Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 156 of 410
Found at i:47461428 original size:81 final size:81
Alignment explanation
Indices: 47460973--47461455 Score: 282
Period size: 81 Copynumber: 6.0 Consensus size: 81
47460963 GAATACTCTA
* * * * *
47460973 GTTTACCAAATTACCAAAATACCCT-TAGTTTGTAAAATTACCAAAATATCCCTAG-TTTGTAAA
1 GTTTACAAAATTACCAAAATACCCTCGA-TTTATAAAATTACCAAAATA-CCCTCGATTTATAAA
*
47461036 ATTA-TCAAAATACCC-CTA
64 ATTACT-AAAATACCCTC-G
** * * ** * ** *
47461054 GTTTGTAAAATTACCAAAATACCC-CTGATTTGTGAAATTACTGAAATACCCTCAACCTGTAAAA
1 GTTTACAAAATTACCAAAATACCCTC-GATTTATAAAATTACCAAAATACCCTCGATTTATAAAA
* *
47461118 TTATTGAAATACCCTCG
65 TTACTAAAATACCCTCG
** ** * * * *
47461135 ACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCTAAATATCCTCGATTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAAAAT
*
47461200 TA-TCAAAATACCCTCA
66 TACT-AAAATACCCTCG
* ** * ** ** *
47461216 GTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTCCT-G-TAAGATAGA
1 GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATAC-CCTCGAT-TTATAAA
*****
47461279 ATTACCGTTTTACCCTCG
64 ATTACTAAAATACCCTCG
* * **** * * * ***
47461297 ATTTACAGAATTACCGTTTTACACTCAATTTATAGAATTACCATTTTACCCTCGATTTATAAAAT
1 GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAAAAT
* *
47461362 TACTGAAATACCCTTG
66 TACTAAAATACCCTCG
** * *
47461378 GTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACCC-CTGGTTTGTAAAA
1 GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTC-GATTTATAAAA
*
47461442 TTACCAAAATACCC
65 TTACTAAAATACCC
47461456 CTGATTTGTG
Statistics
Matches: 300, Mismatches: 89, Indels: 26
0.72 0.21 0.06
Matches are distributed among these distances:
80 10 0.03
81 282 0.94
82 8 0.03
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (81 bp):
GTTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAAAAT
TACTAAAATACCCTCG
Found at i:47461497 original size:27 final size:27
Alignment explanation
Indices: 47461467--47461670 Score: 318
Period size: 27 Copynumber: 7.6 Consensus size: 27
47461457 TGATTTGTGA
* *
47461467 AATTAACGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47461494 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47461521 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47461548 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47461575 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
47461602 AATTACCGAAATACTTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
47461629 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47461656 AATTACTGAGATACC
1 AATTACCGAAATACC
47461671 TTCTGGGGTA
Statistics
Matches: 164, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 164 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:47461498 original size:81 final size:82
Alignment explanation
Indices: 47461413--47461670 Score: 285
Period size: 81 Copynumber: 3.2 Consensus size: 82
47461403 CGATCAATAA
* ** **
47461413 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGAT-TTGT-GAAATTAACG
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCT-ATAGGGTAG-AATTAACG
*
47461475 AAATACCCTTGTAGGGTAG
64 AAATACCCCTGTAGGGTAG
* * *
47461494 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTATAGGGTAGAATTAACGAA
47461558 ATACCCCTGTAGGGTAG
66 ATACCCCTGTAGGGTAG
* * ** * *
47461575 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCGAAATACTTCTGTAGGGTAGAATT-ACTAA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTATAGGGTAGAATTAAC-GA
*
47461638 AATACCCCTGTAGGGTGG
65 AATACCCCTGTAGGGTAG
* *
47461656 AATTACTGAGATACC
1 AATTACCGAAATACC
47461671 TTCTGGGGTA
Statistics
Matches: 156, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
80 5 0.03
81 150 0.96
82 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (82 bp):
AATTACCGAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTATAGGGTAGAATTAACGAA
ATACCCCTGTAGGGTAG
Found at i:47462167 original size:22 final size:22
Alignment explanation
Indices: 47462115--47462179 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
47462105 TTAAAGCCTT
* *
47462115 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTATGTGCCAAC
* * *
47462137 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
47462159 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
47462180 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:47462368 original size:27 final size:27
Alignment explanation
Indices: 47462338--47462439 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
47462328 ATTCTGTTAA
* *
47462338 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
47462365 GTGGCTATGCCACAAATGTCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
47462392 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
47462419 GTGACTCTGTCTCAATATCTG
1 GTGGCTATGCCACAATATCTG
47462440 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.80
28 6 0.09
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:47462614 original size:6 final size:6
Alignment explanation
Indices: 47462599--47462695 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
47462589 ATTCTGTTAC
* * *
47462599 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
47462648 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
47462696 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:47462671 original size:37 final size:31
Alignment explanation
Indices: 47462589--47462686 Score: 160
Period size: 31 Copynumber: 3.2 Consensus size: 31
47462579 CTGATTTTTT
*
47462589 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
47462620 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
47462651 ATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
47462682 ATTCT
1 ATTCT
47462687 AGTTCTGATA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:47467046 original size:21 final size:21
Alignment explanation
Indices: 47467020--47467080 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
47467010 GTCATAGTGG
*
47467020 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTGTTGCCCTT
47467041 CCACACAGGCGTGTTAG-CCTT
1 CCACACAGGCGTGTT-GCCCTT
47467062 CCACACAGGCGTG-TGCCCT
1 CCACACAGGCGTGTTGCCCT
47467081 GTTTCAAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 31 0.84
22 1 0.03
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (21 bp):
CCACACAGGCGTGTTGCCCTT
Found at i:47470215 original size:49 final size:49
Alignment explanation
Indices: 47470147--47470269 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
47470137 TACATATATG
*
47470147 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
47470196 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
47470245 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
47470270 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:47470415 original size:37 final size:37
Alignment explanation
Indices: 47470372--47470449 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
47470362 GTTCCGGGCG
47470372 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
47470409 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
47470446 AGAC
1 AGAC
47470450 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:47472533 original size:29 final size:29
Alignment explanation
Indices: 47472462--47472771 Score: 505
Period size: 29 Copynumber: 10.7 Consensus size: 29
47472452 CGAATGATTA
* * *
47472462 GAGGCACTGTGTGTGC-AAATTCCATTAACC
1 GAGGCACTGTGTGTGCGAGA-T-CAGTAATC
*
47472492 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47472521 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47472550 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47472579 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47472608 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47472637 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47472666 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* * *
47472695 GAGGCACTATGTGTGCGAAATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* *
47472724 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
*
47472753 GAGGCACTGTGTGTACGAG
1 GAGGCACTGTGTGTGCGAG
47472772 TTTTTCAACA
Statistics
Matches: 268, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
29 250 0.93
30 16 0.06
31 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTGTGTGTGCGAGATCAGTAATC
Found at i:47473353 original size:40 final size:41
Alignment explanation
Indices: 47473255--47473353 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
47473245 TTCGAATGGT
* ** * *
47473255 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
47473296 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGC-AAATCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCTAAATCACTA-A
47473337 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
47473354 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 20 0.40
41 27 0.54
42 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
Found at i:47476524 original size:49 final size:49
Alignment explanation
Indices: 47476456--47476578 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
47476446 TACATATATG
*
47476456 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
47476505 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
47476554 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
47476579 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:47476724 original size:37 final size:37
Alignment explanation
Indices: 47476681--47476758 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
