Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 153 of 206
Found at i:46366693 original size:14 final size:14
Alignment explanation
Indices: 46366642--46366690 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
46366632 TTAGCCTCTC
46366642 CATTTTT-ACTTTTT
1 CATTTTTCA-TTTTT
46366656 CCATTTTTCATTTTT
1 -CATTTTTCATTTTT
46366671 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
46366684 CATTTTT
1 CATTTTT
46366691 TCACATCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.33
14 9 0.27
15 12 0.36
16 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:46367245 original size:7 final size:7
Alignment explanation
Indices: 46367208--46367284 Score: 54
Period size: 7 Copynumber: 10.4 Consensus size: 7
46367198 AGGTTTTTTG
46367208 TTTCTTT
1 TTTCTTT
46367215 TTGT-TTT
1 TT-TCTTT
46367222 TATT-TTT
1 T-TTCTTT
46367229 TATTCTTT
1 T-TTCTTT
46367237 TTT-TCTT
1 TTTCT-TT
46367244 TTTCTTCT
1 TTTCTT-T
46367252 TCTTCTTT
1 T-TTCTTT
46367260 TTT-TTCCT
1 TTTCTT--T
46367268 TTTCTTT
1 TTTCTTT
46367275 TTTCTTT
1 TTTCTTT
46367282 TTT
1 TTT
46367285 TTGTCTATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
6 3 0.05
7 35 0.58
8 15 0.25
9 7 0.12
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:46367247 original size:6 final size:6
Alignment explanation
Indices: 46367208--46367283 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
46367198 AGGTTTTTTG
* * *
46367208 TTTCTT TTTGTT TTTATT TTT-TAT TCTT-TT TTTCTT TTTCTT CTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCT-T T-TTCTT TTTCTT TTTCTT TTTCTT
*
46367256 CTTT-TT TTTCCT TTTCTTT TTTCTT TTT
1 -TTTCTT TTTCTT TTTC-TT TTTCTT TTT
46367284 TTTGTCTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
5 6 0.10
6 42 0.72
7 10 0.17
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:46367277 original size:15 final size:14
Alignment explanation
Indices: 46367237--46367277 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
46367227 TTTATTCTTT
*
46367237 TTTTCTTTTTCTTC
1 TTTTCTTTTTTTTC
46367251 TTCTTCTTTTTTTTCC
1 TT-TTCTTTTTTTT-C
46367267 TTTTCTTTTTT
1 TTTTCTTTTTT
46367278 CTTTTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 2 0.08
15 19 0.79
16 3 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:46368046 original size:4 final size:4
Alignment explanation
Indices: 46368037--46368064 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
46368027 CAACATGATT
46368037 ATGA ATGA ATGA ATGA ATGA ATGA ATGA
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA
46368065 TTTAGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
ATGA
Found at i:46373753 original size:127 final size:125
Alignment explanation
Indices: 46373317--46373881 Score: 767
Period size: 126 Copynumber: 4.5 Consensus size: 125
46373307 CCCAAACATG
* * *
46373317 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCATAAATTCTTCTCATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGC
* * * * * *
46373382 TAGAAGCG-ATTTTATACTGTTTGCTCAAAAACGTCAAGTCGAAATTATTTTTCCAAGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * *
46373441 CTACTGTAGCAAAAGCGCGTCTACAAGGGTGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAA-AGCATCCTG
* * * *
46373505 CTTGCAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTT-TTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * *
46373567 CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGC
* *
46373632 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCTAGGAC
66 TTGAAGCG-TTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * *
46373694 CAACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCAAAAATTTTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGC
46373759 TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * *
46373819 CTACTGTAGCAAAAGCGTGTACACGTA-GGCGCAACTTCAAAAATCCTTCTGATAAATCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACG-AGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCT
46373882 CCTTTGATTT
Statistics
Matches: 393, Mismatches: 41, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
123 2 0.01
124 64 0.16
125 59 0.15
126 191 0.49
127 77 0.20
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:46374022 original size:8 final size:9
Alignment explanation
Indices: 46374001--46374038 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
46373991 TTTTTTCTCC
*
46374001 AAAAACCCT
1 AAAAATCCT
46374010 AAAAATCCT
1 AAAAATCCT
*
46374019 AAAAACCCT
1 AAAAATCCT
46374028 AAAAATCCT
1 AAAAATCCT
46374037 AA
1 AA
46374039 CCTGGGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAATCCT
Found at i:46374024 original size:18 final size:18
Alignment explanation
Indices: 46374001--46374038 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
46373991 TTTTTTCTCC
46374001 AAAAACCCTAAAAATCCT
1 AAAAACCCTAAAAATCCT
46374019 AAAAACCCTAAAAATCCT
1 AAAAACCCTAAAAATCCT
46374037 AA
1 AA
46374039 CCTGGGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAACCCTAAAAATCCT
Found at i:46374173 original size:40 final size:40
Alignment explanation
Indices: 46374129--46374205 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
46374119 ACGTGGACAC
* *
46374129 AAACCGCGCTTACGTGGACGCGATTTGCTACCACGTCAGT
1 AAACCGCGCTGACGTGGACGCGATTTGCTAACACGTCAGT
*
46374169 AAACCGTGCTGACGTGGACGCGATTTGCTAACACGTC
1 AAACCGCGCTGACGTGGACGCGATTTGCTAACACGTC
46374206 TCCTGACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (40 bp):
AAACCGCGCTGACGTGGACGCGATTTGCTAACACGTCAGT
Found at i:46374646 original size:27 final size:26
Alignment explanation
Indices: 46374608--46374669 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 26
46374598 GTTCTAATTG
46374608 AATATAATATAATATTTTT-ATGCTTAT
1 AATATAATATAATATTTTTCAT--TTAT
46374635 AATATAATATAATATTTTTCATTTAT
1 AATATAATATAATATTTTTCATTTAT
46374661 AATATAATA
1 AATATAATA
46374670 CTCTTATAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 13 0.38
27 19 0.56
28 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (26 bp):
AATATAATATAATATTTTTCATTTAT
Found at i:46375011 original size:5 final size:5
Alignment explanation
Indices: 46375001--46375029 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
46374991 TATTAATATT
46375001 TAATA TAATA TAATA TAATA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAATA TAAT
46375030 TATTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:46375034 original size:33 final size:34
Alignment explanation
Indices: 46374963--46375034 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
46374953 GTTTTATTTC
* * *
46374963 TTATTTAATATAATATAATTTTAATGTGTATTAA
1 TTATTTAATATAATATAATTATAATATATATTAA
46374997 -TATTTAATATAATATAA-TATAATATA-ATATAA
1 TTATTTAATATAATATAATTATAATATATAT-TAA
46375029 TTATTT
1 TTATTT
46375035 TTAATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
31 2 0.06
32 9 0.27
33 22 0.67
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (34 bp):
TTATTTAATATAATATAATTATAATATATATTAA
Found at i:46380131 original size:4 final size:4
Alignment explanation
Indices: 46380122--46380178 Score: 114
Period size: 4 Copynumber: 14.2 Consensus size: 4
46380112 ACAATTTCAT
46380122 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
46380170 TATG TATG T
1 TATG TATG T
46380179 TTTTCAAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:46383053 original size:22 final size:22
Alignment explanation
Indices: 46383009--46383053 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46382999 CATAATAATA
*
46383009 TATATAAATATATATATTTTAT
1 TATATAAATACATATATTTTAT
*
46383031 TATATAATTACATAT-TTATTAT
1 TATATAAATACATATATT-TTAT
46383053 T
1 T
46383054 TTATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATAAATACATATATTTTAT
Found at i:46385583 original size:6 final size:6
Alignment explanation
Indices: 46385572--46385597 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46385562 AAAGGACTTG
46385572 TCCTTC TCCTTC TCCTTC TCCTTC TC
1 TCCTTC TCCTTC TCCTTC TCCTTC TC
46385598 ATACACGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTTC
Found at i:46393869 original size:21 final size:21
Alignment explanation
Indices: 46393844--46393891 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
46393834 TTAACACCGA
46393844 CAACCAG-ATCCCCTACCGGAG
1 CAACCAGAATCCCC-ACCGGAG
* *
46393865 GAACCAGAATCCCCGCCGGAG
1 CAACCAGAATCCCCACCGGAG
46393886 CAACCA
1 CAACCA
46393892 CAACCCTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.31, C:0.42, G:0.21, T:0.06
Consensus pattern (21 bp):
CAACCAGAATCCCCACCGGAG
Found at i:46393903 original size:21 final size:22
Alignment explanation
Indices: 46393854--46393905 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
46393844 CAACCAGATC
* *
46393854 CCCTA-CCGGAGGAACCAGAAT
1 CCCTAGCCGGAGCAACCACAAT
*
46393875 CCC-CGCCGGAGCAACCACAA-
1 CCCTAGCCGGAGCAACCACAAT
46393895 CCCTAGCCGGA
1 CCCTAGCCGGA
46393906 AGCTGGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.29, C:0.42, G:0.23, T:0.06
Consensus pattern (22 bp):
CCCTAGCCGGAGCAACCACAAT
Found at i:46396723 original size:252 final size:256
Alignment explanation
Indices: 46396337--46396851 Score: 621
Period size: 252 Copynumber: 2.0 Consensus size: 256
46396327 AATAAAAAGA
* * * *
46396337 AAAAACCATCGTGTGAATAGTTAAAAATTATCAAGTGGAATTAATTTATTGCTAATTCATGTATA
1 AAAAATCATCATGTGAATAGTTAAAAATTATCAAGTGAAATTAATTTATTGCTAATTCAGGTATA
* * * * * *
46396402 AAAATGTATGAAAAAAAATAAGGTTAAAATATGTTTTAAGTCTCTTTACTTTTTATACATTTAAA
66 AAAATGCATGAAAAAAAATAAGGTTAAAATATGCTTCAAGGCTCATTACTTTTTATACAGTTAAA
* ** * *
46396467 ATTTAG-TCTATTTTACTAATTTCAAAATTCATGTCCA-ATTGTTAATACCGTTAAAATTCTTCT
131 ATTTAGCTCTATTTTACTAATTTCAAAATTCAAGT-CATATTACTAACACCGTTAAAATGCTTCT
* *
46396530 ATT-AAATT-CACATGTAACATTTTGAAGT-AAAAATATACTCAACCAATAGCCATATGATG
195 ATTCAAATTACACATGTAACATTTTGAAGTAAAAAAAATACTCAACCAATAGCCATATAATG
* * * ** *
46396589 GAAAATCATCATGTGAATGGTTAAAAGTTATTTAGTGAAATTAATTTATTGCTAATTTAGGTATA
1 AAAAATCATCATGTGAATAGTTAAAAATTATCAAGTGAAATTAATTTATTGCTAATTCAGGTATA
* * *
46396654 AAGATGCATTG-AAAAAAATAAGGTTAAAATATGCTTCAAGGCTCATTA-TTCTTTGTACAGTTG
66 AAAATGCA-TGAAAAAAAATAAGGTTAAAATATGCTTCAAGGCTCATTACTT-TTTATACAGTTA
* * *
46396717 AAATTTAGTCTCTATTTTATTGATTTCAAAATTTAAGTCATATTACTAACACCGTTAAAATGCTT
129 AAATTTAG-CTCTATTTTACTAATTTCAAAATTCAAGTCATATTACTAACACCGTTAAAATGCTT
* * * * ** *
46396782 TTGTTCAATTTACAGATGTAACATTTTGAAGTAAAAAAAATACTCAAGTAATAGTCATATAATG
193 CTATTCAAATTACACATGTAACATTTTGAAGTAAAAAAAATACTCAACCAATAGCCATATAATG
46396846 AAAAAT
1 AAAAAT
46396852 ATGACAATCT
Statistics
Matches: 218, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
251 2 0.01
252 111 0.51
253 4 0.02
254 47 0.22
255 4 0.02
256 19 0.09
257 31 0.14
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (256 bp):
AAAAATCATCATGTGAATAGTTAAAAATTATCAAGTGAAATTAATTTATTGCTAATTCAGGTATA
AAAATGCATGAAAAAAAATAAGGTTAAAATATGCTTCAAGGCTCATTACTTTTTATACAGTTAAA
ATTTAGCTCTATTTTACTAATTTCAAAATTCAAGTCATATTACTAACACCGTTAAAATGCTTCTA
TTCAAATTACACATGTAACATTTTGAAGTAAAAAAAATACTCAACCAATAGCCATATAATG
Found at i:46398569 original size:49 final size:47
Alignment explanation
Indices: 46398419--46398586 Score: 194
Period size: 47 Copynumber: 3.5 Consensus size: 47
46398409 TATCGTTCTC
* *
46398419 GGGCCATCCGAGATGGTAGTATATTGAAATAGAAAGCCATCGTTGCT
