Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 262 of 284
Found at i:88208945 original size:57 final size:58
Alignment explanation
Indices: 88208811--88208958 Score: 165
Period size: 57 Copynumber: 2.6 Consensus size: 58
88208801 ATTGACCTCA
* * * *
88208811 TTATAGAAAGGATTTAGCCCGGACGGGTAATCCTGATATAAGTCCTCTCGAGCATATG
1 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCAGATACAAGTCCTCTAGAGCATATG
* ** * * *
88208869 TTATGGATTGGATTTAGCCTAGACGGGTAATTCAGAT-CAAGCTCCT-TAGAGTATATG
1 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCAGATACAAG-TCCTCTAGAGCATATG
* *
88208926 TTATAAAAAGGATTTAGCCTGGACTGGTAATCC
1 TTATAGAAAGGATTTAGCCTGGACGGGTAATCC
88208959 TGTTGTATAC
Statistics
Matches: 72, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
57 38 0.53
58 34 0.47
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (58 bp):
TTATAGAAAGGATTTAGCCTGGACGGGTAATCCAGATACAAGTCCTCTAGAGCATATG
Found at i:88211345 original size:29 final size:29
Alignment explanation
Indices: 88211303--88211359 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
88211293 GTAGTTACTA
88211303 AGCTTTATAGCTTACCCACCTCTCTTTTT
1 AGCTTTATAGCTTACCCACCTCTCTTTTT
*
88211332 AGCTTTGTAGCTTACCCACCTCTCTTTT
1 AGCTTTATAGCTTACCCACCTCTCTTTT
88211360 CCCACCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.32, G:0.09, T:0.44
Consensus pattern (29 bp):
AGCTTTATAGCTTACCCACCTCTCTTTTT
Found at i:88213725 original size:19 final size:21
Alignment explanation
Indices: 88213701--88213739 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
88213691 AGTCAGAGTC
*
88213701 CTTCGG-AATACA-AACTCTA
1 CTTCGGTAACACAGAACTCTA
88213720 CTTCGGTAACACAGAACTCT
1 CTTCGGTAACACAGAACTCT
88213740 CTCACTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
CTTCGGTAACACAGAACTCTA
Found at i:88223732 original size:80 final size:79
Alignment explanation
Indices: 88223648--88223819 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
88223638 GGACTAAGAT
*
88223648 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
88223712 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
88223728 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
88223793 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
88223807 CCGAAGGCATTTG
1 CCGAAGGCATTTG
88223820 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:88223799 original size:39 final size:39
Alignment explanation
Indices: 88223595--88223817 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
88223585 TTGAATGCTG
* * * * *
88223595 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
88223635 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
88223674 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
88223715 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
88223755 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
88223794 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
88223818 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:88223837 original size:79 final size:80
Alignment explanation
Indices: 88223675--88223852 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
88223665 AGATACAAAT
* * * *
88223675 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
88223740 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
88223755 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
88223819 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
88223834 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
88223853 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:88225966 original size:28 final size:28
Alignment explanation
Indices: 88225926--88226038 Score: 167
Period size: 28 Copynumber: 4.0 Consensus size: 28
88225916 CAGTATAGTT
88225926 TGGGCCTTAGCCCAATACAATAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTG
* *
88225954 TGGGCCTTAGCCCAATATAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTG
88225982 TGGGCCTTAGCCCAATACAA-AACCAGTG
1 TGGGCCTTAGCCCAATACAATAA-CAGTG
*
88226010 TGGGCCTTATCCCAATA-AAGTAACAGTG
1 TGGGCCTTAGCCCAATACAA-TAACAGTG
88226038 T
1 T
88226039 AGTGCAATAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
27 4 0.05
28 71 0.92
29 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAATAACAGTG
Found at i:88225980 original size:61 final size:59
Alignment explanation
Indices: 88225885--88226041 Score: 180
Period size: 56 Copynumber: 2.7 Consensus size: 59
88225875 CAGCATGCTG
* * * *
88225885 TAACAGTCTGGGCCTGAGCCCTAT-TCAGTGACAGTATAGTTTGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCCTTAGCCCAATAT-AGTAACAGT-TAG-TTGGGCCTTAGCCCAATACAA
88225946 TAACAGTGTGGGCCTTAGCCCAATATAGTAACAG-T-G-TGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTTAGTTGGGCCTTAGCCCAATACAA
* *
88226002 -AACCAGTGTGGGCCTTATCCCAATAAAGTAACAGTGTAGT
1 TAA-CAGTGTGGGCCTTAGCCCAATATAGTAACAGT-TAGT
88226042 GCAATAATGC
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
55 2 0.02
56 49 0.58
58 2 0.02
59 2 0.02
61 28 0.33
62 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (59 bp):
TAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTTAGTTGGGCCTTAGCCCAATACAA
Found at i:88226009 original size:56 final size:56
Alignment explanation
Indices: 88225926--88226038 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
88225916 CAGTATAGTT
*
88225926 TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
*
88225982 TGGGCCTTAGCCCAATACAA-AACCAGTGTGGGCCTTATCCCAATAAAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAA-CAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
88226038 T
1 T
88226039 AGTGCAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 2 0.04
56 52 0.96
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (56 bp):
TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
Found at i:88226200 original size:26 final size:26
Alignment explanation
Indices: 88226136--88226218 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
88226126 GCCAACACAC
*
88226136 CAGTATCGCAGCAAAGCTGCCGGTAAT
1 CAGTATCGCAGCAAAGCTGCCAGT-AT
* * *
88226163 -AGCATCACAGCAGAGCTGCCAGTAT
1 CAGTATCGCAGCAAAGCTGCCAGTAT
* *
88226188 CAGTATCGTAGCAAAGCTGCCAGTAA
1 CAGTATCGCAGCAAAGCTGCCAGTAT
88226214 CAGTA
1 CAGTA
88226219 CATGTGGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.04
26 44 0.96
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGTATCGCAGCAAAGCTGCCAGTAT
Found at i:88226660 original size:81 final size:81
Alignment explanation
Indices: 88226454--88226726 Score: 410
Period size: 81 Copynumber: 3.4 Consensus size: 81
88226444 AGTATAACAG
88226454 TCATTTTACCCTAT-GCGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
1 TCATTTTACCCTATAG-GGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
*
88226518 CTAT-GGGGTATTTCAG
65 CTATCGGGGTATTTCAA
* * *
88226534 TCATTTTACCTTATGGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACCC
88226599 TATCGGGGTATTTCAA
66 TATCGGGGTATTTCAA
* * *
88226615 TCATTTTACCCTATAGTGGTATTTCGGTCATTTTAC-CTTACAGGGGTATTTCGATCATTTTACC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTC-TATAGGGGTATTTCGGTCATTTTACC
88226679 CTA-CGGGGGTATTTCAA
65 CTATC-GGGGTATTTCAA
* *
88226696 TCATTTTACCCTATAGGAGTATTTTGGTCAT
1 TCATTTTACCCTATAGGGGTATTTCGGTCAT
88226727 AACACTATAA
Statistics
Matches: 177, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
80 66 0.37
81 111 0.63
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACCC
TATCGGGGTATTTCAA
Found at i:88226726 original size:27 final size:27
Alignment explanation
Indices: 88226453--88226726 Score: 354
Period size: 27 Copynumber: 10.2 Consensus size: 27
88226443 GAGTATAACA
88226453 GTCATTTTACCCTAT-GCGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
*
88226480 GTCATTTTACTCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
88226507 GTCATTTTACCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
88226533 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
88226560 GTCATTTTACTCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
88226587 GTCATTTTACCCTATCGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
88226614 ATCATTTTACCCTATAGTGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
88226641 GTCATTTTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* ** *
88226668 ATCATTTTACCCTACGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
88226695 ATCATTTTACCCTATAGGAGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
88226722 GTCAT
1 GTCAT
88226727 AACACTATAA
Statistics
Matches: 214, Mismatches: 31, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 24 0.11
27 189 0.88
28 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:88226915 original size:19 final size:20
Alignment explanation
Indices: 88226893--88226934 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
88226883 AGCCCATTGA
88226893 GCCCA-CACGGCCCAACATG
1 GCCCATCACGGCCCAACATG
* *
88226912 GCCCATTACGGCCTAACATG
1 GCCCATCACGGCCCAACATG
88226932 GCC
1 GCC
88226935 ACTTACGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.43, G:0.21, T:0.12
Consensus pattern (20 bp):
GCCCATCACGGCCCAACATG
Found at i:88232488 original size:15 final size:16
Alignment explanation
Indices: 88232459--88232488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88232449 CAAACATGCT
88232459 TTAACACATTATCAAA
1 TTAACACATTATCAAA
88232475 TTAACACA-TATCAA
1 TTAACACATTATCAA
88232489 CAACGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:88238147 original size:36 final size:36