47476671 GTTCCGGGCG
47476681 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
47476718 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
47476755 AGAC
1 AGAC
47476759 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:47489797 original size:40 final size:39
Alignment explanation
Indices: 47489629--47489799 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
47489619 AGAAATTGAA
* *
47489629 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
47489669 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
47489709 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
47489749 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
47489789 TGATATCCGGG
1 TGATATCCGGG
47489800 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:47495693 original size:42 final size:42
Alignment explanation
Indices: 47495636--47495800 Score: 163
Period size: 42 Copynumber: 3.9 Consensus size: 42
47495626 ACATTAAGGT
* *
47495636 TATGAG-TTTACGTGTAAGACCATATTTGGGATATGGCATCGT
1 TATGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATCGA
* * * *
47495678 TATGAGATTTCGTGTAATACCATGTCTGGGACAGGGCATCGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* * * ** *
47495720 TATAAGA-ATCGTGTAAGACTATAGATGGGCTATTGGCATCGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGA
** *
47495762 TATGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
47495801 TGGTACGATT
Statistics
Matches: 96, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
41 17 0.18
42 58 0.60
43 21 0.22
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:47510194 original size:2 final size:2
Alignment explanation
Indices: 47510187--47510213 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47510177 TTTGGCCACA
47510187 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 A
47510214 CATCTCATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47510301 original size:65 final size:65
Alignment explanation
Indices: 47510228--47510359 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
47510218 TCATACATAT
47510228 CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
1 CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
47510293 CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
1 CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
47510358 CT
1 CT
47510360 TACCACATAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (65 bp):
CTCACATTAGCCATTTGGCTTTACCACATATCTATCTCATACACATTTCGCATTAGCCATTCGGC
Found at i:47510340 original size:32 final size:32
Alignment explanation
Indices: 47510239--47510340 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
47510229 TCACATTAGC
47510239 CATTTGGCTTTACCACATATCTATCTCATACA
1 CATTTGGCTTTACCACATATCTATCTCATACA
* * * ** *
47510271 CATTTCGCATTAGC-CAT-TCGGCCTCACATTAGC-
1 CATTTGGCTTTACCACATATC--TATCTCA-TA-CA
47510304 CATTTGGCTTTACCACATATCTATCTCATACA
1 CATTTGGCTTTACCACATATCTATCTCATACA
47510336 CATTT
1 CATTT
47510341 CGCATTAGCC
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
30 2 0.04
31 4 0.08
32 22 0.43
33 17 0.33
34 4 0.08
35 2 0.04
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.36
Consensus pattern (32 bp):
CATTTGGCTTTACCACATATCTATCTCATACA
Found at i:47510405 original size:47 final size:47
Alignment explanation
Indices: 47510343--47510558 Score: 369
Period size: 47 Copynumber: 4.6 Consensus size: 47
47510333 ACACATTTCG
* * * *
47510343 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
47510390 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
47510437 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
47510484 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
47510531 CATTGGCCATTCGGCCTTATCACGCATA
1 CATTGGCCATTCGGCCTTATCACACATA
47510559 TATATACAGG
Statistics
Matches: 162, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
Found at i:47510449 original size:94 final size:94
Alignment explanation
Indices: 47510343--47510584 Score: 376
Period size: 94 Copynumber: 2.5 Consensus size: 94
47510333 ACACATTTCG
*
47510343 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
47510408 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACACATGTTCACATTCATCA
* * **
47510437 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
47510502 ATCACACATACACATGTTCACATTCATCA
66 ATCACACATACACATGTTCACATTCATCA
* *
47510531 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACAT
1 CATTGGCCATTCGGCC-T-T-AC-CACATATATACATGTTCACATTCATCACAT
47510585 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 104 0.79
95 1 0.01
96 1 0.01
97 1 0.01
98 25 0.19
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACACATGTTCACATTCATCA
Found at i:47520728 original size:17 final size:17
Alignment explanation
Indices: 47520706--47520743 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
47520696 TCGGCACTAA
47520706 GTGTGCGGGCAACACGT
1 GTGTGCGGGCAACACGT
47520723 GTGTGCGGGCAACACGT
1 GTGTGCGGGCAACACGT
47520740 GTGT
1 GTGT
47520744 ACGGTGACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.21, G:0.42, T:0.21
Consensus pattern (17 bp):
GTGTGCGGGCAACACGT
Found at i:47520791 original size:29 final size:29
Alignment explanation
Indices: 47520757--47520834 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
47520747 GTGACGAGAT
* *
47520757 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
47520786 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
47520815 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
47520835 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:47532828 original size:50 final size:49
Alignment explanation
Indices: 47532710--47532839 Score: 197
Period size: 50 Copynumber: 2.6 Consensus size: 49
47532700 TTGGTACGCA
* * ** *
47532710 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCAATACACG
*
47532759 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCAATACACG
47532809 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
47532840 TCGAGGTTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
49 31 0.42
50 43 0.58
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCAATACACG
Found at i:47532893 original size:101 final size:99
Alignment explanation
Indices: 47532710--47532893 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
47532700 TTGGTACGCA
* *
47532710 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
*
47532775 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACCTAACCATCTAATACACG
* * * ** *
47532809 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAGGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCA-ATTATCCAGTACACATAGTAGCCTGCACT
*
47532874 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
47532894 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 29 0.40
100 2 0.03
101 42 0.58
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTAATACACG
Found at i:47534699 original size:15 final size:15
Alignment explanation
Indices: 47534670--47534708 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
47534660 AACAGAGAAG
47534670 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
47534686 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
47534701 CCATGATA
1 CCAAGATA
47534709 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:47537318 original size:124 final size:124
Alignment explanation
Indices: 47537096--47537320 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
47537086 GAATTATGTG
* * * * * * *
47537096 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
47537161 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
47537220 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
47537285 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
47537321 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:47537442 original size:40 final size:40
Alignment explanation
Indices: 47537315--47537444 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
47537305 TTGCTGGAAA
* * *
47537315 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * *
47537355 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGATTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
47537395 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
47537435 TTATATCCGG
1 TTATATCCGG
47537445 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:47541129 original size:50 final size:49
Alignment explanation
Indices: 47541013--47541188 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 49
47541003 CTGGTACGCA
*
47541013 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
47541062 TAGTAGCCTGCAATTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
47541112 TAGTAGCCTGCACTTAGTTCTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
*
47541163 TAGTAGCCTGCACTTATTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
47541189 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 31 0.29
50 43 0.40
51 33 0.31
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:47541196 original size:101 final size:99
Alignment explanation
Indices: 47541013--47541196 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
47541003 CTGGTACGCA
* *
47541013 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTGCAATTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCAATTA
*
47541078 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * *
47541112 TAGTAGCCTGCACTTAGTTCTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCAAT
* *
