Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 62 of 253
Found at i:17528942 original size:24 final size:24
Alignment explanation
Indices: 17528910--17528984 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
17528900 TAAACAAGTG
*
17528910 ATTCTATAAGTTTCTTTGTGGCAT
1 ATTCTATAAGTTCCTTTGTGGCAT
*
17528934 ATTCTATAAGCTCCTTTGTGGCAT
1 ATTCTATAAGTTCCTTTGTGGCAT
* * * *
17528958 ATTCTGTAAGTGCCTTCGTGGCGT
1 ATTCTATAAGTTCCTTTGTGGCAT
17528982 ATT
1 ATT
17528985 TGAGGTTGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (24 bp):
ATTCTATAAGTTCCTTTGTGGCAT
Found at i:17530746 original size:46 final size:45
Alignment explanation
Indices: 17530691--17530952 Score: 207
Period size: 46 Copynumber: 5.6 Consensus size: 45
17530681 TGTGTGCGCT
17530691 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGAGAGCC
* * *
17530737 AATGTAAGACCATGTCTGGGACATGGCATCG--GCATTGA-GACGATAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATT-ATGA-G--AGCC
* *
17530785 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCAC-ATTATG-AGAGCC
* * * *
17530831 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC--GA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGA-GAGCC
** *
17530875 AGTGTAAGACATGTCTGGGACATGCATCGGTACGGATATGTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCAC--AT-TATGAGAGCC
17530923 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
17530953 AGCACTATAC
Statistics
Matches: 178, Mismatches: 16, Indels: 40
0.76 0.07 0.17
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 32 0.18
45 6 0.03
46 50 0.28
47 30 0.17
48 29 0.16
49 18 0.10
50 7 0.04
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACATTATGAGAGCC
Found at i:17534390 original size:21 final size:22
Alignment explanation
Indices: 17534357--17534397 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
17534347 TTTCTTTATG
*
17534357 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
17534378 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
17534398 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:17536503 original size:27 final size:27
Alignment explanation
Indices: 17536465--17536542 Score: 147
Period size: 27 Copynumber: 2.9 Consensus size: 27
17536455 CTCATACATA
17536465 ACATAGAAATTACAATCCTTTGTCCTG
1 ACATAGAAATTACAATCCTTTGTCCTG
*
17536492 ACATAGAAATTACAATCCTTTGCCCTG
1 ACATAGAAATTACAATCCTTTGTCCTG
17536519 ACATAGAAATTACAATCCTTTGTC
1 ACATAGAAATTACAATCCTTTGTC
17536543 TTGATCCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (27 bp):
ACATAGAAATTACAATCCTTTGTCCTG
Found at i:17545578 original size:40 final size:40
Alignment explanation
Indices: 17545501--17545723 Score: 285
Period size: 40 Copynumber: 5.6 Consensus size: 40
17545491 CGGATGATAA
* * *
17545501 CCGGGCT-AGTCCCG-AGAGCATTTGAGCTAG-TGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTAATT
* *
17545540 CCGGGCTAAGTCCCAAAGGCACTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
17545580 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
* * *
17545620 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
* * *
17545659 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT-T
17545699 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17545724 AGCTAGTGGC
Statistics
Matches: 168, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
39 45 0.27
40 120 0.71
41 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
Found at i:17545703 original size:79 final size:80
Alignment explanation
Indices: 17545500--17545723 Score: 278
Period size: 79 Copynumber: 2.8 Consensus size: 80
17545490 TCGGATGATA
* * * * * *
17545500 ACCGGGCT-AGTCCCG-AGAGCATTTGAGCTAG-TGGCTAATTCCGGGCTAAGTCCCAAAGGCAC
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGCT-ACTAATACCGGGCTAAGTCCCGAAGGCAT
17545562 TTGTGCGAGCTACTAAT
64 TTGTGCGAGCTACTAAT
* * *
17545579 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTT
* *
17545644 GTGCGAGTTA-TTAT
66 GTGCGAGCTACTAAT
*
17545658 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAT-ACCGGGCTAAGTCCCGAAGGCATT
17545722 TG
65 TG
17545724 AGCTAGTGGC
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
78 2 0.02
79 69 0.53
80 55 0.43
81 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAAT
Found at i:17545737 original size:40 final size:39
Alignment explanation
Indices: 17545497--17545746 Score: 216
Period size: 40 Copynumber: 6.3 Consensus size: 39
17545487 TGTTCGGATG
* *
17545497 ATAACCGGGCT-AGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGC-AGTAGCT
* * *
17545536 A-ATTCCGGGCTAAGTCCCAAAGGCACTTGTGC-G-AGCT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
17545573 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGCT
1 A-TAA--CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
*
17545613 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGTT
1 A-TAA--CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
17545653 ATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
1 A-TA-ACCGGGCTAAGTCCCGAAGGCATTTGTGC-AG-TAGCT
* *
17545695 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTAGCT
*
17545735 ATATCC-GGCTAA
1 ATAACCGGGCTAA
17545747 ACTCCGAAGG
Statistics
Matches: 183, Mismatches: 15, Indels: 26
0.82 0.07 0.12
Matches are distributed among these distances:
37 4 0.02
38 2 0.01
39 44 0.24
40 124 0.68
41 6 0.03
42 2 0.01
43 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
Found at i:17545754 original size:79 final size:79
Alignment explanation
Indices: 17545534--17545756 Score: 238
Period size: 79 Copynumber: 2.8 Consensus size: 79
17545524 GAGCTAGTGG
* * * * * *
17545534 CTAATTCCGGGCTAAGTCCCAAAGGCACTTGTGCGAGCT-ACTAATTCCGGGCTAAGTCCCGAAG
1 CTAATACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TGACT-ATACCGGGCTAACTCCCGAAG
*
17545598 GCATTTGTGCGAGCTA
64 GCATTTGTGCAAGCTA
* * * * *
17545614 CTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGC
1 CTAATACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATACCGGGCTAACTCCCGAAGGC
*
17545679 ATTTGTGCAAGTTA
66 ATTTGTGCAAGCTA
* *
17545693 CT-ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAACT-CCGAA
1 CTAAT-ACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATA-CCGGGCT-AACTCCCGAA
17545755 GG
63 GG
17545757 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.02
79 82 0.65
80 42 0.33
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (79 bp):
CTAATACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATACCGGGCTAACTCCCGAAGGC
ATTTGTGCAAGCTA
Found at i:17551686 original size:11 final size:10
Alignment explanation
Indices: 17551670--17551709 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
17551660 ATATAAATCT
17551670 AAATAATAAAA
1 AAATAA-AAAA
17551681 AAATAAAAATA
1 AAATAAAAA-A
17551692 AAATAAAAAA
1 AAATAAAAAA
*
17551702 ATATAAAA
1 AAATAAAA
17551710 CTAAATGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 11 0.41
11 16 0.59
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:17551693 original size:21 final size:23
Alignment explanation
Indices: 17551646--17551715 Score: 78
Period size: 19 Copynumber: 3.2 Consensus size: 23
17551636 GTGCATAATA
*
17551646 AAATAA-AATAAAACATATAAATCT
1 AAATAATAA-AAAA-ATATAAAACT
17551670 AAATAATAAAAAAATA-AAAA-T
1 AAATAATAAAAAAATATAAAACT
17551691 -AA-AATAAAAAAATATAAAACT
1 AAATAATAAAAAAATATAAAACT
17551712 AAAT
1 AAAT
17551716 GAAGTCACTT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
19 12 0.30
20 6 0.15
21 2 0.05
22 5 0.12
23 3 0.08
24 10 0.25
25 2 0.05
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATAATAAAAAAATATAAAACT
Found at i:17555757 original size:40 final size:40
Alignment explanation
Indices: 17555711--17555964 Score: 224
Period size: 40 Copynumber: 6.3 Consensus size: 40
17555701 TTTGGATCAA
* *
17555711 AAACGCCACAAAAGGTAAAGCATTAGCGGCGTTTTTGCAT
1 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTTTCAT
* * * * *
17555751 AAACGCCGCAAAAGGTAAAGAAATAGCAGCATTTTTGCAT
1 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTTTCAT
** * * * *
17555791 AAACATCGCAAAAGGTAAAGTAATAACGGTGTTTTTCTCAT
1 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTT-TCAT
* * *
17555832 AAACACTGA-AAAAGGTAAAG-AATAGTGGCGTTTTTCTCAT
1 AAACGC-CACAAAAGGTAAAGCAATAGCGGCGTTTTT-TCAT
* *
17555872 AAACGCCACAAAAGGTAAAGCAATAGCGGCATTTTTTTAT
1 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTTTCAT
* * * * * * *
17555912 AAACGCCGCTAAAGGTAAAACAATATCGACATTTTTCCCAT
1 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTT-TCAT
*
17555953 AAACGCCGCAAA
1 AAACGCCACAAA
17555965 TATTTTTTTA
Statistics
Matches: 177, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 131 0.74
41 45 0.25
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (40 bp):
AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTTTCAT
Found at i:17555947 original size:81 final size:80
Alignment explanation
Indices: 17555711--17555964 Score: 253
Period size: 81 Copynumber: 3.1 Consensus size: 80
17555701 TTTGGATCAA
* *
17555711 AAACGCCACAAAAGGTAAAGCATTAGCGGCGTTTTTGCATAAACGCCGCAAAAGGTAAAGAAATA
1 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTTTCATAAACGCCGCAAAAGGTAAA-AAATA
* *
17555776 GC-AGCATTTTT-GCAT
65 TCGA-CATTTTTCCCAT
** * * * * * * * *
17555791 AAACATCGCAAAAGGTAAAGTAATAACGGTGTTTTTCTCATAAACACTGAAAAAGGTAAAGAATA
1 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTT-TCATAAACGCCGCAAAAGGTAAAAAATA
* * *
17555856 GT-GGCGTTTTTCTCAT
65 -TCGACATTTTTCCCAT
* * *
17555872 AAACGCCACAAAAGGTAAAGCAATAGCGGCATTTTTTTATAAACGCCGCTAAAGGTAAAACAATA
1 AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTTTCATAAACGCCGCAAAAGGTAAAA-AATA
17555937 TCGACATTTTTCCCAT
65 TCGACATTTTTCCCAT
*
17555953 AAACGCCGCAAA
1 AAACGCCACAAA
17555965 TATTTTTTTA
Statistics
Matches: 135, Mismatches: 33, Indels: 11
0.75 0.18 0.06
Matches are distributed among these distances:
80 58 0.43
81 77 0.57
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (80 bp):
AAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTTTTCATAAACGCCGCAAAAGGTAAAAAATAT
CGACATTTTTCCCAT
Found at i:17555947 original size:121 final size:121
Alignment explanation
Indices: 17555720--17555956 Score: 296
Period size: 121 Copynumber: 2.0 Consensus size: 121
17555710 AAAACGCCAC
* *
