Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 80 of 320
Found at i:25282097 original size:15 final size:15
Alignment explanation
Indices: 25282055--25282162 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
25282045 CCAATATCTC
*
25282055 GATACCCATATCTTT
1 GATACCCATATATTT
**
25282070 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
25282085 GATACCCATATATTT
1 GATACCCATATATTT
** *
25282100 GACTTTCCA-CTATTT
1 GA-TACCCATATATTT
*
25282115 GATACCCATATCTTT
1 GATACCCATATATTT
** *
25282130 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
*
25282145 GATACCCATATCTTT
1 GATACCCATATATTT
25282160 GAT
1 GAT
25282163 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:25282856 original size:15 final size:15
Alignment explanation
Indices: 25282824--25282879 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
25282814 ATTTAAAATA
25282824 TTTTATATTTATACATTT
1 TTTTATATTT-T--ATTT
25282842 TTTTATATTTTATTT
1 TTTTATATTTTATTT
* * *
25282857 ATTTACAATTTATTT
1 TTTTATATTTTATTT
25282872 TTTTATAT
1 TTTTATAT
25282880 AGTGTTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 21 0.66
17 1 0.03
18 10 0.31
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATATTTTATTT
Found at i:25282863 original size:25 final size:27
Alignment explanation
Indices: 25282821--25282872 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
25282811 TATATTTAAA
25282821 ATATTTTATATTTATAC-ATTT-TTTT
1 ATATTTTATATTTATACAATTTATTTT
*
25282846 ATATTTTAT-TTATTTACAATTTATTTT
1 ATATTTTATATT-TATACAATTTATTTT
25282873 TTTATATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 13 0.57
26 4 0.17
27 4 0.17
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
ATATTTTATATTTATACAATTTATTTT
Found at i:25284758 original size:26 final size:26
Alignment explanation
Indices: 25284690--25284758 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 26
25284680 AAAACAAGAC
25284690 TTGTCATTGTATCAAGCTATGTGAAG
1 TTGTCATTGTATCAAGCTATGTGAAG
*
25284716 --GTC--TAT-TCAAGCTATGTGAAG
1 TTGTCATTGTATCAAGCTATGTGAAG
25284737 TTGTCATTGTATCAAGCTATGT
1 TTGTCATTGTATCAAGCTATGT
25284759 AAAGGTAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 3 0.08
24 3 0.08
25 2 0.06
26 11 0.31
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (26 bp):
TTGTCATTGTATCAAGCTATGTGAAG
Found at i:25286031 original size:13 final size:13
Alignment explanation
Indices: 25286012--25286046 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
25286002 TTATTTTATT
25286012 AATATTTTAATAA
1 AATATTTTAATAA
*
25286025 GATATTTTAATAA
1 AATATTTTAATAA
25286038 AATATTTTA
1 AATATTTTA
25286047 TTATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
AATATTTTAATAA
Found at i:25290408 original size:27 final size:26
Alignment explanation
Indices: 25290378--25290461 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 26
25290368 TTGCCAGAGC
*
25290378 AGTAAATGTGGCAAAGCCACCAGTATT
1 AGTAAATGTGGCATAGCCACCAGTA-T
* * *
25290405 AGTAATTATGGCATAGCCACCAGTAAC
1 AGTAAATGTGGCATAGCCACCAGT-AT
* * *
25290432 AGTGAATGTGACATAGTCACCAGTAT
1 AGTAAATGTGGCATAGCCACCAGTAT
25290458 AGTA
1 AGTA
25290462 CTTCCTCCAT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
26 4 0.09
27 40 0.89
28 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (26 bp):
AGTAAATGTGGCATAGCCACCAGTAT
Found at i:25290639 original size:27 final size:27
Alignment explanation
Indices: 25290609--25290678 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
25290599 CATATTAACA
**
25290609 TACAGGGGTATTACGGTCATTTTACCC
1 TACAGGGGTATTACGACCATTTTACCC
* *
25290636 TACAAGGGTAATACGACCATTTTACCC
1 TACAGGGGTATTACGACCATTTTACCC
*
25290663 TACAGAGGTATTACGA
1 TACAGGGGTATTACGA
25290679 TCAGATAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (27 bp):
TACAGGGGTATTACGACCATTTTACCC
Found at i:25291035 original size:9 final size:9
Alignment explanation
Indices: 25291017--25291047 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
25291007 CACATGCGGG
*
25291017 CCATTGGGC
1 CCATTCGGC
25291026 CCATTCGGC
1 CCATTCGGC
25291035 CCATTCGGC
1 CCATTCGGC
25291044 CCAT
1 CCAT
25291048 CGAGGCCGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.13, C:0.42, G:0.23, T:0.23
Consensus pattern (9 bp):
CCATTCGGC
Found at i:25297032 original size:27 final size:27
Alignment explanation
Indices: 25297002--25297134 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
25296992 AATCGCCATA
* *
25297002 TTACCCTGCAGGGGCATTACGGTCATT
1 TTACCCTACAGGGGTATTACGGTCATT
* * *
25297029 TTACCCTACAGGAGCATTACGGTTATT
1 TTACCCTACAGGGGTATTACGGTCATT
* * *
25297056 TTACCCTACAGGGTTATTATGGTTATT
1 TTACCCTACAGGGGTATTACGGTCATT
* *
25297083 TTAGCCTACAGGGGTATTACGATCATT
1 TTACCCTACAGGGGTATTACGGTCATT
*
25297110 TTACCCTACAGGGGTATTACAGTCA
1 TTACCCTACAGGGGTATTACGGTCA
25297135 GATAACGACC
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
TTACCCTACAGGGGTATTACGGTCATT
Found at i:25300159 original size:16 final size:15
Alignment explanation
Indices: 25300127--25300160 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
25300117 ATTAATGAAC
25300127 ATTCTTTTTTCCTTT
1 ATTCTTTTTTCCTTT
*
25300142 ATTCTTTTATTTCTTT
1 ATTCTTTT-TTCCTTT
25300158 ATT
1 ATT
25300161 TATCTTTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTCTTTTTTCCTTT
Found at i:25300589 original size:29 final size:30
Alignment explanation
Indices: 25300557--25300617 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
25300547 TAGGAATAGA
*
25300557 AAATTCTATTAGGATATCTTAGGTT-AATT
1 AAATTCCATTAGGATATCTTAGGTTAAATT
* *
25300586 AAATTCCATTAGGTTATTTTAGGTTAAATT
1 AAATTCCATTAGGATATCTTAGGTTAAATT
25300616 AA
1 AA
25300618 TTAATTAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (30 bp):
AAATTCCATTAGGATATCTTAGGTTAAATT
Found at i:25305199 original size:27 final size:27
Alignment explanation
Indices: 25305163--25305219 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
25305153 ACATATTTAA
25305163 TAATAATGATTAAAGAATGTTGAAATT
1 TAATAATGATTAAAGAATGTTGAAATT
25305190 TAATAATGATTAAAGAATGTTGAAATT
1 TAATAATGATTAAAGAATGTTGAAATT
25305217 TAA
1 TAA
25305220 CTTTCTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (27 bp):
TAATAATGATTAAAGAATGTTGAAATT
Found at i:25310068 original size:3 final size:3
Alignment explanation
Indices: 25310060--25310118 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
25310050 ATGAGTGGAC
* *
25310060 AAT AAT AAT GAT AAT AGAT AA- AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25310105 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
25310119 ATGTATATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:25310314 original size:4 final size:4
Alignment explanation
Indices: 25310305--25310412 Score: 53
Period size: 4 Copynumber: 27.0 Consensus size: 4
25310295 AAATAAAAGG
* * * * * *
25310305 TAAA TAAA TAAA TTAA T-GA TATA TGAA TAAA TAAG TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * * * *
25310352 TGAG TAAAA TGAAA -AGAA T-AA TGAA TAAA T-AA TCAAG TAAA TAAG
1 TAAA T-AAA T-AAA TA-AA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA
25310397 TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA
25310413 AGGATTAAAG
Statistics
Matches: 77, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
3 9 0.12
4 61 0.79
5 7 0.09
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:25311889 original size:12 final size:13
Alignment explanation
Indices: 25311874--25311907 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
25311864 TTGTTTAATG
25311874 TTATTTTTA-TTT
1 TTATTTTTAGTTT
25311886 TTATTTTTAGTTTT
1 TTATTTTTAG-TTT
25311900 TTATTTTT
1 TTATTTTT
25311908 TGGTTTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
14 11 0.55
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (13 bp):
TTATTTTTAGTTT
Found at i:25311908 original size:7 final size:6
Alignment explanation
Indices: 25311874--25311907 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
25311864 TTGTTTAATG
25311874 TTATTT TTATTT TTATTT TTAGTTTT TTATTT TT
1 TTATTT TTATTT TTATTT TTA--TTT TTATTT TT
25311908 TGGTTTTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:25311914 original size:14 final size:14
Alignment explanation
Indices: 25311874--25311914 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
25311864 TTGTTTAATG
25311874 TTATTTTTA--TTT
1 TTATTTTTAGGTTT
*
25311886 TTATTTTTAGTTTT
1 TTATTTTTAGGTTT
*
25311900 TTATTTTTTGGTTT
1 TTATTTTTAGGTTT
25311914 T
1 T
25311915 GGGCCCAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 9 0.36
14 16 0.64
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (14 bp):
TTATTTTTAGGTTT
Found at i:25314056 original size:18 final size:18
Alignment explanation
Indices: 25314010--25314059 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 18
25314000 CCTTTTAAAC
25314010 TATAATA-TTATTA-TAA
1 TATAATATTTATTATTAA
*
25314026 TA-AAT-TTTA-TATTTA
1 TATAATATTTATTATTAA
25314041 TATAATATTTATTATTAA
1 TATAATATTTATTATTAA
25314059 T
1 T
25314060 TCATTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 5 0.19
17 4 0.15
18 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATAATATTTATTATTAA
Found at i:25323906 original size:6 final size:6
Alignment explanation
Indices: 25323897--25323926 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
25323887 TTATAAAGGC
25323897 ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT
1 ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT
25323927 TTTTTTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
ATTGTT
Found at i:25329650 original size:10 final size:10
Alignment explanation
Indices: 25329635--25329663 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
25329625 CAATTTAATT
25329635 TTTTTCTTTA
1 TTTTTCTTTA
25329645 TTTTTCTTTA
1 TTTTTCTTTA
25329655 TTTTTCTTT
1 TTTTTCTTT
25329664 CTCTTCTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:25329912 original size:17 final size:17
Alignment explanation
