Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 357 of 444
Found at i:103493793 original size:23 final size:23
Alignment explanation
Indices: 103493763--103493811 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
103493753 CATATGTAGA
103493763 TATTGCTTTCTACCATCAATGAG
1 TATTGCTTTCTACCATCAATGAG
103493786 TATTGCTTTCTACCATCAATGAG
1 TATTGCTTTCTACCATCAATGAG
103493809 TAT
1 TAT
103493812 GAACTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (23 bp):
TATTGCTTTCTACCATCAATGAG
Found at i:103495087 original size:26 final size:25
Alignment explanation
Indices: 103495037--103495089 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
103495027 AACAAATTAA
* *
103495037 AAATATATTAAAAATATTTATACTT
1 AAATATATTAAAAATAGTTAAACTT
103495062 AAATAATATT-AAAATAGTTACAACTT
1 AAAT-ATATTAAAAATAGTTA-AACTT
103495088 AA
1 AA
103495090 CATCTGTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATATATTAAAAATAGTTAAACTT
Found at i:103497220 original size:45 final size:45
Alignment explanation
Indices: 103497156--103497245 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
103497146 AATATAAGTA
*
103497156 GCCCACAGGCACCAACTACATAGAGTGGGTTTAACATACAGGACT
1 GCCCACAGGCACCAACTACATAGAGTGGGTTTAACATAAAGGACT
103497201 GCCCACAGGCACCAACTACATAGAGTGGGTTTAACATAAAGGACT
1 GCCCACAGGCACCAACTACATAGAGTGGGTTTAACATAAAGGACT
103497246 ATGTTAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (45 bp):
GCCCACAGGCACCAACTACATAGAGTGGGTTTAACATAAAGGACT
Found at i:103503574 original size:27 final size:22
Alignment explanation
Indices: 103503525--103503569 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
103503515 TGTATAAAAG
103503525 TGAGGCAAAAGAAGATGCTATC
1 TGAGGCAAAAGAAGATGCTATC
103503547 TGAGGCAAAAGAAGATGCTATC
1 TGAGGCAAAAGAAGATGCTATC
103503569 T
1 T
103503570 TATCTTAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (22 bp):
TGAGGCAAAAGAAGATGCTATC
Found at i:103517616 original size:42 final size:43
Alignment explanation
Indices: 103517517--103517672 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
103517507 TGAGACATCG
* * *
103517517 TGTAAGACCGTGTCTGGGACA-CAGACCTCG--ATTGAGATTAACA
1 TGTAAGACCCTGTCTGGGACATC-GGCATCGATATTGAG-TT-ACA
* * *
103517560 TATAAGACCATGTCTGGGACATCGGCATCG-TATATGA-TTTCA
1 TGTAAGACCCTGTCTGGGACATCGGCATCGATAT-TGAGTTACA
**
103517602 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAGTTACA
1 TGTAAGACCCTGTCTGGGACATCGGCATCGATATTGAGTTACA
*
103517645 TGTAAGACCAC-GTCTGGGACGTCGGCAT
1 TGTAAGACC-CTGTCTGGGACATCGGCAT
103517673 TGTACTTGTT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 31 0.33
43 56 0.60
44 4 0.04
45 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGACATCGGCATCGATATTGAGTTACA
Found at i:103517660 original size:85 final size:85
Alignment explanation
Indices: 103517517--103517672 Score: 217
Period size: 85 Copynumber: 1.8 Consensus size: 85
103517507 TGAGACATCG
* * *
103517517 TGTAAGACCGTGTCTGGGACACAGACCTCGATTGAGATTAACATATAAGACCATGTCTGGGACAT
1 TGTAAGACCCTGTCTGGGACACAGACATCGATTGAGATTAACATATAAGACCACGTCTGGGACAT
103517582 CGGCATCGTATATGATTTCA
66 CGGCATCGTATATGATTTCA
* * *
103517602 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAG-TT-ACATGTAAGACCACGTCTGGGAC
1 TGTAAGACCCTGTCTGGGACACAGACATCG--ATTGAGATTAACATATAAGACCACGTCTGGGAC
*
103517665 GTCGGCAT
64 ATCGGCAT
103517673 TGTACTTGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 54 0.87
86 2 0.03
87 6 0.10
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (85 bp):
TGTAAGACCCTGTCTGGGACACAGACATCGATTGAGATTAACATATAAGACCACGTCTGGGACAT
CGGCATCGTATATGATTTCA
Found at i:103526308 original size:40 final size:40
Alignment explanation
Indices: 103526263--103526392 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
103526253 CGGAATACAA
*
103526263 CCGGATATAACCACGT-GCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
103526303 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
103526343 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
103526383 CCGGATATAA
1 CCGGATATAA
103526393 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:103526407 original size:40 final size:40
Alignment explanation
Indices: 103526263--103526426 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
103526253 CGGAATACAA
** *
103526263 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGACTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* **
103526303 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
103526343 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
103526383 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
103526423 CCGG
1 CCGG
103526427 GTATCATTCA
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 97 0.98
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:103528846 original size:47 final size:44
Alignment explanation
Indices: 103528734--103528854 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 44
103528724 TCACTTGTGT
103528734 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTAAGA
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCG--CACATTAAGA
* * *
103528780 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTGAGACGA
1 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCACATT-A-A-GA
*
103528828 GTGCTAGTGTAAGACATGTTTGGGACA
1 GTGCTAGTGTAAGACATGTCTGGGACA
103528855 CACATCGGCT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
45 4 0.06
46 13 0.20
47 27 0.42
48 20 0.31
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (44 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGCACATTAAGA
Found at i:103541290 original size:40 final size:40
Alignment explanation
Indices: 103541194--103541326 Score: 148
Period size: 40 Copynumber: 3.3 Consensus size: 40
103541184 GGGCTAGGTT
* *
103541194 CCGAAGGC-TTTGTGCTAAGTGACTAAATCC-GGACTAAGAT-
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TC
103541234 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGATAAGTC
* * *
103541274 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
*
103541314 CCGAAGGTATTTG
1 CCGAAGGCATTTG
103541327 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.01
40 70 0.84
41 12 0.14
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGATAAGTC
Found at i:103541340 original size:40 final size:40
Alignment explanation
Indices: 103541234--103541345 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
103541224 GGACTAAGAT
** *
103541234 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
103541274 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
*
103541314 CCGAAGGTATTTGAACGAG-TAGCTATAACCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
103541346 TTAAACTCCG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.03
40 60 0.94
41 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:103543069 original size:80 final size:80
Alignment explanation
Indices: 103542985--103543133 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
103542975 TATGGTAACC
* * * *
103542985 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
103543049 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
103543065 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
103543130 CCGG
66 CCGG
103543134 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:103543075 original size:40 final size:38
Alignment explanation
Indices: 103543026--103543133 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
103543016 ATCACGATTT
*
103543026 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
103543066 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
103543106 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
103543134 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:103551182 original size:80 final size:80
Alignment explanation
Indices: 103551098--103551246 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
103551088 TATGGTAACC
* * * *
103551098 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
103551162 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
103551178 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
103551243 CCGG
66 CCGG
103551247 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:103551188 original size:40 final size:38
Alignment explanation
Indices: 103551139--103551246 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
103551129 ATCACGATTT
*
103551139 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
103551179 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
103551219 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
103551247 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:103558583 original size:26 final size:26
Alignment explanation
Indices: 103558554--103558695 Score: 100
Period size: 26 Copynumber: 5.7 Consensus size: 26
103558544 CTTATTAGTG
*
