Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 42 of 335
Found at i:15315191 original size:39 final size:38
Alignment explanation
Indices: 15315124--15315257 Score: 92
Period size: 39 Copynumber: 3.4 Consensus size: 38
15315114 ACCAATATGG
* * *
15315124 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
15315163 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
15315201 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
15315242 CA-CCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
15315258 ACTCGAGGTC
Statistics
Matches: 72, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
38 18 0.25
39 35 0.49
40 16 0.22
41 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:15315523 original size:18 final size:19
Alignment explanation
Indices: 15315497--15315535 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15315487 TTTCAATTCA
15315497 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
15315516 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
15315534 AT
1 AT
15315536 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:15316851 original size:5 final size:5
Alignment explanation
Indices: 15316841--15316881 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
15316831 TTACTTATTT
* *
15316841 ATATA ATATA ATATA CTATA ATATA ATAATA ATTTA ATATA
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA
15316882 TATTTTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:15319510 original size:5 final size:5
Alignment explanation
Indices: 15319500--15319535 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
15319490 AATAATTAAG
15319500 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
15319536 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:15319605 original size:31 final size:30
Alignment explanation
Indices: 15319570--15319630 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
15319560 GAAACAGAAT
*
15319570 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
15319601 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
15319631 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:15321199 original size:39 final size:39
Alignment explanation
Indices: 15321092--15321226 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
15321082 GACCTCGAGT
* * *
15321092 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
15321133 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
15321171 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
15321210 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
15321227 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:15325753 original size:13 final size:14
Alignment explanation
Indices: 15325737--15325772 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
15325727 CAATCTCATA
15325737 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
15325750 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
15325763 TCTC-ATTTCA
1 TCTCAATTTCA
15325773 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:15325762 original size:18 final size:19
Alignment explanation
Indices: 15325724--15325764 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
15325714 TGGTTCATGT
15325724 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
15325743 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
15325761 TTTC
1 TTTC
15325765 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:15326288 original size:18 final size:19
Alignment explanation
Indices: 15326262--15326300 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15326252 TTTCAATTCA
15326262 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
15326281 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
15326299 AT
1 AT
15326301 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:15326586 original size:19 final size:19
Alignment explanation
Indices: 15326547--15326582 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15326537 TGACTACGAA
*
15326547 ATTAATACAATTCCTAATC
1 ATTAATACAATTACTAATC
15326566 ATTAATAC-ATTACTAAT
1 ATTAATACAATTACTAAT
15326583 TCATATCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTAATACAATTACTAATC
Found at i:15327621 original size:5 final size:5
Alignment explanation
Indices: 15327611--15327651 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
15327601 TTACTTATTT
* *
15327611 ATATA ATATA ATATA CTATA ATATA ATAATA ATTTA ATATA
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA
15327652 TATTTTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:15333288 original size:13 final size:13
Alignment explanation
Indices: 15333242--15333288 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
15333232 TAATAGGAAT
*
15333242 ATATATATATTTA
1 ATATTTATATTTA
15333255 ATATTTAT-TTTA
1 ATATTTATATTTA
** *
15333267 CGATCTATATTTA
1 ATATTTATATTTA
15333280 ATATTTATA
1 ATATTTATA
15333289 ATTATTTCTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (13 bp):
ATATTTATATTTA
Found at i:15333400 original size:15 final size:14
Alignment explanation
Indices: 15333378--15333409 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
15333368 CGAATAAAAT
15333378 TTTAATTTTTATAA
1 TTTAATTTTTATAA
15333392 TTTATATTTTTATAA
1 TTTA-ATTTTTATAA
15333407 TTT
1 TTT
15333410 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTAATTTTTATAA
Found at i:15333429 original size:28 final size:27
Alignment explanation
Indices: 15333393--15333450 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 27
15333383 TTTTTATAAT
15333393 TTATATTTTTATAATTTTTAAAAAATTAAA
1 TTAT-TTTTTATAA-TTTT-AAAAATTAAA
15333423 TTATTTTTTTATAATTTTAAAAATTAAA
1 TTA-TTTTTTATAATTTTAAAAATTAAA
15333451 GTATAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 10 0.37
29 4 0.15
30 12 0.44
31 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATTTTTTATAATTTTAAAAATTAAA
Found at i:15333460 original size:28 final size:30
Alignment explanation
Indices: 15333394--15333461 Score: 95
Period size: 28 Copynumber: 2.3 Consensus size: 30
15333384 TTTTATAATT
*
15333394 TATATTTTTATAATTTTTAAAAAATTAAAT
1 TATATTTTTATAATTTTTAAAAAATTAAAG
*
15333424 TATTTTTTTATAA-TTTT-AAAAATTAAAG
1 TATATTTTTATAATTTTTAAAAAATTAAAG
*
15333452 TATAATTTTA
1 TATATTTTTA
15333462 CTTTTATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 18 0.53
29 4 0.12
30 12 0.35
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
TATATTTTTATAATTTTTAAAAAATTAAAG
Found at i:15340640 original size:102 final size:102
Alignment explanation
Indices: 15340464--15340667 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
15340454 ACCATGCCCC
*
15340464 TTGGACTCCATAATATTACTACCATCTGCATTGAAGGAAAACTCAATCAAAATGACAAGAAATAA
1 TTGGACTCCATAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
15340529 CCATCATTTCCGGTCAGACTATGAAATAGCCTTTAAT
66 CCATCATTTCCGGTCAGACTATGAAATAGCCTTTAAT
15340566 TTGGACTCCATAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
1 TTGGACTCCATAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
*
15340631 CCATCATTTCTGGTCAGACTATGAAATAGCCTTTAAT
66 CCATCATTTCCGGTCAGACTATGAAATAGCCTTTAAT
15340668 CAGATCTTAT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (102 bp):
TTGGACTCCATAATATTACTACCATCTGCATTGAAGAAAAACTCAATCAAAATGACAAGAAATAA
CCATCATTTCCGGTCAGACTATGAAATAGCCTTTAAT
Found at i:15344091 original size:22 final size:22
Alignment explanation
Indices: 15344063--15344109 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
15344053 TTTGAGATTT
15344063 ATTAGGCATTAGAATGCCTCTG
1 ATTAGGCATTAGAATGCCTCTG
15344085 ATTAGGCATTAGAATGCCTCTG
1 ATTAGGCATTAGAATGCCTCTG
15344107 ATT
1 ATT
15344110 GGGACGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (22 bp):
ATTAGGCATTAGAATGCCTCTG
Found at i:15350583 original size:44 final size:44
Alignment explanation
Indices: 15350503--15350636 Score: 182
