Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 181 of 208
Found at i:56910146 original size:31 final size:31
Alignment explanation
Indices: 56910128--56910185 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
56910118 ATTTTATTAT
56910128 AATATTTTTA-TATTTAAAATTTAAATTTAAA
1 AATATTTTTATTATTTAAAA-TTAAATTTAAA
*
56910159 AATATTTTTATTATTT-AAATTGAATTT
1 AATATTTTTATTATTTAAAATTAAATTT
56910186 GAATTGTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 7 0.28
31 13 0.52
32 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (31 bp):
AATATTTTTATTATTTAAAATTAAATTTAAA
Found at i:56914361 original size:45 final size:45
Alignment explanation
Indices: 56914297--56914391 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
56914287 TGAAGTTGGC
56914297 AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATAATT
1 AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATAATT
*
56914342 AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATATTT
1 AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATAATT
56914387 AATAA
1 AATAA
56914392 TGAGTTGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.23
Consensus pattern (45 bp):
AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATAATT
Found at i:56919545 original size:7 final size:7
Alignment explanation
Indices: 56919527--56919580 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
56919517 GAGTTACTAT
*
56919527 TTTAAGG
1 TTTATGG
56919534 TTTATGG
1 TTTATGG
*
56919541 ATTATGAG
1 TTTATG-G
*
56919549 TTTAGGG
1 TTTATGG
*
56919556 GTTATGG
1 TTTATGG
56919563 TTTATGG
1 TTTATGG
56919570 TTTATGG
1 TTTATGG
56919577 TTTA
1 TTTA
56919581 AAGGCGGGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:56919552 original size:22 final size:22
Alignment explanation
Indices: 56919483--56919580 Score: 78
Period size: 22 Copynumber: 4.5 Consensus size: 22
56919473 AAGGTTTTTG
* * *
56919483 GTTTAGGGTATATGGTTTA-GA
1 GTTTAAGGTTTATGGATTATGA
56919504 GTTTAAGGTTTA-GGAGTTACT-A
1 GTTTAAGGTTTATGGA-TTA-TGA
*
56919526 TTTTAAGGTTTATGGATTATGA
1 GTTTAAGGTTTATGGATTATGA
* * *
56919548 GTTTAGGGGTTATGGTTTATG-
1 GTTTAAGGTTTATGGATTATGA
*
56919569 GTTTATGGTTTA
1 GTTTAAGGTTTA
56919581 AAGGCGGGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.03
21 24 0.39
22 33 0.53
23 3 0.05
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (22 bp):
GTTTAAGGTTTATGGATTATGA
Found at i:56919574 original size:14 final size:14
Alignment explanation
Indices: 56919464--56919580 Score: 69
Period size: 14 Copynumber: 8.2 Consensus size: 14
56919454 TTAATTATCA
* *
56919464 TTATAGTTTAAGGT
1 TTATGGTTTATGGT
* *
56919478 TTTTGGTTTAGGGT
1 TTATGGTTTATGGT
*
56919492 ATATGGTTTA-GAGT
1 TTATGGTTTATG-GT
* *
56919506 TTAAGGTTTAGGAGT
1 TTATGGTTTATG-GT
*
56919521 TACTAT--TTTAAGGT
1 T--TATGGTTTATGGT
*
56919535 TTATGGATTATGAGT
1 TTATGGTTTATG-GT
* *
56919550 TTAGGGGTTATGGT
1 TTATGGTTTATGGT
56919564 TTATGGTTTATGGT
1 TTATGGTTTATGGT
56919578 TTA
1 TTA
56919581 AAGGCGGGAG
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
12 3 0.04
13 1 0.01
14 53 0.65
15 22 0.27
17 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (14 bp):
TTATGGTTTATGGT
Found at i:56922156 original size:29 final size:29
Alignment explanation
Indices: 56922091--56922156 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
56922081 CCAAAAAAGC
56922091 CCATTTTTTTAAAAAATTACCGAAATGGG
1 CCATTTTTTTAAAAAATTACCGAAATGGG
*** ** * *
56922120 CTGGTTTTTTAATTATTTACCGGAATGGG
1 CCATTTTTTTAAAAAATTACCGAAATGGG
56922149 CCATTTTT
1 CCATTTTT
56922157 CGCGAAATCG
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (29 bp):
CCATTTTTTTAAAAAATTACCGAAATGGG
Found at i:56925888 original size:23 final size:23
Alignment explanation
Indices: 56925846--56926069 Score: 128
Period size: 23 Copynumber: 8.7 Consensus size: 23
56925836 AATAAAATGA
*
56925846 TAAATTAGGGTAAGGGTTTTCAAT
1 TAAATTA-GGTTAGGGTTTTCAAT
*
56925870 TAAATTAGGTTAGGGTTTTAAAT
1 TAAATTAGGTTAGGGTTTTCAAT
56925893 TAAATTAGGTTAAGGTTAGGGTTTTC-AT
1 T-AA--A--TT-AGGTTAGGGTTTTCAAT
* *
56925921 GTAAAATAGGTTAGGGTTTAGGGTTCTTAAC
1 -TAAATTAGGTTAGGG-TT----TTC--AAT
*
56925952 TAAATTAGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTTTCAAT
*
56925975 TAAATTAAATTGGGTTAGGGTTTTTAAT
1 TAAATT--A---GGTTAGGGTTTTCAAT
*
56926003 TAAATTAGGCTAGGGTTTT-AAT
1 TAAATTAGGTTAGGGTTTTCAAT
* *
56926025 TAAATTAAATAAGGTTAGGATTTTTAAT
1 TAAA-T---T-AGGTTAGGGTTTTCAAT
56926053 TAAATTAGGTTAGGGTT
1 TAAATTAGGTTAGGGTT
56926070 AGGGTTTTTA
Statistics
Matches: 162, Mismatches: 12, Indels: 53
0.71 0.05 0.23
Matches are distributed among these distances:
22 7 0.04
23 54 0.33
24 13 0.08
25 3 0.02
26 4 0.02
27 12 0.07
28 38 0.23
29 16 0.10
30 14 0.09
31 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (23 bp):
TAAATTAGGTTAGGGTTTTCAAT
Found at i:56925908 original size:29 final size:28
Alignment explanation
Indices: 56925876--56926086 Score: 151
Period size: 29 Copynumber: 7.8 Consensus size: 28
56925866 CAATTAAATT
*
56925876 AGGTTAGGGTTTTAAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTA-GTTA
* *
56925905 AGGTTAGGG-TTTTCATGTAAAATAGGTTA
1 AGGTTAGGGTTTTTAAT-TAAATTA-GTTA
* * *
56925934 GGGTTTAGGGTTCTTAACT-AA--A-TT-
1 AGG-TTAGGGTTTTTAATTAAATTAGTTA
*
56925958 AGGTTAGGGTTTTTAATTAAATTAAATT-
1 AGGTTAGGGTTTTTAATTAAATT-AGTTA
*
56925986 GGGTTAGGGTTTTTAATT-AA--A-TT-
1 AGGTTAGGGTTTTTAATTAAATTAGTTA
* **
56926009 AGGCTAGGG-TTTTAATTAAATTAAATA
1 AGGTTAGGGTTTTTAATTAAATTAGTTA
*
56926036 AGGTTAGGATTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTA-GTTA
* *
56926065 GGGTTAGGGTTTTTAATCAAAT
1 AGGTTAGGGTTTTTAATTAAAT
56926087 AATGTCAAAA
Statistics
Matches: 146, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
22 8 0.05
23 24 0.16
24 5 0.03
25 3 0.02
26 1 0.01
27 11 0.08
28 38 0.26
29 45 0.31
30 7 0.05
31 4 0.03
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.42
Consensus pattern (28 bp):
AGGTTAGGGTTTTTAATTAAATTAGTTA
Found at i:56925944 original size:30 final size:28
Alignment explanation
Indices: 56925879--56925969 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 28
56925869 TTAAATTAGG
*
56925879 TTAGGGTTTTAAATTAAATTAGGTTAAGG-
1 TTAGGGTTTT--ATTAAATTAGGTTAGGGT
*
56925908 TTAGGGTTTTCATGTAAAATAGGTTAGGGT
1 TTAGGGTTTT-AT-TAAATTAGGTTAGGGT
*
56925938 TTAGGGTTCTTAACTAAATTAGGTTAGGGT
1 TTAGGGTT-TT-ATTAAATTAGGTTAGGGT
56925968 TT
1 TT
56925970 TTAATTAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 2 0.04
29 23 0.43
30 25 0.47
31 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (28 bp):
TTAGGGTTTTATTAAATTAGGTTAGGGT
Found at i:56925992 original size:28 final size:28
Alignment explanation
Indices: 56925867--56926086 Score: 167
Period size: 28 Copynumber: 8.1 Consensus size: 28
56925857 AAGGGTTTTC
*
56925867 AATTAAATTAGGTTAGGGTTTTAAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
** *
56925895 AATTAGGTTAAGGTTAGGG-TTTTCATGTA
1 AATTAAATT-AGGTTAGGGTTTTTAAT-TA
* ** *
56925924 AAATAGGTTAGGGTTTAGGG---TT-CTT-
1 AATTAAATTA-GG-TTAGGGTTTTTAATTA
*
56925949 AACTAAATTAGGTTAGGGTTTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
*
56925977 AATTAAATTGGGTTAGGG--TTT--TT-
1 AATTAAATTAGGTTAGGGTTTTTAATTA
*
56926000 AATTAAATTAGGCTAGGG-TTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
* *
56926027 AATTAAATAAGGTTAGGATTTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
** *
56926055 AATTAGGTTAGGGTTAGGGTTTTTAATCA
1 AATTAAATTA-GGTTAGGGTTTTTAATTA
56926084 AAT
1 AAT
56926087 AATGTCAAAA
Statistics
Matches: 155, Mismatches: 22, Indels: 29
0.75 0.11 0.14
Matches are distributed among these distances:
23 22 0.14
24 7 0.05
25 7 0.05
26 8 0.05
27 18 0.12
28 47 0.30
29 40 0.26
30 6 0.04
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.42
Consensus pattern (28 bp):
AATTAAATTAGGTTAGGGTTTTTAATTA
Found at i:56926043 original size:50 final size:50
Alignment explanation
Indices: 56925938--56926069 Score: 201
Period size: 50 Copynumber: 2.6 Consensus size: 50
56925928 AGGTTAGGGT
* * **
56925938 TTAGGGTTCTTAACTAAATTAGGTTAGGGTTTTTAATTAAATTAAATTGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG-TTTTAATTAAATTAAATAAGG
*
56925989 TTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTAATTAAATTAAATAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAATTAAATTAAATAAGG
*
56926039 TTAGGATTTTTAATTAAATTAGGTTAGGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTT
56926070 AGGGTTTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 48 0.65
51 26 0.35
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (50 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAATTAAATTAAATAAGG
Found at i:56928249 original size:14 final size:15
Alignment explanation
Indices: 56928232--56928265 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56928222 AATAAATATC
56928232 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
56928246 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
56928261 TAAAA
1 TAAAA
56928266 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:56928485 original size:22 final size:22
Alignment explanation
Indices: 56928455--56928496 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56928445 ATTTGGAGAT
*
56928455 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
56928477 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
56928497 TTTGACAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:56928555 original size:22 final size:22
Alignment explanation
Indices: 56928497--56928567 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
56928487 AATTTGAGAG
* *
56928497 TTTGACAGAATTTTGGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
56928519 TTTGAGAGAATTTTTGAATGGAA
1 TTTGAGAGAATTTTTGAA-GGAA
*
56928542 -TTGAGAGAATTTTTTAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
*
56928563 ATTGA
1 TTTGA
56928568 TATTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 4 0.09
22 36 0.82
23 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (22 bp):
TTTGAGAGAATTTTTGAAGGAA
Found at i:56929124 original size:12 final size:12
Alignment explanation
Indices: 56929107--56929136 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
56929097 CTTGTACGTA
56929107 TAACCCATCTGC
1 TAACCCATCTGC
56929119 TAACCCATCTGC
1 TAACCCATCTGC
56929131 TAACCC
1 TAACCC