1 GGGCCATCCGAGATGGTAGTATATTGAAATAGAAAGCCATCATTGTT
* * * *
46398466 AGGCCATTCGGGATGGTAGTATATTGGAAA-AGAAAGCCATCATTGTC
1 GGGCCATCCGAGATGGTAGTATATT-GAAATAGAAAGCCATCATTGTT
* * **
46398513 GGCCCATCCGAGATGGTAGAATATTGAAATAGAGTAAATCATCATTGTT
1 GGGCCATCCGAGATGGTAGTATATTGAAATAGA--AAGCCATCATTGTT
* *
46398562 GGGCCATCCGAAATGGTAATATATT
1 GGGCCATCCGAGATGGTAGTATATT
46398587 CTAGAGTGCA
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 4 0.04
47 59 0.60
48 4 0.04
49 32 0.32
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (47 bp):
GGGCCATCCGAGATGGTAGTATATTGAAATAGAAAGCCATCATTGTT
Found at i:46399639 original size:21 final size:21
Alignment explanation
Indices: 46399591--46399639 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
46399581 AGAGACATGG
46399591 CCGTGTGGCTACCCCACACAC
1 CCGTGTGGCTACCCCACACAC
* * *
46399612 CCATGTGGCTACTCCACACGC
1 CCGTGTGGCTACCCCACACAC
*
46399633 CTGTGTG
1 CCGTGTG
46399640 CTCAGACCGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.20
Consensus pattern (21 bp):
CCGTGTGGCTACCCCACACAC
Found at i:46401438 original size:18 final size:18
Alignment explanation
Indices: 46401415--46401453 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
46401405 CACATTTTCC
46401415 AAACATAGTACTCAACTT
1 AAACATAGTACTCAACTT
46401433 AAACATAGTACTCAACTT
1 AAACATAGTACTCAACTT
46401451 AAA
1 AAA
46401454 TATCATCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (18 bp):
AAACATAGTACTCAACTT
Found at i:46410425 original size:25 final size:25
Alignment explanation
Indices: 46410397--46410444 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46410387 CCCATTATTT
**
46410397 AGCTCTCGTGAGCATCCTGATATAG
1 AGCTCTCACGAGCATCCTGATATAG
*
46410422 AGCTCTCACGAGCTTCCTGATAT
1 AGCTCTCACGAGCATCCTGATAT
46410445 TGGCTATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCTCTCACGAGCATCCTGATATAG
Found at i:46410541 original size:25 final size:25
Alignment explanation
Indices: 46410455--46410541 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 25
46410445 TGGCTATTTG
*
46410455 GAGCTTCCCGATA-ATTGGCTCGCAA
1 GAGCTTCCCGTTATATT-GCTCGCAA
* * * *
46410480 GAGCTTCCTGTTATATAGCTCACAT
1 GAGCTTCCCGTTATATTGCTCGCAA
*
46410505 GAGCTTCCCGTTATATTGCTCGGAA
1 GAGCTTCCCGTTATATTGCTCGCAA
46410530 GAGCTTCCCGTT
1 GAGCTTCCCGTT
46410542 TACATGTTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 49 0.96
26 2 0.04
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATATTGCTCGCAA
Found at i:46420038 original size:15 final size:15
Alignment explanation
Indices: 46420018--46420048 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46420008 TATCAAGCCA
46420018 CTTGATAACTTCTTT
1 CTTGATAACTTCTTT
46420033 CTTGATAACTTCTTT
1 CTTGATAACTTCTTT
46420048 C
1 C
46420049 ATAATTGGAT
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:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (15 bp):
CTTGATAACTTCTTT
Found at i:46424293 original size:125 final size:124
Alignment explanation
Indices: 46423996--46424366 Score: 532
Period size: 125 Copynumber: 3.0 Consensus size: 124
46423986 TTAAATGAAT
* * *
46423996 TATGTTTTATTTTGGGTCA-ATGAGTCCAATGTTGTGTTTAAAAATGGTGACT-ATACATGCTGC
1 TATGTTGTATTATGGGTCATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGA-ACATGCTGC
* * * *
46424059 AAATACATATTATTGTACAAGTGAGTGAGTATTTGCA-TACATTCATTGCATGTTAAACA
65 GAATACATATTGTTGTACAAGTGTGTGAGTATTTGCATTACGTTCATTGCATGTTAAACA
* * * *
46424118 GATGTTGTATTATGGGTTATATGAGTCCAATATTATGTGTAAAAATGGTGACTGAACATGCTGCG
1 TATGTTGTATTATGGGTCATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCG
* * *
46424183 AATACATATTGTTGTACAAGTGTGTGAGTATTTGAATGTATGTTAATTGCATGTTAAACA
66 AATACATATTGTTGTACAAGTGTGTGAGTATTTGCAT-TACGTTCATTGCATGTTAAACA
* * *
46424243 TATGTTGTATTGTAGGTCATATAAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCG
1 TATGTTGTATTATGGGTCATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCG
*
46424308 AATACATATTGTTGTACAAGTGTGTAAGTATTTGCATATACGTTCATTGCATGTTAAAC
66 AATACATATTGTTGTACAAGTGTGTGAGTATTTGCAT-TACGTTCATTGCATGTTAAAC
46424367 GGATGTTACA
Statistics
Matches: 219, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
122 15 0.07
123 72 0.33
124 1 0.00
125 131 0.60
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (124 bp):
TATGTTGTATTATGGGTCATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCG
AATACATATTGTTGTACAAGTGTGTGAGTATTTGCATTACGTTCATTGCATGTTAAACA
Found at i:46424663 original size:26 final size:26
Alignment explanation
Indices: 46424633--46424710 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 26
46424623 TTGTTTGGCG
46424633 AACTAGGGTTCGCCAGTAAAGTTACA
1 AACTAGGGTTCGCCAGTAAAGTTACA
* *
46424659 AACTAGTGTTCGCCAGGT-AAGTTGCA
1 AACTAGGGTTCGCCA-GTAAAGTTACA
* *
46424685 AATTGGGAGTTCGCCAGTCAAAGTTA
1 AACTAGG-GTTCGCCAGT-AAAGTTA
46424711 GACTCAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 27 0.64
27 10 0.24
28 5 0.12
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (26 bp):
AACTAGGGTTCGCCAGTAAAGTTACA
Found at i:46425314 original size:13 final size:14
Alignment explanation
Indices: 46425286--46425331 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 14
46425276 TATGCAAGTC
*
46425286 TATGTTTTAT-GA-
1 TATGTTTTATAAAT
46425298 TATGTTTT-TAAAT
1 TATGTTTTATAAAT
46425311 TATGGTTTTATAAAT
1 TAT-GTTTTATAAAT
46425326 TATGTT
1 TATGTT
46425332 GTTACACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 1 0.03
12 9 0.31
13 3 0.10
14 8 0.28
15 8 0.28
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (14 bp):
TATGTTTTATAAAT
Found at i:46427269 original size:26 final size:26
Alignment explanation
Indices: 46427233--46427298 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
46427223 CTGTTTGGCG
46427233 AACTAGGGTTCGCC-AGCTAAGTTGCA
1 AACTAGGGTTCGCCAAG-TAAGTTGCA
*
46427259 AACTAGTGTTCGCCAAGTAAGTTGCA
1 AACTAGGGTTCGCCAAGTAAGTTGCA
*
46427285 AACTGGGGGTTCGC
1 AACT-AGGGTTCGC
46427299 TAGTCAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 26 0.74
27 9 0.26
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (26 bp):
AACTAGGGTTCGCCAAGTAAGTTGCA
Found at i:46433139 original size:53 final size:53
Alignment explanation
Indices: 46433082--46433218 Score: 157
Period size: 54 Copynumber: 2.5 Consensus size: 53
46433072 TAAGAGGAAC
* * ****
46433082 TAAAAATTCTGGGGGAAAGCAAAAGGAAATTTTTTTTGGAGGTTTGAAAGAAG
1 TAAAAATTTTGGGGGAAAGTAAAAGGAAACAGGTTTTGGAGGTTTGAAAGAAG
* * **
46433135 TAAAAATTTTGGGAGGAAAGTAAAAAGAAACAGGTTTTGGGGGTTTTTAAGAAG
1 TAAAAATTTTGGG-GGAAAGTAAAAGGAAACAGGTTTTGGAGGTTTGAAAGAAG
*
46433189 TAAAAATTTTGGAGGGAAAATAAAAGGAAA
1 TAAAAATTTTGG-GGGAAAGTAAAAGGAAA
46433219 AAAATTTGGG
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 12 0.17
54 57 0.81
55 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (53 bp):
TAAAAATTTTGGGGGAAAGTAAAAGGAAACAGGTTTTGGAGGTTTGAAAGAAG
Found at i:46433231 original size:54 final size:54
Alignment explanation
Indices: 46433129--46433234 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
46433119 GGAGGTTTGA
* * ** *
46433129 AAGAAGTAAAAATTTTGGGAGGAAAGTAAAAAGAAACAGGTTTTGGGGGTTTTT
1 AAGAAGTAAAAATTTTGGGAGGAAAATAAAAAGAAAAAAATTTGGGGGGTTTTT
*
46433183 AAGAAGTAAAAATTTT-GGAGGGAAAATAAAAGGAAAAAAATTTGGGGGGTTT
1 AAGAAGTAAAAATTTTGGGA-GGAAAATAAAAAGAAAAAAATTTGGGGGGTTT
46433235 GAGGAAAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.25
Consensus pattern (54 bp):
AAGAAGTAAAAATTTTGGGAGGAAAATAAAAAGAAAAAAATTTGGGGGGTTTTT
Found at i:46433660 original size:3 final size:3
Alignment explanation
Indices: 46433652--46433697 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
46433642 TGCTAATGTT
46433652 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46433698 GAGTTTGGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46435564 original size:17 final size:18
Alignment explanation
Indices: 46435524--46435570 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
46435514 AAAATTCCAA
*
46435524 AATTTTCAAAATTCAAAAT
1 AATTTT-AAAATTAAAAAT
46435543 AATTTTAAAATTAAAAAT
1 AATTTTAAAATTAAAAAT
46435561 -ATTTATAAAA
1 AATTT-TAAAA
46435571 ACTCCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 16 0.62
19 6 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTTTAAAATTAAAAAT
Found at i:46436372 original size:15 final size:15
Alignment explanation
Indices: 46436352--46436381 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46436342 ACCATATCTC
46436352 GAGATCCTAGTCTAA
1 GAGATCCTAGTCTAA
46436367 GAGATCCTAGTCTAA
1 GAGATCCTAGTCTAA
46436382 ATTTTCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
GAGATCCTAGTCTAA
Found at i:46447360 original size:43 final size:43
Alignment explanation
Indices: 46447307--46447702 Score: 404
Period size: 43 Copynumber: 9.3 Consensus size: 43
46447297 TTTTAGAAAT
* * * *
46447307 AAACACCGCTATAGAACAAGA-TCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTATAGATCATGACT-TTTAGCGGCGCTTTTCCCAC
* * * * * * * * *
46447350 AAATGCCGCTACAAAACAAGACCTTTAACGACGTTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* *
46447393 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * *
46447436 AAACGCCACTATAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* ** *
46447479 AAACGCCGCTAAAGATCATGACTTTTAGCGGTACTTTTCCCAA
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * *
46447522 AAATGCCGCTATAGGTCATGACTTTTAGCGGCGTTTTTCCTAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * *
46447565 AAACGCCGCTATAGGTCATGACTTTTAGTGGTGCTTTTTCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* **
46447608 AAACGCCGCTATAGATCATCACTTTTAGCGATGC-TTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * *
46447650 AAACGCCACTATAGA--ATAGACCTTTAGCTGCGCTCTTCCCAC
1 AAACGCCGCTATAGATCAT-GACTTTTAGCGGCGCTTTTCCCAC
46447692 AAACGCCGCTA
1 AAACGCCGCTA
46447703 AAAACATATC
Statistics
Matches: 290, Mismatches: 60, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
40 2 0.01
41 10 0.03
42 38 0.13
43 240 0.83
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:46448036 original size:43 final size:43
Alignment explanation
Indices: 46447971--46448056 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
46447961 CATATGCAAC
* * *
46447971 GTAATAAAACATAAAATGCATTTTCTTAATCAAGTAAATCTTG
1 GTAATAAAACATAAAATACATTTACTTAATCAAGGAAATCTTG
* *
46448014 GTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTTG
1 GTAATAAAACATAAAATACATTTACTTAATCAAGGAAATCTTG
46448057 TACATCATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (43 bp):
GTAATAAAACATAAAATACATTTACTTAATCAAGGAAATCTTG
Found at i:46452621 original size:8 final size:7
Alignment explanation
Indices: 46452514--46452635 Score: 77
Period size: 7 Copynumber: 16.6 Consensus size: 7
46452504 ACTAATTAAT
46452514 CTAAACC
1 CTAAACC
46452521 CTAAACC
1 CTAAACC
*
46452528 CTTAACCC
1 C-TAAACC
**
46452536 CTATCCC
1 CTAAACC
46452543 CTAAACC
1 CTAAACC
*
46452550 CTAAATC
1 CTAAACC
*
46452557 ATAAACC
1 CTAAACC
46452564 CT-AACC
1 CTAAACC
*
46452570 CTGAAGTACT
1 CT-AA--ACC
*
46452580 CTTAACC
1 CTAAACC
46452587 CTTAAACC
1 C-TAAACC
*
46452595 TTAAACC
1 CTAAACC
46452602 CT-AACC
1 CTAAACC
46452608 CTTAAACCC
1 C-TAAA-CC
*
46452617 CTAAAAC
1 CTAAACC
46452624 CTAAATCC
1 CTAAA-CC
46452632 CTAA
1 CTAA
46452636 CTATTAACCC
Statistics