Indices: 25329890--25329922 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25329880 GAAGAAAAGG
25329890 AAAATAAAAAAATAAAA
1 AAAATAAAAAAATAAAA
*
25329907 AAAATAAAAAATTAAA
1 AAAATAAAAAAATAAA
25329923 TTATTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAAATAAAA
Found at i:25329950 original size:122 final size:125
Alignment explanation
Indices: 25329750--25329982 Score: 427
Period size: 122 Copynumber: 1.9 Consensus size: 125
25329740 AAACTAAAAG
25329750 GGAAGAAGAAAAGGAAAATAAAAAAATAAAAATAAAAATAAAAAATTAAATTATTCAAAAAAAAA
1 GGAAGAAGAAAAGGAAAATAAAAAAAT-AAAATAAAAATAAAAAATTAAATTATTCAAAAAAAAA
*
25329815 TAAAAGTATAGGGATTAGTTTTAACAAATGAAAAACATAGAAAAATTAAGTTAAAAGAGAT
65 TAAAAATATAGGGATTAGTTTTAACAAATGAAAAACATAGAAAAATTAAGTTAAAAGAGAT
25329876 GGAAGAAGAAAAGGAAAATAAAAAAAT-AAA-AAAAATAAAAAATTAAATTATTC-AAAAAAAAT
1 GGAAGAAGAAAAGGAAAATAAAAAAATAAAATAAAAATAAAAAATTAAATTATTCAAAAAAAAAT
25329938 AAAAATATAGGGATTAGTTTTAACAAATGAAAAACATAGAAAAAT
66 AAAAATATAGGGATTAGTTTTAACAAATGAAAAACATAGAAAAAT
25329983 AAAAGGGAGG
Statistics
Matches: 106, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
122 53 0.50
123 23 0.22
124 3 0.03
126 27 0.25
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.20
Consensus pattern (125 bp):
GGAAGAAGAAAAGGAAAATAAAAAAATAAAATAAAAATAAAAAATTAAATTATTCAAAAAAAAAT
AAAAATATAGGGATTAGTTTTAACAAATGAAAAACATAGAAAAATTAAGTTAAAAGAGAT
Found at i:25330077 original size:15 final size:15
Alignment explanation
Indices: 25330035--25330080 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
25330025 ATAAAGAAAA
25330035 AAAAGAAAGA-AAATT
1 AAAAGAAA-ATAAATT
*
25330050 AAAAGAACATAAATT
1 AAAAGAAAATAAATT
25330065 AAAA-AAAATTAAATT
1 AAAAGAAAA-TAAATT
25330080 A
1 A
25330081 CTCAAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAAGAAAATAAATT
Found at i:25331682 original size:22 final size:24
Alignment explanation
Indices: 25331657--25331706 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
25331647 AACCAATCAC
*
25331657 TTTTCATGAA-TTATTATAA-TTT
1 TTTTCATAAATTTATTATAAGTTT
* *
25331679 TTTTTATAAATTTATTTTAAGTTT
1 TTTTCATAAATTTATTATAAGTTT
25331703 TTTT
1 TTTT
25331707 ACCCCAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 7 0.30
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTCATAAATTTATTATAAGTTT
Found at i:25340471 original size:19 final size:17
Alignment explanation
Indices: 25340447--25340493 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
25340437 AATTAAAGTA
*
25340447 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
25340466 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
25340483 AT-AAAAATATA
1 ATAAAAAATATA
25340494 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:25340489 original size:18 final size:19
Alignment explanation
Indices: 25340450--25340498 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
25340440 TAAAGTAATA
*
25340450 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
25340468 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
25340485 AAAAATATACACTA
1 AAAAATATATACTA
25340499 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:25340725 original size:3 final size:3
Alignment explanation
Indices: 25340712--25340797 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
25340702 GAGGGCATAT
25340712 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
25340756 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25340798 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 13 0.19
3 46 0.68
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:25340738 original size:18 final size:18
Alignment explanation
Indices: 25340717--25340797 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
25340707 CATATATAAT
25340717 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* *
25340735 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-ATAAAAA
*
25340756 ATAATAATAATATAAATA
1 ATAATAATAATATAAAAA
*
25340774 ATAGTAA-AA-ATAATAAA
1 ATAATAATAATATAA-AAA
25340791 ATAATAA
1 ATAATAA
25340798 AACAAAGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 18 0.34
19 5 0.09
20 5 0.09
21 11 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:25341163 original size:23 final size:23
Alignment explanation
Indices: 25341128--25341200 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
25341118 CATTTTTTAC
*
25341128 AAAAAAA-CACCTCCAAAAAACA
1 AAAAAAACCTCCTCCAAAAAACA
25341150 AAAAAAACCTCCTCC--AAAACA
1 AAAAAAACCTCCTCCAAAAAACA
* *
25341171 AAGAACAATCCTTCTCCAAAAAAACA
1 AA-AA-AAACCTCCTCC-AAAAAACA
25341197 AAAA
1 AAAA
25341201 CCCACCTCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
21 8 0.19
22 9 0.21
23 15 0.36
25 2 0.05
26 8 0.19
ACGTcount: A:0.62, C:0.27, G:0.01, T:0.10
Consensus pattern (23 bp):
AAAAAAACCTCCTCCAAAAAACA
Found at i:25341704 original size:40 final size:40
Alignment explanation
Indices: 25341660--25341811 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
25341650 GTGTTTTTAG
*
25341660 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* * * * ***
25341700 TCTGCTTCACTATTGCTTAGGGAAATAAGATCTGTGGTTTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGCGA
*
25341742 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
*
25341782 TCTACTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
25341812 TTGTAATCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
40 58 0.62
41 4 0.04
42 31 0.33
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:25341751 original size:82 final size:83
Alignment explanation
Indices: 25341644--25341812 Score: 259
Period size: 82 Copynumber: 2.0 Consensus size: 83
25341634 CATGGGGATG
* * * * *
25341644 AGATTTGTGTTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTTCA
1 AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
*
25341709 CTATTGCTTAGGGAAATA
66 CTACTGCTTAGGGAAATA
*
25341727 AGATCTGTGGTTTTA-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCA
1 AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
*
25341791 CTACTGCTTAGGGAGATA
66 CTACTGCTTAGGGAAATA
25341809 AGAT
1 AGAT
25341813 TGTAATCTTC
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 65 0.83
83 13 0.17
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (83 bp):
AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
CTACTGCTTAGGGAAATA
Found at i:25342154 original size:46 final size:45
Alignment explanation
Indices: 25341972--25342162 Score: 120
Period size: 46 Copynumber: 4.2 Consensus size: 45
25341962 CCACTTCCTA
* *
25341972 CCAATATAGGAAGGCAGGATCTGCAATCTTCAATCTATTCCACTG
1 CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
* ** * * ** * *
25342017 CCAGATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCACTG
1 CCA-ATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCACTG
* * * * * * * * *
25342062 -TAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CGCTG
1 CCAAT-ACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCACTG
25342107 CCTAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
1 CC-AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
25342153 CCAGATACAG
1 CCA-ATACAG
25342163 TGAGATAGAG
Statistics
Matches: 103, Mismatches: 33, Indels: 19
0.66 0.21 0.12
Matches are distributed among these distances:
43 4 0.04
44 12 0.12
45 33 0.32
46 49 0.48
47 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (45 bp):
CCAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTG
Found at i:25342276 original size:134 final size:135
Alignment explanation
Indices: 25341974--25342278 Score: 540
Period size: 136 Copynumber: 2.3 Consensus size: 135
25341964 ACTTCCTACC
* *
25341974 AATATAGGAAGGCAGGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
25342039 ATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
66 ATCGGCTTCAATGTACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
*
25342104 CTGCCT
130 CTGCCA
*
25342110 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGTGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
* *
25342175 ATCGGCTTCAATGTACTCCACTGTGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGC
66 ATCGGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGC
25342239 TGCCA
131 TGCCA
25342244 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
25342279 CTTCACCACC
Statistics
Matches: 163, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
134 75 0.46
136 88 0.54
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (135 bp):
AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
ATCGGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGC
TGCCA
Found at i:25342359 original size:44 final size:45
Alignment explanation
Indices: 25342214--25342791 Score: 430
Period size: 44 Copynumber: 13.1 Consensus size: 45
25342204 GGGAGGTAAA
* * * * * * *
25342214 ATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTGGATCTACTTCACTACC-AATATAGGAAGACAAG
* ** * * *
25342260 ATCTGCAATCTTCAATCTACTTCACCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
25342305 ATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
25342348 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
25342392 ATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTG-GATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
25342437 ATCTGC-ATATTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
25342480 ACCTGCTATCTTCGATCTACTTCAC-ACCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
25342524 ATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTG-GATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
25342569 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGAAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
25342612 ATCTGCTACCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
25342656 ATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTG-GATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
25342701 CTCTGC-ATCCTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