56929137 TTTCAAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.43, G:0.07, T:0.23
Consensus pattern (12 bp):
TAACCCATCTGC
Found at i:56947264 original size:8 final size:8
Alignment explanation
Indices: 56947251--56947277 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
56947241 TAAAATTTTA
56947251 TTTTTAAT
1 TTTTTAAT
56947259 TTTTTAAT
1 TTTTTAAT
56947267 TTTTTAAT
1 TTTTTAAT
56947275 TTT
1 TTT
56947278 AATTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTAAT
Found at i:56954306 original size:23 final size:23
Alignment explanation
Indices: 56954240--56954306 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
56954230 AATTATTTTT
*
56954240 AAAATTTTAGAAAAT-TATAAAATA
1 AAAATTTTA-AAAATAAAT-AAATA
* *
56954264 AAAA-ATTAAATAA-AAGTAAATA
1 AAAATTTTAAA-AATAAATAAATA
56954286 AAAATTTTAAAAATAAATAAA
1 AAAATTTTAAAAATAAATAAA
56954307 GTGAGAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
22 13 0.38
23 17 0.50
24 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (23 bp):
AAAATTTTAAAAATAAATAAATA
Found at i:56958107 original size:23 final size:22
Alignment explanation
Indices: 56958055--56958107 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
56958045 TCCACGTCTT
*
56958055 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
56958077 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
56958100 TTTCTTTT
1 TTTCTTTT
56958108 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:56971134 original size:33 final size:33
Alignment explanation
Indices: 56971097--56971163 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
56971087 AGGAGGCATA
* *
56971097 AAAGATGGGCCCAGCTGTAAAGAGGACCTGATG
1 AAAGATGAGCCCACCTGTAAAGAGGACCTGATG
* *
56971130 AAAGATGAGCCCACCTGTAAAGAGTACTTGATG
1 AAAGATGAGCCCACCTGTAAAGAGGACCTGATG
56971163 A
1 A
56971164 GATTTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (33 bp):
AAAGATGAGCCCACCTGTAAAGAGGACCTGATG
Found at i:56979020 original size:21 final size:21
Alignment explanation
Indices: 56978995--56979037 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
56978985 ATGATTTCAA
56978995 ACTACTAATCAATCAAATAAT
1 ACTACTAATCAATCAAATAAT
56979016 ACTACTAATCAATCAAATAAT
1 ACTACTAATCAATCAAATAAT
56979037 A
1 A
56979038 TAAGAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (21 bp):
ACTACTAATCAATCAAATAAT
Found at i:56979343 original size:16 final size:16
Alignment explanation
Indices: 56979322--56979353 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56979312 TAAATTTAGC
56979322 GAATTTTTTTCTATAT
1 GAATTTTTTTCTATAT
56979338 GAATTTTTTTCTATAT
1 GAATTTTTTTCTATAT
56979354 TATAGATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
GAATTTTTTTCTATAT
Found at i:56982097 original size:67 final size:65
Alignment explanation
Indices: 56981945--56982099 Score: 152
Period size: 66 Copynumber: 2.3 Consensus size: 65
56981935 CTACTGTCGT
* * * * * *
56981945 TTTTTGGAGATATGCTTCATCTCTATGGAGAGTGATTAAACGGTTTATGGGGGGCTTGATTGTCA
1 TTTTTGGAGATATGC-TCACCTCTATGGAGAGTGATTAAACAGTTCATGAGGGCCTTGACTGTCA
56982010 A
65 A
* * **
56982011 TTTTTGGTGTTATGCCTCACCTCTATGGAGAGCTG-TTGGACAGTTCATGAAGGGCCTTGACTG-
1 TTTTTGGAGATATG-CTCACCTCTATGGAGAG-TGATTAAACAGTTCATG-AGGGCCTTGACTGT
56982074 CTAA
63 C-AA
56982078 TTTTTGGAGATATGTCTCACCT
1 TTTTTGGAGATATG-CTCACCT
56982100 TCGTGGAAAG
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
66 38 0.53
67 34 0.47
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.37
Consensus pattern (65 bp):
TTTTTGGAGATATGCTCACCTCTATGGAGAGTGATTAAACAGTTCATGAGGGCCTTGACTGTCAA
Found at i:56994927 original size:14 final size:14
Alignment explanation
Indices: 56994901--56994930 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56994891 TTTATTAAAA
*
56994901 TTTTATTTTTAATT
1 TTTTAATTTTAATT
56994915 TTTTAATTTTAATT
1 TTTTAATTTTAATT
56994929 TT
1 TT
56994931 ATTCTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:56997184 original size:27 final size:25
Alignment explanation
Indices: 56997147--56997202 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
56997137 TAAATTATGG
*
56997147 ATAAAATAATAAGAAATAATATAGT
1 ATAAAATAATAAGAAATAATATAAT
**
56997172 ATAAAATTAAATAATTAATAATATAAT
1 ATAAAA-T-AATAAGAAATAATATAAT
56997199 ATAA
1 ATAA
56997203 TATAGTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 6 0.23
26 1 0.04
27 19 0.73
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (25 bp):
ATAAAATAATAAGAAATAATATAAT
Found at i:57008590 original size:21 final size:22
Alignment explanation
Indices: 57008566--57008619 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
57008556 AAATAATTAC
*
57008566 ATTTATTTT-CTTTAAAT-TAAT
1 ATTTATTTTAATTT-AATGTAAT
*
57008587 ATTT-TTTTAATTTAATGTATT
1 ATTTATTTTAATTTAATGTAAT
57008608 ATTTATTTTAAT
1 ATTTATTTTAAT
57008620 ATTTTTTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.25
21 14 0.50
22 7 0.25
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTTATTTTAATTTAATGTAAT
Found at i:57008601 original size:16 final size:16
Alignment explanation
Indices: 57008569--57008626 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
57008559 TAATTACATT
*
57008569 TATTTTCTTTAAATTAA
1 TATTTT-TTTAATTTAA
57008586 TATTTTTTTAATTTAA
1 TATTTTTTTAATTTAA
* * *
57008602 TGTATTATTTATTTTAA
1 TAT-TTTTTTAATTTAA
57008619 TATTTTTT
1 TATTTTTT
57008627 ACATGTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 15 0.44
17 19 0.56
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTTTTTTAATTTAA
Found at i:57012173 original size:25 final size:26
Alignment explanation
Indices: 57012117--57012173 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
57012107 CTAAATTATT
57012117 TAACTAAATTTCAATACATCTATATAC
1 TAACTAAATTTCAATACATC-ATATAC
*
57012144 TAACTAAATTTTAATACATC-TATAC
1 TAACTAAATTTCAATACATCATATAC
57012169 TAACT
1 TAACT
57012174 CTGTAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 10 0.34
27 19 0.66
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.39
Consensus pattern (26 bp):
TAACTAAATTTCAATACATCATATAC
Found at i:57012372 original size:58 final size:58
Alignment explanation
Indices: 57012251--57012380 Score: 149
Period size: 58 Copynumber: 2.2 Consensus size: 58
57012241 TCATTATAGG
* * * ** *
57012251 GTTCACAGAAGGGGCCG-AATGTAGAAGTTATGTCTCACCTCTGTCGAGAGCCCAAGGA
1 GTTCACAGAA-GGGCTGAAATGGAGAAGATATGTCTCACCTCCATCGAGAGCCCAAAGA
*
57012309 GTTCACTA-AAGGGCTGAAATGGAGAAGATATGTCTTACCTCCATCGAGAGCCCAAA-A
1 GTTCAC-AGAAGGGCTGAAATGGAGAAGATATGTCTCACCTCCATCGAGAGCCCAAAGA
57012366 GATTCACAGAAGGGC
1 G-TTCACAGAAGGGC
57012381 CCTAATGTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
57 8 0.13
58 52 0.85
59 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (58 bp):
GTTCACAGAAGGGCTGAAATGGAGAAGATATGTCTCACCTCCATCGAGAGCCCAAAGA
Found at i:57015018 original size:28 final size:28
Alignment explanation
Indices: 57014982--57015038 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
57014972 CAATAAACTC
57014982 AGCGACCAATTGTTGATGAAAAAGAGTA
1 AGCGACCAATTGTTGATGAAAAAGAGTA
*
57015010 AGCGGCCAATTGTTGATGAAAAAGAGTA
1 AGCGACCAATTGTTGATGAAAAAGAGTA
57015038 A
1 A
57015039 TAGAGTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (28 bp):
AGCGACCAATTGTTGATGAAAAAGAGTA
Found at i:57016420 original size:20 final size:18
Alignment explanation
Indices: 57016391--57016429 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
57016381 AACGAGCAAG
57016391 ATAAAAAAATTAAAGAAAAC
1 ATAAAAAAA-TAAA-AAAAC
*
57016411 ATAAATAAATAAAAAAAC
1 ATAAAAAAATAAAAAAAC
57016429 A
1 A
57016430 AAGAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (18 bp):
ATAAAAAAATAAAAAAAC
Found at i:57016869 original size:29 final size:29
Alignment explanation
Indices: 57016826--57016883 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
57016816 AAAAATATAA
*
57016826 ATATATACATAAAAAATA-AATATACATAT
1 ATATATACATAAAAAAGATAAT-TACATAT
* *
57016855 ATATATAGATTAAAAAGATAATTACATAT
1 ATATATACATAAAAAAGATAATTACATAT
57016884 GAAAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (29 bp):
ATATATACATAAAAAAGATAATTACATAT
Found at i:57018358 original size:43 final size:43
Alignment explanation
Indices: 57018248--57018679 Score: 274
Period size: 44 Copynumber: 10.0 Consensus size: 43
57018238 AGATTTACTA
** * * * * *
57018248 TCTTCGATCTGCTCCACTATTGTTTAGGGAGATAAGATCTGTAA
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAG-GCTGGAG
* * * * * *
57018292 TTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGG
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAGGCTGGAG
* * ** * *
57018335 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAA
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAG-GCTGGAG
* * * * * *
57018379 TTTTCAACCTACTCCACTGCTGCTCAGTGAGATAAGGCTGGGG
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAGGCTGGAG
* * * * * * *
57018422 ACTTCGATATGCTCCACTCCTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAG-GCTGGAG
* * * * * *
57018466 TTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTGGGG
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAGGCTGGAG
* * * * * *
57018509 ACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAG-GCTGGAG
* * * * *
57018553 TTTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTGGAG
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAGGCTGGAG
* * * * * *
57018596 ACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAG-GCTGGAG
* * *
57018640 T-TTCCAACCTACTCCACTGCTGCTCAGGGAGAT-AGGCTGG
1 TCTT-CGATCTGCTCCACTGCTGCTCAGGGAGATAAGGCTGG
57018680 TCTCTTTGAT
Statistics
Matches: 278, Mismatches: 105, Indels: 12
0.70 0.27 0.03
Matches are distributed among these distances:
42 3 0.01
43 128 0.46
44 147 0.53
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (43 bp):
TCTTCGATCTGCTCCACTGCTGCTCAGGGAGATAAGGCTGGAG
Found at i:57018720 original size:87 final size:87
Alignment explanation
Indices: 57018249--57018679 Score: 747
Period size: 87 Copynumber: 5.0 Consensus size: 87
57018239 GATTTACTAT
* *
57018249 CTTCGATCTGCTCCACTATTGTTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
* *
57018314 CTCAGGGAGACAAGGCTGGGGT
66 CTCAGGGAGATAAGGCTGGGGA
*
57018336 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
*
57018401 CTCAGTGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* *
57018423 CTTCGATATGCTCCACTCCTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
*
57018488 CTCAGGGAGATAAGGTTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
57018510 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
* *
57018575 CTCAAGGAGATAAGGCTGGAGA
66 CTCAGGGAGATAAGGCTGGGGA
*
57018597 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
57018662 CTCAGGGAGAT-AGGCTGG
66 CTCAGGGAGATAAGGCTGG
57018680 TCTCTTTGAT
Statistics
Matches: 326, Mismatches: 18, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
86 7 0.02
87 319 0.98
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAGGCTGGGGA
Found at i:57018957 original size:88 final size:88
Alignment explanation
Indices: 57018734--57019648 Score: 1280
Period size: 88 Copynumber: 10.4 Consensus size: 88
57018724 CTATCTTCAG
* * * * * * *
57018734 TCTGCTCCACTGTCAGTACAGGAAGGCAAGA-CTGGC-GTTTTCAACCTGCTCCGCTGTAACCCA
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT-GCTATTTTTAACCTGCTCCGCTGCAACCCA
* *
57018797 GGGAGGTAAGGCTTTGTGAT-TTCGA
65 GGGAGGCAAGGC-TGGTG-TCTTCGA
* ** * * * * * *
57018822 TCTGCTTCGTTGTCAATACAGGAAGGTAATATCTGCTATTTTCAACCTGTTCCGCTACAACCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
57018887 GGAGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * *
57018910 TCTGCTACGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCCGCAACCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
* *
57018975 GGAGGCAATGCTGGTGTCTTCAA
66 GGAGGCAAGGCTGGTGTCTTCGA
* *
57018998 TCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
*
57019063 GGAGGCAAGGCTAGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * * *
57019086 TCTTCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCCGTAACCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
57019151 GGAGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* **
57019174 TCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTTTGCTGCAACCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
57019239 GGAGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * * *
57019262 TCTGCTTCGCTGTCGGTGCAGGAAGGCAATATCTGCTATTTTTAACCTGCTCTGCCGTAACCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
57019327 GGAGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * *
57019350 TCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCCGCAGCCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
* *
57019415 GGAGGCAAGGCTGATATCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * ***
57019438 TCTGCTTCACTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTTATCTGCAACCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
57019503 GGAGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * * *
57019526 TCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAAACTGCTCCACTGTAACCCAG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
* *
57019591 GGAGGCAAAGC-GAGTGACTTCGA
66 GGAGGCAAGGCTG-GTGTCTTCGA
*
57019614 TCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTG
1 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
57019649 TTATCTTCAC
Statistics
Matches: 745, Mismatches: 78, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
87 2 0.00
88 707 0.95
89 36 0.05
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
GGAGGCAAGGCTGGTGTCTTCGA
Found at i:57019069 original size:44 final size:44
Alignment explanation
Indices: 57018928--57019598 Score: 163
Period size: 44 Copynumber: 15.2 Consensus size: 44
57018918 GCTGTCGGTG
* *
57018928 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCCGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * * * * ****
57018972 CAGGGAGGC-A-ATGCTGGTGTCTTCAATCTGCTTCGTTGTCGGTG
1 CAGGAAGGCAAGAT-CTGCTATTTTTAACCTGCTCCGCTG-CAACC
*
57019016 CAGGAAGGCAAGATTTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * ** * * * ****
57019060 CAGGGAGGCAAG-GCTAG-TGTCTTCGATCTTCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCT-GCTATTTTTAACCTGCTCCGCTG-CAACC
* * *
57019104 TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCCGTAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * ** * * ****
57019148 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* **
57019192 CAAGAAGGCAAGATCTGCTATTTTTAACCTGCTTTGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * ** * * ****
57019236 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* * * *
57019280 CAGGAAGGCAATATCTGCTATTTTTAACCTGCTCTGCCGTAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * ** * * ****
57019324 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* * *
57019368 CAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCCGCAGCC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * ** * * * ****
57019412 CAGGGAGGCAAG-GCTGATATCTTCGATCTGCTTCACTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* ***
57019456 CAAGAAGGCAAGATCTGCTATTTTTAACCTGCTTATCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * ** * * ****
57019500 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* * * *
57019544 CAAGAAGGCAAGATCTGCTATTTTTAAACTGCTCCACTGTAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
*
57019588 CAGGGAGGCAA
1 CAGGAAGGCAA
57019599 AGCGAGTGAC
Statistics
Matches: 399, Mismatches: 210, Indels: 36
0.62 0.33 0.06
Matches are distributed among these distances:
42 2 0.01
43 117 0.29
44 159 0.40
45 119 0.30
46 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
Found at i:57020875 original size:6 final size:6
Alignment explanation
Indices: 57020864--57020905 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
57020854 TCTCACTTTG
*
57020864 CTTTTT CTTTTT CTTTTTT CCTTTT CTTTTTT CTTTTT -TTTT
1 CTTTTT CTTTTT C-TTTTT CTTTTT C-TTTTT CTTTTT CTTTT
57020906 GAAATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 4 0.12
6 17 0.53
7 11 0.34
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:57020883 original size:13 final size:13
Alignment explanation
Indices: 57020865--57020905 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
57020855 CTCACTTTGC
57020865 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
*
57020878 TTTTTCCTTTTCT
1 TTTTTCTTTTTCT
57020891 TTTTTCTTTTT-T
1 TTTTTCTTTTTCT
57020903 TTT
1 TTT
57020906 GAAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:57020887 original size:8 final size:7
Alignment explanation
Indices: 57020865--57020902 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
57020855 CTCACTTTGC
57020865 TTTTTC-
1 TTTTTCT
57020871 TTTTTCT
1 TTTTTCT
57020878 TTTTTC-
1 TTTTTCT
*
57020884 CTTTTCT
1 TTTTTCT
57020891 TTTTTCT
1 TTTTTCT
57020898 TTTTT
1 TTTTT
57020903 TTTGAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:57025977 original size:27 final size:27
Alignment explanation
Indices: 57025912--57025972 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
57025902 ACATTACTTG
57025912 AAAAA-AAATATA-A-ATATATACATA
1 AAAAATAAATATACATATATATACATA
*
57025936 AAAAATAAATATACATATATATAGATTA
1 AAAAATAAATATACATATATATACA-TA
57025964 AAAAGATAA
1 AAAA-ATAA
57025973 TTACAAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 5 0.16
25 7 0.23
26 1 0.03
27 8 0.26
28 6 0.19
29 4 0.13
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (27 bp):
AAAAATAAATATACATATATATACATA
Found at i:57028130 original size:61 final size:59
Alignment explanation
Indices: 57028013--57028192 Score: 164
Period size: 61 Copynumber: 2.9 Consensus size: 59
57028003 TTGGTCTAGT
* * * *
57028013 AACAAAATTAGCCCTCTAATGTTTACACATTTGATCAATTT-GATCCTAAATATAAAAAATTC
1 AACAAATTTA-CCCTC-AATGTTTACAAATTTG-TCAATTTAG-TTCTAAATCTAAAAAATTC
* * *
57028075 AACAAATTTATCCCTCAATGTTTACAAATTTTGTCATTTTAGTTCTAATTCTAAAAATTTC
1 AACAAATTTA-CCCTCAATGTTTACAAA-TTTGTCAATTTAGTTCTAAATCTAAAAAATTC
* ** * * *
57028136 AAAAAATTTGACCCTCAAAATTTACAAAATTTGTGAATTTAATTCTAACTCTAAAAA
1 AACAAATTT-ACCCTCAATGTTTAC-AAATTTGTCAATTTAGTTCTAAATCTAAAAA
57028193 TTAAACATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
61 76 0.77
62 23 0.23
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (59 bp):
AACAAATTTACCCTCAATGTTTACAAATTTGTCAATTTAGTTCTAAATCTAAAAAATTC
Found at i:57028193 original size:61 final size:61
Alignment explanation
Indices: 57028041--57028194 Score: 166
Period size: 61 Copynumber: 2.5 Consensus size: 61
57028031 ATGTTTACAC
* * * * * * **
57028041 ATTTGATCAATTTGATCCTAAATATAAAAAATTCAACAAATTTATCCCTCAATGTTTACAAA
1 ATTTG-TCAATTTAATTCTAACTCTAAAAATTTCAAAAAATTTATCCCTCAAAATTTACAAA
* * * *
57028103 TTTTGTCATTTTAGTTCTAATTCTAAAAATTTCAAAAAATTTGA-CCCTCAAAATTTACAAA
1 ATTTGTCAATTTAATTCTAACTCTAAAAATTTCAAAAAATTT-ATCCCTCAAAATTTACAAA
*
57028164 ATTTGTGAATTTAATTCTAACTCTAAAAATT
1 ATTTGTCAATTTAATTCTAACTCTAAAAATT
57028195 AAACATATAA
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
61 70 0.93
62 5 0.07
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.40
Consensus pattern (61 bp):
ATTTGTCAATTTAATTCTAACTCTAAAAATTTCAAAAAATTTATCCCTCAAAATTTACAAA
Found at i:57049839 original size:12 final size:12
Alignment explanation
Indices: 57049822--57049846 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57049812 AGACTAAAAC
57049822 TATTACTGTAAG
1 TATTACTGTAAG
57049834 TATTACTGTAAG
1 TATTACTGTAAG
57049846 T
1 T
57049847 GTTCTAAAAC
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:0.16, T:0.44
Consensus pattern (12 bp):
TATTACTGTAAG
Found at i:57055382 original size:26 final size:28
Alignment explanation
Indices: 57055348--57055400 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
57055338 AACAATCATT
57055348 GCATAGTCATGAACTAAGC-AATGAAAA
1 GCATAGTCATGAACTAAGCAAATGAAAA
* *
57055375 GCAT-GTCATGGATTAAGCAAATGAAA
1 GCATAGTCATGAACTAAGCAAATGAAA
57055401 GAAAATTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (28 bp):
GCATAGTCATGAACTAAGCAAATGAAAA
Found at i:57057578 original size:40 final size:40
Alignment explanation
Indices: 57057519--57057594 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
57057509 TCTTCGGGGC
* *
57057519 TTTAGCGGCGTTTTTCAAAAACCTCCGCGAATGCTCTATT
1 TTTAGCGGCGTTTTCCAAAAACCGCCGCGAATGCTCTATT
* *
57057559 TTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTC
1 TTTAGCGGCGTTTTCCAAAAACCGCCGCGAATGCTC
57057595 CGACTGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCGTTTTCCAAAAACCGCCGCGAATGCTCTATT
Found at i:57066239 original size:27 final size:27
