Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 17 of 311
Found at i:4647346 original size:20 final size:19
Alignment explanation
Indices: 4647323--4647387 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
4647313 AAGCTCAAAC
4647323 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
4647343 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
4647363 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
4647383 GAGCT
1 GAGCT
4647388 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:4649195 original size:33 final size:33
Alignment explanation
Indices: 4649157--4649219 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
4649147 GATTACTCAC
4649157 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
4649190 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
4649220 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:4649246 original size:21 final size:21
Alignment explanation
Indices: 4649217--4649272 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
4649207 CAAGCTCTCT
*
4649217 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
4649238 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
4649259 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
4649273 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:4649265 original size:14 final size:14
Alignment explanation
Indices: 4649216--4649272 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
4649206 TCAAGCTCTC
4649216 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
4649229 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
4649243 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
4649257 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
4649271 TT
1 TT
4649273 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:4649326 original size:11 final size:11
Alignment explanation
Indices: 4649279--4649339 Score: 61
Period size: 11 Copynumber: 5.4 Consensus size: 11
4649269 TTTTCTCTCA
*
4649279 CTTTTTGATTT
1 CTTTTTGTTTT
*
4649290 CTTTTTCTTTT
1 CTTTTTGTTTT
*
4649301 GCAATTTCT-TTTT
1 -C--TTTTTGTTTT
4649314 CTTTTTGTTTT
1 CTTTTTGTTTT
4649325 CTTTTTGTTTT
1 CTTTTTGTTTT
4649336 CTTT
1 CTTT
4649340 CAATTTCTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
10 4 0.10
11 28 0.67
12 2 0.05
13 4 0.10
14 4 0.10
ACGTcount: A:0.05, C:0.13, G:0.07, T:0.75
Consensus pattern (11 bp):
CTTTTTGTTTT
Found at i:4649330 original size:18 final size:17
Alignment explanation
Indices: 4649279--4649335 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
4649269 TTTTCTCTCA
4649279 CTTTTTGATTTCTTTTT
1 CTTTTTGATTTCTTTTT
4649296 C-TTTTGCAATTTCTTTTT
1 CTTTTTG--ATTTCTTTTT
*
4649314 CTTTTTGTTTTCTTTTT
1 CTTTTTGATTTCTTTTT
*
4649331 GTTTT
1 CTTTT
4649336 CTTTCAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.14
17 14 0.40
18 11 0.31
19 5 0.14
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (17 bp):
CTTTTTGATTTCTTTTT
Found at i:4649352 original size:6 final size:6
Alignment explanation
Indices: 4649234--4649339 Score: 56
Period size: 6 Copynumber: 17.7 Consensus size: 6
4649224 TCTTTTTTCG
* * * **
4649234 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
4649285 -GATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT -GTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
4649331 -GTTTT CTTT
1 CTTTTT CTTT
4649340 CAATTTCTTT
Statistics
Matches: 70, Mismatches: 25, Indels: 10
0.67 0.24 0.10
Matches are distributed among these distances:
5 11 0.16
6 47 0.67
7 9 0.13
8 3 0.04
ACGTcount: A:0.07, C:0.17, G:0.04, T:0.73
Consensus pattern (6 bp):
CTTTTT
Found at i:4652079 original size:20 final size:19
Alignment explanation
Indices: 4652056--4652120 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
4652046 AAGCTCAAAC
4652056 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
4652076 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
4652096 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
4652116 GAGCT
1 GAGCT
4652121 GGGGAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:4652524 original size:33 final size:33
Alignment explanation
Indices: 4652472--4652535 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
4652462 TGCACGGCTT
* * * *
4652472 GGTTCAATGCTTGGGAGGATTCATGTATGACCA
1 GGTTCAAGGCTTAGAAGGATTCATGCATGACCA
4652505 GGTTCAAGGCTTAGAAGGATTCATGCATGAC
1 GGTTCAAGGCTTAGAAGGATTCATGCATGAC
4652536 TTGTTACATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (33 bp):
GGTTCAAGGCTTAGAAGGATTCATGCATGACCA
Found at i:4659118 original size:27 final size:27
Alignment explanation
Indices: 4659088--4659265 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4659078 ATATTGAGTC
* * * *
4659088 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4659115 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4659142 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4659170 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4659197 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4659224 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4659251 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4659266 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4659227 original size:82 final size:81
Alignment explanation
Indices: 4659109--4659264 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4659099 TGCTATATAA
* *
4659109 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4659174 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4659191 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4659255 CACTTAGTGC
65 CACTTAGTGC
4659265 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4667086 original size:27 final size:27
Alignment explanation
Indices: 4667056--4667233 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4667046 ATATTGAGTC
* * * *
4667056 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4667083 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4667110 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4667138 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4667165 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4667192 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4667219 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4667234 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4667195 original size:82 final size:81
Alignment explanation
Indices: 4667077--4667232 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4667067 TGCTATATAA
* *
4667077 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4667142 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4667159 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4667223 CACTTAGTGC
65 CACTTAGTGC
4667233 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4669198 original size:10 final size:10
Alignment explanation
Indices: 4669185--4669219 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
4669175 AAGCTCGGTT
4669185 GAGCTCAAAC
1 GAGCTCAAAC
*
4669195 GAGCTGAAAC
1 GAGCTCAAAC
*
4669205 GAGCTCAAAT
1 GAGCTCAAAC
4669215 GAGCT
1 GAGCT
4669220 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:4669228 original size:20 final size:20
Alignment explanation
Indices: 4669182--4669229 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4669172 AGTAAGCTCG
4669182 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
4669202 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
4669222 GTTGAGCT
1 GTTGAGCT
4669230 GGATGGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:4671035 original size:12 final size:12
Alignment explanation
Indices: 4671018--4671063 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
4671008 TTGTAGATTC
*
4671018 AAAAAAAATCGA
1 AAAAAAAATAGA
*
4671030 AAAAAAATTTAGA
1 AAAAAAA-ATAGA
*
4671043 AAAAAAAATTGA
1 AAAAAAAATAGA
4671055 AAAAAAAAT
1 AAAAAAAAT
4671064 TTTGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAAAAATAGA
Found at i:4671046 original size:14 final size:13
Alignment explanation
Indices: 4671029--4671075 Score: 69
Period size: 14 Copynumber: 3.5 Consensus size: 13
4671019 AAAAAAATCG
4671029 AAAAAAAATTTAGA
1 AAAAAAAATTT-GA
4671043 AAAAAAAA-TTGA
1 AAAAAAAATTTGA
4671055 AAAAAAAATTTTGA
1 AAAAAAAA-TTTGA
