Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 42 of 226
Found at i:17834136 original size:18 final size:18
Alignment explanation
Indices: 17834115--17834173 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
17834105 TTAAAATCAT
17834115 AATTATGAATTAAATTTA
1 AATTATGAATTAAATTTA
* *
17834133 AATT-TTATTTAAAATTTTA
1 AATTATGAATT-AAA-TTTA
17834152 AATTATGAATTAAATTTA
1 AATTATGAATTAAATTTA
17834170 AATT
1 AATT
17834174 CAAAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.12
18 15 0.44
19 11 0.32
20 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTATGAATTAAATTTA
Found at i:17843289 original size:2 final size:2
Alignment explanation
Indices: 17843282--17843313 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17843272 ATACATCCAA
17843282 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17843314 TAATTATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17844156 original size:18 final size:17
Alignment explanation
Indices: 17844128--17844171 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
17844118 ATAATTTATT
17844128 TTTAAAAATACAATTAA
1 TTTAAAAATACAATTAA
* *
17844145 TTTAATAAATACTATTAT
1 TTTAA-AAATACAATTAA
17844163 TTTGAAAAA
1 TTT-AAAAA
17844172 AATTATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 16 0.70
19 2 0.09
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTAAAAATACAATTAA
Found at i:17846248 original size:37 final size:38
Alignment explanation
Indices: 17846171--17846248 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
17846161 ACCTTACAAT
* *
17846171 CTCCCTTAAGATTTCTACCCAAAATCTTAAGATTGCAA
1 CTCCCTTAAGATTTCTACCCAAAACCTTAAGATTGAAA
*
17846209 CTCCCTTAAGGTTTCTACCC-AAACCTTAAGACTT-AAA
1 CTCCCTTAAGATTTCTACCCAAAACCTTAAGA-TTGAAA
17846246 CTC
1 CTC
17846249 TCTCAAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.42
38 21 0.58
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.31
Consensus pattern (38 bp):
CTCCCTTAAGATTTCTACCCAAAACCTTAAGATTGAAA
Found at i:17846654 original size:30 final size:30
Alignment explanation
Indices: 17846593--17846654 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
17846583 TGGTACTATT
* *
17846593 AACATTTAATGTCTGATTCAGTGATCGTTA
1 AACATTTAATGTCTGATTCAGTGACCATTA
17846623 AACATTTAATGTCTGATTCAGTGACCATTA
1 AACATTTAATGTCTGATTCAGTGACCATTA
17846653 AA
1 AA
17846655 GTTAGTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (30 bp):
AACATTTAATGTCTGATTCAGTGACCATTA
Found at i:17858511 original size:102 final size:102
Alignment explanation
Indices: 17858335--17858540 Score: 394
Period size: 102 Copynumber: 2.0 Consensus size: 102
17858325 AAACAATTTA
17858335 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
1 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
*
17858400 TAGCCCTAGCATGGTTAGGTATTAGAATTGCTTTTTC
66 TAGCCCTAGCATGGTTAGGTATTAGAAGTGCTTTTTC
17858437 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
1 CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
*
17858502 TAGCCCTAGCATGGTTAGGTATTAGAGGTGCTTTTTC
66 TAGCCCTAGCATGGTTAGGTATTAGAAGTGCTTTTTC
17858539 CA
1 CA
17858541 TATGTGTGCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (102 bp):
CAAACTTAATTGAGTCCAATTTGGCAAAGTTTAAATGTTTCTTGTCCTTGTTAACTCGAGATTTC
TAGCCCTAGCATGGTTAGGTATTAGAAGTGCTTTTTC
Found at i:17869155 original size:12 final size:12
Alignment explanation
Indices: 17869138--17869162 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17869128 TTACTAACAT
17869138 AAAAAAAAAAAG
1 AAAAAAAAAAAG
17869150 AAAAAAAAAAAG
1 AAAAAAAAAAAG
17869162 A
1 A
17869163 TCACTTCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:17869394 original size:118 final size:115
Alignment explanation
Indices: 17869207--17869548 Score: 556
Period size: 118 Copynumber: 3.0 Consensus size: 115
17869197 TTTTTATATT
17869207 TTTCTCTCAGCACTCTACAATTTTTA-TTTTTTTTACTTATTATTAATAATTATTATTTTAAAAA
1 TTTCTCTCAGCACTCTACAATTTTTATTTTTTTTTACTTATTATTAATAATTATTA-TTTAAAAA
*
17869271 ATTAAAATT-TTCTTTTTGGTGTTTCATAAGACTACTTTATAATAATAAAAAA
65 ATT-AAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAA-AAAAAA
*
17869323 TTTCTCTCAGCACTCTGCAATTTTTATTTTTATTTTACTTATTATTAATAATTATTATTTAAAAA
1 TTTCTCTCAGCACTCTACAATTTTTATTTTT-TTTTACTTATTATTAATAATTATTATTTAAAAA
17869388 ATTTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAAT-AAAAAAA
65 A-TTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAAA
17869439 TATTCTCTCAGCACTCTACAA-----ATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAA
1 T-TTCTCTCAGCACTCTACAATTTTTATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAA
17869499 ATTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAA
65 ATTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAA
17869549 TAACAATTTA
Statistics
Matches: 217, Mismatches: 3, Indels: 17
0.92 0.01 0.07
Matches are distributed among these distances:
110 42 0.19
111 40 0.18
112 6 0.03
116 32 0.15
117 37 0.17
118 60 0.28
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (115 bp):
TTTCTCTCAGCACTCTACAATTTTTATTTTTTTTTACTTATTATTAATAATTATTATTTAAAAAA
TTAAATTGTTCTTTTTGGTGTTTCATAAGACTACTTTCTAATAAAAAAAA
Found at i:17884089 original size:12 final size:12
Alignment explanation
Indices: 17884072--17884096 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17884062 AAAAATTAAT
17884072 TTTAATTATTCA
1 TTTAATTATTCA
17884084 TTTAATTATTCA
1 TTTAATTATTCA
17884096 T
1 T
17884097 CTTTTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATTATTCA
Found at i:17884881 original size:16 final size:17
Alignment explanation
Indices: 17884860--17884911 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
17884850 TATTTTCTAA
17884860 ATATAA-TAATGTATAT
1 ATATAACTAATGTATAT
*
17884876 ATATAATTAA-GTATAT
1 ATATAACTAATGTATAT
17884892 ATA-AACTAATTGTA-AT
1 ATATAACTAA-TGTATAT
17884908 ATAT
1 ATAT
17884912 TAAAATTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.16
16 20 0.65
17 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (17 bp):
ATATAACTAATGTATAT
Found at i:17885050 original size:35 final size:36
Alignment explanation
Indices: 17884998--17885072 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
17884988 TGAAAATTTA
17884998 TTTATTTATAATTTTAAT-ATTATTAATATGAT-ATT
1 TTTATTTATAATTTTAATAATT-TTAATATGATAATT
* *
17885033 TTTATTT-TATTTCTTAATAATTTTAATATGTTAATT
1 TTTATTTATAATT-TTAATAATTTTAATATGATAATT
17885069 TTTA
1 TTTA
17885073 ATAAAATAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 4 0.11
35 21 0.60
36 10 0.29
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (36 bp):
TTTATTTATAATTTTAATAATTTTAATATGATAATT
Found at i:17885164 original size:16 final size:16
Alignment explanation
Indices: 17885143--17885181 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
17885133 GTTTGGTTTA
*
17885143 CTGTAATAGAATAGAG
1 CTGTAATAGAATAAAG
*
17885159 CTGTAATGGAATAAAG
1 CTGTAATAGAATAAAG
17885175 CTGTAAT
1 CTGTAAT
17885182 CAGTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAATAAAG
Found at i:17889773 original size:21 final size:22
Alignment explanation
Indices: 17889714--17889777 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
17889704 CAGAAGCAGT
* *
17889714 ATACAACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
** *
17889736 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
17889756 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
17889778 TCGGCAAAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:17895629 original size:12 final size:12
Alignment explanation
Indices: 17895602--17895631 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17895592 CATAAAATAT
*
17895602 TTTAACAATAAA
1 TTTAAAAATAAA
17895614 TTTAAAAATAAA
1 TTTAAAAATAAA
17895626 TTTAAA
1 TTTAAA
17895632 TATTTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
TTTAAAAATAAA
Found at i:17897930 original size:137 final size:137
Alignment explanation
Indices: 17897768--17898042 Score: 514
Period size: 137 Copynumber: 2.0 Consensus size: 137
17897758 TGGCATTCTC
17897768 TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
1 TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
* * **
17897833 TTTGTGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTTTAGTTCTCTTC
66 CTTGAGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTACAGTTCTCTTC
17897898 TATTTTA
131 TATTTTA
17897905 TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
1 TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
17897970 CTTGAGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTACAGTTCTCTTC
66 CTTGAGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTACAGTTCTCTTC
17898035 TATTTTA
131 TATTTTA
17898042 T
1 T
17898043 GTGTGAAATT
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (137 bp):
TACTCTCAATTAATTGTTGCTTGGTATGACTTTTAGACCTTTAGCAAAGTGCTTATATGAATATC
CTTGAGAGCATCTATTTTATCTTTCTACATTGTGGAAGTATTAGAAGAATTTTACAGTTCTCTTC
TATTTTA
Found at i:17905334 original size:18 final size:18