103558554 TCCCGATATATGGCTCTTCGTGAGCT
1 TCCCGATATATGGCTCTCCGTGAGCT
* **
103558580 TCCCGTTGAT-TGGCTCTTTGTGAGCT
1 TCCCGAT-ATATGGCTCTCCGTGAGCT
**
103558606 TCTTGAT-TAATGGCTCTCCG-GAGCT
1 TCCCGATAT-ATGGCTCTCCGTGAGCT
* * * *
103558631 TCCCAATAT-TGGCT-TGCTTGAACT
1 TCCCGATATATGGCTCTCCGTGAGCT
* *
103558655 TCCCAATATATGGCTATCCG-GAGCT
1 TCCCGATATATGGCTCTCCGTGAGCT
*
103558680 TCCCGTTA-ATGGCTCT
1 TCCCGATATATGGCTCT
103558696 ATGGAGCTAC
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 2 0.02
24 26 0.29
25 24 0.27
26 36 0.40
27 2 0.02
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (26 bp):
TCCCGATATATGGCTCTCCGTGAGCT
Found at i:103558681 original size:25 final size:24
Alignment explanation
Indices: 103558615--103558683 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
103558605 TTCTTGATTA
103558615 ATGGCTCTCCGGAGCTTCCCAATAT
1 ATGGCT-TCCGGAGCTTCCCAATAT
** *
103558640 -TGGCTTGCTTGAACTTCCCAATAT
1 ATGGCTT-CCGGAGCTTCCCAATAT
103558664 ATGGCTATCCGGAGCTTCCC
1 ATGGCT-TCCGGAGCTTCCC
103558684 GTTAATGGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.03
24 19 0.54
25 14 0.40
26 1 0.03
ACGTcount: A:0.19, C:0.30, G:0.20, T:0.30
Consensus pattern (24 bp):
ATGGCTTCCGGAGCTTCCCAATAT
Found at i:103558701 original size:24 final size:24
Alignment explanation
Indices: 103558675--103558818 Score: 67
Period size: 25 Copynumber: 5.9 Consensus size: 24
103558665 TGGCTATCCG
103558675 GAGCTTCCCGTTAATGGCTC-TAT
1 GAGCTTCCCGTTAATGGCTCGTAT
* ** * *
103558698 GGAGCTACTTGTTATTGGCTCGCAT
1 -GAGCTTCCCGTTAATGGCTCGTAT
* *
103558723 GAGCTTCCTGATT-ATGGCTCTTAT
1 GAGCTTCCCG-TTAATGGCTCGTAT
* ** * **
103558747 GAGCTTTCCGTTATACAGCCCGGGT
1 GAGCTTCCCGTTA-ATGGCTCGTAT
* **
103558772 AAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTA-ATGGCTCGTAT
**
103558797 GAGCTTCCTATTATATGGCTCG
1 GAGCTTCCCGTTA-ATGGCTCG
103558819 AGAGAGTGCT
Statistics
Matches: 84, Mismatches: 32, Indels: 7
0.68 0.26 0.06
Matches are distributed among these distances:
23 2 0.02
24 40 0.48
25 42 0.50
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCGTAT
Found at i:103559162 original size:17 final size:17
Alignment explanation
Indices: 103559118--103559163 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
103559108 GAAATACATG
*
103559118 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
103559133 GAAAT-ATTGATATAAT
1 GAAATGAATGATATAAT
103559149 GAAATGAATGATATA
1 GAAATGAATGATATA
103559164 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:103563020 original size:40 final size:40
Alignment explanation
Indices: 103562946--103563091 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
103562936 CCGCACCAAG
* * * * * *
103562946 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
103562986 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
103563026 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
103563066 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
103563092 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:103563106 original size:40 final size:40
Alignment explanation
Indices: 103562978--103563129 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
103562968 ATCACGATTT
* * * * *
103562978 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
103563018 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
103563058 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
103563098 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
103563130 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:103571104 original size:40 final size:40
Alignment explanation
Indices: 103571030--103571175 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
103571020 CCGCACCAAG
* * * * * *
103571030 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
103571070 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
103571110 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
103571150 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
103571176 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:103571190 original size:40 final size:40
Alignment explanation
Indices: 103571062--103571213 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
103571052 ATCACGATTT
* * * * *
103571062 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
103571102 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
103571142 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
103571182 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
103571214 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:103576701 original size:40 final size:40
Alignment explanation
Indices: 103576601--103576868 Score: 292
Period size: 40 Copynumber: 6.5 Consensus size: 40
103576591 TGGATGATAA
*
103576601 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
103576642 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
103576682 CCGGGCTAAGTCTCAAAGGCATTTGTGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-C---CG-A----AGGCATTTGTGCGAGTTACTATAT
*
103576731 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
103576771 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
103576811 TCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
103576851 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
103576869 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 15, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
39 16 0.08
40 116 0.58
41 25 0.12
42 4 0.02
44 2 0.01
45 2 0.01
49 35 0.17
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:103576731 original size:49 final size:49
Alignment explanation
Indices: 103576659--103576757 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
103576649 AAGTCCCGAA
103576659 GGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCAAAGGCATTTGT
1 GGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCAAAGGCATTTGT
*
103576708 GGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCGAAGGCATTTGT
1 GGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCAAAGGCATTTGT
103576757 G
1 G
103576758 CGAGTTACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (49 bp):
GGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCAAAGGCATTTGT
Found at i:103579048 original size:29 final size:29
Alignment explanation
Indices: 103579009--103579087 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
103578999 CTTAATAATC
*
103579009 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
103579039 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
103579068 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
103579088 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:103579745 original size:2 final size:2
Alignment explanation
Indices: 103579727--103579762 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
103579717 TGATGGCCGA
* *
103579727 AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103579763 CAACTATACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103583399 original size:48 final size:48
Alignment explanation
Indices: 103583347--103583451 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
103583337 ATATGGTGTC
* **
103583347 GGCATTGATATATGATCCCATGTAAGACCATGTCTAGGACATGGCATT
1 GGCATCGATATATGATCCCAAATAAGACCATGTCTAGGACATGGCATT
* * * *
103583395 GGCATCGTTATGTGATCCCAAATAAGACCATGTTTGGGACATGGCATT
1 GGCATCGATATATGATCCCAAATAAGACCATGTCTAGGACATGGCATT
*
103583443 GACATCGAT
1 GGCATCGAT
103583452 GTGAGAACAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (48 bp):
GGCATCGATATATGATCCCAAATAAGACCATGTCTAGGACATGGCATT
Found at i:103591062 original size:55 final size:55
Alignment explanation
Indices: 103590996--103591129 Score: 162
Period size: 55 Copynumber: 2.4 Consensus size: 55
103590986 TATGAATGGC
* ** *
103590996 CACGCCCGTGTTGTTTTGGCAGGTTCGGCCACGGTTGCTTGGCACTG-GCGTGTAG
1 CACGCCCGTGTTGTTTTGGCAGGTTCAGCCACGGTTGCAAGGCAC-GAGAGTGTAG
** * * * *
103591051 CACGCCCGTGTTAATTTGACAGGTTCAGCCACTGTTTCAAGGCACGAGAGTGTCG
1 CACGCCCGTGTTGTTTTGGCAGGTTCAGCCACGGTTGCAAGGCACGAGAGTGTAG
103591106 CACGCCCGTGTTGTTTTGGCAGGT
1 CACGCCCGTGTTGTTTTGGCAGGT
103591130 ACGCCCCCGG
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 1 0.02
55 64 0.98
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.28
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGGCAGGTTCAGCCACGGTTGCAAGGCACGAGAGTGTAG
Found at i:103593077 original size:36 final size:36
Alignment explanation
Indices: 103593030--103593100 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
103593020 GGTTGAAGGG
*
103593030 TTAATACTCTGTGCATGCTCCTCTTCCATTCGAATT
1 TTAATACTCTGTGCATGCTCCTCCTCCATTCGAATT
103593066 TTAATACTCTGTGCATGCTCCTCCTCCATTCGAAT
1 TTAATACTCTGTGCATGCTCCTCCTCCATTCGAAT
103593101 CGCACCTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.20, C:0.30, G:0.11, T:0.39
