Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 49 of 444
Found at i:11757137 original size:80 final size:80
Alignment explanation
Indices: 11756984--11757184 Score: 267
Period size: 80 Copynumber: 2.4 Consensus size: 80
11756974 GTAGTGGAGC
* * *
11756984 CGGTGAGCCTTAACCCCCTGAGCAGTAGGATAATAGGCCGAATTACAAATCTTATCTCCCTAAGC
1 CGGTGAGCCTTAACCCCCTAAGCAGTAGGGT-A-A---C-AATTACAAATCTTATCTCCCAAAGC
11757049 AGTAGTGGAGCAGATCAAAGA
60 AGTAGTGGAGCAGATCAAAGA
* *
11757070 CGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAATTACAGATCTTATCTCCCAAAGTAGTAGT
1 CGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAATTACAAATCTTATCTCCCAAAGCAGTAGT
* *
11757135 GGAGCAGATCGAAGG
66 GGAGCAGATCAAAGA
* *
11757150 CGGTGAGCCTTAACCCCCTAAGCAATAGGGCAACA
1 CGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
11757185 GGTTGAAAAT
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
80 74 0.70
81 1 0.01
84 1 0.01
85 1 0.01
86 29 0.27
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (80 bp):
CGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAATTACAAATCTTATCTCCCAAAGCAGTAGT
GGAGCAGATCAAAGA
Found at i:11757395 original size:68 final size:68
Alignment explanation
Indices: 11757286--11757416 Score: 201
Period size: 68 Copynumber: 1.9 Consensus size: 68
11757276 CAAGGCTACA
*
11757286 AATCTCTTCTCCCTAAAATGGGGTTGGAGCGGTTCGAAGCCACAGCGGATCTCCTTGAAGTTTCA
1 AATCTCTTCTCCCTAAAATGGGGTTGGAGCGGTTCGAAGCCACAGCAGATCTCCTTGAAGTTTCA
11757351 GCG
66 GCG
* * * *
11757354 AATCTCTTCTTCCTAAAATGGTGTTGGAGTGGCTT-GAAGCCACATCAGATCTCCTTGAAGTTT
1 AATCTCTTCTCCCTAAAATGGGGTTGGAGCGG-TTCGAAGCCACAGCAGATCTCCTTGAAGTTT
11757417 TAGTAGAGTA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 55 0.96
69 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (68 bp):
AATCTCTTCTCCCTAAAATGGGGTTGGAGCGGTTCGAAGCCACAGCAGATCTCCTTGAAGTTTCA
GCG
Found at i:11757476 original size:44 final size:44
Alignment explanation
Indices: 11757426--11757729 Score: 211
Period size: 44 Copynumber: 6.9 Consensus size: 44
11757416 TTAGTAGAGT
* * *
11757426 AGATCGAAGTTACAAGCCTTATCTCTCTAAAATCGCAGTGGAGC
1 AGATCGAAGTCACAAGCCTTATCTCTCTAAAGTTGCAGTGGAGC
* * * * *
11757470 AGATCGAAGCCATAATCCTTATCTCTCTAAAGTTGCAATAGAGC
1 AGATCGAAGTCACAAGCCTTATCTCTCTAAAGTTGCAGTGGAGC
** * * * * *
11757514 AGGATAAAAATTAC-AGATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 A-GATCGAAGTCACAAG-CCTTATCTCTCTAAAGTTGCAGTGGAGC
* * *
11757559 AGATCGAAGTCACAATCCTTATCTTTCTAAAGTTGCAGTAGAGC
1 AGATCGAAGTCACAAGCCTTATCTCTCTAAAGTTGCAGTGGAGC
* * * * * * * * * *
11757603 GGGTTGAAGTAACAAGTCTTATCTCCCTGAAGCTGCAATGGACC
1 AGATCGAAGTCACAAGCCTTATCTCTCTAAAGTTGCAGTGGAGC
* * * * *
11757647 AGA-CTGAAGTTAGC-AGATCTTATCTCCCTGAAGTTGCAGTCGAGC
1 AGATC-GAAGTCA-CAAG-CCTTATCTCTCTAAAGTTGCAGTGGAGC
* * *
11757692 AGATCGAAGTCACAATCCTTA-CTCTCTGAAGTTACAGT
1 AGATCGAAGTCACAAGCCTTATCTCTCTAAAGTTGCAGT
11757730 AAAGCAGGAT
Statistics
Matches: 196, Mismatches: 56, Indels: 17
0.73 0.21 0.06
Matches are distributed among these distances:
43 15 0.08
44 114 0.58
45 66 0.34
46 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
AGATCGAAGTCACAAGCCTTATCTCTCTAAAGTTGCAGTGGAGC
Found at i:11757640 original size:133 final size:133
Alignment explanation
Indices: 11757402--11757736 Score: 363
Period size: 133 Copynumber: 2.5 Consensus size: 133
11757392 GCCACATCAG
* ** * * * * * *
11757402 ATCTCCTTGAAGTTTTAGTAGAGTAGATCGAAGTTACAAGCCTTATCTCTCTAAAATCGCAGTGG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGTCACAATCCTTATCTCTCTAAAGTTGCAGTAG
* * * * *
11757467 AGCAGATCGAAGCCATAATCCTTATCTCTCTAAAGTTGCAATAGAGCAGGA-TAAAAATTA-CAG
66 AGCAGATCGAAGCAACAATCCTTATCTCCCTAAAGCTGCAATAGACCA-GACT-AAAATTAGCAG
11757530 ATCTT
129 ATCTT
* *
11757535 ATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCCTTATCTTTCTAAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGTCACAATCCTTATCTCTCTAAAGTTGCAGTAG
* * * * * * * *
11757600 AGCGGGTTGAAGTAACAAGT-CTTATCTCCCTGAAGCTGCAATGGACCAGACTGAAGTTAGCAGA
66 AGCAGATCGAAGCAACAA-TCCTTATCTCCCTAAAGCTGCAATAGACCAGACTAAAATTAGCAGA
11757664 TCTT
130 TCTT
* * * *
11757668 ATCTCCCTGAAGTTGCAGTCGAGCAGATCGAAGTCACAATCCTTA-CTCTCTGAAGTTACAGTAA
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGTCACAATCCTTATCTCTCTAAAGTTGCAGTAG
11757732 AGCAG
66 AGCAG
11757737 GATAAAAACA
Statistics
Matches: 169, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
132 26 0.15
133 142 0.84
134 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (133 bp):
ATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGTCACAATCCTTATCTCTCTAAAGTTGCAGTAG
AGCAGATCGAAGCAACAATCCTTATCTCCCTAAAGCTGCAATAGACCAGACTAAAATTAGCAGAT
CTT
Found at i:11757669 original size:89 final size:89
Alignment explanation
Indices: 11757464--11757693 Score: 243
Period size: 89 Copynumber: 2.6 Consensus size: 89
11757454 AAAATCGCAG
* * * * *
11757464 TGGAGCAGATCGAAGCCATAATCCTTATCTCTCTAAAGTTGCAATAGAGCAGGATAAAAATTACA
1 TGGACCAGATCGAAGTCACAATCCTTATCTCTCTAAAGTTGCAGTAGAGCAGGATAAAAATAACA
* *
11757529 GATCTTATCTCCCTGAAGTTGCAG
66 GATCTTATCTCCCTGAAGCTGCAA
* * * ** *
11757553 TGGAGCAGATCGAAGTCACAATCCTTATCTTTCTAAAGTTGCAGTAGAGC-GGGTTGAAGTAACA
1 TGGACCAGATCGAAGTCACAATCCTTATCTCTCTAAAGTTGCAGTAGAGCAGGATAAAAATAACA
11757617 -AGTCTTATCTCCCTGAAGCTGCAA
66 GA-TCTTATCTCCCTGAAGCTGCAA
* * * *
11757641 TGGACCAGA-CTGAAGTTAGCAGAT-CTTATCTCCCTGAAGTTGCAGTCGAGCAG
1 TGGACCAGATC-GAAGTCA-CA-ATCCTTATCTCTCTAAAGTTGCAGTAGAGCAG
11757694 ATCGAAGTCA
Statistics
Matches: 119, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
87 2 0.02
88 43 0.36
89 71 0.60
90 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (89 bp):
TGGACCAGATCGAAGTCACAATCCTTATCTCTCTAAAGTTGCAGTAGAGCAGGATAAAAATAACA
GATCTTATCTCCCTGAAGCTGCAA
Found at i:11766116 original size:20 final size:21
Alignment explanation
Indices: 11766070--11766116 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
11766060 GTATTAATCT
*
11766070 AAAAAAATCATAAAATTTTAG
1 AAAAAAATCATAAAATTTGAG
** *
11766091 GCAAAAAT-GTAAAATTTGAG
1 AAAAAAATCATAAAATTTGAG
11766111 AAAAAA
1 AAAAAA
11766117 GGGTCACACG
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (21 bp):
AAAAAAATCATAAAATTTGAG
Found at i:11766286 original size:19 final size:19
Alignment explanation
Indices: 11766262--11766309 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
11766252 ATCGTGTGGA
11766262 AGGCTATGTGGAGGGTCTC
1 AGGCTATGTGGAGGGTCTC
11766281 AGGCTATGTGGAGGGTCTC
1 AGGCTATGTGGAGGGTCTC
11766300 AGGCTATGTG
1 AGGCTATGTG
11766310 AGAAATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.17, C:0.15, G:0.42, T:0.27
Consensus pattern (19 bp):
AGGCTATGTGGAGGGTCTC
Found at i:11769428 original size:25 final size:25
Alignment explanation
Indices: 11769400--11769463 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
11769390 CGAGCCAAAA
*
11769400 AACGGGAAGCTCAT-GTGAGCCATGT
1 AACGGGAAGCTCATAGAGAGCCAT-T
*
11769425 AACGGAAAGCTC-TAGAGAGCCATT
1 AACGGGAAGCTCATAGAGAGCCATT
*
11769449 AACCGGAAGCTCATA
1 AACGGGAAGCTCATA
11769464 CGAGCCAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 12 0.36
25 21 0.64
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (25 bp):
AACGGGAAGCTCATAGAGAGCCATT
Found at i:11769481 original size:24 final size:23
Alignment explanation
Indices: 11769454--11769507 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
11769444 CCATTAACCG
* *
11769454 GAAGCTCATA-CGAGCCAATGTTGA
1 GAAGCTCA-AGCGAG-CAATATCGA
*
11769478 GAAGTTCAAGCGAGCAATATCGA
1 GAAGCTCAAGCGAGCAATATCGA
11769501 GAAGCTC
1 GAAGCTC
11769508 TGGAGAGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (23 bp):
GAAGCTCAAGCGAGCAATATCGA
Found at i:11773175 original size:14 final size:14
Alignment explanation
Indices: 11773156--11773183 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11773146 TCATGATGAA
11773156 ATAAAATACAAGTG
1 ATAAAATACAAGTG
11773170 ATAAAATACAAGTG
1 ATAAAATACAAGTG
11773184 TGCAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
ATAAAATACAAGTG
Found at i:11773307 original size:28 final size:28
Alignment explanation
Indices: 11773267--11773322 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11773257 ACATTAGTTC
11773267 TATTTTATTTTGATTAGAATATGGTTTT
1 TATTTTATTTTGATTAGAATATGGTTTT
11773295 TATTTTATTTTGATTAGAATATGGTTTT
1 TATTTTATTTTGATTAGAATATGGTTTT
11773323 ACATATAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (28 bp):
TATTTTATTTTGATTAGAATATGGTTTT
Found at i:11775328 original size:49 final size:49
Alignment explanation
Indices: 11775227--11775330 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
11775217 CTGGTAGACA
* * * *
11775227 ACACGCCCGTGTCTATTTAACAGATTGTAACACGGCCTAAGCTCACACC
1 ACACGGCCGTGTCTAGTTAACAGACTCTAACACGGCCTAAGCTCACACC
*
11775276 ACACGGCCGTGTCTAGTTAGCAGACTCTAAACACGGCCTAAGC-CAC-CTC
1 ACACGGCCGTGTCTAGTTAACAGACTCT-AACACGGCCTAAGCTCACAC-C
11775325 ACACGG
1 ACACGG
11775331 GCATGTCCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 1 0.02
49 33 0.69
50 14 0.29
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (49 bp):
