Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 263 of 311
Found at i:87359180 original size:17 final size:18
Alignment explanation
Indices: 87359146--87359186 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
87359136 AGGAAGGTAA
*
87359146 TAAAATGTACATAAAAAT
1 TAAAATGTACAAAAAAAT
87359164 TAAAATGTA-AAAAAAAT
1 TAAAATGTACAAAAAAAT
87359181 TAAAAT
1 TAAAAT
87359187 AAATCTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
TAAAATGTACAAAAAAAT
Found at i:87359632 original size:12 final size:13
Alignment explanation
Indices: 87359607--87359636 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
87359597 TAATAATTTT
87359607 ATATTTTATATTA
1 ATATTTTATATTA
87359620 ATATTTT-TATTA
1 ATATTTTATATTA
87359632 ATATT
1 ATATT
87359637 AAATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATTTTATATTA
Found at i:87359820 original size:25 final size:24
Alignment explanation
Indices: 87359787--87359835 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
87359777 TGGAGGATTT
87359787 TTATATTATTTAATATTAATATAA
1 TTATATTATTTAATATTAATATAA
*
87359811 TTATAATTATTTAATATTTATATAA
1 TTAT-ATTATTTAATATTAATATAA
87359836 ATATTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATATTATTTAATATTAATATAA
Found at i:87359877 original size:29 final size:28
Alignment explanation
Indices: 87359836--87359910 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
87359826 ATTTATATAA
* *
87359836 ATATTAATATAAAATTTACATTTATTATTAT
1 ATATTTAT-TAAAATTT-CATGTATT-TTAT
*
87359867 ATATTT-TTAAAATATTTATGTATTTTAT
1 ATATTTATTAAAAT-TTCATGTATTTTAT
*
87359895 ATATTTATTTAAATTT
1 ATATTTATTAAAATTT
87359911 TTAGGAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 12 0.32
29 18 0.47
30 3 0.08
31 5 0.13
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (28 bp):
ATATTTATTAAAATTTCATGTATTTTAT
Found at i:87362450 original size:12 final size:12
Alignment explanation
Indices: 87362433--87362457 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87362423 ACGCAATTCC
87362433 AATATATATATA
1 AATATATATATA
87362445 AATATATATATA
1 AATATATATATA
87362457 A
1 A
87362458 CTGTTAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATATATATA
Found at i:87364881 original size:9 final size:9
Alignment explanation
Indices: 87364867--87364897 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
87364857 TTTTTGATAA
87364867 AAAAAGAAG
1 AAAAAGAAG
87364876 AAAAAGAAG
1 AAAAAGAAG
*
87364885 AAGAAGAAG
1 AAAAAGAAG
87364894 AAAA
1 AAAA
87364898 GTAATGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:87367422 original size:4 final size:4
Alignment explanation
Indices: 87367402--87367434 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
87367392 GGAATTCTGG
87367402 GTTT GTTT CGTTT -TTT GTTT GTTT GTTT GTTT G
1 GTTT GTTT -GTTT GTTT GTTT GTTT GTTT GTTT G
87367435 GGGCTGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.00, C:0.03, G:0.24, T:0.73
Consensus pattern (4 bp):
GTTT
Found at i:87379057 original size:40 final size:40
Alignment explanation
Indices: 87379013--87379094 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
87379003 TGGGTTGGAT
87379013 ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
1 ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
87379053 ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
1 ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
87379093 AT
1 AT
87379095 AGGGAAGGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.23
Consensus pattern (40 bp):
ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
Found at i:87387111 original size:30 final size:30
Alignment explanation
Indices: 87387050--87387111 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 30
87387040 CTTAACAAGT
87387050 AATGCCTCTAAAATAATAAAAAATTTTAACA
1 AATGCCTCTAAAATAATAAAAAA-TTTAACA
*
87387081 AATGCCTTTAAAATAATAAGAAAA-TTAACA
1 AATGCCTCTAAAATAATAA-AAAATTTAACA
87387111 A
1 A
87387112 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.24
31 18 0.62
32 4 0.14
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
AATGCCTCTAAAATAATAAAAAATTTAACA
Found at i:87387159 original size:14 final size:14
Alignment explanation
Indices: 87387136--87387172 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
87387126 TACAATATCC
*
87387136 AAATAATAACAACA
1 AAATAGTAACAACA
87387150 AAATAGTAACAACA
1 AAATAGTAACAACA
*
87387164 TAATAGTAA
1 AAATAGTAA
87387173 AATGGTAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:87390088 original size:3 final size:3
Alignment explanation
Indices: 87390080--87390105 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
87390070 TTTATTAAAT
87390080 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
87390106 CTTGCCATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87397040 original size:40 final size:40
Alignment explanation
Indices: 87396993--87397179 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
87396983 TTGATGACAA
*
87396993 TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCAATTCGAGATAGC
* *
87397033 TTTGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCAATTCGAGATAGC
* * * * ** * *
87397073 TTTGGCTATGTATGCCACTTAATGTACGTTTTGAGATGGC
1 TTCGGCTATGTATGGCACTTAGTGTGCAATTCGAGATAGC
* * *
87397113 TTCGGCTATGTATGGCACTTAATGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGC-A-ATTCGAGATAGC
87397154 TTCGGCTATGTATTGGCACTTAGTGT
1 TTCGGCTATGTA-TGGCACTTAGTGT
87397180 ACGAGAATTC
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 95 0.75
41 17 0.13
42 14 0.11
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCAATTCGAGATAGC
Found at i:87398473 original size:46 final size:46
Alignment explanation
Indices: 87398368--87398668 Score: 440
Period size: 46 Copynumber: 6.5 Consensus size: 46
87398358 CGATCTCATA
** *** *
87398368 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATG
* * * *
87398415 ATATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
**
87398461 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
87398507 GTATCTTTCAACCATGGTTTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
87398553 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
87398599 GTATCTTTCAACCATGGTCTTACACATTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
**
87398645 GTATCTTTCAACCATATTCTTACA
1 GTATCTTTCAACCATGGTCTTACA
87398669 TTACACATTT
Statistics
Matches: 236, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
46 212 0.90
47 24 0.10
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
Found at i:87402682 original size:5 final size:5
Alignment explanation
Indices: 87402634--87402716 Score: 93
Period size: 5 Copynumber: 17.0 Consensus size: 5
87402624 AGTTAAAATA
* * *
87402634 TATAT TATTAT AATAT TATAT CT-TAA T-TAT TA-AG TATA- TATAT TATAT
1 TATAT TA-TAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT TATAT
87402682 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
87402717 ACTAAGTATA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
4 11 0.16
5 52 0.76
6 5 0.07
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:87410057 original size:16 final size:16
Alignment explanation
Indices: 87410036--87410072 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
87410026 CATGCATTCA
* *
87410036 TGCATCTGCATTATAT
1 TGCATCTACATTACAT
87410052 TGCATCTACATTACAT
1 TGCATCTACATTACAT
87410068 TGCAT
1 TGCAT
87410073 TATGTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (16 bp):
TGCATCTACATTACAT
Found at i:87414319 original size:22 final size:22
Alignment explanation
Indices: 87414294--87414339 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
87414284 ATTGACTGAG
*
87414294 ATAGATGGCAATGACCTGCCCA
1 ATAGATGGCAAGGACCTGCCCA
87414316 ATAGATGGCAAGGACCTGCCCA
1 ATAGATGGCAAGGACCTGCCCA
87414338 AT
1 AT
87414340 CCAGAATTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (22 bp):
ATAGATGGCAAGGACCTGCCCA
Found at i:87415671 original size:181 final size:181
Alignment explanation
Indices: 87415402--87416372 Score: 1092
Period size: 181 Copynumber: 5.3 Consensus size: 181
87415392 ATAATGACGA
* * * *
87415402 ATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGA-AGTCACAAACCTTATCTCCCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG---CAAACATTATCTCCCTGAAGTTG
* * * * * *
87415466 TAGTAGAGAAGGTTAAAGTTATAAGTCTTATCTCCCTGGAA-TTGTAGTGAAGCAGACTGAAAAT
62 CAATGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCT-GAAGTTGCAGTGAAGCAGACTGAAAAT
* * * * * *
87415530 AGCGAATCTTATTTCCCTGAAGTTGCAATGAAACGGATTGAACCTAGAAATCACAG
126 AGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
* * * *
87415586 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCATAGCATACATTATCTCCCTGAAATTGCAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCAAT
* * * * * * * *
87415651 GGAGCAGGTTGAAGTTATAAGTCTCATCTCCCTAAAATTACAGTGGAGTAGATTTGAAAATAGCA
66 GGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGA-CTGAAAATAGCG
* * * * *
87415716 AATCTTATTTCCCTGAAGTTGTAGTAGAACAGATTGAAGGTATAAATTATAA
130 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
* * * * ** *
87415768 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCGAATATTATTTCTTTGAAGTTGGAAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCAAT
* * *
87415833 GGAGCAGGCTGAAGTTATAAGTCTTATCTCTCTGAAGTTGCAGT-AGAGCAGACTGAAAATAGAG
66 GGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGA-AGCAGACTGAAAATAGCG
* * * * *
87415897 AATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGGTATATATTATAG
130 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
* * * *
87415949 ATCTTATCTCTCTAAAGTTGCAGTA-AGCAGATCATAGTAGATC-TTATCTCCCTGAAGTTACAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA-AACATTATCTCCCTGAAGTTGCAA
* * * * *
87416012 TAGAGTAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCG
65 TGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAAATAGCG
* *
87416077 AAT-TATATTTCCCTGAAGTCGCAGTGGAACAGATTGAAGTTATAAATTACAG
130 AATCT-TATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
* * * * *
87416129 ATTTTATCTCTCTAAAGTTGTAGTAGAGCAGATCATAGGAAACCTTATCTCCCTGAAGTTGCAAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCAAT
* * * * * *
87416194 GGAGCAAGTTGAAGTTATAAGTATTATCTACTTGAAGTTGCAGTGTAA-CAGACTGAAGATATCG
