Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 215 of 425
Found at i:65603463 original size:24 final size:24
Alignment explanation
Indices: 65603383--65603460 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
65603373 CTTGTTCACA
*
65603383 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * * *
65603407 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
65603431 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
65603455 TTCTTT
1 TTCTTT
65603461 TTCTTTCATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:65604779 original size:15 final size:15
Alignment explanation
Indices: 65604759--65604806 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65604749 TCAAAGATGG
65604759 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
65604774 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
65604788 GTTTATGGATATAAA
1 GTTTATGGATATGAA
65604803 GTTT
1 GTTT
65604807 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:65604793 original size:14 final size:14
Alignment explanation
Indices: 65604753--65604796 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
65604743 AAGGATTCAA
65604753 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
65604767 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
65604782 AGATGGGTTTATGG
1 AGATGGGTTTATGG
65604796 A
1 A
65604797 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:65604822 original size:29 final size:29
Alignment explanation
Indices: 65604753--65604812 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
65604743 AAGGATTCAA
*
65604753 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
65604782 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
65604811 AG
1 AG
65604813 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:65605828 original size:14 final size:14
Alignment explanation
Indices: 65605786--65605830 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65605776 TTAAAGAAGC
65605786 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65605800 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65605813 AACTCATTTAATTA
1 AACTCATTAAATTA
65605827 AACT
1 AACT
65605831 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65606784 original size:63 final size:63
Alignment explanation
Indices: 65606685--65606810 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
65606675 AAAGCCTATA
65606685 AGCAATTGGGTCAATACTCTCTAGTATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCATT
1 AGCAATTGGGTCAATACTCTCTAGTATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCATT
65606748 AGCAATTGGGTCAATACTCTCTAGTATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCATT
1 AGCAATTGGGTCAATACTCTCTAGTATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCATT
65606811 CTTTCATTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (63 bp):
AGCAATTGGGTCAATACTCTCTAGTATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCATT
Found at i:65612439 original size:40 final size:40
Alignment explanation
Indices: 65612389--65612475 Score: 138
Period size: 40 Copynumber: 2.1 Consensus size: 40
65612379 TGAACTTTAA
65612389 TTTATTTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
1 TTTA-TTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
* * *
65612430 TTTATTAAACTCATCTTAGTTAATTATTGATTTGTTGGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
65612470 TTTATT
1 TTTATT
65612476 TTTATTAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
Found at i:65612663 original size:11 final size:11
Alignment explanation
Indices: 65612638--65612674 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
65612628 GCTTATTAAG
65612638 TTTAATGTG--
1 TTTAATGTGTT
65612647 TTTAATGTGTT
1 TTTAATGTGTT
65612658 TTTAATGTGTT
1 TTTAATGTGTT
65612669 TCTTAA
1 T-TTAA
65612675 AATGCTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
11 12 0.48
12 4 0.16
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:65614325 original size:29 final size:29
Alignment explanation
Indices: 65614275--65614331 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
65614265 AATTTTAATT
* *
65614275 AAATGTAATATATATATATATATATGCTG
1 AAATGAAATATATATATATATACATGCTG
*
65614304 AAATGAAATATATGAT-TTTATACATGCT
1 AAATGAAATATAT-ATATATATACATGCT
65614332 ATAGCCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (29 bp):
AAATGAAATATATATATATATACATGCTG
Found at i:65618803 original size:55 final size:54
Alignment explanation
Indices: 65618684--65618937 Score: 258
Period size: 55 Copynumber: 4.8 Consensus size: 54
65618674 ATTAGGGTTT
* **
65618684 AAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTA-AA-GC
1 AAGGATACCATGTAAGACCATGCCAAGACATG-GCATTGGTAA-G-TTCTATAAGGC
* *
65618739 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* *
65618794 AAAGG-TACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
65618847 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
65618896 AAGGATACCACGTAAGACCATG-AAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
65618938 GTACCCATGT
Statistics
Matches: 174, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
48 17 0.10
49 21 0.12
52 8 0.05
53 46 0.26
54 10 0.06
55 68 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:65618880 original size:108 final size:111
Alignment explanation
Indices: 65618684--65618891 Score: 316
Period size: 108 Copynumber: 1.9 Consensus size: 111
65618674 ATTAGGGTTT
65618684 AAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAAGCAAGGATACCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAAGCAAGGATACCA
*
65618749 TGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
66 TGTAAGACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCA
** * *
65618795 AAGG-TACCATGTAAGACCATGCCAAGGCATG-GCATTGGTGA-G-TTCATAAGGCAAGGATACC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAAGCAAGGATACC
* *
65618856 ATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
65 ATGTAAGACCATGTCAAGACATGGCAATGATAAGTT
65618892 TCAAAAGGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
107 3 0.03
108 48 0.54
109 7 0.08
110 27 0.30
111 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (111 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAAGCAAGGATACCA
TGTAAGACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCA
Found at i:65626491 original size:55 final size:53
Alignment explanation
Indices: 65626404--65626601 Score: 211
Period size: 55 Copynumber: 3.7 Consensus size: 53
65626394 ATTAGGGTTT
* * * *
65626404 AAGGACACCATGTAAGACCATGCCAAGGCATGGGAATCGGTAAGGTTTCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GGCATTGGTAA-GTTTCTAAGGA
* * *
65626459 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGG-A
* * * *
65626515 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGA
* *
65626567 AAGGATACCATGTAAGACCATGTCGAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
65626602 ATTCAATTCT
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 5 0.04
53 34 0.28
54 9 0.08
55 67 0.56
56 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGA
Found at i:65629975 original size:34 final size:32
Alignment explanation
Indices: 65629906--65629975 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 32
65629896 GCATTTCTGT
*
65629906 TACTGTACTTAATGGGCTAAGGCCCACACTGA
1 TACTGTACTTAATGGGCTAAGGCCCACACTAA
*
65629938 TACTGCTACTGTAATGGGCTACGGCCCTA-ACTAA
1 TACTG-TACT-TAATGGGCTAAGGCCC-ACACTAA
65629972 TACT
1 TACT
65629976 AGACTGTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 5 0.15
33 4 0.12
34 23 0.70
35 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (32 bp):
TACTGTACTTAATGGGCTAAGGCCCACACTAA
Found at i:65639597 original size:43 final size:43
Alignment explanation
Indices: 65639561--65639696 Score: 152
Period size: 43 Copynumber: 3.2 Consensus size: 43
65639551 CTTACATGTT
* * * *
65639561 ATCACATATCAATGTCACTGTCCCAGACAGGGTCTTATACGA-A
1 ATCACATATCAATGCCAATGTCCCAGACATGGTCTTACAC-ATA
* *
65639604 ATCATATAAT-GATGCCAATGTCCCAGACATGGTCTTACACATA
1 ATCACAT-ATCAATGCCAATGTCCCAGACATGGTCTTACACATA
* *
65639647 ATCACA-ATACAATGCCAATGTCCCAAACATGGTCTTACATATA
1 ATCACATAT-CAATGCCAATGTCCCAGACATGGTCTTACACATA
65639690 ATCACAT
1 ATCACAT
65639697 CTCGGTAACC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
41 2 0.03
42 1 0.01
43 73 0.94
44 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (43 bp):
ATCACATATCAATGCCAATGTCCCAGACATGGTCTTACACATA
Found at i:65653516 original size:21 final size:21
Alignment explanation
Indices: 65653490--65653529 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
65653480 TTGAGCTCGT
*
65653490 TTTAGCTCGTTTGAGCTCAAA
1 TTTAGCTCGTTTCAGCTCAAA
65653511 TTTAGCTCGTTTCAGCTCA
1 TTTAGCTCGTTTCAGCTCA
65653530 TTCCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTAGCTCGTTTCAGCTCAAA
Found at i:65653730 original size:21 final size:22
Alignment explanation
Indices: 65653689--65653733 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