25342744 ACCTGCTATCTTCGATCTGCTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
25342788 ATCT
1 ATCT
25342792 ACTTTAATGA
Statistics
Matches: 409, Mismatches: 106, Indels: 36
0.74 0.19 0.07
Matches are distributed among these distances:
43 86 0.21
44 211 0.52
45 90 0.22
46 22 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
ATCTGCTATCTTGGATCTACTTCACTACCAATATAGGAAGACAAG
Found at i:25342481 original size:132 final size:132
Alignment explanation
Indices: 25342216--25342796 Score: 937
Period size: 132 Copynumber: 4.4 Consensus size: 132
25342206 GAGGTAAAAT
* * * * * * ** * *
25342216 CTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACT
1 CTGCTATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACT
* *
25342281 TCACCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATA
64 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATA
25342346 GGAC
129 GGAC
25342350 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
*
25342415 GCCACCAATATGGGAAGACAAGATCTGCATATTGGATCCACTTCCTATCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
25342480 AC
131 AC
*
25342482 CTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* * *
25342547 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
*
25342612 AT
131 AC
*
25342614 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* *
25342679 GCCACCAATATGGGAAGACAAGCTCTGCATCCTGGATCCACTTCCTATCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
25342744 AC
131 AC
* *
25342746 CTGCTATCTTCGATCTGCTTCACGCCAATACATGAAGACAAGATCTACTTT
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
25342797 AATGACTTCA
Statistics
Matches: 417, Mismatches: 30, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 395 0.95
133 3 0.01
134 19 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
AC
Found at i:25354917 original size:12 final size:12
Alignment explanation
Indices: 25354902--25354931 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25354892 ACAATAATAC
25354902 TATATATAAATG
1 TATATATAAATG
*
25354914 TATATATATATG
1 TATATATAAATG
25354926 TATATA
1 TATATA
25354932 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:25355037 original size:19 final size:17
Alignment explanation
Indices: 25355013--25355059 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
25355003 AATTAAAGTA
*
25355013 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
25355032 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
25355049 AT-AAAAATATA
1 ATAAAAAATATA
25355060 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:25355055 original size:18 final size:19
Alignment explanation
Indices: 25355016--25355064 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
25355006 TAAAGTAATA
*
25355016 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
25355034 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
25355051 AAAAATATACACTA
1 AAAAATATATACTA
25355065 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:25355291 original size:3 final size:3
Alignment explanation
Indices: 25355278--25355363 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
25355268 GAGGGCATAT
25355278 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
25355322 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25355364 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 13 0.19
3 46 0.68
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:25355304 original size:18 final size:18
Alignment explanation
Indices: 25355283--25355363 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
25355273 CATATATAAT
25355283 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* *
25355301 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-ATAAAAA
*
25355322 ATAATAATAATATAAATA
1 ATAATAATAATATAAAAA
*
25355340 ATAGTAA-AA-ATAATAAA
1 ATAATAATAATATAA-AAA
25355357 ATAATAA
1 ATAATAA
25355364 AACAAAGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 18 0.34
19 5 0.09
20 5 0.09
21 11 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:25355728 original size:23 final size:23
Alignment explanation
Indices: 25355693--25355764 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
25355683 CCTTTTTTAC
*
25355693 AAAAAAA-CACCTCCAAAAAACA
1 AAAAAAACCTCCTCCAAAAAACA
25355715 AAAAAAACCTCCTCC--AAAACA
1 AAAAAAACCTCCTCCAAAAAACA
* *
25355736 AAGAACAATCCTTCTCCAAAAAACA
1 AA-AA-AAACCTCCTCCAAAAAACA
25355761 AAAA
1 AAAA
25355765 CCCACCTCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 8 0.19
22 9 0.21
23 15 0.36
24 2 0.05
25 8 0.19
ACGTcount: A:0.61, C:0.28, G:0.01, T:0.10
Consensus pattern (23 bp):
AAAAAAACCTCCTCCAAAAAACA
Found at i:25355733 original size:21 final size:21
Alignment explanation
Indices: 25355691--25355766 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
25355681 AACCTTTTTT
**
25355691 ACAAAAAAACACCTCC-AAAAA
1 ACAAAAAAA-ACCTCCTCCAAA
25355712 ACAAAAAAAACCTCCTCCAAA
1 ACAAAAAAAACCTCCTCCAAA
* *
25355733 ACAAAGAACAATCCTTCTCCAAA
1 ACAAA-AA-AAACCTCCTCCAAA
*
25355756 A-AACAAAAACC
1 ACAAAAAAAACC
25355767 CACCTCTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 10 0.22
21 19 0.41
22 4 0.09
23 13 0.28
ACGTcount: A:0.59, C:0.30, G:0.01, T:0.09
Consensus pattern (21 bp):
ACAAAAAAAACCTCCTCCAAA
Found at i:25360063 original size:22 final size:25
Alignment explanation
Indices: 25360017--25360072 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 25
25360007 TAGAATTTTA
*
25360017 AATCTATATAATATTTTATTATATT
1 AATCTATATAATATTGTATTATATT
25360042 AATCTA-A-AATATTGTA-TATATT
1 AATCTATATAATATTGTATTATATT
*
25360064 AATATATAT
1 AATCTATAT
25360073 TTAGCAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 1 0.04
25 6 0.22
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
AATCTATATAATATTGTATTATATT
Found at i:25363021 original size:14 final size:14
Alignment explanation
Indices: 25363001--25363033 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25362991 ATGAGTGAAT
25363001 GGAAGCCAT-TTTG
1 GGAAGCCATGTTTG
25363014 GTGAAGCCATGTTTG
1 G-GAAGCCATGTTTG
25363029 GGAAG
1 GGAAG
25363034 GTCTGCTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 12 0.67
15 5 0.28
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (14 bp):
GGAAGCCATGTTTG
Found at i:25367008 original size:31 final size:30
Alignment explanation
Indices: 25366964--25367079 Score: 107
Period size: 31 Copynumber: 3.9 Consensus size: 30
25366954 ATCAACTTAA
* *
25366964 GAAAAAAGTCAAGTTTAGGTACCATATTAG
1 GAAAAATGTCAAGTTTAGGTACCAAATTAG
25366994 GAAAAAGTGTCAAGTTT-GAGTACCAAATT-G
1 GAAAAA-TGTCAAGTTTAG-GTACCAAATTAG
* *
25367024 GATAAAA---CAAATTTAGATACCAAATTAG
1 GA-AAAATGTCAAGTTTAGGTACCAAATTAG
* *
25367052 GAAAAAATGTCAAGTTCAGGTACAAAAT
1 G-AAAAATGTCAAGTTTAGGTACCAAAT
25367080 ATTATATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
27 15 0.22
28 7 0.10
29 1 0.01
30 10 0.14
31 36 0.52
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (30 bp):
GAAAAATGTCAAGTTTAGGTACCAAATTAG
Found at i:25368064 original size:30 final size:29
Alignment explanation
Indices: 25368028--25368084 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
25368018 AGGAGAAGAA
* *
25368028 GTTGTGTTTGGGTTTTGAGAAAAAATTAGG
1 GTTGTGTTTAGGATTTGA-AAAAAATTAGG
25368058 GTTGTGTTTAGGATTTGAAAAAAATTA
1 GTTGTGTTTAGGATTTGAAAAAAATTA
25368085 ATTAAGAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (29 bp):
GTTGTGTTTAGGATTTGAAAAAAATTAGG
Found at i:25368418 original size:49 final size:49
Alignment explanation
Indices: 25368363--25368530 Score: 300
Period size: 49 Copynumber: 3.4 Consensus size: 49
25368353 GAAAGAATGT
*
25368363 TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTACTAGA
1 TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
*
25368412 TTTATTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGA
1 TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
*
25368461 TTTAATTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
1 TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
25368510 TTTATTTTTTTATGTAATTTA
1 TTTA-TTTTTTATGTAATTTA
25368531 CTTGGCATGT
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 98 0.87
50 15 0.13
ACGTcount: A:0.23, C:0.02, G:0.14, T:0.61
Consensus pattern (49 bp):
TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
Found at i:25368568 original size:98 final size:98
Alignment explanation
Indices: 25368366--25368574 Score: 291
Period size: 98 Copynumber: 2.1 Consensus size: 98
25368356 AGAATGTTTT
25368366 ATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTACTAGATTTATTTTTTATGTAATTT
1 ATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTACTAGATTTATTTTTTATGTAATTT
* * *
25368431 ATTTGTCATGTGTGTTTTAGGTTTATTAGATTTA
66 ACTTGGCATGTGTGTTTTA-GTTTATTAGATATA
*
25368465 A-TTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGATTTATTTTTTTATGTAATT
1 ATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTACTAGATTTA-TTTTTTATGTAATT
* *
25368529 TACTTGGCATGT-TATTTTTA-TTATTTTA-ATATA
65 TACTTGGCATGTGT-GTTTTAGTT-TATTAGATATA
25368562 ATTTTTTTATGTA
1 A-TTTTTTATGTA
25368575 GATAAAAGAT
Statistics
Matches: 99, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
97 7 0.07
98 52 0.53
99 40 0.40
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.61
Consensus pattern (98 bp):
ATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTACTAGATTTATTTTTTATGTAATTT
ACTTGGCATGTGTGTTTTAGTTTATTAGATATA
Found at i:25368628 original size:27 final size:27
Alignment explanation
Indices: 25368587--25368659 Score: 137
Period size: 27 Copynumber: 2.7 Consensus size: 27
25368577 TAAAAGATGA
*
25368587 GACCATTGAGATGGAATTTGTGAATGG
1 GACCATTGAGTTGGAATTTGTGAATGG
25368614 GACCATTGAGTTGGAATTTGTGAATGG
1 GACCATTGAGTTGGAATTTGTGAATGG
25368641 GACCATTGAGTTGGAATTT
1 GACCATTGAGTTGGAATTT
25368660 ACGAGATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.08, G:0.32, T:0.33
Consensus pattern (27 bp):