17555720 AAAAGGTAAAGCATTAGCGGCGTTTTTGCATAAACGCCGCAAAAGGTAAAGAAATAGCAGCATTT
1 AAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACGCCACAAAAGGTAAAGAAATAGCAGCATTT
* ** *** *
17555785 TTGCATAAACATCGCAAAAGGTAAAGTAATAACGGTGTTTTTCTCATAAACACTGA
66 TTGCATAAACACCGCAAAAGGTAAAACAATAACGACATTTTTCCCATAAACACTGA
* * * *
17555841 AAAAGGTAAAG-AATAGTGGCGTTTTTCTCATAAACGCCACAAAAGGTAAAGCAATAGCGGCATT
1 AAAAGGTAAAGCAATAGCGGCGTTTTT-GCATAAACGCCACAAAAGGTAAAGAAATAGCAGCATT
** * * *
17555905 TTTTTATAAACGCCGCTAAAGGTAAAACAATATCGACATTTTTCCCATAAAC
65 TTTGCATAAACACCGCAAAAGGTAAAACAATAACGACATTTTTCCCATAAAC
17555957 GCCGCAAATA
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
120 13 0.13
121 84 0.87
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (121 bp):
AAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACGCCACAAAAGGTAAAGAAATAGCAGCATTT
TTGCATAAACACCGCAAAAGGTAAAACAATAACGACATTTTTCCCATAAACACTGA
Found at i:17558179 original size:30 final size:30
Alignment explanation
Indices: 17558143--17558228 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 30
17558133 TAGTGATTTG
*
17558143 TGAAAATTGAATTAAATTTAAATTTTATGTA
1 TGAAAATT-AATTAAATTTAAATTTCATGTA
* *
17558174 T-AAAATT-ATACAAAATTAAATTTCATGTA
1 TGAAAATTAAT-TAAATTTAAATTTCATGTA
* *
17558203 TGAAAATACACATTAAATTAAAATTT
1 TGAAAAT-TA-ATTAAATTTAAATTT
17558229 ATATTTAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
28 2 0.05
29 17 0.40
30 11 0.26
31 1 0.02
32 10 0.23
33 2 0.05
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.40
Consensus pattern (30 bp):
TGAAAATTAATTAAATTTAAATTTCATGTA
Found at i:17560299 original size:43 final size:43
Alignment explanation
Indices: 17560233--17560411 Score: 184
Period size: 43 Copynumber: 4.2 Consensus size: 43
17560223 TTTGATATGG
* * * * * *
17560233 TCTTTAGTGGTGTTT-TTGGGAAAGTGTTGCGAAAGGTCATGT
1 TCTTTAGCGGCGTTTCTAGGGAAAGCGCTGCTAAAGGTCATGT
*
17560275 TCTTTAGCGGCGTTTCTAGGGAAAGCGCCGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTCTAGGGAAAGCGCTGCTAAAGGTCATGT
* * * * **
17560318 TTTTTAGCAGCGTTCCT-GGGACAA-TGCAACTAAAGGTCATGT
1 TCTTTAGCGGCGTTTCTAGGGA-AAGCGCTGCTAAAGGTCATGT
* * *
17560360 TCTTTAGCGGCGATTCTAGGAAAAGCGATGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTCTAGGGAAAGCGCTGCTAAAGGTCATGT
17560403 TCTTTAGCG
1 TCTTTAGCG
17560412 ACATTTTTCT
Statistics
Matches: 111, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
42 47 0.42
43 64 0.58
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTCTAGGGAAAGCGCTGCTAAAGGTCATGT
Found at i:17562519 original size:24 final size:24
Alignment explanation
Indices: 17562487--17562535 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
17562477 AATAAAAGTA
17562487 GGTTAACATAATCATACACAGTGC
1 GGTTAACATAATCATACACAGTGC
*
17562511 GGTTAACATAATCATACATAGTGC
1 GGTTAACATAATCATACACAGTGC
17562535 G
1 G
17562536 AGGAGCAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (24 bp):
GGTTAACATAATCATACACAGTGC
Found at i:17563940 original size:23 final size:23
Alignment explanation
Indices: 17563903--17563982 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
17563893 TCTCAGCTCG
* *
17563903 TTCAGCTCGACAGAGCTTACCGT
1 TTCAGCTCAATAGAGCTTACCGT
* *
17563926 TTCAGCTCAATAGAGATTACCAT
1 TTCAGCTCAATAGAGCTTACCGT
* * *
17563949 TTTAGCTTAATAGAGCTTACTGT
1 TTCAGCTCAATAGAGCTTACCGT
17563972 TCATCAGCTCA
1 T--TCAGCTCA
17563983 GGAGGAGCTT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 38 0.86
25 6 0.14
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (23 bp):
TTCAGCTCAATAGAGCTTACCGT
Found at i:17571974 original size:93 final size:93
Alignment explanation
Indices: 17571862--17572031 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
17571852 CGCCCATAAG
* *
17571862 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
17571927 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
17571955 TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
17572020 ACGAGTTCGGAT
66 ACGAGCTCGGAT
17572032 CCCCAAATAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:17572030 original size:46 final size:46
Alignment explanation
Indices: 17571855--17572030 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 46
17571845 TGTAACCCGC
* *
17571855 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
17571901 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
17571947 ACATCTCTTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
17571994 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
17572031 TCCCCAAATA
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
46 74 0.67
47 36 0.33
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:17573994 original size:15 final size:15
Alignment explanation
Indices: 17573946--17574028 Score: 73
Period size: 15 Copynumber: 5.7 Consensus size: 15
17573936 CAAAGATAAC
*
17573946 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
17573960 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
17573975 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
17573990 AAGAAA-TCAGAATA
1 AAGAAACCCAGAATA
* * *
17574004 AAGAGATCCAGGATA
1 AAGAAACCCAGAATA
17574019 AAGAAACCCA
1 AAGAAACCCA
17574029 AGATACGATA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
14 21 0.38
15 33 0.60
16 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:17577046 original size:93 final size:93
Alignment explanation
Indices: 17576934--17577105 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
17576924 GCCCATAAGT
* *
17576934 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
17576999 TGAGCTCGGATGCCTAGTTTCATCTCTC
66 CGAGCTCGGATGCCTAGTTTCATCTCTC
* **
17577027 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCTTACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
17577092 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
17577106 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTTCATCTCTC
Found at i:17577101 original size:46 final size:46
Alignment explanation
Indices: 17576926--17577101 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
17576916 TGTAACCCGC
* *
17576926 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
17576972 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
17577018 TCATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
** *
17577065 CCATAAGTGAACTCTTACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
17577102 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:17581985 original size:24 final size:24
Alignment explanation
Indices: 17581958--17582009 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17581948 TTAGTAAGTC
*
17581958 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17581982 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17582006 AAAT
1 AAAT
17582010 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17583955 original size:24 final size:24
Alignment explanation
Indices: 17583928--17583979 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17583918 TTAGTAAGTC
*
17583928 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17583952 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17583976 AAAT
1 AAAT
17583980 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17588300 original size:26 final size:26
Alignment explanation
Indices: 17588192--17588299 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
17588182 TGATACAAAT
17588192 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17588218 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17588244 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17588270 TGATGATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17588296 TGAT
1 TGAT
17588300 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17596759 original size:23 final size:23
Alignment explanation
Indices: 17596667--17596790 Score: 92
Period size: 23 Copynumber: 5.4 Consensus size: 23
17596657 TCAACTCGTA
* *
17596667 AGAGCTTACTATTTTCAGCTCATT
1 AGAGCTTACCA-TTTCAGCTCAAT
* * * *
17596691 GGAGCTTACCGTCTCAGCTC-GT
1 AGAGCTTACCATTTCAGCTCAAT
*
17596713 ATGAGCTTA-C-TGTTCAACTCAAT
1 A-GAGCTTACCAT-TTCAGCTCAAT
* * *
17596736 AAAGCTTGCCATTTCAGCTTAAT
1 AGAGCTTACCATTTCAGCTCAAT
* *
17596759 AGAGCTTACCGTTTTAGCTCAAT
1 AGAGCTTACCATTTCAGCTCAAT
17596782 AGAGCTTAC
1 AGAGCTTAC
17596791 TGGTCATTAT
Statistics
Matches: 77, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
21 1 0.01
22 13 0.17
23 54 0.70
24 9 0.12
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (23 bp):
AGAGCTTACCATTTCAGCTCAAT
Found at i:17600001 original size:16 final size:17
Alignment explanation
Indices: 17599970--17600007 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17599960 TCGAAATTAA
*
17599970 AATTGAATTGAGAAAAT
1 AATTTAATTGAGAAAAT
17599987 AATTTAATT-AGAAAAT
1 AATTTAATTGAGAAAAT
*
17600003 TATTT
1 AATTT
17600008 GACATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
AATTTAATTGAGAAAAT
Found at i:17605074 original size:24 final size:24
Alignment explanation
Indices: 17605041--17605117 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
17605031 AAGGCTATCA
* *
17605041 GGAGAAGATTTAGAAGCTGATAAT
1 GGAGAGGATTTAGAAGCTGATAAG
*
17605065 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGAAGCTGATAAG
* * *
17605089 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAGGATTTAGAAGCTGATAAG
17605113 GGAGA
1 GGAGA
17605118 ACGGTGTTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.35, C:0.03, G:0.39, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGAAGCTGATAAG
Found at i:17606655 original size:26 final size:26
Alignment explanation
Indices: 17606550--17606659 Score: 121
Period size: 27 Copynumber: 4.1 Consensus size: 26
17606540 GGAAGCGTCT
* * *
17606550 TGGTGGCTATGCCATAATTATCTGATC
1 TGGTGGCTCTGCCA-CATTATCTGTTC
* *
17606577 TGGTGGCTTTGCCACATATATCTATTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
*
17606604 TGGTGGCTCTGCCACGATTATCTGTTA
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
* *
17606631 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
17606657 TGG
1 TGG
17606660 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
26 15 0.21
27 54 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:17607664 original size:16 final size:17
Alignment explanation
Indices: 17607622--17607663 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
