Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 95 of 290
Found at i:32002677 original size:38 final size:38
Alignment explanation
Indices: 32002504--32002658 Score: 202
Period size: 38 Copynumber: 4.0 Consensus size: 38
32002494 GAATCTAGTC
* * **
32002504 ACCAGCACAAAACCTGCGGGACTTTAAGCTTAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCAGATATAAT
* * *
32002544 ACCAGCACTAGGCCTACGGGATTTAACCCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* *
32002582 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
*
32002620 ACCAGCACGAAGCCTGCGGGATTTAACCAAGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
32002658 A
1 A
32002659 ACAACATATA
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 79 0.78
39 5 0.05
40 17 0.17
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
Found at i:32010669 original size:38 final size:38
Alignment explanation
Indices: 32010576--32010765 Score: 184
Period size: 38 Copynumber: 4.9 Consensus size: 38
32010566 GAATCTAGTC
* * *
32010576 ACCAGCACAAAACCTGCGGGACTTTAATCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCAGATATAAT
* * * *
32010616 ACCAGTACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* *
32010654 ACCAGCACGAAGCCTGTGGGATTTAACCCAGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* * * *
32010692 ACTAGCACGAAGCTTGCGAGATTTAACCCTGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* * *
32010730 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCAGATA
1 ACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCAGATA
32010766 CACATCAAAT
Statistics
Matches: 122, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
37 1 0.01
38 87 0.71
39 10 0.08
40 24 0.20
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
Found at i:32010715 original size:76 final size:78
Alignment explanation
Indices: 32010576--32010765 Score: 204
Period size: 76 Copynumber: 2.5 Consensus size: 78
32010566 GAATCTAGTC
* * * * *
32010576 ACCAGCACAAAACCTGCGGGACTTTAATCTCAGATATAATACCAGTACTAGGCCTGCGGGATTTA
1 ACCAGCACAAAACCTGCGGGACTTTAATCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTA
32010641 ACCCGGATATAAT
66 ACCCGGATATAAT
* * * * * *
32010654 ACCAGCACGAAGCCTGTGGGA-TTTAA-CCCAGATATATTACTAGCACGAAGCTTGCGAGATTTA
1 ACCAGCACAAAACCTGCGGGACTTTAATCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTA
*
32010717 ACCCTGATATAAT
66 ACCCGGATATAAT
* * * * * *
32010730 TCCAGCATATAGCCTGCGGGTCTTTAAGCCCAGATA
1 ACCAGCACAAAACCTGCGGGACTTTAATCCCAGATA
32010766 CACATCAAAT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
76 56 0.61
77 10 0.11
78 26 0.28
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (78 bp):
ACCAGCACAAAACCTGCGGGACTTTAATCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTA
ACCCGGATATAAT
Found at i:32037977 original size:42 final size:43
Alignment explanation
Indices: 32037900--32037981 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
32037890 ACTTACATGT
* *
32037900 AATCAAATATCGATGCGACTATCCCAAACAGGGTCTTACACAA
1 AATCAAATATCGATGCCAATATCCCAAACAGGGTCTTACACAA
* *
32037943 AATCAAATAT-GATGCCAATGTCCCAGAC-GTGGTCTTACA
1 AATCAAATATCGATGCCAATATCCCAAACAG-GGTCTTACA
32037982 TGATAACACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.03
42 23 0.68
43 10 0.29
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATATCCCAAACAGGGTCTTACACAA
Found at i:32039669 original size:28 final size:28
Alignment explanation
Indices: 32039629--32039698 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
32039619 ATAGTAAGTC
*
32039629 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
32039657 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
32039685 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32039699 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:32047576 original size:28 final size:28
Alignment explanation
Indices: 32047544--32047613 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
32047534 ATAGTAAGTC
32047544 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
32047572 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
32047600 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32047614 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:32057782 original size:15 final size:16
Alignment explanation
Indices: 32057764--32057803 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
32057754 TTAAACTCGT
*
32057764 TTTATTTTTATTT-TC
1 TTTATTTTTATTTCTA
*
32057779 TTTACTTTTATTTCTA
1 TTTATTTTTATTTCTA
32057795 TTTATTTTT
1 TTTATTTTT
32057804 GAAGACTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTTCTA
Found at i:32065372 original size:27 final size:27
Alignment explanation
Indices: 32065310--32065421 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
32065300 GGTCTTTATC
* *
32065310 TGACCGTAATACGCCTGTAAGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
32065337 T-ATCTGTAATATCCCTATAGGGTAAAA
1 TGA-CCGTAATACCCCTGTAGGGTAAAA
* * *
32065364 TGACCGTAATGCCCCTGTAGTGTAATA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
32065391 TGATCGTAATACCCCTGTATGGTAATA
1 TGACCGTAATACCCCTGTAGGGTAAAA
32065418 TGAC
1 TGAC
32065422 GATTATGCCC
Statistics
Matches: 67, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.01
27 65 0.97
28 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (27 bp):
TGACCGTAATACCCCTGTAGGGTAAAA
Found at i:32065381 original size:54 final size:54
Alignment explanation
Indices: 32065310--32065421 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
32065300 GGTCTTTATC
* *
32065310 TGACCGTAATACGCCTGTAAG-GTAAAAT-ATCTGTAATATCCCTATAGGGTAAAA
1 TGACCGTAATACCCCTGT-AGTGTAAAATGATC-GTAATACCCCTATAGGGTAAAA
* * * * *
32065364 TGACCGTAATGCCCCTGTAGTGTAATATGATCGTAATACCCCTGTATGGTAATA
1 TGACCGTAATACCCCTGTAGTGTAAAATGATCGTAATACCCCTATAGGGTAAAA
32065418 TGAC
1 TGAC
32065422 GATTATGCCC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
53 2 0.04
54 44 0.90
55 3 0.06
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (54 bp):
TGACCGTAATACCCCTGTAGTGTAAAATGATCGTAATACCCCTATAGGGTAAAA
Found at i:32065640 original size:27 final size:26
Alignment explanation
Indices: 32065557--32065640 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 26
32065547 ATTGAGGAAG
* *
32065557 TACTGTACTGGTGACTATGTCACATT
1 TACTGTACTGGTGGCTATGCCACATT
* * **
32065583 CACTGTTACTAGTGGCTATGCCACAAA
1 TACTG-TACTGGTGGCTATGCCACATT
*
32065610 TACTGATACTGGTGGCTTTGCCACATT
1 TACTG-TACTGGTGGCTATGCCACATT
32065637 TACT
1 TACT
32065641 ATTCTAGCAA
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
26 4 0.09
27 41 0.91
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACATT
Found at i:32066212 original size:53 final size:53
Alignment explanation
Indices: 32066112--32066243 Score: 140
Period size: 53 Copynumber: 2.5 Consensus size: 53
32066102 TAAGACATGT
* * * *
32066112 CAAGACATGGCATTGATAAGTTGCTATAAGGCAAAGGTCCCATGTAAGACCAGGC
1 CAAGACATGGCAATGGTAAGTT-C-ATAAGGCAAAGGTACCACGTAAGACCAGGC
* * * * * *
32066167 CAAGGCATGGTATTGGTGAGTTCATAAGGC-AAGGATACCACGTAAGACCATGT
1 CAAGACATGGCAATGGTAAGTTCATAAGGCAAAGG-TACCACGTAAGACCAGGC
32066220 CAAGACATGGCAATGGTAAGTTCA
1 CAAGACATGGCAATGGTAAGTTCA
32066244 AAAAGGAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 4 0.06
53 41 0.64
54 1 0.02
55 18 0.28
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (53 bp):
CAAGACATGGCAATGGTAAGTTCATAAGGCAAAGGTACCACGTAAGACCAGGC
Found at i:32070082 original size:27 final size:26
Alignment explanation
Indices: 32070034--32070093 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
32070024 ACGAGGCTGC
*
32070034 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
32070061 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
32070087 CAAATAT
1 CAGATAT
32070094 ATATATGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32070182 original size:27 final size:26
Alignment explanation
Indices: 32070134--32070185 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
32070124 GCGAGGCTGC
*
32070134 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
32070160 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
32070186 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32073834 original size:46 final size:44
Alignment explanation
Indices: 32073640--32073952 Score: 184
Period size: 46 Copynumber: 6.6 Consensus size: 44
32073630 ATATAATGCT
** *
32073640 GATGTCATGTCCCAGACATGGTCTTACACTGGCTATCAAAATCGAGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGG--ATC-ATCTCGAGGCC
* ** * *
32073689 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACACATTCG-TGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACT-G-GATCA-TC--TCGAGGCC
* *
32073739 AATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGA-TCATCTCG-AGGCC
*
32073785 GATGCATGTCCCAGACATGTCTTATACTGGATTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGA-T-CATCTCGAGGCC
* * * * *
32073831 GATGCATGTCCTAGACATGTCTTACACTAGCCATCATCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACT-G-GATCATCTCGAGGCC
** * *
32073877 GATGCCATGTCCCAGACATGGTCTTACACTGTCTC-TCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGATCATC-T--CGAGGCC
*
32073925 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
32073953 AGCACACAAA
Statistics
Matches: 214, Mismatches: 32, Indels: 39
0.75 0.11 0.14
Matches are distributed among these distances:
44 9 0.04
45 22 0.10
46 68 0.32
47 30 0.14
48 20 0.09
49 31 0.14
50 31 0.14
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGATCATCTCGAGGCC
Found at i:32073929 original size:94 final size:92
Alignment explanation
Indices: 32073692--32073960 Score: 273
Period size: 94 Copynumber: 2.9 Consensus size: 92
32073682 CGAGGCTGAC
* *
32073692 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACACAT-TCGTGCCAATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATA-ATGT-G-GCCGATG-CATGTCCCAGAC
* *
32073756 ATGGTCTTACACT-GACACATCTCGTAGCCGAT
61 AT-GTCTTACACTAGCCACATCTCATAGCCGAT
* * * * *
32073788 G-CATGTCCCAGACAT-GTCTTATACTGGAT-TACAT-CTCGAGGCCGATGCATGTCCTAGACAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCT-CATAAT-GTGGCCGATGCATGTCCCAGACAT
*
32073849 GTCTTACACTAGCCATCATCTCA-ATGTCGAT
63 GTCTTACACTAGCCA-CATCTCATA-GCCGAT
*
32073880 GCCATGTCCCAGACATGGTCTTACACTGTCTCTCATAATGTGGCCGATGCATGTCCCAAACATGT
1 GCCATGTCCCAGACATGGTCTTACACTG-CTCTCATAATGTGGCCGATGCATGTCCCAGACATGT
32073945 CTTACACTAGCACACA
65 CTTACACTAGC-CACA
32073961 AATATCTCGA
Statistics
Matches: 144, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
90 10 0.07
91 17 0.12
92 19 0.13
93 17 0.12
94 62 0.43
95 18 0.12
96 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
GCCATGTCCCAGACATGGTCTTACACTGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCCACATCTCATAGCCGAT
Found at i:32077761 original size:28 final size:28
Alignment explanation
Indices: 32077730--32077786 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
32077720 ACTCAAGTTG
32077730 TTTTAGCAAAATGTTAAACATATTAGAT
1 TTTTAGCAAAATGTTAAACATATTAGAT
*
32077758 TTTTAGTAAAATGTTAAACATATTAGAT
1 TTTTAGCAAAATGTTAAACATATTAGAT
32077786 T
1 T
32077787 CTCATTACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (28 bp):
TTTTAGCAAAATGTTAAACATATTAGAT
Found at i:32078563 original size:27 final size:27
Alignment explanation
Indices: 32078526--32078594 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
32078516 GTCATACATG
*
32078526 TCAT-GGGGTATATCAGCCATTTTACC
1 TCATAGGGGTATAACAGCCATTTTACC
*
32078552 TCATAGGGGTATAACAGTCATTTTACC
1 TCATAGGGGTATAACAGCCATTTTACC
*
32078579 TCATAGGGGCATAACA
1 TCATAGGGGTATAACA
32078595 ATCATTTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (27 bp):