Alignment explanation
Indices: 88238078--88238147 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
88238068 AGAAAAGTAA
*
88238078 TTTTTACATATATTAATAAATTTATATTTTAAATTT
1 TTTTTACATATATTAATAAATTTATATTATAAATTT
88238114 TTTTTACATATATTACA-ATAATTTAT-TTATAAAT
1 TTTTTACATATATTA-ATA-AATTTATATTATAAAT
88238148 AAATAAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 23 0.74
37 8 0.26
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTTTACATATATTAATAAATTTATATTATAAATTT
Found at i:88243889 original size:48 final size:48
Alignment explanation
Indices: 88243821--88243920 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
88243811 GAAACTACTT
*
88243821 CAAACAGACTTGGTGTGTAACACCTCTTACCTGTATTCATCATCGAAA
1 CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
*
88243869 CAAACAGACTTGGTGTGTAACACCTTTTACCCGTATTCATCATCGAAA
1 CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
88243917 CAAA
1 CAAA
88243921 GTAAGAAGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (48 bp):
CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
Found at i:88245378 original size:51 final size:50
Alignment explanation
Indices: 88245205--88245548 Score: 356
Period size: 51 Copynumber: 6.8 Consensus size: 50
88245195 ACTTTTATCA
* *
88245205 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
88245254 TTACGGTTCACGTAGTAGCCTTCACATAGT-CTACACACGTGATCAAG-TT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
88245303 TTACGGTTCACGTAGTACCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * *
88245355 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * * *
88245405 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACGAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAGCTT
* * * * * * *
88245457 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGA-CTATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* ** *
88245507 GATCAATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
88245549 TTCATCAATA
Statistics
Matches: 248, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
49 54 0.22
50 43 0.17
51 143 0.58
52 6 0.02
53 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:88245437 original size:102 final size:102
Alignment explanation
Indices: 88245206--88245548 Score: 460
Period size: 102 Copynumber: 3.4 Consensus size: 102
88245196 CTTTTATCAT
* * * *
88245206 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGTAG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * * ***
88245269 TAGCCTTCACATAGT-CTACACACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
88245306 -CGGTTCACGTAGTACCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
88245370 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
88245407 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACGAAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* *
88245472 AGCCTTCACTTAGTACTACACATGTGACTATCATTGA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
*
88245509 TCAATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
88245549 TTCATCAATA
Statistics
Matches: 217, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
99 38 0.18
100 27 0.12
101 21 0.10
102 131 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:88245555 original size:153 final size:149
Alignment explanation
Indices: 88245209--88245555 Score: 394
Period size: 153 Copynumber: 2.3 Consensus size: 149
88245199 TTATCATTCG
*** *
88245209 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCC
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATCATTTACGATTCACGTAGTAGCC
* * * *
88245274 TTCACATAGTCTACACACGTGATCAAGTTTTACGGTTCACGTAGTACCCTTCACATAGTACTACA
66 TTCACACAGTCTACACACGTGATCAAGTTCTACGGTACACATAGTACCCTTCACATAGTACTACA
* *
88245339 CACGTGACCAAAGCTTTTCG
131 CACGTGACCAAA-CTTATCA
* * * * *
88245359 GTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGC
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATCATTTA-CGATTCACGTAGTAGC
* * *
88245424 CTTCACACAGTACTACACACGTGA-CGAAAGCTTCT-CGGTACACATTGTAGCCTTCACTTAGTA
65 CTTCACACAGT-CTACACACGTGATC--AAG-TTCTACGGTACACATAGTACCCTTCACATAGTA
* * *
88245487 CTACACATGTGA-CTATCATTGATCA
126 CTACACACGTGACCAAAC-TT-ATCA
* *
88245512 ATACACGTAGTAGCCTTCACACAGTACTACACACGTGTTCATCA
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATCA
88245556 ATACCTTATT
Statistics
Matches: 162, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
150 40 0.25
151 27 0.17
152 16 0.10
153 76 0.47
154 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (149 bp):
ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATCATTTACGATTCACGTAGTAGCC
TTCACACAGTCTACACACGTGATCAAGTTCTACGGTACACATAGTACCCTTCACATAGTACTACA
CACGTGACCAAACTTATCA
Found at i:88252533 original size:25 final size:25
Alignment explanation
Indices: 88252499--88252548 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
88252489 ATTTATTTTA
88252499 CATTTTAGTCCCTCAAAATCTCATT
1 CATTTTAGTCCCTCAAAATCTCATT
88252524 CATTTTAGTCCCTCAAAATCTCATT
1 CATTTTAGTCCCTCAAAATCTCATT
88252549 TTTACAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
CATTTTAGTCCCTCAAAATCTCATT
Found at i:88256389 original size:15 final size:15
Alignment explanation
Indices: 88256358--88256446 Score: 76
Period size: 15 Copynumber: 6.0 Consensus size: 15
88256348 CAAAGATAAC
*
88256358 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
88256372 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
**
88256387 AAGAAA-CCCGGAATA
1 AAGAAATCCAAG-ATA
*
88256402 AAGAAAT-CTAGAATA
1 AAGAAATCCAAG-ATA
* *
88256417 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
88256432 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
88256447 CGATACTATG
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
14 13 0.22
15 45 0.75
16 2 0.03
ACGTcount: A:0.58, C:0.15, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:88256404 original size:30 final size:31
Alignment explanation
Indices: 88256368--88256446 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
88256358 AAGAAAACCA
*
88256368 AATAAAGAAATCCAAGATAAAGA-AACCCGG
1 AATAAAGAAATCCAAGATAAAGAGAACCAGG
* *
88256398 AATAAAGAAAT-CTAGAATAAAGAGATCCAGG
1 AATAAAGAAATCCAAG-ATAAAGAGAACCAGG
*
88256429 -ATAAAGAAACCCAAGATA
1 AATAAAGAAATCCAAGATA
88256447 CGATACTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
29 3 0.07
30 30 0.73
31 8 0.20
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.13
Consensus pattern (31 bp):
AATAAAGAAATCCAAGATAAAGAGAACCAGG
Found at i:88260670 original size:11 final size:11
Alignment explanation
Indices: 88260654--88260680 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
88260644 TCATAGACCT
88260654 TAAAATAATCA
1 TAAAATAATCA
88260665 TAAAATAATCA
1 TAAAATAATCA
88260676 TAAAA
1 TAAAA
88260681 CATGAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAATAATCA
Found at i:88263596 original size:12 final size:12
Alignment explanation
Indices: 88263579--88263603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88263569 TTTTGGATGA
88263579 ATTTGATTGAAT
1 ATTTGATTGAAT
88263591 ATTTGATTGAAT
1 ATTTGATTGAAT
88263603 A
1 A
88263604 AGTTTAATTT
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTTGATTGAAT
Found at i:88264040 original size:43 final size:43
Alignment explanation
Indices: 88263879--88264049 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
88263869 CATAGGATTC
* *
88263879 CGATATGTGATTTCGTGTAAGGCCACGTCTGGGA-TGTTGGCAT
1 CGATATGTGATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
* * * ** *
88263922 CGATTTGTGAATTTCTTGTAAGACCATGTCTGGGATA-TCAGTAT
1 CGATATGTG-ATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
* * * *
88263966 CG-TATATGAGTTCTGTAAGACC-CTTTTTGGGACAG-TGGCAT
1 CGATATGTGATTTCTGTAAGACCAC-GTCTGGGACAGTTGGCAT
*
88264007 CGATATGTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATGTGATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
88264050 TGTACAGGCT
Statistics
Matches: 97, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
41 21 0.22
42 13 0.13
43 34 0.35
44 29 0.30
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTTCTGTAAGACCACGTCTGGGACAGTTGGCAT
Found at i:88272821 original size:26 final size:26
Alignment explanation
Indices: 88272788--88272864 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
88272778 GCCAACACAC
*
88272788 TAATATCGCAGCAAAGCTACCAGTAA
1 TAATATCGCAGCAAAGCTGCCAGTAA
* *
88272814 TAATATCGCAGCAGAGTTGCCAGTAA
1 TAATATCGCAGCAAAGCTGCCAGTAA
* * *
88272840 CAGTAACGCAGCAAAGCTGCCAGTA
1 TAATATCGCAGCAAAGCTGCCAGTA
88272865 TTAGTATATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
TAATATCGCAGCAAAGCTGCCAGTAA
Found at i:88273646 original size:17 final size:17
Alignment explanation
Indices: 88273624--88273658 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
88273614 TAATAATACT
88273624 TAATCCAAAAAGAACAC
1 TAATCCAAAAAGAACAC
88273641 TAATCCAAAAAGAACAC
1 TAATCCAAAAAGAACAC
88273658 T
1 T
88273659 CTTCTGCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.23, G:0.06, T:0.14
Consensus pattern (17 bp):
TAATCCAAAAAGAACAC
Found at i:88278019 original size:100 final size:100
Alignment explanation
Indices: 88277907--88278104 Score: 387
Period size: 100 Copynumber: 2.0 Consensus size: 100
88277897 TGAACATCCT
88277907 TGGCCGAATAGAGGAAAGAAAGGAGGGCGAAAAAGCTTGAGAAAATCGGCTATGGTGGTTTGCTA
1 TGGCCGAATAGAGGAAAGAAAGGAGGGCGAAAAAGCTTGAGAAAATCGGCTATGGTGGTTTGCTA
88277972 GACTAAGGTATGTTTGATATTATTCTTTGAGATTC
66 GACTAAGGTATGTTTGATATTATTCTTTGAGATTC
