Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 27 of 185
Found at i:7455812 original size:13 final size:13
Alignment explanation
Indices: 7455794--7455849 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
7455784 TAGATTTTTC
7455794 CTAAATATTATCA
1 CTAAATATTATCA
*
7455807 CTAAATA--AT-T
1 CTAAATATTATCA
7455817 CTAAATATTATCA
1 CTAAATATTATCA
*
7455830 CAAAATATTATCA
1 CTAAATATTATCA
7455843 CTAAATA
1 CTAAATA
7455850 ATTCTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 7 0.19
11 2 0.06
12 2 0.06
13 25 0.69
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:7456454 original size:14 final size:13
Alignment explanation
Indices: 7456429--7456453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7456419 TATATTCATT
7456429 TTTTATTTTTTTG
1 TTTTATTTTTTTG
7456442 TTTTATTTTTTT
1 TTTTATTTTTTT
7456454 TCAAACGTAG
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:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:7467113 original size:89 final size:89
Alignment explanation
Indices: 7466984--7467163 Score: 245
Period size: 89 Copynumber: 2.0 Consensus size: 89
7466974 AATTAAGTCC
* * * *
7466984 TTTTTTTTGCATTCAATTGGGTACTTGAACTTTCAGAATGCATCAAAAAGACCCTCAAAATTTTC
1 TTTTTTTTGCAATCAATTAGGTACTTGAAATTTCAAAATGCATCAAAAAGACCCTCAAAATTTTC
*
7467049 CAAAAAAAGCAATTAAGCCCCTTT
66 CAAAAAAAGCAATTAAACCCCTTT
* **
7467073 TTTTTTTTGCAATCAATTAGGTACTT-AAATTGTCAAAATGCATCAAAAAGACTCTCAATTTTTT
1 TTTTTTTTGCAATCAATTAGGTACTTGAAATT-TCAAAATGCATCAAAAAGACCCTCAAAATTTT
* * *
7467137 TCAAAAAAGGCAATTAAACTCCTTT
65 CCAAAAAAAGCAATTAAACCCCTTT
7467162 TT
1 TT
7467164 GTATGCACTC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 4 0.05
89 75 0.95
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.37
Consensus pattern (89 bp):
TTTTTTTTGCAATCAATTAGGTACTTGAAATTTCAAAATGCATCAAAAAGACCCTCAAAATTTTC
CAAAAAAAGCAATTAAACCCCTTT
Found at i:7467408 original size:19 final size:21
Alignment explanation
Indices: 7467386--7467434 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
7467376 AAAGAAAAAA
7467386 TATAAAAATATT-TAAAA-TT
1 TATAAAAATATTGTAAAATTT
*
7467405 TATAAAAAAATTGTAAAATTT
1 TATAAAAATATTGTAAAATTT
7467426 TATAAAAAT
1 TATAAAAAT
7467435 CATAAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 11 0.42
20 5 0.19
21 10 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TATAAAAATATTGTAAAATTT
Found at i:7467440 original size:19 final size:20
Alignment explanation
Indices: 7467398--7467441 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7467388 TAAAAATATT
**
7467398 TAAAATTTATAAAAAAATTG
1 TAAAATTTATAAAAAAATCA
*
7467418 TAAAATTT-TATAAAAATCA
1 TAAAATTTATAAAAAAATCA
7467437 TAAAA
1 TAAAA
7467442 AAGCATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAATTTATAAAAAAATCA
Found at i:7467675 original size:19 final size:19
Alignment explanation
Indices: 7467653--7467721 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
7467643 TTCTTACGAC
*
7467653 TTTATAAAATTATATATAT
1 TTTATAAAATTTTATATAT
**
7467672 TTTATAATTTTTTATGAT-T
1 TTTATAAAATTTTAT-ATAT
*
7467691 TTTATAAAATTTTA-AAAT
1 TTTATAAAATTTTATATAT
*
7467709 TTTTTAAAATTTT
1 TTTATAAAATTTT
7467722 TTAAAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
17 1 0.02
18 13 0.32
19 25 0.61
20 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
TTTATAAAATTTTATATAT
Found at i:7467684 original size:10 final size:10
Alignment explanation
Indices: 7467671--7467753 Score: 71
Period size: 10 Copynumber: 8.4 Consensus size: 10
7467661 ATTATATATA
7467671 TTTTATAATT
1 TTTTATAATT
*
7467681 TTTTATGA-T
1 TTTTATAATT
**
7467690 TTTTATAAAA
1 TTTTATAATT
*
7467700 TTTTAAAATT
1 TTTTATAATT
*
7467710 TTTTAAAATT
1 TTTTATAATT
* *
7467720 TTTTAAAAAT
1 TTTTATAATT
*
7467730 TTTTACAA-T
1 TTTTATAATT
7467739 TTTTATAATCT
1 TTTTATAAT-T
7467750 TTTT
1 TTTT
7467754 CTAAATAATA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
9 16 0.26
10 40 0.66
11 5 0.08
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:7467702 original size:29 final size:29
Alignment explanation
Indices: 7467670--7467742 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
7467660 AATTATATAT
* **
7467670 ATTTTATAATTTTTTATGA-TTTTTATAAA
1 ATTTTAAAATTTTTTAAAATTTTTTA-AAA
7467699 ATTTTAAAATTTTTTAAAATTTTTTAAAA
1 ATTTTAAAATTTTTTAAAATTTTTTAAAA
*
7467728 ATTTTTACAATTTTT
1 A-TTTTAAAATTTTT
7467743 ATAATCTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 20 0.53
30 18 0.47
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (29 bp):
ATTTTAAAATTTTTTAAAATTTTTTAAAA
Found at i:7467819 original size:29 final size:30
Alignment explanation
Indices: 7467764--7467822 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
7467754 CTAAATAATA
*
7467764 AAAAATTAATATTTTTATATATTTTTTATT
1 AAAAATTAATATTTTTATATATCTTTTATT
7467794 AAAAATTAATAATTTTTATA-A-CTTTTATT
1 AAAAATTAAT-ATTTTTATATATCTTTTATT
7467823 GATTTGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.26
30 11 0.41
31 9 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
AAAAATTAATATTTTTATATATCTTTTATT
Found at i:7471358 original size:2 final size:2
Alignment explanation
Indices: 7471353--7471388 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7471343 ATATAAAGAC
7471353 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7471389 GTCCCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7480246 original size:72 final size:72
Alignment explanation
Indices: 7480129--7480270 Score: 275
Period size: 72 Copynumber: 2.0 Consensus size: 72
7480119 TTTGTGATTT
7480129 AAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTGAG
1 AAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTGAG
*
7480194 TCGTATC
66 CCGTATC
7480201 AAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTGAG
1 AAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTGAG
7480266 CCGTA
66 CCGTA
7480271 AATATTTTTA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.28
Consensus pattern (72 bp):
AAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTGAG
CCGTATC
Found at i:7480989 original size:20 final size:21
Alignment explanation
Indices: 7480964--7481004 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7480954 ATGTTGAATT
7480964 AATTGA-TGAATTACAAGTTA
1 AATTGATTGAATTACAAGTTA
*
7480984 AATTGATTGAATTTCAAGTTA
1 AATTGATTGAATTACAAGTTA
7481005 GAAGTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (21 bp):
AATTGATTGAATTACAAGTTA
Found at i:7484229 original size:19 final size:18
Alignment explanation
Indices: 7484207--7484244 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7484197 TATAATAATG
*
7484207 ATAACAATAATAAATAGTA
1 ATAAAAATAAT-AATAGTA
7484226 ATAAAAATAATAATAGTA
1 ATAAAAATAATAATAGTA
7484244 A
1 A
7484245 ATTAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAAAAATAATAATAGTA
Found at i:7486641 original size:44 final size:44
Alignment explanation
Indices: 7486588--7487006 Score: 143
Period size: 44 Copynumber: 9.1 Consensus size: 44
7486578 TAGAGAAAGA
* * * *
7486588 TGAACCTACAAATCCTATATCCCTGAAGTTGTAGCGGATCGTAT
1 TGAAGCTACAAATCCTATATCCCTAAAGTTGTAGTGGATCGAAT
* * * *
7486632 TGAAGCTACAATTCTTATAACCCTAAAGTTGTAGTGGGTCGGAA-
1 TGAAGCTACAAATCCTATATCCCTAAAGTTGTAGTGGATC-GAAT
* * **
7486676 TGAAACTACAATGACAAATCCTATATCCTTAAAGTTACAGTGGATCGAAT
1 TG-AA--GC--T-ACAAATCCTATATCCCTAAAGTTGTAGTGGATCGAAT
* * * * * *
7486726 TAAAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGG-TCGGAT
1 TGAAGCTACAAATCCTATATCCCTAAAGTTGTAGT-GGATCGAAT
* * * * * * * *
7486770 TGAATCTACCATAGCAAGTCTTATCTCCCTAAACTTGCAGTCGAAC-AAGA
1 TGAAGCTA-C--A--AA-TCCTATATCCCTAAAGTTGTAGTGGATCGAA-T
* * * * * * *
7486820 TGAAGCTACAAATCTTATA-CCCTTGAATTTGCAGAGGGTCGGAT
1 TGAAGCTACAAATCCTATATCCC-TAAAGTTGTAGTGGATCGAAT
* * * *
7486864 TGAAGTTACCATAACTAACCT-TATCTCTCTAAAGTT-TCAGCGGAGC-AAGG
1 TGAAGCTA-CA-AA-T--CCTATATC-C-CTAAAGTTGT-AGTGGATCGAA-T
* * *
7486914 TGAACCTACAAATCTTATATCCCTGAAGTTGTAGTGGATCTG-AT
1 TGAAGCTACAAATCCTATATCCCTAAAGTTGTAGTGGATC-GAAT
* * * * *
7486958 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
1 TGAAGCTACAAATCCTATATCCCTAAAGTTGTAGTGGATCGAAT
7487002 TGAAG
1 TGAAG
7487007 TTACCATAGC
Statistics
Matches: 275, Mismatches: 66, Indels: 68
0.67 0.16 0.17
Matches are distributed among these distances:
43 4 0.01
44 148 0.54
45 18 0.07
46 6 0.02
47 6 0.02
48 4 0.01
49 17 0.06
50 71 0.26
51 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
TGAAGCTACAAATCCTATATCCCTAAAGTTGTAGTGGATCGAAT
Found at i:7486693 original size:94 final size:94
Alignment explanation
Indices: 7486595--7486778 Score: 242
Period size: 94 Copynumber: 2.0 Consensus size: 94
7486585 AGATGAACCT
* ** * * *
7486595 ACAAATCCTATATCCCTGAAGTTGTAGCGGATCGTATTGAAGCTACAATTCTTATAACCCTAAAG
1 ACAAATCCTATATCCCTAAAGTTACAGCGGATCGAATTAAAGCTACAAATCTTATAACCCTAAAG
* *
7486660 TTGTAGTGGGTCGGAATGAAACTACAATG
66 TTGCAGTAGGTCGGAATGAAACTACAATG
* * * *
7486689 ACAAATCCTATATCCTTAAAGTTACAGTGGATCGAATTAAAGCTACAAATCTTATACCCCTGAAG
1 ACAAATCCTATATCCCTAAAGTTACAGCGGATCGAATTAAAGCTACAAATCTTATAACCCTAAAG
* *
7486754 TTGCAGTAGGTCGGATTGAATCTAC
66 TTGCAGTAGGTCGGAATGAAACTAC
7486779 CATAGCAAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (94 bp):
ACAAATCCTATATCCCTAAAGTTACAGCGGATCGAATTAAAGCTACAAATCTTATAACCCTAAAG
TTGCAGTAGGTCGGAATGAAACTACAATG
