Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 113 of 196
Found at i:34293356 original size:49 final size:49
Alignment explanation
Indices: 34293279--34293378 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 49
34293269 TACGGAGCAA
* * * *
34293279 GTATCTGGCAGTAAATCTACATTTTCTGGTAGCTTGTCCACATTATTCT
1 GTATCTGGCAGTAAATCTACAATATCTGGTAGCTTGACCACACTATTCT
* * * * *
34293328 GTATCTTGCAGTAAATTTGCAATATCTGGTGGTTTGACCACACTATTCT
1 GTATCTGGCAGTAAATCTACAATATCTGGTAGCTTGACCACACTATTCT
34293377 GT
1 GT
34293379 TTCTAGAAAC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (49 bp):
GTATCTGGCAGTAAATCTACAATATCTGGTAGCTTGACCACACTATTCT
Found at i:34294777 original size:107 final size:106
Alignment explanation
Indices: 34294492--34294819 Score: 534
Period size: 107 Copynumber: 3.1 Consensus size: 106
34294482 ATAACATGGA
*
34294492 TTGAAA-TTTAAGAGGATATTTGGGC-ATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
1 TTGAAATTTTAAAAGGATATTT-GGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
* * * * *
34294555 GCACGTTTTCTTGAATTTCCAAACGTAAAATATTACCTTGCT
65 GCACGTTTTCTCGATTTTCCAAACGCAAAATATTGCCTTACT
34294597 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
**
34294662 CACGTTTTCTCGATTTTTTAAACGCAAAATATTGCCTTACT
66 CACGTTTTCTCGATTTTCCAAACGCAAAATATTGCCTTACT
* *
34294703 TTGAAATTTTAAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTACG
1 TTGAAATTTT-AAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGG
34294768 GCACGTTTTCTCGATTTTCCAAACGCAAAATATTGCCTTACT
65 GCACGTTTTCTCGATTTTCCAAACGCAAAATATTGCCTTACT
34294810 TTGAAATTTT
1 TTGAAATTTT
34294820 TGAATTAGAA
Statistics
Matches: 208, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
105 9 0.04
106 97 0.47
107 102 0.49
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (106 bp):
TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
CACGTTTTCTCGATTTTCCAAACGCAAAATATTGCCTTACT
Found at i:34296988 original size:44 final size:44
Alignment explanation
Indices: 34296940--34297342 Score: 139
Period size: 44 Copynumber: 9.3 Consensus size: 44
34296930 TCTATTGTAG
** *
34296940 CTTCAGGGAGATAGGATTAATAGCTTCAATTTGCTCCGCTACAA
1 CTTCAGGGAGATAGGATTAATAGCTTCAACCTGCTCCACTACAA
** * *
34296984 CTTCAGGGAGATAGGATTGGTATCTTCAACCTGCTCCACTGCAA
1 CTTCAGGGAGATAGGATTAATAGCTTCAACCTGCTCCACTACAA
* * * *
34297028 CTTCAGGGAGATAAGGCTTGAT-GC-T-ATA--TGCTCTACTGCAA
1 CTTCAGGGAGAT-AGGATTAATAGCTTCA-ACCTGCTCCACTACAA
** * * * * * * *
34297069 CTTCAGAAAGATAAGATCT-GTGGTTTTAATCTGCTCCACTGCAA
1 CTTCAGGGAGATAGGAT-TAATAGCTTCAACCTGCTCCACTACAA
* * * * * * * *
34297113 CTTCAGGGAGATA--A--AACTGGATGCGATCTACTCTACTGCAA
1 CTTCAGGGAGATAGGATTAA-TAGCTTCAACCTGCTCCACTACAA
* * * * * *
34297154 CTTCAGAGAGATAAGATCT-ATGGTTTTAATCC-GCTCCACTGCAA
1 CTTCAGGGAGATAGGAT-TAATAGCTTCAA-CCTGCTCCACTACAA
** ** *** *
34297198 CTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAA
1 CTTCAGGGAGATAGGATTAATAGCTTCAACCTGCTCCACTACAA
* * * * * * * *
34297242 CTTCAGAGAGATAAGATCT-GTGGTTTTAATCTGCTCCACTGCAA
1 CTTCAGGGAGATAGGAT-TAATAGCTTCAACCTGCTCCACTACAA
* ** *** *
34297286 CTTCAGAGAGATAGGATTAATTTCTTCTGTCTGCTCCACTGCAA
1 CTTCAGGGAGATAGGATTAATAGCTTCAACCTGCTCCACTACAA
34297330 CTTCAGGGAGATA
1 CTTCAGGGAGATA
34297343 AGACTAGATG
Statistics
Matches: 277, Mismatches: 62, Indels: 40
0.73 0.16 0.11
Matches are distributed among these distances:
40 4 0.01
41 54 0.19
42 4 0.01
43 7 0.03
44 198 0.71
45 10 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTCAGGGAGATAGGATTAATAGCTTCAACCTGCTCCACTACAA
Found at i:34297032 original size:88 final size:87
Alignment explanation
Indices: 34296940--34297347 Score: 397
Period size: 88 Copynumber: 4.7 Consensus size: 87
34296930 TCTATTGTAG
* * * * * * *
34296940 CTTCAGGGAGATAGGATTAATAGCTTCAATTTGCTCCGCTACAACTTCAGGGAGATAGGA-T-TG
1 CTTCAGGGAGATAGGATTAATTGCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGTG
34297003 GTATCTTCAACCTGCTCCACTGCAA
66 GT-T-TT-AACCTGCTCCACTGCAA
* * * * *
34297028 CTTCAGGGAGATAAGGCTTGA-TG---CTATATGCTCTACTGCAACTTCAGAAAGATAAGATCTG
1 CTTCAGGGAGAT-AGGATTAATTGCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTG
*
34297089 TGGTTTTAATCTGCTCCACTGCAA
64 TGGTTTTAACCTGCTCCACTGCAA
* * * * * * *
34297113 CTTCAGGGAGATA--A--AACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTA
1 CTTCAGGGAGATAGGATTAA-TTGCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTG
34297174 TGGTTTTAATCC-GCTCCACTGCAA
64 TGGTTTTAA-CCTGCTCCACTGCAA
** * *
34297198 CTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGT
1 CTTCAGGGAGATAGGATTAATTGCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTGT
*
34297263 GGTTTTAATCTGCTCCACTGCAA
65 GGTTTTAACCTGCTCCACTGCAA
* * * *
34297286 CTTCAGAGAGATAGGATTAATTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 CTTCAGGGAGATAGGATTAATTGCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGACT
34297348 AGATGCGATC
Statistics
Matches: 268, Mismatches: 37, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
80 1 0.00
82 1 0.00
84 1 0.00
85 121 0.45
86 3 0.01
87 6 0.02
88 129 0.48
89 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (87 bp):
CTTCAGGGAGATAGGATTAATTGCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGTG
GTTTTAACCTGCTCCACTGCAA
Found at i:34297103 original size:85 final size:85
Alignment explanation
Indices: 34297014--34297298 Score: 394
Period size: 85 Copynumber: 3.3 Consensus size: 85
34297004 TATCTTCAAC
* *
34297014 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGATGCTATATGCTCTACTGCAACTTCAGAAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGATGCTATCTGCTCTACTGCAACTTCAGAGAG
34297079 ATAAGATCTGTGGTTTTAAT
66 ATAAGATCTGTGGTTTTAAT
** * * *
34297099 CTGCTCCACTGCAACTTCAGGGAGATAAAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGATGCTATCTGCTCTACTGCAACTTCAGAGAG
*
34297164 ATAAGATCTATGGTTTTAAT
66 ATAAGATCTGTGGTTTTAAT
* * * *
34297184 CCGCTCCACTGCAACTTCAGGGAGAT-AGGATTGGTTTCT-TCTGTCTGCTCCACTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTT-GATGCTATCTG-CT-CT--ACTGCAACTTCA
34297247 GAGAGATAAGATCTGTGGTTTTAAT
61 GAGAGATAAGATCTGTGGTTTTAAT
*
34297272 CTGCTCCACTGCAACTTCAGAGAGATA
1 CTGCTCCACTGCAACTTCAGGGAGATA
34297299 GGATTAATTT
Statistics
Matches: 174, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
84 5 0.03
85 107 0.61
86 2 0.01
88 60 0.34
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (85 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGATGCTATCTGCTCTACTGCAACTTCAGAGAG
ATAAGATCTGTGGTTTTAAT
Found at i:34308854 original size:93 final size:95
Alignment explanation
Indices: 34308693--34309085 Score: 349
Period size: 106 Copynumber: 3.9 Consensus size: 95
34308683 AATTTAAGAG
* * * *
34308693 GATATTTGGCAATTTGGTCGAACGAGAAATCAAAACCCAGTACATTAGGGTACGTTTTCTCGAAT
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
*
34308758 TTCCAAACGTAAAATATTACCTTGCTTT-A
66 TTCCAAACGCAAAATATTACCTTGCTTTAA
* * * * *
34308787 -ATATTTAGCTATTTGGTCGAACGAGAAATCGACACCCAGCACCTTAGGGCACATTTTCTCGATT
1 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
* * *
34308851 TTCCAAACACAAAATATTGCCTTACTTTGAAATTTTAAAA
66 TTCCAAACGCAAAATA-----TTACCTTG---CTTT--AA
* *
34308891 GGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGAGCACGTTTTCTCGAA
1 -GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
*
34308956 TTTCCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAA
65 TTTCCAAACGCAAAATATTACCTTGC--------TTT--AA
* * ** * * *
34308997 GGATATTTGGCTATTTGGTCAAAAGAGAAATCGAAACCCAATACGTTAGGGCAAGTTTTCTCGAT
1 -GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAA
* *
34309062 TTTCGAAACGCAAAATATTGCCTT
65 TTTCCAAACGCAAAATATTACCTT
34309086 TGAAATTTTT
Statistics
Matches: 247, Mismatches: 31, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
93 69 0.28
98 7 0.03
101 9 0.04
104 1 0.00
106 161 0.65
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (95 bp):
GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAAT
TTCCAAACGCAAAATATTACCTTGCTTTAA
Found at i:34308972 original size:106 final size:106
Alignment explanation
Indices: 34308787--34309085 Score: 472
Period size: 106 Copynumber: 2.8 Consensus size: 106
34308777 CCTTGCTTTA
* * * *
34308787 ATATTTAGCTATTTGGTCGAACGAGAAATCGACACCCAGCACCTTAGGGCACATTTTCTCGATTT
1 ATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATTT
*
34308852 TCCAAACACAAAATATTGCCTTACTTTGAAATTTTAAAAGG
66 TCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAGG
* *
34308893 ATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGAGCACGTTTTCTCGAATT
1 ATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATTT
*
34308958 TCCAAACGCAAAATATTGCCTTGCTTTGAAATTTTAAAAGG
66 TCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAGG
* * ** *
34308999 ATATTTGGCTATTTGGTCAAAAGAGAAATCGAAACCCAATACGTTAGGGCAAGTTTTCTCGATTT
1 ATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATTT
*
34309064 TCGAAACGCAAAATATTGCCTT
66 TCCAAACGCAAAATATTGCCTT
34309086 TGAAATTTTT
Statistics
Matches: 177, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 177 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (106 bp):
ATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATTT
TCCAAACGCAAAATATTGCCTTACTTTGAAATTTTAAAAGG
Found at i:34311151 original size:16 final size:16
Alignment explanation
Indices: 34311132--34311195 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
34311122 CCTTAGACTT
34311132 TGAAAACTATAGATTC
1 TGAAAACTATAGATTC
* *
34311148 TGAAAACTAT--ACTG
1 TGAAAACTATAGATTC
34311162 TG-AAACTATAGATTC
1 TGAAAACTATAGATTC
*
34311177 -GAAAAACTATAGATAC
1 TG-AAAACTATAGATTC
34311193 TGA
1 TGA
34311196 TACTCTAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
13 7 0.18
14 5 0.13
15 2 0.05
16 23 0.61
17 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.28
Consensus pattern (16 bp):
TGAAAACTATAGATTC
Found at i:34312071 original size:24 final size:25
Alignment explanation
Indices: 34312040--34312088 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
34312030 TAGTGGAGAA
34312040 AACCAAAA-TTTGGAGGAAGTGAAG
1 AACCAAAATTTTGGAGGAAGTGAAG
34312064 AACCAAAATTTTGGAGGAAGTGAAG
1 AACCAAAATTTTGGAGGAAGTGAAG
34312089 CGTTTGGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.45, C:0.08, G:0.29, T:0.18
Consensus pattern (25 bp):
AACCAAAATTTTGGAGGAAGTGAAG
Found at i:34319865 original size:26 final size:26
Alignment explanation
Indices: 34319833--34319896 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
34319823 ACAAATTTTC
*
34319833 TCAAAATTTTACCGAGGGTAAAATTG
1 TCAAAATTTTACCGAGGGTAAAATCG
* **
34319859 TTAAAATTTTGTCGAGGGTAAAATCG
1 TCAAAATTTTACCGAGGGTAAAATCG
*
34319885 TCAAATTTTTAC
1 TCAAAATTTTAC
34319897 AATAGTAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (26 bp):
TCAAAATTTTACCGAGGGTAAAATCG
Found at i:34326491 original size:40 final size:41
Alignment explanation
Indices: 34326341--34326492 Score: 202
Period size: 40 Copynumber: 3.8 Consensus size: 41
34326331 TATTACCACA
* * * *
34326341 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
* *
34326381 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
* *
34326421 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
*
34326461 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATC
34326493 TCATTCAAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
40 96 0.96
41 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
Found at i:34328709 original size:101 final size:101
Alignment explanation
Indices: 34328594--34328778 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 101
34328584 AAAGTGATGG
** *
34328594 TCACGTGTGAAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-ATGGGTCGCATGTGTAGC
1 TCACGTGTGAAGTACTATGTGCAGGCTACTACATGTACCGG-ATGGAAT-GGTCACATGTGTAGC
34328657 ACTATGTGTAGG-CTACTATGCGTACCGGATAGTTTCGA
64 ACTATGTGTAGGAC-ACTATGCGTACCGGATAGTTTCGA
* * *
34328695 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGAAGTACTATGTGCAGGCTACTACATGTACCGGATGG-AATGGTCACATGTGTAGCA
34328760 CTATGTGTAGGACACTATG
65 CTATGTGTAGGACACTATG
34328779 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
100 2 0.03
101 38 0.51
102 31 0.42
103 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (101 bp):
TCACGTGTGAAGTACTATGTGCAGGCTACTACATGTACCGGATGGAATGGTCACATGTGTAGCAC
TATGTGTAGGACACTATGCGTACCGGATAGTTTCGA
Found at i:34328737 original size:51 final size:51
Alignment explanation
Indices: 34328590--34328785 Score: 193
Period size: 51 Copynumber: 3.9 Consensus size: 51
34328580 ATTGAAAGTG
* * *
34328590 ATGGTCACGTGTGAAGTACTATGTGCAGGCTACTATGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTA
* * * *
34328639 ATGGGTCGCATGTGTAGCACTATGTGTAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTA
* * * ** * *
