Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 48 of 85
Found at i:16092925 original size:32 final size:31
Alignment explanation
Indices: 16092820--16092943 Score: 97
Period size: 32 Copynumber: 3.9 Consensus size: 31
16092810 CGATCATTTA
* * * *
16092820 ACTGTTACTGTTGGTTGTGTGCCGATCTTATC
1 ACTGCTACTGATGGTT-TGTGCCAATCATATC
* * *** *
16092852 ACTGCTACTGATGCCTTTATGTTGATCA-AGTT
1 ACTGCTACTGATG-GTTTGTGCCAATCATA-TC
*
16092884 ACTGTTACTGATGGTTGTGTGCCAATCATATC
1 ACTGCTACTGATGGTT-TGTGCCAATCATATC
16092916 ACTGCTACTGATGGATTTGTGCCAATCA
1 ACTGCTACTGATGG-TTTGTGCCAATCA
16092944 CATTACTGTA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
31 3 0.04
32 63 0.89
33 5 0.07
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
ACTGCTACTGATGGTTTGTGCCAATCATATC
Found at i:16092950 original size:64 final size:64
Alignment explanation
Indices: 16092820--16092952 Score: 169
Period size: 64 Copynumber: 2.1 Consensus size: 64
16092810 CGATCATTTA
* * * * ***
16092820 ACTGTTACTGTTGGTTGTGTGCCGATCTTATCACTGCTACTGATGCCTTTATGTTGATCAAGTT
1 ACTGTTACTGATGGTTGTGTGCCAATCATATCACTGCTACTGATGCATTTATGCCAATCAAGTT
* *
16092884 ACTGTTACTGATGGTTGTGTGCCAATCATATCACTGCTACTGATGGATTTGTGCCAATCACA-TT
1 ACTGTTACTGATGGTTGTGTGCCAATCATATCACTGCTACTGATGCATTTATGCCAATCA-AGTT
16092948 ACTGT
1 ACTGT
16092953 ACTTACGGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 58 0.98
65 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (64 bp):
ACTGTTACTGATGGTTGTGTGCCAATCATATCACTGCTACTGATGCATTTATGCCAATCAAGTT
Found at i:16092998 original size:22 final size:22
Alignment explanation
Indices: 16092960--16093001 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16092950 TGTACTTACG
*
16092960 GCTTGTAGTCATTCTATTTATA
1 GCTTGTAGTCATCCTATTTATA
16092982 GCTTGTAGGT-ATCCTATTTA
1 GCTTGTA-GTCATCCTATTTA
16093002 CGGCTCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (22 bp):
GCTTGTAGTCATCCTATTTATA
Found at i:16108268 original size:42 final size:43
Alignment explanation
Indices: 16108209--16108312 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 43
16108199 CAAACAGACC
* * *
16108209 CTTAAACTCACATGGGGAGCATT-GCTAATACACAACTTGTCA
1 CTTAAGCTCACGTGGGGAGCATTCACTAATACACAACTTGTCA
* * *
16108251 CTTAAGCTCACGTGGGGAG-TTTCACTGATACACAGCTTGTCA
1 CTTAAGCTCACGTGGGGAGCATTCACTAATACACAACTTGTCA
16108293 CTTAAGCTCACGTGGGGAGC
1 CTTAAGCTCACGTGGGGAGC
16108313 TTACCGATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
41 2 0.04
42 52 0.96
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTAAGCTCACGTGGGGAGCATTCACTAATACACAACTTGTCA
Found at i:16109027 original size:27 final size:28
Alignment explanation
Indices: 16108966--16109027 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
16108956 GATTTAAGAA
* *
16108966 ACCTAGTTCATCAAATAGACTAGCAAAC
1 ACCTAGCTCACCAAATAGACTAGCAAAC
* *
16108994 ACC-AGCTCACCAAATAGACTGGCGAAC
1 ACCTAGCTCACCAAATAGACTAGCAAAC
16109021 -CCTAGCT
1 ACCTAGCT
16109028 TGCCAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.07
27 24 0.83
28 3 0.10
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.18
Consensus pattern (28 bp):
ACCTAGCTCACCAAATAGACTAGCAAAC
Found at i:16110237 original size:145 final size:146
Alignment explanation
Indices: 16110056--16110349 Score: 581
Period size: 145 Copynumber: 2.0 Consensus size: 146
16110046 ATTTTTAAAA
16110056 TTTATAAAAATAAAAATATTAAAAATTAAAGTAAATAGTAGAAAATTTTTTAAATATTCTAAAAT
1 TTTATAAAAATAAAAATATTAAAAATTAAAGTAAATAGTAGAAAATTTTTTAAATATTCTAAAAT
16110121 GTTTAGAATTTTCAAAAAGGCATAATGAATTTTTTGACCCTCTAACTTTATAATAGAAATCACTT
66 GTTTAGAATTTTCAAAAAGGCATAATGAATTTTTTGACCCTCTAACTTTATAATAGAAATCACTT
16110186 TAACCTTCCATTTAGT
131 TAACCTTCCATTTAGT
16110202 TTTATAAAAAT-AAAATATTAAAAATTAAAGTAAATAGTAGAAAATTTTTTAAATATTCTAAAAT
1 TTTATAAAAATAAAAATATTAAAAATTAAAGTAAATAGTAGAAAATTTTTTAAATATTCTAAAAT
16110266 GTTTAGAATTTTCAAAAAGGCATAATGAATTTTTTGACCCTCTAACTTTATAATAGAAATCACTT
66 GTTTAGAATTTTCAAAAAGGCATAATGAATTTTTTGACCCTCTAACTTTATAATAGAAATCACTT
16110331 TAACCTTCCATTTAGT
131 TAACCTTCCATTTAGT
16110347 TTT
1 TTT
16110350 TCGCCTCTTT
Statistics
Matches: 148, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
145 137 0.93
146 11 0.07
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (146 bp):
TTTATAAAAATAAAAATATTAAAAATTAAAGTAAATAGTAGAAAATTTTTTAAATATTCTAAAAT
GTTTAGAATTTTCAAAAAGGCATAATGAATTTTTTGACCCTCTAACTTTATAATAGAAATCACTT
TAACCTTCCATTTAGT
Found at i:16110900 original size:20 final size:20
Alignment explanation
Indices: 16110857--16110900 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16110847 AATTCTAAAA
* *
16110857 TTTTTAATAATTTTTTATTG
1 TTTTAAATAATTTTTTATTC
16110877 TTTTAAATAA-TTTTTATTAC
1 TTTTAAATAATTTTTTATT-C
16110897 TTTT
1 TTTT
16110901 TTGCAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTAAATAATTTTTTATTC
Found at i:16110954 original size:18 final size:18
Alignment explanation
Indices: 16110908--16110954 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
16110898 TTTTTGCAAG
16110908 TTTTTTAAAAATTCTATA
1 TTTTTTAAAAATTCTATA
* * *
16110926 ATTTTTGAAAATTCTATT
1 TTTTTTAAAAATTCTATA
16110944 TTTTTTAAAAA
1 TTTTTTAAAAA
16110955 AATCAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTTTAAAAATTCTATA
Found at i:16112000 original size:33 final size:34
Alignment explanation
Indices: 16111949--16112018 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 34
16111939 ACATGTAGTA
16111949 ACAGTCTGGACCTGAGCCCTATT-CAGT-AGCAGT
1 ACAGTCTGGACCTGAGCCC-ATTACAGTAAGCAGT
* * * *
16111982 ACAGTGTGGGCCTTAGCCCATTACAGTAATCAGT
1 ACAGTCTGGACCTGAGCCCATTACAGTAAGCAGT
16112016 ACA
1 ACA
16112019 ATTCAGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 3 0.10
33 20 0.65
34 8 0.26
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (34 bp):
ACAGTCTGGACCTGAGCCCATTACAGTAAGCAGT
Found at i:16112155 original size:26 final size:26
Alignment explanation
Indices: 16112124--16112193 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
16112114 ACCAATATCG
* * *
16112124 CAGCAAAGCTGCCAGTGATAATGACG
1 CAGCAAAGCTGCCAGTAATAATAACA
* *
16112150 CGGCAAAGCTGGCAGTAATAATAACA
1 CAGCAAAGCTGCCAGTAATAATAACA
*
16112176 TAGCAAAGCTGCCAGTAA
1 CAGCAAAGCTGCCAGTAA
16112194 CAGTATATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAATAACA
Found at i:16112793 original size:27 final size:27
Alignment explanation
Indices: 16112376--16112849 Score: 460
Period size: 27 Copynumber: 17.6 Consensus size: 27
16112366 GGTATAACAG
* *
16112376 TCATTTTACCCTAT-GGGGGTATTTCGG
1 TCATTTTACCCT-TCGAGGGTATTTCGA
*
16112403 TCATTTTACCCTTTG-GAGGTATTTCGA
1 TCATTTTACCCTTCGAG-GGTATTTCGA
* *
16112430 TCATTTTACCCTTCGAAGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * * * *
16112457 TTATTATATCATTCGAGGGTA-TTCTA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * **
16112483 GTTATTTTACCCTTCGGGGGTATTTTAA
1 -TCATTTTACCCTTCGAGGGTATTTCGA
16112511 TCATTTTACCCTTC-AGGGGTATTTC-A
1 TCATTTTACCCTTCGA-GGGTATTTCGA
* *
16112537 GTCATTTTACCCTTCGGGGGTATTGT-GG
1 -TCATTTTACCCTTCGAGGGTATT-TCGA
* *
16112565 TCATTTTACCCTTCGGGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * *
16112592 TCATTTTATCCTTCGGGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
16112619 TCATTTTACCATTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
16112646 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * * * *
16112673 TCATTTTACCCATCAAAGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
16112700 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
16112727 TCATTTTACCTTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
16112754 TCATTTTACCCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
16112781 TCATTTTACCCTTCAAGGGTATTTC-A
1 TCATTTTACCCTTCGAGGGTATTTCGA
** * * * *
16112807 GTTTTTTTATCCTTCGTGGATATTTCGG
1 -TCATTTTACCCTTCGAGGGTATTTCGA
*
16112835 TCA-TTTAGCCTTCGA
1 TCATTTTACCCTTCGA
16112850 TTTCCTCAAC
Statistics
Matches: 378, Mismatches: 56, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
26 18 0.05
27 356 0.94
28 4 0.01
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGA
Found at i:16112815 original size:81 final size:81
Alignment explanation
Indices: 16112376--16112848 Score: 508
Period size: 81 Copynumber: 5.9 Consensus size: 81
16112366 GGTATAACAG
* *
16112376 TCATTTTACCCTAT-GGGGGTATTTCGGTCATTTTACCCTTTG-GAGGTATTTCGATCATTTTAC
1 TCATTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCCTTCGAG-GGTATTTCGATCATTTTAC
** *
16112439 CCTTCGAAGGTATTTCGG
64 CCTTCGGGGGTATTTCGA
* * * * * * * **
16112457 TTATTATATCATTCGAGGGTA-TTCTAGTTATTTTACCCTTCGGGGGTATTTTAATCATTTTACC
1 TCATTTTACCCTTCGAGGGTATTTC-GGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACC
*
16112521 CTTCAGGGGTATTTC-A
65 CTTCGGGGGTATTTCGA
* * * *
16112537 GTCATTTTACCCTTCGGGGGTATTGT-GGTCATTTTACCCTTCGGGGGTATTTCAATCATTTTAT
1 -TCATTTTACCCTTCGAGGGTATT-TCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTAC
*
16112601 CCTTCGGGGGTATTTCAA
64 CCTTCGGGGGTATTTCGA
* *
16112619 TCATTTTACCATTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
* *** * *
16112684 ATCAAAGGTATTTTGG
66 TTCGGGGGTATTTCGA
* *
16112700 TCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
16112765 TTCGGGGGTATTTCGA
66 TTCGGGGGTATTTCGA
* * ** * * * * *
16112781 TCATTTTACCCTTCAAGGGTATTTCAGTTTTTTTATCCTTCGTGGATATTTCGGTCA-TTTAGCC
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
16112845 TTCG
66 TTCG
16112849 ATTTCCTCAA
Statistics
Matches: 326, Mismatches: 58, Indels: 17
0.81 0.14 0.04
Matches are distributed among these distances:
80 15 0.05
81 307 0.94
82 3 0.01
83 1 0.00
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCC
TTCGGGGGTATTTCGA
Found at i:16117487 original size:27 final size:27
Alignment explanation
Indices: 16117452--16117732 Score: 275
Period size: 27 Copynumber: 10.4 Consensus size: 27
16117442 TTGGGTATAA
* *
16117452 CAGTTATTTTACCCTAT-GGGGGTATTT
1 CAGTCATTTTACCCT-TCGAGGGTATTT
* *
16117479 CGGTCATTTTATCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * *
16117506 CAATTATTTTACCCTT-TAGGGGTATTT
1 CAGTCATTTTACCCTTCGA-GGGTATTT
** *
16117533 TGGTCATTTTACCGTTC-AGGGGTATTT
1 CAGTCATTTTACCCTTCGA-GGGTATTT
* * *
16117560 TAGTCATTTTACGCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
16117587 TAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* **
16117614 C-GATCATTTTACCCTTTGACCGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
16117641 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
** * *
16117668 TGGTGATTTTA-CCTTCGAGGGTAGTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * *
16117694 CGGTCATTTTACCATTCGAGGGCATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
16117721 CAGTCATTTTAC
1 CAGTCATTTTAC
16117733 ATTTCAGTCA
Statistics
Matches: 210, Mismatches: 37, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
26 26 0.12
27 182 0.87
28 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:16117737 original size:16 final size:16
Alignment explanation
Indices: 16117716--16117748 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16117706 CATTCGAGGG
16117716 CATTTCAGTCATTTTA
1 CATTTCAGTCATTTTA
16117732 CATTTCAGTCATTTTA
1 CATTTCAGTCATTTTA
16117748 C
1 C
16117749 CATAACTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.48
Consensus pattern (16 bp):
CATTTCAGTCATTTTA
Found at i:16121830 original size:20 final size:20
Alignment explanation
Indices: 16121805--16121860 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
16121795 AACCTTATGC
*
16121805 TAAGTAATTGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
* *
16121825 TAAGTAAATGGAATCGTAAG
1 TAAGTAAATGGAATGGAAAG
16121845 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
16121861 TTCATCGTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:16123973 original size:51 final size:51
Alignment explanation
Indices: 16123914--16124200 Score: 266
Period size: 51 Copynumber: 5.6 Consensus size: 51
16123904 CGATGAACAT
* * *
16123914 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCAC
* * * *
16123965 ATGTGTAGTAACTAAGTGAA-GCTACTATGTGTA-C-ATAGAAGTTTTGGTCAC
1 GTGTGTAGT-ACTATGTGAAGGCTACTACGTGTACCGATA-AA-TATTGGTCAC
* * * ** *
16124016 GTGTGTAGTATTGTGTGAAGGCTACTACGTGTACCGATGAATGA-TGAACCC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATTGGTCAC
* * *
16124067 ATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TATTGGTCAC
* * * **
16124118 GTGTGTCGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTCATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGGTCAC
16124168 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
16124201 ACGAATGATA
Statistics
Matches: 188, Mismatches: 35, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
49 3 0.02
50 49 0.26
51 122 0.65
52 12 0.06
53 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (51 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCAC
Found at i:16124091 original size:102 final size:102
Alignment explanation
Indices: 16123914--16124148 Score: 337
Period size: 102 Copynumber: 2.3 Consensus size: 102
16123904 CGATGAACAT
* **
16123914 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAACTA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTAACTA
* * *
16123979 AGTGAAGCTACTATGTGTACATAGAAGTTTTGGTCAC
66 AGTGAAGCTACTATGTGTACAGAAAAGCTTTGGTCAC
* * * *
16124016 GTGTGTAGTATTGTGTGAAGGCTACTACGTGTACCGATGAATGATGAACCCATGTGTAGT-ACTA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTAACTA
*
16124080 AGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCAC
66 AGTGAA-GCTACTATGTGTACAGAAAAGCTTTGGTCAC
* *
16124118 GTGTGTCGTACTATGTGAAGGCTACTACGTG
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTG
16124149 AATCGTAAAA
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
101 10 0.08
102 108 0.92
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (102 bp):
GTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTAACTA
AGTGAAGCTACTATGTGTACAGAAAAGCTTTGGTCAC
Found at i:16148170 original size:18 final size:18
Alignment explanation
Indices: 16148149--16148188 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16148139 TCAACAACCT
16148149 CTTCTTATTCAGCAACAA
1 CTTCTTATTCAGCAACAA
* *
16148167 CTTCTTCTTCTGCAACAA
1 CTTCTTATTCAGCAACAA
16148185 CTTC
1 CTTC
16148189 CTTCTCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (18 bp):
CTTCTTATTCAGCAACAA
Found at i:16148185 original size:21 final size:21
Alignment explanation
Indices: 16148140--16148185 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16148130 TTCTCATTTT
* *
16148140 CAACAACCTCTTCTTATTCAG
1 CAACAACCTCTTCTTATGCAA
* *
16148161 CAACAACTTCTTCTTCTGCAA
1 CAACAACCTCTTCTTATGCAA
16148182 CAAC
1 CAAC
16148186 TTCCTTCTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.35, G:0.04, T:0.30
Consensus pattern (21 bp):
CAACAACCTCTTCTTATGCAA
Found at i:16159089 original size:15 final size:15
Alignment explanation
Indices: 16159063--16159100 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16159053 TTATTTTCAT
*
16159063 TTTCATTTCA-TTAC
1 TTTCATTACATTTAC
16159077 TTTCCATTACATTTAC
1 TTT-CATTACATTTAC
16159093 TTTCATTA
1 TTTCATTA
16159101 GCTTAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 11 0.52
16 7 0.33
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTCATTACATTTAC
Found at i:16161195 original size:20 final size:22
Alignment explanation
Indices: 16161156--16161195 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
16161146 TGCTTGCCAA
*
16161156 ATTTAGTAAATGTTAATTTTGG
1 ATTTAGTAAATGTCAATTTTGG
16161178 ATTT-GTAAA-GTCAATTTT
1 ATTTAGTAAATGTCAATTTT
16161196 TTGGGACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (22 bp):
ATTTAGTAAATGTCAATTTTGG
Found at i:16171345 original size:21 final size:20
Alignment explanation
Indices: 16171308--16171368 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
16171298 AAGATGACAC
16171308 TATTGTTGAG-A-AGGAAGT
1 TATTGTTGAGAAGAGGAAGT
16171326 TATTGTTGCAGAAGAGGAAGT
1 TATTGTTG-AGAAGAGGAAGT
* * *
16171347 TGTTGCTGAAGAAGAAGAAGT
1 TATTGTTG-AGAAGAGGAAGT
16171368 T
1 T
16171369 GCTAAAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.22
19 2 0.06
20 1 0.03
21 25 0.69
ACGTcount: A:0.34, C:0.03, G:0.33, T:0.30
Consensus pattern (20 bp):
TATTGTTGAGAAGAGGAAGT
Found at i:16171349 original size:18 final size:18
Alignment explanation
Indices: 16171328--16171363 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16171318 AAGGAAGTTA
*
16171328 TTGTTGCAGAAGAGGAAG
1 TTGTTGCAGAAGAAGAAG
*
16171346 TTGTTGCTGAAGAAGAAG
1 TTGTTGCAGAAGAAGAAG
16171364 AAGTTGCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.36, T:0.25
Consensus pattern (18 bp):
TTGTTGCAGAAGAAGAAG
Found at i:16179222 original size:8 final size:8
Alignment explanation
Indices: 16179209--16179234 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
16179199 TAATGGTTTT
16179209 ATTTTATA
1 ATTTTATA
16179217 ATTTTATA
1 ATTTTATA
16179225 ATTTTATA
1 ATTTTATA
16179233 AT
1 AT
16179235 ATTTTAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTTATA
Found at i:16183255 original size:25 final size:25
Alignment explanation
Indices: 16183221--16183278 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
16183211 TGTACATATA
*
16183221 TGCTCACACGAGTTGTGAATAAGTG
1 TGCTCACACGAGCTGTGAATAAGTG
16183246 TGCTCACACGAGCTGTGAATAAGTG
1 TGCTCACACGAGCTGTGAATAAGTG
16183271 TGCTCACA
1 TGCTCACA
16183279 TAAGCTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAATAAGTG
Found at i:16183284 original size:25 final size:25
Alignment explanation
Indices: 16183221--16183289 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
16183211 TGTACATATA
* *
16183221 TGCTCACACGAGTTGTGAATAAGTG
1 TGCTCACACAAGCTGTGAATAAGTG
*
16183246 TGCTCACACGAGCTGTGAATAAGTG
1 TGCTCACACAAGCTGTGAATAAGTG
* *
16183271 TGCTCACATAAGCTATGAA
1 TGCTCACACAAGCTGTGAA
16183290 AATGGGCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (25 bp):
TGCTCACACAAGCTGTGAATAAGTG
Found at i:16189547 original size:13 final size:13
Alignment explanation
Indices: 16189526--16189560 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
16189516 TAAATGCTCC
*
16189526 AATTCAGCTGATT
1 AATTAAGCTGATT
16189539 AATTAAGCTGATT
1 AATTAAGCTGATT
*
16189552 ACTTAAGCT
1 AATTAAGCT
16189561 TGAAGAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (13 bp):
AATTAAGCTGATT
Found at i:16190870 original size:27 final size:26
Alignment explanation
Indices: 16190830--16190916 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
16190820 CAAAAAATCA
** *
16190830 TTTACCCTTTAGGGGCATTACGGTCAT
1 TTTACCCTACAGGGGAATT-CGGTCAT
*
16190857 TTTACCCTACAGGGGTAATTCGTTCAT
1 TTTACCCTACAGGGG-AATTCGGTCAT
*
16190884 TTTA-CCTATCA-AGGATATTTCGGTCAT
1 TTTACCCTA-CAGGGGA-A-TTCGGTCAT
16190911 TTTACC
1 TTTACC
16190917 TATCGAGGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.02
26 7 0.14
27 37 0.76
28 4 0.08
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (26 bp):
TTTACCCTACAGGGGAATTCGGTCAT
Found at i:16190917 original size:27 final size:27
Alignment explanation
Indices: 16190850--16191073 Score: 109
Period size: 27 Copynumber: 8.3 Consensus size: 27
16190840 AGGGGCATTA
* *
16190850 CGGTCATTTTACCCTA-CAGGGGTAATT
1 CGGTCATTTTA-CCTATCAAGGGTATTT
* *
16190877 CGTTCATTTTACCTATCAAGGATATTT
1 CGGTCATTTTACCTATCAAGGGTATTT
*
16190904 CGGTCATTTTACCTATCGAGGGTATTT
1 CGGTCATTTTACCTATCAAGGGTATTT
** * * **
16190931 CAATAATTTCACCCT-TTGAGGGTATATT
1 CGGTCATTTTA-CCTATCAAGGGTAT-TT
* * **
16190959 -GATAATTTTACCCT-TTGAGGGTATTT
1 CGGTCATTTTA-CCTATCAAGGGTATTT
* * * *
16190985 CGATAATTTCACCCT-TCGAGGGTATTT
1 CGGTCATTTTA-CCTATCAAGGGTATTT
* * *
16191012 TGGTAATTTTACCCT-TCGAGGGTATTT
1 CGGTCATTTTA-CCTATCAAGGGTATTT
* * * * *
16191039 TGGTAATTTTATCTTTTAAGGGTATTT
1 CGGTCATTTTACCTATCAAGGGTATTT
16191066 CGGTCATT
1 CGGTCATT
16191074 CTAATAACAT
Statistics
Matches: 168, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.05
27 155 0.92
28 5 0.03
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
CGGTCATTTTACCTATCAAGGGTATTT
Found at i:16190954 original size:81 final size:79
Alignment explanation
Indices: 16190882--16191073 Score: 197
Period size: 81 Copynumber: 2.4 Consensus size: 79
16190872 TAATTCGTTC
* * *
16190882 ATTTTACCTATCAAGGATATTTCGGTCATTTTA-CCTATCGAGGGTATTTCAATAATTTCACCCT
1 ATTTTACCT-TTAAGGGTATTTCGGTCATTTCACCCT-TCGAGGGTATTTCAATAATTTCACCCT
*
16190946 TTGAGGGTATATTGATA
64 TCGAGGGTA-ATTGATA
* * * *** *
16190963 ATTTTACCCTTTGAGGGTATTTCGATAATTTCACCCTTCGAGGGTATTTTGGTAATTTTACCCTT
1 ATTTTA-CCTTTAAGGGTATTTCGGTCATTTCACCCTTCGAGGGTATTTCAATAATTTCACCCTT
* *
16191028 CGAGGGTATTTTGGTA
65 CGAGGGTA-ATTGATA
*
16191044 ATTTTATCTTTTAAGGGTATTTCGGTCATT
1 ATTTTA-CCTTTAAGGGTATTTCGGTCATT
16191074 CTAATAACAT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
81 85 0.93
82 6 0.07
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (79 bp):
ATTTTACCTTTAAGGGTATTTCGGTCATTTCACCCTTCGAGGGTATTTCAATAATTTCACCCTTC
GAGGGTAATTGATA
Found at i:16191046 original size:54 final size:54
Alignment explanation
Indices: 16190899--16191047 Score: 201
Period size: 54 Copynumber: 2.8 Consensus size: 54
16190889 CTATCAAGGA
* * * *
16190899 TATTTCGGTCATTTTA-CCTATCGAGGGTATTTCAATAATTTCACCCTTTGAGGG