4671069 AAAAAAA
1 AAAAAAA
4671076 TTGCATACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.32
13 2 0.06
14 19 0.61
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
AAAAAAAATTTGA
Found at i:4671071 original size:13 final size:13
Alignment explanation
Indices: 4671028--4671077 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
4671018 AAAAAAAATC
*
4671028 GAAAAAAAATTTA
1 GAAAAAAAATTTT
*
4671041 GAAAAAAAA-ATT
1 GAAAAAAAATTTT
4671053 GAAAAAAAAATTTT
1 G-AAAAAAAATTTT
4671067 GAAAAAAAATT
1 GAAAAAAAATT
4671078 GCATACGGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 2 0.06
13 27 0.84
14 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (13 bp):
GAAAAAAAATTTT
Found at i:4671078 original size:25 final size:25
Alignment explanation
Indices: 4671018--4671075 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
4671008 TTGTAGATTC
*
4671018 AAAAAAAATCGAAAAAAAATTTAGA
1 AAAAAAAATTGAAAAAAAATTTAGA
*
4671043 AAAAAAAATTGAAAAAAAAATTTTGA
1 AAAAAAAATTG-AAAAAAAATTTAGA
4671069 AAAAAAA
1 AAAAAAA
4671076 TTGCATACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (25 bp):
AAAAAAAATTGAAAAAAAATTTAGA
Found at i:4674522 original size:18 final size:19
Alignment explanation
Indices: 4674467--4674522 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 19
4674457 TTTCAATCTC
4674467 ATCACTCATTTCTTTTCTTTTGA
1 ATCACTCA--TCTTTT-TTTT-A
4674490 ATCACTC-TCTCTTTTTTT-
1 ATCACTCATCT-TTTTTTTA
4674508 ATCACTCATCTTTTT
1 ATCACTCATCTTTTT
4674523 GTTTTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
18 11 0.35
19 3 0.10
20 7 0.23
21 3 0.10
23 7 0.23
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.57
Consensus pattern (19 bp):
ATCACTCATCTTTTTTTTA
Found at i:4692894 original size:11 final size:11
Alignment explanation
Indices: 4692880--4692906 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4692870 AATATTAAAA
4692880 ATATATAGAAC
1 ATATATAGAAC
4692891 ATATATAGAAC
1 ATATATAGAAC
4692902 ATATA
1 ATATA
4692907 CAATACGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:4703686 original size:14 final size:15
Alignment explanation
Indices: 4703657--4703687 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4703647 AAAATTAGCC
4703657 AAAAGCATATAAATT
1 AAAAGCATATAAATT
4703672 AAAAGCATA-AAATT
1 AAAAGCATATAAATT
4703686 AA
1 AA
4703688 CTTGCTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAGCATATAAATT
Found at i:4713871 original size:54 final size:54
Alignment explanation
Indices: 4713807--4713915 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
4713797 CACTTTTGGG
*
4713807 GCATTTTCTACTTTTGAAAAATGTTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
1 GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
*
4713861 GCATTTTCTACTTTTGAAAAGTATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
1 GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
4713915 G
1 G
4713916 TACTTTTATC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (54 bp):
GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
Found at i:4720199 original size:21 final size:22
Alignment explanation
Indices: 4720172--4720233 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
4720162 CCCGTTAGAA
4720172 TAAAAAAAAGAAATTAAAAGCC
1 TAAAAAAAAGAAATTAAAAGCC
* *
4720194 -AAAAAAATA-AAATAAAAAACC
1 TAAAAAAA-AGAAATTAAAAGCC
*
4720215 TCAAAAAAAGAAA-TAAAAG
1 TAAAAAAAAGAAATTAAAAG
4720234 GTCCAATGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.74, C:0.08, G:0.06, T:0.11
Consensus pattern (22 bp):
TAAAAAAAAGAAATTAAAAGCC
Found at i:4722070 original size:31 final size:30
Alignment explanation
Indices: 4722030--4722094 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
4722020 AAATACATGT
*
4722030 TATTTTATACAT-ATAATTTTTGTTAAAATC
1 TATTTTATACATAATAATGTTT-TTAAAATC
*
4722060 TATTTGTATACATAATTATGTTTTTAAAATC
1 TATTT-TATACATAATAATGTTTTTAAAATC
4722091 TATT
1 TATT
4722095 GCATATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
31 19 0.61
32 7 0.23
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (30 bp):
TATTTTATACATAATAATGTTTTTAAAATC
Found at i:4725716 original size:36 final size:36
Alignment explanation
Indices: 4725642--4725722 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 36
4725632 ATTTCAAAAA
4725642 TAATATTATTTTAATATATTTAATATTAAATTTAATT
1 TAATATTATTTTAATATATTT-ATATTAAATTTAATT
*
4725679 TAATACTTATTTTGATAGTATTT-TATT-AATTTAATT
1 TAATA-TTATTTTAATA-TATTTATATTAAATTTAATT
4725715 TAATATTA
1 TAATATTA
4725723 AATCTGGTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
35 3 0.07
36 14 0.34
37 9 0.22
38 10 0.24
39 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (36 bp):
TAATATTATTTTAATATATTTATATTAAATTTAATT
Found at i:4728085 original size:43 final size:44
Alignment explanation
Indices: 4728024--4728144 Score: 183
Period size: 43 Copynumber: 2.8 Consensus size: 44
4728014 AAAATCTGCC
4728024 TAAAAAAGAGAAGAAGATAATCTTGGGTTGTTGGA-AAAAGAATT
1 TAAAAAA-AGAAGAAGATAATCTTGGGTTGTTGGACAAAAGAATT
*
4728068 TAAAAAAAGGAGAAGATAATCTTGGGTTGTT-GACAAAAGAATT
1 TAAAAAAAGAAGAAGATAATCTTGGGTTGTTGGACAAAAGAATT
* * *
4728111 TTAAAAAAGAAGAAGATAAACATGGGTTGTTGGA
1 TAAAAAAAGAAGAAGATAATCTTGGGTTGTTGGA
4728145 TTTACCCTAG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
42 2 0.03
43 59 0.84
44 9 0.13
ACGTcount: A:0.47, C:0.03, G:0.25, T:0.25
Consensus pattern (44 bp):
TAAAAAAAGAAGAAGATAATCTTGGGTTGTTGGACAAAAGAATT
Found at i:4729703 original size:39 final size:39
Alignment explanation
Indices: 4729649--4729728 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
4729639 TGATATACTA
*
4729649 AGAAAAAAACTATAACACCCCTCGCCCAGTCCGGTAATC
1 AGAAAAAAACTATAACACCCCTCACCCAGTCCGGTAATC
*
4729688 AGAAAAAAACTATAACACCCCTCACCTAGTCCGGTAATC
1 AGAAAAAAACTATAACACCCCTCACCCAGTCCGGTAATC
4729727 AG
1 AG
4729729 GCCCGAGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.16
Consensus pattern (39 bp):
AGAAAAAAACTATAACACCCCTCACCCAGTCCGGTAATC
Found at i:4733011 original size:36 final size:36
Alignment explanation
Indices: 4732953--4733053 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 36
4732943 AAATATCCCC
4732953 AAGTATAAAT-TGCACTCCGCACCTCATCAATATAACCG
1 AAGTA-AAATGTGCA-T-CGCACCTCATCAATATAACCG
* * * *
4732991 AAGTAAAATGTTCTAT-GCACCCCATCAATATAGCTG
1 AAGTAAAATGTGC-ATCGCACCTCATCAATATAACCG
4733027 AAGTAAAATGTGCATCGCACCTCATCA
1 AAGTAAAATGTGCATCGCACCTCATCA
4733054 GATGTTCAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
35 2 0.04
36 39 0.72
37 4 0.07
38 8 0.15
39 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.25
Consensus pattern (36 bp):
AAGTAAAATGTGCATCGCACCTCATCAATATAACCG
Found at i:4733557 original size:9 final size:9
Alignment explanation
Indices: 4733545--4733571 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4733535 CAACATATTT
4733545 TTCATTTTA
1 TTCATTTTA
4733554 TTCATTTTA
1 TTCATTTTA
4733563 TTCATTTTA
1 TTCATTTTA
4733572 GCCCCTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCATTTTA
Found at i:4734220 original size:17 final size:18
Alignment explanation
Indices: 4734198--4734243 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
4734188 TATTTTGAAA
4734198 TTAAAAAAATAT-ATTAT
1 TTAAAAAAATATGATTAT
* *
4734215 TTAAAAAAATGTGATTTT
1 TTAAAAAAATATGATTAT
4734233 TTAAATAAAAT
1 TTAAA-AAAAT
4734244 TTATCTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 9 0.36
19 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
TTAAAAAAATATGATTAT
Found at i:4735687 original size:123 final size:123
Alignment explanation
Indices: 4735465--4735708 Score: 382
Period size: 123 Copynumber: 2.0 Consensus size: 123
4735455 TTAGTTTACA
* * *
4735465 GAAATAGGGTTCCGAAACAGCATTTTTCGACATCGAAAAAAGTTGGGTCATTACAATTTCTTCCT
1 GAAATAGGGTTCCAAAACAGCATTTTTCGACATCGAAAAAAGTCGAGTCATTACAATTTCTTCCT
* * * *
4735530 ACATGACCCATCTTCCTTCGCATTTCCTGGTGTATCTTCCATTTTCCTATTTGATTCT
66 ACATGACCCATATTCCTTCGCATTGCCTGATGTATCATCCATTTTCCTATTTGATTCT
* * *
4735588 GAAATGGGGTTCCAAAACCA-CATTTTTCGACATTGAAAAAAGTCGAGTCGTTACAATTTCTTCC
1 GAAATAGGGTTCCAAAA-CAGCATTTTTCGACATCGAAAAAAGTCGAGTCATTACAATTTCTTCC
4735652 TACATGACCCATATTCCTTCGCATTGCCTGATGTATCATCCATTTTCCTATTTGATT
65 TACATGACCCATATTCCTTCGCATTGCCTGATGTATCATCCATTTTCCTATTTGATT
4735709 TCTCAAGCTC