Period size: 44 Copynumber: 3.0 Consensus size: 44
15350493 ATCCCGTCTT
* * *
15350503 TGTAA-CTTAACCATGTTTACGTGAAAAGTAATGGAGCCCATTAC
1 TGTAATCTTAACCATATTTACGT-AAAACTAACGGAGCCCATTAC
* *
15350547 TGTAATCTTAACCGTATTTAAGTAAAACTAACGGAGCCCATTAC
1 TGTAATCTTAACCATATTTACGTAAAACTAACGGAGCCCATTAC
*
15350591 TGTAAT-TTCAACCATATTTACGTAAAACTAACGGAGCCAATTAC
1 TGTAATCTT-AACCATATTTACGTAAAACTAACGGAGCCCATTAC
15350635 TG
1 TG
15350637 ATTTTAACAG
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
43 2 0.03
44 64 0.80
45 14 0.17
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (44 bp):
TGTAATCTTAACCATATTTACGTAAAACTAACGGAGCCCATTAC
Found at i:15362242 original size:46 final size:46
Alignment explanation
Indices: 15362182--15362351 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
15362172 TGGTTGAGCA
*
15362182 TCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
15362228 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* ** *
15362273 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
15362321 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
15362352 TTAGGGGCGG
Statistics
Matches: 101, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 54 0.53
47 27 0.27
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:15362338 original size:93 final size:93
Alignment explanation
Indices: 15362179--15362349 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
15362169 GGATGGTTGA
* *
15362179 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
15362244 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * ** *
15362272 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
15362337 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
15362350 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15362616 original size:19 final size:20
Alignment explanation
Indices: 15362579--15362616 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
15362569 ATAAGGTGGT
15362579 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
15362599 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
15362617 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:15364433 original size:13 final size:13
Alignment explanation
Indices: 15364414--15364490 Score: 91
Period size: 13 Copynumber: 5.9 Consensus size: 13
15364404 TAAACCAAAT
15364414 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
15364427 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
15364440 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
* *
15364453 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
15364466 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
*
15364479 TTTTTAAAAGCA
1 TTTTCAAAAGCA
15364491 TTGCCAAACT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.30
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:15365362 original size:23 final size:23
Alignment explanation
Indices: 15365335--15365391 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
15365325 ATCTGAATCT
15365335 TAAATTTTAAAAATAAAAATAAA
1 TAAATTTTAAAAATAAAAATAAA
** *
15365358 TAAATTTTTTGAAATAAAAATATA
1 TAAA-TTTTAAAAATAAAAATAAA
15365382 -AAATTTTAAA
1 TAAATTTTAAA
15365392 TTTAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 16 0.57
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAATTTTAAAAATAAAAATAAA
Found at i:15369685 original size:46 final size:44
Alignment explanation
Indices: 15369581--15369688 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
15369571 TGTCTTTGAC
** * * *
15369581 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
15369625 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
15369671 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
15369689 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:15377072 original size:46 final size:44
Alignment explanation
Indices: 15376968--15377075 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
15376958 TGTCTTTGAC
** * * *
15376968 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
15377012 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
15377058 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
15377076 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:15379783 original size:47 final size:47
Alignment explanation
Indices: 15379674--15379784 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
15379664 CCGGGATAAG
* * *
15379674 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
15379721 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
15379768 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
15379785 ACTCAATGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:15380548 original size:4 final size:4
Alignment explanation
Indices: 15380539--15380569 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
15380529 CCCTTTTTTA
15380539 TTTC TTTC TTTC TTTC TTTC -TTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
15380570 ACGTTTGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:15385731 original size:16 final size:15
Alignment explanation
Indices: 15385706--15385743 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15385696 ACAAAATTTG
15385706 AAAGAAAAAGAAAGAA
1 AAAGAAAAAG-AAGAA
*
15385722 AAAGAGAAAGAAGAA
1 AAAGAAAAAGAAGAA
15385737 AAAGAAA
1 AAAGAAA
15385744 GAGACCCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:15385737 original size:19 final size:18
Alignment explanation
Indices: 15385708--15385747 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
15385698 AAAATTTGAA
15385708 AGAAAAAGAAAGAA-AAAG
1 AGAAAAAGAAA-AAGAAAG
15385726 AGAAAGAAGAAAAAGAAAG
1 AGAAA-AAGAAAAAGAAAG
15385745 AGA
1 AGA
15385748 CCCGTGGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AGAAAAAGAAAAAGAAAG
Found at i:15387154 original size:21 final size:21
Alignment explanation
Indices: 15387128--15387170 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15387118 GCAGGTTAGG
15387128 TACTTAACTTTTAATCACCGA
1 TACTTAACTTTTAATCACCGA
15387149 TACTTAACTTTTAATCACCGA
1 TACTTAACTTTTAATCACCGA
15387170 T
1 T
15387171 TCAGCATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (21 bp):
TACTTAACTTTTAATCACCGA
Found at i:15393715 original size:33 final size:36
Alignment explanation
Indices: 15393677--15393757 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 36
15393667 CTTATACAAT
15393677 TGAATCAAAATTAAAATTTCATATATAT-A-TATA-
1 TGAATCAAAATTAAAATTTCATATATATAATTATAC
* *
15393710 TGAATCACAATTTAAATTTCATATATATAATTATAC
1 TGAATCAAAATTAAAATTTCATATATATAATTATAC
*
15393746 TAAATCAAAATT
1 TGAATCAAAATT
15393758 CATACGAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
33 26 0.63
34 1 0.02
35 4 0.10
36 10 0.24
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (36 bp):
TGAATCAAAATTAAAATTTCATATATATAATTATAC
Found at i:15394994 original size:13 final size:13
Alignment explanation
Indices: 15394976--15395002 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15394966 GATATAGGAT
15394976 CACTTATGTTCGC
1 CACTTATGTTCGC
15394989 CACTTATGTTCGC
1 CACTTATGTTCGC
15395002 C
1 C
15395003 TAAATGCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.37
Consensus pattern (13 bp):
CACTTATGTTCGC
Found at i:15404822 original size:16 final size:18
Alignment explanation
Indices: 15404803--15404849 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
15404793 GTTACTTAAA
*
15404803 ATTTAATTGAT-TTTT-T
1 ATTTAATTAATATTTTAT
*
15404819 ATTTTATTAATATTTTAT
1 ATTTAATTAATATTTTAT
15404837 ATTTACATTAATA
1 ATTTA-ATTAATA
15404850 AAAATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 9 0.36
17 4 0.16
18 5 0.20
19 7 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTAATTAATATTTTAT
Found at i:15408661 original size:24 final size:23
Alignment explanation
Indices: 15408616--15408662 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
15408606 TCATACATCT
*