Found at i:7486826 original size:94 final size:94
Alignment explanation
Indices: 7486728--7486966 Score: 272
Period size: 94 Copynumber: 2.5 Consensus size: 94
7486718 GATCGAATTA
* *
7486728 AAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAGC-AAGTCTT
1 AAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAACTAA-CCTT
7486792 ATCTCCCTAAACTTGCAGTC-GAACAAGATG
65 ATCTCCCTAAACTTGCAG-CGGAACAAGATG
* *
7486822 AAGCTACAAATCTTATACCCTTGAATTTGCAG-AGGGTCGGATTGAAGT-TACCATAACTAACCT
1 AAGCTACAAATCTTATACCCCTGAAGTTGCAGTA-GGTCGGATTGAA-TCTACCATAACTAACCT
* * * * *
7486885 TATCTCTCTAAAGTTTCAGCGGAGCAAGGTG
64 TATCTCCCTAAACTTGCAGCGGAACAAGATG
* * * * *
7486916 AACCTACAAATCTTATATCCCTGAAGTTGTAGT-GGATCTGATTGAAGCTAC
1 AAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGG-TCGGATTGAATCTAC
7486967 AAATCCTATA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
93 4 0.03
94 115 0.94
95 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (94 bp):
AAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAACTAACCTTA
TCTCCCTAAACTTGCAGCGGAACAAGATG
Found at i:7487036 original size:138 final size:138
Alignment explanation
Indices: 7486820--7487136 Score: 395
Period size: 138 Copynumber: 2.3 Consensus size: 138
7486810 TCGAACAAGA
* * * * *
7486820 TGAAGCTACAAATCTTATACCCTTGAATTTGCAGAGGGTCGGATTGAAGTTACCATAACTAACCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAACGAACCT
* * * * *
7486885 TATCTCTCTAAAGTT-TCAG-CGGAGCAAGGTGAACCTACAAATCTTATATCCCTGAAGTTGTAG
66 TATCTCCCTAAAGTTGT-AGTAGG-GCAAGATGAACCTACAAATCCTATATCCCTGAAGTTATAG
*
7486948 TGGATCTGAT
129 TGGATCAGAT
* **
7486958 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAACGAACCT
* * * *
7487023 TATCTCCCTAAAGTTGTAGTAGGGCAAGATGAAGCTGCAAATCCTATATCTCTGTAGTTATAGTG
66 TATCTCCCTAAAGTTGTAGTAGGGCAAGATGAACCTACAAATCCTATATCCCTGAAGTTATAGTG
7487088 GATCAGAT
131 GATCAGAT
** * * *
7487096 TGAAGAGACAATTCCTATACCTCTGAAGTTGCAGTAGGTCG
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCG
7487137 AAATGAAATT
Statistics
Matches: 154, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
138 151 0.98
139 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (138 bp):
TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAACGAACCT
TATCTCCCTAAAGTTGTAGTAGGGCAAGATGAACCTACAAATCCTATATCCCTGAAGTTATAGTG
GATCAGAT
Found at i:7487184 original size:232 final size:229
Alignment explanation
Indices: 7486503--7487186 Score: 577
Period size: 232 Copynumber: 2.9 Consensus size: 229
7486493 GTGAAATCTT
* * * * * * * * *
7486503 AAATCCTATACCCCTAAAATAGCAGTGGGTCAGATTGAAGCTA-AAGTGGCGAATCTTATCTCCG
1 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCA-TAGCGAGTCTTATCTCCC
* * * *
7486567 TGAAGTTGCAGTAGAGAAAGATGAACCTACAAATCCTATATCCCTGAAGTTGTAGCGGATCGTAT
65 TAAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGTAGAGGATCG-AT
* * * * *
7486632 TGAAG-CTACAATTCTTATAACC-CTAAAGTTGTAGTGGGTCGGAATGAAACTACAATGACAAAT
129 TGAAGAC-ACAATTCCTAT-ACCTCTAAAGTTGCAGTAGGTCGAAATGAAA-TATAATG-CAAAT
* *
7486695 CCTATAT-CCTTAAAGTTACAGTGGATCGAATTAAAGCTAC
190 CTTATATCCCTT-AAGTTGCAGTGGATCGAATTAAAGCTAC
* * *
7486735 AAATCTTATACCCCTGAAGTTGCAGTAGGTCGGATTGAA-TCTACCATAGCAAGTCTTATCTCCC
1 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGT-TACCATAGCGAGTCTTATCTCCC
* * * * * * *
7486799 TAAACTTGCAGTCGAACAAGATGAAGCTACAAATCTTATA-CCCTTGAATTTGCAGAGGGTCGGA
65 TAAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATATCCC-TGAAGTTGTAGAGGATC-GA
* * * * * * **
7486863 TTGAAGTTACCATAACTAACCT-TATCTCTCTAAAGTTTCAG-CGG-AGCAAGGTG-AACCT-A-
128 TTGAAG--A-CACAA-T-TCCTATA-C-CTCTAAAGTTGCAGTAGGTCG-AA-ATGAAATATAAT
* * *
7486922 -CAAATCTTATATCCCTGAAGTTGTAGTGGATCTG-ATTGAAGCTAC
184 GCAAATCTTATATCCCTTAAGTTGCAGTGGATC-GAATTAAAGCTAC
7486967 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCTTATCTCCCT
* * * * * * *
7487032 AAAGTTGTAGTAGGGCAAGATGAAGCTGCAAATCCTATATCTCTGTAGTTATAGTGGATCAGATT
66 AAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGTAGAGGATC-GATT
* * *
7487097 GAAGAGACAATTCCTATACCTCTGAAGTTGCAGTAGGTCGAAATGAAATTATAATGGCGAATCTT
130 GAAGACACAATTCCTATACCTCTAAAGTTGCAGTAGGTCGAAATGAAA-TATAAT-GCAAATCTT
* * *
7487162 TTTTCCCTTAATTTGCAGTGGATCG
193 ATATCCCTTAAGTTGCAGTGGATCG
7487187 GAATGAAATT
Statistics
Matches: 350, Mismatches: 74, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
226 14 0.04
227 10 0.03
228 5 0.01
229 4 0.01
230 1 0.00
231 4 0.01
232 273 0.78
233 9 0.03
235 5 0.01
236 5 0.01
237 8 0.02
238 12 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (229 bp):
AAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCTTATCTCCCT
AAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGTAGAGGATCGATTG
AAGACACAATTCCTATACCTCTAAAGTTGCAGTAGGTCGAAATGAAATATAATGCAAATCTTATA
TCCCTTAAGTTGCAGTGGATCGAATTAAAGCTAC
Found at i:7487193 original size:138 final size:138
Alignment explanation
Indices: 7486827--7487180 Score: 334
Period size: 138 Copynumber: 2.6 Consensus size: 138
7486817 AGATGAAGCT
* * * * * * * * * *
7486827 ACAAATCTTATACCCTTGAATTTGCAG-AGGGTCGGATTGAAGTTACCATAACTAACCTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTA-GGTCGAAATGAAATTACAATAGCGAATCTTATCTC
* * * * * * * * *
7486891 TCTAAAGTTTCAG-CGGAGCAAGGTGAACCTACAAATCTTATATCCCTGAAGTTGTAGTGGATCT
65 CCTAAAGTTGCAGTAGG-GCAAGATGAAGCTGCAAATCCTATATCCCTGAAGTTATAGTGGATCA
**
7486955 GATTGAAGCT
129 GATTGAAGAG
* * * * * *
7486965 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTAGGTCGAAATGAAATTACAATAGCGAATCTTATCTCC
* * *
7487030 CTAAAGTTGTAGTAGGGCAAGATGAAGCTGCAAATCCTATATCTCTGTAGTTATAGTGGATCAGA
66 CTAAAGTTGCAGTAGGGCAAGATGAAGCTGCAAATCCTATATCCCTGAAGTTATAGTGGATCAGA
7487095 TTGAAGAG
131 TTGAAGAG
* * * * * *
7487103 ACAATTCCTATACCTCTGAAGTTGCAGTAGGTCGAAATGAAATTATAATGGCGAATCTTTTTTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTAGGTCGAAATGAAATTACAATAGCGAATCTTATCTCC
* *
7487168 CTTAATTTGCAGT
66 CTAAAGTTGCAGT
7487181 GGATCGGAAT
Statistics
Matches: 177, Mismatches: 37, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
138 175 0.99
139 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (138 bp):
ACAAATCCTATACCCCTGAAGTTGCAGTAGGTCGAAATGAAATTACAATAGCGAATCTTATCTCC
CTAAAGTTGCAGTAGGGCAAGATGAAGCTGCAAATCCTATATCCCTGAAGTTATAGTGGATCAGA
TTGAAGAG
Found at i:7487203 original size:50 final size:50
Alignment explanation
Indices: 7487121--7487232 Score: 163
Period size: 50 Copynumber: 2.2 Consensus size: 50
7487111 TATACCTCTG
* * *
7487121 AAGTTGCAGTAGGTCGAAATGAAATTATAATGGCGAATCTTTTTTCCCTT
1 AAGTTGCAGTAGGTCGAAATGAAATTACAATGGCGAATCTTATTTCCCTA
* *
7487171 AATTTGCAGT-GGATCGGAATGAAATTACAATGGCGAATCTTATTTCCCTA
1 AAGTTGCAGTAGG-TCGAAATGAAATTACAATGGCGAATCTTATTTCCCTA
7487221 AAGTTGCAGTAG
1 AAGTTGCAGTAG
7487233 AGCAAGATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
49 2 0.04
50 51 0.94
51 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (50 bp):
AAGTTGCAGTAGGTCGAAATGAAATTACAATGGCGAATCTTATTTCCCTA
Found at i:7487250 original size:50 final size:50
Alignment explanation
Indices: 7487121--7487250 Score: 122
Period size: 50 Copynumber: 2.6 Consensus size: 50
7487111 TATACCTCTG
* * * *
7487121 AAGTTGCAGTAG-GTC-GAAATGAAATTATAATGGCGAATCTTTTTTCCCTT
1 AAGTTGCAGTAGAG-CAG-AATGAAACTACAATGGCGAATCTTATTTCCCTA
* * * * *
7487171 AATTTGCAGTGGATCGGAATGAAATTACAATGGCGAATCTTATTTCCCTA
1 AAGTTGCAGTAGAGCAGAATGAAACTACAATGGCGAATCTTATTTCCCTA
*
7487221 AAGTTGCAGTAGAGCA-AGATGAAGCTACAA
1 AAGTTGCAGTAGAGCAGA-ATGAAACTACAA
7487251 ATATTATATC
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
49 1 0.02
50 63 0.97
51 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (50 bp):
AAGTTGCAGTAGAGCAGAATGAAACTACAATGGCGAATCTTATTTCCCTA
Found at i:7488705 original size:16 final size:17
Alignment explanation
Indices: 7488684--7488724 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7488674 TATGTAATTA
7488684 TATTATTATCAT-ACAT
1 TATTATTATCATGACAT
* *
7488700 TTTTA-TATCATGTCAT
1 TATTATTATCATGACAT
7488716 TATTATTAT
1 TATTATTAT
7488725 TATCATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 6 0.30
16 11 0.55
17 3 0.15
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATTATCATGACAT
Found at i:7499128 original size:18 final size:18
Alignment explanation
Indices: 7499105--7499139 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7499095 AGAAATAGCT
*
7499105 GCAAAATAATACATAAAA
1 GCAAAACAATACATAAAA
7499123 GCAAAACAATACATAAA
1 GCAAAACAATACATAAA
7499140 TGCTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (18 bp):
GCAAAACAATACATAAAA
Found at i:7502212 original size:14 final size:16
Alignment explanation
Indices: 7502182--7502216 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
7502172 AAATAATATA
7502182 AATAAATAGATAAATC
1 AATAAATAGATAAATC
7502198 AATAAATA-A-AAATC
1 AATAAATAGATAAATC
7502212 AATAA
1 AATAA
7502217 CATGCAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
15 1 0.05
16 8 0.42
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (16 bp):
AATAAATAGATAAATC
Found at i:7502388 original size:26 final size:27
Alignment explanation
Indices: 7502359--7502446 Score: 81
Period size: 30 Copynumber: 3.1 Consensus size: 27
7502349 ATACATGTAC
7502359 ATATATAAAAAAAAT-TATA-TACATAT
1 ATATATAAAAAAAATATA-ACTACATAT
* *
7502385 ATATAGATTATAAAAAATATAATTACATAT
1 ATAT--A-TAAAAAAAATATAACTACATAT