Alignment explanation
Indices: 57066209--57066261 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
57066199 AACAATCATT
57066209 GCATAATCATGAATTAAGC-AATGAAAA
1 GCAT-ATCATGAATTAAGCAAATGAAAA
* *
57066236 GCATGTCATGGATTAAGCAAATGAAA
1 GCATATCATGAATTAAGCAAATGAAA
57066262 GAAAATTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (27 bp):
GCATATCATGAATTAAGCAAATGAAAA
Found at i:57068538 original size:11 final size:11
Alignment explanation
Indices: 57068522--57068569 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
57068512 TTTACTGTGC
57068522 AAAAATATTTT
1 AAAAATATTTT
57068533 AAAAATACTTATT
1 AAAAATA-TT-TT
**
57068546 AAATTTAATTTT
1 AAAAAT-ATTTT
57068558 AAAAATATTTT
1 AAAAATATTTT
57068569 A
1 A
57068570 TATTATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 13 0.43
12 8 0.27
13 8 0.27
14 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:57074678 original size:16 final size:16
Alignment explanation
Indices: 57074657--57074689 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57074647 ACTAAGCTAC
57074657 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
57074673 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
57074689 G
1 G
57074690 GCAATTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:57074737 original size:9 final size:9
Alignment explanation
Indices: 57074725--57075151 Score: 102
Period size: 9 Copynumber: 49.8 Consensus size: 9
57074715 CAAATTATGC
57074725 TATGTAAGT
1 TATGTAAGT
*
57074734 TATGTATGT
1 TATGTAAGT
** *
57074743 CGTATAAGT
1 TATGTAAGT
57074752 TATGTAAG-
1 TATGTAAGT
57074760 T-TGTAAGT
1 TATGTAAGT
57074768 TATGTAAGT
1 TATGTAAGT
*
57074777 TAT-TTA-T
1 TATGTAAGT
* *
57074784 TATGAAAAT
1 TATGTAAGT
*
57074793 TAAGTAAGT
1 TATGTAAGT
57074802 TATGTAA-T
1 TATGTAAGT
** *
57074810 T-TACAAAT
1 TATGTAAGT
**
57074818 TAT-TAAAA
1 TATGTAAGT
*
57074826 AATTGTAAGT
1 TA-TGTAAGT
57074836 TATGTAAG-
1 TATGTAAGT
57074844 T-TGTAAGT
1 TATGTAAGT
*
57074852 TATGTATA-A
1 TATGTA-AGT
*
57074861 CAT-TAA-T
1 TATGTAAGT
**
57074868 TAACTAAGT
1 TATGTAAGT
*
57074877 TATGTAATT
1 TATGTAAGT
*
57074886 TATGTATA-A
1 TATGTA-AGT
57074895 TACTGATTAA-T
1 TA-TG--TAAGT
**
57074906 TAACTAAGT
1 TATGTAAGT
*
57074915 TATGTAATT
1 TATGTAAGT
57074924 TATGT-A--
1 TATGTAAGT
*
57074930 TAT-TAACT
1 TATGTAAGT
*
57074938 AAT-TAAGT
1 TATGTAAGT
57074946 TATGT--GT
1 TATGTAAGT
57074953 GT-TGTAAG-
1 -TATGTAAGT
57074961 T-TGTAAG-
1 TATGTAAGT
57074968 T-TGTAAGT
1 TATGTAAGT
57074976 TATGTAAGT
1 TATGTAAGT
57074985 TA--TAAGT
1 TATGTAAGT
57074992 TATGTAAGT
1 TATGTAAGT
57075001 TA--TAAGT
1 TATGTAAGT
57075008 TATGTAAG-
1 TATGTAAGT
57075016 T-TGTAAGT
1 TATGTAAGT
*
57075024 TATGTATA-A
1 TATGTA-AGT
57075033 TAT-TAA-T
1 TATGTAAGT
**
57075040 TAACTAAGT
1 TATGTAAGT
*
57075049 TATGTAATT
1 TATGTAAGT
*
57075058 TATGTATCACAT
1 TATGTA--A-GT
57075070 TAATGTAAGT
1 T-ATGTAAGT
**
57075080 TATGTAACA
1 TATGTAAGT
*
57075089 TATGTATA-A
1 TATGTA-AGT
57075098 TAT-TAA-T
1 TATGTAAGT
**
57075105 TAACTAAGT
1 TATGTAAGT
*
57075114 TATGTAATT
1 TATGTAAGT
*
57075123 TATGTATCATAT
1 TATGTA--A-GT
57075135 TAATGTAAGT
1 T-ATGTAAGT
57075145 TATGTAA
1 TATGTAA
57075152 CTTACGCATC
Statistics
Matches: 313, Mismatches: 58, Indels: 94
0.67 0.12 0.20
Matches are distributed among these distances:
5 1 0.00
6 4 0.01
7 66 0.21
8 46 0.15
9 159 0.51
10 14 0.04
11 7 0.02
12 6 0.02
13 10 0.03
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:57074768 original size:16 final size:16
Alignment explanation
Indices: 57074727--57074857 Score: 77
Period size: 16 Copynumber: 7.8 Consensus size: 16
57074717 AATTATGCTA
*
57074727 TGTAAGTTATGTATGT
1 TGTAAGTTATGTAAGT
*
57074743 CGTATAAGTTATGTAAGT
1 --TGTAAGTTATGTAAGT
57074761 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
* * * *
57074777 TATTTA-TTATGAAAAT
1 T-GTAAGTTATGTAAGT
*
57074793 TAAGTAAGTTATGTAATT
1 T--GTAAGTTATGTAAGT
** * *
57074811 TACAAATTAT-TAAAAAAT
1 TGTAAGTTATGT---AAGT
57074829 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
57074845 TGTAAGTTATGTA
1 TGTAAGTTATGTA
57074858 TAACATTAAT
Statistics
Matches: 87, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
15 1 0.01
16 47 0.54
17 5 0.06
18 33 0.38
19 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:57074820 original size:34 final size:33
Alignment explanation
Indices: 57074761--57074845 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
57074751 TTATGTAAGT
***
57074761 TGTAAGTTATGTAAGTTATTTATTATGAAAATTAA
1 TGTAAGTTATGTAAGTTACAAATTATGAAAA--AA
* *
57074796 -GTAAGTTATGTAATTTACAAATTATTAAAAAA
1 TGTAAGTTATGTAAGTTACAAATTATGAAAAAA
57074828 TTGTAAGTTATGTAAGTT
1 -TGTAAGTTATGTAAGTT
57074846 GTAAGTTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
32 2 0.05
34 40 0.95
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (33 bp):
TGTAAGTTATGTAAGTTACAAATTATGAAAAAA
Found at i:57074962 original size:16 final size:16
Alignment explanation
Indices: 57074941--57075029 Score: 128
Period size: 16 Copynumber: 5.7 Consensus size: 16
57074931 ATTAACTAAT
**
57074941 TAAGTTATGTGTGTTG
1 TAAGTTATGTAAGTTG
57074957 TAAG-T-TGTAAGTTG
1 TAAGTTATGTAAGTTG
*
57074971 TAAGTTATGTAAGTTA
1 TAAGTTATGTAAGTTG
*
57074987 TAAGTTATGTAAGTTA
1 TAAGTTATGTAAGTTG
57075003 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTG
57075019 TAAGTTATGTA
1 TAAGTTATGTA
57075030 TAATATTAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.16
15 2 0.03
16 54 0.81
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TAAGTTATGTAAGTTG
Found at i:57074965 original size:7 final size:7
Alignment explanation
Indices: 57074953--57075024 Score: 72
Period size: 7 Copynumber: 9.4 Consensus size: 7
57074943 AGTTATGTGT
57074953 GTTGTAA
1 GTTGTAA
57074960 GTTGTAA
1 GTTGTAA
57074967 GTTGTAA
1 GTTGTAA
57074974 GTTATGTAA
1 G-T-TGTAA
*
57074983 GTTATAA
1 GTTGTAA
57074990 GTTATGTAA
1 G-T-TGTAA
*
57074999 GTTATAA
1 GTTGTAA
57075006 GTTATGTAA
1 G-T-TGTAA
57075015 GTTGTAA
1 GTTGTAA
57075022 GTT
1 GTT
57075025 ATGTATAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
7 33 0.60
8 6 0.11
9 16 0.29
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (7 bp):
GTTGTAA
Found at i:57074969 original size:23 final size:23
Alignment explanation
Indices: 57074941--57074996 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
57074931 ATTAACTAAT
*
57074941 TAAGTTATGTGTGT-TGTAAGTTG
1 TAAGTTATGTGT-TATGTAAGTTA
* **
57074964 TAAGTTGTAAGTTATGTAAGTTA
1 TAAGTTATGTGTTATGTAAGTTA
57074987 TAAGTTATGT
1 TAAGTTATGT
57074997 AAGTTATAAG
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (23 bp):
TAAGTTATGTGTTATGTAAGTTA
Found at i:57075080 original size:31 final size:31
Alignment explanation
Indices: 57075009--57075151 Score: 146
Period size: 34 Copynumber: 4.5 Consensus size: 31
57074999 GTTATAAGTT
* *
57075009 ATGTAAG-T-TGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATCATATTA
* *
57075038 ATTAACTAAGTTATGTAATTTATGTATCACATTA
1 A-T--GTAAGTTATGTAATTTATGTATCATATTA
** *
57075072 ATGTAAGTTATGTAACATATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATCATATTA
*
57075103 ATTAACTAAGTTATGTAATTTATGTATCATATTA
1 A-T--GTAAGTTATGTAATTTATGTATCATATTA
57075137 ATGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
57075152 CTTACGCATC
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 37 0.40
32 5 0.05
33 3 0.03
34 45 0.49
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.44
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATCATATTA
Found at i:57075093 original size:65 final size:65
Alignment explanation
Indices: 57075024--57075152 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
57075014 AGTTGTAAGT
57075024 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAACA
1 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAACA
*
57075089 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTATGTAAC
1 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAAC
57075153 TTACGCATCG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (65 bp):
TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAACA
Found at i:57080095 original size:41 final size:41
Alignment explanation
Indices: 57080050--57080228 Score: 263
Period size: 41 Copynumber: 4.4 Consensus size: 41
57080040 GCGCTTGTAT
* *
57080050 AAAAACGCCGCTAAAGACCCCAAGCATTAGCGGCGTATAGAA
1 AAAAACGCCGCTAAAGA-CCCAAGCATTAGCGGCGCATAGAC
57080092 AAAAACGCCGCTAAAGACCCAAGCATTAGCGGCGCATAG--
1 AAAAACGCCGCTAAAGACCCAAGCATTAGCGGCGCATAGAC
* * *
57080131 AAAAACGCCGCTAAATATCCGAGCATTAGCGGCGCATAGAC
1 AAAAACGCCGCTAAAGACCCAAGCATTAGCGGCGCATAGAC
* * *
57080172 AAAAACGCCGCTAAAGACTCGAGCATTAGCGGCGCTTAGAC
1 AAAAACGCCGCTAAAGACCCAAGCATTAGCGGCGCATAGAC
57080213 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
57080229 GTTTAAAAAA
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 36 0.28
41 74 0.58
42 17 0.13
ACGTcount: A:0.39, C:0.27, G:0.22, T:0.12
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCCAAGCATTAGCGGCGCATAGAC
Found at i:57080178 original size:80 final size:82
Alignment explanation
Indices: 57080050--57080228 Score: 263
Period size: 80 Copynumber: 2.2 Consensus size: 82
57080040 GCGCTTGTAT
*
57080050 AAAAACGCCGCTAAAGACCCCAAGCATTAGCGGCGTATAGAAAAAAACGCCGCTAAAGACCCAAG
1 AAAAACGCCGCTAAAGACCCCAAGCATTAGCGGCGCATAGAAAAAAACGCCGCTAAAGACCCAAG
57080115 CATTAGCGGCGCATAG-
66 CATTAGCGGCGCATAGA
* * * * * *
57080131 AAAAACGCCGCTAAATA-TCCGAGCATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACTCGAG
1 AAAAACGCCGCTAAAGACCCCAAGCATTAGCGGCGCATAGAAAAAAACGCCGCTAAAGACCCAAG
*
57080195 CATTAGCGGCGCTTAGA
66 CATTAGCGGCGCATAGA
57080212 CAAAAACGCCGCTAAAG
1 -AAAAACGCCGCTAAAG
57080229 GTTTAAAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 56 0.64
81 16 0.18
82 15 0.17
ACGTcount: A:0.39, C:0.27, G:0.22, T:0.12
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGACCCCAAGCATTAGCGGCGCATAGAAAAAAACGCCGCTAAAGACCCAAG
CATTAGCGGCGCATAGA
Found at i:57080360 original size:40 final size:40
Alignment explanation
Indices: 57080286--57080384 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
57080276 GGCGCTTTAT
* * **
57080286 ATAAAACGCCGCTAATTC-CTATTTTTAGCGGCGCTTCGGG
1 ATAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTT-GGG
* *
57080326 AT-AATCGCCGCTGATGCTCTACCTTTAGCGGCGCTTTGG