1 TATTTTGGTAATTTTACCCT-TCGAGGGTATTTCGATAATTTCACCCTTCGAGGG
* * *
16190953 TATATTGATAATTTTACCCTTTGAGGGTATTTCGATAATTTCACCCTTCGAGGG
1 TATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTCACCCTTCGAGGG
* *
16191007 TATTTTGGTAATTTTACCCTTCGAGGGTATTTTGGTAATTT
1 TATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTT
16191048 TATCTTTTAA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
54 79 0.96
55 3 0.04
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (54 bp):
TATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTCACCCTTCGAGGG
Found at i:16191061 original size:54 final size:54
Alignment explanation
Indices: 16190894--16191065 Score: 193
Period size: 54 Copynumber: 3.2 Consensus size: 54
16190884 TTTACCTATC
* * * *
16190894 AAGGATATTTCGGTCATTTTA-CCTATCGAGGGTATTTCAATAATTTCACCCTTT
1 AAGGGTATTTTGGTAATTTTACCCT-TCGAGGGTATTTCGATAATTTCACCCTTT
* * * * *
16190948 GAGGGTATATTGATAATTTTACCCTTTGAGGGTATTTCGATAATTTCACCCTTC
1 AAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTCACCCTTT
* * * * * *
16191002 GAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTGGTAATTTTATCTTTT
1 AAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTCACCCTTT
16191056 AAGGGTATTT
1 AAGGGTATTT
16191066 CGGTCATTCT
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
54 95 0.97
55 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTCACCCTTT
Found at i:16191287 original size:17 final size:18
Alignment explanation
Indices: 16191265--16191299 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
16191255 TACTCACGTA
*
16191265 GGGCCCAC-GAGCCCATT
1 GGGCCCACTCAGCCCATT
16191282 GGGCCCACTCAGCCCATT
1 GGGCCCACTCAGCCCATT
16191300 CTAGTCCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.43, G:0.26, T:0.14
Consensus pattern (18 bp):
GGGCCCACTCAGCCCATT
Found at i:16192608 original size:25 final size:25
Alignment explanation
Indices: 16192571--16192624 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
16192561 TGAACCTTTG
*
16192571 ACCTCCTTACCACACCTGTGACGTC
1 ACCTCCTTACCACACCTGTGACGCC
* *
16192596 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACGCC
16192621 ACCT
1 ACCT
16192625 TTCCACTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.46, G:0.13, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:16192630 original size:22 final size:22
Alignment explanation
Indices: 16192575--16192630 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
16192565 CCTTTGACCT
* *
16192575 CCTTACCACACCTGTGACGTCA
1 CCTTTCCACACCTGTGACGCCA
*
16192597 CCTCCTTGCCACACCTGTGTCGCCA
1 CCT--TT-CCACACCTGTGACGCCA
16192622 CCTTTCCAC
1 CCTTTCCAC
16192631 TACACCACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 7 0.25
23 2 0.07
24 1 0.04
25 18 0.64
ACGTcount: A:0.16, C:0.46, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTCCACACCTGTGACGCCA
Found at i:16193143 original size:18 final size:19
Alignment explanation
Indices: 16193120--16193168 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
16193110 GTTGTAAAGT
*
16193120 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
16193138 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
16193157 TTTAATTTTTAT
1 TTT-ATTTTTAT
16193169 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:16193148 original size:22 final size:22
Alignment explanation
Indices: 16193119--16193168 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
16193109 AGTTGTAAAG
* *
16193119 TTTTATTTTTATTTA-TTTATT
1 TTTTATTTTTACTTAGTTTAAT
16193140 TATTTATTTTTACTTAGTTTAAT
1 T-TTTATTTTTACTTAGTTTAAT
16193163 TTTTAT
1 TTTTAT
16193169 GTAAATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTACTTAGTTTAAT
Found at i:16193977 original size:14 final size:15
Alignment explanation
Indices: 16193945--16193977 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16193935 CCCTTGCTCA
*
16193945 AGGCCCAATATTTCT
1 AGGCCCAATATTTCG
16193960 AGGCCCAA-ATTTCG
1 AGGCCCAATATTTCG
16193974 AGGC
1 AGGC
16193978 ATTACAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (15 bp):
AGGCCCAATATTTCG
Found at i:16196832 original size:20 final size:20
Alignment explanation
Indices: 16196768--16196834 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
16196758 CACATACGTG
*
16196768 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * *
16196788 CCCCCTGAATGCACAT-GCGTG
1 -CCCCTGTTTGTACTTCG-GTA
16196809 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
16196829 CCCCTG
1 CCCCTG
16196835 AATGCACATA
Statistics
Matches: 33, Mismatches: 11, Indels: 5
0.67 0.22 0.10
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.13, C:0.36, G:0.19, T:0.31
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:16196850 original size:40 final size:40
Alignment explanation
Indices: 16196752--16196937 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
16196742 AATTATAGAA
*
16196752 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCC
*
16196793 TGAATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
16196833 TGAATGCACATATGTGCCCTTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
16196873 TAAATGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
16196913 TGAATGCACTTCCGTGCCCCTGTTT
1 TGAATGCACATACGTGCCCCTGTTT
16196938 ATCTCCAGTA
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 95 0.74
41 34 0.26
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:16196932 original size:20 final size:20
Alignment explanation
Indices: 16196789--16196934 Score: 60
Period size: 20 Copynumber: 7.3 Consensus size: 20
16196779 ACTTCGGTAC
* *
16196789 CCCCTGAATGCACATGCGTG
1 CCCCTGAATGCACTTCCGTG
** * * *
16196809 CCCCTGTTTGTACTTCGGTA
1 CCCCTGAATGCACTTCCGTG
* **
16196829 CCCCTGAATGCACATATGTG
1 CCCCTGAATGCACTTCCGTG
* ** * * *
16196849 CCCTTGTTTGTACTTCAGTA
1 CCCCTGAATGCACTTCCGTG
* * *
16196869 CCCCTAAATGCACATACGTG
1 CCCCTGAATGCACTTCCGTG
* * ** *
16196889 CCCCT-ATTTGTACTTTGGTA
1 CCCCTGA-ATGCACTTCCGTG
16196909 CCCCTGAATGCACTTCCGTG
1 CCCCTGAATGCACTTCCGTG
16196929 CCCCTG
1 CCCCTG
16196935 TTTATCTCCA
Statistics
Matches: 82, Mismatches: 42, Indels: 4
0.64 0.33 0.03
Matches are distributed among these distances:
19 1 0.01
20 80 0.98
21 1 0.01
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.31
Consensus pattern (20 bp):
CCCCTGAATGCACTTCCGTG
Found at i:16205389 original size:22 final size:22
Alignment explanation
Indices: 16205361--16205412 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
16205351 CATCAGTGTT
16205361 ATCAGTGGCAGTTTATCTACAA
1 ATCAGTGGCAGTTTATCTACAA
*
16205383 ATCAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCTACAA
16205405 ATCAGTGG
1 ATCAGTGG
16205413 TGGCATGTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTACAA
Found at i:16206107 original size:21 final size:21
Alignment explanation
Indices: 16206083--16206124 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16206073 TGATTTTAAA
16206083 ATTAAATCTATTTATTTCAAC
1 ATTAAATCTATTTATTTCAAC
* *
16206104 ATTATATCTGTTTATTTCAAC
1 ATTAAATCTATTTATTTCAAC
16206125 TCATGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTAAATCTATTTATTTCAAC
Found at i:16208788 original size:50 final size:50
Alignment explanation
Indices: 16208713--16208954 Score: 238
Period size: 50 Copynumber: 4.9 Consensus size: 50
16208703 CATTTGGGTA
*
16208713 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * *
16208763 AAGAGGTCTCATGTAAGACCATGTCTGGGACATTGCTTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * *
16208813 GAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** *** * * * * * *
16208863 GAGAACTATTATGTAAGACCATATATGGGATATGACATTGGCA--GTACAA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGAT
* ** *
16208912 AAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16208955 TGTTATTATC
Statistics
Matches: 156, Mismatches: 33, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 120 0.77
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:16241317 original size:19 final size:20
Alignment explanation
Indices: 16241286--16241327 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
16241276 TACTAAGCAT
16241286 TTTATGCTTACATAGTTTTC
1 TTTATGCTTACATAGTTTTC
16241306 TTTATG-TTACATAGTTTTC
1 TTTATGCTTACATAGTTTTC
16241325 TTT
1 TTT
16241328 CCCATGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTATGCTTACATAGTTTTC
Found at i:16245683 original size:35 final size:35
Alignment explanation
Indices: 16245617--16245683 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
16245607 ATAGCCAGTA
*
16245617 TACAGAAACAGAATCAGTCTCGGCTTGAGCCCTTT
1 TACAGAAACAGAATCAGTCTAGGCTTGAGCCCTTT
* * *
16245652 TACAGTAACAGTATCAGTGTAGGCCTT-AGCCC
1 TACAGAAACAGAATCAGTCTAGG-CTTGAGCCC
16245684 AATACGATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.89
36 3 0.11
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (35 bp):
TACAGAAACAGAATCAGTCTAGGCTTGAGCCCTTT
Found at i:16248214 original size:27 final size:27
Alignment explanation
Indices: 16248184--16248350 Score: 174
Period size: 27 Copynumber: 6.2 Consensus size: 27
16248174 CTATCAAGGA
*
16248184 TATTTTGGTCATTTTA-CCTATTGAGGG
1 TATTTTGGTAATTTTACCCT-TTGAGGG
***
16248211 TATTTCAATAATTTTACCCTTTGAGGG
1 TATTTTGGTAATTTTACCCTTTGAGGG
* * * *
16248238 TATATCGATAATTTTACCCTTTGAGGT
1 TATTTTGGTAATTTTACCCTTTGAGGG
* * * *
16248265 TATTTCGATAATTTCACCCTTCGAGGG
1 TATTTTGGTAATTTTACCCTTTGAGGG
*
16248292 TATTTTGGTAATTTTACCCTTCGAGGG
1 TATTTTGGTAATTTTACCCTTTGAGGG
* * *
16248319 TATTTTGGTAATTTTATCTTTTAAGGG
1 TATTTTGGTAATTTTACCCTTTGAGGG
16248346 TATTT
1 TATTT
16248351 GAGTCATTCT
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 118 0.98
28 3 0.02
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (27 bp):
TATTTTGGTAATTTTACCCTTTGAGGG
Found at i:16248346 original size:54 final size:54
Alignment explanation
Indices: 16248115--16248350 Score: 190
Period size: 54 Copynumber: 4.4 Consensus size: 54
16248105 GCAAAAATCA
* * ** * * * * *
16248115 TTTACCCTTTAGGGGCATTACGGTCATTTTACCCTAT-AGGGGTAATTCTATCAT
1 TTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTTGA-GGGTATTTCGATAAT
* * * *
16248169 TTTA-CCTATCAAGGATATTTTGGTCATTTTA-CCTATTGAGGGTATTTCAATAAT
1 TTTACCCT-TTAAGGGTATTTTGGTAATTTTACCCT-TTGAGGGTATTTCGATAAT
* * * * *
16248223 TTTACCCTTTGAGGGTATATCGATAATTTTACCCTTTGAGGTTATTTCGATAAT
1 TTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTTGAGGGTATTTCGATAAT
* ** * * *
16248277 TTCACCCTTCGAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTGGTAAT
1 TTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTTGAGGGTATTTCGATAAT
* *
16248331 TTTATCTTTTAAGGGTATTT
1 TTTACCCTTTAAGGGTATTT