7502415 ATATATAAACAAATAATAATAACTACATAT
1 ATATATAAA-AAA-AAT-ATAACTACATAT
7502445 AT
1 AT
7502447 TAAAATTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
26 4 0.08
27 3 0.06
28 5 0.10
29 13 0.25
30 26 0.51
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (27 bp):
ATATATAAAAAAAATATAACTACATAT
Found at i:7502399 original size:28 final size:27
Alignment explanation
Indices: 7502342--7502419 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 27
7502332 AAAATGGTAC
* * *
7502342 AAAATATATACATGTACATATATAAAA
1 AAAATATATACATATATATAGATAAAA
*
7502369 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATATATAGA-TAAAA
7502398 AAAATATAATTACATATATATA
1 AAAATAT-A-TACATATATATA
7502420 TAAACAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 4 0.09
28 18 0.42
29 9 0.21
30 12 0.28
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.35
Consensus pattern (27 bp):
AAAATATATACATATATATAGATAAAA
Found at i:7502748 original size:3 final size:3
Alignment explanation
Indices: 7502740--7502827 Score: 119
Period size: 3 Copynumber: 30.0 Consensus size: 3
7502730 GTATATATAG
*
7502740 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
7502788 GAA -AA TAA -AA T-T TAA TAA TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
7502828 AAAGACTAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
2 5 0.06
3 69 0.90
4 3 0.04
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7503148 original size:21 final size:21
Alignment explanation
Indices: 7503099--7503196 Score: 112
Period size: 21 Copynumber: 4.7 Consensus size: 21
7503089 AAATTAAATC
*
7503099 TCTAAGATTACA-AAATCATA
1 TCTAAGATTGCATAAATCATA
7503119 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTGCATAAATCATA
*
7503143 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
7503164 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
* *
7503183 TATAAGATTACATA
1 TCTAAGATTGCATA
7503197 TCCTTGAAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.25
21 33 0.48
23 11 0.16
24 8 0.12
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:7505779 original size:22 final size:22
Alignment explanation
Indices: 7505753--7505798 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
7505743 AATTTACCCA
7505753 AAGGTAAATTATTTATTCTATG
1 AAGGTAAATTATTTATTCTATG
7505775 AAGGTAAATTATTTATTCTATG
1 AAGGTAAATTATTTATTCTATG
7505797 AA
1 AA
7505799 TAGTGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (22 bp):
AAGGTAAATTATTTATTCTATG
Found at i:7510576 original size:29 final size:29
Alignment explanation
Indices: 7510536--7510594 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
7510526 TCATGTAAGA
** *
7510536 GGTGGAGAACTTGTTTGTTGAGAGTTCGT
1 GGTGGAGAACTTGTTCATTGAGAATTCGT
7510565 GGTGGAGAACTTGTTCATTGAGAATTCGT
1 GGTGGAGAACTTGTTCATTGAGAATTCGT
7510594 G
1 G
7510595 TAAATGTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.08, G:0.36, T:0.36
Consensus pattern (29 bp):
GGTGGAGAACTTGTTCATTGAGAATTCGT
Found at i:7515296 original size:9 final size:9
Alignment explanation
Indices: 7515280--7515325 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
7515270 TCATTCTCCT
7515280 AATTCTCTC
1 AATTCTCTC
7515289 AATTCTCTC
1 AATTCTCTC
*
7515298 GATTCAT-T-
1 AATTC-TCTC
*
7515306 TATTCTCTC
1 AATTCTCTC
7515315 AATTCTCTC
1 AATTCTCTC
7515324 AA
1 AA
7515326 CTTTTTAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
7 1 0.03
8 5 0.16
9 24 0.77
10 1 0.03
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (9 bp):
AATTCTCTC
Found at i:7522019 original size:49 final size:49
Alignment explanation
Indices: 7521919--7522025 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
7521909 TCCAGCTTAC
* * **
7521919 GGTGGTTATACGGTCACAGGTTGAAGTATAACTAGGGCTCCTGGTTAAT
1 GGTGGTTATACAGTCACAGGTTAAAGTATAACTAGGGCTCCCAGTTAAT
* * * *
7521968 GGTGATTATACAGTCACGGGTTAAAGTATAACTGGGGAC-CCCAGTTGAT
1 GGTGGTTATACAGTCACAGGTTAAAGTATAACTAGGG-CTCCCAGTTAAT
7522017 GGTGGTTAT
1 GGTGGTTAT
7522026 GTGGTCATGG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
49 47 0.98
50 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (49 bp):
GGTGGTTATACAGTCACAGGTTAAAGTATAACTAGGGCTCCCAGTTAAT
Found at i:7522644 original size:49 final size:49
Alignment explanation
Indices: 7522567--7522673 Score: 137
Period size: 49 Copynumber: 2.2 Consensus size: 49
7522557 ATGAAACTTG
* * *
7522567 AACCCGTGATCGCATAACCACCGTCAACT-AG-GCTCTCGAGTTATACTCC
1 AACCTGTGATAGCATAACCACCGTCAACTAAGAGCACT--AGTTATACTCC
* *
7522616 AACCTGTGATAGCATAACCACTGTCAACTAAGAGCACTAGTTATACTTC
1 AACCTGTGATAGCATAACCACCGTCAACTAAGAGCACTAGTTATACTCC
7522665 AACCTGTGA
1 AACCTGTGA
7522674 CCATATAACC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 45 0.88
50 2 0.04
51 4 0.08
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (49 bp):
AACCTGTGATAGCATAACCACCGTCAACTAAGAGCACTAGTTATACTCC
Found at i:7522682 original size:49 final size:48
Alignment explanation
Indices: 7522578--7522693 Score: 128
Period size: 49 Copynumber: 2.4 Consensus size: 48
7522568 ACCCGTGATC
* * *
7522578 GCATAACCACCGTCAACTAGGCTCTCGAGTTATACTCCAACCTGTGATA
1 GCATAACCACTGTCAACTAGGCACTC-AGTTATACTCCAACCTGTGACA
*
7522627 GCATAACCACTGTCAACTAAGAGCACT-AGTTATACTTCAACCTGTGACCA
1 GCATAACCACTGTCAACT-AG-GCACTCAGTTATACTCCAACCTGTGA-CA
* *
7522677 -TATAACCACTGTGAACT
1 GCATAACCACTGTCAACT
7522694 GGGAGCCTGA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 51 0.88
50 3 0.05
51 4 0.07
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (48 bp):
GCATAACCACTGTCAACTAGGCACTCAGTTATACTCCAACCTGTGACA
Found at i:7529410 original size:33 final size:33
Alignment explanation
Indices: 7529368--7529435 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
7529358 TTAGAGATAA
7529368 ATTCGTTCTCCCAATATGATCCTATTTTATCTC
1 ATTCGTTCTCCCAATATGATCCTATTTTATCTC
7529401 ATTCGTTCTCCCAATATGATCCTATTTTATCTC
1 ATTCGTTCTCCCAATATGATCCTATTTTATCTC
7529434 AT
1 AT
7529436 GGCAACAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.06, T:0.46
Consensus pattern (33 bp):
ATTCGTTCTCCCAATATGATCCTATTTTATCTC
Found at i:7532566 original size:13 final size:13
Alignment explanation
Indices: 7532548--7532572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7532538 ATTTTTAATA
7532548 TTATTTTGTGTGT
1 TTATTTTGTGTGT
7532561 TTATTTTGTGTG
1 TTATTTTGTGTG
7532573 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:7534352 original size:41 final size:40
Alignment explanation
Indices: 7534322--7534467 Score: 120
Period size: 41 Copynumber: 3.6 Consensus size: 40
7534312 GGTTATGTAC
7534322 CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTACG
1 CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTACG
* *
7534362 TCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATG
1 -CTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTTTACG
* * * * *
7534403 TCTAGCAGGC-TAAGTGCCGTTGTACTGAA-TCAGGCTTTAAG
1 -CTAGCAGGCTTAA-TGCCGGTGAAGT-AATTCAGACTTTACG
* *
7534444 CCTAGCAGGCTAAATGCCAGTGAA
1 -CTAGCAGGCTTAATGCCGGTGAA
7534468 TCTGTTTAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.02
40 5 0.06
41 74 0.85
42 3 0.03
43 2 0.02
44 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTACG
Found at i:7535175 original size:17 final size:17
Alignment explanation
Indices: 7535142--7535176 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7535132 GATTAAAAGG
7535142 TTATAATATTTATATAT
1 TTATAATATTTATATAT
7535159 TTATATATATTTA-ATAT
1 TTATA-ATATTTATATAT
7535176 T
1 T
7535177 GCTGTAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATAATATTTATATAT
Found at i:7541312 original size:16 final size:14
Alignment explanation
Indices: 7541276--7541304 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7541266 TGAAATTGTC
7541276 AAAAATTTTACTGG
1 AAAAATTTTACTGG
7541290 AAAAATTTTACTGG
1 AAAAATTTTACTGG
7541304 A
1 A
7541305 GTAAAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
AAAAATTTTACTGG
Found at i:7568921 original size:60 final size:60
Alignment explanation
Indices: 7568853--7568973 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
7568843 AAGTGATTAT
7568853 TTCTGGCACATGCATTTCTTCAAATAAATGCGACCAATTGTTACAGATTTTCTGTTATTC
1 TTCTGGCACATGCATTTCTTCAAATAAATGCGACCAATTGTTACAGATTTTCTGTTATTC
* *
7568913 TTCTGGCACATGCATTTCTTCAAATAAATGTGACCAGTTGTTACAGATTTTCTGTTATTC
1 TTCTGGCACATGCATTTCTTCAAATAAATGCGACCAATTGTTACAGATTTTCTGTTATTC
7568973 T
1 T
7568974 GCTAAAAGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (60 bp):
TTCTGGCACATGCATTTCTTCAAATAAATGCGACCAATTGTTACAGATTTTCTGTTATTC
Found at i:7578671 original size:13 final size:13
Alignment explanation
Indices: 7578655--7578695 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
7578645 TACTTTTTAA
7578655 GTTTTATTTATTT
1 GTTTTATTTATTT
7578668 GTTTTATTTATTT
1 GTTTTATTTATTT
*
7578681 GCTTATTATTAATTT
1 G-TT-TTATTTATTT
7578696 TATAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 14 0.56
14 2 0.08
15 9 0.36
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (13 bp):
GTTTTATTTATTT
Found at i:7579891 original size:15 final size:15
Alignment explanation
Indices: 7579868--7579904 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7579858 TTTCTATACA
*
7579868 TTTACATCTGCATAT
1 TTTATATCTGCATAT
7579883 TTTATATCTGCATAT
1 TTTATATCTGCATAT
*
7579898 TTAATAT
1 TTTATAT