Matches: 89, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
6 11 0.12
7 47 0.53
8 23 0.26
9 4 0.04
10 4 0.04
ACGTcount: A:0.38, C:0.39, G:0.02, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:46453148 original size:41 final size:41
Alignment explanation
Indices: 46453078--46453343 Score: 336
Period size: 41 Copynumber: 6.5 Consensus size: 41
46453068 TTTTGCGGCG
* *
46453078 TTTTCTAAAAACGCCGCTAAAGA-CTGAGCATTAGCGACGCT
1 TTTTC-AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCT
46453119 TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCT
* * * *
46453160 TCTTCAAAATCGCTGCTAAAGACCAGAGCATTAGCGGCACT
1 TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCT
* * * *
46453201 TTTCCAAAAACGTCACTAAAGACCAGAGCATTAGTGGCGCT
1 TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCT
* * * *
46453242 TTTCCAAAAACGCCGCTAAAGACTAGAGAATTAGCGGCGCA
1 TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCT
* * * *
46453283 TTTCCAAAAACGCCACTAAAGACCCGAGCATTAGCGACGCT
1 TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCT
* *
46453324 TCTTGAAAAACGCCGCTAAA
1 TTTTCAAAAACGCCGCTAAA
46453344 TCCCCGAAAA
Statistics
Matches: 194, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 17 0.09
41 177 0.91
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (41 bp):
TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCT
Found at i:46467051 original size:14 final size:11
Alignment explanation
Indices: 46467007--46467045 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
46466997 AGGAGGGAAT
* *
46467007 GATGCTTGATG
1 GATGATTGAGG
46467018 GATGATTGAGG
1 GATGATTGAGG
46467029 GATGATTGAGG
1 GATGATTGAGG
46467040 GATGAT
1 GATGAT
46467046 GATTGAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.26, C:0.03, G:0.41, T:0.31
Consensus pattern (11 bp):
GATGATTGAGG
Found at i:46467479 original size:28 final size:26
Alignment explanation
Indices: 46467447--46467505 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
46467437 ATCCAATTCA
*
46467447 ATTAATTAATTAATTAAAAACTGAAATT
1 ATTAATTAAATAATTAAAAA-TG-AATT
* *
46467475 ATTAATTAAATATTTTAAAATGAATT
1 ATTAATTAAATAATTAAAAATGAATT
46467501 ATTAA
1 ATTAA
46467506 ATATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.32
27 2 0.07
28 17 0.61
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (26 bp):
ATTAATTAAATAATTAAAAATGAATT
Found at i:46467908 original size:52 final size:52
Alignment explanation
Indices: 46467823--46467931 Score: 146
Period size: 52 Copynumber: 2.1 Consensus size: 52
46467813 CTTACTACAA
* *
46467823 CTTTTGGCGTACACTGCTTCACCATCTCACTAGCATACTTCTTATTGATATT
1 CTTTTGGCGTACACTACTTCACCATCTCACTAGCATACTTCTTAATGATATT
* * ** *
46467875 CTTTTGGGGTACACTACTTGACTGTCTCTCTAGCATACTTCTTAATGATATT
1 CTTTTGGCGTACACTACTTCACCATCTCACTAGCATACTTCTTAATGATATT
*
46467927 TTTTT
1 CTTTT
46467932 CGACGAAACA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (52 bp):
CTTTTGGCGTACACTACTTCACCATCTCACTAGCATACTTCTTAATGATATT
Found at i:46475648 original size:15 final size:15
Alignment explanation
Indices: 46475628--46475656 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46475618 ATCTTTATCA
46475628 TCAATCTTAACCTCG
1 TCAATCTTAACCTCG
46475643 TCAATCTTAACCTC
1 TCAATCTTAACCTC
46475657 AACATTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.34, G:0.03, T:0.34
Consensus pattern (15 bp):
TCAATCTTAACCTCG
Found at i:46484633 original size:25 final size:25
Alignment explanation
Indices: 46484585--46484654 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
46484575 TGTTTTGACC
* ** *
46484585 CACAACTCGTGGGAAAATATCGATT
1 CACAACTCGTGTGAGCATACCGATT
* *
46484610 TACAGCTCGTGTGAGCATACCGATT
1 CACAACTCGTGTGAGCATACCGATT
46484635 CACAACTCGTGTGAGCATAC
1 CACAACTCGTGTGAGCATAC
46484655 ATGTACAGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (25 bp):
CACAACTCGTGTGAGCATACCGATT
Found at i:46488926 original size:24 final size:24
Alignment explanation
Indices: 46488884--46488935 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
46488874 TTCGTAGGTC
* * *
46488884 AAATAAATTATGCTAATAAGTGCT
1 AAATAAATTATACTAATAAATACT
* *
46488908 AAATATATTATACTGATAAATACT
1 AAATAAATTATACTAATAAATACT
46488932 AAAT
1 AAAT
46488936 TTTCTAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:46489631 original size:20 final size:20
Alignment explanation
Indices: 46489606--46489643 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46489596 TTAAGGTATA
*
46489606 ATTAAACTAGTTTAATTATC
1 ATTAAAATAGTTTAATTATC
*
46489626 ATTAAAATTGTTTAATTA
1 ATTAAAATAGTTTAATTA
46489644 ATATAAGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTAAAATAGTTTAATTATC
Found at i:46493853 original size:3 final size:3
Alignment explanation
Indices: 46493840--46493880 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
46493830 ATACATGGCG
46493840 ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46493881 CAATATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46494015 original size:12 final size:13
Alignment explanation
Indices: 46493991--46494019 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46493981 CGCATGCATA
46493991 AAATAATAAAATT
1 AAATAATAAAATT
46494004 AAATAA-AAAATT
1 AAATAATAAAATT
46494016 AAAT
1 AAAT
46494020 GTCCAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAATAAAATT
Found at i:46500306 original size:18 final size:18
Alignment explanation
Indices: 46500272--46500318 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
46500262 GGGTTCAGGT
46500272 TCAAAAA-AAAATCAAAA
1 TCAAAAACAAAATCAAAA
* *
46500289 TCAAAATCAAAATTAAAA
1 TCAAAAACAAAATCAAAA
46500307 TCAAAAACAAAA
1 TCAAAAACAAAA
46500319 AAGAAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (18 bp):
TCAAAAACAAAATCAAAA
Found at i:46500319 original size:6 final size:6
Alignment explanation
Indices: 46500279--46500318 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
46500269 GGTTCAAAAA
* *
46500279 AAAATC AAAATC AAAATC AAAATT AAAATC AAAAAC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
46500319 AAGAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:46500325 original size:12 final size:12
Alignment explanation
Indices: 46500310--46500348 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
46500300 ATTAAAATCA
46500310 AAAACAAAAAAG
1 AAAACAAAAAAG
*
46500322 AAAAGAAAAAAG
1 AAAACAAAAAAG
46500334 AAAAAGCAAAAAAG
1 -AAAA-CAAAAAAG
46500348 A
1 A
46500349 GAAATCAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.48
13 5 0.22
14 7 0.30
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAAG
Found at i:46500332 original size:14 final size:15
Alignment explanation
Indices: 46500315--46500352 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
46500305 AATCAAAAAC
46500315 AAAAA-AGAAAAG-A
1 AAAAAGAGAAAAGCA
46500328 AAAAAGA-AAAAGCA
1 AAAAAGAGAAAAGCA
46500342 AAAAAGAGAAA
1 AAAAAGAGAAA
46500353 TCAATCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAAAAGCA
Found at i:46500764 original size:21 final size:21
Alignment explanation
Indices: 46500749--46500787 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46500739 AAAAAGATGG
46500749 AAAATGAAAATGAAAAATGAA
1 AAAATGAAAATGAAAAATGAA
*
46500770 AAAATGAAAA-GTAAAATG
1 AAAATGAAAATGAAAAATG
46500788 GAGAGGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAATGAAAATGAAAAATGAA
Found at i:46502181 original size:87 final size:87
Alignment explanation
Indices: 46501982--46502252 Score: 384
Period size: 87 Copynumber: 3.1 Consensus size: 87
46501972 AGAACAGATT
46501982 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
* * * *
46502046 TACCTTCCTGCATTGACAGCCA
66 TGCCATCCTGCGTTGACAGCGA
* * *
46502068 AGCAGATCGGAAACAAAGCCTAGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCT
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
*
46502133 TGCCATCCTGCGTTAACAGCGA
66 TGCCATCCTGCGTTGACAGCGA
* * *
46502155 AGCAGATCAAAAACAAAGCTTTGCCTCCATCGGTTGCGGTGGAGCTGGTTAAA-AGTAGCAGATC
1 AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-TAGCAGATC
* * * *
46502219 TTGCCCTTCTGCGTCGACAGTGA
65 TTGCCATCCTGCGTTGACAGCGA
46502242 AGCAGATCGAA
1 AGCAGATCGAA
46502253 GATTACAAGT
Statistics
Matches: 163, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
86 53 0.33
87 110 0.67
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (87 bp):
AGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCT
TGCCATCCTGCGTTGACAGCGA
Found at i:46502863 original size:141 final size:141
Alignment explanation
Indices: 46502609--46504144 Score: 2464
Period size: 141 Copynumber: 10.9 Consensus size: 141
46502599 ATCCGGTCTA
* * * * * * *
46502609 ATCTCCCTGACATTACAGCGGCGTAGATTGAAGTTAGTAATCCTATCTCCCTGATATTACAATGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* * * *
46502674 AGCGAATT-AAATAAAGGATCTTATCTCTTTAAAGTTACAGTAGAGTAGATCGCATCAGATTTAA
66 AGCGGATTAAAATAAAGGATC-TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
46502738 GCCAGAAATCTT
130 GCCAGAAATCTT
* * * *
46502750 ATCTCCCTAAGATTACAGCGGAGAAAATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGCGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* * *
46502815 AGCGGATTAAAATAAAGGATCTATCTCTCTAAAGTTACAGTACAGTAGATCGCATCAAATTGAAG
66 AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
46502880 CCAGAAATCTT
131 CCAGAAATCTT
* * * * *
46502891 ATCTTCCTGAGATTACAGCGGAGCAGATTGAAGTTCGTAATCCTATCTCTCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* *
46502956 AGCAGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGATTGAAG
66 AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
46503021 CCAGAAATCTT
131 CCAGAAATCTT
*
46503032 ATCTCCCTGAGATTACAGCGGATCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* * *
46503097 AGCTGATTAAAATAAAGGATCTATCTCTCTGAAGGTACAGTAGAGTAGA-CTGCATCAGATTCAA
66 AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATC-GCATCAGATTGAA
*
46503161 GCCAGAAATCTG
130 GCCAGAAATCTT
* * *
46503173 ATCTCCTTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
*
46503238 AGCGGATTAAAATAAAGGTTCATATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
66 AGCGGATTAAAATAAAGGATC-TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
46503303 GCCAGAAATCTT
130 GCCAGAAATCTT
*
46503315 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
46503380 AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
66 AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
46503445 CCAGAAATCTT
131 CCAGAAATCTT
** *
46503456 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCTTTGAGATTATAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* * *
46503521 AGCGGATTAAAATAAAGGATCGATCTCTCTGAAGTTACAGTAGAGTAGATCGGATCAGATTGAAT
66 AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
*
46503586 CCAAAAATCTT
131 CCAGAAATCTT
* * **
46503597 ATCTCCCTGAGATTAAAGTGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* ** *
46503662 AGCGTATTAAAATAAAGGATCTTATCTAACTGAAGTTACAGTAGAGTAGATCGCATCAGGTTGAA
66 AGCGGATTAAAATAAAGGATC-TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
46503727 GCCAGAAATCTT
130 GCCAGAAATCTT
** * *
46503739 ATCTCCCTGAGATTACAATGGAGAAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
*
46503804 AGCGGATTAAAATAAAGGATCTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
66 AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
