Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 364 of 438
Found at i:113673496 original size:30 final size:29
Alignment explanation
Indices: 113673457--113673527 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
113673447 TTCCTTATAA
*
113673457 TCATATTAGTCCAT-ATATTTCATT-TATTTT
1 TCATTTTAGTCCATCA-ATTT-ATTAT-TTTT
*
113673487 TCATTTTAGTCCCTCAATTTATTATTTTT
1 TCATTTTAGTCCATCAATTTATTATTTTT
*
113673516 TCAATTTAGTCC
1 TCATTTTAGTCC
113673528 TAATTACTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 18 0.50
30 17 0.47
31 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.04, T:0.55
Consensus pattern (29 bp):
TCATTTTAGTCCATCAATTTATTATTTTT
Found at i:113675175 original size:47 final size:47
Alignment explanation
Indices: 113675068--113675188 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
113675058 AATTGATAAG
* ** * * *
113675068 TACCTATACCATGGTTCGTAGCAAAATCAAGGTAACTTATCCTGTAG
1 TACCTATAACATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGAAA
113675115 TACCTATAACATGGCCCGTAGCCAAATCAAGGTAACTCT-TCTCT-AAA
1 TACCTATAACATGGCCCGTAGCCAAATCAAGGTAACT-TATC-CTGAAA
* *
113675162 TACTTATATCATGGCCCGTAGCCAAAT
1 TACCTATAACATGGCCCGTAGCCAAAT
113675189 TAGGGTATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 61 0.95
48 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (47 bp):
TACCTATAACATGGCCCGTAGCCAAATCAAGGTAACTTATCCTGAAA
Found at i:113676833 original size:40 final size:35
Alignment explanation
Indices: 113676730--113676895 Score: 179
Period size: 35 Copynumber: 4.6 Consensus size: 35
113676720 CATGGCAAAG
113676730 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
113676765 TGTGATATGTAGGTATGGTATCACCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
113676800 TGTGATATGTAGGTATGGTATTATCAAATCCATATTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * *** *
113676840 TAAGAAATGTAGGTATGGCATTGCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
113676875 TGTAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
113676896 TTCAATGAGG
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
35 77 0.71
37 2 0.02
38 4 0.04
40 26 0.24
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:113676850 original size:75 final size:75
Alignment explanation
Indices: 113676730--113676900 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 75
113676720 CATGGCAAAG
** * *
113676730 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGATATGTAGGTATGGTATCACC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
*
113676790 CATACTGAGT
66 CATACCGAGT
* * **
113676800 TGTGATATGTAGGTATGGTATTATCAAATCCATATTGAGTTAAGAAATGTAGGTATGGCATTGCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
113676865 CATACCGAGT
66 CATACCGAGT
*
113676875 TGTAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
113676901 TGAGGAAAAC
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 4 0.05
75 60 0.71
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
CATACCGAGT
Found at i:113680745 original size:73 final size:73
Alignment explanation
Indices: 113680627--113680810 Score: 271
Period size: 73 Copynumber: 2.5 Consensus size: 73
113680617 TAACTTAGGT
* * * **
113680627 CACACGGCC-AGCCACATGCCCGTGTGCTAGGCCATGTGGACAATTTAATTTTCAAAAATTAGGT
1 CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTGGACAATTTAATTTTCAAAAATTAGGT
*
113680691 GCAGGGGC
66 GCAAGGGC
113680699 CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTGGACAATTTAATTTTCAAAAATTAGGT
1 CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTGGACAATTTAATTTTCAAAAATTAGGT
*
113680764 GCAAGGGT
66 GCAAGGGC
* * *
113680772 CACACAGCGAAGTCACACGCCCATATGCTAGGCTGTGTG
1 CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTG
113680811 ACACATATGG
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 9 0.09
73 92 0.91
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (73 bp):
CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTGGACAATTTAATTTTCAAAAATTAGGT
GCAAGGGC
Found at i:113681995 original size:23 final size:25
Alignment explanation
Indices: 113681980--113682031 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
113681970 AAGTTCAAGC
113681980 GAGCC-ATATCAGGAAGCTCACAAA
1 GAGCCTATATCAGGAAGCTCACAAA
* *
113682004 GAGCCTATATCAGGACGCTCATAAA
1 GAGCCTATATCAGGAAGCTCACAAA
113682029 GAG
1 GAG
113682032 TTGCGATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (25 bp):
GAGCCTATATCAGGAAGCTCACAAA
Found at i:113684126 original size:22 final size:21
Alignment explanation
Indices: 113684086--113684137 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
113684076 TCTTTTATAT
* *
113684086 ATATTATAATATTAAAATATTA
1 ATATT-TAATAATAAAATAATA
*
113684108 TTATTTAATAATAATAATAATA
1 ATATTTAATAATAA-AATAATA
113684130 ATATTTAA
1 ATATTTAA
113684138 AAGCCATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTTAATAATAAAATAATA
Found at i:113684799 original size:20 final size:21
Alignment explanation
Indices: 113684754--113684804 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
113684744 CCTCAAGCCT
*
113684754 TAAACCT-AAACTCCAAACTC
1 TAAACCTCAAACTCCAAACCC
113684774 -ATAACCTCAAAC-CCAAACCC
1 TA-AACCTCAAACTCCAAACCC
*
113684794 TAAACCCCAAA
1 TAAACCTCAAA
113684805 TTCGTAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 5 0.19
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (21 bp):
TAAACCTCAAACTCCAAACCC
Found at i:113686066 original size:56 final size:56
Alignment explanation
Indices: 113686001--113686114 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
113685991 ATTGCACTGC
113686001 TTTGTATTTCAATTCAATTCAATTATTTTTTACATAATTTATCATAATGATTTGTT
1 TTTGTATTTCAATTCAATTCAATTATTTTTTACATAATTTATCATAATGATTTGTT
113686057 TTTGTATTTCAATTCAATTCAATTATTTTTTACATAATTTATCATAATGATTTGTT
1 TTTGTATTTCAATTCAATTCAATTATTTTTTACATAATTTATCATAATGATTTGTT
113686113 TT
1 TT
113686115 AATAAAATCG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (56 bp):
TTTGTATTTCAATTCAATTCAATTATTTTTTACATAATTTATCATAATGATTTGTT
Found at i:113686086 original size:28 final size:28
Alignment explanation
Indices: 113686001--113686087 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 28
113685991 ATTGCACTGC
113686001 TTTGTATTTCAATTCAATTCAATTATTT
1 TTTGTATTTCAATTCAATTCAATTATTT
* * *
113686029 TTTACATAATTT--A-TCATAAT-GATT-TGTT
1 TTT--GT-ATTTCAATTCA-ATTCAATTAT-TT
113686057 TTTGTATTTCAATTCAATTCAATTATTT
1 TTTGTATTTCAATTCAATTCAATTATTT
113686085 TTT
1 TTT
113686088 ACATAATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 20
0.62 0.09 0.29
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 4 0.09
28 25 0.58
29 4 0.09
30 1 0.02
31 4 0.09
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.57
Consensus pattern (28 bp):
TTTGTATTTCAATTCAATTCAATTATTT
Found at i:113686114 original size:28 final size:28
Alignment explanation
Indices: 113686027--113686114 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
113686017 ATTCAATTAT
113686027 TTTTTACATAATTTATCATAATGATTTG
1 TTTTTACATAATTTATCATAATGATTTG
* * *
113686055 TTTTT--GT-ATTTCAATTCA-ATTCAATTAT-
1 TTTTTACATAATTT--A-TCATAAT-GATT-TG
113686083 TTTTTACATAATTTATCATAATGATTTG
1 TTTTTACATAATTTATCATAATGATTTG
113686111 TTTT
1 TTTT
113686115 AATAAAATCG
Statistics
Matches: 44, Mismatches: 6, Indels: 20
0.63 0.09 0.29
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 4 0.09
28 26 0.59
29 4 0.09
30 1 0.02
31 4 0.09
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTTTACATAATTTATCATAATGATTTG
Found at i:113686607 original size:24 final size:25
Alignment explanation
Indices: 113686575--113686632 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
113686565 ATGATTTTAG
* *
113686575 TATTCATTTAAAATTAA-TTATT-A
1 TATTTATTTAAAATAAAGTTATTAA
113686598 TATTATATTT-AAATAAAGTTATTAA
1 TATT-TATTTAAAATAAAGTTATTAA
113686623 TATTTATTTA
1 TATTTATTTA
113686633 TAAAACTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 10 0.34
24 14 0.48
25 5 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTTATTTAAAATAAAGTTATTAA
Found at i:113689366 original size:3 final size:3
Alignment explanation
Indices: 113689360--113689419 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
113689350 ATTGCAGCAG
113689360 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
113689408 ATA ATA ATA ATA
1 ATA ATA ATA ATA
113689420 CATGATTCCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:113708561 original size:40 final size:38
Alignment explanation
Indices: 113708505--113708657 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 38
113708495 GGATATAGCG
* *
113708505 ACTCGCCCAAAAGCCTTCGGGACATAGCCCGGTTATAAT
1 ACTCGCACAAAAGCCTTCGGGACATAGCCCGGTT-TAGT
* * * *
113708544 AGCTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 A-CTCGCACAAAAGCCTTCGGGACATAGCCCGG-TTTAGT
* *
113708584 AACTCGCACAAATGCCTTCGGGA-ATTGACCCGGATTTAGT
1 -ACTCGCACAAAAGCCTTCGGGACATAG-CCCGG-TTTAGT
* *
113708624 CACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 -AC-TCGCACAAAAGCCTTCGGGACATAGCCCGG
113708658 ATACCATTCG
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.02
40 62 0.67
41 26 0.28
42 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (38 bp):
ACTCGCACAAAAGCCTTCGGGACATAGCCCGGTTTAGT
Found at i:113713913 original size:45 final size:44
Alignment explanation
Indices: 113713863--113713947 Score: 143
Period size: 45 Copynumber: 1.9 Consensus size: 44
113713853 ACAAAACATG
113713863 TGTCATACATATCACGAACTCAGACCACAACTCAATGAGTTAGGA
1 TGTCATACATATCACGAACTCAGA-CACAACTCAATGAGTTAGGA
* *
113713908 TGTCATATATATCATGAACTCAGACACAACTCAATGAGTT
1 TGTCATACATATCACGAACTCAGACACAACTCAATGAGTT
113713948 CAAATTACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 16 0.42
45 22 0.58
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (44 bp):
TGTCATACATATCACGAACTCAGACACAACTCAATGAGTTAGGA