66 GGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTG-AAGCAGACTGAAAATAGCG
* * * *
87416258 AATCATATTTCCCTTAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAA
130 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
* * * * *
87416310 ATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGTAGCAAACCTTATCTCCCTGAAGTTGCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCA
87416373 GAAGAGCAGA
Statistics
Matches: 665, Mismatches: 111, Indels: 25
0.83 0.14 0.03
Matches are distributed among these distances:
179 1 0.00
180 154 0.23
181 328 0.49
182 149 0.22
183 2 0.00
184 31 0.05
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (181 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCAAT
GGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAAATAGCGA
ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
Found at i:87415889 original size:44 final size:44
Alignment explanation
Indices: 87415762--87416070 Score: 150
Period size: 44 Copynumber: 7.0 Consensus size: 44
87415752 AAGGTATAAA
* * *
87415762 TTATAAATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCATAG
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGA-AG
** * * * * * * *
87415806 --CGAA-TATTATTTCTTTGAAGTTGGAATGGAGCAGGCTGAAG
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
*
87415847 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAA
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
* * * * * * ** * *
87415891 ATAGAGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGG
1 TTATA-AGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAA-G
* *
87415937 TATATATTATAGATCTTATCTCTCTAAAGTTGCAGTA-AGCAGA-TCATAG
1 --T-TA-TA-AG-TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGA-AG
* * * * * **
87415986 -TA-GA-TCTTATCTCCCTGAAGTTACAATAGAGTAGGTTGAAG
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
* * *
87416027 TTATAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAG
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
87416071 ATAGCGAATT
Statistics
Matches: 191, Mismatches: 57, Indels: 34
0.68 0.20 0.12
Matches are distributed among these distances:
40 20 0.10
41 31 0.16
42 9 0.05
43 3 0.02
44 64 0.34
45 32 0.17
49 5 0.03
50 7 0.04
51 20 0.10
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (44 bp):
TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
Found at i:87416116 original size:89 final size:89
Alignment explanation
Indices: 87416021--87416302 Score: 227
Period size: 89 Copynumber: 3.1 Consensus size: 89
87416011 ATAGAGTAGG
* *
87416021 TTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATTATATT
1 TTGAAGTTATAAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATTATATT
*
87416086 TCCCTGAAGTCGCAGTGGAACAGA
66 TCCCTGAAGTTGCAGTGGAACAGA
* * * * * *
87416110 TTGAAGTTATAAATTACAGATTTTATCTCTCTAAAGTTGTAGTAGAGCAGA-T---CATAG-GAA
1 TTGAAG-T-T--A-TA-AG-TATTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCG-A
* * * *
87416170 ACCT-TATCTCCCTGAAGTTGCAATGGAGCA-A
58 A-TTATATTTCCCTGAAGTTGCAGTGGAACAGA
* * * * * *
87416201 GTTGAAGTTATAAGTATTATCTACTTGAAGTTGCAGTGTAACAGACTGAAGATATCGAATCATAT
1 -TTGAAGTTATAAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATTATAT
* *
87416266 TTCCCTTAAGTTGCAGTGGAATAGA
65 TTCCCTGAAGTTGCAGTGGAACAGA
*
87416291 TTGAAGCTATAA
1 TTGAAGTTATAA
87416303 ATTACAAATC
Statistics
Matches: 145, Mismatches: 31, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
85 22 0.15
86 3 0.02
87 2 0.01
88 1 0.01
89 43 0.30
90 4 0.03
91 4 0.03
92 34 0.23
93 2 0.01
94 2 0.01
95 3 0.02
96 25 0.17
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (89 bp):
TTGAAGTTATAAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATTATATT
TCCCTGAAGTTGCAGTGGAACAGA
Found at i:87416209 original size:361 final size:363
Alignment explanation
Indices: 87415401--87416369 Score: 1127
Period size: 361 Copynumber: 2.7 Consensus size: 363
87415391 TATAATGACG
* * * *
87415401 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGA-AGTCACAAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCTCTAAAGTTACAGTAGAGCAGA-TCATAG-C-GAAACCTTATCTCCCTGAAGTT
* * * * * *
87415465 GTAGTAGAG-AAGGTTAAAGTTATAAGTCTTATCTCCCTGGAA-TTGTAGTGAAGCAGACTGAAA
63 GCAATGGAGCAA-GTTGAAGTTATAAGTCTTATCTCTCT-GAAGTTGCAGTGAAGCAGACTGAAA
* * ** * * *
87415528 ATAGCGAATCTTATTTCCCTGAAGTTGCAATGAAACGGATTGAACCTAGAAATCACAGATCTTAT
126 ATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTAT
* * * * * * *
87415593 CTCTCTGAAGTTGCAGTAGAGCAAATCATAGCATACATTATCTCCCTGAAATTGCAGTGGAGCAG
191 CTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAAC-TTATCTCCCTGAAGTTACAATAGAGCAG
* * *
87415658 GTTGAAGTTATAAGTCTCATCTCCCTAAAATTACAGTGGAGTAGATTTGAAAATAGCAAATCTTA
255 GTTGAAGTTATAAGTCTCATCTCCCTAAAATTACAATGGAGCAGATCTGAAAATAGCAAATCTTA
* * *
87415723 TTTCCCTGAAGTTGTAGTAGAACAGATTGAAGGTATAAATTATA
320 TTTCCCTGAAGTCGCAGTAGAACAGATTGAAGGTATAAATTACA
* * ** *
87415767 AATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCGAATA--TTATTTCTTTGAAGTTGG
1 AATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCATAGCGAA-ACCTTATCTCCCTGAAGTTGC
* *
87415830 AATGGAGCAGGCTGAAGTTATAAGTCTTATCTCTCTGAAGTTGCAGT-AGAGCAGACTGAAAATA
65 AATGGAGCAAGTTGAAGTTATAAGTCTTATCTCTCTGAAGTTGCAGTGA-AGCAGACTGAAAATA
* * * * *
87415894 GAGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGGTATATATTATAGATCTTATCTC
129 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCTC
* * *
87415959 TCTAAAGTTGCAGTA-AGCAGATCATAGTAGATCTTATCTCCCTGAAGTTACAATAGAGTAGGTT
194 TCTAAAGTTGCAGTAGAGCAGATCATAGCA-AACTTATCTCCCTGAAGTTACAATAGAGCAGGTT
* * * * * *
87416023 GAAGTTATAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGA-CTGAAGATAGCGAAT-TATATT
258 GAAGTTATAAGTCTCATCTCCCTAAAATTACAATGGAGCAGATCTGAAAATAGCAAATCT-TATT
* *
87416086 TCCCTGAAGTCGCAGTGGAACAGATTGAAGTTATAAATTACA
322 TCCCTGAAGTCGCAGTAGAACAGATTGAAGGTATAAATTACA
* * **
87416128 GATTTTATCTCTCTAAAGTTGTAGTAGAGCAGATCATAG-GAAACCTTATCTCCCTGAAGTTGCA
1 AATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCATAGCGAAACCTTATCTCCCTGAAGTTGCA
* *
87416192 ATGGAGCAAGTTGAAGTTATAAGTATTATCTACT-TGAAGTTGCAGTGTAA-CAGACTGAAGATA
66 ATGGAGCAAGTTGAAGTTATAAGTCTTATCT-CTCTGAAGTTGCAGTG-AAGCAGACTGAAAATA
* * * *
87416255 TCGAATCATATTTCCCTTAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAAATCTTATCTC
129 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCTC
* * *
87416320 TCTGAAA-TTACAGTAGAGTAGATCGTAGCAAACCTTATCTCCCTGAAGTT
194 TCT-AAAGTTGCAGTAGAGCAGATCATAGCAAA-CTTATCTCCCTGAAGTT
87416370 GCAGAAGAGC
Statistics
Matches: 509, Mismatches: 79, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
359 1 0.00
360 4 0.01
361 221 0.43
362 112 0.22
363 132 0.26
364 3 0.01
365 4 0.01
366 32 0.06
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (363 bp):
AATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCATAGCGAAACCTTATCTCCCTGAAGTTGCA
ATGGAGCAAGTTGAAGTTATAAGTCTTATCTCTCTGAAGTTGCAGTGAAGCAGACTGAAAATAGC
GAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCTCTC
TAAAGTTGCAGTAGAGCAGATCATAGCAAACTTATCTCCCTGAAGTTACAATAGAGCAGGTTGAA
GTTATAAGTCTCATCTCCCTAAAATTACAATGGAGCAGATCTGAAAATAGCAAATCTTATTTCCC
TGAAGTCGCAGTAGAACAGATTGAAGGTATAAATTACA
Found at i:87416422 original size:41 final size:41
Alignment explanation
Indices: 87416306--87416411 Score: 140
Period size: 41 Copynumber: 2.6 Consensus size: 41
87416296 GCTATAAATT
* * * * * * *
87416306 ACAAATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGTA
1 ACAAACCTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA
*
87416347 GCAAACCTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA
1 ACAAACCTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA
87416388 ACAAACCTTATCTCCCTGAAGTTG
1 ACAAACCTTATCTCCCTGAAGTTG
87416412 AAATGGAGCA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (41 bp):
ACAAACCTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA
Found at i:87416452 original size:44 final size:44
Alignment explanation
Indices: 87416394--87416553 Score: 176
Period size: 44 Copynumber: 3.6 Consensus size: 44
87416384 CATAACAAAC
* * *
87416394 CTTATCTCCCTGAAGTTGAAATGGAGCAGGTTGAAGTTAGAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
* * * * ** **
87416438 CTTATCTCCATGAAGTTGCCGTGGAGCAGATTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
* * *
87416482 CTTATCTCCTTGAAATTGCAGTGGAGCAAGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
* *
87416526 CTTATCTCCCTGAAGTGGCATTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
87416554 TATTAAAGCG
Statistics
Matches: 91, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 91 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
Found at i:87416456 original size:85 final size:86
Alignment explanation
Indices: 87416353--87416541 Score: 245
Period size: 88 Copynumber: 2.2 Consensus size: 86
87416343 CGTAGCAAAC
* *
87416353 CTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA-ACAAACCTTATCTCCCTGAAGTTGAAATG
1 CTTATCTCCCTGAAGTTGCAGAAGAGCAGATCAAACACAAACCTTATCTCCCTGAAATTGAAATG
* *
87416417 GAGCAGGTTGAAGTTAGAAGT
66 GAGCAAGTTGAAGTTACAAGT
* * ** * * * *
87416438 CTTATCTCCATGAAGTTGCCGTGGAGCAGATTAAAGCCACAAACCTTATCTCCTTGAAATTGCAG
1 CTTATCTCCCTGAAGTTGCAGAAGAGCAGATCAAA--CACAAACCTTATCTCCCTGAAATTGAAA
87416503 TGGAGCAAGTTGAAGTTACAAGT
64 TGGAGCAAGTTGAAGTTACAAGT
87416526 CTTATCTCCCTGAAGT
1 CTTATCTCCCTGAAGT
87416542 GGCATTGGAG
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 29 0.33
88 59 0.67
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (86 bp):
CTTATCTCCCTGAAGTTGCAGAAGAGCAGATCAAACACAAACCTTATCTCCCTGAAATTGAAATG
GAGCAAGTTGAAGTTACAAGT
Found at i:87416515 original size:88 final size:88
Alignment explanation
Indices: 87416388--87416562 Score: 251
Period size: 88 Copynumber: 2.0 Consensus size: 88
87416378 GCAGATCATA
* * *
87416388 ACAAACCTTATCTCCCTGAAGTTGAAATGGAGCAGGTTGAAGTTAGAAGTCTTATCTCCATGAAG
1 ACAAACCTTATCTCCCTGAAATTGAAATGGAGCAAGTTGAAGTTACAAGTCTTATCTCCATGAAG
* *
87416453 TTGCCGTGGAGCAGATTAAAGCC
66 TGGCAGTGGAGCAGATTAAAGCC
* * * *
87416476 ACAAACCTTATCTCCTTGAAATTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAG
1 ACAAACCTTATCTCCCTGAAATTGAAATGGAGCAAGTTGAAGTTACAAGTCTTATCTCCATGAAG
* *
87416541 TGGCATTGGAGCATATTAAAGC