34328690 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTA
* *
34328742 ATGGTCACATGTGTAGTACTATGTGTAGGAC-ACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGG-CTACTATGTGTACCG
34328786 AACATCACTG
Statistics
Matches: 116, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
49 2 0.02
50 38 0.33
51 73 0.63
52 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTA
Found at i:34336740 original size:25 final size:25
Alignment explanation
Indices: 34336707--34336815 Score: 87
Period size: 25 Copynumber: 4.4 Consensus size: 25
34336697 GTACATGTAT
*
34336707 GCTCATACGAGCTGTGAATTAGTAT
1 GCTCATACGAGCTGTGAATTAGTAA
* * * *
34336732 GCTCTTACGAGTTATAAATTAGTAA
1 GCTCATACGAGCTGTGAATTAGTAA
* * *
34336757 GCTCAGATGAGCTGAGAATCTA-TAA
1 GCTCATACGAGCTGTGAAT-TAGTAA
* * **
34336782 GCTCTTACGAGCTG-CAATCGGTAA
1 GCTCATACGAGCTGTGAATTAGTAA
34336806 GCTCATACGA
1 GCTCATACGA
34336816 CCTGAGTATC
Statistics
Matches: 63, Mismatches: 19, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
24 15 0.24
25 46 0.73
26 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (25 bp):
GCTCATACGAGCTGTGAATTAGTAA
Found at i:34336832 original size:25 final size:24
Alignment explanation
Indices: 34336754--34336834 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
34336744 TATAAATTAG
* * *
34336754 TAAGCTCAGATGAGCTGAGAATCTA
1 TAAGCTCATACGAGCTGAG-ATCGA
* *
34336779 TAAGCTCTTACGAGCTGCA-ATCGG
1 TAAGCTCATACGAGCTG-AGATCGA
*
34336803 TAAGCTCATACGACCTGAGTATCGA
1 TAAGCTCATACGAGCTGAG-ATCGA
34336828 TAAGCTC
1 TAAGCTC
34336835 TCGCAAGCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
23 1 0.02
24 18 0.40
25 25 0.56
26 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
TAAGCTCATACGAGCTGAGATCGA
Found at i:34336844 original size:49 final size:49
Alignment explanation
Indices: 34336753--34336848 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 49
34336743 TTATAAATTA
* * * * *
34336753 GTAAGCTCAGATGAGCTGAGAATCTATAAGCTCTTACGAGCTGCAATCG
1 GTAAGCTCAGACGACCTGAGAATCGATAAGCTCTCACAAGCTGCAATCG
* * *
34336802 GTAAGCTCATACGACCTGAGTATCGATAAGCTCTCGCAAGCTGCAAT
1 GTAAGCTCAGACGACCTGAGAATCGATAAGCTCTCACAAGCTGCAAT
34336849 TTGTAATCCC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (49 bp):
GTAAGCTCAGACGACCTGAGAATCGATAAGCTCTCACAAGCTGCAATCG
Found at i:34343156 original size:19 final size:19
Alignment explanation
Indices: 34343127--34343195 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
34343117 TTCTTTAGAT
*
34343127 TTTTTTTAAAATTTTATAA
1 TTTTTTAAAAATTTTATAA
*
34343146 TTTTTTAAAAA--ATATAA
1 TTTTTTAAAAATTTTATAA
* *
34343163 -ATTTTAAATTATTTTATAA
1 TTTTTTAAA-AATTTTATAA
* *
34343182 ATATTTAAAAATTT
1 TTTTTTAAAAATTT
34343196 AAAAATTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
16 7 0.18
17 6 0.16
19 19 0.50
20 6 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTTAAAAATTTTATAA
Found at i:34344803 original size:44 final size:45
Alignment explanation
Indices: 34344740--34345227 Score: 285
Period size: 44 Copynumber: 10.8 Consensus size: 45
34344730 TCATGGTGAA
*
34344740 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAG
* * ** *
34344784 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAG-CAAG
* * * * **
34344829 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTATAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC----CAGCA-AG
* * *
34344879 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA--AA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCAGCAAG
*
34344921 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAG
* * ** *
34344965 TCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAG
* * * * * *
34345010 TCTTATTTCCCTGAAGTAGCAGTGGAACAGA-TAAAGCTATAAATTACATA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC----CA--GCA-AG
* * * *
34345060 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA--AAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCAGCAAG
* * **
34345102 T-TTATCTCCCTAAAGTTGCAGTAGG-GCAGGTTGAAGTTA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCAGCAAG
* * * *
34345145 TCTTATCTACCTGAAGTTGCAGTGGAGCAGACTGAAG--ATGGAGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-GCA-AG
* * * *
34345190 TTTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
34345228 TATAAATTGA
Statistics
Matches: 345, Mismatches: 65, Indels: 66
0.72 0.14 0.14
Matches are distributed among these distances:
41 56 0.16
42 11 0.03
43 8 0.02
44 104 0.30
45 94 0.27
46 4 0.01
48 2 0.01
49 2 0.01
50 32 0.09
51 32 0.09
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCAAG
Found at i:34344936 original size:41 final size:41
Alignment explanation
Indices: 34344879--34345175 Score: 186
Period size: 41 Copynumber: 6.8 Consensus size: 41
34344869 TAAATTATAG
*
34344879 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * *
34344920 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA-A
* * *
34344963 AGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAA
1 A-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAA
* * * * * *
34345009 ATCTTATTTCCCTGAAGTAGCAGTGGAACAGATAAAGCTATAAATTACAT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT----C-AT--A--GCAA
*
34345059 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * * *
34345100 A-CTTTATCTCCCTAAAGTTGCAGTAGGGCAGGTTGA-AGTTACAA
1 ATC-TTATCTCCCTGAAGTTGCAGTAGAGCA-GATCATAG---CAA
* * *
34345144 GTCTTATCTACCTGAAGTTGCAGTGGAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
34345176 CTGAAGATGG
Statistics
Matches: 202, Mismatches: 34, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
40 1 0.00
41 60 0.30
42 7 0.03
43 4 0.02
44 57 0.28
45 31 0.15
46 5 0.02
47 4 0.02
48 3 0.01
50 30 0.15
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
Found at i:34345160 original size:180 final size:181
Alignment explanation
Indices: 34344738--34345235 Score: 797
Period size: 180 Copynumber: 2.8 Consensus size: 181
34344728 CATCATGGTG
* *
34344738 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACAAGTCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTG
**
34344803 CAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
66 CAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
*
34344868 ATAAATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
131 ATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
* *
34344919 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTCATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTG
*
34344984 CAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTAGCAGTGGAACAGA-TAAAGCT
66 CAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
*
34345048 ATAAATTACATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
131 ATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
* * ** *
34345099 AA-CTTTATCTCCCTAAAGTTGCAGTAGG-GCAGGTTGAAGTTACAAGTCTTATCTACCTGAAGT
1 AATC-TTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGT
* *
34345162 TGCAGTGGAGCAGACTGAAGAT-GGAGAATTTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
64 TGCAGTGGAGCAGACTGAAGATAGCA-AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
34345226 GCTATAAATT
128 GCTATAAATT
34345236 GAAGTGTTTT
Statistics
Matches: 294, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
179 3 0.01
180 160 0.54
181 131 0.45
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (181 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
ATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
Found at i:34346579 original size:50 final size:50
Alignment explanation
Indices: 34346504--34346693 Score: 222
Period size: 51 Copynumber: 3.8 Consensus size: 50
34346494 ATTATTATCA
* * * *
34346504 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACTT
* *
34346554 TTCGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAGC-C
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CTT
* *
34346604 TTCTGGTACACATAGTAGCCTGCACATAGTACTACACAAGTGACCATTA-TCT
1 TTC-GGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-AACT-T
* * * *
34346656 ATCGCTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACAC
34346694 ATGTTTATAG
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
50 45 0.38
51 72 0.60
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACTT
Found at i:34348215 original size:49 final size:45
Alignment explanation
Indices: 34348067--34348360 Score: 223
Period size: 44 Copynumber: 6.6 Consensus size: 45
34348057 TAAATTGCAG
* * *
34348067 ATCTTATCTCTCTGAAGTTGC-AGTAGAGCAGA-T-CA--TAGCAA
1 ATCTTATCTCCCTGAAGTTGCTAGTGGAGCAGATTGAAGTTA-CAA
* * *
34348108 ACCTTATCTCCCTGAAGTTG-TAGTGTAGCAGGTTGAAGTTACAA
1 ATCTTATCTCCCTGAAGTTGCTAGTGGAGCAGATTGAAGTTACAA
*
34348152 GTCTTATCTCCCTGAAGTTGCTA-TGGAGCAGATTGAAGACATGATACAA
1 ATCTTATCTCCCTGAAGTTGCTAGTGGAGCAGATTGAAG---T--TACAA
* * **
34348201 ATCTTATCTCCCTGAAGTTTC-AGTGGAGCAGATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCTAGTGGAGCAGATTGAAGTTACAA
* * * * * * *
34348245 ACCTTATATCCCTAAAGTTGC-AGTAGAGCCGATTGAAGATACTA
1 ATCTTATCTCCCTGAAGTTGCTAGTGGAGCAGATTGAAGTTACAA
* * * ** *
34348289 ATCTTATCTCGCTGAAGTTGC-AATGGAGCATATTGAAACTACTA
1 ATCTTATCTCCCTGAAGTTGCTAGTGGAGCAGATTGAAGTTACAA
* *
34348333 ATCCTACCTCCCTGAAGTTGC-AGTGGAG
1 ATCTTATCTCCCTGAAGTTGCTAGTGGAG
34348361 TGGATTAAAA
Statistics
Matches: 202, Mismatches: 39, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
41 26 0.13
42 1 0.00
43 1 0.00
44 130 0.64
45 4 0.02
47 1 0.00
48 1 0.00
49 38 0.19
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCTAGTGGAGCAGATTGAAGTTACAA
Found at i:34348279 original size:93 final size:93
Alignment explanation
Indices: 34348105--34348283 Score: 218
Period size: 93 Copynumber: 1.9 Consensus size: 93
34348095 CAGATCATAG
* * * ** ** * *
34348105 CAAACCTTATCTCCCTGAAGTTGTAGTGTAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAGT
*
34348170 TGCTATGGAGCAGATTGAAGACATGATA
66 TGCTATAGAGCAGATTGAAGACATGATA
*
34348198 CAAATCTTATCTCCCTGAAGTT-TCAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAG
1 CAAACCTTATCTCCCTGAAGTTGT-AGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAG
*
34348262 TTGC-AGTAGAGCCGATTGAAGA
65 TTGCTA-TAGAGCAGATTGAAGA
34348284 TACTAATCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (93 bp):
CAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAGT
TGCTATAGAGCAGATTGAAGACATGATA
Found at i:34348315 original size:137 final size:134
Alignment explanation
Indices: 34348067--34348356 Score: 333
Period size: 137 Copynumber: 2.2 Consensus size: 134
34348057 TAAATTGCAG
* * * * *
34348067 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGTAGT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGCAAACCTTATATCCCTAAAGTTGCAGT
* * *
34348132 GTAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCTATGGAGCAGATTGAAGACATGAT
66 GTAGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACATGAT
34348197 ACAA
131 ACAA
* * *
34348201 ATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAG---CAAACCTTATATCCCTAAAGTTGC
* * *
34348266 AGTAG-AGCCGATTGAAGATACTAA-TCTTATCTCGCTGAAGTTGCAATGGAGCATATTGAA-AC
63 AGT-GTAGCAGATTGAAGATAC-AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGAC
*
34348328 ----TACTA
126 ATGATACAA
* *
34348333 ATCCTACCTCCCTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
34348357 GGAGTGGATT
Statistics
Matches: 133, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
132 25 0.19
134 33 0.25
136 2 0.02
137 70 0.53
138 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (134 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGCAAACCTTATATCCCTAAAGTTGCAGT
GTAGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACATGAT
ACAA
Found at i:34348916 original size:13 final size:13
Alignment explanation
Indices: 34348898--34348922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34348888 ATCTCGTCGC
34348898 CCACTTGCACCGT
1 CCACTTGCACCGT
34348911 CCACTTGCACCG
1 CCACTTGCACCG
34348923 GCAAAAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.48, G:0.16, T:0.20
Consensus pattern (13 bp):
CCACTTGCACCGT
Found at i:34353681 original size:42 final size:42
Alignment explanation
Indices: 34353617--34353699 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
34353607 ATTTAAAAAG
34353617 TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGAA
1 TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGAA
*
34353659 TTAGTTGAAAGGTTCATTAAGATAGGCATCGTGAAGTTTGA
1 TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGA
34353700 CGATCCATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (42 bp):
TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGAA
Found at i:34355837 original size:41 final size:44
Alignment explanation