17607612 GTGGAATGAG
17607622 TTTTACAAAAACAAAGA
1 TTTTACAAAAACAAAGA
*
17607639 TTTT-CGAAAACAAA-A
1 TTTTACAAAAACAAAGA
17607654 TTTTA-AAAAA
1 TTTTACAAAAA
17607664 AACTCAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (17 bp):
TTTTACAAAAACAAAGA
Found at i:17612942 original size:24 final size:24
Alignment explanation
Indices: 17612909--17612985 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
17612899 AAGGCTATCA
*
17612909 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
17612933 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
17612957 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
17612981 GGAGA
1 GGAGA
17612986 ACGGTGTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.34, C:0.04, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:17614457 original size:27 final size:26
Alignment explanation
Indices: 17614419--17614526 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
17614409 AAGCGTCCTA
*
17614419 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
17614446 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
17614473 GTGGCTCTTCCACAATTATCT-ATTCTG
1 GTGGCTCTGCCAC-ATTATCTGA-TCTG
* * *
17614500 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
17614526 G
1 G
17614527 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
26 14 0.20
27 53 0.77
28 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:17614501 original size:54 final size:53
Alignment explanation
Indices: 17614419--17614526 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 53
17614409 AAGCGTCCTA
*
17614419 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTCTG
* * *
17614473 GTGGCTCTTCCACAATTATCT-ATTCTGGTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGA-TCTGGTGACTCTGCCACATTATCTGTTCTG
17614526 G
1 G
17614527 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 13 0.27
54 36 0.73
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTCTG
Found at i:17622519 original size:14 final size:14
Alignment explanation
Indices: 17622502--17622535 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17622492 ATGGTTTACA
*
17622502 CAAATGGATGTATG
1 CAAATGGATGAATG
*
17622516 CAAATGTATGAATG
1 CAAATGGATGAATG
17622530 CAAATG
1 CAAATG
17622536 CACCAACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (14 bp):
CAAATGGATGAATG
Found at i:17622986 original size:22 final size:22
Alignment explanation
Indices: 17622961--17623007 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17622951 GGCCATCAGT
* *
17622961 CACGGCCGTGTATCCCATAACA
1 CACGACCGTGTATCCCAAAACA
* *
17622983 CACGACCGTGTGTCTCAAAACA
1 CACGACCGTGTATCCCAAAACA
17623005 CAC
1 CAC
17623008 ACTCGTATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (22 bp):
CACGACCGTGTATCCCAAAACA
Found at i:17624065 original size:15 final size:15
Alignment explanation
Indices: 17624045--17624076 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17624035 CATTTCACTA
*
17624045 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
17624060 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
17624075 TT
1 TT
17624077 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:17628172 original size:43 final size:42
Alignment explanation
Indices: 17628094--17628248 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
17628084 TACCACACCA
* * ** *
17628094 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATTTTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * *
17628136 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * *
17628179 ATACCATATCCCAGATATGGTCTTACACAAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* *
17628221 ATGTCATATCTCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
17628249 ATAGTCTCGG
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 62 0.65
43 33 0.35
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:17631498 original size:47 final size:47
Alignment explanation
Indices: 17631427--17631777 Score: 554
Period size: 47 Copynumber: 7.6 Consensus size: 47
17631417 GCCCTTCGGA
* * * * * *
17631427 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17631474 CCTATCACATATATACACTTTCACATTCATCACATCGGCC---A---
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17631515 -TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17631561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17631608 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17631655 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17631704 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17631751 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
17631778 TATTCAAATA
Statistics
Matches: 284, Mismatches: 11, Indels: 18
0.91 0.04 0.06
Matches are distributed among these distances:
40 38 0.13
43 1 0.00
47 200 0.70
49 45 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17631622 original size:96 final size:94
Alignment explanation
Indices: 17631510--17631777 Score: 491
Period size: 96 Copynumber: 2.8 Consensus size: 94
17631500 TCATCACATC
17631510 GGCCATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 GGCC-TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
17631575 ACACTTTCACATTCATCACATCGGCCATTA
65 ACACTTTCACATTCATCACATCGGCCATTA
17631605 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
* *
17631670 TACACTTTCACATTCATCACATTGGCCATTC
64 TACACTTTCACATTCATCACATCGGCCATTA
17631701 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
17631766 CACTTTCACATT
66 CACTTTCACATT
17631778 TATTCAAATA
Statistics
Matches: 169, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
94 73 0.43
95 4 0.02
96 92 0.54
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
CACTTTCACATTCATCACATCGGCCATTA
Found at i:17631705 original size:143 final size:134
Alignment explanation
Indices: 17631421--17631777 Score: 543
Period size: 143 Copynumber: 2.6 Consensus size: 134
17631411 ACAAATGCCC
* * * * * * * *
17631421 TTCGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
17631486 ATACACTTTCACATTCATCACATCGGCCATTATCACATATATACACTTTCACATTCATCACATCG
66 ATACACTTTCACATTCATCACATCGGCCATTATCACATATATACACTTTCACATTCATCACATCG
17631551 GCCA
131 GCCA
*
17631555 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
17631620 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTC
66 ATACACTTTCACATTCATCACATCGGCC---A----TTATCAC--ATATATACACTTTCACATTC
*
17631685 ATCACATTGGCCA
122 ATCACATCGGCCA
17631698 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
17631763 ATACACTTTCACATT
66 ATACACTTTCACATT
17631778 TATTCAAATA
Statistics
Matches: 203, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
134 84 0.41
137 1 0.00
141 7 0.03
143 111 0.55
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (134 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
ATACACTTTCACATTCATCACATCGGCCATTATCACATATATACACTTTCACATTCATCACATCG
GCCA
Found at i:17636152 original size:21 final size:21
Alignment explanation
Indices: 17636126--17636172 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17636116 GATAGATGGT
*
17636126 TGCCTAGGCACGACCTTTCGG
1 TGCCTAGGCACAACCTTTCGG
* *
17636147 TGCCTAGGCACAATCTTTTGG
1 TGCCTAGGCACAACCTTTCGG
17636168 TGCCT
1 TGCCT
17636173 GTACTTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
TGCCTAGGCACAACCTTTCGG
Found at i:17636586 original size:33 final size:33
Alignment explanation
Indices: 17636544--17636609 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
17636534 TCGGCGTTGT
17636544 GCCTCAGGTGTATGAGGGCTGAGGAAGATGTTC
1 GCCTCAGGTGTATGAGGGCTGAGGAAGATGTTC
17636577 GCCTCAGGTGTATGAGGGCTGAGGAAGATGTTC
1 GCCTCAGGTGTATGAGGGCTGAGGAAGATGTTC
17636610 TTCATGCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (33 bp):
GCCTCAGGTGTATGAGGGCTGAGGAAGATGTTC
Found at i:17641995 original size:34 final size:34
Alignment explanation
Indices: 17641957--17642058 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
17641947 TCTAGTACCA
17641957 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
1 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
* *
17641991 GAAAG-AA---AGAA-ATTAATCT---AGTAC-CA
1 GAAAGAAACTGAGAATATTTAT-TGAAAGTACACT
*
17642017 GAAAGAAACTGAGAATATTTATTGAAACTACACT
1 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
17642051 GAAAGAAA
1 GAAAGAAA
17642059 GAAATTAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
26 6 0.11
27 7 0.13
29 5 0.09
30 10 0.19
31 5 0.09
33 6 0.11
34 14 0.26
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.23
Consensus pattern (34 bp):
GAAAGAAACTGAGAATATTTATTGAAAGTACACT
Found at i:17642038 original size:60 final size:60
Alignment explanation
Indices: 17641945--17642066 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
17641935 TGAAAAAAAA
*
17641945 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAAGTACACTGAAAGAAAGAAATT
1 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
17642005 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
1 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
17642065 AA
1 AA
17642067 CATGTGAAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.23
Consensus pattern (60 bp):
AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
Found at i:17651932 original size:30 final size:31
Alignment explanation
Indices: 17651888--17651952 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
17651878 AAAAAATATC
*
17651888 AATTCAACTCTTTTTAAAAAATTGATAGTCG
1 AATTCAACTCTTTTTAAAAAATTGATAGTCA
*
17651919 AATTCAACT-TTTTTAAAAAATTGATGGTCA
1 AATTCAACTCTTTTTAAAAAATTGATAGTCA
17651949 AATT
1 AATT
17651953 TAATTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAAATTGATAGTCA
Found at i:17655178 original size:30 final size:30
Alignment explanation
Indices: 17655144--17655203 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
17655134 ACTTAACAAG
17655144 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
17655174 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
17655204 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:17656082 original size:14 final size:15
Alignment explanation
Indices: 17656047--17656087 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
17656037 GATTAGTCTC
17656047 TAATTATAATAAACA
1 TAATTATAATAAACA
*