66 TGGCAGTGGAGCAGATTAAAGC
87416563 GAACTAATCC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (88 bp):
ACAAACCTTATCTCCCTGAAATTGAAATGGAGCAAGTTGAAGTTACAAGTCTTATCTCCATGAAG
TGGCAGTGGAGCAGATTAAAGCC
Found at i:87417986 original size:3 final size:3
Alignment explanation
Indices: 87417978--87418184 Score: 163
Period size: 3 Copynumber: 69.3 Consensus size: 3
87417968 ATTTTTGCTA
* * * *
87417978 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TAC CAT TAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
87418026 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAC TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * **
87418073 TAT TAT TAC TAC TAT TAT TAT TGC TAT TAT TTT TAT TAT TAT TGC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
87418121 TAT AAT TA- TAT T-T TCT TTT TGT GT-T TATT TACT TAT TAAT TAA T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TA-T TAT T-AT TAT TAT
*
87418166 TAT TAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
87418185 TTTCTTTTTT
Statistics
Matches: 162, Mismatches: 34, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
2 8 0.05
3 144 0.89
4 10 0.06
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:87418157 original size:54 final size:51
Alignment explanation
Indices: 87418099--87418217 Score: 132
Period size: 54 Copynumber: 2.2 Consensus size: 51
87418089 ATTATTGCTA
* *
87418099 TTATTTTTATTATTATTGCTATTATAATTATATTTTC-TTTTTGTGTTTATTTAC
1 TTATTTTTATTATTATTACTA-T-T-ATTAT-TTTTCTTTTTTGTATTTATTTAC
*
87418153 TTATTAATTAATTTATTATTACTATTATTATTTTTCTTTTTTGTATTTATTTAC
1 TTATT--TTTA-TTATTATTACTATTATTATTTTTCTTTTTTGTATTTATTTAC
*
87418207 TTATTATTATT
1 TTATTTTTATT
87418218 CTTTAAATAC
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
51 2 0.04
52 2 0.04
53 5 0.09
54 31 0.55
55 1 0.02
56 4 0.07
57 11 0.20
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.67
Consensus pattern (51 bp):
TTATTTTTATTATTATTACTATTATTATTTTTCTTTTTTGTATTTATTTAC
Found at i:87418347 original size:18 final size:18
Alignment explanation
Indices: 87418326--87418360 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87418316 TTGTAGCATT
*
87418326 ATTATTAATATTATTTTC
1 ATTATTAATAATATTTTC
*
87418344 ATTATTATTAATATTTT
1 ATTATTAATAATATTTT
87418361 AAAACTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTATTAATAATATTTTC
Found at i:87434254 original size:25 final size:24
Alignment explanation
Indices: 87434220--87434271 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 24
87434210 CACAAACGCA
87434220 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTGATAT-G
*
87434245 GCTCTTTATGAGCTTCCTGATATG
1 GCTCTTTATGAGCGTCCTGATATG
87434269 GCT
1 GCT
87434272 TACTTGAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTGATATG
Found at i:87434300 original size:23 final size:23
Alignment explanation
Indices: 87434228--87434308 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
87434218 CAGCTCTTTA
* **
87434228 TGAGCGTCCTGATATAGGCTCTTT
1 TGAGCTTCCTGATAT-GGCTCACT
*
87434252 ATGAGCTTCCTGATATGGCTTACT
1 -TGAGCTTCCTGATATGGCTCACT
* *
87434276 TGAGCTTTCTGATATGGCTCGCT
1 TGAGCTTCCTGATATGGCTCACT
*
87434299 TGAACTTCCT
1 TGAGCTTCCT
87434309 ATTATATGGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 28 0.60
24 5 0.11
25 14 0.30
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (23 bp):
TGAGCTTCCTGATATGGCTCACT
Found at i:87435201 original size:41 final size:41
Alignment explanation
Indices: 87435145--87435364 Score: 206
Period size: 41 Copynumber: 5.4 Consensus size: 41
87435135 AAAGATTATA
* * * * * *
87435145 CAAACGCCGCGAAAAATTGAACAATAGCGGCGTTCTTAGTC
1 CAAACGCCACTAAAAACTGAACAATAGCGGCGTTTTTGGCC
* * * *
87435186 CAAACTCCACTAAAAACTGAGCAATAGTGGTGTTTTTGGCC
1 CAAACGCCACTAAAAACTGAACAATAGCGGCGTTTTTGGCC
* * * ** *
87435227 CGAGCGCCACTAAAAACTGAACAATAGCCGTTTTTTTTGCC
1 CAAACGCCACTAAAAACTGAACAATAGCGGCGTTTTTGGCC
* * *
87435268 CAAACGACACTAAAAACTGAGCAATAGTGGCGTTTTTGGCC
1 CAAACGCCACTAAAAACTGAACAATAGCGGCGTTTTTGGCC
* * * ** *
87435309 CAAACGCCACTAAAAACTGATCAATAGCAGTGTTTTTATCT
1 CAAACGCCACTAAAAACTGAACAATAGCGGCGTTTTTGGCC
*
87435350 AAAACGCCACTAAAA
1 CAAACGCCACTAAAA
87435365 TGATTTAAAA
Statistics
Matches: 143, Mismatches: 36, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 143 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
CAAACGCCACTAAAAACTGAACAATAGCGGCGTTTTTGGCC
Found at i:87435293 original size:82 final size:82
Alignment explanation
Indices: 87435145--87435345 Score: 258
Period size: 82 Copynumber: 2.5 Consensus size: 82
87435135 AAAGATTATA
* * * * * * * * **
87435145 CAAACGCCGCGAAAAATTGAACAATAGCGGCGTTCTTAGTCCAAACTCCACTAAAAACTGAGCAA
1 CAAACGCCACTAAAAACTGAACAATAGCAGTGTTTTTTGCCCAAACGACACTAAAAACTGAGCAA
*
87435210 TAGTGGTGTTTTTGGCC
66 TAGTGGCGTTTTTGGCC
* * * *
87435227 CGAGCGCCACTAAAAACTGAACAATAGCCGTTTTTTTTGCCCAAACGACACTAAAAACTGAGCAA
1 CAAACGCCACTAAAAACTGAACAATAGCAGTGTTTTTTGCCCAAACGACACTAAAAACTGAGCAA
87435292 TAGTGGCGTTTTTGGCC
66 TAGTGGCGTTTTTGGCC
*
87435309 CAAACGCCACTAAAAACTGATCAATAGCAGTGTTTTT
1 CAAACGCCACTAAAAACTGAACAATAGCAGTGTTTTT
87435346 ATCTAAAACG
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 100 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (82 bp):
CAAACGCCACTAAAAACTGAACAATAGCAGTGTTTTTTGCCCAAACGACACTAAAAACTGAGCAA
TAGTGGCGTTTTTGGCC
Found at i:87435355 original size:82 final size:82
Alignment explanation
Indices: 87435193--87435364 Score: 247
Period size: 82 Copynumber: 2.1 Consensus size: 82
87435183 GTCCAAACTC
* * * *
87435193 CACTAAAAACTGAGCAATAGTGGTGTTTTTGGCCCGAGCGCCACTAAAAACTGAACAATAGCCGT
1 CACTAAAAACTGAGCAATAGTGGCGTTTTTGGCCCAAACGCCACTAAAAACTGAACAATAGCAGT
* *
87435258 TTTTTTTGCCCAAACGA
66 TTTTTATGCCAAAACGA
*
87435275 CACTAAAAACTGAGCAATAGTGGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCAGT
1 CACTAAAAACTGAGCAATAGTGGCGTTTTTGGCCCAAACGCCACTAAAAACTGAACAATAGCAGT
* *
87435340 GTTTTTAT-CTAAAACGC
66 -TTTTTATGCCAAAACGA
87435357 CACTAAAA
1 CACTAAAA
87435365 TGATTTAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 74 0.93
83 6 0.08
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (82 bp):
CACTAAAAACTGAGCAATAGTGGCGTTTTTGGCCCAAACGCCACTAAAAACTGAACAATAGCAGT
TTTTTATGCCAAAACGA
Found at i:87435769 original size:35 final size:35
Alignment explanation
Indices: 87435725--87435798 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
87435715 GGTTTTGAGA
* *
87435725 TTTAAGGTTCATAGTTTCGGG-TTTGTGGTTTAGGG
1 TTTAAGGTTCATAGCTT-GGGTTTTGAGGTTTAGGG
* * *
87435760 TTTATGGTTCATGGCTTGGGTTTTGAGGTTTTGGG
1 TTTAAGGTTCATAGCTTGGGTTTTGAGGTTTAGGG
87435795 TTTA
1 TTTA
87435799 GGATTTTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.12, C:0.05, G:0.34, T:0.49
Consensus pattern (35 bp):
TTTAAGGTTCATAGCTTGGGTTTTGAGGTTTAGGG
Found at i:87436727 original size:37 final size:37
Alignment explanation
Indices: 87436667--87436812 Score: 148
Period size: 37 Copynumber: 3.9 Consensus size: 37
87436657 ATTCCCCCAA
* * *
87436667 AACCCTATCTCCTCCACCACCTTCGCCCCGTGCATCGC
1 AACCC-ATCTCCTCCATCGCCTTCGCCCCATGCATCGC
* * * * *
87436705 AACCCATCTCCTTCGTCGCCTTCACCTCATGCATTGC
1 AACCCATCTCCTCCATCGCCTTCGCCCCATGCATCGC
** * ** * *
87436742 AACTAATCCCCTCCATTACCTTCGTCCCGTGCATCGC
1 AACCCATCTCCTCCATCGCCTTCGCCCCATGCATCGC
87436779 AACCCATCTCCTCCATCGCCTTCGCCCCATGCAT
1 AACCCATCTCCTCCATCGCCTTCGCCCCATGCAT
87436813 TTGCTGCATA
Statistics
Matches: 81, Mismatches: 27, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
37 76 0.94
38 5 0.06
ACGTcount: A:0.17, C:0.47, G:0.10, T:0.25
Consensus pattern (37 bp):
AACCCATCTCCTCCATCGCCTTCGCCCCATGCATCGC
Found at i:87438771 original size:8 final size:9
Alignment explanation
Indices: 87438676--87438836 Score: 116
Period size: 9 Copynumber: 17.6 Consensus size: 9
87438666 GTTGATTCAA
*
87438676 ATAACTCAC
1 ATAACTTAC
87438685 ATAACTTAC
1 ATAACTTAC
87438694 ATAACTTA-
1 ATAACTTAC
*
87438702 ATAACTTAT
1 ATAACTTAC
87438711 AT-A--TATC
1 ATAACTTA-C
*
87438718 ATATCTTGGATAC
1 ATAAC-T---TAC
87438731 ATAACTTAC
1 ATAACTTAC
* *
87438740 ATATCTCAC
1 ATAACTTAC
87438749 ATAACTTAC
1 ATAACTTAC
87438758 ATAACTTA-
1 ATAACTTAC
*
87438766 ATAACTTAT
1 ATAACTTAC
*
87438775 ATATATCGTATC
1 ATA-A-CTTA-C
87438787 ATAACTTAC
1 ATAACTTAC
*
87438796 ATACCTTAC
1 ATAACTTAC
*
87438805 ATACCTTAC
1 ATAACTTAC
**
87438814 ATAACACAC
1 ATAACTTAC
87438823 ATAACTTAC
1 ATAACTTAC
87438832 ATAAC
1 ATAAC
87438837 AACTTACCCG
Statistics
Matches: 122, Mismatches: 17, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 17 0.14
9 82 0.67
10 4 0.03
11 4 0.03
12 4 0.03
13 5 0.04
14 2 0.02
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:87438781 original size:64 final size:64
Alignment explanation
Indices: 87438680--87438836 Score: 208
Period size: 64 Copynumber: 2.4 Consensus size: 64
87438670 ATTCAAATAA
* * *
87438680 CTCACATAACTTACATAACTTAATAACTTATATATATCATATCTTGGA-TACATAACTTACATAT
1 CTCACATAACTTACATAACTTAATAACTTATATATATCATATCAT-AACTACATAACTTACATAC
* *
87438744 CTCACATAACTTACATAACTTAATAACTTATATATATCGTATCATAACTTACATACCTTACATAC
1 CTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAAC-TACATAACTTACATAC
* **
87438809 CTTACATAACACACATAACTTACATAAC
1 CTCACATAACTTACATAACTTA-ATAAC
87438837 AACTTACCCG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 1 0.01
64 43 0.52
65 33 0.40
66 5 0.06
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.34
Consensus pattern (64 bp):
CTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTACATAACTTACATAC
Found at i:87438792 original size:56 final size:61
Alignment explanation
Indices: 87438680--87438818 Score: 180
Period size: 56 Copynumber: 2.3 Consensus size: 61
87438670 ATTCAAATAA
*
87438680 CTCACATAACTTACATAACTTAATAACTTATATATATCATATCTTGGATACATAACTTACATAT
1 CTCACATAACTTACATAACTTAATAAC-T-TATATATCATATC-TGGATACATAACTTACATAC
*
87438744 CTCACATAACTTACATAACTTAATAAC-T-TATAT-ATATC-GTAT-CATAACTTACATAC
1 CTCACATAACTTACATAACTTAATAACTTATATATCATATCTGGATACATAACTTACATAC
* *
87438800 CTTACATACCTTACATAAC
1 CTCACATAACTTACATAAC
87438819 ACACATAACT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
56 30 0.42
57 3 0.04
59 5 0.07
60 5 0.07
61 1 0.01
64 27 0.38
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (61 bp):