Indices: 34355780--34355894 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 44
34355770 AATTATAGAT
34355780 CTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCATAG-CA-AA-C
1 CTTATCTCTCTGAAGTTACAGTAGAGCAGATTCA-AGCCACAAGC
* * * * * *
34355821 CTTATCTCTATGAAGTTGCAGTGGAGCAAATTGAAGCCACAAGT
1 CTTATCTCTCTGAAGTTACAGTAGAGCAGATTCAAGCCACAAGC
34355865 CTTATCTCTCTGAAGTTACAGTAGAGCAGA
1 CTTATCTCTCTGAAGTTACAGTAGAGCAGA
34355895 CTGAAGATAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 28 0.47
42 4 0.07
43 2 0.03
44 26 0.43
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTACAGTAGAGCAGATTCAAGCCACAAGC
Found at i:34355879 original size:44 final size:43
Alignment explanation
Indices: 34355778--34356665 Score: 398
Period size: 44 Copynumber: 19.8 Consensus size: 43
34355768 TAAATTATAG
* * * *
34355778 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCATAG-CA-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
* ** *
34355819 ACCTTATCTCTATGAAGTTGCAGTGGAGCAAATTGAAGCCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * * * **
34355862 AGTCTTATCTCTCTGAAGTTACAGTAGAGCAGACTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C-A
* * * * * * *
34355908 ATCTTATTTCCCTGAAGTTGTAGTGCAACAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CA
** * *
34355952 ATTACAGATTCTATCTCCCTGAAGTTGCAGTCAAGAAGA-TCATAG-CA-A
1 A-T-C----T-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
* * * **
34356000 A-CATTATCTCTCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
**
34356043 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C-A
* * * *
34356089 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------CACA
* * * *
34356139 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-CAAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
* *
34356182 AT-TTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGCCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * * **
34356224 AGTCATATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C-A
* * * * * *
34356270 ATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAACTATAAATTATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------CACA
* * * * *
34356320 GATCTTATCTCTCTGAAATTGCAGTAGAGTAGA-TCATAG-CA-A
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
* ** * ***
34356362 ACCTTATCTCCCTGAAGTTGTTGTGGAGCAGGTTGAATTTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* *** **
34356405 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAACCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCA-CA
* *
34356451 AGCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGACAGGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C---C-AC-A
* ** * * *
34356500 ATCTCATCTCATTAAAGTTGCAGTGGAGCAGATTAAAGACACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-A
* * * * **
34356544 ACCTTATATCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CA
* * * *
34356588 ATCTTCTCTCCTTGAAGTTGCAGTGGAGCATATTGAAGCTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-A
* * * *
34356632 TTCCTATCTCCCTAAAGTTGCAGTGGAGCGGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
34356666 AAAATGATGA
Statistics
Matches: 637, Mismatches: 152, Indels: 113
0.71 0.17 0.13
Matches are distributed among these distances:
41 105 0.16
42 20 0.03
43 11 0.02
44 224 0.35
45 136 0.21
46 10 0.02
48 3 0.00
49 33 0.05
50 10 0.02
51 81 0.13
52 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
Found at i:34356075 original size:181 final size:181
Alignment explanation
Indices: 34355768--34356617 Score: 1032
Period size: 181 Copynumber: 4.7 Consensus size: 181
34355758 TAGAATAGAT
* * * **
34355768 TAAATTATAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCAAACCTTATCTCTATG
1 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTG
** * * *
34355833 AAGTTGCAGTGGAGCAAATTGAAGCCACAAGTCTTATCTCTCTGAAGTTACAGTAGAGCAGACTG
66 AAGTTGCAGTGGAGCAGGTTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
*
34355898 AAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGCAACAGATTAAAGCTA
131 AAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTA
* * *
34355949 TAAATTACAGAT-TCTATCTCCCTGAAGTTGCAGTCA-AGAAGATCATAGCAAACATTATCTCTC
1 TAAATTACAGATCT-TATCTCTCTGAAGTTGCAGT-AGAGCAGATCATAGCAAACATTATCTCCC
* ** *
34356012 TGAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
64 TGAAGTTGCAGTGGAGCAGGTTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
*
34356077 TGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
129 TGAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTA
34356130 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAA-ATTTATCTCCCT
1 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACA-TTATCTCCCT
* * *
34356194 GAAGTTGCAGTGGGGCAGGTTGAAGCCACAAGTCATATCTCCCTAAAGTTGCAGTGGAGCAGACT
65 GAAGTTGCAGTGGAGCAGGTTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
34356259 GAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAA-CTA
130 GAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATT-AAAGCTA
* * * *
34356311 TAAATTATAGATCTTATCTCTCTGAAATTGCAGTAGAGTAGATCATAGCAAACCTTATCTCCCTG
1 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTG
** *** * **
34356376 AAGTTGTTGTGGAGCAGGTTGAATTTACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAA
66 AAGTTGCAGTGGAGCAGGTTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
* * * * * * * *
34356441 AAGATAACCAAGCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG--A
131 AAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTA
* *** * * * * * * * *
34356490 CAGGCTACAAATCTCATCTCAT-TAAAGTTGCAGTGGAGCAGATTAAAGACACAAACCTTATATC
1 TAAATTACAGATCTTATCTC-TCTGAAGTTGCAGTAGAGCAGATCATAG---CAAACATTATCTC
* ** * *
34356554 CCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAA-TCTTCTCTCCTTGAAGTTGCAGTGGAGCA
62 CCTGAAGTTGCAGTGGAGCAGGTTGAAGCCA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
34356618 TATTGAAGCT
Statistics
Matches: 587, Mismatches: 69, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
179 34 0.06
180 6 0.01
181 473 0.81
182 71 0.12
183 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (181 bp):
TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTG
AAGTTGCAGTGGAGCAGGTTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
AAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTA
Found at i:34356306 original size:89 final size:89
Alignment explanation
Indices: 34356141--34356617 Score: 328
Period size: 89 Copynumber: 5.3 Consensus size: 89
34356131 AAATTACAGA
* * * * ** *
34356141 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAAATTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
*
34356202 AGTGGGGCAGGTTGAAGCCACAAG
66 AGTGGAGCAGGTTGAAGCCACAAG
* * * * *
34356226 TCATATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
* * * * *
34356291 AGTGGAACAGATTGAAACTATAAATTATAG
66 AGTGGAGCAGGTTGAAGC----CA-CA-AG
* * * *
34356321 ATCTTATCTCTCTGAAA-TTGCAGTAGAGTAGA-T---CATAGCAAACCTTATCTCCCTGAAGTT
1 -TCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTT
* ***
34356381 GTTGTGGAGCAGGTTGAATTTACAAG
64 GTAGTGGAGCAGGTTGAAGCCACAAG
* * * * * * *
34356407 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAACCAAGCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
* * *
34356472 AGTAGAGCAGATTGAAGACAGGCTACAAA
66 AGTGGAGCAGGTTGAAG-C---C-ACAAG
* ** * * *
34356501 TCTCATCTCATTAAAGTTGCAGTGGAGCAGATTAAAGACA-CAAACCTTATATCCCTGAAGTTGT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
**
34356565 AGTGGAGCAGGTTGAAGATACCAA-
66 AGTGGAGCAGGTTGAAGCCA-CAAG
* * *
34356589 TCTTCTCTCCTTGAAGTTGCAGTGGAGCA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCA
34356618 TATTGAAGCT
Statistics
Matches: 300, Mismatches: 69, Indels: 43
0.73 0.17 0.10
Matches are distributed among these distances:
84 2 0.01
85 50 0.17
86 3 0.01
87 1 0.00
88 27 0.09
89 77 0.26
92 38 0.13
93 36 0.12
94 37 0.12
95 3 0.01
96 23 0.08
97 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
AGTGGAGCAGGTTGAAGCCACAAG
Found at i:34356972 original size:15 final size:16
Alignment explanation
Indices: 34356952--34356984 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34356942 GATTAGGCCC
*
34356952 AAATCAGAC-CAAAAA
1 AAATCAAACACAAAAA
34356967 AAATCAAACACAAAAA
1 AAATCAAACACAAAAA
34356983 AA
1 AA
34356985 TAAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.73, C:0.18, G:0.03, T:0.06
Consensus pattern (16 bp):
AAATCAAACACAAAAA
Found at i:34357517 original size:20 final size:20
Alignment explanation
Indices: 34357492--34357531 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
34357482 TTAAAAATTG
34357492 CATATAGAAA-ATATATATAA
1 CATATA-AAATATATATATAA
34357512 CATATAAAATATATATATAA
1 CATATAAAATATATATATAA
34357532 ACAAAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
CATATAAAATATATATATAA
Found at i:34361951 original size:15 final size:15
Alignment explanation
Indices: 34361921--34361971 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
34361911 TCGTATACTC
*
34361921 TTTTTTCTTAATTAGG
1 TTTTTTCCTAA-TAGG
34361937 TTTTTATCCT-ATAGG
1 TTTTT-TCCTAATAGG
*
34361952 GTTTTTCCTAATAAGG
1 TTTTTTCCTAAT-AGG
34361968 TTTT
1 TTTT
34361972 AACGATGCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 4 0.14
15 10 0.34
16 12 0.41
17 3 0.10
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTTTTCCTAATAGG
Found at i:34362271 original size:7 final size:7
Alignment explanation
Indices: 34362259--34362283 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34362249 TTTTTACTCT
34362259 TTTTAGA
1 TTTTAGA
34362266 TTTTAGA
1 TTTTAGA
34362273 TTTTAGA
1 TTTTAGA
34362280 TTTT
1 TTTT
34362284 TTTGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (7 bp):
TTTTAGA
Found at i:34364179 original size:20 final size:20
Alignment explanation
Indices: 34364154--34364208 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
34364144 TTACATTAAC
34364154 TTTAATATTAAGATAATAAA
1 TTTAATATTAAGATAATAAA
34364174 TTTAATATTAA-ATTAATAAA
1 TTTAATATTAAGA-TAATAAA
*
34364194 -TTACTATTAAGATAA
1 TTTAATATTAAGATAA
34364209 GTATTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTAATATTAAGATAATAAA
Found at i:34365878 original size:16 final size:16
Alignment explanation
Indices: 34365857--34365887 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34365847 CTATGCATGC
*
34365857 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
34365873 AAAATACAAAAGACA
1 AAAATACAAAAGACA
34365888 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:34370703 original size:16 final size:16
Alignment explanation
Indices: 34370682--34370713 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34370672 TTCTTAGTTT
34370682 AATTTTCATATTTCAC
1 AATTTTCATATTTCAC
34370698 AATTTTCATATTTCAC
1 AATTTTCATATTTCAC
34370714 CACATATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTTCATATTTCAC
Found at i:34371902 original size:17 final size:17
Alignment explanation
Indices: 34371880--34371916 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
34371870 TCCCTCCTCC
34371880 TTTTTCCATCACTTCAA
1 TTTTTCCATCACTTCAA
34371897 TTTTTCCATCACTTCAA
1 TTTTTCCATCACTTCAA
34371914 TTT
1 TTT
34371917 AATCATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTCCATCACTTCAA
Found at i:34373446 original size:19 final size:18
Alignment explanation
Indices: 34373422--34373460 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34373412 CTTATTTCAA
34373422 AATTATTCTTCTAAAAAAT
1 AATTATT-TTCTAAAAAAT
* *
34373441 AATTATTTTTTCAAAAAT
1 AATTATTTTCTAAAAAAT
34373459 AA
1 AA
34373461 CATAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTATTTTCTAAAAAAT
Found at i:34374109 original size:3 final size:3
Alignment explanation
Indices: 34374101--34374129 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34374091 CCCAAGGCCA
34374101 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34374130 CAACGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34380033 original size:3 final size:3
Alignment explanation
Indices: 34380027--34380068 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
34380017 AGATTATTAA
*
34380027 ATG ATG ACG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
34380069 GTGGTGATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:34385184 original size:41 final size:42
Alignment explanation
Indices: 34385123--34385209 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 42
34385113 TGGAAAATGC
*
34385123 ATAATTAAAAAAATAAATAAACATAACATG-A-AAAAATTAAAA
1 ATAATTAAAAAAATAAATAAA-ATAACAAGTACAAAAA-TAAAA
34385165 ATAA-TAAAAGAAAT-AATAAAATAACAAGTACAAAAATAAAA
1 ATAATTAAAA-AAATAAATAAAATAACAAGTACAAAAATAAAA
34385206 ATAA
1 ATAA
34385210 AATAATAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
