAGGTGGAAAAGGTGGAGGGATAGGA
Found at i:34134901 original size:18 final size:18
Alignment explanation
Indices: 34134880--34134923 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34134870 TGGAGGGATA
*
34134880 GGAGGTGGTGTTGGAGGT
1 GGAGGTGGGGTTGGAGGT
*
34134898 GGAGGTGGGGTTGGTGGT
1 GGAGGTGGGGTTGGAGGT
*
34134916 GGTGGTGG
1 GGAGGTGG
34134924 CGCTGGAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.00, G:0.66, T:0.27
Consensus pattern (18 bp):
GGAGGTGGGGTTGGAGGT
Found at i:34134919 original size:30 final size:30
Alignment explanation
Indices: 34134883--34134960 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
34134873 AGGGATAGGA
*
34134883 GGTGGTGTTGGAGGTGGAGGTGGG-GTTGGT
1 GGTGGTGTTGGAGGTGGAGG-GGGTGCTGGT
* * *
34134913 GGTGGTGGTGGCGCTGGAGGGGGTGCTGGT
1 GGTGGTGTTGGAGGTGGAGGGGGTGCTGGT
34134943 GGTGGCT-TTGGAGGTGGA
1 GGTGG-TGTTGGAGGTGGA
34134961 AAAGGTGGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 3 0.08
30 35 0.90
31 1 0.03
ACGTcount: A:0.06, C:0.05, G:0.62, T:0.27
Consensus pattern (30 bp):
GGTGGTGTTGGAGGTGGAGGGGGTGCTGGT
Found at i:34135028 original size:96 final size:96
Alignment explanation
Indices: 34134826--34135019 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 96
34134816 TGCCGGTGGT
* * *
34134826 GGCGTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGTGT
1 GGCGATGGAGGCGGTGCTGGTGGTGGCTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGTGC
**** * *
34134891 TGGAGGTGGAGGTGGGGTTGGTGGTGGTGGT
66 TGGAGGTGGAGGTGGGGTTGGACAAGGCGGA
* *
34134922 GGCGCTGGAGGGGGTGCTGGTGGTGGCTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGTGC
1 GGCGATGGAGGCGGTGCTGGTGGTGGCTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGTGC
* ***
34134987 TGGCGGTGGTTTTGGAGG-TGGACAAGGCGGA
66 TGGAGGTGGAGGTGG-GGTTGGACAAGGCGGA
34135018 GG
1 GG
34135020 TATAGGAGGT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 81 0.98
97 2 0.02
ACGTcount: A:0.14, C:0.06, G:0.57, T:0.23
Consensus pattern (96 bp):
GGCGATGGAGGCGGTGCTGGTGGTGGCTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGTGC
TGGAGGTGGAGGTGGGGTTGGACAAGGCGGA
Found at i:34135048 original size:15 final size:15
Alignment explanation
Indices: 34135038--34135092 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
34135028 GTGGAGTTGG
34135038 TGGTGGAGGAGGTGC
1 TGGTGGAGGAGGTGC
* *
34135053 TGGTGGTGGCGGTGGC
1 TGGTGGAGGAGGT-GC
* *
34135069 T-TTGGAGGTGGTGC
1 TGGTGGAGGAGGTGC
34135083 TGGTGGAGGA
1 TGGTGGAGGA
34135093 ATTGGAGGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
14 3 0.10
15 25 0.81
16 3 0.10
ACGTcount: A:0.09, C:0.07, G:0.58, T:0.25
Consensus pattern (15 bp):
TGGTGGAGGAGGTGC
Found at i:34135061 original size:30 final size:30
Alignment explanation
Indices: 34135027--34135097 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
34135017 AGGTATAGGA
34135027 GGTGGAGTTGG-TGGTGGAGGAGGTGCTGGT
1 GGTGGAGTTGGCT-GTGGAGGAGGTGCTGGT
* * * *
34135057 GGTGGCGGTGGCTTTGGAGGTGGTGCTGGT
1 GGTGGAGTTGGCTGTGGAGGAGGTGCTGGT
* *
34135087 GGAGGAATTGG
1 GGTGGAGTTGG
34135098 AGGAGGATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.10, C:0.06, G:0.58, T:0.27
Consensus pattern (30 bp):
GGTGGAGTTGGCTGTGGAGGAGGTGCTGGT
Found at i:34138253 original size:14 final size:13
Alignment explanation
Indices: 34138220--34138260 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
34138210 GTTACATATA
34138220 ATTATAATTATTT
1 ATTATAATTATTT
34138233 ATTATAATTATGTT
1 ATTATAATTAT-TT
* *
34138247 TTTATAATTGTTT
1 ATTATAATTATTT
34138260 A
1 A
34138261 GGTAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (13 bp):
ATTATAATTATTT
Found at i:34140529 original size:24 final size:24