CTCACATAACTTACATAACTTAATAACTTATATATCATATCTGGATACATAACTTACATAC
Found at i:87441259 original size:13 final size:13
Alignment explanation
Indices: 87441241--87441269 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
87441231 TTTAGTTTAA
87441241 TTAGTTAATTAGT
1 TTAGTTAATTAGT
87441254 TTAGTTAATTAGT
1 TTAGTTAATTAGT
87441267 TTA
1 TTA
87441270 ATAAGCAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:87442233 original size:31 final size:27
Alignment explanation
Indices: 87442176--87442231 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
87442166 AGAAAAGGTG
87442176 TTAATTTATTTCAAACCTATTCATTCA
1 TTAATTTATTTCAAACCTATTCATTCA
*
87442203 TTAATTTATTTCAAACCTATTTATTCA
1 TTAATTTATTTCAAACCTATTCATTCA
87442230 TT
1 TT
87442232 CACCTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAATTTATTTCAAACCTATTCATTCA
Found at i:87444825 original size:13 final size:14
Alignment explanation
Indices: 87444809--87444837 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87444799 TTATAAATAT
87444809 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
87444822 TTATAATGGTTTAA
1 TTATAATGGTTTAA
87444836 TT
1 TT
87444838 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:87446244 original size:35 final size:35
Alignment explanation
Indices: 87446198--87446302 Score: 133
Period size: 35 Copynumber: 3.0 Consensus size: 35
87446188 TAGACGTTTA
*
87446198 AAAAAGGTTGGGATAGAGCCGTCTAAGGTAACCTT
1 AAAAAGGTTGGGATAGAGCCGTCTAAGGCAACCTT
**
87446233 AAAAAGGTTGGGATAGA-CTCGTCTAAGGCAATTTT
1 AAAAAGGTTGGGATAGAGC-CGTCTAAGGCAACCTT
* *
87446268 GAAAAGGTTGGGATAG-GCCCGTCTATGGCAACCTT
1 AAAAAGGTTGGGATAGAG-CCGTCTAAGGCAACCTT
87446303 TTGATATATT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 1 0.02
35 58 0.97
36 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGAGCCGTCTAAGGCAACCTT
Found at i:87448233 original size:13 final size:13
Alignment explanation
Indices: 87448215--87448243 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
87448205 TTTAGTTTAA
87448215 TTAGTTAATTAGT
1 TTAGTTAATTAGT
87448228 TTAGTTAATTAGT
1 TTAGTTAATTAGT
87448241 TTA
1 TTA
87448244 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:87453750 original size:16 final size:16
Alignment explanation
Indices: 87453729--87453759 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87453719 GATATTTTAA
87453729 TATATTATATTAATAT
1 TATATTATATTAATAT
*
87453745 TATATTATGTTAATA
1 TATATTATATTAATA
87453760 AATAATAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:87453855 original size:12 final size:12
Alignment explanation
Indices: 87453838--87453867 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
87453828 GAAGCAGGGG
87453838 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
87453850 AGAAAAAGGGAA
1 AGAAAAAGAGAA
87453862 AGAAAA
1 AGAAAA
87453868 TAAAAGAGAA
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:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:87460075 original size:39 final size:40
Alignment explanation
Indices: 87460032--87460116 Score: 127
Period size: 39 Copynumber: 2.1 Consensus size: 40
87460022 ATGAAAAATG
87460032 CCGCTAAAGAACGAGCATTAGCGGCGC-TTTTCAAAAACA
1 CCGCTAAAGAACGAGCATTAGCGGCGCTTTTTCAAAAACA
* * * *
87460071 CCGCTAAAGATCGAGTATTAGCGGCGCTTTTTTAAAAACG
1 CCGCTAAAGAACGAGCATTAGCGGCGCTTTTTCAAAAACA
87460111 CCGCTA
1 CCGCTA
87460117 TATGTACACC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 25 0.61
40 16 0.39
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (40 bp):
CCGCTAAAGAACGAGCATTAGCGGCGCTTTTTCAAAAACA
Found at i:87460132 original size:40 final size:40
Alignment explanation
Indices: 87460088--87460194 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
87460078 AGATCGAGTA
87460088 TTAGCGGCGCTTTTTTAAAAACGCCGCTATATG-TACACCT
1 TTAGCGGCGCTTTTTTAAAAACGCCGCTA-ATGCTACACCT
* * * *
87460128 TTAGCGGCAC-TTTTTAGAAAATGCCGCTAATGCTTCATCT
1 TTAGCGGCGCTTTTTTA-AAAACGCCGCTAATGCTACACCT
*
87460168 TTAGCGGCG-TTTTTCAAAAAACGCCGC
1 TTAGCGGCGCTTTTT-TAAAAACGCCGC
87460195 AAAAGAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 9 0.16
40 46 0.82
41 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTTAAAAACGCCGCTAATGCTACACCT
Found at i:87460490 original size:14 final size:14
Alignment explanation
Indices: 87460463--87460593 Score: 79
Period size: 14 Copynumber: 9.1 Consensus size: 14
87460453 TAAGGTTTTT
87460463 GGATTATGGGTTTAG
1 GGATTAT-GGTTTAG
87460478 GGATTATGGTTTAAG
1 GGATTATGGTTT-AG
** *
87460493 GG-TTGGGGTTTAA
1 GGATTATGGTTTAG
*
87460506 GGTTTA-GGTGTTAG
1 GGATTATGGT-TTAG
* *
87460520 GGGTTCATGGTTCAG
1 GGATT-ATGGTTTAG
* *
87460535 GGTTTATGTTTTA-
1 GGATTATGGTTTAG
*
87460548 AGATTTATGGTTTAG
1 GGA-TTATGGTTTAG
*
87460563 GGGTTATGGTTTAG
1 GGATTATGGTTTAG
* *
87460577 AGATTAGGAGTTTAG
1 GGATTATG-GTTTAG
87460592 GG
1 GG
87460594 TTTAGATTAA
Statistics
Matches: 89, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
13 7 0.08
14 52 0.58
15 27 0.30
16 3 0.03
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (14 bp):
GGATTATGGTTTAG
Found at i:87460502 original size:28 final size:28
Alignment explanation
Indices: 87460470--87460597 Score: 98
Period size: 28 Copynumber: 4.5 Consensus size: 28
87460460 TTTGGATTAT
* *
87460470 GGGTTTAGGGATTATGGTTTAAGGGTTG
1 GGGTTTAGGGTTTATGGTTTAAGGGTTA
* *
87460498 GGGTTTAAGGTTTA-GGTGTTAGGGGTTCA
1 GGGTTTAGGGTTTATGGT-TTAAGGGTT-A
* * * **
87460527 TGGTTCAGGGTTTATGTTTTAAGATTTA
1 GGGTTTAGGGTTTATGGTTTAAGGGTTA
* * *
87460555 TGGTTTAGGGGTTATGGTTT-AGAGATTA
1 GGGTTTAGGGTTTATGGTTTAAG-GGTTA
87460583 GGAGTTTAGGGTTTA
1 GG-GTTTAGGGTTTA
87460598 GATTAATTAG
Statistics
Matches: 77, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
27 5 0.06
28 42 0.55
29 28 0.36
30 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.42
Consensus pattern (28 bp):
GGGTTTAGGGTTTATGGTTTAAGGGTTA
Found at i:87460583 original size:21 final size:22
Alignment explanation
Indices: 87460559--87460599 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
87460549 GATTTATGGT
*
87460559 TTAGG-GGTTATGGTTTAGAGA
1 TTAGGAGGTTAGGGTTTAGAGA
*
87460580 TTAGGAGTTTAGGGTTTAGA
1 TTAGGAGGTTAGGGTTTAGA
87460600 TTAATTAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (22 bp):
TTAGGAGGTTAGGGTTTAGAGA
Found at i:87460596 original size:7 final size:7
Alignment explanation
Indices: 87460470--87460598 Score: 64
Period size: 7 Copynumber: 18.1 Consensus size: 7
87460460 TTTGGATTAT
87460470 GGGTTTA
1 GGGTTTA
*
87460477 GGGATTA
1 GGGTTTA
*
87460484 TGGTTTAA
1 GGGTTT-A
*
87460492 GGG-TTG
1 GGGTTTA
87460498 GGGTTTA
1 GGGTTTA
*
87460505 AGGTTTA
1 GGGTTTA
87460512 -GGTGTTA
1 GGGT-TTA
*
87460519 GGGGTTCA
1 -GGGTTTA
* *
87460527 TGGTTCA
1 GGGTTTA
87460534 GGGTTTA
1 GGGTTTA
* *
87460541 TGTTTTA
1 GGGTTTA
* *
87460548 AGATTTA
1 GGGTTTA
*
87460555 TGGTTTA
1 GGGTTTA
*
87460562 GGGGTTA
1 GGGTTTA
*
87460569 TGGTTTA
1 GGGTTTA
* *
87460576 GAGATTA
1 GGGTTTA
87460583 GGAGTTTA
1 GG-GTTTA
87460591 GGGTTTA
1 GGGTTTA
87460598 G
1 G
87460599 ATTAATTAGT
Statistics
Matches: 90, Mismatches: 26, Indels: 12
0.70 0.20 0.09
Matches are distributed among these distances:
6 6 0.07
7 70 0.78
8 11 0.12
9 3 0.03
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:87460713 original size:7 final size:7
Alignment explanation
Indices: 87460692--87460801 Score: 55
Period size: 7 Copynumber: 15.4 Consensus size: 7
87460682 TTAATTATCA
*
87460692 TTATAGT
1 TTATGGT
*
87460699 TTAGGGT
1 TTATGGT
87460706 TTATGGT
1 TTATGGT
*
87460713 TTAGGGT
1 TTATGGT
*
87460720 ATATGGT
1 TTATGGT
*
87460727 TTAGGGT
1 TTATGGT
**
87460734 TTAAAGT
1 TTATGGT
*
87460741 GTATGAGT
1 TTATG-GT
87460749 TACTAT--T
1 T--TATGGT
*
87460756 TTAAGGT
1 TTATGGT
*
87460763 TTATGGA
1 TTATGGT
87460770 TTATGGGT
1 TTAT-GGT
*
87460778 TTAAT-GA
1 TT-ATGGT
87460785 TTATGGT
1 TTATGGT
87460792 TTATGGT
1 TTATGGT
87460799 TTA
1 TTA
87460802 AGGGTTGGTT
Statistics
Matches: 75, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 60 0.80
8 6 0.08
9 2 0.03
10 3 0.04
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:87460714 original size:14 final size:14
Alignment explanation
Indices: 87460692--87460736 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
87460682 TTAATTATCA
*
87460692 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
87460706 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
87460720 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
87460734 TTA
1 TTA
87460737 AAGTGTATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:87460780 original size:15 final size:15
Alignment explanation
Indices: 87460760--87460807 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
87460750 ACTATTTTAA
87460760 GGTTTATGGATTATG
1 GGTTTATGGATTATG
87460775 GGTTTAAT-GATTAT-
1 GGTTT-ATGGATTATG
* *
87460789 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
87460804 GGTT
1 GGTT
87460808 GGTTTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:87460780 original size:22 final size:21
Alignment explanation
Indices: 87460755--87460804 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
87460745 GAGTTACTAT
*
87460755 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
87460777 TTTAATGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
87460798 TTTAAGG
1 TTTAAGG
87460805 GTTGGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:87461571 original size:6 final size:7
Alignment explanation
Indices: 87461554--87461579 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87461544 AATCTTCAAA
87461554 AAAAATT
1 AAAAATT
87461561 AAAAATT
1 AAAAATT
87461568 AAAAATT
1 AAAAATT
87461575 AAAAA
1 AAAAA
87461580 ACTTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:87464577 original size:20 final size:22
Alignment explanation
Indices: 87464552--87464592 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
87464542 AAGAATATTT
87464552 TTCCTT-C-CTAATTTTCTTAG
1 TTCCTTACTCTAATTTTCTTAG
*
87464572 TTCCTTACTCTAGTTTTCTTA
1 TTCCTTACTCTAATTTTCTTA
87464593 TTACAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (22 bp):
TTCCTTACTCTAATTTTCTTAG
Found at i:87464660 original size:7 final size:7
Alignment explanation
Indices: 87464648--87464681 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
87464638 AGAAAAAAAA