40 7 0.17
41 21 0.51
42 13 0.32
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (42 bp):
ATAATTAAAAAAATAAATAAAATAACAAGTACAAAAATAAAA
Found at i:34386739 original size:616 final size:616
Alignment explanation
Indices: 34385540--34386739 Score: 1589
Period size: 616 Copynumber: 1.9 Consensus size: 616
34385530 AATAATACTA
* *
34385540 GATTGAAGGGTATTTAAAAAGTGGGAGGATTAAAATTGTAAATATCCCTTCTTAATAAAAACATG
1 GATTGAAGGGTATTTAAAAAGCGGGAGGATTAAAATTGTAAATATCCCTTCTTAATAAAAACACG
* * * ** ** **
34385605 CGGATTCTAGATGTGGATCGAATCGGGTCACGAGTTGCGTCAAATTATGTCGTTTTGACTTCTGG
66 CAGATTCCAAATGTGGATCGAATCGGACCACGAGTTGCGTCAAACGACATCGTTTTGACTTCTGG
* * * *
34385670 AAATCGGCCCAAAATAGTGTCGTTTTGCACTACTATTTTAGCCAATAATCTTTCAAAAAAATCAT
131 AAATCGGCCCAAAAGAGTGTCGTTTTGCACCACTACTTAAGCCAATAATCTTTCAAAAAAATCAT
* * * * *
34385735 TTCAAACCCTAGTTTTTTTTTTAAAATTTGTAACCCTCTCCCCTCTAGTCAAGCCACCCTTTGGT
196 TTCAAACCCTAGTTTTTTTTTTAAAATCTGAAACCCTCTCCCCTCTAGCCAAGCCACCCTTCGGC
** * * * * * *
34385800 CGGCCTTGACCCTAGTGAGTCACCGTCGTGCTAGCCATCAGTTTCCGGCGACAGCTTCGCCATTT
261 CACCCTTGACCCGAGAGAGTCACCGTCGTGCTAGCCATCAGTTGCCAGCAACAGCTCCGCCATTT
* * ** *
34385865 CCGGTGGCCGAAAAAACCCAAAATGCCCCATTTAACCCCCTTTTCAAGAGGAGCCCTATTTTGGG
326 CCAGTGCCCGAAAAAACCCAAAATGCCCCATTTAAAACCCTTTTCAAGAGGAGCCCCATTTTGGG
*
34385930 GTTAAAAACACCGGAATCTGGGCAAAATCAGGCAAAAAATAGAGAAACCCTTCGGTTTCTTCTTC
391 GTTAAAAACACCAGAATCTGGGCAAAATCAGGCAAAAAATAGAGAAACCCTTCGGTTTCTTCTTC
** *** *
34385995 TCTCCGGTGATTGAAATAGGTAAAAAAACTATTTTATTATTTTTCTATTTTTTCGAAGAATAAAA
456 TCTCCGGCAACCAAAACAGGTAAAAAAACTATTTTATTATTTTTCTATTTTTTCGAAGAATAAAA
*
34386060 AAAAACAAATTAAAAGAATCACATTTTTTTTAATTTGATTTTTTTATTCGATTTCTCTTTTTTTT
521 AAAAACAAATTAAAAGAATCACATTTTTTTTAATTTGATTTTTTTATTCAATTTCTCTTTTTTTT
34386125 TAATAAAAAAACCCACTTACAATCGGTTTTT
586 TAATAAAAAAACCCACTTACAATCGGTTTTT
34386156 GATTGAAGGGTATTTAAAAAGCGGGAGGATTAAAATT-TCAAATATCCCTTCTTAATAAAAACAC
1 GATTGAAGGGTATTTAAAAAGCGGGAGGATTAAAATTGT-AAATATCCCTTCTTAATAAAAACAC
* * * *
34386220 GCAGATTCCAAATGTGGATGGAGTCGGACCACGGGTTGCGTCAAAACGACATTGTTTTGACGTT-
65 GCAGATTCCAAATGTGGATCGAATCGGACCACGAGTTGCGTC-AAACGACATCGTTTTGAC-TTC
34386284 TGGAAATCGGCCCAAAACGA-TGTCGTTTTGCACCACTACTTAAGCCAATAATCTTTCAAAAAAA
128 TGGAAATCGGCCCAAAA-GAGTGTCGTTTTGCACCACTACTTAAGCCAATAATCTTTCAAAAAAA
* * * *
34386348 TCATTTCACACCCTAGTTTTTTTTTT-TAATCTGAAATCCTCTCCCCTTTAGCCAAGCCACCCTT
192 TCATTTCAAACCCTAGTTTTTTTTTTAAAATCTGAAACCCTCTCCCCTCTAGCCAAGCCACCCTT
* * *
34386412 CGGCCACCCTTGACCTCGACGAGTATTCACCGT-GT-C-GGCCA-CAGGTTGCCAGCAACGGCTC
257 CGGCCACCCTTGACC-CGA-GAG-AGTCACCGTCGTGCTAGCCATCA-GTTGCCAGCAACAGCTC
* * * *
34386473 CGCC-GTTCTCAGTGCCC-AGGAAAACCCAAAATGCCCCTTTTTAAAACCCTTTTCAAGAGGATC
318 CGCCATTTC-CAGTGCCCGA-AAAAACCCAAAATGCCCC-ATTTAAAACCCTTTTCAAGAGGAGC
* * * * *
34386536 CCCGTTTT-GGGTTAAAAACACCAGAGTCTGGGCAAAATCGGGCCAAAAATAGAGAAGCCCTTCG
380 CCCATTTTGGGGTTAAAAACACCAGAATCTGGGCAAAATCAGGCAAAAAATAGAGAAACCCTTCG
* *
34386600 GTTTCTTCTTCTCTCCGGCAACCAAAACAGGTAAGAAAAACTCTTTTATTGTTTTTCTATTTTTT
445 GTTTCTTCTTCTCTCCGGCAACCAAAACAGGTAA-AAAAACTATTTTATTATTTTTCTATTTTTT
* * * *
34386665 CGAAGAATAAATAAAAATAAATTAAGAGAATCACCCTTTTTTTTAATTTGA-TTTTTTATTCAAT
509 CGAAGAATAAAAAAAAACAAATTAAAAGAATCA-CATTTTTTTTAATTTGATTTTTTTATTCAAT
34386729 TTCT-TTTTTTT
573 TTCTCTTTTTTT
34386740 AAACACCCAC
Statistics
Matches: 504, Mismatches: 67, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
615 7 0.01
616 266 0.53
617 200 0.40
618 23 0.05
619 8 0.02
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (616 bp):
GATTGAAGGGTATTTAAAAAGCGGGAGGATTAAAATTGTAAATATCCCTTCTTAATAAAAACACG
CAGATTCCAAATGTGGATCGAATCGGACCACGAGTTGCGTCAAACGACATCGTTTTGACTTCTGG
AAATCGGCCCAAAAGAGTGTCGTTTTGCACCACTACTTAAGCCAATAATCTTTCAAAAAAATCAT
TTCAAACCCTAGTTTTTTTTTTAAAATCTGAAACCCTCTCCCCTCTAGCCAAGCCACCCTTCGGC
CACCCTTGACCCGAGAGAGTCACCGTCGTGCTAGCCATCAGTTGCCAGCAACAGCTCCGCCATTT
CCAGTGCCCGAAAAAACCCAAAATGCCCCATTTAAAACCCTTTTCAAGAGGAGCCCCATTTTGGG
GTTAAAAACACCAGAATCTGGGCAAAATCAGGCAAAAAATAGAGAAACCCTTCGGTTTCTTCTTC
TCTCCGGCAACCAAAACAGGTAAAAAAACTATTTTATTATTTTTCTATTTTTTCGAAGAATAAAA
AAAAACAAATTAAAAGAATCACATTTTTTTTAATTTGATTTTTTTATTCAATTTCTCTTTTTTTT
TAATAAAAAAACCCACTTACAATCGGTTTTT
Found at i:34388148 original size:12 final size:12
Alignment explanation
Indices: 34388131--34388155 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34388121 ACCCTTTCAG
34388131 AAAAAAAAAAGA
1 AAAAAAAAAAGA
34388143 AAAAAAAAAAGA
1 AAAAAAAAAAGA
34388155 A
1 A
34388156 GAAAGAGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:34392883 original size:21 final size:21
Alignment explanation
Indices: 34392859--34392944 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
34392849 CCGAAAACGC
34392859 GAACAAAAGCTCATAAGAGCT
1 GAACAAAAGCTCATAAGAGCT
*
34392880 GAACAATAA-CTCAAAAGAGCT
1 GAACAA-AAGCTCATAAGAGCT
* * *
34392901 GAACAGAAGCTCGTGAGAGCT
1 GAACAAAAGCTCATAAGAGCT
* * *
34392922 AAACAGAAGCTCGTAAGAGCT
1 GAACAAAAGCTCATAAGAGCT
34392943 GA
1 GA
34392945 TCCACCCGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.04
21 51 0.93
22 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (21 bp):
GAACAAAAGCTCATAAGAGCT
Found at i:34403826 original size:16 final size:16
Alignment explanation
Indices: 34403797--34403830 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
34403787 AGAATCTCAA
34403797 TTAACTATTTTAATTT
1 TTAACTATTTTAATTT
34403813 TTAA-TATTTATAATTT
1 TTAACTATTT-TAATTT
34403829 TT
1 TT
34403831 GAAGTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAACTATTTTAATTT
Found at i:34404715 original size:31 final size:31
Alignment explanation
Indices: 34404678--34404739 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
34404668 AATAGTCATA
*
34404678 GAACTATTCGAAAGTTCTCATTTAAGCCATT
1 GAACTATTCAAAAGTTCTCATTTAAGCCATT
* * *
34404709 GAACTATTCAAAAGTTTTTATTTAAGTCATT
1 GAACTATTCAAAAGTTCTCATTTAAGCCATT
34404740 AGATTGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (31 bp):
GAACTATTCAAAAGTTCTCATTTAAGCCATT
Found at i:34405835 original size:18 final size:19
Alignment explanation
Indices: 34405802--34405837 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34405792 AATTTTTTTA
*
34405802 ATTTTATTTATGTAATTAG
1 ATTTTATTTATATAATTAG
34405821 ATTTT-TTTATATAATTA
1 ATTTTATTTATATAATTA
34405838 AAGGTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
ATTTTATTTATATAATTAG
Found at i:34406290 original size:16 final size:16
Alignment explanation
Indices: 34406256--34406290 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34406246 CCAAATTAAG
*
34406256 TTTTATATGTTCATAA
1 TTTTATATGTGCATAA
*
34406272 TTTTATATGTGCATTA
1 TTTTATATGTGCATAA
34406288 TTT
1 TTT
34406291 CATTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (16 bp):
TTTTATATGTGCATAA
Found at i:34423276 original size:23 final size:25
Alignment explanation
Indices: 34423219--34423281 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
34423209 ACAAAGTTTA
34423219 ATATATATATATATAAACAATATGT
1 ATATATATATATATAAACAATATGT
* * *
34423244 TTAAAAATATAT-TAAA-AATATGT
1 ATATATATATATATAAACAATATGT
* *
34423267 ATGTATATATGTATA
1 ATATATATATATATA
34423282 TATAAATTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
23 14 0.48
24 6 0.21
25 9 0.31
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (25 bp):
ATATATATATATATAAACAATATGT
Found at i:34423316 original size:20 final size:19
Alignment explanation
Indices: 34423271--34423317 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
34423261 ATATGTATGT
* **
34423271 ATATATGTATATATAAATT
1 ATATAAGTATATATAAAAA
34423290 ATA-AAGTATATATAAAAAA
1 ATATAAGTATATAT-AAAAA
34423309 ATATAAGTA
1 ATATAAGTA
34423318 CGTACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.39
19 9 0.39
20 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
ATATAAGTATATATAAAAA
Found at i:34423363 original size:18 final size:18
Alignment explanation
Indices: 34423340--34423379 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
34423330 AAAATTAAAA
34423340 ATATGTAAGTATGTATAT
1 ATATGTAAGTATGTATAT
34423358 ATATGTAAGTATGTATAT
1 ATATGTAAGTATGTATAT
34423376 ATAT
1 ATAT
34423380 AACAAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (18 bp):
ATATGTAAGTATGTATAT
Found at i:34423442 original size:3 final size:3
Alignment explanation
Indices: 34423436--34423494 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
34423426 AGGTAAGTAG
* **
34423436 TAA TAA TAA TAA TAA TAA TAA -AA CTAA TTA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
*
34423481 -AA -AA TAA CAA TAA T
1 TAA TAA TAA TAA TAA T
34423495 GAGACTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 6 0.13
3 39 0.83
4 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:34424619 original size:19 final size:19
Alignment explanation
Indices: 34424583--34424630 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
34424573 TTTTATTCGG
*
34424583 GTTTGGGCCACATTTTTAT
1 GTTTGGGCCACATGTTTAT
34424602 GTTTGGGCCAC-TGGTTTAT
1 GTTTGGGCCACAT-GTTTAT
*
34424621 TTATTGGGCC
1 GT-TTGGGCC
34424631 CGGGCAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.68
20 7 0.28
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (19 bp):
GTTTGGGCCACATGTTTAT
Found at i:34429913 original size:20 final size:20
Alignment explanation
Indices: 34429888--34429927 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34429878 CTGGATCGAT
*
34429888 AATAATTAAAAATTAATAAA
1 AATAATAAAAAATTAATAAA
*
34429908 AATAATAAAAAATTATTAAA
1 AATAATAAAAAATTAATAAA
34429928 TCGGTTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAATAAAAAATTAATAAA
Found at i:34438426 original size:85 final size:85
Alignment explanation
Indices: 34438274--34438683 Score: 307
Period size: 85 Copynumber: 4.8 Consensus size: 85
34438264 CTTCAATTCA
* * * * * *
34438274 CTCCGCTGTAACTTCATG-GAGATAAGGT-TAGTGGCTTTAATCTACTCCACTGTAACTTCAGGG
1 CTCCACTGCAACTTCA-GAGAGATAAGATCT-GTGGTTTTAATCTGCTCCACTGCAACTTCAGGG
34438337 AGATAAGACTGGATGCGATCTG
64 AGATAAGACTGGATGCGATCTG
* * * *
34438359 CTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAGCTTCAGGGAG
1 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
** * *
34438424 AT-AGGTTGGCTTCTTCTG-TCTG
66 ATAAGACTGG---ATGC-GATCTG
* * * *** * ** *
34438446 CTCCACTGCAACTTCAGGGAGATAAGA-C--TAGATGCGATCTGCTCTACTGCAACTTCAAAGAA
1 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * ***
34438508 ATAAGATATGTGGTTTTAATCTG
66 ATAAG--A-CTGGATGCGATCTG
* * * **
34438531 CTCCACTGCAACTTCAGGGAGATAGGAT-TG-GCTTCTTCTGTCTGCTCCACTGCAACTTCAGGG
1 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCTGCTCCACTGCAACTTCAGGG
34438594 AGATAAGACTGGATGCGATCTG
64 AGATAAGACTGGATGCGATCTG
* * * * *
34438616 TTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAATTTCAGTGAG
1 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
34438681 ATA
66 ATA
34438684 GGATTAGCTT
Statistics
Matches: 247, Mismatches: 60, Indels: 36
0.72 0.17 0.10
Matches are distributed among these distances:
84 31 0.13
85 145 0.59
86 8 0.03
87 33 0.13
88 30 0.12
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (85 bp):
CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTGGATGCGATCTG
Found at i:34438628 original size:129 final size:129
Alignment explanation
Indices: 34438318--34439004 Score: 768
Period size: 129 Copynumber: 5.2 Consensus size: 129
34438308 CTTTAATCTA
* *
34438318 CTCCACTGTAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* *
34438383 AGATCTGTGGTTTTAATCCGCTCCACTGCAGCTTCAGGGAGATAGG-TTGGCTTCTTCTGTCTG
66 AGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTG
* * *
34438446 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAAAGAAATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
*
34438511 AGATATGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTG
66 AGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTG
* *
34438575 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGTTCTACTGCAACTTTAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* * *
34438640 AGATCTGTGGTTTTAATCTGCTCCACTGCAATTTCAGTGAGATAGGATTAGCTTCTTCTGTCTG
66 AGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTG
* * *
34438704 CTCCACTGTAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCT-CTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* * * * **
34438768 AGATCTGTGGTGATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTGT
66 AGATC--T-GTG----GT---TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCT-T
*
34438833 CTTCAGTCTG
120 CTTCTGTCTG
** * * * * * * * * *
34438843 CTCTGCTGTAACTTCAGGGAGACAAGACTTGTAACTTCAATCCGCTCCACTACAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGAC-TG-GA-TGCGATCTGCTCTACTGCAACTTCAGAGAG
* * * * ** * * * **