Alignment explanation
Indices: 17905313--17905352 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17905303 CGAAGTGTTG
* *
17905313 GAGGATGATGGTGATGAT
1 GAGGACGATGGCGATGAT
17905331 GAGGACGATGGCGATGAT
1 GAGGACGATGGCGATGAT
17905349 GAGG
1 GAGG
17905353 GTGGTGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.47, T:0.20
Consensus pattern (18 bp):
GAGGACGATGGCGATGAT
Found at i:17912772 original size:32 final size:33
Alignment explanation
Indices: 17912731--17912798 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
17912721 TTTAAATTTG
17912731 ATAAATCTACTTTTTTATAC-TTTTCTAATGTT
1 ATAAATCTACTTTTTTATACTTTTTCTAATGTT
*
17912763 ATAAATCTACTTTTTTATACTTTTTTTAATGTT
1 ATAAATCTACTTTTTTATACTTTTTCTAATGTT
17912796 ATA
1 ATA
17912799 TTAAACCTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.57
Consensus pattern (33 bp):
ATAAATCTACTTTTTTATACTTTTTCTAATGTT
Found at i:17914617 original size:19 final size:20
Alignment explanation
Indices: 17914586--17914631 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
17914576 GACAAACTAT
*
17914586 ATATTATAATATATATTTTA
1 ATATTATAATATAGATTTTA
17914606 ATATTA-AATATAGATTTTA
1 ATATTATAATATAGATTTTA
*
17914625 ATGTTAT
1 ATATTAT
17914632 TTAAATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
ATATTATAATATAGATTTTA
Found at i:17915376 original size:8 final size:9
Alignment explanation
Indices: 17915243--17915396 Score: 89
Period size: 10 Copynumber: 16.1 Consensus size: 9
17915233 TCATGAATTT
17915243 AATTATAAA
1 AATTATAAA
17915252 AATTATAAA
1 AATTATAAA
*
17915261 AAGTCATAAAA
1 AA-TTAT-AAA
17915272 AATTATCAAA
1 AATTAT-AAA
**
17915282 AACCATATAA
1 AATTATA-AA
17915292 AATTATAAA
1 AATTATAAA
* *
17915301 TAATCAGATAA
1 -AATTATA-AA
17915312 AATTATCAAA
1 AATTAT-AAA
* *
17915322 AATAATAAT
1 AATTATAAA
17915331 AATTACT--A
1 AATTA-TAAA
*
17915339 AA-TATGAA
1 AATTATAAA
*
17915347 ATTTGATATAA
1 AATT-ATA-AA
*
17915358 ACTTATAAA
1 AATTATAAA
17915367 AATTATAAA
1 AATTATAAA
17915376 ATATTATAAA
1 A-ATTATAAA
17915386 ATATTATAAA
1 A-ATTATAAA
17915396 A
1 A
17915397 GATATAAATA
Statistics
Matches: 113, Mismatches: 19, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
6 1 0.01
7 2 0.02
8 4 0.04
9 32 0.28
10 61 0.54
11 13 0.12
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:17915402 original size:19 final size:19
Alignment explanation
Indices: 17915360--17915404 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
17915350 TGATATAAAC
*
17915360 TTATAAAAATTATAAAATA
1 TTATAAAAATTATAAAAGA
17915379 TTATAAAATATTATAAAAGA
1 TTATAAAA-ATTATAAAAGA
17915399 -TATAAA
1 TTATAAA
17915405 TAAGTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TTATAAAAATTATAAAAGA
Found at i:17915693 original size:19 final size:18
Alignment explanation
Indices: 17915669--17915706 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
17915659 GGTTGAATCG
17915669 ATTTTTTTAATATGTTTTT
1 ATTTTTTTAATAT-TTTTT
*
17915688 ATTTTTTTATTATTTTTT
1 ATTTTTTTAATATTTTTT
17915706 A
1 A
17915707 ACATTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
ATTTTTTTAATATTTTTT
Found at i:17930927 original size:1 final size:1
Alignment explanation
Indices: 17930921--17931007 Score: 57
Period size: 1 Copynumber: 87.0 Consensus size: 1
17930911 AATTCAATCC
* * * * * * * * **
17930921 AAAAAAAAAAAAAACAACAACAAAAACAAAAAAACAAAAAAAATAAAAAAAGAACAAAAACCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
17930986 AACAAAAAAAGAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
17931008 TCTCTACCGG
Statistics
Matches: 62, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:17930951 original size:17 final size:17
Alignment explanation
Indices: 17930924--17931007 Score: 80
Period size: 17 Copynumber: 4.8 Consensus size: 17
17930914 TCAATCCAAA
*
17930924 AAAAAAAAAAACAACAAC
1 AAAAACAAAAA-AACAAC
*
17930942 AAAAACAAAAAAACAAA
1 AAAAACAAAAAAACAAC
* *
17930959 AAAAATAAAAAAAGAAC
1 AAAAACAAAAAAACAAC
*
17930976 AAAAACCAAAAACAA-AAA
1 AAAAA-CAAAAA-AACAAC
17930994 AAGAAACAAAAAAA
1 AA-AAACAAAAAAA
17931008 TCTCTACCGG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
17 26 0.46
18 25 0.45
19 5 0.09
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.01
Consensus pattern (17 bp):
AAAAACAAAAAAACAAC
Found at i:17930977 original size:34 final size:34
Alignment explanation
Indices: 17930920--17931004 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 34
17930910 AAATTCAATC
17930920 CAAAAAAAAAAAAAACAACAACAAAAACAAAAAAA
1 CAAAAAAAAAAAAAACAACAACAAAAAC-AAAAAA
* * *
17930955 CAAAAAAAATAAAAA-AAGAACAAAAACCAAAAA
1 CAAAAAAAAAAAAAACAACAACAAAAACAAAAAA
17930988 CAAAAAAAGAAACAAAA
1 CAAAAAAA-AAA-AAAA
17931005 AAATCTCTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
33 13 0.30
34 13 0.30
35 18 0.41
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (34 bp):
CAAAAAAAAAAAAAACAACAACAAAAACAAAAAA
Found at i:17931005 original size:34 final size:33
Alignment explanation
Indices: 17930922--17931005 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 33
17930912 ATTCAATCCA
17930922 AAAAAAAAAAAAACAACAACAAAAACAAAAAAAC
1 AAAAAAAAAAAAA-AACAACAAAAACAAAAAAAC
* *
17930956 AAAAAAAATAAAAAAAGAACAAAAAC-CAAAAAC
1 AAAAAAAA-AAAAAAACAACAAAAACAAAAAAAC
17930989 AAAAAAAGAAACAAAAA
1 AAAAAAA-AAA-AAAAA
17931006 AATCTCTACC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 15 0.33
34 25 0.56
35 5 0.11
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.01
Consensus pattern (33 bp):
AAAAAAAAAAAAAAACAACAAAAACAAAAAAAC
Found at i:17931526 original size:7 final size:7
Alignment explanation
Indices: 17931514--17931565 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
17931504 GAAAAATATG
17931514 TGAAAAA
1 TGAAAAA
17931521 TG-AAAA
1 TGAAAAA
*
17931527 TAAAAAAA
1 T-GAAAAA
17931535 TGAAAAA
1 TGAAAAA
17931542 TGAAAAA
1 TGAAAAA
17931549 TGGAAACAA
1 T-GAAA-AA
17931558 T-AAAAA
1 TGAAAAA
17931564 TG
1 TG
17931566 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 8 0.21
7 18 0.47
8 9 0.24
9 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:17931547 original size:14 final size:14
Alignment explanation
Indices: 17931514--17931565 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
17931504 GAAAAATATG
17931514 TGAAAAATG-AAAA
1 TGAAAAATGAAAAA
*
17931527 TAAAAAAATGAAAAA
1 T-GAAAAATGAAAAA
17931542 TGAAAAATGGAAACAA
1 TGAAAAAT-GAAA-AA
17931558 T-AAAAATG
1 TGAAAAATG
17931566 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 1 0.03
14 14 0.42
15 15 0.45
16 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.15
Consensus pattern (14 bp):
TGAAAAATGAAAAA
Found at i:17932928 original size:50 final size:50
Alignment explanation
Indices: 17932874--17933032 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 50
17932864 GCAGTGGAGC
*
17932874 AGATTGAAGTCACAACGGCAGATCTAGTTTCCCTGACAGTGCAATTAAAA
1 AGATTGAAGTCACAACGGCGGATCTAGTTTCCCTGACAGTGCAATTAAAA
* * * * * * ** **
17932924 AGATTGAAGCCACAACGGCGGATCTTA-CTTCTCTTG-CGGTACAGTGGAGC
1 AGATTGAAGTCACAACGGCGGATC-TAGTTTC-CCTGACAGTGCAATTAAAA
* * * * *
17932974 AGATTGAAGTCACAACAGCGGATCTGGTTTCCCCGACAGCGTAATTAAAA
1 AGATTGAAGTCACAACGGCGGATCTAGTTTCCCTGACAGTGCAATTAAAA
17933024 AGATTGAAG
1 AGATTGAAG
17933033 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
49 3 0.04
50 71 0.90
51 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (50 bp):
AGATTGAAGTCACAACGGCGGATCTAGTTTCCCTGACAGTGCAATTAAAA
Found at i:17933235 original size:50 final size:50
Alignment explanation
Indices: 17933171--17933445 Score: 207
Period size: 50 Copynumber: 5.5 Consensus size: 50
17933161 CGCAATTAAA
* *
17933171 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGAGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCAGATCTTAGTTCCCTGGAGGTGCAGTGGAAC
* * * * * * * * *
17933221 AGATTGAAGTCACAACGGCAGATC-TGGTTTCGTCGACAGTGCAAT-TAAA
1 AGATTGAAGCCACAACGGCAGATCTTAGTTCCCTGGA-GGTGCAGTGGAAC
* *
17933270 AGATTGAAGCCACAACGGCAGATCTTAGTTCCTTGGCGGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCAGATCTTAGTTCCCTGGAGGTGCAGTGGAAC
* * *** * ** *
17933320 AGATTGAAGTCACAACGGCAGATC-TGGTTTCCCT-GACAACGCAATTAAAA
1 AGATTGAAGCCACAACGGCAGATCTTAG-TTCCCTGGA-GGTGCAGTGGAAC
* ** * * * *
17933370 AGATTGAAGCCACAACGGTAGATCTTACCTCCTTAGCGGTGCAGTTGAAC
1 AGATTGAAGCCACAACGGCAGATCTTAGTTCCCTGGAGGTGCAGTGGAAC
* * *
17933420 AGATTGAAGCTACGACGGCGGATCTT
1 AGATTGAAGCCACAACGGCAGATCTT
17933446 GTTTCCTCGA
Statistics
Matches: 169, Mismatches: 49, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
49 40 0.24
50 127 0.75
51 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCAGATCTTAGTTCCCTGGAGGTGCAGTGGAAC
Found at i:17933311 original size:99 final size:99
Alignment explanation
Indices: 17933133--17933457 Score: 454
Period size: 99 Copynumber: 3.3 Consensus size: 99
17933123 NNNNNNNNNN
* *
17933133 ACAATGGCAGATCTGGTTTCCCCCACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTA
1 ACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTA
* * *
17933198 CTTCCCTGGAGGTGCAGTGGAGCAGATTGAAGTC
66 CTTCCTTGGCGGTGCAGTGGAACAGATTGAAGTC
** *
17933232 ACAACGGCAGATCTGGTTTCGTCGACAGTGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTA
1 ACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTA
*
17933297 GTTCCTTGGCGGTGCAGTGGAACAGATTGAAGTC
66 CTTCCTTGGCGGTGCAGTGGAACAGATTGAAGTC
* * *
17933331 ACAACGGCAGATCTGGTTTCCCTGACAACGCAATTAAAAAGATTGAAGCCACAACGGTAGATCTT
1 ACAACGGCAGATCTGGTTTCCCCGACAGCGCAATT-AAAAGATTGAAGCCACAACGGCAGATCTT
* * *
17933396 ACCTCCTTAGCGGTGCAGTTGAACAGATTGAAG-C
65 ACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGTC
* * * *
17933430 TACGACGGCGGATCTTGTTTCCTCGACA
1 -ACAACGGCAGATCTGGTTTCCCCGACA
17933458 TTGTAATTGG
Statistics
Matches: 200, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
99 121 0.61
100 79 0.40
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (99 bp):
ACAACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTA
CTTCCTTGGCGGTGCAGTGGAACAGATTGAAGTC
Found at i:17937866 original size:5 final size:6
Alignment explanation
Indices: 17937851--17937875 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17937841 AAAAATGCAA
17937851 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
17937876 CCTAATTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:17947088 original size:58 final size:58
Alignment explanation
Indices: 17947004--17947163 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
17946994 AATTTTTTGT
* * ** * *
17947004 CAAGTTAGGTCTTGAACTT-GATAAATATTCTTACATTGGGGCTTGAAAAACTTTTATC
1 CAAGTTAGGCCTTGAACTTAG-CAAATATTCCCACATTGAGGCTTGAAAAACTTTTACC
* * *** *
17947062 CAAGTCAGGCCTTGAACTTAGCAAATATCCCCACATTGAGGCTTGAAATTTTTTTGCC
1 CAAGTTAGGCCTTGAACTTAGCAAATATTCCCACATTGAGGCTTGAAAAACTTTTACC
* *
17947120 CAAGTTAGGGCTTGAACTTAGCAAATATTCCCACATTGTGGCTT
1 CAAGTTAGGCCTTGAACTTAGCAAATATTCCCACATTGAGGCTT
17947164 CAACTTTTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
58 84 0.99
59 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (58 bp):
CAAGTTAGGCCTTGAACTTAGCAAATATTCCCACATTGAGGCTTGAAAAACTTTTACC
Found at i:17947172 original size:58 final size:58
Alignment explanation
Indices: 17947055--17947190 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 58
17947045 CTTGAAAAAC
* * *
17947055 TTTTATCCAAGTCAGGCCTTGAACTTAGCAAATATCCCCACATTGAGGCTTGAAATTT
1 TTTTACCCAAGTTAGGCCTTGAACTTAGCAAATATCCCCACATTGAGGCTTCAAATTT
* * * * *
17947113 TTTTGCCCAAGTTAGGGCTTGAACTTAGCAAATATTCCCACATTGTGGCTTCAACTTT
1 TTTTACCCAAGTTAGGCCTTGAACTTAGCAAATATCCCCACATTGAGGCTTCAAATTT
* *
17947171 TTTTATCCAAGTTAGTCCTT
1 TTTTACCCAAGTTAGGCCTT
17947191 AAAAATCCTA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (58 bp):
TTTTACCCAAGTTAGGCCTTGAACTTAGCAAATATCCCCACATTGAGGCTTCAAATTT
Found at i:17967883 original size:2 final size:2
Alignment explanation
Indices: 17967876--17967913 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
17967866 CTTTATAGTA
17967876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17967914 TACGAATTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17972058 original size:23 final size:24
Alignment explanation
Indices: 17972023--17972067 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
17972013 AATTTTAAAA
*
17972023 AAAAATTTGATGATA-TAATTTTT
1 AAAAATTTGATGAGATTAATTTTT
* *
17972046 AAAATTTTTATGAGATTAATTT
1 AAAAATTTGATGAGATTAATTT
17972068 ACCAATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (24 bp):
AAAAATTTGATGAGATTAATTTTT
Found at i:17972765 original size:31 final size:32
Alignment explanation
Indices: 17972729--17972797 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
17972719 TTTTTTTAGT
*
17972729 TAAATTTGACCGA-TAATCTTTTT-AAAAAAGTC
1 TAAATTTAACC-ATTAA-CTTTTTAAAAAAAGTC
17972761 -AAATTTAACCATTAACTTTTTGAAAAAAAGTC
1 TAAATTTAACCATTAACTTTTT-AAAAAAAGTC
17972793 TAAAT
1 TAAAT
17972798 GATATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
30 7 0.22
31 12 0.38
32 9 0.28
33 4 0.12
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (32 bp):
TAAATTTAACCATTAACTTTTTAAAAAAAGTC
Found at i:17974648 original size:17 final size:18
Alignment explanation
Indices: 17974626--17974660 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
17974616 GGTGGATAAG
17974626 AAATAATGCCTA-TTTTT
1 AAATAATGCCTAGTTTTT
17974643 AAATAATGCCTAGTTTTT
1 AAATAATGCCTAGTTTTT
17974661 TTAGTAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (18 bp):
AAATAATGCCTAGTTTTT
Found at i:17992090 original size:3 final size:3
Alignment explanation
Indices: 17992084--17992114 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17992074 AAAAAAAAAA
17992084 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
17992115 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17992119 original size:2 final size:2
Alignment explanation
Indices: 17992112--17992140 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17992102 AAGAAGAAGA
17992112 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17992141 AGGGATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17998453 original size:53 final size:53
Alignment explanation
Indices: 17998351--17998456 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 53
17998341 TTTCTTGATC
* *
17998351 TTTTACCAAACGATCTTCTTCGTTATCTTTAAACCTCTCAAATTACTTTGAGT
1 TTTTACCAAACGATCTTCTTCATTATCTTGAAACCTCTCAAATTACTTTGAGT
* * * * *
17998404 TTTTATCAAACGATCTTCTTTATTATCTTCGAACCCT-TCAGATTGCTTTGAGT
1 TTTTACCAAACGATCTTCTTCATTATCTT-GAAACCTCTCAAATTACTTTGAGT
17998457 GTGAGCTCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 40 0.89
54 5 0.11
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (53 bp):
TTTTACCAAACGATCTTCTTCATTATCTTGAAACCTCTCAAATTACTTTGAGT
Found at i:17999700 original size:18 final size:18
Alignment explanation
Indices: 17999677--17999716 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17999667 ATAAGTAATT
17999677 ATATTATA-TATTATTATA
1 ATATTATATTA-TATTATA
*
17999695 ATATTATATTATATTATT
1 ATATTATATTATATTATA
17999713 ATAT
1 ATAT
17999717 AAACAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTATATTATATTATA
Found at i:17999704 original size:13 final size:13
Alignment explanation
Indices: 17999674--17999716 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
17999664 TAAATAAGTA
17999674 ATTATATTAT-AT
1 ATTATATTATAAT
17999686 A-T-TATTATAAT
1 ATTATATTATAAT
*
17999697 ATTATATTATATT
1 ATTATATTATAAT
17999710 ATTATAT
1 ATTATAT
17999717 AAACAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 6 0.22
11 4 0.15
12 2 0.07
13 15 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTATATTATAAT
Found at i:17999795 original size:16 final size:19
Alignment explanation
Indices: 17999752--17999802 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
17999742 ATGGAAGTTG
17999752 AAACGAAAACAGAGAAGCAA
1 AAACGAAAA-AGAGAAGCAA
17999772 AAACGAAAAAGA-AAG-AA
1 AAACGAAAAAGAGAAGCAA
17999789 AAA-GAAAAAGAGAA
1 AAACGAAAAAGAGAA
17999803 AGAAGGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.27
17 7 0.23
18 3 0.10
19 3 0.10
20 9 0.30
ACGTcount: A:0.73, C:0.08, G:0.20, T:0.00
Consensus pattern (19 bp):
AAACGAAAAAGAGAAGCAA
Found at i:17999802 original size:18 final size:19
Alignment explanation
Indices: 17999752--17999806 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 19
17999742 ATGGAAGTTG
17999752 AAACGAAAACAGAG-AAGCAA
1 AAACGAAAA-AGAGAAAG-AA
17999772 AAACG-AAAA-AGAAAGAA
1 AAACGAAAAAGAGAAAGAA
17999789 AAA-GAAAAAGAGAAAGAA
1 AAACGAAAAAGAGAAAGAA
17999807 GGAAGCCACG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
17 11 0.34
18 12 0.38
19 3 0.09
20 5 0.16
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (19 bp):
AAACGAAAAAGAGAAAGAA
Found at i:18000528 original size:2 final size:2
Alignment explanation
Indices: 18000521--18000562 Score: 61
Period size: 2 Copynumber: 21.5 Consensus size: 2
18000511 ATTGAATTAG
18000521 TA TA TA TA T- TA TGA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18000562 T
1 T
18000563 GTAAATGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.05
2 34 0.92
3 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18000751 original size:27 final size:25
Alignment explanation
Indices: 18000695--18000752 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
18000685 ACTTTAGTGC
* * * *
18000695 GCTCTCTGATTATTAGCATGTTAGT
1 GCTCTCTGATCACTAGCACGTCAGT
18000720 GCTCTCTGATCACTAGCACGTCAGT
1 GCTCTCTGATCACTAGCACGTCAGT
*
18000745 GTTCTCTG
1 GCTCTCTG
18000753 TTTAGCACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATCACTAGCACGTCAGT
Found at i:18000767 original size:22 final size:22
Alignment explanation
Indices: 18000733--18000798 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
18000723 CTCTGATCAC
* *
18000733 TAGCACGTCAGTGTTCTCTGTT
1 TAGCACTTTAGTGTTCTCTGTT
*
18000755 TAGCACTTTAGTGGTCTCTGTT
1 TAGCACTTTAGTGTTCTCTGTT
18000777 TAGCACTTTAGTGTTCTCTGTT
1 TAGCACTTTAGTGTTCTCTGTT