47541177 TATTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
47541197 CATAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 29 0.40
100 3 0.04
101 41 0.56
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCAATTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:47542139 original size:27 final size:27
Alignment explanation
Indices: 47542108--47542241 Score: 115
Period size: 27 Copynumber: 5.0 Consensus size: 27
47542098 TAGAATACTT
**
47542108 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
47542135 TAGTTTGTAAAATTACTAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
* **
47542162 TGGTTTATAAAAGCACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* ***
47542189 TAGTTTGTAAAATTTTAAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * **
47542216 TAATTTGTGAAATTACTGAAATACCC
1 TAGTTTATAAAATTACCAAAATACCC
47542242 TCGACCTGTA
Statistics
Matches: 83, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TAGTTTATAAAATTACCAAAATACCCC
Found at i:47542238 original size:54 final size:54
Alignment explanation
Indices: 47542117--47542241 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
47542107 TTAGTTTACC
* **
47542117 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTAATTTATA
** * * *
47542171 AAAGCACCAAAATACCCCTAGTTTGTAAAATT-TTAAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCCTAATTTATA
**
47542225 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
47542242 TCGACCTGTA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTAATTTATA
Found at i:47542255 original size:27 final size:27
Alignment explanation
Indices: 47542225--47542285 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
47542215 CTAATTTGTG
47542225 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
47542252 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
47542279 AAATTAC
1 AAATTAC
47542286 AAAAGTACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:47542294 original size:27 final size:26
Alignment explanation
Indices: 47542220--47542296 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
47542210 TACCCCTAAT
*
47542220 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-GAAATACCCTCGAC
* *
47542247 CTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTA-CGAAATACCCTCGAC
*
47542274 TTGTAAAATTACAAAAGTACCCT
1 TTGTAAAATTACGAAA-TACCCT
47542297 TGATTTACAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACGAAATACCCTCGAC
Found at i:47542361 original size:27 final size:27
Alignment explanation
Indices: 47542332--47542556 Score: 281
Period size: 27 Copynumber: 8.3 Consensus size: 27
47542322 CTCGATTTAC
* * * *
47542332 AGAATTATCGGAATGCCCCTGTAGGGC
1 AGAATTACCGAAATACCCCTGTAGGGT
47542359 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
47542386 AGAATAACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
47542413 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
** *
47542440 AGAATTATTGCAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
47542467 AGAATTATCGAAATACCCCATGTAGGGT
1 AGAATTACCGAAATACCCC-TGTAGGGT
* **
47542495 AAAATTACTAAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* * * *
47542522 GGAATTACCGAGATA-CCTTGTGGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
47542548 AAAATTACC
1 AGAATTACC
47542557 ATTTTGCCCA
Statistics
Matches: 173, Mismatches: 24, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 16 0.09
27 134 0.77
28 23 0.13
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
AGAATTACCGAAATACCCCTGTAGGGT
Found at i:47543034 original size:22 final size:22
Alignment explanation
Indices: 47542983--47543046 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
47542973 TAAAGCCTTT
* *
47542983 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
*
47543005 T-ACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
47543027 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
47543047 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:47543293 original size:27 final size:26
Alignment explanation
Indices: 47543205--47543303 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
47543195 ATTCTGTTAA
* * *
47543205 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTCTGCCACAATATCT-GTTCTG
*
47543232 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
47543259 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* **
47543286 GTGACTCTATCACAATAT
1 GTGGCTCTGCCACAATAT
47543304 TTGATAACTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 9 0.14
27 48 0.76
28 6 0.10
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:47543481 original size:6 final size:6
Alignment explanation
Indices: 47543466--47543562 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
47543456 ATTCTGTTAC
* * *
47543466 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
47543515 CTGATT CT-ATCAC CTAATT TTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
47543563 AATGTTTCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
5 5 0.07
6 59 0.81
7 6 0.08
8 3 0.04
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:47543494 original size:31 final size:31
Alignment explanation
Indices: 47543456--47543578 Score: 142
Period size: 31 Copynumber: 4.0 Consensus size: 31
47543446 CTAATTTTTT
*
47543456 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
47543487 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * * **
47543518 ATTCTATCACCTAATTTTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
47543549 ATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCT-GTTACCTGATACTGATTCTGATTCTG
47543579 TAATGGGTTA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 16 0.21
31 61 0.78
32 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:47545546 original size:27 final size:27
Alignment explanation
Indices: 47545516--47545640 Score: 162
Period size: 27 Copynumber: 4.6 Consensus size: 27
47545506 TTAGTTTACC
47545516 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
47545543 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47545570 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47545597 AAATTACCAAAATACCCCTGATTTG-A
1 AAATTACCAAAATACCCCTGGTTTGTA
**
47545623 GAAATTACTGAAATACCC
1 -AAATTACCAAAATACCC
47545641 TCGACCTGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 83 0.99
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:47545653 original size:81 final size:81
Alignment explanation
Indices: 47545516--47545701 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 81
47545506 TTAGTTTACC
* * ***
47545516 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGACCTATAAAATCACCAAA
* *
47545581 ATACCC-CTAGTTTGTA
66 ATACCCACGA-CTTGTA
* * * ***
47545597 AAATTACCAAAATACCCCTGATTTG-AGAAATTACTGAAATACCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATACCCCTGATTTGTA-AAATTACTAAAATACCCTCGACCTATAAAATCACCAA
47545661 AATACCCACGACTTGTA
65 AATACCCACGACTTGTA
* *
47545678 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCCTGATTT
47545702 ACAGAATTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 85 0.97
82 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGACCTATAAAATCACCAAA
ATACCCACGACTTGTA
Found at i:47545654 original size:27 final size:27
Alignment explanation
Indices: 47545624--47545684 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
47545614 CTGATTTGAG
*
47545624 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCACGACCTGTA
* *
47545651 AAATTATTGAAATACCCACGACTTGTA
1 AAATTACTGAAATACCCACGACCTGTA
47545678 AAATTAC
1 AAATTAC
47545685 CAAAGTACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCACGACCTGTA
Found at i:47545693 original size:27 final size:25
Alignment explanation
Indices: 47545516--47545694 Score: 90
Period size: 27 Copynumber: 6.6 Consensus size: 25
47545506 TTAGTTTACC
**
47545516 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACC-AAATACCCC-GACTTGTA
* * ** *
47545543 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTAC-CAAATACCC-CGACTTGTA
* * *
47545570 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACC-AAATACCCCGA-CTTGTA
*
47545597 AAATTACCAAAATACCCCTGATTTG-A
1 AAATTACC-AAATACCCC-GACTTGTA
* *
47545623 GAAATTACTGAAATACCCTCGACCTGTA
1 -AAATTAC-CAAATACCC-CGACTTGTA
**
47545651 AAATTATTGAAATACCCACGACTTGTA
1 AAATTA-CCAAATACCC-CGACTTGTA
47545678 AAATTACCAAAGTACCC
1 AAATTACCAAA-TACCC
47545695 TTGATTTACA
Statistics
Matches: 122, Mismatches: 19, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
26 4 0.03
27 115 0.94
28 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (25 bp):
AAATTACCAAATACCCCGACTTGTA
Found at i:47545747 original size:27 final size:27
Alignment explanation
Indices: 47545690--47545748 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
47545680 ATTACCAAAG
* * ***
47545690 TACCCTTGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGGAA
47545717 TACCCTCGATTTACAAAATTATCGGAA
1 TACCCTCGATTTACAAAATTATCGGAA
47545744 TACCC
1 TACCC
47545749 CTGTAGGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCGGAA
Found at i:47545763 original size:27 final size:26
Alignment explanation
Indices: 47545733--47545899 Score: 174
Period size: 27 Copynumber: 6.2 Consensus size: 26
47545723 CGATTTACAA
*
47545733 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
47545760 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
* * *
47545787 AATTATCGCAATACCCCTGTAGCGTAA
1 AATTA-CGAAATACCCCTGTAGGGTAG
*
47545814 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* *