16248351 GAGTCATTCT
Statistics
Matches: 144, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
53 6 0.04
54 131 0.91
55 7 0.05
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (54 bp):
TTTACCCTTTAAGGGTATTTTGGTAATTTTACCCTTTGAGGGTATTTCGATAAT
Found at i:16253155 original size:40 final size:40
Alignment explanation
Indices: 16253052--16253143 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
16253042 TTTTTCGGTA
* * * *
16253052 CCCTGAATGCACATATGTGCCCTTGTTTGTACTTCAGTAC
1 CCCTAAATGCACATACGTGCCCCTATTTGTACTTCAGTAC
**
16253092 CCCTAAATGCACATACGTGCCCCTATTTGTACTTTGGTACC
1 CCCTAAATGCACATACGTGCCCCTATTTGTACTTCAGTA-C
16253133 CCCT-AATGCAC
1 CCCTAAATGCAC
16253144 TCCCGTGCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 40 0.89
41 5 0.11
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.32
Consensus pattern (40 bp):
CCCTAAATGCACATACGTGCCCCTATTTGTACTTCAGTAC
Found at i:16263067 original size:40 final size:40
Alignment explanation
Indices: 16263012--16263154 Score: 205
Period size: 40 Copynumber: 3.6 Consensus size: 40
16263002 NNNNNNNNNN
*
16263012 AATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* * * *
16263052 AATGCACATATGTGCCCTTGTTTGTACTTCAGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* *
16263092 AATGCACATACGTGCCCCTATTTGTACTTTGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
* *
16263132 AATGCACTTCCGTGCCCCTGTTT
1 AATGCACATACGTGCCCCTGTTT
16263155 ATCTCCAGTA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTG
Found at i:16277050 original size:43 final size:42
Alignment explanation
Indices: 16276901--16277095 Score: 162
Period size: 43 Copynumber: 4.6 Consensus size: 42
16276891 TAACCATCAC
* ***
16276901 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTACAATC-AAGGAT
* * * * *
16276944 CCCAGTGGAATCAGCACTTAGCAACCACCTTATATTCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTACAATCAAGGAT
* *
16276987 ACGG-GGAATCAACACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ACAATCAAGGAT
* * * **
16277029 ACGGTGGAATCAGTACTTAGCAACCACATTATTAATCAATAAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTA-CAATCAAGGAT
* *
16277072 TCGG-GGAATCTGCACTTAGCAACC
1 ACGGTGGAATCAGCACTTAGCAACC
16277096 CTTTTTTATC
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
41 20 0.16
42 34 0.27
43 35 0.28
44 33 0.27
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTACAATCAAGGAT
Found at i:16277119 original size:40 final size:41
Alignment explanation
Indices: 16277034--16277136 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 41
16277024 AGGATACGGT
* * *
16277034 GGAATCAGTACTTAGCAACCACATTATTAATCAATAATTCGG
1 GGAATCTGCACTTAGCAACC-CATTATTAATCAATAATTCAG
* * *
16277076 GGAATCTGCACTTAGCAACCC-TTTTTTATCAATGATTCAG
1 GGAATCTGCACTTAGCAACCCATTATTAATCAATAATTCAG
16277116 GGAATCTGCACTTAGCAACCC
1 GGAATCTGCACTTAGCAACCC
16277137 CTTTACATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 36 0.65
41 1 0.02
42 18 0.33
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCATTATTAATCAATAATTCAG
Found at i:16279019 original size:21 final size:20
Alignment explanation
Indices: 16278995--16279068 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
16278985 TATTTTTTTC
16278995 CCCTAAAAATTTTCCCCAAAT
1 CCCT-AAAATTTTCCCCAAAT
* *
16279016 CCCTTAATTTTTCCCCAAAT
1 CCCTAAAATTTTCCCCAAAT
*
16279036 --C-AAAA--CTCCCCAAAT
1 CCCTAAAATTTTCCCCAAAT
* *
16279051 CCCTTAGATTTTCCCCAA
1 CCCTAAAATTTTCCCCAA
16279069 CCATTTGTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
15 9 0.22
17 3 0.08
18 3 0.08
20 21 0.52
21 4 0.10
ACGTcount: A:0.32, C:0.36, G:0.01, T:0.30
Consensus pattern (20 bp):
CCCTAAAATTTTCCCCAAAT
Found at i:16279134 original size:25 final size:25
Alignment explanation
Indices: 16279079--16279181 Score: 107
Period size: 25 Copynumber: 4.0 Consensus size: 25
16279069 CCATTTGTTT
* **
16279079 CATCACCGTCAACTATCACCTCTACTG
1 CATCACCGTCAAC-A-CTCCTCTACCC
* *
16279106 CATCGCCGTCAACACTCCTCTGCCC
1 CATCACCGTCAACACTCCTCTACCC
* **
16279131 CATCACCGTCGACACTCCTCTACTG
1 CATCACCGTCAACACTCCTCTACCC
*
16279156 CATCATCGTCAACACTCCTCTACCC
1 CATCACCGTCAACACTCCTCTACCC
16279181 C
1 C
16279182 GAAACAACAA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
25 49 0.79
26 1 0.02
27 12 0.19
ACGTcount: A:0.21, C:0.47, G:0.09, T:0.23
Consensus pattern (25 bp):
CATCACCGTCAACACTCCTCTACCC
Found at i:16279156 original size:50 final size:52
Alignment explanation
Indices: 16279079--16279181 Score: 147
Period size: 50 Copynumber: 2.0 Consensus size: 52
16279069 CCATTTGTTT
* *
16279079 CATCACCGTCAACTATCACCTCTACTGCATCGCCGTCAACACTCCTCTGCCC
1 CATCACCGTCAACTATCACCTCTACTGCATCACCGTCAACACTCCTCTACCC
* * *
16279131 CATCACCGTCGAC-A-CTCCTCTACTGCATCATCGTCAACACTCCTCTACCC
1 CATCACCGTCAACTATCACCTCTACTGCATCACCGTCAACACTCCTCTACCC
16279181 C
1 C
16279182 GAAACAACAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 33 0.72
51 1 0.02
52 12 0.26
ACGTcount: A:0.21, C:0.47, G:0.09, T:0.23
Consensus pattern (52 bp):
CATCACCGTCAACTATCACCTCTACTGCATCACCGTCAACACTCCTCTACCC
Found at i:16279359 original size:21 final size:22
Alignment explanation
Indices: 16279312--16279361 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
16279302 CCGAAACATC
*
16279312 TATTTTTTGGGTTAATATTTAT
1 TATTTTTTGGGTTAATATTCAT
16279334 TATTTTTTGGGTT-ATA-TCAT
1 TATTTTTTGGGTTAATATTCAT
*
16279354 TAATTTTT
1 TATTTTTT
16279362 ATTATGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 3 0.12
22 13 0.50
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (22 bp):
TATTTTTTGGGTTAATATTCAT
Found at i:16281600 original size:71 final size:72
Alignment explanation
Indices: 16281453--16281779 Score: 286
Period size: 72 Copynumber: 4.6 Consensus size: 72
16281443 CAAGTAAAGT
* * * *
16281453 CGTTTATTTAATTATGTGTTTTTAAAAAGGTTGATTTAGTTAAATTTATT-AAGTTTTGATCTTA
1 CGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAA-TTTTGATATTA
* *
16281517 AG-CGAAAT
65 AGTAG-AAC
* *
16281525 CGTTTATTTAATTATGTGTTTTTAAAAA-TTTAATTTAGTTCAATTTATTGAATTTTGATATTAA
1 CGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTTTGATATTAA
16281589 GTAGAAC
66 GTAGAAC
* * * * * * *
16281596 CGTTTATCCAATTATGTATTTTTAAAAAGGCTATTTTAGTTCAATTCATTGAGTTTCGATATTAA
1 CGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTTTGATATTAA
*
16281661 GTAAAAC
66 GTAGAAC
* * * * * * ** *
16281668 CGTTTATTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTATTGAGTTTTGATATTA
1 CGTTTATTCAA-TTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTTTGATATTA
* *
16281732 AGTAAAAT
65 AGTAGAAC
* ** * * * *
16281740 CATTTATTCGGTAATATGTTTTT-AGAAGGTTAGTTTAGTT
1 CGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTT
16281780 TTTTATTTAT
Statistics
Matches: 211, Mismatches: 39, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
71 76 0.36
72 130 0.62
73 5 0.02
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (72 bp):
CGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTTTGATATTAA
GTAGAAC
Found at i:16282598 original size:13 final size:13
Alignment explanation
Indices: 16282576--16282605 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16282566 TATAATTAAA
16282576 AAAGTCAATATTT
1 AAAGTCAATATTT
*
16282589 AAAGTTAATATTT
1 AAAGTCAATATTT
16282602 AAAG
1 AAAG
16282606 ATGATAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (13 bp):
AAAGTCAATATTT
Found at i:16287859 original size:50 final size:49
Alignment explanation
Indices: 16287728--16287912 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 49
16287718 ATTTACATAA
* * *
16287728 AGAGGTCCCATGTAAGACCATGTCTGGGACACGGCGTAGGCATCGAGATA
1 AGAGGTCCC-TGTAAGACCATGTCTGGGACATGGCGTAGGCACCGAGATG
* *
16287778 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTC-CCTGTAAGACCATGTCTGGGACATGGCGTAGGCACCGAGATG
* * * * *
16287828 AGAGGTCCCTCGTAAGACCATGCCTGGGACATGGCATGGGCACCAATATG
1 AGAGGTCCCT-GTAAGACCATGTCTGGGACATGGCGTAGGCACCGAGATG
** * * * *
16287878 AGAACTCTCATGTAAGACCATATATGGGATATGGC
1 AGAGGTC-CCTGTAAGACCATGTCTGGGACATGGC
16287913 ATTGGTAGTA
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 109 0.96
51 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.21
Consensus pattern (49 bp):
AGAGGTCCCTGTAAGACCATGTCTGGGACATGGCGTAGGCACCGAGATG
Found at i:16287906 original size:100 final size:100
Alignment explanation
Indices: 16287728--16287917 Score: 238
Period size: 100 Copynumber: 1.9 Consensus size: 100
16287718 ATTTACATAA
* * * * **
16287728 AGAGGTCCCATGTAAGACCATGTCTGGGACACGGCGTAGGCATCGAGATAAGAGGTCTCATGTAA
1 AGAGGTCCCATGTAAGACCATGCCTGGGACACGGCATAGGCACCAAGATAAGAACTCTCATGTAA
* * *
16287793 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
66 GACCATATATGGGACATGGCATTGGCACCGAGATG
* * * *
16287828 AGAGGTCCC-TCGTAAGACCATGCCTGGGACATGGCATGGGCACCAATATGAGAACTCTCATGTA
1 AGAGGTCCCAT-GTAAGACCATGCCTGGGACACGGCATAGGCACCAAGATAAGAACTCTCATGTA
*
16287892 AGACCATATATGGGATATGGCATTGG
65 AGACCATATATGGGACATGGCATTGG
16287918 TAGTACAAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
99 1 0.01
100 74 0.99
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGCCTGGGACACGGCATAGGCACCAAGATAAGAACTCTCATGTAA
GACCATATATGGGACATGGCATTGGCACCGAGATG
Found at i:16287913 original size:50 final size:50
Alignment explanation
Indices: 16287736--16287961 Score: 176
Period size: 50 Copynumber: 4.5 Consensus size: 50
16287726 AAAGAGGTCC
* * * * * * **
16287736 CATGTAAGACCATGTCTGGGACACGGCGTAGGCATCGAGATAAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCT
* * * **
16287786 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC-
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCT
* * *
16287835 CCTCGTAAGACCATGCCTGGGACATGGCATGGGCACCAATATGAGAACTCT
1 CAT-GTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCT
* * * * *
16287886 CATGTAAGACCATATATGGGATATGGCATTGGTAGTA-CAA-A--A-AACATCC
1 CATGTAAGACCATGTCTGGGACATGGCA-TGG--GCACCAAGATGAGAAC-TCT
16287935 CATGTAAGACCATGTCTGGGACATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
16287962 TTTGGCATGT
Statistics
Matches: 148, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 3 0.02
49 29 0.20
50 105 0.71
51 6 0.04
52 3 0.02
53 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCT
Found at i:16301898 original size:11 final size:11
Alignment explanation
Indices: 16301882--16301917 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
16301872 CATACCGATT
*
16301882 TTTATCGAAGA
1 TTTATCAAAGA
16301893 TTTATCAAAGA
1 TTTATCAAAGA
*
16301904 TTTATCAAAAA
1 TTTATCAAAGA
16301915 TTT
1 TTT
16301918 CTAAATCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (11 bp):