15408616 TTTAATATCATTTTAAATAATAA
1 TTTAATATCATTTTAAAAAATAA
15408639 TTTAATAT-ATTAATTAAAAAATAA
1 TTTAATATCATT--TTAAAAAATAA
15408663 AATTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 8 0.38
24 10 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAATATCATTTTAAAAAATAA
Found at i:15412642 original size:13 final size:13
Alignment explanation
Indices: 15412609--15412635 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15412599 CCAGTCAATC
15412609 ATTCAAAGCATAA
1 ATTCAAAGCATAA
15412622 ATTCAAAGCATAA
1 ATTCAAAGCATAA
15412635 A
1 A
15412636 ATTAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ATTCAAAGCATAA
Found at i:15417065 original size:30 final size:30
Alignment explanation
Indices: 15417026--15417082 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15417016 TTTTATAAGT
15417026 AATTAATATTT-A-TTACTTAAAAATATTTAA
1 AATTAATATTTCATTTA-TT-AAAATATTTAA
*
15417056 AATTTATATTTCATTTATTAAAATATT
1 AATTAATATTTCATTTATTAAAATATT
15417083 AACAATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 3 0.12
32 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATTTATTAAAATATTTAA
Found at i:15420615 original size:25 final size:23
Alignment explanation
Indices: 15420566--15420615 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 23
15420556 TTTGATTTAC
* *
15420566 TTTTTCATATTTTAAATTGTTTT
1 TTTTTCATATTTTAAATTCTGTT
*
15420589 TTTTTGCATTATTTTAATTTCTGTT
1 TTTTT-CA-TATTTTAAATTCTGTT
15420614 TT
1 TT
15420616 AATTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 5 0.23
24 2 0.09
25 15 0.68
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (23 bp):
TTTTTCATATTTTAAATTCTGTT
Found at i:15423023 original size:2 final size:2
Alignment explanation
Indices: 15423016--15423048 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15423006 ACTTGGTTGT
15423016 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15423049 TAGATGTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15423527 original size:26 final size:26
Alignment explanation
Indices: 15423484--15423590 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
15423474 TGGTACAAAT
15423484 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
15423509 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
15423535 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15423561 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15423587 TGAT
1 TGAT
15423591 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 7 0.09
26 67 0.91
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15425096 original size:26 final size:26
Alignment explanation
Indices: 15425030--15425105 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
15425020 AAAAGCAGCT
* * *
15425030 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
*
15425058 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
*
15425084 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
15425106 GTTACTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:15425345 original size:32 final size:27
Alignment explanation
Indices: 15425209--15425349 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
15425199 AGGAAGCGTC
*
15425209 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
* *
15425236 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
15425263 CTGGTGCCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
15425290 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
15425317 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
15425344 CTGGTG
1 CTGGTG
15425350 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 11 0.11
27 86 0.87
28 2 0.02
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:15425346 original size:54 final size:54
Alignment explanation
Indices: 15425209--15425349 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
15425199 AGGAAGCGTC
*
15425209 CTGGTGGCTATGCCACGATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
15425263 CTGGTGCCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
15425317 CTGGTGGCTCTGCCAC-AATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTG
15425350 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:15425360 original size:27 final size:27
Alignment explanation
Indices: 15425209--15425367 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
15425199 AGGAAGCGTC
* *
15425209 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
*
15425236 CTAGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * *
15425263 CTGGTGCCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
15425290 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
15425317 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
15425344 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
15425368 GCAGCCTCGC
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.10
27 100 0.89
28 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:15427533 original size:47 final size:47
Alignment explanation
Indices: 15427464--15427584 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 47
15427454 TTCGGAGAAA
* * * *
15427464 TGTGATATGTGCTTCCGTATAAGAGCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATACGGGATATGGCATCAG
* *
15427511 TGTGATATGTGCTACTGTATAAGACCATATATGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATACGGGATATGGCATCAG
* *
15427558 TGTGATATGTGAT-CCGTGTAAGACCAT
1 TGTGATATGTGCTACCGTATAAGACCAT
15427585 GGCTGGGCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 12 0.18
47 53 0.82
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATACGGGATATGGCATCAG
Found at i:15430778 original size:63 final size:64
Alignment explanation
Indices: 15430698--15430881 Score: 205
Period size: 66 Copynumber: 2.9 Consensus size: 64
15430688 GAGACATTAT
*
15430698 AATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATA
1 AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
15430761 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 AATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
15430826 TA
63 TA
* * *
15430828 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 AA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
15430882 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 43 0.43
64 1 0.01
65 2 0.02
66 45 0.45
67 5 0.05
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:15431214 original size:28 final size:27
Alignment explanation
Indices: 15431174--15431328 Score: 136
Period size: 28 Copynumber: 5.6 Consensus size: 27
15431164 CCAAACGAAC
*
15431174 GGCACTTAGTGTGCGAAGTATTGAGGAT
1 GGCACTTAGTGTGCGAAGTATCGA-GAT
* *
15431202 GGCACTTAGTGTGC-AAGACATCCGAAAT
1 GGCACTTAGTGTGCGAAG-TAT-CGAGAT
* ** *
15431230 GACAC--AGTGTATGAAGTATTGATGAT
1 GGCACTTAGTGTGCGAAGTATCGA-GAT
* ** *
15431256 GACACTTAGTGTGCGAAACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTAT-CGAGAT
15431284 GGCACTTAGTGTGCGAAGTATCGAGGAT
1 GGCACTTAGTGTGCGAAGTATCGA-GAT
15431312 GGCACTTAGTGTGCGAA
1 GGCACTTAGTGTGCGAA
15431329 ACATCCGGTA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
25 2 0.02
26 14 0.14
27 9 0.09
28 71 0.71
29 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
GGCACTTAGTGTGCGAAGTATCGAGAT
Found at i:15431246 original size:54 final size:55
Alignment explanation
Indices: 15431180--15431335 Score: 217
Period size: 54 Copynumber: 2.8 Consensus size: 55
15431170 GAACGGCACT
*
15431180 TAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAATGACAC
1 TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAATGACAC
* * * *
15431235 -AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAATGGCAC
1 TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATGACAC
* *
15431289 TTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCG
1 -TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCG
15431336 GTATAGCACT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