Consensus pattern (36 bp):
TTAATACTCTGTGCATGCTCCTCCTCCATTCGAATT
Found at i:103597235 original size:30 final size:30
Alignment explanation
Indices: 103597201--103597269 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
103597191 ATGGGGCAGA
103597201 CCGTGTGTCACACACGGCCTAGACACTTGC
1 CCGTGTGTCACACACGGCCTAGACACTTGC
*
103597231 CCGTGTGTCACACACGGCCTAGTCACTTGC
1 CCGTGTGTCACACACGGCCTAGACACTTGC
103597261 CCGTGTGTC
1 CCGTGTGTC
103597270 TAACCGTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.16, C:0.36, G:0.25, T:0.23
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACTTGC
Found at i:103604729 original size:3 final size:3
Alignment explanation
Indices: 103604721--103604792 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
103604711 AGTTCGTGTG
103604721 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
103604769 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
103604793 CAATGTCATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:103605290 original size:48 final size:48
Alignment explanation
Indices: 103605219--103605345 Score: 175
Period size: 48 Copynumber: 2.6 Consensus size: 48
103605209 ATGAGATCCC
* * *
103605219 GTGTAAGACCATGTCTGGGACATGGCGTCGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGAACATGGCATCGGTGATGATATGTGTGCCA
* * **
103605267 GTGTAAGATCATGTCTGGAACATGGCATCAGTGATGATATGTGTGTTA
1 GTGTAAGACCATGTCTGGAACATGGCATCGGTGATGATATGTGTGCCA
103605315 GTGTAAGACCATGTCT-GAGACATGGCATCGG
1 GTGTAAGACCATGTCTGGA-ACATGGCATCGG
103605346 CACCGATTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.03
48 67 0.97
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGAACATGGCATCGGTGATGATATGTGTGCCA
Found at i:103611223 original size:4 final size:4
Alignment explanation
Indices: 103611204--103611238 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
103611194 TTTTTGTCTA
103611204 AGTT AAGTT AAGTT AGTT AGTT AGTT AGTT AGTT A
1 AGTT -AGTT -AGTT AGTT AGTT AGTT AGTT AGTT A
103611239 AATCCACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 21 0.70
5 9 0.30
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (4 bp):
AGTT
Found at i:103611742 original size:19 final size:19
Alignment explanation
Indices: 103611720--103611761 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
103611710 TAATTTGTCT
103611720 CAATTA-GTAAAATTGAGAC
1 CAATTAGGTAAAATTGAG-C
103611739 CAA-TAGGTAAAATTGAGC
1 CAATTAGGTAAAATTGAGC
103611757 CAATT
1 CAATT
103611762 TAGGAGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (19 bp):
CAATTAGGTAAAATTGAGC
Found at i:103627725 original size:40 final size:40
Alignment explanation
Indices: 103627680--103627846 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
103627670 CGGAATATAA
103627680 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
103627720 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
103627760 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
103627800 CCGGATATAATTTCCAGCATAATTGTCTT-GGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
103627839 CCGGATAT
1 CCGGATAT
103627847 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 17 0.16
40 89 0.84
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:103630106 original size:43 final size:43
Alignment explanation
Indices: 103630013--103630162 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
103630003 TGAGTTGTGC
* * * *
103630013 TTACATGTAAGACCATGT-TTGGACATTGGCATTGTTTTGAGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGA
*
103630055 TTACGTGTAAGACCATGTCAGGGACATTGGCATCGTATT-ATGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGA-GA
** * * * *
103630098 TTTTGTGTAAGACCCTGTCTGGAACAGTGGCATCG-ATATGTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGAGA
* * *
103630141 TAACATGTAAGACCATATCTGG
1 TTACGTGTAAGACCATGTCTGG
103630163 ACACGACATT
Statistics
Matches: 86, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
42 20 0.23
43 66 0.77
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGA
Found at i:103651485 original size:20 final size:21
Alignment explanation
Indices: 103651460--103651499 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
103651450 CTCATGAAAC
103651460 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
103651480 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
103651500 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:103670067 original size:30 final size:30
Alignment explanation
Indices: 103670031--103670133 Score: 120
Period size: 28 Copynumber: 3.5 Consensus size: 30
103670021 GACAACATTG
* * *
103670031 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
103670061 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* * *
103670089 GCACTAAGTGTGCGAGCTGAATATATATATA
1 GCACTAAGTGTGCGAGTTTAAAAT-TATATA
103670120 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
103670134 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.37
30 20 0.32
31 20 0.32
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:103670121 original size:31 final size:28
Alignment explanation
Indices: 103670060--103670133 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 28
103670050 AAAATTGTAC
*
103670060 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTATGATTATAT
103670088 AGCACTAAGTGTGCGAGCTGAAT-ATATATAT
1 AGCACTAAGTGTGCGAG-T--ATGAT-TATAT
103670119 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
103670134 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 17 0.41
29 1 0.02
30 2 0.05
31 21 0.51
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATGATTATAT
Found at i:103676776 original size:43 final size:43
Alignment explanation
Indices: 103676700--103676825 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
103676690 GGTTATCGAG
* ** * *
103676700 TTATGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTA
1 TTATGATTACGTGTAAGACCATGTCAGGAACATTGGCATCGTA
*
103676743 TTGA-GATTACGTGTAAGACTATGTCAGGAACATTGGCATCGTA
1 TT-ATGATTACGTGTAAGACCATGTCAGGAACATTGGCATCGTA
* * *
103676786 TTATGATTTCGTGTAAGACCCTGTCTAGG-ACAGTGGCATC
1 TTATGATTACGTGTAAGACCATGTC-AGGAACATTGGCATC
103676826 AATATGTGAT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 65 0.93
44 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TTATGATTACGTGTAAGACCATGTCAGGAACATTGGCATCGTA
Found at i:103680937 original size:34 final size:34
Alignment explanation
Indices: 103680894--103680972 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
103680884 CAGTGACGTC
* *
103680894 CAGTATTAGT-TAGGGCCATAGCCCATTACAGTAT
1 CAGTATTAGTGT-GGGCCATAGCCCAATACAGTAA
**
103680928 CAGTATTAGTGTGGGCTTTAGCCCAATACAGTAA
1 CAGTATTAGTGTGGGCCATAGCCCAATACAGTAA
*
103680962 CAGTAATAGTG
1 CAGTATTAGTG
103680973 ATGCAATCAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (34 bp):
CAGTATTAGTGTGGGCCATAGCCCAATACAGTAA
Found at i:103682564 original size:41 final size:41
Alignment explanation
Indices: 103682519--103682636 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
103682509 TGAAAGATAA
103682519 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
103682560 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
103682590 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
103682631 ATGTAG
1 ATGTAG
103682637 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:103682575 original size:71 final size:71
Alignment explanation
Indices: 103682487--103682650 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
103682477 GAGATGTATC
103682487 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
103682552 AGGACA
66 AGGACA
103682558 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
103682623 AGGACA
66 AGGACA
103682629 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
103682651 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:103690122 original size:41 final size:41
Alignment explanation
Indices: 103690077--103690194 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
103690067 TGAAAGATAA
103690077 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
103690118 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
103690148 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
103690189 ATGTAG
1 ATGTAG
103690195 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:103690133 original size:71 final size:71
Alignment explanation
Indices: 103690045--103690208 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
103690035 GAGATGTATC
103690045 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
103690110 AGGACA
66 AGGACA
103690116 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
103690181 AGGACA
66 AGGACA
103690187 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
103690209 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:103692526 original size:40 final size:40