65653679 TTGTGTTCAA
65653689 ATTTAGTTAGTGATATTAAATT
1 ATTTAGTTAGTGATATTAAATT
* *
65653711 ATTTAGTTA-TTATTTTAAATT
1 ATTTAGTTAGTGATATTAAATT
65653732 AT
1 AT
65653734 AATTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (22 bp):
ATTTAGTTAGTGATATTAAATT
Found at i:65653771 original size:13 final size:13
Alignment explanation
Indices: 65653753--65653777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65653743 AATAGTTGTG
65653753 TGTTATTTAATTA
1 TGTTATTTAATTA
65653766 TGTTATTTAATT
1 TGTTATTTAATT
65653778 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:65656780 original size:40 final size:40
Alignment explanation
Indices: 65656590--65656773 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
65656580 TCGAATGATG
* * *
65656590 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
65656630 T-C-GACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65656668 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
65656708 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65656749 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65656774 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 23 0.18
39 10 0.08
40 90 0.71
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65656780 original size:80 final size:79
Alignment explanation
Indices: 65656641--65656796 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 79
65656631 CGACTAAGAT
**
65656641 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
65656705 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* *
65656721 CCGAAGGCA-TCTGTGCGAGTTACTATAAT-CGGGCTATG-TCCCGAAGGCATTTGAACGAGTAG
1 CCGAAGGCATTC-GTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAG
*
65656783 CTATATCCGGTTAA
63 CTAAATCCGGTTAA
65656797 ACTCCGAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
79 11 0.16
80 53 0.79
81 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:65658363 original size:46 final size:44
Alignment explanation
Indices: 65658196--65658402 Score: 202
Period size: 46 Copynumber: 4.5 Consensus size: 44
65658186 ACTGTGAGCT
* * *
65658196 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC--GA-GACGAGTC
* *
65658242 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGT-C
**
65658289 TAGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG--AGTC
* * * *
65658336 AGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGTC
65658380 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
65658403 CGGCATTGGC
Statistics
Matches: 139, Mismatches: 13, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 61 0.44
47 30 0.22
48 20 0.14
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGTC
Found at i:65660624 original size:29 final size:29
Alignment explanation
Indices: 65660591--65660649 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
65660581 CTACGATTAA
*
65660591 TTTTCAACCTTTAAACTATGTTAAACTAC
1 TTTTCAACCTTTAAACTATGCTAAACTAC
65660620 TTTTCAACCTTTAAACTATGCTAAACTAC
1 TTTTCAACCTTTAAACTATGCTAAACTAC
65660649 T
1 T
65660650 CAATTCATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTTCAACCTTTAAACTATGCTAAACTAC
Found at i:65667446 original size:66 final size:68
Alignment explanation
Indices: 65667368--65667554 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
65667358 TAGTACCACT
*
65667368 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
65667430 CACG
65 CACG
65667434 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
65667499 ATCACG
63 ATCACG
65667505 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
65667555 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:65667479 original size:71 final size:71
Alignment explanation
Indices: 65667391--65667554 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65667381 CGATTTGTCT
65667391 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65667456 CTTTCA
66 CTTTCA
65667462 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65667527 CTTTCA
66 CTTTCA
65667533 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65667555 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65667592 original size:71 final size:70
Alignment explanation
Indices: 65667391--65667588 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
65667381 CGATTTGTCT
* * *
65667391 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
65667456 CTTTCA
65 CTTTCA
* * *
65667462 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
65667527 CTTTCA
65 CTTTCA
* *
65667533 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
65667589 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65675013 original size:66 final size:68
Alignment explanation
Indices: 65674937--65675123 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
65674927 TAGTACCACT
*
65674937 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
65674999 CACG
65 CACG
65675003 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
65675068 ATCACG
63 ATCACG
65675074 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
65675124 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:65675048 original size:71 final size:71
Alignment explanation
Indices: 65674960--65675123 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65674950 CGATTTGTCT
65674960 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65675025 CTTTCA
66 CTTTCA
65675031 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65675096 CTTTCA
66 CTTTCA
65675102 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65675124 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65675161 original size:71 final size:70
Alignment explanation
Indices: 65674960--65675157 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
65674950 CGATTTGTCT
* * *
65674960 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
65675025 CTTTCA
65 CTTTCA
* * *
65675031 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
65675096 CTTTCA
65 CTTTCA
* *
65675102 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
65675158 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65696041 original size:40 final size:40
Alignment explanation
Indices: 65695996--65696071 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
65695986 TATACATAAA
65695996 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
* * * * *
65696036 TAGCCGAAGTTATTTCGAATTGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCA
65696072 TTTTTTTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
Found at i:65699643 original size:42 final size:42
Alignment explanation
Indices: 65699596--65699707 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
65699586 TCGTTTACTT
*
65699596 GATGCCATAGT-CCA-ACTATGGTCTTACAT-AAAGTCTCACATC
1 GATGCCAT-GTCCCAGAC-ATGGTCTTACATGAAA-TCACACATC
* *
65699638 GATGCCATGTCCCAGACATGGTCTTATATGAAATCACATATC
1 GATGCCATGTCCCAGACATGGTCTTACATGAAATCACACATC
*** *
65699680 GATGCCGCATCCCAGACACGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
65699708 CAAAATCTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 52 0.88
43 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
GATGCCATGTCCCAGACATGGTCTTACATGAAATCACACATC
Found at i:65699714 original size:42 final size:42
Alignment explanation
Indices: 65699615--65699768 Score: 128
Period size: 42 Copynumber: 3.7 Consensus size: 42
65699605 GTCCAACTAT
* * ** *
65699615 GGTCTTACATAAAGTCTCACATCGATGCCATGTCCCAGACAT
1 GGTCTTACATAAAATCTCATATCGATGCCACATCCCAGACAC
* * * *
65699657 GGTCTTATATGAAATCACATATCGATGCCGCATCCCAGACAC
1 GGTCTTACATAAAATCTCATATCGATGCCACATCCCAGACAC
* * * * * * * *
65699699 GGTCTTACACAAAATCTCATACCAAAGCCATATCCAAGATAT
1 GGTCTTACATAAAATCTCATATCGATGCCACATCCCAGACAC
** *
65699741 GGTCTTACATGTAATCTCATATAGATGC
1 GGTCTTACATAAAATCTCATATCGATGC
65699769 TGATGTCATA
Statistics
Matches: 84, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (42 bp):
GGTCTTACATAAAATCTCATATCGATGCCACATCCCAGACAC
Found at i:65699806 original size:48 final size:48
Alignment explanation
Indices: 65699727--65699912 Score: 284
Period size: 48 Copynumber: 3.9 Consensus size: 48
65699717 ATACCAAAGC
* ** *
65699727 CATATCCAAGATATGGTCTTACATGTA-ATCTCATATAGATGCTGATGT
1 CATATCCCAGATATGGTCTTACA-CAAGATCTCATATCGATGCTGATGT
65699775 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
* *
65699823 CATATCCCAGATATGGTTTTACACAAGATCTCATATCGATGCTGATGC
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
* *
65699871 CATATGCCAGATATGGTCTTACACAGGATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGC
65699913 CATGTACCAG
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 1 0.01
48 127 0.99
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
Found at i:65699992 original size:37 final size:37
Alignment explanation
Indices: 65699925--65700047 Score: 151
Period size: 37 Copynumber: 3.4 Consensus size: 37
65699915 TGTACCAGAC
* * *
65699925 ATGGTCTTACAC-ATATCACAATGCCATAGCCTAGCT