47545841 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTAC-GAAATACCCCTGTAGGGTAG
* * * *
47545868 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTA-CGAAATACCCCTGTAGGGTAG
47545894 AATTAC
1 AATTAC
47545900 CATTTTGCCC
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 16 0.13
27 101 0.84
28 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (26 bp):
AATTACGAAATACCCCTGTAGGGTAG
Found at i:47545791 original size:54 final size:54
Alignment explanation
Indices: 47545733--47545882 Score: 203
Period size: 54 Copynumber: 2.8 Consensus size: 54
47545723 CGATTTACAA
* *
47545733 AATTATCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
47545787 AATTATCGCAATACCCCTGTAGCGTAAAATTACCAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
47545841 AATTA-CTAAAATACCCCTGTAGGGTGGAATTACCGAGATACC
1 AATTATC-GAAATACCCCTGTAGGGTAGAATTACCGAAATACC
47545883 TTGTGGGGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 82 0.99
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (54 bp):
AATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:47545882 original size:81 final size:80
Alignment explanation
Indices: 47545742--47545901 Score: 241
Period size: 81 Copynumber: 2.0 Consensus size: 80
47545732 AAATTATCGG
* *
47545742 AATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGT
1 AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGCAATA-CCCTGT
47545807 AGCGTAAAATTACCAA
65 AGCGTAAAATTACCAA
* *
47545823 AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACCG-AGATACCTTGT
1 AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGCA-ATACCCTGT
* *
47545887 GGGGTAAAATTACCA
65 AGCGTAAAATTACCA
47545902 TTTTGCCCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 19 0.26
81 53 0.74
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (80 bp):
AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGCAATACCCTGTA
GCGTAAAATTACCAA
Found at i:47546358 original size:22 final size:22
Alignment explanation
Indices: 47546328--47546387 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
47546318 AAGCCTTCTG
* *
47546328 ATTATGGCTTTGTGTCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
47546350 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
47546372 ATTATGGCTGTGTGCC
1 ATTATGGCTCTGTGCC
47546388 TAACGTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:47546577 original size:27 final size:27
Alignment explanation
Indices: 47546547--47546646 Score: 87
Period size: 27 Copynumber: 3.7 Consensus size: 27
47546537 TATTCTGTTA
*
47546547 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTTTGCCACAATATCTGTTTCT
*
47546574 AGTGG-TTATGCCACAAATATCT-ATTCT
1 AGTGGCTT-TGCCAC-AATATCTGTTTCT
* * *
47546601 GGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTTTGCCACAATATCTGTTTCT
* * * *
47546628 GGTGACTCTGTCACAATAT
1 AGTGGCTTTGCCACAATAT
47546647 TTGATAACTG
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
26 9 0.15
27 45 0.74
28 7 0.11
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
AGTGGCTTTGCCACAATATCTGTTTCT
Found at i:47546836 original size:31 final size:31
Alignment explanation
Indices: 47546798--47546895 Score: 126
Period size: 31 Copynumber: 3.2 Consensus size: 31
47546788 CTGATTTTTT
* *
47546798 ATTCTGTTACCTGATACTAATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
47546829 ATTCTGTTACCTGATACTGATTCAT-ATTCTG
1 ATTCTGTTACCTGATACTGATTC-TGATTCTG
* * * *
47546860 ATTCTGTGACCTAATTCTGATTATGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
47546891 ATTCT
1 ATTCT
47546896 AGTTTTGATA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
30 1 0.02
31 57 0.97
32 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:47550264 original size:27 final size:27
Alignment explanation
Indices: 47550231--47550381 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
47550221 AAAGTACTCC
47550231 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
47550258 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* *
47550285 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
47550312 CGATTTATAGAATTACCGTTTTACCTT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
47550339 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
47550366 CGATTTACAAAATTAC
1 CGATTTATAGAATTAC
47550382 TAAAATACCC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 108 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.41
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:47550272 original size:54 final size:54
Alignment explanation
Indices: 47550200--47550392 Score: 174
Period size: 54 Copynumber: 3.6 Consensus size: 54
47550190 TACTGAAATG
* * * *
47550200 CCCTCGACTTGTAAAATTACCAAAGTACTCC-CGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCAAAGTAC-CCTCGATTTATAAAATTACCGTTTTA
***** *
47550254 CCCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCAAAGTACCCTCGATTTATAAAATTACCGTTTTA
**** * *
47550308 CCCTCGATTTATAGAATTACCGTTTTACCTTCGATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCAAAGTACCCTCGATTTATAAAATTACCGTTTTA
* * * *
47550362 CCCTCGATTTACAAAATTACTAAAATACCCT
1 CCCTCGATTTATAGAATTACCAAAGTACCCT
47550393 TGGGTTGTGA
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.03
54 112 0.97
55 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (54 bp):
CCCTCGATTTATAGAATTACCAAAGTACCCTCGATTTATAAAATTACCGTTTTA
Found at i:47550322 original size:81 final size:81
Alignment explanation
Indices: 47550200--47550381 Score: 233
Period size: 81 Copynumber: 2.2 Consensus size: 81
47550190 TACTGAAATG
*
47550200 CCCTCGACTTGTAAAATTACCAAAGTACTCCCGATTTATAGAATTACCGTTTTACCCTC-AGTTT
1 CCCTCGATTTGTAAAATTACCAAAGTACTCCCGATTTATAGAATTACCGTTTTACCCTCGA-TTT
* *
47550264 ATAGAATTACTGTTTTA
65 ATAAAATTACCGTTTTA
**** *
47550281 CCCTCGATTTGTAAAATTACCGTTTTAC-CCTCGATTTATAGAATTACCGTTTTACCTTCGATTT
1 CCCTCGATTTGTAAAATTACCAAAGTACTCC-CGATTTATAGAATTACCGTTTTACCCTCGATTT
*
47550345 GTAAAATTACCGTTTTA
65 ATAAAATTACCGTTTTA
**
47550362 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTGTAAAATTAC
47550382 TAAAATACCC
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 85 0.97
82 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTGTAAAATTACCAAAGTACTCCCGATTTATAGAATTACCGTTTTACCCTCGATTTA
TAAAATTACCGTTTTA
Found at i:47550406 original size:54 final size:54
Alignment explanation
Indices: 47550279--47550410 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
47550269 ATTACTGTTT
* * * * ****
47550279 TACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCTTCGAGTTGTAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAA
* *
47550333 TACCTTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCTTCGAGTTGTAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAA
* *
47550387 TACCCTT-GGGTTGTGAAATTACCG
1 TA-CCTTCGAGTTGTAAAATTACCG
47550411 CAATACCCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
54 62 0.94
55 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (54 bp):
TACCTTCGAGTTGTAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAA
Found at i:47551651 original size:25 final size:25
Alignment explanation
Indices: 47551622--47551669 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
47551612 TTATAACATG
* *
47551622 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
47551647 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
47551670 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:47551720 original size:9 final size:9
Alignment explanation
Indices: 47551708--47551764 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
47551698 TTTGATAAAC
47551708 ATGATATGT
1 ATGATATGT
*
47551717 ATGATATGCAC
1 ATGATATG--T
*
47551728 ATGACATGT
1 ATGATATGT
*
47551737 ATGATATGCAC
1 ATGATATG--T
47551748 ATGATATGT
1 ATGATATGT
47551757 ATGATATG
1 ATGATATG
47551765 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:47551731 original size:20 final size:20
Alignment explanation
Indices: 47551706--47551776 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
47551696 ATTTTGATAA
47551706 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47551726 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
47551746 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47551766 ACATGAGATGT
1 ACATGATATGT
47551777 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47551753 original size:11 final size:11
Alignment explanation
Indices: 47551717--47551771 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
47551707 CATGATATGT
47551717 ATGATATGCAC
1 ATGATATGCAC
* *
47551728 ATGACATG--T
1 ATGATATGCAC
47551737 ATGATATGCAC
1 ATGATATGCAC
*
47551748 ATGATATG--T
1 ATGATATGCAC
47551757 ATGATATGCAC
1 ATGATATGCAC
47551768 ATGA
1 ATGA
47551772 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:47551865 original size:23 final size:23
Alignment explanation
Indices: 47551823--47551988 Score: 271
Period size: 24 Copynumber: 7.1 Consensus size: 23
47551813 AGGAAGTGCA
47551823 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
47551845 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
47551869 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
47551893 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
47551916 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
47551939 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
47551962 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
47551986 AAA
1 AAA
47551989 AGAGGCTAGG
Statistics