TCATAGGGGTATAACAGCCATTTTACC
Found at i:32078599 original size:27 final size:27
Alignment explanation
Indices: 32078543--32078601 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
32078533 GTATATCAGC
* *
32078543 CATTTTACCTCATAGGGGTATAACAGT
1 CATTTTACCTCATAGGGGCATAACAAT
32078570 CATTTTACCTCATAGGGGCATAACAAT
1 CATTTTACCTCATAGGGGCATAACAAT
32078597 CATTT
1 CATTT
32078602 CATCAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (27 bp):
CATTTTACCTCATAGGGGCATAACAAT
Found at i:32079866 original size:10 final size:10
Alignment explanation
Indices: 32079851--32079877 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
32079841 GTTTTTAGTT
32079851 ATTAAAATGA
1 ATTAAAATGA
32079861 ATTAAAATGA
1 ATTAAAATGA
32079871 ATTAAAA
1 ATTAAAA
32079878 ACAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (10 bp):
ATTAAAATGA
Found at i:32087907 original size:29 final size:30
Alignment explanation
Indices: 32087851--32087909 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
32087841 TTCCCGAGCC
32087851 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
32087881 TAGGGGCAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
32087910 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:32091503 original size:16 final size:17
Alignment explanation
Indices: 32091453--32091503 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
32091443 ATGGAAATAT
*
32091453 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
32091470 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
32091489 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
32091504 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:32091517 original size:22 final size:21
Alignment explanation
Indices: 32091463--32091505 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
32091453 AATCTTTAAG
32091463 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
32091482 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
32091503 GAT
1 GAT
32091506 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:32103933 original size:34 final size:34
Alignment explanation
Indices: 32103890--32103958 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
32103880 CTTTGATAAT
*
32103890 GGCATGTATAGGACTGACCTTTGTTGTTAATTAA
1 GGCATGTATAGGACTAACCTTTGTTGTTAATTAA
*
32103924 GGCATGTATAGGATTAACCTTTGTTGTTAATTAA
1 GGCATGTATAGGACTAACCTTTGTTGTTAATTAA
32103958 G
1 G
32103959 TATCTTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (34 bp):
GGCATGTATAGGACTAACCTTTGTTGTTAATTAA
Found at i:32107874 original size:12 final size:11
Alignment explanation
Indices: 32107857--32107884 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
32107847 CTTCTATTTC
32107857 AAAAAAAAAAG
1 AAAAAAAAAAG
32107868 AAAAAAAAAAG
1 AAAAAAAAAAG
32107879 AAAAAA
1 AAAAAA
32107885 TAGAGAGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:32108909 original size:44 final size:44
Alignment explanation
Indices: 32108768--32109983 Score: 680
Period size: 44 Copynumber: 27.3 Consensus size: 44
32108758 CAAAGAAACA
*
32108768 AGATTTGGCATCCTTGTGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* * * * * **
32108812 AGATATGACA-CTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
32108857 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
32108900 ATATTTGGCATCCCTGAGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* ** * * * * **
32108944 AGATCTAACA-CTCTTGTGCTTACAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
32108989 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
32109032 ATATTTGGCATCCCTGTGTTTATAGGGAACAGGTCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * **
32109076 AGATCTGGCA-CTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
** *
32109121 A-ACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
32109164 AGATTTGGCATCCCTGTGTTTATAAGGAACATA-TCAAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACA-AGTCGAAGATAGC
* ** * * * ** * **
32109208 AGATCTAACA-CTCCTGTGCTTACAGCGAAGTAGATCAAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* *
32109253 AGCA--TGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * *** **
32109296 AGATCTGACA-CTCCTGTGCTTACAACAAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* * * * *
32109341 AGCA--TGGCATCCCTATGGTTATAAGGAACAAGTTGAAGATAGA
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
32109384 AGATTTGGCATCCCCGTGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* * * * * * *** * *
32109428 AGATCTGACA-CTCCTGCAGATCTACATTCCTGTGCTTATAG-CGAAACAGATCGA
1 AGATTTGGCATC-CCTG-TG-T-T-TA-T--AGGGAACA-AGTCG--A-AGATAGC
* *
32109482 AGATTTCAGCATGGCATCCCTGTGTTTATAGGGAGCAAGTTGAAGATAGC
1 AGA-TT-----TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
32109532 AGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* ** * * * * **
32109576 AGATCTAACA-CTCCTGTGATTACAGCGAAGC-AGATCAAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
** * * *
32109621 A-ACATGGCATCCCTTTGTTTATAGGGAATAAGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
32109664 ATATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * **
32109708 AGATCTGACATTCCTGTGATTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
32109753 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * *
32109796 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * ** * **
32109840 AGATCTGACATTCCTATGCTTATAGCAAAGC-AGATCAAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
32109885 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * *
32109928 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCCAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
32109972 AGATCTGGCATC
1 AGATTTGGCATC
32109984 TCCATTTCGA
Statistics
Matches: 880, Mismatches: 215, Indels: 154
0.70 0.17 0.12
Matches are distributed among these distances:
42 6 0.01
43 90 0.10
44 624 0.71
45 103 0.12
46 7 0.01
47 1 0.00
48 1 0.00
49 3 0.00
50 8 0.01
51 5 0.01
52 2 0.00
53 7 0.01
54 8 0.01
55 2 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 1 0.00
60 8 0.01
61 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:32109313 original size:132 final size:132
Alignment explanation
Indices: 32108768--32109299 Score: 902
Period size: 132 Copynumber: 4.0 Consensus size: 132
32108758 CAAAGAAACA
* * *
32108768 AGATTTGGCATCCTTGTGTTTATAGGGAACAGATCGAAGATAGCAGATATGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
32108833 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
32108898 GC
131 GC
* * *
32108900 ATATTTGGCATCCCTGAGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
*
32108965 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
32109030 GC
131 GC
* * **
32109032 ATATTTGGCATCCCTGTGTTTATAGGGAACAGGTCGAAGATAGCAGATCTGGCACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
*
32109097 ACAGCGAAGCAGATCGAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
32109162 GC
131 GC
* * *
32109164 AGATTTGGCATCCCTGTGTTTATAAGGAACATATCAAAGATAGCAGATCTAACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
* * *
32109229 ACAGCGAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
32109294 GC
131 GC
32109296 AGAT
1 AGAT
32109300 CTGACACTCC
Statistics
Matches: 375, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 375 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:32109393 original size:132 final size:132
Alignment explanation
Indices: 32109257--32109978 Score: 1003
Period size: 132 Copynumber: 5.3 Consensus size: 132
32109247 GATTTCAGCA
* * * *
32109257 TGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATAGCAGATCTGACACTCCTGTGCTTACAAC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAGC
* * * * *
32109322 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGGTTATAAGGAACAAGTTGAAGATAGAAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
32109387 TT
131 TT
* *
32109389 TGGCATCCCCGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGCAGATCTACA
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC--A---G--A-T-CT---GA-C-AC-
* * *
32109454 TTCCTGTGCTTATAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAGCA
51 -TCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACA
32109519 AGTTGAAGATAGCAGATT
115 AGTTGAAGATAGCAGATT
* * *
32109537 TGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAGCAGATCTAACACTCCTGTGATTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAGC
* * * * *
32109602 GAAGCAGATCAAAGATTTCAACATGGCATCCCTTTGTTTATAGGGAATAAGTTGAAGATAGCATA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
32109667 TT
131 TT
* *
32109669 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAGC
32109734 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
32109799 TT
131 TT
* * * * *
32109801 TGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGTAGATCTGACATTCCTATGCTTATAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAGC
* *
32109866 AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
32109931 TT
131 TT
* *
32109933 TGGCATCCCTGTGTTTATAGGGAACAAATCCAAGATAACAGATCTG
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTG
32109979 GCATCTCCAT
Statistics
Matches: 529, Mismatches: 45, Indels: 32
0.87 0.07 0.05
Matches are distributed among these distances:
132 399 0.75
134 3 0.01
135 1 0.00
136 1 0.00
137 1 0.00
139 3 0.01
140 2 0.00
141 3 0.01
143 1 0.00
144 2 0.00
145 1 0.00
146 3 0.01
148 109 0.21
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAGC
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
TT
Found at i:32109395 original size:264 final size:263
Alignment explanation
Indices: 32108861--32109983 Score: 949
Period size: 264 Copynumber: 4.2 Consensus size: 263
32108851 GATTTCAGCA
* * *
32108861 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCATATTTGGCATCCCTGAGTTTAT-AG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAG
* * **
32108925 GGAACAGATCGAAGATAGCAG-ATCTAACA-CTCTTGTGCTTACAGTGAAGCAGATCGAAGATTT
66 CGAACAGATCGAAGATAGCAGCA--TAACATC-CCTGTGCTTACAG-GAAGCAGATCGAAGATAG
* * * * * *
32108988 CAGCA-TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCATATTTGGCA-TCCCTGTGT
127 CAG-ATTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACT-CCTGTGC
* ** * * ** * *
32109051 TTATAGGGAA-CAGGTCGAAGATAGCAG-ATCTGGCA-CTCCTGTGCTTA-CAGCGAAGC-AGAT
190 TTACAGCAAAGCAGATCAAAGATTTCAGCA--TGGCATC-CCTGTGTTTATAAG-GAA-CAAG-T
* ** *
32109111 CGAAGATTTCAACA--
249 TGAAGA-TAGAAGATT
*
32109125 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAG
* * * * **
32109190 -GAACATATCAAAGATAGCAG-ATCTAACA-CTCCTGTGCTTACAGCGAAGTAGATCAAAGATTT
66 CGAACAGATCGAAGATAGCAGCA--TAACATC-CCTGTGCTTACAG-GAAGCAGATCGAAGATAG
* * *
32109252 CAGCA-TGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATAGCAGATCTGACACTCCTGTGCT
127 CAG-ATTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCT
* * * *
32109316 TACAACAAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGGTTATAAGGAACAAGTTGAAGAT
191 TACAGCAAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGAT
32109381 AGAAGATT
256 AGAAGATT
*
32109389 TGGCATCCCCGTGTTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACACTCCTGCAGATCTAC
1 TGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAGA--T-----T--TG--G-----C
* * ** ** * * *
32109453 ATTCCTGTGCTTAT-AGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAG
49 ATCCCTGTGTTTATAAGCG-AACAGATCGAAGATAGCAGCATAACATCCCTGTGCTTACAGGAAG
* *
32109517 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAGCAGATC
113 CAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
* * * * * *
32109581 TAACACTCCTGTGATTACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTTTGTTTATAGG
176 TGACACTCCTGTGCTTACAGCAAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAAG
* * *
32109646 GAATAAGTTGAAGATAGCATATT
241 GAACAAGTTGAAGATAGAAGATT
* * * * * *
32109669 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATTA-CAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAG
** ** * * *
32109733 CGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAA-CA-AGTTGAAGATAGC
66 CGAA-CAGATCGAAGATAGCAGCATAACATCCCTGTGCTTACA-GGAAGCAGA-TCGAAGATAGC
* * * *
32109796 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCAAAGATAGTAGATCTGACATTCCTATGCTT
128 AGA-TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
32109861 ATAGCAAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
192 ACAGCAAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATA
*
32109926 GCAGATT
257 GAAGATT
* * * *
32109933 TGGCATCCCTGTGTTTATAGGGAACAAATCCAAGATAACAGATCTGGCATC
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGGCATC
32109984 TCCATTTCGA
Statistics
Matches: 738, Mismatches: 84, Indels: 74
0.82 0.09 0.08
Matches are distributed among these distances:
262 4 0.01
263 11 0.01
264 474 0.64
265 23 0.03
266 2 0.00
271 3 0.00
273 2 0.00
275 1 0.00
278 3 0.00
279 15 0.02
280 182 0.25
281 17 0.02
282 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (263 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAG
CGAACAGATCGAAGATAGCAGCATAACATCCCTGTGCTTACAGGAAGCAGATCGAAGATAGCAGA
TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAG
CAAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATAGAAG
ATT
Found at i:32109448 original size:17 final size:16
Alignment explanation
Indices: 32109426--32109459 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32109416 ATCGAAGATA
32109426 GCAGATCTGACACTCCT
1 GCAGATCT-ACACTCCT
*
32109443 GCAGATCTACATTCCT
1 GCAGATCTACACTCCT
32109459 G
1 G
32109460 TGCTTATAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (16 bp):
GCAGATCTACACTCCT
Found at i:32109927 original size:500 final size:500
Alignment explanation
Indices: 32108942--32109931 Score: 1404
Period size: 500 Copynumber: 2.0 Consensus size: 500
32108932 ATCGAAGATA
* * *
32108942 GCAGATCTAACACTCTTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGT
1 GCAGATCTAACACTCCTGTGCTTACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGT
* **
32109007 TTATAGGGAACAAGTTGAAGATAGCATATTTGGCATCCCTGTGTTTATAGGGAACAGGTCGAAGA
66 TTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
** * *
32109072 TAGCAGATCTGGCACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAACATGGCATCCCTGT
131 TAGCAGATCTAACACTCCTGTGATTACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGT
*
32109137 GTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAGGAACATATCAAA
196 GTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAGGAACAAATCAAA
* *
32109202 GATAGCAGATCTAACACTCCTGTGCTTACAGCGAAGTAGATCAAAGATTTCAGCATGGCATCCCT
261 GATAGCAGATCTAACACTCCTGTGATTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCT
*
32109267 GTGTTTATAAGGAACAAGTTGAAGATAGCAGATCTGACACTCCTGTGCTTACAACAAAGCAGATC
326 GTGTTTATAAGGAACAAGTTGAAGATAGCAGATCTGACACTCCTGTGCTTACAACAAAGCAAATC
* * * * * **
32109332 GAAGATTTCAGCATGGCATCCCTATGGTTATAAGGAACAAGTTGAAGATAGAAGATTTGGCATCC
391 AAAGATGTCAGCATGACATCCCTATGCTTATAAGAAACAAGTCAAAGATAGAAGA-TTGGCATCC
32109397 CCGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCT
455 CCGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCT
* *
32109443 GCAGATCT-ACATTCCTGTGCTTATAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGT
1 GCAGATCTAACACTCCTGTGCTTACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGT
* *
32109507 TTATAGGGAGCAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGA
66 TTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
*
32109572 TAGCAGATCTAACACTCCTGTGATTACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTTT
131 TAGCAGATCTAACACTCCTGTGATTACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGT
* * * *
32109637 GTTTATAGGGAATAAGTTGAAGATAGCATATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAA
196 GTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAGGAACAAATCAAA
* * *
32109702 GATAGCAGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCT
261 GATAGCAGATCTAACACTCCTGTGATTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCT
* * * * * ***
32109767 GTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCA-TCCCTGTGTTTATAGGGAA-CAAAT
326 GTGTTTATAAGGAACAAGTTGAAGATAGCAGATCTGACACT-CCTGTGCTTACAACAAAGCAAAT
* ***
32109830 CAAAGATAGT-AG-ATCTGACATTCCTATGCTTAT-AGCAAAGC-AGATCAAAGATTTCAGCA-T
390 CAAAGAT-GTCAGCA--TGACATCCCTATGCTTATAAG-AAA-CAAG-TCAAAGATAGAAG-ATT
* *
32109890 GGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGAT
448 GGCATCCCCGTGTTTATAGGGAACAGA-TCGAAGATAGCAGAT
32109932 TTGGCATCCC
Statistics
Matches: 433, Mismatches: 47, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
498 1 0.00
499 16 0.04
500 398 0.92
501 17 0.04
502 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (500 bp):
GCAGATCTAACACTCCTGTGCTTACAGCGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGT
TTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
TAGCAGATCTAACACTCCTGTGATTACAGCGAAGCAGATCAAAGATTTCAACATGGCATCCCTGT
GTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAAGGAACAAATCAAA
GATAGCAGATCTAACACTCCTGTGATTACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCT
GTGTTTATAAGGAACAAGTTGAAGATAGCAGATCTGACACTCCTGTGCTTACAACAAAGCAAATC
AAAGATGTCAGCATGACATCCCTATGCTTATAAGAAACAAGTCAAAGATAGAAGATTGGCATCCC
CGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCT
Found at i:32110579 original size:19 final size:19
Alignment explanation
Indices: 32110555--32110652 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
32110545 AATCTTTAAG
32110555 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32110574 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
32110593 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
32110610 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32110629 GGTATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
32110650 GAT
1 GAT
32110653 CTTGTAATCT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 16 0.23
19 47 0.66
21 8 0.11
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:32110602 original size:36 final size:38
Alignment explanation
Indices: 32110561--32110652 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 38
32110551 TAAGGATATG
*
32110561 CAATCTTAGATATGATATGCAATTTTAGATAT-G-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGGTATA
*
32110597 CAATCTTAGATATGATATGCAATCTTAGATATGGTATG
1 CAATCTTAGATATGATATGCAATCTTAGATATGGTATA
32110635 CAATCTTGAAGATATGAT
1 CAATCTT--AGATATGAT
32110653 CTTGTAATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 31 0.62
37 1 0.02
38 9 0.18
40 9 0.18
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (38 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGGTATA
Found at i:32111185 original size:26 final size:25
Alignment explanation
Indices: 32111155--32111204 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
32111145 GTGCATAGTT
* *
32111155 TTATTTTTTTTGTATGCTATGTTTAA
1 TTATTTCTTTTATATGCTAT-TTTAA
*
32111181 TTATTTCTTTTATGTGCTATTTTA
1 TTATTTCTTTTATATGCTATTTTA
32111205 TGATATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.66
Consensus pattern (25 bp):
TTATTTCTTTTATATGCTATTTTAA
Found at i:32114456 original size:42 final size:43
Alignment explanation
Indices: 32114342--32114466 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
32114332 GGATATCGAG
* * * * **
32114342 TTGTGACTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
1 TTGTGATTACGTGTAAGACCCTATCTGGGACATTGGCATCATA
32114385 TTGTGATTACGTGTAAGACCCTATCTGGGACATTGGCATCATA
1 TTGTGATTACGTGTAAGACCCTATCTGGGACATTGGCATCATA
* *
32114428 TAT-TGATT-CGTGTAA-ACCCCTATTTGGGACAGTGGCATC
1 T-TGTGATTACGTGTAAGA-CCCTATCTGGGACATTGGCATC
32114467 GGTATGTGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 27 0.38
43 43 0.60
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TTGTGATTACGTGTAAGACCCTATCTGGGACATTGGCATCATA
Found at i:32133062 original size:43 final size:44
Alignment explanation
Indices: 32133015--32133160 Score: 174
Period size: 43 Copynumber: 3.4 Consensus size: 44
32133005 GTTATCAAGT
*
32133015 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTTTAT-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTCTATA
** * *
32133058 TGTGATTATGTATAAGACCATGTCTGGGACATTGGCATTGTATA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTCTATA
* * * *
32133102 T-TGATT-CGTGTAAGACCCTGTCTGGGACAGTGGCA-TCGATA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTCTATA
*
32133143 TGTGATAACATGTAAGAC
1 TGTGATTACATGTAAGAC
32133161 TGTAACATCC
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
41 5 0.06
42 29 0.33
43 53 0.60
44 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTCTATA
Found at i:32134655 original size:48 final size:48
Alignment explanation
Indices: 32134382--32134651 Score: 398
Period size: 48 Copynumber: 5.6 Consensus size: 48
32134372 ATGTGTAACT
* * *
32134382 GTGTAAGATCATATCTGGGATATGGCATCTG-CATTGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATC-GACATTGTTATGTGAGCCA
* * * *
32134430 GTGTAAGACCTTGTCTGGGACATGCCATCGACATTGTTACGTGAGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
* * *
32134478 GTGTAAGACCATGTCTAGGACATCGCATCGACATTATTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
*
32134526 GTGTAAGACTATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
* * *
32134574 GTGTAAGACCATGTCTGGGACATGGTATCGGCATCGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
32134622 GTGTAAGACCATGTCTGGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
32134652 GCATGAGGCA
Statistics
Matches: 198, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 1 0.01
48 197 0.99
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
Found at i:32147041 original size:40 final size:39
Alignment explanation
Indices: 32147010--32147219 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
32147000 GGACTAAGAT
* *
32147010 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
32147050 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
32147090 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
32147130 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
32147170 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
32147209 CCGAAGGCATT
1 CCGAAGGCATT
32147220 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:32147173 original size:120 final size:120
Alignment explanation
Indices: 32146957--32147219 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
32146947 TTGAATGCTG
* *
32146957 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
32147021 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
32147077 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
32147140 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
32147196 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
32147220 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:32147239 original size:79 final size:80
Alignment explanation
Indices: 32147010--32147254 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
32147000 GGACTAAGAT
* * * * * * * ** *
32147010 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
32147073 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
32147090 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
32147155 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
32147170 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