*
88278007 TGGCCGAATAGAGGAAAGAAAGGAGGGGGAAAAAGCTTGAGAAAATCGGCTATGGTGGTTTGCTA
1 TGGCCGAATAGAGGAAAGAAAGGAGGGCGAAAAAGCTTGAGAAAATCGGCTATGGTGGTTTGCTA
88278072 GACTAAGGTATGTTTGATATTATTCTTTGAGAT
66 GACTAAGGTATGTTTGATATTATTCTTTGAGAT
88278105 ACATGTATAT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (100 bp):
TGGCCGAATAGAGGAAAGAAAGGAGGGCGAAAAAGCTTGAGAAAATCGGCTATGGTGGTTTGCTA
GACTAAGGTATGTTTGATATTATTCTTTGAGATTC
Found at i:88279329 original size:27 final size:27
Alignment explanation
Indices: 88279298--88279474 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
88279288 TAAATTGTAC
88279298 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88279325 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88279351 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88279379 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88279407 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88279434 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88279461 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
88279475 AGACTCAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88279412 original size:82 final size:81
Alignment explanation
Indices: 88279299--88279454 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88279289 AAATTGTACA
* *
88279299 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88279363 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88279380 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88279445 TGCGAGTTGA
65 TGCGAATTGA
88279455 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88279466 original size:82 final size:81
Alignment explanation
Indices: 88279295--88279474 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
88279285 GATTAAATTG
* *
88279295 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88279360 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88279376 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88279440 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88279458 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
88279475 AGACTCAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88280492 original size:68 final size:68
Alignment explanation
Indices: 88280378--88280514 Score: 238
Period size: 68 Copynumber: 2.0 Consensus size: 68
88280368 GAACGGTTTC
* *
88280378 TGGAGTCCCTGCTCCGACTTTGGAAATTTATTATAAATTAACCAGAGATAATTAGGGGTTGTACC
1 TGGAGTCCCTGCTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCGTACC
88280443 ATA
66 ATA
* *
88280446 TGGATTCCCTGCTCTGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCGTACC
1 TGGAGTCCCTGCTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCGTACC
88280511 ATA
66 ATA
88280514 T
1 T
88280515 ATGTACAGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (68 bp):
TGGAGTCCCTGCTCCGACTTTGGAAATTCATTATAAATTAACCAGAGATAATTAGGGGTCGTACC
ATA
Found at i:88284894 original size:30 final size:30
Alignment explanation
Indices: 88284853--88284971 Score: 202
Period size: 30 Copynumber: 4.0 Consensus size: 30
88284843 AGGTACAAGT
88284853 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
* *
88284883 GGTGGTAGAGCAAGTGTGGCTAATAGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
*
88284913 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
*
88284943 GGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGT
88284972 TGCTAGTGGC
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 84 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
Found at i:88284940 original size:18 final size:18
Alignment explanation
Indices: 88284917--88284970 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
88284907 AGAGTAGGTG
88284917 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
88284935 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
88284947 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
88284965 GTGGAG
1 GTGGAG
88284971 TTGCTAGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:88285759 original size:28 final size:29
Alignment explanation
Indices: 88285727--88285790 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
88285717 GTGTCTCAGC
*
88285727 CATGTGTGCTA-ACGGCCTAGAAGAGGGG
1 CATGTGTGCCACACGGCCTAGAAGAGGGG
88285755 CATGTGTGCCACACGGCCTAGAAGAGGGG
1 CATGTGTGCCACACGGCCTAGAAGAGGGG
*
88285784 CGTGTGT
1 CATGTGT
88285791 CTTGGCCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.22, C:0.20, G:0.39, T:0.19
Consensus pattern (29 bp):
CATGTGTGCCACACGGCCTAGAAGAGGGG
Found at i:88285761 original size:41 final size:42
Alignment explanation
Indices: 88285670--88285761 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
88285660 GCAGAGACAT
* * *
88285670 GGCATGTATCTCAGCCGTGTGTGCCACACGGCCTATAACACG
1 GGCATGTGTCTCAGCCATGTGTGCCACACGGCCTAGAACACG
* * * *
88285712 GGCGTGTGTCTCAGCCATGTGTGCTA-ACGGCCTAGAAGAGG
1 GGCATGTGTCTCAGCCATGTGTGCCACACGGCCTAGAACACG
88285753 GGCATGTGT
1 GGCATGTGT
88285762 GCCACACGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 20 0.48
42 22 0.52
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.23
Consensus pattern (42 bp):
GGCATGTGTCTCAGCCATGTGTGCCACACGGCCTAGAACACG
Found at i:88289591 original size:22 final size:22
Alignment explanation
Indices: 88289566--88289609 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
88289556 TTTCTTTATA
88289566 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
88289588 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
88289610 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:88289669 original size:16 final size:17
Alignment explanation
Indices: 88289633--88289669 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
88289623 AATTTTATTT
88289633 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
88289650 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
88289665 TAATA
1 TAATA
88289670 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:88289684 original size:72 final size:75
Alignment explanation
Indices: 88289563--88289741 Score: 172
Period size: 72 Copynumber: 2.4 Consensus size: 75
88289553 ATCTTTCTTT
* * * * * *
88289563 ATAATAAATTATT-AATATAATAAATATAAATTATTATTTTAATAAATTATTTAATAT-TTTAAT
1 ATAATAAATT-TTAAAAATAATAAATATAAATTAATATTTTAACAAATTATTGAAAATATTCAAT
88289626 -TT-TATTTTA
65 ATTATATTTTA
* * *
88289635 ATAATAAATTTTAAAAATAATAAATTTAAA-TAATATTATTCACATATTATTGAAAATATTCAAT
1 ATAATAAATTTTAAAAATAATAAATATAAATTAATATT-TTAACAAATTATTGAAAATATTCAAT
88289699 ATTAATATTTTA
65 ATT-ATATTTTA
88289711 ATAATAAATATTTATTACAAAT-ATAAATATA
1 ATAATAAAT-TTTA--A-AAATAATAAATATA
88289742 TTAATAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
71 8 0.09
72 39 0.45
73 5 0.06
74 2 0.02
76 16 0.18
77 4 0.05
79 9 0.10
80 4 0.05
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (75 bp):
ATAATAAATTTTAAAAATAATAAATATAAATTAATATTTTAACAAATTATTGAAAATATTCAATA
TTATATTTTA
Found at i:88289722 original size:15 final size:15
Alignment explanation
Indices: 88289702--88289753 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
88289692 ATTCAATATT
88289702 AATATTTTAATAATA
1 AATATTTTAATAATA
*
88289717 AATATTTATTACAAATATA
1 AATA-TT-TTA-ATA-ATA
*
88289736 AATATATTAATAATA
1 AATATTTTAATAATA
88289751 AAT
1 AAT
88289754 GTTTCGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 10 0.33
16 4 0.13
17 6 0.20
18 3 0.10
19 7 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:88289750 original size:17 final size:17
Alignment explanation
Indices: 88289696--88289750 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
88289686 GAAAATATTC
* *
88289696 AATATTAATATTTTAAT
1 AATATAAATATATTAAT
*
88289713 AATA-AATATTTATTACA-
1 AATATAA-ATATATTA-AT
88289730 AATATAAATATATTAAT
1 AATATAAATATATTAAT
88289747 AATA
1 AATA
88289751 AATGTTTCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.07
17 25 0.83
18 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATAAATATATTAAT
Found at i:88292892 original size:28 final size:28
Alignment explanation
Indices: 88292839--88292895 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
88292829 GTTATCATTT
* **
88292839 AATTTAATAAACATTTTATTTTTAAAAA
1 AATTAAATAAACATTTTATTAATAAAAA
88292867 AATTAAATAAA-ATTTTAATTAATAAAAA
1 AATTAAATAAACATTTT-ATTAATAAAAA
88292895 A
1 A
88292896 TAATTCCGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
AATTAAATAAACATTTTATTAATAAAAA
Found at i:88293702 original size:22 final size:22
Alignment explanation
Indices: 88293658--88293717 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
88293648 TTAAAATAAA
* *
88293658 ATTAAAATATTAA-ATA-ATTT
1 ATTAAAATAATAATTTATATTT
88293678 ATTAAAATAATAATTTATATTT
1 ATTAAAATAATAATTTATATTT
* *
88293700 ATTATATTAATAATTTAT
1 ATTAAAATAATAATTTAT
88293718 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.35
21 2 0.06
22 20 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAAAATAATAATTTATATTT
Found at i:88300434 original size:19 final size:19
Alignment explanation
Indices: 88300410--88300447 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
88300400 ATTCCTTCGA
88300410 AAATTGAATTGAAATAGTT
1 AAATTGAATTGAAATAGTT
88300429 AAATTGAATTGAAATAGTT
1 AAATTGAATTGAAATAGTT
88300448 GAACACCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (19 bp):
AAATTGAATTGAAATAGTT
Found at i:88302607 original size:93 final size:93
Alignment explanation
Indices: 88302495--88302666 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
88302485 CGCCCATAAG
*