TTTATCAAAGA
Found at i:16303957 original size:21 final size:20
Alignment explanation
Indices: 16303915--16303957 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
16303905 AGAAGAAATT
*
16303915 TTTAAATTTCATTTGTTCTG
1 TTTAAATTTCATTTGTTATG
16303935 TTTAAATTTTCAATTT-TTATG
1 TTTAAA-TTTC-ATTTGTTATG
16303956 TT
1 TT
16303958 AATAAAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTAAATTTCATTTGTTATG
Found at i:16321627 original size:13 final size:14
Alignment explanation
Indices: 16321606--16321647 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
16321596 TCACTAACAT
*
16321606 ACACCCATTT-AGA
1 ACACACATTTCAGA
*
16321619 ACACACATTTCATA
1 ACACACATTTCAGA
*
16321633 ACATACATTTCAGA
1 ACACACATTTCAGA
16321647 A
1 A
16321648 ATATACATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.26
Consensus pattern (14 bp):
ACACACATTTCAGA
Found at i:16322344 original size:362 final size:362
Alignment explanation
Indices: 16321679--16322402 Score: 1376
Period size: 362 Copynumber: 2.0 Consensus size: 362
16321669 TCAATGTTTT
16321679 AATACTTGTACACCAATCTTCACATACTTTGACATTATCAGATTCACTATCCATATACATACTAT
1 AATACTTGTACACCAATCTTCACATACTTTGACATTATCAGATTCACTATCCATATACATACTAT
16321744 ATTTTACATAGTTTCATATTCATAGTTTGTCAATTTCCTACAGGTATCTCTAGATACAAACAGTA
66 ATTTTACATAGTTTCATATTCATAGTTTGTCAATTTCCTACAGGTATCTCTAGATACAAACAGTA
*
16321809 TACATGCAGGAGTTAGCATAGAACTCACCTGATTCTCACCTACTGTAGTTCATAGCTCCAAATCC
131 TACATGCAGGAGTTAGCATAGAACTCACCTGATTCTCACCTACTATAGTTCATAGCTCCAAATCC
*
16321874 AGATATCCATCATGAGCCACAAGCAATCACTACTTAGAAACATAATTTCACCTTTAACACTATTG
196 AGATATCCATCATGAGCCACAAGCAATCACTACTTAGAAACAGAATTTCACCTTTAACACTATTG
*
16321939 TACATACAAATTACTTGTCATTTCAATTTCTAACAATCGCATGCAAAAATCTTATAGTTCAAGTC
261 TACATACAAATTACTTGTCATTTCAATTTCTAACAATCGCATGCAAAAATCTTATAGTTAAAGTC
16322004 TCGTTGTTCAAATACCAAATACATATTTACTCCTTCA
326 TCGTTGTTCAAATACCAAATACATATTTACTCCTTCA
16322041 AATACTTGTACACCAATCTTCACATACTTTGACATTATCAGATTCACTATCCATATACATACTAT
1 AATACTTGTACACCAATCTTCACATACTTTGACATTATCAGATTCACTATCCATATACATACTAT
16322106 ATTTTACATAGTTTCATATTCATAGTTTGTCAATTTCCTACAGGTATCTCTAGATACAAACAGTA
66 ATTTTACATAGTTTCATATTCATAGTTTGTCAATTTCCTACAGGTATCTCTAGATACAAACAGTA
* *
16322171 TACATGCAGGAGTTAGCATAGAACTCACCTGATTCTCACCTGCTATAGTTCATAGCTCCAAATCG
131 TACATGCAGGAGTTAGCATAGAACTCACCTGATTCTCACCTACTATAGTTCATAGCTCCAAATCC
*
16322236 AGATATCCATTATGAGCCACAAGCAATCACTACTTAGAAACAGAATTTCACCTTTAACACTATTG
196 AGATATCCATCATGAGCCACAAGCAATCACTACTTAGAAACAGAATTTCACCTTTAACACTATTG
16322301 TACATACAAATTACTTGTCATTTCAATTTCTAACAATCGCATGCAAAAATCTTATAGTTAAAGTC
261 TACATACAAATTACTTGTCATTTCAATTTCTAACAATCGCATGCAAAAATCTTATAGTTAAAGTC
* *
16322366 TCGTTGTTCAAATACCAAATAGATATTTACTTCTTCA
326 TCGTTGTTCAAATACCAAATACATATTTACTCCTTCA
16322403 GTACTTAACA
Statistics
Matches: 354, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
362 354 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (362 bp):
AATACTTGTACACCAATCTTCACATACTTTGACATTATCAGATTCACTATCCATATACATACTAT
ATTTTACATAGTTTCATATTCATAGTTTGTCAATTTCCTACAGGTATCTCTAGATACAAACAGTA
TACATGCAGGAGTTAGCATAGAACTCACCTGATTCTCACCTACTATAGTTCATAGCTCCAAATCC
AGATATCCATCATGAGCCACAAGCAATCACTACTTAGAAACAGAATTTCACCTTTAACACTATTG
TACATACAAATTACTTGTCATTTCAATTTCTAACAATCGCATGCAAAAATCTTATAGTTAAAGTC
TCGTTGTTCAAATACCAAATACATATTTACTCCTTCA
Found at i:16344926 original size:26 final size:27
Alignment explanation
Indices: 16344874--16344928 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
16344864 TACCTAAAAT
16344874 TAAATTGAATTAGAGAAATATATTAAA
1 TAAATTGAATTAGAGAAATATATTAAA
* *
16344901 TAAATTGGATTTGAG-AATATATTAAA
1 TAAATTGAATTAGAGAAATATATTAAA
16344927 TA
1 TA
16344929 TTAATGAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (27 bp):
TAAATTGAATTAGAGAAATATATTAAA
Found at i:16350137 original size:40 final size:40
Alignment explanation
Indices: 16350093--16350170 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
16350083 CATTACTTAC
* ** *
16350093 AGCTTGTCTACATTATGGGCAGTTTATATACATTACTGTT
1 AGCTTGTCTACACTACCGGCAGTTTATATACATAACTGTT
*
16350133 AGCTTGTCTACACTACCGGCAGTTTATCTACATAACTG
1 AGCTTGTCTACACTACCGGCAGTTTATATACATAACTG
16350171 GTGGCTTGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.37
Consensus pattern (40 bp):
AGCTTGTCTACACTACCGGCAGTTTATATACATAACTGTT
Found at i:16355048 original size:24 final size:24
Alignment explanation
Indices: 16355016--16355064 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
16355006 ATGTTATGTT
*
16355016 TAAATATTAGGTGTTTATGTTTAG
1 TAAACATTAGGTGTTTATGTTTAG
16355040 TAAACATTAGGTGTTTATGTTTAG
1 TAAACATTAGGTGTTTATGTTTAG
16355064 T
1 T
16355065 TTAATATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (24 bp):
TAAACATTAGGTGTTTATGTTTAG
Found at i:16357195 original size:27 final size:27
Alignment explanation
Indices: 16357152--16357405 Score: 209
Period size: 27 Copynumber: 9.4 Consensus size: 27
16357142 CGGAAAAGTT
* * * *
16357152 GTAAAATTACCGAAATACCCTCAAATG
1 GTAAAATGACCGTAATACCCTCATAGG
*
16357179 GTAAAATGAACGTAATACCC-CTATAGG
1 GTAAAATGACCGTAATACCCTC-ATAGG
* *
16357206 GTAAAATGGCCGTAATACCCGT-GTAGG
1 GTAAAATGACCGTAATACCC-TCATAGG
* *
16357233 GTAAAATGACCGTAATACCC-CTGTGGG
1 GTAAAATGACCGTAATACCCTC-ATAGG
*
16357260 GTAAAATGACCGTAATACTCCT-GTAGG
1 GTAAAATGACCGTAATAC-CCTCATAGG
* *
16357287 GGAAAATGACCGTAATACCC-CTATAAG
1 GTAAAATGACCGTAATACCCTC-ATAGG
* *
16357314 GTAAAATGACCATAATGCCC-CTATAGG
1 GTAAAATGACCGTAATACCCTC-ATAGG
* *
16357341 GTAAAATGACTGTAATACCC-CTGTAGG
1 GTAAAATGACCGTAATACCCTC-ATAGG
* *
16357368 GTAAAATGACCGTATTACCC-CTGTAGG
1 GTAAAATGACCGTAATACCCTC-ATAGG
*
16357395 GTAAGATGACC
1 GTAAAATGACC
16357406 ATATTGCCCT
Statistics
Matches: 193, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
26 3 0.02
27 188 0.97
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCTCATAGG
Found at i:16357223 original size:54 final size:53
Alignment explanation
Indices: 16357152--16357403 Score: 272
Period size: 54 Copynumber: 4.7 Consensus size: 53
16357142 CGGAAAAGTT
* * * *
16357152 GTAAAATTACCGAAATACCCTCAAATGGTAAAATGAACGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCT-ATAGGGTAAAATGAACGTAATACCCCTATAGG
* * * * *
16357206 GTAAAATGGCCGTAATACCCGTGTAGGGTAAAATGACCGTAATACCCCTGTGGG
1 GTAAAATGACCGTAATACCC-TATAGGGTAAAATGAACGTAATACCCCTATAGG
* * * *
16357260 GTAAAATGACCGTAATACTCCTGTAGGGGAAAATGACCGTAATACCCCTATAAG
1 GTAAAATGACCGTAATAC-CCTATAGGGTAAAATGAACGTAATACCCCTATAGG
* * *
16357314 GTAAAATGACCATAATGCCCCTATAGGGTAAAATG-ACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAAT-ACCCTATAGGGTAAAATGAAC-GTAATACCCCTATAGG
* * *
16357368 GTAAAATGACCGTATTACCCCTGTAGGGTAAGATGA
1 GTAAAATGACCGTAATA-CCCTATAGGGTAAAATGA
16357404 CCATATTGCC
Statistics
Matches: 166, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 161 0.97
55 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (53 bp):
GTAAAATGACCGTAATACCCTATAGGGTAAAATGAACGTAATACCCCTATAGG
Found at i:16357410 original size:27 final size:27
Alignment explanation
Indices: 16357178--16357405 Score: 321
Period size: 27 Copynumber: 8.4 Consensus size: 27
16357168 ACCCTCAAAT
* *
16357178 GGTAAAATGAACGTAATACCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
16357205 GGTAAAATGGCCGTAATACCCGTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
16357232 GGTAAAATGACCGTAATACCCCTGTGG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
16357259 GGTAAAATGACCGTAATACTCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
16357286 GGGAAAATGACCGTAATACCCCTATAA
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
16357313 GGTAAAATGACCATAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
16357340 GGTAAAATGACTGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
16357367 GGTAAAATGACCGTATTACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
16357394 GGTAAGATGACC
1 GGTAAAATGACC
16357406 ATATTGCCCT
Statistics
Matches: 177, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 177 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:16357711 original size:32 final size:32
Alignment explanation
Indices: 16357656--16357890 Score: 144
Period size: 32 Copynumber: 7.4 Consensus size: 32
16357646 GCTATGATGC
* * ** *
16357656 TACTGATGACTTTGTACAAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * *
16357688 TACTGATGGCTTTGTGTCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * *
16357720 TAAC-GATGGCTGTCTGCCGATCAT-TTCACTGT
1 T-ACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* * *
16357752 TACTAATGG-TTGTGTGCCGATCTTA-TCACTTT
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACTGT
*
16357784 TACTGATGGCTTTGTGTCGATCA-AGTTACTGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
* *
16357816 TACTGATGG-TTGTGTGCCAATCATA-TCACTGC
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACTGT
* * * * *
16357848 TATTGATGGATTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
*
16357879 TACTTATGGCTT
1 TACTGATGGCTT
16357891 GTAGCCATTC
Statistics
Matches: 163, Mismatches: 27, Indels: 27
0.75 0.12 0.12
Matches are distributed among these distances:
31 18 0.11
32 136 0.83
33 9 0.06
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACTGT
Found at i:16357792 original size:64 final size:64
Alignment explanation
Indices: 16357724--16357845 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
16357714 TACCGTTAAC
* * *
16357724 GATGGCTGTCTGCCGATC-ATTTCACTGTTACTAATGGTTGTGTGCCGATCTTATCACTTTTACT
1 GATGGCTGTCTGCCGATCAAGTT-ACTGTTACTAATGGTTGTGTGCCAATCATATCACTTTTACT
* * * *
16357788 GATGGCTTTGTGTCGATCAAGTTACTGTTACTGATGGTTGTGTGCCAATCATATCACT
1 GATGGCTGTCTGCCGATCAAGTTACTGTTACTAATGGTTGTGTGCCAATCATATCACT
16357846 GCTATTGATG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 47 0.94
65 3 0.06
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (64 bp):
GATGGCTGTCTGCCGATCAAGTTACTGTTACTAATGGTTGTGTGCCAATCATATCACTTTTACT
Found at i:16357877 original size:64 final size:64
Alignment explanation
Indices: 16357747--16357892 Score: 170
Period size: 64 Copynumber: 2.3 Consensus size: 64
16357737 CGATCATTTC
* * ** * * *
16357747 ACTGTTACTAATGGTTGTGTGCCGATCTTATCACTTTTACTGATGGCTTTGTGTCGATCAAGTT
1 ACTGTTACTAATGGTTGTGTGCCAATCATATCACTGCTACTGATGGATTTGTGCCAATCAAGTT
* *
16357811 ACTGTTACTGATGGTTGTGTGCCAATCATATCACTGCTATTGATGGATTTGTGCCAATCACA-TT
1 ACTGTTACTAATGGTTGTGTGCCAATCATATCACTGCTACTGATGGATTTGTGCCAATCA-AGTT
*
16357875 ACTG-TACTTATGGCTTGT
1 ACTGTTACTAATGG-TTGT
16357893 AGCCATTCTG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
63 8 0.11
64 61 0.87
65 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (64 bp):