32147234 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
32147248 CCGAAGG
1 CCGAAGG
32147255 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:32154992 original size:40 final size:40
Alignment explanation
Indices: 32154961--32155252 Score: 403
Period size: 40 Copynumber: 7.3 Consensus size: 40
32154951 GGACTAAGAT
32154961 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
32155001 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
32155041 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
32155081 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
32155121 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * ** * *
32155161 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCC
* * * * * *
32155201 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
32155240 CCGAAGGCATTTG
1 CCGAAGGCATTTG
32155253 AACGAGGAGC
Statistics
Matches: 234, Mismatches: 14, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
39 32 0.14
40 199 0.85
41 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:32155270 original size:79 final size:80
Alignment explanation
Indices: 32154961--32155285 Score: 229
Period size: 80 Copynumber: 4.1 Consensus size: 80
32154951 GGACTAAGAT
* * * * ** *
32154961 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
32155023 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * * ** *
32155041 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
32155103 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * ** ** *
32155121 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
32155186 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * *
32155201 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
32155265 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
32155279 CCGAAGG
1 CCGAAGG
32155286 TACGTGATTT
Statistics
Matches: 217, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
78 14 0.06
79 49 0.23
80 147 0.68
81 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:32169312 original size:41 final size:43
Alignment explanation
Indices: 32169205--32169372 Score: 180
Period size: 43 Copynumber: 4.0 Consensus size: 43
32169195 ATATAGTACA
** * *
32169205 ATGCCAACATCCCAAACGTGGTCTTACATGCAATCACATATAG
1 ATGCCAATGTCCCAAACATGGTCTTACACGCAATCACATATAG
* * *
32169248 ATGCCACTGTCCCAAACAGGGTCTTACACG-AATCAAATAT-G
1 ATGCCAATGTCCCAAACATGGTCTTACACGCAATCACATATAG
* * * *
32169289 ATGTCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGCAATCACATATAG
* **
32169332 ATGCCAATGTCCCAGATGTGGTCTTACACGACAAT-ACATAT
1 ATGCCAATGTCCCAAACATGGTCTTACACG-CAATCACATAT
32169373 TGAAAATCTT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 27 0.25
42 18 0.17
43 58 0.55
44 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGCAATCACATATAG
Found at i:32186820 original size:49 final size:49
Alignment explanation
Indices: 32186748--32186941 Score: 185
Period size: 49 Copynumber: 3.9 Consensus size: 49
32186738 GCCGAAGCTA
* *
32186748 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
32186797 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAACA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * * * * * *
32186847 TCTAATACACGTAGTAGGCTGTACTTAGTACTAGACACGTGATCGA-AG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
32186895 TTATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -T-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
32186942 TCACAATAGA
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 39 0.33
50 39 0.33
51 36 0.31
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:32186877 original size:50 final size:49
Alignment explanation
Indices: 32186759--32186888 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 49
32186749 CTGGTACGCA
* * **
32186759 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
32186808 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCAACA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* * *
32186858 TAGTAGGCTGTACTTAGTACTAGACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
32186889 TCGAAGTTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
49 29 0.40
50 38 0.53
51 5 0.07
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:32189169 original size:15 final size:15
Alignment explanation
Indices: 32189114--32189177 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
32189104 TAAAGATAAC
*
32189114 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
32189128 AAGAAA-CCA-AGATA
1 AAGAAATCCAGA-ATA
* *
32189142 GAA-AAACCCAGAATT
1 -AAGAAATCCAGAATA
32189157 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
32189172 AAGAAA
1 AAGAAA
32189178 CCCAAGATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 3 0.07
14 14 0.34
15 23 0.56
16 1 0.02
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:32190445 original size:329 final size:330
Alignment explanation
Indices: 32189847--32190509 Score: 1292
Period size: 329 Copynumber: 2.0 Consensus size: 330
32189837 TAATATCCTA
32189847 ATTTTGGGCCTAGTCGGAATAGTGGTTTTGTGACCACAAAATCTGAGATAGAAATAATTATTTTA
1 ATTTTGGGCCTAGTCGGAATAGTGGTTTTGTGACCACAAAATCTGAGATAGAAATAATTATTTTA
32189912 TGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTTGTGAAAAAAATTTTAT
66 TGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTTGTGAAAAAAATTTTAT
32189977 ACATAAAGTGCTTAAATTGAAATTAGGGACTAAATCAAATAATTTGTAAAACTTGCATTCTAGAA
131 ACATAAAGTGCTTAAATTGAAATTAGGGACTAAATCAAATAATTTGTAAAACTTGCATTCTAGAA
**
32190042 GTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATAGCAATTTTACCAATTT
196 GTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATAAAAATTTTACCAATTT
32190107 CTAAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTTGAAAGTTTAGTAGTTAGGGTATTT
261 CTAAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTTGAAAGTTTAGTAGTTAGGGTATTT
32190172 TGGT-
326 TGGTC
32190176 ATTTTGGGCCTAGTCGGAATAGTGGTTTTGTGACCACAAAATCTGAGATAGAAATAATTATTTTA
1 ATTTTGGGCCTAGTCGGAATAGTGGTTTTGTGACCACAAAATCTGAGATAGAAATAATTATTTTA
32190241 TGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTTGTGAAAAAAATTTTAT
66 TGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTTGTGAAAAAAATTTTAT
32190306 ACATAAAGTGCTTAAATTGAAATTAGGGACTAAATCAAATAATTTGTAAAACTTGCATTCTAGAA
131 ACATAAAGTGCTTAAATTGAAATTAGGGACTAAATCAAATAATTTGTAAAACTTGCATTCTAGAA
*
32190371 GTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATAAAAATTTTGCCAATTT
196 GTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATAAAAATTTTACCAATTT
32190436 CTAAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTTGAAAGTTTAGTAGTTAGGGTATTT
261 CTAAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTTGAAAGTTTAGTAGTTAGGGTATTT
32190501 TGGTC
326 TGGTC
32190506 ATTT
1 ATTT
32190510 AGGGGTAAAA
Statistics
Matches: 330, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
329 326 0.99
330 4 0.01
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (330 bp):
ATTTTGGGCCTAGTCGGAATAGTGGTTTTGTGACCACAAAATCTGAGATAGAAATAATTATTTTA
TGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTTGTGAAAAAAATTTTAT
ACATAAAGTGCTTAAATTGAAATTAGGGACTAAATCAAATAATTTGTAAAACTTGCATTCTAGAA
GTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATAAAAATTTTACCAATTT
CTAAGTCTATGGACAAAAATTGGACATGGATGGAATTTTTTGAAAGTTTAGTAGTTAGGGTATTT
TGGTC
Found at i:32191408 original size:46 final size:46
Alignment explanation
Indices: 32191355--32191689 Score: 514
Period size: 46 Copynumber: 7.3 Consensus size: 46
32191345 TGTCGGTTCC
32191355 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
1 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
32191401 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
1 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
32191447 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
1 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
32191493 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
1 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
32191539 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
1 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
*** * * * *
32191585 TTCGAGAGATGTAACTAG-GCA--TCCGAGCTCGTTGAGTTGAGTCCAAG
1 TTC-ACTTATG-GA-T-GCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
* * * *
32191632 TTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCTGAG
1 TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
32191678 TTCACTTATGGA
1 TTCACTTATGGA
32191690 CGGGTTACAT
Statistics
Matches: 267, Mismatches: 15, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
43 1 0.00
44 3 0.01
45 1 0.00
46 226 0.85
47 31 0.12
48 1 0.00
49 3 0.01
50 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAG
Found at i:32193503 original size:40 final size:40
Alignment explanation
Indices: 32193419--32193635 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
32193409 AAACCAAGTA
* * * *
32193419 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
32193458 CCTTCGGGACTTAGCCCTGTTACAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
32193498 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
32193538 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
32193578 CCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
32193617 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
32193636 TTATCATCCG
Statistics
Matches: 158, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
38 3 0.02
39 45 0.28
40 109 0.69
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:32196102 original size:45 final size:45
Alignment explanation
Indices: 32196038--32196127 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
32196028 AATAGATATA
*
32196038 TGAGCCTAGTCTCAGGGAAAATTTACGGAATTGGATTTCGAGTTT
1 TGAGCCTAGTCTCAGGGAAAATTTACAGAATTGGATTTCGAGTTT
32196083 TGAGCCTAGTCTCAGGGAAAATTTACAGAATTGGATTTCGAGTTT
1 TGAGCCTAGTCTCAGGGAAAATTTACAGAATTGGATTTCGAGTTT
32196128 CGTAACTCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (45 bp):
TGAGCCTAGTCTCAGGGAAAATTTACAGAATTGGATTTCGAGTTT
Found at i:32197934 original size:15 final size:15
Alignment explanation
Indices: 32197896--32197939 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
32197886 CATAGTATCG
* *
32197896 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
32197911 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
32197926 TATCTTGGATTTCT
1 TATCTTGGATTTCT
32197940 TTATTCGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:32200387 original size:46 final size:46
Alignment explanation
Indices: 32200337--32200512 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
32200327 TGGTTGAGCA
* *
32200337 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*** * * * *
32200383 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-GCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
* *
32200430 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
32200476 -CCCAAGCTCATTGAGTTGAGTCCGAGTTTACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32200513 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 3 0.03
46 66 0.63
47 35 0.34
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:32200493 original size:93 final size:93
Alignment explanation
Indices: 32200334--32200503 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
32200324 GGATGGTTGA
* * * *
32200334 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
32200399 TGAGTCCGAGTTCGAGAGATGTAGCTAG
66 TGAGTCCGAGTTCGAGAGATGTAGCTAG
* *
32200427 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
32200491 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
32200504 TACTTATGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAGCTAG
Found at i:32200776 original size:73 final size:73
Alignment explanation
Indices: 32200659--32200805 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
32200649 GGTAAGTGTT
*
32200659 GTGAAATGGATACTGTGAACAGGTATGTACTTAACCCTCTGGTTGAAAACTCGATATAACAACAA
1 GTGAAATGGATACTGTGAACAGGTATGTACTTAACCCTCGGGTTGAAAACTCGATATAACAACAA
32200724 TATGGTAA
66 TATGGTAA
*
32200732 GTGAAATGGATACTTTGAACAGGTATGTACTTAACCCTCGGGTTGAAAACTCGATATAACAACAA
1 GTGAAATGGATACTGTGAACAGGTATGTACTTAACCCTCGGGTTGAAAACTCGATATAACAACAA
32200797 TATGGTAA
66 TATGGTAA
32200805 G
1 G
32200806 ATGATAAATG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (73 bp):
GTGAAATGGATACTGTGAACAGGTATGTACTTAACCCTCGGGTTGAAAACTCGATATAACAACAA
TATGGTAA
Found at i:32203539 original size:15 final size:15
Alignment explanation
Indices: 32203515--32203570 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
32203505 GTATCTTGGG
32203515 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
32203530 TTTGTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
32203545 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
32203560 TTTCTTTATTC
1 TTTCTTTATTC
32203571 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:32206016 original size:46 final size:44
Alignment explanation
Indices: 32205966--32206141 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 44
32205956 TGGTTGAGCA
32205966 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
32206012 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
32206059 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
32206105 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32206142 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:32206122 original size:93 final size:93
Alignment explanation
Indices: 32205963--32206133 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
32205953 GGATGGTTGA
* *
32205963 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32206028 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
32206056 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32206121 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
32206134 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:32217955 original size:29 final size:27
Alignment explanation
Indices: 32217937--32218006 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
32217927 ATATTAAGTC
32217937 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
32217964 CGCGCACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
32217992 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
32218007 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:32219295 original size:237 final size:237
Alignment explanation
Indices: 32218880--32219353 Score: 939
Period size: 237 Copynumber: 2.0 Consensus size: 237
32218870 ACTCATCCAA
32218880 CACTACATTCGGCACCTCCAACCTATAATTTAGATATTCTCAAGTTCATTCACAAGTACATTTAT
1 CACTACATTCGGCACCTCCAACCTATAATTTAGATATTCTCAAGTTCATTCACAAGTACATTTAT
32218945 ATGACACATATAGCATTAACATTTTTCAACATGAATCTATAACATGACCGAATACTCATGCACAT
66 ATGACACATATAGCATTAACATTTTTCAACATGAATCTATAACATGACCGAATACTCATGCACAT
32219010 ACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCCATA
131 ACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCCATA
*
32219075 CATACGGCAACTTCCATTCTTATCTCCCAATAATGAATTCAT
196 CATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCAT
32219117 CACTACATTCGGCACCTCCAACCTATAATTTAGATATTCTCAAGTTCATTCACAAGTACATTTAT
1 CACTACATTCGGCACCTCCAACCTATAATTTAGATATTCTCAAGTTCATTCACAAGTACATTTAT
32219182 ATGACACATATAGCATTAACATTTTTCAACATGAATCTATAACATGACCGAATACTCATGCACAT
66 ATGACACATATAGCATTAACATTTTTCAACATGAATCTATAACATGACCGAATACTCATGCACAT
32219247 ACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCCATA
131 ACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCCATA
32219312 CATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCAT
196 CATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCAT
32219354 GAATTTAGCT
Statistics
Matches: 236, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 236 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.29
Consensus pattern (237 bp):
CACTACATTCGGCACCTCCAACCTATAATTTAGATATTCTCAAGTTCATTCACAAGTACATTTAT
ATGACACATATAGCATTAACATTTTTCAACATGAATCTATAACATGACCGAATACTCATGCACAT
ACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCCATA
CATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCAT
Found at i:32219587 original size:200 final size:200
Alignment explanation
Indices: 32219244--32219639 Score: 765
Period size: 200 Copynumber: 2.0 Consensus size: 200
32219234 TACTCATGCA
32219244 CATACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCC
1 CATACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCC
* *
32219309 ATACATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCATGAATTTAGCTATGGGTTAAC
66 ATACATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCATGAATTTAGCGATAGGTTAAC
*
32219374 TAGACTATACACTTATCAACTTAATCTCAACATCAATTAGAATAAAATCACAATGCATGCCTTTC
131 TAGACTATACACTTATCAACTTAATCTCAACATCAATTAGAATAAAATCACAATGCATACCTTTC
32219439 CTTTG
196 CTTTG
32219444 CATACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCC
1 CATACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCC
32219509 ATACATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCATGAATTTAGCGATAGGTTAAC
66 ATACATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCATGAATTTAGCGATAGGTTAAC
32219574 TAGACTATACACTTATCAACTTAATCTCAACATCAATTAGAATAAAATCACAATGCATACCTTTC
131 TAGACTATACACTTATCAACTTAATCTCAACATCAATTAGAATAAAATCACAATGCATACCTTTC
32219639 C
196 C
32219640 CTTGAACTAG
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 193 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (200 bp):
CATACATACATAAAGAGAACTCAAATAACACCCAAAAATCTCCTTTCCAAAGTGCATATATACCC
ATACATACGGCAACTTCCATTCTTATCTCCCAACAATGAATTCATGAATTTAGCGATAGGTTAAC
TAGACTATACACTTATCAACTTAATCTCAACATCAATTAGAATAAAATCACAATGCATACCTTTC
CTTTG
Found at i:32219813 original size:100 final size:100
Alignment explanation
Indices: 32219640--32219839 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
32219630 ATACCTTTCC
32219640 CTTGAACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCCTTTCTCAATTTCGGC
1 CTTGAACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCCTTTCTCAATTTCGGC
32219705 AATGAAGGAGATGAAAGATGAGCCTTCCTTCCTCT
66 AATGAAGGAGATGAAAGATGAGCCTTCCTTCCTCT
32219740 CTTGAACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCCTTTCTCAATTTCGGC
1 CTTGAACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCCTTTCTCAATTTCGGC
32219805 AATGAAGGAGATGAAAGATGAGCCTTCCTTCCTCT
66 AATGAAGGAGATGAAAGATGAGCCTTCCTTCCTCT
32219840 TTGTTTTCTT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (100 bp):
CTTGAACTAGCCATGGCCGAATGCCTTGGTTTCTTTTTTTCAATCTTTCCTTTCTCAATTTCGGC
AATGAAGGAGATGAAAGATGAGCCTTCCTTCCTCT
Found at i:32220559 original size:13 final size:13
Alignment explanation
Indices: 32220537--32220566 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32220527 AAAATAGTAG
*
32220537 TGATATAATTAGA
1 TGATACAATTAGA
32220550 TGATACAATTAGA
1 TGATACAATTAGA
32220563 TGAT
1 TGAT
32220567 GAATAATATA
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:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (13 bp):
TGATACAATTAGA
Found at i:32222804 original size:15 final size:15
Alignment explanation
Indices: 32222783--32222838 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
32222773 GTATCTTGGG
32222783 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
32222798 CTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
32222813 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
32222828 TTTCTTTATTC
1 TTTCTTTATTC
32222839 GATTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.18, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:32229074 original size:49 final size:50
Alignment explanation
Indices: 32228998--32229131 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 50
32228988 AGCCGAAGCT
* * * *
32228998 ATCTGGTACGCATAGTAGCCTGTACTTAGTACTACAAATGCGA-C-CAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAAACGCGACCTCAAC
* * *
32229046 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACAAACGCGACCTCAAC
**
32229097 ATCTAATACACGTAGTAGCCTGCACTTAGTACTAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTAC
32229132 CCACGTGATC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.49
50 33 0.45
51 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAAACGCGACCTCAAC
Found at i:32229117 original size:50 final size:49
Alignment explanation
Indices: 32229010--32229185 Score: 169
Period size: 50 Copynumber: 3.5 Consensus size: 49
32229000 CTGGTACGCA
* * * * **
32229010 TAGTAGCCTGTACTTAGTACTACAAATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
32229059 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* * * * *
32229109 TAGTAGCCTGCACTTAGTACTACCCACGTGATCGA-AGT-TATTAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTA--A--TACACG
32229160 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
32229186 TGCGACCTCA
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
47 3 0.03
48 2 0.02
49 28 0.26
50 40 0.38
51 33 0.31
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:32235365 original size:28 final size:28
Alignment explanation
Indices: 32235327--32235429 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
32235317 GAATCATTCG
*
32235327 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
32235355 ATATCTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
32235383 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
32235411 ATATTTCGTACACTAAGTG
1 ATATTTCGCACACTAAGTG
32235430 CTATATTTGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:32248328 original size:18 final size:19
Alignment explanation
Indices: 32248305--32248343 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
32248295 GTATGGGTAT
32248305 TGTTC-AGCCACCGAGAGG
1 TGTTCAAGCCACCGAGAGG
32248323 TGTTCAGTAGCCACCGAGAGG
1 TGTTCA--AGCCACCGAGAGG
32248344 CCGTGGTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (19 bp):
TGTTCAAGCCACCGAGAGG
Found at i:32275391 original size:17 final size:19
Alignment explanation
Indices: 32275355--32275391 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
32275345 TACACTCATA
32275355 ACATGGCCCATGTAGGCCC
1 ACATGGCCCATGTAGGCCC
32275374 ACAT-GCCCATGT-GGCCC
1 ACATGGCCCATGTAGGCCC
32275391 A
1 A
32275392 ATAAGCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 8 0.44
19 4 0.22
ACGTcount: A:0.22, C:0.38, G:0.24, T:0.16
Consensus pattern (19 bp):
ACATGGCCCATGTAGGCCC
Found at i:32278570 original size:26 final size:26
Alignment explanation
Indices: 32278541--32278593 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
32278531 TCACACAAGT
* *
32278541 TAGTCATTTACGCAC-GAGGGGCAAAA
1 TAGTCATTAACACACTG-GGGGCAAAA
32278567 TAGTCATTAACACACTGGGGGCAAAA
1 TAGTCATTAACACACTGGGGGCAAAA
32278593 T
1 T
32278594 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (26 bp):
TAGTCATTAACACACTGGGGGCAAAA
Found at i:32278632 original size:27 final size:27
Alignment explanation
Indices: 32278594--32278766 Score: 186
Period size: 27 Copynumber: 6.4 Consensus size: 27
32278584 GGGGCAAAAT
* * *
32278594 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
32278621 GGTAATTCTACCCTA-TAGAGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
32278648 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
32278675 GGTAATTCTACCCTATAGGGGTAGTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
32278702 AATAATTCTACCCTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