18000799 CATTAGTGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.45
Consensus pattern (22 bp):
TAGCACTTTAGTGTTCTCTGTT
Found at i:18001890 original size:17 final size:17
Alignment explanation
Indices: 18001868--18001906 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18001858 TGCGGATGAA
18001868 AAATGCCCTTGGCTGAT
1 AAATGCCCTTGGCTGAT
* *
18001885 AAATGCTCTTGGCTGGT
1 AAATGCCCTTGGCTGAT
18001902 AAATG
1 AAATG
18001907 GACCTCGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (17 bp):
AAATGCCCTTGGCTGAT
Found at i:18002654 original size:41 final size:41
Alignment explanation
Indices: 18002590--18002952 Score: 584
Period size: 41 Copynumber: 8.9 Consensus size: 41
18002580 CTTTCGGAGA
*
18002590 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
* * *
18002631 TTTAGCGGCGTTTCT-AGGGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTGA-GAAAGCGCCGCTAATGCTCTGGTC
*
18002672 TTTAGCAGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
*
18002713 TTTAGCAGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
18002754 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
*
18002795 TTTAGCGGCGTTTTTGAGAAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
*
18002836 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
* * *
18002877 TTTAGCGGCGTTTTTGAGAAAGAGCCACTAATGCTCGGGTC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
* * *
18002918 TTTAGTGGTGTTTTTGATAAAGCGCCGCTAATGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
18002953 TAGGGATTTA
Statistics
Matches: 301, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
40 1 0.00
41 299 0.99
42 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCTGGTC
Found at i:18003142 original size:14 final size:14
Alignment explanation
Indices: 18003123--18003234 Score: 64
Period size: 14 Copynumber: 7.4 Consensus size: 14
18003113 TATCACTATA
*
18003123 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
18003137 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
*
18003151 GTTTAGAGTTTAAT-
1 GTTTAGGGTTT-ATG
*
18003165 GTTTAGGTGTTACCATTTTAAG
1 GTTTAGG-G-------TTTATG
* *
18003187 GTTTATGGATTATG
1 GTTTAGGGTTTATG
*
18003201 AGTTTAGGGATTATG
1 -GTTTAGGGTTTATG
18003216 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
18003230 GTTTA
1 GTTTA
18003235 AATGTTGGGG
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
14 49 0.64
15 16 0.21
21 2 0.03
22 9 0.12
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:18003211 original size:15 final size:14
Alignment explanation
Indices: 18003186--18003234 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
18003176 ACCATTTTAA
*
18003186 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
18003200 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
*
18003215 GGTTTAGGGTTTAT
1 GGTTTAGGGATTAT
18003229 GGTTTA
1 GGTTTA
18003235 AATGTTGGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:18003253 original size:7 final size:7
Alignment explanation
Indices: 18003181--18003234 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
18003171 GTGTTACCAT
*
18003181 TTTAAGG
1 TTTATGG
18003188 TTTATGG
1 TTTATGG
*
18003195 ATTATGAG
1 TTTATG-G
*
18003203 TTTAGGG
1 TTTATGG
*
18003210 ATTATGG
1 TTTATGG
*
18003217 TTTAGGG
1 TTTATGG
18003224 TTTATGG
1 TTTATGG
18003231 TTTA
1 TTTA
18003235 AATGTTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:18003364 original size:16 final size:16
Alignment explanation
Indices: 18003343--18003375 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18003333 TAGTGTTTTC
18003343 TAATTTA-TATATTAAT
1 TAATTTATTATA-TAAT
18003359 TAATTTATTATATAAT
1 TAATTTATTATATAAT
18003375 T
1 T
18003376 GTAAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTTATTATATAAT
Found at i:18003813 original size:29 final size:29
Alignment explanation
Indices: 18003752--18003813 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
18003742 TTAAATTTAA
*
18003752 TTATTAAAAATAATGTCAATATAACCTGT
1 TTATTAAAAATAATGTCAATATAACCTGC
*
18003781 TTATTAAAAATAATGTCAATATAACGTGC
1 TTATTAAAAATAATGTCAATATAACCTGC
18003810 TTAT
1 TTAT
18003814 GAATTAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.39
Consensus pattern (29 bp):
TTATTAAAAATAATGTCAATATAACCTGC
Found at i:18007341 original size:6 final size:7
Alignment explanation
Indices: 18007330--18007360 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
18007320 AGTTTAAATT
18007330 TAAAAAA
1 TAAAAAA
18007337 TAAAAAA
1 TAAAAAA
18007344 TAAAAAA
1 TAAAAAA
*
18007351 TAAAACA
1 TAAAAAA
18007358 TAA
1 TAA
18007361 TATAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:18007520 original size:43 final size:43
Alignment explanation
Indices: 18007463--18007819 Score: 529
Period size: 43 Copynumber: 8.3 Consensus size: 43
18007453 AAAGCTTTGG
* *** * *
18007463 TCTATAGTGGCGTTTGTAAAAAAAGCGCCGCTAAAGGGCTTGA
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
*
18007506 CCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
* * *
18007549 GCTATAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCTTGA
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
* * *
18007592 TCTATAGCGGCGTTTGT-GAAAAATGCGCCGCTAAAGGCCCTAA
1 TCTATAGCGGCGTTTGTGGGAAAA-GCGCCGCTAAAGGTCCTGA
*
18007635 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGA
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
* *
18007678 TCTATAGCGGCGTTTGTGGG-AAAGTGCCGCTAAAGGTCTTGA
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
*
18007720 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCCTGA
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
*
18007763 TCTATAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCCTGA
1 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
18007806 TCTATAGCGGCGTT
1 TCTATAGCGGCGTT
18007820 GACAATAGCA
Statistics
Matches: 285, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
42 45 0.16
43 235 0.82
44 5 0.02
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (43 bp):
TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGA
Found at i:18007773 original size:128 final size:129
Alignment explanation
Indices: 18007429--18007819 Score: 581
Period size: 128 Copynumber: 3.0 Consensus size: 129
18007419 TGTTTTTAGT
* * * * * * * *
18007429 GGCGTTTTTGCGAGAAGCGTCGCTAAAGCT-TTGGTCTATAGTGGCGTTTGTAAAAAAAGCGCCG
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAGAAAAAGCGCCG
* * * *
18007493 CTAAAGGGCTTGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAGCTATAGC
66 CTAAAGGCCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
*
18007557 GGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GAAAAATGCGCC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAGAAAAA-GCGCC
* *
18007621 GCTAAAGGCCCTAATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
65 GCTAAAGGCCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* *
18007686 GGCGTTTGTGGG-AAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAGGAAAAGCGCCG
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAGAAAAAGCGCCG
* *
18007750 CTAAAGGTCCTGATCTATAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
66 CTAAAGGCCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
18007814 GGCGTT
1 GGCGTT
18007820 GACAATAGCA
Statistics
Matches: 240, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
128 141 0.59
129 99 0.41
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (129 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAGAAAAAGCGCCG
CTAAAGGCCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
Found at i:18009588 original size:13 final size:13
Alignment explanation
Indices: 18009570--18009595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18009560 TTTCGTGCTT
18009570 ATTTTAATGTATA
1 ATTTTAATGTATA
18009583 ATTTTAATGTATA
1 ATTTTAATGTATA
18009596 TTGGGTTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTTTAATGTATA
Found at i:18011845 original size:2 final size:2
Alignment explanation
Indices: 18011838--18011892 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
18011828 ATCATTTAGC
18011838 AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18011878 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
18011893 CACAACTCGT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:18012695 original size:39 final size:37
Alignment explanation
Indices: 18012607--18012697 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 37
18012597 GTCTCCAAAT
* * * *
18012607 TCACATTTCAGTTC-AATTTCACTTTTTCACTTTTAA
1 TCACAATTCAATTCAAAATTCACTTTTCCACTTTTAA
*
18012643 TCACAATTCAATTCAAAATTCACTTTTCCATTTTTTAA
1 TCACAATTCAATTCAAAATTCACTTTTCCA-CTTTTAA
18012681 GTCA-ATATTCAATTCAA
1 -TCACA-ATTCAATTCAA
18012698 TTCCACACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 12 0.26
37 13 0.28
38 7 0.15
39 14 0.30
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (37 bp):
TCACAATTCAATTCAAAATTCACTTTTCCACTTTTAA