87464648 TATTTAT
1 TATTTAT
87464655 TATTTAT
1 TATTTAT
87464662 TATTT-T
1 TATTTAT
87464668 TATTTTAT
1 TA-TTTAT
87464676 TATTTA
1 TATTTA
87464682 GAAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 19 0.76
8 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTTAT
Found at i:87466549 original size:43 final size:42
Alignment explanation
Indices: 87466496--87466650 Score: 197
Period size: 43 Copynumber: 3.7 Consensus size: 42
87466486 CGTTCGTAAC
* * *
87466496 AAAAGTGCTGCTAAAGGTCATGGTCTTTAGCGGCCTTTGTGAG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGG-CTTTGTGAG
* * *
87466539 AAAAGCGCTGCTAAAGGTCATGGTCTTTAGTGGTATTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGG-CTTTGTGAG
*
87466582 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCTTT-T-TG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCTTTGTGAG
* *
87466622 AAAAGCGCCGTTAAAAGTCATGGTCTTTA
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTA
87466651 ATAGCGTTTG
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
40 28 0.27
41 1 0.01
42 3 0.03
43 70 0.69
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCTTTGTGAG
Found at i:87466600 original size:86 final size:83
Alignment explanation
Indices: 87466496--87466650 Score: 220
Period size: 86 Copynumber: 1.8 Consensus size: 83
87466486 CGTTCGTAAC
* * * *
87466496 AAAAGTGCTGCTAAAGGTCATGGTCTTTAGCGGCCTTTGTGAGAAAAGCGCTGCTAAAGGTCATG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG-CTTT-T-AGAAAAGCGCCGCTAAAAGTCATG
87466561 GTCTTTAGTGGTATTTGTGGG
63 GTCTTTAGTGGTATTTGTGGG
* * *
87466582 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCTTTTTGAAAAGCGCCGTTAAAAGTCATGGTC
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCTTTTAGAAAAGCGCCGCTAAAAGTCATGGTC
87466647 TTTA
66 TTTA
87466651 ATAGCGTTTG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 27 0.44
84 1 0.02
85 4 0.06
86 30 0.48
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (83 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCTTTTAGAAAAGCGCCGCTAAAAGTCATGGTC
TTTAGTGGTATTTGTGGG
Found at i:87468722 original size:21 final size:21
Alignment explanation
Indices: 87468696--87468735 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
87468686 CCAACGTGGT
*
87468696 AAGTTAATTGGTTACATCAAC
1 AAGTTAATTGGTCACATCAAC
87468717 AAGTTAATTGGTCACATCA
1 AAGTTAATTGGTCACATCA
87468736 CCTATTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
AAGTTAATTGGTCACATCAAC
Found at i:87468852 original size:30 final size:29
Alignment explanation
Indices: 87468801--87468857 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
87468791 TTAAATAACG
*
87468801 TTAATAACTAATATGTTATTTTTCTAAAGT
1 TTAATAACTAATATG-TAATTTTCTAAAGT
*
87468831 TTAATAATTAA-ATTGTAATTTTCTAAA
1 TTAATAACTAATA-TGTAATTTTCTAAA
87468858 AATTGAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (29 bp):
TTAATAACTAATATGTAATTTTCTAAAGT
Found at i:87472653 original size:21 final size:21
Alignment explanation
Indices: 87472615--87472655 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
87472605 AGACAAGCAA
* *
87472615 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
*
87472636 TACTCCAAAACAGTTGGAGT
1 TACTCCAAAACAGGTGGAGT
87472656 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:87475377 original size:96 final size:95
Alignment explanation
Indices: 87475270--87475457 Score: 288
Period size: 96 Copynumber: 2.0 Consensus size: 95
87475260 CTATATCTAT
* * * *
87475270 ATATATGTAATGAGTAACTAAGCTTTACTCTTATAGTATTCAATATGTTATCCAGATTGTT-GCA
1 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATATTATCCAGATTATTAG-A
*
87475334 ACAAAATGGGGGCATCGCCTAACATTTCGGTC
65 ACAAAATGGGGACATCGCCTAAC-TTTCGGTC
87475366 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATATTATCCAGATTATTAGAA
1 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATATTATCCAGATTATTAGAA
* *
87475431 CAAAATGGGGATATCGCCTTACTTTCG
66 CAAAATGGGGACATCGCCTAACTTTCG
87475458 ATTATCGCTT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
95 5 0.06
96 78 0.93
97 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (95 bp):
ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATATTATCCAGATTATTAGAA
CAAAATGGGGACATCGCCTAACTTTCGGTC
Found at i:87490579 original size:43 final size:43
Alignment explanation
Indices: 87490529--87490637 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
87490519 CGGAATTTCA
** *
87490529 CCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAG
1 CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
* *** *
87490572 CCTGCTAGGCCCGAAACTTTATATTATCTCACCGGCATTATAG
1 CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
87490615 CCTGCTAGGCCCGAAGCCCGATA
1 CCTGCTAGGCCCGAAGCCCGATA
87490638 ATATTATTCA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (43 bp):
CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
Found at i:87495078 original size:17 final size:17
Alignment explanation
Indices: 87495058--87495116 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
87495048 TTTACTATTA
87495058 TTTTTATTTTTATTTAT
1 TTTTTATTTTTATTTAT
*
87495075 TTTTTATTATTATTTAAAT
1 TTTTTATTTTTATTT--AT
*
87495094 TTTATCATCTTTTATTTAT
1 TTT-TTAT-TTTTATTTAT
87495113 TTTT
1 TTTT
87495117 AAGACTTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 14 0.40
18 1 0.03
19 10 0.29
20 3 0.09
21 7 0.20
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTTATTTAT
Found at i:87495510 original size:39 final size:39
Alignment explanation
Indices: 87495456--87495536 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
87495446 AATTTTCTGA
*
87495456 TATCATTATTGGAGTAAATTTTGATTGATTTATGATTCT
1 TATCATTATTGGAGTAAATTTTGATTGATTAATGATTCT
87495495 TATCATTATTGGAGTAAATTTTGATTGATTAATGATTCT
1 TATCATTATTGGAGTAAATTTTGATTGATTAATGATTCT
87495534 TAT
1 TAT
87495537 TGATATGTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.51
Consensus pattern (39 bp):
TATCATTATTGGAGTAAATTTTGATTGATTAATGATTCT
Found at i:87504742 original size:172 final size:169
Alignment explanation
Indices: 87504211--87504787 Score: 566
Period size: 172 Copynumber: 3.4 Consensus size: 169
87504201 CCTTAAGTCA
* *
87504211 TAGTATAATGGTGAGTATTCCCGCCTGTCA-GCGGGTGACCCGGGTTTGATCACCGGCAACGG-T
1 TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATC-CCGGCAACGGCT
* * * * *
87504274 GAATATTATATTTCCTAATATTTTCAAATAAAATTTTTGGAGTTCTAGACAAACTACAGATATTG
65 -AGTGTTAT-TTTCCTAAAATTTTCAAATAAAGTTTTTGGAG-T-TAGACAAACT-CAGATATTA
* * * * *
87504339 CATGGGAAAAATATT--AGAACT-ACTAAAAATCAACAAGTC---G
125 CATGAGAGAAATATTAAAGAACTAATTGAAAATCAA-TAGTCGTTG
* * * * *
87504379 TAGTATAGTGGTGAGTGTTCCCGCCTGTCACGAGGGTGACCGGGGTTCGATCCCGGCTACAGCGT
1 TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCCCGGCAACGGC-T
* * *
87504444 -GTGCTATTTTCTTAAAATTTTCAAATAAAGTTTTTGGAGTTCTTGACAAACTCTAGATATTACA
65 AGTGTTATTTTCCTAAAATTTTCAAATAAAGTTTTTGGAG-T-TAGACAAACTC-AGATATTACA
* * * * **
87504508 TGAGAGAAATA-TAAAAAAC-ACTGCCGAAAGTCTGTTAGTCGTTG
127 TGAGAGAAATATTAAAGAACTAAT--TGAAAATC-AATAGTCGTTG
* * * * *
87504552 TAGAATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGATTCGATCCTCCGCAACGGCT
1 TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCC-CGGCAACGGCT
* * * *
87504617 AGTGTTATTTTCCTAAAATATTTCAAGTAAAGTTTTCGGAG-TGGACAAACTCGAGATTTTACAT
65 AGTGTTATTTTCCTAAAAT-TTTCAAATAAAGTTTTTGGAGTTAGACAAACTC-AGATATTACAT
*
87504681 GAGAGAAATATTAAAGAACTAATTGAAATTCAATAGGTCGTTG
128 GAGAGAAATATTAAAGAACTAATTGAAAATCAATA-GTCGTTG
*
87504724 TAGTATAATGGCGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCCCAGGCAACGGC
1 TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCCC-GGCAACGGC
87504788 GTTTAGATTT
Statistics
Matches: 336, Mismatches: 53, Indels: 36
0.79 0.12 0.08
Matches are distributed among these distances:
166 2 0.01
167 59 0.18
168 44 0.13
169 18 0.05
170 10 0.03
171 3 0.01
172 99 0.29
173 57 0.17
174 25 0.07
175 19 0.06
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (169 bp):
TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCCCGGCAACGGCTA
GTGTTATTTTCCTAAAATTTTCAAATAAAGTTTTTGGAGTTAGACAAACTCAGATATTACATGAG
AGAAATATTAAAGAACTAATTGAAAATCAATAGTCGTTG
Found at i:87512537 original size:100 final size:100
Alignment explanation
Indices: 87512364--87512566 Score: 352
Period size: 100 Copynumber: 2.0 Consensus size: 100
87512354 CGGACAGTTG
87512364 CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGAAAAGTAGCAAATAAGGTAGCT
1 CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGAAAAGTAGCAAATAAGGTAGCT
87512429 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
66 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
* * * * *
87512464 CTGCTCTATCTACACAACCAAGGAAGCTTAGTAAAGATGTAAGAAAAGTAGCAATTAAGTTAGCT
1 CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGAAAAGTAGCAAATAAGGTAGCT
*
87512529 ACTCTTCCATGATTCTCTCTTGTTTAAACGTTTAA
66 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
87512564 CTG
1 CTG
87512567 TTGTTGATCG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (100 bp):
CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGAAAAGTAGCAAATAAGGTAGCT
ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
Found at i:87514429 original size:20 final size:20
Alignment explanation
Indices: 87514401--87514440 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
87514391 TTAGTGCTGT
87514401 ACAGAGGCACCGAAATGCAA
1 ACAGAGGCACCGAAATGCAA
* *
87514421 ACAGTGGCACCGAAGTGCAA
1 ACAGAGGCACCGAAATGCAA
87514441 TCTCGTACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.28, T:0.07
Consensus pattern (20 bp):
ACAGAGGCACCGAAATGCAA
Found at i:87521730 original size:11 final size:11
Alignment explanation
Indices: 87521709--87521737 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
87521699 TCTTTTTAAG
87521709 AAAAT-AAAAT
1 AAAATAAAAAT
87521719 AAAATAAAAAT
1 AAAATAAAAAT
87521730 AAAATAAA
1 AAAATAAA
87521738 GAACACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:87526365 original size:8 final size:8
Alignment explanation
Indices: 87526356--87526410 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
87526346 ATACTAAATA
*
87526356 AAATAATA
1 AAATAATT
87526364 AAAT-ATT
1 AAATAATT
*
87526371 AAATAAAT
1 AAATAATT
87526379 -AATAATT
1 AAATAATT
**
87526386 ATCTAATT