32278729 AGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
32278756 GGTAATTCTAC
1 GGTAATTCTAC
32278767 AACTTATCCA
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 120 0.97
28 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:32285513 original size:27 final size:26
Alignment explanation
Indices: 32285465--32285516 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
32285455 GTGAGGCTGC
*
32285465 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
32285491 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
32285517 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32286197 original size:27 final size:27
Alignment explanation
Indices: 32286167--32286339 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
32286157 GGGGCAAAAT
* * *
32286167 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
32286194 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
32286221 GGTATTTCTACCCTACAACGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
32286248 GGTAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
** *
32286275 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
32286302 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
32286329 GGTAATTCTAC
1 GGTAATTCTAC
32286340 AACTTATCCA
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.02
27 123 0.95
28 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:32286250 original size:54 final size:54
Alignment explanation
Indices: 32286167--32286339 Score: 247
Period size: 54 Copynumber: 3.2 Consensus size: 54
32286157 GGGGCAAAAT
* * *
32286167 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
32286221 GGTATTTCTACCCTACAACGGTATTTCGGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * * *
32286275 AATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
32286329 GGTAATTCTAC
1 GGTAATTCTAC
32286340 AACTTATCCA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:32287801 original size:41 final size:41
Alignment explanation
Indices: 32287702--32287826 Score: 119
Period size: 41 Copynumber: 3.0 Consensus size: 41
32287692 CAATGCCAAC
* * *
32287702 GTCCCAAGCGTGGTCTTACATGCAATCACATATCGATGCCATT
1 GTCCCAAACATGGTCTTACA--CAATCAAATATCGATGCCATT
* *
32287745 GTCCCAGACAAGGTCTTACACAAATCAAATA-CGATGCC-TAT
1 GTCCCAAACATGGTCTTACAC-AATCAAATATCGATGCCAT-T
* *
32287786 GTCCCAAACATGGTCTTACACGTAATCACATATCAATGCCA
1 GTCCCAAACATGGTCTTACAC--AATCAAATATCGATGCCA
32287827 ACGTCCCAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.01
41 28 0.42
42 16 0.24
43 22 0.33
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (41 bp):
GTCCCAAACATGGTCTTACACAATCAAATATCGATGCCATT
Found at i:32287846 original size:43 final size:42
Alignment explanation
Indices: 32287688--32287863 Score: 151
Period size: 43 Copynumber: 4.2 Consensus size: 42
32287678 TCACACATAC
* *
32287688 CATA-CAATGCCAACGTCCCA-AGCGTGGTCTTACATGCAATCA
1 CATATCAATGCCAACGTCCCAGA-CATGGTCTTACACG-AATCA
* ** * *
32287730 CATATCGATGCCATTGTCCCAGACAAGGTCTTACACAAATCA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACACGAATCA
* * * * *
32287772 AATA-CGATGCCTATGTCCCAAACATGGTCTTACACGTAATCA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACACG-AATCA
** * *
32287814 CATATCAATGCCAACGTCCCAGATGTGATCTTACACGAGAACA
1 CATATCAATGCCAACGTCCCAGACATGGTCTTACACGA-ATCA
32287857 CATATCA
1 CATATCA
32287864 GAAATCCTAT
Statistics
Matches: 107, Mismatches: 22, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
41 27 0.25
42 21 0.20
43 58 0.54
44 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (42 bp):
CATATCAATGCCAACGTCCCAGACATGGTCTTACACGAATCA
Found at i:32305297 original size:49 final size:49
Alignment explanation
Indices: 32305225--32305418 Score: 185
Period size: 49 Copynumber: 3.9 Consensus size: 49
32305215 GCCGAAGCTA
* *
32305225 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* *
32305274 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAACA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * * * * * *
32305324 TCTAATACACGTAGTAGGCTGTACTTAGTACTAGACACGTGATCGA-AG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
32305372 TTATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -T-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
32305419 TCACAATAGA
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 39 0.33
50 39 0.33
51 36 0.31
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:32305354 original size:50 final size:49
Alignment explanation
Indices: 32305236--32305365 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 49
32305226 CTGGTACGCA
* * **
32305236 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
32305285 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCAACA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* * *
32305335 TAGTAGGCTGTACTTAGTACTAGACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
32305366 TCGAAGTTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
49 29 0.40
50 38 0.53
51 5 0.07
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:32307605 original size:15 final size:15
Alignment explanation
Indices: 32307550--32307613 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
32307540 TAAAGATAAC
*
32307550 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
32307564 AAGAAA-CCA-AGATA
1 AAGAAATCCAGA-ATA
* *
32307578 GAA-AAACCCAGAATT
1 -AAGAAATCCAGAATA
32307593 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
32307608 AAGAAA
1 AAGAAA
32307614 CCCAAGATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 3 0.07
14 14 0.34
15 23 0.56
16 1 0.02
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:32308950 original size:72 final size:72
Alignment explanation
Indices: 32308832--32308969 Score: 213
Period size: 72 Copynumber: 1.9 Consensus size: 72
32308822 CCTAGGGTTT
* * * *
32308832 ATATTTGGAAAACTAACCATAGGTGAAATTTGTGTATTTTTATGTTTTGTGATAGAATATGAGGT
1 ATATTTGGAAAAATAACCATAGATGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGAGGT
32308897 TGGGGTC
66 TGGGGTC
* * *
32308904 ATATTTGGAAAAATACCCATATATGAAATTTGTGTATTTTGGTGTTTTATGATAGAATATGAGGT
1 ATATTTGGAAAAATAACCATAGATGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGAGGT
32308969 T
66 T
32308970 TTAAATTATG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.41
Consensus pattern (72 bp):
ATATTTGGAAAAATAACCATAGATGAAATTTGTGTATTTTGATGTTTTATGATAGAATATGAGGT
TGGGGTC
Found at i:32309689 original size:46 final size:45
Alignment explanation
Indices: 32309639--32309815 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
32309629 TGGTTGAGCA
*
32309639 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
32309685 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
32309732 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
32309778 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
32309816 CGGGTTACAT
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:32309795 original size:93 final size:93
Alignment explanation
Indices: 32309636--32309806 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
32309626 GGATGGTTGA
** * *
32309636 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32309701 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
32309729 GCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
32309794 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
32309807 ACTTATGGAC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:32311629 original size:40 final size:40
Alignment explanation
Indices: 32311545--32311761 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
32311535 AAACCAAGTA
* * * *
32311545 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
32311584 CCTTCGGGACTTAGCCCTGTTACAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
32311624 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
32311664 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
32311704 CCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
32311743 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
32311762 TTATCATCCG
Statistics
Matches: 158, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
38 3 0.02
39 45 0.28
40 109 0.69
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:32316018 original size:15 final size:15
Alignment explanation
Indices: 32315994--32316049 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
32315984 GTATCTTGGG
32315994 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
32316009 TTTGTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
32316024 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
32316039 TTTCTTTATTC
1 TTTCTTTATTC
32316050 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:32316252 original size:57 final size:57
Alignment explanation
Indices: 32316164--32316277 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
32316154 TGGATCATGG
* *
32316164 TAATGTGGTGATTTTAGTATTGGGGTTTTTTCTAATTTCTGTGTAAGTATTTGACAT
1 TAATGTGGTGATTTTAGTATTGGAGTTTTTTCTAATTTCTGTGTAAGGATTTGACAT
32316221 TAATGTGGTGATTTTAGTATTGGAGTTTTTTCTAATTTCTGTGTAAGGATTTGACAT
1 TAATGTGGTGATTTTAGTATTGGAGTTTTTTCTAATTTCTGTGTAAGGATTTGACAT
32316278 CAGTAAAGGC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.22, C:0.05, G:0.23, T:0.50
Consensus pattern (57 bp):
TAATGTGGTGATTTTAGTATTGGAGTTTTTTCTAATTTCTGTGTAAGGATTTGACAT
Found at i:32318609 original size:46 final size:46
Alignment explanation
Indices: 32318553--32318728 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
32318543 TTGTTGAGCA
*
32318553 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
32318599 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
32318646 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
32318692 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32318729 GTGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 68 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:32318709 original size:93 final size:93
Alignment explanation
Indices: 32318550--32318721 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
32318540 GGATTGTTGA
* * * *
32318550 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
32318615 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
32318643 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
32318708 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
32318722 CTTATGGGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:32322186 original size:39 final size:39
Alignment explanation
Indices: 32322143--32322276 Score: 205
Period size: 39 Copynumber: 3.4 Consensus size: 39
32322133 ATTATATTAT
* * *
32322143 CAGCACAAAGCCTGCGGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
32322182 CAGCACGAAGCCTGAGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
32322221 TATCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
32322260 CAGCACGAAGCCTGCGG
1 CAGCACGAAGCCTGCGG
32322277 ACCCTAAGTC
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:32322300 original size:39 final size:39
Alignment explanation
Indices: 32322257--32322366 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
32322247 CCGGATACAT
32322257 TTCCAGCACGA-AGCCTGCGGACCCTAAGTCCAGATATAA
1 TTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCAGATATAA
* *** **
32322296 TTCCAGCACATATCCTGTAAACCCTAAGTCTGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
32322335 TTCCAGCACATAGCCTGACGGACCCTAAGTCC
1 TTCCAGCACATAGCCTG-CGGACCCTAAGTCC
32322367 GAATACACAT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.02
39 47 0.81
40 10 0.17
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