7579905 ATATATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (15 bp):
TTTATATCTGCATAT
Found at i:7581140 original size:37 final size:37
Alignment explanation
Indices: 7581098--7581172 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
7581088 GTTTCGACAA
7581098 TATTATT-TTTAAAAATTTTAAATA-TATTTTTAAAAAT
1 TATTATTATTT-AAAA-TTTAAATATTATTTTTAAAAAT
* *
7581135 TATTATTATTTTAAATTTAAATATTATTTTTTAAAAT
1 TATTATTATTTAAAATTTAAATATTATTTTTAAAAAT
7581172 T
1 T
7581173 TAAATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 8 0.24
37 23 0.68
38 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (37 bp):
TATTATTATTTAAAATTTAAATATTATTTTTAAAAAT
Found at i:7581159 original size:18 final size:19
Alignment explanation
Indices: 7581096--7581182 Score: 81
Period size: 21 Copynumber: 4.4 Consensus size: 19
7581086 CGGTTTCGAC
7581096 AATATTATTTTTAAAAATTTTA
1 AATATTA-TTTT-AAAA-TTTA
*
7581118 AATA-TATTTTTAAAAATT-
1 AATATTA-TTTTAAAATTTA
*
7581136 ATTATTATTTT-AAATTTA
1 AATATTATTTTAAAATTTA
7581154 AATATTATTTTTTAAAATTTA
1 AATATTA--TTTTAAAATTTA
7581175 AATATTAT
1 AATATTAT
7581183 AAAATATTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.09
18 13 0.23
19 5 0.09
20 8 0.14
21 21 0.38
22 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTATTTTAAAATTTA
Found at i:7581274 original size:13 final size:13
Alignment explanation
Indices: 7581234--7581342 Score: 51
Period size: 13 Copynumber: 9.2 Consensus size: 13
7581224 TTATTTTATA
*
7581234 ATATTTTAAATGT
1 ATATTTTAAATAT
*
7581247 ATATTCT-AA-A-
1 ATATTTTAAATAT
7581257 A-ATTTTAAATAT
1 ATATTTTAAATAT
7581269 ATATTTT---T-T
1 ATATTTTAAATAT
7581278 A-ATTTTAAATAT
1 ATATTTTAAATAT
* *
7581290 ATTTTTTAATTAT
1 ATATTTTAAATAT
* * *
7581303 TTTTTTTAATTAT
1 ATATTTTAAATAT
*
7581316 GATTTTTTAAAT-T
1 -ATATTTTAAATAT
*
7581329 AT-TTTTAAAGAT
1 ATATTTTAAATAT
7581341 AT
1 AT
7581343 TCAAACATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
8 5 0.07
9 6 0.08
10 4 0.05
11 9 0.12
12 10 0.13
13 33 0.43
14 9 0.12
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:7581291 original size:19 final size:21
Alignment explanation
Indices: 7581257--7581300 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
7581247 ATATTCTAAA
7581257 AATTTTAAATATATATTTTTT
1 AATTTTAAATATATATTTTTT
7581278 AATTTT-AA-ATATATTTTTT
1 AATTTTAAATATATATTTTTT
7581297 AATT
1 AATT
7581301 ATTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.65
20 2 0.09
21 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTTAAATATATATTTTTT
Found at i:7581305 original size:28 final size:28
Alignment explanation
Indices: 7581280--7581334 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
7581270 TATTTTTTAA
7581280 TTTTAAATAT-ATTTTTT-AATTATTTT
1 TTTTAAATATGATTTTTTAAATTATTTT
*
7581306 TTTTAATTATGATTTTTTAAATTATTTT
1 TTTTAAATATGATTTTTTAAATTATTTT
7581334 T
1 T
7581335 AAAGATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 9 0.35
27 7 0.27
28 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTTAAATATGATTTTTTAAATTATTTT
Found at i:7581328 original size:15 final size:14
Alignment explanation
Indices: 7581280--7581334 Score: 64
Period size: 13 Copynumber: 4.1 Consensus size: 14
7581270 TATTTTTTAA
7581280 TTTTAAA-TATATT
1 TTTTAAATTATATT
7581293 TTTT-AATTAT-TT
1 TTTTAAATTATATT
*
7581305 TTTTTAATTATGATT
1 TTTTAAATTAT-ATT
7581320 TTTTAAATTAT-TT
1 TTTTAAATTATATT
7581333 TT
1 TT
7581335 AAAGATATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
12 8 0.22
13 17 0.46
15 12 0.32
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTTAAATTATATT
Found at i:7581333 original size:25 final size:25
Alignment explanation
Indices: 7581280--7581343 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
7581270 TATTTTTTAA
*
7581280 TTTTAAATATATTTTTTAATTATTTT
1 TTTTAAATATATTTTTTAA-TATTAT
*
7581306 TTTTAATTATGATTTTTTAA-ATTAT
1 TTTTAAATAT-ATTTTTTAATATTAT
*
7581331 TTTTAAAGATATT
1 TTTTAAATATATT
7581344 CAAACATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 12 0.36
26 9 0.27
27 9 0.27
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTAAATATATTTTTTAATATTAT
Found at i:7589545 original size:10 final size:10
Alignment explanation
Indices: 7589522--7589582 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 10
7589512 AAATTTTAAT
7589522 TAAAAAA-TA
1 TAAAAAATTA
7589531 T-AAAAATTA
1 TAAAAAATTA
*
7589540 TAAAAAATTG
1 TAAAAAATTA
**
7589550 TAAAATTTTA
1 TAAAAAATTA
*
7589560 T-AAAAATTG
1 TAAAAAATTA
*
7589569 TAAAAAAATA
1 TAAAAAATTA
7589579 TAAA
1 TAAA
7589583 GTATATAGAA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
8 5 0.12
9 10 0.25
10 25 0.62
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:7589553 original size:19 final size:19
Alignment explanation
Indices: 7589522--7589683 Score: 66
Period size: 19 Copynumber: 8.3 Consensus size: 19
7589512 AAATTTTAAT
*
7589522 TAAAAAA-TATAAAAATTA
1 TAAAAAATTGTAAAAATTA
*
7589540 TAAAAAATTGT-AAAATTT
1 TAAAAAATTGTAAAAATTA
*
7589558 TATAAAAATTGTAAAAAAATA
1 TA-AAAAATTGT-AAAAATTA
* * * *
7589579 TAAAGTATATAG-AAATATAGA
1 TAAA--AAATTGTAAAAAT-TA
* * *
7589600 AAAAAAATT-TATAGAATTT
1 TAAAAAATTGTA-AAAATTA
* *
7589619 TATAAAGTTGTAAGAAATTTA
1 TAAAAAATTGTAA-AAA-TTA
*
7589640 TAAAAAA-TGTAAAAA-AA
1 TAAAAAATTGTAAAAATTA
*
7589657 TATAAAATTCGTAAAAAATTA
1 TAAAAAATT-GT-AAAAATTA
7589678 TAAAAA
1 TAAAAA
7589684 TTATTGTACT
Statistics
Matches: 101, Mismatches: 27, Indels: 29
0.64 0.17 0.18
Matches are distributed among these distances:
17 7 0.07
18 16 0.16
19 27 0.27
20 23 0.23
21 24 0.24
22 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.31
Consensus pattern (19 bp):
TAAAAAATTGTAAAAATTA
Found at i:7589554 original size:9 final size:9
Alignment explanation
Indices: 7589519--7589574 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
7589509 ATTAAATTTT
7589519 AATTA-AAA
1 AATTATAAA
7589527 AA-TATAAA
1 AATTATAAA
7589535 AATTATAAAA
1 AATTAT-AAA
*
7589545 AATTGTAAA
1 AATTATAAA
*
7589554 ATTTTATAAA
1 A-ATTATAAA
*
7589564 AATTGTAAA
1 AATTATAAA
7589573 AA
1 AA
7589575 AATATAAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 2 0.05
8 7 0.18
9 15 0.38
10 15 0.38
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:7589933 original size:38 final size:38
Alignment explanation
Indices: 7589854--7589945 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 38
7589844 AAAGAATTTT
* *
7589854 TTTTTATTATTTTTATAAAAGTTTACAATTTTTTATGA
1 TTTTTATTATTTTTATAAAAGTTAACAATTTTTTATAA
*
7589892 TTTTTA-TATTTTTATTAAAAGTTAAC-AGTTTTTATAA
1 TTTTTATTATTTTTA-TAAAAGTTAACAATTTTTTATAA
* *
7589929 ATTTTATTGATATTTAT
1 TTTTTATT-ATTTTTAT
7589946 TTTTTATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
37 22 0.48
38 18 0.39
39 6 0.13
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (38 bp):
TTTTTATTATTTTTATAAAAGTTAACAATTTTTTATAA
Found at i:7592944 original size:12 final size:12
Alignment explanation
Indices: 7592927--7592951 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7592917 GGTATTCATT
7592927 CGGTTAACCGAC
1 CGGTTAACCGAC
7592939 CGGTTAACCGAC
1 CGGTTAACCGAC
7592951 C
1 C
7592952 CGAAATTGCT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:7593130 original size:9 final size:9
Alignment explanation
Indices: 7593108--7593194 Score: 50
Period size: 9 Copynumber: 9.3 Consensus size: 9
7593098 TTTTGGTTAA
*
7593108 AAATTGCCC
1 AAATTACCC
*
7593117 GAATTACCC
1 AAATTACCC
7593126 AAATTACCC
1 AAATTACCC
* *
7593135 -GATTAACC
1 AAATTACCC
* *
7593143 GAATTAACC
1 AAATTACCC
* *
7593152 GAATTACCAGA
1 AAATTACC--C
7593163 AAATTACCC
1 AAATTACCC
*
7593172 GAATTACCC
1 AAATTACCC
7593181 GAAAATTACCC
1 --AAATTACCC
7593192 AAA
1 AAA
7593195 AAATTCGGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
8 6 0.10
9 40 0.66
11 15 0.25
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.21
Consensus pattern (9 bp):
AAATTACCC
Found at i:7593169 original size:11 final size:11
Alignment explanation
Indices: 7593153--7593195 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
7593143 GAATTAACCG
*
7593153 AATTACCAGAA
1 AATTACCCGAA
7593164 AATTACCCG--
1 AATTACCCGAA
7593173 AATTACCCGAA
1 AATTACCCGAA
7593184 AATTACCC-AA
1 AATTACCCGAA
7593194 AA
1 AA
7593196 AATTCGGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.31
10 4 0.14
11 16 0.55
ACGTcount: A:0.49, C:0.26, G:0.07, T:0.19
Consensus pattern (11 bp):
AATTACCCGAA
Found at i:7593173 original size:20 final size:19
Alignment explanation
Indices: 7593107--7593191 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 19
7593097 TTTTTGGTTA
*
7593107 AAAATTGCCCGAATTACC-
1 AAAATTACCCGAATTACCG
*
7593125 CAAATTACCCG-ATTAACCG
1 AAAATTACCCGAATT-ACCG
*
7593144 --AATTAACCGAATTACCAG
1 AAAATTACCCGAATTACC-G
7593162 AAAATTACCCGAATTACCCG
1 AAAATTACCCGAATTA-CCG
7593182 AAAATTACCC
1 AAAATTACCC
7593192 AAAAAATTCG
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
17 14 0.25
18 16 0.29
20 24 0.43
21 2 0.04
ACGTcount: A:0.41, C:0.28, G:0.09, T:0.21
Consensus pattern (19 bp):
AAAATTACCCGAATTACCG
Found at i:7594217 original size:26 final size:27
Alignment explanation
Indices: 7594176--7594247 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
7594166 ATATATATTT
*
7594176 AAATATTTTTAATA-AAAATAAAAAAT-
1 AAATA-TTTTAATATAAAAAAAAAAATA
* * *
7594202 TAATATTTT-ATTTAAACAAAAAAATA