88302495 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
88302559 AATGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
**
88302588 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88302653 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88302667 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88302682 original size:46 final size:46
Alignment explanation
Indices: 88302488--88302668 Score: 181
Period size: 46 Copynumber: 3.9 Consensus size: 46
88302478 TGTAACCCGC
* * *
88302488 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGCTCGCAT
* * *
88302534 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * * **
88302584 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
88302627 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
88302669 AATCATCCTA
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 64 0.60
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:88308047 original size:27 final size:27
Alignment explanation
Indices: 88308017--88308194 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
88308007 ATATTGAGTC
* *
88308017 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
88308044 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
88308071 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
88308099 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
88308126 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
88308153 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
88308180 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88308195 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:88308156 original size:82 final size:81
Alignment explanation
Indices: 88308038--88308193 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
88308028 TGCTATATAA
* *
88308038 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
88308103 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
88308120 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
88308184 CACTTAGTGC
65 CACTTAGTGC
88308194 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88316170 original size:39 final size:39
Alignment explanation
Indices: 88316116--88316197 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
88316106 ATTACCAGCA
*
88316116 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGACACATTT
*
88316155 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGACACATTT
88316194 CCAG
1 CCAG
88316198 TGTCTTGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.26, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGACACATTT
Found at i:88322263 original size:2 final size:2
Alignment explanation
Indices: 88322258--88322294 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
88322248 ATTTAGGTTT
* *
88322258 TA TA TA TA TA TA TA TT TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88322295 GTGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:88323500 original size:39 final size:39
Alignment explanation
Indices: 88323310--88323527 Score: 251
Period size: 39 Copynumber: 5.5 Consensus size: 39
88323300 TAATGGAGAA
* *
88323310 TTATATCCAGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
88323349 TTATCTCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
**
88323388 TTATATCTAGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
88323427 TTATATCCGGGCTAAG-CCTCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCC-CGAAGGCATTCGTGCTGGTG
* * * * * * *
88323466 TTCTCTCCGGGCTAAAGTCCCGTAGG-GTTTGTGCTGATA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
88323505 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
88323528 CATGCTTTGT
Statistics
Matches: 153, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.01
39 132 0.86
40 17 0.11
41 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:88327828 original size:17 final size:19
Alignment explanation
Indices: 88327796--88327834 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
88327786 ATGTGGTCCA
88327796 CCCGTGTGAACCCACA-AG
1 CCCGTGTGAACCCACACAG
*
88327814 CCCGTGTG-GCCCACACAG
1 CCCGTGTGAACCCACACAG
88327832 CCC
1 CCC
88327835 TAAAGTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.46, G:0.23, T:0.10
Consensus pattern (19 bp):
CCCGTGTGAACCCACACAG
Found at i:88328334 original size:30 final size:30
Alignment explanation
Indices: 88328298--88328358 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
88328288 CAAAGCAATA
*
88328298 AAACGCTAATTGCACTTACCAAACGCAAAG
1 AAACGCTAATTACACTTACCAAACGCAAAG
88328328 AAACGCTAATTACACTTACCAAACGCAAAG
1 AAACGCTAATTACACTTACCAAACGCAAAG
88328358 A
1 A
88328359 GAGAACAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.16
Consensus pattern (30 bp):
AAACGCTAATTACACTTACCAAACGCAAAG
Found at i:88330330 original size:33 final size:33
Alignment explanation
Indices: 88330293--88330366 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
88330283 ATCCCTCCAG
88330293 CACACCAATGCTCAGAAGAGCTAATCCAACCAA
1 CACACCAATGCTCAGAAGAGCTAATCCAACCAA
* * * *
88330326 CACACTAGTGCTCATAAGAGCTAGTCCAACCAA
1 CACACCAATGCTCAGAAGAGCTAATCCAACCAA
88330359 CACACCAA
1 CACACCAA
88330367 ACAGAGAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.34, G:0.12, T:0.14
Consensus pattern (33 bp):
CACACCAATGCTCAGAAGAGCTAATCCAACCAA
Found at i:88335443 original size:40 final size:40
Alignment explanation
Indices: 88335397--88335583 Score: 206
Period size: 39 Copynumber: 4.7 Consensus size: 40
88335387 ACTACTTGCT
88335397 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAGTAACTCGCA
*
88335437 CAAATGCCTTCGGGACTTAGCCCGGTTCA-A-TAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-ATAGTAACTCGCA
* * * *
88335476 CCAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
88335516 CAATTGCCTTTGGG-TTTAGCCCGGAATT-T-GTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCGCA
88335555 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
88335584 CATCCGAATA
Statistics
Matches: 122, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
38 3 0.02
39 61 0.50
40 55 0.45
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:88335482 original size:39 final size:38
Alignment explanation
Indices: 88335397--88335582 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 38
88335387 ACTACTTGCT
*
88335397 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTA-A-TAACTCACA
88335437 CAAATGCCTTCGGGACTTAGCCCGGTTCAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-AATAACTCACA
* * *
88335476 CCAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGT-TAATAACTCACA
* * * ** *
88335516 CAATTGCCTTTGGG-TTTAGCCCGGAATTTGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGG--TTAATAACTCA-CA
88335555 CAAATGCCTTCGGGACTTAGCCCGGTTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA
88335583 TCATCCGAAT
Statistics
Matches: 121, Mismatches: 17, Indels: 18
0.78 0.11 0.12
Matches are distributed among these distances:
38 3 0.02
39 56 0.46
40 59 0.49
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTAATAACTCACA
Found at i:88335561 original size:79 final size:79
Alignment explanation
Indices: 88335397--88335577 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 79
88335387 ACTACTTGCT
* * *
88335397 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAG-CCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCG
88335461 GTTCAATAACTCACA
65 GTTCAATAACTCACA
* * * *
88335476 CCAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAATTGCCTTTGGG-TTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
** *
88335540 AATT-TGTCACT-AGCA
66 --TTCAATAACTCA-CA
88335555 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
88335578 GGTTATCATC
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 10 0.11
79 74 0.85
80 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
TTCAATAACTCACA
Found at i:88346846 original size:46 final size:46
Alignment explanation
Indices: 88346796--88346883 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
88346786 TTTGCTACAA
88346796 TCGCAACATCATCCCTCGCAATGTCACGACATTGATCATACAAATG
1 TCGCAACATCATCCCTCGCAATGTCACGACATTGATCATACAAATG
* ***
88346842 TCGCAAGATCATCCCTCGCAATGTTGTGACATTGATCATACA
1 TCGCAACATCATCCCTCGCAATGTCACGACATTGATCATACA
88346884 TAGAGTGGCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (46 bp):
TCGCAACATCATCCCTCGCAATGTCACGACATTGATCATACAAATG
Found at i:88349165 original size:160 final size:161
Alignment explanation
Indices: 88348857--88349178 Score: 601
Period size: 160 Copynumber: 2.0 Consensus size: 161
88348847 ATTCAATTCC
*
88348857 GTTACAGTCCTATTCCATTCCAGTGAACCAAACATTCTGTTAGAGAAGCAAGAAGCAACCAGTTG
1 GTTACAGCCCTATTCCATTCCAGTGAACCAAACATTCTGTTAGAGAAGCAAGAAGCAACCAGTTG
*
88348922 TAGCTTGCAGTAGCACAGAGCTGAATTTACAGCCCTTGCATAATGAACTAGTGAGCTGATTTGGT
66 TAGCTTGCAG-AGCACAGAGCTGAATTTACAGCCCTTGCATAAGGAACTAGTGAGCTGATTTGGT
88348987 TAAAAAGGTTAATGGAAGAACTTAAAGTTCAT
130 TAAAAAGGTTAATGGAAGAACTTAAAGTTCAT
*
88349019 GTTACAGCCCTATTCCATTCCAGTGAACCAAACGTTCTGTTAGAGAAGCAAGAAGCAACCAGTTG
1 GTTACAGCCCTATTCCATTCCAGTGAACCAAACATTCTGTTAGAGAAGCAAGAAGCAACCAGTTG
88349084 TAGCTTGCA-AGCACAGAGCTGAATTTACAGCCCTTGCATAAGGAACTAGTGAGCTGATTTGGTT
66 TAGCTTGCAGAGCACAGAGCTGAATTTACAGCCCTTGCATAAGGAACTAGTGAGCTGATTTGGTT
88349148 AAAAAGGTTAATGGAAGAACTTAAAGTTCAT
131 AAAAAGGTTAATGGAAGAACTTAAAGTTCAT
88349179 AATATGGGAT
Statistics
Matches: 157, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
160 85 0.54
162 72 0.46
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (161 bp):