17656062 TAA-TATAATAAATA
1 TAATTATAATAAACA
*
17656076 -AATTATAGTAAA
1 TAATTATAATAAA
17656088 ATATACCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 3 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
TAATTATAATAAACA
Found at i:17658959 original size:43 final size:42
Alignment explanation
Indices: 17658893--17659049 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 42
17658883 AGCTCGTACA
*
17658893 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATA-CG
* *
17658936 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATACG
*
17658978 ATGCCAACATCCCAGACGTGGTCTTACATGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AA-TACG
* *
17659022 ATTCCAACTTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
17659050 CGAAAACACA
Statistics
Matches: 99, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 40 0.40
44 31 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATACG
Found at i:17659212 original size:12 final size:12
Alignment explanation
Indices: 17659195--17659219 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17659185 TATCATAATA
17659195 ACATATATATAT
1 ACATATATATAT
17659207 ACATATATATAT
1 ACATATATATAT
17659219 A
1 A
17659220 ACTTATTCAA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:17659714 original size:12 final size:13
Alignment explanation
Indices: 17659687--17659711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17659677 TTGACATTTT
17659687 TATAACATCAAAA
1 TATAACATCAAAA
17659700 TATAACATCAAA
1 TATAACATCAAA
17659712 TATTCATAAT
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TATAACATCAAAA
Found at i:17663977 original size:42 final size:42
Alignment explanation
Indices: 17663918--17664075 Score: 199
Period size: 42 Copynumber: 3.7 Consensus size: 42
17663908 AGGGTTACTA
* *
17663918 AGACTATGTGTAAGACCATATCTGGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * *
17663960 AGACTACGTTTAAGACCATATTTGAGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * * *
17664002 AGACTTCGTGTAAGACCATAGCTGGGCTATTGACATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATG
* * *
17664045 AGATTACATGTAAGACCATAACTGGGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATG
17664076 ACATTGGTAC
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
42 62 0.63
43 36 0.37
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:17664098 original size:85 final size:84
Alignment explanation
Indices: 17663918--17664098 Score: 195
Period size: 85 Copynumber: 2.1 Consensus size: 84
17663908 AGGGTTACTA
* * * * **
17663918 AGACTATGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTTTAAGACCATATTT
1 AGACTATGTGTAAGACCATAGCTGGGATATGACATCAATATGAGACTACATGTAAGACCATAACT
* *
17663983 GAGATATGGCATCGATATG
66 GAGATATGACATCGATACG
* * *
17664002 AGACT-TCGTGTAAGACCATAGCTGGGCTATTGACATCGATATGAGATTACATGTAAGACCATAA
1 AGACTAT-GTGTAAGACCATAGCTGGGATA-TGACATCAATATGAGACTACATGTAAGACCATAA
* * *
17664066 CTGGGATATGACATTGGTACG
64 CTGAGATATGACATCGATACG
17664087 -GTACTATGTGTA
1 AG-ACTATGTGTA
17664099 TGAGATCTCC
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
83 1 0.01
84 26 0.33
85 51 0.65
86 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (84 bp):
AGACTATGTGTAAGACCATAGCTGGGATATGACATCAATATGAGACTACATGTAAGACCATAACT
GAGATATGACATCGATACG
Found at i:17665251 original size:19 final size:20
Alignment explanation
Indices: 17665208--17665253 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
17665198 CACGGCCTGC
* *
17665208 CCACAAGGGCGTGTACCAAG
1 CCACACGGGAGTGTACCAAG
*
17665228 CCACACGGGAGTGT-CCAGG
1 CCACACGGGAGTGTACCAAG
17665247 CCACACG
1 CCACACG
17665254 AGCTTGTGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.26, C:0.35, G:0.30, T:0.09
Consensus pattern (20 bp):
CCACACGGGAGTGTACCAAG
Found at i:17672859 original size:40 final size:39
Alignment explanation
Indices: 17672775--17672958 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
17672765 TCGAATGATG
* * *
17672775 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
17672814 ATCCGGACTAAGATCCGAAGGCATTTGTCCGAGATACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
17672855 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
*
17672894 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* *
17672933 AACCGGGCTATGTCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCGAAGGCATTTG
17672959 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 47 0.39
40 64 0.53
41 9 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:17672911 original size:79 final size:80
Alignment explanation
Indices: 17672775--17672956 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 80
17672765 TCGAATGATG
* *
17672775 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17672839 TGTCCGAGATACTA-A
65 TGTCCGAGATACTATA
* * * **
17672854 TTCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
17672917 TTGTGCGAGTTACTATA
64 TTGTCCGAGATACTATA
* * *
17672934 ACCGGGCTATGTCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATT
17672957 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 68 0.78
80 18 0.21
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTCCGAGATACTATA
Found at i:17672965 original size:79 final size:78
Alignment explanation
Indices: 17672828--17672991 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 78
17672818 GGACTAAGAT
* **
17672828 CCGAAGGCATTTGTCCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTCCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
17672892 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* * * * *
17672907 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTCCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTA
* *
17672971 TATCCGGTTAAATT
65 AATCCGGTTAAATC
17672985 CCGAAGG
1 CCGAAGG
17672992 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 18 0.25
79 54 0.75
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTCCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:17681046 original size:39 final size:40
Alignment explanation
Indices: 17680951--17681153 Score: 213
Period size: 40 Copynumber: 5.1 Consensus size: 40
17680941 TCGAATGATG
*
17680951 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
17680990 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
* * *
17681029 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
17681069 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
17681109 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
17681149 TCCGG
1 TCCGG
17681154 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
39 56 0.40
40 84 0.60
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:17681086 original size:79 final size:80
Alignment explanation
Indices: 17680951--17681132 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
17680941 TCGAATGATG
* *
17680951 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACAAATCCGGACTAAGATCCGAAGGCATTT
17681015 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * **
17681029 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGAC-AAATCCGGACTAAGAT-CCGAAGGCA
*
17681091 TTTGTGCGAGTTACTATA
63 TTTGTGCGAGATACTATA
* *
17681109 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17681133 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 15 0.17
79 61 0.69
80 13 0.15
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:17681156 original size:79 final size:79
Alignment explanation
Indices: 17681003--17681167 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
17680993 GGACTAAGAT
* **
17681003 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
17681068 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
17681082 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
17681145 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
17681161 CCGAAGG
1 CCGAAGG
17681168 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:17683069 original size:42 final size:42
Alignment explanation
Indices: 17683010--17683119 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
17683000 AGGGTTACTA
* *
17683010 AGACTATGTATAAGACCATATCTGGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
* ** *
17683052 AGACTACGTGTAAGACCATATGTAAGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
* *
17683094 AGACTTCGTGTAAGACCATAGCTGGG
1 AGACTACGTGTAAGACCATATCTGGG
17683120 TTGTTGGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
Found at i:17684317 original size:20 final size:20
Alignment explanation
Indices: 17684288--17684333 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
17684278 CACGGCCTGC
*
17684288 CCACATGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
17684308 CCACACGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
17684328 CCACAC
1 CCACAC
17684334 AGGCATGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.26, T:0.11
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:17686846 original size:54 final size:55
Alignment explanation
Indices: 17686775--17686885 Score: 154
Period size: 55 Copynumber: 2.0 Consensus size: 55
17686765 TAAAGTTGTA
*
17686775 CACGGGTAGGCCACACGGGTGTGCG-CATGGCCGTGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGGCCACACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
* * * *
17686829 CACGGGCAGG-CAGCACGGGTGTGTGCCATGGCCGTGTTAATAAGTCAGTGTTGTC
1 CACGGGCAGGCCA-CACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
17686884 CA
1 CA
17686886 AGGTTGAAGG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 2 0.04
54 20 0.40
55 28 0.56
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (55 bp):
CACGGGCAGGCCACACGGGTGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
Found at i:17688700 original size:46 final size:47
Alignment explanation
Indices: 17688642--17688960 Score: 212
Period size: 46 Copynumber: 6.7 Consensus size: 47
17688632 TCGTTTGTGT
*
17688642 GAGCTAGTGTAAGA-CATGTCTGGGACATGTATCGGCCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGA
*
17688688 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGA-GAA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATT-ATG-A
* * ** ***
17688734 GAGTGCTAGTGTAAGA-CATGTTTGGGACATGCATCAGCTTCGGGATGTA
1 GA--GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATG-A
* * * *