Alignment explanation
Indices: 103692481--103692687 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
103692471 CGGAATACAA
*
103692481 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
103692521 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
103692561 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
103692601 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
103692641 CCGGATATAATTACTAGCATAAATGTCTTC-GGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
103692680 CCGGATAT
1 CCGGATAT
103692688 CATTCAATTG
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
39 17 0.12
40 123 0.87
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:103700527 original size:40 final size:40
Alignment explanation
Indices: 103700482--103700688 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
103700472 CGGAATACAA
*
103700482 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
103700522 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
103700562 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
103700602 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
103700642 CCGGATATAATTACTAGCATAAATGTCTTC-GGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
103700681 CCGGATAT
1 CCGGATAT
103700689 CATTCAATTG
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
39 17 0.12
40 123 0.87
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:103707825 original size:28 final size:29
Alignment explanation
Indices: 103707792--103707848 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
103707782 CGCTAAATAA
103707792 ACTATATAATACTAA-AAAATAATTTATT
1 ACTATATAATACTAACAAAATAATTTATT
103707820 ACTATATAATACTAACAAAATAATTTATT
1 ACTATATAATACTAACAAAATAATTTATT
103707849 CTCATCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.39
Consensus pattern (29 bp):
ACTATATAATACTAACAAAATAATTTATT
Found at i:103710104 original size:20 final size:20
Alignment explanation
Indices: 103710090--103710145 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
103710080 CATGATTGAG
103710090 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
103710110 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
*
103710130 ATGAAATGCACATGAT
1 ATGATATGCACATGAT
103710146 GAACTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:103710106 original size:11 final size:11
Alignment explanation
Indices: 103710090--103710145 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
103710080 CATGATTGAG
103710090 ATGATATGCAC
1 ATGATATGCAC
*
103710101 ATGATATG--T
1 ATGATATGCAC
103710110 ATGATATGCAC
1 ATGATATGCAC
*
103710121 ATGATATG--T
1 ATGATATGCAC
*
103710130 ATGAAATGCAC
1 ATGATATGCAC
103710141 ATGAT
1 ATGAT
103710146 GAACTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:103710226 original size:26 final size:25
Alignment explanation
Indices: 103710197--103710330 Score: 130
Period size: 26 Copynumber: 5.3 Consensus size: 25
103710187 GGAAGTGCAG
103710197 AAGGGCTTATGCCCCAGTTTATGGAA
1 AAGGGCTTATGCCCCAGTTTAT-GAA
* *
103710223 AAGGGCTTATGCTCCAGTTTACCGAA
1 AAGGGCTTATGCCCCAGTTTA-TGAA
* *
103710249 AATGGCTTATGCCCTAGTTTATTGAA
1 AAGGGCTTATGCCCCAGTTTA-TGAA
* *
103710275 ATGGGCTT-TGCCGCAGTTTACTGAA
1 AAGGGCTTATGCCCCAGTTTA-TGAA
* *
103710300 AAGGGCTT-TGCCCCTG-TTATTAA
1 AAGGGCTTATGCCCCAGTTTATGAA
103710323 AAGAGGCT
1 AAG-GGCT
103710331 AGGCCTCCAG
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
23 6 0.07
24 7 0.08
25 27 0.30
26 50 0.56
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (25 bp):
AAGGGCTTATGCCCCAGTTTATGAA
Found at i:103710281 original size:52 final size:51
Alignment explanation
Indices: 103710197--103710313 Score: 157
Period size: 52 Copynumber: 2.3 Consensus size: 51
103710187 GGAAGTGCAG
103710197 AAGGGCTTATGCCCCAGTTTATGGAAAAGGGCTTATGCTC-CAGTTTACCGAA
1 AAGGGCTTATGCCCCAGTTTATGGAAAAGGGCTT-TGC-CGCAGTTTACCGAA
* * * * *
103710249 AATGGCTTATGCCCTAGTTTATTGAAATGGGCTTTGCCGCAGTTTACTGAA
1 AAGGGCTTATGCCCCAGTTTATGGAAAAGGGCTTTGCCGCAGTTTACCGAA
103710300 AAGGGCTT-TGCCCC
1 AAGGGCTTATGCCCC
103710314 TGTTATTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 6 0.11
51 21 0.37
52 30 0.53
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (51 bp):
AAGGGCTTATGCCCCAGTTTATGGAAAAGGGCTTTGCCGCAGTTTACCGAA
Found at i:103715009 original size:13 final size:13
Alignment explanation
Indices: 103714991--103715018 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103714981 TTGGTTTCTC
103714991 GGTTTCAGCAAGT
1 GGTTTCAGCAAGT
103715004 GGTTTCAGCAAGT
1 GGTTTCAGCAAGT
103715017 GG
1 GG
103715019 AGGGGAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (13 bp):
GGTTTCAGCAAGT
Found at i:103718186 original size:9 final size:10
Alignment explanation
Indices: 103718174--103718230 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
103718164 TACGTGGGAT
103718174 ATGATAT-AC
1 ATGATATGAC
*
103718183 ATGAT-TGAG
1 ATGATATGAC
103718192 ATGATATGCAC
1 ATGATATG-AC
*
103718203 ATGATATG-T
1 ATGATATGAC
103718212 ATGATATGCAC
1 ATGATATG-AC
103718223 ATGATATG
1 ATGATATG
103718231 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (10 bp):
ATGATATGAC
Found at i:103718206 original size:20 final size:20
Alignment explanation
Indices: 103718192--103718247 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
103718182 CATGATTGAG
103718192 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
103718212 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
*
103718232 ATGAAATGCACATGAT
1 ATGATATGCACATGAT
103718248 GAATCATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:103718208 original size:11 final size:11
Alignment explanation
Indices: 103718192--103718247 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
103718182 CATGATTGAG
103718192 ATGATATGCAC
1 ATGATATGCAC
*
103718203 ATGATATG--T
1 ATGATATGCAC
103718212 ATGATATGCAC
1 ATGATATGCAC
*
103718223 ATGATATG--T
1 ATGATATGCAC
*
103718232 ATGAAATGCAC
1 ATGATATGCAC
103718243 ATGAT
1 ATGAT
103718248 GAATCATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:103718352 original size:24 final size:24
Alignment explanation
Indices: 103718296--103718404 Score: 129
Period size: 25 Copynumber: 4.6 Consensus size: 24
103718286 GAGGAAGTGC
103718296 AAAGGGCTTATGCCCCAGTTTATGA
1 AAAGGGCTTATG-CCCAGTTTATGA
*
103718321 AAAGGGCTTATG-CCAGTTTACCGA
1 AAAGGGCTTATGCCCAGTTTA-TGA
*
103718345 AAATGGCTTATGCCCAGTTTATTGA
1 AAAGGGCTTATGCCCAGTTTA-TGA
*
103718370 AAAGGGCTT-TGCCCAG-TT-TCA
1 AAAGGGCTTATGCCCAGTTTATGA
103718391 AAAGGGCTT-TGCCC
1 AAAGGGCTTATGCCC
103718405 CTGTTATTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
21 16 0.21
23 10 0.13
24 20 0.26
25 30 0.39
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCAGTTTATGA
Found at i:103726222 original size:9 final size:10
Alignment explanation
Indices: 103726210--103726266 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
103726200 TACGTGGGAT
103726210 ATGATAT-AC
1 ATGATATGAC
*
103726219 ATGAT-TGAG
1 ATGATATGAC
103726228 ATGATATGCAC
1 ATGATATG-AC
*
103726239 ATGATATG-T
1 ATGATATGAC
103726248 ATGATATGCAC
1 ATGATATG-AC
103726259 ATGATATG
1 ATGATATG
103726267 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (10 bp):
ATGATATGAC
Found at i:103726242 original size:20 final size:20
Alignment explanation
Indices: 103726228--103726283 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
103726218 CATGATTGAG
103726228 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
103726248 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
*
103726268 ATGAAATGCACATGAT
1 ATGATATGCACATGAT
103726284 GAATCATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:103726244 original size:11 final size:11
Alignment explanation
Indices: 103726228--103726283 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
103726218 CATGATTGAG
103726228 ATGATATGCAC
1 ATGATATGCAC
*
103726239 ATGATATG--T
1 ATGATATGCAC
103726248 ATGATATGCAC
1 ATGATATGCAC
*
103726259 ATGATATG--T
1 ATGATATGCAC
*
103726268 ATGAAATGCAC
1 ATGATATGCAC
103726279 ATGAT
1 ATGAT
103726284 GAATCATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:103726378 original size:24 final size:24
Alignment explanation
Indices: 103726332--103726459 Score: 149
Period size: 23 Copynumber: 5.4 Consensus size: 24
103726322 GAGGAAGTGC
103726332 AAAAGGGCTTATGCCCCAGTTTATG
1 AAAAGGGCTTATG-CCCAGTTTATG
*
103726357 AAAAGGGCTTATGCCCAGTTTACCG
1 AAAAGGGCTTATGCCCAGTTTA-TG
103726382 AAAA-GGCTTATGCCCAGTTTATTG
1 AAAAGGGCTTATGCCCAGTTTA-TG
*
103726406 -AAAGGGCTT-TGCCCAGTTTCTG
1 AAAAGGGCTTATGCCCAGTTTATG
* *
103726428 AAAAGGGCTT-TGCCCCG-TTATT
1 AAAAGGGCTTATGCCCAGTTTATG
103726450 AAAAGAGGCT
1 AAAAG-GGCT
103726460 AGGCCTCCAG
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
22 10 0.11
23 32 0.35