Matches: 138, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
22 12 0.09
23 58 0.42
24 68 0.49
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:47551877 original size:24 final size:23
Alignment explanation
Indices: 47551822--47552010 Score: 265
Period size: 24 Copynumber: 8.0 Consensus size: 23
47551812 GAGGAAGTGC
47551822 AAAAGGGCTTATG-CCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
47551844 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
47551867 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
47551891 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
47551915 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
47551938 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
47551962 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
47551986 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
47552010 A
1 A
47552011 TGATAAAGCA
Statistics
Matches: 155, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
22 12 0.08
23 53 0.34
24 80 0.52
25 10 0.06
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:47551945 original size:70 final size:71
Alignment explanation
Indices: 47551821--47551988 Score: 295
Period size: 70 Copynumber: 2.4 Consensus size: 71
47551811 GGAGGAAGTG
47551821 CAAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
47551885 AGTTAT
66 AGTTAT
*
47551891 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
47551955 AGTTAT
66 AGTTAT
* *
47551961 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
47551989 AGAGGCTAGG
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
70 62 0.66
71 32 0.34
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:47569483 original size:54 final size:54
Alignment explanation
Indices: 47569361--47569483 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
47569351 GCTTAAACCG
* * * * * *
47569361 TGTAACTAACTATGCTTGTGTTCTTCAGGGTCACACGATTGTGGCCCTAGGTCA
1 TGTAACTAACTGTGCTTGTGTACTTAAGGGTCACACAACTGTGGCCCTAGCTCA
* * * *
47569415 TGTAACTCATTGTGCTTGTGTGAC-TAAGGGTCACACAACTGTGTCTCTAGCTCA
1 TGTAACTAACTGTGCTTGTGT-ACTTAAGGGTCACACAACTGTGGCCCTAGCTCA
*
47569469 TGTAACTGACTGTGC
1 TGTAACTAACTGTGC
47569484 CAATGTTAAC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 55 0.98
55 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (54 bp):
TGTAACTAACTGTGCTTGTGTACTTAAGGGTCACACAACTGTGGCCCTAGCTCA
Found at i:47570378 original size:33 final size:33
Alignment explanation
Indices: 47570339--47570408 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
47570329 AACATCTAAT
47570339 TTAAGATACTCAAAATAATAATACTTATTCGAG
1 TTAAGATACTCAAAATAATAATACTTATTCGAG
47570372 TTAAGATACTCAAAATAATAATACTTATTCGAG
1 TTAAGATACTCAAAATAATAATACTTATTCGAG
47570405 TTAA
1 TTAA
47570409 CTTTAGAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (33 bp):
TTAAGATACTCAAAATAATAATACTTATTCGAG
Found at i:47570577 original size:26 final size:26
Alignment explanation
Indices: 47570548--47570681 Score: 76
Period size: 26 Copynumber: 5.2 Consensus size: 26
47570538 TCAAAGCTTG
47570548 ATAAACACCGGCTCAAGGCTTGCTAA
1 ATAAACACCGGCTCAAGGCTTGCTAA
* * ** *
47570574 ATAATCACTGGCTCAAAGG-AAGATAA
1 ATAAACACCGGCTC-AAGGCTTGCTAA
* * *
47570600 A-AAATACCAGCGT-AAAGCTTGCTAA
1 ATAAACACCGGC-TCAAGGCTTGCTAA
* * * * *
47570625 CTAAACATCGGCTCAAGACCTGTTAA
1 ATAAACACCGGCTCAAGGCTTGCTAA
* * **
47570651 ACAATCACTAGCTCAAGGCTTGCTAA
1 ATAAACACCGGCTCAAGGCTTGCTAA
47570677 ATAAA
1 ATAAA
47570682 GTACATCTCG
Statistics
Matches: 71, Mismatches: 32, Indels: 10
0.63 0.28 0.09
Matches are distributed among these distances:
24 3 0.04
25 11 0.15
26 53 0.75
27 4 0.06
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (26 bp):
ATAAACACCGGCTCAAGGCTTGCTAA
Found at i:47575354 original size:55 final size:54
Alignment explanation
Indices: 47575219--47575423 Score: 214
Period size: 53 Copynumber: 3.8 Consensus size: 54
47575209 CCTTTTTAAA
* * * * *
47575219 CTTACCATTGCCATGTCTGGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAG
* * * * * *
47575272 CTCACCATTGCCATGCCTTGGCATGGTCTTCCATGGGATCTTTGCCTTATAGTAG
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AG
* * * * * * *
47575327 TTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAG
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAG
* *
47575381 CTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
47575424 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 42 0.35
54 39 0.32
55 40 0.33
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAG
Found at i:47587372 original size:19 final size:19
Alignment explanation
Indices: 47587348--47587386 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
47587338 TTTGGGTTTG
47587348 CTCGAATAAACTCAGTATA
1 CTCGAATAAACTCAGTATA
47587367 CTCGAATAAACTCAGTATA
1 CTCGAATAAACTCAGTATA
47587386 C
1 C
47587387 CAATTGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (19 bp):
CTCGAATAAACTCAGTATA
Found at i:47589132 original size:68 final size:68
Alignment explanation
Indices: 47588965--47589140 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
47588955 TAGTACCACC
* * * *
47588965 CATGTGACCTAGC--CA-ATTTATCTTGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGTGACCTAGCTACACATATATCTTGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
47589027 CACA
65 CACA
** * *
47589031 CATGTGACCTAGCTACATTTATCTCTCTCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGTGACCTAGCTACACATATATCT-T-GTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
47589093 ATCACA
63 ATCACA
*
47589099 CATGTGACCTAGCTACTACATAGTATCTTGTAGCTTTCTTGT
1 CATGTGACCTAGCTAC-ACATA-TATCTTGTAGCTCTCTTGT
47589141 ACACATGATA
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
68 37 0.41
69 9 0.10
70 7 0.08
71 25 0.27
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (68 bp):
CATGTGACCTAGCTACACATATATCTTGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:47590942 original size:40 final size:40
Alignment explanation
Indices: 47590889--47591105 Score: 269
Period size: 40 Copynumber: 5.5 Consensus size: 40
47590879 CGGATGATAA
* *
47590889 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
47590929 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * * *
47590969 TCGGGCTGAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
47591009 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * * *
47591049 CCGGGCTATGTCCCGAAGACA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
47591088 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
47591106 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 14 0.09
39 15 0.09
40 129 0.82
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:47600239 original size:46 final size:45
Alignment explanation
Indices: 47600186--47600361 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
47600176 TATTTGGGCA
47600186 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-G
* * *
47600232 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAGG
* * **
47600277 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGG
* *
47600325 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47600362 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 68 0.62
47 28 0.25
48 3 0.03
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
Found at i:47600341 original size:93 final size:93
Alignment explanation
Indices: 47600182--47600353 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47600172 AGGATATTTG
****
47600182 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
47600247 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
47600275 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
47600340 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
47600354 ACTTATGGGC
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:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:47604443 original size:46 final size:46
Alignment explanation
Indices: 47604390--47604518 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
47604380 TATTTGGGCA
* *
47604390 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
47604436 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
47604482 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47604519 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:47614701 original size:39 final size:39
Alignment explanation
Indices: 47614641--47614793 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
47614631 CCCGCACAAA
*
47614641 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* *
47614681 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
47614720 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
47614759 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
47614794 TTCATTCACA
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 99 0.93
40 8 0.07
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:47622627 original size:40 final size:39
Alignment explanation
Indices: 47622583--47622775 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
47622573 GTTCAAAACA
* * ** * *
47622583 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
47622623 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
47622663 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
47622702 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
47622741 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
47622776 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:47622694 original size:39 final size:39