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
123 108 0.98
124 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (123 bp):
GAAATAGGGTTCCAAAACAGCATTTTTCGACATCGAAAAAAGTCGAGTCATTACAATTTCTTCCT
ACATGACCCATATTCCTTCGCATTGCCTGATGTATCATCCATTTTCCTATTTGATTCT
Found at i:4737211 original size:12 final size:12
Alignment explanation
Indices: 4737181--4737213 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4737171 TATATATTTT
4737181 AAAATT-ATATA
1 AAAATTAATATA
4737192 AAAA-TAATATA
1 AAAATTAATATA
4737203 AAAATTAATAT
1 AAAATTAATAT
4737214 GGGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:4745220 original size:6 final size:6
Alignment explanation
Indices: 4745172--4745219 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
4745162 TAACAACACC
*
4745172 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG AGAGAG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
4745220 AATCGAATAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:4746656 original size:22 final size:20
Alignment explanation
Indices: 4746621--4746679 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
4746611 TAAAAAGAAG
4746621 AAATGAAAA-AAAAT-ATAGAA
1 AAAT-AAAAGAAAATAAT-GAA
*
4746641 AAATAAAGAGATAAATAATGTA
1 AAATAAA-AGA-AAATAATGAA
4746663 AAATAAAAGAAAATAAT
1 AAATAAAAGAAAATAAT
4746680 TAATTATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 4 0.12
22 13 0.38
23 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (20 bp):
AAATAAAAGAAAATAATGAA
Found at i:4746981 original size:27 final size:26
Alignment explanation
Indices: 4746920--4746995 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
4746910 TACCAACTTG
* ***
4746920 GGAAAAAAATAGTTTAGATATCATTT
1 GGAAAAAAAAAGTTTAGATATCAGAA
*
4746946 GTGACAAAAAAAGTTTAGATATCAAGAA
1 G-GAAAAAAAAAGTTTAGATATC-AGAA
4746974 GGAAAAAAAGATAGTTTAGATA
1 GGAAAAAAA-A-AGTTTAGATA
4746996 CCAATTTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 26 0.65
28 3 0.08
29 10 0.25
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.26
Consensus pattern (26 bp):
GGAAAAAAAAAGTTTAGATATCAGAA
Found at i:4747169 original size:17 final size:17
Alignment explanation
Indices: 4747147--4747182 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4747137 TTGCAATTGT
4747147 AGGAGTATGTGGGTTTG
1 AGGAGTATGTGGGTTTG
4747164 AGGAGTATGTGGGTTTG
1 AGGAGTATGTGGGTTTG
4747181 AG
1 AG
4747183 CGGACTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.33
Consensus pattern (17 bp):
AGGAGTATGTGGGTTTG
Found at i:4756713 original size:17 final size:17
Alignment explanation
Indices: 4756691--4756723 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4756681 AATCGAAAAA
*
4756691 GCCCGATTAATGATAAT
1 GCCCGATAAATGATAAT
4756708 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
4756724 ATAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:4758323 original size:43 final size:43
Alignment explanation
Indices: 4758202--4758358 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
4758192 TGTGTTCTCG
* *
4758202 TGTAAGACCACGTCTAGGAC-GTTGGCATCGA-ATTATGATTT-A
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGATATT-TGATTTCA
*
4758244 TGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTTCA
1 --TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCA
* * * * *
4758288 TGTAATACCCTGTTTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCA
*
4758331 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCATGTCTGGGACAG-TGGCAT
4758359 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 26 0.28
43 38 0.40
44 30 0.32
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCA
Found at i:4765993 original size:3 final size:3
Alignment explanation
Indices: 4765985--4766024 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4765975 AGATATTTAC
4765985 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4766025 CTAATAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4768598 original size:30 final size:26
Alignment explanation
Indices: 4768535--4768590 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
4768525 GTAGATAAAC
* *
4768535 ATTATATTAAATTAAATATTAAGATA
1 ATTATTTTAAATTAAATATTAAAATA
4768561 ATTATTTTAATATTAAACTATTAAAATA
1 ATTATTTTAA-ATTAAA-TATTAAAATA
4768589 AT
1 AT
4768591 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 9 0.35
27 6 0.23
28 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTTTAAATTAAATATTAAAATA
Found at i:4770231 original size:16 final size:16
Alignment explanation
Indices: 4770210--4770240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4770200 CTATGTATGT
*
4770210 AAAATATAAAAGACAG
1 AAAATAAAAAAGACAG
4770226 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
4770241 TAATAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAG
Found at i:4776484 original size:40 final size:40
Alignment explanation
Indices: 4776399--4776536 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
4776389 CTCGAGAATA
* ** *
4776399 TAAAGTGGATAGAATTCATTCCTGATTCACTAT--AACACC
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTA-ACC
** **
4776438 TCAAAGTGGATAGGATTTGTTTTTGATTCACTATGGTAATT
1 T-AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACC
* * * *
4776479 TAAAGTGAATATGATTTATTCCTGATTCATTATGGTAACC
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACC
*
4776519 TAAGGTGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
4776537 ACCTGAAAAG
Statistics
Matches: 76, Mismatches: 20, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
39 1 0.01
40 72 0.95
41 2 0.03
42 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACC
Found at i:4776592 original size:78 final size:78
Alignment explanation
Indices: 4776501--4776652 Score: 286
Period size: 78 Copynumber: 1.9 Consensus size: 78
4776491 GATTTATTCC
*
4776501 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
1 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
*
4776566 GTTACATGATATA
66 ATTACATGATATA
4776579 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
4776644 ATTACATGA
66 ATTACATGA
4776653 GATGTGACTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
ATTACATGATATA
Found at i:4777489 original size:29 final size:29
Alignment explanation
Indices: 4777454--4777526 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
4777444 ATAATTAAAA
*
4777454 AATTGAGCCCTTTGTTGAAAAGT-TCAATC
1 AATTGAGCCCTTTATTGAAAAGTAT-AATC
* * * *
4777483 AATTGAGCTCTTAATTGAAAGGTAGTAATT
1 AATTGAGCCCTTTATTGAAAAGTA-TAATC
4777513 AATTGAGCCCTTTA
1 AATTGAGCCCTTTA
4777527 AATATGACTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 19 0.54
30 15 0.43
31 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (29 bp):
AATTGAGCCCTTTATTGAAAAGTATAATC
Found at i:4778980 original size:27 final size:27
Alignment explanation
Indices: 4778909--4778980 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 27
4778899 TTTTAACCCT
*
4778909 TATTTATACTTTAATATATTTTATGTAA
1 TATTTATA-TTAAATATATTTTATGTAA
*
4778937 TATTTATATTAAGTATATTTCTAT-TGAA
1 TATTTATATTAAATATATTT-TATGT-AA
4778965 -ATTTAT-TTAAAATATA
1 TATTTATATT-AAATATA
4778981 CAAAAGTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.05
27 23 0.61
28 13 0.34
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (27 bp):
TATTTATATTAAATATATTTTATGTAA
Found at i:4780015 original size:4 final size:4
Alignment explanation
Indices: 4780006--4780062 Score: 114
Period size: 4 Copynumber: 14.2 Consensus size: 4
4779996 TGATGAATTA
4780006 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4780054 TATG TATG T
1 TATG TATG T
4780063 TTGTTTTGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:4782879 original size:27 final size:27
Alignment explanation
Indices: 4782843--4782897 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
4782833 AATATCTTCT
*
4782843 AAGAAATTAT-TTTTTAAGAATTTTTTA
1 AAGAAATTATATATTTAA-AATTTTTTA
*
4782870 AAGAATTTATGATATTTAAAATTTTTTA
1 AAGAAATTAT-ATATTTAAAATTTTTTA
4782898 GAATTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 9 0.38
29 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (27 bp):
AAGAAATTATATATTTAAAATTTTTTA
Found at i:4785661 original size:52 final size:52
Alignment explanation
Indices: 4785602--4785706 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
