Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 6 of 228
Found at i:2090322 original size:19 final size:19
Alignment explanation
Indices: 2090267--2090323 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
2090257 TGAATAAAAA
* *
2090267 AAATAT-AAATATCAATTT
1 AAATATAAAAAATAAATTT
* *
2090285 AAATATTAAAATTAAATTT
1 AAATATAAAAAATAAATTT
* *
2090304 AAGTATAAAAAATATATTT
1 AAATATAAAAAATAAATTT
2090323 A
1 A
2090324 CCCTTTAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATATAAAAAATAAATTT
Found at i:2095557 original size:9 final size:8
Alignment explanation
Indices: 2095545--2095590 Score: 56
Period size: 9 Copynumber: 5.2 Consensus size: 8
2095535 TTTTGTTAAA
2095545 AATTACTCG
1 AATTAC-CG
2095554 AATTACCTG
1 AATTACC-G
2095563 AATTACCCG
1 AATTA-CCG
2095572 AATTAACCG
1 AATT-ACCG
2095581 AATTACCG
1 AATTACCG
2095589 AA
1 AA
2095591 AAATACCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.21
9 24 0.71
10 3 0.09
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (8 bp):
AATTACCG
Found at i:2099874 original size:12 final size:12
Alignment explanation
Indices: 2099857--2099892 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2099847 ATATCGCAAA
*
2099857 GTGGCGGCTGCG
1 GTGGCGGCGGCG
2099869 GTGGCGGCGGCG
1 GTGGCGGCGGCG
*
2099881 GTGGAGGCGGCG
1 GTGGCGGCGGCG
2099893 ACGGCCAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.22, G:0.64, T:0.11
Consensus pattern (12 bp):
GTGGCGGCGGCG
Found at i:2104314 original size:14 final size:14
Alignment explanation
Indices: 2104295--2104325 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2104285 TAAAAAGGGG
2104295 AGAGGAGGGTAAAA
1 AGAGGAGGGTAAAA
*
2104309 AGAGGAGTGTAAAA
1 AGAGGAGGGTAAAA
2104323 AGA
1 AGA
2104326 AACAAAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.39, T:0.10
Consensus pattern (14 bp):
AGAGGAGGGTAAAA
Found at i:2105223 original size:25 final size:24
Alignment explanation
Indices: 2105195--2105256 Score: 63
Period size: 27 Copynumber: 2.5 Consensus size: 24
2105185 ATTTTCATTT
2105195 TCATTTTTTATATACATATATATAC
1 TCATTTTTTATATACATAT-TATAC
*
2105220 TCATAATTTATTA-ATATATATTATAC
1 TCAT--TTT-TTATATACATATTATAC
*
2105246 TTATTTTTTAT
1 TCATTTTTTAT
2105257 TTATATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
23 3 0.10
24 3 0.10
25 4 0.13
26 8 0.26
27 10 0.32
28 3 0.10
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (24 bp):
TCATTTTTTATATACATATTATAC
Found at i:2110213 original size:57 final size:57
Alignment explanation
Indices: 2110144--2110284 Score: 255
Period size: 57 Copynumber: 2.5 Consensus size: 57
2110134 ACCATTGCGA
*
2110144 TCACCATCAGCATCACAATTGTCATCACCACTATCAACATCCCTATTGCCATCACCG
1 TCACCATCAGCATCACAATTGCCATCACCACTATCAACATCCCTATTGCCATCACCG
2110201 TCACCATCAGCATCACAATTGCCATCACCACTATCAACATCCCTATTGCCATCACCG
1 TCACCATCAGCATCACAATTGCCATCACCACTATCAACATCCCTATTGCCATCACCG
* *
2110258 TCACCTTCAGCATCACCATTGCCATCA
1 TCACCATCAGCATCACAATTGCCATCA
2110285 TCATCAGCGT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 81 1.00
ACGTcount: A:0.29, C:0.40, G:0.07, T:0.24
Consensus pattern (57 bp):
TCACCATCAGCATCACAATTGCCATCACCACTATCAACATCCCTATTGCCATCACCG
Found at i:2110228 original size:24 final size:24
Alignment explanation
Indices: 2110120--2110310 Score: 103
Period size: 24 Copynumber: 7.2 Consensus size: 24
2110110 GCCGTCACCG
* *
2110120 TCACCATCAGCATCACCATTGCGA
1 TCACCATCAGCATCACAATTGCCA
*
2110144 TCACCATCAGCATCACAATTGTCA
1 TCACCATCAGCATCACAATTGCCA
* * *
2110168 TCACCACTATCAACATCCCTATTGCCATCA
1 TCA-C-C-ATCAGCATCACAATTG-C--CA
2110198 CCGTCACCATCAGCATCACAATTGCCA
1 ---TCACCATCAGCATCACAATTGCCA
* * *
2110225 TCACCACTATCAACATCCCTATTGCCA
1 TCA-C-C-ATCAGCATCACAATTGCCA
*
2110252 TCACCGTCACCTTCAGCATCACCATTGCCA
1 TCA-C--CA---TCAGCATCACAATTGCCA
* * *
2110282 TCATCATCAGCGTCACAATTACCA
1 TCACCATCAGCATCACAATTGCCA
2110306 TCACC
1 TCACC
2110311 GTCACCACTA
Statistics
Matches: 129, Mismatches: 22, Indels: 32
0.70 0.12 0.17
Matches are distributed among these distances:
24 46 0.36
25 2 0.02