1 AAATAATT
87526394 AAATAATT
1 AAATAATT
87526402 AAATAATT
1 AAATAATT
87526410 A
1 A
87526411 TAAAATATCA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 12 0.32
8 26 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATAATT
Found at i:87526380 original size:19 final size:19
Alignment explanation
Indices: 87526344--87526406 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
87526334 ACACATATAT
87526344 ATATACTAAATAAAATAATAAA
1 ATAT-CTAAAT-AAATAAT-AA
87526366 ATAT-TAAATAAATAATAA
1 ATATCTAAATAAATAATAA
* *
87526384 TTATCTAATTAAATAATTAA
1 ATATCTAAATAAATAA-TAA
87526404 ATA
1 ATA
87526407 ATTATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 5 0.14
19 17 0.47
20 10 0.28
22 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATCTAAATAAATAATAA
Found at i:87526408 original size:16 final size:16
Alignment explanation
Indices: 87526356--87526410 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 16
87526346 ATACTAAATA
*
87526356 AAATAATAAAAT-ATT
1 AAATAATTAAATAATT
*
87526371 AAATAAAT-AATAATT
1 AAATAATTAAATAATT
**
87526386 ATCTAATTAAATAATT
1 AAATAATTAAATAATT
87526402 AAATAATTA
1 AAATAATTA
87526411 TAAAATATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 3 0.10
15 14 0.45
16 14 0.45
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATTAAATAATT
Found at i:87529145 original size:46 final size:45
Alignment explanation
Indices: 87529093--87529342 Score: 277
Period size: 46 Copynumber: 5.4 Consensus size: 45
87529083 TGCTATAGTG
* * * *
87529093 TCTTTCAACTATGGTCTTACTTATTTTC-TGTCAAGGTGCCATGGAA
1 TCTTTCAACCATGGTCTTA-TTA-TTTCATGTCATGTTGCCATGGTA
* ** *
87529139 TCTTTCAACCAAGGTCTTATTCATTTTCCCGTCATGTTGCCATGTTA
1 TCTTTCAACCATGGTCTTATT-A-TTTCATGTCATGTTGCCATGGTA
*
87529186 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATT-ATTTCATGTCATGTTGCCATGGTA
* ** * *
87529232 TCTTTCAACCATGGTTTTACACATTTCATATCATGTTGCCATGTTA
1 TCTTTCAACCATGGTCTTA-TTATTTCATGTCATGTTGCCATGGTA
* *
87529278 TCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTAT-TATTTCATGTCATGTTGCCATGGTA
*
87529324 TCTTTCAAACATGGTCTTA
1 TCTTTCAACCATGGTCTTA
87529343 CACATTTGAA
Statistics
Matches: 178, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
45 2 0.01
46 141 0.79
47 35 0.20
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (45 bp):
TCTTTCAACCATGGTCTTATTATTTCATGTCATGTTGCCATGGTA
Found at i:87529283 original size:25 final size:25
Alignment explanation
Indices: 87529255--87529330 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
87529245 GTTTTACACA
87529255 TTTCATATCATGTTGCCATGTTATC
1 TTTCATATCATGTTGCCATGTTATC
* *
87529280 TTTCA-ACCATG--G---TCTTATAC
1 TTTCATATCATGTTGCCATGTTAT-C
*
87529300 ATTTCATATCATGTTGCCATGGTATC
1 -TTTCATATCATGTTGCCATGTTATC
87529326 TTTCA
1 TTTCA
87529331 AACATGGTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 16
0.64 0.08 0.27
Matches are distributed among these distances:
19 5 0.13
20 1 0.03
21 5 0.13
22 6 0.16
24 6 0.16
25 10 0.26
26 1 0.03
27 4 0.11
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGTTATC
Found at i:87529297 original size:92 final size:92
Alignment explanation
Indices: 87529093--87529349 Score: 338
Period size: 92 Copynumber: 2.8 Consensus size: 92
87529083 TGCTATAGTG
* * * *
87529093 TCTTTCAACTATGGTCTTACTT-ATTTTC-TGTCAAGGTGCCATGGAATCTTTCAACCAAGGTCT
1 TCTTTCAACCATGGTCTTA-TTCA-TTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCT
** * *
87529156 TATTCATTTTCCCGTCATGTTGCCATGTTA
64 TACACA-TTTCACATCATGTTGCCATGTTA
* *
87529186 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTTTTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
87529251 CACATTTCATATCATGTTGCCATGTTA
66 CACATTTCACATCATGTTGCCATGTTA
* * * *
87529278 TCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAAACATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTA
87529343 CACATTT
66 CACATTT
87529350 GAATCGCGAT
Statistics
Matches: 146, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
92 93 0.64
93 53 0.36
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCACATCATGTTGCCATGTTA
Found at i:87529348 original size:46 final size:46
Alignment explanation
Indices: 87529129--87529349 Score: 298
Period size: 46 Copynumber: 4.8 Consensus size: 46
87529119 TCTGTCAAGG
* * * ***
87529129 TGCCATGGAATCTTTCAACCAAGGTCTTATTCATTTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACA-TTTCATATCATGT
* * * *
87529176 TGCCATGTTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
* *
87529222 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
*
87529268 TGCCATGTTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
* *
87529314 TGCCATGGTATCTTTCAAACATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTT
87529350 GAATCGCGAT
Statistics
Matches: 156, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
46 126 0.81
47 30 0.19
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
Found at i:87529434 original size:45 final size:45
Alignment explanation
Indices: 87529334--87529434 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
87529324 TCTTTCAAAC
* * *
87529334 ATGGTCTTACACATTTGAATCGCGATGCCATAGCGTCTTTCAGCT
1 ATGGTCTTACTCATCTGAATCGCGATGCCATAGCATCTTTCAGCT
* * *
87529379 ATGGTCTTACTCGTCTGAATCGTGATGCTATAGCATCTTTCAGCT
1 ATGGTCTTACTCATCTGAATCGCGATGCCATAGCATCTTTCAGCT
87529424 ATGGTCTTACT
1 ATGGTCTTACT
87529435 TATTTTCTGG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (45 bp):
ATGGTCTTACTCATCTGAATCGCGATGCCATAGCATCTTTCAGCT
Found at i:87529502 original size:33 final size:33
Alignment explanation
Indices: 87529450--87529605 Score: 102
Period size: 33 Copynumber: 4.7 Consensus size: 33
87529440 TCTGGTATGA
* * * *
87529450 TGCCATAGTCCAACTATGGTCTTACACGT-GTAT
1 TGCCATAGCCCAGCCATGGTCTTACAC-TCATAT
* * * **
87529483 TGCCATGGCCTAGCCATGGTCTTACACTCGTGG
1 TGCCATAGCCCAGCCATGGTCTTACACTCATAT
* ** * * *
87529516 TGCCATATCCCAGATATGGTTTTATCA-TCAAAA
1 TGCCATAGCCCAGCCATGGTCTTA-CACTCATAT
* *
87529549 TGCCATAGCCTAGCTATGGTCTTACACAT-ATAT
1 TGCCATAGCCCAGCCATGGTCTTACAC-TCATAT
*
87529582 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
87529606 TCCGTCAATT
Statistics
Matches: 93, Mismatches: 26, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
32 3 0.03
33 87 0.94
34 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACTCATAT
Found at i:87532866 original size:20 final size:20
Alignment explanation
Indices: 87532843--87532896 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
87532833 AAATATGTAC
87532843 TAAATAAAATAATAAAATAA
1 TAAATAAAATAATAAAATAA
*** * *
87532863 TAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAA
87532883 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
87532897 TTATCTAATT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAAATAATAAAATAA
Found at i:87534015 original size:45 final size:45
Alignment explanation
Indices: 87533965--87534055 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
87533955 ATAACAAGGG
87533965 AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
1 AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
87534010 AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
1 AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
87534055 A
1 A
87534056 CCCTTTTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (45 bp):
AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
Found at i:87539124 original size:44 final size:42
Alignment explanation
Indices: 87539039--87539126 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 42
87539029 TTTAAAATAA
* *
87539039 AATAAAAGTTGTGATAATTACATTTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTACAGTTAAAAATAATTAGAATTT
*
87539081 AATAGAAA-TTGTGATAATTACACAGTTAAAAATATTTAGAATTT
1 AATA-AAAGTTGTGATAATT--ACAGTTAAAAATAATTAGAATTT
87539125 AA
1 AA
87539127 ATTATAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 15 0.38
43 3 0.08
44 22 0.55
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (42 bp):
AATAAAAGTTGTGATAATTACAGTTAAAAATAATTAGAATTT
Found at i:87539326 original size:79 final size:80
Alignment explanation
Indices: 87539243--87539397 Score: 294
Period size: 79 Copynumber: 1.9 Consensus size: 80
87539233 TCATATATGT
87539243 AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
1 AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
*
87539308 TAGT-TAATTAGTGC
66 TACTGTAATTAGTGC
87539322 AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
1 AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
87539387 TACTGTAATTA
66 TACTGTAATTA
87539398 AAAATATAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
79 68 0.92
80 6 0.08
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (80 bp):
AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
TACTGTAATTAGTGC
Found at i:87546665 original size:11 final size:11
Alignment explanation
Indices: 87546645--87546678 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
87546635 TTATTAAAAC
87546645 TAAA-AATTTT
1 TAAATAATTTT
87546655 TAAATAA-TTT
1 TAAATAATTTT
87546665 TAAATAATTTT
1 TAAATAATTTT
87546676 TAA
1 TAA
87546679 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAAATAATTTT
Found at i:87551473 original size:18 final size:16
Alignment explanation
Indices: 87551450--87551489 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
87551440 CAAAATGCAG
87551450 TAAAAAAATAATAAGAAA
1 TAAAAAAATAA-AA-AAA
87551468 TAAAAAAATAAAAAAA
1 TAAAAAAATAAAAAAA
87551484 TAAAAA
1 TAAAAA
87551490 CAGAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 9 0.41
17 2 0.09
18 11 0.50
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (16 bp):
TAAAAAAATAAAAAAA
Found at i:87551477 original size:15 final size:14
Alignment explanation
Indices: 87551450--87551504 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
87551440 CAAAATGCAG
*
87551450 TAAAAAAATAATAA
1 TAAAAAAATAAAAA
* *
87551464 -GAAATAA-AAAAA
1 TAAAAAAATAAAAA
87551476 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
* *
87551490 CAGAAAAATAAAAA
1 TAAAAAAATAAAAA
87551504 T
1 T
87551505 GGTAGCTGAT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
12 4 0.13
13 10 0.32
14 17 0.55
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:87551478 original size:8 final size:8