46503869 CCAGAAATCTT
131 CCAGAAATCTT
*
46503880 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
*
46503945 AGCAGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
66 AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
*
46504010 CCAAAAATCTT
131 CCAGAAATCTT
* *
46504021 ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
*
46504086 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
66 AGCGGATTAAAATAAAGGATC-TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
46504145 GTTTTATGTC
Statistics
Matches: 1290, Mismatches: 99, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
140 1 0.00
141 982 0.76
142 306 0.24
143 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (141 bp):
ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
AGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
CCAGAAATCTT
Found at i:46503079 original size:44 final size:44
Alignment explanation
Indices: 46503009--46503093 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
46502999 AGTAGATCGT
* *
46503009 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGG
1 ATCAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGG
* *
46503053 ATCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 ATCAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAG
46503094 TGGAGCTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (44 bp):
ATCAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGG
Found at i:46503382 original size:44 final size:44
Alignment explanation
Indices: 46503294--46503382 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
46503284 TAGATCGCAT
* * *
46503294 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAACGGAG
* * *
46503338 CAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAG
1 CAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAACGGAG
46503382 C
1 C
46503383 GGATTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (44 bp):
CAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAACGGAG
Found at i:46503503 original size:44 final size:44
Alignment explanation
Indices: 46503435--46503523 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
46503425 TAGATCGCAT
* *
46503435 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* * ** * *
46503479 CAGATCGAAGCTAGTAATCCTATCTCTTTGAGATTATAGTGGAG
1 CAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
46503523 C
1 C
46503524 GGATTAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
CAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:46503831 original size:565 final size:565
Alignment explanation
Indices: 46502609--46504137 Score: 2517
Period size: 565 Copynumber: 2.7 Consensus size: 565
46502599 ATCCGGTCTA
* * * * *
46502609 ATCTCCCTGACATTACAGCGGCGTAGATTGAAGTTAGTAATCCTATCTCCCTGATATTACAATGG
1 ATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGG
* * * *
46502674 AGCGAATT-AAATAAAGGATCTTATCTCTTTAAAGTTACAGTAGAGTAGATCGCATCAGATTTAA
66 AGCGGATTAAAATAAAGGATCATATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
* * *
46502738 GCCAGAAATCTTATCTCCCTAAGATTACAGCGGAGAAAATCGAAGCTAGTAATCCTATCTCCCTG
131 GCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTG
* * *
46502803 AGATTACAGCGGAGCGGATTAAAATAAAGGATCTATCTCTCTAAAGTTACAGTACAGTAGATCGC
196 AGATTACAGTGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
* * * *
46502868 ATCAAATTGAAGCCAGAAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGTTCGTAATC
261 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
*
46502933 CTATCTCTCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTA
326 CTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTA
* * * * *
46502998 GAGTAGATCGTATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGATCAGATCGA
391 GAGTAGATCGGATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTAAAGCGGAGCAGATCAA
**
46503063 AGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCTGATTAAAATAAAGGATCTATCTCTCTG
456 AGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCTGATTAAAATAAAGGATCTATCTAACTG
46503128 AAGGTACAGTAGAGTAGACTGCATCAGATTCAAGCCAGAAATCTG
521 AAGGTACAGTAGAGTAGACTGCATCAGATTCAAGCCAGAAATCTG
* * * *
46503173 ATCTCCTTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGG
* *
46503238 AGCGGATTAAAATAAAGGTTCATATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
66 AGCGGATTAAAATAAAGGATCATATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
46503303 GCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTG
131 GCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTG
*
46503368 AGATTACAATGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
196 AGATTACAGTGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
*
46503433 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATC
261 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* * *
46503498 CTATCTCTTTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCGATCTCTCTGAAGTTACAGTA
326 CTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTA
* * *
46503563 GAGTAGATCGGATCAGATTGAATCCAAAAATCTTATCTCCCTGAGATTAAAGTGGAGCAGATTAA
391 GAGTAGATCGGATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTAAAGCGGAGCAGATCAA
46503628 AGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC-GTATTAAAATAAAGGATCTTATCTAAC
456 AGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCTG-ATTAAAATAAAGGATC-TATCTAAC
* * * *
46503692 TGAAGTTACAGTAGAGTAGA-TCGCATCAGGTTGAAGCCAGAAATCTT
519 TGAAGGTACAGTAGAGTAGACT-GCATCAGATTCAAGCCAGAAATCTG
** *
46503739 ATCTCCCTGAGATTACAATGGAGAAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGG
1 ATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGG
46503804 AGCGGATTAAAATAAAGGATC-TATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
66 AGCGGATTAAAATAAAGGATCATATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
*
46503868 GCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGCAATCCTATCTCCCTG
131 GCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTG
*
46503933 AGATTACAGTGGAGCAGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
196 AGATTACAGTGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
* *
46503998 ATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATC
261 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
*
46504063 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
326 CTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATC-TATCTCTCTGAAGTTACAGT
46504128 AGAGTAGATC
390 AGAGTAGATC
46504138 ACATCAGGTT
Statistics
Matches: 897, Mismatches: 63, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
564 65 0.07
565 678 0.76
566 154 0.17
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (565 bp):
ATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGG
AGCGGATTAAAATAAAGGATCATATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
GCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTG
AGATTACAGTGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
CTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTA
GAGTAGATCGGATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTAAAGCGGAGCAGATCAA
AGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCTGATTAAAATAAAGGATCTATCTAACTG
AAGGTACAGTAGAGTAGACTGCATCAGATTCAAGCCAGAAATCTG
Found at i:46503927 original size:44 final size:44
Alignment explanation
Indices: 46503859--46504088 Score: 171
Period size: 44 Copynumber: 5.0 Consensus size: 44
46503849 TAGATCGCAT
* * * * *
46503859 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATCGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGGAG
46503903 CAGATCGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATCGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGGAG
* ** * * *
46503947 CAGAT-TAAAATAAAG-GAT-CTATCTCTCTGA-AGTTACAGTAGAG
1 CAGATCGAAGCT--AGCAATCCTATCTCCCTGAGA-TTACAGTGGAG
* * * *
46503990 TAGATCGCATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATCG-A--AG-CT--AG-C---AATCCTATCTCCCTGAGATTACAGTGGAG
*
46504044 CAGATTGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATCGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGGAG
46504088 C
1 C
46504089 GGATTAAAAT
Statistics
Matches: 145, Mismatches: 26, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.01
43 28 0.19
44 74 0.51
45 3 0.02
47 2 0.01
48 6 0.04
50 1 0.01
51 2 0.01
53 3 0.02
54 24 0.17
55 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (44 bp):
CAGATCGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGGAG
Found at i:46504113 original size:44 final size:44
Alignment explanation
Indices: 46504015--46504099 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
46504005 TGAAGCCAAA
* **
46504015 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGC
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGC
* *
46504059 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATA
46504100 AAGGATCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 4 0.11
44 32 0.89
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGC
Found at i:46504147 original size:424 final size:423
Alignment explanation
Indices: 46502609--46504144 Score: 2493
Period size: 424 Copynumber: 3.6 Consensus size: 423
46502599 ATCCGGTCTA
* * * * * * *
46502609 ATCTCCCTGACATTACAGCGGCGTAGATTGAAGTTAGTAATCCTATCTCCCTGATATTACAATGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* * *
46502674 AGCGAATT-AAATAAAGGATCTTATCTCTTTAAAGTTACAGTAGAGTAGATCGCATCAGATTTAA
66 AGCG-ATTAAAATAAAGGATC-TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAA
* * * * *
46502738 GCCAGAAATCTTATCTCCCTAAGATTACAGCGGAGAAAATCGAAGCTAGTAATCCTATCTCCCTG
129 GCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG
* * *
46502803 AGATTACAGCGGAGCGGATTAAAATAAAGGATC-TATCTCTCTAAAGTTACAGTACAGTAGATCG
194 AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
* * * * *
46502867 CATCAAATTGAAGCCAGAAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGTTCGTAAT
259 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAAT
* * *
46502932 CCTATCTCTCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGT
324 CCTATCTCCCTGAGATTACAATGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGT
*
46502997 AGAGTAGATCGTATCAGATTGAAGCCAGAAATCTT
389 AGAGTAGATCGCATCAGATTGAAGCCAGAAATCTT
*
46503032 ATCTCCCTGAGATTACAGCGGATCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* *
46503097 AGCTGATTAAAATAAAGGATCTATCTCTCTGAAGGTACAGTAGAGTAGA-CTGCATCAGATTCAA
66 AGC-GATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATC-GCATCAGATTGAA
* * * *
46503161 GCCAGAAATCTGATCTCCTTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG
129 GCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG
* *
46503226 AGATTACAGTGGAGCGGATTAAAATAAAGGTTCATATCTCTCTGAAGTTACAGTAGAGTAGATCG
194 AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
46503291 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAAT
259 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAAT
46503356 CCTATCTCCCTGAGATTACAATGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGT
324 CCTATCTCCCTGAGATTACAATGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGT
46503421 AGAGTAGATCGCATCAGATTGAAGCCAGAAATCTT
389 AGAGTAGATCGCATCAGATTGAAGCCAGAAATCTT