26 2 0.02
27 39 0.30
28 1 0.01
29 1 0.01
30 33 0.26
31 1 0.01
32 1 0.01
33 3 0.02
ACGTcount: A:0.29, C:0.39, G:0.08, T:0.24
Consensus pattern (24 bp):
TCACCATCAGCATCACAATTGCCA
Found at i:2116255 original size:18 final size:17
Alignment explanation
Indices: 2116213--2116286 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
2116203 TTAAATGTTC
*
2116213 TATTACATTTAGTTTAATT
1 TATTA-ATTTA-TTTTATT
2116232 TATTAAATTTATTTTATT
1 TATT-AATTTATTTTATT
* *
2116250 TTTTAATTTAATTTAATAT
1 TATTAATTT-ATTTTAT-T
* *
2116269 AATTAATTTCTTTTATT
1 TATTAATTTATTTTATT
2116286 T
1 T
2116287 TGATTATTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
17 6 0.14
18 20 0.45
19 17 0.39
20 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (17 bp):
TATTAATTTATTTTATT
Found at i:2116259 original size:36 final size:36
Alignment explanation
Indices: 2116219--2116287 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
2116209 GTTCTATTAC
* *
2116219 ATTTAGTTTAAT-TTATTAAATTTATTTTATTTTTTA
1 ATTTAATTTAATATAATT-AATTTATTTTATTTTTTA
*
2116255 ATTTAATTTAATATAATTAATTTCTTTTATTTT
1 ATTTAATTTAATATAATTAATTTATTTTATTTT
2116288 GATTATTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 25 0.86
37 4 0.14
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (36 bp):
ATTTAATTTAATATAATTAATTTATTTTATTTTTTA
Found at i:2119683 original size:24 final size:24
Alignment explanation
Indices: 2119656--2119701 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2119646 ATGTTATAAC
2119656 TTTTTTTTATTTATCAAAATATTA
1 TTTTTTTTATTTATCAAAATATTA
* *
2119680 TTTTTTTTATTTGTGAAAATAT
1 TTTTTTTTATTTATCAAAATAT
2119702 ACCCAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (24 bp):
TTTTTTTTATTTATCAAAATATTA
Found at i:2119818 original size:27 final size:27
Alignment explanation
Indices: 2119752--2119829 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
2119742 AGTCAATCAC
*
2119752 ATTGGCGGTACCAAATGTGCCAAAGAG
1 ATTGGCGGTACCAATTGTGCCAAAGAG
** * *
2119779 ATTGGTAGCACCAATTGTGCCAAAGTG
1 ATTGGCGGTACCAATTGTGCCAAAGAG
*
2119806 ATTGGCGGTACCAATGGTGCCAAA
1 ATTGGCGGTACCAATTGTGCCAAA
2119830 TGACTAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (27 bp):
ATTGGCGGTACCAATTGTGCCAAAGAG
Found at i:2119931 original size:19 final size:19
Alignment explanation
Indices: 2119904--2119973 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
2119894 TCAACTCATT
*
2119904 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
2119923 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
2119941 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
2119960 TTTTAATTTAATAA
1 TTTTAATTTAATAA
2119974 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:2119954 original size:37 final size:37
Alignment explanation
Indices: 2119909--2119979 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
2119899 TCATTTTTTT
2119909 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
2119946 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
2119980 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:2120198 original size:19 final size:18
Alignment explanation
Indices: 2120174--2120232 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
2120164 TCTAATTAAG
2120174 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
2120193 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
2120211 TAATAACTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
2120230 TAA
1 TAA
2120233 ATGAGAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:2120203 original size:18 final size:19
Alignment explanation
Indices: 2120182--2120232 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
2120172 AGTAATAATT
2120182 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAACA
* * *
2120200 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAACA
2120219 CTATTTTAATTTAA
1 CTATTTTAATTTAA
2120233 ATGAGAATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (19 bp):
CTATTTTAATTTAATAACA
Found at i:2120252 original size:18 final size:19
Alignment explanation