ACACGGCCGTGTCTAGTTAACAGACTCTAACACGGCCTAAGCTCACACC
Found at i:11775521 original size:46 final size:46
Alignment explanation
Indices: 11775454--11775547 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
11775444 CGAAGTAGGA
11775454 GGTAGGGAATTACTCGAAGAAAGCCTATTGATCCATCTGAGAAGCC
1 GGTAGGGAATTACTCGAAGAAAGCCTATTGATCCATCTGAGAAGCC
*
11775500 GGTAGGTAATTACTCGAAGAAAGCCTATTGATCCATCTGAGAAGCC
1 GGTAGGGAATTACTCGAAGAAAGCCTATTGATCCATCTGAGAAGCC
11775546 GG
1 GG
11775548 ATTCTCCTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (46 bp):
GGTAGGGAATTACTCGAAGAAAGCCTATTGATCCATCTGAGAAGCC
Found at i:11781244 original size:18 final size:17
Alignment explanation
Indices: 11781211--11781261 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
11781201 AAGAAGTCTA
11781211 AAAACATAATAAT-AAACAT
1 AAAA-ATAA-AATAAAAC-T
11781230 AAAAATAGAAATAAAACT
1 AAAAATA-AAATAAAACT
11781248 AAAAATAAAATAAA
1 AAAAATAAAATAAA
11781262 TGATACATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.23
18 14 0.47
19 9 0.30
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATAAAACT
Found at i:11789982 original size:19 final size:19
Alignment explanation
Indices: 11789958--11790008 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
11789948 AACTGCCAGA
11789958 AGAAAATAAAA-GAAAAATT
1 AGAAAATAAAATGAAAAA-T
*
11789977 AGAAAATAAGAATTAAAAAT
1 AGAAAATAA-AATGAAAAAT
11789997 A-AAAATAAAATG
1 AGAAAATAAAATG
11790009 CAATAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.11
19 16 0.57
20 4 0.14
21 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (19 bp):
AGAAAATAAAATGAAAAAT
Found at i:11793594 original size:21 final size:22
Alignment explanation
Indices: 11793535--11793604 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
11793525 GGGTATTAAC
*
11793535 TTTTATATTAAAAATTTAATGA
1 TTTTATATTAAAAATTTAATAA
*
11793557 TTTT-TA-CAAAATGATTTAAT-A
1 TTTTATATTAAAA--ATTTAATAA
11793578 TTTTATATTAAAAATTTAATAA
1 TTTTATATTAAAAATTTAATAA
11793600 TTTTA
1 TTTTA
11793605 AATATTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 4 0.10
21 14 0.34
22 19 0.46
23 4 0.10
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (22 bp):
TTTTATATTAAAAATTTAATAA
Found at i:11797688 original size:27 final size:27
Alignment explanation
Indices: 11797653--11797704 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11797643 TATCGTATAA
*
11797653 CATATAATGCAATAAAATTGCCAATAT
1 CATATAATGCAATAAAATCGCCAATAT
**
11797680 CATATAATGTGATAAAATCGCCAAT
1 CATATAATGCAATAAAATCGCCAAT
11797705 CCCCTTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (27 bp):
CATATAATGCAATAAAATCGCCAATAT
Found at i:11798651 original size:27 final size:27
Alignment explanation
Indices: 11798613--11798673 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 27
11798603 CACCTAACAT
11798613 ATTTAAATACTAGAAAATTTGTAGGGA
1 ATTTAAATACTAGAAAATTTGTAGGGA
11798640 ATTTAAATACTAGAAAATTTGTAGGGA
1 ATTTAAATACTAGAAAATTTGTAGGGA
11798667 ATCTTAA
1 AT-TTAA
11798674 TTAAAATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.34
Consensus pattern (27 bp):
ATTTAAATACTAGAAAATTTGTAGGGA
Found at i:11804717 original size:2 final size:2
Alignment explanation
Indices: 11804712--11804738 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11804702 ATGTTATGTG
11804712 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11804739 TATTTATACT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11806420 original size:21 final size:21
Alignment explanation
Indices: 11806395--11806435 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11806385 TACTAGGTAG
11806395 ATAAAAAATGAATAC-TACGAT
1 ATAAAAAAT-AATACATACGAT
*
11806416 ATAAAGAATAATACATACGA
1 ATAAAAAATAATACATACGA
11806436 AGCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
ATAAAAAATAATACATACGAT
Found at i:11807034 original size:23 final size:23
Alignment explanation
Indices: 11807008--11807068 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
11806998 TACATAACAT
*
11807008 ATATATATATAAAAC-AATAAATA
1 ATATATA-ATAAAACAAATAAAGA
*
11807031 ATATAAAAATAAAACATAATAAAGA
1 ATAT-ATAATAAAACA-AATAAAGA
*
11807056 TTATATAATAAAA
1 ATATATAATAAAA
11807069 TGTAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 11 0.35
24 10 0.32
25 10 0.32
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (23 bp):
ATATATAATAAAACAAATAAAGA
Found at i:11807060 original size:25 final size:22
Alignment explanation
Indices: 11807016--11807068 Score: 52
Period size: 25 Copynumber: 2.3 Consensus size: 22
11807006 ATATATATAT
*
11807016 ATAAAACAATAAATAATATAAAA
1 ATAAAACAATAAAGAATAT-AAA
* *
11807039 ATAAAACATAATAAAGATTATATA
1 ATAAAAC--AATAAAGAATATAAA
11807063 ATAAAA
1 ATAAAA
11807069 TGTAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 7 0.28
24 8 0.32
25 10 0.40
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (22 bp):
ATAAAACAATAAAGAATATAAA
Found at i:11807191 original size:17 final size:18
Alignment explanation
Indices: 11807117--11807188 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 18
11807107 TAAAGTAACG
11807117 TATAAA-ATAATATATATA
1 TATAAATATAATA-ATATA
*
11807135 TATATATATAAGTAAT-TA
1 TATAAATATAA-TAATATA
*
11807153 -ATAAATATAAT-ATATG
1 TATAAATATAATAATATA
11807169 TGA-AAATATAATAATATA
1 T-ATAAATATAATAATATA
11807187 TA
1 TA
11807189 AAAAGGATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
15 2 0.05
16 2 0.05
17 19 0.43
18 13 0.30
19 6 0.14
20 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (18 bp):
TATAAATATAATAATATA
Found at i:11807275 original size:17 final size:15
Alignment explanation
Indices: 11807234--11807307 Score: 51
Period size: 17 Copynumber: 4.5 Consensus size: 15
11807224 ATATATAATA
11807234 AATAATAATAATATAT
1 AATAA-AATAATATAT
11807250 AATTAAAAATAATACTCAT
1 AA-T-AAAATAATA-T-AT
*
11807269 AATAAAATAATTTTAT
1 AATAAAATAA-TATAT
* *
11807285 AAT-ATATAATATAA
1 AATAAAATAATATAT
11807299 AAGTAAAAT
1 AA-TAAAAT
11807308 TAAAATAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
14 5 0.11
15 6 0.13
16 10 0.22
17 16 0.35
18 5 0.11
19 4 0.09
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (15 bp):
AATAAAATAATATAT
Found at i:11807294 original size:55 final size:54
Alignment explanation
Indices: 11807216--11807351 Score: 150
Period size: 55 Copynumber: 2.5 Consensus size: 54
11807206 TAATTTAAGG
* * **
11807216 AAAATAATATATATAATAAATAATAATAATA-TATAATTAAAAATAATACTCATAAT
1 AAAATAATATATATAATAAATAAT-ATAAAAGTAAAATT-AAAATAA-ACAAATAAT
* *
11807272 AAAATAAT-TTTATAATATATAATATAAAAGTAAAATTAAAATAAACAAATAAT
1 AAAATAATATATATAATAAATAATATAAAAGTAAAATTAAAATAAACAAATAAT
*
11807325 AAAATATATATATAGAATAATATAATA
1 AAAATA-ATATATATAATAA-ATAATA
11807352 AATATAGGAC
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
53 13 0.19
54 14 0.21
55 26 0.39
56 14 0.21
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (54 bp):
AAAATAATATATATAATAAATAATATAAAAGTAAAATTAAAATAAACAAATAAT
Found at i:11807331 original size:42 final size:42
Alignment explanation
Indices: 11807228--11807346 Score: 102
Period size: 42 Copynumber: 2.9 Consensus size: 42
11807218 AATAATATAT
* * *
11807228 ATAATAAATAATAATAATATATAAT-TAAAAATAATACTCATA
1 ATAAAAAATAATAA-AATATATAATATAAAAATAATAATCAAA
** * * *
11807270 ATAAAATAATTTTATAATATATAATATAAAAGTAA-AATTAAA
1 ATAAAA-AATAATAAAATATATAATATAAAAATAATAATCAAA
*
11807312 ATAAACAAATAATAAAATATAT-ATAT-AGAATAATA
1 ATAAA-AAATAATAAAATATATAATATAAAAATAATA
11807347 TAATAAATAT
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
40 5 0.08
41 5 0.08
42 36 0.60
43 14 0.23
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (42 bp):
ATAAAAAATAATAAAATATATAATATAAAAATAATAATCAAA
Found at i:11808994 original size:84 final size:83
Alignment explanation
Indices: 11808758--11809036 Score: 328
Period size: 83 Copynumber: 3.3 Consensus size: 83
11808748 TTCGATTTGT
* * * * *
11808758 AAGGATGTCAAATCATCTTGAGTCTGTCTGAAAACATTTGAGATTCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAAAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
11808823 CTTGTTCCTTGT-AGCAC
66 TTTGTTCCTTGTAAGCAC
* * * * *
11808840 AAGGGTGCTTAAACCATCTTGAGTCTGTTTGACAACATTTGAGGGTTATATCTGCAATGTCCTCG
1 AAGGATGC-CAAACCATCTTGAGTCTGTTTGAAAACATTTGAGAGTCATATCTGCAATGTCCTCG
*
11808905 ATTTGTTCCCTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* * * *
11808924 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAATATCTGCTATGTCCTCA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAAAACATTTGAGAGTC-ATATCTGCAATGTCCTCG
**
11808989 ATTTGTTCCTTGTAAATAC
65 ATTTGTTCCTTGTAAGCAC
* * *
11809008 AAGAATACCAAATCATCTTG-GATCTGTTT
1 AAGGATGCCAAACCATCTTGAG-TCTGTTT
11809037 CAATATAAAC
Statistics
Matches: 167, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
82 6 0.04
83 93 0.56
84 68 0.41
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAAAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:11809164 original size:119 final size:120
Alignment explanation
Indices: 11808950--11809185 Score: 377