GTTACAGCCCTATTCCATTCCAGTGAACCAAACATTCTGTTAGAGAAGCAAGAAGCAACCAGTTG
TAGCTTGCAGAGCACAGAGCTGAATTTACAGCCCTTGCATAAGGAACTAGTGAGCTGATTTGGTT
AAAAAGGTTAATGGAAGAACTTAAAGTTCAT
Found at i:88349702 original size:32 final size:31
Alignment explanation
Indices: 88349629--88349702 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 31
88349619 AATGAATTTC
*
88349629 TTTCTATTCTCATTTACAAAAATTCCTTCTA
1 TTTCTATTTTCATTTACAAAAATTCCTTCTA
* *
88349660 TTCTCTATTTTCATTTGCATAAATTCCTTCTA
1 TT-TCTATTTTCATTTACAAAAATTCCTTCTA
88349692 TTTCTGATTTT
1 TTTCT-ATTTT
88349703 AGTTTTAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 5 0.13
32 33 0.87
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.54
Consensus pattern (31 bp):
TTTCTATTTTCATTTACAAAAATTCCTTCTA
Found at i:88349781 original size:12 final size:12
Alignment explanation
Indices: 88349764--88349788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88349754 TGGGCAGATC
88349764 ACCTTTAACATA
1 ACCTTTAACATA
88349776 ACCTTTAACATA
1 ACCTTTAACATA
88349788 A
1 A
88349789 TAGACATCTA
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ACCTTTAACATA
Found at i:88355295 original size:33 final size:33
Alignment explanation
Indices: 88355248--88355345 Score: 151
Period size: 33 Copynumber: 3.0 Consensus size: 33
88355238 GTCTGAGTGA
* *
88355248 GAGTGTTTGATTGCTGGACAGGAGCTAGAATGG
1 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGG
*
88355281 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATTG
1 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGG
* *
88355314 AAGTGTGTGGTTGCTGGACAGGAGCTGGAATG
1 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATG
88355346 TCAAGAAGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.21, C:0.09, G:0.42, T:0.28
Consensus pattern (33 bp):
GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGG
Found at i:88358670 original size:44 final size:44
Alignment explanation
Indices: 88358565--88358688 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 44
88358555 TCTCACAAAA
* * * * *
88358565 ATCAAGGGGAATCTTCAACAACTTGCAAAGTCTACATGACTTCCTCAT
1 ATCAAGGGAAATCTGCAACTACTTGCAAA-T-T-CA-AACTTCCTAAT
*
88358613 ATCAAGGGAAATCTGCAACTACTTGCAGATTCAAACTTCCTAAT
1 ATCAAGGGAAATCTGCAACTACTTGCAAATTCAAACTTCCTAAT
88358657 ATCAA-GGAGAATCTGCAACTACTTGCAAATTC
1 ATCAAGGGA-AATCTGCAACTACTTGCAAATTC
88358689 TGCACAGCCA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
43 3 0.04
44 36 0.53
45 2 0.03
46 1 0.01
47 1 0.01
48 25 0.37
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (44 bp):
ATCAAGGGAAATCTGCAACTACTTGCAAATTCAAACTTCCTAAT
Found at i:88358745 original size:22 final size:22
Alignment explanation
Indices: 88358715--88358764 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
88358705 TTTGTTATGT
*
88358715 TATTGTAGGAATATTCTGTAAA
1 TATTTTAGGAATATTCTGTAAA
* *
88358737 TATTTTAGGAATATTTTGTAGA
1 TATTTTAGGAATATTCTGTAAA
88358759 TATTTT
1 TATTTT
88358765 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (22 bp):
TATTTTAGGAATATTCTGTAAA
Found at i:88363344 original size:22 final size:22
Alignment explanation
Indices: 88363316--88363360 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
88363306 AGGGGGAGTG
88363316 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
88363338 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
88363360 T
1 T
88363361 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:88368713 original size:130 final size:130
Alignment explanation
Indices: 88368507--88368771 Score: 503
Period size: 130 Copynumber: 2.0 Consensus size: 130
88368497 ATATCCTTAG
*
88368507 AGATCTCAACAATAGTTAATTGTGAGATAAAAGCAAAAAAACAGGTGACAAATTTTTGTAAGAAA
1 AGATCTCAACAATAGTTAATTGTGAGATAAAAGCAAAAAAACAGGTGACAAATTTATGTAAGAAA
88368572 CAAAATTAGACGAAGGATATTTAACACAACTCCTCACTCCTTTCCTTTCGGAAATAAGGAAATCA
66 CAAAATTAGACGAAGGATATTTAACACAACTCCTCACTCCTTTCCTTTCGGAAATAAGGAAATCA
*
88368637 AGATCTCAACAATAGTTAATTGTGAGATAAAAGCAGAAAAACAGGTGACAAATTTATGTAAGAAA
1 AGATCTCAACAATAGTTAATTGTGAGATAAAAGCAAAAAAACAGGTGACAAATTTATGTAAGAAA
*
88368702 CAAAATTAGACGAAGGATATTTAACACAACTCCTCACTCCTTTCCTTTTGGAAATAAGGAAATCA
66 CAAAATTAGACGAAGGATATTTAACACAACTCCTCACTCCTTTCCTTTCGGAAATAAGGAAATCA
88368767 AGATC
1 AGATC
88368772 AGATTCAAAA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (130 bp):
AGATCTCAACAATAGTTAATTGTGAGATAAAAGCAAAAAAACAGGTGACAAATTTATGTAAGAAA
CAAAATTAGACGAAGGATATTTAACACAACTCCTCACTCCTTTCCTTTCGGAAATAAGGAAATCA
Found at i:88378285 original size:21 final size:22
Alignment explanation
Indices: 88378261--88378304 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
88378251 GAAGCAGAAG
88378261 AGAACA-AAA-AAAAAAGTTAAA
1 AGAACAGAAAGAAAAAA-TTAAA
88378282 AGAACATGAAAGAAAAAATTAAA
1 AGAACA-GAAAGAAAAAATTAAA
88378305 TTGCTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (22 bp):
AGAACAGAAAGAAAAAATTAAA
Found at i:88387165 original size:28 final size:28
Alignment explanation
Indices: 88387132--88387188 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
88387122 TAATAAAAGT
88387132 ATGATTATTTTCAACATAAAATGACTGA
1 ATGATTATTTTCAACATAAAATGACTGA
88387160 ATGATTATTTTCAACATAAAATGACTGA
1 ATGATTATTTTCAACATAAAATGACTGA
88387188 A
1 A
88387189 CTAGACTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (28 bp):
ATGATTATTTTCAACATAAAATGACTGA
Found at i:88390165 original size:36 final size:36
Alignment explanation
Indices: 88390125--88390193 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
88390115 TATTCCAACT
*
88390125 GAAACACACCAGATGCTCATAAGAGCTAGTCCAATC
1 GAAACACACCAGATGCTCATAAGAGCCAGTCCAATC
* *
88390161 GAAACACATCAGATGCTCATACGAGCCAGTCCA
1 GAAACACACCAGATGCTCATAAGAGCCAGTCCA
88390194 CCCAAAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (36 bp):
GAAACACACCAGATGCTCATAAGAGCCAGTCCAATC
Found at i:88392155 original size:30 final size:30
Alignment explanation
Indices: 88392121--88392180 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
88392111 ATCAAAGGTG
88392121 ATAGAACGAAACATATTTCACAAAAATTAT
1 ATAGAACGAAACATATTTCACAAAAATTAT
88392151 ATAGAACGAAACATATTTCACAAAAATTAT
1 ATAGAACGAAACATATTTCACAAAAATTAT
88392181 TCTTCACCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (30 bp):
ATAGAACGAAACATATTTCACAAAAATTAT
Found at i:88393018 original size:14 final size:14
Alignment explanation
Indices: 88392999--88393031 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
88392989 TTGTTTAACT
*
88392999 GAAAATGGTTTCTA
1 GAAAATGATTTCTA
88393013 GAAAATGATTTCTA
1 GAAAATGATTTCTA
88393027 GAAAA
1 GAAAA
88393032 CGACTTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:88394880 original size:4 final size:4
Alignment explanation
Indices: 88394871--88394897 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
88394861 CCATGTTGCC
88394871 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
88394898 CATCATATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:88396739 original size:54 final size:54
Alignment explanation
Indices: 88396681--88396882 Score: 262
Period size: 54 Copynumber: 3.7 Consensus size: 54
88396671 CCCTATAGTG
* * * *
88396681 GTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAAATCTATCC-TACAAGA
1 GTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-CCTTACAGGA
* * *
88396735 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGG
1 GTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGA
* * * * *
88396789 GTATTTCGGTAATTTTACCTTACAGGGGTATTTCGGTAATTGTACCTTACAGGA
1 GTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGA
* *
88396843 GTATTTTAGTAATTCTACCCTACAAGAGTATTTCGGTAAT
1 GTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAAT
88396883 GCTAGCCTAC
Statistics
Matches: 128, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 2 0.02
54 126 0.98
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
GTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGA
Found at i:88396771 original size:81 final size:81
Alignment explanation
Indices: 88396662--88396881 Score: 262
Period size: 81 Copynumber: 2.7 Consensus size: 81
88396652 GGGTATCTGT
* * * *
88396662 GTAATTTTACCCTATAGTGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAAATCTATC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAAATCTA-C
88396727 C-TACAAGAGTATTTCA
65 CTTACAAGAGTATTTCA
* * * * *
88396743 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCGGTAATTTTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAAATCTACC
* * *
88396808 TTACAGGGGTATTTCG
66 TTACAAGAGTATTTCA
* * * ** *
88396824 GTAATTGTACCTTACAGGAGTATTTTAGTAATTCTACCCTACAAGAGTATTTCGGTAA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAA
88396882 TGCTAGCCTA
Statistics
Matches: 117, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
80 2 0.02
81 115 0.98
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAAATCTACC
TTACAAGAGTATTTCA
Found at i:88396892 original size:27 final size:26
Alignment explanation
Indices: 88396662--88396894 Score: 223
Period size: 27 Copynumber: 8.6 Consensus size: 26
88396652 GGGTATCTGT
* * *
88396662 GTAATTTTACCCTATAGTGGTATTTCG
1 GTAATTCTA-CCTACAGGGGTATTTCG
* *
88396689 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTA-CCTACAGGGGTATTTCG
* * * *
88396716 GTAAATCTATCCTACAAGAGTATTTCA
1 GTAATTCTA-CCTACAGGGGTATTTCG
88396743 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTA-CCTACAGGGGTATTTCG
*
88396770 GTAATTCTACCTTATAGGGGTATTTCG
1 GTAATTCTACC-TACAGGGGTATTTCG
*