Indices: 2120229--2120275 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
2120219 CTATTTTAAT
* *
2120229 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
2120247 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
2120266 TTAAAT-AAAA
1 TTAAATGAAAA
2120276 AAATGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:2120283 original size:20 final size:19
Alignment explanation
Indices: 2120244--2120284 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2120234 TGAGAATAGT
* *
2120244 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
2120263 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
2120283 TT
1 TT
2120285 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:2120437 original size:27 final size:27
Alignment explanation
Indices: 2120351--2120428 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
2120341 ATTTTAGTCA
* *
2120351 TTTGGCATCATTGGTGCCGCCAATCAC
1 TTTGGCACCATTGGTGCCGCCAATCTC
*
2120378 TTTGGCACCATTGGTGCCACCAATCTC
1 TTTGGCACCATTGGTGCCGCCAATCTC
*
2120405 TTTGGCACCTTTGGTGCCGCCAAT
1 TTTGGCACCATTGGTGCCGCCAAT
2120429 GTGATTGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.31
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCGCCAATCTC
Found at i:2120540 original size:28 final size:25
Alignment explanation
Indices: 2120493--2120546 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 25
2120483 TTTCGTAAAT
*
2120493 AATAAAAAAAAGTAATATTTTGGTA
1 AATAAAAAAAAGTAACATTTTGGTA
2120518 AATAAAAAAAAGTTATAACATTTTGGTA
1 AATAAAAAAAAG---TAACATTTTGGTA
2120546 A
1 A
2120547 TTTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 12 0.48
28 13 0.52
ACGTcount: A:0.56, C:0.02, G:0.11, T:0.31
Consensus pattern (25 bp):
AATAAAAAAAAGTAACATTTTGGTA
Found at i:2124480 original size:30 final size:31
Alignment explanation
Indices: 2124446--2124503 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
2124436 AGATGATTCT
*
2124446 TGTGATGATG-ATCTTATGGGCC-TATGTACA
1 TGTGATGATGCA-CCTATGGGCCTTATGTACA
*
2124476 TGTGATTATGCACCTATGGGCCTTATGT
1 TGTGATGATGCACCTATGGGCCTTATGT
2124504 GTGAAGATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.38
Consensus pattern (31 bp):
TGTGATGATGCACCTATGGGCCTTATGTACA
Found at i:2133409 original size:22 final size:23
Alignment explanation
Indices: 2133372--2133420 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
2133362 AAATTTAAAA
2133372 TTATTTAAATAATAAAAAATAATT
1 TTATTTAAAT-ATAAAAAATAATT
* *
2133396 TTATTTAAAT-TAAACAATATTT
1 TTATTTAAATATAAAAAATAATT
2133418 TTA
1 TTA
2133421 ATTATTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
24 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATTTAAATATAAAAAATAATT
Found at i:2133849 original size:29 final size:27
Alignment explanation
Indices: 2133801--2133923 Score: 87
Period size: 26 Copynumber: 4.6 Consensus size: 27
2133791 GAAAAATACA
*
2133801 ACAATTTTTACTATTTTAATATTTTTT
1 ACAATTTTTACTATTTTAATAATTTTT
2133828 ACAATATTTTA-TGATTTCTAATAATTTTT
1 ACAAT-TTTTACT-ATTT-TAATAATTTTT
* **
2133857 --ATTTTTTAAAATTTTAA-AATTTTT
1 ACAATTTTTACTATTTTAATAATTTTT
* **
2133881 AAAATTTTTAAAATTTTAA-AA-TTTT
1 ACAATTTTTACTATTTTAATAATTTTT
* *
2133906 AAAATTTTTTACAATTTT
1 ACAA-TTTTTACTATTTT
2133924 TTAAAAAAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
24 7 0.08
25 11 0.13
26 39 0.46
27 8 0.10
28 9 0.11
29 10 0.12
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (27 bp):
ACAATTTTTACTATTTTAATAATTTTT
Found at i:2133881 original size:17 final size:17
Alignment explanation
Indices: 2133859--2133914 Score: 96
Period size: 17 Copynumber: 3.3 Consensus size: 17
2133849 TAATTTTTAT
2133859 TTTTTAAAATTTTAAAA
1 TTTTTAAAATTTTAAAA
2133876 TTTTTAAAATTTTTAAAA
1 TTTTTAAAA-TTTTAAAA
2133894 -TTTTAAAATTTTAAAA
1 TTTTTAAAATTTTAAAA
2133910 TTTTT
1 TTTTT
2133915 TACAATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.22
17 21 0.57
18 8 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTAAAATTTTAAAA
Found at i:2133914 original size:26 final size:27
Alignment explanation