Period size: 119 Copynumber: 2.0 Consensus size: 120
11808940 CTTGAGTCTG
*
11808950 TTTGAGAACATCTGAGAGTCAATATCTGCTATGTCCTCAATTTGTTCCTTGTAAATACAAGAATA
1 TTTGAGAACATCTGAGAGTCAATATCTGCTATGTCCTCAATTTGTTCCTTGTAAACACAAGAATA
* *
11809015 CCAAATCATCTTGGATCTGTTTCAATATAAACATCTGAAGGT-TAGATCTGCTATA
66 CCAAATCATCTTGGATCTGCTTCAACATAAACATCTGAA-GTCTAGATCTGCTATA
** *
11809070 TTTGAGAATGTCTGAGAGTCAA-ATCTGCTATGTCCTCCATTTGTTCCTTGTAAACACAAGAATA
1 TTTGAGAACATCTGAGAGTCAATATCTGCTATGTCCTCAATTTGTTCCTTGTAAACACAAGAATA
**
11809134 CCAAATCATCTTGGATCTGCTTCAACATAAATGTCTGAAGTCTAGATCTGCT
66 CCAAATCATCTTGGATCTGCTTCAACATAAACATCTGAAGTCTAGATCTGCT
11809186 GTCTTCAATT
Statistics
Matches: 107, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
118 2 0.02
119 85 0.79
120 20 0.19
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (120 bp):
TTTGAGAACATCTGAGAGTCAATATCTGCTATGTCCTCAATTTGTTCCTTGTAAACACAAGAATA
CCAAATCATCTTGGATCTGCTTCAACATAAACATCTGAAGTCTAGATCTGCTATA
Found at i:11817130 original size:19 final size:19
Alignment explanation
Indices: 11817106--11817145 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11817096 TATAACCTTG
*
11817106 AATGCATATGATATG-ATGT
1 AATGCAAATG-TATGAATGT
11817125 AATGCAAATGTATGAATGT
1 AATGCAAATGTATGAATGT
11817144 AA
1 AA
11817146 CAAAGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (19 bp):
AATGCAAATGTATGAATGT
Found at i:11819396 original size:34 final size:35
Alignment explanation
Indices: 11819353--11819426 Score: 141
Period size: 34 Copynumber: 2.1 Consensus size: 35
11819343 GTATCACATG
11819353 ATATCAATAAATCTCAACAATA-TTTATAAGGGTA
1 ATATCAATAAATCTCAACAATAGTTTATAAGGGTA
11819387 ATATCAATAAATCTCAACAATAGTTTATAAGGGTA
1 ATATCAATAAATCTCAACAATAGTTTATAAGGGTA
11819422 ATATC
1 ATATC
11819427 TAAAGTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (35 bp):
ATATCAATAAATCTCAACAATAGTTTATAAGGGTA
Found at i:11820547 original size:21 final size:21
Alignment explanation
Indices: 11820522--11820562 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11820512 TACTAGGTAG
11820522 ATAAAAAATGAATAC-TACGAT
1 ATAAAAAAT-AATACATACGAT
*
11820543 ATAAAGAATAATACATACGA
1 ATAAAAAATAATACATACGA
11820563 AGCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
ATAAAAAATAATACATACGAT
Found at i:11821168 original size:21 final size:22
Alignment explanation
Indices: 11821119--11821168 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
11821109 ATACATATAT
11821119 ACATAACATATATATAAAAAAA
1 ACATAACATATATATAAAAAAA
11821141 ACAATAA-ATA-ATATAAAATAAA
1 AC-ATAACATATATATAAAA-AAA
11821163 ACATAA
1 ACATAA
11821169 TAAAGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.46
22 10 0.38
23 4 0.15
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (22 bp):
ACATAACATATATATAAAAAAA
Found at i:11821172 original size:24 final size:22
Alignment explanation
Indices: 11821121--11821165 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
11821111 ACATATATAC
11821121 ATAACATATATATAAAA-AAAACA
1 ATAA-ATA-ATATAAAATAAAACA
11821144 ATAAATAATATAAAATAAAACA
1 ATAAATAATATAAAATAAAACA
11821166 TAATAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 9 0.43
23 4 0.19
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
ATAAATAATATAAAATAAAACA
Found at i:11821194 original size:24 final size:24
Alignment explanation
Indices: 11821130--11821187 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
11821120 CATAACATAT
*
11821130 ATATAAAA-AAAAC--AATAAATA
1 ATATAAAATAAAACATAATAAAGA
11821151 ATATAAAATAAAACATAATAAAGA
1 ATATAAAATAAAACATAATAAAGA
* *
11821175 TTATATAATAAAA
1 ATATAAAATAAAA
11821188 TGTAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
24 18 0.58
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (24 bp):
ATATAAAATAAAACATAATAAAGA
Found at i:11821381 original size:22 final size:18
Alignment explanation
Indices: 11821341--11821416 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 18
11821331 ATTTAAGGAA
11821341 AATAATATATATAATAAT
1 AATAATATATATAATAAT
*
11821359 AATAATATATATAATTAAA
1 AATAATATATATAA-TAAT
*
11821378 AATAATACT-CATAATAA-
1 AATAATA-TATATAATAAT
*
11821395 AATAAT-TTTATAATATAT
1 AATAATATATATAATA-AT
11821413 AATA
1 AATA
11821417 TAAACGTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 7 0.14
18 21 0.42
19 14 0.28
20 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATATATATAATAAT
Found at i:11823668 original size:31 final size:31
Alignment explanation
Indices: 11823630--11823688 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
11823620 ATATGTATCT
*
11823630 GGATGTCATATGATAATTAAAACCGAGAACA
1 GGATGTCATATGATAAATAAAACCGAGAACA
*
11823661 GGATGTCATATGATAAATAAAATCGAGA
1 GGATGTCATATGATAAATAAAACCGAGA
11823689 GCAAAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (31 bp):
GGATGTCATATGATAAATAAAACCGAGAACA
Found at i:11838259 original size:4 final size:4
Alignment explanation
Indices: 11838247--11838279 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
11838237 AAAAAAAAAG
*
11838247 GAAA AAAA GAAA GAAA GAAA GAAA GAAA -AAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
11838280 GAATAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:11840093 original size:26 final size:26
Alignment explanation
Indices: 11840057--11840112 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
11840047 TAGTAAATGC
11840057 TATTTTGAAATTAT-TATTAAGTATTA
1 TATTTTGAAATT-TGTATTAAGTATTA
* **
11840083 TATTTTTAAATTTGTATTATTTATTA
1 TATTTTGAAATTTGTATTAAGTATTA
11840109 TATT
1 TATT
11840113 ATTATTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTTTGAAATTTGTATTAAGTATTA
Found at i:11840529 original size:20 final size:20
Alignment explanation
Indices: 11840481--11840536 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
11840471 TTAATTTTTT
* *
11840481 TACATATATTACTCATT-TA
1 TACATATATTAATTATTATA
*
11840500 -A-ATATGTTAATTATTATA
1 TACATATATTAATTATTATA
*
11840518 TACATATATTAAATATTAT
1 TACATATATTAATTATTAT
11840537 TATTATTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 11 0.38
18 3 0.10
19 1 0.03
20 14 0.48
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (20 bp):
TACATATATTAATTATTATA
Found at i:11845637 original size:24 final size:24
Alignment explanation
Indices: 11845539--11845639 Score: 86
Period size: 22 Copynumber: 4.3 Consensus size: 24
11845529 AAGCTCCTCC
*
11845539 TGAGCTGATGAACAGTAATCTC-TA
1 TGAGCTGA-GAACAGTAAGCTCTTA
*
11845563 TTGAGCT-A-AACAGTAAGCTCTAA
1 -TGAGCTGAGAACAGTAAGCTCTTA
* * *
11845586 CGAACT--GAACAGTAAGCTCATA
1 TGAGCTGAGAACAGTAAGCTCTTA
**
11845608 CAAGCTGAGAACAGTAAGCTCTTA
1 TGAGCTGAGAACAGTAAGCTCTTA
11845632 TGAGCTGA
1 TGAGCTGA
11845640 TATATCGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
22 32 0.52
23 1 0.02
24 22 0.36
25 6 0.10
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (24 bp):
TGAGCTGAGAACAGTAAGCTCTTA
Found at i:11847925 original size:26 final size:26
Alignment explanation
Indices: 11847888--11847971 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
11847878 TGATACAAAT
* *
11847888 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11847914 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11847940 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11847966 TGATAA
1 TGATAA
11847972 GAATATCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11849683 original size:27 final size:27
Alignment explanation
Indices: 11849581--11849688 Score: 139
Period size: 27 Copynumber: 4.0 Consensus size: 27
11849571 GAGGAAGCGT
* *
11849581 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
11849608 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
11849635 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
11849663 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGT
11849689 TCTAGCAGCC
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.01
27 55 0.75
28 17 0.23
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:11849686 original size:54 final size:54
Alignment explanation
Indices: 11849579--11849691 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
11849569 TGGAGGAAGC
*
11849579 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
11849633 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
11849687 GTTCT
1 GTTCT
11849692 AGCAGCCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:11849779 original size:19 final size:22
Alignment explanation
Indices: 11849755--11849794 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
11849745 CTCCCCACAC
11849755 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
11849774 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
11849795 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:11852633 original size:35 final size:35
Alignment explanation
Indices: 11852552--11852633 Score: 80
Period size: 35 Copynumber: 2.3 Consensus size: 35
11852542 GTTGGTTTAC
*
11852552 TTTTCTTTTCTTTTTTTCTCTTCCTCTATGTTCCT
1 TTTTCTTTTCTTTTTTTCTCTTCCTCTATGATCCT
* * *
11852587 TTCTTC-CTTCTTTGTTTT-TCTT-CTTTTTCGATCCT
1 TT-TTCTTTTCTTT-TTTTCTCTTCCTCTAT-GATCCT