Alignment explanation
Indices: 34140464--34140530 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
34140454 TTATAAGTTG
*
34140464 AAATAATATT-GATGATAAATCTAA
1 AAATAATATTAGAT-TTAAATCTAA
* *
34140488 AAATAATATTAAACTTAAA-CATAA
1 AAATAATATTAGATTTAAATC-TAA
34140512 AAATAATATTAGATTTAAA
1 AAATAATATTAGATTTAAA
34140531 ATTAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 1 0.03
24 34 0.94
25 1 0.03
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAATATTAGATTTAAATCTAA
Found at i:34142281 original size:44 final size:44
Alignment explanation
Indices: 34142186--34142562 Score: 246
Period size: 44 Copynumber: 8.5 Consensus size: 44
34142176 TCTGTTTTAT
* * * *
34142186 TGCAACTTTAGGGAAATAAGATTTGTTATCTTCAGTCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTGCTCCAC
* * *
34142231 TCCAACTTCAGGGAGATAAGACTTG-TAACTTCAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTGCTCCAC
* * * ** * *
34142275 TACAACTTTAGGGAGATAGGATTAG-TGGCTTTAACCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATT-GCTATCTTCAATCTGCTCCAC
* * * * * *
34142319 TGCAACTTTAGGGAGATACGATTCGCCATCTTTAGTCTGCCCCAC
1 TGCAACTTCAGGGAGATAAGATT-GCTATCTTCAATCTGCTCCAC
** * * *
34142364 TGCAACTTCAGGG-GATAAGACTTG-TGGCCTCAATCTACCCCAC
1 TGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTGCTCCAC
* * *
34142407 TACAACTTCAAGGG-GATAATATTGATATCTTCAA-CTTGCTCCAC
1 TGCAACTTC-AGGGAGATAAGATTGCTATCTTCAATC-TGCTCCAC
* * * * *
34142451 TGCAACTTCAGGGAGATAAGGTACGCTAACTTCAGTCTACTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TGCTATCTTCAATCTGCTCCAC
* * *** * *
34142496 TGCAGCTTCAGGGAGATAGGATCATTGA-CTTTAATCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGATTGCT-ATCTTCAATCTGCTCCAC
**
34142540 TGCAACTTCAATGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
34142563 TGCCATGATC
Statistics
Matches: 260, Mismatches: 62, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
43 30 0.12
44 146 0.56
45 83 0.32
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTGCTATCTTCAATCTGCTCCAC
Found at i:34142454 original size:132 final size:133
Alignment explanation
Indices: 34142186--34142513 Score: 374
Period size: 132 Copynumber: 2.5 Consensus size: 133
34142176 TCTGTTTTAT
* * * *
34142186 TGCAACTTTAGGGAAATAAGATTTGTTATCTTCAGTCTGCTCCACTCCAACTTCAGGGAGATAAG
1 TGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * * *
34142251 ACTTGTAACTTCAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAGTGGCTTTAACCTGCTC
66 ACTTGTAACCTCAATCCACCCCACTACAACTTAAGGGAGATAAGATTAGTAGCTTCAACCTGCTC
34142316 CAC
131 CAC
* * * *
34142319 TGCAACTTTAGGGAGATACGATTCGCCATCTTTAGTCTGCCCCACTGCAACTTCAGGG-GATAAG
1 TGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
** * * * *
34142383 ACTTGTGGCCTCAATCTACCCCACTACAACTTCAAGGG-GATAATATT-GATATCTTCAACTTGC
66 ACTTGTAACCTCAATCCACCCCACTACAACTT-AAGGGAGATAAGATTAG-TAGCTTCAACCTGC
34142446 TCCAC
129 TCCAC
* * * * * *
34142451 TGCAACTTCAGGGAGATAAGGTACGCTAACTTCAGTCTACTCCACTGCAGCTTCAGGGAGATA
1 TGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
34142514 GGATCATTGA
Statistics
Matches: 161, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
131 1 0.01
132 102 0.63
133 58 0.36
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (133 bp):
TGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
ACTTGTAACCTCAATCCACCCCACTACAACTTAAGGGAGATAAGATTAGTAGCTTCAACCTGCTC
CAC
Found at i:34145230 original size:15 final size:15
Alignment explanation
Indices: 34145210--34145239 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34145200 TATAAATTTA
34145210 TTATTATTAATAAAT
1 TTATTATTAATAAAT
*
34145225 TTATTATTATTAAAT
1 TTATTATTAATAAAT