1 ATGGTCTTACACGCTATCACGATGCCATAGCCCAGCT
* * *
65699961 ATGGTCTTACATG-TCATCATGATGCCATAGCCCAACT
1 ATGGTCTTACACGCT-ATCACGATGCCATAGCCCAGCT
* *
65699998 ATGGTCTTACACGCTATTACGATGCCATAGCCGAGCT
1 ATGGTCTTACACGCTATCACGATGCCATAGCCCAGCT
65700035 ATGGTCTTACACG
1 ATGGTCTTACACG
65700048 TGCCACATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.16
37 61 0.82
38 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (37 bp):
ATGGTCTTACACGCTATCACGATGCCATAGCCCAGCT
Found at i:65702468 original size:22 final size:22
Alignment explanation
Indices: 65702440--65702491 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
65702430 TTACAAAGAT
65702440 GCATCATGATGCGATCCCGGTC
1 GCATCATGATGCGATCCCGGTC
65702462 GCATCATGATGCGATCCCGGTC
1 GCATCATGATGCGATCCCGGTC
65702484 GCATCATG
1 GCATCATG
65702492 TTTCGGTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (22 bp):
GCATCATGATGCGATCCCGGTC
Found at i:65703915 original size:29 final size:29
Alignment explanation
Indices: 65703882--65703939 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
65703872 ATAACCAAAC
* *
65703882 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
65703911 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
65703940 ATTTGAATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.29
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:65703934 original size:15 final size:15
Alignment explanation
Indices: 65703888--65703935 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65703878 AAACCTACAA
*
65703888 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
65703903 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
65703917 AAACTTCATATCCAT
1 AAACTTCATATCCAT
65703932 AAAC
1 AAAC
65703936 CCATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:65705277 original size:30 final size:28
Alignment explanation
Indices: 65705241--65705296 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
65705231 AAGCGAAAAA
* *
65705241 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
65705271 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
65705297 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:65711959 original size:43 final size:43
Alignment explanation
Indices: 65711794--65711951 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 43
65711784 GAATTAAGAA
* * * * * *
65711794 ATCCGAGCTCGTTGAGCGATCTGAGTTCATGATATATGTGAGA
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGAGAGC
* * * * * *
65711837 ATCAGAACTTGTTGAGTGGTCCAAGTTCATGATATATAAG-GC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGAGAGC
* * * * *
65711879 ATCTGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGAGAGC
65711922 ATCCGAGCTCGTTGAGTGGTCCGAGTTCAT
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCAT
65711952 TATGGATGTG
Statistics
Matches: 92, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 31 0.34
43 61 0.66
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
ATCCGAGCTCGTTGAGTGGTCCGAGTTCATGATAGATGAGAGC
Found at i:65725386 original size:15 final size:14
Alignment explanation
Indices: 65725366--65725436 Score: 97
Period size: 15 Copynumber: 4.8 Consensus size: 14
65725356 GTATTGTATA
65725366 TTGGATTTCTATATC
1 TTGGATTTCT-TATC
65725381 TTGGATTTCTGTATC
1 TTGGATTTCT-TATC
65725396 TTGGATTTCTTCATC
1 TTGGATTTCTT-ATC
*
65725411 TTGGATTTTTCTATC
1 TTGGATTTCT-TATC
65725426 TTGGATTTCTT
1 TTGGATTTCTT
65725437 TATTTTAGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
14 2 0.04
15 48 0.94
16 1 0.02
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.56
Consensus pattern (14 bp):
TTGGATTTCTTATC
Found at i:65725400 original size:30 final size:30
Alignment explanation
Indices: 65725360--65725436 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
65725350 GGTACGGTAT
*
65725360 TGTATATTGGATTTCTAT-ATCTTGGATTTC
1 TGTATCTTGGATTTCT-TCATCTTGGATTTC
*
65725390 TGTATCTTGGATTTCTTCATCTTGGATTTT
1 TGTATCTTGGATTTCTTCATCTTGGATTTC
*
65725420 TCTATCTTGGATTTCTT
1 TGTATCTTGGATTTCTT
65725437 TATTTTAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 1 0.02
30 42 0.98
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.56
Consensus pattern (30 bp):
TGTATCTTGGATTTCTTCATCTTGGATTTC
Found at i:65728586 original size:42 final size:43
Alignment explanation
Indices: 65728473--65728588 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
65728463 GGAATTAAGA
* * *
65728473 AATCCGAGCTCGTTGAGCGGTCCGAGTTCATGATATATGTGAG
1 AATCCGAGCTCTTTGAGTGGTCCGAGTTCATGATATATGAGAG
* * *
65728516 AATCCAAACT-TGTTGAGTGGTCCAAGTTCATGATATATGAG-G
1 AATCCGAGCTCT-TTGAGTGGTCCGAGTTCATGATATATGAGAG
* *
65728558 CATCTGAGCTCTTTGAGTGGTCCGAGTTCAT
1 AATCCGAGCTCTTTGAGTGGTCCGAGTTCAT
65728589 AATGGATGCG
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
AATCCGAGCTCTTTGAGTGGTCCGAGTTCATGATATATGAGAG
Found at i:65728634 original size:51 final size:51
Alignment explanation
Indices: 65728558--65728657 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
65728548 ATATATGAGG
* *
65728558 CATCTGAGCTCTTTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAA
1 CATCTGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAA
* * *
65728609 CATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGTGTTACATGT
1 CATCTGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGT
65728658 TATAAGGTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (51 bp):
CATCTGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAA
Found at i:65730929 original size:53 final size:52
Alignment explanation
Indices: 65730750--65731004 Score: 223
Period size: 55 Copynumber: 4.8 Consensus size: 52
65730740 ATTAGGGTTT
* * * *
65730750 AAGGATACCATGTAAGACTATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCTAAGGC
* * * * *
65730805 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C--TAAGGC
* * *
65730860 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC-TAAGGC
* *
65730913 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCT-AAGGC
* * * * *
65730962 AAGGATACCAAGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
65731005 GTACCCACGT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
51 1 0.01
52 8 0.05
53 44 0.26
54 8 0.05
55 64 0.38
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAAGGC
Found at i:65730956 original size:108 final size:110
Alignment explanation
Indices: 65730757--65730957 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
65730747 TTTAAGGATA
* * * *
65730757 CCATGTAAGACTATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
65730822 CCATGTCAAGACATGACATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* *
65730867 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
65730929 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
65730958 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:65739996 original size:55 final size:54
Alignment explanation
Indices: 65739909--65740163 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
65739899 ATTAGGGTTT
*
65739909 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
65739964 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
65740019 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
65740072 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
65740121 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
65740164 GTACCCGCGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:65740115 original size:108 final size:110
Alignment explanation
Indices: 65739916--65740116 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
65739906 TTTAAGGATA
*
65739916 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
65739981 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
65740026 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
65740088 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
65740117 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:65740376 original size:16 final size:16
Alignment explanation
Indices: 65740355--65740385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65740345 ATAAATTTGA
65740355 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
65740371 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
65740386 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:65748859 original size:37 final size:36
Alignment explanation
Indices: 65748809--65748895 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
65748799 TACGAAGTCT
65748809 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65748845 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65748882 TCACCCGGAGCATA
1 T-ACCCGGA-CATA
65748896 TTTCCAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:65749041 original size:49 final size:49
Alignment explanation
Indices: 65748970--65749217 Score: 442
Period size: 49 Copynumber: 5.0 Consensus size: 49
65748960 ACATATATAG
*
65748970 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