24 32 0.35
25 18 0.20
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCAGTTTATG
Found at i:103726418 original size:23 final size:24
Alignment explanation
Indices: 103726333--103726442 Score: 138
Period size: 24 Copynumber: 4.6 Consensus size: 24
103726323 AGGAAGTGCA
103726333 AAAGGGCTTATGCCCCAGTTTA-TG
1 AAAGGGCTTATG-CCCAGTTTACTG
*
103726357 AAAAGGGCTTATGCCCAGTTTACCG
1 -AAAGGGCTTATGCCCAGTTTACTG
* *
103726382 AAAAGGCTTATGCCCAGTTTATTG
1 AAAGGGCTTATGCCCAGTTTACTG
103726406 AAAGGGCTT-TGCCCAGTTT-CTG
1 AAAGGGCTTATGCCCAGTTTACTG
103726428 AAAAGGGCTT-TGCCC
1 -AAAGGGCTTATGCCC
103726443 CGTTATTAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.03
23 24 0.31
24 38 0.49
25 13 0.17
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCAGTTTACTG
Found at i:103734326 original size:20 final size:20
Alignment explanation
Indices: 103734301--103734367 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
103734291 GATATGATAT
103734301 ACATGAT-TGAGATGATATGC
1 ACATGATATG-GATGATATGC
*
103734321 ACATGATATGTATGATATGC
1 ACATGATATGGATGATATGC
* *
103734341 ACATGATATGTATGAAATGC
1 ACATGATATGGATGATATGC
*
103734361 ACGTGAT
1 ACATGAT
103734368 GAATGCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGATATGGATGATATGC
Found at i:103734328 original size:11 final size:11
Alignment explanation
Indices: 103734312--103734350 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
103734302 CATGATTGAG
103734312 ATGATATGCAC
1 ATGATATGCAC
*
103734323 ATGATATG--T
1 ATGATATGCAC
103734332 ATGATATGCAC
1 ATGATATGCAC
103734343 ATGATATG
1 ATGATATG
103734351 TATGAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:103734496 original size:52 final size:50
Alignment explanation
Indices: 103734416--103734552 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 50
103734406 GGAGGAAGTG
*
103734416 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGGTTAC
1 CAAAAAGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGGTTAC
* *
103734467 CGAAAAAGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGGCCCAGTTTAC
1 C-AAAAAGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGGTTAC
103734518 CAAAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 CAAAAA-GGCTTATGCCCCAGTTTATTGAAAAG-GGCT
103734553 AGGCCTCTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 13 0.16
51 18 0.22
52 35 0.44
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (50 bp):
CAAAAAGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGGTTAC
Found at i:103734511 original size:25 final size:26
Alignment explanation
Indices: 103734417--103734552 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
103734407 GAGGAAGTGC
103734417 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
103734443 AAAAGGGCTTATGCCCCAGGTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
103734469 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* ***
103734495 AAAAGGGCTT-TGGCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
103734520 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
103734543 AAAAGAGGCT
1 AAAAG-GGCT
103734553 AGGCCTCTAG
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 28 0.30
26 54 0.57
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:103737061 original size:15 final size:15
Alignment explanation
Indices: 103737041--103737105 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
103737031 ACTATGCTAA
103737041 AAATAATAAGAAATG
1 AAATAATAAGAAATG
*
103737056 AAATAA-AATAAATG
1 AAATAATAAGAAATG
* *
103737070 AAA-ATTAAATAAATG
1 AAATAAT-AAGAAATG
* *
103737085 AAA-AATGAGAAATC
1 AAATAATAAGAAATG
103737099 AAATAAT
1 AAATAAT
103737106 CAAACATGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
13 1 0.02
14 18 0.44
15 22 0.54
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.22
Consensus pattern (15 bp):
AAATAATAAGAAATG
Found at i:103746558 original size:20 final size:20
Alignment explanation
Indices: 103746533--103746570 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
103746523 TTTGATATAC
103746533 GTTTGGTTCAAACTATCTGT
1 GTTTGGTTCAAACTATCTGT
103746553 GTTTGGTTCAAACTATCT
1 GTTTGGTTCAAACTATCT
103746571 ATGTGAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (20 bp):
GTTTGGTTCAAACTATCTGT
Found at i:103753730 original size:215 final size:215
Alignment explanation
Indices: 103753359--103753790 Score: 828
Period size: 215 Copynumber: 2.0 Consensus size: 215
103753349 TAATCAGATT
*
103753359 AAGAGAACCAAAATCCACAAGTCTAGTGATAAACATCCATAAATATGCTAAGTATTTGGGGTAAA
1 AAGAGAACCAAAATCCACAAGTCTAGTGATAAACATCCATAAATATGCTAAGTATTTAGGGTAAA
103753424 AATATGTATAATTTGGCATTTATCAAATACCCCCACACTTAAGCAGTTTCTTTTCCTCAAGTAAA
66 AATATGTATAATTTGGCATTTATCAAATACCCCCACACTTAAGCAGTTTCTTTTCCTCAAGTAAA
103753489 ACTCTCATTTACTGCTAGAATTCATTCCTTTCAATCAAATAATCATTACTGATAATGTTACAAGT
131 ACTCTCATTTACTGCTAGAATTCATTCCTTTCAATCAAATAATCATTACTGATAATGTTACAAGT
103753554 TGTTCCACAGAAAATCATAC
196 TGTTCCACAGAAAATCATAC
103753574 AAGAGAACCAAAATCCACAAGTCTAGTGATAAACATCCATAAATATGCTAAGTATTTAGGGTAAA
1 AAGAGAACCAAAATCCACAAGTCTAGTGATAAACATCCATAAATATGCTAAGTATTTAGGGTAAA
*
103753639 AATATTTATAATTTGGCATTTATCAAATACCCCCACACTTAAGCAGTTTCTTTTCCTCAAGTAAA
66 AATATGTATAATTTGGCATTTATCAAATACCCCCACACTTAAGCAGTTTCTTTTCCTCAAGTAAA
*
103753704 ACTCTCATTTACTGCTAGAATTCATTCCTTTCAATCAAATAATCATTATTGATAATGTTACAAGT
131 ACTCTCATTTACTGCTAGAATTCATTCCTTTCAATCAAATAATCATTACTGATAATGTTACAAGT
*
103753769 TGTTCCATAGAAAATCATAC
196 TGTTCCACAGAAAATCATAC
103753789 AA
1 AA
103753791 TGTGAATTTA
Statistics
Matches: 213, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
215 213 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (215 bp):
AAGAGAACCAAAATCCACAAGTCTAGTGATAAACATCCATAAATATGCTAAGTATTTAGGGTAAA
AATATGTATAATTTGGCATTTATCAAATACCCCCACACTTAAGCAGTTTCTTTTCCTCAAGTAAA
ACTCTCATTTACTGCTAGAATTCATTCCTTTCAATCAAATAATCATTACTGATAATGTTACAAGT
TGTTCCACAGAAAATCATAC
Found at i:103755396 original size:12 final size:12
Alignment explanation
Indices: 103755379--103755421 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
103755369 AAGAAAATAA
*
103755379 TAAAATTGAAAT
1 TAAAATAGAAAT
103755391 TAAAATAGAAAT
1 TAAAATAGAAAT
* *
103755403 AAAAATAAAAAT
1 TAAAATAGAAAT
*
103755415 AAAAATA
1 TAAAATA
103755422 AAGAGGTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (12 bp):
TAAAATAGAAAT
Found at i:103755421 original size:6 final size:6
Alignment explanation
Indices: 103755387--103755423 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
103755377 AATAAAATTG
* *
103755387 AAATTA AAATAG AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A
103755424 GAGGTAAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:103757836 original size:15 final size:15
Alignment explanation
Indices: 103757797--103757836 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
103757787 TGTTAGAGGT
103757797 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
*
103757812 AAAAGAAAAAATAAA
1 AAAATAAAAAATAAA
*
103757827 GAAATCAAAA
1 AAAAT-AAAA
103757837 TATGTTAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:103760936 original size:13 final size:12
Alignment explanation
Indices: 103760917--103760948 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
103760907 GGTTGTTTAT
103760917 TAACTAATTAAC
1 TAACTAATTAAC
103760929 TAAACTAATTAAC
1 T-AACTAATTAAC
103760942 TAACTAA
1 TAACTAA
103760949 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:103769224 original size:43 final size:42
Alignment explanation
Indices: 103769138--103769251 Score: 156
Period size: 43 Copynumber: 2.7 Consensus size: 42
103769128 GGGTTACTAA
* *
103769138 ATTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAG
1 ATTACGTGTAAGACCATATCTAGGATATGGCATCGATACGAG
** * *
103769180 ATTTTGTGTAAGACCATAGCTAGGCTATTGGCATCGATACGAG
1 ATTACGTGTAAGACCATATCTAGGATA-TGGCATCGATACGAG
*
103769223 ATTACATGTAAGACCATATCTAGGATATG
1 ATTACGTGTAAGACCATATCTAGGATATG
103769252 ACATTGGTAC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
ATTACGTGTAAGACCATATCTAGGATATGGCATCGATACGAG
Found at i:103770253 original size:31 final size:31
Alignment explanation
Indices: 103770213--103770329 Score: 200
Period size: 31 Copynumber: 3.8 Consensus size: 31
103770203 TCAATCGCAG
*
103770213 CATAT-ACTGGGCCAAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
103770243 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
103770274 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
103770305 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
103770330 TGTAACAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
30 5 0.06
31 78 0.94
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:103773463 original size:26 final size:25
Alignment explanation
Indices: 103773428--103773488 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