1 AAATATTTTAATATAAAAAAAAAAATA
7594228 AAATATTTTAATATAAAAAA
1 AAATATTTTAATATAAAAAA
7594248 TTGATTCGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 2 0.06
25 14 0.39
26 12 0.33
27 8 0.22
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (27 bp):
AAATATTTTAATATAAAAAAAAAAATA
Found at i:7595485 original size:26 final size:26
Alignment explanation
Indices: 7595456--7595515 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
7595446 TTCACTCCCC
*
7595456 TTTCTTGATATATGCTTAAACGTGGA
1 TTTCTTGATATATGCTTAAACATGGA
7595482 TTTCTTGATATATGCTTAAACATGGA
1 TTTCTTGATATATGCTTAAACATGGA
7595508 TTTCTTGA
1 TTTCTTGA
7595516 AATTTTGACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (26 bp):
TTTCTTGATATATGCTTAAACATGGA
Found at i:7601035 original size:22 final size:23
Alignment explanation
Indices: 7600955--7601040 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
7600945 GACTCACCAT
*
7600955 AGCTCG-TATGAGCTTACCGTTTT
1 AGCTCGATA-GAGCTTACCGTTTC
* *
7600978 AGCTCTTATA-AGCTTACTGTTTC
1 AGCTC-GATAGAGCTTACCGTTTC
* **
7601001 AGCTCTACGGAGCTTACCG-TTC
1 AGCTCGATAGAGCTTACCGTTTC
7601023 AGCTCGATAGAGCTTACC
1 AGCTCGATAGAGCTTACC
7601041 ATTTACCGGC
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
22 20 0.39
23 29 0.57
25 2 0.04
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.34
Consensus pattern (23 bp):
AGCTCGATAGAGCTTACCGTTTC
Found at i:7601981 original size:13 final size:13
Alignment explanation
Indices: 7601963--7601987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7601953 ACATGTTTGG
7601963 ATATGAAATTGAT
1 ATATGAAATTGAT
7601976 ATATGAAATTGA
1 ATATGAAATTGA
7601988 CATTGAATTT
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:7604870 original size:41 final size:41
Alignment explanation
Indices: 7604811--7604904 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 41
7604801 GCCTACTAAT
* * * * *
7604811 CACAAATCCAGATATGATACACCAGCACGAAGCCTGCTAGG
1 CACAAAGCCTGATCTGATACACCAGAACAAAGCCTGCTAGG
* * *
7604852 CATAAAGCCTGATCTGATACACTAGAATAAAGCCTGCTAGG
1 CACAAAGCCTGATCTGATACACCAGAACAAAGCCTGCTAGG
*
7604893 CACAGAGCCTGA
1 CACAAAGCCTGA
7604905 ATATCACTGA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (41 bp):
CACAAAGCCTGATCTGATACACCAGAACAAAGCCTGCTAGG
Found at i:7605196 original size:42 final size:42
Alignment explanation
Indices: 7605158--7605292 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
7605148 CCAAATATAA
7605158 TAAATATTTTTATTTTTTTATTTTTTTAATTTTAAAATACTTT
1 TAAATATTTTTATTTTTTTATTTTTTTAATTTTAAAATA-TTT
* * *
7605201 TAAA-ATACTTT-TTTTTTAAATTTTTTAATTTTAAAATATTT
1 TAAATAT-TTTTATTTTTTTATTTTTTTAATTTTAAAATATTT
7605242 TAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATATTT
1 T-AAATATTTTT---AT--TTTTTT-A-TTTTTTTAATTTTAAAATATTT
7605292 T
1 T
7605293 TAAAATAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
41 4 0.05
42 33 0.44
43 9 0.12
46 1 0.01
48 5 0.07
49 1 0.01
50 22 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (42 bp):
TAAATATTTTTATTTTTTTATTTTTTTAATTTTAAAATATTT
Found at i:7605201 original size:11 final size:11
Alignment explanation
Indices: 7605187--7605212 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7605177 ATTTTTTTAA
7605187 TTTTAAAATAC
1 TTTTAAAATAC
7605198 TTTTAAAATAC
1 TTTTAAAATAC
7605209 TTTT
1 TTTT
7605213 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:7605232 original size:16 final size:16
Alignment explanation
Indices: 7605198--7605244 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7605188 TTTAAAATAC
7605198 TTTTAAAATACTTTT--
1 TTTTAAAATA-TTTTAA
* *
7605213 TTTTTAAATTTTTTAA
1 TTTTAAAATATTTTAA
7605229 TTTTAAAATATTTTAA
1 TTTTAAAATATTTTAA
7605245 AATATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 14 0.54
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAAAATATTTTAA
Found at i:7605265 original size:40 final size:39
Alignment explanation
Indices: 7605179--7605308 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 39
7605169 ATTTTTTTAT
**
7605179 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTTTAA-A
1 TTTTTTAATTTTAAAATA-TTTTAAAATA---TTTTTAAAATA
7605221 TTTTTTAATTTTAAAATATTTTAAAATATTTTTAAAATA
1 TTTTTTAATTTTAAAATATTTTAAAATATTTTTAAAATA
***
7605260 CTTTTTTAATTTT-TTTTAATTTTAAAATATTTTTAAAATAA
1 -TTTTTTAATTTTAAAAT-ATTTTAAAATATTTTTAAAAT-A
*
7605301 ATTTTTAA
1 TTTTTTAA
7605309 AATTTTTAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
38 7 0.09
39 2 0.03
40 40 0.51
41 11 0.14
42 18 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATTTTAAAATATTTTTAAAATA
Found at i:7605306 original size:13 final size:13
Alignment explanation
Indices: 7605279--7605328 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
7605269 TTTTTTTTAA
7605279 TTTTAAAAT--AT
1 TTTTAAAATAAAT
7605290 TTTTAAAATAAAT
1 TTTTAAAATAAAT
7605303 TTTT---A-AAAT
1 TTTTAAAATAAAT
7605312 TTTTAAAATAAAT
1 TTTTAAAATAAAT
7605325 TTTT
1 TTTT
7605329 GGTATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 8 0.24
10 1 0.03
11 9 0.27
12 1 0.03
13 14 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTAAAATAAAT
Found at i:7605316 original size:22 final size:23
Alignment explanation
Indices: 7605229--7605328 Score: 92
Period size: 22 Copynumber: 4.7 Consensus size: 23
7605219 AATTTTTTAA
*
7605229 TTTTAAAAT--ATTTTAAAATAT
1 TTTTAAAATAAATTTTTAAATAT
* *
7605250 TTTTAAAAT-ACTTTTTTAAT-T
1 TTTTAAAATAAATTTTTAAATAT
* *
7605271 TTTT----TTAATTTTAAAATAT
1 TTTTAAAATAAATTTTTAAATAT
7605290 TTTTAAAATAAATTTTTAAA-AT
1 TTTTAAAATAAATTTTTAAATAT
7605312 TTTTAAAATAAATTTTT
1 TTTTAAAATAAATTTTT
7605329 GGTATTTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
17 1 0.02
18 8 0.12
19 5 0.08
21 14 0.22
22 26 0.41
23 10 0.16
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAAATAAATTTTTAAATAT
Found at i:7605335 original size:22 final size:22
Alignment explanation
Indices: 7605217--7605328 Score: 80
Period size: 22 Copynumber: 5.4 Consensus size: 22
7605207 ACTTTTTTTT
*
7605217 TAAATTTTT--TAATTTTAAAA
1 TAAATTTTTAATATTTTTAAAA
*
7605237 T--ATTTTAAAATATTTTTAAAA
1 TAAATTTT-TAATATTTTTAAAA
**
7605258 TACTTTTTTAAT-TTTTT----
1 TAAATTTTTAATATTTTTAAAA
* *
7605275 TTAATTTTAAAATATTTTTAAAA
1 TAAATTTT-TAATATTTTTAAAA
*
7605298 TAAATTTTTAAAATTTTTAAAA
1 TAAATTTTTAATATTTTTAAAA
7605320 TAAATTTTT
1 TAAATTTTT
7605329 GGTATTTATT
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
17 5 0.07
18 8 0.11
19 5 0.07
20 1 0.01
21 16 0.23
22 24 0.34
23 11 0.16
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAATTTTTAATATTTTTAAAA
Found at i:7607950 original size:23 final size:22
Alignment explanation
Indices: 7607895--7607950 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
7607885 TCGAATTGAG
* *
7607895 TAATTCAAATTTTAATTTCGAA
1 TAATTCAAATTTTAAATTCAAA
7607917 TCAAATT-AAATTTTACAATTCAAA
1 T--AATTCAAATTTTA-AATTCAAA
7607941 TAATTCAAAT
1 TAATTCAAAT
7607951 ATATGATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
22 5 0.18
23 12 0.43
24 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATTCAAATTTTAAATTCAAA
Found at i:7607979 original size:15 final size:15
Alignment explanation
Indices: 7607955--7607984 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7607945 TCAAATATAT
7607955 GATTGGTGTAAATAC
1 GATTGGTGTAAATAC
*
7607970 GATTGTTGTAAATAC
1 GATTGGTGTAAATAC
7607985 AATTTTGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (15 bp):
GATTGGTGTAAATAC
Found at i:7611557 original size:14 final size:14
Alignment explanation
Indices: 7611534--7611573 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7611524 ACAAAAAAGT
*
7611534 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
7611548 AAATCATTTTACGG
1 AAAACATTTTACAG
7611562 AAAACATTTTAC
1 AAAACATTTTAC
7611574 TGGTAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:7623002 original size:15 final size:15
Alignment explanation
Indices: 7622982--7623013 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7622972 TATAGTAAAG
7622982 TTTATATTAAAATCC
1 TTTATATTAAAATCC
7622997 TTTATATTAAAATCC
1 TTTATATTAAAATCC
7623012 TT
1 TT
7623014 AAAGGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTATATTAAAATCC
Found at i:7623138 original size:30 final size:30
Alignment explanation
Indices: 7623102--7623163 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
7623092 TGTGGTAAAT
*
7623102 TTGACATAGTGAATAAAAGTTGAAGGAGGA
1 TTGACATAGTGAATAAAAATTGAAGGAGGA
7623132 TTGACATAGTGAATAAAAATTGAAGGAGGA
1 TTGACATAGTGAATAAAAATTGAAGGAGGA
7623162 TT
1 TT
7623164 ATGAAATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.27, T:0.26
Consensus pattern (30 bp):
TTGACATAGTGAATAAAAATTGAAGGAGGA
Found at i:7624345 original size:28 final size:26
Alignment explanation
Indices: 7624299--7624371 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 26
7624289 TTTCAAGTCC
*
7624299 AAAAAA-ATTATCATTATTTCATTAT
1 AAAAAATATTATTATTATTTCATTAT
** * *
7624324 AAAATTTATTAGTTATTTATTTTATTTT
1 AAAAAATATTA-TTA-TTATTTCATTAT
7624352 AAAAAATATTATTATTATTT
1 AAAAAATATTATTATTATTT
7624372 TTTGCTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 4 0.11
26 10 0.26
27 5 0.13
28 19 0.50
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (26 bp):
AAAAAATATTATTATTATTTCATTAT
Found at i:7630822 original size:20 final size:20
Alignment explanation