Found at i:113720867 original size:26 final size:24
Alignment explanation
Indices: 113720838--113720898 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
113720828 CAGCTCGTAT
* *
113720838 GAGCTTACCGATATATCATCTCGAAA
1 GAGCTTACCGAT-T-TCAGCCCGAAA
113720864 GAGCTTACCG-TTTCAGCCCGAAA
1 GAGCTTACCGATTTCAGCCCGAAA
113720887 GAGCTTACCGAT
1 GAGCTTACCGAT
113720899 CATGGCTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 19 0.59
24 2 0.06
25 1 0.03
26 10 0.31
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCCCGAAA
Found at i:113720914 original size:24 final size:23
Alignment explanation
Indices: 113720828--113720914 Score: 77
Period size: 23 Copynumber: 3.6 Consensus size: 23
113720818 GGACTCACCA
* *
113720828 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGAAAGAGCTTACCG---TAT
* *
113720854 CATCTCGAAAGAGCTTACCGTTT
1 CAGCTCGAAAGAGCTTACCGTAT
*
113720877 CAGCCCGAAAGAGCTTACCG-AT
1 CAGCTCGAAAGAGCTTACCGTAT
113720899 CATGGCTCGAAAGAGC
1 CA--GCTCGAAAGAGC
113720915 ATAAATGATG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
22 3 0.06
23 20 0.39
24 11 0.22
26 17 0.33
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
CAGCTCGAAAGAGCTTACCGTAT
Found at i:113724564 original size:18 final size:19
Alignment explanation
Indices: 113724543--113724578 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
113724533 ATTTTAATCT
113724543 TATTAA-TATAATATTTTA
1 TATTAATTATAATATTTTA
*
113724561 TATTAATTTTAATATTTT
1 TATTAATTATAATATTTT
113724579 TTTATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTAATTATAATATTTTA
Found at i:113729741 original size:1 final size:1
Alignment explanation
Indices: 113729737--113729761 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
113729727 CTCAAAAACT
113729737 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
113729762 GAGCAGCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:113732102 original size:22 final size:21
Alignment explanation
Indices: 113732068--113732110 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
113732058 TTAAAGGCTA
*
113732068 TTTTTATTATTAAGTTT-AATT
1 TTTTTATAATTAA-TTTGAATT
113732089 TTTTTATAATTTAATTTGAATT
1 TTTTTATAA-TTAATTTGAATT
113732111 ATCATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTTATAATTAATTTGAATT
Found at i:113732103 original size:16 final size:19
Alignment explanation
Indices: 113732067--113732105 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
113732057 TTTAAAGGCT
113732067 ATTTTTATTATTAAGTTTA
1 ATTTTTATTATTAAGTTTA
113732086 ATTTTT-TTA-TAA-TTTA
1 ATTTTTATTATTAAGTTTA
113732102 ATTT
1 ATTT
113732106 GAATTATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 3 0.15
19 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTTATTATTAAGTTTA
Found at i:113732246 original size:42 final size:42
Alignment explanation
Indices: 113732199--113732284 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
113732189 TGTTTTATGG
113732199 TCTAAGTATAATCATATTTGAACGGGTGATATTTAGATAAAA
1 TCTAAGTATAATCATATTTGAACGGGTGATATTTAGATAAAA
*
113732241 TCTAAGTATAATCATATTTGAACGGGTGGTATTTAGATAAAA
1 TCTAAGTATAATCATATTTGAACGGGTGATATTTAGATAAAA
113732283 TC
1 TC
113732285 CCCTCAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.36
Consensus pattern (42 bp):
TCTAAGTATAATCATATTTGAACGGGTGATATTTAGATAAAA
Found at i:113734457 original size:18 final size:18
Alignment explanation
Indices: 113734431--113734517 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 18
113734421 GCGAGCTTTA
*
113734431 TATAACATGTGAACCATG
1 TATATCATGTGAACCATG
* *
113734449 TATATCATGCGAACCCTAGG
1 TATATCATGTGAA-CC-ATG
* *
113734469 TAT-T-ATGAGAACCCTG
1 TATATCATGTGAACCATG
*
113734485 TATATCATGTGAACCCTG
1 TATATCATGTGAACCATG
*
113734503 TGTAT-ATTGTGAACC
1 TATATCA-TGTGAACC
113734518 TTATGTAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
16 4 0.07
17 4 0.07
18 40 0.71
19 3 0.05
20 5 0.09
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (18 bp):
TATATCATGTGAACCATG
Found at i:113734471 original size:20 final size:18
Alignment explanation
Indices: 113734431--113734503 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
113734421 GCGAGCTTTA
* * *
113734431 TATAACATGTGAACCATG
1 TATATCATGAGAACCCTG
*
113734449 TATATCATGCGAACCCTAGG
1 TATATCATGAGAACCCT--G
113734469 TAT-T-ATGAGAACCCTG
1 TATATCATGAGAACCCTG
*
113734485 TATATCATGTGAACCCTG
1 TATATCATGAGAACCCTG
113734503 T
1 T
113734504 GTATATTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.09
17 1 0.02
18 36 0.78
19 1 0.02
20 4 0.09
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (18 bp):
TATATCATGAGAACCCTG
Found at i:113734517 original size:36 final size:36
Alignment explanation
Indices: 113734437--113734517 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
113734427 TTTATATAAC
113734437 ATGTGAACCATGTATATCATGCGAACCCTAGGTATT
1 ATGTGAACCATGTATATCATGCGAACCCTAGGTATT
* * *
113734473 ATGAGAACCCTGTATATCATGTGAACCCT-GTGTA-T
1 ATGTGAACCATGTATATCATGCGAACCCTAG-GTATT
113734508 ATTGTGAACC
1 A-TGTGAACC
113734518 TTATGTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 3 0.08
36 36 0.92
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (36 bp):
ATGTGAACCATGTATATCATGCGAACCCTAGGTATT
Found at i:113734825 original size:22 final size:22
Alignment explanation
Indices: 113734780--113734827 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
113734770 TATTCGTGCA
* * *
113734780 AACCCTACATGTTATTTATGCG
1 AACCCTACATGTGATATATACG
*
113734802 AACCCTACATGTGGTATATACG
1 AACCCTACATGTGATATATACG
113734824 AACC
1 AACC
113734828 TTATTTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (22 bp):
AACCCTACATGTGATATATACG
Found at i:113734876 original size:14 final size:14
Alignment explanation
Indices: 113734857--113734890 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
113734847 ACATATGTGG
*
113734857 GAACCCCTAGGTGC
1 GAACCCATAGGTGC
*
113734871 GAACCCATATGTGC
1 GAACCCATAGGTGC
113734885 GAACCC
1 GAACCC
113734891 TACTTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.35, G:0.24, T:0.15
Consensus pattern (14 bp):
GAACCCATAGGTGC
Found at i:113736292 original size:11 final size:11
Alignment explanation
Indices: 113736260--113736294 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
113736250 TTTTTTCAAA
113736260 AATATTATTTT
1 AATATTATTTT
113736271 AATATGATATTTT
1 AATAT--TATTTT
113736284 AATATTATTTT
1 AATATTATTTT
113736295 GGTCCTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
AATATTATTTT
Found at i:113741075 original size:7 final size:7
Alignment explanation
Indices: 113741063--113741088 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
113741053 AGAGCGAGCA
113741063 ATATGTG
1 ATATGTG
113741070 ATATGTG
1 ATATGTG
113741077 ATATGTG
1 ATATGTG
113741084 ATATG
1 ATATG
113741089 AGGTAGCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
ATATGTG
Found at i:113748469 original size:11 final size:10
Alignment explanation
Indices: 113748443--113748468 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
113748433 AAAGGTATAA
113748443 TAAAAATATT
1 TAAAAATATT
113748453 TAAAAATATT
1 TAAAAATATT
113748463 TAAAAA
1 TAAAAA
113748469 AAAAGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAAAATATT
Found at i:113749684 original size:23 final size:23
Alignment explanation
Indices: 113749658--113749706 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
113749648 TTTCATAATT
113749658 AAAA-TAAGTTATATTATTTAAAA
1 AAAATTAA-TTATATTATTTAAAA
* *
113749681 AAAATTAATTTTTTTATTTAAAA
1 AAAATTAATTATATTATTTAAAA
113749704 AAA
1 AAA
113749707 TAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AAAATTAATTATATTATTTAAAA
Found at i:113754407 original size:31 final size:29
Alignment explanation
Indices: 113754366--113754423 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
113754356 TTTATGTAAT
113754366 TTATATAAAAATATAATATAATAT-TATTATA
1 TTATATAAAAAT-TAA-A-AATATATATTATA
*
113754397 TTATTTAAAAATTAAAAATATATATTA
1 TTATATAAAAATTAAAAATATATATTA
113754424 AGTTGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 5 0.20
29 6 0.24
30 3 0.12
31 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TTATATAAAAATTAAAAATATATATTATA
Found at i:113759345 original size:23 final size:22
Alignment explanation
Indices: 113759304--113759349 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
113759294 AATTTTGCAC
*
113759304 AGAATGAAAAAGGATAAAATACA
1 AGAATGAAAAAGAATAAAA-ACA
113759327 AGAATG-AAAAGAATGAAAAACA
1 AGAATGAAAAAGAAT-AAAAACA
113759349 A
1 A
113759350 CAAAGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.67, C:0.04, G:0.17, T:0.11
Consensus pattern (22 bp):
AGAATGAAAAAGAATAAAAACA
Found at i:113762955 original size:27 final size:27
Alignment explanation
Indices: 113762917--113762983 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
113762907 GAGGGCATCT
*
113762917 CATAGGCGGCACCAATTG-TGGTGCTGC
1 CATAGGCGGCACCAATGGTTGG-GCTGC
113762944 CATAGGCGGCACCAATGGTTGGGCTGC
1 CATAGGCGGCACCAATGGTTGGGCTGC
* *
113762971 CAGAGGCAGCACC
1 CATAGGCGGCACC
113762984 CTGCACCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 33 0.92
28 3 0.08
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.16
Consensus pattern (27 bp):
CATAGGCGGCACCAATGGTTGGGCTGC
Found at i:113763183 original size:6 final size:6
Alignment explanation
Indices: 113763147--113763180 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
113763137 TTGGTGAGGG
*
113763147 AAGAAA AAGAAA AAGAAA AAGAAA AAGAGA AAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA
113763181 GAAGAAGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:113763271 original size:27 final size:27
Alignment explanation
Indices: 113763241--113763297 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