65749019 ATATACATTTTCACATTCATCACATCGGCCTTTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
65749068 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
65749117 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* * *
65749166 ATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATATACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATAT
65749216 AT
1 AT
65749218 TATTATGTAC
Statistics
Matches: 192, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 184 0.96
50 8 0.04
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (49 bp):
ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:65752397 original size:40 final size:41
Alignment explanation
Indices: 65752348--65752453 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
65752338 GACTCGCTCG
* *
65752348 ATTGTCTTCGGGACATAGCCCGG-TTATAGTGA-TTCGCACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTGACTTAGCACA
*
65752388 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTTACTTAGCACA
1 ATTGCCTTCGGGACA-TAGCCCGGATTTAGTGACTTAGCACA
** * *
65752429 AAAGCCTTCGGGACTTAGCCTGGAT
1 ATTGCCTTCGGGACATAGCCCGGAT
65752454 ACCATTCGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 1 0.02
40 25 0.45
41 29 0.53
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (41 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTGACTTAGCACA
Found at i:65753240 original size:40 final size:40
Alignment explanation
Indices: 65753196--65753546 Score: 560
Period size: 40 Copynumber: 8.8 Consensus size: 40
65753186 CCAGCATGAT
* * * * *
65753196 TGCTCTTCGGGACCTAGCCCGGACACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
*
65753236 TGCTCTTCGGAACTTAGTCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
* *
65753276 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
*
65753316 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
*
65753356 TGCTCTTCGGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
* *
65753396 TGCTCTTCGAAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
*
65753436 TGCTCTTCGGAACTTAGTCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
*
65753476 TGCTCTT-GGAATTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
*
65753515 TGCTCTTCGGAACTTAGTCCGGATATATCATT
1 TGCTCTTCGGAACTTAGCCCGGATATATCATT
65753547 CTCAATTCTC
Statistics
Matches: 292, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 37 0.13
40 255 0.87
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCATTAGCACGAA
Found at i:65755470 original size:37 final size:36
Alignment explanation
Indices: 65755420--65755506 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
65755410 TACGAAGTCT
65755420 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65755456 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65755493 TCACCCGGAGCATA
1 T-ACCCGGA-CATA
65755507 TTTCCAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:65755633 original size:49 final size:49
Alignment explanation
Indices: 65755580--65755827 Score: 451
Period size: 49 Copynumber: 5.0 Consensus size: 49
65755570 ACATATATAG
*
65755580 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
65755629 ATATACATTTTCACATTCATCACATCGGCCTTTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
65755678 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
65755727 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
65755776 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATATACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATAT
65755826 AT
1 AT
65755828 TATTATGTAC
Statistics
Matches: 193, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
49 185 0.96
50 8 0.04
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (49 bp):
ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:65758551 original size:55 final size:54
Alignment explanation
Indices: 65758464--65758718 Score: 226
Period size: 55 Copynumber: 4.8 Consensus size: 54
65758454 ATTAGGGTTT
* *
65758464 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
65758519 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGAA
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGG-C
** * *
65758575 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
65758627 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
65758676 AAGGATAA-AAGGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGA-AACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
65758719 GTACCCGCGT
Statistics
Matches: 167, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 7 0.04
53 40 0.24
54 12 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:65758670 original size:108 final size:110
Alignment explanation
Indices: 65758471--65758671 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
65758461 TTTAAGGATA
*
65758471 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
65758536 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
* *
65758581 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
65758643 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
65758672 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:65758930 original size:16 final size:16
Alignment explanation
Indices: 65758909--65758939 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65758899 ATAAATTTGA
65758909 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
65758925 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
65758940 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:65762470 original size:29 final size:29
Alignment explanation
Indices: 65762437--65762597 Score: 189
Period size: 29 Copynumber: 5.6 Consensus size: 29
65762427 GTGACGAGAT
65762437 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65762466 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65762495 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
65762524 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * * **
65762553 TGGCACTATGTGTGTGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
65762582 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65762598 AAATCGAGTA
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 2 0.02
29 113 0.98
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65766510 original size:30 final size:28
Alignment explanation
Indices: 65766457--65766512 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
65766447 TTCTTCCACG
* *
65766457 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
65766485 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
65766513 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:65767562 original size:16 final size:18
Alignment explanation
Indices: 65767541--65767574 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
65767531 TATGTTCAAA
65767541 TTTTCAG-A-TTTTGTTT
1 TTTTCAGAATTTTTGTTT
65767557 TTTTCAGAATTTTTGTTT
1 TTTTCAGAATTTTTGTTT
65767575 GAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTCAGAATTTTTGTTT
Found at i:65767835 original size:15 final size:15
Alignment explanation
Indices: 65767815--65767861 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65767805 TCAAAGATGG
65767815 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* *
65767830 GTTTATGTAGATG--
1 GTTTATGGATATGAA
*
65767843 GTTTATGGATATAAA
1 GTTTATGGATATGAA
65767858 GTTT
1 GTTT
65767862 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
13 10 0.40
15 15 0.60
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.45
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:65767850 original size:28 final size:29
Alignment explanation
Indices: 65767809--65767867 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
65767799 AAGGATTCAA
*
65767809 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
65767838 AGAT-GGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
65767866 AG
1 AG
65767868 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:65769321 original size:30 final size:30
Alignment explanation
Indices: 65769285--65769372 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
65769275 TCGCATCATA
65769285 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * *
65769315 TTCAGCTTAAGAGTTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* *
65769345 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
65769373 TTTGAGTTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:65770928 original size:10 final size:10
Alignment explanation
Indices: 65770913--65770937 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65770903 GCTNCATTTG
65770913 AGCTCGTTTC
1 AGCTCGTTTC
65770923 AGCTCGTTTC
1 AGCTCGTTTC
65770933 AGCTC
1 AGCTC
65770938 AACCGAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.32, G:0.20, T:0.36
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:65773796 original size:30 final size:30
Alignment explanation
Indices: 65773711--65773807 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65773701 TAAACTAAAA