Found at i:18012700 original size:37 final size:35
Alignment explanation
Indices: 18012607--18012700 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 35
18012597 GTCTCCAAAT
* * *
18012607 TCACATTTCAGTTCAATTTCACTTTTTCACTTTTAA
1 TCACAATTCAATTCAA-TTCACTTTTCCACTTTTAA
*
18012643 TCACAATTCAATTCAAAATTCACTTTTCCATTTTTTAA
1 TCACAATTCAATTC--AATTCACTTTTCCA-CTTTTAA
18012681 GTCA-ATATTCAATTCAATTC
1 -TCACA-ATTCAATTCAATTC
18012701 CACACATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 12 0.24
37 16 0.33
38 9 0.18
39 12 0.24
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.46
Consensus pattern (35 bp):
TCACAATTCAATTCAATTCACTTTTCCACTTTTAA
Found at i:18017626 original size:21 final size:22
Alignment explanation
Indices: 18017590--18017632 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
18017580 TAAATGAGCA
18017590 AATAACAGTAATAATAATTAAT
1 AATAACAGTAATAATAATTAAT
*
18017612 AATAACAGT-ATAATATTTAAT
1 AATAACAGTAATAATAATTAAT
18017633 TTATTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (22 bp):
AATAACAGTAATAATAATTAAT
Found at i:18020961 original size:67 final size:67
Alignment explanation
Indices: 18020853--18020980 Score: 238
Period size: 67 Copynumber: 1.9 Consensus size: 67
18020843 CAATTCAGAT
*
18020853 AGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAG
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAG
18020918 AG
66 AG
*
18020920 AGCACCCTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
18020981 TAATATAAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (67 bp):
AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAG
AG
Found at i:18038069 original size:16 final size:16
Alignment explanation
Indices: 18038048--18038088 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
18038038 CATCTATAAT
18038048 ACACACACA-GACACAC
1 ACACACACATG-CACAC
*
18038064 ACACACACATGCACGC
1 ACACACACATGCACAC
18038080 ACACACACA
1 ACACACACA
18038089 CGGAGTGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.46, C:0.44, G:0.07, T:0.02
Consensus pattern (16 bp):
ACACACACATGCACAC
Found at i:18040514 original size:21 final size:21
Alignment explanation
Indices: 18040488--18040553 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
18040478 GATCTGATAG
18040488 GAGATTATACGAAGAATATAA
1 GAGATTATACGAAGAATATAA
* * * *
18040509 GAGATTATATGAAG-CT-GAG
1 GAGATTATACGAAGAATATAA
18040528 GAGATTATACGAAGAATATAA
1 GAGATTATACGAAGAATATAA
18040549 GAGAT
1 GAGAT
18040554 ACGAACAGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 14 0.40
20 2 0.06
21 19 0.54
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (21 bp):
GAGATTATACGAAGAATATAA
Found at i:18043502 original size:2 final size:2
Alignment explanation
Indices: 18043495--18043522 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18043485 TTGCTACAGC
18043495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18043523 CCTGATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18046589 original size:99 final size:99
Alignment explanation
Indices: 18046259--18046554 Score: 529
Period size: 99 Copynumber: 3.0 Consensus size: 99
18046249 GGCGAAAGCC
* * *
18046259 GCATCCTCTTTGCTGCTGGTTGCTCGGATAACTCTGCCAGAGAATCATTGACAATGATGGCCTCC
1 GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTGCAAGAGAATCATTGACAAT-A--GCCTCC
18046324 TTGTTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
63 TTGTTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
*
18046361 GCATCCTCTTTGCTGCCGGTTGCTCAGATAATTCTGCAAGAGAATCATTGACAATAGCCTCCTTG
1 GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTGCAAGAGAATCATTGACAATAGCCTCCTTG
18046426 TTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
66 TTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
18046460 GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTGCAAGAGAATCATTGACAATAGCCTCCTTG
1 GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTGCAAGAGAATCATTGACAATAGCCTCCTTG
18046525 TTTTCAGCCACTTCAGAATCTTGATTCAAT
66 TTTTCAGCCACTTCAGAATCTTGATTCAAT
18046555 GCTTCAGCCA
Statistics
Matches: 189, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
99 137 0.72
101 1 0.01
102 51 0.27
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (99 bp):
GCATCCTCTTTGCTGCCGGTTGCTCAGATAACTCTGCAAGAGAATCATTGACAATAGCCTCCTTG
TTTTCAGCCACTTCAGAATCTTGATTCAATTGTT
Found at i:18060411 original size:14 final size:15
Alignment explanation
Indices: 18060389--18060465 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
18060379 CAATCAAACA
18060389 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
18060403 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
18060418 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
18060438 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
**
18060452 ATAGAAAA-CATTTT
1 CCAGAAAATCATTTT
18060466 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:18060430 original size:20 final size:20
Alignment explanation
Indices: 18060405--18060444 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18060395 AATATTTTCC
*
18060405 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
18060425 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
18060445 TCATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:18060450 original size:34 final size:35
Alignment explanation
Indices: 18060393--18060459 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
18060383 CAAACACCAG
*
18060393 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18060428 AAAACATTTTCCAG-AAATCATTTTATAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18060460 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18060466 original size:14 final size:14
Alignment explanation
Indices: 18060428--18060467 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18060418 ACAGAAAAGT
*
18060428 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
18060442 AAATCATTTTATAG
1 AAAACATTTTACAG
18060456 AAAACATTTTAC
1 AAAACATTTTAC
18060468 TGGCAATCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:18063648 original size:21 final size:22
Alignment explanation
Indices: 18063624--18063665 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
18063614 TCTTTGGCTC
18063624 ATAC-TCTCTTAAGCAAATTGG
1 ATACTTCTCTTAAGCAAATTGG
*
18063645 ATACTTTCTCTTAAGCGAATT
1 ATAC-TTCTCTTAAGCAAATT
18063666 TTGATATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (22 bp):
ATACTTCTCTTAAGCAAATTGG
Found at i:18064684 original size:41 final size:41
Alignment explanation
Indices: 18064639--18064747 Score: 157
Period size: 41 Copynumber: 2.6 Consensus size: 41
18064629 AATATATTTA
*
18064639 TTTTTTTAATTTTAAAATATTTTTTACATACTTT-TTTAAT
1 TTTTTTTAATTTTAAAATATTTTTTAAATACTTTCTTTAAT
* *
18064679 TTTTTTTAAATTTTAAAATATTTTTAAAATATTTTCTTTAAT
1 TTTTTTT-AATTTTAAAATATTTTTTAAATACTTTCTTTAAT
18064721 TTTTTTTAATTTTAAAAATACTTTTTT
1 TTTTTTTAATTTT-AAAATA-TTTTTT
18064748 TAATTTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
40 7 0.11
41 30 0.49
42 19 0.31
43 5 0.08
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTTAAATACTTTCTTTAAT
Found at i:18064764 original size:32 final size:31
Alignment explanation
Indices: 18064679--18064769 Score: 105
Period size: 31 Copynumber: 2.9 Consensus size: 31
18064669 CTTTTTTAAT
* * *
18064679 TTTTTTTAA-ATTTTAAAATATTTTTAAAATA
1 TTTTTTTAATTTTTTTAAA-ATTTTAAAAATA
*
18064710 TTTTCTTTAATTTTTTT-TAATTTTAAAAATA
1 TTTT-TTTAATTTTTTTAAAATTTTAAAAATA
18064741 CTTTTTTTAATTTTTTTAAAATTTTAAAA
1 -TTTTTTTAATTTTTTTAAAATTTTAAAA
18064770 TAAAAATGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
31 27 0.53
32 20 0.39
33 4 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTTAATTTTTTTAAAATTTTAAAAATA
Found at i:18065647 original size:16 final size:17
Alignment explanation
Indices: 18065626--18065657 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18065616 TCATCTTCTC
18065626 CTTTTTT-TTTTTTTTT
1 CTTTTTTCTTTTTTTTT
18065642 CTTTTTTCTTTTTTTT
1 CTTTTTTCTTTTTTTT
18065658 ACCCTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (17 bp):
CTTTTTTCTTTTTTTTT
Found at i:18069703 original size:23 final size:23
Alignment explanation
Indices: 18069660--18069704 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18069650 TCCATATTCA
* *
18069660 AATTTAAATAATTACTTTTATAC
1 AATTTAAAAAATTACTATTATAC
18069683 AATTTATAAAAATTA-TATTATA
1 AATTTA-AAAAATTACTATTATA
18069705 AGCATGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTAAAAAATTACTATTATAC
Found at i:18074281 original size:9 final size:9
Alignment explanation
Indices: 18074267--18074326 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
18074257 TTTAAAATAC
18074267 TTTTTTAAT
1 TTTTTTAAT
18074276 TTTTTTAAT
1 TTTTTTAAT
**
18074285 TTTTAAAAT
1 TTTTTTAAT
*
18074294 TTTTTAAAAT
1 TTTTT-TAAT
*
18074304 ACTTTTTTAAA
1 --TTTTTTAAT
18074315 TTTTTTAAT
1 TTTTTTAAT
18074324 TTT
1 TTT
18074327 AAAATATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 31 0.74