4785592 ATAGAAGCTC
4785602 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATAAACACTAAGA
1 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATAAACACTAAGA
*
4785654 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATCAACACTAAGA
1 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATAAACACTAAGA
4785706 A
1 A
4785707 TGAATGAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.27
Consensus pattern (52 bp):
AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATAAACACTAAGA
Found at i:4793087 original size:48 final size:48
Alignment explanation
Indices: 4793026--4793145 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
4793016 ATTACAAACA
*
4793026 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATATCATTTTCAAAATTTCATT
4793074 TCAATTATTTACCCTATTAACAAATAATATCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATATCATTTTCAAAATTTCATT
4793122 TCAATTATTTACCCTATTAACAAA
1 TCAATTATTTACCCTATTAACAAA
4793146 GCTCAGACTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (48 bp):
TCAATTATTTACCCTATTAACAAATAATATCATTTTCAAAATTTCATT
Found at i:4794748 original size:5 final size:5
Alignment explanation
Indices: 4794738--4794765 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4794728 TATATATATA
4794738 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
4794766 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:4802598 original size:30 final size:30
Alignment explanation
Indices: 4802562--4802620 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4802552 TATTTTATTA
*
4802562 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
4802592 TTAATTTTATTATTATTTTAGAGGTATTT
1 TTAATTTTATTATTATTTTAAAGGCATTT
4802621 TCTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:4811063 original size:26 final size:26
Alignment explanation
Indices: 4811027--4811136 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
4811017 TGATACAAAT
4811027 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
4811053 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
4811079 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
4811105 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
4811131 TGATAA
1 TGATAA
4811137 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:4812797 original size:27 final size:27
Alignment explanation
Indices: 4812756--4812876 Score: 179
Period size: 27 Copynumber: 4.4 Consensus size: 27
4812746 GAGGAAGCGT
*
4812756 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
4812783 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
4812810 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
4812837 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
4812865 TCTGGTGACTCT
1 TCTGGTGGCTCT
4812877 CTCACATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 74 0.87
28 11 0.13
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:4812841 original size:54 final size:55
Alignment explanation
Indices: 4812756--4812895 Score: 196
Period size: 54 Copynumber: 2.6 Consensus size: 55
4812746 GAGGAAGCGT
* * *
4812756 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
4812810 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
*
4812865 TCTGGTGACTCT-CTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGC-CACATATATCTGTTCTGG
4812896 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
54 61 0.78
55 17 0.22
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:4812885 original size:27 final size:28
Alignment explanation
Indices: 4812756--4812895 Score: 168
Period size: 27 Copynumber: 5.2 Consensus size: 28
4812746 GAGGAAGCGT
* *
4812756 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAATTATCTGTA
*
4812783 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAATTATCTGTA
4812810 TCTGGTGGCTCTGCCAC-ATATATCTGT-
1 TCTGGTGGCTCTGCCACAAT-TATCTGTA
*
4812837 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAATTATCTGTA
*
4812865 TCTGGTGACTCT-CTCAC-ATTATCTGT-
1 TCTGGTGGCTCTGC-CACAATTATCTGTA
4812891 TCTGG
1 TCTGG
4812896 CAGCCATGCT
Statistics
Matches: 105, Mismatches: 3, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
26 6 0.06
27 83 0.79
28 16 0.15
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAATTATCTGTA
Found at i:4814909 original size:49 final size:49
Alignment explanation
Indices: 4814813--4814914 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
4814803 GTGGCATGAA
* * * **
4814813 ACTTGAACCCATGATCGCATAACCATCGTCAACTGGGCTTCCGAGTTAT
1 ACTTGAACCCATGACCGCATAACAATCGTCAACTAGGCAGCCGAGTTAT
* *
4814862 ACTTTAACCTATGACCGCATAACAATCGTCAACTAGG-AGCCGTAGTTAT
1 ACTTGAACCCATGACCGCATAACAATCGTCAACTAGGCAGCCG-AGTTAT
4814911 ACTT
1 ACTT
4814915 CAACTCGTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.07
49 42 0.93
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
ACTTGAACCCATGACCGCATAACAATCGTCAACTAGGCAGCCGAGTTAT
Found at i:4815889 original size:32 final size:32
Alignment explanation
Indices: 4815848--4815912 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4815838 TTCAAGTAAG
4815848 TTTCATTGGTATTGTTTTTAGATAATTCTTAC
1 TTTCATTGGTATTGTTTTTAGATAATTCTTAC
4815880 TTTCATTGGTATTGTTTTTAGATAATTCTTAC
1 TTTCATTGGTATTGTTTTTAGATAATTCTTAC
4815912 T
1 T
4815913 CTTTTTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.57
Consensus pattern (32 bp):
TTTCATTGGTATTGTTTTTAGATAATTCTTAC
Found at i:4827567 original size:2 final size:2
Alignment explanation
Indices: 4827560--4827611 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
4827550 AGCATATAAA
*
4827560 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4827602 CT CT CT CT CT
1 CT CT CT CT CT
4827612 GGTATTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4832918 original size:58 final size:57
Alignment explanation
Indices: 4832849--4832992 Score: 202
Period size: 55 Copynumber: 2.5 Consensus size: 57
4832839 TTAATCAAAT
* *
4832849 TTGCATTCATAAATAAAGTTGTTTTTATTTATTTATTTATGTTTCATTGAATGTTTTG
1 TTGCATTCATAAATAAAGTTG-TTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
* * *
4832907 TTGCATTCATAAATAAAGTTG-TGT-TTTCTTTACTTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
* *
4832962 TTACATTCATAAATAAAGTTATTTTATTTAT
1 TTGCATTCATAAATAAAGTTGTTTTATTTAT
4832993 GCTTTCATTG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
55 46 0.61
56 4 0.05
57 4 0.05
58 21 0.28
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (57 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
Found at i:4832963 original size:55 final size:52
Alignment explanation
Indices: 4832880--4833074 Score: 225
Period size: 55 Copynumber: 3.7 Consensus size: 52
4832870 TTTTTATTTA
* *
4832880 TTTATTTATGTTTCATTGAATGTTTTGTTGCATTCATAAATAAAGTTGTGTTTT
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAG-TG-GTTTT
* * *
4832934 CTTTACTTATGCTTCATTGATTGTTTTGTTACATTCATAAATAAA---GTTAT
1 -TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
* * *
4832984 TTTATTTATGCTTTCATTGATTGTTTTGTTGCATTTATAAATATAGTGGTGTT
1 TTTATTTATGC-TTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
* * *
4833037 TTTAATTATGTTTCATTGTTTGTTTTTGTTGCATTCAT
1 TTTATTTATGCTTCATTGATTG-TTTTGTTGCATTCAT
4833075 TTTTTTCGGT
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 10 0.08
50 34 0.28
52 10 0.08
53 26 0.22
55 40 0.33
ACGTcount: A:0.23, C:0.08, G:0.14, T:0.56
Consensus pattern (52 bp):
TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
Found at i:4843442 original size:15 final size:15
Alignment explanation
Indices: 4843422--4843470 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
4843412 CGATGAATTT
4843422 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
4843437 ATTGAAATTAT-TTG
1 ATTGAATTTATATTG
4843451 ATTGAATTTATATTG
1 ATTGAATTTATATTG
4843466 ATTGA
1 ATTGA
4843471 CTTATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:4843961 original size:21 final size:21
Alignment explanation
Indices: 4843861--4843977 Score: 144
Period size: 21 Copynumber: 5.5 Consensus size: 21
4843851 AGACACTTTA
4843861 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
4843884 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
**
4843905 TGTGTCACATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
4843926 TGTGTCGTATCAGGCACCTAG