34145240 CATTTAATTT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATTAATAAAT
Found at i:34145245 original size:18 final size:18
Alignment explanation
Indices: 34145196--34145237 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
34145186 GATTAGCTAA
34145196 ATTATATAAATTTATTATT
1 ATTA-ATAAATTTATTATT
34145215 ATTAATAAATTTATTATT
1 ATTAATAAATTTATTATT
34145233 ATTAA
1 ATTAA
34145238 ATCATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTAATAAATTTATTATT
Found at i:34148132 original size:11 final size:11
Alignment explanation
Indices: 34148114--34148149 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
34148104 CCTTGGCCTC
34148114 TCCTTTTTCTTT
1 TCCTTTTT-TTT
34148126 TCCTTTTTTTT
1 TCCTTTTTTTT
*
34148137 TTCTTTTTTTT
1 TCCTTTTTTTT
34148148 TC
1 TC
34148150 ATCATTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TCCTTTTTTTT
Found at i:34153319 original size:122 final size:123
Alignment explanation
Indices: 34153178--34153423 Score: 458
Period size: 122 Copynumber: 2.0 Consensus size: 123
34153168 ATGCGAGTTT
34153178 GAAATAGATCAAAAATGAAGATAAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTA
1 GAAATAGATC-AAAATGAAGATAAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTA
*
34153243 AAGTAAATATTGTATATAAAAAAACAATATGTAACATACAAAATAATAATATATTATAA
65 AAGTAAATATTGTATATAAAAAAACAAAATGTAACATACAAAATAATAATATATTATAA
34153302 GAAATAGATC-AAATGAAGATAAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTAA
1 GAAATAGATCAAAATGAAGATAAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTAA
*
34153366 AGTAAATATTGTATATAAAAAAACAAAATGTGACATACAAAATAATAATATATTATAA
66 AGTAAATATTGTATATAAAAAAACAAAATGTAACATACAAAATAATAATATATTATAA
34153424 ATTGAAATAA
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
122 110 0.92
124 10 0.08
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.29
Consensus pattern (123 bp):
GAAATAGATCAAAATGAAGATAAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTAA
AGTAAATATTGTATATAAAAAAACAAAATGTAACATACAAAATAATAATATATTATAA
Found at i:34153390 original size:63 final size:63
Alignment explanation
Indices: 34153200--34153392 Score: 194
Period size: 63 Copynumber: 3.1 Consensus size: 63
34153190 AAATGAAGAT
34153200 AAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTAAAGTAAATATTGTATATAAA
1 AAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTAAAGTAAATATTGTATATAAA
* * * *
34153263 AAAAC--A-A-TATGT-AACAT-ACAAAAT-AATAAT--ATATTATAAG-AAATA--GATCAAAT
1 AAAACAAATATTATGTGAA-ATGATAATATCAA-AATGAATTTTA-AAGTAAATATTG-T-ATAT
34153316 GAAGA
61 -AA-A
34153321 TAAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTAAAGTAAATATTGTATATAAA
1 -AAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTAAAGTAAATATTGTATATAAA
34153385 AAAACAAA
1 AAAACAAA
34153393 ATGTGACATA
Statistics
Matches: 102, Mismatches: 8, Indels: 40
0.68 0.05 0.27
Matches are distributed among these distances:
54 1 0.01
55 1 0.01
56 13 0.13
57 7 0.07
58 11 0.11
59 12 0.12
60 1 0.01
61 2 0.02
62 1 0.01
63 20 0.20
64 11 0.11
65 7 0.07
66 13 0.13
67 1 0.01
68 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (63 bp):
AAAACAAATATTATGTGAAATGATAATATCAAAATGAATTTTAAAGTAAATATTGTATATAAA
Found at i:34153493 original size:24 final size:24
Alignment explanation
Indices: 34153428--34153494 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
34153418 TTATAAATTG
*
34153428 AAATAATATT-GATGATAAATCTAA
1 AAATAATATTAGAT-TTAAATCTAA
* *
34153452 AAATAATATTAAACTTAAA-CATAA
1 AAATAATATTAGATTTAAATC-TAA
34153476 AAATAATATTAGATTTAAA
1 AAATAATATTAGATTTAAA
34153495 ATTAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 1 0.03
24 34 0.94
25 1 0.03
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAATATTAGATTTAAATCTAA
Found at i:34153500 original size:24 final size:23
Alignment explanation
Indices: 34153404--34153500 Score: 74
Period size: 24 Copynumber: 4.1 Consensus size: 23
34153394 TGTGACATAC
* *
34153404 AAAATAATAATATATTATAAATT-
1 AAAATAATATTAGATTA-AAATTA
* *
34153427 GAAATAATATT-GATGATAAATCTA
1 AAAATAATATTAGATTA-AAAT-TA
*
34153451 AAAATAATATTAAACTTAAACA-TA
1 AAAATAATATTAGA-TTAAA-ATTA
34153475 AAAATAATATTAGATTTAAAATTA
1 AAAATAATATTAGA-TTAAAATTA
34153499 AA
1 AA
34153501 TAAAAATAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
22 8 0.14
23 11 0.19
24 34 0.58
25 3 0.05
26 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (23 bp):
AAAATAATATTAGATTAAAATTA
Found at i:34154917 original size:8 final size:8
Alignment explanation
Indices: 34154893--34154924 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
34154883 TCAATTTTGG
34154893 ATTTCAAA
1 ATTTCAAA
34154901 A-TT-AAA
1 ATTTCAAA
34154907 ATTTCAAA
1 ATTTCAAA
34154915 ATTTCAAA
1 ATTTCAAA
34154923 AT
1 AT
34154925 CCAAGATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 4 0.18
7 4 0.18
8 14 0.64
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTTCAAA
Found at i:34156522 original size:8 final size:8
Alignment explanation
Indices: 34156498--34156529 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
34156488 TCAATTTTGG
34156498 ATTTCAAA
1 ATTTCAAA
34156506 A-TT-AAA
1 ATTTCAAA
34156512 ATTTCAAA
1 ATTTCAAA
34156520 ATTTCAAA
1 ATTTCAAA
34156528 AT
1 AT
34156530 CCAAGATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 4 0.18
7 4 0.18
8 14 0.64
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTTCAAA
Found at i:34157444 original size:7 final size:7
Alignment explanation
Indices: 34157434--34157471 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
34157424 AATAAATTCA
34157434 TAAATTT
1 TAAATTT
34157441 TAAATTT
1 TAAATTT
34157448 TAAATTT
1 TAAATTT
34157455 TAAA-TT
1 TAAATTT
*
34157461 AAAATTT
1 TAAATTT
34157468 TAAA
1 TAAA
34157472 ATGTAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TAAATTT
Found at i:34157453 original size:14 final size:13
Alignment explanation
Indices: 34157434--34157471 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
34157424 AATAAATTCA
34157434 TAAATTTTAAATTT
1 TAAATTTTAAA-TT
34157448 TAAATTTTAAATT
1 TAAATTTTAAATT
*
34157461 AAAATTTTAAA
1 TAAATTTTAAA
34157472 ATGTAAATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATTTTAAATT
Found at i:34157467 original size:13 final size:14
Alignment explanation
Indices: 34157412--34157471 Score: 59
Period size: 15 Copynumber: 4.2 Consensus size: 14
34157402 AATTCTCAAA
**
34157412 AAATTTAAAAATAAT
1 AAATTT-AAAATTTT
*
34157427 AAATTCATAAATTTT
1 AAATTTA-AAATTTT
*
34157442 AAATTTTAAATTTT
1 AAATTTAAAATTTT
34157456 AAA-TTAAAATTTT
1 AAATTTAAAATTTT
34157469 AAA
1 AAA
34157472 ATGTAAATCC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
13 12 0.32
14 11 0.29
15 15 0.39
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTTAAAATTTT
Found at i:34157473 original size:14 final size:14
Alignment explanation
Indices: 34157435--34157478 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
34157425 ATAAATTCAT
* *
34157435 AAATTTTAAATTTT
1 AAATTTTAAAATTA
34157449 AAATTTT-AAATTA
1 AAATTTTAAAATTA
34157462 AAATTTTAAAATGTA
1 AAATTTTAAAAT-TA
34157477 AA
1 AA
34157479 TCCAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 11 0.42
14 11 0.42
15 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AAATTTTAAAATTA
Found at i:34157478 original size:20 final size:20
Alignment explanation
Indices: 34157442--34157489 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34157432 CATAAATTTT