* *
65773711 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
65773741 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
65773771 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
65773800 ATGAGCTA
1 -TGAGCTA
65773808 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:65774595 original size:42 final size:42
Alignment explanation
Indices: 65774480--65774599 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
65774470 GTCTGAGACA
* * *
65774480 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGATTCAGATT
* *
65774522 TACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCAGATT
1 T-CGTGTAAGACCATGTCTGGGACATAGGCATCGAT-TCAGATT
* * *
65774565 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGAT
65774600 ATTGAATTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATAGGCATCGATTCAGATT
Found at i:65776466 original size:51 final size:50
Alignment explanation
Indices: 65776326--65776466 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 50
65776316 GTAGCTGAAG
*
65776326 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCA
1 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACA
** * * *
65776376 CTATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACA
1 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACA
* * * *
65776426 GTTTTTGGGTATGCATAGTAGCCTGCACTTAGTACTACACA
1 CTATCT-GGTACGCATAGTAGCCTGCACTTAGTACTACACA
65776467 TGCGACCTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 47 0.62
51 29 0.38
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACA
Found at i:65778654 original size:64 final size:65
Alignment explanation
Indices: 65778459--65778662 Score: 374
Period size: 65 Copynumber: 3.2 Consensus size: 65
65778449 GCCGTGGGCT
65778459 AAAGTCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAA
1 AAAGTCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAA
*
65778524 AAAGTCAGTAGCTAGCTAAGTATCACACAGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAA
1 AAAGTCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAA
* *
65778589 AAAGTCAATAGCTAGCTATGTATCACA-GGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAA
1 AAAGTCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAA
65778653 AAAGTCAGTA
1 AAAGTCAGTA
65778663 TAGGACCTAT
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
64 45 0.34
65 89 0.66
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (65 bp):
AAAGTCAGTAGCTAGCTAAGTATCACACGGCCATAGTACACGAGCGTGCCTATTGGCCGTGTGAA
Found at i:65780236 original size:30 final size:31
Alignment explanation
Indices: 65780202--65780298 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
65780192 AGCTCACTCC
*
65780202 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
65780232 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
65780262 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
65780292 TAGCTCA
1 TAGCTCA
65780299 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:65782822 original size:6 final size:5
Alignment explanation
Indices: 65782798--65782860 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
65782788 AAGAGAAAAC
*
65782798 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGA-A AAAGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA
65782846 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
65782861 GAGGCAAGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.08
5 25 0.50
6 20 0.40
7 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:65782828 original size:12 final size:10
Alignment explanation
Indices: 65782798--65782860 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
65782788 AAGAGAAAAC
65782798 AAAGAAAAGA
1 AAAGAAAAGA
65782808 AAAGAAAAAGCA
1 AAAG-AAAAG-A
65782820 AAAGCAAAAGA
1 AAAG-AAAAGA
*
65782831 AGA-AAAAGA
1 AAAGAAAAGA
65782840 AAATGAAATA-A
1 AAA-GAAA-AGA
65782851 AAAGAAAAGA
1 AAAGAAAAGA
65782861 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 9 0.20
10 9 0.20
11 15 0.34
12 11 0.25
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:65782937 original size:12 final size:12
Alignment explanation
Indices: 65782929--65782953 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65782919 TTTGAAAAGC
65782929 AAAAAGAAAATG
1 AAAAAGAAAATG
65782941 AAAAAGAAAATG
1 AAAAAGAAAATG
65782953 A
1 A
65782954 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:65782950 original size:18 final size:18
Alignment explanation
Indices: 65782923--65782978 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
65782913 AAAGCCTTTG
65782923 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
65782942 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
65782960 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
65782977 AA
1 AA
65782979 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:65782963 original size:30 final size:31
Alignment explanation
Indices: 65782929--65783010 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
65782919 TTTGAAAAGC
*
65782929 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
65782959 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
**
65782989 AAAAAGAAGCTGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
65783011 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.63, C:0.02, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:65793611 original size:20 final size:21
Alignment explanation
Indices: 65793575--65793613 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65793565 GAGCTGAAAT
65793575 GAGCTAAATTCGAACTCAAAC
1 GAGCTAAATTCGAACTCAAAC
*
65793596 GAGCTGAATT-GAACTCAA
1 GAGCTAAATTCGAACTCAA
65793614 GTGAACTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
GAGCTAAATTCGAACTCAAAC
Found at i:65795369 original size:30 final size:30
Alignment explanation
Indices: 65795285--65795380 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
65795275 AAACTAAAAC
* *
65795285 GAGCTAAGCTTTAGCTCGTGAGCTAAAGTT
1 GAGCTAAGATTTAGCTCGTGAGCTGAAGTT
* * * * *
65795315 GAGCTGAGATTAAACTCCTAAGCTGAAGTT
1 GAGCTAAGATTTAGCTCGTGAGCTGAAGTT
* *
65795345 GAGCTAAGGTTTAGCTTGTGAGCTGAA-TAT
1 GAGCTAAGATTTAGCTCGTGAGCTGAAGT-T
65795375 GAGCTA
1 GAGCTA
65795381 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GAGCTAAGATTTAGCTCGTGAGCTGAAGTT
Found at i:65796131 original size:30 final size:30
Alignment explanation
Indices: 65796097--65796193 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65796087 AGCTCACTCC
65796097 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
65796127 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
65796157 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
65796187 TAGCTCA
1 TAGCTCA
65796194 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:65798513 original size:21 final size:21
Alignment explanation
Indices: 65798459--65798507 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
65798449 GAAAACAAAA
*
65798459 GGCTATTTAGCTACCTAAAGT
1 GGCTATTTAGCTACCTAAAGC
65798480 GGCTATTTAGCTACCTAAAGC
1 GGCTATTTAGCTACCTAAAGC
65798501 GGCTATT
1 GGCTATT
65798508 CGGCTAGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
GGCTATTTAGCTACCTAAAGC
Found at i:65802307 original size:34 final size:31
Alignment explanation
Indices: 65802243--65802307 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
65802233 AATGTTGAAG
*
65802243 AGTCTTCCAATGTGAACAAGGTGAACCGAAT
1 AGTCTTCCAATGTGAACAAGGTGAAACGAAT
65802274 AGTCTTGCC-ATGTGAACATAGGTGTGAAACGAAT
1 AGTCTT-CCAATGTGAACA-A-G-GTGAAACGAAT
65802308 TAAGGAGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 15 0.52
32 3 0.10
33 1 0.03
34 10 0.34
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (31 bp):
AGTCTTCCAATGTGAACAAGGTGAAACGAAT
Found at i:65810011 original size:30 final size:30
Alignment explanation
Indices: 65809904--65810012 Score: 96
Period size: 30 Copynumber: 3.6 Consensus size: 30
65809894 TAAACTAAAA
* * * *
65809904 TGAGCTAAGCTTTAGCTCTTGAGCTAAAGT
1 TGAGCTAAGGTTAAGCTCGTGAGCTGAAGT
* * * * *
65809934 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTAAGCTCGTGAGCTGAAGT
*
65809964 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTAAGCTCGTGAGCTGAAGT
65809993 ATGAGCTAAGAG-TAAGCTCG
1 -TGAGCTAAG-GTTAAGCTCG
65810013 GTTTAGCTCA
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
29 1 0.02
30 60 0.97
31 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTAAGCTCGTGAGCTGAAGT
Found at i:65811251 original size:33 final size:33
Alignment explanation
Indices: 65811209--65811280 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
65811199 AAGCTAAGTG
*
65811209 CATGCACGACTTA-GTTCAATGG-TTGGGAGGATT
1 CATGCACGAC-TAGGTTCAA-GGCTTAGGAGGATT
65811242 CATGCACGACTAGGTTCAAGGCTTAGGAGGATT
1 CATGCACGACTAGGTTCAAGGCTTAGGAGGATT
65811275 CATGCA
1 CATGCA
65811281 TGGCTTGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (33 bp):
CATGCACGACTAGGTTCAAGGCTTAGGAGGATT