54 46 0.52
55 2 0.02
56 40 0.45
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (55 bp):
TAGTGTACGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATGACAC
Found at i:15431321 original size:56 final size:56
Alignment explanation
Indices: 15431174--15431353 Score: 240
Period size: 56 Copynumber: 3.2 Consensus size: 56
15431164 CCAAACGAAC
15431174 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAAT
* ** * *
15431230 GACAC--AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* **
15431284 GGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCGGTAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* *
15431340 AGCACTTAGCGTGC
1 GGCACTTAGTGTGC
15431354 AAGACATCGA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
54 46 0.43
55 2 0.02
56 58 0.55
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (56 bp):
GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
Found at i:15431344 original size:28 final size:28
Alignment explanation
Indices: 15431258--15431361 Score: 113
Period size: 28 Copynumber: 3.7 Consensus size: 28
15431248 TTGATGATGA
*
15431258 CACTTAGTGTGCGAAACATCCGAAATGG
1 CACTTAGTGTGCGAAACATCCGGAATGG
** *
15431286 CACTTAGTGTGCGAAGTAT-CGAGGATGG
1 CACTTAGTGTGCGAAACATCCG-GAATGG
* *
15431314 CACTTAGTGTGCGAAACATCCGGTATAG
1 CACTTAGTGTGCGAAACATCCGGAATGG
*
15431342 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
15431362 GATTGTGCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.06
28 58 0.91
29 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCGGAATGG
Found at i:15434049 original size:52 final size:48
Alignment explanation
Indices: 15433987--15434179 Score: 185
Period size: 47 Copynumber: 4.0 Consensus size: 48
15433977 GAAATCTGAT
* *
15433987 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* * *
15434039 TTCCGTATAAGAGCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * **
15434086 TACTGTATAAGACCATATATGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * * *
15434132 ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGATATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGA-GTGTGATATGTG
15434180 ACTATGTGCA
Statistics
Matches: 118, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
46 24 0.20
47 53 0.45
48 11 0.09
50 1 0.01
51 1 0.01
52 28 0.24
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:15442206 original size:7 final size:7
Alignment explanation
Indices: 15442194--15442219 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15442184 ATCATCTCCT
15442194 TCATCAC
1 TCATCAC
15442201 TCATCAC
1 TCATCAC
15442208 TCATCAC
1 TCATCAC
15442215 TCATC
1 TCATC
15442220 TGAAAGCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCAC
Found at i:15442912 original size:2 final size:2
Alignment explanation
Indices: 15442905--15442948 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
15442895 ATCCCCACTT
15442905 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15442947 TC
1 TC
15442949 GCTGCGTGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15449815 original size:22 final size:23
Alignment explanation
Indices: 15449779--15449832 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
15449769 AGATTTGACG
*
15449779 TTTAAA-AAATATTA-TGTTAATA
1 TTTAAATAAATATTATTATTAA-A
*
15449801 TTTATATAAAT-TTATTATTAAA
1 TTTAAATAAATATTATTATTAAA
15449823 TTTAAATAAA
1 TTTAAATAAA
15449833 ATAACTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAATAAATATTATTATTAAA
Found at i:15462705 original size:13 final size:13
Alignment explanation
Indices: 15462687--15462715 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15462677 TTGTATCTCA
15462687 TTTTTTCTCTACC
1 TTTTTTCTCTACC
15462700 TTTTTTCTCTACC
1 TTTTTTCTCTACC
15462713 TTT
1 TTT
15462716 GGTTGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTTCTCTACC
Found at i:15471279 original size:53 final size:53
Alignment explanation
Indices: 15471198--15471353 Score: 192
Period size: 53 Copynumber: 3.0 Consensus size: 53
15471188 GACGAAAAAT
* ** *
15471198 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGTTTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
*
15471250 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * *
15471303 ATGTGATAATGTGATTCCATATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTA
15471354 TGATATGTGA
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
51 4 0.04
52 11 0.12
53 77 0.84
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:15482956 original size:75 final size:75
Alignment explanation
Indices: 15482837--15483008 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
15482827 CATGGCAAAG
** *
15482837 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
15482896 CCATACTGAGC
65 CCATACCGAGC
15482907 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
15482972 CATACCGAGT
66 CATACCGAGC
***
15482982 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
15483009 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:15482975 original size:35 final size:35
Alignment explanation
Indices: 15482840--15483006 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
15482830 GGCAAAGTGT
* **
15482840 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
15482875 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
15482910 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
15482950 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
15482986 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
15483007 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:15482998 original size:36 final size:35
Alignment explanation
Indices: 15482936--15483006 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
15482926 ATTATCAAAT
* *
15482936 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
15482971 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
15483007 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:15484915 original size:11 final size:11
Alignment explanation
Indices: 15484901--15484941 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
15484891 TATTTTCTCC
15484901 CTATTTTGCTA
1 CTATTTTGCTA
*
15484912 CTATTTTACTA
1 CTATTTTGCTA
* *
15484923 TTATGTTGCTA
1 CTATTTTGCTA
15484934 CTATTTTG
1 CTATTTTG
15484942 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:15497710 original size:53 final size:53
Alignment explanation
Indices: 15497647--15497752 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
15497637 ACCAGATGTT
*
15497647 AGAGCCCCTGCAAGGACTTATGCTATTCGTGCACGCGAAGAGGCATCCTTCCC
1 AGAGCCCCTGCAAGGACTTATGCTATTCGTACACGCGAAGAGGCATCCTTCCC
15497700 AGAGCCCCTGCAAGGACTTATGCTATTCGTACACGCGAAGAGGCATCCTTCCC
1 AGAGCCCCTGCAAGGACTTATGCTATTCGTACACGCGAAGAGGCATCCTTCCC
15497753 CGATGTGATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (53 bp):
AGAGCCCCTGCAAGGACTTATGCTATTCGTACACGCGAAGAGGCATCCTTCCC
Found at i:15499803 original size:93 final size:93
Alignment explanation
Indices: 15499695--15499866 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
15499685 GCCCATAAGT
* *
15499695 GAACTCGAACTCAACTCAACGAGCTCGGTCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15499760 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
15499788 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15499853 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
15499867 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15499862 original size:46 final size:46
Alignment explanation
Indices: 15499687--15499862 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
15499677 TGTAACCCGC
* * * *
15499687 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGTCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
15499733 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
15499783 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