17688783 -AGCCAGTATAAGA-CATGTCTGGGACATGCATCGGCTAC--GA-GA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGA
* * *
17688825 TGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGTTATGTGA
1 -GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCAC-ATTA--TGA
** * **
17688876 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCATCCTCGAAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCAC-ATTATGA
* * *
17688925 TAGCCAGTGTAAAACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCG
17688961 ACACTTTACC
Statistics
Matches: 220, Mismatches: 32, Indels: 39
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 11 0.05
45 21 0.10
46 62 0.28
47 27 0.12
48 20 0.09
49 38 0.17
50 33 0.15
51 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGA
Found at i:17691143 original size:243 final size:243
Alignment explanation
Indices: 17690715--17691447 Score: 1394
Period size: 243 Copynumber: 3.0 Consensus size: 243
17690705 GTAGAACATA
17690715 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
1 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
* *
17690780 ACCATGGATAAAACTGAAATAAGATACACATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
66 ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
17690845 ATTACACTTGTATGATTGATGTATGAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
131 ATTACACTTGTATGATTGATGTATGAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
* *
17690910 TAAAACATCCCAAGTCAATGATAATGTTAAATACTTTAATGATAATTT
196 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
17690958 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
1 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
17691023 ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
66 ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
*
17691088 ATTACACTTGTATGATTAATGTATGAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
131 ATTACACTTGTATGATTGATGTATGAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
17691153 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
196 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
*
17691201 ATATTATTATTATTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
1 ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
17691266 ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
66 ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
*
17691331 ATTACACTTGTATGATTGATGTATAAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
131 ATTACACTTGTATGATTGATGTATGAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
*
17691396 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGGTGATAATTT
196 TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
17691444 ATAT
1 ATAT
17691448 GAATTTTTAT
Statistics
Matches: 481, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 481 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (243 bp):
ATATTATTATTTTTTAGATCAATAAGATATATGTTGAAGGAAATCTTTAAGCGTTTTACATTATA
ACCATGGATAAAACCGAAATAAGATACGCATGTCATTGCATTATCGATATTCCTTGAAAGAATAC
ATTACACTTGTATGATTGATGTATGAAATAGAAACAAGAAGTTCACTAGTGTTGGAATGACTGGT
TAAAACATCCCAAGTCAATGATAATGTAAAATACTTTGATGATAATTT
Found at i:17693263 original size:35 final size:35
Alignment explanation
Indices: 17693192--17693263 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 35
17693182 TTGAATTAAG
**
17693192 AATTTTCTTGAAAAATTAATTTGGAAAAGTTCAAT
1 AATTTTCTTGAAAAATTAATTTGGAAAAGTAAAAT
* * *
17693227 AATTTT-TTGGAAAATTAATTTTGATCAAGTAAAAT
1 AATTTTCTTGAAAAATTAATTTGGA-AAAGTAAAAT
17693262 AA
1 AA
17693264 AATTAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (35 bp):
AATTTTCTTGAAAAATTAATTTGGAAAAGTAAAAT
Found at i:17693682 original size:17 final size:17
Alignment explanation
Indices: 17693660--17693753 Score: 56
Period size: 17 Copynumber: 5.5 Consensus size: 17
17693650 ATAATATTAT
17693660 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
*
17693677 TTTAATATTTATATTGAAA
1 TTTAATA-TTAAATT-AAA
*
17693696 -GT-ATATT--ATT-AA
1 TTTAATATTAAATTAAA
* *
17693708 TTTAATATTAAAGTGATTA
1 TTTAATATTAAA-TTA-AA
17693727 TGTTAATATTAAAATT-AA
1 T-TTAATATT-AAATTAAA
17693745 TTTAATATT
1 TTTAATATT
17693754 TATATTGTAG
Statistics
Matches: 59, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
12 2 0.03
13 1 0.02
14 8 0.14
16 3 0.05
17 19 0.32
18 9 0.15
19 5 0.08
20 9 0.15
21 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:17693975 original size:13 final size:14
Alignment explanation
Indices: 17693954--17693988 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
17693944 AGTTGTAGAG
17693954 AAAAAATTATTT-A
1 AAAAAATTATTTCA
*
17693967 AAGAAATTATTTCA
1 AAAAAATTATTTCA
17693981 AAAAAATT
1 AAAAAATT
17693989 TTAGAGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAAAATTATTTCA
Found at i:17694008 original size:30 final size:30
Alignment explanation
Indices: 17693972--17694037 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
17693962 ATTTAAAGAA
17693972 ATTATTTCAAAAAAATTTTAGAGATATTTT
1 ATTATTTCAAAAAAATTTTAGAGATATTTT
*
17694002 ATTATTTTAAAAAAATTTTAGAGATATTTT
1 ATTATTTCAAAAAAATTTTAGAGATATTTT
17694032 -TTATTT
1 ATTATTT
17694038 ACAATTTGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 6 0.17
30 29 0.83
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (30 bp):
ATTATTTCAAAAAAATTTTAGAGATATTTT
Found at i:17696156 original size:47 final size:47
Alignment explanation
Indices: 17696078--17696722 Score: 1029
Period size: 47 Copynumber: 13.6 Consensus size: 47
17696068 CCCTTCGGGA
* * * * * *
17696078 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17696125 CCTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17696172 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17696219 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17696266 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17696315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17696362 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17696409 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17696458 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17696505 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17696552 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17696601 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17696650 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17696697 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
17696723 CACAATTATC
Statistics
Matches: 560, Mismatches: 32, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 378 0.68
49 182 0.32
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17696157 original size:25 final size:25
Alignment explanation
Indices: 17696129--17696206 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
17696119 CTCGGCCCTG
17696129 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
*** *** *
17696154 TCACAT-TGGCCA-TTAGGC-CTCA
1 TCACATATATACACTTTCACATTCA
17696176 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
17696201 TCACAT
1 TCACAT
17696207 CGGCTATTAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 9 0.25
23 6 0.17
24 6 0.17
25 15 0.42
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.33
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:17696316 original size:96 final size:94
Alignment explanation
Indices: 17696078--17696722 Score: 1029
Period size: 96 Copynumber: 6.8 Consensus size: 94
17696068 CCCTTCGGGA
* * * * * * * *
17696078 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
17696143 TTTCACATTCATCACATTGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
17696172 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17696237 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
17696266 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
17696331 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
17696362 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
17696427 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
17696458 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17696523 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
17696552 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
17696617 ACACTTTCACATTCATCACATTGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
17696650 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
17696715 ATTCACAT
66 TTTCACAT
17696723 CACAATTATC
Statistics
Matches: 514, Mismatches: 29, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
94 196 0.38
96 273 0.53
98 45 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:17696334 original size:143 final size:143
Alignment explanation
Indices: 17696078--17696722 Score: 1091
Period size: 143 Copynumber: 4.5 Consensus size: 143
17696068 CCCTTCGGGA
* * * * * * * *
17696078 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
17696141 ACTTTCACATTCATCACATTGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
17696206 TCGGCTATTAGGC
131 TCGGCCATTAGGC
17696219 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
17696284 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
17696349 TCGGCCATTAGGC
131 TCGGCCATTAGGC
17696362 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
17696427 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
17696492 TCGGCTATTAGGC
131 TCGGCCATTAGGC
17696505 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
17696570 ACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
17696635 CATTGGCCATTCGGC
129 CATCGGCCATTAGGC
17696650 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
17696715 A--TTCACAT
66 ACTTTCACAT
17696723 CACAATTATC
Statistics
Matches: 482, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
141 47 0.10
143 333 0.69
145 102 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:17699920 original size:41 final size:41
Alignment explanation
Indices: 17699864--17699956 Score: 132
Period size: 41 Copynumber: 2.3 Consensus size: 41
17699854 GGCCTGACAT
* * *
17699864 ACGCCCATGTCAATGGCCCGTGTCCCTCACACGGCCACGAC
1 ACGCCCGTGTCAATGGACCGTGTCCCACACACGGCCACGAC
*
17699905 ACGCCCGTGTTAATGGACCGTGTCCCACACACGGCCACGAC
1 ACGCCCGTGTCAATGGACCGTGTCCCACACACGGCCACGAC
* *
17699946 AAGCCTGTGTC
1 ACGCCCGTGTC
17699957 CTAGCCCATG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (41 bp):