Indices: 7630797--7630860 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
7630787 TAAAAAAAAT
*
7630797 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAAACAC
** *
7630817 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAAACAC
*
7630834 TACATAAGTCTTTGAACCAC
1 TACATAAGTCTTTGAAACAC
7630854 TACATAA
1 TACATAA
7630861 TTAAAAACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 13 0.39
20 20 0.61
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (20 bp):
TACATAAGTCTTTGAAACAC
Found at i:7630839 original size:17 final size:17
Alignment explanation
Indices: 7630817--7630877 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
7630807 TTTGAATCAC
7630817 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
7630834 TACATAAGTCTTTGAACCAC
1 TACATAA---TTAAAAACAT
7630854 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
7630871 TACATAA
1 TACATAA
7630878 AAATGAAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:7630839 original size:37 final size:37
Alignment explanation
Indices: 7630770--7630877 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
7630760 TTTAACCAAA
*
7630770 TTGAATCACTACATAATTAAAAAAAATTACATAAGTCT
1 TTGAATCACTACATAATT-AAAAACATTACATAAGTCT
7630808 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
7630845 TTGAACCACTACATAATTAAAAACATTACATAA
1 TTGAATCACTACATAATTAAAAACATTACATAA
7630878 AAATGAAAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 50 0.74
38 18 0.26
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.31
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:7632049 original size:21 final size:20
Alignment explanation
Indices: 7632012--7632056 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
7632002 ACAAGTTCTA
7632012 TTTTCCTTTTTTATTTTTAC
1 TTTTCCTTTTTTATTTTTAC
*
7632032 TTTTCTCTTTATTT-TTTTTTC
1 TTTTC-CTTT-TTTATTTTTAC
7632053 TTTT
1 TTTT
7632057 TTCGTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 14 0.64
22 3 0.14
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCCTTTTTTATTTTTAC
Found at i:7637666 original size:13 final size:13
Alignment explanation
Indices: 7637648--7637678 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
7637638 ATAAAAACCT
7637648 CAAAACTTAAACA
1 CAAAACTTAAACA
7637661 CAAAACTTAAACA
1 CAAAACTTAAACA
7637674 CAAAA
1 CAAAA
7637679 TTCCCTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.13
Consensus pattern (13 bp):
CAAAACTTAAACA
Found at i:7640781 original size:3 final size:3
Alignment explanation
Indices: 7640775--7640804 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7640765 TCAAATTAAA
7640775 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7640805 CAAAATTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7647998 original size:2 final size:2
Alignment explanation
Indices: 7647991--7648015 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7647981 TGGATTTGAA
7647991 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
7648016 TATGCCTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7654662 original size:17 final size:17
Alignment explanation
Indices: 7654631--7654665 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7654621 TATATTTTTT
7654631 ATTAAATAAATTTATAA
1 ATTAAATAAATTTATAA
7654648 ATTATAATAAA-TTATAA
1 ATTA-AATAAATTTATAA
7654665 A
1 A
7654666 AATAATTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAAATAAATTTATAA
Found at i:7666032 original size:8 final size:8
Alignment explanation
Indices: 7666019--7666044 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7666009 AACTGCATGG
7666019 ATTGTGAT
1 ATTGTGAT
7666027 ATTGTGAT
1 ATTGTGAT
7666035 ATTGTGAT
1 ATTGTGAT
7666043 AT
1 AT
7666045 GGCCCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (8 bp):
ATTGTGAT
Found at i:7666609 original size:22 final size:22
Alignment explanation
Indices: 7666584--7666627 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7666574 ATATCCAAAC
7666584 CATAACAAAAAAATAGTAGCAA
1 CATAACAAAAAAATAGTAGCAA
** *
7666606 CATAACAGTAAAATGGTAGCAA
1 CATAACAAAAAAATAGTAGCAA
7666628 AATAGAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (22 bp):
CATAACAAAAAAATAGTAGCAA
Found at i:7671458 original size:41 final size:41
Alignment explanation
Indices: 7671397--7671487 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
7671387 GAACCAGCCG
* * *
7671397 GTGATCTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCA
1 GTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCA
* * *
7671438 GTGATATGAATTAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCA
7671479 GTGAATATG
1 GTG-ATATG
7671488 TTAAATTAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 38 0.88
42 5 0.12
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (41 bp):
GTGATATGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCA
Found at i:7682010 original size:30 final size:30
Alignment explanation
Indices: 7681971--7682028 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
7681961 ATGTTATGAA
* *
7681971 TTAATTGTAT-TTGATTTACTTTTGGCATAT
1 TTAAATGTATATTGATTGA-TTTTGGCATAT
7682001 TTAAATGTATATTGATTGATTTTGGCAT
1 TTAAATGTATATTGATTGATTTTGGCAT
7682029 CAATTTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (30 bp):
TTAAATGTATATTGATTGATTTTGGCATAT
Found at i:7692664 original size:28 final size:28
Alignment explanation
Indices: 7692624--7692678 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
7692614 ATAGACTTGG
*
7692624 AATTTTTTTGATCATTTTTAGGCTCAGA
1 AATTTTTTTGATCATTTTTAGACTCAGA
7692652 AATTTTTTTGATCATTTTTAGACTCAG
1 AATTTTTTTGATCATTTTTAGACTCAG
7692679 TTATGTGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (28 bp):
AATTTTTTTGATCATTTTTAGACTCAGA
Found at i:7697266 original size:15 final size:14
Alignment explanation
Indices: 7697246--7697276 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7697236 TTTCAGATTA
7697246 TAGCCATTTGATGTT
1 TAGCCATTTGA-GTT
7697261 TAGCCATTTGAGTT
1 TAGCCATTTGAGTT
7697275 TA
1 TA
7697277 ATTTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (14 bp):
TAGCCATTTGAGTT
Found at i:7697639 original size:21 final size:21
Alignment explanation
Indices: 7697613--7697655 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7697603 TTTCTTAATC
* *
7697613 TAAAATTTTGATTTTTTATTG
1 TAAAATTTTAATATTTTATTG
7697634 TAAAATTTTAATATTTTATTG
1 TAAAATTTTAATATTTTATTG
7697655 T
1 T
7697656 TTATAACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TAAAATTTTAATATTTTATTG
Found at i:7703752 original size:14 final size:14
Alignment explanation
Indices: 7703733--7703762 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7703723 AAAAGTAAAG
7703733 AGTATTTATAGAGC
1 AGTATTTATAGAGC
7703747 AGTATTTATAGAGC
1 AGTATTTATAGAGC
7703761 AG
1 AG
7703763 ATTAGAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
AGTATTTATAGAGC
Found at i:7712318 original size:14 final size:14
Alignment explanation
Indices: 7712292--7712331 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
7712282 TAGCTAACTA
7712292 AAGTTTAATTAATT
1 AAGTTTAATTAATT
* *
7712306 AATTTTGATTAATT
1 AAGTTTAATTAATT
7712320 AAGTTTAATTAA
1 AAGTTTAATTAA
7712332 AGGTATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AAGTTTAATTAATT
Found at i:7723643 original size:48 final size:48
Alignment explanation
Indices: 7723585--7723677 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
7723575 ACCAGTAATT
* * *
7723585 ATACGTAACATATAACATATACAGAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTTTCA
* * *
7723633 ATACATAACATATATCACATATAGAGTTATATTAACTCACTCTTT
1 ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTT
7723678 CAAATCCTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (48 bp):
ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTTTCA
Found at i:7725633 original size:19 final size:19
Alignment explanation
Indices: 7725609--7725647 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7725599 CTTAAGTCAA
7725609 TTCACATATTATTATACAT
1 TTCACATATTATTATACAT
7725628 TTCACATATTATTATACAT
1 TTCACATATTATTATACAT
7725647 T
1 T
7725648 GCAGCGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (19 bp):
TTCACATATTATTATACAT
Found at i:7728239 original size:27 final size:25
Alignment explanation
Indices: 7728202--7728261 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 25
7728192 TTATTAGGGA
*
7728202 TAAAATCGTCAAAATTTTACCGAGAGG
1 TAAAATTGTCAAAATTTTACCG-GA-G
*
7728229 TAAAATTGTCAAAATTTTACTGGAG
1 TAAAATTGTCAAAATTTTACCGGAG
7728254 TAAAATTG
1 TAAAATTG
7728262 AGATGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 9 0.29
26 2 0.06
27 20 0.65
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (25 bp):
TAAAATTGTCAAAATTTTACCGGAG
Found at i:7729962 original size:36 final size:39
Alignment explanation
Indices: 7729866--7729962 Score: 96
Period size: 35 Copynumber: 2.5 Consensus size: 39
7729856 AACATTTAAT
*
7729866 TAATTTTTAAAATTTTAAAATATTTAAAAAATATTGTGTTA
1 TAATTTTT--AATTTTAAAATTTTTAAAAAATATTGTGTTA
*
7729907 TAATTTTTAATATTT--AATTTTTAAAATA-ATT-T-TTA
1 TAATTTTTAAT-TTTAAAATTTTTAAAAAATATTGTGTTA
* *
7729942 TAGTTTTTTATTTTAAAATTT
1 TAATTTTTAATTTTAAAATTT
7729963 AAAAAAAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
34 3 0.06
35 12 0.24
36 6 0.12
37 3 0.06
38 11 0.22
39 3 0.06
40 3 0.06
41 8 0.16