Found at i:65811659 original size:43 final size:43
Alignment explanation
Indices: 65811611--65811697 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
65811601 ACTCCTCATG
*
65811611 CAATCCAAATACATTCAGCTGAATTCCTTCATCAAGAAGCTAA
1 CAATCCAAATACATTCAGCCGAATTCCTTCATCAAGAAGCTAA
*
65811654 CAATCCAAATATATTCAGCCGAATTCCTTCATCAAGAAGCTAA
1 CAATCCAAATACATTCAGCCGAATTCCTTCATCAAGAAGCTAA
65811697 C
1 C
65811698 TTGTGGCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.25
Consensus pattern (43 bp):
CAATCCAAATACATTCAGCCGAATTCCTTCATCAAGAAGCTAA
Found at i:65815517 original size:421 final size:407
Alignment explanation
Indices: 65814747--65815580 Score: 1299
Period size: 421 Copynumber: 2.0 Consensus size: 407
65814737 TGAAGGTGAC
* *
65814747 TATTTGGATGAAGGTGTAGCTGAACATGGACAAGCTTATTAAGTGTTGAATTTTCTAGAATTTTC
1 TATTTGGATGAAGGTGCAGCCGAACATGGACAAGCTTATTAAGTGTTGAATTTTCTAGAATTTTC
65814812 AAGAACATTCAAGGCTTATCTTACTTAGTTCATAAGCTATGAACTTGCCTTTTCGGCTGAAAATT
66 AAGAACATTCAAGGCTTATCTTACTTAGTTCATAAGCTATGAACTTGCCTTTTCGGCTGAAAATT
*
65814877 CAGCTACTTGCATTGTGTAAAGGACTTTTTTGCCAAAATTATAGCCGAACCTTTGTTCGTGAGAG
131 CAGCCACTTGCATTGTGTAAAGGACTTTTTTGCCAAAATTATAGCCGAACCTTTGTTCGTGAGAG
* * * *
65814942 AATTTTATTTTCTAAGTCTCTTTTAAGATTTTGTTGGCTTATCTACCTAATAATGGCGTTAACCT
196 AATTGTATTCTCTAAGTCTCGTTTAAGATTTTGTTGGCTTATCTACCTAATAATGGCGTCAACCT
65815007 ATTTCTTTTACAAAACCGAACTTATCAATAGCTTTTAGTGTGGCATTCAAAACACTCCATATCGA
261 ATTTCTTTTACAAAACCGAACTTATCAATAGCTTTTAGTGTGGCATTCAAAACACTCCATATCGA
* *
65815072 GGTTCCTATCTATCTAGATAGTGGGTCGAGGTCCATTTTGTTTCAACCATCCTATCTTAAGAACT
326 GGTTCCTATCTACCTAGATAGTGGGTCGAGGTCCATTTTGTTTCAACCATCCCATCTTAAGAACT
*
65815137 AATAAGTCTCGGGTCGA
391 AATAAGTCTCAGGTCGA
* * *
65815154 TATTTGGATGAAGGTGCAGCCGAATATGTACAAGCTTATTAAGTGTTGAATTTTCTAGAATTTTT
1 TATTTGGATGAAGGTGCAGCCGAACATGGACAAGCTTATTAAGTGTTGAATTTTCTAGAATTTTC
* * *
65815219 AAGAACATTCAAGGCTTATCTTACTTAGTTCATAAGTTATGAATTTGCCTTTTCAGCTGGATTTG
66 AAGAACATTCAAGGCTTATCTTACTTAGTTCATAAGCTATGAACTTGCCTTTT---C-GG--CTG
* * *
65815284 TAAGGCCTATAATTCGGCCATTTGCATTGTGTAAAGGACTTTTTTGCCAAAATTATATCCGAACC
125 --A-----A-AATTCAGCCACTTGCATTGTGTAAAGGACTTTTTTGCCAAAATTATAGCCGAACC
* * *
65815349 TTTGTTCTTGAGAGAATTGTCTTCTCTAAGTCTCGTTTAAGATTTTGTTGGCTTATCTACCTAGT
182 TTTGTTCGTGAGAGAATTGTATTCTCTAAGTCTCGTTTAAGATTTTGTTGGCTTATCTACCTAAT
* * *
65815414 AGTGGCGTCAACCTATTTCTTTTACGAAACCGAACTTATCACTAGCTTTTAGTGTGGCATTCAAA
247 AATGGCGTCAACCTATTTCTTTTACAAAACCGAACTTATCAATAGCTTTTAGTGTGGCATTCAAA
* *
65815479 ACACTCCATATCGAGGTTCCTATCTGCCTAGATAGTGGGTTGAGGTCCATTTTGTTTCAACCATC
312 ACACTCCATATCGAGGTTCCTATCTACCTAGATAGTGGGTCGAGGTCCATTTTGTTTCAACCATC
65815544 CCATCTTAAGAACTAATAAGTCTCAGGTCGA
377 CCATCTTAAGAACTAATAAGTCTCAGGTCGA
65815575 TATTTG
1 TATTTG
65815581 CTAATATCGG
Statistics
Matches: 386, Mismatches: 27, Indels: 14
0.90 0.06 0.03
Matches are distributed among these distances:
407 111 0.29
410 1 0.00
411 2 0.01
413 2 0.01
415 1 0.00
420 1 0.00
421 268 0.69
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (407 bp):
TATTTGGATGAAGGTGCAGCCGAACATGGACAAGCTTATTAAGTGTTGAATTTTCTAGAATTTTC
AAGAACATTCAAGGCTTATCTTACTTAGTTCATAAGCTATGAACTTGCCTTTTCGGCTGAAAATT
CAGCCACTTGCATTGTGTAAAGGACTTTTTTGCCAAAATTATAGCCGAACCTTTGTTCGTGAGAG
AATTGTATTCTCTAAGTCTCGTTTAAGATTTTGTTGGCTTATCTACCTAATAATGGCGTCAACCT
ATTTCTTTTACAAAACCGAACTTATCAATAGCTTTTAGTGTGGCATTCAAAACACTCCATATCGA
GGTTCCTATCTACCTAGATAGTGGGTCGAGGTCCATTTTGTTTCAACCATCCCATCTTAAGAACT
AATAAGTCTCAGGTCGA
Found at i:65816339 original size:7 final size:6
Alignment explanation
Indices: 65816312--65816400 Score: 58
Period size: 6 Copynumber: 14.0 Consensus size: 6
65816302 TTTTTCACAA
*
65816312 TCTTTT TCTTTT TCTTCTT TCTCTTT TC-TTG TCTTTT TCTGATTT TCTTTT
1 TCTTTT TCTTTT TCTT-TT TCT-TTT TCTTTT TCTTTT TCT--TTT TCTTTT
* *
65816363 ATCATTTT TC-CTC TCTTTT TCTCATTT TC-TTT TCTTTT
1 -TC-TTTT TCTTTT TCTTTT TCT--TTT TCTTTT TCTTTT
65816401 GTATTTTCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 22
0.70 0.06 0.23
Matches are distributed among these distances:
5 12 0.18
6 25 0.38
7 13 0.20
8 16 0.24
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.72
Consensus pattern (6 bp):
TCTTTT
Found at i:65816372 original size:33 final size:31
Alignment explanation
Indices: 65816312--65816395 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 31
65816302 TTTTTCACAA
* *
65816312 TCTTTTTCT-TTTTCTTCTTTCTCTTTTCTTG
1 TCTTTTTCTATTTTCTT-TTTCTCTTTTCCTC
65816343 TCTTTTTCTGATTTTCTTTTATCAT-TTTTCCTC
1 TCTTTTTCT-ATTTTCTTTT-TC-TCTTTTCCTC
65816376 TCTTTTTCTCATTTTCTTTT
1 TCTTTTTCT-ATTTTCTTTT
65816396 CTTTTGTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 9 0.20
32 2 0.04
33 34 0.74
34 1 0.02
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.71
Consensus pattern (31 bp):
TCTTTTTCTATTTTCTTTTTCTCTTTTCCTC
Found at i:65817820 original size:18 final size:18
Alignment explanation
Indices: 65817799--65817837 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
65817789 AAAATGAGAT
65817799 TGAGAGTGAAAAAGAAAA
1 TGAGAGTGAAAAAGAAAA
* *
65817817 TGAGATTGAAAAAGAGAA
1 TGAGAGTGAAAAAGAAAA
65817835 TGA
1 TGA
65817838 AAAAGAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (18 bp):
TGAGAGTGAAAAAGAAAA
Found at i:65817839 original size:24 final size:24
Alignment explanation
Indices: 65817785--65817862 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
65817775 AATGAAGGAA
* *
65817785 AAAGAAAATGAGATTGAGAGTGAA
1 AAAGAAAATGAGATTGAGAGAGAG
* *
65817809 AAAGAAAATGAGATTGAAAAAGAG
1 AAAGAAAATGAGATTGAGAGAGAG
* * *
65817833 AATGAAAAAGAGTTTGAGAGAGAG
1 AAAGAAAATGAGATTGAGAGAGAG
65817857 AAAGAA
1 AAAGAA
65817863 TGTGAACAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (24 bp):
AAAGAAAATGAGATTGAGAGAGAG
Found at i:65820338 original size:14 final size:14
Alignment explanation
Indices: 65820319--65820363 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65820309 AACTCATCTT
*
65820319 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
65820333 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
65820346 AATTTAATTTAATG
1 AGTTTAATTTAATG
65820360 AGTT
1 AGTT
65820364 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:65822221 original size:30 final size:30
Alignment explanation
Indices: 65822154--65822230 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
65822144 TTCGTATCAC
* *
65822154 CTTAGCTCAACTTCAGCTTAGGAGTATAAT
1 CTTAGCTCAACTTTAGCTTAGGAGTATAAG
*
65822184 CTCAGCTCAACTTTAGCTTAAGG-GCTA-AAG
1 CTTAGCTCAACTTTAGCTT-AGGAG-TATAAG
*
65822214 CTTAGCTC-ATTTTAGCT
1 CTTAGCTCAACTTTAGCT
65822231 CAAACTCGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 8 0.20
30 27 0.68
31 5 0.12
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (30 bp):
CTTAGCTCAACTTTAGCTTAGGAGTATAAG
Found at i:65823222 original size:30 final size:30
Alignment explanation
Indices: 65823188--65823284 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65823178 AGCTCACTCC
65823188 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
65823218 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
65823248 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
65823278 TAGCTCA
1 TAGCTCA
65823285 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:65825839 original size:9 final size:10
Alignment explanation
Indices: 65825832--65825888 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
65825822 AAGAGAAAAT
65825832 AAAGAAAAGA
1 AAAGAAAAGA
65825842 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
65825854 AAAGAAGA-A
1 AAAGAAAAGA
65825863 AAAGAAAATGA
1 AAAGAAAA-GA
65825874 AATA-AAAAGA
1 AA-AGAAAAGA
65825884 AAAGA
1 AAAGA
65825889 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:65825856 original size:6 final size:5
Alignment explanation
Indices: 65825832--65825888 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65825822 AAGAGAAAAT
*
65825832 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
65825879 AAAGA AAAGA
1 AAAGA AAAGA
65825889 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:65825863 original size:15 final size:14
Alignment explanation
Indices: 65825832--65825888 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65825822 AAGAGAAAAT
65825832 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
65825848 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
65825863 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
65825879 AAAGAAAAGA
1 AAAGAAAAGA
65825889 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:65825968 original size:11 final size:12
Alignment explanation
Indices: 65825936--65825966 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65825926 TTGAGAGAAC
65825936 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65825948 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65825960 TTGAAAA
1 TTGAAAA
65825967 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:65825977 original size:12 final size:12