* * *
34157442 AAATTTTAAATTTTAAATTA
1 AAATTTTAAAATGTAAATCA
*
34157462 AAATTTTAAAATGTAAATCC
1 AAATTTTAAAATGTAAATCA
34157482 AAATTTTA
1 AAATTTTA
34157490 GTTACGAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATTTTAAAATGTAAATCA
Found at i:34158648 original size:27 final size:28
Alignment explanation
Indices: 34158605--34158664 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
34158595 TAGTTTACCC
* * *
34158605 TTATTTTAAATATTTTAATAATTAAATT
1 TTATTTAAAATATTTTAAAAACTAAATT
34158633 TTATTTAAAATA-TTTAAAAACTAAATT
1 TTATTTAAAATATTTTAAAAACTAAATT
34158660 TTATT
1 TTATT
34158665 AATTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATTTAAAATATTTTAAAAACTAAATT
Found at i:34162139 original size:24 final size:24
Alignment explanation
Indices: 34162109--34162177 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
34162099 CAAGTGAAAA
34162109 AATAATAATATAGT-ATAACTTTTA-
1 AATAATAATATA-TAATAA-TTTTAG
* *
34162133 AGTAATAATACATAATAATTTTAG
1 AATAATAATATATAATAATTTTAG
* *
34162157 AATAATAATATACAATGATTT
1 AATAATAATATATAATAATTT
34162178 CGAAAATATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 6 0.16
24 31 0.84
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (24 bp):
AATAATAATATATAATAATTTTAG
Found at i:34162301 original size:9 final size:9
Alignment explanation
Indices: 34162263--34162304 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
34162253 AACTTAAAAT
34162263 ATAGTACATA
1 ATAGTA-ATA
34162273 A-A-TAATA
1 ATAGTAATA
*
34162280 ATAATAATA
1 ATAGTAATA
34162289 ATAGTAATA
1 ATAGTAATA
34162298 ATAGTAA
1 ATAGTAA
34162305 AAGGTTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 4 0.14
8 3 0.10
9 21 0.72
10 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (9 bp):
ATAGTAATA
Found at i:34162813 original size:13 final size:12
Alignment explanation
Indices: 34162792--34162840 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
34162782 CATTTTTTTC
*
34162792 AAAACGAAAAGAA
1 AAAAAGAAAA-AA
34162805 AAAAAGAAAAAA
1 AAAAAGAAAAAA
*
34162817 ATAAAAGAAAAAT
1 A-AAAAGAAAAAA
34162830 AAAAAGAAAAA
1 AAAAAGAAAAA
34162841 TAGAGAGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 13 0.39
13 20 0.61
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:34162834 original size:12 final size:12
Alignment explanation
Indices: 34162798--34162842 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
34162788 TTTCAAAACG
34162798 AAAAGAAAAA-A
1 AAAAGAAAAATA
*
34162809 AGAA-AAAAAT-
1 AAAAGAAAAATA
34162819 AAAAGAAAAATA
1 AAAAGAAAAATA
34162831 AAAAGAAAAATA
1 AAAAGAAAAATA
34162843 GAGAGCCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 8 0.28
11 9 0.31
12 12 0.41
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (12 bp):
AAAAGAAAAATA
Found at i:34168586 original size:15 final size:17
Alignment explanation
Indices: 34168568--34168613 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
34168558 AACTTCCTTA
34168568 ACTAACTAACTG-CTT-
1 ACTAACTAACTGACTTG
34168583 ACTAACT-ACTGACTTG
1 ACTAACTAACTGACTTG
*
34168599 AC-AACTAACTAACTT
1 ACTAACTAACTGACTT
34168614 CCTTATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (17 bp):
ACTAACTAACTGACTTG
Found at i:34169609 original size:9 final size:9
Alignment explanation
Indices: 34169573--34169619 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
34169563 TAGATTTTAT
34169573 TTTTTATTA
1 TTTTTATTA
*
34169582 TTTGT-TT-
1 TTTTTATTA
*
34169589 TGTTTA-TA
1 TTTTTATTA
34169597 TTTTTATTA
1 TTTTTATTA
34169606 TTTTTATTA
1 TTTTTATTA
34169615 TTTTT
1 TTTTT
34169620 GTGAGATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
7 4 0.13
8 7 0.23
9 20 0.65