11852622 TTTTCTTTTCTT
1 TTTTCTTTTCTT
11852634 CTTTAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
34 7 0.18
35 24 0.63
36 7 0.18
ACGTcount: A:0.02, C:0.24, G:0.04, T:0.70
Consensus pattern (35 bp):
TTTTCTTTTCTTTTTTTCTCTTCCTCTATGATCCT
Found at i:11855049 original size:21 final size:20
Alignment explanation
Indices: 11855022--11855085 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 20
11855012 GATAGAATTT
11855022 TATTAATAAATATTTTTATA
1 TATTAATAAATATTTTTATA
*
11855042 TAATTAATGAATA-TTTTATA
1 T-ATTAATAAATATTTTTATA
* *
11855062 T-TT-GTAAATATTTATATA
1 TATTAATAAATATTTTTATA
11855080 TATTAA
1 TATTAA
11855086 ATACTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.14
18 9 0.26
19 2 0.06
20 9 0.26
21 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTAATAAATATTTTTATA
Found at i:11855051 original size:38 final size:37
Alignment explanation
Indices: 11855009--11855085 Score: 84
Period size: 38 Copynumber: 2.1 Consensus size: 37
11854999 AAATTTCTTG
*
11855009 AATGATAGAATTT-TATTAATAAATATTTTTATATAATT
1 AATGA-AGAATTTATATTAATAAATATTTATATAT-ATT
* * **
11855047 AATGAATATTTTATATTTGTAAATATTTATATATATT
1 AATGAAGAATTTATATTAATAAATATTTATATATATT
11855084 AA
1 AA
11855086 ATACTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
37 10 0.30
38 23 0.70
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (37 bp):
AATGAAGAATTTATATTAATAAATATTTATATATATT
Found at i:11855073 original size:17 final size:16
Alignment explanation
Indices: 11855018--11855093 Score: 55
Period size: 17 Copynumber: 4.3 Consensus size: 16
11855008 GAATGATAGA
*
11855018 ATTTTAT-TAATAAAT
1 ATTTTATATATTAAAT
11855033 ATTTTTATATAATTAATGAAT
1 A-TTTTATAT-ATT-A--AAT
*
11855054 ATTTTATATTTGTAAAT
1 ATTTTATATAT-TAAAT
11855071 ATTTATATATATTAAAT
1 ATTT-TATATATTAAAT
11855088 ACTTTT
1 A-TTTT
11855094 TTAAAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 15 0.31
18 11 0.22
19 3 0.06
20 9 0.18
21 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTTATATATTAAAT
Found at i:11859479 original size:12 final size:12
Alignment explanation
Indices: 11859462--11859491 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
11859452 CCTGTAAAAT
11859462 AGTAAAAATAAC
1 AGTAAAAATAAC
11859474 AGTAAAAATAAC
1 AGTAAAAATAAC
11859486 AGTAAA
1 AGTAAA
11859492 GGGGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (12 bp):
AGTAAAAATAAC
Found at i:11860413 original size:20 final size:20
Alignment explanation
Indices: 11860376--11860414 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11860366 AAATTCTAAA
* **
11860376 AAGATAAATACATTTAATTG
1 AAGATAAATAAAGATAATTG
11860396 AAGATAAATAAAGATAATT
1 AAGATAAATAAAGATAATT
11860415 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (20 bp):
AAGATAAATAAAGATAATTG
Found at i:11860466 original size:15 final size:15
Alignment explanation
Indices: 11860446--11860475 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11860436 ATAATCCTCA
*
11860446 TAATTATCTTAATAT
1 TAATTATCCTAATAT
11860461 TAATTATCCTAATAT
1 TAATTATCCTAATAT
11860476 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:11862015 original size:2 final size:2
Alignment explanation
Indices: 11861967--11861995 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11861957 GAGATTAGTC
11861967 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 A
11861996 CACACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11863294 original size:67 final size:64
Alignment explanation
Indices: 11863107--11863363 Score: 211
Period size: 67 Copynumber: 3.9 Consensus size: 64
11863097 TATAGTTTGA
* * *
11863107 CTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGC-CA-ATTTATCTCGTA
1 CTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTCACATATATCTCGTA
11863169 G
64 G
* * * * *
11863170 CTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCT-ACATATATCCCG
1 CTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCTCACATATATCTCG
11863234 TAG
62 TAG
* * *
11863237 CTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTGCATCATATGTCTTGT
1 CTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCT-CA-CATATATCTCGT
11863302 AG
63 AG
* * * ** *
11863304 CTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCT-ACATACTATCT
1 CTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTCACATA-TATCT
11863364 GTATCATCCA
Statistics
Matches: 156, Mismatches: 24, Indels: 26
0.76 0.12 0.13
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 27 0.17
65 5 0.03
66 23 0.15
67 81 0.52
68 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (64 bp):
CTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTCACATATATCTCGTAG
Found at i:11864053 original size:30 final size:30
Alignment explanation
Indices: 11864019--11864079 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11864009 TCCTTAACTC
11864019 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
11864049 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
11864079 A
1 A
11864080 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:11865981 original size:8 final size:8
Alignment explanation
Indices: 11865956--11866027 Score: 56
Period size: 8 Copynumber: 8.5 Consensus size: 8
11865946 TTTTATTAAT
*
11865956 ATAATAAA
1 ATAAAAAA
11865964 ATAATTAAAA
1 ATAA--AAAA
11865974 ATAAAAAA
1 ATAAAAAA
11865982 ATAAAATAA
1 ATAAAA-AA
*
11865991 A-ATAAGAA
1 ATA-AAAAA
11865999 ATAAAATAA
1 ATAAAA-AA
*
11866008 ATAAATAA
1 ATAAAAAA
*
11866016 ATAAATAA
1 ATAAAAAA
11866024 ATAA
1 ATAA
11866028 TAATAATAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
8 34 0.63
9 13 0.24
10 7 0.13
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (8 bp):
ATAAAAAA
Found at i:11866000 original size:12 final size:13
Alignment explanation
Indices: 11865958--11866045 Score: 74
Period size: 12 Copynumber: 6.6 Consensus size: 13
11865948 TTATTAATAT
*
11865958 AATAAAATAATTAAA
1 AATAAAATAA--AGA
*
11865973 AATAAAA-AAATAA
1 AATAAAATAAA-GA
11865986 AATAAAAT-AAGA
1 AATAAAATAAAGA
*
11865998 AATAAAATAAATA
1 AATAAAATAAAGA
*
11866011 AAT-AAATAAATA
1 AATAAAATAAAGA
11866023 AATAATAATAATAGA
1 AATAA-AATAA-AGA
11866038 AATAAAAT
1 AATAAAAT
11866046 TTAAAATTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
12 22 0.34
13 18 0.28
14 10 0.16
15 14 0.22
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:11866003 original size:40 final size:40
Alignment explanation
Indices: 11865958--11866045 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
11865948 TTATTAATAT
11865958 AATAAAATAATTAAAAATAAAAAAAT-AA-AATAA-AATAAGA
1 AATAAAATAA--AAAAATAAAAAAATAAATAATAATAAT-AGA
* *
11865998 AATAAAATAAATAAATAAATAAATAAATAATAATAATAGA
1 AATAAAATAAAAAAATAAAAAAATAAATAATAATAATAGA
11866038 AATAAAAT
1 AATAAAAT
11866046 TTAAAATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
38 12 0.28
39 2 0.05
40 26 0.60
41 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (40 bp):
AATAAAATAAAAAAATAAAAAAATAAATAATAATAATAGA
Found at i:11866011 original size:4 final size:4
Alignment explanation
Indices: 11865972--11866027 Score: 60
Period size: 4 Copynumber: 13.5 Consensus size: 4
11865962 AAATAATTAA
* *
11865972 AAAT AAAA AAAT AAAAT AAA- ATAAG AAAT AAAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT -AAAT AAAT A-AAT AAAT -AAAT AAAT AAAT AAAT AAAT
11866022 AAAT AA
1 AAAT AA
11866028 TAATAATAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
3 1 0.02
4 35 0.78
5 9 0.20
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:11870872 original size:136 final size:137
Alignment explanation
Indices: 11870628--11870913 Score: 511
Period size: 136 Copynumber: 2.1 Consensus size: 137
11870618 CATTGGGCCT
** * *
11870628 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
11870693 AGCCCCTTATTCAGATAACAGTATGGTCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
11870757 CATATGC
131 CATATGC
11870764 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
11870829 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
11870894 CATATGC
131 CATATGC
11870901 AAGCCCATTTGGG
1 AAGCCCATTTGGG
11870914 GAGACTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 121 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:11872725 original size:26 final size:26
Alignment explanation
Indices: 11872689--11872824 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
11872679 CATGATATTC
11872689 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11872715 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11872741 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11872767 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11872793 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11872819 TTATCA
1 TTATCA
11872825 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11876831 original size:135 final size:136
Alignment explanation
Indices: 11876589--11876872 Score: 509
Period size: 135 Copynumber: 2.1 Consensus size: 136
11876579 CATTGGGCCT