Alignment explanation
Indices: 47622613--47622775 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
47622603 TATGGTAACC
* *
47622613 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47622653 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47622692 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47622731 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
47622770 CGCACA
1 CGCACA
47622776 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:47625995 original size:15 final size:15
Alignment explanation
Indices: 47625972--47626009 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
47625962 ATATACTCAT
*
47625972 TAATCTTTAATTCCA
1 TAATTTTTAATTCCA
47625987 TAATTTTTAATTCCA
1 TAATTTTTAATTCCA
47626002 TAATTTTT
1 TAATTTTT
47626010 TTGAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTTTTAATTCCA
Found at i:47626684 original size:27 final size:27
Alignment explanation
Indices: 47626654--47626707 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
47626644 TCATACAACC
* *
47626654 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
47626681 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
47626708 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:47629559 original size:40 final size:40
Alignment explanation
Indices: 47629504--47629734 Score: 263
Period size: 40 Copynumber: 5.8 Consensus size: 40
47629494 CGGATGATAA
* * *
47629504 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
* *
47629544 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-GTT
* **
47629585 CCGGGCTAAGTCCC-AAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
* * * * *
47629624 CCGGGCTAAGTTCCGAAGGCATTTGTACGAGCTAGT-TTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
*
47629664 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
* *
47629704 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
47629735 AGCTATATCC
Statistics
Matches: 166, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
39 22 0.13
40 128 0.77
41 16 0.10
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:47629640 original size:80 final size:80
Alignment explanation
Indices: 47629504--47629734 Score: 297
Period size: 80 Copynumber: 2.9 Consensus size: 80
47629494 CGGATGATAA
* * * **
47629504 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
47629569 TGCGAGTTA-TTACATT
66 TGCGAGTTAGTT-CA-T
* *
47629585 CCGGGCTAAGTCCC-AAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
47629649 TACGAGCTAGTTTAT
66 TGCGAGTTAGTTCAT
* * *
47629664 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
*
47629728 AGCGAGT
66 TGCGAGT
47629735 AGCTATATCC
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 22 0.17
80 92 0.71
81 16 0.12
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTAGTTCAT
Found at i:47637644 original size:40 final size:39
Alignment explanation
Indices: 47637589--47637844 Score: 311
Period size: 40 Copynumber: 6.5 Consensus size: 39
47637579 CGGATGATAA
* * *
47637589 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTC
* *
47637629 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTC
* *
47637669 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTC
*
47637709 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TC
*
47637749 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TC
* *
47637789 CGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-TC
* *
47637828 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
47637845 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 167 0.85
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTC
Found at i:47637802 original size:120 final size:119
Alignment explanation
Indices: 47637589--47637818 Score: 356
Period size: 120 Copynumber: 1.9 Consensus size: 119
47637579 CGGATGATAA
* *
47637589 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGT
* *
47637654 GCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
66 GCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCA-TTGAGCGAGTTATTACATC
*
47637709 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
47637772 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTGAGCGAGT
64 GTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGT
47637819 AGCTATATCC
Statistics
Matches: 101, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
119 10 0.10
120 90 0.89
121 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (119 bp):
CGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGTTATTACATC
Found at i:47640836 original size:7 final size:7
Alignment explanation
Indices: 47640824--47640860 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
47640814 CGAGGTTCCT
47640824 GTTTTGA
1 GTTTTGA
47640831 GTTTTGA
1 GTTTTGA
47640838 GTTTTGA
1 GTTTTGA
47640845 GTTTTGA
1 GTTTTGA
47640852 GTTTTGA
1 GTTTTGA
47640859 GT
1 GT
47640861 ATGTACCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (7 bp):
GTTTTGA
Found at i:47642560 original size:15 final size:15
Alignment explanation
Indices: 47642542--47642572 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47642532 TGAATTGTGG
47642542 TTTGAGAAGAGGTTA
1 TTTGAGAAGAGGTTA
47642557 TTTGAGAAGAGGTTA
1 TTTGAGAAGAGGTTA
47642572 T
1 T
47642573 CATGATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (15 bp):
TTTGAGAAGAGGTTA
Found at i:47645475 original size:26 final size:26
Alignment explanation
Indices: 47645442--47645495 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
47645432 GTATTGTTAT
47645442 TTTGCCTGAAAATAGAGAGACTTTTA
1 TTTGCCTGAAAATAGAGAGACTTTTA
47645468 TTTGCCTGAAAATAGAGAGACTTTTA
1 TTTGCCTGAAAATAGAGAGACTTTTA
47645494 TT
1 TT
47645496 CTCTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (26 bp):
TTTGCCTGAAAATAGAGAGACTTTTA
Found at i:47646812 original size:13 final size:13
Alignment explanation
Indices: 47646794--47646821 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47646784 CTACTAATTC
47646794 GTGACTCAATTAG
1 GTGACTCAATTAG
47646807 GTGACTCAATTAG
1 GTGACTCAATTAG
47646820 GT
1 GT
47646822 TAGTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (13 bp):
GTGACTCAATTAG
Found at i:47647169 original size:15 final size:15
Alignment explanation
Indices: 47647149--47647212 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
47647139 TTGTACATAA
47647149 TTGAATATTTTTATT
1 TTGAATATTTTTATT
*
47647164 TTGAATTTTTTTAGTT
1 TTGAATATTTTTA-TT
*
47647180 AATTAAATATTTTTATT
1 --TTGAATATTTTTATT
*
47647197 TTTAATATTTTTATT
1 TTGAATATTTTTATT
47647212 T
1 T
47647213 ACCTTGTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
15 27 0.64
16 2 0.05
17 2 0.05
18 11 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (15 bp):
TTGAATATTTTTATT
Found at i:47647173 original size:33 final size:33
Alignment explanation
Indices: 47647136--47647207 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
47647126 GTGTTTAGTT
*
47647136 TTTTTGTACATAATTGAATATTTTTATTTTGAA
1 TTTTTGTACATAATTAAATATTTTTATTTTGAA
* ** *
47647169 TTTTTTTAGTTAATTAAATATTTTTATTTTTAA
1 TTTTTGTACATAATTAAATATTTTTATTTTGAA
47647202 TATTTT
1 T-TTTT
47647208 TATTTACCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (33 bp):
TTTTTGTACATAATTAAATATTTTTATTTTGAA
Found at i:47647208 original size:33 final size:33
Alignment explanation
Indices: 47647146--47647209 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
47647136 TTTTTGTACA
* *
47647146 TAATTGAATATTTTTATTTTGAATTTTTTTAGT
1 TAATTAAATATTTTTATTTTGAATATTTTTAGT
*
47647179 TAATTAAATATTTTTATTTTTAATATTTTTA
1 TAATTAAATATTTTTATTTTGAATATTTTTA
47647210 TTTACCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (33 bp):
TAATTAAATATTTTTATTTTGAATATTTTTAGT
Found at i:47649480 original size:48 final size:46
Alignment explanation
Indices: 47649408--47649727 Score: 277
Period size: 48 Copynumber: 6.8 Consensus size: 46
47649398 AGATGCTGAC
* * * *
47649408 GCCATGTCCCAGACATGGTTTTACACTAGCTCACATGTCGAGGCCGAT
1 GCCATGT-CCA-ACATGGTCTTACACTAGCTCACATATCAACGCCGAT
** * * * *
47649456 GCCATGTCCCAGACATGGTCTTACACTAGCTGTCGTCTCCATGCCGAT
1 GCCATGT-CCA-ACATGGTCTTACACTAGCTCACATATCAACGCCGAT
*
47649504 GCCATGTCCAACATGGTCTTACACTAGCTCACA-ATCAACCCCGAT
1 GCCATGTCCAACATGGTCTTACACTAGCTCACATATCAACGCCGAT
* * * *
47649549 GCCATGTCCAACATGGTCTTACACTGGCTCTCA-ATCAACGTCAAT
1 GCCATGTCCAACATGGTCTTACACTAGCTCACATATCAACGCCGAT
* * ** *
47649594 GCCATGTCCAACATGGTCTTACACTAGCTCTCATAACATTGTCGAT
1 GCCATGTCCAACATGGTCTTACACTAGCTCACATATCAACGCCGAT
* * * * *** *
47649640 GCCATGTTCCAAACATGGTCTTACACTGGCACATGAAAT-GTGGCCAAT
1 GCCATG-TCC-AACATGGTCTTACACTAGCTCA-CATATCAACGCCGAT
*
47649688 GCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
1 GCCATGT-CCA-ACATGGTCTTACACTAGCTCACATATCA
47649728 CCATAGTACC
Statistics
Matches: 226, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
45 80 0.35
46 34 0.15
47 11 0.05
48 99 0.44
49 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCATGTCCAACATGGTCTTACACTAGCTCACATATCAACGCCGAT
Found at i:47649562 original size:45 final size:45
Alignment explanation
Indices: 47649408--47649666 Score: 266
Period size: 45 Copynumber: 5.6 Consensus size: 45
47649398 AGATGCTGAC
* * * * *
47649408 GCCATGTCCCAGACATGGTTTTACACTAGCTCACATGTCGAGGCCGAT
1 GCCATGT-CCA-ACATGGTCTTACACTAGCTCTCA-ATCAACGCCGAT
* ** * *
47649456 GCCATGTCCCAGACATGGTCTTACACTAGCTGTCGTCTCCATGCCGAT
1 GCCATGT-CCA-ACATGGTCTTACACTAGCTCTC-AATCAACGCCGAT
* *
47649504 GCCATGTCCAACATGGTCTTACACTAGCTCACAATCAACCCCGAT