1 TGTGTCGTATCAGGCACCTCG
* * * **
4843947 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
4843968 TGTGTCGTAT
1 TGTGTCGTAT
4843978 ACTGATCAGG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
21 74 0.89
23 9 0.11
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:4847228 original size:21 final size:21
Alignment explanation
Indices: 4847204--4847268 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
4847194 AAGTCTAGCT
*
4847204 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
4847225 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
4847243 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
4847264 GAAGC
1 GAAGC
4847269 CCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:4847245 original size:39 final size:39
Alignment explanation
Indices: 4847186--4847286 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
4847176 ATCATAATCT
* * * *
4847186 GAAGCCTGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
4847225 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
4847264 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
4847287 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.37, C:0.24, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:4854988 original size:3 final size:3
Alignment explanation
Indices: 4854980--4855004 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4854970 TGGCAAAAAT
4854980 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
4855005 CGATTTACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4861622 original size:22 final size:22
Alignment explanation
Indices: 4861585--4861637 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
4861575 ACTTAAAAAT
4861585 TAATTAAAC--TAAAAATCAA-C
1 TAATTAAACAATAAAAAT-AACC
4861605 TAATTAAACAATAAAAATAACC
1 TAATTAAACAATAAAAATAACC
*
4861627 TAATAAAACAA
1 TAATTAAACAA
4861638 GCAAAAGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
21 2 0.07
22 18 0.62
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (22 bp):
TAATTAAACAATAAAAATAACC
Found at i:4861848 original size:17 final size:17
Alignment explanation
Indices: 4861828--4861861 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4861818 TTATCTCTCG
4861828 ACCTCGTTTATCCTAAA
1 ACCTCGTTTATCCTAAA
4861845 ACCTCGTTTATCCTAAA
1 ACCTCGTTTATCCTAAA
4861862 TGACTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (17 bp):
ACCTCGTTTATCCTAAA
Found at i:4862742 original size:20 final size:19
Alignment explanation
Indices: 4862706--4862753 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
4862696 AACACAAAGC
4862706 AATAAAAA-ATGAAAACGA
1 AATAAAAACATGAAAACGA
*
4862724 AATAAAAACATGTAAAACGC
1 AATAAAAACATG-AAAACGA
4862744 AATAAAAACA
1 AATAAAAACA
4862754 AGCTCGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 16 0.59
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.12
Consensus pattern (19 bp):
AATAAAAACATGAAAACGA
Found at i:4870323 original size:30 final size:30
Alignment explanation
Indices: 4870289--4870349 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4870279 TCCTTAACTC
4870289 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
4870319 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
4870349 A
1 A
4870350 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:4871420 original size:16 final size:16
Alignment explanation
Indices: 4871399--4871430 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4871389 TCAATTAATC
*
4871399 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
4871415 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
4871431 AAATCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:4880175 original size:19 final size:19
Alignment explanation
Indices: 4880151--4880189 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4880141 AATCTATATG
4880151 ACTCAGCTAGATAGATTCA
1 ACTCAGCTAGATAGATTCA
4880170 ACTCAGCTAGATAGATTCA
1 ACTCAGCTAGATAGATTCA
4880189 A
1 A
4880190 GGTTGCTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTCAGCTAGATAGATTCA
Found at i:4880351 original size:26 final size:26
Alignment explanation
Indices: 4880315--4880368 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
4880305 ACATGAAGTA
4880315 AATTTGATCATTGCGTGTATTTTCAG
1 AATTTGATCATTGCGTGTATTTTCAG
4880341 AATTTGATCATTGCGTGTATTTTCAG
1 AATTTGATCATTGCGTGTATTTTCAG
4880367 AA
1 AA
4880369 GCTACAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (26 bp):
AATTTGATCATTGCGTGTATTTTCAG
Found at i:4882595 original size:19 final size:18
Alignment explanation
Indices: 4882545--4882595 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
4882535 GATTATTTGA
*
4882545 TTTCTTGTTTTTCATTTAT
1 TTTCTT-TTTTTTATTTAT
4882564 TTTCTTTTCTTTTATTTAT
1 TTTCTTTT-TTTTATTTAT
4882583 TTTCTTATTTTTT
1 TTTCTT-TTTTTT
4882596 TAATATAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 25 0.86
20 2 0.07
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTTTTATTTAT
Found at i:4899318 original size:49 final size:49
Alignment explanation
Indices: 4899088--4899319 Score: 250
Period size: 49 Copynumber: 4.7 Consensus size: 49
4899078 CTGGTAAGCA
* * * ** *
4899088 TAGTAGCCTGCACTTAATACTACACATGTAACCAATTATTTGGCACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
4899137 TAGGAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
4899187 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCG-GTACACG
* *
4899238 TACTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* *
4899287 TAGTAACCTGCACTTAGTACTTCACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
4899320 TCACAATAGA
Statistics
Matches: 150, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 67 0.45
50 48 0.32
51 35 0.23
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:4899596 original size:27 final size:27
Alignment explanation
Indices: 4899566--4899619 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4899556 TCATACAACC
* *
4899566 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
4899593 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
4899620 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:4905067 original size:22 final size:22
Alignment explanation
Indices: 4905041--4905082 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4905031 AATTGATGTA
4905041 GAGTACATAAATTTTATGTATT
1 GAGTACATAAATTTTATGTATT
4905063 GAGTACATAAATTTTATGTA
1 GAGTACATAAATTTTATGTA
4905083 CTATCAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (22 bp):
GAGTACATAAATTTTATGTATT
Found at i:4914322 original size:2 final size:2
Alignment explanation
Indices: 4914315--4914341 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4914305 CCAGTGAGTT
4914315 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
4914342 AGTCTTTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4919253 original size:28 final size:28
Alignment explanation
Indices: 4919222--4919284 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
4919212 TCCCATATTA
4919222 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
4919250 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
4919278 ATGGGGT
1 ATGGGGT
4919285 TGATAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:4923571 original size:12 final size:12
Alignment explanation
Indices: 4923554--4923584 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4923544 TATATGTCTG
*
4923554 CGGCCACGCCCA
1 CGGCCACGACCA
4923566 CGGCCACGACCA
1 CGGCCACGACCA
4923578 CGGCCAC
1 CGGCCAC
4923585 ACACACTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.55, G:0.26, T:0.00
Consensus pattern (12 bp):
CGGCCACGACCA
Found at i:4924669 original size:28 final size:28
Alignment explanation
Indices: 4924638--4924696 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
4924628 ATATTAATGT
4924638 GGTATAGGAAAAGTCTCATAACTTATGG
1 GGTATAGGAAAAGTCTCATAACTTATGG
* * *
4924666 GGTATAGGAAGAGTTTTATAACTTATGG
1 GGTATAGGAAAAGTCTCATAACTTATGG
4924694 GGT
1 GGT
4924697 TGATAATGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (28 bp):
GGTATAGGAAAAGTCTCATAACTTATGG
Found at i:4924860 original size:24 final size:25
Alignment explanation
Indices: 4924814--4924860 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
4924804 AAAAGAAATA
**
4924814 GAAAAACAAGGAAAAATGGCGAAAG