34438908 ATAGGAT-TATTGGCTTTAATCTGCTCCATTGCAACTTCAATGAGATAAGATTCGCCATCTTCAA
63 ATAAGATCT-GTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATT-GGCTTCTTCTG
34438972 TCTG
126 TCTG
* * * *
34438976 CCCCATTGCAACTTTAGGGGGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
34439005 TGCTTTCTTC
Statistics
Matches: 477, Mismatches: 65, Indels: 30
0.83 0.11 0.05
Matches are distributed among these distances:
128 126 0.26
129 178 0.37
130 1 0.00
131 3 0.01
132 1 0.00
133 62 0.13
134 1 0.00
135 2 0.00
136 1 0.00
138 34 0.07
139 34 0.07
140 5 0.01
141 1 0.00
142 8 0.02
143 20 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
AGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTG
Found at i:34438704 original size:44 final size:44
Alignment explanation
Indices: 34438318--34438730 Score: 252
Period size: 44 Copynumber: 9.6 Consensus size: 44
34438308 CTTTAATCTA
* * * *
34438318 CTCCACTGTAACTTCAGGGAGATAAGACTGG---ATGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTCTG-TCTG
* * * * ** *
34438359 CTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTT-TT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TG-GCTTCTTCTGTCTG
* *
34438403 CTCCACTGCAGCTTCAGGGAGAT-AGGTTGGCTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTCTGTCTG
* * * *
34438446 CTCCACTGCAACTTCAGGGAGATAAGACTAG---ATGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTCTG-TCTG
* ** * * **
34438487 CTCTACTGCAACTTCAAAGAAATAAGATATGTGGTT-TT-AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TG-GCTTCTTCTGTCTG
*
34438531 CTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTCTGTCTG
* * * *
34438575 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGT-T-
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGCTTC-TTCTGTCTG
* * * **
34438618 CT--ACTGCAACTTTAGAGAGATAAGATCTGTGGTT-TT-AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TG-GCTTCTTCTGTCTG
* * * *
34438660 CTCCACTGCAATTTCAGTGAGATAGGATTAGCTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTCTGTCTG
* *
34438704 CTCCACTGTAACTTCAGGAAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
34438731 CTGGATGTGA
Statistics
Matches: 280, Mismatches: 65, Indels: 51
0.71 0.16 0.13
Matches are distributed among these distances:
40 2 0.01
41 78 0.28
42 17 0.06
43 41 0.15
44 135 0.48
45 7 0.03
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGCTTCTTCTGTCTG
Found at i:34438744 original size:85 final size:85
Alignment explanation
Indices: 34438402--34438771 Score: 283
Period size: 85 Copynumber: 4.3 Consensus size: 85
34438392 GTTTTAATCC
* * * *
34438402 GCTCCACTGCAGCTTCAGGGAGAT-AGGTTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGAA
* *
34438466 GATAAGACTAGATGCGATCT
66 GATAAGACTGGATGTGATCT
* * * * **
34438486 GCTCTACTGCAACTTCAAAGAAATAAGATATGTGGTT-TT-AATCTGCTCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-TG-GCTTCTTCTGTCTGCTCCACTGCAACTTCAGG
* * * * *
34438549 GAGATAGGATTGGCTTCTTCTG-TCT
64 AAGATAAGACTGG----ATGTGATCT
* * * * * *
34438574 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGT-T-CT--ACTGCAACTTTA-GA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGCTTC-TTCTGTCTGCTCCACTGCAACTTCAGGA
* * *
34438634 GAGATAAGATCTGTGGTTTTAATCT
65 -AGATAAGA-C--TGGATGTGATCT
* * * * *
34438659 GCTCCACTGCAATTTCAGTGAGATAGGATTAGCTTCTTCTGTCTGCTCCACTGTAACTTCAGGAA
1 GCTCCACTGCAACTTCAGAGAGATAAGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGAA
34438724 GATAAGACTGGATGTGATCT
66 GATAAGACTGGATGTGATCT
*
34438744 GCT-CTCTGCAACTTCAGAGAGATAAGAT
1 GCTCCACTGCAACTTCAGAGAGATAAGAT
34438772 CTGTGGTGAT
Statistics
Matches: 218, Mismatches: 48, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
84 49 0.22
85 98 0.45
86 8 0.04
87 8 0.04
88 50 0.23
89 5 0.02
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (85 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGAA
GATAAGACTGGATGTGATCT
Found at i:34439519 original size:15 final size:15
Alignment explanation
Indices: 34439499--34439548 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
34439489 CACTCTATGA
34439499 TCATTGCTTGTTTGT
1 TCATTGCTTGTTTGT
**
34439514 TCATTG-AAGTTT-T
1 TCATTGCTTGTTTGT
34439527 GTCATTGCTTGTTTGT
1 -TCATTGCTTGTTTGT
34439543 TCATTG
1 TCATTG
34439549 AAGTTTTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (15 bp):
TCATTGCTTGTTTGT
Found at i:34439541 original size:29 final size:29
Alignment explanation
Indices: 34439499--34439559 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
34439489 CACTCTATGA
34439499 TCATTGCTTGTTTGTTCATTGAAGTTTTG
1 TCATTGCTTGTTTGTTCATTGAAGTTTTG
34439528 TCATTGCTTGTTTGTTCATTGAAGTTTTG
1 TCATTGCTTGTTTGTTCATTGAAGTTTTG
34439557 TCA
1 TCA
34439560 CCAACATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.15, C:0.11, G:0.20, T:0.54
Consensus pattern (29 bp):
TCATTGCTTGTTTGTTCATTGAAGTTTTG
Found at i:34439556 original size:15 final size:15
Alignment explanation
Indices: 34439509--34439557 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
34439499 TCATTGCTTG
34439509 TTTGTTCATTGAAGT
1 TTTGTTCATTGAAGT
**
34439524 TTTG-TCATTG-CTT
1 TTTGTTCATTGAAGT
34439537 GTTTGTTCATTGAAGT
1 -TTTGTTCATTGAAGT
34439553 TTTGT
1 TTTGT
34439558 CACCAACATT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 1 0.04
14 10 0.37
15 15 0.56
16 1 0.04
ACGTcount: A:0.14, C:0.08, G:0.20, T:0.57
Consensus pattern (15 bp):
TTTGTTCATTGAAGT
Found at i:34440341 original size:44 final size:43
Alignment explanation
Indices: 34440275--34440357 Score: 139
Period size: 44 Copynumber: 1.9 Consensus size: 43
34440265 TATTTATTTA
*
34440275 TTTTTTTAGACTCAAAGCGCCTTTTGCTGGTTTTCACTTGGGT
1 TTTTTTTAGACTCAAAGCGCCTTTTGCGGGTTTTCACTTGGGT
*
34440318 TTTTTTTATGACTCAAAGTGCCTTTTGCGGGTTTTCACTT
1 TTTTTTTA-GACTCAAAGCGCCTTTTGCGGGTTTTCACTT
34440358 TGGTCCCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
43 8 0.22
44 29 0.78
ACGTcount: A:0.14, C:0.18, G:0.19, T:0.48
Consensus pattern (43 bp):
TTTTTTTAGACTCAAAGCGCCTTTTGCGGGTTTTCACTTGGGT
Found at i:34443418 original size:3 final size:3
Alignment explanation
Indices: 34443410--34443451 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
34443400 CAACTTGTTT
34443410 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
34443452 TAATAATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:34443456 original size:3 final size:3
Alignment explanation
Indices: 34443450--34443496 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
34443440 CAACAACAAC
* *
34443450 AAT AAT AAT AAT CAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34443497 CTATCTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:34445349 original size:14 final size:13
Alignment explanation
Indices: 34445323--34445373 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
34445313 GTTTATTTGA
34445323 AATATAATAATAT
1 AATATAATAATAT
34445336 AATATAATTAATAT
1 AATATAA-TAATAT
* *
34445350 AAT-TTACAATAT
1 AATATAATAATAT
*
34445362 AATAAAATAATA
1 AATATAATAATA
34445374 ATATACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:34447056 original size:4 final size:4
Alignment explanation
Indices: 34447047--34447215 Score: 257
Period size: 4 Copynumber: 42.2 Consensus size: 4
34447037 AACAATTTGG
* *
34447047 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
**
34447095 ATGT ATGT ATGT ATGT ATGT ATAC ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
34447143 ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT CTAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
34447191 ATGT CTGT ATGT ATGT CTGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT A
34447216 ACACCCCTTA
Statistics
Matches: 147, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 147 1.00
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:34448495 original size:33 final size:34
Alignment explanation
Indices: 34448449--34448760 Score: 130
Period size: 33 Copynumber: 8.7 Consensus size: 34
34448439 TTAACCGTTA
* *
34448449 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
34448483 TCGG-GGAATCAGCACTTAGCAACTC-CTTTCACATTAAAAGAT
1 TCGGTGGAATCAGCACTTAGCAAC-CAC---CA-A-T----GAT
34448525 AT-GGTGGAATCAGCACTTAGCAACCACCAATGAT
1 -TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
* *
34448559 TC-GAGGAATCAGCACTTAGC-AGC-CC--T--T
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
* * * *
34448586 T-GGGGGAATCAACACTTAGCAACGCCCTTCACATTTAAAAT
1 TCGGTGGAATCAGCACTTAGCAAC-CAC--CA-A--T--GAT
* * *
34448627 ACGGTGGGATCAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
34448661 TCGG-GGAATCAACACTTAGCAACC-CCTTTTATATTCAAAGAT
1 TCGGTGGAATCAGCACTTAGCAACCACC----A-A-T----GAT
* *
34448703 ACGGTGGAATCAGCACTTAGCAACCACCAATGAG
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
34448737 TCGG-GGAATCAACACTTAGCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
34448761 CCTTGGGGGA
Statistics
Matches: 213, Mismatches: 23, Indels: 85
0.66 0.07 0.26
Matches are distributed among these distances:
27 18 0.08
28 1 0.00
29 2 0.01
30 1 0.00
31 2 0.01
32 5 0.02
33 74 0.35
34 17 0.08
36 4 0.02
37 2 0.01
38 5 0.02
39 4 0.02
40 3 0.01
41 3 0.01
42 30 0.14
43 40 0.19
44 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:34448657 original size:102 final size:103
Alignment explanation
Indices: 34448485--34448681 Score: 306
Period size: 102 Copynumber: 1.9 Consensus size: 103
34448475 CCAGTGATTC
* * * *
34448485 GGGGAATCAGCACTTAGCAACTCCTTTCACATTAAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACGCCCTTCACATTAAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
34448550 ACCAATGATTCGAGGAATCAGCACTTAGCAGCCCTTTG
66 ACCAATGAATCGAGGAATCAACACTTAGCAGCCCTTTG
* *
34448588 GGGGAATCAACACTTAGCAACGCCCTTCACATTTAAA-ATACGGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACGCCCTTCACATTAAAAGATACGGTGGAATCAGCACTTAGCAACC
*
34448652 ACCAATGAATCGGGGAATCAACACTTAGCA
66 ACCAATGAATCGAGGAATCAACACTTAGCA
34448682 ACCCCTTTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
102 52 0.61
103 33 0.39
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (103 bp):
GGGGAATCAACACTTAGCAACGCCCTTCACATTAAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGAGGAATCAACACTTAGCAGCCCTTTG
Found at i:34448722 original size:76 final size:75
Alignment explanation
Indices: 34448588--34448764 Score: 284
Period size: 76 Copynumber: 2.3 Consensus size: 75
34448578 CAGCCCTTTG
* *
34448588 GGGGAATCAACACTTAGCAACGCCC-TTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAAC-CCCTTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACC
34448652 ACCAATGAATC
65 ACCAATGAATC
* *
34448663 GGGGAATCAACACTTAGCAACCCCTTTTATATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACCCCTTTCACATTCAAA-ATACGGTGGAATCAGCACTTAGCAACC
*
34448728 ACCAATGAGTC
65 ACCAATGAATC
34448739 GGGGAATCAACACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
34448765 GGGGGAATCA
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
74 3 0.03
75 30 0.32
76 62 0.65
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (75 bp):
GGGGAATCAACACTTAGCAACCCCTTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATC
Found at i:34448757 original size:178 final size:178
Alignment explanation
Indices: 34448450--34448792 Score: 535
Period size: 178 Copynumber: 1.9 Consensus size: 178
34448440 TAACCGTTAT
* * * *
34448450 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACTCCTTTCAC
1 CGGTGGATTCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCAC
* * *
34448515 ATTAAAAGATATGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCA
66 ATTAAAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAACACTTAGCA
* * *
34448580 GCCCTTTGGGGGAATCAACACTTAGCAACGCCCTTCACATTTAAAATA
131 ACCCCTTGGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATA
*
34448628 CGGTGGGA-TCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTTA
1 CGGT-GGATTCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCA
* * *
34448692 TATTCAAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGC
65 CATTAAAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAACACTTAGC
*
34448757 AACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTT
130 AACCCCTTGGGGGAATCAACACTTAGCAACCCCCTT
34448793 TATATTCAAT
Statistics
Matches: 149, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
178 146 0.98
179 3 0.02
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (178 bp):
CGGTGGATTCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCAC
ATTAAAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAACACTTAGCA
ACCCCTTGGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATA
Found at i:34449577 original size:17 final size:17
Alignment explanation
Indices: 34449555--34449592 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