113763231 TAATTAATTT
113763241 ATTTAAGGAAAT-AATT-TTTAGTTGTTA
1 ATTTAAGGAAATAAATTATTTA-TT-TTA
113763268 ATTTAAGGAAATAAATTATTTATTTTA
1 ATTTAAGGAAATAAATTATTTATTTTA
113763295 ATT
1 ATT
113763298 GTTTTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 18 0.64
28 6 0.21
29 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTAAGGAAATAAATTATTTATTTTA
Found at i:113769822 original size:16 final size:15
Alignment explanation
Indices: 113769803--113769845 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
113769793 ATATTTTAAT
*
113769803 GAAAAAATAAAATAC
1 GAAAAAATAAAACAC
113769818 GGAAAGAAATAAAACAC
1 -GAAA-AAATAAAACAC
113769835 GAAAATAATAA
1 GAAAA-AATAA
113769846 CTTTTTTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
17 10 0.42
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.12
Consensus pattern (15 bp):
GAAAAAATAAAACAC
Found at i:113770619 original size:11 final size:11
Alignment explanation
Indices: 113770592--113770626 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
113770582 CAGAGTTTTT
*
113770592 TACTAAATTAA
1 TACTAAAATAA
113770603 TA-TAAAATAA
1 TACTAAAATAA
113770613 TACTAAAATAA
1 TACTAAAATAA
113770624 TAC
1 TAC
113770627 ATTTGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (11 bp):
TACTAAAATAA
Found at i:113770674 original size:151 final size:151
Alignment explanation
Indices: 113769879--113770715 Score: 1272
Period size: 151 Copynumber: 5.5 Consensus size: 151
113769869 GCAGGTTTTT
* *
113769879 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTTTATTTTTAAAAAATAAAATACGAAAAT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA-TTTTAAAAAATAAAATCCGAAAAT
* * *
113769943 AAAAATAAAAAAAGAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
65 -AAAATAAATAAA-AACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
*
113770008 AAATAATACATTTGAAACATTATA
128 AAATAATACATTTGAAACATTATG
* *
113770032 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGGATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
* *
113770096 AAATAAATAATAAAAATAAACGGCCAAAACCAGAGTTTTTTACTAAATTAATATAATAAAAACAC
66 AAAT--A-AATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATAT-A-AAAAACAC
113770161 TAAAATAATACATTTGAAACATTATG
126 TAAAATAATACATTTGAAACATTATG
* *
113770187 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCGAAATTA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
* *
113770252 AAAT-AA-AAAAACTAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAATACTAAAA
66 AAATAAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAA
*
113770315 TAAGACATTTGAAACATTATG
131 TAATACATTTGAAACATTATG
* *
113770336 TACTAAAATAATATAAAATAATAAATTACGAAAATAGTATATTTT-AAAAATAAAATCCAAAAAT
1 TACTAAAATAATATAAAA-AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
113770400 AAAATAAATAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACT
65 AAAAT--A-AATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACT
*
113770465 AAAATAATACATTTGAAATATTATG
127 AAAATAATACATTTGAAACATTATG
* *
113770490 TACTAAAATAATATAAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATTCGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* * *
113770555 AAAATAAATAAATA-AAATGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAATAATACTAA
65 AAAATAAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAA-AACACTAA
113770619 AATAATACATTTGAAACATTATG
129 AATAATACATTTGAAACATTATG
* * *
113770642 TAATAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
113770707 AAATAAATA
66 AAATAAATA
113770716 CCAAAATATA
Statistics
Matches: 634, Mismatches: 35, Indels: 32
0.90 0.05 0.05
Matches are distributed among these distances:
149 72 0.11
150 25 0.04
151 144 0.23
152 73 0.12
153 79 0.12
154 118 0.19
155 73 0.12
156 50 0.08
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (151 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
AAATAAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAA
TAATACATTTGAAACATTATG
Found at i:113770676 original size:305 final size:305
Alignment explanation
Indices: 113769879--113770715 Score: 1337
Period size: 305 Copynumber: 2.7 Consensus size: 305
113769869 GCAGGTTTTT
* *
113769879 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTTTATTTTTAAAAAATAAAATACGAAAAT
1 TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATA-TTTTAAAAAATAAAATACGAAAAT
* * *
113769943 AAAAATAAAAAAAGAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
65 -AAAAT--AAAAA-AACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAATACTA
* *
113770008 AAATAATACATTTGAAACATTATATACTAAAATAATAT-AAAAATAAAATACGAAAATAGGATAT
126 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATAT
*
113770072 TTTAAAAAATAAAATCCAAAAATAAAATAAATAATAAAAATAAACGGCCAAAACCAGAGTTTTTT
191 TTTAAAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGGCCAAAACCAGAGTTTTTT
113770137 ACTAAATTAATATAATAAAAACACTAAAATAATACATTTGAAACATTATG
256 ACTAAATTAATATAATAAAAACACTAAAATAATACATTTGAAACATTATG
* *
113770187 TACTAAAATAATATAAAAAATAAAATACA-AAAATAGTATATTTTAAAAAATAAAATCCGAAATT
1 TACTAAAATAATATAAAAAATAAAATA-AGAAAATAGTATATTTTAAAAAATAAAATACGAAAAT
*
113770251 AAAATAAAAAAACTAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAATACTAAAAT
65 AAAATAAAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAATACTAAAAT
* *
113770316 AAGACATTTGAAACATTATGTACTAAAATAATATAAAATAATAAATTACGAAAATAGTATATTTT
130 AATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAGTATATTTT
*
113770381 -AAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACT
194 AAAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGGCCAAAACCAGAGTTTTTTACT
*
113770445 AAATTAATAT-A-AAAAACACTAAAATAATACATTTGAAATATTATG
259 AAATTAATATAATAAAAACACTAAAATAATACATTTGAAACATTATG
*
113770490 TACTAAAATAATATAAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATTCGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATACGAAAAT
*
113770555 AAAATAAATAAATA-AAATGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAATAATACTAA
65 AAAATAAA-AAA-ACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAA-AATACTAA
* *
113770619 AATAATACATTTGAAACATTATGTAATAAAATAATATAAAAAATAAAATATGAAAATAGTATATT
127 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATT
* *
113770684 TTAAAAAATAAAATTCGAAAATAAAATAAATA
192 TTAAAAAATAAAATCCAAAAATAAAATAAATA
113770716 CCAAAATATA
Statistics
Matches: 494, Mismatches: 25, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
303 48 0.10
304 138 0.28
305 146 0.30
306 99 0.20
307 5 0.01
308 36 0.07
309 22 0.04
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (305 bp):
TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATACGAAAATA
AAATAAAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAATACTAAAATA
ATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAA
AAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGGCCAAAACCAGAGTTTTTTACTAA
ATTAATATAATAAAAACACTAAAATAATACATTTGAAACATTATG
Found at i:113777075 original size:18 final size:19
Alignment explanation
Indices: 113777047--113777082 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
113777037 AAAATTACAT
113777047 TTTCTTTTCTTTCTTCTCC
1 TTTCTTTTCTTTCTTCTCC
113777066 TTTC-TTTCTTTCTTCTC
1 TTTCTTTTCTTTCTTCTC
113777083 TTCTATTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTCTTTCTTCTCC
Found at i:113780322 original size:87 final size:88
Alignment explanation
Indices: 113780166--113780335 Score: 252
Period size: 87 Copynumber: 1.9 Consensus size: 88
113780156 ATTTAGTCCT
* * *
113780166 TATACATCAATTTGATTAAATTTAGTCTACGTAGTTTTCAATTTTTAAAATTTCAGTCCTCACCA
1 TATACATCAATTTGATCAAATTTAGTCTACGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
113780231 AATGGTAACTATTAAATTGTCTA
66 AATGGTAACTATTAAATTGTCTA
* * ** *
113780254 TATACATCAATTTTATCAAATTTAGTC-ATGTAGTTTTCAAATTTTAAAATTTCAATCCTTGCCG
1 TATACATCAATTTGATCAAATTTAGTCTACGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
*
113780318 AATGGTAATTATTAAATT
66 AATGGTAACTATTAAATT
113780336 TATTAAGTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 48 0.66
88 25 0.34
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (88 bp):
TATACATCAATTTGATCAAATTTAGTCTACGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
AATGGTAACTATTAAATTGTCTA
Found at i:113780795 original size:16 final size:16
Alignment explanation
Indices: 113780758--113780793 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
113780748 TAGAGTGAAA
113780758 GAAAATTGAAAAGATG
1 GAAAATTGAAAAGATG
*
113780774 GAAAATTGAAATG-TG
1 GAAAATTGAAAAGATG
113780789 GAAAA
1 GAAAA
113780794 ATAAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (16 bp):
GAAAATTGAAAAGATG
Found at i:113783803 original size:21 final size:20
Alignment explanation
Indices: 113783741--113783805 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
113783731 ACATGGGCTA
**
113783741 TTCACACGGGCGTGTGCCCC
1 TTCACACGGGCGTGTGGGCC
* * *
113783761 CTCTACACGGGTGTATGGGGCC
1 TTC-ACACGGGCGTGT-GGGCC
113783783 TTCACACGGGCGTGTGTGGCC
1 TTCACACGGGCGTGTG-GGCC
113783804 TT
1 TT
113783806 TACATGGGCA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
20 3 0.09
21 26 0.76
22 5 0.15
ACGTcount: A:0.11, C:0.31, G:0.34, T:0.25
Consensus pattern (20 bp):
TTCACACGGGCGTGTGGGCC
Found at i:113790849 original size:26 final size:26
Alignment explanation
Indices: 113790799--113790848 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
113790789 AATTTAATTT
*
113790799 AATTATTTAAAATTTATAAAAATATA
1 AATTATTTAAAATTAATAAAAATATA
*
113790825 AATTA-TTAAAA-TAATAAAATTATA
1 AATTATTTAAAATTAATAAAAATATA
113790849 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 6 0.27
26 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTATTTAAAATTAATAAAAATATA
Found at i:113792761 original size:14 final size:15
Alignment explanation