1 ATAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTGGG
*
57080365 CTAAATCGCCGCTAATGCTC
1 ATAAATCGCCGCTAATGCTC
57080385 GATTTGTTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 15 0.31
40 34 0.69
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.29
Consensus pattern (40 bp):
ATAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTGGG
Found at i:57082201 original size:68 final size:66
Alignment explanation
Indices: 57082129--57082280 Score: 144
Period size: 67 Copynumber: 2.2 Consensus size: 66
57082119 TGCTGAACAA
* * * *
57082129 TTCATAGAGGGTCCCAACTATCAATTTTTTGGAGATATGTCTCA-CATCTGTGGAGAGCCATTAA
1 TTCATAGAGGG-CCCAACTATCAA-TTTTTGGACATATGTCTCATC-TCCGTGAAGAGCCACTAA
57082193 ATGG
63 ATGG
* *** * * *
57082197 TTCATGGAAGGGCTTGAGTATCAATTTTTGGACATATGTCTCATCTCCGTGAATAGCCACTGAAT
1 TTCATAG-AGGGCCCAACTATCAATTTTTGGACATATGTCTCATCTCCGTGAAGAGCCACTAAAT
57082262 GG
65 GG
*
57082264 TTCATAGAATGGCCCAA
1 TTCATAG-AGGGCCCAA
57082281 AGGTGACACC
Statistics
Matches: 66, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
67 47 0.71
68 15 0.23
69 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (66 bp):
TTCATAGAGGGCCCAACTATCAATTTTTGGACATATGTCTCATCTCCGTGAAGAGCCACTAAATG
G
Found at i:57082990 original size:92 final size:91
Alignment explanation
Indices: 57082885--57083081 Score: 213
Period size: 90 Copynumber: 2.2 Consensus size: 91
57082875 CTCAAACTTA
** * * * *
57082885 AAAAAAAACAATTAAACCCT-TGCTTTTATTTTGCATTCACTTGGATATA-TAAAAACTTTTAAA
1 AAAAAAAGTAATTAAACCCTCTGCTTTTATTTTGCACTCAATT--AAATACT-AAAACTTTCAAA
*
57082948 ATGCATCAAAAAGGCCCTC-AAATATTTTC
63 ATACATCAAAAAGGCCCTCAAAAT-TTTTC
* * * **
57082977 AAAAAAAGTAATT-AAGCCTCTGGTTTTATTTTTCACTCAATTAAATACTTGAACTTTCAAAATA
1 AAAAAAAGTAATTAAACCCTCTGCTTTTATTTTGCACTCAATTAAATACTAAAACTTTCAAAATA
*
57083041 CATCGAAAAGGCCCTCAAAATTTTTC
66 CATCAAAAAGGCCCTCAAAATTTTTC
57083067 AAAAAAAGTAATTAA
1 AAAAAAAGTAATTAA
57083082 GCCCCTGATT
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
90 48 0.55
91 11 0.12
92 29 0.33
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (91 bp):
AAAAAAAGTAATTAAACCCTCTGCTTTTATTTTGCACTCAATTAAATACTAAAACTTTCAAAATA
CATCAAAAAGGCCCTCAAAATTTTTC
Found at i:57083184 original size:20 final size:21
Alignment explanation
Indices: 57083155--57083201 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
57083145 AAAAGACCAT
57083155 TTGACCGTT-AACTTTAACAG
1 TTGACCGTTAAACTTTAACAG
*
57083175 TTGACTGTTAAACTTTAACAG
1 TTGACCGTTAAACTTTAACAG
57083196 TTGACC
1 TTGACC
57083202 ATTCAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (21 bp):
TTGACCGTTAAACTTTAACAG
Found at i:57083305 original size:89 final size:89
Alignment explanation
Indices: 57083203--57083410 Score: 242
Period size: 89 Copynumber: 2.3 Consensus size: 89
57083193 CAGTTGACCA
* * *
57083203 TTCAAATACCCAATTGAGTGCAAAAAAAAAATTCGGGGGCTTAATT-TTTTTTAAAAAAGTTTGA
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAAA-GCGGGGGCTTAATTCATTTTTAAAAAAGTTTGA
* *
57083267 AGG-CATTTTTTATACAATTTGAAAG
65 AGGTC-CTTTTGATACAATTTGAAAG
* * * *
57083292 TTCAAGTACCCAATTGAGTG-AAAAATAAAAGCTGGGGCTTAATTGCATTTTTGAAAAAGTTTGG
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGCGGGGGCTTAATT-CATTTTTAAAAAAGTTTGA
* *
57083356 GGGTCCTTTTGATACATTTTGAAAG
65 AGGTCCTTTTGATACAATTTGAAAG
* * *
57083381 TTCAAGTACCAAAGTGAGTGCAAAATAAAA
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAA
57083411 TCAAGGGCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
87 12 0.12
88 9 0.09
89 71 0.71
90 8 0.08
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (89 bp):
TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGCGGGGGCTTAATTCATTTTTAAAAAAGTTTGAA
GGTCCTTTTGATACAATTTGAAAG
Found at i:57083419 original size:89 final size:90
Alignment explanation
Indices: 57083273--57083444 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 90
57083263 TTGAAGGCAT
* * * ** *
57083273 TTTTTATACAATTTGAAAGTTCAAGTACCCAATTGAGTGAAAAATAAAAGCTGGGGCTTAATTGC
1 TTTTGATACAATTTGAAAGTTCAAGTACCAAAGTGAGTGAAAAATAAAAGCAAGGGCTTAATGGC
57083338 -ATTTTTGAAAAAGTTTGGGGGTCC
66 TATTTTTGAAAAAGTTTGGGGGTCC
* * *
57083362 TTTTGATACATTTTGAAAGTTCAAGTACCAAAGTGAGTGCAAAATAAAATCAAGGGCTTAATGGC
1 TTTTGATACAATTTGAAAGTTCAAGTACCAAAGTGAGTGAAAAATAAAAGCAAGGGCTTAATGGC
* *
57083427 TTTTTTTGAAAAATTTTG
66 TATTTTTGAAAAAGTTTG
57083445 AAGACTTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
89 56 0.79
90 15 0.21
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (90 bp):
TTTTGATACAATTTGAAAGTTCAAGTACCAAAGTGAGTGAAAAATAAAAGCAAGGGCTTAATGGC
TATTTTTGAAAAAGTTTGGGGGTCC
Found at i:57084942 original size:33 final size:33
Alignment explanation
Indices: 57084900--57084964 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
57084890 GAAAATAATA
57084900 AAATTTTAAAAAATATATTTT-TTAATTAAATTT
1 AAATTTT-AAAAATATATTTTATTAATTAAATTT
* *
57084933 AAATTTTAAAAATATCTTTTATTATTTAAATT
1 AAATTTTAAAAATATATTTTATTAATTAAATT
57084965 GAATTCAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (33 bp):
AAATTTTAAAAATATATTTTATTAATTAAATTT
Found at i:57087626 original size:26 final size:28
Alignment explanation
Indices: 57087592--57087644 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
57087582 AACAATCATT
57087592 GCATAGTCATGAATTAAGC-AATGAAAA
1 GCATAGTCATGAATTAAGCAAATGAAAA
*
57087619 GCAT-GTCATGGATTAAGCAAATGAAA
1 GCATAGTCATGAATTAAGCAAATGAAA
57087645 GAAAATTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (28 bp):
GCATAGTCATGAATTAAGCAAATGAAAA
Found at i:57089407 original size:13 final size:13
Alignment explanation
Indices: 57089389--57089414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57089379 ATATTAATGT
57089389 TTTCAAAATTGTA
1 TTTCAAAATTGTA
57089402 TTTCAAAATTGTA
1 TTTCAAAATTGTA
57089415 ATGAGGGATA
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:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTCAAAATTGTA
Found at i:57089597 original size:22 final size:22
Alignment explanation
Indices: 57089570--57089614 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
57089560 ATTTTGATTA
57089570 ATATATGTTTAT-ATTAATATTT
1 ATATATGTTTATAATTAA-ATTT
*
57089592 ATATATTTTTATAATTAAATTT
1 ATATATGTTTATAATTAAATTT
57089614 A
1 A
57089615 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATGTTTATAATTAAATTT
Found at i:57098382 original size:41 final size:39
Alignment explanation
Indices: 57098325--57098642 Score: 141
Period size: 41 Copynumber: 7.8 Consensus size: 39
57098315 ATTTTTAAAC
*
57098325 CTTTAGCGGCGTTTTTACTTTAGCGCCGCTAATTCTCCGAT
1 CTTTAGCGGCGTTTTT--TTGAGCGCCGCTAATTCTCCGAT
* * **
57098366 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGT-TCTGGC
1 CTTTAGCGGCGTTTTT-T-TGAGCGCCGCTAAT-TCTCCGAT
* *
57098407 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGTAT
1 CTTTAGCGGCGTTTTT-T-TGAGCGCCGCTAATTCTCCG-AT
* * * * ** *
57098448 CATTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTTTGTT
1 CTTTAGCGGCGTT-TT-TTTGAGCGCCGCTAATTCTCCGAT
*
57098489 CTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTCGT--G-T
1 CTTTAGCGGCG-TTTTTT-TGAGCGCCGCT-AA-TTC-TCCGAT
* * * * * **
57098530 TTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGGC
1 CTTTAGCGGCGTTTTT-T-TGAGCGCCGCTAATTCTCCGAT
* *
57098571 CTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATGCTACC---
1 CTTTAGCGGCGTTTT-T-T-TGAGCGCCGCTAATTCT-CCGAT
*
57098611 C-TTAGCGGCGTTTTTTCCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTT-TG-AGCGCCGCTAAT
57098643 AGTAACAAAA
Statistics
Matches: 216, Mismatches: 42, Indels: 41
0.72 0.14 0.14
Matches are distributed among these distances:
37 1 0.00
38 14 0.06
39 15 0.07
40 12 0.06
41 142 0.66
42 26 0.12
43 5 0.02
44 1 0.00
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (39 bp):
CTTTAGCGGCGTTTTTTTGAGCGCCGCTAATTCTCCGAT
Found at i:57098469 original size:82 final size:80
Alignment explanation
Indices: 57098324--57098607 Score: 336
Period size: 82 Copynumber: 3.5 Consensus size: 80
57098314 GATTTTTAAA
* * * *
57098324 CCTTTAGCGGCGTTTTTACTTTAGCGCCGCTAATTCTCCG-ATCTTTAGCGGCGTTTTTATCTGA
1 CCTTTAGCGGCGTTTTTTC-TAAGCGCCGCTAATGCT-CGTATCTTTAGTGGCGTTTTTATCTGA
57098388 GCGCCACTAATGTTCTGG
64 GCGCCACTAAT-TTCTGG
* * *
57098406 CCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTATTGTCTGAG
1 CCTTTAGCGGCGTTTTT-TCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
* *
57098471 CGCCACTAATTCTTTGT
65 CGCCACTAATT-TCTGG
* * * * *
57098488 TCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTCGTGTTTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
*
57098553 CGCCACTAATACTCTGG
65 CGCCACTAAT-TTCTGG
*
57098570 CCTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATGCT
1 CCTTTAGCGGCGTTTT-T-TCTAAGCGCCGCTAATGCT
57098608 ACCCTTAGCG
Statistics
Matches: 171, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
81 7 0.04
82 142 0.83
83 22 0.13
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (80 bp):
CCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAGC
GCCACTAATTTCTGG
Found at i:57098582 original size:123 final size:123
Alignment explanation
Indices: 57098323--57098585 Score: 282
Period size: 123 Copynumber: 2.1 Consensus size: 123
57098313 CGATTTTTAA
* * *
57098323 ACCTTTAGCGGCGTTTTTACTTTAGCGCCGCTAATTCTCCGATCTTTAGCGGCGTTTTTATCTGA
1 ACCTTTAGCGGCGTTTTTACTTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCTAA
* * * *
57098388 GCGCCACTAATGTTCTGGCCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGT
66 GCGCCACTAAAGTTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCGT
* * * ** * *
57098446 ATCATTAGTGGCGTTATTGT-C-TGAGCGCCACTAATTCTTTGTTCTTTAGCGGCGTTTTTTTCT
1 ACCTTTAGCGGCGTT-TT-TACTTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCT
* ** * *
57098509 AAGCGCCGCTAAAGTTC-GTGTTTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTC-T
64 AAGCGCCACTAAAGTTCTG-GCCTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCGT
*
57098568 GGCCTTTAGCGGCGTTTT
1 -ACCTTTAGCGGCGTTTT
57098586 ATATGTAAGC
Statistics
Matches: 113, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
122 4 0.04
123 105 0.93
124 3 0.03
125 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (123 bp):
ACCTTTAGCGGCGTTTTTACTTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCTAA
GCGCCACTAAAGTTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCGT
Found at i:57099175 original size:15 final size:15
Alignment explanation
Indices: 57099154--57099191 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
57099144 TTTAAGGTTA
57099154 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
57099169 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
57099184 ATTTAGGG
1 ATTTAGGG
57099192 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:57099194 original size:14 final size:14
Alignment explanation
Indices: 57099127--57099194 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
57099117 GACTGGGTAT
*
57099127 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
57099141 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
57099153 A-ATTTAGGGGTTAG
1 AGATTTA-GGGTTTG
*
57099167 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
57099182 AGATTTAGGGTTT
1 AGATTTAGGGTTT
57099195 CAACGGTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:57100915 original size:8 final size:10
Alignment explanation
Indices: 57100893--57100929 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
57100883 TATTTTTACT
57100893 TATATATGGA
1 TATATATGGA
*
57100903 TATATATGAA
1 TATATATGGA
57100913 TATATATGGA
1 TATATATGGA
57100923 TATATAT
1 TATATAT
57100930 ATATAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:57103585 original size:13 final size:13
Alignment explanation
Indices: 57103567--57103591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57103557 AGACATAATA
57103567 CATAACTTACATT
1 CATAACTTACATT
57103580 CATAACTTACAT
1 CATAACTTACAT
57103592 AAACTTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
CATAACTTACATT
Found at i:57103699 original size:34 final size:33
Alignment explanation
Indices: 57103656--57103836 Score: 134
Period size: 34 Copynumber: 5.7 Consensus size: 33
57103646 GGGTGATGTG
57103656 ATATTATACATAAATTACATAACTTAATTAATTA
1 ATATTATACATAAATTACATAA-TTAATTAATTA
*
57103690 ATATTATACATAACTTAC---ATTAA-T-ATT-
1 ATATTATACATAAATTACATAATTAATTAATTA
* * * *
57103717 ATA-CATAAATTACA-T--A-ACTTAATTAATTA
1 ATATTATACA-TAAATTACATAATTAATTAATTA
* * *
57103746 ATATTATACATAACTTACATTAA-TATTATACATAA
1 ATATTATACATAAATTACA-TAATTAAT-TA-ATTA
*
57103781 ATATTATACATAAATTACATAACTTAGTTAATTA
1 ATATTATACATAAATTACATAA-TTAATTAATTA
*
57103815 ATATTATACATAACTTACATAA
1 ATATTATACATAAATTACATAA
57103837 CATTTTAACA
Statistics
Matches: 114, Mismatches: 17, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
26 9 0.08
27 6 0.05
28 6 0.05
29 6 0.05
30 9 0.08
31 1 0.01
32 1 0.01
33 3 0.03
34 47 0.41
35 23 0.20
36 3 0.03
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (33 bp):
ATATTATACATAAATTACATAATTAATTAATTA
Found at i:57103714 original size:22 final size:22
Alignment explanation
Indices: 57103681--57103731 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
57103671 TACATAACTT
57103681 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
*
57103702 ACTTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
57103724 AATTACAT
1 AATTACAT
57103732 AACTTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:57103783 original size:13 final size:13
Alignment explanation
Indices: 57103761--57103795 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
57103751 ATACATAACT
*
57103761 TACATTAATATTA
1 TACATAAATATTA
57103774 TACATAAATATTA
1 TACATAAATATTA
57103787 TACATAAAT
1 TACATAAAT
57103796 TACATAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (13 bp):
TACATAAATATTA
Found at i:57103784 original size:69 final size:69
Alignment explanation
Indices: 57103705--57103834 Score: 242
Period size: 69 Copynumber: 1.9 Consensus size: 69
57103695 ATACATAACT
*
57103705 TACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTAAT
1 TACATAAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTAAT
57103770 ATTA
66 ATTA
*
57103774 TACATAAATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTACAT
1 TACATAAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAT
57103835 AACATTTTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.41
Consensus pattern (69 bp):
TACATAAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTAAT
ATTA
Found at i:57103797 original size:56 final size:56
Alignment explanation
Indices: 57103656--57103782 Score: 254
Period size: 56 Copynumber: 2.3 Consensus size: 56
57103646 GGGTGATGTG
57103656 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
1 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
57103712 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
1 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
57103768 ATATTATACATAAAT
1 ATATTATACATAAAT
57103783 ATTATACATA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (56 bp):
ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
Found at i:57103837 original size:34 final size:34
Alignment explanation
Indices: 57103708--57103837 Score: 174
Period size: 34 Copynumber: 3.8 Consensus size: 34
57103698 CATAACTTAC
57103708 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* *
57103742 ATTAATATTATACATAACTTACATTAA--TATTATA
1 ATTAATATTATACATAAATTACA-TAACTTAAT-TA
* *
57103776 CATAAATATTATACATAAATTACATAACTTAGTTA
1 -ATTAATATTATACATAAATTACATAACTTAATTA
*
57103811 ATTAATATTATACATAACTTACATAAC
1 ATTAATATTATACATAAATTACATAAC
57103838 ATTTTAACAA
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
33 3 0.04
34 52 0.62
35 26 0.31
36 3 0.04
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (34 bp):
ATTAATATTATACATAAATTACATAACTTAATTA
Found at i:57103874 original size:9 final size:9
Alignment explanation
Indices: 57103860--57103990 Score: 79
Period size: 9 Copynumber: 15.9 Consensus size: 9
57103850 TGCATCATAA
57103860 ATAACTTAC
1 ATAACTTAC
57103869 ATAACTTAC
1 ATAACTTAC
57103878 ATAA--TAC
1 ATAACTTAC
*
57103885 ATAACTTAT
1 ATAACTTAC
* *
57103894 ATGACTTAT
1 ATAACTTAC
57103903 ATAACTTAC
1 ATAACTTAC
57103912 AT-A---AC
1 ATAACTTAC
* *
57103917 ATAATTTTC
1 ATAACTTAC
57103926 ATAA--TAC
1 ATAACTTAC
*
57103933 ACAACTTAC
1 ATAACTTAC
** *
57103942 ATAGTTTTC
1 ATAACTTAC
*
57103951 ATAA--TAA
1 ATAACTTAC
57103958 ATAACTTAC
1 ATAACTTAC
57103967 ATAA--TAC
1 ATAACTTAC
57103974 ATAACTTAC
1 ATAACTTAC
*
57103983 ATAGCTTA
1 ATAACTTA
57103991 ATTATACTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
5 4 0.04
6 1 0.01
7 24 0.26
8 1 0.01
9 64 0.68
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:57103887 original size:16 final size:16
Alignment explanation
Indices: 57103866--57103985 Score: 87
Period size: 16 Copynumber: 7.9 Consensus size: 16
57103856 ATAAATAACT
57103866 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
57103882 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
*
57103900 TATATAACTTACAT-A
1 TACATAACTTACATAA
* *
57103915 -ACATAATTTTCATAA
1 TACATAACTTACATAA
* *
57103930 TACACAACTTACATAG
1 TACATAACTTACATAA
57103946 T---T---TT-CATAA
1 TACATAACTTACATAA
*
57103955 TAAATAACTTACATAA
1 TACATAACTTACATAA
57103971 TACATAACTTACATA
1 TACATAACTTACATA
57103986 GCTTAATTAT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
9 5 0.06
10 2 0.03
12 1 0.01
14 10 0.13
15 3 0.04
16 44 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:57103889 original size:25 final size:25
Alignment explanation
Indices: 57103860--57103977 Score: 86
Period size: 25 Copynumber: 4.9 Consensus size: 25
57103850 TGCATCATAA
57103860 ATAACTTACATAACTTACATAATAC
1 ATAACTTACATAACTTACATAATAC
* * *
57103885 ATAACTTATATGACTTATATAACTTAC
1 ATAACTTACATAACTTACATAA--TAC
* *
57103912 AT-A---ACATAATTTTCATAATAC
1 ATAACTTACATAACTTACATAATAC
* ** * *
57103933 ACAACTTACATAGTTTTCATAATAA
1 ATAACTTACATAACTTACATAATAC
57103958 ATAACTTACATAA--TACATAA
1 ATAACTTACATAACTTACATAA
57103978 CTTACATAGC
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
21 4 0.05
22 1 0.01
23 16 0.22
25 46 0.63
26 1 0.01
27 5 0.07
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAACTTACATAACTTACATAATAC
Found at i:57109564 original size:66 final size:66
Alignment explanation
Indices: 57109439--57109585 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
57109429 GGGGCAACAT
*
57109439 CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGTAGCA
1 CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCA
57109504 G
66 G
* * * * * *
57109505 CGAGAGAAGCTGAGGTTTAACGAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAAGTAGATGCGG
1 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAG
57109568 CAG
64 CAG
* *
57109571 CAAGAGAAGCAGAGG
1 CGAGAGAAGCTGAGG
57109586 CGGCAGCTAG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 65 0.93
67 4 0.06
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.14
Consensus pattern (66 bp):
CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCA
G
Found at i:57109590 original size:21 final size:21
Alignment explanation
Indices: 57109564--57109626 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
57109554 TAAAGTAGAT
57109564 GCGGCAGCAAGAGAAGCAGAG
1 GCGGCAGCAAGAGAAGCAGAG
* ** *
57109585 GCGGCAGCTAGAGAAATACAG
1 GCGGCAGCAAGAGAAGCAGAG
* * *
57109606 GCTGCAGCGAGGGAAGCAGAG
1 GCGGCAGCAAGAGAAGCAGAG
57109627 CAGCGTCAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.41, T:0.05
Consensus pattern (21 bp):
GCGGCAGCAAGAGAAGCAGAG
Found at i:57110017 original size:43 final size:43
Alignment explanation
Indices: 57109970--57110325 Score: 304
Period size: 43 Copynumber: 8.3 Consensus size: 43
57109960 AGGTGTTGGC
* *
57109970 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * *
57110013 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * * *
57110056 CTTTAGCGGCGTTTTTGGGGAAAGCGCTGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * *
57110099 CTTTAGTAGCGTTTTGTGGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * *
57110143 CTATT-GCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CT-TTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *
57110186 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
** *** * * * ** *
57110229 CTATT-GCGGCGTTTGAGAAAAAAACGCCGCTAAATACCCTGAT
1 CT-TTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
57110272 CTTTAGCGGCGCTTCTAG-CACAAACGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGTCA-AAGCGCCGCTAAAGATCAGGGT
57110315 CTTTAGCGGCG
1 CTTTAGCGGCG
57110326 CTTCCACTAA
Statistics