GACCATTGAGTTGGAATTTGTGAATGG
Found at i:25370199 original size:14 final size:14
Alignment explanation
Indices: 25370180--25370214 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
25370170 TATATATATT
*
25370180 TTCTAATGATACTA
1 TTCTAACGATACTA
25370194 TTCTAACGATACTA
1 TTCTAACGATACTA
25370208 TTCTAAC
1 TTCTAAC
25370215 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:25370873 original size:33 final size:33
Alignment explanation
Indices: 25370822--25370917 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
25370812 CAGTCTAGTA
**
25370822 CCACCGCAGTACAACACTCCTCCAGGC-CTATAT
1 CCACCGCAGTACTCCACTCCTCCAGGCTC-ATAT
* * *
25370855 CCACCGCATTACTCCACTCCTCCCGGCTCGTAT
1 CCACCGCAGTACTCCACTCCTCCAGGCTCATAT
* *
25370888 CCACCACAGTACTCCACTCCTCCCGGCTCA
1 CCACCGCAGTACTCCACTCCTCCAGGCTCA
25370918 AGTTCATCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.21, C:0.48, G:0.11, T:0.20
Consensus pattern (33 bp):
CCACCGCAGTACTCCACTCCTCCAGGCTCATAT
Found at i:25371292 original size:48 final size:48
Alignment explanation
Indices: 25371193--25371332 Score: 210
Period size: 48 Copynumber: 2.9 Consensus size: 48
25371183 TAATTGAAAT
**
25371193 ATTAAAACTTGGAACAAACTTTGTGGTCATAAATTAGATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTAGATACATTACAAC
25371242 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
* * *
25371290 ATTAAAACGAT-GAACAAACTTTGTAATTTAAATTAGGTACATT
1 ATTAAAAC-TTGGAACAAACTTTGTAATATAAATTAGATACATT
25371333 GGATTACATA
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
48 59 0.69
49 26 0.31
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (48 bp):
ATTAAAACTTGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
Found at i:25373246 original size:30 final size:30
Alignment explanation
Indices: 25373195--25373251 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
25373185 ATTTTCGAGC
* *
25373195 ATAGGGGTAAAATGATCATTTTGCCAAGGT
1 ATAGGGGCAAAATGATCATTTTACCAAGGT
* *
25373225 ATAGGGGCAAAATGGTTATTTTACCAA
1 ATAGGGGCAAAATGATCATTTTACCAA
25373252 AGTTGAGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (30 bp):
ATAGGGGCAAAATGATCATTTTACCAAGGT
Found at i:25373665 original size:47 final size:47
Alignment explanation
Indices: 25373596--25373858 Score: 164
Period size: 47 Copynumber: 5.6 Consensus size: 47
25373586 TTTGTGCGCT
* * * **
25373596 AGTGTAAGACATGTTTGAGACATGCTTCGGCCACA-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGAGCC
* *
25373642 AGTGTAAGACCATGTCTGGGACATGGCATC-GACACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAGAGATGAGAGCC
* *
25373690 AGAGTAAGGCATGTCTGGGACATGCATCGGCATCGACAGAGAT---AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC--C-ACAGAGATGAGAGCC
** * ** * ** * * *
25373737 AGTGTAAGATGTGTCTAGGACACACATCAGTTA-AGAG-T-TGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGAGCC
* ** * * *
25373781 AGTGTAAGACATGTCTAGGACATGCATTAGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CACAGAGATGAGAGCC
25373829 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
25373859 TGCAATTTAT
Statistics
Matches: 164, Mismatches: 38, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 28 0.17
46 16 0.10
47 58 0.35
48 31 0.19
49 14 0.09
50 12 0.07
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGAGCC
Found at i:25377304 original size:54 final size:54
Alignment explanation
Indices: 25377222--25377384 Score: 317
Period size: 54 Copynumber: 3.0 Consensus size: 54
25377212 ACCGAGTTAC
25377222 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
1 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
*
25377276 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAAGACGGGTCAATGAGG
1 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
25377330 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
1 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
25377384 T
1 T
25377385 TATGTATCGA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.25
Consensus pattern (54 bp):
TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
Found at i:25380135 original size:27 final size:27
Alignment explanation
Indices: 25380092--25380191 Score: 146
Period size: 27 Copynumber: 3.7 Consensus size: 27
25380082 TTTAATAGTA
*
25380092 GTGCTGCCTATTAGATAGGGGTCACTG
1 GTGCCGCCTATTAGATAGGGGTCACTG
* *
25380119 GTGTCGCCTATTAGATAGGGGTCATTG
1 GTGCCGCCTATTAGATAGGGGTCACTG
*
25380146 GTGCCGTCTATTAGATAGGGGTCACTG
1 GTGCCGCCTATTAGATAGGGGTCACTG
* *
25380173 GTGCCGCATATCAGATAGG
1 GTGCCGCCTATTAGATAGG
25380192 CACCACCCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (27 bp):
GTGCCGCCTATTAGATAGGGGTCACTG
Found at i:25384992 original size:28 final size:28
Alignment explanation
Indices: 25384952--25385030 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
25384942 GCAATCAAAT
* * *
25384952 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
25384980 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
25385008 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
25385031 CAAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:25385250 original size:43 final size:43
Alignment explanation
Indices: 25385142--25385270 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 43
25385132 TTTATAATGG
* * * *
25385142 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
* *
25385187 T-ATTATAGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
25385230 TGATATCGGGCTTCAAGCCTAGCAGGC-AAAATGCCGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
25385271 TGAGTTTAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
42 13 0.18
43 24 0.34
44 25 0.35
45 9 0.13
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:25391850 original size:28 final size:28
Alignment explanation
Indices: 25391805--25391878 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
25391795 CAAATATGGT
*
25391805 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTGCGAAATATTGAGAATGAC
* *
25391833 ATTTAGTGTGCGAGATATTGAGAATGAC
1 ACTTAGTGTGCGAAATATTGAGAATGAC
*
25391861 ACTTAGTGTGCAAAATAT
1 ACTTAGTGTGCGAAATAT
25391879 CAAATGATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.31
Consensus pattern (28 bp):
ACTTAGTGTGCGAAATATTGAGAATGAC
Found at i:25392198 original size:40 final size:40
Alignment explanation
Indices: 25392054--25392197 Score: 137
Period size: 41 Copynumber: 3.5 Consensus size: 40
25392044 GCTTCGGGCC
*
25392054 AGCAGGCTATAATGCCGGTGAAATGATATTGGGCTTCAAGCCT
1 AGCAGGCTA-AATGCCGGTG-AATGA-ATTGGGCTTAAAGCCT
* * * * *
25392097 AGCAGGCGAAATGCCGGTGAATGAGTTTAGACTTAAAGTCT
1 AGCAGGCTAAATGCCGGTGAATGA-ATTGGGCTTAAAGCCT
*** * *
25392138 AGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAAACCT
1 AGCAGGCTAAATGCCGGTGAATGAATT-GGGCTTAAAGCCT
25392178 AGCAGGCTAAATGCCGGTGA
1 AGCAGGCTAAATGCCGGTGA
25392198 TTTGATAAAA
Statistics
Matches: 79, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
39 2 0.03
40 28 0.35
41 31 0.39
42 10 0.13
43 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (40 bp):
AGCAGGCTAAATGCCGGTGAATGAATTGGGCTTAAAGCCT
Found at i:25403337 original size:12 final size:12
Alignment explanation
Indices: 25403320--25403346 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25403310 GGTGGAATGG
25403320 TATGAAAAGTGA
1 TATGAAAAGTGA
25403332 TATGAAAAGTGA
1 TATGAAAAGTGA
25403344 TAT
1 TAT
25403347 CTCAGAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (12 bp):
TATGAAAAGTGA
Found at i:25406817 original size:13 final size:13
Alignment explanation
Indices: 25406799--25406824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25406789 ATTGGAAATG
25406799 CTTTAGCCAAACA
1 CTTTAGCCAAACA
25406812 CTTTAGCCAAACA
1 CTTTAGCCAAACA
25406825 TCGATACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
CTTTAGCCAAACA
Found at i:25413170 original size:27 final size:27
Alignment explanation
Indices: 25413140--25413560 Score: 574
Period size: 27 Copynumber: 15.6 Consensus size: 27
25413130 TTACTTTACC
25413140 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
25413167 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
25413194 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
25413221 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
25413248 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
25413275 AAATTACTAGAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
25413302 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
25413329 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
25413356 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
25413383 AAATTACCAAAATACTCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
25413410 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
25413437 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
25413464 AAATTACCAAAATA-CCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
25413490 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
25413517 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
25413544 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
25413561 TCGACCTGTA
Statistics
Matches: 345, Mismatches: 48, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 25 0.07
27 320 0.93
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:25413277 original size:81 final size:81
Alignment explanation
Indices: 25413140--25413616 Score: 614
Period size: 81 Copynumber: 5.9 Consensus size: 81
25413130 TTACTTTACC
* * * * *
25413140 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
25413205 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTGTA
** * *
25413221 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAGA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
* * *
25413286 ATACCCTTAGTTTATA
66 ATACCCCTGGTTTGTA
* * * *
25413302 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
25413367 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTGTA
* **
25413383 AAATTACCAAAATACTCTTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
25413448 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTGTA
* * *
25413464 AAATTACCAAAATACCC-TGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
* *
25413528 ATACCCCTGATTTGTG
66 ATACCCCTGGTTTGTA
** * *** *** * **
25413544 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
*
25413609 GTACCCCT
66 ATACCCCT
25413617 AATTTACAGA
Statistics
Matches: 343, Mismatches: 52, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 71 0.21
81 272 0.79
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCCCTGGTTTGTA
Found at i:25413576 original size:54 final size:54
Alignment explanation
Indices: 25413140--25413561 Score: 632
Period size: 54 Copynumber: 7.8 Consensus size: 54
25413130 TTACTTTACC
*
25413140 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
25413194 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
25413248 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAGAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
25413302 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
25413356 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
25413410 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
25413464 AAATTACCAAAATA-CCCTGGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
* * *
25413517 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
25413562 CGACCTGTAA
Statistics
Matches: 335, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 49 0.15
54 285 0.85
55 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:25413613 original size:27 final size:27
Alignment explanation
Indices: 25413140--25413614 Score: 489
Period size: 27 Copynumber: 17.6 Consensus size: 27
25413130 TTACTTTACC
25413140 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * * *
25413167 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
25413194 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* **
25413221 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
25413248 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * ** *
25413275 AAATTACTAGAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
25413302 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * *
25413329 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
25413356 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * **
25413383 AAATTACCAAAATACTCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
25413410 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
25413437 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
25413464 AAATTACCAAAATACCCT-GGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* *
25413490 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
25413517 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GGTTTGTA
** ***
25413544 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*** **
25413571 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
25413598 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
25413615 CTAATTTACA
Statistics
Matches: 379, Mismatches: 57, Indels: 24
0.82 0.12 0.05
Matches are distributed among these distances:
26 24 0.06
27 354 0.93
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:25413641 original size:81 final size:82
Alignment explanation
Indices: 25413409--25413669 Score: 219
Period size: 81 Copynumber: 3.2 Consensus size: 82
25413399 CTTGGTTTAC
* * * * ** *
25413409 AAAATTACCAAAATACCCTTG-GTTTGTAAAATTACCAAAATACCCCTGGTTTGTA-AAATTACC
1 AAAATTATCGAAATACCCTCGAGCTTGTAAAATTACCAAAATACCCCTAATTT-CAGAAATTACC
* ***
25413472 AAAATACCCT-GGTTTGT
65 GAAATACCCTCGACCTGT
* * * * ** *
25413489 AAAATTATCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTG
1 AAAATTATCGAAATACCCTCGAGCTTGTAAAATTACCAAAATACCCCTAATTTCAGAAATTACCG
25413553 AAATACCCTCGACCTGT
66 AAATACCCTCGACCTGT
* *
25413570 AAAATTATTGAAATACCCTCGA-CTTGTAAAATTACCAAAGTACCCCTAATTTACAG-AATTACC
1 AAAATTATCGAAATACCCTCGAGCTTGTAAAATTACCAAAATACCCCTAATTT-CAGAAATTACC
*** ** **
25413633 GTTTTACCCTCGATTTAC
65 GAAATACCCTCGACCTGT
25413651 AAAATTATCGAAATACCCT
1 AAAATTATCGAAATACCCT
25413670 TGTAGGGTAG
Statistics
Matches: 148, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
80 63 0.43
81 82 0.55
82 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (82 bp):
AAAATTATCGAAATACCCTCGAGCTTGTAAAATTACCAAAATACCCCTAATTTCAGAAATTACCG
AAATACCCTCGACCTGT
Found at i:25413689 original size:27 final size:27
Alignment explanation
Indices: 25413659--25413898 Score: 295
Period size: 27 Copynumber: 8.9 Consensus size: 27
25413649 ACAAAATTAT
*
25413659 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
**
25413686 CGAAATACCTTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
25413713 CGAAATACCCCTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
*
25413740 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
** * * *
25413767 TAAAATACCCCTGTAAGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAAATAC
* *
25413794 CGAAATACCCTTGTAGGGTAGAAATAA
1 CGAAATACCCCTGTAGGGTAGAAATAC
* * *
25413821 TGAAATATCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
*
25413848 TGAAATACCCCTGTAGGGTA-AAATTAC
1 CGAAATACCCCTGTAGGGTAGAAA-TAC
* * *
25413875 CGAGATACCCTTGTGGGGTA-AAAT
1 CGAAATACCCCTGTAGGGTAGAAAT
25413899 TACCATTTTA
Statistics
Matches: 187, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 3 0.02
27 184 0.98
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAAATAC
Found at i:25414424 original size:6 final size:6
Alignment explanation
Indices: 25414415--25414595 Score: 122
Period size: 6 Copynumber: 29.3 Consensus size: 6
25414405 TTGCATTCAC
* *
25414415 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
25414465 ATTTTG ATTCTG GTTTTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
25414514 ATTCTG -TTACCTA ATTCTG ATTTTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
25414564 ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
25414596 AATGTTTCTT
Statistics
Matches: 140, Mismatches: 18, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
5 10 0.07
6 109 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:25414446 original size:19 final size:19
Alignment explanation
Indices: 25414443--25414575 Score: 94
Period size: 19 Copynumber: 6.8 Consensus size: 19
25414433 TTACCTGATA
25414443 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
* *
25414462 CTAATTTTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
*
25414480 TTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
25414500 TGATACTGATTCTGATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
* *
25414524 CTAATTCTGATTTTGATT--
1 CTGATTCTGATTCTG-TTAC
* * *
25414542 TTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
25414561 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
25414576 ATTCTGATTC
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
17 4 0.05
18 22 0.25
19 38 0.44
20 5 0.06
24 1 0.01
25 17 0.20
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.50
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:25414472 original size:25 final size:25
Alignment explanation
Indices: 25414418--25414476 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
25414408 CATTCACATT
*
25414418 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
25414443 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
25414468 TTGATTCTG
1 CTGATTCTG
25414477 GTTTTGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:25414515 original size:25 final size:25
Alignment explanation
Indices: 25414481--25414541 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
25414471 ATTCTGGTTT
*
25414481 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTAATAC
*
25414506 TGATTCTGATTCTGTTACCTAATTC
1 TGATTCTGATTCTGTTACCTAATAC
*
25414531 TGATTTTGATT
1 TGATTCTGATT
25414542 TTGATTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCTAATAC
Found at i:25414516 original size:62 final size:62
Alignment explanation
Indices: 25414419--25414581 Score: 272
Period size: 62 Copynumber: 2.6 Consensus size: 62
25414409 ATTCACATTC
* *
25414419 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTCTGGTTT
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTT
*
25414481 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTT
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTT
* * *
25414543 TGATTTTGATTCTGTCACCTGATTCTGATTCTGATTCTG
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG
25414582 ATTCTAGTTC
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.50
Consensus pattern (62 bp):
TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTT
Found at i:25414593 original size:37 final size:37
Alignment explanation
Indices: 25414486--25414586 Score: 123
Period size: 37 Copynumber: 2.7 Consensus size: 37
25414476 GGTTTTGATT
* *
25414486 CTGATTCTG-TTACCTGATACTGATTCTGATTCTGTTAC
1 CTGATTCTGATT--CTGATTCTGATTCTGATTCTGTCAC
* * * *
25414524 CTAATTCTGATTTTGATTTTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGTCAC
25414561 CTGATTCTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCTGATTCT
25414587 AGTTCTGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
37 42 0.81
38 8 0.15
39 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGATTCTGATTCTGTCAC
Found at i:25418784 original size:2 final size:2
Alignment explanation
Indices: 25418777--25418865 Score: 151
Period size: 2 Copynumber: 44.5 Consensus size: 2
25418767 GAACATGTAT
* * *
25418777 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AG AC AG AC AG AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
25418819 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
25418861 AC AC A
1 AC AC A
25418866 TATATATATG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.46, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25420355 original size:40 final size:40
Alignment explanation
Indices: 25420172--25420341 Score: 252