Indices: 113792723--113792753 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
113792713 TAAGATATAA
113792723 TTACATCATAATTTT
1 TTACATCATAATTTT
113792738 TTACATCATAATTTT
1 TTACATCATAATTTT
113792753 T
1 T
113792754 ATGTCATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (15 bp):
TTACATCATAATTTT
Found at i:113793940 original size:78 final size:78
Alignment explanation
Indices: 113793855--113794003 Score: 244
Period size: 78 Copynumber: 1.9 Consensus size: 78
113793845 TACCAGATTG
* * *
113793855 TGTGCTAGGCCGTGCCAAACTTGTAGGGTATACTGACTTATGCCACACAGCCAAGTCACACGCCC
1 TGTGCTAGGCCATGCCAAACCTATAGGGTATACTGACTTATGCCACACAGCCAAGTCACACGCCC
113793920 ATGTGCCAGACCT
66 ATGTGCCAGACCT
* *
113793933 TGTGCTAGGCCATGCCAAACCTATAGGGTATACTGACTTATGCTACACGGCCAAGTCACACGCCC
1 TGTGCTAGGCCATGCCAAACCTATAGGGTATACTGACTTATGCCACACAGCCAAGTCACACGCCC
*
113793998 GTGTGC
66 ATGTGC
113794004 TGGGCCATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.22
Consensus pattern (78 bp):
TGTGCTAGGCCATGCCAAACCTATAGGGTATACTGACTTATGCCACACAGCCAAGTCACACGCCC
ATGTGCCAGACCT
Found at i:113798333 original size:51 final size:50
Alignment explanation
Indices: 113798262--113798421 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
113798252 CTGATCACAT
113798262 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
113798313 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
113798363 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
113798414 TTGTCACT
1 TTATCACT
113798422 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:113805059 original size:51 final size:50
Alignment explanation
Indices: 113804988--113805147 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
113804978 CTGATCACAT
113804988 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
113805039 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
113805089 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
113805140 TTGTCACT
1 TTATCACT
113805148 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:113812691 original size:3 final size:3
Alignment explanation
Indices: 113812685--113812924 Score: 68
Period size: 3 Copynumber: 80.3 Consensus size: 3
113812675 AAAATACAAC
* * * *
113812685 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
113812728 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
113812772 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT ATAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * * * * *
113812818 AAT AAT AAT GAT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT
* * * * *
113812863 AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
*
113812908 AAT AAAT TAT AAT AAT A
1 AAT -AAT AAT AAT AAT A
113812925 GTGATGAGAA
Statistics
Matches: 174, Mismatches: 44, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
2 18 0.10
3 136 0.78
4 20 0.11
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:113812691 original size:22 final size:22
Alignment explanation
Indices: 113812640--113812700 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
113812630 ATAAGTAAAT
* *
113812640 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
113812661 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
113812683 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
113812701 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:113812858 original size:36 final size:36
Alignment explanation
Indices: 113812800--113812899 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 36
113812790 GCTAATAATA
*
113812800 ATATA-TA-ATAATAAT-AATAATAATAATGATGATG
1 ATATATTAGATAATAATGAA-AATAATAATAATGATG
* * *
113812834 ATCTATTA-AGTTATAATGAAAATAATGATAATGATG
1 ATATATTAGA-TAATAATGAAAATAATAATAATGATG
113812870 ATATATTAGATAATAATAGTAAAATAATAA
1 ATATATTAGATAATAAT-G-AAAATAATAA
113812900 GTAACAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
34 4 0.08
35 3 0.06
36 33 0.62
37 4 0.08
38 9 0.17
ACGTcount: A:0.54, C:0.01, G:0.10, T:0.35
Consensus pattern (36 bp):
ATATATTAGATAATAATGAAAATAATAATAATGATG
Found at i:113812943 original size:16 final size:16
Alignment explanation
Indices: 113812924--113812955 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
113812914 TTATAATAAT
113812924 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
113812940 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
113812956 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:113813088 original size:16 final size:15
Alignment explanation
Indices: 113813059--113813101 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
113813049 TATACGTATG
*
113813059 AAAAATAATGATAGT
1 AAAAATAATAATAGT
113813074 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
113813090 AATAATAATAAT
1 AAAAATAATAAT
113813102 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:113813204 original size:3 final size:3
Alignment explanation
Indices: 113813196--113813220 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
113813186 ACACTACCAT
113813196 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
113813221 GAAATACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:113813319 original size:3 final size:3
Alignment explanation
Indices: 113813311--113813342 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
113813301 AAATATACAC
113813311 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
113813343 TTAAAATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:113813871 original size:21 final size:22
Alignment explanation
Indices: 113813834--113813878 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
113813824 AATCCCCTCT
113813834 TGAATCTCAAAAAAAATCTCTTC
1 TGAATCTC-AAAAAAATCTCTTC
*
113813857 TGAATCTC-AAAAAATTTCTTC
1 TGAATCTCAAAAAAATCTCTTC
113813878 T
1 T
113813879 CTCCAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
23 8 0.38
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (22 bp):
TGAATCTCAAAAAAATCTCTTC
Found at i:113814082 original size:18 final size:18
Alignment explanation
Indices: 113814059--113814095 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
113814049 TGAGATTAGG
*
113814059 TTTTTTTT-CTTTTTTTT
1 TTTTTTTTGATTTTTTTT
113814076 TTTTTTTTGATTTTTTTT
1 TTTTTTTTGATTTTTTTT
113814094 TT
1 TT
113814096 GGGTTGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.03, C:0.03, G:0.03, T:0.92
Consensus pattern (18 bp):
TTTTTTTTGATTTTTTTT
Found at i:113814750 original size:205 final size:205
Alignment explanation
Indices: 113814399--113815391 Score: 1726
Period size: 205 Copynumber: 4.9 Consensus size: 205
113814389 AGATTTATTT
* * * * * * * * *
113814399 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
113814464 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
113814528 GGATCCGTTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
113814593 AGATGCCAAA
196 AGATGCCAAA
*
113814603 CTTCGATTCGTTCTTTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
113814668 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
113814733 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
113814798 AGATGCCAAA
196 AGATGCCAAA
113814808 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
113814873 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
113814938 GGATCTGCTTCAGC--AAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
113815001 AGATGCCAAA
196 AGATGCCAAA
113815011 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
113815076 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
113815141 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
113815206 AGATGCCAAA
196 AGATGCCAAA
113815216 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
113815281 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
113815346 GGATCTGCTTCAG--TGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCCGCTTCAGCAT-AAA-CATCTGAAGGTGAGATCTGCTATGTGT
113815392 GGCCTATTAC
Statistics
Matches: 759, Mismatches: 25, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
203 203 0.27
204 76 0.10
205 480 0.63
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:113815155 original size:408 final size:408
Alignment explanation
Indices: 113814399--113815391 Score: 1736
Period size: 408 Copynumber: 2.4 Consensus size: 408
113814389 AGATTTATTT
* * * * * * * * *
113814399 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
113814464 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
113814528 GGATCCGTTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGC--AAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
*
113814593 AGATGCCAAACTTCGATTCGTTCTTTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCA
194 AGATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCA
113814658 TCGTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
259 TCGTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
113814723 AAACCATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCC
324 AAACCATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCC
113814788 ATCAAAGTGAAGATGCCAAA
389 ATCAAAGTGAAGATGCCAAA
113814808 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
113814873 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
113814938 GGATCTGCTTCAGCAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
131 GGATCTGCTTCAGCAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
113815003 ATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
196 ATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
113815068 GTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
261 GTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
113815133 ACCATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCAT
326 ACCATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCAT
113815198 CAAAGTGAAGATGCCAAA