Found at i:32325442 original size:31 final size:31
Alignment explanation
Indices: 32325396--32325506 Score: 179
Period size: 31 Copynumber: 3.6 Consensus size: 31
32325386 TCAATCTCAA
*
32325396 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTCCATTATT
* * *
32325426 CATGTCACTTGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTCCATTATT
32325457 CATATCACTGGGCCGAAGCCTTTCCATTATT
1 CATATCACTGGGCCGAAGCCTTTCCATTATT
32325488 CATATCACTGGGCCGAAGC
1 CATATCACTGGGCCGAAGC
32325507 TTTTACTGTA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 4 0.05
31 70 0.95
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATTATT
Found at i:32325764 original size:25 final size:25
Alignment explanation
Indices: 32325730--32325799 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
32325720 CTCTTTTAAT
*
32325730 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* * *
32325755 AACTGGGGCATAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
32325780 AACTAGGGTAAAACCCTTTT
1 AACTAGGGCAAAGCCCTTTT
32325800 GCACTTCCTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:32325874 original size:20 final size:20
Alignment explanation
Indices: 32325847--32325903 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
32325837 TATATGAATT
32325847 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
*
32325867 TGTCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
*
32325887 TAACATGTGCATATCAT
1 TATCATGTGCATATCAT
32325904 GTCAAATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:32337256 original size:40 final size:40
Alignment explanation
Indices: 32337212--32337473 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
32337202 GCTCCTCGTT
* *
32337212 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
32337252 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32337292 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32337331 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
32337370 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
32337409 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
32337450 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32337474 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:32345268 original size:40 final size:40
Alignment explanation
Indices: 32345224--32345395 Score: 249
Period size: 40 Copynumber: 4.3 Consensus size: 40
32345214 GCTCCTCGTT
* * *
32345224 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
32345264 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
32345304 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
32345344 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
32345383 CAAATGCCTTCGG
1 CAAATGCCTTCGG
32345396 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
39 35 0.29
40 84 0.69
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:32345408 original size:79 final size:80
Alignment explanation
Indices: 32345224--32345447 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
32345214 GCTCCTCGTT
* * *
32345224 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
32345288 GATTTAGTGACTCGCA
65 GAATTAGTGACTCGCA
* *
32345304 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
32345368 AATTAGT-ATCTCGCA
66 AATTAGTGA-CTCGCA
* * **
32345383 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACT-TAACACAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAACTCGCACA-AATGCCTTCGGGACTTAGCC
32345444 CGGA
63 CGGA
32345448 CAGCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
78 16 0.13
79 59 0.47
80 49 0.39
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTGACTCGCA
Found at i:32346545 original size:15 final size:14
Alignment explanation
Indices: 32346525--32346577 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
32346515 AGGATGAGCA
32346525 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
*
32346539 TTTTTTTTTC-CTG
1 TTTTTTTTTCTTTG
32346552 CATTTTTTTTTCTTTG
1 --TTTTTTTTTCTTTG
*
32346568 TTTATTTTTC
1 TTTTTTTTTC
32346578 CTTCTAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.06
14 19 0.58
15 10 0.30
16 2 0.06
ACGTcount: A:0.04, C:0.11, G:0.06, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:32346556 original size:29 final size:29
Alignment explanation
Indices: 32346522--32346579 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
32346512 CAAAGGATGA
*
32346522 GCATTTTTTTTTCTTTGTTTTTTTTTCCT
1 GCATTTTTTTTTCTTTGTTTATTTTTCCT
32346551 GCATTTTTTTTTCTTTGTTTATTTTTCCT
1 GCATTTTTTTTTCTTTGTTTATTTTTCCT
32346580 TCTAGTTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.05, C:0.14, G:0.07, T:0.74
Consensus pattern (29 bp):
GCATTTTTTTTTCTTTGTTTATTTTTCCT
Found at i:32347199 original size:12 final size:12
Alignment explanation
Indices: 32347182--32347207 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32347172 AACATCATCA
32347182 AAATAAATGTCC
1 AAATAAATGTCC
32347194 AAATAAATGTCC
1 AAATAAATGTCC
32347206 AA
1 AA
32347208 TGTCCATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AAATAAATGTCC
Found at i:32352021 original size:40 final size:40
Alignment explanation
Indices: 32351991--32352196 Score: 225
Period size: 40 Copynumber: 5.3 Consensus size: 40
32351981 GGACTAAGAT
*
32351991 CCGAAGGCATTTGTGCGAGATGCTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
32352031 CCGATGGCATTTGTACGAGTTACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* *
32352071 CC----G-A--TATGCGAGATGCTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
*
32352104 CCGATGGCATTTGTGCGAG-TCACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGGTTAAGTC
* *
32352144 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGGTTAAGTC
32352184 CCGAAGGCATTTG
1 CCGAAGGCATTTG
32352197 AACGAGGAGC
Statistics
Matches: 140, Mismatches: 15, Indels: 22
0.79 0.08 0.12
Matches are distributed among these distances:
33 26 0.19
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 106 0.76
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:32352123 original size:73 final size:73
Alignment explanation
Indices: 32352004--32352147 Score: 261
Period size: 73 Copynumber: 2.0 Consensus size: 73
32351994 AAGGCATTTG
* *
32352004 TGCGAGATGCTAAATCCGGGTTAAGTCCCGATGGCATTTGTACGAGTTACTAATTCCGGGTTAAG
1 TGCGAGATGCTAAATCCGGGTTAAGTCCCGATGGCATTTGTACGAGTCACTAAATCCGGGTTAAG
32352069 TCCCGATA
66 TCCCGATA
*
32352077 TGCGAGATGCTAAATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTCACTAAATCCGGGTTAAG
1 TGCGAGATGCTAAATCCGGGTTAAGTCCCGATGGCATTTGTACGAGTCACTAAATCCGGGTTAAG
32352142 TCCCGA
66 TCCCGA
32352148 AGGCATTTGT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (73 bp):
TGCGAGATGCTAAATCCGGGTTAAGTCCCGATGGCATTTGTACGAGTCACTAAATCCGGGTTAAG
TCCCGATA
Found at i:32352306 original size:192 final size:191
Alignment explanation
Indices: 32352090--32352472 Score: 712
Period size: 192 Copynumber: 2.0 Consensus size: 191
32352080 GAGATGCTAA
32352090 ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATT
32352155 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAA
66 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAA
* * *
32352220 ATCCCGAAGGTACGTGATTTGGGAATGAATGATCTTGCTGTAAAAATTTCAGTTAATGCTCT
131 ATCCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGT-AAAATTCCAGTTAATACTCT
*
32352282 ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATT
32352347 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAA
66 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAA
*
32352412 ATTCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGTAAAATTCCAGTTAATACTCT
131 ATCCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGTAAAATTCCAGTTAATACTCT
32352473 CGAAACATCC
Statistics
Matches: 186, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
191 18 0.10
192 168 0.90
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (191 bp):
ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATT
TGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAA
ATCCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGTAAAATTCCAGTTAATACTCT
Found at i:32352328 original size:40 final size:41
Alignment explanation
Indices: 32352282--32352388 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 41
32352272 TTAATGCTCT
* *
32352282 ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTA-A
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATA
32352322 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATA
* *
32352363 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGTTAAGTCCCGAAGGCATTTG
32352389 AACGAGGAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 60 0.97
41 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATA
Found at i:32353413 original size:260 final size:260
Alignment explanation
Indices: 32352952--32353471 Score: 959
Period size: 260 Copynumber: 2.0 Consensus size: 260
32352942 TGGCTTATAT
* *
32352952 GTGTTTGAGTATATTGTTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGGAT
1 GTGTTTGAGTATAATGTTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGAAT
*
32353017 GGTTAATCACTTTCATAAAGTGTGCTATTTATGCAAAAAGGGCTAGTTGAATCATGGAAACCATG
66 GGTTAATCACTATCATAAAGTGTGCTATTTATGCAAAAAGGGCTAGTTGAATCATGGAAACCATG
*
32353082 AAATAGGTAAAGTCTACCTTAAAGGCAGATGCTGACAGCAGCAGTGATGTAGATTTGGAAAATCA
131 AAATAGGTAAAGTCTACCTTAAAGGCACATGCTGACAGCAGCAGTGATGTAGATTTGGAAAATCA
32353147 CTAAAAATAGTAGGAAGGGAATTAAATAGTGAATAAATTATGTAAACAAACCTTGATGAATCTAC
196 CTAAAAATAGTAGGAAGGGAATTAAATAGTGAATAAATTATGTAAACAAACCTTGATGAATCTAC
* *
32353212 GTGTTTGAGTATAATGTTATAATCATTTGGTGTGGATATGTTTGACAAGGATTGGCCGTGGGAAT
1 GTGTTTGAGTATAATGTTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGAAT
*
32353277 GGTTAATCACTATCATAAATTGTGCTATTTATGCAAAAAGGGCTAGTTGAATCATGGAAACCATG
66 GGTTAATCACTATCATAAAGTGTGCTATTTATGCAAAAAGGGCTAGTTGAATCATGGAAACCATG
*
32353342 AAATAGGTAAAGTCTACCTTAAAGGCACATGCTGACAGTAGCAGTGATGTAGATTTGGAAAATCA
131 AAATAGGTAAAGTCTACCTTAAAGGCACATGCTGACAGCAGCAGTGATGTAGATTTGGAAAATCA
*
32353407 CTAAAAATAGTAGGAATGGAATTAAATAGTGAATAAATTATGTAAACAAACCTTGATGAATCTAC
196 CTAAAAATAGTAGGAAGGGAATTAAATAGTGAATAAATTATGTAAACAAACCTTGATGAATCTAC
32353472 TTTCATAGGA
Statistics
Matches: 251, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
260 251 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (260 bp):
GTGTTTGAGTATAATGTTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGAAT
GGTTAATCACTATCATAAAGTGTGCTATTTATGCAAAAAGGGCTAGTTGAATCATGGAAACCATG
AAATAGGTAAAGTCTACCTTAAAGGCACATGCTGACAGCAGCAGTGATGTAGATTTGGAAAATCA
CTAAAAATAGTAGGAAGGGAATTAAATAGTGAATAAATTATGTAAACAAACCTTGATGAATCTAC
Found at i:32353703 original size:192 final size:192
Alignment explanation
Indices: 32353376--32353758 Score: 721
Period size: 192 Copynumber: 2.0 Consensus size: 192
32353366 GCACATGCTG
32353376 ACAGTAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAAT
1 ACAGTAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAAT
32353441 AAATTATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAACGAAACAATCATACCGAC
66 AAATTATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAACGAAACAATCATACCGAC
* *
32353506 AGTATGTTAAGATATATTCATGTTCTCGTGAGACAGGGCCAGAACAGTTTCTGGATTCCCTA
131 AGTATGTTAAGAGATATTCAGGTTCTCGTGAGACAGGGCCAGAACAGTTTCTGGATTCCCTA
32353568 ACAGTAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAAT
1 ACAGTAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAAT
*
32353633 AAATTATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAACGAAACAATCATACGGAC
66 AAATTATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAACGAAACAATCATACCGAC
* *
32353698 AGTATGTTAAGAGATATTCAGGTTCTCGTGAGGCAGGGCCAGAACGGTTTCTGGATTCCCT