15499826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15499863 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:15499881 original size:46 final size:45
Alignment explanation
Indices: 15499738--15499881 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
15499728 CGCATCCATA
* *
15499738 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
15499786 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
15499831 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
15499877 AGTGA
1 AGTGA
15499882 GATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:15503974 original size:27 final size:26
Alignment explanation
Indices: 15503914--15503975 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
15503904 ATTTTATTTT
15503914 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
15503940 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
15503968 ATTTTATT
1 ATTTTATT
15503976 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:15505585 original size:22 final size:23
Alignment explanation
Indices: 15505560--15505605 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15505550 CAACCAAATC
15505560 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15505582 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15505605 A
1 A
15505606 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15505611 original size:23 final size:23
Alignment explanation
Indices: 15505567--15505611 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15505557 ATCAATTCAA
*
15505567 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
15505590 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
15505612 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:15510562 original size:91 final size:93
Alignment explanation
Indices: 15510450--15510620 Score: 301
Period size: 91 Copynumber: 1.9 Consensus size: 93
15510440 GGGATATTTG
* *
15510450 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCGA-CTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
15510513 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
15510541 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
15510606 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
15510621 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 48 0.64
92 3 0.04
93 24 0.32
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:15510617 original size:46 final size:46
Alignment explanation
Indices: 15510455--15510627 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
15510445 ATTTGGGCAT
*
15510455 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
15510500 TCG-ACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
15510544 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
15510592 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15510628 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 21
0.75 0.09 0.15
Matches are distributed among these distances:
40 2 0.02
41 4 0.04
43 3 0.03
44 24 0.23
45 2 0.02
46 35 0.34
47 23 0.22
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:15514958 original size:2 final size:2
Alignment explanation
Indices: 15514951--15514981 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15514941 TTTAAAATAA
15514951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15514982 AAAATTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15517513 original size:12 final size:12
Alignment explanation
Indices: 15517498--15517595 Score: 56
Period size: 12 Copynumber: 8.2 Consensus size: 12
15517488 CTTCGTCGGG
15517498 GGCTGAGTTGGA
1 GGCTGAGTTGGA
*
15517510 GGCTTG-GTTGGT
1 GGC-TGAGTTGGA
* * *
15517522 GGCTTAGTCGGG
1 GGCTGAGTTGGA
*
15517534 GGCTGAGTTGGT
1 GGCTGAGTTGGA
* * *
15517546 GGCTTAGTCGGG
1 GGCTGAGTTGGA
*
15517558 GGTTGAGTTGGA
1 GGCTGAGTTGGA
* *
15517570 GGTTTG-GTTGGT
1 GG-CTGAGTTGGA
*
15517582 GGCTTAGTTGGA
1 GGCTGAGTTGGA
15517594 GG
1 GG
15517596 TTGAACTGGT
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
11 2 0.03
12 57 0.89
13 5 0.08
ACGTcount: A:0.09, C:0.08, G:0.50, T:0.33
Consensus pattern (12 bp):
GGCTGAGTTGGA
Found at i:15517520 original size:36 final size:36
Alignment explanation
Indices: 15517480--15517550 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
15517470 TGGTGGGTGT
*
15517480 GTTGGTGGCTTCGTCGGGGGCTGAGTTGGAGGCTTG
1 GTTGGTGGCTTAGTCGGGGGCTGAGTTGGAGGCTTG
*
15517516 GTTGGTGGCTTAGTCGGGGGCTGAGTTGGTGGCTT
1 GTTGGTGGCTTAGTCGGGGGCTGAGTTGGAGGCTT
15517551 AGTCGGGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.06, C:0.13, G:0.49, T:0.32
Consensus pattern (36 bp):
GTTGGTGGCTTAGTCGGGGGCTGAGTTGGAGGCTTG
Found at i:15517525 original size:24 final size:24
Alignment explanation
Indices: 15517470--15517643 Score: 93
Period size: 24 Copynumber: 7.2 Consensus size: 24
15517460 GAGGATGAGA
* * *
15517470 TGGTGGGTGTGTTGGTGGCTTCGT
1 TGGTGGCTGAGTTGGTGGCTTGGT
* * *
15517494 CGGGGGCTGAGTTGGAGGCTTGGT
1 TGGTGGCTGAGTTGGTGGCTTGGT
* * *
15517518 TGGTGGCTTAGTCGGGGGC-TGAGT
1 TGGTGGCTGAGTTGGTGGCTTG-GT
* * *
15517542 TGGTGGCTTAGTCGG-GGGTTGAGT
1 TGGTGGCTGAGTTGGTGGCTTG-GT
* * *
15517566 TGGAGGTTTG-GTTGGTGGCTTAGT
1 TGGTGG-CTGAGTTGGTGGCTTGGT
* * ** *
15517590 TGGAGGTTGAACTGGTGGCTTGGG
1 TGGTGGCTGAGTTGGTGGCTTGGT
* **
15517614 TGGTGGGTGAACTGGTGGCTTGGT
1 TGGTGGCTGAGTTGGTGGCTTGGT
15517638 TGGTGG
1 TGGTGG
15517644 TTGCACTGGC
Statistics
Matches: 120, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
23 7 0.06
24 108 0.90
25 5 0.04
ACGTcount: A:0.07, C:0.09, G:0.51, T:0.33
Consensus pattern (24 bp):
TGGTGGCTGAGTTGGTGGCTTGGT
Found at i:15517606 original size:60 final size:60
Alignment explanation
Indices: 15517482--15517610 Score: 186
Period size: 60 Copynumber: 2.1 Consensus size: 60
15517472 GTGGGTGTGT
* * **
15517482 TGGTGGCTTCGTCGGGGGCTGAGTTGGAGGCTTGGTTGGTGGCTTAGTCGGGGGCTGAGT
1 TGGTGGCTTAGTCGGGGGCTGAGTTGGAGGCTTGGTTGGTGGCTTAGTCGGAGGCTGAAC
* * * *
15517542 TGGTGGCTTAGTCGGGGGTTGAGTTGGAGGTTTGGTTGGTGGCTTAGTTGGAGGTTGAAC
1 TGGTGGCTTAGTCGGGGGCTGAGTTGGAGGCTTGGTTGGTGGCTTAGTCGGAGGCTGAAC
15517602 TGGTGGCTT
1 TGGTGGCTT
15517611 GGGTGGTGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.09, C:0.10, G:0.48, T:0.33
Consensus pattern (60 bp):
TGGTGGCTTAGTCGGGGGCTGAGTTGGAGGCTTGGTTGGTGGCTTAGTCGGAGGCTGAAC
Found at i:15517618 original size:36 final size:36
Alignment explanation
Indices: 15517542--15517619 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 36
15517532 GGGGCTGAGT
* ** * *
15517542 TGGTGGCTTAGTCGGGGGTTGAGTTGGAGGTTTGGT
1 TGGTGGCTTAGTCGGAGGTTGAACTGGAGGCTTGGG
* *
15517578 TGGTGGCTTAGTTGGAGGTTGAACTGGTGGCTTGGG
1 TGGTGGCTTAGTCGGAGGTTGAACTGGAGGCTTGGG
15517614 TGGTGG
1 TGGTGG
15517620 GTGAACTGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.09, C:0.06, G:0.50, T:0.35
Consensus pattern (36 bp):
TGGTGGCTTAGTCGGAGGTTGAACTGGAGGCTTGGG
Found at i:15517633 original size:48 final size:48
Alignment explanation
Indices: 15517578--15517676 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
15517568 GAGGTTTGGT
* * *
15517578 TGGTGGCTTAGTTGGAGGTTGAACTGGTGGCTTGGGTGGTGGGTGAAC
1 TGGTGGCTTAGTTGGAGGTTGAACTGGCGCCTTGGGTGGTGGATGAAC
* * *
15517626 TGGTGGCTTGGTTGGTGGTTGCACTGGCGCCTTGGGTGGTGGATGAAC
1 TGGTGGCTTAGTTGGAGGTTGAACTGGCGCCTTGGGTGGTGGATGAAC
15517674 TGG
1 TGG
15517677 AGGAGGAGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.10, C:0.11, G:0.47, T:0.31
Consensus pattern (48 bp):
TGGTGGCTTAGTTGGAGGTTGAACTGGCGCCTTGGGTGGTGGATGAAC
Found at i:15517637 original size:60 final size:60
Alignment explanation
Indices: 15517482--15517643 Score: 166
Period size: 60 Copynumber: 2.7 Consensus size: 60
15517472 GTGGGTGTGT
* * ** * **
15517482 TGGTGGCTTCGTCGGGGGCTGAGTTGGAGGCTTGGTTGGTGGCTTAGTCGGGGGCTGAGT
1 TGGTGGCTTAGTCGGGGGTTGAACTGGAGGCTTGGTTGGTGGCTTAGTCGGAGGCTGAAC