** *
11876589 AAGCCCATTCAGGTAACAGTGGTATGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGATATGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
11876654 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
11876718 ATATGC
131 ATATGC
11876724 AAGCCCATTTGGGTAACAGTGATACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATA-TGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
11876788 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
11876853 CATATGC
130 CATATGC
11876860 AAGCCCATTTGGG
1 AAGCCCATTTGGG
11876873 GAGACTACTC
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
135 114 0.80
136 29 0.20
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGATATGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:11878686 original size:26 final size:26
Alignment explanation
Indices: 11878650--11878786 Score: 213
Period size: 26 Copynumber: 5.2 Consensus size: 26
11878640 CATGATATTC
11878650 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11878676 TTATCATGAAAC-TTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11878701 TTATCATGGAACATTTACCTAACCTATA
1 TTATCATGAAACATTTACCTAACC--CA
11878729 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11878755 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11878781 TTATCA
1 TTATCA
11878787 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
25 24 0.24
26 54 0.53
28 24 0.24
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11878759 original size:54 final size:53
Alignment explanation
Indices: 11878650--11878781 Score: 223
Period size: 54 Copynumber: 2.5 Consensus size: 53
11878640 CATGATATTC
* *
11878650 TTATCATGAAACATTTACCTAACC--CATTATCATGAAACTTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATATTATCATGAAACTTTACCTAACCCA
11878701 TTATCATGGAACATTTACCTAACCTATATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATATTATCATGAAAC-TTTACCTAACCCA
11878755 TTATCATGGAACATTTACCTAACCTAT
1 TTATCATGGAACATTTACCTAACCTAT
11878782 TATCAATTTG
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
51 23 0.30
53 13 0.17
54 40 0.53
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (53 bp):
TTATCATGGAACATTTACCTAACCTATATTATCATGAAACTTTACCTAACCCA
Found at i:11880421 original size:12 final size:12
Alignment explanation
Indices: 11880404--11880428 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11880394 TTCCCTGTAA
11880404 AATAGTAAAAAT
1 AATAGTAAAAAT
11880416 AATAGTAAAAAT
1 AATAGTAAAAAT
11880428 A
1 A
11880429 GCAGTAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:11881411 original size:15 final size:15
Alignment explanation
Indices: 11881391--11881420 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11881381 ATAATCCTCA
*
11881391 TAATTATCTTAATAT
1 TAATTATCCTAATAT
11881406 TAATTATCCTAATAT
1 TAATTATCCTAATAT
11881421 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:11884108 original size:26 final size:26
Alignment explanation
Indices: 11884072--11884126 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
11884062 TTGTACTGAT
11884072 AGTTTAGCTTGGAGCCACATATGGAA
1 AGTTTAGCTTGGAGCCACATATGGAA
11884098 AGTTTAGCTTGGAGCCACATATGGAA
1 AGTTTAGCTTGGAGCCACATATGGAA
11884124 AGT
1 AGT
11884127 CCACTTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (26 bp):
AGTTTAGCTTGGAGCCACATATGGAA
Found at i:11885910 original size:94 final size:94
Alignment explanation
Indices: 11885766--11886015 Score: 335
Period size: 94 Copynumber: 2.7 Consensus size: 94
11885756 GCCTATTCCT
* * * *
11885766 ATAATAAGAATTGTTGTTGT-GT-TGTTGTCATGGTCCTACTCTTATAGACCTTTCTTCTTGTTA
1 ATAATAATAATTGTTGTTGTCGTCT-TTGTCATGATTCTACTCTTATAGACCTTTCTTATTGTTA
* * *
11885829 TAACTCTTAAGTTTTGTACTTGTATCTTCA
65 TAACACTTAAGGTTTATACTTGTATCTTCA
*
11885859 ATAATAATAATTGTTGTTGTCGTCTTTGTCATGATTCTACTCTTATAGACCTTTCTTGTTGTTAT
1 ATAATAATAATTGTTGTTGTCGTCTTTGTCATGATTCTACTCTTATAGACCTTTCTTATTGTTAT
* *
11885924 AAGACTTAAGGTTTATATTTGTATCTTCA
66 AACACTTAAGGTTTATACTTGTATCTTCA
* * * *
11885953 ATAATAATAATTGTTGTTGTCGTCTTTGTCATCA-TCATACTCTTACAGAACTTTATTATTGTT
1 ATAATAATAATTGTTGTTGTCGTCTTTGTCATGATTC-TACTCTTATAGACCTTTCTTATTGTT
11886016 GTTGTGTCAT
Statistics
Matches: 140, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
93 21 0.15
94 118 0.84
95 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (94 bp):
ATAATAATAATTGTTGTTGTCGTCTTTGTCATGATTCTACTCTTATAGACCTTTCTTATTGTTAT
AACACTTAAGGTTTATACTTGTATCTTCA
Found at i:11886221 original size:18 final size:19
Alignment explanation
Indices: 11886200--11886241 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11886190 AAATAATAAT
11886200 AGAAAAACAAA-TT-TAAAA
1 AGAAAAA-AAATTTATAAAA
11886218 AGAAAAAAAATTTATAAAA
1 AGAAAAAAAATTTATAAAA
11886237 AGAAA
1 AGAAA
11886242 TGCATAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 10 0.45
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (19 bp):
AGAAAAAAAATTTATAAAA
Found at i:11886224 original size:19 final size:19
Alignment explanation
Indices: 11886200--11886241 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
11886190 AAATAATAAT
*
11886200 AGAAAAACAAATT-TAAAA
1 AGAAAAAAAAATTATAAAA
*
11886218 AGAAAAAAAATTTATAAAA
1 AGAAAAAAAAATTATAAAA
11886237 AGAAA
1 AGAAA
11886242 TGCATAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (19 bp):
AGAAAAAAAAATTATAAAA
Found at i:11888295 original size:3 final size:3
Alignment explanation
Indices: 11888289--11888317 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11888279 TAATATTATT
11888289 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
11888318 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:11895023 original size:17 final size:17
Alignment explanation
Indices: 11895001--11895034 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11894991 AAGCTTTGGT
11895001 TTTAAAGTGATTTCTAA
1 TTTAAAGTGATTTCTAA
11895018 TTTAAAGTGATTTCTAA
1 TTTAAAGTGATTTCTAA
11895035 CTCATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTAAAGTGATTTCTAA
Found at i:11896384 original size:24 final size:24
Alignment explanation
Indices: 11896357--11896428 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
11896347 GCAGATTATG
11896357 ATTGTTTGATAATTGGTCTGAATA
1 ATTGTTTGATAATTGGTCTGAATA
* *
11896381 ATTG-TAGACTAA-TGGAT-T--ATG
1 ATTGTTTGA-TAATTGG-TCTGAATA
11896402 ATTGTTTGATAATTGGTCTGAATA
1 ATTGTTTGATAATTGGTCTGAATA
11896426 ATT
1 ATT
11896429 TTTCGACTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
21 10 0.27
22 7 0.19
23 7 0.19
24 13 0.35
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (24 bp):
ATTGTTTGATAATTGGTCTGAATA
Found at i:11903873 original size:3 final size:3
Alignment explanation
Indices: 11903865--11904100 Score: 101
Period size: 3 Copynumber: 77.3 Consensus size: 3
11903855 ATTGCTTTGG
* * * * *
11903865 TTA TTA TTA TTA TTT TTA TTA TT- TTG TTA ATA ATA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
11903912 -CA CTA -TA TT- TTA TCTA TTTA TTGA TT- TCA TTA TTAA TCCA TTA
1 TTA TTA TTA TTA TTA T-TA -TTA TT-A TTA TTA TTA TT-A T-TA TTA
* * * * *
11903955 -TA TTA TCA TTA CTA ATA -TA TTC TTA TTA TTT TTA TTAA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
* * * * * * *
11904000 TTA TCTG TTGC TCTA CTTT TTA TTG CTA TTA TCA TTA CTA -TA TTTA
1 TTA T-TA TT-A T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
11904046 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
11904094 CTA TTA T
1 TTA TTA T
11904101 ATAGTAGTGT
Statistics
Matches: 178, Mismatches: 35, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
2 14 0.08
3 139 0.78
4 21 0.12
5 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:11904439 original size:3 final size:3
Alignment explanation
Indices: 11904433--11904498 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
11904423 TTATTTAATG
* * * * *
11904433 TAT TAT TTT TAT TAC TAT CAA TAT TAT TAT TA- TAT TGT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11904479 CTAT TA- TAT TAT T-T TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT
11904499 CTTTACCTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
2 7 0.15
3 40 0.83
4 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11917833 original size:25 final size:27
Alignment explanation
Indices: 11917796--11917848 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11917786 TCAAACATGC
11917796 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11917822 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11917848 A
1 A
11917849 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11919361 original size:26 final size:26
Alignment explanation
Indices: 11919325--11919458 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
11919315 CATGAAATTC
11919325 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11919351 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11919377 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11919403 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11919427 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11919453 TTATCA
1 TTATCA