131 AGTATGTTAAGAGATATTCAGGTTCTCGTGAGACAGGGCCAGAACAGTTTCTGGATTCCCT
32353759 GTTCCGACTT
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
192 186 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (192 bp):
ACAGTAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGAATGGAATTAAATAGTGAAT
AAATTATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAACGAAACAATCATACCGAC
AGTATGTTAAGAGATATTCAGGTTCTCGTGAGACAGGGCCAGAACAGTTTCTGGATTCCCTA
Found at i:32355264 original size:103 final size:103
Alignment explanation
Indices: 32355085--32355293 Score: 391
Period size: 103 Copynumber: 2.0 Consensus size: 103
32355075 ACTTGTCGAG
*
32355085 CGAGCTTGTAAAGCCGAAGAGCTTAGAAAAGAAAAACAAAAAGTTGATGTGGGAACTGGAGAGTT
1 CGAGCTTGTAAAGCCGAAGAGCTTAGAAAAGAAAAACAAAAAGTTGATGTGGAAACTGGAGAGTT
*
32355150 TCGTAAAAGATCCTCGGGAAAGTCTCTTCAATAGGCAC
66 TCGTAAAAGATCCTCGGGAAAGTCTCTTCAACAGGCAC
32355188 CGAGCTTGTAAAGCCGAAGAGCTTAGAAAAGAAAAACAAAAAGTTGATGTGGAAACTGGAGAGTT
1 CGAGCTTGTAAAGCCGAAGAGCTTAGAAAAGAAAAACAAAAAGTTGATGTGGAAACTGGAGAGTT
*
32355253 TCGTAAAAGATCTTCGGGAAAGTCTCTTCAACAGGCAC
66 TCGTAAAAGATCCTCGGGAAAGTCTCTTCAACAGGCAC
32355291 CGA
1 CGA
32355294 AGAAATTTTG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (103 bp):
CGAGCTTGTAAAGCCGAAGAGCTTAGAAAAGAAAAACAAAAAGTTGATGTGGAAACTGGAGAGTT
TCGTAAAAGATCCTCGGGAAAGTCTCTTCAACAGGCAC
Found at i:32371825 original size:19 final size:19
Alignment explanation
Indices: 32371801--32371846 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
32371791 TGTTAAATAC
32371801 AATTTGATG-TATATGATTT
1 AATTTGATGTTATATGA-TT
*
32371820 AATTTG-TGTTCTATGATT
1 AATTTGATGTTATATGATT
32371838 AATTTGATG
1 AATTTGATG
32371847 AAAGTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.52
Consensus pattern (19 bp):
AATTTGATGTTATATGATT
Found at i:32371948 original size:19 final size:18
Alignment explanation
Indices: 32371911--32371949 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
32371901 TATAACTTCT
* *
32371911 ATTAAATATAAATATCAC
1 ATTAAATAAAAATAACAC
32371929 ATTAAATAAAAAATAACAC
1 ATTAAAT-AAAAATAACAC
32371948 AT
1 AT
32371950 ACAACACGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (18 bp):
ATTAAATAAAAATAACAC
Found at i:32376238 original size:14 final size:16
Alignment explanation
Indices: 32376221--32376254 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
32376211 AATATTATAT
32376221 AATTAT-ATTAA-AAA
1 AATTATAATTAACAAA
32376235 AATTATAATTAACAAA
1 AATTATAATTAACAAA
32376251 AATT
1 AATT
32376255 CTTTATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 5 0.28
16 7 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTATAATTAACAAA
Found at i:32383022 original size:43 final size:43
Alignment explanation
Indices: 32382975--32383061 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
32382965 AGGTTAAATC
* *
32382975 CAACAACCCATGTTTATCACCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCACCTCCTCTTTTTAAATTCTTTTTT
* ** *
32383018 CAACAACCTAAGATTATCTTCTCCTTTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCACCTCCTCTTTTTAAATTCTTTTTT
32383061 C
1 C
32383062 TAGGATAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.02, T:0.48
Consensus pattern (43 bp):
CAACAACCCAAGATTATCACCTCCTCTTTTTAAATTCTTTTTT
Found at i:32383090 original size:56 final size:56
Alignment explanation
Indices: 32383018--32383164 Score: 190
Period size: 57 Copynumber: 2.6 Consensus size: 56
32383008 ATTCTTTTTT
*
32383018 CAACAACCTAAGATTATCTTCTCCTTTTTTTAAATTCTT-TTTTCTAGGATAAAAAC
1 CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATT-TTCTTTTCTAGGATAAAAAC
* * *
32383074 CAACAACCCAATATTATCTTTTCCTTTTTTAAAAATTTTCTTTTCTAGGATAAAAAC
1 CAACAACCCAAGATTATCTTCTCCTTTTTT-TAAATTTTCTTTTCTAGGATAAAAAC
* *
32383131 CAAC-ATCCAAGGATTATATTCTCCTCTTTTTTAA
1 CAACAACCCAA-GATTATCTTCTCCT-TTTTTTAA
32383165 GCAGAATTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
56 34 0.44
57 39 0.50
58 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (56 bp):
CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATTTTCTTTTCTAGGATAAAAAC
Found at i:32386836 original size:27 final size:27
Alignment explanation
Indices: 32386805--32386982 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32386795 TAAATTGTAC
32386805 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32386832 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32386858 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32386886 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32386914 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32386941 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32386968 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32386983 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32386919 original size:82 final size:81
Alignment explanation
Indices: 32386806--32386961 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32386796 AAATTGTACA
* *
32386806 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32386870 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32386887 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32386952 TGCGAGTTGA
65 TGCGAATTGA
32386962 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32386973 original size:82 final size:81
Alignment explanation
Indices: 32386802--32386982 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32386792 GATTAAATTG
* *
32386802 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32386867 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32386883 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32386947 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32386965 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32386983 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32396134 original size:20 final size:22
Alignment explanation
Indices: 32396105--32396148 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
32396095 ATCTTCTCGA
*
32396105 TTTGGTTTG-TTTTGTC-CCTT
1 TTTGGCTTGTTTTTGTCTCCTT
32396125 TTTGGCTTGTTTTTGTCTCCTT
1 TTTGGCTTGTTTTTGTCTCCTT
32396147 TT
1 TT
32396149 GACTCTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 7 0.33
22 6 0.29
ACGTcount: A:0.00, C:0.16, G:0.18, T:0.66
Consensus pattern (22 bp):
TTTGGCTTGTTTTTGTCTCCTT
Found at i:32402634 original size:79 final size:79
Alignment explanation
Indices: 32402494--32402715 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
32402484 TATTCGAATG
* * * **
32402494 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGC
32402559 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
32402575 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGC
32402638 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * *
32402654 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
32402716 TATGTGATTC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 64 0.52
80 45 0.37
81 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:32402696 original size:40 final size:40
Alignment explanation
Indices: 32402494--32402701 Score: 262
Period size: 40 Copynumber: 5.2 Consensus size: 40
32402484 TATTCGAATG
* * *
32402494 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
32402535 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
32402575 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
32402614 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
32402654 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
32402694 ATATCCGG
1 ATATCCGG
32402702 TTAAATTCCG
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 37 0.25
40 81 0.55
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:32406744 original size:31 final size:31
Alignment explanation
Indices: 32406709--32406770 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
32406699 AACTACTCGT
*
32406709 GATCTTTCAAAACCTCAAGTCTTTAACACTA
1 GATCTTTCAAAACCTAAAGTCTTTAACACTA
* *
32406740 GATCTTTCAATAGCTAAAGTCTTTAACACTA
1 GATCTTTCAAAACCTAAAGTCTTTAACACTA
32406771 TCTTAACTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (31 bp):
GATCTTTCAAAACCTAAAGTCTTTAACACTA
Found at i:32408638 original size:105 final size:99
Alignment explanation
Indices: 32408459--32408663 Score: 277
Period size: 105 Copynumber: 2.0 Consensus size: 99
32408449 GCCTCAAGTA
* * **
32408459 AAATTTTCTGAATCAACCCAGTGTCCTTAGGAATCCTACCTCAGAACCTCAAGCAACCATCGGAA
1 AAATTTTCTAAATCAACCCAGTGTCCTTAGGAATCCTACCCCAGAACCTCAAGCAACCATCAAAA
32408524 TCAACCCAAAAATCTGATTCAACACCCGATTCAC
66 TCAACCCAAAAATCTGATTCAACACCCGATTCAC
*
32408558 AAATTTTCTAAATCAACCCAGTGTCCTTCGGAACACAAATCCTACCCC-GAAACCTCAAGCAACC
1 AAATTTTCTAAATCAACCCAGTGTCCTTAGG------AATCCTACCCCAG-AACCTCAAGCAACC
* *
32408622 ATCAAAATCAATCCAAAAATCTGATTCAACACCCTATTCAC
59 ATCAAAATCAACCCAAAAATCTGATTCAACACCCGATTCAC
32408663 A
1 A
32408664 CTGTGTTCTC
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
99 29 0.32
104 1 0.01
105 62 0.67
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.22
Consensus pattern (99 bp):
AAATTTTCTAAATCAACCCAGTGTCCTTAGGAATCCTACCCCAGAACCTCAAGCAACCATCAAAA
TCAACCCAAAAATCTGATTCAACACCCGATTCAC
Found at i:32414046 original size:30 final size:29
Alignment explanation
Indices: 32414012--32414072 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 29
32414002 AAAATGATTG
32414012 ATTAATAGAAATCACGATATGTATGAATGA
1 ATTAATA-AAATCACGATATGTATGAATGA
*
32414042 A-T--TAAAATCACTATATGTATGAATGA
1 ATTAATAAAATCACGATATGTATGAATGA
32414068 ATTAA
1 ATTAA
32414073 ATTAACATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
26 22 0.81
27 3 0.11
29 1 0.04
30 1 0.04
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.33
Consensus pattern (29 bp):
ATTAATAAAATCACGATATGTATGAATGA
Found at i:32414049 original size:26 final size:26
Alignment explanation
Indices: 32414020--32414073 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
32414010 TGATTAATAG
32414020 AAATCACGATATGTATGAATGAATTA
1 AAATCACGATATGTATGAATGAATTA
*
32414046 AAATCACTATATGTATGAATGAATTA
1 AAATCACGATATGTATGAATGAATTA
32414072 AA
1 AA
32414074 TTAACATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.31
Consensus pattern (26 bp):
AAATCACGATATGTATGAATGAATTA
Found at i:32416521 original size:44 final size:43
Alignment explanation
Indices: 32416384--32416541 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
32416374 AGCTCGTACA
*
32416384 ATGCCAACGTCCTAAACGTGGTCTTACA-TGT-AATCAAATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACACT-TAAATCAAA-ATCG
* * ** *
32416427 ATGCC-ACTATCCCAGACAAGGTCTTACAC-GAAATCAAAAAT-G
1 ATGCCAAC-GTCCTAGACGTGGTCTTACACTTAAATC-AAAATCG
*
32416469 ATGCCAACGTCCTAGACGTGGTCTTACACTTAAATCATAAGTCG
1 ATGCCAACGTCCTAGACGTGGTCTTACACTTAAATCA-AAATCG
32416513 ATGCCAACGTCCTAGACGTGGTCTTACAC
1 ATGCCAACGTCCTAGACGTGGTCTTACAC
32416542 GATAACACAT
Statistics
Matches: 95, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 26 0.27
43 36 0.38
44 33 0.35
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCTAGACGTGGTCTTACACTTAAATCAAAATCG
Found at i:32419381 original size:38 final size:39
Alignment explanation
Indices: 32419316--32419393 Score: 149
Period size: 38 Copynumber: 2.0 Consensus size: 39
32419306 ATGCTTCAAC
32419316 TAAATATTAACACAAAAAAATCAATTCTTATACTTACTT
1 TAAATATTAACACAAAAAAATCAATTCTTATACTTACTT
32419355 TAAATATTAACAC-AAAAAATCAATTCTTATACTTACTT
1 TAAATATTAACACAAAAAAATCAATTCTTATACTTACTT
32419393 T
1 T
32419394 TTATACAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 26 0.67
39 13 0.33
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.37
Consensus pattern (39 bp):
TAAATATTAACACAAAAAAATCAATTCTTATACTTACTT
Done.