Alignment explanation
Indices: 65825969--65825993 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65825959 TTTGAAAAGC
65825969 AAAAAGAAAATG
1 AAAAAGAAAATG
65825981 AAAAAGAAAATG
1 AAAAAGAAAATG
65825993 A
1 A
65825994 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:65825990 original size:18 final size:18
Alignment explanation
Indices: 65825963--65826017 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
65825953 AAAGCCTTTG
65825963 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
65825982 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
*
65826000 AAAAG-AGAAGAAAA-GA
1 AAAAGAAAAAGAAAATGA
65826016 AA
1 AA
65826018 TTTGAGAGTG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
16 4 0.14
17 5 0.17
18 15 0.52
19 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:65826012 original size:29 final size:30
Alignment explanation
Indices: 65825969--65826049 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
65825959 TTTGAAAAGC
* *
65825969 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAGAA-GAAAAAGAAATATGAGAGTG
*
65825999 AAAAAGAGAAG-AAAAGAAATTTGAGAGTG
1 AAAAAGAGAAGAAAAAGAAATATGAGAGTG
*
65826028 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAG-AGAAGAAAAAGAAAT
65826050 TGAAACAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
28 8 0.18
29 14 0.32
30 13 0.30
31 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.12
Consensus pattern (30 bp):
AAAAAGAGAAGAAAAAGAAATATGAGAGTG
Found at i:65828188 original size:30 final size:30
Alignment explanation
Indices: 65828154--65828250 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65828144 AGCTCACTCC
65828154 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
65828184 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
65828214 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
65828244 TAGCTCA
1 TAGCTCA
65828251 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:65831895 original size:30 final size:30
Alignment explanation
Indices: 65831799--65831883 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
65831789 TAAACTAAAA
*
65831799 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * *
65831829 TGAGCTGAGGCTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
65831859 TGAGCTAAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGGTTTAGCTCGTGAGCT
65831884 GAATATGAGC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:65832348 original size:27 final size:26
Alignment explanation
Indices: 65832306--65832379 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
65832296 GCTCAGTTGT
* *
65832306 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
65832333 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* * *
65832359 CAAATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
65832380 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:65832377 original size:26 final size:27
Alignment explanation
Indices: 65832324--65832379 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
65832314 GTGACAGAGT
* * *
65832324 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAAATAATGTGGCAAAGC
65832351 CACCAGA-ACAAATAATGTGGCAAAGC
1 CACCAGATACAAATAATGTGGCAAAGC
65832377 CAC
1 CAC
65832380 TTAACAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.14
Consensus pattern (27 bp):
CACCAGATACAAATAATGTGGCAAAGC
Found at i:65832566 original size:22 final size:22
Alignment explanation
Indices: 65832538--65832602 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
65832528 GCAAATACGT
*
65832538 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
65832560 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
65832582 TTGACACAAAGCCATAGTCAG
1 TTGGCACAAAGCCATAATCAG
65832603 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:65833087 original size:27 final size:27
Alignment explanation
Indices: 65833057--65833222 Score: 194
Period size: 27 Copynumber: 6.2 Consensus size: 27
65833047 GGTATCTCGA
*
65833057 TAATTCCACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTTAG
*
65833084 TAATTCTACCCTACAGGGGTA-TTTCG
1 TAATTCTACCCTACAGGGGTATTTTAG
**
65833110 ATAATTCTACCCTACAGGGGTA-TTGCG
1 -TAATTCTACCCTACAGGGGTATTTTAG
* *
65833137 ATAATTCTACCCTACAGAGGTATTTCAG
1 -TAATTCTACCCTACAGGGGTATTTTAG
**
65833165 TAATTCTA-CCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTTAG
* * *
65833191 TATTTCTACCCTACAAGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTTAG
65833218 TAATT
1 TAATT
65833223 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
26 27 0.22
27 94 0.76
28 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTTAG
Found at i:65833152 original size:81 final size:80
Alignment explanation
Indices: 65833031--65833213 Score: 262
Period size: 80 Copynumber: 2.3 Consensus size: 80
65833021 GGCAAAATGG
* * * *
65833031 TAATTTTACCCCACAA-GGTATCT-CGATAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
1 TAATTCTACCCTACAAGGGTAT-TGCGATAATTCCACCCTACAGAGGTATTTCAGTAATTCTA-C
65833094 CTACAGGGGTATTTCGA
64 CTACAGGGGTATTTCGA
* *
65833111 TAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCT
1 TAATTCTACCCTACAAGGGTATTGCGATAATTCCACCCTACAGAGGTATTTCAGTAATTCTACCT
*
65833176 ACAGGGGTATTTCGG
66 ACAGGGGTATTTCGA
*
65833191 TATTTCTACCCTACAAGGGTATT
1 TAATTCTACCCTACAAGGGTATT
65833214 TTGGTAATTT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
80 52 0.57
81 40 0.43
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (80 bp):
TAATTCTACCCTACAAGGGTATTGCGATAATTCCACCCTACAGAGGTATTTCAGTAATTCTACCT
ACAGGGGTATTTCGA
Found at i:65833221 original size:53 final size:54
Alignment explanation
Indices: 65833029--65833222 Score: 232
Period size: 54 Copynumber: 3.6 Consensus size: 54
65833019 GGGGCAAAAT
* * * * * *
65833029 GGTAATTTTACCCCACAA-GGTATCTCGATAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
65833082 AGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
65833136 GATAATTCTACCCTAC-AGAGGTATTTCAGTAATTCTA-CCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
65833189 GGTATTTCTACCCTACAAGGGTATTTTGGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
65833223 TTGTAAATCG
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
53 57 0.47
54 63 0.52
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:65833236 original size:27 final size:27
Alignment explanation
Indices: 65833204--65833601 Score: 291
Period size: 27 Copynumber: 14.7 Consensus size: 27
65833194 TTCTACCCTA
*
65833204 CAAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* ***** *
65833231 CGAGGGTAAAACAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
65833258 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*** * **
65833285 CAAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * ** * *
65833312 CGAGGATATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
65833339 CAGGGGTATTTTGGTAATTTAACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
65833365 CTAGAGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* * *
65833392 CTAGGGGTATTTTGGTAATTTTA-CAAG
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* * *
65833419 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
*
65833447 CAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
65833474 AAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
65833501 CAAGGGTATTTTGGTAAGTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
65833528 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
65833555 CAAAGGTATTTTAGTGATTTTA-CAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
65833581 CTAGGGGTATTTTGGTAATTT
1 C-AAGGGTATTTTGGTAATTT
65833602 GGTAAACTAA
Statistics
Matches: 299, Mismatches: 67, Indels: 10
0.80 0.18 0.03
Matches are distributed among these distances:
26 7 0.02
27 288 0.96
28 4 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:65833293 original size:81 final size:81
Alignment explanation
Indices: 65833204--65833601 Score: 322
Period size: 81 Copynumber: 4.9 Consensus size: 81
65833194 TTCTACCCTA
* *** *
65833204 CAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTACTT
1 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTGTAAATCAAGGGTATTT
*
65833269 TGGTAATTTTACAAGT
66 TGGTAATTTTACAAAT
*** * ** * *** *
65833285 CAAGGGTATTTCAATAATTTTACAGGTCGAGGATATTTCAGTAATTTCACAAATCAGGGGTATTT
1 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTGTAAATCAAGGGTATTT
*
65833350 TGGTAATTTAACAAA-
66 TGGTAATTTTACAAAT
* * * ** * *
65833365 CTAGAGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAA-TTT-TACAAGCTAGGGGT
1 CAAG-GGTATTTTGGTAATTTTATAAATCGA-GGGTATTTCAGTAATTTTGTA-AATC-AAGGGT
*
65833427 ATTTTGGTAATTTTACAAAC
62 ATTTTGGTAATTTTACAAAT
* ** ** *
65833447 CAGGGGTATTTTGGTAATTTTATAAATAAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTGTAAATCAAGGGTATTT
*
65833512 TGGTAAGTTTACAAAT
66 TGGTAATTTTACAAAT
* * * * * * * * *