391 CAAAGTGAAGATGCCAAA
113815216 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
113815281 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
113815346 GGATCTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCTGCTTCAG-CAAA-CATCTGAAGGTGAGATCTGCTATGTGT
113815392 GGCCTATTAC
Statistics
Matches: 558, Mismatches: 23, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
408 405 0.73
409 77 0.14
410 76 0.14
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (408 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGCAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAACTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
GTAATCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
ACCATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCAT
CAAAGTGAAGATGCCAAA
Found at i:113826455 original size:15 final size:14
Alignment explanation
Indices: 113826413--113826462 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
113826403 ATAACTTTGA
*
113826413 ATGCAAATGATGTG
1 ATGCAAATGATGAG
113826427 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
113826442 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
113826456 ATGCAAA
1 ATGCAAA
113826463 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:113830322 original size:3 final size:3
Alignment explanation
Indices: 113830316--113830557 Score: 90
Period size: 3 Copynumber: 81.3 Consensus size: 3
113830306 AAAATACAAC
* * * *
113830316 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
113830359 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
113830403 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
113830448 AAT AAT AAT AAT AAT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT
* * * * * *
113830493 GAT AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT
*
113830538 AAT AAT AAAT TAT AAT AAT A
1 AAT AAT -AAT AAT AAT AAT A
113830558 GTGATGAGAA
Statistics
Matches: 177, Mismatches: 44, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
2 18 0.10
3 142 0.80
4 17 0.10
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:113830322 original size:22 final size:22
Alignment explanation
Indices: 113830271--113830331 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
113830261 ATAAGTAAAT
* *
113830271 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
113830292 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
113830314 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
113830332 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:113830483 original size:36 final size:36
Alignment explanation
Indices: 113830440--113830532 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
113830430 AATAATAATA
*
113830440 ATAATAATAATAATAATAATAATGATGATCTATTA-
1 ATAATAATAATAATAATAATAATGATGATATATTAG
* *
113830475 AGTTATAATGAA-AATAATGATAATGATGATATATTAG
1 A-TAATAAT-AATAATAATAATAATGATGATATATTAG
*
113830512 ATAATAATAGTAA-AATAATAA
1 ATAATAATAATAATAATAATAA
113830533 GTAACAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
35 9 0.19
36 36 0.75
37 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.10, T:0.34
Consensus pattern (36 bp):
ATAATAATAATAATAATAATAATGATGATATATTAG
Found at i:113830576 original size:16 final size:16
Alignment explanation
Indices: 113830557--113830588 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
113830547 TTATAATAAT
113830557 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
113830573 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
113830589 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:113830721 original size:16 final size:15
Alignment explanation
Indices: 113830692--113830734 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
113830682 TATACGTATG
*
113830692 AAAAATAATGATAGT
1 AAAAATAATAATAGT
113830707 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
113830723 AATAATAATAAT
1 AAAAATAATAAT
113830735 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:113830835 original size:3 final size:3
Alignment explanation
Indices: 113830827--113830851 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
113830817 ACACACTACC
113830827 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
113830852 TAGAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:113830952 original size:3 final size:3
Alignment explanation
Indices: 113830944--113830984 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
113830934 AAATATACAC
113830944 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
113830985 TTAAAATGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:113831492 original size:24 final size:24
Alignment explanation
Indices: 113831463--113831513 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
113831453 AAAAAAAAAG
113831463 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
* *
113831487 AAAAATCTCTTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
113831511 AAA
1 AAA
113831514 TTTCTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAATCCCCTCTTGAATCTCAAA
Found at i:113831514 original size:22 final size:23
Alignment explanation
Indices: 113831463--113831521 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
113831453 AAAAAAAAAG
* *
113831463 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCTCTTCTTGAATCTC-AA
113831487 AAAAATCTCTTCTTGAATCTC-A
1 AAAAATCTCTTCTTGAATCTCAA
*
113831509 AAAAATTTCTTCT
1 AAAAATCTCTTCT
113831522 CTCCAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 13 0.41
24 19 0.59
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (23 bp):
AAAAATCTCTTCTTGAATCTCAA
Found at i:113839641 original size:48 final size:48
Alignment explanation
Indices: 113839570--113839771 Score: 332
Period size: 48 Copynumber: 4.2 Consensus size: 48
113839560 CAAGATAAAT
* * *
113839570 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
*
113839618 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
113839666 ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
113839714 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
113839762 ATATATATAT
1 ATATATATAT
113839772 ATATATATAT
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 142 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
Found at i:113839725 original size:96 final size:96
Alignment explanation
Indices: 113839570--113839771 Score: 368
Period size: 96 Copynumber: 2.1 Consensus size: 96
113839560 CAAGATAAAT
* * *
113839570 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
113839635 AGCCGAATGGCTAATATGAAATATGTATGAG
66 AGCCGAATGGCTAACATGAAATATGTATGAG
113839666 ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
113839731 AGCCGAATGGCTAACATGAAATATGTATGAG
66 AGCCGAATGGCTAACATGAAATATGTATGAG
113839762 ATATATATAT
1 ATATATATAT
113839772 ATATATATAT
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 102 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (96 bp):
ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAACATGAAATATGTATGAG
Found at i:113839769 original size:2 final size:2
Alignment explanation
Indices: 113839762--113839787 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
113839752 TATGTATGAG
113839762 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
113839788 GTGGTAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113839788 original size:64 final size:64
Alignment explanation
Indices: 113839714--113839835 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
113839704 TATGTATGAG
*
113839714 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATATATAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATATATAT
* ** *
113839778 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATAT
113839836 GTGGTAAAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (64 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATATATAT
Found at i:113839801 original size:112 final size:112
Alignment explanation
Indices: 113839666--113839885 Score: 386
Period size: 112 Copynumber: 2.0 Consensus size: 112
113839656 TATGTATGAG
113839666 ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
113839731 AGCCGAATGGCTAACATGAAATATGTATGAGATATATATATATATAT
66 AGCCGAATGGCTAACATGAAATATGTATGAGATATATATATATATAT
* *
113839778 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
** * *
113839843 AGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATATAT
66 AGCCGAATGGCTAACATGAAATATGTATGAGATATATATATAT
113839886 TGTGGCCGAA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 102 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (112 bp):
ATATATATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAACATGAAATATGTATGAGATATATATATATATAT
Found at i:113839854 original size:48 final size:48
Alignment explanation
Indices: 113839778--113839883 Score: 185
Period size: 48 Copynumber: 2.2 Consensus size: 48
113839768 ATATATATAT
* *
113839778 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
113839826 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
113839874 ATGTGTATAT
1 ATATGTATAT
113839884 ATTGTGGCCG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:113840066 original size:37 final size:37
Alignment explanation
Indices: 113840016--113840162 Score: 240
Period size: 37 Copynumber: 4.0 Consensus size: 37
113840006 GGAAATATAT
113840016 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
113840053 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
113840090 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
** * *
113840127 TAAGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
113840163 TCGAGCTAAA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:113841419 original size:46 final size:46
Alignment explanation
Indices: 113841366--113841541 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