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTA
Found at i:34174443 original size:8 final size:8
Alignment explanation
Indices: 34174430--34174456 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
34174420 GATTCTTTGT
34174430 TTTTCGGG
1 TTTTCGGG
34174438 TTTTCGGG
1 TTTTCGGG
34174446 TTTTCGGG
1 TTTTCGGG
34174454 TTT
1 TTT
34174457 AGTTTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.33, T:0.56
Consensus pattern (8 bp):
TTTTCGGG
Found at i:34176831 original size:12 final size:12
Alignment explanation
Indices: 34176816--34176890 Score: 78
Period size: 12 Copynumber: 6.2 Consensus size: 12
34176806 TATTGGTGGA
34176816 GGTGTTGGAGGT
1 GGTGTTGGAGGT
*
34176828 GGTGTTGGTGGT
1 GGTGTTGGAGGT
* * **
34176840 GGTATAGGAATT
1 GGTGTTGGAGGT
**
34176852 GGAATTGGAGGT
1 GGTGTTGGAGGT
34176864 GGTGTTGGAGGT
1 GGTGTTGGAGGT
*
34176876 GGTGTTGGTGGT
1 GGTGTTGGAGGT
34176888 GGT
1 GGT
34176891 ATAGGAATTG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 50 1.00
ACGTcount: A:0.12, C:0.00, G:0.53, T:0.35
Consensus pattern (12 bp):
GGTGTTGGAGGT
Found at i:34176878 original size:48 final size:48
Alignment explanation
Indices: 34176802--34176913 Score: 197
Period size: 48 Copynumber: 2.3 Consensus size: 48
34176792 ACCCTGGGAG
* * *
34176802 TTGGTATTGGTGGAGGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAA
1 TTGGAATTGGAGGTGGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAA
34176850 TTGGAATTGGAGGTGGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAA
1 TTGGAATTGGAGGTGGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAA
34176898 TTGGAATTGGAGGTGG
1 TTGGAATTGGAGGTGG
34176914 AGGTATAGGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (48 bp):
TTGGAATTGGAGGTGGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAA
Found at i:34176936 original size:27 final size:27
Alignment explanation
Indices: 34176882--34176936 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
34176872 AGGTGGTGTT
* **
34176882 GGTGGTGGTATAGGAATTGGAATTGGA
1 GGTGGAGGTATAGGAATTGGAAGCGGA
* *
34176909 GGTGGAGGTATAGGAGTTGGAGGCGGA
1 GGTGGAGGTATAGGAATTGGAAGCGGA
34176936 G
1 G
34176937 CTGGCGGTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.51, T:0.24
Consensus pattern (27 bp):
GGTGGAGGTATAGGAATTGGAAGCGGA
Found at i:34176954 original size:42 final size:42
Alignment explanation
Indices: 34176908--34177020 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
34176898 TTGGAATTGG
*
34176908 AGGTGGAGGTATAGGAGTTGGAGGCGGAGCTGGCGGTGGAAT
1 AGGTGGAGGTATAGGAGTTGGAGGCGGAGCTGGCGGTGGAAA
*
34176950 AGGTGGAGGCATAGGAGTTGGAGGCGGAGCTGGCGGTGGAAA
1 AGGTGGAGGTATAGGAGTTGGAGGCGGAGCTGGCGGTGGAAA
* ** **
34176992 AAGTGGAGGTCGAGGACATGGAGGCGGAG
1 AGGTGGAGGTATAGGAGTTGGAGGCGGAG
34177021 GTGGAGGAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.24, C:0.09, G:0.52, T:0.15
Consensus pattern (42 bp):
AGGTGGAGGTATAGGAGTTGGAGGCGGAGCTGGCGGTGGAAA
Found at i:34189065 original size:13 final size:14
Alignment explanation
Indices: 34189034--34189066 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34189024 AATAATTTGA
34189034 AAATATTTTATAATC
1 AAAT-TTTTATAATC
34189049 AAATTTTTATAAT-
1 AAATTTTTATAATC
34189062 AAATT
1 AAATT
34189067 AAATAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 9 0.50
15 4 0.22
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTTTATAATC
Found at i:34199038 original size:1 final size:1
Alignment explanation
Indices: 34199027--34199059 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
34199017 TCAACTTTGC
*
34199027 TTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
34199060 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Done.