Indices: 2133857--2133923 Score: 111
Period size: 26 Copynumber: 2.6 Consensus size: 27
2133847 AATAATTTTT
2133857 ATTTTTTAAAATTTTAAAATTTTTAAA
1 ATTTTTTAAAATTTTAAAATTTTTAAA
2133884 A-TTTTTAAAATTTTAAAA-TTTTAAA
1 ATTTTTTAAAATTTTAAAATTTTTAAA
*
2133909 ATTTTTTACAATTTT
1 ATTTTTTAAAATTTT
2133924 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
25 8 0.21
26 29 0.76
27 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTTTTAAAATTTTAAAATTTTTAAA
Found at i:2133923 original size:8 final size:8
Alignment explanation
Indices: 2133860--2133913 Score: 90
Period size: 8 Copynumber: 6.5 Consensus size: 8
2133850 AATTTTTATT
2133860 TTTTAAAA
1 TTTTAAAA
2133868 TTTTAAAA
1 TTTTAAAA
2133876 TTTTTAAAA
1 -TTTTAAAA
2133885 TTTTTAAAA
1 -TTTTAAAA
2133894 TTTTAAAA
1 TTTTAAAA
2133902 TTTTAAAA
1 TTTTAAAA
2133910 TTTT
1 TTTT
2133914 TTACAATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
8 28 0.62
9 17 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTTAAAA
Found at i:2133923 original size:9 final size:8
Alignment explanation
Indices: 2133850--2133924 Score: 62
Period size: 9 Copynumber: 8.9 Consensus size: 8
2133840 GATTTCTAAT
2133850 AATTTTT-
1 AATTTTTA
*
2133857 ATTTTTTAA
1 AATTTTT-A
*
2133866 AATTTTAA
1 AATTTTTA
2133874 AATTTTTAA
1 AATTTTT-A
2133883 AATTTTTAA
1 AATTTTT-A
*
2133892 AATTTTAA
1 AATTTTTA
*
2133900 AATTTTAA
1 AATTTTTA
2133908 AATTTTTTA
1 AA-TTTTTA
2133917 CAATTTTT
1 -AATTTTT
2133925 TAAAAAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
7 6 0.11
8 18 0.32
9 31 0.54
10 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (8 bp):
AATTTTTA
Found at i:2137180 original size:31 final size:31
Alignment explanation
Indices: 2137132--2137200 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
2137122 TTTAAACTTT
*
2137132 TTTATCC-ATGTTAATCCTCAAACTTATAAC
1 TTTATCCAATATTAATCCTCAAACTTATAAC
2137162 TTTATCCAATATTAATCCTCAAACTTATAAC
1 TTTATCCAATATTAATCCTCAAACTTATAAC
2137193 TTTATCCA
1 TTTATCCA
2137201 GGTTTGATCC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (31 bp):
TTTATCCAATATTAATCCTCAAACTTATAAC
Found at i:2142492 original size:70 final size:70
Alignment explanation
Indices: 2142415--2142549 Score: 234
Period size: 70 Copynumber: 1.9 Consensus size: 70
2142405 GTGAAGAGTG
* *
2142415 ATGAATGATTCATAAAAAAGAATATATTGACCGTACATGGATGTACAATTGCTCATTAAAAAGTA
1 ATGAATGATTCATAAAAAAGAATACATTGACCGTACATGGATGTACAATCGCTCATTAAAAAGTA
2142480 CTGTC
66 CTGTC
* *
2142485 ATGAATGATTCATAAAAAAGAATACATTGACCGTACGTGGATGTACGATCGCTCATTAAAAAGTA
1 ATGAATGATTCATAAAAAAGAATACATTGACCGTACATGGATGTACAATCGCTCATTAAAAAGTA
2142550 GTGTGAACGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (70 bp):
ATGAATGATTCATAAAAAAGAATACATTGACCGTACATGGATGTACAATCGCTCATTAAAAAGTA
CTGTC
Found at i:2154407 original size:18 final size:18
Alignment explanation
Indices: 2154384--2154422 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2154374 CCGCTCCAGC
2154384 AAAGGACACTAAAGATGG
1 AAAGGACACTAAAGATGG
**
2154402 AAAGGATGCTAAAGATGG
1 AAAGGACACTAAAGATGG
2154420 AAA
1 AAA
2154423 AGACTCGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.28, T:0.13
Consensus pattern (18 bp):
AAAGGACACTAAAGATGG
Found at i:2154934 original size:38 final size:38
Alignment explanation
Indices: 2154892--2154964 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
2154882 TTTGCTTATT
* * *
2154892 ATCAT-TTTCGTGGTTTTATCTATGATTGTGTTTAAAAC
1 ATCATATTT-GTGGTTATATCGATGATTGTGCTTAAAAC
2154930 ATCATATTTGTGGTTATATCGATGATTGTGCTTAA
1 ATCATATTTGTGGTTATATCGATGATTGTGCTTAA
2154965 CATAGCATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 28 0.90
39 3 0.10
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.48
Consensus pattern (38 bp):
ATCATATTTGTGGTTATATCGATGATTGTGCTTAAAAC
Found at i:2164212 original size:23 final size:24
Alignment explanation
Indices: 2164182--2164232 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2164172 AAAATGATCA
2164182 TTAA-ATTA-TTGAAAAGTTTAAT
1 TTAAGATTATTTGAAAAGTTTAAT
* *
2164204 TTAAGATTATTTGAAAATTTTTAT