113841356 TATTTGGGCA
* *
113841366 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
113841412 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
113841460 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
113841505 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113841542 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 65 0.61
47 29 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113841521 original size:93 final size:93
Alignment explanation
Indices: 113841362--113841533 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
113841352 AGGATATTTG
* *
113841362 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
113841427 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
113841455 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
*
113841519 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
113841534 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:113846462 original size:46 final size:45
Alignment explanation
Indices: 113846409--113846584 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
113846399 TATTTGGACA
113846409 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
113846455 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
113846502 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
113846548 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113846585 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:113846566 original size:93 final size:93
Alignment explanation
Indices: 113846407--113846576 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
113846397 GATATTTGGA
* *
113846407 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
113846472 GAGTCCGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* *
113846500 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
113846565 GAGTCCGAGTTC
66 GAGTCCGAGTTC
113846577 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:113847909 original size:14 final size:14
Alignment explanation
Indices: 113847890--113847918 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
113847880 GTTACAGGAT
113847890 TTGTATAATTCTTA
1 TTGTATAATTCTTA
113847904 TTGTATAATTCTTA
1 TTGTATAATTCTTA
113847918 T
1 T
113847919 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (14 bp):
TTGTATAATTCTTA
Found at i:113849101 original size:2 final size:2
Alignment explanation
Indices: 113849096--113849123 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113849086 AAATTAGTGG
113849096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113849124 AATCTATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:113851517 original size:20 final size:19
Alignment explanation
Indices: 113851455--113851525 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
113851445 TTAGATATAA
113851455 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTA-AAATT
*
113851475 ATTTTGAA-ATTTAAAATTT
1 ATTTTGAATTTTTAAAA-TT
113851494 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
113851514 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
113851526 TTTTGTAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 17 0.38
20 17 0.38
21 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:113851527 original size:21 final size:21
Alignment explanation
Indices: 113851474--113851526 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
113851464 TTTTTATAAA
*
113851474 TATTTTGAA-ATTT-AAAATT
1 TATTTTGAATTTTTGAAAATT
113851493 TATTTTGAATTTTTGAAAA-T
1 TATTTTGAATTTTTGAAAATT
*
113851513 TATTTTGATTTTTT
1 TATTTTGAATTTTT
113851527 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (21 bp):
TATTTTGAATTTTTGAAAATT
Found at i:113853797 original size:12 final size:12
Alignment explanation
Indices: 113853780--113853814 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
113853770 CAGAACTTTT
113853780 TTAAAAAAATTA
1 TTAAAAAAATTA
*
113853792 TTAAAAATATT-
1 TTAAAAAAATTA
113853803 TTAAAAAAATTA
1 TTAAAAAAATTA
113853815 AACATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAAAAAAATTA
Found at i:113859930 original size:27 final size:27
Alignment explanation
Indices: 113859892--113859953 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
113859882 AGTTCTCTAA
113859892 AAGCCTTTCCAAGTTTTGGTTACATCC
1 AAGCCTTTCCAAGTTTTGGTTACATCC
113859919 AAGCCTTTCCAAGTTTTGGTTACATCC
1 AAGCCTTTCCAAGTTTTGGTTACATCC
*
113859946 AAGTCTTT
1 AAGCCTTT
113859954 TCATATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (27 bp):
AAGCCTTTCCAAGTTTTGGTTACATCC
Found at i:113860620 original size:16 final size:17
Alignment explanation
Indices: 113860588--113860620 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113860578 AACTAACAGT
113860588 TATAAAATTTATATTTA
1 TATAAAATTTATATTTA
113860605 TATAAAATTT-TATTTA
1 TATAAAATTTATATTTA
113860621 AATTATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATAAAATTTATATTTA
Found at i:113860882 original size:91 final size:91
Alignment explanation
Indices: 113860722--113860897 Score: 273
Period size: 91 Copynumber: 1.9 Consensus size: 91
113860712 GTGTGGTTGA
*
113860722 AGAGTCTTTCTAGATGTTGAAGATATACTTAAAAGAATGATAAGAAAAAAAGTGAAGGAAGAAGA
1 AGAGTCTTTCTAGATGTCGAAGATATACTTAAAAGAATGATAAGAAAAAAAGTGAAGGAAGAAGA
* *
113860787 ATACCTCTCTTTGAGGTGGGTGGAGG
66 ATACCTATCCTTGAGGTGGGTGGAGG
* * *
113860813 AGAGTCTTTTTAGATGTCGAAGATATACTTAGAAA-AATGATAAGAAAAAAAGTGGAGGAATAAG
1 AGAGTCTTTCTAGATGTCGAAGATATACTTA-AAAGAATGATAAGAAAAAAAGTGAAGGAAGAAG
*
113860877 CATACCTATCCTTGAGGTGGG
65 AATACCTATCCTTGAGGTGGG
113860898 AGAAGAGTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
91 74 0.96
92 3 0.04
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (91 bp):
AGAGTCTTTCTAGATGTCGAAGATATACTTAAAAGAATGATAAGAAAAAAAGTGAAGGAAGAAGA
ATACCTATCCTTGAGGTGGGTGGAGG
Found at i:113869827 original size:37 final size:39
Alignment explanation
Indices: 113869718--113869936 Score: 277
Period size: 40 Copynumber: 5.6 Consensus size: 39
113869708 TCGAATGATG
* * *
113869718 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* *
113869758 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
113869798 TCCGAGCTAAG-CCCGAA-GCATTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
113869835 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
*
113869873 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTA-AA
*
113869914 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
113869937 TGAACGAGTA
Statistics
Matches: 160, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
37 33 0.21
38 32 0.20
39 17 0.11
40 69 0.43
41 9 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:113869969 original size:79 final size:77
Alignment explanation
Indices: 113869718--113869971 Score: 225
Period size: 79 Copynumber: 3.3 Consensus size: 77
113869708 TCGAATGATG
* * * * * * *
113869718 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAA-ATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTGTGC-GAGTTACTAATA-CCGGGCTAAG-CCCGAAGGCA-T
*
113869782 TGTGCGAGTTACTAAT
62 TGTGCGAGTTACTAAA
* * * *
113869798 TCCGAGCT-AAGCCCGAA-GCATTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGTG
1 TCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGTG
113869861 CGAGTTACTAAA
66 CGAGTTACTAAA
* *
113869873 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCA-TTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
113869937 -TGAACGAG-TAGCTATA
63 GTG--CGAGTTA-CTAAA
*
113869953 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
113869972 TACGTGATTC
Statistics
Matches: 146, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
75 22 0.15
76 16 0.11
77 22 0.15
78 33 0.23
79 35 0.24
80 18 0.12
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
TCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGTG
CGAGTTACTAAA
Found at i:113877888 original size:38 final size:39
Alignment explanation
Indices: 113877779--113877996 Score: 259
Period size: 38 Copynumber: 5.6 Consensus size: 39
113877769 TCGAATGATG
* * * *
113877779 TCCGGGCTAAGT-CCGAA-GCTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAT
*
113877817 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAT
*
113877857 TCCGAGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
*
113877895 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
*
113877933 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAT
* *
113877972 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
113877997 TGAACGAGTA
Statistics
Matches: 159, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 73 0.46
39 28 0.18
40 52 0.33
41 6 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
Found at i:113877963 original size:78 final size:79
Alignment explanation
Indices: 113877779--113877996 Score: 261
Period size: 78 Copynumber: 2.8 Consensus size: 79
113877769 TCGAATGATG
* * * * *
113877779 TCCGGGCTAAGT-CCGAA-GC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATTCCGGGCTAAGACCCGAAGGCA-T
*
113877841 TGTGCGAGTTACTAAT
64 TGTGCGAGTTACTAAA
*
113877857 TCCGAGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAATTCCGGGCTAAG-CCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGACCCGAAGGCATTG
113877919 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
* * * *
113877933 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGACCCGAAGGCATT
113877997 TGAACGAGTA
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
76 25 0.20
77 21 0.17
78 56 0.46
79 20 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGACCCGAAGGCATTG
TGCGAGTTACTAAA
Found at i:113878029 original size:79 final size:77
Alignment explanation
Indices: 113877830--113878031 Score: 225
Period size: 79 Copynumber: 2.6 Consensus size: 77
113877820 GGACTAAGAT
* * * *