34449545 AGCTTAAAAA
34449555 CCCTAGCTATGGCTTCC
1 CCCTAGCTATGGCTTCC
34449572 CCCTAGCTATGGCTTCC
1 CCCTAGCTATGGCTTCC
34449589 CCCT
1 CCCT
34449593 TGCTGATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.45, G:0.16, T:0.29
Consensus pattern (17 bp):
CCCTAGCTATGGCTTCC
Found at i:34456231 original size:33 final size:33
Alignment explanation
Indices: 34456184--34456309 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 33
34456174 ATACGGTGGG
*
34456184 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
* *
34456217 ATCAACACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGA
1 ATCAACACTTAGCAACCACC---A-A-T--GA-AT-CGG-GGA
* * *
34456260 ATCAGCACTTAGCAACCACCAATGAGTCGAGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
34456293 ATCAACACTTAGCAACC
1 ATCAACACTTAGCAACC
34456310 CCTTGGGGGA
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
33 37 0.50
34 2 0.03
35 1 0.01
36 2 0.03
37 1 0.01
38 2 0.03
39 1 0.01
40 2 0.03
41 2 0.03
42 3 0.04
43 21 0.28
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.19
Consensus pattern (33 bp):
ATCAACACTTAGCAACCACCAATGAATCGGGGA
Found at i:34456271 original size:76 final size:75
Alignment explanation
Indices: 34456033--34456311 Score: 338
Period size: 76 Copynumber: 3.8 Consensus size: 75
34456023 AACCGTTATT
* * * *
34456033 GGTGGATTTAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAA-CCCCTTTCAC
1 GGTGGAATCAGCACTTAGCAACCACCAATGA-TCGGGGAATCAACACTTAGCAACCCCCTTT-AC
*
34456097 ATTCAAAGATAT
64 ATTCAAAGATAC
* * * * * *
34456109 GGTGGAATCAGCAATTAGTAGCC-CC--T--TGGGGGAATCAGCACTTAGCAACCCCCTTCACAT
1 GGTGGAATCAGCACTTAGCAACCACCAATGATCGGGGAATCAACACTTAGCAACCCCCTTTACAT
*
34456169 TTAAA-ATAC
66 TCAAAGATAC
* *
34456178 GGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCCTTTATA
1 GGTGGAATCAGCACTTAGCAACCACCAATG-ATCGGGGAATCAACACTTAGCAACCCCCTTTACA
34456243 TTCAAAGATAC
65 TTCAAAGATAC
*
34456254 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGAGGAATCAACACTTAGCAACCCC
1 GGTGGAATCAGCACTTAGCAACCACCAATGA-TCGGGGAATCAACACTTAGCAACCCC
34456312 TTGGGGGAAT
Statistics
Matches: 174, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
69 22 0.13
70 31 0.18
71 6 0.03
72 1 0.01
73 1 0.01
75 37 0.21
76 76 0.44
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (75 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGATCGGGGAATCAACACTTAGCAACCCCCTTTACAT
TCAAAGATAC
Found at i:34456328 original size:27 final size:31
Alignment explanation
Indices: 34456257--34456338 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 31
34456247 AAGATACGGT
34456257 GGAATCAGCACTTAGCAACCACCAATGAGTCGA
1 GGAATCAGCACTTAGCAACC-CCAATGAG-CGA
* *
34456290 GGAATCAACACTTAGCAACCCC-TTG-G-G-
1 GGAATCAGCACTTAGCAACCCCAATGAGCGA
34456317 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
34456339 CTTTATATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 21 0.46
28 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 19 0.41
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.16
Consensus pattern (31 bp):
GGAATCAGCACTTAGCAACCCCAATGAGCGA
Found at i:34457430 original size:11 final size:13
Alignment explanation
Indices: 34457402--34457433 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
34457392 GCCCAAACGT
34457402 CGAAATTTTCTAA
1 CGAAATTTTCTAA
34457415 CGAAATTTT-T-A
1 CGAAATTTTCTAA
34457426 CGAAATTT
1 CGAAATTT
34457434 CTCCGTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (13 bp):
CGAAATTTTCTAA
Found at i:34457552 original size:4 final size:4
Alignment explanation
Indices: 34457543--34457590 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
34457533 AGATATTAAA
34457543 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
34457591 TTGTGTATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:34458080 original size:56 final size:56
Alignment explanation
Indices: 34457989--34458101 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
34457979 ACCAATATCG
*
34457989 TTCAATTATCCAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
1 TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
*
34458045 TTCAATTATCAAATTAATTGTAAAAATACGTATGTAATTCAAAATGGAATAAAACA
1 TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
34458101 T
1 T
34458102 ACATTTACGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (56 bp):
TTCAATTATCAAATTAATTGTAAAAATACGCATGTAATTCAAAATGGAATAAAACA
Found at i:34468520 original size:33 final size:33
Alignment explanation
Indices: 34468482--34468683 Score: 136
Period size: 33 Copynumber: 5.6 Consensus size: 33
34468472 TGATACGGTG
34468482 GAATCAGCACTTAGCAACCACCAATGAATCGGA
1 GAATCAGCACTTAGCAACCACCAATGAATCGGA
* * * *
34468515 GAATCAGCAGTTAGCAACCCCTTTCACATTTAAGATACGGTG
1 GAATCAGCACTTAGCAACCAC---CA-A--TGA-AT-CGG-A
* *
34468557 GGATCAGCACTTAGCAACCACCAATGAATCGGG
1 GAATCAGCACTTAGCAACCACCAATGAATCGGA
* * **
34468590 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGA
1 GAATCAGCACTTAGCAA-CCAC--CA-A--T-GAATCGGA
34468630 TGGAATCAGCACTTAGCAACCACCAATGAATCAGG-
1 --GAATCAGCACTTAGCAACCACCAATGAATC-GGA
34468665 GAATCAGCACTTAGCAACC
1 GAATCAGCACTTAGCAACC
34468684 CCTTGGGGGA
Statistics
Matches: 132, Mismatches: 18, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
33 55 0.42
34 6 0.05
35 5 0.04
36 8 0.06
37 2 0.02
38 2 0.02
39 7 0.05
40 6 0.05
41 6 0.05
42 35 0.27
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.20
Consensus pattern (33 bp):
GAATCAGCACTTAGCAACCACCAATGAATCGGA
Found at i:34468580 original size:75 final size:74
Alignment explanation
Indices: 34468401--34468687 Score: 430
Period size: 75 Copynumber: 3.8 Consensus size: 74
34468391 TATCCGTTAT
* * * *
34468401 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTAGGCGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGG-GAATCAGCACTTAGCAACCCCTTTCAC
*
34468466 ATTCAATGATA
65 ATTTAA-GATA
*
34468477 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGAGAATCAGCAGTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGG-GAATCAGCACTTAGCAACCCCTTTCAC
34468542 ATTTAAGATA
65 ATTTAAGATA
* *
34468552 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATC-GGGAATCAGCACTTAGCAACCCCTTTCAC
*
34468617 ATTTAAAATA
65 ATTTAAGATA
* *
34468627 TGATGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATC-GGGAATCAGCACTTAGCAACCCCTT
34468688 GGGGGAATCA
Statistics
Matches: 194, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
75 128 0.66
76 66 0.34
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (74 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGAATCAGCACTTAGCAACCCCTTTCACA
TTTAAGATA
Found at i:34468693 original size:27 final size:28
Alignment explanation
Indices: 34468663--34468715 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
34468653 CAATGAATCA
34468663 GGGAATCAGCACTTAGC-AACCCCTTGG
1 GGGAATCAGCACTTAGCAAACCCCTTGG
34468690 GGGAATCAGCACTTAGCAAACCCCTT
1 GGGAATCAGCACTTAGCAAACCCCTT
34468716 TATATTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (28 bp):
GGGAATCAGCACTTAGCAAACCCCTTGG
Found at i:34468851 original size:18 final size:18
Alignment explanation
Indices: 34468828--34468863 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34468818 CCAAGTATTT
34468828 ATTTTATGTTCAATTAAG
1 ATTTTATGTTCAATTAAG
34468846 ATTTTATGTTCAATTAAG
1 ATTTTATGTTCAATTAAG
34468864 TCTCAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTTTATGTTCAATTAAG
Found at i:34477062 original size:37 final size:37
Alignment explanation
Indices: 34477003--34477201 Score: 195
Period size: 46 Copynumber: 4.9 Consensus size: 37
34476993 GTATGATCAT
*
34477003 TTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCAC
1 TTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAC
*
34477038 TTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCAC
1 TTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAC
34477075 TTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC---CAC
34477121 TTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC---CAC
*
34477167 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 TTATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
34477202 GAAGCTATCA
Statistics
Matches: 149, Mismatches: 4, Indels: 20
0.86 0.02 0.12
Matches are distributed among these distances:
35 7 0.05
36 4 0.03
37 49 0.33
39 2 0.01
40 4 0.03
41 1 0.01
42 1 0.01
43 3 0.02
44 2 0.01
46 76 0.51
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
TTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAC
Found at i:34477125 original size:46 final size:46
Alignment explanation
Indices: 34477072--34477634 Score: 694
Period size: 46 Copynumber: 11.6 Consensus size: 46
34477062 TAAGTGTAGC
* *
34477072 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
34477118 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
34477164 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
34477210 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
34477262 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
34477314 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCTGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
34477360 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
34477412 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
34477458 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
34477510 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
34477556 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
34477608 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
34477635 AGTACTCAAA
Statistics
Matches: 466, Mismatches: 26, Indels: 50
0.86 0.05 0.09
Matches are distributed among these distances:
46 242 0.52
48 3 0.01
49 1 0.00
50 4 0.01
51 3 0.01
52 213 0.46
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:34477329 original size:98 final size:98
Alignment explanation
Indices: 34477083--34477634 Score: 864
Period size: 98 Copynumber: 5.6 Consensus size: 98
34477073 ACTTATCACT
* * *
34477083 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
* * *
34477148 GTGTAGCTAAAGCTATCACTTATCAC--T----
66 GTATAGCTGAAGCTATTACTTATCACTTTCCAC
* * *
34477175 TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATC
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC---T---TTGTCACTTGATC
* * *
34477240 AGATAAGTGTAACTGAAGCTATCACTTATCACTTTCCAC
60 AGATAAGTATAGCTGAAGCTATTACTTATCACTTTCCAC
34477279 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
34477344 GTATAGCTGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCTGAAGCTATTACTTATCACTTTCCAC
34477377 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
34477442 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCTGAAGCTATTACTTATCACTTTCCAC
34477475 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
34477540 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCTGAAGCTATTACTTATCACTTTCCAC
* *
34477573 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGA
34477635 AGTACTCAAA
Statistics
Matches: 433, Mismatches: 15, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
92 42 0.10
95 1 0.00
98 346 0.80
100 1 0.00
101 1 0.00
104 42 0.10
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCTGAAGCTATTACTTATCACTTTCCAC
Found at i:34480809 original size:49 final size:49
Alignment explanation
Indices: 34480754--34480949 Score: 293
Period size: 49 Copynumber: 4.0 Consensus size: 49
34480744 CTTCGTTTTC
* * *
34480754 TCGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATA
* * *
34480803 TCGATGCCATAGCCCAGCTATGGTCTTACATGGAATCACATATCACTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATA
* * *
34480852 CCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATA
*
34480901 TCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATAATCACAT
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
34480950 GTTCACATGT
Statistics
Matches: 134, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 128 0.96
50 6 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (49 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATA
Found at i:34482273 original size:37 final size:37
Alignment explanation
Indices: 34482208--34482410 Score: 203
Period size: 46 Copynumber: 5.1 Consensus size: 37
34482198 TACGTATGAT
*
34482208 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
34482243 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
34482280 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
34482323 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
34482369 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
34482409 CA
1 CA
34482411 AAGCTATCAC
Statistics
Matches: 153, Mismatches: 4, Indels: 20
0.86 0.02 0.11
Matches are distributed among these distances:
35 10 0.07
36 4 0.03
37 50 0.33
39 2 0.01
40 4 0.03
41 1 0.01
42 1 0.01
43 3 0.02
44 2 0.01
46 76 0.50
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:34482333 original size:46 final size:46
Alignment explanation
Indices: 34482280--34482744 Score: 543
Period size: 46 Copynumber: 9.6 Consensus size: 46
34482270 TAAGTGTAGC
* *
34482280 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
34482326 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * **
34482372 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
34482418 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
34482470 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
34482522 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
34482568 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
34482620 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
** * *
34482666 TGCTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
34482718 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
34482745 AGTACTCAAA
Statistics
Matches: 376, Mismatches: 24, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
46 199 0.53
48 2 0.01
49 1 0.00
50 3 0.01
51 3 0.01
52 168 0.45
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:34482537 original size:98 final size:98
Alignment explanation
Indices: 34482291--34482744 Score: 668
Period size: 98 Copynumber: 4.6 Consensus size: 98
34482281 ACTTATCACT
* *
34482291 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
* **
34482356 GTGTAGCTAAAGCTATCACTTATCAC--T----
66 GTATAGCCGAAGCTATCACTTATCACTTTCCAC
* * *
34482383 TTGTCTCTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATC
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC---T---TTGTCACTTGATC
* *
34482448 AGATAAGTGTAACCGAAGCTATCACTTATCACTTTCCAC
60 AGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
*
34482487 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
34482552 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATCACTTATCACTTTCCAC
*
34482585 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
**
34482650 GTATAGCCGAAGCTATTGCTTATCACTTTCCAC
66 GTATAGCCGAAGCTATCACTTATCACTTTCCAC
*
34482683 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
34482745 AGTACTCAAA
Statistics
Matches: 334, Mismatches: 16, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
92 43 0.13
95 1 0.00
98 247 0.74
100 1 0.00
101 1 0.00
104 41 0.12
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTCCAC
Found at i:34489202 original size:49 final size:49
Alignment explanation
Indices: 34489098--34489221 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 49
34489088 TCATTGAGAT
* * *
34489098 TATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACTAA
1 TATGAGAGGTCCCA-GTAAGACCATGTTCGAGACATGGCATGGGCACTAA
* * *
34489148 GATGAGAGGTCTCCCA-TAAGACCATG-TCGAGACATGGCATGGGTACTGA
1 TATGAGAGG--TCCCAGTAAGACCATGTTCGAGACATGGCATGGGCACTAA
**
34489197 TATGAGAACTCCCATGTAAGACCAT
1 TATGAGAGGTCCCA-GTAAGACCAT
34489222 ATCTGAGATA
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
47 5 0.08
49 33 0.54
50 18 0.30
52 5 0.08
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
TATGAGAGGTCCCAGTAAGACCATGTTCGAGACATGGCATGGGCACTAA
Found at i:34490849 original size:19 final size:20
Alignment explanation
Indices: 34490806--34490858 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
34490796 TGCCTCTTTT
34490806 TGCATT-CATTTCATTCATCA
1 TGCATTACATTTCA-TCATCA
*
34490826 -CCATTACATTTCATCAT-A
1 TGCATTACATTTCATCATCA
*
34490844 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
34490859 AAAAAGACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (20 bp):
TGCATTACATTTCATCATCA
Found at i:34496855 original size:9 final size:9
Alignment explanation
Indices: 34496841--34496871 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34496831 GTTAAACGAA
34496841 TCGAGTTAT
1 TCGAGTTAT
*
34496850 TCGAGTTAA
1 TCGAGTTAT
34496859 TCGAGTTAT
1 TCGAGTTAT
34496868 TCGA
1 TCGA
34496872 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:34496941 original size:9 final size:9
Alignment explanation
Indices: 34496924--34496960 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34496914 TGAGTTTTCG
34496924 AATTCGAAT
1 AATTCGAAT
*
34496933 AACTCGAAT
1 AATTCGAAT
34496942 AATTCGAAT
1 AATTCGAAT
34496951 AATTCGAAT
1 AATTCGAAT
34496960 A
1 A
34496961 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34499534 original size:90 final size:90
Alignment explanation
Indices: 34499391--34499563 Score: 292
Period size: 90 Copynumber: 1.9 Consensus size: 90
34499381 AATTCCTATA
* *
34499391 CCCCTTAAGTTATAGTGGGTTGGGTTGAACTTACTATAGTGAATCTTATCTCCCTGATGTTGCAG
1 CCCCTGAAGTTATAGTGGGTTGGGTTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAG
** *
34499456 TGGAGCAGATTGAAGCTATAAAATC
66 TAAAGCAAATTGAAGCTATAAAATC
*
34499481 CCCCTGAAGTTGTAGTGGGTTGGGTTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTATAGTGGGTTGGGTTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAG
34499546 TAAAGCAAATTGAAGCTA
66 TAAAGCAAATTGAAGCTA
34499564 CAAACCTTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (90 bp):
CCCCTGAAGTTATAGTGGGTTGGGTTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAG
TAAAGCAAATTGAAGCTATAAAATC
Found at i:34499656 original size:44 final size:45
Alignment explanation
Indices: 34499522--34499678 Score: 187
Period size: 44 Copynumber: 3.6 Consensus size: 45
34499512 TACTATAGTG
* *
34499522 AATCTTATCTCCCTGAAGTTGCAGTAAAGCAA-ATTGAAGCTACA
1 AATCTTATTTCCCTAAAGTTGCAGTAAAGCAAGATTGAAGCTACA
* * * **
34499566 AACCTTATTTCCCTGAAGTTGTAGTGGAGC-AGATTGAAGCTACA
1 AATCTTATTTCCCTAAAGTTGCAGTAAAGCAAGATTGAAGCTACA
*
34499610 AATCTTATTTCCCTAAAGTTGCAGTAAAGCAAGA-TAAAGCTACA
1 AATCTTATTTCCCTAAAGTTGCAGTAAAGCAAGATTGAAGCTACA
* *
34499654 AATCCTA-TACTCCTAAAGTTGCAGT
1 AATCTTATTTC-CCTAAAGTTGCAGT
34499679 GGGTTGGATT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.03
44 91 0.94
45 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (45 bp):
AATCTTATTTCCCTAAAGTTGCAGTAAAGCAAGATTGAAGCTACA
Found at i:34499744 original size:94 final size:95
Alignment explanation
Indices: 34499379--34499785 Score: 352
Period size: 94 Copynumber: 4.4 Consensus size: 95
34499369 TAGTGAAACC
* * * * * *
34499379 ACAATTCCTATACCCCTTAAGTTATAGTGGGTTGGGTTGAACTTACTATAGTGAATCTTATCTCC
1 ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
** **
34499444 CTGATGTTGCAGTGGAGC-AGATTGAAGCT
66 CTGAAATTGCAGTAAAGCAAGATTGAAGCT
* * *
34499473 ATAAAATCC----C-CCTGAAGTTGTAGTGGGTTGGGTTGAACTTACTATAGTGAATCTTATCTC
1 A-CAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTC
*
34499533 CCTGAAGTTGCAGTAAAGCAA-ATTGAAGCT
65 CCTGAAATTGCAGTAAAGCAAGATTGAAGCT
* **
34499563 ACAAA-CCT-TATTTCCCTGAAGTTGTAGTGGAG-CAGATTGAAGC-TAC---A---AATCTTAT
1 ACAAATCCTATA-CT-CCTGAAGTTGTAGTGG-GTTGGATTGAA-CTTACTATAGCGAATCTTAT
* *
34499618 TTCCCT-AAAGTTGCAGTAAAGCAAGA-TAAAGCT
62 CTCCCTGAAA-TTGCAGTAAAGCAAGATTGAAGCT
* * *
34499651 ACAAATCCTATACTCCTAAAGTTGCAGTGGGTTGGATTGAATTTACTATAGCGAATCTTATCTCC
1 ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
* **
34499716 CTGAAATTACAGTGGAGCAAGA-TGAAGCT
66 CTGAAATTGCAGTAAAGCAAGATTGAAGCT
* * *
34499745 ACAACTCCTATA-TCCCTGAAGTTGTAGTGGATCGGATTGAA
1 ACAAATCCTATACT-CCTGAAGTTGTAGTGGGTTGGATTGAA
34499786 ACTACAATTC
Statistics
Matches: 258, Mismatches: 31, Indels: 48
0.77 0.09 0.14
Matches are distributed among these distances:
87 3 0.01
88 64 0.25
89 8 0.03
90 76 0.29
91 4 0.02
93 1 0.00
94 92 0.36
95 10 0.04
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (95 bp):
ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
CTGAAATTGCAGTAAAGCAAGATTGAAGCT
Found at i:34499813 original size:182 final size:182
Alignment explanation
Indices: 34499487--34499816 Score: 459
Period size: 182 Copynumber: 1.8 Consensus size: 182
34499477 AATCCCCCTG
* * * * *
34499487 AAGTTGTAGTGGGTTGGGTTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAGTAAAGC
1 AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTACAGTAAAGC
* * * *
34499552 AAATTGAAGCTACAAACCTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTA
66 AAATTGAAGCTACAAACCCTATATCCCTGAAGTTGTAGTGGAGCAGATTGAAACTACAAATCCTA
*
34499617 TTTCCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
131 TTACCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
* **
34499669 AAGTTGCAGTGGGTTGGATTGAATTTACTATAGCGAATCTTATCTCCCTGAAATTACAGTGGAGC
1 AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTACAGTAAAGC
* * *
34499734 AAGA-TGAAGCTAC-AACTCCTATATCCCTGAAGTTGTAGTGGATCGGATTGAAACTACAATTCC
66 AA-ATTGAAGCTACAAAC-CCTATATCCCTGAAGTTGTAGTGGAGCAGATTGAAACTACAAATCC
*
34499797 TA-TACCTCTGAAGTTGCAGT
129 TATTACC-CTAAAGTTGCAGT
34499817 GGGTTAGAAT
Statistics
Matches: 128, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
181 6 0.05
182 121 0.95
183 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (182 bp):
AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTACAGTAAAGC
AAATTGAAGCTACAAACCCTATATCCCTGAAGTTGTAGTGGAGCAGATTGAAACTACAAATCCTA
TTACCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
Found at i:34501991 original size:26 final size:26
Alignment explanation
Indices: 34501929--34502001 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
34501919 GGTCTCGACA
* * *
34501929 CAATTCACATAACCATTTCATGTAAT
1 CAATTCATATAACCATTTCATATAAC
* *
34501955 C-ATTCCCTATAACCATTTCGTATAAC
1 CAATT-CATATAACCATTTCATATAAC
* *
34501981 CAATTCATATAATCGTTTCAT
1 CAATTCATATAACCATTTCAT
34502002 CTAAACGTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
25 3 0.08
26 30 0.83
27 3 0.08
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (26 bp):
CAATTCATATAACCATTTCATATAAC
Found at i:34503858 original size:207 final size:207
Alignment explanation
Indices: 34503503--34503920 Score: 755
Period size: 207 Copynumber: 2.0 Consensus size: 207
34503493 TTTGGAAGAA
*
34503503 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACATAATTA
1 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
* *
34503568 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGTCTGAAACCGTCCACTACTA
66 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
34503633 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
131 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
34503698 TTCAATCTTTAC
196 TTCAATCTTTAC
34503710 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
1 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
*
34503775 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAATCGTCCACTACTA
66 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
* * *
34503840 ACCATGATGGTTTAATTACCATTCTAGTCCTTAAATTTTCCTTTTTAACTAATAAAGCTATCTTT
131 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
**
34503905 TTTTATCTTTAC
196 TTCAATCTTTAC
34503917 GATT
1 GATT
34503921 AGTCCTTTTT
Statistics
Matches: 202, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 202 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (207 bp):
GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
TTCAATCTTTAC
Found at i:34505380 original size:19 final size:21
Alignment explanation
Indices: 34505356--34505405 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
34505346 CAGCATCTGT
34505356 ATGTATA-TC-ATTCCGAGAA
1 ATGTATATTCTATTCCGAGAA
34505375 ATGTATAAAATTCTATTCCGAGAA
1 ATGTAT---ATTCTATTCCGAGAA
34505399 ATGTATA
1 ATGTATA
34505406 AAATTTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.23
21 1 0.04
22 1 0.04
23 2 0.08
24 16 0.62
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGTATATTCTATTCCGAGAA
Found at i:34505393 original size:24 final size:24
Alignment explanation
Indices: 34505365--34505410 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
34505355 TATGTATATC
34505365 ATTCCGAGAAATGTATAAAATTCT
1 ATTCCGAGAAATGTATAAAATTCT
34505389 ATTCCGAGAAATGTATAAAATT
1 ATTCCGAGAAATGTATAAAATT
34505411 TTATCTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (24 bp):
ATTCCGAGAAATGTATAAAATTCT
Found at i:34507791 original size:42 final size:42
Alignment explanation
Indices: 34507726--34507807 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
34507716 TGTTAAAAAA
* * *
34507726 ATTATGTATCAAAATAGTACATCCAAAGAGGTGGAAGGTGAG
1 ATTATGTACCAAAATAATACATCCAAAGAGGTGAAAGGTGAG
*
34507768 ATTATGTACCAAAATAATGCATCCAAAGAGGTGAAAGGTG
1 ATTATGTACCAAAATAATACATCCAAAGAGGTGAAAGGTG
34507808 GTACAAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.23
Consensus pattern (42 bp):
ATTATGTACCAAAATAATACATCCAAAGAGGTGAAAGGTGAG
Found at i:34530961 original size:15 final size:15
Alignment explanation
Indices: 34530919--34530961 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
34530909 GTTTTTAATG
*