Alignment explanation
Indices: 87551450--87551489 Score: 62
Period size: 8 Copynumber: 4.8 Consensus size: 8
87551440 CAAAATGCAG
87551450 TAAAAAAA
1 TAAAAAAA
87551458 TAATAAGAAA
1 TAA-AA-AAA
87551468 TAAAAAAA
1 TAAAAAAA
87551476 TAAAAAAA
1 TAAAAAAA
87551484 TAAAAA
1 TAAAAA
87551490 CAGAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 20 0.67
9 4 0.13
10 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:87551496 original size:16 final size:16
Alignment explanation
Indices: 87551450--87551497 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
87551440 CAAAATGCAG
*
87551450 TAAAAAAATAATAAGAAA
1 TAAAAAAAGAA-AA-AAA
*
87551468 TAAAAAAATAAAAAAA
1 TAAAAAAAGAAAAAAA
*
87551484 TAAAAACAGAAAAA
1 TAAAAAAAGAAAAA
87551498 TAAAAATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 15 0.54
17 2 0.07
18 11 0.39
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.12
Consensus pattern (16 bp):
TAAAAAAAGAAAAAAA
Found at i:87559460 original size:15 final size:15
Alignment explanation
Indices: 87559440--87559468 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
87559430 CTCCATTCTC
87559440 ATCCTCCTCCTCCTT
1 ATCCTCCTCCTCCTT
87559455 ATCCTCCTCCTCCT
1 ATCCTCCTCCTCCT
87559469 CATCATCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.55, G:0.00, T:0.38
Consensus pattern (15 bp):
ATCCTCCTCCTCCTT
Found at i:87561549 original size:11 final size:11
Alignment explanation
Indices: 87561530--87561577 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
87561520 AATATATTAA
*
87561530 TTATTAAAAAT
1 TTATAAAAAAT
87561541 TTATAAAAAA-
1 TTATAAAAAAT
87561551 -TA-AAAAAAT
1 TTATAAAAAAT
*
87561560 TCATAAAAAAT
1 TTATAAAAAAT
87561571 TTA-AAAA
1 TTATAAAA
87561578 CATGTTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 5 0.16
11 18 0.58
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
TTATAAAAAAT
Found at i:87561576 original size:19 final size:19
Alignment explanation
Indices: 87561533--87561577 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
87561523 ATATTAATTA
*
87561533 TTAAAAATTTATAAAAAAT
1 TTAAAAATTCATAAAAAAT
**
87561552 AAAAAAATTCATAAAAAAT
1 TTAAAAATTCATAAAAAAT
87561571 TTAAAAA
1 TTAAAAA
87561578 CATGTTAACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAAAATTCATAAAAAAT
Found at i:87563503 original size:27 final size:27
Alignment explanation
Indices: 87563451--87563505 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
87563441 TTATTTTAAT
* **
87563451 AGTGGAGGGTGTCAAATAGGTGGCACC
1 AGTGGAGGGTGTCAAATAAGCAGCACC
87563478 AGTGGAGGGTGTCAAATAAGCAGCACC
1 AGTGGAGGGTGTCAAATAAGCAGCACC
87563505 A
1 A
87563506 ATTGTGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.16
Consensus pattern (27 bp):
AGTGGAGGGTGTCAAATAAGCAGCACC
Found at i:87563949 original size:20 final size:19
Alignment explanation
Indices: 87563915--87563952 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
87563905 TTTACCTACA
87563915 TAAAAAATAAAAAAAATAT
1 TAAAAAATAAAAAAAATAT
*
87563934 TAAAATAATCAAAAAAATA
1 TAAAA-AATAAAAAAAATA
87563953 ACATGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAAATAAAAAAAATAT
Found at i:87566750 original size:19 final size:18
Alignment explanation
Indices: 87566702--87566758 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
87566692 AATTTCAGTA
* *
87566702 TTTTATATTTTTAGAATT
1 TTTTCTATTTTTATAATT
*
87566720 CTTTTTTA-TTTTATAATT
1 -TTTTCTATTTTTATAATT
87566738 TTTCTCTATTTTTAATAATT
1 TTT-TCTATTTTT-ATAATT
87566758 T
1 T
87566759 AAAAAAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.09
18 12 0.38
19 10 0.31
20 7 0.22
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTCTATTTTTATAATT
Found at i:87566873 original size:31 final size:30
Alignment explanation
Indices: 87566829--87566886 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
87566819 AAAAAAATTT
* *
87566829 ATTTTTATATTTTTTATATTTTTTAAAATA
1 ATTTTAATATTTTTTATAATTTTTAAAATA
*
87566859 ATTTTAATACTTTTTTGTAATTTTTAAA
1 ATTTTAATA-TTTTTTATAATTTTTAAA
87566887 TTTTTTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (30 bp):
ATTTTAATATTTTTTATAATTTTTAAAATA
Found at i:87566883 original size:20 final size:21
Alignment explanation
Indices: 87566860--87566901 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
87566850 TTTAAAATAA
87566860 TTTT-AATACTTTTTTGTAAT
1 TTTTAAATACTTTTTTGTAAT
**
87566880 TTTTAAATTTTTTTTTGTAAT
1 TTTTAAATACTTTTTTGTAAT
87566901 T
1 T
87566902 CTACATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTAAATACTTTTTTGTAAT
Found at i:87566911 original size:21 final size:21
Alignment explanation
Indices: 87566869--87566913 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
87566859 ATTTTAATAC
*
87566869 TTTTTTGTAATTTTTAAATTT
1 TTTTTTGTAATTTCTAAATTT
*
87566890 TTTTTTGTAA-TTCTACATTT
1 TTTTTTGTAATTTCTAAATTT
87566910 TTTT
1 TTTT
87566914 CTATTTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTTTGTAATTTCTAAATTT
Found at i:87571089 original size:60 final size:60
Alignment explanation
Indices: 87570996--87571108 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
87570986 TCTACACCAC
* *
87570996 ATTCTTCTCCAGTTGATGCTTGTTCTAATTCCCATTCAGCTCCTGGCAATACTCAGATTG
1 ATTCTTCTCCAGCTGATGCATGTTCTAATTCCCATTCAGCTCCTGGCAATACTCAGATTG
*
87571056 ATTCTTCTCCAGCT-ACTGCATGTTC-AGATTCCCATTCAGCTCCTGGCAGTACT
1 ATTCTTCTCCAGCTGA-TGCATGTTCTA-ATTCCCATTCAGCTCCTGGCAATACT
87571109 TAAGTTGTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
59 2 0.04
60 46 0.96
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.36
Consensus pattern (60 bp):
ATTCTTCTCCAGCTGATGCATGTTCTAATTCCCATTCAGCTCCTGGCAATACTCAGATTG
Found at i:87576669 original size:93 final size:93
Alignment explanation
Indices: 87576524--87576695 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
87576514 TACCACATTA
* *
87576524 CTCTCCTATTTCTAGTGAGACTATTGGTTCCAGGCTTAATGCCAGTGTTGAGCCCTCTTCTGATA
1 CTCTCCTATTTCTAGTGAGAATATTGGTTCCAGGCCTAATGCCAGTGTTGAGCCCTCTTCTGATA
*
87576589 CTCAGGCACCATTGCATGTGTCACGTAG
66 ATCAGGCACCATTGCATGTGTCACGTAG
* * * * * * *
87576617 CTCTCCTATGTT-TGGTGAGAATGTTGGTTCTAGGCCTAATGCTAGTTTTGAGCCTTCTTCTGCT
1 CTCTCCTAT-TTCTAGTGAGAATATTGGTTCCAGGCCTAATGCCAGTGTTGAGCCCTCTTCTGAT
87576681 AATCAGGCACCATTG
65 AATCAGGCACCATTG
87576696 TTACTTATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
93 66 0.97
94 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (93 bp):
CTCTCCTATTTCTAGTGAGAATATTGGTTCCAGGCCTAATGCCAGTGTTGAGCCCTCTTCTGATA
ATCAGGCACCATTGCATGTGTCACGTAG
Found at i:87582885 original size:26 final size:26
Alignment explanation
Indices: 87582819--87582879 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
87582809 TATTTAAAAT
87582819 AATTA-GATAAAATTTGAAATCTTGAA
1 AATTATGA-AAAATTTGAAATCTTGAA
* *
87582845 AATTATTAAAAATTTGAAATCTTTAA
1 AATTATGAAAAATTTGAAATCTTGAA
87582871 AATT-TGAAA
1 AATTATGAAA
87582880 TTATTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 26 0.84
27 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (26 bp):
AATTATGAAAAATTTGAAATCTTGAA
Found at i:87582886 original size:17 final size:17
Alignment explanation
Indices: 87582830--87582887 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
87582820 ATTAGATAAA
*
87582830 ATTTGAAATCTTGAAAATT
1 ATTTAAAAT-TTG-AAATT
*
87582849 ATTAAAAATTTGAAA-T
1 ATTTAAAATTTGAAATT
*
87582865 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
87582882 ATTTAA
1 ATTTAA
87582888 TATATAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 14 0.42
17 9 0.27
18 3 0.09
19 7 0.21
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:87583980 original size:7 final size:7
Alignment explanation
Indices: 87583968--87584068 Score: 62
Period size: 7 Copynumber: 14.1 Consensus size: 7
87583958 ATTAATTAAT
87583968 CTAAACC
1 CTAAACC
87583975 CTAAACTC
1 CTAAAC-C
*
87583983 CTAATCC
1 CTAAACC
*
87583990 CTAAACT
1 CTAAACC
*
87583997 ATAAACC
1 CTAAACC
* *
87584004 TTAAATC
1 CTAAACC
*
87584011 CTAAAAC
1 CTAAACC
*
87584018 ATAAACC
1 CTAAACC
*
87584025 CTTAACCC
1 C-TAAACC
87584033 CTAAA-C
1 CTAAACC
87584039 C-ACAACC
1 CTA-AACC
87584046 CTTAAACC
1 C-TAAACC
* *
87584054 ATAACCC
1 CTAAACC
87584061 CTAAACC
1 CTAAACC
87584068 C
1 C
87584069 ATAATACATA
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
5 1 0.01
6 4 0.06
7 48 0.69
8 16 0.23
9 1 0.01
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:87583991 original size:15 final size:15
Alignment explanation
Indices: 87583968--87584038 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
87583958 ATTAATTAAT
87583968 CTAAACCCTAAACTC
1 CTAAACCCTAAACTC
*
87583983 CTAATCCCTAAACT-
1 CTAAACCCTAAACTC
* *
87583997 ATAAACCTTAAA-TC
1 CTAAACCCTAAACTC
* *
87584011 CTAAAACATAAAC-C
1 CTAAACCCTAAACTC
*
87584025 CTTAACCCCTAAAC
1 C-TAAACCCTAAAC
87584039 CACAACCCTT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
13 1 0.02
14 20 0.47
15 22 0.51
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.23
Consensus pattern (15 bp):
CTAAACCCTAAACTC
Found at i:87584010 original size:22 final size:21
Alignment explanation
Indices: 87583976--87584038 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
87583966 ATCTAAACCC
87583976 TAAACTCC-TAATCCCTAAACTA
1 TAAAC-CCTTAATCCCTAAAC-A
87583998 TAAA-CCTTAAAT-CCTAAAACA
1 TAAACCCTT-AATCCCT-AAACA
*
87584019 TAAACCCTTAACCCCTAAAC
1 TAAACCCTTAATCCCTAAAC
87584039 CACAACCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
20 2 0.06
21 15 0.43
22 18 0.51
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTTAATCCCTAAACA
Found at i:87584328 original size:41 final size:41
Alignment explanation
Indices: 87584260--87584400 Score: 223
Period size: 41 Copynumber: 3.5 Consensus size: 41
87584250 TGTTTTTTGC
*
87584260 GGCGTTTTTCCAAAAGCG-CGCTAAAACCTCGATCTATAGT
1 GGCGTTTTTCTAAAAGCGCCGCTAAAACCTCGATCTATAGT
* *
87584300 GGCGCTTTTCTAAAAGTGCCGCTAAAACCTCGATCTATAGT
1 GGCGTTTTTCTAAAAGCGCCGCTAAAACCTCGATCTATAGT
*
87584341 GGCGTTTTT-TCAAAAGCGCCGCTAAAACCTCGATCTATAGC
1 GGCGTTTTTCT-AAAAGCGCCGCTAAAACCTCGATCTATAGT
87584382 GGCGTTTTTCTAAAAGCGC
1 GGCGTTTTTCTAAAAGCGC
87584401 TACTATTGTT
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
40 16 0.17
41 75 0.82
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (41 bp):