10 4 0.10
11 2 0.05
12 5 0.12
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:18074311 original size:40 final size:39
Alignment explanation
Indices: 18074238--18074355 Score: 186
Period size: 39 Copynumber: 3.0 Consensus size: 39
18074228 TATTTTATTA
*
18074238 TTTTTTAA-TTTAAAATACTTTTAAAATACTTTTTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAT
*
18074276 TTTTTTAATTTTTAAAAT-TTTTTAAAATACTTTTTTAAA
1 TTTTTTAA-TTTTAAAATATTTTTAAAATACTTTTTTAAT
18074315 TTTTTTAATTTTAAAATATTTTTAAAATACTTTATTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTT-TTTAAT
18074355 T
1 T
18074356 AATTTAGTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
38 17 0.23
39 42 0.58
40 14 0.19
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAT
Found at i:18074324 original size:8 final size:9
Alignment explanation
Indices: 18074267--18074340 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
18074257 TTTAAAATAC
18074267 TTTTTT-AA
1 TTTTTTAAA
*
18074275 TTTTTTTAA
1 TTTTTTAAA
*
18074284 TTTTTAAAA
1 TTTTTTAAA
18074293 TTTTTTAAAATA
1 TTTTTT--AA-A
18074305 CTTTTTTAAA
1 -TTTTTTAAA
18074315 TTTTTT-AA
1 TTTTTTAAA
*
18074323 -TTTTAAAA
1 TTTTTTAAA
18074331 TATTTTTAAA
1 T-TTTTTAAA
18074341 ATACTTTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
7 4 0.08
8 10 0.19
9 20 0.38
10 8 0.15
11 4 0.08
12 1 0.02
13 6 0.11
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:18074337 original size:11 final size:11
Alignment explanation
Indices: 18074246--18074343 Score: 58
Period size: 11 Copynumber: 9.8 Consensus size: 11
18074236 TATTTTTTAA
*
18074246 TTTAAAATACT
1 TTTAAAATATT
18074257 TTTAAAATACTT
1 TTTAAAATA-TT
*
18074269 TTT-TAAT-TT
1 TTTAAAATATT
*
18074278 TTT--TA-ATT
1 TTTAAAATATT
18074286 TTTAAAAT-TT
1 TTTAAAATATT
18074296 TTTAAAATACTT
1 TTTAAAATA-TT
*
18074308 TTTTAAAT-TT
1 TTTAAAATATT
18074318 TTT---A-A-T
1 TTTAAAATATT
18074324 TTTAAAATATT
1 TTTAAAATATT
18074335 TTTAAAATA
1 TTTAAAATA
18074344 CTTTATTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 26
0.69 0.05 0.26
Matches are distributed among these distances:
6 4 0.06
7 1 0.01
8 6 0.09
9 6 0.09
10 17 0.25
11 22 0.32
12 13 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTAAAATATT
Found at i:18075076 original size:15 final size:15
Alignment explanation
Indices: 18075058--18075087 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18075048 ATATTATAAT
*
18075058 TATAATAAAATAAAG
1 TATAATAAAAGAAAG
18075073 TATAATAAAAGAAAG
1 TATAATAAAAGAAAG
18075088 AGAACATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (15 bp):
TATAATAAAAGAAAG
Found at i:18079764 original size:7 final size:7
Alignment explanation
Indices: 18079752--18079776 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18079742 CCATTTCCGG
18079752 AAGTGTA
1 AAGTGTA
18079759 AAGTGTA
1 AAGTGTA
18079766 AAGTGTA
1 AAGTGTA
18079773 AAGT
1 AAGT
18079777 ATATATTCTT
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:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
AAGTGTA
Found at i:18081463 original size:10 final size:9
Alignment explanation
Indices: 18081438--18081466 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
18081428 CAACAATATC
18081438 GATAAAAAA
1 GATAAAAAA
18081447 GATAAAAAA
1 GATAAAAAA
18081456 GATAAAAAA
1 GATAAAAAA
18081465 GA
1 GA
18081467 AAGACCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (9 bp):
GATAAAAAA
Found at i:18104034 original size:32 final size:31
Alignment explanation
Indices: 18103989--18104084 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
18103979 CTTAGATAAT
18103989 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
18104020 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
18104052 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
18104083 TT
1 TT
18104085 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:18107704 original size:30 final size:29
Alignment explanation
Indices: 18107665--18107722 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
18107655 GGCATTGTTA
18107665 AAAATTACAATCACAAATTTAAAAATATTAG
1 AAAATTACAAT--CAAATTTAAAAATATTAG
*
18107696 AAAA-TACAATTAAATTTAAAAATATTA
1 AAAATTACAATCAAATTTAAAAATATTA
18107723 AATAATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 16 0.62
30 6 0.23
31 4 0.15
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAATTACAATCAAATTTAAAAATATTAG
Found at i:18107887 original size:21 final size:21
Alignment explanation
Indices: 18107861--18107907 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18107851 TAATAATGAT
18107861 AAAAAATTAAGTTAATCTTTA
1 AAAAAATTAAGTTAATCTTTA
*
18107882 AAAAAATTAATTTAATCTTTA
1 AAAAAATTAAGTTAATCTTTA
18107903 AAAAA
1 AAAAA
18107908 TATAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAAATTAAGTTAATCTTTA
Found at i:18108827 original size:105 final size:105
Alignment explanation
Indices: 18108713--18109009 Score: 352
Period size: 105 Copynumber: 2.8 Consensus size: 105
18108703 CGGGTGTTAA
* ** * *
18108713 TCTGTCAATGGCCGGGGCCAAAATACGAAAAAAGT-AAAAAAAATTTGGGTGGCCTGGCAATTGC
1 TCTGTCAATGGCCGGGACCAGTATACGAAAAAAGTAAAAAAAAATTTGGATGGCCTGGCAATGGC
*
18108777 C-AGCACCCCTTTTCTACAATAATTTTTTTTTTTACTTTTAG
66 CGA-CACCCCTTTTCTACAA-AATATTTTTTTTTACTTTTAG
* * * * *
18108818 TGTGTCAATGGTCGGCACTAGTATACGAAAAAAGTAAAAAAAAAATT-GATGGCCTGGCAATGGC
1 TCTGTCAATGGCCGGGACCAGTATACGAAAAAAGTAAAAAAAAATTTGGATGGCCTGGCAATGGC
* * *
18108882 CGACACCCC-TTTATACAAAATATTTTTTTTTCCTTTTGG
66 CGACACCCCTTTTCTACAAAATATTTTTTTTTACTTTTAG
* *
18108921 TCTTTCAATGACCGGGAACCAGTATACGAAAAAAGTAAAAAAAAAATATTTGGATGG-CTGGCAA
1 TCTGTCAATGGCCGGG-ACCAGTATACGAAAAAAGT--AAAAAAAA-ATTTGGATGGCCTGGCAA
*
18108985 TGGTCGACACCCCTTTTCTACAAAA
62 TGGCCGACACCCCTTTTCTACAAAA
18109010 AAAATTTACT
Statistics
Matches: 161, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
103 29 0.18
104 26 0.16
105 50 0.31
106 19 0.12
107 22 0.14
108 15 0.09
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (105 bp):
TCTGTCAATGGCCGGGACCAGTATACGAAAAAAGTAAAAAAAAATTTGGATGGCCTGGCAATGGC
CGACACCCCTTTTCTACAAAATATTTTTTTTTACTTTTAG
Found at i:18111970 original size:29 final size:29
Alignment explanation
Indices: 18111911--18111970 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
18111901 GGGTTGGGAG
* * * *
18111911 GGAGTAAAAGTTTGGGGGGAAAGTGAGAA
1 GGAGTAAAAGTTTGAGGGAAAAGTAAAAA
18111940 GGAGTAAAAGTTTGAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTTGAGGGAAAAGTAAAAA
18111969 GG
1 GG
18111971 TTTGAGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (29 bp):
GGAGTAAAAGTTTGAGGGAAAAGTAAAAA
Found at i:18112109 original size:9 final size:9
Alignment explanation
Indices: 18112092--18112142 Score: 84
Period size: 9 Copynumber: 5.7 Consensus size: 9
18112082 TCGAGTTGAT
*
18112092 TCGAATAAC
1 TCGATTAAC
18112101 TCGATTAAC
1 TCGATTAAC
18112110 TCGATTAAC
1 TCGATTAAC
18112119 TCGATTAAC
1 TCGATTAAC
*
18112128 TCGAATAAC
1 TCGATTAAC
18112137 TCGATT
1 TCGATT
18112143 CGTTTAACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (9 bp):
TCGATTAAC
Found at i:18112118 original size:18 final size:18
Alignment explanation
Indices: 18112092--18112142 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
18112082 TCGAGTTGAT
18112092 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
*
18112110 TCGATTAACTCGATTAAC
1 TCGAATAACTCGATTAAC
18112128 TCGAATAACTCGATT
1 TCGAATAACTCGATT
18112143 CGTTTAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (18 bp):
TCGAATAACTCGATTAAC
Found at i:18118817 original size:16 final size:17
Alignment explanation
Indices: 18118798--18118832 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18118788 TCAATTAATT
*
18118798 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
18118814 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
18118831 AA
1 AA
18118833 CCTAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:18121147 original size:6 final size:6
Alignment explanation
Indices: 18121138--18121162 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18121128 GCACCACCCT
18121138 CATCAA CATCAA CATCAA CATCAA C
1 CATCAA CATCAA CATCAA CATCAA C
18121163 CCCAACACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (6 bp):
CATCAA
Found at i:18123008 original size:2 final size:2
Alignment explanation
Indices: 18123001--18123025 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18122991 GTCATCTTTT
18123001 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18123026 TCTCTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18124103 original size:2 final size:2
Alignment explanation
Indices: 18124096--18124122 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18124086 TTTGTATCTT
18124096 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18124123 TTCATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18133726 original size:44 final size:42
Alignment explanation
Indices: 18133670--18134168 Score: 328