11919459 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
24 10 0.10
25 26 0.25
26 66 0.65
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11919449 original size:50 final size:52
Alignment explanation
Indices: 11919325--11919458 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
11919315 CATGAAATTC
* *
11919325 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
11919377 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
11919427 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
11919459 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 35 0.44
51 13 0.16
52 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:11923570 original size:21 final size:21
Alignment explanation
Indices: 11923546--11923585 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11923536 CCCAATCCAT
11923546 GCAT-CAGATAATAACAACATG
1 GCATGCAGA-AATAACAACATG
*
11923567 GCATGCATAAATAACAACA
1 GCATGCAGAAATAACAACA
11923586 GTCAAACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.17
Consensus pattern (21 bp):
GCATGCAGAAATAACAACATG
Found at i:11923643 original size:26 final size:26
Alignment explanation
Indices: 11923597--11923649 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11923587 TCAAACATGC
*
11923597 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
11923623 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
11923649 A
1 A
11923650 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:11925170 original size:26 final size:26
Alignment explanation
Indices: 11925134--11925217 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
11925124 CATGAAATTC
11925134 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
11925160 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
11925186 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
11925212 TTATCA
1 TTATCA
11925218 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:11928038 original size:22 final size:22
Alignment explanation
Indices: 11928010--11928123 Score: 67
Period size: 22 Copynumber: 5.1 Consensus size: 22
11928000 TCTGTTGGGA
*
11928010 TTAGGTTTTTTA-GGGTTAGGG
1 TTAGGGTTTTTATGGGTTAGGG
*
11928031 TTAGGGTTTTTATGGTTTAGGG
1 TTAGGGTTTTTATGGGTTAGGG
* * *
11928053 TTTTTTGGGTTAAGGTTA--GGAT-GGG
1 ---TTAGGGTT---TTTATGGGTTAGGG
* *
11928078 TTAAGGTTTTTATGGTTTAGGG
1 TTAGGGTTTTTATGGGTTAGGG
11928100 TTAGGGTTTTTA-GGGTTTAGGG
1 TTAGGGTTTTTATGGG-TTAGGG
11928122 TT
1 TT
11928124 TTTGTAAGGG
Statistics
Matches: 69, Mismatches: 13, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
19 3 0.04
21 15 0.22
22 36 0.52
25 10 0.14
26 2 0.03
28 3 0.04
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTTTATGGGTTAGGG
Found at i:11928050 original size:16 final size:16
Alignment explanation
Indices: 11928028--11928101 Score: 78
Period size: 16 Copynumber: 4.7 Consensus size: 16
11928018 TTTAGGGTTA
11928028 GGGTTAGGGTTTTTAT
1 GGGTTAGGGTTTTTAT
*
11928044 GGTTTAGGGTTTTT-T
1 GGGTTAGGGTTTTTAT
* ***
11928059 GGGTTAAGGTTAGGAT
1 GGGTTAGGGTTTTTAT
*
11928075 GGGTTAAGGTTTTTAT
1 GGGTTAGGGTTTTTAT
*
11928091 GGTTTAGGGTT
1 GGGTTAGGGTT
11928102 AGGGTTTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
15 10 0.22
16 36 0.78
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (16 bp):
GGGTTAGGGTTTTTAT
Found at i:11928086 original size:31 final size:32
Alignment explanation
Indices: 11928042--11928104 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
11928032 TAGGGTTTTT
* *
11928042 ATGGTTTAGGGTTTTT-TGGGTTAAGGTTAGG
1 ATGGGTTAAGGTTTTTATGGGTTAAGGTTAGG
* *
11928073 ATGGGTTAAGGTTTTTATGGTTTAGGGTTAGG
1 ATGGGTTAAGGTTTTTATGGGTTAAGGTTAGG
11928105 GTTTTTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.44
Consensus pattern (32 bp):
ATGGGTTAAGGTTTTTATGGGTTAAGGTTAGG
Found at i:11928111 original size:15 final size:16
Alignment explanation
Indices: 11928093--11928126 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11928083 GTTTTTATGG
11928093 TTTAGGG-TTAGGGTT
1 TTTAGGGTTTAGGGTT
11928108 TTTAGGGTTTAGGGTT
1 TTTAGGGTTTAGGGTT
11928124 TTT
1 TTT
11928127 GTAAGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (16 bp):
TTTAGGGTTTAGGGTT
Found at i:11928117 original size:31 final size:31
Alignment explanation
Indices: 11928042--11928117 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
11928032 TAGGGTTTTT
11928042 ATGGTTTAGGGTTTTTTGGGTTAAGGTTAGG
1 ATGGTTTAGGGTTTTTTGGGTTAAGGTTAGG
* * * *
11928073 ATGGGTTAAGGTTTTTATGGTTTAGGGTTAGG
1 ATGGTTTAGGGTTTTT-TGGGTTAAGGTTAGG
* *
11928105 GT-TTTTAGGGTTT
1 ATGGTTTAGGGTTT
11928118 AGGGTTTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
31 22 0.61
32 14 0.39
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (31 bp):
ATGGTTTAGGGTTTTTTGGGTTAAGGTTAGG
Found at i:11928169 original size:26 final size:26
Alignment explanation
Indices: 11928139--11928202 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
11928129 AAGGGTTTAG
11928139 TTAATTAAATTAGGGCGTAAGATTAA
1 TTAATTAAATTAGGGCGTAAGATTAA
*
11928165 TTAATTAAATTAGGGTGTAAGATTAA
1 TTAATTAAATTAGGGCGTAAGATTAA
11928191 TTAATTAAATTA
1 TTAATTAAATTA
11928203 AATATTAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.39
Consensus pattern (26 bp):
TTAATTAAATTAGGGCGTAAGATTAA
Found at i:11928225 original size:16 final size:17
Alignment explanation
Indices: 11928186--11928226 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
11928176 AGGGTGTAAG
11928186 ATTAATTAATTAAATTAA
1 ATTAATTAATTAAA-TAA
11928204 A-T-ATTAATTAAA-AA
1 ATTAATTAATTAAATAA
11928218 ATTAATTAA
1 ATTAATTAA
11928227 ATTTGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 15 0.71
17 1 0.05
18 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATTAATTAAATAA
Found at i:11928552 original size:126 final size:126
Alignment explanation
Indices: 11928332--11928720 Score: 469
Period size: 126 Copynumber: 3.1 Consensus size: 126
11928322 TTTTGGTTTT
* * * * * * *
11928332 TTTTTCTTCAGTAGTATCT-AGAAAAAAAATTTTAAGAAAA-GTTTCTGAAGAAATAGTATCCAA
1 TTTTTCTACAGTGGTATCTAAG-AAAATAATTTTGAGAAAACGTTTCTGAAAAAATAGTGTCAAA
* * * * * *
11928395 AACGCTTCAAGCAGGATGTACTGTCAGCAAAATTACTGAAAAATGCTCTCATGTGGACGTTT
65 AACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
* *
11928457 TTTTTCTACAGTGGTATCTAAGAAAATAATTTTGAGAAAACGTTTTTGAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTGGTATCTAAGAAAATAATTTTGAGAAAACGTTTCTGAAAAAATAGTGTCAAAA
* * *
11928522 ACGCTTTAAGCAATATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTC
66 ACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
** * ** * *
11928583 TTTTGATACAGTGGTATCTGAA-AAAATAATTGTGAGATGACCTTTCTGAACAAATAGTGTCAAA
1 TTTTTCTACAGTGGTATCT-AAGAAAATAATTTTGAGAAAACGTTTCTGAAAAAATAGTGTCAAA
* * * * *
11928647 AACACTTCATGCAGTTTGCACTTTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
11928709 TTTTTCTACAGT
1 TTTTTCTACAGT
11928721 AGTTCCTATT
Statistics
Matches: 224, Mismatches: 37, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
125 33 0.15
126 189 0.84
127 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTGGTATCTAAGAAAATAATTTTGAGAAAACGTTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
Found at i:11931843 original size:27 final size:27
Alignment explanation
Indices: 11931803--11931900 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
11931793 CTTTTATTCT
11931803 ATTACAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
* * *
11931830 ATTA-AAATACTAAAA-A-CAACTTTTATTTT
1 ATTACAAATA-TAAAAGAGTAA--ATTA--TA
*
11931859 ATTATAAATATAAAAGAGTAAATTATA
1 ATTACAAATATAAAAGAGTAAATTATA
11931886 ATTA-AAATATTAAAA
1 ATTACAAATA-TAAAA
11931901 ACAATTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 2 0.04
26 11 0.20
27 22 0.39
29 13 0.23
30 6 0.11
31 2 0.04
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (27 bp):
ATTACAAATATAAAAGAGTAAATTATA
Found at i:11931853 original size:56 final size:56
Alignment explanation
Indices: 11931786--11931918 Score: 230
Period size: 56 Copynumber: 2.4 Consensus size: 56
11931776 TTCTTTATTC
*
11931786 AAAACAACTTTTATTCTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
* *
11931842 AAAACAACTTTTATTTTATTATAAATATAAAAGAGTAAATTATAATTAAAATATTA
1 AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
*
11931898 AAAACAATTTTTATTTTATTA
1 AAAACAACTTTTATTTTATTA
11931919 AATGAAAGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (56 bp):
AAAACAACTTTTATTTTATTACAAATATAAAAGAGTAAATTATAATTAAAATACTA
Found at i:11932359 original size:18 final size:18
Alignment explanation
Indices: 11932338--11932372 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11932328 AAAAGGAAAC
*
11932338 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
11932356 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
11932373 CGCACCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:11933000 original size:7 final size:7
Alignment explanation
Indices: 11932990--11933050 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
11932980 TTGTATACAT
11932990 AATACTA
1 AATACTA
11932997 AATACTA
1 AATACTA
*