Matches: 243, Mismatches: 64, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
42 5 0.02
43 203 0.84
44 33 0.14
45 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:57110142 original size:130 final size:129
Alignment explanation
Indices: 57109970--57110222 Score: 323
Period size: 130 Copynumber: 2.0 Consensus size: 129
57109960 AGGTGTTGGC
*
57109970 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGT-GGAA
1 CTTTAGTAGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATT-GCGGCGTTT-TAGGAA
* * *
57110033 AAAGCGCCACTAAAGATCATGG-TCTTTAGCGGCGTTTTTGGGGAAAGCGCTGCTAAAGATTAGG
64 AAAGCGCCACTAAAGATCA-GGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAGG
57110097 TT
128 TT
* * * **
57110099 CTTTAGTAGCGTTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTTAGGGGA
1 CTTTAGTAGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTTTAGGAAA
* * * * *
57110164 AAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGAT
65 AAGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGAT
57110223 CAGGGTCTAT
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
129 17 0.16
130 87 0.82
131 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (129 bp):
CTTTAGTAGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTATTGCGGCGTTTTAGGAAAA
AGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAGGTT
Found at i:57110262 original size:86 final size:86
Alignment explanation
Indices: 57109990--57110242 Score: 373
Period size: 86 Copynumber: 2.9 Consensus size: 86
57109980 GTTTTTGGTC
* * * ** * * *
57109990 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
*
57110055 TCT-TTAGCGGCGTTTTTGGGG
66 TCTATT-GCGGCGTTTTAGGGG
* * *
57110076 AAAGCGCTGCTAAAGATTAGGTTCTTTAGTAGCGTTTTGTGGTCGAAGCGCCGCTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTCAAAGCGCCGCTATAGATCAGG
57110141 GTCTATTGCGGCGTTTTAGGGG
65 GTCTATTGCGGCGTTTTAGGGG
57110163 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
57110228 TCTATTGCGGCGTTT
66 TCTATTGCGGCGTTT
57110243 GAGAAAAAAA
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
86 74 0.49
87 74 0.49
88 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
TCTATTGCGGCGTTTTAGGGG
Found at i:57110359 original size:42 final size:41
Alignment explanation
Indices: 57110271--57110367 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
57110261 AATACCCTGA
*
57110271 TCTTTAGCGGCGCTTCTAGCACAAACGCCGCTAAAGATCAGGG
1 TCTTTAGCGGCGCTTC-A-CACAAACGCCGCTAAAGATCAGAG
* **
57110314 TCTTTAGCGGCGCTTC-CACTAAAGCGCCGCTAAAGGTCTTAG
1 TCTTTAGCGGCGCTTCACAC-AAA-CGCCGCTAAAGATCAGAG
*
57110356 TCTTCAGCGGCG
1 TCTTTAGCGGCG
57110368 TTTGTGCTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 3 0.06
41 3 0.06
42 25 0.53
43 16 0.34
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.24
Consensus pattern (41 bp):
TCTTTAGCGGCGCTTCACACAAACGCCGCTAAAGATCAGAG
Found at i:57111972 original size:33 final size:32
Alignment explanation
Indices: 57111929--57112040 Score: 145
Period size: 27 Copynumber: 3.8 Consensus size: 32
57111919 ATTTAATGCC
57111929 TTACTGGTGTGTTTGGGAGGATTATGATATAT
1 TTACTGGTGTGTTTGGGAGGATTATGATATAT
57111961 TATACTGGTGTGTTTGGGAGGA-TAT-AT-TAT
1 T-TACTGGTGTGTTTGGGAGGATTATGATATAT
57111991 TT--TGGTGTGTTTGGGAGGATTATGATATA-
1 TTACTGGTGTGTTTGGGAGGATTATGATATAT
57112020 -T--TGGTGTGTTT-GGAGGATTAT
1 TTACTGGTGTGTTTGGGAGGATTAT
57112041 ATTATTCTAG
Statistics
Matches: 76, Mismatches: 0, Indels: 13
0.85 0.00 0.15
Matches are distributed among these distances:
27 27 0.36
28 14 0.18
29 3 0.04
30 6 0.08
31 2 0.03
32 4 0.05
33 20 0.26
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.45
Consensus pattern (32 bp):
TTACTGGTGTGTTTGGGAGGATTATGATATAT
Found at i:57112363 original size:21 final size:21
Alignment explanation
Indices: 57112337--57112377 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57112327 GAAAATTCGT
*
57112337 ATAAGAATGAAA-AATTTGAAC
1 ATAAG-ATGAAATAATATGAAC
57112358 ATAAGATGAAATAATATGAA
1 ATAAGATGAAATAATATGAA
57112378 AAGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (21 bp):
ATAAGATGAAATAATATGAAC
Found at i:57117419 original size:28 final size:28
Alignment explanation
Indices: 57117360--57117424 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
57117350 AATCTTTTCC
* *
57117360 TTTACATTTGAACTAAAGCAATTTTTAAT
1 TTTA-ATTTCAACTAAAACAATTTTTAAT
*
57117389 TTTTATTTCAACTAAAACAATTTTTAAT
1 TTTAATTTCAACTAAAACAATTTTTAAT
57117417 TTTAATTT
1 TTTAATTT
57117425 TTAATAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (28 bp):
TTTAATTTCAACTAAAACAATTTTTAAT
Found at i:57119637 original size:31 final size:33
Alignment explanation
Indices: 57119576--57119639 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
57119566 AAAACCAATT
*
57119576 AAATCTCCATCTAACATATCCATAAGAAAAAAA
1 AAATCTCCATCTAACATATCCATAACAAAAAAA
* *
57119609 AAATCTCCATCT-A-ATATCTATACCAAAAAAA
1 AAATCTCCATCTAACATATCCATAACAAAAAAA
57119640 TATAAAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 15 0.54
32 1 0.04
33 12 0.43
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.23
Consensus pattern (33 bp):
AAATCTCCATCTAACATATCCATAACAAAAAAA
Found at i:57122519 original size:21 final size:22
Alignment explanation
Indices: 57122493--57122539 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
57122483 CTCTGCTCAA
*
57122493 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
57122514 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
57122536 ACTC
1 ACTC
57122540 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:57129284 original size:8 final size:8
Alignment explanation
Indices: 57129249--57129295 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
57129239 GGTATGTTCA
57129249 TTTCTTCT
1 TTTCTTCT
57129257 TCTTCTTCT
1 T-TTCTTCT
*
57129266 TTTCTCCCT
1 TTTCT-TCT
*
57129275 TTTTTTCT
1 TTTCTTCT
57129283 TTTCTTCT
1 TTTCTTCT
57129291 TTTCT
1 TTTCT
57129296 GCTGCCTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 19 0.58
9 14 0.42
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTCTTCT
Found at i:57130409 original size:22 final size:21
Alignment explanation
Indices: 57130356--57130412 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 21
57130346 TTTTTCTCGC
57130356 AAAAAA-TATTATATTTAATA
1 AAAAAATTATTATATTTAATA
57130376 ATATTAATAATTATTATATTTAATTA
1 A-A--AA-AATTATTATATTTAA-TA
57130402 AAAAAATTATT
1 AAAAAATTATT
57130413 TTTTATACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 7 0.23
23 4 0.13
24 2 0.06
25 13 0.42
26 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAAATTATTATATTTAATA
Found at i:57131084 original size:6 final size:6
Alignment explanation
Indices: 57131075--57131180 Score: 95
Period size: 6 Copynumber: 17.7 Consensus size: 6
57131065 TGAAAATTTT
* * * * * * *
57131075 AGATAC AGATGC AGTTAT AGATAT AAATAC ATATAC ATATAC AGATAC
1 AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC
* * * * *
57131123 AGATAC AGGTGC AGATAC AGATGC AAATAC AGATAC AGATAC AGATAT
1 AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC
*
57131171 AGATAT AGAT
1 AGATAC AGAT
57131181 GTAGATATAG
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 82 1.00
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (6 bp):
AGATAC
Found at i:57131185 original size:6 final size:6
Alignment explanation
Indices: 57131153--57131192 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
57131143 ATGCAAATAC
* * *
57131153 AGATAC AGATAC AGATAT AGATAT AGATGT AGATAT AGAT
1 AGATAT AGATAT AGATAT AGATAT AGATAT AGATAT AGAT
57131193 CCTACCATCA
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:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (6 bp):
AGATAT
Found at i:57135124 original size:44 final size:42
Alignment explanation
Indices: 57135027--57135147 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 42
57135017 GATACAATGC
* * *
57135027 CAACGTCCCAGACGTGGTCTTACATGTAATTACATATCGATG
1 CAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCGATG
* *
57135069 CCACTGTCCCAGATAG-GGTCTTACACGTAAATCACAAATCGATG
1 CAAC-GTCCCAGA-CGTGGTCTTACACGT-AATCACAAATCGATG
57135113 CGAACGTCCCAGACGTGGTCTTACACGATAA-CACA
1 C-AACGTCCCAGACGTGGTCTTACACG-TAATCACA
57135148 CAATGGAATC
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.05
43 24 0.36
44 36 0.55
45 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCGATG
Found at i:57136071 original size:15 final size:14
Alignment explanation
Indices: 57136034--57136077 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
57136024 TTTTATTATA
57136034 ATAACTTTATAATAT
1 ATAACTTTATAAT-T
*
57136049 ATAA-TTTATTATT
1 ATAACTTTATAATT
57136062 ATAACCTTTATAATT
1 ATAA-CTTTATAATT
57136077 A
1 A
57136078 ATATAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAACTTTATAATT
Found at i:57147056 original size:15 final size:15
Alignment explanation
Indices: 57147036--57147069 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
57147026 NNNNNNNNNN
57147036 CAATACCCACAAACC
1 CAATACCCACAAACC
57147051 CAATACCCACAAACC
1 CAATACCCACAAACC
57147066 CAAT
1 CAAT
57147070 TACCATGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.44, G:0.00, T:0.09
Consensus pattern (15 bp):
CAATACCCACAAACC
Found at i:57147539 original size:20 final size:20
Alignment explanation
Indices: 57147514--57147553 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
57147504 TGGTCTCCCC
57147514 GCGCCGTGC-ACCGGCGCCGG
1 GCGCCG-GCGACCGGCGCCGG
57147534 GCGCCGGCGACCGGCGCCGG
1 GCGCCGGCGACCGGCGCCGG
57147554 TGCGACGGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.05, C:0.45, G:0.47, T:0.03
Consensus pattern (20 bp):
GCGCCGGCGACCGGCGCCGG
Found at i:57148055 original size:3 final size:3
Alignment explanation
Indices: 57148047--57148102 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
57148037 TTAGTCCTAC
* * * *
57148047 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57148095 TAT TAT TA
1 TAT TAT TA
57148103 CCTATTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:57160917 original size:44 final size:46
Alignment explanation
Indices: 57160803--57160917 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
57160793 ATACAGGTCT
* * * *
57160803 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCTTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
* *