1 GAAAAACAAGGAAAAATAACGAAAG
*
4924839 GAAAAATAA-GAAAAATAACGAA
1 GAAAAACAAGGAAAAATAACGAA
4924861 GCTCGGAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.66, C:0.06, G:0.21, T:0.06
Consensus pattern (25 bp):
GAAAAACAAGGAAAAATAACGAAAG
Found at i:4933436 original size:2 final size:2
Alignment explanation
Indices: 4933429--4933477 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4933419 AGTTAACCTT
4933429 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4933471 TC TC TC T
1 TC TC TC T
4933478 TTCATTCTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4940822 original size:35 final size:35
Alignment explanation
Indices: 4940776--4940846 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
4940766 TGAACCTATG
4940776 AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
1 AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
4940811 AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
1 AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
4940846 A
1 A
4940847 ACTTTAGCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (35 bp):
AGCTCATCTAGACCCTTATATTCTTCGATAATGGT
Found at i:4943157 original size:27 final size:27
Alignment explanation
Indices: 4943127--4943181 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4943117 TTGTATATAA
4943127 GCTTATGGTTGTGATTTGATATTTGAT
1 GCTTATGGTTGTGATTTGATATTTGAT
4943154 GCTTATGGTTGTGATTTGATATTTGAT
1 GCTTATGGTTGTGATTTGATATTTGAT
4943181 G
1 G
4943182 TTTGGTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (27 bp):
GCTTATGGTTGTGATTTGATATTTGAT
Found at i:4944906 original size:21 final size:22
Alignment explanation
Indices: 4944880--4944928 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
4944870 CTATGCCTTG
4944880 AGACATAAATACC-ATGTCTCA
1 AGACATAAATACCAATGTCTCA
* * *
4944901 AGACATACATGCCAATGTCTCT
1 AGACATAAATACCAATGTCTCA
4944923 AGACAT
1 AGACAT
4944929 GCAACCCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (22 bp):
AGACATAAATACCAATGTCTCA
Found at i:4947026 original size:27 final size:25
Alignment explanation
Indices: 4946995--4947044 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
4946985 ATTTGAATAG
4946995 TAAAATATAGAAAAATAATATATAACC
1 TAAAATA-A-AAAAATAATATATAACC
*
4947022 TAAAATAAAATAATAATATATAA
1 TAAAATAAAAAAATAATATATAA
4947045 ATAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 1 0.05
27 7 0.32
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (25 bp):
TAAAATAAAAAAATAATATATAACC
Found at i:4947058 original size:27 final size:26
Alignment explanation
Indices: 4946995--4947059 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
4946985 ATTTGAATAG
* *
4946995 TAAAATATAGAAAAATAATATATAACC
1 TAAAAT-TAAAAAAATAATATATAACA
*
4947022 TAAAA-TAAAATAATAATATATAA-A
1 TAAAATTAAAAAAATAATATATAACA
*
4947046 TAAAATTTAAAAAA
1 TAAAATTAAAAAAA
4947060 GAGAGTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 5 0.16
25 22 0.69
27 5 0.16
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (26 bp):
TAAAATTAAAAAAATAATATATAACA
Found at i:4948454 original size:14 final size:14
Alignment explanation
Indices: 4948381--4948464 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 14
4948371 GTATTTTATA
4948381 AAATTATAACAAAA-
1 AAATTATAA-AAAAT
** **
4948395 AAATTATATTATTT
1 AAATTATAAAAAAT
4948409 AAATTATAAAAAATTCT
1 AAATTATAAAAAA---T
4948426 AAATTTATGATAAAAATT
1 AAA-TTAT-A-AAAAA-T
4948444 AAATTATAAAAAAT
1 AAATTATAAAAAAT
4948458 AAATTAT
1 AAATTAT
4948465 GTGTTATAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
13 1 0.02
14 25 0.46
15 5 0.09
16 1 0.02
17 8 0.15
18 8 0.15
19 1 0.02
20 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (14 bp):
AAATTATAAAAAAT
Found at i:4952308 original size:3 final size:3
Alignment explanation
Indices: 4952300--4952332 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4952290 TTATAGACTG
4952300 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4952333 TATTTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4956175 original size:18 final size:18
Alignment explanation
Indices: 4956152--4956189 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4956142 CTCACAATGG
4956152 AGTAGTGAAAGTATGGAA
1 AGTAGTGAAAGTATGGAA
4956170 AGTAGTGAAAGTATGGAA
1 AGTAGTGAAAGTATGGAA
4956188 AG
1 AG
4956190 AAGTTATCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (18 bp):
AGTAGTGAAAGTATGGAA
Found at i:4971837 original size:132 final size:131
Alignment explanation
Indices: 4971327--4971855 Score: 448
Period size: 131 Copynumber: 4.0 Consensus size: 131
4971317 TTCACAATTA
* * * * *
4971327 CTAAAAATCCC-TT-AAACGAAGGCGATA-TGCGATATTTGGTAATTCGCGGAATCGCGCCCTAA
1 CTAAAAA-CCCTTTAAAACGAAGGCAATACT-CGATGTTTGATAATTCG-GGAATAGTGCCCTAA
* * * * *
4971389 CGTGCTAGGTTGCAATTTTCCGTTTGCTT-AAAATAATCAAATA-TCCCTTCAAAATTTCACTCG
63 CGTGCTGGGTTGCAATTTCCCGTTTG-TTCAAAACAATCGAATACT-CCTTCGAAATTTCACTCG
*
4971452 TGTCTT
126 TGTTTT
* * * * *
4971458 CTAAAAATCCTTTAAAACGAAGGCAATACTCGGTGTTTGATAATTCGAGACTCA-TGCCCTATCG
1 CTAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAAT-AGTGCCCTAACG
* ** * * * * * **
4971522 TGCTGGTTTGTGACTTCTCGTTTGCTCAAAACAATCGAATATTCCTT-TAGGTTTTCACTCGTGT
65 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATACTCCTTCGA-AATTTCACTCGTGT
4971586 TTAT
129 TT-T
* * * *
4971590 -TAAAAA-CCTTCCAAAACGAAGACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAACG
1 CTAAAAACCCTT-TAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAATAGTGCCCTAACG
* ** * * * * **
4971653 TGTTGGGTTGTGATTTCTCGTTTTTTCAAAACAATCGAAGATTCCTTCGAAATTTCACTCACGTT
65 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATACTCCTTCGAAATTTCACTCGTGTT
4971718 TT
130 TT
* * ** * **
4971720 CTAAAAACCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGGGGAATAGTACCCTATTG
1 CTAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTC-GGGAATAGTGCCCTAACG
* * *
4971785 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATAGCT-CTTTGAAATTTCACTCGTAT
65 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATA-CTCCTTCGAAATTTCACTCGTGT
4971849 TTT
129 TTT
4971852 CTAA
1 CTAA
4971856 GGTGAGGCAA
Statistics
Matches: 319, Mismatches: 64, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
130 9 0.03
131 203 0.64
132 105 0.33
133 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
CTAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAATAGTGCCCTAACGT
GCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATACTCCTTCGAAATTTCACTCGTGTTT
T
Found at i:4977639 original size:2 final size:2
Alignment explanation
Indices: 4977632--4977670 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4977622 TCCTATGTGT
4977632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4977671 CCAACATTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4978291 original size:16 final size:17
Alignment explanation
Indices: 4978256--4978289 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
4978246 GTCATGTGTC
4978256 TTATTTCTTTTACATAT
1 TTATTTCTTTTACATAT
4978273 TTATTT-TTTTA-ATAT
1 TTATTTCTTTTACATAT
4978288 TT
1 TT
4978290 TACTTTACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTCTTTTACATAT
Found at i:4980447 original size:17 final size:17
Alignment explanation
Indices: 4980414--4980447 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4980404 ACTTTTAAAA
*
4980414 TTTATATTATATTATTT
1 TTTATATTATATAATTT
*
4980431 TTTATATTATGTAATTT
1 TTTATATTATATAATTT
4980448 GTAAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTATATTATATAATTT
Found at i:4984201 original size:29 final size:32
Alignment explanation
Indices: 4984147--4984220 Score: 100
Period size: 29 Copynumber: 2.4 Consensus size: 32
4984137 AATTTAATAG
* * *
4984147 AAAATATAGAAATTCTAAAATGAATAATATGT
1 AAAATATATAAATTCTAAAATAAATAATATAT
4984179 AAAA-A-ATAAATT-TAAAATAAATAATATAT
1 AAAATATATAAATTCTAAAATAAATAATATAT
4984208 AAAATATATAAAT
1 AAAATATATAAAT
4984221 CAATTTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 19 0.51
30 7 0.19
31 7 0.19
32 4 0.11
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (32 bp):
AAAATATATAAATTCTAAAATAAATAATATAT
Found at i:4984403 original size:25 final size:26
Alignment explanation
Indices: 4984365--4984413 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