** *
46503456 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCTTTGAGATTATAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
* * *
46503521 AGCGGATTAAAATAAAGGATCGATCTCTCTGAAGTTACAGTAGAGTAGATCGGATCAGATTGAAT
66 AGC-GATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
* * *
46503586 CCAAAAATCTTATCTCCCTGAGATTAAAGTGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGA
130 CCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGA
* **
46503651 GATTACAGTGGAGCGTATTAAAATAAAGGATCTTATCTAACTGAAGTTACAGTAGAGTAGATCGC
195 GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
* ** *
46503716 ATCAGGTTGAAGCCAGAAATCTTATCTCCCTGAGATTACAATGGAGAAGATCGAAGCTAGTAATC
260 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATC
*
46503781 CTATCTCCCTGAGATTACAATGGAGCGGATTAAAATAAAGGATCTATCTCTCTAAAGTTACAGTA
325 CTATCTCCCTGAGATTACAATGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTA
46503846 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTT
390 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTT
*
46503880 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
46503945 AGCAGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
66 AGC-GATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAG
*
46504010 CCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGA
130 CCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGA
*
46504075 GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCAC
195 GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
46504140 ATCAG
260 ATCAG
46504145 GTTTTATGTC
Statistics
Matches: 1034, Mismatches: 74, Indels: 9
0.93 0.07 0.01
Matches are distributed among these distances:
422 1 0.00
423 189 0.18
424 843 0.82
425 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (423 bp):
ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
AGCGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGC
CAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
ATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
TCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCC
TATCTCCCTGAGATTACAATGGAGCGGATTAAAATAAAGGATCTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCATCAGATTGAAGCCAGAAATCTT
Found at i:46508555 original size:17 final size:17
Alignment explanation
Indices: 46508533--46508573 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46508523 CAAAAAATAT
*
46508533 TAAAAATAAATGGTATA
1 TAAAAATAAATAGTATA
*
46508550 TAAAAATAGATAGTATA
1 TAAAAATAAATAGTATA
*
46508567 AAAAAAT
1 TAAAAAT
46508574 TGCAATTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (17 bp):
TAAAAATAAATAGTATA
Found at i:46509712 original size:35 final size:35
Alignment explanation
Indices: 46509655--46509727 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
46509645 AATAAAAATT
* *
46509655 ATAAAAATATAATATATATATGTATGTATATATAC
1 ATAAAAATATAAGATATATATGTAGGTATATATAC
*
46509690 ATAAAAATATGAAGA-ATGTATGTAGGTATATATAC
1 ATAAAAATAT-AAGATATATATGTAGGTATATATAC
46509725 ATA
1 ATA
46509728 TATATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 31 0.91
36 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.36
Consensus pattern (35 bp):
ATAAAAATATAAGATATATATGTAGGTATATATAC
Found at i:46511380 original size:27 final size:28
Alignment explanation
Indices: 46511324--46511391 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 28
46511314 GTAGCCTCCT
*
46511324 TCCAATCCACTGCGTCTTGTTGCTTCGA
1 TCCACTCCACTGCGTCTTGTTGCTTCGA
*
46511352 TCCACTCCACTGCG-CTTGTTGCTTTGA
1 TCCACTCCACTGCGTCTTGTTGCTTCGA
46511379 TCCACTCCACTGC
1 TCCACTCCACTGC
46511392 ACTTCAGGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.66
28 13 0.34
ACGTcount: A:0.13, C:0.37, G:0.16, T:0.34
Consensus pattern (28 bp):
TCCACTCCACTGCGTCTTGTTGCTTCGA
Found at i:46511834 original size:182 final size:182
Alignment explanation
Indices: 46511527--46511883 Score: 552
Period size: 182 Copynumber: 2.0 Consensus size: 182
46511517 TATCTACAGT
* * * *
46511527 CTGCTCCACTACGACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATTCGACCTACTACAAC
1 CTGCTCCACTACAACTTCAAGGAGATAAGACTCGTTATGGTAGATTTAATTCAACCTACTACAAC
* * ** *
46511592 TTCAGAGGTATAGGATTCATCGTTTTAATATGCTCCACTACAACTTCATGGAGATAGGATTAATA
66 TTAAGAGGTATAGGATTCATCATTTTAATACACTCCACTACAACTTCAGGGAGATAGGATTAATA
* * *
46511657 GCTTCAATTTGATCCACTGCAACTTTAGGGAGATAAGATTGGTATCCTTAAC
131 GCTTCAATATGATCCACTACAACTTCAGGGAGATAAGATTGGTATCCTTAAC
* *
46511709 CTGCTCCACTACAACTTCAAGGAGATAAGACTTGTTATGGTAGATTTAATTCAACCTACTGCAAC
1 CTGCTCCACTACAACTTCAAGGAGATAAGACTCGTTATGGTAGATTTAATTCAACCTACTACAAC
* *
46511774 TTAAGAGGTATAGGATTCATCATTTTAATCCACTCTACTACAACTTCAGGGAGATAGGATTAATA
66 TTAAGAGGTATAGGATTCATCATTTTAATACACTCCACTACAACTTCAGGGAGATAGGATTAATA
* *
46511839 TCTTCAATATGCTCCACTACAACTTCAGGGAGATAAGATTGGTAT
131 GCTTCAATATGATCCACTACAACTTCAGGGAGATAAGATTGGTAT
46511884 GGTGTGATCT
Statistics
Matches: 157, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
182 157 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (182 bp):
CTGCTCCACTACAACTTCAAGGAGATAAGACTCGTTATGGTAGATTTAATTCAACCTACTACAAC
TTAAGAGGTATAGGATTCATCATTTTAATACACTCCACTACAACTTCAGGGAGATAGGATTAATA
GCTTCAATATGATCCACTACAACTTCAGGGAGATAAGATTGGTATCCTTAAC
Found at i:46512576 original size:123 final size:123
Alignment explanation
Indices: 46512261--46512839 Score: 599
Period size: 123 Copynumber: 4.6 Consensus size: 123
46512251 GATTCGTTGC
* * *
46512261 CTTCAGCTTTAATCTACTCCGCTGCAATGTC-AGGAAAACAAGATTCGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTATTCCACTGCAATGCCAAGG-AAACAAGATTCGCTACCTTTAGCTTTAAT
* * * **
46512325 CTGTTCCACTGTAACACCAAGGAGATAGCATTCGCTGCCTTTGGCTTTAATCCG-TATA
65 CTGTTCCACTGTAACTCCAAGGAGATAGGATTCGCTGCCTTTAGCTTTAATCCGCTCCA
* * *
46512383 CTTTAGCTTTAATCTATTCCACTACAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATC
*
46512448 TGTTCCATTGTAACTCCAAGGAGATAGGATTCGCTGCCTTTAGCTTTAATCCGCTCCA
66 TGTTCCACTGTAACTCCAAGGAGATAGGATTCGCTGCCTTTAGCTTTAATCCGCTCCA
* * * * ** *
46512506 CTTCAGCTTTAATCTATTTCATTGTAACGGTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * * * * ** * * * *
46512571 TGTTCCATTGCAACGCCAGGGAAATAAAATTTGCTACCTTCGGTCTTAACGCCAGGGAGATAAGA
66 TGTTCCACTGTAACTCCAAGGAGATAGGATTCGCT-GC--C--T-TT-A-G-C------TTTA-A
* *
46512636 TTCGCTGC-
115 TCCGCTCCA
* ** * * *
46512644 CTTC-GATTTAATCTGCTCCGCTACTATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* *
46512708 TGTTCCACTGTAACTCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGGTCCA
66 TGTTCCACTGTAACTCCAAGGAGATAGGATTCGCTGCCTTTAGCTTTAATCCGCTCCA
* *
46512766 CTTTAGCTTTAATCTATTCCACTGCAATGCCAAGAAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATC
46512831 TGTTCCACT
66 TGTTCCACT
46512840 ACAAAGCCAG
Statistics
Matches: 369, Mismatches: 68, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
121 6 0.02
122 110 0.30
123 151 0.41
124 1 0.00
126 1 0.00
128 2 0.01
129 3 0.01
130 2 0.01
131 2 0.01
132 2 0.01
134 1 0.00
136 1 0.00
137 74 0.20
138 6 0.02
139 7 0.02
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (123 bp):
CTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATC
TGTTCCACTGTAACTCCAAGGAGATAGGATTCGCTGCCTTTAGCTTTAATCCGCTCCA
Found at i:46512592 original size:51 final size:51
Alignment explanation
Indices: 46512510--46512610 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
46512500 GCTCCACTTC
* * ** *
46512510 AGCTTTAATCTATTTCATTGTAACGGTAGGGAAACAAGATTCGCTACCTTT
1 AGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAAATTCGCTACCTTT
* * *
46512561 AGCTTTAATCTGTTCCATTGCAACGCCAGGGAAATAAAATTTGCTACCTT
1 AGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAAATTCGCTACCTT
46512611 CGGTCTTAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (51 bp):
AGCTTTAATCTATTCCATTGCAACGCCAGGGAAACAAAATTCGCTACCTTT
Found at i:46512811 original size:72 final size:72
Alignment explanation
Indices: 46512694--46512839 Score: 186
Period size: 72 Copynumber: 2.0 Consensus size: 72
46512684 GATTCGCTAC
* * * * * * *
46512694 CTTTAGCTTTAATCTGTTCCACTGTAACTCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATC
1 CTTTAGCTTTAATCTATTCCACTGCAACTCCAAGAAAACAAGATTCGCTACCTTCAGCTTTAATC
46512759 CGGTCCA
66 CGGTCCA
*
46512766 CTTTAGCTTTAATCTATTCCACTGCAA-TGCCAAGAAAACAAGATTCGCTACCTTTAGCTTTAAT
1 CTTTAGCTTTAATCTATTCCACTGCAACT-CCAAGAAAACAAGATTCGCTACCTTCAGCTTTAAT
* *
46512830 CTGTTCCA
65 CCGGTCCA
46512838 CT
1 CT
46512840 ACAAAGCCAG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 1 0.02
72 62 0.98
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (72 bp):
CTTTAGCTTTAATCTATTCCACTGCAACTCCAAGAAAACAAGATTCGCTACCTTCAGCTTTAATC
CGGTCCA
Found at i:46512851 original size:260 final size:260
Alignment explanation
Indices: 46512390--46513008 Score: 846
Period size: 260 Copynumber: 2.4 Consensus size: 260
46512380 ATACTTTAGC
* *
46512390 TTTAATCTATTCCACTACAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCA
1 TTTAATCTACTCCACTACAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCA
* *
46512455 TTGTAACTCCAAGGAGATAGGATTCGCTGCCTTTAGCTTTAATCCGCTCCACTTCAGCTTTAATC
66 CTGTAACTCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATC
* * * ** * * * * *
46512520 TATTTCATTGTAACGGTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCATTGCAAC
131 TATTCCACTGCAACGCCAAGAAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAA
* * * *
46512585 GCCAGGGAAATAAAATTTGCTACCTTCGGTCTTAACGCCAGGGAGATAAGATTCGCTGCCTTC-G
196 GCCAGGGAAATAAAATTCGCTACCTTCAGT-TTAACACCAGGGAGATAAGATTCACTGCCTTCAG
46512649 A
260 A
* * *
46512650 TTTAATCTGCTCCGCTACTATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCA
1 TTTAATCTACTCCACTACAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCA
* *
46512715 CTGTAACTCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGGTCCACTTTAGCTTTAATC
66 CTGTAACTCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATC
*
46512780 TATTCCACTGCAATGCCAAGAAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAA
131 TATTCCACTGCAACGCCAAGAAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAA
* *** * * *
46512845 GCCAGGGAAATAAGATTCGCTGTTTTTAGTTTAACACCAGGGAGATAAGATTCATTGCCTTCAGC
196 GCCAGGGAAATAAAATTCGCTACCTTCAGTTTAACACCAGGGAGATAAGATTCACTGCCTTCAGA
* ** * *
46512910 TTTAATCTACTCCACTGCAACACCAAGGAAACAAGATTCGCTACCTTAAGCTTTAATCTATTCCA
1 TTTAATCTACTCCACTACAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCA
* * * *
46512975 CTATAA-TGCCTAGGAGATAGGATTTGCTGTCTTC
66 CTGTAACT-CCAAGGAGATAGGATTCGCTGCCTTC
46513009 GATCTGCTCC
Statistics
Matches: 314, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
259 30 0.10
260 284 0.90
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (260 bp):
TTTAATCTACTCCACTACAATGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCA
CTGTAACTCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATC
TATTCCACTGCAACGCCAAGAAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAA
GCCAGGGAAATAAAATTCGCTACCTTCAGTTTAACACCAGGGAGATAAGATTCACTGCCTTCAGA
Found at i:46512873 original size:51 final size:51
Alignment explanation
Indices: 46512766--46512865 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
46512756 ATCCGGTCCA
* *
46512766 CTTTAGCTTTAATCTATTCCACTGCAATGCCAAGAAAACAAGATTCGCTAC
1 CTTTAGCTTTAATCTATTCCACTACAAAGCCAAGAAAACAAGATTCGCTAC
* * * *
46512817 CTTTAGCTTTAATCTGTTCCACTACAAAGCCAGGGAAATAAGATTCGCT