Period size: 44 Copynumber: 11.6 Consensus size: 42
18133660 CCAAAAATCC
*
18133670 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACC--AGATCT
** * * *****
18133714 TATCTCTTTGAAGTTGCAGTAGAGCAGATCGTGTCCAG-TCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAGATCT
* *
18133755 TATCTCCCTGAAGTTGTAGTGGGGCAGACTAAATAAACCA-ATCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGA-T-TA-AAACCAGATCT
* ** * * *
18133799 TATCTCCATGAAGTTGTAGTGGAATAGATTAAAGCCAATAATCC
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACC-A-GATCT
* * *
18133843 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTAAAGATCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAAC--CAGATCT
* * * * *** *
18133887 GATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG-TCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAGATCT
* ** *
18133928 CATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGTAGTGGAGCAG--ATTA-AAACCAGATCT
* * * *
18133972 TATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAA-C-CAGATCT
* * * ***
18134016 TATCTCTCTGAAGTTGTAGTAGAGCAGATCATGTCCAG-TCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAGATCT
* *
18134057 TATCTCCCTGAAGTTGCAGTGGGGCAGATTGAATAAACCA-ATCT
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATT--A-AAACCAGATCT
* * *
18134101 TATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGTAGTGGAGCAGATT--A-AAACCAGATCT
*
18134145 TATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGTAGTGGAG
18134169 TGGATCAAAA
Statistics
Matches: 351, Mismatches: 84, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
41 87 0.25
42 13 0.04
43 6 0.02
44 244 0.70
45 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAGATCT
Found at i:18133968 original size:173 final size:172
Alignment explanation
Indices: 18133657--18134167 Score: 580
Period size: 173 Copynumber: 3.0 Consensus size: 172
18133647 CAGATCAGTG
* * *
18133657 AAACCAAAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCATAGATCTTATCTCTT
1 AAACC-AAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACTAAAGATCTTATCTCTC
** *
18133722 TGAAGTTGCAGTAGAGCAGATCGTGTCCAGTCTTATCTCCCTGAAGTTGTAGTGGGGCAGACTA-
65 TGAAGTTGCAGTAGAGCAGATCGAATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAC-AG
* * * * *
18133786 AATAAACCAATCTTATCTCCATGAAGTTGTAGTGGAATAGATTA
129 AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGATTA
* * *
18133830 AAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTAAAGATCTGATCTCTC
1 AAACCAA-AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACTAAAGATCTTATCTCTC
* *
18133895 TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTCATCTCCCTGAAGTTGTAGTGGAGCAGACAGA
65 TGAAGTTGCAGTAGAGCAGATCGAATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGA
* * * *
18133960 AGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTA
130 AGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGATTA
* * * * * * ** ** *
18134003 AAACCACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-T-CATGTCCAG-TCTTATCTCCC
1 AAACCA-AAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACTAAAGATCTTATCTCTC
* * * * * * *
18134065 TGAAGTTGCAGTGGGGCAGATTGAATAAACCAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
65 TGAAGTTGCAGTAGAGCAGATCGAAT---CCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAC
*
18134130 TGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGA
127 AGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGA
18134168 GTGGATCAAA
Statistics
Matches: 287, Mismatches: 45, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
170 31 0.11
171 4 0.01
172 4 0.01
173 247 0.86
174 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (172 bp):
AAACCAAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACTAAAGATCTTATCTCTCT
GAAGTTGCAGTAGAGCAGATCGAATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAA
GAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAACAGATTA
Found at i:18134175 original size:129 final size:129
Alignment explanation
Indices: 18133838--18134164 Score: 419
Period size: 129 Copynumber: 2.5 Consensus size: 129
18133828 TAAAGCCAAT
*
18133838 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACTAAAGAT-CTGATCTCTCTGAAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAAC-ACAGATCCT-ATCTCTCTGAAGT
* *
18133901 TGCAGTAGAGCAGATCGCATCCAGTCTCATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAAC
64 TGCAGTAGAGCAGATCACATCCAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC
18133966 C
129 C
* * * *
18133967 AATCCTATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCCTATCTCTCTGAAGTTG
* ** * * ** *
18134032 TAGTAGAGCAGATCATGTCCAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGATTGAATAAACC
66 CAGTAGAGCAGATCACATCCAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACC
* * * *
18134096 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAAC-CA-ATCCTATCTCCCTGAAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AA-AAACACAGATCCTATCTCTCTGAAGT
18134159 TGCAGT
64 TGCAGT
18134165 GGAGTGGATC
Statistics
Matches: 170, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
129 158 0.93
130 9 0.05
131 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCCTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCCAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACC
Found at i:18136164 original size:19 final size:18
Alignment explanation
Indices: 18136140--18136180 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
18136130 TTATTTCAAC
18136140 TTATTTCAAAATTGTTAAT
1 TTATTTCAAAATT-TTAAT
* *
18136159 TTATTTTAATATTTTAAT
1 TTATTTCAAAATTTTAAT
18136177 TTAT
1 TTAT
18136181 ATATATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
TTATTTCAAAATTTTAAT
Found at i:18141476 original size:3 final size:3
Alignment explanation
Indices: 18141468--18141513 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
18141458 TAAATCTCAC
*
18141468 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18141514 ACTTTTCTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18147119 original size:36 final size:34
Alignment explanation
Indices: 18147065--18147138 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 34
18147055 ATACATTAAA
* *
18147065 AATACCAAAAGTATCAATAAAATAAG-AGTTATAT
1 AATACCAAAAGTAACAATAAAAT-AGTAGTAATAT
18147099 AATATCCAAATAGTAACAATAAAATAGTAGTAATAT
1 AATA-CCAAA-AGTAACAATAAAATAGTAGTAATAT
18147135 AATA
1 AATA
18147139 AAATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 4 0.11
35 7 0.20
36 24 0.69
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (34 bp):
AATACCAAAAGTAACAATAAAATAGTAGTAATAT
Found at i:18151077 original size:87 final size:87
Alignment explanation
Indices: 18150930--18151277 Score: 457
Period size: 87 Copynumber: 4.0 Consensus size: 87
18150920 TTTGAGGTGA
* *
18150930 ATGTTTATTTGTCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGGTTCTA-CTTTGTCCACATTC
1 ATGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTC-AGCTTTGTCCACATTC
* *
18150994 GTTTCCTGCTGAAGCAGATTCTT
65 ATTTCCTGCTGAACCAGATTCTT
* *
18151017 TTGTTTATTTTCCGT-GAATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTC
1 ATGTTTATTTGCCGTAG-ATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTC
* *
18151081 GTTTCCTGCTGAACCGGATTCTT
65 ATTTCCTGCTGAACCAGATTCTT
* * *
18151104 ATGTTTATTTGCGGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCCGCTTTGTCCACATCCA
1 ATGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTCA
* *
18151169 TTTCCTGCTGAACCGGATTCCT
66 TTTCCTGCTGAACCAGATTCTT
* * ** * * *
18151191 ATGTCTATTTGCCATAGATGATTCTTGCTTCTTCCCTTTCTCACCTTCCGCTTTGTCGACTTTCA
1 ATGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTCA
* * *
18151256 TTTCCTTCTGCAGCAGATTCTT
66 TTTCCTGCTGAACCAGATTCTT
18151278 GGTTCAGAGA
Statistics
Matches: 232, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
86 2 0.01
87 229 0.99
88 1 0.00
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (87 bp):
ATGTTTATTTGCCGTAGATGATTCTTGCTTCTTCCCTTTCTCAGATTCAGCTTTGTCCACATTCA
TTTCCTGCTGAACCAGATTCTT
Found at i:18154696 original size:9 final size:9
Alignment explanation
Indices: 18154684--18154717 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
18154674 CGTCATCACA
*
18154684 TTCATCGTC
1 TTCATCATC
*
18154693 TTCATAATC
1 TTCATCATC
18154702 TTCATCATC
1 TTCATCATC
18154711 TTCATCA
1 TTCATCA
18154718 GACTCATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.29, G:0.03, T:0.44
Consensus pattern (9 bp):
TTCATCATC
Found at i:18161550 original size:2 final size:2
Alignment explanation
Indices: 18161543--18161568 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18161533 AGAAAAAGAA
18161543 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18161569 CGATCAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18165934 original size:19 final size:20
Alignment explanation
Indices: 18165896--18165935 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