65833528 TAGGGGTATTTTGGTGATTTTATAAACCAAAGGTATTTTAGTGA-TTT-TACAATCTAGGGGTAT
1 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTGTA-AATC-AAGGGTAT
65833591 TTTGGTAATTT
64 TTTGGTAATTT
65833602 GGTAAACTAA
Statistics
Matches: 256, Mismatches: 51, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
79 3 0.01
80 16 0.06
81 226 0.88
82 9 0.04
83 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTGTAAATCAAGGGTATTT
TGGTAATTTTACAAAT
Found at i:65833608 original size:54 final size:54
Alignment explanation
Indices: 65833261--65833601 Score: 328
Period size: 54 Copynumber: 6.3 Consensus size: 54
65833251 TGTAAATCAA
* * ** *** * *
65833261 GGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAATAATTTTACAGGTCGA-
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACA-ATCTAG
* ** * * * * * *
65833315 GGATATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTAACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAATCTAG
* * * * *
65833369 AGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAGCTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAATCTAG
* * * * *
65833423 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAAT-AAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTA-CAATCTAG
* *
65833477 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAAGTTTACAAAT-TAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTAC-AATCTAG
* * * *
65833531 GGGTATTTTGGTGATTTTATAAACCAAAGGTATTTTAGTGATTTTACAATCTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAATCTAG
65833585 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
65833602 GGTAAACTAA
Statistics
Matches: 240, Mismatches: 43, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
53 5 0.02
54 233 0.97
55 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAATCTAG
Found at i:65838215 original size:55 final size:55
Alignment explanation
Indices: 65838095--65838217 Score: 140
Period size: 55 Copynumber: 2.3 Consensus size: 55
65838085 AAGCCTGCCA
* * ** * *
65838095 AAAC-AACACGGGCGTGCGACACACCCTTGTGGAAGACCCGTGGTTGAAACTGAG
1 AAACTAACACGGGCATGCGACACACCCGTGTCCAACACCCGTGGTTGAAACTGAC
* * * *
65838149 AAACTAGCACGGGCATGCGACACGCCCGTGTCCAACACCCGTGGTTGAACCTGTC
1 AAACTAACACGGGCATGCGACACACCCGTGTCCAACACCCGTGGTTGAAACTGAC
*
65838204 AAATTAACACGGGC
1 AAACTAACACGGGC
65838218 GTGGGGCTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
54 4 0.07
55 52 0.93
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.15
Consensus pattern (55 bp):
AAACTAACACGGGCATGCGACACACCCGTGTCCAACACCCGTGGTTGAAACTGAC
Found at i:65842941 original size:30 final size:30
Alignment explanation
Indices: 65842907--65843002 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
65842897 TAAACTAAAA
65842907 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65842937 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
65842967 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65842997 TGAGCT
1 TGAGCT
65843003 CGATTTTGCT
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65844909 original size:20 final size:19
Alignment explanation
Indices: 65844858--65844911 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
65844848 GCTGAAAGTA
65844858 AGCTCGGTTGAGCTCAAACG
1 AGCT-GGTTGAGCTCAAACG
* * *
65844878 AGTTGGAATGAGCTCAAATG
1 AGCTGG-TTGAGCTCAAACG
65844898 AGCTGAGTTGAGCT
1 AGCTG-GTTGAGCT
65844912 GGACGGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (19 bp):
AGCTGGTTGAGCTCAAACG
Found at i:65846716 original size:30 final size:30
Alignment explanation
Indices: 65846662--65846746 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
65846652 TTCTTTTGTT
*
65846662 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTTCAATC
**
65846692 TCAAATTTCTTTTTGTTC-TCTTTTTCAATC
1 TC-AATTTCTTTTTCATCTTCTTTTTCAATC
* * *
65846722 TCATTTTCTTTTTCTTTTTCTTTTT
1 TCAATTTCTTTTTCATCTTCTTTTT
65846747 GCTTTCCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 12 0.26
30 22 0.47
31 13 0.28
ACGTcount: A:0.12, C:0.21, G:0.01, T:0.66
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTTCAATC
Found at i:65846855 original size:15 final size:14
Alignment explanation
Indices: 65846815--65846860 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
65846805 CTCTTGCCTC
*
65846815 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
65846830 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
65846845 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
65846860 T
1 T
65846861 TGTTTTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:65847804 original size:13 final size:13
Alignment explanation
Indices: 65847772--65847803 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
65847762 CATTAAACAC
65847772 TTTTTTTCAGAAT
1 TTTTTTTCAGAAT
65847785 TTTTTTTC-GAAT
1 TTTTTTTCAGAAT
65847797 TTTTTTT
1 TTTTTTT
65847804 TGGACTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (13 bp):
TTTTTTTCAGAAT
Found at i:65850259 original size:30 final size:30
Alignment explanation
Indices: 65850232--65850319 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
65850222 CTTGCTCATA
65850232 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * *
65850262 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* *
65850292 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
65850320 TTTTAGTTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:65853465 original size:14 final size:14
Alignment explanation
Indices: 65853448--65853487 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
65853438 CGAATGGAAT
65853448 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
65853462 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
65853476 GATATGAACAAA
1 GGTAGGAACAAA
65853488 TTGGTCGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:65856551 original size:40 final size:39
Alignment explanation
Indices: 65856474--65856687 Score: 243
Period size: 40 Copynumber: 5.4 Consensus size: 39
65856464 AAACCAAGTA
* * *
65856474 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATG
* * **
65856513 CCTTTGGGACTTAGCCCGGATATAATAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
65856553 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
* * *
65856593 CCTTTGAGACTGAGCCCGGAATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
* * *
65856633 CCTTCGGGACTTAGCCAGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
65856673 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
65856688 ACCGTTATCA
Statistics
Matches: 152, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 13 0.09
40 139 0.91
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
Found at i:65860956 original size:30 final size:30
Alignment explanation
Indices: 65860870--65860967 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
65860860 TTAAACTAAA
* * *
65860870 ATGAGCTAAGCTTTAGCCCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
65860900 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
65860930 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
65860960 ATGAGCTA
1 ATGAGCTA
65860968 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:65870609 original size:30 final size:30
Alignment explanation
Indices: 65870575--65870659 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
65870565 TAAACTAAAA
* *
65870575 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCATGAGCTAAAGC
* * * * *
65870605 TGAGCTGAGATTAAACTCCTAAGCTAAAGC
1 TGAGCTAAGATTTAGCTCATGAGCTAAAGC
* *
65870635 TGAGCTAAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGATTTAGCTCATGAGCT
65870660 GAATATGAGC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCATGAGCTAAAGC
Found at i:65876985 original size:16 final size:16
Alignment explanation
Indices: 65876966--65876996 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
65876956 ATAAATAATA
65876966 ATAAAATAATTATTTT
1 ATAAAATAATTATTTT
65876982 ATAAAATAATTATTT
1 ATAAAATAATTATTT
65876997 CTATCTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAAAATAATTATTTT
Found at i:65878860 original size:19 final size:19
Alignment explanation
Indices: 65878836--65878875 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65878826 AGCTCCCATG
65878836 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
65878855 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
65878874 TA
1 TA
65878876 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:65880525 original size:12 final size:12
Alignment explanation
Indices: 65880508--65880559 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
65880498 TATACAAGTT
*
65880508 AAAAAAAATTTG
1 AAAAAAAATTCG
65880520 AAAAAAAATTCG
1 AAAAAAAATTCG
65880532 AAAAAAAA-TC-
1 AAAAAAAATTCG
65880542 -AAAAAAA-TCG
1 AAAAAAAATTCG
65880552 AAAAAAAA
1 AAAAAAAA
65880560 GTGATTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 9 0.24
11 9 0.24
12 19 0.51
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTCG
Done.