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (39 bp):
TAATTTTTAATTTTAAAATTTTTAAAAAATATTGTGTTA
Found at i:7734196 original size:26 final size:26
Alignment explanation
Indices: 7734158--7734209 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7734148 ACTTAACAGA
*
7734158 TCTTTTAAGGAGACGACCCCTTGATG
1 TCTTTTAAAGAGACGACCCCTTGATG
**
7734184 TCTTTTAAAGAGACGACTTCTTGATG
1 TCTTTTAAAGAGACGACCCCTTGATG
7734210 CCTTCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTTTTAAAGAGACGACCCCTTGATG
Found at i:7743755 original size:27 final size:29
Alignment explanation
Indices: 7743697--7743768 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 29
7743687 CTTTGCAATT
** *
7743697 AATATTTGTATTTGATTTTTA-TAAAA-A
1 AATATTTGTATTTGATTGCTAGAAAAATA
*
7743724 AATATTTGTATTTGATTGCTAGACAAATA
1 AATATTTGTATTTGATTGCTAGAAAAATA
*
7743753 TATATTTGTA-TTGATT
1 AATATTTGTATTTGATT
7743769 ATTGTTCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 19 0.50
28 9 0.24
29 10 0.26
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (29 bp):
AATATTTGTATTTGATTGCTAGAAAAATA
Found at i:7747336 original size:26 final size:26
Alignment explanation
Indices: 7747275--7747339 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
7747265 ATTTTACTTC
7747275 AGTAAAATTTTGATAATTTTACCCCT
1 AGTAAAATTTTGATAATTTTACCCCT
* *
7747301 AATAATATTTTGA-AGATTTTACCCCT
1 AGTAAAATTTTGATA-ATTTTACCCCT
*
7747327 GGTAAAATTTTGA
1 AGTAAAATTTTGA
7747340 GAAAATTCGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (26 bp):
AGTAAAATTTTGATAATTTTACCCCT
Found at i:7748016 original size:42 final size:42
Alignment explanation
Indices: 7747969--7748071 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
7747959 TGAAAATCCT
*
7747969 TCCAGTTGGAAGCGTTTTCAGGTGAAATT-CAGAAAAAACACG
1 TCCAGTTGGAAGCGTTTTCAGGTG-AATTGCAAAAAAAACACG
* * * * *
7748011 TCCAGTTGTAAGCATTTTCAGGTGATTTGCAAAAAAAACGCT
1 TCCAGTTGGAAGCGTTTTCAGGTGAATTGCAAAAAAAACACG
*
7748053 TCCAGTTGGAAGCGATTTC
1 TCCAGTTGGAAGCGTTTTC
7748072 TGCCACATCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 3 0.06
42 48 0.94
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
TCCAGTTGGAAGCGTTTTCAGGTGAATTGCAAAAAAAACACG
Found at i:7749501 original size:124 final size:124
Alignment explanation
Indices: 7749303--7749646 Score: 553
Period size: 124 Copynumber: 2.8 Consensus size: 124
7749293 CGAGTTGATG
** * * *
7749303 TTTCTGATAAAATAGTTTAAAATTGCTTTTAGCAGGATGCTTTTTGAGAAGAATTTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* * * *
7749368 CAGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
66 CGGCCTCGTGGACGCACTTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTTAACT
* *
7749427 TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCA
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
7749492 CGGCTTCGTGGACGCACTTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTTAACT
66 CGGCCTCGTGGACGCACTTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTTAACT
*
7749551 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
**
7749616 CGGCCTCGTGGGTGCACTTTTGCTACAGTAG
66 CGGCCTCGTGGACGCACTTTTGCTACAGTAG
7749647 CATGTTTGGG
Statistics
Matches: 203, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 203 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (124 bp):
TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
CGGCCTCGTGGACGCACTTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTTTAACT
Found at i:7752728 original size:37 final size:37
Alignment explanation
Indices: 7752686--7752907 Score: 417
Period size: 37 Copynumber: 6.0 Consensus size: 37
7752676 TTGTATTAAC
7752686 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
7752723 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
7752760 TCAAATTATATAAAATTATTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
7752797 TCAAATTATATAAAATTAGAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
7752834 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
7752871 TCAAATTATATAAAATTATTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
7752908 CTGTATTTTT
Statistics
Matches: 180, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 180 1.00
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (37 bp):
TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
Found at i:7754323 original size:22 final size:22
Alignment explanation
Indices: 7754295--7754350 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
7754285 AAATATGGAT
*
7754295 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAGAAA
7754317 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
7754339 TTGAGAGGAATT
1 TTGAGA-GAATT
7754351 GAGAGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAGAAA
Found at i:7754367 original size:12 final size:11
Alignment explanation
Indices: 7754335--7754367 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
7754325 ATTTTGGAAA
7754335 GAAATTGAGAG
1 GAAATTGAGAG
7754346 G-AATTGAGAG
1 GAAATTGAGAG
7754356 GAAATATGAGAG
1 GAAAT-TGAGAG
7754368 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:7756482 original size:33 final size:33
Alignment explanation
Indices: 7756445--7756512 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
7756435 CTGTCAGTGA
*
7756445 ATTAAAAAAATAAAAATGATGTAAGATGATATC
1 ATTAAAAAAATAAAAATGATGTAAGATAATATC
* *
7756478 ATTAAAAAAATACAAGTGATGTAAGATAATATC
1 ATTAAAAAAATAAAAATGATGTAAGATAATATC
7756511 AT
1 AT
7756513 GGAGAAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (33 bp):
ATTAAAAAAATAAAAATGATGTAAGATAATATC
Found at i:7757104 original size:39 final size:40
Alignment explanation
Indices: 7757043--7757144 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 40
7757033 ATACAAAAAA
* *
7757043 TTATTTAATTATATAAATTATTACAAATTTCATAA-T-TT
1 TTATATAATTATATAAAATATTACAAATTTCATAATTCTT
* * *
7757081 TTATAATAATTGTATAAAATATTACAATTTTCGTAATTCTT
1 TTAT-ATAATTATATAAAATATTACAAATTTCATAATTCTT
*
7757122 TTATGTAATTATA-AAAATATTAC
1 TTATATAATTATATAAAATATTAC
7757145 TGAATTATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
38 4 0.07
39 36 0.67
40 8 0.15
41 6 0.11
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (40 bp):
TTATATAATTATATAAAATATTACAAATTTCATAATTCTT
Found at i:7757169 original size:19 final size:19
Alignment explanation
Indices: 7757128--7757169 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7757118 TCTTTTATGT
*
7757128 AATTATAAAAATATTACTG
1 AATTATAAAAATATTACTA
*
7757147 AATTATATAAATTATTA-TA
1 AATTATA-AAAATATTACTA
7757166 AATT
1 AATT
7757170 TGATTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATTATAAAAATATTACTA
Found at i:7757421 original size:18 final size:18
Alignment explanation
Indices: 7757398--7757432 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7757388 CTAATATTGT
7757398 ATTTATCAGTTTTTATTA
1 ATTTATCAGTTTTTATTA
* *
7757416 ATTTATTATTTTTTATT
1 ATTTATCAGTTTTTATT
7757433 CTAAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTATCAGTTTTTATTA
Found at i:7774483 original size:22 final size:22
Alignment explanation
Indices: 7774431--7774485 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7774421 TAAAGAAATA
*
7774431 AAAAGAAAAAATTAAATTGTTC
1 AAAAGAAAAAATTAAATTGCTC
* *
7774453 AACATAAAAAATT-AATTGCTC
1 AAAAGAAAAAATTAAATTGCTC
7774474 AAAACGAAAAAA
1 AAAA-GAAAAAA
7774486 ATATAGGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAAGAAAAAATTAAATTGCTC
Found at i:7777713 original size:14 final size:14
Alignment explanation
Indices: 7777686--7777724 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7777676 AATCTAGAGT
7777686 AAAAGAAAGAAAAGG
1 AAAA-AAAGAAAAGG
*
7777701 AAAAAAAGGAAAGG
1 AAAAAAAGAAAAGG
*
7777715 GAAAAAAGAA
1 AAAAAAAGAA
7777725 GAGAAAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAGG
Found at i:7789203 original size:39 final size:39
Alignment explanation
Indices: 7789149--7789229 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
7789139 TTCTTCAAAT
7789149 ACATATGACATAATTCGTACGCATATCCGTTATATTTAA
1 ACATATGACATAATTCGTACGCATATCCGTTATATTTAA
7789188 ACATATGACATAATTCGTACGCATATCCGTTATATTTAA
1 ACATATGACATAATTCGTACGCATATCCGTTATATTTAA
7789227 ACA
1 ACA
7789230 CATAGTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (39 bp):
ACATATGACATAATTCGTACGCATATCCGTTATATTTAA
Found at i:7789333 original size:41 final size:41
Alignment explanation
Indices: 7789299--7789392 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
7789289 ACCGACTTTT
*
7789299 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGACATCA
* * *
7789340 AGCTTGCTAGACTTATAGTTCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGACATCA
*
7789381 AGACTGCTAGAC
1 AGCCTGCTAGAC
7789393 ATAAAGTCTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGACATCA
Found at i:7800344 original size:14 final size:14
Alignment explanation
Indices: 7800327--7800382 Score: 57
Period size: 13 Copynumber: 4.2 Consensus size: 14
7800317 TTCACAAACA
7800327 AAATAAAAAAATCG
1 AAATAAAAAAATCG
7800341 AAATAAAAAAATC-
1 AAATAAAAAAATCG
*
7800354 -AATCAAAAAAA-CA
1 AAAT-AAAAAAATCG
*
7800367 AAATGAAAAAAT-G
1 AAATAAAAAAATCG
7800380 AAA
1 AAA
7800383 AACGAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 4 0.11
13 16 0.44
14 16 0.44
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.12
Consensus pattern (14 bp):