4984355 AATATATATA
*
4984365 TATAAAATGGTTTAAAATAAATAACG
1 TATAAAATGATTTAAAATAAATAACG
*
4984391 TATAAAAT-ATTTAGAATAAATAA
1 TATAAAATGATTTAAAATAAATAA
4984414 TATGTAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (26 bp):
TATAAAATGATTTAAAATAAATAACG
Found at i:4984448 original size:27 final size:26
Alignment explanation
Indices: 4984375--4984450 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
4984365 TATAAAATGG
* * *
4984375 TTTAAAATAAATAACGTAT-AAAATA
1 TTTAGAATAAATAATGTATAAAAAAA
* *
4984400 TTTAGAATAAATAATATGTAAAAGAAA
1 TTTAGAATAAATAATGTATAAAA-AAA
*
4984427 TTTGGAATAAATAATGTATAAAAA
1 TTTAGAATAAATAATGTATAAAAA
4984451 CCGTTTAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 15 0.37
26 4 0.10
27 22 0.54
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (26 bp):
TTTAGAATAAATAATGTATAAAAAAA
Found at i:4984502 original size:25 final size:24
Alignment explanation
Indices: 4984474--4984592 Score: 89
Period size: 24 Copynumber: 4.8 Consensus size: 24
4984464 AAAATATATG
*
4984474 TATATGAATAATCCAAAATAAATAA
1 TATAT-AATAATTCAAAATAAATAA
* *
4984499 TATATAA-AAGTTTAAAGTAAGA-AGA
1 TATATAATAA-TTCAAAATAA-ATA-A
4984524 TATATAAATAATTTCAAAATAAATAA
1 TATAT-AATAA-TTCAAAATAAATAA
* * **
4984550 GATATAATAGTTTGAAATAAATAA
1 TATATAATAATTCAAAATAAATAA
*
4984574 TATATGAAGAATTCAAAAT
1 TATAT-AATAATTCAAAAT
4984593 GAGTAATAGT
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
23 2 0.03
24 26 0.36
25 25 0.35
26 8 0.11
27 11 0.15
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.31
Consensus pattern (24 bp):
TATATAATAATTCAAAATAAATAA
Found at i:4984577 original size:50 final size:50
Alignment explanation
Indices: 4984474--4984592 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 50
4984464 AAAATATATG
* *
4984474 TATATGAATAATCCAAAATAAATAATATATAAAAGTTTAAAGTAAGAAGA
1 TATATGAATAATTCAAAATAAATAAGATATAAAAGTTTAAAGTAAGAAGA
* *
4984524 TATATAAATAATTTCAAAATAAATAAGATATAATAGTTTGAAA-TAA-ATA-A
1 TATATGAATAA-TTCAAAATAAATAAGATATAAAAGTTT-AAAGTAAGA-AGA
*
4984574 TATATGAAGAATTCAAAAT
1 TATATGAATAATTCAAAAT
4984593 GAGTAATAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
49 8 0.13
50 21 0.35
51 28 0.47
52 3 0.05
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.31
Consensus pattern (50 bp):
TATATGAATAATTCAAAATAAATAAGATATAAAAGTTTAAAGTAAGAAGA
Found at i:4985602 original size:48 final size:48
Alignment explanation
Indices: 4985531--4985629 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
4985521 ACTAAACAGG
4985531 GTCATGAAATCTCAAATAATTAAAAAATTTTCTTTTCACATGCAATCT
1 GTCATGAAATCTCAAATAATTAAAAAATTTTCTTTTCACATGCAATCT
* *
4985579 GTCATGAAATCTCAAATAATTAAAAACTTTTCTTTTCACATTCAATCT
1 GTCATGAAATCTCAAATAATTAAAAAATTTTCTTTTCACATGCAATCT
4985627 GTC
1 GTC
4985630 CTTTATGCGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.38
Consensus pattern (48 bp):
GTCATGAAATCTCAAATAATTAAAAAATTTTCTTTTCACATGCAATCT
Found at i:4987748 original size:46 final size:46
Alignment explanation
Indices: 4987597--4987761 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
4987587 TGTAACCCGC
* * *
4987597 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
* *
4987643 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--A-GAC-A-TTCGCAT
* * * *
4987692 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
4987735 CCATAAGTGAACTCGGATTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
4987762 AGAGTTTGGA
Statistics
Matches: 96, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 22 0.23
46 38 0.40
47 20 0.21
48 3 0.03
49 3 0.03
50 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
Found at i:4991224 original size:46 final size:44
Alignment explanation
Indices: 4991150--4991353 Score: 146
Period size: 46 Copynumber: 4.5 Consensus size: 44
4991140 GTCAATGCTG
* * * *
4991150 TGTCCCAGACAGGTCTTACACTGACACATGTAACCGT-GCTGACGCA
1 TGTCCTAGACATGTCTTACACTGACACATCT---CGTAGCCGACGCA
*
4991196 TGTCCTAGACATGTCTTACACT-AGCACATCTCGTAGCCGATGCA
1 TGTCCTAGACATGTCTTACACTGA-CACATCTCGTAGCCGACGCA
* * *
4991240 TGTCCTAGACATGTCTGACACTGGCTAACATCTCG-AGGCCGATGCA
1 TGTCCTAGACATGTCTTACACTGAC--ACATCTCGTA-GCCGACGCA
* * * * * * *
4991286 TGTCCCAAACATGTCTTACACTGGCTC-TCATACTGTGGCTGATGCA
1 TGTCCTAGACATGTCTTACACTGACACATC-T-C-GTAGCCGACGCA
*
4991332 TGTCCCAGACATGTCTTACACT
1 TGTCCTAGACATGTCTTACACT
4991354 AGCCCTCGTC
Statistics
Matches: 134, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
43 5 0.04
44 31 0.23
45 3 0.02
46 95 0.71
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (44 bp):
TGTCCTAGACATGTCTTACACTGACACATCTCGTAGCCGACGCA
Found at i:4991373 original size:46 final size:44
Alignment explanation
Indices: 4991186--4991401 Score: 159
Period size: 46 Copynumber: 4.7 Consensus size: 44
4991176 CATGTAACCG
* *
4991186 TGCTGACGCATGTCCTAGACATGTCTTACACTAGCACATC-TCGTA
1 TGCTGATGCATGTCCCAGACATGTCTTACACTAGC-CATCATC-TA
* * * * * *
4991231 -GCCGATGCATGTCCTAGACATGTCTGACACTGGCTAACATCTCGA
1 TGCTGATGCATGTCCCAGACATGTCTTACACTAGCCATCATCT--A
* * * * *
4991276 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTC-TCATACTG
1 TGCTGATGCATGTCCCAGACATGTCTTACACTAGC-CATCAT-CTA
* *
4991321 TGGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAA
1 T-GCTGATGCATGTCCCAGACATGTCTTACACTAGCCATCATCT--A
* *
4991368 TGCTGATGCCATGTCTCATACATGGTCTTACACT
1 TGCTGATG-CATGTCCCAGACAT-GTCTTACACT
4991402 GGCACACAAA
Statistics
Matches: 139, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
43 3 0.02
44 32 0.23
45 4 0.03
46 75 0.54
47 15 0.11
48 10 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (44 bp):
TGCTGATGCATGTCCCAGACATGTCTTACACTAGCCATCATCTA
Found at i:4991376 original size:92 final size:91
Alignment explanation
Indices: 4991186--4991409 Score: 218
Period size: 92 Copynumber: 2.4 Consensus size: 91
4991176 CATGTAACCG
* * * * *
4991186 TGCTGACGCATGTCCTAGACATGTCTTACACTAG-CACATCTCGTAGCCGATGCATGTCCTAGAC
1 TGCTGATGCATGTCCCAAACATGTCTTACACTGGCCACATCTCGTAGCCGATGCATGTCCCAGAC
* * *
4991250 ATGTCTGACACTGGCTAACATCTCGA
66 ATGTCTGACACTAGCCAACATCTCAA
* * * * *
4991276 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAG
1 TGCTGATGCATGTCCCAAACATGTCTTACACTGGC-CACAT-CTCGTAGCCGATGCATGTCCCAG
* ** *
4991340 ACATGTCTTACACTAGCCCTCGTCTCAA
64 ACATGTCTGACACTAGCCAACATCTCAA
* *
4991368 TGCTGATGCCATGTCTCATACATGGTCTTACACTGGCACACA
1 TGCTGATG-CATGTCCCAAACAT-GTCTTACACTGGC-CACA
4991410 AATCTCATGT
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
90 28 0.26
92 48 0.45
93 14 0.13
94 16 0.15
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (91 bp):
TGCTGATGCATGTCCCAAACATGTCTTACACTGGCCACATCTCGTAGCCGATGCATGTCCCAGAC
ATGTCTGACACTAGCCAACATCTCAA
Found at i:4994230 original size:46 final size:46
Alignment explanation
Indices: 4994163--4994337 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 46
4994153 TGTAACCCGC
*
4994163 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
* * *
4994209 CCATATGTGAACTCAGACTCAACTCAAAGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCAT
* * * **
4994259 CTCA-CA---AATTCAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
* * *
4994302 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
4994338 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
46 56 0.55
47 23 0.23
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:4995931 original size:13 final size:14
Alignment explanation
Indices: 4995913--4995941 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4995903 TTTTTGTCGT
4995913 TTCTGCTTGG-TTC
1 TTCTGCTTGGCTTC
4995926 TTCTGCTTGGCTTC
1 TTCTGCTTGGCTTC
4995940 TT
1 TT
4995942 TTGTTTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.24, G:0.21, T:0.55
Consensus pattern (14 bp):
TTCTGCTTGGCTTC
Found at i:5022784 original size:174 final size:171
Alignment explanation
Indices: 5022250--5022795 Score: 724
Period size: 173 Copynumber: 3.2 Consensus size: 171
5022240 TCTATTTAGC
* * * *
5022250 ATTGCTTATGGCTCAATAAATTTAGGTCCAATATAAATATTATATAAAATACATTAAATTTTAAA
1 ATTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAAT-CATTAAATTATAAA
* * * *
5022315 TAAGAGTTAAAAATAT-TCTGACTCCGAAAA-TGTTTTTTTTTAAAAAAAAGGCAATAGTTTTTG
65 TAAGAGTTAAAAATATCTTTGACTCC-AAAAGTGTTTTTTTTT-ACAAACA--CAATAGCTTTTG
*
5022378 GGTTTGGATTGAAAAACAATTTTAACTTAAAAAATGGTCTGTTT-T