ACGCCCGTGTCAATGGACCGTGTCCCACACACGGCCACGAC
Found at i:17700979 original size:47 final size:47
Alignment explanation
Indices: 17700904--17701036 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 47
17700894 TGGGTAAGGT
17700904 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCGAA
* * * *
17700951 GTCGATGCCATATCCCAGACATGTTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTCA-CATCTCGAA
* *
17700999 GCCGATG-CATGTCCCAGACATGTCCTACACTAGCTCAC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCAC
17701037 GCAAGTAACC
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
46 13 0.18
47 53 0.73
48 7 0.10
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAA
Found at i:17704120 original size:16 final size:17
Alignment explanation
Indices: 17704086--17704124 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
17704076 GACCTTGCGT
17704086 TTCTTTCTCCTCTTCTC
1 TTCTTTCTCCTCTTCTC
* *
17704103 TTCTTTCT-TTCTTTTC
1 TTCTTTCTCCTCTTCTC
17704119 TTCTTT
1 TTCTTT
17704125 TAATTTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTCTTTCTCCTCTTCTC
Found at i:17707986 original size:27 final size:27
Alignment explanation
Indices: 17707956--17708009 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17707946 GTGGAAGGGA
17707956 AAGTGAAAACACATAAATTTAGACTTT
1 AAGTGAAAACACATAAATTTAGACTTT
17707983 AAGTGAAAACACATAAATTTAGACTTT
1 AAGTGAAAACACATAAATTTAGACTTT
17708010 TAGGGAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (27 bp):
AAGTGAAAACACATAAATTTAGACTTT
Found at i:17708017 original size:27 final size:27
Alignment explanation
Indices: 17707960--17708017 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
17707950 AAGGGAAAGT
*
17707960 GAAAACACATAAATTTAGACTTTAAGT
1 GAAAACACATAAATTTAGACTTTAAGG
*
17707987 GAAAACACATAAATTTAGACTTTTAGG
1 GAAAACACATAAATTTAGACTTTAAGG
17708014 GAAA
1 GAAA
17708018 GGCTACAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (27 bp):
GAAAACACATAAATTTAGACTTTAAGG
Found at i:17710767 original size:40 final size:40
Alignment explanation
Indices: 17710722--17710993 Score: 386
Period size: 40 Copynumber: 6.8 Consensus size: 40
17710712 ATAACCACAA
* * * *
17710722 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
17710762 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
17710802 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
17710842 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
17710882 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
17710922 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
17710962 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
17710994 CATTCAAATG
Statistics
Matches: 208, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 4 0.02
40 196 0.94
41 8 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:17710919 original size:120 final size:120
Alignment explanation
Indices: 17710702--17710989 Score: 506
Period size: 120 Copynumber: 2.4 Consensus size: 120
17710692 TCTTCGGAAT
* * *
17710702 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
17710766 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
17710821 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
17710886 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
17710941 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
17710990 ATATCATTCA
Statistics
Matches: 161, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 4 0.02
120 157 0.98
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:17732157 original size:22 final size:22
Alignment explanation
Indices: 17732109--17732150 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
17732099 ATTAGCATGA
17732109 TAAAAATTAACATGAATGATGC
1 TAAAAATTAACATGAATGATGC
17732131 TAAAAATTAACATGAATGAT
1 TAAAAATTAACATGAATGAT
17732151 ATCAAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (22 bp):
TAAAAATTAACATGAATGATGC
Found at i:17732478 original size:40 final size:40
Alignment explanation
Indices: 17732416--17732511 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
17732406 ATGGGCCTGC
*
17732416 TCACACAAGCTATTAGTCAGGACGTAGCTACACAGTGCTGA
1 TCACA-AAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
* * * *
17732457 TCACAAAGCTGTCAGTTAGGACGTAGCTACATAGTGCTGC
1 TCACAAAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
17732497 TCACAAAGCTATCAG
1 TCACAAAGCTATCAG
17732512 GTATCGGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 44 0.90
41 5 0.10
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (40 bp):
TCACAAAGCTATCAGTCAGGACGTAGCTACACAGTGCTGA
Found at i:17742856 original size:18 final size:18
Alignment explanation
Indices: 17742833--17742882 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
17742823 CAGGTTAAGG
17742833 ACACGGGCGTGTGAGACC
1 ACACGGGCGTGTGAGACC
17742851 ACACGGGCGTGTGAGACC
1 ACACGGGCGTGTGAGACC
17742869 ACACGGGCGTGTGA
1 ACACGGGCGTGTGA
17742883 CCCCTGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.22, C:0.26, G:0.40, T:0.12
Consensus pattern (18 bp):
ACACGGGCGTGTGAGACC
Found at i:17743945 original size:28 final size:28
Alignment explanation
Indices: 17743896--17744007 Score: 108
Period size: 27 Copynumber: 4.1 Consensus size: 28
17743886 AGCATGGCTG
* *
17743896 CCAGA-ACAGATAA-CGTGACAGAGTCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
*
17743922 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
* *
17743950 CCAGA-ACA-AAAATATGTGGCAGAGCCA
1 CCAGATACAGATAAT-CGTGGCAGAGCCA
* * *
17743977 CCAGAT-CAGATAATTGTGGCATAGCCC
1 CCAGATACAGATAATCGTGGCAGAGCCA
17744004 CCAG
1 CCAG
17744008 GACACTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.11
27 45 0.62
28 19 0.26
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (28 bp):
CCAGATACAGATAATCGTGGCAGAGCCA
Found at i:17750904 original size:33 final size:33
Alignment explanation
Indices: 17750867--17750931 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
17750857 TCGCTGTATT
17750867 GGATTAGAGGCGTATTGGATTAGAGGTGTAATG
1 GGATTAGAGGCGTATTGGATTAGAGGTGTAATG
*
17750900 GGATTAGAGGTGTATTGGATTAGAGGTGTAAT
1 GGATTAGAGGCGTATTGGATTAGAGGTGTAAT
17750932 AGCTAATCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.02, G:0.38, T:0.32
Consensus pattern (33 bp):
GGATTAGAGGCGTATTGGATTAGAGGTGTAATG
Found at i:17750905 original size:17 final size:16
Alignment explanation
Indices: 17750861--17750929 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
17750851 TTTGGTTCGC
17750861 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17750877 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17750893 TGTAATGGGATTAGAGG
1 TGT-ATTGGATTAGAGG
17750910 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17750926 TGTA
1 TGTA
17750930 ATAGCTAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 33 0.69
17 15 0.31
ACGTcount: A:0.26, C:0.01, G:0.38, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17750994 original size:44 final size:45
Alignment explanation
Indices: 17750910--17751000 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
17750900 GGATTAGAGG
* * *
17750910 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
17750955 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
17750999 TG
1 TG
17751001 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:17751192 original size:18 final size:17
Alignment explanation
Indices: 17751165--17751199 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17751155 TTAATATTGA
*
17751165 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17751183 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17751200 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17751383 original size:121 final size:120
Alignment explanation
Indices: 17751148--17752373 Score: 2133
Period size: 121 Copynumber: 10.2 Consensus size: 120
17751138 ATCATATTTA
* *
17751148 AACATAATTAATATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
17751213 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17751268 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
*
17751332 AATATTCTTATATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17751389 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
17751454 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17751509 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
17751573 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17751628 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
17751692 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17751749 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
17751813 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
17751870 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
17751934 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17751989 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
17752053 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17752110 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
17752174 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
17752231 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
17752296 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
17752351 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
17752374 AACTTGAAAA
Statistics
Matches: 1068, Mismatches: 27, Indels: 22
0.96 0.02 0.02
Matches are distributed among these distances:
118 1 0.00
119 222 0.21
120 269 0.25
121 573 0.54
122 3 0.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:17751427 original size:18 final size:17
Alignment explanation
Indices: 17751406--17751440 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17751396 TTATTATTAA
*
17751406 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17751424 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17751441 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17752023 original size:361 final size:361
Alignment explanation
Indices: 17751148--17752373 Score: 2348
Period size: 361 Copynumber: 3.4 Consensus size: 361
17751138 ATCATATTTA
* * *
17751148 AACATAATTAATATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
*
17751213 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
65 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
17751278 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