11933004 AGTACTA
1 AATACTA
11933011 AATACTA
1 AATACTA
11933018 AATACTA
1 AATACTA
*
11933025 AATATTA
1 AATACTA
* *
11933032 TATATTA
1 AATACTA
11933039 AATACTA
1 AATACTA
11933046 AATAC
1 AATAC
11933051 GAAACGATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (7 bp):
AATACTA
Found at i:11934085 original size:47 final size:48
Alignment explanation
Indices: 11933996--11934092 Score: 151
Period size: 47 Copynumber: 2.0 Consensus size: 48
11933986 ATAAAATTAA
**
11933996 AATTAAAATTGCATAAATGAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAATATTAAATACTATTGAAAAATT
* *
11934044 AATTAAAATTGCATAAAT-TAAAAAATATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAATATTAAATACTATTGAAAAATT
11934091 AA
1 AA
11934093 AATTATCACT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 27 0.60
48 18 0.40
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (48 bp):
AATTAAAATTGCATAAATGAAAAAAATATTAAATACTATTGAAAAATT
Found at i:11934270 original size:22 final size:21
Alignment explanation
Indices: 11934249--11934304 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
11934239 AGCTTTGAGA
11934249 AAATTTGAGAGAATATGGGAG
1 AAATTTGAGAGAATATGGGAG
* * *
11934270 -AATTTGACAGAATTTTTGGA-
1 AAATTTGAGAGAA-TATGGGAG
11934290 AGAATTTGAGAGAAT
1 A-AATTTGAGAGAAT
11934305 TTGGATAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 11 0.39
21 6 0.21
22 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.30
Consensus pattern (21 bp):
AAATTTGAGAGAATATGGGAG
Found at i:11934305 original size:22 final size:22
Alignment explanation
Indices: 11934242--11934306 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
11934232 TAAAGAGAGC
11934242 TTTGAGAA-AATTTGAGAGAA--
1 TTTG-GAAGAATTTGAGAGAATT
* * *
11934262 TATGGGAGAATTTGACAGAATT
1 TTTGGAAGAATTTGAGAGAATT
11934284 TTTGGAAGAATTTGAGAGAATT
1 TTTGGAAGAATTTGAGAGAATT
11934306 T
1 T
11934307 GGATAGGAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.06
20 14 0.39
22 20 0.56
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (22 bp):
TTTGGAAGAATTTGAGAGAATT
Found at i:11939932 original size:62 final size:62
Alignment explanation
Indices: 11939807--11940007 Score: 253
Period size: 62 Copynumber: 3.2 Consensus size: 62
11939797 TATACGGCCG
* * * * *
11939807 TGTGT-TAGGCCGTGTAACTCATTGTTTTAGATTTAGGGTCACATGAACTAGGGACACAAGCA
1 TGTGTCTAGGCCGTGTAACTCACTGTTTTGGATTTAGGGTTACACG-GCTAGGGACACAAGCA
* * * *
11939869 TGTGTCTAGGCCATGTAACTCACTATTTTGGATTTAGGGTTATACGGCTAGGGACACATGCA
1 TGTGTCTAGGCCGTGTAACTCACTGTTTTGGATTTAGGGTTACACGGCTAGGGACACAAGCA
* * *
11939931 TGTGTCTAGGCCGTGTAACTCACTGTTTTGGATTTAGGGTTACACAGGCCAGGGACCCAA-CTG
1 TGTGTCTAGGCCGTGTAACTCACTGTTTTGGATTTAGGGTTACAC-GGCTAGGGACACAAGC-A
11939994 TGTGTCTAGGCCGT
1 TGTGTCTAGGCCGT
11940008 ATGATGGGTT
Statistics
Matches: 120, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
62 62 0.52
63 58 0.48
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (62 bp):
TGTGTCTAGGCCGTGTAACTCACTGTTTTGGATTTAGGGTTACACGGCTAGGGACACAAGCA
Found at i:11948773 original size:46 final size:47
Alignment explanation
Indices: 11948593--11948774 Score: 119
Period size: 46 Copynumber: 3.9 Consensus size: 47
11948583 ATTTGTGTGC
* * ** * *
11948593 TAGTGTAAGATATGTCTAGGACACGCATCAACCAC-ATTATG-AGAG-
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GATGTAGAGA
* *
11948638 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACG-AGAGA
1 T-AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGATGTAGAGA
* * * * * *
11948687 TAGTATAAGACATATCTGGGACATGCATTGACCT-CTAGATGTA-AGCA
1 TAGTGTAAGACATGTCTAGGACATGCATCG-GCTACGAGATGTAGAG-A
11948734 -AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGT
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGT
11948775 GTTCATGTAA
Statistics
Matches: 105, Mismatches: 21, Indels: 21
0.71 0.14 0.14
Matches are distributed among these distances:
45 3 0.03
46 52 0.50
47 28 0.27
48 20 0.19
49 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (47 bp):
TAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTAGAGA
Found at i:11957562 original size:24 final size:24
Alignment explanation
Indices: 11957534--11957581 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
11957524 ATGTGACATC
11957534 GCCTGATCTGGTCATAACATCCAG
1 GCCTGATCTGGTCATAACATCCAG
*
11957558 GCCTGATCTGGTCATAACGTCCAG
1 GCCTGATCTGGTCATAACATCCAG
11957582 TCAAATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (24 bp):
GCCTGATCTGGTCATAACATCCAG
Found at i:11958579 original size:37 final size:37
Alignment explanation
Indices: 11958476--11958601 Score: 112
Period size: 37 Copynumber: 3.4 Consensus size: 37
11958466 TATTCAATGG
* *
11958476 ATAATACTCGGTTGAGC-TTACTCGACATATCAGTAA
1 ATAACACTCGGTTGAGCTTTACTCGATATATCAGTAA
* * * * *
11958512 ATAACTCTCAGTTGAGCTTTATTC-AGTATATTAGTAG
1 ATAACACTCGGTTGAGCTTTACTCGA-TATATCAGTAA
* * **
11958549 ATATCACTCGGTTGAGCTTTAGTCGATATATCAACAA
1 ATAACACTCGGTTGAGCTTTACTCGATATATCAGTAA
* *
11958586 GTAACACTCAGTTGAG
1 ATAACACTCGGTTGAG
11958602 TAACATTCAG
Statistics
Matches: 69, Mismatches: 18, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
36 15 0.22
37 53 0.77
38 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (37 bp):
ATAACACTCGGTTGAGCTTTACTCGATATATCAGTAA
Found at i:11965242 original size:12 final size:12
Alignment explanation
Indices: 11965214--11965250 Score: 56
Period size: 12 Copynumber: 2.9 Consensus size: 12
11965204 TTTTTTTAAT
11965214 TTTTATTATCATTA
1 TTTTATTAT--TTA
11965228 TTTTATTATTTA
1 TTTTATTATTTA
11965240 TTTTATTATTT
1 TTTTATTATTT
11965251 CCTGCACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 14 0.61
14 9 0.39
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:11969623 original size:22 final size:21
Alignment explanation
Indices: 11969588--11969663 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 21
11969578 AAAAGATATC
* *
11969588 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCTCCAAGAT
*
11969609 TACAAAATCATATCTTCAAGAT
1 TAC-AAATCATATCTCCAAGAT
* *
11969631 TGCATATCATATCT--AAGAT
1 TACAAATCATATCTCCAAGAT
* *
11969650 TGCATATCATATCT
1 TACAAATCATATCT
11969664 AAGATTGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 19 0.39
21 13 0.27
22 17 0.35
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:11969650 original size:19 final size:19
Alignment explanation
Indices: 11969615--11969712 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
11969605 AGATTACAAA
11969615 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
11969636 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11969655 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
11969672 ATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11969691 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11969710 ATC
1 ATC
11969713 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:11969684 original size:36 final size:37
Alignment explanation
Indices: 11969615--11969712 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
11969605 AGATTACAAA
11969615 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
11969655 ATCATATCTAAGATTG-TATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
11969691 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
11969713 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:11971688 original size:2 final size:2
Alignment explanation
Indices: 11971681--11971730 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
11971671 GATTGACATA
11971681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11971723 AT AT AT AT
1 AT AT AT AT
11971731 CAGCAAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11978364 original size:43 final size:43
Alignment explanation
Indices: 11978316--11978474 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
11978306 AGGTCGTACA
11978316 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * * ***
11978359 ATGCC-ACTATCCCAGATAG-GGTTTTACACAAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACATGTAATCAAATATCG
** * * *
11978401 ATGCCAACGTCTTAGATGTGGTTTTACATGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
*
11978445 ATGCCAATGTCCCAGACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG
11978475 ATCACACATA
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
41 1 0.01
42 23 0.26
43 36 0.40
44 30 0.33
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:11980367 original size:27 final size:28
Alignment explanation
Indices: 11980330--11980469 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
11980320 AGCATGGCTG
* *
11980330 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
11980356 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
11980384 CCATA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
11980411 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
11980438 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
11980465 CCAGA
1 CCAGA
11980470 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 83 0.80
28 16 0.15