1 GCCATGTCCAACATGGTCTTACACTAGCTCTCAATCAACGCCGAT
* * *
47649549 GCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGTCAAT
1 GCCATGTCCAACATGGTCTTACACTAGCTCTCAATCAACGCCGAT
* ** *
47649594 GCCATGTCCAACATGGTCTTACACTAGCTCTCATAACATTGTCGAT
1 GCCATGTCCAACATGGTCTTACACTAGCTCTCA-ATCAACGCCGAT
47649640 GCCATGTTCCAAACATGGTCTTACACT
1 GCCATG-TCC-AACATGGTCTTACACT
47649667 GGCACATGAA
Statistics
Matches: 183, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
45 80 0.44
46 34 0.19
47 6 0.03
48 63 0.34
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (45 bp):
GCCATGTCCAACATGGTCTTACACTAGCTCTCAATCAACGCCGAT
Found at i:47651509 original size:30 final size:30
Alignment explanation
Indices: 47651451--47651510 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
47651441 TTCCCGAGCC
* * *
47651451 TAGGGGCAAAAGTGTAATTATGTAAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
* *
47651481 TAGGGGAAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
47651511 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAATGTAATTATGCAAAAGTT
Found at i:47655822 original size:40 final size:40
Alignment explanation
Indices: 47655763--47655980 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
47655753 AACCCAAGTA
* *
47655763 CCTTC-GGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
47655801 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47655841 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47655881 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47655921 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47655960 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
47655981 GTCATCCGAA
Statistics
Matches: 170, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
38 5 0.03
39 30 0.18
40 134 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:47664141 original size:79 final size:80
Alignment explanation
Indices: 47664025--47664241 Score: 327
Period size: 79 Copynumber: 2.8 Consensus size: 80
47664015 AACCCAAGTA
* * * *
47664025 CCTTCGGGA-TTTGGCCAGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
47664088 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
47664104 CCTTCGGGACTTAGCCCGGATATAGT-AATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
47664168 TCACTAGCACAACTG
66 TCACTAGCACAAATG
* *
47664183 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATGCCTTCGGGACTTAG-CCGGAT
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGAT
47664242 GTCATCCGAA
Statistics
Matches: 128, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
78 6 0.05
79 101 0.79
80 21 0.16
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:47664147 original size:39 final size:40
Alignment explanation
Indices: 47664025--47664241 Score: 327
Period size: 40 Copynumber: 5.5 Consensus size: 40
47664015 AACCCAAGTA
* * * *
47664025 CCTTCGGGA-TTTGGCCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
47664064 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47664104 CCTTCGGGACTTAGCCCGGATATAGT-AATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47664143 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47664183 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47664222 CCTTCGGGACTTAG-CCGGAT
1 CCTTCGGGACTTAGCCCGGAT
47664242 GTCATCCGAA
Statistics
Matches: 166, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
38 6 0.04
39 63 0.38
40 96 0.58
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:47668434 original size:46 final size:44
Alignment explanation
Indices: 47668380--47668555 Score: 194
Period size: 46 Copynumber: 3.9 Consensus size: 44
47668370 ACATTTGGGC
47668380 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
47668424 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
47668473 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* *
47668518 CACCCGAGCT-GTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47668556 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 29 0.26
46 41 0.37
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:47671489 original size:15 final size:15
Alignment explanation
Indices: 47671469--47671531 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
47671459 TATCCTAATC
47671469 TCTTTATTCTGGATT
1 TCTTTATTCTGGATT
*
47671484 TCTTTATTCTGGGTT
1 TCTTTATTCTGGATT
*
47671499 TCTCTA-TCTTGGATT
1 TCTTTATTC-TGGATT
*
47671514 TCTTTATTC-GGTTT
1 TCTTTATTCTGGATT
47671528 TCTT
1 TCTT
47671532 GTTATCTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 10 0.24
15 29 0.71
16 2 0.05
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TCTTTATTCTGGATT
Found at i:47678772 original size:29 final size:30
Alignment explanation
Indices: 47678716--47678774 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
47678706 TTCCCGAGCC
* *
47678716 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGCAAAAAGTATAATTATGCAAAAGTT
* *
47678746 TAGGGCAAAAA-TATAATTTTGCCAAAGTT
1 TAGGGCAAAAAGTATAATTATGCAAAAGTT
47678775 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (30 bp):
TAGGGCAAAAAGTATAATTATGCAAAAGTT
Found at i:47682104 original size:14 final size:15
Alignment explanation
Indices: 47682085--47682118 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
47682075 TTATTTTAAA
47682085 TATTATTTTTTATTG
1 TATTATTTTTTATTG
47682100 T-TTA-TTTTTATTG
1 TATTATTTTTTATTG
47682113 TATTAT
1 TATTAT
47682119 AATTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.59
14 6 0.35
15 1 0.06
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TATTATTTTTTATTG
Found at i:47682227 original size:20 final size:21
Alignment explanation
Indices: 47682161--47682229 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
47682151 ATAGTAGTTT
47682161 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
47682182 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
47682203 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
47682224 -CTTTTT
1 TCTTTTT
47682230 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:47686131 original size:40 final size:40
Alignment explanation
Indices: 47686044--47686210 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
47686034 TGAATGATAC
* *
47686044 CCGGGCTAAGTCCCGAAGGC-TTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
* *
47686083 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* *** *
47686123 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
47686163 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
47686203 CC-GGCTAA
1 CCGGGCTAA
47686211 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 24 0.23
40 80 0.75
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:47694381 original size:40 final size:40
Alignment explanation
Indices: 47694326--47694493 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
47694316 TGAATGATAC
* *
47694326 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
47694366 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
47694406 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
47694446 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
47694486 CC-GGCTAA
1 CCGGGCTAA
47694494 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:47695935 original size:30 final size:32
Alignment explanation
Indices: 47695901--47695959 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
47695891 CATGTGATGA
47695901 AAATAAATGTG-ATA-TAAA-ATGAAATTGGCT
1 AAAT-AATGTGTATACTAAATATGAAATTGGCT
*
47695931 AAATAATGTGTATACTAAATTTGAAATTG
1 AAATAATGTGTATACTAAATATGAAATTG
47695960 ATACATGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 6 0.24
30 7 0.28
31 4 0.16
32 8 0.32
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.34
Consensus pattern (32 bp):
AAATAATGTGTATACTAAATATGAAATTGGCT
Found at i:47697326 original size:46 final size:46
Alignment explanation
Indices: 47697276--47697448 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
47697266 TGGTTGAGCA
47697276 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
47697322 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47697367 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47697415 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47697449 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47697432 original size:93 final size:93
Alignment explanation
Indices: 47697273--47697443 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47697263 GGATGGTTGA
* *
47697273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47697338 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
47697366 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47697431 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47697444 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:47700433 original size:15 final size:15
Alignment explanation
Indices: 47700395--47700438 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
47700385 CATAGTATCG
* *
47700395 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
47700410 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
47700425 TATCTTGGATTTCT
1 TATCTTGGATTTCT
47700439 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:47702894 original size:46 final size:46
Alignment explanation
Indices: 47702844--47703016 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
47702834 TGGTTGAGCA
47702844 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
47702890 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