113877830 CCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCT-AAGCCCGAAGGCATTGTGCGAGTTACTAA
1 CCGAAGGCA-TTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAA
*
113877894 TTCCGGGCTAAGC
65 TACCGGGCTAAGC
*
113877907 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-A
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCA-TTGTGCGAGTTACTAA
*
113877971 TAACCGGGCTATGTC
65 T-ACCGGGCTAAG-C
* *
113877986 CCGAAGGCATT-TGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTGTG--CGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
113878032 TACGTGATTC
Statistics
Matches: 108, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
76 22 0.20
77 22 0.20
78 25 0.23
79 28 0.26
80 11 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAAT
ACCGGGCTAAGC
Found at i:113883391 original size:48 final size:48
Alignment explanation
Indices: 113883299--113883391 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
113883289 TGATTAACGA
* * *
113883299 GATCCCGTGTAAGACCATGTCTGGGACATGGCGTCGGCATCGATACGC
1 GATCCCGTGTAAGACCATATCAGGGACATGGCGTCGGCACCGATACGC
* * * *
113883347 GATCCCGTGTAAGATCATATCAGGGATATGGCTTTGGCACCGATA
1 GATCCCGTGTAAGACCATATCAGGGACATGGCGTCGGCACCGATA
113883392 AATGATTTCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (48 bp):
GATCCCGTGTAAGACCATATCAGGGACATGGCGTCGGCACCGATACGC
Found at i:113883476 original size:90 final size:90
Alignment explanation
Indices: 113883382--113883551 Score: 209
Period size: 90 Copynumber: 1.9 Consensus size: 90
113883372 ATATGGCTTT
* *
113883382 GGCACCGA-TAAATGA-TTTCGTATAAGACCATGTTTGGGACATGAAATCGATATGAAGTCCCAT
1 GGCACCGATTAAA-GACTTT-GTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCAC
113883445 ATAAGACCATGTCTGGGGCATGGCGTC
64 ATAAGACCATGTCTGGGGCATGGCGTC
* ** * * * * **
113883472 GGCACTGATTCGAGACTTTGTATAAGACTATATTTGGGATATGGAATCGATGTGTGGTCCCACAT
1 GGCACCGATTAAAGACTTTGTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCACAT
113883537 AAGACCATGTCTGGG
66 AAGACCATGTCTGGG
113883552 ACATAGCTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
90 62 0.93
91 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (90 bp):
GGCACCGATTAAAGACTTTGTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCACAT
AAGACCATGTCTGGGGCATGGCGTC
Found at i:113884008 original size:9 final size:9
Alignment explanation
Indices: 113883994--113884061 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
113883984 ATAAGTATAA
*
113883994 AATTAATCG
1 AATTAACCG
* *
113884003 AATTAATCA
1 AATTAACCG
113884012 AATTAACCG
1 AATTAACCG
113884021 AATT-ACTCG
1 AATTAAC-CG
* *
113884030 AATTACCCA
1 AATTAACCG
113884039 AATTAACCG
1 AATTAACCG
113884048 AATTAACCG
1 AATTAACCG
113884057 AATTA
1 AATTA
113884062 TTTGTGTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 2 0.04
9 47 0.94
10 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:113884024 original size:27 final size:27
Alignment explanation
Indices: 113883994--113884061 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
113883984 ATAAGTATAA
*
113883994 AATTAATCGAATTAATCAAATTAACCG
1 AATTAATCGAATTAACCAAATTAACCG
* *
113884021 AATTACTCGAATTACCCAAATTAACCG
1 AATTAATCGAATTAACCAAATTAACCG
*
113884048 AATTAACCGAATTA
1 AATTAATCGAATTA
113884062 TTTGTGTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTAATCGAATTAACCAAATTAACCG
Found at i:113887008 original size:51 final size:49
Alignment explanation
Indices: 113886887--113887173 Score: 308
Period size: 49 Copynumber: 5.8 Consensus size: 49
113886877 GCCGAAGCTA
* * * *
113886887 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-ACAGT
* * *
113886936 TCTGGTACACGTATTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG--T
* * ** *
113886987 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCAACAG-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-ACAGT
* * *
113887036 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACA-GT
** ** *
113887086 TCTAATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG--T
*
113887137 TCGGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
113887174 TGCGACCTCA
Statistics
Matches: 196, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
48 6 0.03
49 75 0.38
50 42 0.21
51 69 0.35
52 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAGT
Found at i:113887015 original size:100 final size:99
Alignment explanation
Indices: 113886890--113887173 Score: 363
Period size: 100 Copynumber: 2.8 Consensus size: 99
113886880 GAAGCTATCT
* *
113886890 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAGTCTGGTACACGTATTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
* **
113886955 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGACCACA-CCTTCG
*
113886990 GGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCAACAGTCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
* *
113887055 TGCACTTAGTACTACACACGTGACCTCACCTTCT
66 TGCACTTAGTACTACACACGTGACCACACCTTCG
** *** * * * * *
113887089 AATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACACATAGTA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCTGGTACACGTAGTA
113887153 GCCTGCACTTAGTACTACACA
63 GCCTGCACTTAGTACTACACA
113887174 TGCGACCTCA
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
98 4 0.02
99 35 0.22
100 88 0.54
101 35 0.22
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCACACCTTCG
Found at i:113887157 original size:150 final size:149
Alignment explanation
Indices: 113886887--113887180 Score: 453
Period size: 150 Copynumber: 2.0 Consensus size: 149
113886877 GCCGAAGCTA
* * * ** *
113886887 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAGTCTGGTACACGTATTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACGTAGTA
*
113886952 GCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTA
66 GCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACATAGTAGCCTGCACTTAGTA
*
113887017 CTACACTTGCGACCAACAG
131 CTACACATGCGACCAACAG
* * * ** *
113887036 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCTTCTAATACATGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACAGTCTAATACACGTAGT
113887101 AGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACATAGTAGCCTGCACTTAGT
65 AGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACATAGTAGCCTGCACTTAGT
113887166 ACTACACATGCGACC
130 ACTACACATGCGACC
113887181 TCAGAATAGA
Statistics
Matches: 130, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
149 39 0.30
150 91 0.70
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (149 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACGTAGTA
GCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACATAGTAGCCTGCACTTAGTA
CTACACATGCGACCAACAG
Found at i:113890555 original size:28 final size:27
Alignment explanation
Indices: 113890491--113890555 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
113890481 AAAATATAGG
113890491 AAATTATTTTATATTAAACAATAATTAA
1 AAATTA-TTTATATTAAACAATAATTAA
*
113890519 AATAATATTTATATTAAA-AATAATATAA
1 AA-ATTATTTATATTAAACAATAAT-TAA
113890547 TAAATTATT
1 -AAATTATT
113890556 AAAAAAGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 6 0.19
28 21 0.66
29 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATTATTTATATTAAACAATAATTAA
Found at i:113890560 original size:23 final size:26
Alignment explanation
Indices: 113890502--113890561 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
113890492 AATTATTTTA
*
113890502 TATTAAACAATAATTAAAATAATATT
1 TATTAAAAAATAATTAAAATAATATT
* *
113890528 TATATTAAAAATAA-TATAATAA-A-T
1 TAT-TAAAAAATAATTAAAATAATATT
113890552 TATTAAAAAA
1 TATTAAAAAA
113890562 GTGAAAGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 6 0.21
24 4 0.14
25 1 0.03
26 10 0.34
27 8 0.28
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
TATTAAAAAATAATTAAAATAATATT
Found at i:113891861 original size:2 final size:2
Alignment explanation
Indices: 113891854--113891892 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
113891844 CTATGGTCTT
113891854 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
113891893 TATATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:113891897 original size:2 final size:2
Alignment explanation
Indices: 113891892--113891930 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
113891882 ACACACACAC
113891892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
113891931 CTGCAATGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:113896821 original size:29 final size:29
Alignment explanation
Indices: 113896755--113896853 Score: 139
Period size: 29 Copynumber: 3.4 Consensus size: 29
113896745 AATTTCACAT
113896755 ACCTGTATATGGCCCATTAAGCCC-AATC
1 ACCTGTATATGGCCCATTAAGCCCAAATC
*
113896783 ATCT-TCATATGGCCCATTAAGCCCAAATC
1 ACCTGT-ATATGGCCCATTAAGCCCAAATC
*
113896812 ACCTGTATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATC
* *
113896841 ACATTTATATGGC
1 ACCTGTATATGGC
113896854 TCGTTAGACC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.02
28 21 0.33
29 40 0.63
30 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAAGCCCAAATC
Found at i:113896865 original size:29 final size:29
Alignment explanation
Indices: 113896760--113896878 Score: 104
Period size: 29 Copynumber: 4.2 Consensus size: 29
113896750 CACATACCTG
113896760 TATATGGCCCATTA-AGCCC-AATCATC-TT
1 TATATGGCCCATTAGA-CCCAAATCA-CATT
* * *
113896788 CATATGGCCCATTA-AGCCCAAATCACCTG
1 TATATGGCCCATTAGA-CCCAAATCACATT
*
113896817 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGACCCAAATCACATT
* * *
113896846 TATATGGCTCGTTAGACCC-AGTCACATT
1 TATATGGCCCATTAGACCCAAATCACATT
*
113896874 CATAT
1 TATAT
113896879 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 31 0.40
29 46 0.60
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGACCCAAATCACATT
Found at i:113897118 original size:24 final size:24