** * * *
15517542 TGGTGGCTTAGTCGGGGGTTGAGTTGGAGGTTTGGTTGGTGGCTTAGTTGGAGGTTGAAC
1 TGGTGGCTTAGTCGGGGGTTGAACTGGAGGCTTGGTTGGTGGCTTAGTCGGAGGCTGAAC
* *
15517602 TGGTGGCTTGGGT-GGTGGG-TGAACTGGTGGCTTGGTTGGTGG
1 TGGTGGCTT-AGTCGG-GGGTTGAACTGGAGGCTTGGTTGGTGG
15517644 TTGCACTGGC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
60 82 0.94
61 5 0.06
ACGTcount: A:0.08, C:0.09, G:0.50, T:0.33
Consensus pattern (60 bp):
TGGTGGCTTAGTCGGGGGTTGAACTGGAGGCTTGGTTGGTGGCTTAGTCGGAGGCTGAAC
Found at i:15517651 original size:24 final size:24
Alignment explanation
Indices: 15517578--15517676 Score: 117
Period size: 24 Copynumber: 4.1 Consensus size: 24
15517568 GAGGTTTGGT
* * *
15517578 TGGTGGCTTAGTTGGAGGTTGAAC
1 TGGTGGCTTGGGTGGTGGTTGAAC
*
15517602 TGGTGGCTTGGGTGGTGGGTGAAC
1 TGGTGGCTTGGGTGGTGGTTGAAC
* *
15517626 TGGTGGCTTGGTTGGTGGTTGCAC
1 TGGTGGCTTGGGTGGTGGTTGAAC
* * *
15517650 TGGCGCCTTGGGTGGTGGATGAAC
1 TGGTGGCTTGGGTGGTGGTTGAAC
15517674 TGG
1 TGG
15517677 AGGAGGAGTG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.10, C:0.11, G:0.47, T:0.31
Consensus pattern (24 bp):
TGGTGGCTTGGGTGGTGGTTGAAC
Found at i:15517748 original size:12 final size:12
Alignment explanation
Indices: 15517705--15517758 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
15517695 GGGCTTAGTG
*
15517705 GGTGGATGAGGAT
1 GGTGG-TGAGGGT
*
15517718 GGGGGTGAGGGT
1 GGTGGTGAGGGT
15517730 GAG-GGTGAGGGT
1 G-GTGGTGAGGGT
*
15517742 GGTGGTGATGGT
1 GGTGGTGAGGGT
15517754 GGTGG
1 GGTGG
15517759 GTTGGTGGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 1 0.03
12 30 0.83
13 5 0.14
ACGTcount: A:0.13, C:0.00, G:0.65, T:0.22
Consensus pattern (12 bp):
GGTGGTGAGGGT
Found at i:15520667 original size:42 final size:42
Alignment explanation
Indices: 15520619--15520702 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
15520609 AAAATAAATC
15520619 CACTCCAAATTTATACCCTCCTACACCGACAATAGTATTGAT
1 CACTCCAAATTTATACCCTCCTACACCGACAATAGTATTGAT
* * *
15520661 CACTCCAAATTTATATCCTCCTACACTGACAATAGTGTTGAT
1 CACTCCAAATTTATACCCTCCTACACCGACAATAGTATTGAT
15520703 ATAGTGTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.31
Consensus pattern (42 bp):
CACTCCAAATTTATACCCTCCTACACCGACAATAGTATTGAT
Found at i:15525016 original size:31 final size:32
Alignment explanation
Indices: 15524973--15525043 Score: 110
Period size: 30 Copynumber: 2.3 Consensus size: 32
15524963 TAACCATCGT
* *
15524973 AATTTAAAAAAAAATATT-ATAATTAACTT-G
1 AATTTAAAAAAAAATATTAACAATTAACTTAA
15525003 AATTTAAAAAAAAATATTAACAATTAACTTAA
1 AATTTAAAAAAAAATATTAACAATTAACTTAA
15525035 AATTTAAAA
1 AATTTAAAA
15525044 TTTAAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 18 0.49
31 10 0.27
32 9 0.24
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (32 bp):
AATTTAAAAAAAAATATTAACAATTAACTTAA
Found at i:15526780 original size:64 final size:64
Alignment explanation
Indices: 15526644--15526773 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 64
15526634 ACTTCAATGT
*
15526644 TAAATTAATGTAAGTTTACACTTTTTTATAAATTTTTTGTATGATTGATATTTTAACAATCAAG
1 TAAATTAAAGTAAGTTTACACTTTTTTATAAATTTTTTGTATGATTGATATTTTAACAATCAAG
* *
15526708 TAAATTAAAGTAAGTTTACACTTTTTTTATTATTTTTTTGTATGATTGATATTTTAACAATCAAG
1 TAAATTAAAGTAAGTTTACAC-TTTTTTATAAATTTTTTGTATGATTGATATTTTAACAATCAAG
15526773 T
1 T
15526774 CCTTAAACAT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
64 20 0.32
65 42 0.68
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (64 bp):
TAAATTAAAGTAAGTTTACACTTTTTTATAAATTTTTTGTATGATTGATATTTTAACAATCAAG
Found at i:15535132 original size:18 final size:17
Alignment explanation
Indices: 15535097--15535129 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15535087 CTTTTTATTC
15535097 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
15535114 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
15535130 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:15537060 original size:39 final size:39
Alignment explanation
Indices: 15537016--15537150 Score: 96
Period size: 39 Copynumber: 3.4 Consensus size: 39
15537006 ACCAATATGG
*
15537016 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGATAGTTCGAAGAAATATTTGA
** * * * * *
15537055 CACCCAGTGTTTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTTCGAAGAAATATTTGA
* * * *
15537093 TACCCAGTACCTCATCGAATCTA-TTCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTTCGAAGAAATAT-TTGA
*
15537134 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
15537151 ACTCGAGGTC
Statistics
Matches: 69, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
38 17 0.25
39 32 0.46
40 4 0.06
41 16 0.23
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTTCGAAGAAATATTTGA
Found at i:15537416 original size:18 final size:19
Alignment explanation
Indices: 15537390--15537428 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15537380 TTTCAATTCA
15537390 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
15537409 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
15537427 AT
1 AT
15537429 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:15539602 original size:47 final size:47
Alignment explanation
Indices: 15539538--15539648 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
15539528 GACATTGAGT
*
15539538 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
15539585 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
15539632 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
15539649 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:15546858 original size:47 final size:47
Alignment explanation
Indices: 15546794--15546904 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
15546784 GACATTGAGT
*
15546794 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
15546841 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
15546888 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
15546905 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:15548486 original size:5 final size:5
Alignment explanation
Indices: 15548476--15548528 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
15548466 TTACTTATTT
* *
15548476 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
15548524 ATATA
1 ATATA
15548529 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:15548492 original size:12 final size:12
Alignment explanation
Indices: 15548475--15548530 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
15548465 TTTACTTATT
15548475 TATATAATATAA
1 TATATAATATAA
15548487 TATATAATATAATA
1 TATATAATAT-A-A
15548501 TACTATAATATAA
1 TA-TATAATATAA
*
15548514 TA-ATAATTTAA
1 TATATAATATAA
15548525 TATATA
1 TATATA
15548531 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:15553058 original size:13 final size:14
Alignment explanation
Indices: 15553042--15553077 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
15553032 CAATCTCATA
15553042 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
15553055 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
15553068 TCTC-ATTTCA
1 TCTCAATTTCA
15553078 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:15553067 original size:18 final size:19
Alignment explanation
Indices: 15553029--15553069 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
15553019 TGGTTCATGT
15553029 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
15553048 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
15553066 TTTC
1 TTTC
15553070 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:15553259 original size:39 final size:38
Alignment explanation
Indices: 15553192--15553326 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
15553182 ACCAATATGG
* * *
15553192 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
15553231 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
15553269 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