130 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
*
17751343 ATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATTAACATAATTATTATTAAAT
195 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
* *
17751408 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATTAATATTCTTATATTAATTT
260 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTATATTAATTT
17751471 ACTGAAATCATAATATATGATACTGTAAAATATAAATT
324 ACTGAAATCATAATATATGATACTGTAAAATATAAATT
17751509 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
17751574 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
66 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
17751639 TATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATA
131 TATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATA
17751704 TTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
17751769 TATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTAC
261 TATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTAC
17751834 TGAAATCATAATATATGATACTGTAAAATATAAATT
326 TGAAATCATAATATATGATACTGTAAAATATAAATT
17751870 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
17751935 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
66 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
17752000 TATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATA
131 TATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATA
17752065 TTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
17752130 TATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTAC
261 TATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTAC
17752195 TGAAATCATAATATATGATACTGTAAAATATAAATT
326 TGAAATCATAATATATGATACTGTAAAATATAAATT
17752231 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAA
17752296 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
65 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
17752361 TTATTAAATATAT
130 TTATTAAATATAT
17752374 AACTTGAAAA
Statistics
Matches: 855, Mismatches: 7, Indels: 5
0.99 0.01 0.01
Matches are distributed among these distances:
360 249 0.29
361 507 0.59
362 99 0.12
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (361 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
TATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATA
TTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
TATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTAC
TGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:17755430 original size:33 final size:33
Alignment explanation
Indices: 17755391--17755466 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
17755381 ATTATAAAGC
*
17755391 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
17755424 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
17755457 ATGTATAATT
1 ATGTATAATT
17755467 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:17755564 original size:37 final size:37
Alignment explanation
Indices: 17755509--17755590 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
17755499 GTATAAATAT
* * *
17755509 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAGC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
17755546 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
17755583 ATTGATTA
1 ATTGATTA
17755591 ATAAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:17759795 original size:27 final size:27
Alignment explanation
Indices: 17759695--17759806 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
17759685 AGCATGGCTG
* ** *
17759695 CCAGAACAGATAA-TGTGATAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* * *
17759721 CCAGATACAGATAATCGTGGCACAACCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
*
17759749 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
* *
17759776 CCAGATCAGATAATTATGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
17759803 CCAG
1 CCAG
17759807 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
26 8 0.12
27 45 0.66
28 15 0.22
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:17759796 original size:54 final size:54
Alignment explanation
Indices: 17759695--17759806 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
17759685 AGCATGGCTG
* * * *
17759695 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAATCGTGGCACAACCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCACAACCA
* * * *
17759749 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTATGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCACAACCA
17759803 CCAG
1 CCAG
17759807 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCACAACCA
Found at i:17759956 original size:25 final size:25
Alignment explanation
Indices: 17759909--17759956 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
17759899 ACAAAATTAA
*
17759909 CCCTAGGGGCATATCGGTCATTTAC
1 CCCTAGGGGCATATCGGTAATTTAC
*
17759934 CCCTAGGGGTATCAT-GGTAATTT
1 CCCTAGGGGCAT-ATCGGTAATTT
17759957 TCCACACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (25 bp):
CCCTAGGGGCATATCGGTAATTTAC
Found at i:17761931 original size:55 final size:55
Alignment explanation
Indices: 17761860--17761968 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
17761850 CCAGAGCAAA
*
17761860 CACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAATTTCATTG
1 CACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATTG
* * *
17761915 CACAGCCTCAACTACAATTTAAATAAATAATTTATACATATTACTAAGTTCATT
1 CACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATT
17761969 ACATCATCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (55 bp):
CACAACCTCAACTACAATTTAAATAAACAATTTACACATATTACTAAGTTCATTG
Found at i:17762759 original size:15 final size:14
Alignment explanation
Indices: 17762739--17762795 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 14
17762729 TAGATTATAT
17762739 AATTAAATAATTAGG
1 AATTAAATAATTA-G
* *
17762754 AATTAAATAAATAAA
1 AATTAAAT-AATTAG
17762769 ATATTATAATAATTAG
1 A-ATTA-AATAATTAG
17762785 AATT-AATAATT
1 AATTAAATAATT
17762796 TTAGTTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 7 0.20
15 12 0.34
16 13 0.37
17 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (14 bp):
AATTAAATAATTAG
Found at i:17762763 original size:23 final size:21
Alignment explanation
Indices: 17762725--17762768 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
17762715 CTGAAAATCG
* *
17762725 TAATTAGATTATATAATTAAA
1 TAATTAGATTAAATAAATAAA
17762746 TAATTAGGAATTAAATAAATAAA
1 TAATTA-G-ATTAAATAAATAAA
17762769 ATATTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (21 bp):
TAATTAGATTAAATAAATAAA
Found at i:17766925 original size:43 final size:43
Alignment explanation
Indices: 17766879--17767025 Score: 181
Period size: 43 Copynumber: 3.4 Consensus size: 43
17766869 TATCGAGATG
* *
17766879 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* *
17766922 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * * * *
17766965 TGATTTCGTGTAAGACCCTCTCTGGGAC-GTGGCATCG-ATATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TA
*
17767007 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
17767026 ATCTAGGATA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.02
42 25 0.28
43 63 0.70
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:17776717 original size:30 final size:30
Alignment explanation
Indices: 17776665--17776733 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
17776655 AAATTAAATC
* *
17776665 CACATGGCCGTGCAACACGGCCTTGTGAAG
1 CACACGGCCGTACAACACGGCCTTGTGAAG
** *
17776695 CACACGGCCGTACAACGTGGCCTTGTGGAG
1 CACACGGCCGTACAACACGGCCTTGTGAAG
*
17776725 TACACGGCC
1 CACACGGCC
17776734 TGGATACACG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.32, G:0.30, T:0.16
Consensus pattern (30 bp):
CACACGGCCGTACAACACGGCCTTGTGAAG
Found at i:17777213 original size:19 final size:19
Alignment explanation
Indices: 17777158--17777213 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
17777148 CCTTCTCTTC
17777158 TTCTTTCC-CTTATCTTTCT
1 TTCTTTCCTCTT-TCTTTCT
* *
17777177 TTCCTT-CTCTTTTTTTTCT
1 TTCTTTCCTC-TTTCTTTCT
17777196 TTCTTTCCTCTTTCTTTC
1 TTCTTTCCTCTTTCTTTC
17777214 ACTTTCTCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 24 0.80
20 5 0.17
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCTTTCCTCTTTCTTTCT
Found at i:17777452 original size:3 final size:3
Alignment explanation
Indices: 17777444--17777477 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
17777434 TTTTAATTAA
*
17777444 ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
17777478 GTTCTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:17783972 original size:8 final size:7
Alignment explanation
Indices: 17783925--17783968 Score: 79
Period size: 7 Copynumber: 6.1 Consensus size: 7
17783915 ATAATCCTTT
17783925 ACCCTAA
1 ACCCTAA
17783932 ACCCTAA
1 ACCCTAA
17783939 ACCCTAA
1 ACCCTAA
17783946 ACCCTAA
1 ACCCTAA
17783953 ACCCTAAA
1 ACCCT-AA
17783961 ACCCTAA
1 ACCCTAA
17783968 A
1 A
17783969 ACCCGACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:17787236 original size:21 final size:20
Alignment explanation
Indices: 17787171--17787239 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
17787161 CACAAAAGCA
*
17787171 CATAAGTGCTAAACGAAAACC
1 CATAAG-GCTGAACGAAAACC
* * * * *
17787192 CGTAAGGTTGAACGGAAGCT
1 CATAAGGCTGAACGAAAACC
17787212 CATAAGAGCTGAACGAAAACC
1 CATAAG-GCTGAACGAAAACC
17787233 CATAAGG
1 CATAAGG
17787240 GTTAAATTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.14
Consensus pattern (20 bp):
CATAAGGCTGAACGAAAACC
Found at i:17787274 original size:42 final size:42
Alignment explanation
Indices: 17787207--17787286 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
17787197 GGTTGAACGG
* *
17787207 AAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAAATTA
1 AAGCTCAAAAGAGCTGAAAGAAAACCCATAAGGGTTAAATTA
*
17787249 AAGCTCAAAAGAGCT-AAAGAGAAACCCATTAGGGTTAA
1 AAGCTCAAAAGAGCTGAAAGA-AAACCCATAAGGGTTAA
17787287 TCGGAAACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.17
Consensus pattern (42 bp):
AAGCTCAAAAGAGCTGAAAGAAAACCCATAAGGGTTAAATTA
Found at i:17787570 original size:76 final size:76
Alignment explanation
Indices: 17787444--17787596 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
17787434 GTTCCACTTT