88396797 GTAATTTTACCTTACAGGGGTATTTCG
1 GTAATTCTACC-TACAGGGGTATTTCG
* * **
88396824 GTAATTGTACCTTACAGGAGTATTTTA
1 GTAATTCTACC-TACAGGGGTATTTCG
* *
88396851 GTAATTCTACCCTACAAGAGTATTTCG
1 GTAATTCTA-CCTACAGGGGTATTTCG
*
88396878 GTAATGCTAGCCTACAG
1 GTAATTCTA-CCTACAG
88396895 ATATGAGATT
Statistics
Matches: 175, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 171 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
GTAATTCTACCTACAGGGGTATTTCG
Found at i:88399778 original size:27 final size:27
Alignment explanation
Indices: 88399758--88399962 Score: 268
Period size: 27 Copynumber: 7.6 Consensus size: 27
88399748 GGGTATCTTA
* *
88399758 GTAATTCTACCCTATAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
88399785 GT-ATTTTACCCCACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
88399811 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
88399838 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
88399865 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
88399892 GTAATTCTACCTTACAGGAGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
88399919 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
88399946 GTAATGCTAGCCTACAG
1 GTAATTCTACCCTACAG
88399963 ATATGAGATT
Statistics
Matches: 153, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 21 0.14
27 132 0.86
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:88401407 original size:46 final size:46
Alignment explanation
Indices: 88401321--88401408 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 46
88401311 CAGGGTCCTT
* *
88401321 CTTATACCATTGGTTCATAACTTGTTATAGAAATTTGGTCAAGTTC
1 CTTATACCATTGGTTCATAACTTGATATAGAAATTGGGTCAAGTTC
* * ** **
88401367 CTTATACCTTTGGTTCGTTTCTTGATATAGTTATTGGGTCAA
1 CTTATACCATTGGTTCATAACTTGATATAGAAATTGGGTCAA
88401409 TGTCTTTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (46 bp):
CTTATACCATTGGTTCATAACTTGATATAGAAATTGGGTCAAGTTC
Found at i:88408279 original size:17 final size:17
Alignment explanation
Indices: 88408257--88408296 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
88408247 TTGGGCTAAT
* *
88408257 TGGGCCATACGAGCGTG
1 TGGGCCACACGAGCGTA
88408274 TGGGCCACACGAGCGTA
1 TGGGCCACACGAGCGTA
88408291 TGGGCC
1 TGGGCC
88408297 TACTTGGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (17 bp):
TGGGCCACACGAGCGTA
Found at i:88412267 original size:39 final size:39
Alignment explanation
Indices: 88412116--88412285 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 39
88412106 GGACTAAGAT
* *
88412116 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTATGTC
*
88412156 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAT-TC
1 CCGAAGG-CATTGTGCGAGATACTAAATCCGGGTT-ATGTC
* *
88412196 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGATACTAAATCCGGGTTATGTC
* * * *
88412236 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTATGTC
88412275 CCGAAGGCATT
1 CCGAAGGCATT
88412286 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
39 40 0.35
40 70 0.61
41 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTATGTC
Found at i:88412305 original size:79 final size:80
Alignment explanation
Indices: 88412143--88412320 Score: 184
Period size: 79 Copynumber: 2.2 Consensus size: 80
88412133 AGATACAAAT
* * * *
88412143 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAATTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAATTCCCGAAGGCATTC
** * *
88412208 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * *
88412223 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCT-ATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAT-TCCCGAAGGCATT
* *
88412286 TGAACGAG-GAGCTATA
65 CGAACGAGTGA-CTAAA
*
88412302 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
88412321 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
78 17 0.21
79 46 0.57
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAATTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:88418701 original size:37 final size:38
Alignment explanation
Indices: 88418646--88418799 Score: 220
Period size: 38 Copynumber: 4.0 Consensus size: 38
88418636 AGCACTCGAT
88418646 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
*
88418684 ATATATCC-GGTTAAGTCCCACAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
* *
88418721 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
* * * *
88418759 TTATATCCGAGCTTAAAGTCCCGCAAGCTTTGTGCTGGTA
1 ATATATCCG-GGTT-AAGTCCCGCAGGCTTCGTGCTGGTA
88418799 A
1 A
88418800 CTGGATTCGG
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
37 36 0.35
38 42 0.41
39 3 0.03
40 22 0.21
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
Found at i:88432210 original size:28 final size:28
Alignment explanation
Indices: 88432147--88432268 Score: 201
Period size: 28 Copynumber: 4.4 Consensus size: 28
88432137 ATATTAAGTC
* * *
88432147 CGCACACTCAGTGCTATACAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
88432174 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
88432202 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
88432230 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
88432258 CGCACACTTAG
1 CGCACACTTAG
88432269 CGCCAATCTC
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 21 0.23
28 70 0.77
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:88444077 original size:18 final size:17
Alignment explanation
Indices: 88444041--88444081 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
88444031 AAAGAAAGAG
88444041 AAAAGAAAGGAAAAGGA
1 AAAAGAAAGGAAAAGGA
* *
88444058 AAAAGAAGGAGAAAATGA
1 AAAAGAAAG-GAAAAGGA
88444076 AAAAGA
1 AAAAGA
88444082 GAAAAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (17 bp):
AAAAGAAAGGAAAAGGA
Found at i:88448906 original size:50 final size:49
Alignment explanation
Indices: 88448790--88448976 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 49
88448780 TGAGGTCGCA
* * * * *
88448790 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCAAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
** *
88448841 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
88448891 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* * *
88448940 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
88448977 TAGCTTCGGC
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 38 0.33
50 42 0.37
51 30 0.26
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:88457513 original size:31 final size:31
Alignment explanation
Indices: 88457475--88457536 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
88457465 ACGATTTTGG
88457475 AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
1 AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
88457506 AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
1 AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
88457537 TGCATTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (31 bp):
AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
Found at i:88459712 original size:43 final size:42
Alignment explanation
Indices: 88459600--88459712 Score: 99
Period size: 43 Copynumber: 2.7 Consensus size: 42
88459590 GAGATTCATG
* *
88459600 TGTAAGACCATGTCTGGGAC-TTCGGCATCGTATCTGATTTCA
1 TGTAAGACCACGTCTGGGACGTT-GGCATCGTATCTGATTACA
* * * *
88459642 TGCAAGACC-CTGTCTAGGAAAG-AGGCATCGATAT-TGAATTACA
1 TGTAAGACCAC-GTCT-GGGACGTTGGCATCG-TATCTG-ATTACA
88459685 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
88459713 TGTACTTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
42 25 0.46
43 28 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATCTGATTACA
Found at i:88463319 original size:48 final size:48
Alignment explanation
Indices: 88463215--88463572 Score: 500
Period size: 48 Copynumber: 7.4 Consensus size: 48
88463205 GTAGTGAATA
* * *
88463215 TGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAA
1 TGTGAAATATATATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAC
* * *
88463265 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGCCTAC
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAC
* * *
88463313 TATGAAAAATATATGAGATATGTATATGTGGCAAAGCCGAATGGCTAC
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAC
* *
88463361 TGTGAAATATATATGAGATATGTATATGTGGTAAAGTCGAATGCCTAC
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAC
* * *
88463409 TATGAAAAATATATGAGATATGTATATGTGGCAAAGCCGAATGGCTAC
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAC
*
88463457 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAC
** * *
88463505 TGTGAAATATGCATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAA
1 TGTGAAATATATATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAC
*
88463555 TGTGAAATATGTATGAGA
1 TGTGAAATATATATGAGA
88463573 GGATGGAAGA
Statistics
Matches: 278, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
48 214 0.77
50 64 0.23
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAC
Found at i:88463874 original size:48 final size:48
Alignment explanation
Indices: 88463780--88464013 Score: 344
Period size: 48 Copynumber: 4.9 Consensus size: 48
88463770 TATATATATG
***
88463780 TGTGGTAAAGCCGAATGGCGTGAATAAAAAATATGTATGAGATATGTACA
1 TGTGGTAAAGCCGAATGGC-T-AATGTGAAATATGTATGAGATATGTACA
88463830 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
* *
88463878 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
* * *
88463926 TATGGTAAAGCCGAATGG-TAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
* * *