Period size: 40 Copynumber: 4.3 Consensus size: 40
25420162 TCCTCGTTCA
* * * ** *
25420172 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
25420211 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
25420251 AATGCCTTCGGGACTTAACTCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
25420291 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
25420331 AATGCCTTCGG
1 AATGCCTTCGG
25420342 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 34 0.28
40 87 0.72
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:25420355 original size:80 final size:80
Alignment explanation
Indices: 25420202--25420394 Score: 241
Period size: 80 Copynumber: 2.4 Consensus size: 80
25420192 CGGTTTTAGT
* *
25420202 AACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
*
25420267 AACTCGGATTTA-AC
66 AACTCGGATATATAC
*
25420281 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGATC
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGA-C
* *
25420345 TT-AGTCCGGATATATTC
64 TTAACT-CGGATATATAC
* * *
25420362 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
25420395 CAGCATTCAA
Statistics
Matches: 100, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
79 13 0.13
80 81 0.81
81 6 0.06
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACTCGGATATATAC
Found at i:25420386 original size:120 final size:119
Alignment explanation
Indices: 25420172--25420387 Score: 267
Period size: 120 Copynumber: 1.8 Consensus size: 119
25420162 TCCTCGTTCA
* * * *
25420172 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATA
* *
25420237 TAACAACTCGCACGAATGCCTTCGGGACTTAACTCGGATTTAACAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACTCGGATTTAACAACTCGCACG
* * * **
25420291 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGA-CATAACCCGGA
*
25420355 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTA
25420388 GCCCGGACAG
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.46
120 38 0.47
121 6 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACTCGGATTTAACAACTCGCACG
Found at i:25428275 original size:80 final size:80
Alignment explanation
Indices: 25428123--25428315 Score: 248
Period size: 80 Copynumber: 2.4 Consensus size: 80
25428113 CGGTTTTAGT
* *
25428123 AACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
*
25428188 AACCCGGATTTA-AC
66 AACCCGGATATATAC
*
25428202 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGATC
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGA-C
** *
25428266 TTAGTCCGGATATATTC
64 TTAACCCGGATATATAC
* * *
25428283 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
25428316 CAGCATTCAA
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
79 11 0.11
80 83 0.83
81 6 0.06
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (80 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATATATAC
Found at i:25428276 original size:40 final size:40
Alignment explanation
Indices: 25428093--25428262 Score: 254
Period size: 40 Copynumber: 4.3 Consensus size: 40
25428083 TCCTCGTTCA
* * ** *
25428093 AATGCCTTCGGGA-TATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACT-TAACCCGGATTTAACAACTCGCACG
*
25428132 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
25428172 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
25428212 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
25428252 AATGCCTTCGG
1 AATGCCTTCGG
25428263 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 32 0.26
40 89 0.74
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:25432274 original size:11 final size:13
Alignment explanation
Indices: 25432254--25432285 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
25432244 ATAATACCCT
25432254 TTTAATAAAC-CA
1 TTTAATAAACACA
25432266 TTTAA-AAACACA
1 TTTAATAAACACA
25432278 TTTAATAA
1 TTTAATAA
25432286 GGTCATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (13 bp):
TTTAATAAACACA
Found at i:25433394 original size:20 final size:18
Alignment explanation
Indices: 25433366--25433408 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
25433356 GGGCTGAAGG
*
25433366 CACGAGCGTGTCCTGAGCCA
1 CACGGGCGTGT-CTGA-CCA
*
25433386 CACGGGCGTGTGTGACCA
1 CACGGGCGTGTCTGACCA
25433404 CACGG
1 CACGG
25433409 CCTACCCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.19, C:0.33, G:0.35, T:0.14
Consensus pattern (18 bp):
CACGGGCGTGTCTGACCA
Found at i:25436972 original size:46 final size:46
Alignment explanation
Indices: 25436916--25437043 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 46
25436906 CTGAGTTGAT
* * * *
25436916 AAATAGTAAGCTCTATT-GAGCTGAAAACGGTAAGCTCTATTGAGCT-
1 AAATAGTAAGCTCT-TTCGAGCTG-AAACAGTAAGCTCCAATGAGATA
* *
25436962 GAATAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAATGAGATA
1 AAATAGTAAGCTCTTTCGAGCTGAAACAGTAAGCTCCAATGAGATA
* *
25437008 AAATAGTAAGCTCTTACGAGCTGAATCAGTAAGCTC
1 AAATAGTAAGCTCTTTCGAGCTGAAACAGTAAGCTC
25437044 ATACAAGCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
45 19 0.26
46 53 0.74
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (46 bp):
AAATAGTAAGCTCTTTCGAGCTGAAACAGTAAGCTCCAATGAGATA
Found at i:25436996 original size:23 final size:22
Alignment explanation
Indices: 25436920--25437043 Score: 108
Period size: 23 Copynumber: 5.4 Consensus size: 22
25436910 GTTGATAAAT
*
25436920 AGTAAGCTCTATTGAGCTGAAAAC
1 AGTAAGCTCT-TTGAGCTG-AATC
*
25436944 GGTAAGCTCTATTGAGCTGAAT-
1 AGTAAGCTCT-TTGAGCTGAATC
25436966 AGTAAGCTCTTTCGAGCTGAATC
1 AGTAAGCTCTTT-GAGCTGAATC
** * *
25436989 AGTAAGCTCCAATGAGATAAAAT-
1 AGTAAGCT-CTTTGAGCT-GAATC
*
25437012 AGTAAGCTCTTACGAGCTGAATC
1 AGTAAGCTCTT-TGAGCTGAATC
25437035 AGTAAGCTC
1 AGTAAGCTC
25437044 ATACAAGCTG
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
21 2 0.02
22 22 0.27
23 35 0.43
24 23 0.28
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
AGTAAGCTCTTTGAGCTGAATC
Found at i:25439420 original size:42 final size:42
Alignment explanation
Indices: 25439373--25439564 Score: 153
Period size: 40 Copynumber: 4.6 Consensus size: 42
25439363 TCCTAGATGT
* * *
25439373 GGTCTTACATGTAATCAAATATCGATGCCACTTTCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCAATTTCCAGACAG
* * * * *
25439415 GGTCTTTCACAAAATCAAATA-CAATGCCAATGTCTCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAATTTC-CAGACAG
* * *
25439457 GGTCTTACA--AAATCAAATA-CAATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAAT-TTCCAGACAG
* * *
25439497 GGTCTTACACGTAAATCTCAA-ATCGATGCCAACGTTCCAAAC-G
1 GGTCTTACACG-AAATC-AAATATCGATGCCAA-TTTCCAGACAG
*
25439540 TGGTCTTACACGAAATCACATATCG
1 -GGTCTTACACGAAATCAAATATCG
25439565 GAATCCCATG
Statistics
Matches: 121, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
40 36 0.30
41 11 0.09
42 32 0.26
43 15 0.12
44 27 0.22
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATTTCCAGACAG
Found at i:25439477 original size:40 final size:39
Alignment explanation
Indices: 25439385--25439505 Score: 161
Period size: 40 Copynumber: 3.0 Consensus size: 39
25439375 TCTTACATGT
* * * *
25439385 AATCAAATATCGATGCCACTTTCCAGACAGGGTCTTTCACAA
1 AATCAAATA-CAATGCCAATGTCCAGACATGGTC-TT-ACAA
25439427 AATCAAATACAATGCCAATGTCTCAGACATGGTCTTACAA
1 AATCAAATACAATGCCAATGTC-CAGACATGGTCTTACAA
25439467 AATCAAATACAATGCCAATGTCCCAGACATGGTCTTACA
1 AATCAAATACAATGCCAATGT-CCAGACATGGTCTTACA
25439506 CGTAAATCTC
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
40 41 0.56
41 13 0.18
42 19 0.26
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (39 bp):
AATCAAATACAATGCCAATGTCCAGACATGGTCTTACAA
Found at i:25443357 original size:49 final size:49
Alignment explanation
Indices: 25443285--25443472 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
25443275 TGAGGTCACG
*
25443285 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
25443334 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
25443385 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
25443434 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
25443473 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 75 0.65
50 2 0.02
51 39 0.34
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:25443457 original size:100 final size:100
Alignment explanation
Indices: 25443280--25443467 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
25443270 TATTGTGAGG
* *
25443280 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
*
25443345 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
*
25443380 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
25443445 AAGTGCAAGCTACTATGCGTACC
66 AAGTGCAAGCTACTATGCGTACC
25443468 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
Found at i:25444114 original size:14 final size:14
Alignment explanation
Indices: 25444095--25444132 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
25444085 GAAACAGGGG
25444095 AAACTTTAATGAAT
1 AAACTTTAATGAAT
25444109 AAACTTTAATGAAT
1 AAACTTTAATGAAT
25444123 AAACTTTAAT
1 AAACTTTAAT
25444133 TGTGACAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (14 bp):
AAACTTTAATGAAT
Found at i:25445861 original size:27 final size:27
Alignment explanation
Indices: 25445823--25446001 Score: 157
Period size: 27 Copynumber: 6.6 Consensus size: 27
25445813 TAAATTGTAC
25445823 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
25445850 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
* ** *
25445876 ATGCACTAAGTGTGTGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
25445904 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
25445932 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
25445959 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
25445986 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
25446002 GCTCAATATA
Statistics
Matches: 125, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.02
27 101 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:25445991 original size:82 final size:81