ACTGTTACTAATGGTTGTGTGCCAATCATATCACTGCTACTGATGGATTTGTGCCAATCAAGTT
Found at i:16372620 original size:20 final size:20
Alignment explanation
Indices: 16372595--16372650 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
16372585 AACCTTATGC
*
16372595 TAAGTAATTGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
* *
16372615 TAAGTAAATGGAATCGTAAG
1 TAAGTAAATGGAATGGAAAG
16372635 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
16372651 TTCATCGTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:16373560 original size:11 final size:13
Alignment explanation
Indices: 16373544--16373575 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
16373534 AATTTAACGA
16373544 AAAAATTTCG-T-
1 AAAAATTTCGTTC
16373555 AAAAATTTCGTTC
1 AAAAATTTCGTTC
16373568 AAAAATTT
1 AAAAATTT
16373576 TGACGTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:16374868 original size:51 final size:51
Alignment explanation
Indices: 16374788--16375127 Score: 340
Period size: 51 Copynumber: 6.7 Consensus size: 51
16374778 TATCGATGAA
* *
16374788 CACGTGTGTAGTACTCTGTGAAGGCTACTACGTGTATCGATAAATATTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGAT
* * * *
16374839 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA-C-ATAGAAGT-TTTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATA-AA-TATTGA-T
* * * *
16374890 CACGTGTGTTGTACTGTGTGAAGGCTACTACGTGTATCGATGAATGA-TGAA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGAT
* * * * *
16374941 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA--TATTGAT
* * * *
16374992 CACGTGTGTAGTACTATGTGAAGGCTACTATGAGAACCG-TAAA-ATTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGAT
* * *
16375042 CACGTGTGTAGTACTATGTAAAGGCTACTACGTGAATCG-TAAA-ACTTCAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGAT
16375092 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
16375128 ACGAATGATA
Statistics
Matches: 240, Mismatches: 36, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
49 3 0.01
50 89 0.37
51 140 0.58
52 6 0.03
53 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGAT
Found at i:16374964 original size:102 final size:100
Alignment explanation
Indices: 16374788--16375127 Score: 407
Period size: 102 Copynumber: 3.4 Consensus size: 100
16374778 TATCGATGAA
* *
16374788 CACGTGTGTAGTACTCTGTGAAGGCTACTACGTGTATCGATAAATATTGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TGATCACATGTGTAGTAC
*
16374853 TAAGTGAAGGCTACTATGTGTACATAGAAGTTTTAGT
65 TAAGTGAAGGCTACTATGTGTACATA-AAGCTTTAGT
* * * *
16374890 CACGTGTGTTGTACTGTGTGAAGGCTACTACGTGTATCGATGAATGATGAACACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGATCACATGTGTAGTAC
*
16374955 TAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGT
65 TAAGTGAAGGCTACTATGTGTA-C-ATAAAGCTTTAGT
* * * * * *
16374992 CACGTGTGTAGTACTATGTGAAGGCTACTATGAGAACCG-TAAAATTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAT-AAATATGATCACATGTGTAGTAC
* * * * * * *
16375056 TATGTAAAGGCTACTACGTGAATCGTAAAACTTCA-T
65 TAAGTGAAGGCTACTATGTGTA-CATAAAGCTTTAGT
16375092 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
16375128 ACGAATGATA
Statistics
Matches: 204, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
100 34 0.17
101 42 0.21
102 124 0.61
103 3 0.01
104 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATGATCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACATAAAGCTTTAGT
Found at i:16375924 original size:22 final size:23
Alignment explanation
Indices: 16375893--16375935 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16375883 TAGAATTTGA
*
16375893 ATAAACAATAGA-TTTATATGTG
1 ATAAAAAATAGATTTTATATGTG
*
16375915 ATAAAAAATATATTTTATATG
1 ATAAAAAATAGATTTTATATG
16375936 GTATCATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (23 bp):
ATAAAAAATAGATTTTATATGTG
Found at i:16377081 original size:60 final size:60
Alignment explanation
Indices: 16376979--16377104 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
16376969 AAGGAGGAAG
* * * * * *
16376979 TACTGGCAGTTTATTTGCATCACTAGTGGCTTCTCCATATTACTTGCAGCTTGTTTGCAC
1 TACTGGCAGTTTATATACATCACTAGTGGCTTCACCACATTACTAGCAGCTTGTCTGCAC
* * * *
16377039 TACTTGCAGTTTATATACATTACTAGTGGCTTGACCACATTACTAGCAGCTTGTCTGCAT
1 TACTGGCAGTTTATATACATCACTAGTGGCTTCACCACATTACTAGCAGCTTGTCTGCAC
16377099 TACTGG
1 TACTGG
16377105 TGGCTTGTTC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.38
Consensus pattern (60 bp):
TACTGGCAGTTTATATACATCACTAGTGGCTTCACCACATTACTAGCAGCTTGTCTGCAC
Found at i:16377099 original size:20 final size:20
Alignment explanation
Indices: 16377017--16377102 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 20
16377007 GCTTCTCCAT
* * *
16377017 ATTACTTGCAGCTTGTTTGC
1 ATTACTAGCAGCTTGTCTAC
* * * * *
16377037 ACTACTTGCAGTTTATATAC
1 ATTACTAGCAGCTTGTCTAC
** * *
16377057 ATTACTAGTGGCTTGACCAC
1 ATTACTAGCAGCTTGTCTAC
*
16377077 ATTACTAGCAGCTTGTCTGC
1 ATTACTAGCAGCTTGTCTAC
16377097 ATTACT
1 ATTACT
16377103 GGTGGCTTGT
Statistics
Matches: 47, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (20 bp):
ATTACTAGCAGCTTGTCTAC
Found at i:16380509 original size:104 final size:104
Alignment explanation
Indices: 16380329--16380538 Score: 402
Period size: 104 Copynumber: 2.0 Consensus size: 104
16380319 ATGAAGCATA
* *
16380329 CGAAATTCTGGAAAGGATAGCAAATAATGATTCTCATTACCCTATCACAAGAGTTGGTACTGGTA
1 CGAAATTCTGGAAAGGATAGCAAATAATGATTATCAGTACCCTATCACAAGAGTTGGTACTGGTA
16380394 GAAGATTTACTAGATGAATGGGACTTGATGAAATTACAT
66 GAAGATTTACTAGATGAATGGGACTTGATGAAATTACAT
16380433 CGAAATTCTGGAAAGGATAGCAAATAATGATTATCAGTACCCTATCACAAGAGTTGGTACTGGTA
1 CGAAATTCTGGAAAGGATAGCAAATAATGATTATCAGTACCCTATCACAAGAGTTGGTACTGGTA
16380498 GAAGATTTACTAGATGAATGGGACTTGATGAAATTACAT
66 GAAGATTTACTAGATGAATGGGACTTGATGAAATTACAT
16380537 CG
1 CG
16380539 TTAATAGCTC
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (104 bp):
CGAAATTCTGGAAAGGATAGCAAATAATGATTATCAGTACCCTATCACAAGAGTTGGTACTGGTA
GAAGATTTACTAGATGAATGGGACTTGATGAAATTACAT
Found at i:16387011 original size:40 final size:40
Alignment explanation
Indices: 16386953--16387133 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
16386943 AATTATAGAA
*
16386953 TGAATGCACATACATGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
16386993 TGAATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
16387033 TTAATGCACATATGTGCCCTTATTTGTACTGCAGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
16387073 TAAATGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
16387113 TGAATGCACTTCCGTGCCCCT
1 TGAATGCACATACGTGCCCCT
16387134 GTTTATCTCC
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.31
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:16387032 original size:20 final size:20
Alignment explanation
Indices: 16386969--16387033 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
16386959 CACATACATG
*
16386969 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * *
16386989 CCCCTGAATGCACAT-GCGTG
1 CCCCTGTTTGTACTTCG-GTA
16387009 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
16387029 CCCCT
1 CCCCT
16387034 TAATGCACAT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.35, G:0.18, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:16388748 original size:144 final size:145
Alignment explanation
Indices: 16388577--16388865 Score: 571
Period size: 144 Copynumber: 2.0 Consensus size: 145
16388567 AACTCTTAGG
16388577 TAAAATAATGAACAATTCTAATCCTATACAAGGTTAATAACAGTTTATATATATTATATAAAATA
1 TAAAATAATGAACAATTCTAATCCTATACAAGGTTAATAACAGTTTATATATATTATATAAAATA
16388642 TATGTATATATTAGTTGGTATCATCCTATTTATTAAAAATAAAAATTAAAAACCTTTCTTTTAGC
66 TATGTATATATTAGTTGGTATCATCCTATTTATTAAAAATAAAAATTAAAAACCTTTCTTTTAGC
16388707 TGTTTTAAAATAATT
131 TGTTTTAAAATAATT
16388722 TAAAATAATG-ACAATTCTAATCCTATACAAGGTTAATAACAGTTTATATATATTATATAAAATA
1 TAAAATAATGAACAATTCTAATCCTATACAAGGTTAATAACAGTTTATATATATTATATAAAATA
16388786 TATGTATATATTAGTTGGTATCATCCTATTTATTAAAAATAAAAATTAAAAACCTTTCTTTTAGC
66 TATGTATATATTAGTTGGTATCATCCTATTTATTAAAAATAAAAATTAAAAACCTTTCTTTTAGC
16388851 TGTTTTAAAATAATT
131 TGTTTTAAAATAATT
16388866 AGAGAAATGA
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 134 0.93
145 10 0.07
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (145 bp):
TAAAATAATGAACAATTCTAATCCTATACAAGGTTAATAACAGTTTATATATATTATATAAAATA
TATGTATATATTAGTTGGTATCATCCTATTTATTAAAAATAAAAATTAAAAACCTTTCTTTTAGC
TGTTTTAAAATAATT
Found at i:16395657 original size:22 final size:22
Alignment explanation
Indices: 16395629--16395680 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
16395619 CATCAGTGTT
16395629 ATCAGTGGCAGTTTATCTACAA
1 ATCAGTGGCAGTTTATCTACAA
*
16395651 ATCAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCTACAA
16395673 ATCAGTGG
1 ATCAGTGG
16395681 TGGCATGTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTACAA
Found at i:16396822 original size:26 final size:26
Alignment explanation
Indices: 16396782--16396836 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
16396772 CATTTCATCA
*
16396782 TCTCTCATTCATCCATTCTTCTCTATTT
1 TCTCTCATT-ATCCATTCTTC-CAATTT
16396810 TCTCTCATT-TCCATTCTTCCAATTT
1 TCTCTCATTATCCATTCTTCCAATTT
16396835 TC
1 TC
16396837 AAGAGAGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.53
Consensus pattern (26 bp):
TCTCTCATTATCCATTCTTCCAATTT
Found at i:16406558 original size:43 final size:42
Alignment explanation
Indices: 16406409--16406603 Score: 164
Period size: 43 Copynumber: 4.6 Consensus size: 42
16406399 TAACCGTCAC
* * ***
16406409 ACGGTGAAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTACAATC-AAGGAT
* * *
16406452 CCCGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTACAATCAAGGAT
* *
16406495 AC-GAGGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ACAATCAAGGAT
* * * **
16406537 ACGGTGGAATCAGTACTTAGCAACCACATTATTAATCAATAAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTA-CAATCAAGGAT
*
16406580 -CTGG-GGAATCTGCACTTAGCAACC
1 AC-GGTGGAATCAGCACTTAGCAACC
16406604 CTTTTTTGAT
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
40 2 0.02
41 22 0.18
42 33 0.26
43 36 0.29
44 32 0.26
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTACAATCAAGGAT
Found at i:16408379 original size:41 final size:40
Alignment explanation
Indices: 16408323--16408417 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
16408313 GCGCTAACGA
* * * **
16408323 AAAAACGCCACAAAAGGTCAAGCAGTAGAGGCGTTTATGAG
1 AAAAATGCCACAAAAGGT-AACCAATAGAGAAGTTTATGAG
* *
16408364 AAAAATGCCGCAAAAGGTAACCAATAGCGAAGTTTATGAG
1 AAAAATGCCACAAAAGGTAACCAATAGAGAAGTTTATGAG
16408404 AAAAATGCCACAAA
1 AAAAATGCCACAAA