Alignment explanation
Indices: 113897089--113897139 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
113897079 GTAGCCAAAC
* * *
113897089 TTTCGACTTTTTGGTATTTCGACT
1 TTTCGACTTTTCGGCATCTCGACT
113897113 TTTCGACTTTTCGGCATCTCGACT
1 TTTCGACTTTTCGGCATCTCGACT
113897137 TTT
1 TTT
113897140 GCCGGTACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.22, G:0.16, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCGGCATCTCGACT
Found at i:113898573 original size:18 final size:19
Alignment explanation
Indices: 113898547--113898587 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
113898537 GGCCTCTCGG
113898547 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
113898565 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
113898584 CGGT
1 CGGT
113898588 CCATGATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:113900435 original size:28 final size:29
Alignment explanation
Indices: 113900403--113900460 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
113900393 TACCTGTATC
* *
113900403 TGGCCCATTAAG-CCTAATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
*
113900431 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
113900460 T
1 T
113900461 TCATGCTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:113906182 original size:43 final size:43
Alignment explanation
Indices: 113906134--113906456 Score: 555
Period size: 43 Copynumber: 7.6 Consensus size: 43
113906124 CCGGCATTAC
113906134 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
113906177 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
113906220 GCCTGCTAGGCACGAAGGCCCGAA-ATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
**
113906262 G-CTGCTAGGCACGAAGG-CCGAATACACATCACCGGCATAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
113906303 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
113906346 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
113906389 GCCTACTAGGC-CGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
113906431 GCCTGCTAGGCATGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
113906457 TAATACCAGC
Statistics
Matches: 263, Mismatches: 13, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
40 5 0.02
41 32 0.12
42 74 0.28
43 152 0.58
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:113906412 original size:85 final size:86
Alignment explanation
Indices: 113906134--113906456 Score: 555
Period size: 85 Copynumber: 3.8 Consensus size: 86
113906124 CCGGCATTAC
113906134 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
*
113906199 AATACACATCACCAGCACGAA
66 AATACACATCACCGGCACGAA
*
113906220 GCCTGCTAGGCACGAAGGCCCGAA-ATACATCACCGGCACGAAG-CTGCTAGGCACGAAGG-CCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
**
113906282 AATACACATCACCGGCATAAA
66 AATACACATCACCGGCACGAA
*
113906303 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
113906368 AATACACATCACCGGCACGAA
66 AATACACATCACCGGCACGAA
* *
113906389 GCCTACTAGGC-CGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
113906453 AATA
66 AATA
113906457 TAATACCAGC
Statistics
Matches: 223, Mismatches: 11, Indels: 7
0.93 0.05 0.03
Matches are distributed among these distances:
83 45 0.20
84 33 0.15
85 89 0.40
86 56 0.25
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (86 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
AATACACATCACCGGCACGAA
Found at i:113906421 original size:169 final size:171
Alignment explanation
Indices: 113906121--113906456 Score: 579
Period size: 169 Copynumber: 2.0 Consensus size: 171
113906111 ACATATCATT
* *
113906121 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 TCACCGGCATAAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
* *
113906186 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGCCCGAAATACATC
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTACTAGGCACGAAGGCCCGAAACACATC
113906251 ACCGGCACGAAG-CTGCTAGGCACGAAGG-CCGAATACACA
131 ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
113906290 TCACCGGCATAAAGCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTAG
1 TCACCGGCATAAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
113906355 GCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTAGGC-CGAAGGCCCGAATACACAT
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTACTAGGCACGAAGGCCCGAA-ACACAT
*
113906419 CACCGGCACGAAGCCTGCTAGGCATGAAGGCCCGAATA
130 CACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
113906457 TAATACCAGC
Statistics
Matches: 157, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
168 12 0.08
169 123 0.78
170 15 0.10
171 7 0.04
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (171 bp):
TCACCGGCATAAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTACTAGGCACGAAGGCCCGAAACACATC
ACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:113906497 original size:38 final size:38
Alignment explanation
Indices: 113906449--113906556 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
113906439 GGCATGAAGG
* * * *
113906449 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
113906487 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
113906525 CCCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
113906557 TCTTTAAGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:113910214 original size:48 final size:48
Alignment explanation
Indices: 113910154--113910256 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
113910144 GTCCAACTAT
* * * *
113910154 GGTCTTATACTAGCTCTGCTCT-GCCCGTGCTGATGCCTATTCCC-GATA
1 GGTCTTACACTAGCACT-CACTGGCCCGTGCCGATGCCTA-TCCCAGATA
* *
113910202 GGTCTTACACTAGCACTCACTGGGCTGTGCCGATGCCTATCCCAGATA
1 GGTCTTACACTAGCACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
113910250 GGTCTTA
1 GGTCTTA
113910257 AGCTTAGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 7 0.15
48 40 0.85
ACGTcount: A:0.17, C:0.30, G:0.22, T:0.30
Consensus pattern (48 bp):
GGTCTTACACTAGCACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
Found at i:113911933 original size:43 final size:43
Alignment explanation
Indices: 113911885--113912122 Score: 437
Period size: 43 Copynumber: 5.6 Consensus size: 43
113911875 CCGGCATTAC
113911885 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
113911928 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
113911971 GCCTGCTAGGCACGAAGGCCCGAAT--ACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
113912012 G-CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
113912054 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
113912097 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
113912123 TAATACCAGC
Statistics
Matches: 188, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
40 23 0.12
41 15 0.08
42 17 0.09
43 133 0.71
ACGTcount: A:0.31, C:0.34, G:0.26, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:113912112 original size:126 final size:126
Alignment explanation
Indices: 113911887--113912122 Score: 454
Period size: 126 Copynumber: 1.9 Consensus size: 126
113911877 GGCATTACGC
113911887 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAA
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAA
113911952 TACACATCACCAGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATCACCGGCACGAAG
66 TACACATCACCAGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATCACCGGCACGAAG
113912013 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAA
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAA
* *
113912078 TACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
66 TACACATCACCAGCACAAAGCCTGCTAGGCACGAAGGCCCGAATA
113912123 TAATACCAGC
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 108 1.00
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.10
Consensus pattern (126 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAA
TACACATCACCAGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATCACCGGCACGAAG
Found at i:113912217 original size:37 final size:38
Alignment explanation
Indices: 113912115--113912237 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
113912105 GGCACGAAGG
* * * * *
113912115 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
113912153 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
113912191 CCCGGATATTTTA-CAGCATGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
113912229 GCCCGGATA
1 -CCCGGATA
113912238 CACATCAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
37 17 0.24
38 47 0.65
39 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:113917077 original size:50 final size:50
Alignment explanation
Indices: 113917018--113917118 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
113917008 TCAAAACATA
*
113917018 CCTTAATCAAGATATATGCTAGTCGAAACCTAAAACACCAAAAATAGCTT
1 CCTTAATCAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
**
113917068 CCTTAATCAAGATATATGCTAGCCGAGCCCTAAAACACCAAAAATAGCTT
1 CCTTAATCAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
113917118 C
1 C
113917119 TTCTTCTTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.23
Consensus pattern (50 bp):
CCTTAATCAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
Found at i:113927644 original size:22 final size:21
Alignment explanation
Indices: 113927598--113927673 Score: 72
Period size: 22 Copynumber: 3.8 Consensus size: 21
113927588 AATTGATTGT
113927598 TATTATTATTATTATT-TC--
1 TATTATTATTATTATTATCGA
** **
113927616 TATTATTATTA-T-TCCTCTT
1 TATTATTATTATTATTATCGA
113927635 TATTATTATTATCTATTATCGA
1 TATTATTATTAT-TATTATCGA
113927657 TATTATTATTATTATTA
1 TATTATTATTATTATTA
113927674 CTGTTATTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.02
17 3 0.06
18 11 0.23
19 11 0.23
21 6 0.13
22 15 0.32
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTATTATTATTATTATCGA
Done.