Alignment explanation
Indices: 25445820--25446001 Score: 231
Period size: 82 Copynumber: 2.2 Consensus size: 81
25445810 GATTAAATTG
* *
25445820 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
25445885 GTGTGTGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
25445901 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
25445965 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
25445983 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
25446002 GCTCAATATA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:25447973 original size:40 final size:40
Alignment explanation
Indices: 25447908--25448294 Score: 562
Period size: 40 Copynumber: 9.7 Consensus size: 40
25447898 AGGTCTCGAC
*
25447908 GATG-ATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
25447947 GATTTATCTGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
25447987 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
25448027 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
25448067 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
25448107 GATGTATCCGGGCTAAGTCCCGAATAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
25448147 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
25448187 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
25448227 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
25448267 GTTATATCCGGGCTAGGTCCC-AAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
25448295 ATCATGCTGG
Statistics
Matches: 322, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 10 0.03
40 312 0.97
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:25451854 original size:47 final size:47
Alignment explanation
Indices: 25451796--25452291 Score: 789
Period size: 47 Copynumber: 10.6 Consensus size: 47
25451786 GATAATTGTG
*
25451796 ATGTG-AA-TGTATATATGTGATAAGGCCTAATGGCCGATGTAATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
25451841 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
25451888 ATGTGAAAGTGTATATATGTGACAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
25451935 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25451982 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
25452029 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
25452076 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
25452125 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
25452172 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
25452219 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
25452266 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
25452292 TCCCGAAGGG
Statistics
Matches: 418, Mismatches: 29, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
45 5 0.01
46 2 0.00
47 367 0.88
49 44 0.11
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:25465415 original size:27 final size:27
Alignment explanation
Indices: 25465384--25465561 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
25465374 TAAATTGTAC
*
25465384 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25465411 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25465437 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25465465 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
25465493 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
25465520 AGCACTAGGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25465547 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25465562 GACTCGATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25465498 original size:82 final size:81
Alignment explanation
Indices: 25465385--25465540 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
25465375 AAATTGTACA
*
25465385 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
25465449 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** * *
25465466 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAGGTG
1 GCACTAAGGGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
25465531 TGCGAGTTGA
65 TGCGAATTGA
25465541 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25465552 original size:82 final size:81
Alignment explanation
Indices: 25465381--25465561 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
25465371 GATTAAATTG
* *
25465381 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
25465446 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25465462 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* * **
25465526 AGGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25465544 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25465562 GACTCGATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25473451 original size:27 final size:27
Alignment explanation
Indices: 25473400--25473574 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
25473390 TAAATTGTAC
25473400 AGCACTAAG-GTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25473426 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25473452 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25473480 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
25473508 AGCACTAAGTGTGCGATTTGATTA-GT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25473534 AGCACT-AGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25473560 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25473575 GACTCGATAT
Statistics
Matches: 127, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
25 16 0.13
26 23 0.18
27 65 0.51
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25483434 original size:27 final size:27
Alignment explanation
Indices: 25483360--25483438 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
25483350 ATCCATTTAA
25483360 TACCTTTAACTAATAGAATACAAGTTT
1 TACCTTTAACTAATAGAATACAAGTTT
** * **
25483387 TACACTTTATGTGATTTAATACAAGTTT
1 TAC-CTTTAACTAATAGAATACAAGTTT
25483415 TACCTTTAACTAATAGAATACAAG
1 TACCTTTAACTAATAGAATACAAG
25483439 CTTTGACTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCTTTAACTAATAGAATACAAGTTT
Found at i:25485105 original size:10 final size:10
Alignment explanation
Indices: 25485090--25485114 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25485080 TTAACACATG
25485090 TATGTATATA
1 TATGTATATA
25485100 TATGTATATA
1 TATGTATATA
25485110 TATGT
1 TATGT
25485115 TAAAAGAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (10 bp):
TATGTATATA
Found at i:25503418 original size:96 final size:98
Alignment explanation
Indices: 25503306--25503501 Score: 335
Period size: 98 Copynumber: 2.0 Consensus size: 98
25503296 AATGTGTATA
*
25503306 TATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAATGTG-AA-ATATATATGAGATATGTAT
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATGAGATATGTAT
*
25503368 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
65 ATGTGGTAAAGCCAAATGGCTAATGTGAAATATG
25503402 TATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATA
1 TATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATA
*
25503467 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATG
66 TGTGGTAAAGCCAAATGGCTAATGTGAAATATG
25503500 TA
1 TA
25503502 GGCGATGTGC
Statistics
Matches: 94, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
96 38 0.40
97 3 0.03
98 53 0.56
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (98 bp):
TATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATA
TGTGGTAAAGCCAAATGGCTAATGTGAAATATG
Found at i:25503517 original size:50 final size:48
Alignment explanation
Indices: 25503302--25503498 Score: 324
Period size: 48 Copynumber: 4.1 Consensus size: 48
25503292 TGTGAATGTG
25503302 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
25503350 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
* *
25503398 TATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-A
* *
25503448 TATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
25503496 TAT
1 TAT
25503499 GTAGGCGATG
Statistics
Matches: 139, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
47 1 0.01
48 93 0.67
49 4 0.03
50 40 0.29
51 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
Found at i:25503756 original size:37 final size:37
Alignment explanation
Indices: 25503648--25503756 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
25503638 GGAAATATAT
*
25503648 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
25503685 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
25503722 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
25503757 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:25514351 original size:23 final size:26
Alignment explanation
Indices: 25514338--25514391 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
25514328 TGAAATTTTG
25514338 AAAT-AATAATATATGAAGAGATTTA
1 AAATAAATAATATATGAAGAGATTTA
25514363 AAATAAATAATATATGAAGAGATTTA
1 AAATAAATAATATATGAAGAGATTTA
25514389 AAA
1 AAA
25514392 CAAGTACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (26 bp):
AAATAAATAATATATGAAGAGATTTA
Found at i:25515788 original size:16 final size:17
Alignment explanation
Indices: 25515769--25515801 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25515759 TTAAGTTTAG
25515769 GTTTTAGG-TTTGGGTT
1 GTTTTAGGATTTGGGTT
*
25515785 GTTTTGGGATTTGGGTT
1 GTTTTAGGATTTGGGTT
25515802 TTAAATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.00, G:0.39, T:0.55
Consensus pattern (17 bp):
GTTTTAGGATTTGGGTT
Found at i:25518329 original size:44 final size:43
Alignment explanation
Indices: 25518266--25518354 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 43
25518256 CGTGGAAGCT
25518266 GAAGATATTATAAGACAGCAATATCCGAATATGTTCAACGGTAA
1 GAAGATATTATAAGACAGCAATATCCGAATATGTTCAAC-GTAA
* *
25518310 GAAGATATTATGAGACAGCAATATCCGAATCTGTTCAACGTAA
1 GAAGATATTATAAGACAGCAATATCCGAATATGTTCAACGTAA
25518353 GA
1 GA
25518355 TTTTAGAGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 6 0.14
44 37 0.86
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (43 bp):