16408418 GTATCATGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 30 0.65
41 16 0.35
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (40 bp):
AAAAATGCCACAAAAGGTAACCAATAGAGAAGTTTATGAG
Found at i:16408648 original size:25 final size:25
Alignment explanation
Indices: 16408569--16408667 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 25
16408559 CCATTTGTTT
* *
16408569 CATCACCGTCGACTATCACCTC-GCTG
1 CATCACCGTCGAC-A-CTCCTCTACTG
* * * **
16408595 CATCGCCGTCAACACTCCTCTGCCC
1 CATCACCGTCGACACTCCTCTACTG
16408620 CATCACCGTCGACACTCCTCTACTG
1 CATCACCGTCGACACTCCTCTACTG
* *
16408645 CATCATCATCGACACTCCTCTAC
1 CATCACCGTCGACACTCCTCTAC
16408668 CCCGAAATAA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
24 5 0.08
25 44 0.73
26 11 0.18
ACGTcount: A:0.20, C:0.45, G:0.11, T:0.23
Consensus pattern (25 bp):
CATCACCGTCGACACTCCTCTACTG
Found at i:16408848 original size:21 final size:22
Alignment explanation
Indices: 16408801--16408850 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
16408791 CCAAAACATC
*
16408801 TATTTTTTGGGTTAATATTTAT
1 TATTTTTTGGGTTAATATTCAT
16408823 TATTTTTTGGGTT-ATA-TCAT
1 TATTTTTTGGGTTAATATTCAT
*
16408843 TAATTTTT
1 TATTTTTT
16408851 ATTATGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 3 0.12
22 13 0.50
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (22 bp):
TATTTTTTGGGTTAATATTCAT
Found at i:16414650 original size:50 final size:50
Alignment explanation
Indices: 16414585--16414705 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
16414575 ATTTGGGTAA
* * * *
16414585 AGAGGTCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGAAATCGCATGGGCACCGAGATG
* *
16414635 AGAGGTCCC-TCGTAAGACCATGTCTAGGATATCGCATGGGCACCGATATG
1 AGAGGTCCCAT-GTAAGACCATGTCTAGGAAATCGCATGGGCACCGAGATG
** *
16414685 AGAACTCTCATGTAAGACCAT
1 AGAGGTCCCATGTAAGACCAT
16414706 AAATGGGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 58 0.97
51 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGAAATCGCATGGGCACCGAGATG
Found at i:16417337 original size:20 final size:20
Alignment explanation
Indices: 16417312--16417349 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16417302 GCATCCTTGA
16417312 ACGGATTGGGTTGTGTACAT
1 ACGGATTGGGTTGTGTACAT
16417332 ACGGATTGGGTTGTGTAC
1 ACGGATTGGGTTGTGTAC
16417350 TTATACAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.37, T:0.34
Consensus pattern (20 bp):
ACGGATTGGGTTGTGTACAT
Found at i:16420489 original size:50 final size:50
Alignment explanation
Indices: 16420414--16420752 Score: 355
Period size: 50 Copynumber: 6.8 Consensus size: 50
16420404 AATTTGGGTA
* *
16420414 AAGAGGTCCCATGTAATACCATGTCTGGGACATGGCATTGGCACGGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * *
16420464 AAGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCGCCGAGAA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * * *
16420514 AAGAGGTCCCTTGTAAAACCCTGTCTGGGACATGGCATTGACACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *
16420564 GAA-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCGCCGAGAT
1 -AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * **
16420614 AAGAGGTCCCATTTAAGACCATGTCTGGTACTTGGTGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * *
16420664 GAA-A--TCCC-TCGTAAGACCATGTCTAGGACATGGCATGGGCACCTATAT
1 -AAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
16420712 GAGAACTCCCACGTAAGACCATATCTGGGATATGACATTGG
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
16420753 TAGTACAAAA
Statistics
Matches: 238, Mismatches: 43, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
47 2 0.01
48 34 0.14
49 2 0.01
50 196 0.82
51 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:16424318 original size:43 final size:43
Alignment explanation
Indices: 16424226--16424356 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 43
16424216 AAAACATGAC
* * *
16424226 CTTTAGCGGCGTTTGTGGGAAACGCGCCGCTAAAAGTCATGTT
1 CTTTAGTGGCGTTTGTAGGAAACGCGCCGCTAAAGGTCATGTT
*
16424269 CTTTAGTGGCGTTTGTAGGAAACCCGCCGCTAAAGGTCATGTT
1 CTTTAGTGGCGTTTGTAGGAAACGCGCCGCTAAAGGTCATGTT
** * * *
16424312 CTTTAGTGGTATTTTTATGAGAA-GTGCCGCTAAAGGTCATGTT
1 CTTTAGTGGCGTTTGTAGGA-AACGCGCCGCTAAAGGTCATGTT
16424355 CT
1 CT
16424357 ATAGCGACGT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 75 0.97
44 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTAGGAAACGCGCCGCTAAAGGTCATGTT
Found at i:16433463 original size:14 final size:14
Alignment explanation
Indices: 16433444--16433470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16433434 GCCTTCACTT
16433444 CAATTTATTGACGA
1 CAATTTATTGACGA
16433458 CAATTTATTGACG
1 CAATTTATTGACG
16433471 TTATGGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
CAATTTATTGACGA
Found at i:16441220 original size:30 final size:30
Alignment explanation
Indices: 16441175--16441233 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
16441165 AATTTTGAGC
* *
16441175 TTAGGGACTAAATTGTGATAAATGTAAAAGT
1 TTAGGGACAAAATTGTAATAAATG-AAAAGT
*
16441206 TTAGGGA-AAAATTGTAATTAATGAAAAG
1 TTAGGGACAAAATTGTAATAAATGAAAAG
16441234 GGTGATATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 13 0.52
31 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.31
Consensus pattern (30 bp):
TTAGGGACAAAATTGTAATAAATGAAAAGT
Found at i:16442643 original size:7 final size:7
Alignment explanation
Indices: 16442631--16442657 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16442621 CAAAATAAAT
16442631 TGTCCAA
1 TGTCCAA
16442638 TGTCCAA
1 TGTCCAA
16442645 TGTCCAA
1 TGTCCAA
16442652 TGTCCA
1 TGTCCA
16442658 TTTACAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (7 bp):
TGTCCAA
Found at i:16454522 original size:50 final size:50
Alignment explanation
Indices: 16454464--16454640 Score: 185
Period size: 50 Copynumber: 3.4 Consensus size: 50
16454454 TATCTCAAAT
** * *
16454464 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCAATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGCCATGTCCCAGAC
* ** *
16454514 ATGGTCTTAC-GGGGAACCTCTCACCTAGGTGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGG-ACCTCTCATATCGGTGCCAATGCCATGTCCCAGAC
*
16454564 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAATGCCATGTCCCAGAC
* *
16454620 ATGATCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
16454641 TTACCCAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
49 3 0.03
50 56 0.54
51 3 0.03
53 1 0.01
56 41 0.39
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGCCATGTCCCAGAC
Found at i:16491934 original size:18 final size:18
Alignment explanation
Indices: 16491887--16491934 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
16491877 AAGTACTTAT
16491887 AAAATTC-AATTTAATCC
1 AAAATTCAAATTTAATCC
* *
16491904 ACAATTCATATTTAA-CC
1 AAAATTCAAATTTAATCC
16491921 AAAATTACAAATTT
1 AAAATT-CAAATTT
16491935 CCCCTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTCAAATTTAATCC
Found at i:16512216 original size:27 final size:27
Alignment explanation
Indices: 16512199--16512500 Score: 302
Period size: 27 Copynumber: 11.2 Consensus size: 27
16512189 GTATAACAGC
*
16512199 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
16512226 CATTTTACCCTATGAGGGTATTTCAAT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
16512253 CATTTTACCCTATGGGGATATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
16512280 CATTTTACCCTGTAGGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * * * *
16512307 TATTTTACCTTGTGAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* ** * *
16512334 TATTTTACTATATAGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
*
16512361 CATTTTACCCTATGGGGGTATTTTAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
16512388 CATTTTACCCTATGAGAGTATTT-AGGT
1 CATTTTACCCTATGGGGGTATTTCA-GT
* **
16512415 TATTTTACCCTATGGGGGTATTTTTGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * * * *
16512442 CATTTTACTCTACGGGAGCATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
16512469 CAGTTCACCCTATGGGGGTATTTC-GAT
1 CATTTTACCCTATGGGGGTATTTCAG-T
16512496 CATTT
1 CATTT
16512501 ATTGACCTCT
Statistics
Matches: 225, Mismatches: 47, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
26 2 0.01
27 223 0.99
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCAGT
Found at i:16512312 original size:81 final size:80
Alignment explanation
Indices: 16512199--16512492 Score: 338
Period size: 81 Copynumber: 3.6 Consensus size: 80
16512189 GTATAACAGC
* * *
16512199 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTTATTTTACCCT
16512264 ATGGGGATATTTCGGT
66 ATGGGG-TATTTCGGT
* * * * * * **
16512280 CATTTTACCCTGTAGGGGTATTTCAGTTATTTTACCTTGTGAGGGTATTTCGGTTATTTTACTAT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTTATTTTACCCT
16512345 ATAGGGGTATTTCGGT
66 AT-GGGGTATTTCGGT
* *
16512361 CATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATGAGAGTATTT-AGGTTATTTTACCC
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCA-GTTATTTTACCC
**
16512425 TATGGGGGTATTTTTGT
65 TAT-GGGGTATTTCGGT
* * * * * * * *
16512442 CATTTTACTCTACGGGAGCATTTCGGTCAGTTCACCCTATGGGGGTATTTC
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTC
16512493 GATCATTTAT
Statistics
Matches: 176, Mismatches: 34, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
81 172 0.98
82 4 0.02
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (80 bp):
CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCAGTTATTTTACCCT
ATGGGGTATTTCGGT
Found at i:16530972 original size:6 final size:6
Alignment explanation
Indices: 16530961--16530988 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
16530951 CAAAGACAAG
16530961 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
16530989 ATAATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:16543765 original size:20 final size:20
Alignment explanation
Indices: 16543727--16543765 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16543717 TAAGCAAGCA
*
16543727 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
16543747 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
16543766 AAATATCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:16547688 original size:13 final size:13
Alignment explanation
Indices: 16547667--16547701 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
16547657 ATAAGTTGCT
* *
16547667 GTTAGTTAAATTA
1 GTTAATTAAATAA
16547680 GTTAATTAAATAA
1 GTTAATTAAATAA
16547693 GTTAATTAA
1 GTTAATTAA
16547702 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:16549156 original size:199 final size:199
Alignment explanation
Indices: 16548816--16549214 Score: 744
Period size: 199 Copynumber: 2.0 Consensus size: 199