57160849 TATCTCCTTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCTTGAGATTACAGTGGAGCAGACCAAAGAAT-GTCAGATCC
*
57160893 TATCTCCTTGAGATTACAATGGAGC
1 TATCTCCTTGAGATTACAGTGGAGC
57160918 GGATTAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 26 0.43
45 3 0.05
46 31 0.52
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (46 bp):
TATCTCCTTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
Found at i:57161073 original size:44 final size:43
Alignment explanation
Indices: 57160800--57161331 Score: 196
Period size: 44 Copynumber: 12.3 Consensus size: 43
57160790 ATTATACAGG
* * * *
57160800 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA----AGA
* * * * *
57160846 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCAAAGA-TAGTAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAG--A
* * * * * *
57160890 TCCTATCTCCTTGAGATTACAATGGAGCGGAT--TA-A-AAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
* * ** * * * * *
57160929 TCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCA-TC-AGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
* * * *
57160970 TCTTATCTCTCTGAGGATTACAGTGGAGTAGACCGGAGA-ATTTCAGA
1 TCTTATCTCCCTGAGG-TTACAGTGGAGCAGATCGAAGACA----AGA
* * *
57161017 TATTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA-AGA
* * **
57161061 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
* * * * * *
57161104 TCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA-CAA-GA
* ** * * *
57161148 TCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCA-TCAAG-
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
* * * *
57161189 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGA-AACCAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAA--GA
* * * * * * * *
57161233 TCCTATCTCTCTGAAGTTGCAGTAGAGCGGAT-TAAAATCACAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA-CA-AGA
* * * * * *
57161277 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA-TCAAG-
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
*
57161318 TCTTATTTCCCTGA
1 TCTTATCTCCCTGA
57161332 AGTACAATGG
Statistics
Matches: 371, Mismatches: 91, Indels: 53
0.72 0.18 0.10
Matches are distributed among these distances:
39 22 0.06
41 63 0.17
42 26 0.07
43 36 0.10
44 152 0.41
45 3 0.01
46 52 0.14
47 17 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACAAGA
Found at i:57161123 original size:87 final size:86
Alignment explanation
Indices: 57161020--57161226 Score: 231
Period size: 87 Copynumber: 2.4 Consensus size: 86
57161010 TTTCAGATAT
* * *
57161020 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAAAGGATCTTATCTCCCTGAGATTACAGC
*
57161084 GGAGCAGATCGAAGACACTA-TCC
66 AGAGCAGATCGAA-ACA--AGTCC
* * * * *
57161107 TATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAAAGGATCTTATCTCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAAAGGATCTTATCTCCCTGAGATTACAGC
* * * *
57161171 AGAGTAGATCGCATCAAGTCT
66 AGAGCAGATCGAAACAAGTCC
* *
57161192 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGA
57161227 AACCAATCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
84 1 0.01
85 29 0.29
86 9 0.09
87 61 0.61
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (86 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAAAGGATCTTATCTCCCTGAGATTACAGC
AGAGCAGATCGAAACAAGTCC
Found at i:57161266 original size:129 final size:128
Alignment explanation
Indices: 57161061--57161334 Score: 381
Period size: 129 Copynumber: 2.1 Consensus size: 128
57161051 AAGCCAGAGA
* * *
57161061 TCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAG-TTACAGCGGAGCAGATAGAAGAAACAATCCTATCTCCCTGAAGTTACA
* * *
57161125 GTGGAGCGGATTAAAAT-AAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAG
65 GTAGAGCGGATTAAAATCAAA-GATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAAG
* * * *
57161189 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAATCCTATCTCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGCGGAGCAGATAGAAGAAA-CAATCCTATCTCCCTGAAGTTACA
* * *
57161254 GTAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAG
65 GTAGAGCGGATTAAAATCAAAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAAG
*
57161318 TCTTATTTCCCTGAAGT
1 TCTTATCTCCCTGAAGT
57161335 ACAATGGATT
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
128 33 0.26
129 94 0.73
130 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTACAGCGGAGCAGATAGAAGAAACAATCCTATCTCCCTGAAGTTACAG
TAGAGCGGATTAAAATCAAAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAAG
Found at i:57161547 original size:15 final size:15
Alignment explanation
Indices: 57161527--57161579 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
57161517 CTAACAAAAG
57161527 AACCCAATACCCACA
1 AACCCAATACCCACA
57161542 AACCCAATACCCACA
1 AACCCAATACCCACA
57161557 AACCCAATACCCACA
1 AACCCAATACCCACA
57161572 AACCCAAT
1 AACCCAAT
57161580 TACCATGCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (15 bp):
AACCCAATACCCACA
Found at i:57161561 original size:8 final size:8
Alignment explanation
Indices: 57161535--57161577 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
57161525 AGAACCCAAT
57161535 ACCCACAA
1 ACCCACAA
*
57161543 ACCCA-AT
1 ACCCACAA
57161550 ACCCACAA
1 ACCCACAA
*
57161558 ACCCA-AT
1 ACCCACAA
57161565 ACCCACAA
1 ACCCACAA
57161573 ACCCA
1 ACCCA
57161578 ATTACCATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.47, C:0.49, G:0.00, T:0.05
Consensus pattern (8 bp):
ACCCACAA
Found at i:57162594 original size:3 final size:3
Alignment explanation
Indices: 57162586--57162638 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
57162576 TTAGTCCTAC
* * * *
57162586 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57162634 TAT TA
1 TAT TA
57162639 CCTATTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:57165420 original size:13 final size:13
Alignment explanation
Indices: 57165402--57165440 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
57165392 AATTTTTATT
*
57165402 TATTTATAAAATA
1 TATTTATAAAAAA
57165415 TATTTATAAAAAAA
1 TATTTAT-AAAAAA
57165429 TATTT-TAAAAAA
1 TATTTATAAAAAA
57165441 ATCAAATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 6 0.25
13 8 0.33
14 10 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:57165431 original size:14 final size:14
Alignment explanation
Indices: 57165402--57165442 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
57165392 AATTTTTATT
*
57165402 TATTTAT-AAAATA
1 TATTTATAAAAAAA
57165415 TATTTATAAAAAAA
1 TATTTATAAAAAAA
57165429 TATTT-TAAAAAAA
1 TATTTATAAAAAAA
57165442 T
1 T
57165443 CAAATGTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TATTTATAAAAAAA
Found at i:57167601 original size:32 final size:32
Alignment explanation
Indices: 57167552--57167644 Score: 150
Period size: 32 Copynumber: 2.9 Consensus size: 32
57167542 TGTCAATCAT
57167552 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
57167584 TTCAATATCGAATAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
57167616 TTCAACATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
57167645 CAATATCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:57167663 original size:16 final size:16
Alignment explanation
Indices: 57167644--57167700 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
57167634 TAAAACATAA
57167644 TCAATATCTAACAAAT
1 TCAATATCTAACAAAT
* * *
57167660 TCAAGA-CATAATAATT
1 TCAATATC-TAACAAAT
*
57167676 TCAAAATCTAACAAATT
1 TCAATATCTAACAAA-T
57167693 TCAATATC
1 TCAATATC
57167701 ATTATCCAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
15 1 0.03
16 21 0.68
17 9 0.29
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.32
Consensus pattern (16 bp):
TCAATATCTAACAAAT
Found at i:57172877 original size:51 final size:51
Alignment explanation
Indices: 57172730--57172866 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
57172720 CTACCATCAA
* * *
57172730 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
57172781 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
57172832 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
57172867 AGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:57175593 original size:22 final size:21
Alignment explanation
Indices: 57175565--57175622 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
57175555 ACTTACCAAG
*
57175565 CAAGTCTCAAGACATCATGAC
1 CAAGTCTCAAGACATAATGAC
57175586 TCAAGTCTTC-AGACATAATGAC
1 -CAAGTC-TCAAGACATAATGAC
57175608 CTAAGTCTCAAGACA
1 C-AAGTCTCAAGACA
57175623 ACAAAACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.09
22 27 0.84
23 2 0.06
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
CAAGTCTCAAGACATAATGAC
Found at i:57177619 original size:20 final size:20
Alignment explanation
Indices: 57177596--57177643 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
57177586 AACTATAAAC
57177596 ATGTAAAAAGATATATATGT
1 ATGTAAAAAGATATATATGT
* * *
57177616 ATGTACATATATATATATGT
1 ATGTAAAAAGATATATATGT
*
57177636 GTGTAAAA
1 ATGTAAAA
57177644 TTATGAGATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTAAAAAGATATATATGT
Found at i:57179627 original size:11 final size:11
Alignment explanation
Indices: 57179611--57179635 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57179601 TTAAGTATGT
57179611 ATGTACGGTTC
1 ATGTACGGTTC
57179622 ATGTACGGTTC
1 ATGTACGGTTC
57179633 ATG
1 ATG
57179636 GGTGAAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (11 bp):
ATGTACGGTTC
Found at i:57184786 original size:12 final size:14
Alignment explanation
Indices: 57184769--57184800 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57184759 TGAATTTCAA
57184769 TTAAAT-ATTTT-T
1 TTAAATAATTTTAT
57184781 TTAAATAATTTTAT
1 TTAAATAATTTTAT
57184795 TTAAAT
1 TTAAAT
57184801 TGGGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 5 0.28
14 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAAATAATTTTAT
Found at i:57185297 original size:16 final size:16
Alignment explanation
Indices: 57185276--57185309 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57185266 AAAAAATCCA
57185276 CTTCCACTTTTTTCAG
1 CTTCCACTTTTTTCAG
57185292 CTTCCACTTTTTTCAG
1 CTTCCACTTTTTTCAG
57185308 CT
1 CT
57185310 ACTTGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.32, G:0.06, T:0.50
Consensus pattern (16 bp):
CTTCCACTTTTTTCAG
Done.