47702935 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47702983 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47703017 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.28
48 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47703000 original size:93 final size:93
Alignment explanation
Indices: 47702841--47703011 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47702831 GGATGGTTGA
* *
47702841 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47702906 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
47702934 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
47702999 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
47703012 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:47705111 original size:13 final size:13
Alignment explanation
Indices: 47705093--47705127 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
47705083 CTATAAGTTG
47705093 GGTCACACGACCA
1 GGTCACACGACCA
47705106 GGTCACACGACCA
1 GGTCACACGACCA
47705119 GGTCACACG
1 GGTCACACG
47705128 CCTGTGTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.37, G:0.26, T:0.09
Consensus pattern (13 bp):
GGTCACACGACCA
Found at i:47713799 original size:2 final size:2
Alignment explanation
Indices: 47713794--47713824 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
47713784 AAAAAAAAAA
47713794 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
47713825 AACAGAACAT
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:47723133 original size:40 final size:40
Alignment explanation
Indices: 47723088--47723189 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
47723078 CGGATATAAC
*
47723088 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGGTT-TAGT
* * *
47723128 GACTCGCACGAATGCCTTCGGGGCTTAACCCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
* *
47723168 AACTTGCACAAATGCCTTCGGG
1 GACTCGCACAAATGCCTTCGGG
47723190 CTTAGCCCGG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 47 0.89
41 6 0.11
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (40 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGGTTTAGT
Found at i:47727926 original size:43 final size:43
Alignment explanation
Indices: 47727783--47727932 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
47727773 GATTACCAAG
47727783 ATGTGATTACATGTAAGACCATGTCTGGGACATTGCAT-T-G-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTG-ATATCGAT
* * * **
47727824 ATTGTGATTACGTCTAAGACCATGTCTTGGACATTGGCATC-ATT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGATATCGA-T
* * * * *
47727868 ATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGATATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGATATCGAT
*
47727911 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
47727933 ATCTAGGATA
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 32 0.38
43 49 0.58
44 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGATATCGAT
Found at i:47732905 original size:55 final size:55
Alignment explanation
Indices: 47732815--47732934 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 55
47732805 GCCAAAACAG
***
47732815 CACAGGCGTGCGACACGCCCGTGCCTTTAACCTGTGGCCGAACCTGTCAAATTAA
1 CACAGGCGTGCGACACGCCCGTGCCAGCAACCTGTGGCCGAACCTGTCAAATTAA
* * *
47732870 CACAGGCGTGCGACACGCCCGTGCCAAGCAA-CTGTGGGCGAACTTGTTAAATTAA
1 CACAGGCGTGCGACACGCCCGTGCC-AGCAACCTGTGGCCGAACCTGTCAAATTAA
* *
47732925 GACGGGCGTG
1 CACAGGCGTG
47732935 GGCCTACATA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 54 0.96
56 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.18
Consensus pattern (55 bp):
CACAGGCGTGCGACACGCCCGTGCCAGCAACCTGTGGCCGAACCTGTCAAATTAA
Found at i:47737864 original size:194 final size:194
Alignment explanation
Indices: 47737534--47737921 Score: 704
Period size: 194 Copynumber: 2.0 Consensus size: 194
47737524 GGGTGAAACC
* * *
47737534 TAATAAGGGGATCCATAGATCGAGTTAATGCAACCCTAGGGTGTTAATTAGAGAAAAGTCTCAAT
1 TAATAAGGGGATCCATAGATCAAGTTAATGCAACCCGAGGGTGTTAATCAGAGAAAAGTCTCAAT
* *
47737599 TATTCAATCTAGGGATTAGACATTATTAGTCCTGAATAGGGATAATAACATAACTTAGGGATCTT
66 TATTCAATCTAGGGATTAAACATTATTAGTCCTGAATAGGGATAATAACATAACTTAGGGATCTC
* *
47737664 TACGGGACAAGTTAAATGAATAAATCGTCCGATTCGGAGCCAGAATAACAAGTATAGTCTAGGT
131 TACGGGACAAGTTAAATGAATAAATCCTCCGATTCGGAGCCAGAATAACAAGTAAAGTCTAGGT
47737728 TAATAAGGGGATCCATAGATCAAGTTAATGCAACCCGAGGGTGTTAATCAGAGAAAAGTCTCAAT
1 TAATAAGGGGATCCATAGATCAAGTTAATGCAACCCGAGGGTGTTAATCAGAGAAAAGTCTCAAT
*
47737793 TATTCAATCTAGGGATTAAACGTTATTAGTCCTGAATAGGGATAATAACATAACTTAGGGATCTC
66 TATTCAATCTAGGGATTAAACATTATTAGTCCTGAATAGGGATAATAACATAACTTAGGGATCTC
47737858 TACGGGACAAGTTAAATGAATAAATCCTCCGATTCGGAGCCAGAATAACAAGTAAAGTCTAGGT
131 TACGGGACAAGTTAAATGAATAAATCCTCCGATTCGGAGCCAGAATAACAAGTAAAGTCTAGGT
47737922 GGATTTTTCC
Statistics
Matches: 186, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
194 186 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (194 bp):
TAATAAGGGGATCCATAGATCAAGTTAATGCAACCCGAGGGTGTTAATCAGAGAAAAGTCTCAAT
TATTCAATCTAGGGATTAAACATTATTAGTCCTGAATAGGGATAATAACATAACTTAGGGATCTC
TACGGGACAAGTTAAATGAATAAATCCTCCGATTCGGAGCCAGAATAACAAGTAAAGTCTAGGT
Found at i:47741415 original size:43 final size:43
Alignment explanation
Indices: 47741366--47741466 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
47741356 TCCTAGATAT
* * *
47741366 GGTCTTACATGTTATT-ATATATCGATGCCATTGTCCCAGACAG
1 GGTCTTACATGTAATTGAT-TAACGATGCCAATGTCCCAGACAG
* * *
47741409 GGTCTTACACGAAATTGATTAACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATTGATTAACGATGCCAATGTCCCAGACAG
47741452 GGTCTTACATGTAAT
1 GGTCTTACATGTAAT
47741467 CACTCTTCGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (43 bp):
GGTCTTACATGTAATTGATTAACGATGCCAATGTCCCAGACAG
Found at i:47744126 original size:19 final size:20
Alignment explanation
Indices: 47744089--47744126 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
47744079 ATAAGGTGGT
47744089 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
47744109 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
47744127 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:47757434 original size:2 final size:2
Alignment explanation
Indices: 47757427--47757466 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
47757417 CAAATTTAAC
47757427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47757467 GCATACCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47759269 original size:25 final size:25
Alignment explanation
Indices: 47759240--47759294 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
47759230 CGGTTAAAGA
*
47759240 ATTCGCACATACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
47759265 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
47759290 ATTCG
1 ATTCG
47759295 TTATTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:47759530 original size:43 final size:43
Alignment explanation
Indices: 47759425--47759545 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
47759415 CACTGACATT
* * * *
47759425 AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
*
47759468 AAGCCTGCTAGGAACGAAGGCCCGAATACACATCACCAGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
* * *
47759511 AAGCCTGCTAGGCATGAAGGCCTGATTACACATCA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCA
47759546 TTGGCACGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.35, C:0.31, G:0.21, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
Found at i:47759609 original size:40 final size:40
Alignment explanation
Indices: 47759549--47759704 Score: 267
Period size: 40 Copynumber: 3.9 Consensus size: 40
47759539 CACATCATTG
* * *
47759549 GCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCA
47759589 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCA
*
47759629 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAATACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCA
*
47759669 GCACGAATGCTCTTCGAGACTTAGCCCGGATATAAC
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAAC
47759705 TCTCAATTCT
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCA
Found at i:47760423 original size:6 final size:6
Alignment explanation
Indices: 47760405--47760548 Score: 100
Period size: 6 Copynumber: 23.3 Consensus size: 6
47760395 AAGAAACATT
* *
47760405 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
47760452 GTGACAGA ATCAGA ATCAGA ATTAGA ATCAGA ATCA-A TATCAGGTA A-CAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA
* * * *
47760503 ATCAAA ATCAAA ATCAGT ATCAAGTA A-CAGA ATCTAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATC-AGA ATCAGA AT
47760549 GTGAATGCAA
Statistics
Matches: 110, Mismatches: 14, Indels: 28
0.72 0.09 0.18
Matches are distributed among these distances:
5 7 0.06
6 86 0.78
7 13 0.12
8 3 0.03
9 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:47760479 original size:43 final size:43
Alignment explanation
Indices: 47760414--47760524 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
47760404 TATCAGAACT
* * *
47760414 AGAATCAGAATCAGAATCAGAATTAGAATCAGA-ATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCA-ATATCAGGTAAC
*
47760457 AGAATCAGAATCAGAATTAGAATCAGAATCAATATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAATATCAGGTAAC
* * *
47760500 AGAATCAAAATCAAAATCAGTATCA
1 AGAATCAGAATCAGAATCAGAATCA
47760525 AGTAACAGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (43 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAATATCAGGTAAC
Done.