18165886 TTTTGACTAT
18165896 TTATTTTTTACTCTTAAATTTC
1 TTATTTTTTACTC-T-AATTTC
18165918 TTATTTTTTACTC-AATTT
1 TTATTTTTTACTCTAATTT
18165936 TGTAGGTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
22 13 0.72
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTTTTACTCTAATTTC
Found at i:18172784 original size:15 final size:15
Alignment explanation
Indices: 18172764--18172792 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18172754 TAGATAGTGA
18172764 TAATTCCACTGGGAG
1 TAATTCCACTGGGAG
18172779 TAATTCCACTGGGA
1 TAATTCCACTGGGA
18172793 TTGAATCATA
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:0.21, G:0.24, T:0.28
Consensus pattern (15 bp):
TAATTCCACTGGGAG
Found at i:18177830 original size:12 final size:12
Alignment explanation
Indices: 18177813--18177839 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18177803 GATAGGGGAA
18177813 TTTCTTTTCTTT
1 TTTCTTTTCTTT
18177825 TTTCTTTTCTTT
1 TTTCTTTTCTTT
18177837 TTT
1 TTT
18177840 AGATTCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:18199846 original size:30 final size:29
Alignment explanation
Indices: 18199812--18199868 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
18199802 ATTTTAATCC
* **
18199812 AATTAAATTTTTATATATGTAATTGTACCA
1 AATTAAA-ATTTATATATCAAATTGTACCA
18199842 AATTAAAATTTATATATCAAATTGTAC
1 AATTAAAATTTATATATCAAATTGTAC
18199869 GTTAAACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (29 bp):
AATTAAAATTTATATATCAAATTGTACCA
Found at i:18203214 original size:23 final size:22
Alignment explanation
Indices: 18203172--18203216 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
18203162 TATACAATAA
18203172 ATATTTAAATTTAAATTGAATT
1 ATATTTAAATTTAAATTGAATT
*
18203194 ATATATTAATTTTGAAA-TGAATT
1 ATAT-TTAAATTT-AAATTGAATT
18203217 TTTTATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
ATATTTAAATTTAAATTGAATT
Found at i:18214476 original size:7 final size:7
Alignment explanation
Indices: 18214458--18214491 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
18214448 TCAAACACAT
18214458 TTAAATTA
1 TTAAA-TA
18214466 TTAAATA
1 TTAAATA
18214473 TTAAATA
1 TTAAATA
18214480 TTAAATA
1 TTAAATA
18214487 TTAAA
1 TTAAA
18214492 AACGTCCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.81
8 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAAATA
Found at i:18214861 original size:46 final size:47
Alignment explanation
Indices: 18214811--18214900 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
18214801 TAATTCAATG
* *
18214811 AATTGAACTAAA-ATAGCATTTTTAAAAACACATAATTGAATAAATA
1 AATTGAACTAAATATAACATTTTTAAAAACACACAATTGAATAAATA
* * * *
18214857 AATTGAACTAAATTTAACCTTTTTTAAAACGCACAATTGAATAA
1 AATTGAACTAAATATAACATTTTTAAAAACACACAATTGAATAA
18214901 GCGGTTTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 12 0.32
47 25 0.68
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (47 bp):
AATTGAACTAAATATAACATTTTTAAAAACACACAATTGAATAAATA
Found at i:18215100 original size:71 final size:72
Alignment explanation
Indices: 18214912--18215127 Score: 231
Period size: 71 Copynumber: 3.0 Consensus size: 72
18214902 CGGTTTTACT
* * *
18214912 ATGTATAACAGAATAAATGG-TTCGACTTAATATAAAAACTCAATAAATTAAACTAAATTAACCT
1 ATGTATAACTGAATAAACGGTTTCG-CTTAATATTAAAACTCAATAAATTAAACTAAATTAACCT
*
18214976 TTTTAAAA
65 TTCTAAAA
* * * * ** * ** * *
18214984 ATGCATAATTGAACAAACGCTTTTACTTAATATCAAATTTCAATAAATCAAACTAAATTAAGC-T
1 ATGTATAACTGAATAAACGGTTTCGCTTAATATTAAAACTCAATAAATTAAACTAAATTAACCTT
*
18215048 TCTGAAA
66 TCTAAAA
*
18215055 ATGTATAACTGAATAAACGGTTTCGCTTAATATTAAAACAT-AATAAATTGAACTAAATTAACCT
1 ATGTATAACTGAATAAACGGTTTCGCTTAATATTAAAAC-TCAATAAATTAAACTAAATTAACCT
*
18215119 TTTTAAAA
65 TTCTAAAA
18215127 A
1 A
18215128 CACATAATTA
Statistics
Matches: 112, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
71 55 0.49
72 55 0.49
73 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (72 bp):
ATGTATAACTGAATAAACGGTTTCGCTTAATATTAAAACTCAATAAATTAAACTAAATTAACCTT
TCTAAAA
Found at i:18217016 original size:23 final size:23
Alignment explanation
Indices: 18216986--18217033 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
18216976 CCTTTCCTTT
18216986 TTCTTTTGAGTTTTGTTTAAATG
1 TTCTTTTGAGTTTTGTTTAAATG
18217009 TTCTTTTGAGTTTTGTTTAAATG
1 TTCTTTTGAGTTTTGTTTAAATG
18217032 TT
1 TT
18217034 TGATTCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.62
Consensus pattern (23 bp):
TTCTTTTGAGTTTTGTTTAAATG
Found at i:18237866 original size:20 final size:20
Alignment explanation
Indices: 18237825--18237868 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
18237815 GAAGGTGGAA
*
18237825 TTAGGTATTTTGACTTCCAT
1 TTAGGTATTTTGACTTCAAT
18237845 TTAGGTATTTTG-CTTTCAAT
1 TTAGGTATTTTGAC-TTCAAT
18237865 TTAG
1 TTAG
18237869 ACATGTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.52
Consensus pattern (20 bp):
TTAGGTATTTTGACTTCAAT
Found at i:18250889 original size:41 final size:40
Alignment explanation
Indices: 18250822--18251006 Score: 178
Period size: 40 Copynumber: 4.5 Consensus size: 40
18250812 TCAATGTTTT
* * *
18250822 GCACACTAAATGCCATTGCATAGCCGAAGCTAT-TATAATCCC
1 GCACACTAAGTGCCA-TACATAGCCGAAGCTATCT-CAAT-CC
* *
18250864 GCACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTCTC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATC-C
* * *
18250905 ACACACTAAGTGCCATATATAGCTGAAGCTATCTCCAAT-C
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCT-CAATCC
*
18250945 GCACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAAT-C
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTC-AATCC
* * * *
18250985 ACACACTGAGTGCTAAACATAG
1 GCACACTAAGTGCCATACATAG
18251007 TCGATTAATC
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 54 0.45
41 49 0.40
42 17 0.14
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.23
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATCC
Found at i:18255184 original size:21 final size:21
Alignment explanation
Indices: 18255131--18255188 Score: 89
Period size: 22 Copynumber: 2.7 Consensus size: 21
18255121 TTAAAATATT
*
18255131 TTTACATACTTTTAATTTTTAA
1 TTTAAATA-TTTTAATTTTTAA
18255153 TTTAAATTATTTTAATTTTTAA
1 TTTAAA-TATTTTAATTTTTAA
18255175 TTTAAATATTTTAA
1 TTTAAATATTTTAA
18255189 AATACTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 8 0.24
22 24 0.71
23 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAAATATTTTAATTTTTAA
Found at i:18255195 original size:54 final size:55
Alignment explanation
Indices: 18255112--18255220 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 55
18255102 TATATTTATT
* * *
18255112 TTTTTAATTTTAAAATATTTTTACATACTTTTAATTTTTAATTTAAATTATTTTAA
1 TTTTTAATTTTAAAATATTTTAAAATACTTTTAATTTTT-ATTTAAAATATTTTAA
18255168 TTTTTAA-TTT-AAATATTTTAAAATACTTTTAATTTTTATTTAAAATATTTTAA
1 TTTTTAATTTTAAAATATTTTAAAATACTTTTAATTTTTATTTAAAATATTTTAA
18255221 AATATTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
53 15 0.30
54 25 0.50
55 3 0.06
56 7 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (55 bp):
TTTTTAATTTTAAAATATTTTAAAATACTTTTAATTTTTATTTAAAATATTTTAA
Found at i:18255221 original size:10 final size:10
Alignment explanation
Indices: 18255178--18255228 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
18255168 TTTTTAATTT
18255178 AAATATTTTA
1 AAATATTTTA
18255188 AAATACTTTTA
1 AAATA-TTTTA
** *
18255199 ATTTTTATTTA
1 AAATAT-TTTA
18255210 AAATATTTTA
1 AAATATTTTA
18255220 AAATATTTT
1 AAATATTTT
18255229 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 19 0.58
11 14 0.42
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
AAATATTTTA
Found at i:18255677 original size:3 final size:3
Alignment explanation
Indices: 18255664--18255703 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
18255654 TACACTTGTA
*
18255664 TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18255704 TACCTTACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18255942 original size:14 final size:14
Alignment explanation
Indices: 18255923--18255980 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 14
18255913 ATTTATTTCT
18255923 TAATATAATATTTA
1 TAATATAATATTTA
18255937 TAATATAATTAATTTAA
1 TAATATAA-T-ATTT-A
*
18255954 TAATAT-A-CTTTA
1 TAATATAATATTTA
*
18255966 TAAT-TAATTTTTA
1 TAATATAATATTTA
18255979 TA
1 TA
18255981 TATTTTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
11 1 0.03
12 6 0.16
13 9 0.24
14 8 0.22
15 1 0.03
16 5 0.14
17 7 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATAATATTTA
Found at i:18258509 original size:30 final size:30
Alignment explanation
Indices: 18258451--18258507 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
18258441 AAAATATAAA
*
18258451 ATATAAAATATAATATTTTTAATATTTTAT
1 ATATAAAATATAATATTTTAAATATTTTAT
*
18258481 ATATGAAATATAA-ATTTTAAATATTTT
1 ATATAAAATATAATATTTTAAATATTTT
18258508 TAAGCATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
ATATAAAATATAATATTTTAAATATTTTAT
Done.