103773418 CCTCTTTTAA
*
103773428 TAACTGGGGCAAAAGCCTTTTTCGG
1 TAACTGGGGCAAAAGCCCTTTTCGG
*
103773453 TAAACTAGGGC-AAAGCCCTTTTCGG
1 T-AACTGGGGCAAAAGCCCTTTTCGG
103773478 TAACTGGGGCA
1 TAACTGGGGCA
103773489 TTGCCCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 8 0.26
25 15 0.48
26 8 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (25 bp):
TAACTGGGGCAAAAGCCCTTTTCGG
Found at i:103773487 original size:24 final size:24
Alignment explanation
Indices: 103773428--103773498 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
103773418 CCTCTTTTAA
*
103773428 TAACTGGGGCAAAAGCCTTTTTCGG
1 TAACTGGGGC-AAAGCCCTTTTCGG
*
103773453 TAAACTAGGGCAAAGCCCTTTTCGG
1 T-AACTGGGGCAAAGCCCTTTTCGG
**
103773478 TAACTGGGGCATTGCCCTTTT
1 TAACTGGGGCAAAGCCCTTTT
103773499 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 17 0.43
25 15 0.38
26 8 0.20
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (24 bp):
TAACTGGGGCAAAGCCCTTTTCGG
Found at i:103777132 original size:38 final size:38
Alignment explanation
Indices: 103777090--103777165 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
103777080 ATATGAGTGA
103777090 GAATTTGTGAGATTGAGCCAGTATCCACGAGAATGTGT
1 GAATTTGTGAGATTGAGCCAGTATCCACGAGAATGTGT
*
103777128 GAATTTGTGAGATTGAGCCAGTATCCATGAGAATGTGT
1 GAATTTGTGAGATTGAGCCAGTATCCACGAGAATGTGT
103777166 CTCGACCGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (38 bp):
GAATTTGTGAGATTGAGCCAGTATCCACGAGAATGTGT
Found at i:103783481 original size:99 final size:99
Alignment explanation
Indices: 103783322--103783645 Score: 409
Period size: 99 Copynumber: 3.3 Consensus size: 99
103783312 CTGGTACGCA
* * *
103783322 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACATGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCCTACACTTA
* * *
103783387 GGACTACACACATGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAATCATCTGATACACG
*
103783421 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGTCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCCTACACTTA
103783486 GTACTACACACGTGACCTAATCATCTGATACACG
66 GTACTACACACGTGACCTAATCATCTGATACACG
* * * * * * * *
103783520 TAGTAGCCTGCACTTAGTATTACATACGTGATCGAAGTTA-TCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATTC-GGTACACGTAGTAGCCTACAC
* * * * *
103783584 TTAGTACTGCACATGTGACC-AATTATCCGGTACACG
63 TTAGTACTACACACGTGACCTAATCATCTGATACACG
* *
103783620 TAGTAGCCTGCACTTTGTATTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
103783646 CGTGACCTCA
Statistics
Matches: 199, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
99 119 0.60
100 42 0.21
101 38 0.19
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCCTACACTTA
GTACTACACACGTGACCTAATCATCTGATACACG
Found at i:103783651 original size:49 final size:49
Alignment explanation
Indices: 103783322--103783652 Score: 365
Period size: 49 Copynumber: 6.7 Consensus size: 49
103783312 CTGGTACGCA
* ** *
103783322 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * * ** * *
103783371 TAGTAGCCTACACTTAGGACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * *
103783421 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * * * *
103783470 TAGTAGTCTACACTTAGTACTACACACGTGACCTAATCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * *
103783520 TAGTAGCCTGCACTTAGTATTACATACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* *
103783571 TAGTAGCCTGCACTTAGTACTGCACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* *
103783620 TAGTAGCCTGCACTTTGTATTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
103783653 TCACAATATA
Statistics
Matches: 227, Mismatches: 51, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
49 107 0.47
50 83 0.37
51 37 0.16
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:103788259 original size:56 final size:56
Alignment explanation
Indices: 103788179--103788386 Score: 274
Period size: 56 Copynumber: 3.7 Consensus size: 56
103788169 TAGACAGGGT
* * * * *
103788179 CTTACTTGTAAACACATATCAGAATCACATATCGATACCAACGTATGAAATGTGGA
1 CTTACTCGCAAACATATATCAGAATCACATATCGATGCCAACGTATTAAATGTGGA
* * * * *
103788235 CTTACTCACACACATATATTAGAATCACATATTGATGCCAACGTATTAAACGTGGA
1 CTTACTCGCAAACATATATCAGAATCACATATCGATGCCAACGTATTAAATGTGGA
* * *
103788291 CTTACTCGCAAACATATATCGGAATCACATATCGATGCCAACGTATTTAATGTGGT
1 CTTACTCGCAAACATATATCAGAATCACATATCGATGCCAACGTATTAAATGTGGA
*
103788347 CTTACTCGCAAACATATATCA-AAGTCACATATCAATGCCA
1 CTTACTCGCAAACATATATCAGAA-TCACATATCGATGCCA
103788387 CATATTCTTC
Statistics
Matches: 131, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
55 2 0.02
56 129 0.98
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (56 bp):
CTTACTCGCAAACATATATCAGAATCACATATCGATGCCAACGTATTAAATGTGGA
Found at i:103789371 original size:13 final size:13
Alignment explanation
Indices: 103789353--103789382 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
103789343 TTGAACTAGG
103789353 TTTTCCTTTCCTA
1 TTTTCCTTTCCTA
*
103789366 TTTTCCTTTCTTA
1 TTTTCCTTTCCTA
103789379 TTTT
1 TTTT
103789383 TGATTTCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCCTTTCCTA
Found at i:103791530 original size:29 final size:29
Alignment explanation
Indices: 103791496--103791570 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
103791486 TACTCGATTT
*
103791496 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
103791525 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
103791554 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
103791571 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:103791587 original size:29 final size:29
Alignment explanation
Indices: 103791554--103791627 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
103791544 CCTTCGAGCT
103791554 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
103791583 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
103791612 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
103791628 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:103793627 original size:64 final size:64
Alignment explanation
Indices: 103793549--103793679 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
103793539 TTGAAAAGTG
*
103793549 AATACTCATAATTAATGTGTATGTTTATTAAGAGGTTTGAAATGATTGGTTGATTGTGGTATTC
1 AATACTCATAATTAATGTGTATGTTTATTAAGAGGTTTGAAATGATTGGTTGATTGTGGTAATC
*
103793613 AATACTCATAATTAATGTGTATGTTTATTATGAGGTTTGAAATGATTGGTTGATTGTGGTAATC
1 AATACTCATAATTAATGTGTATGTTTATTAAGAGGTTTGAAATGATTGGTTGATTGTGGTAATC
103793677 AAT
1 AAT
103793680 TATAATGGAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (64 bp):
AATACTCATAATTAATGTGTATGTTTATTAAGAGGTTTGAAATGATTGGTTGATTGTGGTAATC
Found at i:103794265 original size:18 final size:19
Alignment explanation
Indices: 103794242--103794279 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
103794232 GCGAGTTATG
103794242 GTATGATAAATGTTG-TAT
1 GTATGATAAATGTTGATAT
*
103794260 GTATGATAGATGTTGATAT
1 GTATGATAAATGTTGATAT
103794279 G
1 G
103794280 GTATTGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
GTATGATAAATGTTGATAT
Found at i:103798395 original size:18 final size:18
Alignment explanation
Indices: 103798372--103798408 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
103798362 AAAGAAAGTA
103798372 TGTCCATTGATTTGGGAT
1 TGTCCATTGATTTGGGAT
103798390 TGTCCATTGATTTGGGAT
1 TGTCCATTGATTTGGGAT
103798408 T
1 T
103798409 ACTAGGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.27, T:0.46
Consensus pattern (18 bp):
TGTCCATTGATTTGGGAT
Found at i:103806695 original size:28 final size:28
Alignment explanation
Indices: 103806626--103806726 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
103806616 GACAAGATTG
* * * *
103806626 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
103806656 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
103806684 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
103806713 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
103806727 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:103814631 original size:28 final size:28
Alignment explanation
Indices: 103814562--103814662 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
103814552 GACAAGATTG
* * * *
103814562 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
103814592 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
103814620 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
103814649 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
103814663 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:103816811 original size:27 final size:27
Alignment explanation
Indices: 103816781--103816836 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
103816771 TTTGAAATGA
103816781 GTAAGTTTGTATGTAAATAATATTTCG
1 GTAAGTTTGTATGTAAATAATATTTCG
103816808 GTAAGTTTGTATGTAAATAATATTTCG