1 CTTTAGCTTTAATCTATTCCACTACAAAGCCAAGAAAACAAGATTCGCT
46512866 GTTTTTAGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (51 bp):
CTTTAGCTTTAATCTATTCCACTACAAAGCCAAGAAAACAAGATTCGCTAC
Found at i:46513236 original size:132 final size:132
Alignment explanation
Indices: 46513004--46513481 Score: 690
Period size: 132 Copynumber: 3.6 Consensus size: 132
46512994 GGATTTGCTG
* * **
46513004 TCTTCGATCTGCTCCACTACTGTTTAGGGAGACAGGATCTACAAATCTTTGACCTACTCCACTGC
1 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAC-AATCTTCAACCTACTCCACTGC
*
46513069 TGCTCCGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCA
65 TGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCA
46513134 -CA
130 CCA
* * *
46513136 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGGCAGGATCTACAATCTTCAAGCTACCCCACTGC
1 -TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
* *
46513201 TGCTCAGGGAGATAGAACTGGTGGCTTAAATCTGCTTCCCTACTACATTGGGAAGATCAA-ATTC
65 TGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGAT-AAGATTC
46513265 ACCA
129 ACCA
* * * * * * *
46513269 TCTTTGATCTACTGCACTACTGCTTCGGGAGACAGGATGTACAATCTTTAACCTACTCCATTGTT
1 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCT
*
46513334 GCTCAGGTAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCAC
66 GCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCAC
46513399 CA
131 CA
* * * * *
46513401 TTTTTTATCTTCTCCACTACTGCTTAGGGAGACAGGATCTATAATCTTCAACCTACTCTACTGCT
1 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCT
* *
46513466 TCTTAGGGAGATAGGA
66 GCTCAGGGAGATAGGA
46513482 TTTACAATCT
Statistics
Matches: 305, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
131 2 0.01
132 260 0.85
133 43 0.14
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCT
GCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCAC
CA
Found at i:46513482 original size:44 final size:44
Alignment explanation
Indices: 46513412--46513507 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
46513402 TTTTTATCTT
* * *
46513412 CTCCACTACTGCTTAGGGAGACAGGATCTATAATCTTCAACCTA
1 CTCCACTGCTTCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * *
46513456 CTCTACTGCTTCTTAGGGAGATAGGATTTACAATCTTCAACCTA
1 CTCCACTGCTTCTTAGGGAGACAGGATCTACAATCTTCAACCTA
46513500 CTCCACTG
1 CTCCACTG
46513508 ATGCTCAGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
CTCCACTGCTTCTTAGGGAGACAGGATCTACAATCTTCAACCTA
Found at i:46517496 original size:88 final size:88
Alignment explanation
Indices: 46517338--46518004 Score: 699
Period size: 88 Copynumber: 7.6 Consensus size: 88
46517328 TTCTATGTGC
* * * *
46517338 TTTCGATCTGCTTCACTGCCAGTACAAGAAGACAAGATCTACAATCTTAAACCTACTCCACTGCT
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
46517403 ACTCAGGGAGATAAGGCTGGTGT
66 ACTCAGGGAGATAAGGCTGGTGT
* * * * * * *
46517426 TTTTGATCTGCTTCATTGCCAGTACAGGAACACAAGATCTACAATATTCAACATACTCCACTGCT
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
*
46517491 GCTCAGGGAGATAAGGCTGGTGT
66 ACTCAGGGAGATAAGGCTGGTGT
* ** * *
46517514 TTTTGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTACAATCTTTAACCTACTCCACTACT
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
* *
46517579 GCTCAGGGAGATAAGGCTAGTGT
66 ACTCAGGGAGATAAGGCTGGTGT
* * ** * *
46517602 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA-CTTTCAGTCTGCTCCGCTGC
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATC-TTCAACCTACTCCACTGC
* * **
46517666 AAAATCAGGGAGGCAAGGCTGGTGT
65 -TACTCAGGGAGATAAGGCTGGTGT
* *** * * * ** *
46517691 CTTCGATCTACTTTGTTGCCAATACAGGAAGACAAGATTTGCTA-CTTTCAGTCTGCTCCACTGC
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATC-TTCAACCTACTCCACTGC
* **
46517755 AAACTCAGGGAGGCAAGGCTGGTGT
65 -TACTCAGGGAGATAAGGCTGGTGT
* * * * *
46517780 CTTCGATCTACTTCGCTACTAATACAGGAAGACAAGATCTGCAATCTTCAACCTACTCCACTGCT
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
* * *
46517845 GCTCAGGTAGATAAGGCTGGAGT
66 ACTCAGGGAGATAAGGCTGGTGT
* ** * * * * * * *
46517868 TTTAGATCTGGTTCACTGCTAGTACAGGAAGAAAAGATCTACATTCTTTAACTTACTCCATTGCT
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
*
46517933 ACTCAGGGAGATAAGGCTAGTGT
66 ACTCAGGGAGATAAGGCTGGTGT
* * * *
46517956 TTTCGATCTGCTTCACTGCCAGTATAGGAAGACAAGATCTACAACCTTC
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTC
46518005 TTCAATCCAT
Statistics
Matches: 495, Mismatches: 81, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
87 1 0.00
88 340 0.69
89 153 0.31
90 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (88 bp):
TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
ACTCAGGGAGATAAGGCTGGTGT
Found at i:46523126 original size:3 final size:3
Alignment explanation
Indices: 46523118--46523153 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
46523108 ATACATGGCG
46523118 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46523154 CAATATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46523315 original size:26 final size:26
Alignment explanation
Indices: 46523284--46523335 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46523274 TCAAAGTAAA
46523284 AAATTATTCCCTATCGATCAAACAGG
1 AAATTATTCCCTATCGATCAAACAGG
46523310 AAATTATTCCCTATCGATCAAACAGG
1 AAATTATTCCCTATCGATCAAACAGG
46523336 GCCAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (26 bp):
AAATTATTCCCTATCGATCAAACAGG
Found at i:46524820 original size:23 final size:22
Alignment explanation
Indices: 46524777--46524834 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
46524767 AAAGGGTATC
* *
46524777 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
46524798 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
46524821 TGCATATCATATCT
1 TACAAATCATATCT
46524835 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:46525788 original size:27 final size:28
Alignment explanation
Indices: 46525754--46525822 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 28
46525744 TTTTCAAATT
* *
46525754 TTCC-ACAAAGGCTTT-TATCTCTT-AG
1 TTCCAACAAAGGCTTTACATCTCTTAAA
*
46525779 TTCGCAAC-AAGGGTTTACATCTCTTAAA
1 TTC-CAACAAAGGCTTTACATCTCTTAAA
*
46525807 TTCCCACAAAGGCTTT
1 TTCCAACAAAGGCTTT
46525823 CTTCTTTTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
25 3 0.09
26 8 0.24
27 12 0.35
28 11 0.32
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (28 bp):
TTCCAACAAAGGCTTTACATCTCTTAAA
Found at i:46525880 original size:27 final size:26
Alignment explanation
Indices: 46525850--46525933 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
46525840 AAAAAGATTT
**
46525850 CATCTCTCAGGTCACCACAAAGGCTTC
1 CATCTCT-AGGTTGCCACAAAGGCTTC
*
46525877 CATCTCTTAGATTGCCACAAAGGCTTC
1 CATCTC-TAGGTTGCCACAAAGGCTTC
* *
46525904 CATCACATAGGTTGCCAGAAAGGCTTC
1 CATCTC-TAGGTTGCCACAAAGGCTTC
46525931 CAT
1 CAT
46525934 TTTTTTTTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (26 bp):
CATCTCTAGGTTGCCACAAAGGCTTC
Found at i:46527562 original size:22 final size:22
Alignment explanation
Indices: 46527534--46527607 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
46527524 TACTCTGATC
46527534 TAGCCTTTATGGCACATTCTAT
1 TAGCCTTTATGGCACATTCTAT
* *
46527556 TAGCCTTTGTGG--CATTCTTTT
1 TAGCCTTTATGGCACATTC-TAT
46527577 ATAGCCTTTATGGCACATTCTAT
1 -TAGCCTTTATGGCACATTCTAT
46527600 TAGCCTTT
1 TAGCCTTT
46527608 GTAGCATACT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.11
21 2 0.05
22 30 0.68
23 2 0.05
24 5 0.11
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.45
Consensus pattern (22 bp):
TAGCCTTTATGGCACATTCTAT
Found at i:46530310 original size:204 final size:204
Alignment explanation
Indices: 46529960--46530372 Score: 799
Period size: 204 Copynumber: 2.0 Consensus size: 204
46529950 AAAATGACCA
46529960 ATTTCATTCAACCAATATGCCATAAAGGCACCCTTACATGTGCATATTTAACCATTTATCAACTT
1 ATTTCATTCAACCAATATGCCATAAAGGCACCCTTACATGTGCATATTTAACCATTTATCAACTT
46530025 ACTTGTTTCCATACCAAAACATATCAAAATTGACACACATCATCCATACCATACAAGATTCATGC
66 ACTTGTTTCCATACCAAAACATATCAAAATTGACACACATCATCCATACCATACAAGATTCATGC
46530090 CATCTCAAAATAACCTTACCATTTGGACCACTTCTCACATGTATCAAAACCATCTAAATGACAAA
131 CATCTCAAAATAACCTTACCATTTGGACCACTTCTCACATGTATCAAAACCATCTAAATGACAAA
46530155 AATCTGGCT
196 AATCTGGCT
46530164 ATTTCATTCAACCAATATGCCATAAAGGCACCCTTACATGTGCATATTTAACCATTTATCAACTT
1 ATTTCATTCAACCAATATGCCATAAAGGCACCCTTACATGTGCATATTTAACCATTTATCAACTT
*
46530229 ACTTGTTTCCATACCAAAACATATCAAAATTGACACACATTATCCATACCATACAAGATTCATGC
66 ACTTGTTTCCATACCAAAACATATCAAAATTGACACACATCATCCATACCATACAAGATTCATGC
**
46530294 CATCTCAAAATAACCTTACCATTTGGACCACTTCTCACATGTATCAAAACCATCTAAATGACACC
131 CATCTCAAAATAACCTTACCATTTGGACCACTTCTCACATGTATCAAAACCATCTAAATGACAAA
46530359 AATCTGGCT
196 AATCTGGCT
46530368 ATTTC
1 ATTTC
46530373 CAAATGGTTC
Statistics
Matches: 206, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
204 206 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (204 bp):
ATTTCATTCAACCAATATGCCATAAAGGCACCCTTACATGTGCATATTTAACCATTTATCAACTT
ACTTGTTTCCATACCAAAACATATCAAAATTGACACACATCATCCATACCATACAAGATTCATGC
CATCTCAAAATAACCTTACCATTTGGACCACTTCTCACATGTATCAAAACCATCTAAATGACAAA
AATCTGGCT
Found at i:46530526 original size:65 final size:65
Alignment explanation
Indices: 46530422--46530553 Score: 237
Period size: 65 Copynumber: 2.0 Consensus size: 65
46530412 TGACTCATGC
*
46530422 ACATATATTCAAAACCTTTCTAAAGCATACCATAACTTGACCATGTTGTGGTCAATACATCACCT
1 ACATATATTCAAAACCTTTCCAAAGCATACCATAACTTGACCATGTTGTGGTCAATACATCACCT
* *
46530487 ACATATATTCAAAACCTTTCCAAAGCGTACCATAACTTGACCATGTTGTGGTCAATCCATCACCT
1 ACATATATTCAAAACCTTTCCAAAGCATACCATAACTTGACCATGTTGTGGTCAATACATCACCT
46530552 AC
1 AC
46530554 CATTTTAGCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.30
Consensus pattern (65 bp):
ACATATATTCAAAACCTTTCCAAAGCATACCATAACTTGACCATGTTGTGGTCAATACATCACCT
Found at i:46531530 original size:50 final size:49
Alignment explanation
Indices: 46531470--46531565 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 49
46531460 CTTTTTCATA
* *
46531470 ATTTCATGACATAGTTCATTCGAATACATACCTTTCCTTTCCCTTTTATG
1 ATTTCATGACATAGTTCATTCGAACACATACCTTTCATTT-CCTTTTATG
*
46531520 ATTTCATGACATAGTTCATTTGAACACATACCTTTCATTTCCTTTT
1 ATTTCATGACATAGTTCATTCGAACACATACCTTTCATTTCCTTTT
46531566 CCATGCTCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
49 6 0.14
50 37 0.86
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (49 bp):
ATTTCATGACATAGTTCATTCGAACACATACCTTTCATTTCCTTTTATG
Found at i:46535787 original size:28 final size:28
Alignment explanation
Indices: 46535747--46535806 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
46535737 TCTATCTTTC
46535747 TTTTTTTTCCTCATTTTATGTACTATCT
1 TTTTTTTTCCTCATTTTATGTACTATCT
46535775 TTTTTTTTCCTCATTTTATGTACTATCT
1 TTTTTTTTCCTCATTTTATGTACTATCT
46535803 TTTT
1 TTTT
46535807 ATTCATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.13, C:0.17, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTTTTTCCTCATTTTATGTACTATCT
Found at i:46535812 original size:24 final size:26
Alignment explanation
Indices: 46535745--46535815 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 26
46535735 ATTCTATCTT
*
46535745 TCTTTTTTTTCCTCATTTTATGTACTA
1 TCTTTTTTAT-CTCATTTTATGTACTA
*
46535772 TCTTTTTTTTTCCTCATTTTATGTACTA
1 TC-TTTTTTAT-CTCATTTTATGTACTA
46535800 TC-TTTTTAT-TCATTTT