16548806 CTTTCTTCAA
16548816 AGAGTGAGTTTTCTCCTCTCTAAATTCGTACGAGTTTCGATCTGACTTATCTAGCGTGCTAGTGG
1 AGAGTGAGTTTTCTCCTCTCTAAATTCGTACGAGTTTCGATCTGACTTATCTAGCGTGCTAGTGG
*
16548881 CGTCTATCGTTCTCTTTTGAACTTATCACCTTGCTTTGGTGTGGCGTTCAACCCTTCTACAATTC
66 CGTCTATCGTTCTCTTCTGAACTTATCACCTTGCTTTGGTGTGGCGTTCAACCCTTCTACAATTC
16548946 CGTAATCCCACCTTGAACCGAATAGAAATCGGGGTGACACTTTTTAGTGTTGAATCGTATCTGGT
131 CGTAATCCCACCTTGAACCGAATAGAAATCGGGGTGACACTTTTTAGTGTTGAATCGTATCTGGT
16549011 GTTT
196 GTTT
* *
16549015 AGAGTGAGTTTTCTCCTCTCTAAATTTGTACGAGTTTGGATCTGACTTATCTAGCGTGCTAGTGG
1 AGAGTGAGTTTTCTCCTCTCTAAATTCGTACGAGTTTCGATCTGACTTATCTAGCGTGCTAGTGG
*
16549080 TGTCTATCGTTCTCTTCTGAACTTATCACCTTGCTTTGGTGTGGCGTTCAACCCTTCTACAATTC
66 CGTCTATCGTTCTCTTCTGAACTTATCACCTTGCTTTGGTGTGGCGTTCAACCCTTCTACAATTC
* *
16549145 CGTAATCCCACCTTGAACCGAATAGAAATCGGGGTGACATTTTTTAGTGTTGAATCGTTTCTGGT
131 CGTAATCCCACCTTGAACCGAATAGAAATCGGGGTGACACTTTTTAGTGTTGAATCGTATCTGGT
16549210 GTTT
196 GTTT
16549214 A
1 A
16549215 CGCTCATTTA
Statistics
Matches: 194, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 194 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (199 bp):
AGAGTGAGTTTTCTCCTCTCTAAATTCGTACGAGTTTCGATCTGACTTATCTAGCGTGCTAGTGG
CGTCTATCGTTCTCTTCTGAACTTATCACCTTGCTTTGGTGTGGCGTTCAACCCTTCTACAATTC
CGTAATCCCACCTTGAACCGAATAGAAATCGGGGTGACACTTTTTAGTGTTGAATCGTATCTGGT
GTTT
Found at i:16565400 original size:23 final size:23
Alignment explanation
Indices: 16565374--16565447 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
16565364 GTTACAAAAG
16565374 GGTAATGTGATTTGGTACGAAAT
1 GGTAATGTGATTTGGTACGAAAT
* **
16565397 GGTATTACGATTTGGTACGAAAT
1 GGTAATGTGATTTGGTACGAAAT
*
16565420 GGTAATGTGATTTGGTACAAAAT
1 GGTAATGTGATTTGGTACGAAAT
16565443 GGTAA
1 GGTAA
16565448 AGATTTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.34
Consensus pattern (23 bp):
GGTAATGTGATTTGGTACGAAAT
Found at i:16569628 original size:15 final size:14
Alignment explanation
Indices: 16569569--16569628 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
16569559 AAACACTCAA
*
16569569 TTTTTCACTCTTTTT
1 TTTTTCA-TCTCTTT
*
16569584 CTTTTTCATCTCTTG
1 -TTTTTCATCTCTTT
*
16569599 TTTTTC-TCACTTT
1 TTTTTCATCTCTTT
16569612 TTTTTCATTCTCTTT
1 TTTTTCA-TCTCTTT
16569627 TT
1 TT
16569629 CCGAATTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
13 11 0.30
14 6 0.16
15 13 0.35
16 7 0.19
ACGTcount: A:0.07, C:0.22, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTTTCATCTCTTT
Found at i:16572125 original size:23 final size:23
Alignment explanation
Indices: 16572099--16572172 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
16572089 GTTACAAAAG
16572099 GGTAATGTGATTTGGTACGAAAT
1 GGTAATGTGATTTGGTACGAAAT
* **
16572122 GGTATTACGATTTGGTACGAAAT
1 GGTAATGTGATTTGGTACGAAAT
16572145 GGTAATGTGATTTGGTACGAAAT
1 GGTAATGTGATTTGGTACGAAAT
16572168 GGTAA
1 GGTAA
16572173 AGATTCAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (23 bp):
GGTAATGTGATTTGGTACGAAAT
Found at i:16581288 original size:81 final size:81
Alignment explanation
Indices: 16581150--16581313 Score: 283
Period size: 81 Copynumber: 2.0 Consensus size: 81
16581140 AAACGCATTG
*
16581150 GATCTCTGTTACAAGCATCAACAAACCAATTTCGGTAGAAGATGGAATACAAACTGATACGATCC
1 GATCTCCGTTACAAGCATCAACAAACCAATTTCGGTAGAAGATGGAATACAAACTGATACGATCC
*
16581215 GCCTCGGTGTTGAGTC
66 GCCTCGGTGCTGAGTC
* * *
16581231 GATCTCCGTTACGAGCATCAACGAACCAATTTCGGTAGAAGATGGAATACAAGCTGATACGATCC
1 GATCTCCGTTACAAGCATCAACAAACCAATTTCGGTAGAAGATGGAATACAAACTGATACGATCC
16581296 GCCTCGGTGCTGAGTC
66 GCCTCGGTGCTGAGTC
16581312 GA
1 GA
16581314 GTCGTATTTA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (81 bp):
GATCTCCGTTACAAGCATCAACAAACCAATTTCGGTAGAAGATGGAATACAAACTGATACGATCC
GCCTCGGTGCTGAGTC
Found at i:16587461 original size:434 final size:434
Alignment explanation
Indices: 16586650--16587517 Score: 1461
Period size: 434 Copynumber: 2.0 Consensus size: 434
16586640 TCAATTATAA
16586650 CGCAACAAATCTTACCGTTCACTTGGCATCGTGTATGGAAGATGTTCTCGCGTTGTTGATCATTT
1 CGCAACAAATCTTACCGTTCACTTGGCATCGTGTATGGAAGATGTTCTCGCGTTGTTGATCATTT
16586715 TCGGCACCTTGCAAAGTAAGGCTTCTTTTCACAACCAAGATTTCTCCATTCTCTGCTTGTTCGAC
66 TCGGCACCTTGCAAAGTAAGGCTTCTTTTCACAACCAAGATTTCTCCATTCTCTGCTTGTTCGAC
* * * * * *
16586780 TTCTTCCTCTTCTTCGAGTTGTTCAACAGCCTCGTTCTCTTGTTCACTTTCGGATTCAATTTCAC
131 TTCTTCCACTTCTTCGAGTTGTTCAACAGCCTCATTCTCTTGTTCACCTTCGGACTAAATCTCAC
* *** *
16586845 CATCATCTCGAACAAACATCGCATTCCGGTTCGGGCATTGGCTTGCGATGTGGCCCCTTCCAAGA
196 CATCATCCCGAACAAACATCGCATTCCGGTTCAAACATTGGCTTGCGATGTGGCCCATTCCAAGA
*
16586910 CATTTGAAGCATTTGATGTCTCGGGATCTATTTGGTTGGGCATCCATCTTTCCTTTACTCGATTC
261 CATTTGAAGCATTTGATGTCTCGGGATCTATTTGGTTGGGCATCCACCTTTCCTTTACTCGATTC
* * * * * *
16586975 GGCCATTGGTTTGTTGAATTTGGTAGCTCCACTTACTTCTTTATTTCGACTCGGCAAGTCTCGTT
326 GGCAATCGATTTGTTGAATTTAGTAGCTCCACTTACTTCTTTATTCCGACTCGGCAAGTCGCGTT
16587040 TGTTGGACCCTTGCCCCCACCTAGTCGTAGAAGAAGTATTAGGG
391 TGTTGGACCCTTGCCCCCACCTAGTCGTAGAAGAAGTATTAGGG
16587084 CGCAACAAATCTTACCGTTCACTTGGCATCGTGTATGGAAGATGTTCTCGCGTTGTTGATCATTT
1 CGCAACAAATCTTACCGTTCACTTGGCATCGTGTATGGAAGATGTTCTCGCGTTGTTGATCATTT
16587149 TCGGCACCTTGCAAAGTAAGGCTTCTTTTCACAACCAAGATTTCTCCATTCTCTGCTTGTTCGAC
66 TCGGCACCTTGCAAAGTAAGGCTTCTTTTCACAACCAAGATTTCTCCATTCTCTGCTTGTTCGAC
* *
16587214 TTCTTCCACTTCTTC-ATTTGGTTCAACAGCCTCATTCTCTTGTTCACCTTCGGACTAAATCTCT
131 TTCTTCCACTTCTTCGAGTT-GTTCAACAGCCTCATTCTCTTGTTCACCTTCGGACTAAATCTCA
**
16587278 CCATCATCCCGAATGAACATCGCATTCCGGTTCAAACATTGGCTTGCGATGTGGCCCATTCCAAG
195 CCATCATCCCGAACAAACATCGCATTCCGGTTCAAACATTGGCTTGCGATGTGGCCCATTCCAAG
* *
16587343 GCATTTGAAGCATTTTATGTCTCGGGATCTATTTGGTTGGGCATCCACCTTTCCTTTACTCGATT
260 ACATTTGAAGCATTTGATGTCTCGGGATCTATTTGGTTGGGCATCCACCTTTCCTTTACTCGATT
*
16587408 CGGCAATCGATTTGTTGAATTTAGT-GTCTCCACTTACTTCTTTATTCCGACTCGGCATGTCGCG
325 CGGCAATCGATTTGTTGAATTTAGTAG-CTCCACTTACTTCTTTATTCCGACTCGGCAAGTCGCG
* *
16587472 TTTGTTGGTCCCTTGCCCCCATCTAGTCGTAGAAGAAGTATTAGGG
389 TTTGTTGGACCCTTGCCCCCACCTAGTCGTAGAAGAAGTATTAGGG
16587518 AAAGAACGGG
Statistics
Matches: 405, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
433 4 0.01
434 401 0.99
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (434 bp):
CGCAACAAATCTTACCGTTCACTTGGCATCGTGTATGGAAGATGTTCTCGCGTTGTTGATCATTT
TCGGCACCTTGCAAAGTAAGGCTTCTTTTCACAACCAAGATTTCTCCATTCTCTGCTTGTTCGAC
TTCTTCCACTTCTTCGAGTTGTTCAACAGCCTCATTCTCTTGTTCACCTTCGGACTAAATCTCAC
CATCATCCCGAACAAACATCGCATTCCGGTTCAAACATTGGCTTGCGATGTGGCCCATTCCAAGA
CATTTGAAGCATTTGATGTCTCGGGATCTATTTGGTTGGGCATCCACCTTTCCTTTACTCGATTC
GGCAATCGATTTGTTGAATTTAGTAGCTCCACTTACTTCTTTATTCCGACTCGGCAAGTCGCGTT
TGTTGGACCCTTGCCCCCACCTAGTCGTAGAAGAAGTATTAGGG
Found at i:16588830 original size:25 final size:25
Alignment explanation
Indices: 16588808--16588857 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
16588798 ATATAAAAGA
16588808 ATGTAGAACGTGATTTTGGAAAAAT
1 ATGTAGAACGTGATTTTGGAAAAAT
*
16588833 ATGTAGAATGTGATTTTGGAAAAAT
1 ATGTAGAACGTGATTTTGGAAAAAT
16588858 TTTTGTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (25 bp):
ATGTAGAACGTGATTTTGGAAAAAT
Found at i:16588831 original size:26 final size:25
Alignment explanation
Indices: 16588802--16588856 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
16588792 AGAGGGATAT
*
16588802 AAAAGAATGTAGAACGTGATTTTGG
1 AAAAAAATGTAGAACGTGATTTTGG
* *
16588827 AAAAATATGTAGAATGTGATTTTGG
1 AAAAAAATGTAGAACGTGATTTTGG
16588852 AAAAA
1 AAAAA
16588857 TTTTTGTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (25 bp):
AAAAAAATGTAGAACGTGATTTTGG
Found at i:16588950 original size:11 final size:11
Alignment explanation
Indices: 16588934--16588967 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
16588924 AGACCGTATA
16588934 CAATTTTTTTT
1 CAATTTTTTTT
16588945 CAA-TTTTTTT
1 CAATTTTTTTT
16588955 CGAATTTTTTTT
1 C-AATTTTTTTT
16588967 C
1 C
16588968 GAAACTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.38
11 5 0.24
12 8 0.38
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.68
Consensus pattern (11 bp):
CAATTTTTTTT
Found at i:16588967 original size:12 final size:12
Alignment explanation
Indices: 16588935--16588970 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
16588925 GACCGTATAC
16588935 AATTTTTTTTC-
1 AATTTTTTTTCG
16588946 AA-TTTTTTTCG
1 AATTTTTTTTCG
16588957 AATTTTTTTTCG
1 AATTTTTTTTCG
16588969 AA
1 AA
16588971 ACTACAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 4 0.17
12 11 0.48
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (12 bp):
AATTTTTTTTCG
Found at i:16607853 original size:13 final size:13
Alignment explanation
Indices: 16607835--16607878 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
16607825 TACGAGATTG
16607835 AAAAAAAATTCG-
1 AAAAAAAATTCGA
*
16607847 AAAAAAAATTCAA
1 AAAAAAAATTCGA
16607860 AAAAAAAATT-GA
1 AAAAAAAATTCGA
16607872 AAAAAAA
1 AAAAAAA
16607879 GTTAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:16608907 original size:15 final size:16
Alignment explanation
Indices: 16608887--16608918 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
16608877 AGAAAATGAA
16608887 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
16608902 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
16608918 A
1 A
16608919 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:16609431 original size:16 final size:18
Alignment explanation
Indices: 16609410--16609443 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
16609400 AGGTATCAAT
16609410 CTTTGA-TTGG-TGATGG
1 CTTTGATTTGGATGATGG
16609426 CTTTGATTTGGATGATGG
1 CTTTGATTTGGATGATGG
16609444 ATTGAAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.15, C:0.06, G:0.35, T:0.44
Consensus pattern (18 bp):
CTTTGATTTGGATGATGG
Found at i:16614420 original size:30 final size:28
Alignment explanation
Indices: 16614386--16614441 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
16614376 GTGATTAAAT
16614386 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
16614416 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
16614442 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:16615741 original size:24 final size:23
Alignment explanation
Indices: 16615683--16615741 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
16615673 AAATAATGTT
*
16615683 GATTTTGGTACGATATGGTAATG
1 GATTTTGGTACGAAATGGTAATG
**
16615706 GGGTTTGGTACGAAATGGT-ATG
1 GATTTTGGTACGAAATGGTAATG
16615728 GAAATTTTGGTACG
1 G--ATTTTGGTACG
16615742 TAGTAGACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.36
Consensus pattern (23 bp):
GATTTTGGTACGAAATGGTAATG
Done.