1 GTAAGTTTGTATGTAAATAATATTTCG
103816835 GT
1 GT
103816837 TGTTTTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (27 bp):
GTAAGTTTGTATGTAAATAATATTTCG
Found at i:103817196 original size:101 final size:101
Alignment explanation
Indices: 103817016--103817200 Score: 237
Period size: 101 Copynumber: 1.8 Consensus size: 101
103817006 TGTGAGTCAC
* * * * *
103817016 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTAGCATGTGTAGTACTAAG
1 GTGTATAGTACTAAGTACAAGCTACTACGTGTACCAGATGGATAAGTAGCATGTGTAATACTAAG
*
103817081 TGCTGGCTACTATGTGTACCCATTAACTTTGATCAT
66 TGCAGGCTACTATGTGTACCCATTAACTTTGATCAT
* * * * * *
103817117 GTGTATAGTACTAAGTACAGGCTACTATGTGTATCAGATGGTTAAGTCA-CGTGTGTAATACTAG
1 GTGTATAGTACTAAGTACAAGCTACTACGTGTACCAGATGGATAAGT-AGCATGTGTAATACTAA
*
103817181 GTTCAGGCTACTATGTGTAC
65 GTGCAGGCTACTATGTGTAC
103817201 TAGAATGATA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
101 69 0.99
102 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (101 bp):
GTGTATAGTACTAAGTACAAGCTACTACGTGTACCAGATGGATAAGTAGCATGTGTAATACTAAG
TGCAGGCTACTATGTGTACCCATTAACTTTGATCAT
Found at i:103817318 original size:50 final size:50
Alignment explanation
Indices: 103817254--103817384 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
103817244 TTAACTTCGA
* * * ** **
103817254 TCACGTGTGTAGTACTAAGCGTAGGCTATTACGTGTATTAGATGGTTAAG
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATGAATAAG
* * *
103817304 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTAATAGG
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATGAATAAG
* *
103817354 TCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTA
103817385 TGCGTACCAG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATGAATAAG
Found at i:103817329 original size:141 final size:141
Alignment explanation
Indices: 103817072--103817334 Score: 382
Period size: 141 Copynumber: 1.9 Consensus size: 141
103817062 TAGCATGTGT
* ** * * *
103817072 AGTACTAAGTGCTGGCTACTATGTGTACCCATTAACTTTGATCATGTGTATAGTACTAAGTACAG
1 AGTACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTATAGTACTAAGCACAG
* * *
103817137 GCTACTATGTGTATCAGATGGTTAAGTCACGTGTGTAATACTAGGTTCAGGCTACTATGTGTACT
66 GCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAATACTAAGTGCAGGCTACTATGTGTACT
103817202 AGAATGATAGG
131 AGAATGATAGG
* * **
103817213 AGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGCGTAG
1 AGTACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTATAGTACTAAGCACAG
* * *
103817278 GCTATTACGTGTATTAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
66 GCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAATACTAAGTGCAGGCTACTA
103817335 CATGTACCAG
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
141 106 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (141 bp):
AGTACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTATAGTACTAAGCACAG
GCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAATACTAAGTGCAGGCTACTATGTGTACT
AGAATGATAGG
Found at i:103817616 original size:16 final size:16
Alignment explanation
Indices: 103817595--103817626 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
103817585 AAAATGGAGT
103817595 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
103817611 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
103817627 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:103821700 original size:13 final size:13
Alignment explanation
Indices: 103821682--103821710 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
103821672 AACACTCTAT
103821682 GATGCATGGGAGA
1 GATGCATGGGAGA
103821695 GATGCATGGGAGA
1 GATGCATGGGAGA
103821708 GAT
1 GAT
103821711 ACAAGGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.07, G:0.45, T:0.17
Consensus pattern (13 bp):
GATGCATGGGAGA
Found at i:103831500 original size:39 final size:39
Alignment explanation
Indices: 103831446--103831528 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
103831436 ATCTCATAAT
*
103831446 ATAGAATTCCTTTGCTTGCTCTATTTTTGTTATATGAAA
1 ATAGAATTCCTTTGCTTGCTCTATTTTTGTTATAGGAAA
*
103831485 ATAGAATTCCTTTGCTTGCTCTGTTTTTGTTATAGGAAA
1 ATAGAATTCCTTTGCTTGCTCTATTTTTGTTATAGGAAA
103831524 ATAGA
1 ATAGA
103831529 CTCATTAAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.46
Consensus pattern (39 bp):
ATAGAATTCCTTTGCTTGCTCTATTTTTGTTATAGGAAA
Found at i:103836531 original size:39 final size:39
Alignment explanation
Indices: 103836482--103836643 Score: 252
Period size: 39 Copynumber: 4.2 Consensus size: 39
103836472 ACTCAGTGAT
* *
103836482 GAATTATATCCGGACTTAAGGTCTGCAGGCTATATGATG
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTG
*
103836521 GAATTATATCCGGACTTAAGGTCTGCAGGCTATATGCTG
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTG
* *
103836560 GAATTATGTCTGGACTTAAGGTCCGCAGGCTATATGCTG
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTG
* *
103836599 GAATTATGTCAGGACTTAAGGTCCGCAGGCTATATGCTG
1 GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTG
*
103836638 AAATTA
1 GAATTA
103836644 CGTCCGGGCT
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (39 bp):
GAATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTG
Found at i:103839336 original size:2 final size:2
Alignment explanation
Indices: 103839329--103839361 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
103839319 TCATGTGTTC
103839329 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103839362 CTTTCTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:103841293 original size:15 final size:16
Alignment explanation
Indices: 103841266--103841300 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
103841256 ACTATATTAC
*
103841266 AAATAATAAGAAAAGG
1 AAATAATAAGAAAAGA
103841282 AAATAA-AAGAAAAGA
1 AAATAATAAGAAAAGA
103841297 AAAT
1 AAAT
103841301 TAAATAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (16 bp):
AAATAATAAGAAAAGA
Found at i:103841298 original size:20 final size:20
Alignment explanation
Indices: 103841273--103841314 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
103841263 TACAAATAAT
103841273 AAGAAAAGGAAATAAAAGAA
1 AAGAAAAGGAAATAAAAGAA
** *
103841293 AAGAAAATTAAATAAATGAA
1 AAGAAAAGGAAATAAAAGAA
103841313 AA
1 AA
103841315 ATGAGAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (20 bp):
AAGAAAAGGAAATAAAAGAA
Found at i:103841328 original size:23 final size:20
Alignment explanation
Indices: 103841282--103841330 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
103841272 TAAGAAAAGG
*
103841282 AAATAAAAGAAAAGAAAATT
1 AAATAAAAGAAAAGAAAATC
*
103841302 AAATAAATGAAAAATGAGAAATC
1 AAATAAAAG-AAAA-GA-AAATC
103841325 AAATAA
1 AAATAA
103841331 TCAAATAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 4 0.17
22 2 0.08
23 10 0.42
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.16
Consensus pattern (20 bp):
AAATAAAAGAAAAGAAAATC
Found at i:103844883 original size:39 final size:40
Alignment explanation
Indices: 103844783--103844965 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
103844773 TCGAATGATG
* *
103844783 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
103844822 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGATTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
103844863 TCCGGGCCAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
103844902 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
103844941 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
103844966 CTAACGAGTA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:103844919 original size:79 final size:81
Alignment explanation
Indices: 103844783--103844965 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
103844773 TCGAATGATG
*
103844783 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
* *
103844847 TGTGCGATTTACTA-A
66 TATGCGAGTTACTATA
* * * **
103844862 TTCCGGGCCAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
103844924 TTTATGCGAGTTACTATA
64 TTTATGCGAGTTACTATA
* *
103844942 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
103844966 CTAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:103844989 original size:79 final size:77
Alignment explanation
Indices: 103844817--103845000 Score: 176
Period size: 79 Copynumber: 2.3 Consensus size: 77
103844807 GTGCTAAGTG
* * * *
103844817 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGATTTACTAATTCCGGGCCAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTATGCGAGTTACTAATACCGGGCCAAGCCCGAAGG
**
103844882 CATTTGTGCGAGTT
64 CATTTGAACGAGTT
* * *
103844896 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTATGCGAGTTACTAAT-ACCGGGCCAAG-CCCGAA
103844960 GGCATTCT-AACGAG-T
62 GGCATT-TGAACGAGTT
*
103844975 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
103845001 TACGTGATTC
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