GGCGTTTTTCTAAAAGCGCCGCTAAAACCTCGATCTATAGT
Found at i:87584455 original size:41 final size:40
Alignment explanation
Indices: 87584403--87584499 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 40
87584393 AAAAGCGCTA
* *
87584403 CTATTGTTCAGTTTTTAACGGCGTTTGGACAAAAAACGCCG
1 CTATTGCTCAGTTTTTAACGGCGTTTGAAC-AAAAACGCCG
* ** *
87584444 CTATTGCTCAGTTTTTAGCGGCGTTTGAACCGAAATGCCG
1 CTATTGCTCAGTTTTTAACGGCGTTTGAACAAAAACGCCG
87584484 CTATTGCTCAGTTTTT
1 CTATTGCTCAGTTTTT
87584500 TGAGGCGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 23 0.46
41 27 0.54
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (40 bp):
CTATTGCTCAGTTTTTAACGGCGTTTGAACAAAAACGCCG
Found at i:87584500 original size:41 final size:41
Alignment explanation
Indices: 87584403--87584509 Score: 135
Period size: 40 Copynumber: 2.6 Consensus size: 41
87584393 AAAAGCGCTA
* * *
87584403 CTATTGTTCAGTTTTTAACGGCGTTTGGACAAAAAACGCCG
1 CTATTGCTCAGTTTTTAGCGGCGTTTGAACAAAAAACGCCG
** *
87584444 CTATTGCTCAGTTTTTAGCGGCGTTTGAAC-CGAAATGCCG
1 CTATTGCTCAGTTTTTAGCGGCGTTTGAACAAAAAACGCCG
* *
87584484 CTATTGCTCAGTTTTTTGAGGCGTTT
1 CTATTGCTCAGTTTTTAGCGGCGTTT
87584510 TATCGCAAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 31 0.53
41 27 0.47
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
CTATTGCTCAGTTTTTAGCGGCGTTTGAACAAAAAACGCCG
Found at i:87587037 original size:19 final size:19
Alignment explanation
Indices: 87587009--87587048 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
87586999 ATTTTTAACG
87587009 AAAATGACCAAAATGAATA
1 AAAATGACCAAAATGAATA
*
87587028 AAAATTACCAAAATGAATA
1 AAAATGACCAAAATGAATA
87587047 AA
1 AA
87587049 TTGTGTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.10, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAATGACCAAAATGAATA
Found at i:87590867 original size:18 final size:18
Alignment explanation
Indices: 87590844--87590880 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
87590834 CATTGGAAGG
87590844 TTAGCATAATTCCTTGGC
1 TTAGCATAATTCCTTGGC
87590862 TTAGCATAATTCCTTGGC
1 TTAGCATAATTCCTTGGC
87590880 T
1 T
87590881 ATTCCACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (18 bp):
TTAGCATAATTCCTTGGC
Found at i:87592463 original size:42 final size:42
Alignment explanation
Indices: 87592360--87592641 Score: 282
Period size: 42 Copynumber: 6.6 Consensus size: 42
87592350 TTATGTAAAA
* * *
87592360 AAACGCAGCTATAGAACATGACCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTTCCAC
* *
87592403 AAACGCCACTATAA-AACATGACCTTTAGCGGCGCTTTACCAC
1 AAACGCCGCTA-AAGAACATGACCTTTAGCGGCGCTTTTCCAC
* * ** *
87592445 AAATGCCGCTAAAGAACATGACTTTTAATGGTGCTTTTCCTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCC-AC
* * * *
87592488 AAACGCCGCTAAATAACATGACCTTTAACAGCGTTTTTCTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTC-CAC
* * *
87592531 AAACGCCGCTATAGAACAT-ACCTTTAGTGGCGCTTTTGCTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTT-CCAC
* * * * *
87592573 AAATGGCACTATAGAATA-GACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTC-CAC
*
87592615 AAACGCCACTAAAGAACATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
87592642 AAAAATATTT
Statistics
Matches: 195, Mismatches: 36, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
41 3 0.02
42 100 0.51
43 90 0.46
44 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCAC
Found at i:87592566 original size:85 final size:85
Alignment explanation
Indices: 87592360--87592641 Score: 320
Period size: 85 Copynumber: 3.3 Consensus size: 85
87592350 TTATGTAAAA
* * * *
87592360 AAACGCAGCTATAGAACATGACCTTTAGCGGCACTTTTTCC-ACAAACGCCACTATAAAACATGA
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGC-TTTTCCTACAAACGCCACTA-AAAACATGA
*
87592424 CCTTTAGCGGCGCTTTAC-CAC
64 CCTTTAGCGGCGCTTTTCTCAC
* * * * *
87592445 AAATGCCGCTAAAGAACATGACTTTTAATGGTGCTTTTCCTACAAACGCCGCTAAATAACATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCTACAAACGCCACTAAA-AACATGAC
* * *
87592510 CTTTAACAGCGTTTTTCTCAC
65 CTTTAGCGGCGCTTTTCTCAC
* * * * * *
87592531 AAACGCCGCTATAGAACAT-ACCTTTAGTGGCGCTTTTGCTACAAATGGCACTATAGA-ATAGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCTACAAACGCCACTAAAAACAT-GAC
87592594 CTTTAGCGGCGCTTTTCTCAC
65 CTTTAGCGGCGCTTTTCTCAC
*
87592615 AAACGCCACTAAAGAACATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
87592642 AAAAATATTT
Statistics
Matches: 163, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
83 2 0.01
84 47 0.29
85 94 0.58
86 20 0.12
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCTACAAACGCCACTAAAAACATGACC
TTTAGCGGCGCTTTTCTCAC
Found at i:87595133 original size:11 final size:12
Alignment explanation
Indices: 87595106--87595130 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87595096 ATAATAAGGC
87595106 TTAATTTTTATA
1 TTAATTTTTATA
87595118 TTAATTTTTATA
1 TTAATTTTTATA
87595130 T
1 T
87595131 AATAAACCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTAATTTTTATA
Found at i:87596105 original size:115 final size:114
Alignment explanation
Indices: 87595917--87596256 Score: 389
Period size: 115 Copynumber: 3.0 Consensus size: 114
87595907 GAAATCAACC
* * * * *
87595917 TTTGCGGCGTTTATC-CACTAGCGCCACTAAATCCCTACATATTGCGGCG-TTTAACCAAAAAAC
1 TTTGCGGCATTTTTCAC-CTAGCGCCGCTAAAGCCCAACATATTGCGGCGTTTTAA-C-AAAAAC
* *
87595980 GCCACTAAAAAATCTATAAAAAGGCACTGTTTTGATTAAAACAAAATAACAT
63 GCCACTAAAAAATCAATAAAACGGCACTGTTTTGATTAAAACAAAATAACAT
* *
87596032 TTTGCGGCATTTTTCACCTAGCGCCGCTAAAGCCCGACCTATTGCGGCGTTTTAACAAAAACGCC
1 TTTGCGGCATTTTTCACCTAGCGCCGCTAAAGCCCAACATATTGCGGCGTTTTAACAAAAACGCC
* * *
87596097 ACTAAAAAATCAAATAAAACGGCATTGTTTTGATTAAAACAGAATAACTT
66 ACTAAAAAATC-AATAAAACGGCACTGTTTTGATTAAAACAAAATAACAT
** * *** *
87596147 TTTGCGGTGTTTTTTCA-CTAGCGCCGCTAAAGCCTAACATATTGCGGCGTTTCGCCAAAAGCGC
1 TTTGCGG-CATTTTTCACCTAGCGCCGCTAAAGCCCAACATATTGCGGCGTTTTAACAAAAACGC
* * * * *
87596211 CACTAAGAAATCCAATAGAACGGCGCCGTTTTTATTAAAACAAAAT
65 CACTAAAAAAT-CAATAAAACGGCACTGTTTTGATTAAAACAAAAT
87596257 TATTTTTGCA
Statistics
Matches: 193, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
114 20 0.10
115 159 0.82
116 14 0.07
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (114 bp):
TTTGCGGCATTTTTCACCTAGCGCCGCTAAAGCCCAACATATTGCGGCGTTTTAACAAAAACGCC
ACTAAAAAATCAATAAAACGGCACTGTTTTGATTAAAACAAAATAACAT
Found at i:87597137 original size:21 final size:22
Alignment explanation
Indices: 87597113--87597167 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
87597103 CCTTATCCCC
87597113 TAACCCTTAAATCA-T-AAAACA
1 TAACCCTTAAA-CAGTGAAAACA
* *
87597134 TAACCCTTAAACAGTGAACACC
1 TAACCCTTAAACAGTGAAAACA
87597156 TAACCCTTAAAC
1 TAACCCTTAAAC
87597168 CTTAAACCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 12 0.40
22 16 0.53
ACGTcount: A:0.45, C:0.29, G:0.04, T:0.22
Consensus pattern (22 bp):
TAACCCTTAAACAGTGAAAACA
Found at i:87597187 original size:21 final size:21
Alignment explanation
Indices: 87597157--87597196 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
87597147 GTGAACACCT
* *
87597157 AACCCTTAAACCTTAAACCCC
1 AACCCCTAAACCATAAACCCC
87597178 AACCCCTAAACCATAAACC
1 AACCCCTAAACCATAAACC
87597197 ATAAACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCCTAAACCATAAACCCC
Found at i:87597194 original size:7 final size:7
Alignment explanation
Indices: 87597184--87597271 Score: 72
Period size: 7 Copynumber: 12.4 Consensus size: 7
87597174 CCCCAACCCC
87597184 TAAACCA
1 TAAACCA
87597191 TAAACCA
1 TAAACCA
87597198 TAAACCA
1 TAAACCA
87597205 TAAACCA
1 TAAACCA
*
87597212 CAAACCA
1 TAAACCA
* *
87597219 CAATCCA
1 TAAACCA
*
87597226 TAAACCT
1 TAAACCA
87597233 TAAA--A
1 TAAACCA
87597238 TAGTAACTCA
1 TA--AAC-CA
*
87597248 TAAACCC
1 TAAACCA
*
87597255 TAAACCC
1 TAAACCA
*
87597262 TAAACTA
1 TAAACCA
87597269 TAA
1 TAA
87597272 TGATAATTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
5 2 0.03
7 59 0.88
8 3 0.04
10 3 0.04
ACGTcount: A:0.52, C:0.28, G:0.01, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:87597862 original size:40 final size:41
Alignment explanation
Indices: 87597784--87597915 Score: 114
Period size: 40 Copynumber: 3.3 Consensus size: 41
87597774 AATTTTTTTA
* * * *
87597784 CGGC-GTTTTTCAAAAAGCGCCGCTAA-TGATCGACCTATAG
1 CGGCTGTTTTTAAAAAAGCGCCTCTAACT-CTCGATCTATAG
* * *
87597824 CGGCT-TTTTTAAAAAAGCGCCAT-TAATTCTTGATCTATAA
1 CGGCTGTTTTTAAAAAAGCGCC-TCTAACTCTCGATCTATAG
* *
87597864 CTG-TGTTTTTCAAAAAGCGCCTCTAACTCTCGATCTATAG
1 CGGCTGTTTTTAAAAAAGCGCCTCTAACTCTCGATCTATAG
87597904 CGGC-GCTTTTTA
1 CGGCTG-TTTTTA
87597916 TCCAAATGCC
Statistics
Matches: 72, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
39 2 0.03
40 64 0.89
41 6 0.08
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (41 bp):
CGGCTGTTTTTAAAAAAGCGCCTCTAACTCTCGATCTATAG
Found at i:87598172 original size:8 final size:8
Alignment explanation
Indices: 87598159--87598183 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
87598149 AAATAGCGGA
87598159 AGAAATTG
1 AGAAATTG
87598167 AGAAATTG
1 AGAAATTG
87598175 AGAAATTG
1 AGAAATTG
87598183 A
1 A
87598184 ACACACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AGAAATTG
Found at i:87607899 original size:29 final size:29
Alignment explanation
Indices: 87607866--87607930 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
87607856 AAATTTTTAC
87607866 ACTTTTTACATTTAAAT-TTTAAT-TATCTT
1 ACTTTTTA-ATTTAAATATTTAATATATC-T
*
87607895 AC-TTTTATTTTAAATAATTTAATATATCT
1 ACTTTTTAATTTAAAT-ATTTAATATATCT
87607924 ACTTTTT
1 ACTTTTT
87607931 GTATTTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 7 0.23
28 5 0.16
29 11 0.35
30 8 0.26
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.58
Consensus pattern (29 bp):
ACTTTTTAATTTAAATATTTAATATATCT
Found at i:87607995 original size:14 final size:14
Alignment explanation
Indices: 87607978--87608028 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
87607968 AATTACATTT
87607978 TAAAAATTAAAATA
1 TAAAAATTAAAATA
* *
87607992 TAAAGATTAAATTA
1 TAAAAATTAAAATA
*
87608006 T-AAATTTAAACATA
1 TAAAAATTAAA-ATA
*
87608020 TTAAAATTA
1 TAAAAATTA
87608029 TCAAAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 7 0.24
14 16 0.55
15 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
TAAAAATTAAAATA
Done.