126 GGTTTGGATTGAAAAACAATTTTAACTTAAAAAATAGTCTGTTTGT
* * * * * *
5022423 ACGTTGCTTATGGCTCAATAAATTCAGGTCCAATATAAATATTAGATAATAT-ATTAGATTAGAA
1 A--TTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAATCATTAAATTATAA
*
5022487 ATAAGAGTTAAAAATATCTTTGACTCCAAAAGTGTTTTTTTTTACAAACATAATAGCTTTTGGGT
64 ATAAGAGTTAAAAATATCTTTGACTCCAAAAGTGTTTTTTTTTACAAACACAATAGCTTTTGGGT
* * *
5022552 TTGGATTG-AAAACAATTTTAACTTTAAAAATAATCTATTTTGT
129 TTGGATTGAAAAACAATTTTAACTTAAAAAATAGTCT-GTTTGT
* *
5022595 ATTGCTTATGACTCAATAAATTCAGATTCAATATAAATATTATATAAAATGCATTATATTATAAA
1 ATTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAAT-CATTAAATTATAAA
* *
5022660 TAAGAGTTAAAAATATCTTTGACTCCAAAAGTGGTTTTTTTTTTCAAACACAATAGCTATTGGGT
65 TAAGAGTTAAAAATATCTTTGACTCCAAAAGT-GTTTTTTTTTACAAACACAATAGCTTTTGGGT
* * *
5022725 TTGAATTGAAAAACAATTTTAACTTCACAAATAGTCTGTTCTGT
129 TTGGATTGAAAAACAATTTTAACTTAAAAAATAGTCTGTT-TGT
5022769 ATTGCTTATGACTCAATAAATTCAGAT
1 ATTGCTTATGACTCAATAAATTCAGAT
5022796 AAGAGTTAAA
Statistics
Matches: 332, Mismatches: 30, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
170 69 0.21
171 24 0.07
172 45 0.14
173 74 0.22
174 74 0.22
175 46 0.14
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (171 bp):
ATTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAATCATTAAATTATAAAT
AAGAGTTAAAAATATCTTTGACTCCAAAAGTGTTTTTTTTTACAAACACAATAGCTTTTGGGTTT
GGATTGAAAAACAATTTTAACTTAAAAAATAGTCTGTTTGT
Found at i:5031420 original size:28 final size:29
Alignment explanation
Indices: 5031360--5031421 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
5031350 TATTTTTTTA
* * *
5031360 TTTTTTATTTTGAAGCAAATAGGATACAT
1 TTTTTAATTTTGAAGCAAATAAGATACAG
*
5031389 TTTTTAATTTTGAAGCAAATAAGAT-TAG
1 TTTTTAATTTTGAAGCAAATAAGATACAG
5031417 TTTTT
1 TTTTT
5031422 TTTTAGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (29 bp):
TTTTTAATTTTGAAGCAAATAAGATACAG
Found at i:5031422 original size:29 final size:28
Alignment explanation
Indices: 5031359--5031413 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
5031349 TTATTTTTTT
*
5031359 ATTTTTTATTTTGAAGCAAATAGGATAC
1 ATTTTTTATTTTGAAGCAAATAAGATAC
5031387 ATTTTTTAATTTTGAAGCAAATAAGAT
1 ATTTTTT-ATTTTGAAGCAAATAAGAT
5031414 TAGTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (28 bp):
ATTTTTTATTTTGAAGCAAATAAGATAC
Found at i:5033500 original size:23 final size:23
Alignment explanation
Indices: 5033463--5033506 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5033453 TTGCCTCAAC
5033463 ATGTACATATATTATACTTATAA
1 ATGTACATATATTATACTTATAA
*
5033486 ATGTACCATAT-TTATATTTAT
1 ATGTA-CATATATTATACTTAT
5033507 GAAACTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (23 bp):
ATGTACATATATTATACTTATAA
Found at i:5034605 original size:9 final size:9
Alignment explanation
Indices: 5034582--5034642 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
5034572 TGTTATGATA
5034582 ATAAATAATT
1 ATAAA-AATT
*
5034592 TTAAAAATT
1 ATAAAAATT
5034601 ATAAAAA-T
1 ATAAAAATT
5034609 A-AAAAATT
1 ATAAAAATT
5034617 CA-AAAAATT
1 -ATAAAAATT
*
5034626 -TAAAATTT
1 ATAAAAATT
5034634 ATAAAAATT
1 ATAAAAATT
5034643 CAAAAGAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
7 5 0.12
8 9 0.21
9 25 0.58
10 4 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:5034609 original size:25 final size:24
Alignment explanation
Indices: 5034594--5034647 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 24
5034584 AAATAATTTT
5034594 AAAAATTATAAAAATAAAAAATTCA
1 AAAAATT-TAAAAATAAAAAATTCA
*
5034619 AAAAATTTAAAATTTATAAAAATTCA
1 AAAAATTTAAAA-ATA-AAAAATTCA
5034645 AAA
1 AAA
5034648 GAATAGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 9 0.35
26 12 0.46
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAAATTTAAAAATAAAAAATTCA
Found at i:5034615 original size:16 final size:16
Alignment explanation
Indices: 5034594--5034641 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
5034584 AAATAATTTT
5034594 AAAAATTATAAAAATA
1 AAAAATTATAAAAATA
*
5034610 AAAAATTCA-AAAAATTT
1 AAAAATT-ATAAAAA-TA
*
5034627 AAAATTTATAAAAAT
1 AAAAATTATAAAAAT
5034642 TCAAAAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTATAAAAATA
Found at i:5034800 original size:24 final size:24
Alignment explanation
Indices: 5034755--5034800 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
5034745 TTTTTAAAAA
* *
5034755 TTAATGATCAAATTTAACATTTTT
1 TTAAAGATCAAAATTAACATTTTT
5034779 TTAAAGATCAAAAATTAA-ATTT
1 TTAAAGATC-AAAATTAACATTT
5034801 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAGATCAAAATTAACATTTTT
Found at i:5035487 original size:33 final size:33
Alignment explanation
Indices: 5035450--5035513 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
5035440 TTAATTTTGT
5035450 TTTAATGTATAATTTGATAT-ATGAACTTTTAGC
1 TTTAATGTATAATTTGAT-TCATGAACTTTTAGC
* *
5035483 TTTAATGTATATTTTGATTCATGAATTTTTA
1 TTTAATGTATAATTTGATTCATGAACTTTTA
5035514 TTTTGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (33 bp):
TTTAATGTATAATTTGATTCATGAACTTTTAGC
Found at i:5037438 original size:33 final size:33
Alignment explanation
Indices: 5037391--5037455 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
5037381 TTTATGTACC
* *
5037391 ATGTCTACAACAATACCATAAAATACAATAATT
1 ATGTATACAACAATACCATAAAACACAATAATT
*
5037424 ATGTATACAACAATACCGTAAAACACAATAAT
1 ATGTATACAACAATACCATAAAACACAATAAT
5037456 AATCTAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (33 bp):
ATGTATACAACAATACCATAAAACACAATAATT
Found at i:5042450 original size:74 final size:74
Alignment explanation
Indices: 5042152--5042488 Score: 529
Period size: 74 Copynumber: 4.6 Consensus size: 74
5042142 GTGATCTAAA
*
5042152 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
*
5042217 ATGTGAACC-GAG
65 --GTG-TCCTGAG
* *
5042229 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT-AAAACAGAAATTGAAATTACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
*
5042293 TGTCTTGAG
66 TGTCCTGAG
5042302 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
*
5042365 TGTCCCGAG
66 TGTCCTGAG
* *
5042374 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACATAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
5042439 TGTCCTGAG
66 TGTCCTGAG
*
5042448 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
5042489 CAAAAATAAA
Statistics
Matches: 242, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
71 5 0.02
72 64 0.26
73 35 0.14
74 78 0.32
75 21 0.09
76 3 0.01
77 36 0.15
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
TGTCCTGAG
Found at i:5042455 original size:146 final size:147
Alignment explanation
Indices: 5042152--5042482 Score: 531
Period size: 146 Copynumber: 2.2 Consensus size: 147
5042142 GTGATCTAAA
5042152 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAGACAGAAATTGAAAATACCTCAGC
5042217 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTAAAACAGAAATTGAAA
64 A-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTAAAACAGAAATTGAAA
*
5042282 TTACCTCAACGTGTCTTGAG
128 TTACCTCAACGTGTCCTGAG
*
5042302 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACAGAAATTGAAATTACCTCAGC-G
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAAATACCTCAGCAG
** * * *
5042365 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACATAAATTGAAATT
66 TGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT-AAAACAGAAATTGAAATT
*
5042430 ACCTCAGCGTGTCCTGAG
130 ACCTCAACGTGTCCTGAG
*
5042448 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
5042483 TTGAAACAAA
Statistics
Matches: 171, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
145 44 0.26
146 66 0.39
147 22 0.13
148 9 0.05
150 30 0.18
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (147 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAAATACCTCAGCAG
TGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTAAAACAGAAATTGAAATTA
CCTCAACGTGTCCTGAG
Found at i:5050560 original size:16 final size:17
Alignment explanation
Indices: 5050534--5050565 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5050524 AGTATGGGAA
5050534 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
5050551 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
5050566 CATGGATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Done.