15553310 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
15553327 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:15553591 original size:18 final size:19
Alignment explanation
Indices: 15553565--15553603 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15553555 TTTCAATTCA
15553565 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
15553584 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
15553602 AT
1 AT
15553604 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:15554931 original size:5 final size:5
Alignment explanation
Indices: 15554921--15554973 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
15554911 TTACTTATTT
* *
15554921 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
15554969 ATATA
1 ATATA
15554974 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:15554937 original size:12 final size:12
Alignment explanation
Indices: 15554920--15554975 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
15554910 TTTACTTATT
15554920 TATATAATATAA
1 TATATAATATAA
15554932 TATATAATATAATA
1 TATATAATAT-A-A
15554946 TACTATAATATAA
1 TA-TATAATATAA
*
15554959 TA-ATAATTTAA
1 TATATAATATAA
15554970 TATATA
1 TATATA
15554976 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:15556968 original size:28 final size:28
Alignment explanation
Indices: 15556928--15557009 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
15556918 GCAATCAAAT
* *
15556928 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
15556956 ATGGCACTTAGTGTACGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
15556984 ATGACACTTAGTGTGCAAAATATTGA
1 ATGGCACTTAGTGTACGAAATATTGA
15557010 ATGATTCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:15563094 original size:19 final size:19
Alignment explanation
Indices: 15563072--15563110 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15563062 TTTTAAATAG
*
15563072 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
15563091 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
15563110 A
1 A
15563111 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:15563165 original size:28 final size:27
Alignment explanation
Indices: 15563078--15563166 Score: 74
Period size: 28 Copynumber: 3.3 Consensus size: 27
15563068 ATAGATACAC
* * *
15563078 ATGTATTAATAATA-TACACATGTATAA
1 ATGTATAAATAATATTACATAT-TATAT
* * *
15563105 AT-AATAAATAAGTATTACTTATTATTT
1 ATGTATAAATAA-TATTACATATTATAT
*
15563132 AAGTATAAATAATATTACATATATATAT
1 ATGTATAAATAATATTACATAT-TATAT
15563160 ATGTATA
1 ATGTATA
15563167 TAAAACAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
26 7 0.15
27 17 0.36
28 23 0.49
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (27 bp):
ATGTATAAATAATATTACATATTATAT
Found at i:15563987 original size:15 final size:15
Alignment explanation
Indices: 15563964--15564011 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
15563954 TATCAAATTT
15563964 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
15563979 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
15563994 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
15564008 ATAT
1 ATAT
15564012 AATATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:15564402 original size:23 final size:23
Alignment explanation
Indices: 15564374--15564454 Score: 153
Period size: 23 Copynumber: 3.5 Consensus size: 23
15564364 TAATATTCCG
15564374 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
15564397 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
*
15564420 GGTGTGTTTGGGTTAGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
15564443 GGTGTGTTTGGG
1 GGTGTGTTTGGG
15564455 AGGAATCCGC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.09, C:0.04, G:0.41, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:15564582 original size:18 final size:19
Alignment explanation
Indices: 15564559--15564599 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
15564549 AATGAAATGA
15564559 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
15564577 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
15564596 GAAA
1 GAAA
15564600 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:15564597 original size:13 final size:13
Alignment explanation
Indices: 15564547--15564586 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
15564537 TTGAGCTATT
15564547 AGAA-TGAAA-TG
1 AGAATTGAAATTG
15564558 AGAAATTG-AATTG
1 AG-AATTGAAATTG
15564571 AGAATTGAAATTG
1 AGAATTGAAATTG
15564584 AGA
1 AGA
15564587 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:15572152 original size:4 final size:4
Alignment explanation
Indices: 15572127--15572177 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
15572117 TCTGGGAGGG
* * *
15572127 TTCT TT-T TCTCT TTCT TCCT TTCT TTCT TTCT TTCT ATCT CTCT TTCT
1 TTCT TTCT T-TCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
15572175 TTC
1 TTC
15572178 AAGTTCTAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
3 2 0.05
4 36 0.90
5 2 0.05
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:15576243 original size:59 final size:58
Alignment explanation
Indices: 15576147--15576265 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 58
15576137 GTCGGTCGTG
* * * ** *
15576147 AACAAATATTAAATCCATCGTTGTCAGGCAACCTGAGATGGTAGAATAAAATAGTTCA
1 AACAAATACTAAAGCCATCGTTGCCAGGCAACCTGAGATGACAGAATAAAAAAGTTCA
* *
15576205 AACAAATACTAAAGCCATTTGTTGCCAGGCAACTTGAGATGACAGAATAAAAAAGTTCA
1 AACAAATACTAAAGCCA-TCGTTGCCAGGCAACCTGAGATGACAGAATAAAAAAGTTCA
15576264 AA
1 AA
15576266 TTCCTAGAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
58 15 0.29
59 37 0.71
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.24
Consensus pattern (58 bp):
AACAAATACTAAAGCCATCGTTGCCAGGCAACCTGAGATGACAGAATAAAAAAGTTCA
Found at i:15578501 original size:12 final size:12
Alignment explanation
Indices: 15578486--15578510 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15578476 AAATTTAAAC
15578486 ATGAAAAATTAA
1 ATGAAAAATTAA
15578498 ATGAAAAATTAA
1 ATGAAAAATTAA
15578510 A
1 A
15578511 ATAAATTATT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATGAAAAATTAA
Found at i:15599404 original size:176 final size:178
Alignment explanation
Indices: 15599102--15599456 Score: 484
Period size: 176 Copynumber: 2.0 Consensus size: 178
15599092 ATCTTCCCCC
* * * ** *
15599102 TACCACCGCCCCTCTTCTCTCCCTCGTCTCTGCAAATCAGTTTTTTTTTTTTCTTCTCATCTCAG
1 TACCACCGCCCCTCTTCTCTCCCTCGTATCTACAAATCAGTTTCTTCATTCTCTTCTCATCTCAG
* * *
15599167 TTCTCGCCCACCGCCGTCTCCGCTGATTTTTTCTGGATCTGACCCGTATTCCGTGTCGGATCGTG
66 TTCTAGCCCACCGCCG-CTCCGCTGATTTTTGCCGGATCTGACCCGTATTCCGTGTCGGATCGTG
* * *
15599232 TTGACACAGGTACTGCACCCCAAATTG-CCGAGTCAGGGTAACGAAGCT
130 TCGACACAAGTACTGCACCCCAAATTGCCCGAGCCAGGGTAACGAAGCT
* *
15599280 TACCATCGCCCCTCTTCTCTCTCTCGTATCTACAAATCAGGTTTCTTCATTCTCTTCTCATCTCA
1 TACCACCGCCCCTCTTCTCTCCCTCGTATCTACAAATCA-GTTTCTTCATTCTCTTCTCATCTCA
* *
15599345 GTTCTAGCCCACCG-C-CTCCGCTGGTTTTTGCCGGATCTGACCCTTA-TCGCGTGTCGGATCGT
65 GTTCTAGCCCACCGCCGCTCCGCTGATTTTTGCCGGATCTGACCCGTATTC-CGTGTCGGATCGT
* *
15599407 GTCGACACAAGTACTGCATCCCAAATTGCTCCGAGCCCGGGTAACGAAGC
129 GTCGACACAAGTACTGCACCCCAAATTGC-CCGAGCCAGGGTAACGAAGC
15599457 CTATACTTTT
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
175 2 0.01
176 65 0.42
178 54 0.35
179 34 0.22
ACGTcount: A:0.17, C:0.34, G:0.18, T:0.32
Consensus pattern (178 bp):
TACCACCGCCCCTCTTCTCTCCCTCGTATCTACAAATCAGTTTCTTCATTCTCTTCTCATCTCAG
TTCTAGCCCACCGCCGCTCCGCTGATTTTTGCCGGATCTGACCCGTATTCCGTGTCGGATCGTGT
CGACACAAGTACTGCACCCCAAATTGCCCGAGCCAGGGTAACGAAGCT
Found at i:15610354 original size:23 final size:24
Alignment explanation
Indices: 15610310--15610354 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
15610300 TTATTCGCAT
**
15610310 ATCATGTTTATATTTTTCTTTTGC
1 ATCATGTTTATATTTTAATTTTGC
*
15610334 ATCATG-TTGTATTTTAATTTT