GAAGATATTATAAGACAGCAATATCCGAATATGTTCAACGTAA
Found at i:25519750 original size:43 final size:42
Alignment explanation
Indices: 25519672--25519753 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
25519662 TCTGGAATGT
* * * *
25519672 TGGCATCGTATTTGATTTCGTTTAAGACCTTGTCTGGGAAAG
1 TGGCATCGTATTTGATTACATATAAGACCTCGTCTGGGAAAG
25519714 TGGCATCGATATTTGATTACATATAAGA-CTACGTCTGGGA
1 TGGCATCG-TATTTGATTACATATAAGACCT-CGTCTGGGA
25519754 TGTTGGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 10 0.29
43 24 0.71
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
TGGCATCGTATTTGATTACATATAAGACCTCGTCTGGGAAAG
Found at i:25522040 original size:24 final size:26
Alignment explanation
Indices: 25522012--25522079 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
25522002 GCTAATGAAC
25522012 AGTAAGCT-TTATCGAGCTGGAA-AA-
1 AGTAAGCTCTTATCGAGCT-GAAGAAT
25522036 AGTAAGCTCTTAT-GAGCT-AAGAAT
1 AGTAAGCTCTTATCGAGCTGAAGAAT
25522060 AGTAAGCTCTTA-CGAGCTGA
1 AGTAAGCTCTTATCGAGCTGA
25522080 TATATCGGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
22 2 0.05
23 2 0.05
24 30 0.77
25 5 0.13
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (26 bp):
AGTAAGCTCTTATCGAGCTGAAGAAT
Found at i:25531247 original size:15 final size:15
Alignment explanation
Indices: 25531223--25531270 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
25531213 TGACATCGGT
*
25531223 GGTTCCTAGTGAACG
1 GGTTCTTAGTGAACG
25531238 GGTTCTTAGTGAACG
1 GGTTCTTAGTGAACG
25531253 GGTTCTTAGTGAACG
1 GGTTCTTAGTGAACG
25531268 GGT
1 GGT
25531271 CACCTAGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.31
Consensus pattern (15 bp):
GGTTCTTAGTGAACG
Found at i:25536236 original size:47 final size:47
Alignment explanation
Indices: 25536177--25536306 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
25536167 TGCGAGTAAA
* *** *
25536177 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTTTG-AGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-CTCCAGAAGAAGT
* *
25536224 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGAATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAAGAAGT
*
25536271 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
25536307 TATCGATTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 2 0.03
47 71 0.97
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAAGAAGT
Found at i:25538832 original size:40 final size:40
Alignment explanation
Indices: 25538749--25538968 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
25538739 ACCCAAGTAT
** * *
25538749 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
25538787 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
25538827 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
25538867 CTTCGGGTCTTAGCCTGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
25538907 CTTCGGATCTTAGTCTGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
25538947 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
25538969 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 123 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:25543169 original size:41 final size:42
Alignment explanation
Indices: 25543124--25543279 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 42
25543114 CATGTGTTAT
*
25543124 TGTGTAAGACCATGTCGGGGACATTGGCATC-TA-CTGATTCA
1 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATT-A
*
25543165 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT-
1 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
* * *
25543206 TCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATCTGATTA
1 T-GTGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTA
* * *
25543250 TATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGTAAGACCATGTCTGGGACATTGGCAT
25543280 TGTACTAGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 31 0.32
42 30 0.31
43 36 0.37
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
Found at i:25545862 original size:40 final size:40
Alignment explanation
Indices: 25545813--25545955 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 40
25545803 GTGGCTTGAG
* * *
25545813 CATTTGCGGCGCTTCTTAAAAAATGCCACTATAGGTCAAC
1 CATTAGCGGCGCTTTTTAAAAAATGCCACTATAGGTCGAC
* * *
25545853 CATTAGCGGCGCTTTTTAAAAAAAT-CCGCTATAGATCGAG
1 CATTAGCGGCGCTTTTT-AAAAAATGCCACTATAGGTCGAC
** * *
25545893 CATTAGCGGCGCTTTTTGGAAAACGCTACTATAGGTCGAC
1 CATTAGCGGCGCTTTTTAAAAAATGCCACTATAGGTCGAC
* * * *
25545933 TATTAGCGGTGGTTTATAAAAAA
1 CATTAGCGGCGCTTTTTAAAAAA
25545956 ACGCTGCAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.87
41 7 0.09
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTAAAAAATGCCACTATAGGTCGAC
Found at i:25546099 original size:40 final size:39
Alignment explanation
Indices: 25546000--25546101 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 39
25545990 AGTTGCACTT
* * * *
25546000 GCGGCGCTTTTTTGAAAACACCGCTATAGATCGAGCATTA
1 GCGGCGC-TTTTTGAAAACGCCACTATAGACCGAACATTA
*
25546040 GCGGCGCTTTTTGAAAAACGCCACTATAGACCGAACTTTA
1 GCGGCGCTTTTTG-AAAACGCCACTATAGACCGAACATTA
*
25546080 GCGGCGCTTTGTCGAAAACGCC
1 GCGGCGCTTT-TTGAAAACGCC
25546102 GTAAAAAACA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
39 6 0.11
40 46 0.85
41 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (39 bp):
GCGGCGCTTTTTGAAAACGCCACTATAGACCGAACATTA
Found at i:25546252 original size:30 final size:30
Alignment explanation
Indices: 25546216--25546272 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25546206 ATTTGAAAGT
25546216 AAAAAATAAAAAAAATA-TATTTTAAAAATA
1 AAAAAATAAAAAAAATATTA-TTTAAAAATA
* *
25546246 AAAAAATTAAAATAATATTATTTAAAA
1 AAAAAATAAAAAAAATATTATTTAAAA
25546273 TAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (30 bp):
AAAAAATAAAAAAAATATTATTTAAAAATA
Found at i:25546410 original size:14 final size:14
Alignment explanation
Indices: 25546388--25546519 Score: 61
Period size: 14 Copynumber: 9.2 Consensus size: 14
25546378 TTAATTATCA
* *
25546388 TTATAGTTTAGTGT
1 TTATGGTTTAGGGT
25546402 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
25546416 ATATGGTTTAGAAGT
1 TTATGGTTTAG-GGT
*
25546431 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
25546445 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
25546460 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
* *
25546474 TTAAGGGTTAGGGT
1 TTATGGTTTAGGGT
* * *
25546488 TTAAGATTTAAGGT
1 TTATGGTTTAGGGT
* *
25546502 TTAAGGGTTAAGGGT
1 TT-ATGGTTTAGGGT
25546517 TTA
1 TTA
25546520 GGGGCTAAGG
Statistics
Matches: 90, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
12 3 0.03
14 56 0.62
15 28 0.31
17 3 0.03
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:25546519 original size:22 final size:22
Alignment explanation
Indices: 25546471--25546547 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 22
25546461 TAGGGATTAT
25546471 GGTTTAAGGGTT-AGGGTTTAA-
1 GGTTTAAGGGTTAAGGG-TTAAG
* *
25546492 GATTTAAGGTTTAAGGGTTAAG
1 GGTTTAAGGGTTAAGGGTTAAG
* *
25546514 GGTTTAGGGGCTAAGGGTT-AG
1 GGTTTAAGGGTTAAGGGTTAAG
*
25546535 GGGTTAAGGGTTA
1 GGTTTAAGGGTTA
25546548 GAGGTTTAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 26 0.58
22 19 0.42
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (22 bp):
GGTTTAAGGGTTAAGGGTTAAG
Found at i:25546522 original size:7 final size:7
Alignment explanation
Indices: 25546437--25546557 Score: 59
Period size: 7 Copynumber: 16.9 Consensus size: 7
25546427 AAGTTACTAT
*
25546437 TTTAAGG
1 TTTAGGG
*
25546444 TTTATGG
1 TTTAGGG
*
25546451 ATTATGGG
1 TTTA-GGG
25546459 TTTAGGG
1 TTTAGGG
* *
25546466 ATTATGG
1 TTTAGGG
25546473 TTTAAGGG
1 TTT-AGGG
25546481 -TTAGGG
1 TTTAGGG
* *
25546487 TTTAAGA
1 TTTAGGG
*
25546494 TTTAAGG
1 TTTAGGG
25546501 TTTAAGGG
1 TTT-AGGG
*
25546509 TTAAGGG
1 TTTAGGG
25546516 TTTAGGGG
1 TTTA-GGG
* *
25546524 CTAAGGG
1 TTTAGGG
25546531 -TTAGGGG
1 TTTA-GGG
*
25546538 TTAAGGG
1 TTTAGGG
25546545 -TTAGAGG
1 TTTAG-GG
25546552 TTTAGG
1 TTTAGG
25546558 CCTAAATCCC
Statistics
Matches: 86, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
6 9 0.10
7 53 0.62
8 24 0.28
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.37
Consensus pattern (7 bp):
TTTAGGG
Found at i:25546528 original size:15 final size:15
Alignment explanation
Indices: 25546438--25546546 Score: 84
Period size: 14 Copynumber: 7.6 Consensus size: 15
25546428 AGTTACTATT
* *
25546438 TTAA-GGTTTATGGA
1 TTAAGGGTTTAGGGG
* *
25546452 TTATGGGTTTAGGGA
1 TTAAGGGTTTAGGGG
* *
25546467 TT-ATGGTTTAAGGG
1 TTAAGGGTTTAGGGG
* **
25546481 TT-AGGGTTTAAGAT
1 TTAAGGGTTTAGGGG
*
25546495 TTAA-GGTTTAAGGG
1 TTAAGGGTTTAGGGG
25546509 TTAAGGGTTTAGGGG
1 TTAAGGGTTTAGGGG
*
25546524 CTAAGGG-TTAGGGG
1 TTAAGGGTTTAGGGG
25546538 TTAAGGGTT
1 TTAAGGGTT
25546547 AGAGGTTTAG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
14 49 0.64
15 28 0.36
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.38
Consensus pattern (15 bp):
TTAAGGGTTTAGGGG
Found at i:25546547 original size:14 final size:14
Alignment explanation
Indices: 25546495--25546553 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
25546485 GGTTTAAGAT
* *
25546495 TTAAGGTTTAAGGG
1 TTAAGGGTTAGGGG
25546509 TTAAGGGTTTAGGGG
1 TTAAGGG-TTAGGGG
*
25546524 CTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
25546538 TTAAGGGTTAGAGG
1 TTAAGGGTTAGGGG
25546552 TT
1 TT
25546554 TAGGCCTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.24, C:0.02, G:0.42, T:0.32
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:25546557 original size:22 final size:22
Alignment explanation
Indices: 25546503--25546544 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25546493 ATTTAAGGTT
*
25546503 TAAGGGTTAAGGGTTTAGGGGC
1 TAAGGGTTAAGGGTTAAGGGGC
*
25546525 TAAGGGTTAGGGGTTAAGGG
1 TAAGGGTTAAGGGTTAAGGG
25546545 TTAGAGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.48, T:0.26
Consensus pattern (22 bp):
TAAGGGTTAAGGGTTAAGGGGC
Done.