1 TCTTTTTTATCTCATTTT
46535816 TATGAATCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
24 7 0.17
26 6 0.14
27 2 0.05
28 27 0.64
ACGTcount: A:0.14, C:0.17, G:0.03, T:0.66
Consensus pattern (26 bp):
TCTTTTTTATCTCATTTTATGTACTA
Found at i:46536872 original size:27 final size:27
Alignment explanation
Indices: 46536835--46537102 Score: 230
Period size: 27 Copynumber: 9.9 Consensus size: 27
46536825 AGGGAAATTA
46536835 ATTC-GCCACAAAGG-TTGTTCTTTCAT
1 ATTCTGCCACAAAGGCTT-TTCTTTCAT
46536861 ATTCTGCCACAAAGGCTTTTCTTTCAT
1 ATTCTGCCACAAAGGCTTTTCTTTCAT
*
46536888 ATTCTGTCACAAAGG-TTTTCCTTTCAT
1 ATTCTGCCACAAAGGCTTTT-CTTTCAT
*
46536915 ATATC-GCCACAAAGGCTTTTCTTTCAAG
1 AT-TCTGCCACAAAGGCTTTTCTTTC-AT
*** *
46536943 ATTC-GTTGCAAAGGCGTTTCTTTCAT
1 ATTCTGCCACAAAGGCTTTTCTTTCAT
* * * **
46536969 ATTTTGCCACAAATGATTTTCTTAAAT
1 ATTCTGCCACAAAGGCTTTTCTTTCAT
*
46536996 CTT-TCGCCACAAAGGCTTTTCTTTCAT
1 ATTCT-GCCACAAAGGCTTTTCTTTCAT
* *
46537023 ATT-TCCCCACAAAGGCTTTCCTTTCAT
1 ATTCT-GCCACAAAGGCTTTTCTTTCAT
* * * *
46537050 ATTTTGCCATAATGG-TTTTACTTTTTAT
1 ATTCTGCCACAAAGGCTTTT-C-TTTCAT
46537078 GATTC-GCCACAAAGGCTTTTCTTTC
1 -ATTCTGCCACAAAGGCTTTTCTTTC
46537103 CTAACGTGTT
Statistics
Matches: 195, Mismatches: 34, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
26 16 0.08
27 146 0.75
28 26 0.13
29 7 0.04
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (27 bp):
ATTCTGCCACAAAGGCTTTTCTTTCAT
Found at i:46536980 original size:81 final size:78
Alignment explanation
Indices: 46536837--46537102 Score: 259
Period size: 81 Copynumber: 3.3 Consensus size: 78
46536827 GGAAATTAAT
* * *
46536837 TCGCCACAAAGG-TTGTTCTTTCAT-ATTCTGCCACAAAGGCTTTTCTTTCATATTCTGTCACAA
1 TCGCCACAAAGGCTT-TTCTTTCATAATTC-CCCACAAAGGC-TTTCTTTCATATTTTGCCACAA
46536900 AGGTTTTCCTTTCATATA
63 AGGTTTT-CTTT-ATATA
****
46536918 TCGCCACAAAGGCTTTTCTTTCA-AGATTCGTTGCAAAGGCGTTTCTTTCATATTTTGCCACAAA
1 TCGCCACAAAGGCTTTTCTTTCATA-ATTCCCCACAAAGGC-TTTCTTTCATATTTTGCCACAAA
* * * *
46536982 TGATTTTCTTAAATCTT
64 -GGTTTTCTT-TATATA
* * *
46536999 TCGCCACAAAGGCTTTTCTTTCATATTTCCCCACAAAGGCTTTCCTTTCATATTTTGCCATAATG
1 TCGCCACAAAGGCTTTTCTTTCATAATTCCCCACAAAGGCTTT-CTTTCATATTTTGCCACAAAG
*
46537064 GTTTTACTTTTTATGA
65 GTTTT-CTTTATAT-A
46537080 TTCGCCACAAAGGCTTTTCTTTC
1 -TCGCCACAAAGGCTTTTCTTTC
46537103 CTAACGTGTT
Statistics
Matches: 153, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
80 10 0.07
81 109 0.71
82 34 0.22
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (78 bp):
TCGCCACAAAGGCTTTTCTTTCATAATTCCCCACAAAGGCTTTCTTTCATATTTTGCCACAAAGG
TTTTCTTTATATA
Found at i:46549419 original size:15 final size:15
Alignment explanation
Indices: 46549399--46549433 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
46549389 TAGATTAATT
46549399 ATATTTCTTAACTTA
1 ATATTTCTTAACTTA
46549414 ATATTTCTTAACTTA
1 ATATTTCTTAACTTA
46549429 ATATT
1 ATATT
46549434 AAAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTCTTAACTTA
Found at i:46549940 original size:44 final size:44
Alignment explanation
Indices: 46549892--46549978 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
46549882 TTTCAACACG
*
46549892 ATTTAATAATTAATTCATTAGTTACCTTACAACGATAATGCAAT
1 ATTTAATAATTAATTCATTAGTTACCTTACAACAATAATGCAAT
46549936 ATTTAATAATTAATTCATTAGTTACCTTACAACAATAATGCAA
1 ATTTAATAATTAATTCATTAGTTACCTTACAACAATAATGCAA
46549979 GATTAACTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38
Consensus pattern (44 bp):
ATTTAATAATTAATTCATTAGTTACCTTACAACAATAATGCAAT
Found at i:46550812 original size:21 final size:22
Alignment explanation
Indices: 46550788--46550832 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
46550778 TATTTAACCC
*
46550788 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
46550809 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
46550831 AA
1 AA
46550833 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:46550972 original size:10 final size:10
Alignment explanation
Indices: 46550957--46551006 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
46550947 GAATCTATCG
46550957 AAAATTAATC
1 AAAATTAATC
46550967 AAAATTAATC
1 AAAATTAATC
46550977 AAAATTTATTAT-
1 AAAA-TTA--ATC
*
46550989 AAAATTAATT
1 AAAATTAATC
46550999 AAAATTAA
1 AAAATTAA
46551007 ATATGTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.06
10 22 0.61
11 6 0.17
12 4 0.11
13 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTAATC
Found at i:46554066 original size:22 final size:22
Alignment explanation
Indices: 46554041--46554082 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
46554031 TATAAAGTTG
46554041 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
46554060 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
46554082 A
1 A
46554083 GTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:46554069 original size:16 final size:15
Alignment explanation
Indices: 46554044--46554077 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
46554034 AAAGTTGATA
*
46554044 ATAATTAATATATATT
1 ATAATAAATATA-ATT
46554060 ATAATAAATATAATT
1 ATAATAAATATAATT
46554075 ATA
1 ATA
46554078 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:46559748 original size:37 final size:37
Alignment explanation
Indices: 46559698--46559769 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
46559688 GCAAGTGTAT
46559698 ACAATCACAACACATAATAAAGTGACAAGAAAATGAC
1 ACAATCACAACACATAATAAAGTGACAAGAAAATGAC
*
46559735 ACAATCGCAACACATAATAAAGTGACAAGAAAATG
1 ACAATCACAACACATAATAAAGTGACAAGAAAATG
46559770 TCGAGTTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.14
Consensus pattern (37 bp):
ACAATCACAACACATAATAAAGTGACAAGAAAATGAC
Found at i:46568951 original size:61 final size:57
Alignment explanation
Indices: 46568844--46568974 Score: 181
Period size: 61 Copynumber: 2.2 Consensus size: 57
46568834 ATCACTTTAA
* * *
46568844 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATT
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAA-C
*
46568902 TATTAAATTAATAGAATAGTTATCTACAAGATAAATATTAAATTAAATTTAATATTAAAC
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTTAATATTAAAC
*
46568962 TATTAAAATAATA
1 TATTAAATTAATA
46568975 TTATTTTTAG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
58 20 0.31
60 13 0.20
61 32 0.49
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (57 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAAC
Found at i:46574643 original size:2 final size:2
Alignment explanation
Indices: 46574636--46574666 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
46574626 TTCTTTATTT
46574636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46574667 TTACTTCCCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46575229 original size:29 final size:30
Alignment explanation
Indices: 46575169--46575233 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
46575159 TTCATATTAC
* **
46575169 TTGTTTTATACTTTTATATATATACATTAT
1 TTGTTTTATACTTATATATATATACACCAT
*
46575199 TTGTTTTAT-CTTATATATATATATACCAT
1 TTGTTTTATACTTATATATATATACACCAT
46575228 TT-TTTT
1 TTGTTTT
46575234 GTGTACATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 4 0.13
29 18 0.58
30 9 0.29
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (30 bp):
TTGTTTTATACTTATATATATATACACCAT
Found at i:46579881 original size:32 final size:32
Alignment explanation
Indices: 46579844--46579917 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
46579834 AAAATCTCGG
* *
46579844 GATTCTTGGGACATTTAAAAAATAAGGACCGC
1 GATTCTTGGGACATCTAAAAAATAAGGACCGA
* * *
46579876 GATTCTTGGGATATCTAAAACATGAGGACCGA
1 GATTCTTGGGACATCTAAAAAATAAGGACCGA
46579908 GATTCTTGGG
1 GATTCTTGGG
46579918 TTTTAAAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (32 bp):
GATTCTTGGGACATCTAAAAAATAAGGACCGA
Found at i:46591040 original size:7 final size:7
Alignment explanation
Indices: 46591007--46591031 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46590997 TATTATTTTA
46591007 ATTTAAT
1 ATTTAAT
46591014 ATTTAAT
1 ATTTAAT
46591021 ATTTAAT
1 ATTTAAT
46591028 ATTT
1 ATTT
46591032 TTATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTAAT
Found at i:46591191 original size:15 final size:14
Alignment explanation
Indices: 46591159--46591197 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
46591149 TTTATGAATT
46591159 AAATAATAT-ATAA
1 AAATAATATAATAA
46591172 AAATAATATAATATA
1 AAATAATATAATA-A
*
46591187 AAATATTATAA
1 AAATAATATAA
46591198 ACTTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATATAATAA
Found at i:46593562 original size:23 final size:23
Alignment explanation
Indices: 46593531--46593574 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46593521 TAACTTTTTT
**
46593531 TATAATTTTTATGATTTTAAATA
1 TATAATTTTTAAAATTTTAAATA
*
46593554 TATATTTTTTAAAATTTTAAA
1 TATAATTTTTAAAATTTTAAA
46593575 GGGGTTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TATAATTTTTAAAATTTTAAATA
Found at i:46594243 original size:12 final size:13
Alignment explanation
Indices: 46594226--46594254 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46594216 CTCCATTCGG
46594226 TTTCTATTTTT-T
1 TTTCTATTTTTAT
46594238 TTTCTATTTTTAT
1 TTTCTATTTTTAT
46594251 TTTC
1 TTTC
46594255 AGAAAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTATTTTTAT
Found at i:46599312 original size:17 final size:17
Alignment explanation
Indices: 46599283--46599316 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
46599273 CTTTTCATGC
46599283 AAGTGAAAATAAAAAAA
1 AAGTGAAAATAAAAAAA
46599300 AAGT-AAAAGTAAAAAAA
1 AAGTGAAAA-TAAAAAAA
46599317 TGAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAGTGAAAATAAAAAAA
Found at i:46601666 original size:32 final size:32
Alignment explanation
Indices: 46601623--46601729 Score: 160
Period size: 32 Copynumber: 3.3 Consensus size: 32
46601613 TTTATATATT
* * * *
46601623 TTATCAGGGTTCTTTAGACAAGGGTTATATAC
1 TTATCAGGGTTCCTCAAACAAGGGTCATATAC
*
46601655 TTATCAAGGTTCCTCAAACAAGGGTCATATAC
1 TTATCAGGGTTCCTCAAACAAGGGTCATATAC
46601687 TTATCAGGGTTCCTCAAACAAGGGTCATATAC
1 TTATCAGGGTTCCTCAAACAAGGGTCATATAC
*
46601719 TTATCATGGTT
1 TTATCAGGGTT
46601730 TGTAAACACA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
TTATCAGGGTTCCTCAAACAAGGGTCATATAC
Found at i:46601971 original size:22 final size:23
Alignment explanation
Indices: 46601938--46601989 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
46601928 ATAATTAATC
*
46601938 AATAATCAATCAATCAATCAAGT
1 AATAATCAATCAACCAATCAAGT
46601961 AATAA-CAATCAACCAATCAAGT
1 AATAATCAATCAACCAATCAAGT
46601983 AATAATC
1 AATAATC
46601990 TACATAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.23
Consensus pattern (23 bp):
AATAATCAATCAACCAATCAAGT
Found at i:46604732 original size:43 final size:43
Alignment explanation
Indices: 46604625--46604739 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
46604615 GGTTTCGTCG
* *
46604625 ACAACCTACATGGTAGCTTGTCTGGAAATTTTGGGGTTTATCC
1 ACAACCTACATGGCAGCTTGTCTGCAAATTTTGGGGTTTATCC
* * * ** * *
46604668 CCAACTTATATGGCAATTTGTCTACAAATTTTGTGGTTTATCC
1 ACAACCTACATGGCAGCTTGTCTGCAAATTTTGGGGTTTATCC
*
46604711 ACAACCTACATGACAGCTTGTCTGCAAAT
1 ACAACCTACATGGCAGCTTGTCTGCAAAT
46604740 ATTAATGGCT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (43 bp):