17787444 AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
1 AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
17787509 TAATATCATTC
66 TAATATCATTC
17787520 AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
1 AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
*
17787585 TGATATCATTC
66 TAATATCATTC
17787596 A
1 A
17787597 TCAATTCAAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (76 bp):
AGCCGAATAATTATTTCAATTCACAATTTAATAATAGTTCATTTTTCAAAAATATACTAAATAAA
TAATATCATTC
Found at i:17793858 original size:18 final size:18
Alignment explanation
Indices: 17793835--17793870 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
17793825 GATATGATTC
17793835 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
17793853 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
17793871 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:17794216 original size:35 final size:37
Alignment explanation
Indices: 17794160--17794250 Score: 150
Period size: 35 Copynumber: 2.5 Consensus size: 37
17794150 AAGTATATCT
17794160 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCATA
17794197 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCATA
17794233 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
17794251 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
35 19 0.37
36 16 0.31
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCATA
Found at i:17794258 original size:17 final size:19
Alignment explanation
Indices: 17794160--17794250 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
17794150 AAGTATATCT
17794160 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17794179 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
17794197 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
17794214 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17794233 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
17794251 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17794656 original size:44 final size:44
Alignment explanation
Indices: 17794600--17794709 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
17794590 GGAAGGTGAT
* *
17794600 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGTCAA
1 ATCTGCT-TCTTTGATCTGCTCCCCGTCTAATAAAGAGACGCCAA
* *
17794645 ATCTGCTTCTTTAATCTGCTCCCCGTCTAATAAAGAGATGCCAA
1 ATCTGCTTCTTTGATCTGCTCCCCGTCTAATAAAGAGACGCCAA
* * *
17794689 ATATGTCATCTTGGATCTGCT
1 ATCTG-CTTCTTTGATCTGCT
17794710 TTGATGTAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 37 0.66
45 19 0.34
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (44 bp):
ATCTGCTTCTTTGATCTGCTCCCCGTCTAATAAAGAGACGCCAA
Found at i:17794852 original size:78 final size:78
Alignment explanation
Indices: 17794723--17794939 Score: 371
Period size: 78 Copynumber: 2.8 Consensus size: 78
17794713 ATGTAAACAC
17794723 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
17794788 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
17794801 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCCTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
17794866 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * **
17794879 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
17794940 TGTTTCTTCG
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 130 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:17795279 original size:220 final size:220
Alignment explanation
Indices: 17794897--17795470 Score: 898
Period size: 220 Copynumber: 2.6 Consensus size: 220
17794887 CAGATCTGTT
* *
17794897 ATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTTTTTG
1 ATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
*
17794962 ACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTT-AGGGTAAACACGTGAAAGCCAAATCTG
66 ACAGTACAGAGATGCCAAATCATCTTAGATCTG-TTTCAGCGTAAACACGTGAAAGCCAAATCTG
* *
17795026 CTATATCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAACTCATCTTGGATCTACTTCGATGT
130 CTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGT
* * *
17795091 GAAGACATCCGAAGGTTAGATTTGCC
195 GAAAACATCCGAAGGTTAGATCTACC
* * *
17795117 ATGTCTTCGATCTGCTCTCCATCGAATATGGAGATGCCAAATCTATTTCTTCGATTTATTCTCTG
1 ATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
* * *
17795182 ACAGTACAGAGATACCAAATCATCTTAGATCTGTTTCAGCATAAATACGTGAAAGCCAAATCTGC
66 ACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGCCAAATCTGC
17795247 TATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTG
131 TATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTG
*
17795312 AAAACATCCGAAGGTTAGATCTACT
196 AAAACATCCGAAGGTTAGATCTACC
*
17795337 ATGTCTTCGATCTGCTCTCCGTTGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
1 ATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
* * ** * * * * * *
17795402 ACAATACAAAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACCTGAAGGTCAAATCTGC
66 ACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGCCAAATCTGC
17795467 TATG
131 TATG
17795471 CTTTATCCTG
Statistics
Matches: 321, Mismatches: 32, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
219 3 0.01
220 318 0.99
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (220 bp):
ATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
ACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGCCAAATCTGC
TATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTG
AAAACATCCGAAGGTTAGATCTACC
Found at i:17804363 original size:23 final size:22
Alignment explanation
Indices: 17804333--17804377 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17804323 AAATTAAATC
17804333 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
17804356 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
17804378 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:17804412 original size:35 final size:37
Alignment explanation
Indices: 17804349--17804427 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
17804339 ATTACAAAAT
17804349 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
17804385 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
17804420 CATATCAT
1 CATATCAT
17804428 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:17804425 original size:14 final size:15
Alignment explanation
Indices: 17804370--17804425 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
17804360 AGATTGCATA
17804370 TCATATCTAAGATTG
1 TCATATCTAAGATTG
17804385 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
17804403 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
17804420 -CATATC
1 TCATATC
17804426 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:17804435 original size:17 final size:19
Alignment explanation
Indices: 17804356--17804427 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
17804346 AATCATATCT
17804356 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17804375 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
17804393 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
17804410 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
17804428 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17805447 original size:7 final size:7
Alignment explanation
Indices: 17805435--17805561 Score: 51
Period size: 7 Copynumber: 17.7 Consensus size: 7
17805425 ACTAATTAAT
17805435 CTAAACC
1 CTAAACC
17805442 CTAAACC
1 CTAAACC
*
17805449 CTTAATCC
1 C-TAAACC
*
17805457 CTAAACT
1 CTAAACC
*
17805464 TTAAACC
1 CTAAACC
*
17805471 CTAAAATC
1 CT-AAACC
*
17805479 CTAAAAC
1 CTAAACC
*
17805486 ATAAACC
1 CTAAACC
* *
17805493 ATTAACC
1 CTAAACC
* *
17805500 TTGAACCC
1 CT-AAACC
17805508 CT-AACC
1 CTAAACC
17805514 CTTAAACC
1 C-TAAACC
*
17805522 TTAAACC
1 CTAAACC
*
17805529 C-CAACC
1 CTAAACC
17805535 CTTAAACC
1 C-TAAACC
* *
17805543 ATAATCC
1 CTAAACC
*
17805550 ATAAACC
1 CTAAACC
*
17805557 TTAAA
1 CTAAA
17805562 ATAGTAACTC
Statistics
Matches: 89, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
6 9 0.10
7 56 0.63
8 24 0.27
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:17805460 original size:15 final size:14
Alignment explanation
Indices: 17805436--17805619 Score: 63
Period size: 14 Copynumber: 12.9 Consensus size: 14
17805426 CTAATTAATC
17805436 TAAACCCTAAACCCT
1 TAAACCCTAAA-CCT
* *
17805451 TAATCCCTAAACTT
1 TAAACCCTAAACCT
17805465 TAAACCCTAAAATCC-
1 TAAACCCT-AAA-CCT
* *
17805480 TAAAACATAAACCAT
1 TAAACCCTAAACC-T
* * *
17805495 T-AACCTTGAACCCC
1 TAAACCCT-AAACCT
17805509 T-AACCCTTAAACCT
1 TAAACCC-TAAACCT
* *
17805523 TAAACCCCAACCCT
1 TAAACCCTAAACCT
* * *
17805537 TAAACCATAATCCA
1 TAAACCCTAAACCT
* *
17805551 TAAACCTTAAA--A
1 TAAACCCTAAACCT
* *
17805563 TAGTAACTCATAAACAT
1 TA--AAC-CCTAAACCT
* *
17805580 TAAACCCTTAACCA
1 TAAACCCTAAACCT
* * *
17805594 TATACCCTAAATCA
1 TAAACCCTAAACCT
17805608 TAAACCCTAAAC
1 TAAACCCTAAAC
17805620 TATAATAATA
Statistics
Matches: 125, Mismatches: 32, Indels: 25
0.69 0.18 0.14
Matches are distributed among these distances:
12 3 0.02
13 2 0.02
14 79 0.63
15 38 0.30
16 1 0.01
17 2 0.02
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:17805462 original size:22 final size:22
Alignment explanation
Indices: 17805435--17805539 Score: 65
Period size: 22 Copynumber: 4.9 Consensus size: 22
17805425 ACTAATTAAT
17805435 CTAAACCCTAAACCCTTAATCC
1 CTAAACCCTAAACCCTTAATCC
** *
17805457 CTAAACTTTAAACCCTAAAAT-C
1 CTAAACCCTAAACCCT-TAATCC
* * *
17805479 CTAAAACATAAACCATTAA-CC
1 CTAAACCCTAAACCCTTAATCC
* * *
17805500 TTGAACCCCT-AACCCTTAAACC
1 CT-AAACCCTAAACCCTTAATCC
* *
17805522 TTAAACCC-CAACCCTTAA
1 CTAAACCCTAAACCCTTAA
17805540 ACCATAATCC
Statistics
Matches: 64, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
21 26 0.41
22 35 0.55
23 3 0.05
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (22 bp):
CTAAACCCTAAACCCTTAATCC
Found at i:17805518 original size:21 final size:20
Alignment explanation
Indices: 17805489--17805539 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
17805479 CTAAAACATA
* *
17805489 AACCATTAACCTTGAACCCC
1 AACCCTTAACCTTAAACCCC
17805509 TAACCCTTAAACCTTAAACCCC
1 -AACCCTT-AACCTTAAACCCC
17805531 AACCCTTAA
1 AACCCTTAA
17805540 ACCATAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 13 0.48
22 12 0.44
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (20 bp):
AACCCTTAACCTTAAACCCC
Done.