1 ATCATGTTTATATTTTAATTTT
15610355 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (24 bp):
ATCATGTTTATATTTTAATTTTGC
Found at i:15623344 original size:53 final size:53
Alignment explanation
Indices: 15623263--15623413 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
15623253 CTTACACGGT
* *
15623263 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
15623318 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
15623371 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
15623414 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:15630339 original size:53 final size:53
Alignment explanation
Indices: 15630198--15630348 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
15630188 CACAGTGCGC
* **
15630198 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
15630251 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
15630304 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
15630349 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:15634919 original size:20 final size:18
Alignment explanation
Indices: 15634894--15634930 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
15634884 ATTGCTAAGT
15634894 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
15634914 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
15634931 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:15638050 original size:46 final size:45
Alignment explanation
Indices: 15637948--15638114 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 45
15637938 GAGATTTGTG
* * * * *
15637948 TGCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGA
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* *
15637995 GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
1 -TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
* *
15638041 TAGCCAGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGATG-
1 T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
*
15638086 TGCTAGTGTAAGACATGTCTGGGACATGC
1 TGCCAGTGTAAGACATGTCTGGGACATGC
15638115 GTCAGCACGG
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
44 26 0.25
45 3 0.03
46 52 0.50
47 12 0.12
48 11 0.11
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:15638109 original size:44 final size:44
Alignment explanation
Indices: 15637997--15638157 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 44
15637987 TGAGACGAGG
*
15637997 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAT
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCGG-CTACGAGATG-T
* *
15638042 AGCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGT
1 -GCTAGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGT
* *
15638087 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC-ACGGTTACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCGTCGGCTAC-G--AGATGT
*
15638133 G-TCAGTGTAAGACCTGTCTGGGACA
1 GCT-AGTGTAAGACATGTCTGGGACA
15638158 CGGCATCGAC
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
43 2 0.02
44 32 0.31
45 4 0.04
46 64 0.63
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGT
Found at i:15640958 original size:20 final size:18
Alignment explanation
Indices: 15640933--15640969 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
15640923 ATTGCTAAGT
15640933 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
15640953 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
15640970 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:15646959 original size:53 final size:52
Alignment explanation
Indices: 15646819--15646968 Score: 210
Period size: 53 Copynumber: 2.8 Consensus size: 52
15646809 ACAAGTGTGC
* **
15646819 CCGTTTAAGACCATGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
15646871 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCAT-GCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
15646924 CCGTATAAGACCATGTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
15646969 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
52 14 0.16
53 67 0.76
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
CCGTATAAGACCATGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:15649255 original size:46 final size:45
Alignment explanation
Indices: 15649203--15649406 Score: 181
Period size: 46 Copynumber: 4.5 Consensus size: 45
15649193 GTCGATGCCG
* * *
15649203 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT---CGTAGCCGACGCA
*
15649249 TGTCCCATACATGTCTTACACT-AGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
* *
15649293 TGTCCCAGACATGTCTGACACTG-GCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC-A-CATCTCGTA-GCCGACGCA
* * *
15649339 TGTCCCAGACATGTCTTACACTG-GCTC-TCATAC-TATGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-T-CGTA--GCCGACGCA
15649385 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
15649407 AGCCCTCGTC
Statistics
Matches: 138, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
43 5 0.04
44 32 0.23
45 5 0.04
46 96 0.70
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
Found at i:15649429 original size:46 final size:44
Alignment explanation
Indices: 15649246--15649454 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 44
15649236 CCGTGCTGAC
* *
15649246 GCATGTCCCATACATGTCTTACACTAGCACATC-TCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCATC-TATGCCGAT
* * * *
15649290 GCATGTCCCAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* *
15649336 GCATGTCCCAGACATGTCTTACACTGGCTC-TCATACTATGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCAT-CTAT-GCCGAT
* *
15649382 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* *
15649428 GCCATGTCTCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
15649455 GGCACACAAA
Statistics
Matches: 139, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.03
44 27 0.19
45 5 0.04
46 77 0.55
47 16 0.12
48 10 0.07
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCCATCATCTATGCCGAT
Found at i:15665878 original size:2 final size:2
Alignment explanation
Indices: 15665843--15665867 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15665833 TTCGGTGAAT
15665843 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15665868 TCATCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15672858 original size:5 final size:5
Alignment explanation
Indices: 15672848--15672872 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15672838 ATGTGAAATG
15672848 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
15672873 AAACAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:15673299 original size:23 final size:24
Alignment explanation
Indices: 15673266--15673325 Score: 95
Period size: 23 Copynumber: 2.5 Consensus size: 24
15673256 ATATAATTTG
*
15673266 TAATTAGATTGATGAATCGAGTC-
1 TAATTAAATTGATGAATCGAGTCT
15673289 TAATTAAATTGATGAATCGAGTCT
1 TAATTAAATTGATGAATCGAGTCT
*
15673313 TAATTCAATTGAT
1 TAATTAAATTGAT
15673326 ATTAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 22 0.65
24 12 0.35
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (24 bp):
TAATTAAATTGATGAATCGAGTCT
Found at i:15673599 original size:26 final size:27
Alignment explanation
Indices: 15673550--15673601 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
15673540 GGTTTGTGAT
15673550 AATTATATATTTAAAAATAATTATAAA
1 AATTATATATTTAAAAATAATTATAAA
15673577 AATTATA-ATGTT-AAAATAATTATAA
1 AATTATATAT-TTAAAAATAATTATAA
15673602 TTGAAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AATTATATATTTAAAAATAATTATAAA
Found at i:15676984 original size:12 final size:12
Alignment explanation
Indices: 15676967--15676991 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15676957 CAAACATCTT
15676967 TTTATATATATA
1 TTTATATATATA
15676979 TTTATATATATA
1 TTTATATATATA
15676991 T
1 T
15676992 ATATTTATTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATATATATA
Done.