78 3 0.03
79 55 0.63
80 28 0.32
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTATGCGAGTTACTAATACCGGGCCAAGCCCGAAGGCA
TTTGAACGAGTT
Found at i:103846907 original size:16 final size:17
Alignment explanation
Indices: 103846887--103846932 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
103846877 AAATTATAAA
103846887 ATAAGAAAAAAAGAAAT
1 ATAAGAAAAAAAGAAAT
103846904 -TAAG-AAAAAAGAAAT
1 ATAAGAAAAAAAGAAAT
*
103846919 AAAAGAAACAAAAG
1 ATAAGAAA-AAAAG
103846933 GTGGATGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 11 0.44
16 7 0.28
17 2 0.08
18 5 0.20
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.09
Consensus pattern (17 bp):
ATAAGAAAAAAAGAAAT
Found at i:103848966 original size:27 final size:27
Alignment explanation
Indices: 103848936--103848990 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
103848926 ATATATCACA
103848936 TAGGGGCAAAACAATCATTTTAACAAT
1 TAGGGGCAAAACAATCATTTTAACAAT
* * *
103848963 TAGGGGCAAAATAGTCATTTTACCAAT
1 TAGGGGCAAAACAATCATTTTAACAAT
103848990 T
1 T
103848991 TGAGGGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (27 bp):
TAGGGGCAAAACAATCATTTTAACAAT
Found at i:103851583 original size:24 final size:24
Alignment explanation
Indices: 103851551--103851599 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
103851541 TTAGAAAGTC
103851551 TATTTGTTAAATGTCCTATTTGGG
1 TATTTGTTAAATGTCCTATTTGGG
103851575 TATTTGTTAAATGTCCTATTTGGG
1 TATTTGTTAAATGTCCTATTTGGG
103851599 T
1 T
103851600 GATGAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.51
Consensus pattern (24 bp):
TATTTGTTAAATGTCCTATTTGGG
Found at i:103862517 original size:28 final size:28
Alignment explanation
Indices: 103862485--103862539 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
103862475 CGTAGATCAC
103862485 GAAATTACCCCTAAAGAGCAAAATTACT
1 GAAATTACCCCTAAAGAGCAAAATTACT
103862513 GAAATTACCCCTAAAGAGCAAAATTAC
1 GAAATTACCCCTAAAGAGCAAAATTAC
103862540 CAATATACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTACT
Found at i:103863553 original size:17 final size:19
Alignment explanation
Indices: 103863511--103863554 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
103863501 ATGAAATTTT
*
103863511 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
103863530 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
103863548 AA-TATTA
1 AATTATTA
103863555 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:103865368 original size:27 final size:27
Alignment explanation
Indices: 103865337--103865392 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
103865327 AGCGTAGATC
103865337 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
103865364 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
103865391 AC
1 AC
103865393 CATATACCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.23, G:0.11, T:0.18
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:103867923 original size:40 final size:40
Alignment explanation
Indices: 103867796--103867925 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
103867786 ATGCTGGAAA
* *
103867796 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
103867836 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
103867876 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
103867916 TTATATCCGG
1 TTATATCCGG
103867926 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:103869712 original size:23 final size:23
Alignment explanation
Indices: 103869682--103869729 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
103869672 TTTGCCATAG
*
103869682 TATGAATTTTGGGTCATAGGGAA
1 TATGAATTTTGGGTCACAGGGAA
*
103869705 TATGAATTTTGGGTCACAGTGAA
1 TATGAATTTTGGGTCACAGGGAA
103869728 TA
1 TA
103869730 ATGTGACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.35
Consensus pattern (23 bp):
TATGAATTTTGGGTCACAGGGAA
Found at i:103875689 original size:27 final size:28
Alignment explanation
Indices: 103875659--103875727 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
103875649 ATAGTAAGTC
*
103875659 CGCACACTTAGTGCT-TA-ATAGTCAACT
1 CGCACACTTAGTGCTATACA-AGTAAACT
*
103875686 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAAGTAAACT
103875714 CGCACACTTAGTGC
1 CGCACACTTAGTGC
103875728 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 22 0.58
29 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAAGTAAACT
Found at i:103883414 original size:27 final size:28
Alignment explanation
Indices: 103883384--103883452 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
103883374 ATAGTAAGTC
*
103883384 CGCACACTTAGTGCT-TA-ATAGTCAACT
1 CGCACACTTAGTGCTATACA-AGTAAACT
*
103883411 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAAGTAAACT
103883439 CGCACACTTAGTGC
1 CGCACACTTAGTGC
103883453 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 22 0.58
29 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAAGTAAACT
Found at i:103888156 original size:22 final size:22
Alignment explanation
Indices: 103888128--103888177 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
103888118 TATACCATAT
103888128 TTCAAACATACCTTAATAGCCA
1 TTCAAACATACCTTAATAGCCA
103888150 TTCAAACATACCTTAATAGCCA
1 TTCAAACATACCTTAATAGCCA
103888172 TTCAAA
1 TTCAAA
103888178 TATGCATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.26, G:0.04, T:0.28
Consensus pattern (22 bp):
TTCAAACATACCTTAATAGCCA
Found at i:103889314 original size:195 final size:195
Alignment explanation
Indices: 103888982--103889375 Score: 680
Period size: 195 Copynumber: 2.0 Consensus size: 195
103888972 TTATTTTTAA
*
103888982 AACTTCCAGACAAGCTGGCAATCTGCGTCACAGTTGCTTAAAAATTCATATCTCGAGTTCCGAAA
1 AACTTCCAGACAAGCTGGCAATCTGCGTCACAGTCGCTTAAAAATTCATATCTCGAGTTCCGAAA
* * * *
103889047 CTCAAAATCCAAATCCATAAATTTTTCCTGAAACTAGACTCATATATCTATCTGATAATTTTTTT
66 CTCAAAATCAAAATCCATAAATTTTTCATGAAACTAGACTCATATATATATCTGATAATGTTTTT
*
103889112 CTAGAATTTTTTGTCTGGCCAATTAGTACAGTTTATTAGTTAAAATCTCCCCTATTTCAAGGTTC
131 CTAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTAGTTAAAATCTCCCCTATTTCAAGGTTC
* *
103889177 AACTTCCAGACAAGCTGGCAATCTGTGTCACAGTCGCTTAAAAATTCATATCTTGAGTTCCGAAA
1 AACTTCCAGACAAGCTGGCAATCTGCGTCACAGTCGCTTAAAAATTCATATCTCGAGTTCCGAAA
***
103889242 CTCAAAATCAAAATTTGTAAATTTTTCATGAAACTAGACTCATATATATATCTGATAATGTTTTT
66 CTCAAAATCAAAATCCATAAATTTTTCATGAAACTAGACTCATATATATATCTGATAATGTTTTT
*
103889307 CTAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTAGTTAAAATCTCCCCTGTTTCAAGGTTC
131 CTAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTAGTTAAAATCTCCCCTATTTCAAGGTTC
103889372 AACT
1 AACT
103889376 ATTCTGACCT
Statistics
Matches: 187, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
195 187 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (195 bp):
AACTTCCAGACAAGCTGGCAATCTGCGTCACAGTCGCTTAAAAATTCATATCTCGAGTTCCGAAA
CTCAAAATCAAAATCCATAAATTTTTCATGAAACTAGACTCATATATATATCTGATAATGTTTTT
CTAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTAGTTAAAATCTCCCCTATTTCAAGGTTC
Found at i:103891002 original size:30 final size:30
Alignment explanation
Indices: 103890968--103891026 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
103890958 TTTAATACAA
* *
103890968 ACTTTGGAAAAATTATATTTTTGCCCCTAT
1 ACTTTGGAAAAATTACACTTTTGCCCCTAT
* * *
103890998 ACTTTTGCATAATTACACTTTTGCCCCTA
1 ACTTTGGAAAAATTACACTTTTGCCCCTA
103891027 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.42
Consensus pattern (30 bp):
ACTTTGGAAAAATTACACTTTTGCCCCTAT
Found at i:103894341 original size:23 final size:24
Alignment explanation
Indices: 103894296--103894348 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
103894286 ATGGTAAATT
*
103894296 TTGGTATGATTTGTGAATGATGAA
1 TTGGTATGATTTGAGAATGATGAA
*
103894320 TTGGTATG-TTTGAGAA-GCATGAT
1 TTGGTATGATTTGAGAATG-ATGAA
103894343 TTGGTA
1 TTGGTA
103894349 GATAGAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 1 0.04
23 17 0.65
24 8 0.31
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.42
Consensus pattern (24 bp):
TTGGTATGATTTGAGAATGATGAA
Found at i:103898686 original size:43 final size:42
Alignment explanation
Indices: 103898635--103898772 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 42
103898625 TCCCAAACGT
103898635 GGTCTTACATGTAATCAAATATCGATGCC-ACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATA-CGATGCCAAC-ATCCCAGACAG
* * * *
103898678 GGTCTTACACGAAATCAAATACGATGCCAACGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACGATGCCAACATCCCAGACAG
* * * *
103898720 AGTCTTACATGTAAATCATAAGT-CAATGCCAACGTCCTAGAC-G
1 GGTCTTACATGT-AATCA-AA-TACGATGCCAACATCCCAGACAG
103898763 TGGTCTTACA
1 -GGTCTTACA
103898773 CGAAAACACA
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
42 25 0.32
43 26 0.33
44 27 0.34
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGCCAACATCCCAGACAG
Done.