1 TTAAGATTATTTGAAAAGTTTAAT
2164228 TTAAG
1 TTAAG
2164233 TCATTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 4 0.16
24 17 0.68
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (24 bp):
TTAAGATTATTTGAAAAGTTTAAT
Found at i:2167961 original size:5 final size:5
Alignment explanation
Indices: 2167939--2168002 Score: 69
Period size: 5 Copynumber: 13.2 Consensus size: 5
2167929 TTTATTTAAT
* * * *
2167939 ATATA AT-TA ATATT ATATA ATATA ATATA ATATA TTATA TTATA TTATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
*
2167988 AAATA ATAT- ATATA A
1 ATATA ATATA ATATA A
2168003 AACATAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
4 8 0.16
5 43 0.84
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
ATATA
Found at i:2167976 original size:22 final size:22
Alignment explanation
Indices: 2167939--2168002 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
2167929 TTTATTTAAT
2167939 ATATAATTAATATTATATAATATA
1 ATATAA-T-ATATTATATAATATA
* *
2167963 ATATAATATATTATATTATATT
1 ATATAATATATTATATAATATA
*
2167985 ATAAAATA-ATATATATAA
1 ATATAATATAT-TATATAA
2168003 AACATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.06
22 26 0.74
23 1 0.03
24 6 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATAATATATTATATAATATA
Found at i:2187419 original size:13 final size:14
Alignment explanation
Indices: 2187383--2187421 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2187373 TTTTGTTAAA
2187383 TTAAAATAAAATTG
1 TTAAAATAAAATTG
2187397 TTAAATATAAAATT-
1 TTAAA-ATAAAATTG
*
2187411 TTAACATAAAA
1 TTAAAATAAAA
2187422 GTAGGACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TTAAAATAAAATTG
Found at i:2188166 original size:31 final size:30
Alignment explanation
Indices: 2188131--2188193 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
2188121 TACAAAATGA
2188131 TCATTGAACTATTC-AAAAGTTTTCATTTAAG
1 TCATTGAACTATTCGAAAA-TTTT-ATTTAAG
**
2188162 TCATTGAGTTATTCGGAAAATTTTATTTAAG
1 TCATTGAACTATTC-GAAAATTTTATTTAAG
2188193 T
1 T
2188194 TACCGGGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 20 0.71
32 4 0.14
33 4 0.14
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (30 bp):
TCATTGAACTATTCGAAAATTTTATTTAAG
Found at i:2188567 original size:15 final size:15
Alignment explanation
Indices: 2188547--2188576 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2188537 TAATTTTAAG
2188547 GGGTCAAAGTTAAAT
1 GGGTCAAAGTTAAAT
2188562 GGGTCAAAGTTAAAT
1 GGGTCAAAGTTAAAT
2188577 TTTAACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
GGGTCAAAGTTAAAT
Found at i:2194835 original size:21 final size:20
Alignment explanation
Indices: 2194798--2194836 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2194788 TATGTTTGAG
*
2194798 ATGTTACGTTTTAGTTACTT
1 ATGTTACATTTTAGTTACTT
*
2194818 ATGTTATCATTTTTGTTAC
1 ATGTTA-CATTTTAGTTAC
2194837 GAAATGATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (20 bp):
ATGTTACATTTTAGTTACTT
Found at i:2196041 original size:6 final size:7
Alignment explanation
Indices: 2196024--2196051 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
2196014 CTTAAAATGC
2196024 AAAAAAT
1 AAAAAAT
2196031 AAAAAAT
1 AAAAAAT
2196038 AAAAAAT
1 AAAAAAT
2196045 AAAAAAT
1 AAAAAAT
2196052 TCCTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:2201453 original size:20 final size:20
Alignment explanation
Indices: 2201424--2201466 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
2201414 CTCAAATACA
*
2201424 TAAACTAAGCATAATCTAAG
1 TAAACGAAGCATAATCTAAG
2201444 TAAACGAAGCATAATCTAAG
1 TAAACGAAGCATAATCTAAG
2201464 TAA
1 TAA
2201467 TTATATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (20 bp):
TAAACGAAGCATAATCTAAG
Found at i:2207450 original size:21 final size:22
Alignment explanation
Indices: 2207415--2207457 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2207405 AACTTCTTTT
* *
2207415 TTTATTTCTAATATTATATTAA
1 TTTATTTCAAATATTAAATTAA
2207437 TTTA-TTCAAATATTAAATTAA
1 TTTATTTCAAATATTAAATTAA
2207458 AATATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTATTTCAAATATTAAATTAA
Found at i:2223941 original size:34 final size:34
Alignment explanation
Indices: 2223902--2223971 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
2223892 GCCCACCAAA
2223902 ATGATAATATTTTGATTTAATATTTTAAAAAATC
1 ATGATAATATTTTGATTTAATATTTTAAAAAATC
*
2223936 ATGATAATATTTTGATTTAATCTTTTAAAAAATC
1 ATGATAATATTTTGATTTAATATTTTAAAAAATC
2223970 AT
1 AT
2223972 AAAGATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (34 bp):
ATGATAATATTTTGATTTAATATTTTAAAAAATC
Found at i:2226130 original size:2 final size:2
Alignment explanation
Indices: 2226125--2226149 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2226115 GATCTTTTTT
2226125 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
2226150 TAGATCGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2227030 original size:135 final size:135
Alignment explanation
Indices: 2226869--2227163 Score: 518
Period size: 135 Copynumber: 2.2 Consensus size: 135
2226859 TACAGCCCCT
* * * *
2226869 AAGCAAATATGGCGACTGGTTTCAGCTTCTAGTAATGCAACTAATAGCGAGCTGAAAAAGGATGA
1 AAGCAAAAATGGAGACTGGTTTCAGCTTCTAGTAATACAACTAATAGCGAGCTGAAAAAGGATAA
*
2226934 ACCTTTGGAATCATCTAGTAGTGATAGTTCTCAGAATTCTTGTCAAGCAAATGGGGATTCAAGAA
66 ACCTTTGGAATCATCTAGTAGTGATAGTTCTCAGAATTCTTGTCAAGCAAACGGGGATTCAAGAA
2226999 CTGTA
131 CTGTA
*
2227004 AAGCAAAAATGGAGACTGGTTTCAGCTTCTAGTAATACGACTAATAGCGAGCTGAAAAAGGATAA
1 AAGCAAAAATGGAGACTGGTTTCAGCTTCTAGTAATACAACTAATAGCGAGCTGAAAAAGGATAA
*
2227069 ACCTTTGGAATCATCTAGTAGTGATGGTTCTCAGAATTCTTGTCAAGCAAACGGGGATTCAAGAA
66 ACCTTTGGAATCATCTAGTAGTGATAGTTCTCAGAATTCTTGTCAAGCAAACGGGGATTCAAGAA
2227134 CTGTA
131 CTGTA
*
2227139 AAGCAAAAATGGAGACCGGTTTCAG
1 AAGCAAAAATGGAGACTGGTTTCAG
2227164 GAGGCATGGT
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 152 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (135 bp):
AAGCAAAAATGGAGACTGGTTTCAGCTTCTAGTAATACAACTAATAGCGAGCTGAAAAAGGATAA
ACCTTTGGAATCATCTAGTAGTGATAGTTCTCAGAATTCTTGTCAAGCAAACGGGGATTCAAGAA
CTGTA
Found at i:2229330 original size:29 final size:29
Alignment explanation
Indices: 2229279--2229334 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
2229269 CTTTGGACCT
* *
2229279 GATCAAATTAGTCCTTCTACTATTAAATG
1 GATCAAATTAGTCCCTATACTATTAAATG
* *
2229308 GATCAATTTAGTCCCTATTCTATTAAA
1 GATCAAATTAGTCCCTATACTATTAAA
2229335 AAGAATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (29 bp):
GATCAAATTAGTCCCTATACTATTAAATG
Found at i:2243826 original size:16 final size:16
Alignment explanation
Indices: 2243787--2243828 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
2243777 ATAGTAAAAA
2243787 TATAATTTTATTATTT
1 TATAATTTTATTATTT
2243803 TA-ATATTTTA-TATCTT
1 TATA-ATTTTATTAT-TT
2243819 TATAATTTTA
1 TATAATTTTA
2243829 AGGATTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATAATTTTATTATTT
Found at i:2244373 original size:25 final size:26
Alignment explanation
Indices: 2244345--2244398 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
2244335 TTTCTACTAT
* *
2244345 ATAAAATAATA-TTGGAATTAAAAAA
1 ATAAAATAATACATGAAATTAAAAAA
*
2244370 AT-AAATCATACATGAAATTAAAAAA
1 ATAAAATAATACATGAAATTAAAAAA
2244395 ATAA
1 ATAA
2244399 TTCTTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.29
25 16 0.67
26 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (26 bp):
ATAAAATAATACATGAAATTAAAAAA
Found at i:2246144 original size:25 final size:24
Alignment explanation
Indices: 2246108--2246160 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
2246098 CACAAACGCA
2246108 GCTCTTTATGAGCGTCCTAATATAG
1 GCTCTTTATGAGCGTCCTAATAT-G
* * *
2246133 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATGAGCGTCCTAATATG
2246157 GCTC
1 GCTC
2246161 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTAATATG
Found at i:2274239 original size:2 final size:2
Alignment explanation
Indices: 2274232--2274266 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2274222 TTGCATACAA
2274232 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2274267 ACGAAGAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2275761 original size:16 final size:16