ACAACCTACATGGCAGCTTGTCTGCAAATTTTGGGGTTTATCC
Found at i:46618708 original size:16 final size:15
Alignment explanation
Indices: 46618671--46618706 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46618661 ATCAATCCAA
*
46618671 ATTTTCCTATATGTT
1 ATTTTTCTATATGTT
*
46618686 ATTTTTCTATTTGTT
1 ATTTTTCTATATGTT
46618701 ATTTTT
1 ATTTTT
46618707 TCGTCTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.08, G:0.06, T:0.69
Consensus pattern (15 bp):
ATTTTTCTATATGTT
Found at i:46619493 original size:44 final size:44
Alignment explanation
Indices: 46619427--46619877 Score: 284
Period size: 44 Copynumber: 9.8 Consensus size: 44
46619417 CTTTTGTTTT
* *
46619427 AATCCGCTCCACTGGAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * * * *
46619471 AATCTGCTCCGCTGTAAGCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * * * * *
46619515 GATCTGATGCAATCTACTCTACTGTAA-CTTCAGAGAGATA--ATATCCTTTGTTTT
1 AATC---TG----CT-C-C-ACTGTAATC-TCAGGGAGATAGGAT-TAC-TAGCTTC
*
46619569 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * * * *
46619613 AATCTGCTCCGCTGTAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * * * * * *
46619657 GATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-TCCTTTGTTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAGGATTAC-TAGCTTC
* *
46619711 AATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
*
46619755 AATCTGCTCCGCTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * * * *
46619799 AATCTGCTCCGCTGTGATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
* * * *
46619843 AGTCTGC-CCTACTGTGACCTCAGAGAGATAGGATT
1 AATCTGCTCC-ACTGTAATCTCAGGGAGATAGGATT
46619878 GATTTCTTCT
Statistics
Matches: 320, Mismatches: 56, Indels: 62
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 233 0.73
45 7 0.02
46 4 0.01
47 7 0.02
49 2 0.01
51 5 0.02
52 4 0.01
53 8 0.03
54 48 0.15
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
Found at i:46619624 original size:142 final size:142
Alignment explanation
Indices: 46619368--46619804 Score: 730
Period size: 142 Copynumber: 3.1 Consensus size: 142
46619358 TGCTGTTGTA
* * * * *
46619368 GCTTCAATCTAATGCGATCTACTCTGCTGTAACTTTAGAAAGATAAGATCTTTTGTTTTAATCCG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCG
* *
46619433 CTCCACTGGAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAGCTCAGGGAG
66 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
46619498 ATAAGATTTCTG
131 ATAAGATTTCTG
* * *
46619510 GCTTCGATCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTTGTTTTAATCCG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCG
*
46619575 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAG
66 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
46619640 ATAAGATTTCTG
131 ATAAGATTTCTG
*
46619652 GCTTCGATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCG
*
46619717 CTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
66 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
* * *
46619782 ATAGGATTACTA
131 ATAAGATTTCTG
46619794 GCTTCAATCTG
1 GCTTCAATCTG
46619805 CTCCGCTGTG
Statistics
Matches: 276, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 276 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (142 bp):
GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCG
CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATTTCTG
Found at i:46619986 original size:44 final size:44
Alignment explanation
Indices: 46619889--46619988 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 44
46619879 ATTTCTTCTG
* * *
46619889 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTAATTTCCAA
1 TCTGCTTCACTGCTGCTTAGGGACATAAGACTTGTAATTTCCAA
** * * **
46619933 TCTATTTCACTGCTGGTTAGGGACATAGGACTTGTAATATT-TGA
1 TCTGCTTCACTGCTGCTTAGGGACATAAGACTTGTAAT-TTCCAA
46619977 TCTGCTTCACTG
1 TCTGCTTCACTG
46619989 TCGACGCAGG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (44 bp):
TCTGCTTCACTGCTGCTTAGGGACATAAGACTTGTAATTTCCAA
Found at i:46623572 original size:24 final size:24
Alignment explanation
Indices: 46623545--46623594 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
46623535 CTAGGCGGTG
46623545 ATAGTATTGGAGCATTAGCCAAGT
1 ATAGTATTGGAGCATTAGCCAAGT
46623569 ATAGTATTGGAGCATTAGCCAAGT
1 ATAGTATTGGAGCATTAGCCAAGT
46623593 AT
1 AT
46623595 TGTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (24 bp):
ATAGTATTGGAGCATTAGCCAAGT
Found at i:46632380 original size:20 final size:19
Alignment explanation
Indices: 46632336--46632385 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
46632326 TATGTATTTT
* *
46632336 TTAAATAATATTGATACAT
1 TTAAAAAATATTGATACAA
*
46632355 TTAAAACATATTGATAACAA
1 TTAAAAAATATTGAT-ACAA
46632375 TTAAAAAATAT
1 TTAAAAAATAT
46632386 ATTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAAAATATTGATACAA
Found at i:46641375 original size:103 final size:103
Alignment explanation
Indices: 46641196--46641401 Score: 333
Period size: 103 Copynumber: 2.0 Consensus size: 103
46641186 GTGTAAAACT
46641196 TAATCGCTTTTGAATTTACCTAAGTCCAACACTTGTTGCGGACTATCGTGTTATATTTATAGTGC
1 TAATCGCTTTTGAATTTACCTAAGTCCAACACTTGTTGCGGACTATCGTGTTATATTTATAGTGC
46641261 TTCTGGTGTGTTATCGGAGGCAGAGGTAAAGCCTTCGG
66 TTCTGGTGTGTTATCGGAGGCAGAGGTAAAGCCTTCGG
* * * * *
46641299 TAATCGCTTTTGAATTTA-TTGAAGTCTAGCATTTGTTGCGGGCTATCGTGTTATATTTATAGTG
1 TAATCGCTTTTGAATTTACCT-AAGTCCAACACTTGTTGCGGACTATCGTGTTATATTTATAGTG
* *
46641363 CTTCTGGTGTGTTATTGGGGGCAGAGGTAAAGCCTTCGG
65 CTTCTGGTGTGTTATCGGAGGCAGAGGTAAAGCCTTCGG
46641402 GATTGGCACT
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 1 0.01
103 94 0.99
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (103 bp):
TAATCGCTTTTGAATTTACCTAAGTCCAACACTTGTTGCGGACTATCGTGTTATATTTATAGTGC
TTCTGGTGTGTTATCGGAGGCAGAGGTAAAGCCTTCGG
Found at i:46642437 original size:17 final size:17
Alignment explanation
Indices: 46642395--46642443 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
46642385 CTTTGAATGC
46642395 AAATT-AATTTGGTATG
1 AAATTGAATTTGGTATG
46642411 AAATTTGAATTTGGT-TG
1 AAA-TTGAATTTGGTATG
46642428 ATAATTGAATTGTGGT
1 A-AATTGAATT-TGGT
46642444 GTCAATGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
18 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (17 bp):
AAATTGAATTTGGTATG
Found at i:46645920 original size:21 final size:23
Alignment explanation
Indices: 46645887--46645934 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
46645877 AATAAAATAA
46645887 TAAATTGAAATTTATTT-AAAAT
1 TAAATTGAAATTTATTTAAAAAT
46645909 TAAATT-AAATTTATTTAAAAAT
1 TAAATTGAAATTTATTTAAAAAT
46645931 TAAA
1 TAAA
46645935 ATATATAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATTGAAATTTATTTAAAAAT
Found at i:46647237 original size:13 final size:15
Alignment explanation
Indices: 46647209--46647240 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
46647199 TTTGGTTCTA
46647209 TTTTGTTTTGTTCCT
1 TTTTGTTTTGTTCCT
46647224 TTTTG-TTT-TTCCT
1 TTTTGTTTTGTTCCT
46647237 TTTT
1 TTTT
46647241 CCATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.78
Consensus pattern (15 bp):
TTTTGTTTTGTTCCT
Found at i:46647482 original size:20 final size:21
Alignment explanation
Indices: 46647444--46647487 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
46647434 TAGGGTAGAG
*
46647444 AAAAGAGAATAGAGGTTGAGGA
1 AAAAGAAAATAGA-GTTGAGGA
46647466 AAAAGAAAATAGA-TTGAGGA
1 AAAAGAAAATAGAGTTGAGGA
46647486 AA
1 AA
46647488 TGGTACTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.14
Consensus pattern (21 bp):
AAAAGAAAATAGAGTTGAGGA
Found at i:46662790 original size:28 final size:28
Alignment explanation
Indices: 46662751--46662818 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
46662741 TATTCAGTAT
**
46662751 CAGT-ACAGTGTGGGCCTTAGCCTTATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
46662778 CAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
46662806 CAATAACAGTGTG
1 CAGTAACAGTGTG
46662819 ATAATGCAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 4 0.11
28 33 0.89
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:46662966 original size:26 final size:26
Alignment explanation
Indices: 46662913--46662967 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
46662903 AACACTCTAA
*
46662913 TATCGCAACAAAGCTGCCAGTAAAAG
1 TATCGCAACAAAGCTGCCAATAAAAG
* * * *
46662939 TATCGCAGCGAAGCTGCTAATAACAG
1 TATCGCAACAAAGCTGCCAATAAAAG
46662965 TAT
1 TAT
46662968 ATGTGGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCGCAACAAAGCTGCCAATAAAAG
Found at i:46663498 original size:27 final size:27
Alignment explanation
Indices: 46663155--46663500 Score: 340
Period size: 27 Copynumber: 12.9 Consensus size: 27
46663145 GGGTATAATA
**
46663155 GTCATTTTACCCTAT-GGGCATATTTCG
1 GTCATTTTACCCT-TCGGGGGTATTTCG
* * *
46663182 TTCATTTTACCCTTCGGGAGTATTTTG
1 GTCATTTTACCCTTCGGGGGTATTTCG
*
46663209 GTCATTTTACCCTT--TGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * * *
46663234 GTCATTTTACCGTTTGAGAGTATTTCT
1 GTCATTTTACCCTTCGGGGGTATTTCG
* *
46663261 GTTATTTTACCTTTCGGGGGTATTT-G
1 GTCATTTTACCCTTCGGGGGTATTTCG
*
46663287 GTTATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * *
46663314 GTCATTCTACCCTTCAGGAGTATTTCA
1 GTCATTTTACCCTTCGGGGGTATTTCG
*
46663341 GTCATTTTACCCTTCGGAGGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * **
46663368 GTTATTTTACCGTTCAGGGGTATTTTA
1 GTCATTTTACCCTTCGGGGGTATTTCG
* *
46663395 GTCATTTTACCCTTCGAGGGTGTTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* ** *
46663422 GTGATTTTACCCTTTAGGGGTATTTTG
1 GTCATTTTACCCTTCGGGGGTATTTCG
* * * *
46663449 GTTATTTTACCTTTCGAGAGTATTTCG
1 GTCATTTTACCCTTCGGGGGTATTTCG
*
46663476 GTCATTTTACCCTTGGGGGGTATTT
1 GTCATTTTACCCTTCGGGGGTATTT
46663501 TGGGCTTACC
Statistics
Matches: 255, Mismatches: 60, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
25 21 0.08
26 25 0.10
27 209 0.82
ACGTcount: A:0.15, C:0.18, G:0.22, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTTCGGGGGTATTTCG
Found at i:46670456 original size:28 final size:28
Alignment explanation
Indices: 46670416--46670477 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
46670406 GTACCAATGT
* * *
46670416 AGTGTGGTCCTTAGCCCGATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
*
46670444 AGTGTGGGCCTTAGCCCAATACAATAGC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
46670472 AGTGTG
1 AGTGTG
46670478 ATAATGCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAATAAC
Found at i:46670897 original size:81 final size:81
Alignment explanation
Indices: 46670812--46670984 Score: 249
Period size: 81 Copynumber: 2.1 Consensus size: 81
46670802 TAATTCGGGT
* *
46670812 ATTTTACCCTTCGTGGCTATTTCTG-TCATTTTACCCTTTAGGGGTACTTCGGCCATTTTACCCT
1 ATTTTACCCTTCGAGGCTATTTC-GATCATTTTACCCTTTAGGGGTACTTCAGCCATTTTACCCT
46670876 TCGAGGGTATTTCGATC
65 TCGAGGGTATTTCGATC
* * * * *
46670893 ATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCTTT
1 ATTTTACCCTTCGAGGCTATTTCGATCATTTTACCCTTTAGGGGTACTTCAGCCATTTTACCCTT
* *
46670958 CGTGGGTATTTCGGTC
66 CGAGGGTATTTCGATC
46670974 ATTTTACCCTT
1 ATTTTACCCTT
46670985 TGGGGATATT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 81 0.99
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTTCGAGGCTATTTCGATCATTTTACCCTTTAGGGGTACTTCAGCCATTTTACCCTT
CGAGGGTATTTCGATC
Done.