AAATAAAAAAATCG
Found at i:7800411 original size:14 final size:14
Alignment explanation
Indices: 7800326--7800412 Score: 56
Period size: 14 Copynumber: 6.3 Consensus size: 14
7800316 ATTCACAAAC
*
7800326 AAAATAAAAAAATC
1 AAAATAAAAAAATA
*
7800340 GAAATAAAAAAAT-
1 AAAATAAAAAAATA
* *
7800353 -CAATCAAAAAAA-C
1 AAAAT-AAAAAAATA
*
7800366 AAAATGAAAAAATGA
1 AAAATAAAAAAAT-A
* *
7800381 AAAACGAAAGAAA-A
1 AAAA-TAAAAAAATA
7800395 AAAATAAAAAAATA
1 AAAATAAAAAAATA
7800409 AAAA
1 AAAA
7800413 AAATCATAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
12 3 0.05
13 19 0.34
14 25 0.45
15 4 0.07
16 5 0.09
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.10
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:7802793 original size:88 final size:88
Alignment explanation
Indices: 7802629--7802796 Score: 196
Period size: 88 Copynumber: 1.9 Consensus size: 88
7802619 TAGATCAGTG
* * *
7802629 AAGATAGAAGATCTTGCCTTCCTGCACTGACAGCGAAACAGATCGAGGACACCAGCCTTACCTCC
1 AAGATAGAAGATCTGGCCTTCCTACACTGACAGCGAAACAGATCGAAGACACCAGCCTTACCTCC
**
7802694 CTCGGTTGCAGTGGAGCAGGTTA
66 CTCGGCAGCAGTGGAGCAGGTTA
* * * ** *
7802717 AAGATAGCAGATCTGGCCTTCCTACA-TAGGCAGCGAAACAGATCGAAGATACCA-ATTCTATCT
1 AAGATAGAAGATCTGGCCTTCCTACACT-GACAGCGAAACAGATCGAAGACACCAGCCT-TACCT
*
7802780 CCCTGGGCAGCAGTGGA
64 CCCTCGGCAGCAGTGGA
7802797 ATAGGTTGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
87 2 0.03
88 64 0.97
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.20
Consensus pattern (88 bp):
AAGATAGAAGATCTGGCCTTCCTACACTGACAGCGAAACAGATCGAAGACACCAGCCTTACCTCC
CTCGGCAGCAGTGGAGCAGGTTA
Found at i:7802823 original size:44 final size:44
Alignment explanation
Indices: 7802774--7803033 Score: 376
Period size: 44 Copynumber: 5.9 Consensus size: 44
7802764 GATACCAATT
* *
7802774 CTATCTCCCTGGGCAGCAGTGGAATAGGTTGAATATTGTAAGTC
1 CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTC
*
7802818 CTATCTCCCTGGACAACAGTGGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTC
* * * * *
7802862 CTATCTCTCTGGACAGTAGGGGAATAGGTTGAAGATTATAAGCC
1 CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTC
* *
7802906 CTATCTCCCTGGACAGCAGTGGAATAGGATGAAGATTGTAAGCC
1 CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTC
* * * *
7802950 CTATCTCCCTGGACAGTAGCGGACTAGGTTAAAGATTGTAAGTC
1 CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTC
* *
7802994 ATATCTCCCTGGACAGCAGTGGAATAGGTAGAAGATTGTA
1 CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTA
7803034 GATCATGTCT
Statistics
Matches: 190, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 190 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (44 bp):
CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTC
Found at i:7803059 original size:132 final size:132
Alignment explanation
Indices: 7802787--7803061 Score: 345
Period size: 132 Copynumber: 2.1 Consensus size: 132
7802777 TCTCCCTGGG
* * * * *
7802787 CAGCAGTGGAATAGGTTGAATATTGTAAGTCCTATCTCCCTGGACAACAGTGGAATAGGTTGAAG
1 CAGCAGTGGAATAGGATGAAGATTGTAAGCCCTATCTCCCTGGACAACAGCGGAATAGGTTAAAG
* * * * * *
7802852 ATTGTAAGTCCTATCTCTCTGGACAGTAGGGGAATAGGTTGAAGATTATAAGCCCTATCTCCCTG
66 ATTGTAAGTCATATCTCCCTGGACAGCAGGGGAATAGGTAGAAGATTATAAGCCATATCTCCCTA
*
7802917 GA
131 AA
** *
7802919 CAGCAGTGGAATAGGATGAAGATTGTAAGCCCTATCTCCCTGGACAGTAGCGGACTAGGTTAAAG
1 CAGCAGTGGAATAGGATGAAGATTGTAAGCCCTATCTCCCTGGACAACAGCGGAATAGGTTAAAG
* * * *
7802984 ATTGTAAGTCATATCTCCCTGGACAGCAGTGGAATAGGTAGAAGATTGT-AGATCATGTCTCCCT
66 ATTGTAAGTCATATCTCCCTGGACAGCAGGGGAATAGGTAGAAGATTATAAG-CCATATCTCCCT
7803048 AAA
130 AAA
* *
7803051 CGGTAGTGGAA
1 CAGCAGTGGAA
7803062 CAGATCGAAG
Statistics
Matches: 121, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
131 2 0.02
132 119 0.98
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (132 bp):
CAGCAGTGGAATAGGATGAAGATTGTAAGCCCTATCTCCCTGGACAACAGCGGAATAGGTTAAAG
ATTGTAAGTCATATCTCCCTGGACAGCAGGGGAATAGGTAGAAGATTATAAGCCATATCTCCCTA
AA
Found at i:7803581 original size:50 final size:50
Alignment explanation
Indices: 7803108--7803573 Score: 271
Period size: 50 Copynumber: 9.4 Consensus size: 50
7803098 GCAGTGGAAC
* * * * * * * *
7803108 AGATTGAAGCTACAACGGTGAATTTTG-CTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCC-AACATTGTAGTTGAAA
* * * ** * * * *
7803158 ATATTAAAGCTACAACAGTGAATCTT-ATCTCTTAGGCAGTGTAGTGGAAT
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCCA-ACATTGTAGTTGAAA
* * * * * *
7803208 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGTAGTT-AAA
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCCAACATTGTAGTTGAAA
* * * ** * *
7803257 AGATTAAAGCTACAACAGCGAATCTT-ATCTCTCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCCA-ACATTGTAGTTGAAA
* * * * *
7803307 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCAACATTGCAGTT-AAA
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCCAACATTGTAGTTGAAA
* * * * ** * *
7803356 AGATTAAAGCTACAACAGCAAATCTT-ATCTCTCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCCA-ACATTGTAGTTGAAA
* * * * * * *
7803406 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCCAACATTGTAGTTGAAA
* * * ** * *
7803456 AGATTAAAGCTACAACAGTGAATCTT-ATCTCCCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCCA-ACATTGTAGTTGAAA
* * * * * *
7803506 AGATTAAAGCCATAACGGCGAATCTTGTTTTCCCAACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTGATTTCCCAACATTGTAGTTGAAA
7803556 AGATTAAAGCTACAACAG
1 AGATTAAAGCTACAACAG
7803574 TAAATCTTAT
Statistics
Matches: 294, Mismatches: 111, Indels: 22
0.69 0.26 0.05
Matches are distributed among these distances:
48 7 0.02
49 67 0.23
50 205 0.70
51 15 0.05
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCTACAACAGCGAATCTTGATTTCCCAACATTGTAGTTGAAA
Found at i:7803610 original size:50 final size:50
Alignment explanation
Indices: 7803160--7803632 Score: 262
Period size: 50 Copynumber: 9.5 Consensus size: 50
7803150 AGTTAAAAAT
* * * * * * *
7803160 ATTAAAGCTACAACAGTGAATCTTATCTCTTAGGCAGTGTAGTGGAATAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCTCACGCGGTGCAGTGGAACAG
* * * * ** * * *
7803210 ATTAAAGCCACAACGGTGAATCTT-GCT-TCCCCGACATTGTAGT-TAAAAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCT-CACG-CGGTGCAGTGGAACAG
* * *
7803259 ATTAAAGCTACAACAGCGAATCTTATCTCTCAGGCGGTGTAGTGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCTCACGCGGTGCAGTGGAACAG
* * * * ** * *
7803309 ATTAAAGCCACAACGGCGAATCTT-GCT-TCCCCAACATTGCAGT-TAAAAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCT-CAC-GCGGTGCAGTGGAACAG
* * * *
7803358 ATTAAAGCTACAACAGCAAATCTTATCTCTCAGGCGGTGTAGTGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCTCACGCGGTGCAGTGGAACAG
* * * ** ** *
7803408 ATTAAAGCCACAACGGCGAATCTT-GCT-TCCCCGACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCT-CACG-CGGTGCAGTGGAACAG
* * * * *
7803458 ATTAAAGCTACAACAGTGAATCTTATCTCCCAGGCGGTGTAGTGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCTCACGCGGTGCAGTGGAACAG
* * * * * * ** ** *
7803508 ATTAAAGCCATAACGGCGAATCTTGT-TTTCCCAACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCTCAC-GCGGTGCAGTGGAACAG
* ** *
7803558 ATTAAAGCTACAACAGTAAATCTTATCTCTCACGCGGTGCAATGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTATCTCTCACGCGGTGCAGTGGAACAG
* * *
7803608 ATTGAAGCCACAACGGCGAAGCTTA
1 ATTAAAGCCACAACAGCGAATCTTA
7803633 CTTCCCCGAC
Statistics
Matches: 303, Mismatches: 104, Indels: 32
0.69 0.24 0.07
Matches are distributed among these distances:
48 3 0.01
49 75 0.25
50 215 0.71
51 10 0.03
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
ATTAAAGCCACAACAGCGAATCTTATCTCTCACGCGGTGCAGTGGAACAG
Found at i:7803664 original size:100 final size:100
Alignment explanation
Indices: 7803100--7803644 Score: 833
Period size: 100 Copynumber: 5.5 Consensus size: 100
7803090 CTGGCAATGC
* * * * * *
7803100 AGTGGAACAGATTGAAGCTACAACGGTGAATTTTGCTTCCCTGACATTGCAGTTAAAAATATTAA
1 AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* *
7803165 AGCTACAACAGTGAATCTTATCTCTTAGGCAGTGT
66 AGCTACAACAGTGAATCTTATCTCTCAGGCGGTGT
* * *
7803200 AGTGGAATAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGTAGTT-AAAAGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
*
7803264 AGCTACAACAGCGAATCTTATCTCTCAGGCGGTGT
66 AGCTACAACAGTGAATCTTATCTCTCAGGCGGTGT
*
7803299 AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCAACATTGCAGTT-AAAAGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
**
7803363 AGCTACAACAGCAAATCTTATCTCTCAGGCGGTGT
66 AGCTACAACAGTGAATCTTATCTCTCAGGCGGTGT
7803398 AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
*
7803463 AGCTACAACAGTGAATCTTATCTCCCAGGCGGTGT
66 AGCTACAACAGTGAATCTTATCTCTCAGGCGGTGT
* * * *
7803498 AGTGGAACAGATTAAAGCCATAACGGCGAATCTTGTTTTCCCAACATTGCAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * *
7803563 AGCTACAACAGTAAATCTTATCTCTCACGCGGTGC
66 AGCTACAACAGTGAATCTTATCTCTCAGGCGGTGT
* * * *
7803598 AATGGAACAGATTGAAGCCACAACGGCGAAGCTTACTTCCCCGACAT
1 AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
7803645 CACAGTGAAG
Statistics
Matches: 409, Mismatches: 35, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
99 188 0.46
100 221 0.54
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (100 bp):
AGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
AGCTACAACAGTGAATCTTATCTCTCAGGCGGTGT
Done.