Alignment explanation
Indices: 2275742--2275774 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2275732 TATCAAACAT
2275742 TTGTTGGATCATGATG
1 TTGTTGGATCATGATG
2275758 TTGTTGGATCATGATG
1 TTGTTGGATCATGATG
2275774 T
1 T
2275775 ACCAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.30, T:0.45
Consensus pattern (16 bp):
TTGTTGGATCATGATG
Found at i:2279938 original size:22 final size:23
Alignment explanation
Indices: 2279913--2279957 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2279903 ACACGATACT
* *
2279913 AATA-CTTTAAGGACTTAATTAA
1 AATATCTTTAAAGACTAAATTAA
*
2279935 AATATTTTTAAAGACTAAATTAA
1 AATATCTTTAAAGACTAAATTAA
2279958 TATTATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (23 bp):
AATATCTTTAAAGACTAAATTAA
Found at i:2281138 original size:33 final size:35
Alignment explanation
Indices: 2281101--2281197 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
2281091 CTGGTTGTAT
2281101 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
2281134 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
2281169 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
2281198 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:2281654 original size:5 final size:5
Alignment explanation
Indices: 2281644--2281671 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2281634 TTTATATTTT
2281644 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
2281672 CAAAGAAAAG
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:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:2284386 original size:21 final size:21
Alignment explanation
Indices: 2284352--2284391 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2284342 AGTTTGGGCA
*
2284352 AAAAAATAAAGCCCGTTTTGG
1 AAAAAATAAAGCCCATTTTGG
* *
2284373 AAAAAATGAGGCCCATTTT
1 AAAAAATAAAGCCCATTTT
2284392 CTAAACGGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
AAAAAATAAAGCCCATTTTGG
Found at i:2284541 original size:16 final size:16
Alignment explanation
Indices: 2284520--2284582 Score: 55
Period size: 18 Copynumber: 4.1 Consensus size: 16
2284510 TTAAGGAATT
2284520 ATCAAATATATATTTA
1 ATCAAATATATATTTA
2284536 ATC-AA-ATATA-TTA
1 ATCAAATATATATTTA
*
2284549 A--AAAGATATATTATA
1 ATCAAATATATATT-TA
*
2284564 TATTAAATATATATTTA
1 -ATCAAATATATATTTA
2284581 AT
1 AT
2284583 ATGGGCTGGG
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
12 2 0.05
13 9 0.23
14 6 0.15
15 4 0.10
16 6 0.15
17 2 0.05
18 10 0.26
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (16 bp):
ATCAAATATATATTTA
Found at i:2284584 original size:20 final size:21
Alignment explanation
Indices: 2284540--2284584 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
2284530 TATTTAATCA
2284540 AATATATTAAAAAGATATATT
1 AATATATTAAAAAGATATATT
* *
2284561 -ATATATTAAATATATAT-TT
1 AATATATTAAAAAGATATATT
2284580 AATAT
1 AATAT
2284585 GGGCTGGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATATTAAAAAGATATATT
Found at i:2285889 original size:31 final size:32
Alignment explanation
Indices: 2285854--2285932 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 32
2285844 TTAGTAAACC
* *
2285854 TAAATTAATAACATATTTTTATATATTTCC-T
1 TAAATTAATAACATATTTTTAGATATTACCAT
* * *
2285885 TAAATTAAT-A-ATATATTTAGCTGTTACCAT
1 TAAATTAATAACATATTTTTAGATATTACCAT
2285915 TAAATTAATAACATATTT
1 TAAATTAATAACATATTT
2285933 AAAAAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 13 0.33
30 11 0.28
31 10 0.26
32 5 0.13
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.47
Consensus pattern (32 bp):
TAAATTAATAACATATTTTTAGATATTACCAT
Found at i:2289975 original size:25 final size:26
Alignment explanation
Indices: 2289934--2289995 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
2289924 TTTAAAATAC
* *
2289934 TTTTAAAATAATTTTTTTATTTTTTAT
1 TTTTAAAATAA-TTTTTTAATGTTTAT
2289961 TTTTAAAATAA-TTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTAATGTTTAT
*
2289986 TTTAAAAATA
1 TTTTAAAATA