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:11982152 original size:26 final size:26
Alignment explanation
Indices: 11982083--11982216 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
11982073 CATGAAATTC
* *
11982083 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
11982109 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
11982134 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
11982160 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
11982186 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
11982211 TTATCA
1 TTATCA
11982217 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
25 48 0.46
26 57 0.54
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:11982163 original size:51 final size:52
Alignment explanation
Indices: 11982083--11982216 Score: 227
Period size: 51 Copynumber: 2.6 Consensus size: 52
11982073 CATGAAATTC
* *
11982083 TTATCATGAAACATTTACCTAACCCATTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCCA
*
11982134 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCCA
11982186 TTATCAT-GAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
11982217 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
51 55 0.70
52 24 0.30
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCCA
Found at i:11982227 original size:10 final size:10
Alignment explanation
Indices: 11982212--11982243 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
11982202 CCTAACCTAT
11982212 TATCAATTTG
1 TATCAATTTG
11982222 TATCAATTTG
1 TATCAATTTG
11982232 TATCAATTTG
1 TATCAATTTG
11982242 TA
1 TA
11982244 CCATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.50
Consensus pattern (10 bp):
TATCAATTTG
Found at i:11985539 original size:25 final size:27
Alignment explanation
Indices: 11985502--11985554 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11985492 TCAAACATGC
11985502 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11985528 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11985554 A
1 A
11985555 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11987070 original size:26 final size:26
Alignment explanation
Indices: 11987034--11987143 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
11987024 CATGAAATTC
11987034 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11987060 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11987086 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
11987112 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11987138 TTATCA
1 TTATCA
11987144 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11993817 original size:26 final size:25
Alignment explanation
Indices: 11993731--11993863 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 25
11993721 TGATACAAAT
*
11993731 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
11993756 TGA-AATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
*
11993780 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
11993806 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
11993832 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
11993858 TGATAA
1 TGATAA
11993864 GAATTTCATG
Statistics
Matches: 102, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
24 23 0.23
25 21 0.21
26 56 0.55
27 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:11995370 original size:26 final size:26
Alignment explanation
Indices: 11995341--11995393 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11995331 TTTACAGTTT
11995341 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
11995367 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
11995393 T
1 T
11995394 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:11999628 original size:26 final size:26
Alignment explanation
Indices: 11999541--11999674 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
11999531 TGATACAAAT
11999541 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11999567 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
11999591 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11999617 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11999643 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11999669 TGATAA
1 TGATAA
11999675 GAATTTCATG
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 9 0.09
25 30 0.29
26 65 0.62
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:12001198 original size:25 final size:25
Alignment explanation
Indices: 12001150--12001198 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
12001140 ACAGTTTTAC
12001150 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
12001175 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
12001199 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:12003376 original size:33 final size:33
Alignment explanation
Indices: 12003314--12003481 Score: 180
Period size: 33 Copynumber: 5.1 Consensus size: 33
12003304 TATCTTCAGC
* *
12003314 CCACCATCA-TACTCCACTCCTTCCGGCTCGTAT
1 CCACCA-CAGTACTCCGCTCCTTCCAGCTCGTAT
* * *
12003347 CCACTACAGTACTCTGCTCTTTCCAGCTCGTAT
1 CCACCACAGTACTCCGCTCCTTCCAGCTCGTAT
*
12003380 CCACCACCA-TACTCCGCTCCTTCTAGCTCGTAT
1 CCACCA-CAGTACTCCGCTCCTTCCAGCTCGTAT
* * *
12003413 CCACCACCGTACTCCGCTCCTTCTAGCTCATAT
1 CCACCACAGTACTCCGCTCCTTCCAGCTCGTAT
* **
12003446 CCACCACCA-TACTTCGCTCCTTCTGGCTCGTAT
1 CCACCA-CAGTACTCCGCTCCTTCCAGCTCGTAT
12003479 CCA
1 CCA
12003482 TCGACATTCT
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.03
33 110 0.95
34 3 0.03
ACGTcount: A:0.18, C:0.43, G:0.10, T:0.29
Consensus pattern (33 bp):
CCACCACAGTACTCCGCTCCTTCCAGCTCGTAT
Found at i:12003392 original size:66 final size:66
Alignment explanation
Indices: 12003314--12003532 Score: 242
Period size: 66 Copynumber: 3.3 Consensus size: 66
12003304 TATCTTCAGC
* * * *
12003314 CCACCATCATACTCCACTCCTTCCGGCTCGTATCCACTACAGTACTCTGCTCTTTCCAGCTCGTA
1 CCACCACCATACTCCACTCCTTCTGGCTCGTATCCACCACAGTACTCTGCTCCTTCCAGCTCGTA
12003379 T
66 T
* * * * * *
12003380 CCACCACCATACTCCGCTCCTTCTAGCTCGTATCCACCACCGTACTCCGCTCCTTCTAGCTCATA
1 CCACCACCATACTCCACTCCTTCTGGCTCGTATCCACCACAGTACTCTGCTCCTTCCAGCTCGTA
12003445 T
66 T
* * * * * * * *
12003446 CCACCACCATACTTCGCTCCTTCTGGCTCGTATCCATCGACA-TTCTCTACTCCTCCCGGCTTGT
1 CCACCACCATACTCCACTCCTTCTGGCTCGTATCCA-CCACAGTACTCTGCTCCTTCCAGCTCGT
12003510 AT
65 AT
* *
12003512 CCATCACCATACTCTACTCCT
1 CCACCACCATACTCCACTCCT
12003533 CCAGAGTCGT
Statistics
Matches: 126, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
66 123 0.98
67 3 0.02
ACGTcount: A:0.18, C:0.43, G:0.10, T:0.30
Consensus pattern (66 bp):
CCACCACCATACTCCACTCCTTCTGGCTCGTATCCACCACAGTACTCTGCTCCTTCCAGCTCGTA
T
Found at i:12003499 original size:33 final size:33
Alignment explanation
Indices: 12003321--12003534 Score: 130
Period size: 33 Copynumber: 6.5 Consensus size: 33
12003311 AGCCCACCAT
* *
12003321 CATACTCCACTCCTTCCGGCTCGTATCCA-CTA-
1 CATACTCTACTCCTCCCGGCTCGTATCCATC-AC
* * * * *
12003353 CAGTACTCTGCTCTTTCCAGCTCGTATCCACCAC
1 CA-TACTCTACTCCTCCCGGCTCGTATCCATCAC
** * ** *
12003387 CATACTCCGCTCCTTCTAGCTCGTATCCACCAC
1 CATACTCTACTCCTCCCGGCTCGTATCCATCAC
* ** * ** * *
12003420 CGTACTCCGCTCCTTCTAGCTCATATCCACCAC
1 CATACTCTACTCCTCCCGGCTCGTATCCATCAC
* * *
12003453 CATACT-TCGCTCCTTCTGGCTCGTATCCATCGA-
1 CATACTCT-ACTCCTCCCGGCTCGTATCCATC-AC
* *
12003486 CATTCTCTACTCCTCCCGGCTTGTATCCATCAC
1 CATACTCTACTCCTCCCGGCTCGTATCCATCAC
12003519 CATACTCTACTCCTCC
1 CATACTCTACTCCTCC
12003535 AGAGTCGTAT
Statistics
Matches: 155, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
32 3 0.02
33 147 0.95
34 5 0.03
ACGTcount: A:0.17, C:0.43, G:0.10, T:0.30
Consensus pattern (33 bp):
CATACTCTACTCCTCCCGGCTCGTATCCATCAC
Found at i:12003545 original size:33 final size:33
Alignment explanation
Indices: 12003470--12003545 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
12003460 CGCTCCTTCT
* *
12003470 GGCTCGTATCCATCGACATTCTCTACTCCTCCC
1 GGCTCGTATCCATCGACATACTCTACTCCTCCA
*
12003503 GGCTTGTATCCATC-ACCATACTCTACTCCTCCA
1 GGCTCGTATCCATCGA-CATACTCTACTCCTCCA
12003536 GAG-TCGTATC
1 G-GCTCGTATC
12003546 TACCGTCGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 1 0.03
33 35 0.95
34 1 0.03
ACGTcount: A:0.18, C:0.38, G:0.13, T:0.30
Consensus pattern (33 bp):
GGCTCGTATCCATCGACATACTCTACTCCTCCA
Found at i:12005025 original size:38 final size:38
Alignment explanation
Indices: 12004856--12005016 Score: 198
Period size: 38 Copynumber: 4.2 Consensus size: 38
12004846 GAATCCAGTC
* * *
12004856 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CTCGGATATAAT
* *
12004896 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
* * *
12004934 ACCAGCACGAAGCTTGCGGGATTTAGC-CTGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACTC-GGATATAAT
*
12004972 ACCAGAACGAAGCCTGCGGGATTTAACTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
*
12005010 TCCAGCA
1 ACCAGCA
12005017 TATAGCCTGT
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 79 0.75
39 6 0.06
40 19 0.18
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
Done.