34530919 CTTAATTTTTCAACA
1 CTTAATTTTTCAGCA
*
34530934 CTTATTTTTTCAGCA
1 CTTAATTTTTCAGCA
*
34530949 TTTAATTTTTCAG
1 CTTAATTTTTCAG
34530962 TTTATCAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (15 bp):
CTTAATTTTTCAGCA
Found at i:34531631 original size:30 final size:30
Alignment explanation
Indices: 34531590--34531660 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
34531580 TTTTCAGGAT
*
34531590 CCACACAGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTGGACACATGCCCGTGTGAG
34531620 CCACACGGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTGGACACATGCCCGTGTGAG
34531650 CCACACGGGCT
1 CCACACGGGCT
34531661 AGCCAGATGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.21, C:0.35, G:0.31, T:0.13
Consensus pattern (30 bp):
CCACACGGGCTGGACACATGCCCGTGTGAG
Found at i:34531671 original size:30 final size:30
Alignment explanation
Indices: 34531590--34531671 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
34531580 TTTTCAGGAT
* *
34531590 CCACACAGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTAGACACATGCCCGTGTGAG
*
34531620 CCACACGGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTAGACACATGCCCGTGTGAG
* *
34531650 CCACACGGGCTAGCCAGATGCC
1 CCACACGGGCTAGACACATGCC
34531672 TATGTGCTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.22, C:0.35, G:0.30, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTAGACACATGCCCGTGTGAG
Found at i:34573342 original size:6 final size:6
Alignment explanation
Indices: 34573298--34573340 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
34573288 TATACCTATA
* *
34573298 TATATG TGTATG TATATG TATATG TATATG TATATG TGTATG T
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG T
34573341 GTGTGCGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:34574812 original size:32 final size:31
Alignment explanation
Indices: 34574767--34574837 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 31
34574757 AGTTACAAAA
***
34574767 TGGTCACCCAATTATTTTAGTTTTTCTTTTT
1 TGGTCACCCAATTATACGAGTTTTTCTTTTT
* *
34574798 TGAGTCACCTAATTATACGATTTTTTCTTTTT
1 TG-GTCACCCAATTATACGAGTTTTTCTTTTT
34574830 TGGTCACC
1 TGGTCACC
34574838 AACTATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (31 bp):
TGGTCACCCAATTATACGAGTTTTTCTTTTT
Found at i:34581058 original size:23 final size:24
Alignment explanation
Indices: 34581010--34581058 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
34581000 TTTGGGTATG
*
34581010 GAACTATAGGCATGTGATGTATTC
1 GAACTATAGGCATGTGATATATTC
*
34581034 GAAC-ATAGGTATGT-ATATATGTC
1 GAACTATAGGCATGTGATATAT-TC
34581057 GA
1 GA
34581059 TAAAGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (24 bp):
GAACTATAGGCATGTGATATATTC
Found at i:34581764 original size:41 final size:41
Alignment explanation
Indices: 34581715--34581905 Score: 337
Period size: 41 Copynumber: 4.6 Consensus size: 41
34581705 GATTATACGT
34581715 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
34581756 CTAGCAGGCTAAGTACCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
34581797 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
34581838 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
34581879 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
34581906 TTAAATTAAG
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 138 0.97
42 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:34585042 original size:30 final size:30
Alignment explanation
Indices: 34584973--34585042 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
34584963 AACAGAGCAT
*
34584973 AGCAGAGCAAAACTGAACTAAACAAAACAC
1 AGCAGAGCAGAACTGAACTAAACAAAACAC
* * * * *
34585003 AGCAGAGCAGAACTTAACTGAACTAAATAG
1 AGCAGAGCAGAACTGAACTAAACAAAACAC
34585033 AGCAGAGCAG
1 AGCAGAGCAG
34585043 GACGGAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.10
Consensus pattern (30 bp):
AGCAGAGCAGAACTGAACTAAACAAAACAC
Found at i:34585042 original size:35 final size:35
Alignment explanation
Indices: 34584961--34585029 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
34584951 ATGACAGAAT
* *
34584961 AAAACAGAGCATAGCAGAGCAAAACTGAACTAAAC
1 AAAACAGAGCAGAGCAGAACAAAACTGAACTAAAC
* **
34584996 AAAACACAGCAGAGCAGAACTTAACTGAACTAAA
1 AAAACAGAGCAGAGCAGAACAAAACTGAACTAAA
34585030 TAGAGCAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.54, C:0.20, G:0.16, T:0.10
Consensus pattern (35 bp):
AAAACAGAGCAGAGCAGAACAAAACTGAACTAAAC
Found at i:34588055 original size:19 final size:18
Alignment explanation
Indices: 34588001--34588055 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
34587991 CATTTGAATC
*
34588001 AAATTTTAAAATTTTAAT
1 AAATTTTAAAATTTTTAT
*
34588019 AAAGTTTTAAATTTTTTAT
1 AAA-TTTTAAAATTTTTAT
*
34588038 TAATTTTACAAATTTTTA
1 AAATTTTA-AAATTTTTA
34588056 ATTGTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
AAATTTTAAAATTTTTAT
Found at i:34590490 original size:20 final size:20
Alignment explanation
Indices: 34590451--34590490 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34590441 TTATTCCCCA
* * *
34590451 AAACTTTTTCTTTTCCCCCT
1 AAACTTTTACTTCTCACCCT
34590471 AAACTTTTACTTCTCACCCT
1 AAACTTTTACTTCTCACCCT
34590491 TTACTCTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTACTTCTCACCCT
Found at i:34605151 original size:133 final size:133
Alignment explanation
Indices: 34604910--34605735 Score: 1194
Period size: 133 Copynumber: 6.2 Consensus size: 133
34604900 CATGTTTCAC
* *
34604910 AGATAACAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * * *
34604974 CATACTGGTGGCGAAGTATATCGAATAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
34605039 CGA
131 CGA
* * * *
34605042 AGATAGTAGATCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATGTAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
*
34605107 CATACTGGTGGCGAAGTAGATCGGAA-AAAATAGATCTTAG-CTTCATGTATTGGCGTGAAGTAG
66 CATACTGGTGGCGAAGTAGATC-GAAGAAAACAGATCTT-GTCTTCATGTATTGGCGTGAAGTAG
34605170 ATCGA
129 ATCGA
* * ** *
34605175 AGATGGCAAATGATGTCTTCCTATGTTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * * * *
34605240 CATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
34605305 CGA
131 CGA
*
34605308 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
34605373 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
34605438 CGA
131 CGA
* * * * *
34605441 AGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAAGTTGTAAATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * * * *
34605506 CATACTAGTGGCAAAGTAGATTGGAA-AAAACAGATCTTGGCTTCATGTATTGGCCTGAAGTAGA
66 CATACTGGTGGCGAAGTAGA-TCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
34605570 TCGA
130 TCGA
*
34605574 AGATAG-AGAATTCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 AGATAGCAG-ATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * ** *
34605638 CCATATTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTGGA
65 CCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
34605703 TCGA
130 TCGA
* * *
34605707 AAATAACAGATCCTGTCTTCTTATATTGG
1 AGATAGCAGATCCTGTCTTCCTATATTGG
34605736 CAGTGAGGCA
Statistics
Matches: 616, Mismatches: 69, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
132 37 0.06
133 569 0.92
134 10 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (133 bp):
AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
CATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
CGA
Found at i:34605680 original size:399 final size:398
Alignment explanation
Indices: 34604910--34605735 Score: 1386
Period size: 399 Copynumber: 2.1 Consensus size: 398
34604900 CATGTTTCAC
*
34604910 AGATAACAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
* * *
34604975 ATACTGGTGGCGAAGTATATCGAATAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
66 ATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATC
* * *
34605040 GAAGATAGTAGATCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATGTAGATCTTGTCTT
131 GAAGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAATATGTAAATCTTGTCTT
* * * *
34605105 CCCATACTGGTGGCGAAGTAGATCGGAAAAAATAGATCTTAGCTTCATGTATTGGCGTGAAGTAG
196 CCCATACTAGTGGCAAAGTAGATCGGAAAAAACAGATCTTAGCTTCATGTATTGGCCTGAAGTAG
* *
34605170 ATCGAAGATGGCAAATGATGTCTTCCTATGTTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
261 ATCGAAGATAGCAAATGATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
34605235 CTTCCCATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
326 CTTCCCATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
34605300 TAGATCGA
391 TAGATCGA
34605308 AGATAACAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAACAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCC
*
34605373 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGAT
65 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGAT
34605438 CGAAGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAAGT-TGTAAATCTTGTC
130 CGAAGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAA-TATGTAAATCTTGTC
* *
34605502 TTCCCATACTAGTGGCAAAGTAGATTGGAAAAAACAGATCTTGGCTTCATGTATTGGCCTGAAGT
194 TTCCCATACTAGTGGCAAAGTAGATCGGAAAAAACAGATCTTAGCTTCATGTATTGGCCTGAAGT
**
34605567 AGATCGAAGATAG-AGAATTCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCT
259 AGATCGAAGATAGCA-AATGATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCT
* * * *
34605631 TGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTG
323 TGTCTTCCCATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
*
34605696 AAGTGGATCGA
388 AAGTAGATCGA
* *
34605707 AAATAACAGATCCTGTCTTCTTATATTGG
1 AGATAACAGATCCTGTCTTCCTATATTGG
34605736 CAGTGAGGCA
Statistics
Matches: 400, Mismatches: 25, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
398 32 0.08
399 367 0.92
400 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (398 bp):
AGATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
ATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATC
GAAGATAGCAGATCCTGTCTTCCTATATCGGCAGCGAAGTGGATCGAATATGTAAATCTTGTCTT
CCCATACTAGTGGCAAAGTAGATCGGAAAAAACAGATCTTAGCTTCATGTATTGGCCTGAAGTAG
ATCGAAGATAGCAAATGATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGT
CTTCCCATATTGATGGAGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
TAGATCGA
Found at i:34607684 original size:16 final size:18
Alignment explanation
Indices: 34607663--34607707 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
34607653 TATATATATG
34607663 TATATGTATATATT-TTT
1 TATATGTATATATTCTTT
34607680 T-TATG-A-ATATTCTTT
1 TATATGTATATATTCTTT
*
34607695 TATATTTATATAT
1 TATATGTATATAT
34607708 ATGCGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 7 0.30
17 2 0.09
18 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
TATATGTATATATTCTTT
Found at i:34616386 original size:20 final size:18
Alignment explanation
Indices: 34616339--34616387 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
34616329 ACAAGATAAA
34616339 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
34616356 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
34616376 ATTAAATTAATA
1 ATTAAATTAATA
34616388 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:34616433 original size:37 final size:37
Alignment explanation
Indices: 34616337--34616442 Score: 96
Period size: 37 Copynumber: 2.9 Consensus size: 37
34616327 CAACAAGATA
*
34616337 AAATTAAATTAA-ATTTAA-TATTAAGATAATCACTTT
1 AAATTAAATTAATATTAAACTATTAAGATAATCAC-TT
*
34616373 AATATTAAATTAATA-AAATACTATTAAGATAAGT-A-TT
1 AA-ATTAAATTAATATTAA-ACTATTAAGATAA-TCACTT
* *
34616410 AAATTAAATTTAATATTAAACTATCAAAATAAT
1 AAATTAAA-TTAATATTAAACTATTAAGATAAT
34616443 AATATTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
36 9 0.16
37 32 0.55
38 4 0.07
39 12 0.21
40 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.39
Consensus pattern (37 bp):
AAATTAAATTAATATTAAACTATTAAGATAATCACTT
Found at i:34616794 original size:20 final size:20
Alignment explanation
Indices: 34616771--34616824 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
34616761 AGTTTTTCCC
*
34616771 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
34616791 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
34616811 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
34616825 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:34616806 original size:30 final size:30
Alignment explanation
Indices: 34616771--34616841 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
34616761 AGTTTTTCCC
34616771 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
34616801 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
34616831 AGCTCGTTTGA
1 AGCTCGTTTGA
34616842 ACTTGGCTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 4 0.11
30 33 0.89
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Done.