88463973 TGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
88464014 GTGTGTATAT
Statistics
Matches: 172, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 43 0.25
48 109 0.63
49 1 0.01
50 19 0.11
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
Found at i:88463982 original size:95 final size:96
Alignment explanation
Indices: 88463771--88464023 Score: 346
Period size: 95 Copynumber: 2.6 Consensus size: 96
88463761 CAAGATAAAT
* * *** * *
88463771 ATATATATGTGTGGTAAAGCCGAATGGCGTGAATAAAAAATATGTATGAGATATGTACATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGC-T-AATGTGAAATATGTATGAGATATGTATATATGGT
88463836 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
88463869 ATATGTACATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATATGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATGGTAA
*
88463934 AGCCGAATGG-TAGTGTGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * *
88463964 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTAGGAGATGTGTGTATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATAT
88464024 TGTGGCCGAA
Statistics
Matches: 138, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
95 72 0.52
96 40 0.29
97 1 0.01
98 25 0.18
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATGGTAA
AGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:88464207 original size:37 final size:37
Alignment explanation
Indices: 88464154--88464256 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
88464144 GGAAATATAT
* *
88464154 TCCGGGTAAGATCCGATTACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
88464191 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
88464228 TCCGGGAAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATAACTACGTGTGG
88464257 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:88468678 original size:31 final size:31
Alignment explanation
Indices: 88468637--88468697 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
88468627 TTTCATATTT
*
88468637 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATCTCATAACACTGGGCCGAAGCCTTTC
**
88468668 CATATCTCATATTACTGGGCCGAAGCCTTT
1 CATATCTCATAACACTGGGCCGAAGCCTTT
88468698 ACTGTAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCTCATAACACTGGGCCGAAGCCTTTC
Found at i:88468942 original size:24 final size:24
Alignment explanation
Indices: 88468891--88469013 Score: 176
Period size: 25 Copynumber: 5.0 Consensus size: 24
88468881 GCTTTTTCAT
*
88468891 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
88468916 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
88468940 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
88468965 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
88468990 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
88469014 CACTTCCTCC
Statistics
Matches: 93, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
24 33 0.35
25 60 0.65
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:88468969 original size:49 final size:49
Alignment explanation
Indices: 88468891--88469013 Score: 178
Period size: 49 Copynumber: 2.5 Consensus size: 49
88468881 GCTTTTTCAT
*
88468891 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT-TA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTATA
* *
88468940 ATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TAATAACTGGGGCATAAGCCCTTTATA
88468990 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
88469014 CACTTCCTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
48 8 0.12
49 36 0.54
50 23 0.34
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (49 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATA
Found at i:88469089 original size:20 final size:20
Alignment explanation
Indices: 88469064--88469108 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
88469054 ATGAATACAT
*
88469064 CATGTGCATATCATACATAC
1 CATGTGCATATCATACAAAC
88469084 CATGTGCATATCATACAAAC
1 CATGTGCATATCATACAAAC
88469104 CATGT
1 CATGT
88469109 TTATCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (20 bp):
CATGTGCATATCATACAAAC
Found at i:88469184 original size:25 final size:25
Alignment explanation
Indices: 88469145--88469192 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
88469135 ATATTTAAAC
* *
88469145 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
88469170 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
88469193 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:88476014 original size:29 final size:29
Alignment explanation
Indices: 88475975--88476053 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
88475965 CTTAATAATC
*
88475975 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
88476005 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
88476034 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
88476054 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:88480048 original size:27 final size:28
Alignment explanation
Indices: 88479939--88480061 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
88479929 GAGATTGGCG
* * * *
88479939 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
88479968 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
88479996 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
88480024 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
88480051 CTGAGTGTGCG
1 CTAAGTGTGCG
88480062 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.27
28 47 0.55
29 15 0.18
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:88480051 original size:55 final size:57
Alignment explanation
Indices: 88479939--88480061 Score: 169
Period size: 55 Copynumber: 2.2 Consensus size: 57
88479929 GAGATTGGCG
* * * *
88479939 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
* *
88479996 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
*
88480051 CTGAGTGTGCG
1 CTAAGTGTGCG
88480062 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 23 0.39
56 21 0.36
57 15 0.25
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
Found at i:88480072 original size:27 final size:27
Alignment explanation
Indices: 88479964--88480074 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
88479954 TAAATTGTAC
** * *
88479964 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGC-AACTTGAATATAT
** *
88479992 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
88480020 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
88480047 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
88480074 A
1 A
88480075 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 31 0.41
28 44 0.59
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Found at i:88483312 original size:31 final size:31
Alignment explanation
Indices: 88483271--88483331 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
88483261 TTTCATATTT
*
88483271 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATCTCATAACACTGGGCCGAAGCCTTTC
** * *
88483302 CATATCTCATATTACTTGGCTGAAGCCTTT
1 CATATCTCATAACACTGGGCCGAAGCCTTT
88483332 ACTGTAAACG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (31 bp):
CATATCTCATAACACTGGGCCGAAGCCTTTC
Found at i:88483602 original size:48 final size:49
Alignment explanation
Indices: 88483525--88483621 Score: 128
Period size: 48 Copynumber: 2.0 Consensus size: 49
88483515 GCTTTTTCAT
*
88483525 ATAACTGGAGGCCTAGCCTCTTTTAATAACTAGGGCA-AAGCCCTTTTA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTAGGGCATAAGCCCTTTTA
* *
88483573 ATAACTGG-GGCATAAGCC-CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGAGGCAT-AGCCTCTTT-TAATAACTAGGGCATAAGCCCTTTTA
88483622 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 8 0.19
48 24 0.56
49 11 0.26
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTAGGGCATAAGCCCTTTTA
Found at i:88483606 original size:25 final size:24
Alignment explanation
Indices: 88483525--88483621 Score: 126
Period size: 25 Copynumber: 4.0 Consensus size: 24
88483515 GCTTTTTCAT
*
88483525 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
88483550 ATAACTAGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
88483573 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
88483598 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
88483622 CACTTCCTCC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
23 17 0.27
24 17 0.27
25 30 0.47
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:88483695 original size:20 final size:20
Alignment explanation
Indices: 88483670--88483716 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
88483660 TTATGAATAC
88483670 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
88483690 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
88483710 ACCATGT
1 ATCATGT
88483717 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:88484159 original size:24 final size:24
Alignment explanation
Indices: 88484116--88484161 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
88484106 AAAGAAATGG
*
88484116 GAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAGAGAAAAAAAATGAT
88484140 GAAAACAAAAGA-AAAAAAAATG
1 GAAAA-AAAAGAGAAAAAAAATG
88484162 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAGAGAAAAAAAATGAT
Found at i:88484743 original size:59 final size:59
Alignment explanation
Indices: 88484677--88484795 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
88484667 ACTTGAAACA
88484677 AAATGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTGTTGCAATC
1 AAATGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTGTTGCAATC
88484736 AAATGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTGTTGCAATC
1 AAATGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTGTTGCAATC
88484795 A
1 A
88484796 GCCCCAACAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (59 bp):
AAATGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTGTTGCAATC
Found at i:88485602 original size:40 final size:39
Alignment explanation
Indices: 88485459--88485601 Score: 214
Period size: 39 Copynumber: 3.6 Consensus size: 39
88485449 TCGGTTGATA
* *
88485459 ACCGGGCTAAGTCTCGAAGGCATTCATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
*
88485498 ACCGGGCTAAGTCCCGAAGGCATTTATGCAAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
* * *
88485537 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
*
88485576 AACCAGGCTAAGTCCCGAAGGCATTT
1 -ACCGGGCTAAGTCCCGAAGGCATTT
88485602 GAGCTAGTGG
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 71 0.75
40 24 0.25
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
Found at i:88493497 original size:39 final size:39
Alignment explanation
Indices: 88493440--88493621 Score: 283
Period size: 39 Copynumber: 4.6 Consensus size: 39
88493430 TCGGTTGATA
**
88493440 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
*
88493479 ACTGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
88493518 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
* * * *
88493557 ACAGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
*
88493596 AACCAGGCTAAGTCCCGAAGGCATTT
1 -ACCGGGCTAAGTCCCGAAGGCATTT
88493622 GAGCTAGTGG
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 109 0.83
40 23 0.17
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
Found at i:88495133 original size:25 final size:25
Alignment explanation
Indices: 88495087--88495134 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
88495077 ATATTTAAAC
* * * *
88495087 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTGATTTTTA
88495112 CCTAGGGGCAAAACGGTGATTTT
1 CCTAGGGGCAAAACGGTGATTTT
88495135 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTGATTTTTA
Found at i:88502344 original size:24 final size:24
Alignment explanation
Indices: 88502312--88502371 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
88502302 ACCGTATTCA
* * *
88502312 CACACATAGTGCTA-ATTACACTCG
1 CACACATAGTGCCATAGTAAAC-CG
88502336 CACACATAGTGCCATAGTAAACCG
1 CACACATAGTGCCATAGTAAACCG
88502360 CACACATAGTGC
1 CACACATAGTGC
88502372 ATTGGATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (24 bp):
CACACATAGTGCCATAGTAAACCG
Found at i:88508273 original size:15 final size:15
Alignment explanation
Indices: 88508253--88508282 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88508243 TGGCATGTTC
88508253 GCCATGGTTGTTGAT
1 GCCATGGTTGTTGAT
88508268 GCCATGGTTGTTGAT
1 GCCATGGTTGTTGAT
88508283 ATAGCTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.33, T:0.40
Consensus pattern (15 bp):
GCCATGGTTGTTGAT
Found at i:88514439 original size:83 final size:83
Alignment explanation
Indices: 88514299--88514463 Score: 285
Period size: 83 Copynumber: 2.0 Consensus size: 83
88514289 GAAAAATCCG
*
88514299 TACGCACGGGGATAAAGTGAGCCGACTTAGTCAGCCTATCAACAACAACCCAAATCGCATCCTTC
1 TACGCACAGGGATAAAGTGAGCCGACTTAGTCAGCCTATCAACAACAACCCAAATCGCATCCTTC
88514364 TTACTTGCTGACAATGGC
66 TTACTTGCTGACAATGGC
* * *
88514382 TACGCACAGGGATAAAGTGAGCTGACTTAGTCAGTCTATCAACAACAACCCAGATCGCATCCTTC
1 TACGCACAGGGATAAAGTGAGCCGACTTAGTCAGCCTATCAACAACAACCCAAATCGCATCCTTC
*
88514447 TTACTTGTTGACAATGG
66 TTACTTGCTGACAATGG
88514464 TAGTCCGGAC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (83 bp):
TACGCACAGGGATAAAGTGAGCCGACTTAGTCAGCCTATCAACAACAACCCAAATCGCATCCTTC
TTACTTGCTGACAATGGC
Found at i:88515600 original size:68 final size:68
Alignment explanation
Indices: 88515491--88515626 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
88515481 GGCGAGCCCT
*
88515491 AGGAAGCTCCGGACTTCGGTAACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCT
1 AGGAAGCTCCGGACTTCGGTAACATTTCTCGGAGGCTTCCAGTTAACTATGGCTGAAATTTTGCT
88515556 CGG
66 CGG
88515559 AGGAAGCTCCGGACTTCGGTAACATTTCTCGGAGGCTTCCAGTTAACTATGGCTGAAATTTTGCT
1 AGGAAGCTCCGGACTTCGGTAACATTTCTCGGAGGCTTCCAGTTAACTATGGCTGAAATTTTGCT
88515624 CGG
66 CGG
88515627 GTCAACTCGA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (68 bp):
AGGAAGCTCCGGACTTCGGTAACATTTCTCGGAGGCTTCCAGTTAACTATGGCTGAAATTTTGCT
CGG
Found at i:88530457 original size:27 final size:27
Alignment explanation
Indices: 88530426--88530603 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
88530416 TAAATTGTAC
88530426 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88530453 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88530479 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88530507 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88530535 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
88530562 AGCACTAAGTGTGCTAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88530589 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88530604 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88530594 original size:82 final size:81
Alignment explanation
Indices: 88530423--88530603 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
88530413 GATTAAATTG
* *
88530423 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88530488 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88530504 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
88530568 AAGTGTGCTAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88530586 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88530604 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88537751 original size:12 final size:12
Alignment explanation
Indices: 88537734--88537760 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
88537724 ATTCCGAAGT
88537734 ATATATATATAC
1 ATATATATATAC
88537746 ATATATATATAC
1 ATATATATATAC
88537758 ATA
1 ATA
88537761 AGTATGCCAT
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:88538273 original size:27 final size:27
Alignment explanation
Indices: 88538242--88538419 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
88538232 TAAATTGTAC
* *
88538242 AGCACTAAGTGTACGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * ** *
88538269 TGCACTAAGTGTACGAAACGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
88538295 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
88538323 GGCACTAAGTGTGCGAGCTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
88538351 AGCGCTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
88538378 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
88538405 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88538420 GACTCAATAT
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:88539574 original size:71 final size:71
Alignment explanation
Indices: 88539458--88539595 Score: 260
Period size: 71 Copynumber: 1.9 Consensus size: 71
88539448 AGCCCCGTGC
88539458 AGGGAGATATCCAAGTCGTAATGGCCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTT
1 AGGGAGATATCCAAGTCGTAATGGCCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTT
88539523 TGGTGT
66 TGGTGT
88539529 AGGGAGATATCCAAGTCGTAATGGGCC-AAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACT
1 AGGGAGATATCCAAGTCGTAAT-GGCCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACT
88539593 TTG
65 TTG
88539596 ACTAATAAAC
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 62 0.94
72 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (71 bp):
AGGGAGATATCCAAGTCGTAATGGCCAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTT
TGGTGT
Found at i:88546536 original size:27 final size:27
Alignment explanation
Indices: 88546505--88546679 Score: 199
Period size: 27 Copynumber: 6.4 Consensus size: 27
88546495 TAAATTGTAC
88546505 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88546532 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88546558 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88546586 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88546614 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88546641 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88546668 AGCACTGAGTGT
1 AGCACTAAGTGT
88546680 ACGGACTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88546619 original size:82 final size:81
Alignment explanation
Indices: 88546506--88546661 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88546496 AAATTGTACA
* *
88546506 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88546570 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88546587 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88546652 TGCGAGTTGA
65 TGCGAATTGA
88546662 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88546673 original size:82 final size:81
Alignment explanation
Indices: 88546502--88546679 Score: 223
Period size: 82 Copynumber: 2.2 Consensus size: 81
88546492 GATTAAATTG
* *
88546502 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88546567 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88546583 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88546647 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88546665 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
88546680 ACGGACTCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Done.