2289996 GGCCAAGTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 21 0.66
27 11 0.34
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTAAAATAATTTTTTAATGTTTAT
Found at i:2289978 original size:39 final size:39
Alignment explanation
Indices: 2289900--2289975 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 39
2289890 CGAATATAAT
2289900 AAATATATATTTTTATTTTTTATTTTTAAAATACTTTTA
1 AAATATATATTTTTATTTTTTATTTTTAAAATACTTTTA
* *
2289939 AAATA-ATTTTTTTATTTTTTATTTTTAAAATAATTTT
1 AAATATATATTTTTATTTTTTATTTTTAAAATACTTTT
2289976 TAATGTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 30 0.86
39 5 0.14
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (39 bp):
AAATATATATTTTTATTTTTTATTTTTAAAATACTTTTA
Found at i:2294781 original size:23 final size:23
Alignment explanation
Indices: 2294728--2294782 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
2294718 TAATTTGATC
*
2294728 ATTTTAGCCCCTATACTTTTTGA
1 ATTTTAGTCCCTATACTTTTTGA
*
2294751 ATTTTAGTCCCTGTA-TTTTTCGA
1 ATTTTAGTCCCTATACTTTTT-GA
2294774 ATTTTAGTC
1 ATTTTAGTC
2294783 ATGACCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (23 bp):
ATTTTAGTCCCTATACTTTTTGA
Found at i:2299604 original size:38 final size:38
Alignment explanation
Indices: 2299562--2299681 Score: 150
Period size: 38 Copynumber: 3.0 Consensus size: 38
2299552 AAGAGAAGAC
*
2299562 TATTCTAAAAGAAAGTTTATGCGGAATTTACAAGATCG
1 TATTCTAAAAGAAAGTTAATGCGGAATTTACAAGATCG
*
2299600 TATTCTAAAAGAAAGATAATGCGGAATGCGGATTTTACAAGATCG
1 TATTCTAAAAGAAAG-T--T----AATGCGGAATTTACAAGATCG
*
2299645 TATTCTAAAAGAAAGATAATGCGGAATTTACAAGATC
1 TATTCTAAAAGAAAGTTAATGCGGAATTTACAAGATC
2299682 CTATACAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
38 34 0.48
39 1 0.01
41 1 0.01
42 1 0.01
45 34 0.48
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (38 bp):
TATTCTAAAAGAAAGTTAATGCGGAATTTACAAGATCG
Found at i:2299630 original size:45 final size:45
Alignment explanation
Indices: 2299580--2299671 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
2299570 AAGAAAGTTT
2299580 ATGCGGAATTTACAAGATCGTATTCTAAAAGAAAGATAATGCGGA
1 ATGCGGAATTTACAAGATCGTATTCTAAAAGAAAGATAATGCGGA
*
2299625 ATGCGGATTTTACAAGATCGTATTCTAAAAGAAAGATAATGCGGA
1 ATGCGGAATTTACAAGATCGTATTCTAAAAGAAAGATAATGCGGA
2299670 AT
1 AT
2299672 TTACAAGATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (45 bp):
ATGCGGAATTTACAAGATCGTATTCTAAAAGAAAGATAATGCGGA
Found at i:2304280 original size:31 final size:31
Alignment explanation
Indices: 2304240--2304307 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
2304230 TAATAGTCTG
* * *
2304240 ATGATTTAAAT-AACAACTTTTGAATAGTTCA
1 ATGACTTAAATGAA-AACATTTAAATAGTTCA
2304271 ATGACTTAAATGAAAACATTTAAATAGTTCA
1 ATGACTTAAATGAAAACATTTAAATAGTTCA
2304302 ATGACT
1 ATGACT
2304308 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (31 bp):
ATGACTTAAATGAAAACATTTAAATAGTTCA
Found at i:2310404 original size:31 final size:32
Alignment explanation
Indices: 2310333--2310404 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
2310323 TTAAAAAAAT
* * *
2310333 AATTCAACT-TTTTTATAAAGGTTGATGGTGA
1 AATTCAACTATTTTTATAAAAGTTGAGGGTCA
*
2310364 GATTCAACTATTTTTA-AAAAGTTGAGGGTCA
1 AATTCAACTATTTTTATAAAAGTTGAGGGTCA
*
2310395 AATTTAACTA
1 AATTCAACTA
2310405 AAATAAAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (32 bp):
AATTCAACTATTTTTATAAAAGTTGAGGGTCA
Found at i:2313863 original size:15 final size:15
Alignment explanation
Indices: 2313843--2313880 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2313833 GGTAGCAATA
2313843 CAAATAACAACCCT-C
1 CAAATAA-AACCCTAC
*
2313858 CAAATAAAATCCTAC
1 CAAATAAAACCCTAC
2313873 CAAATAAA
1 CAAATAAA
2313881 CTTTCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (15 bp):
CAAATAAAACCCTAC
Found at i:2314165 original size:19 final size:20
Alignment explanation
Indices: 2314128--2314167 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2314118 AAATAACAAT
* *
2314128 ATAAATATATAATATATAAA
1 ATAAATATATAAGAGATAAA
2314148 ATAAA-ATATAAGAGATAAA
1 ATAAATATATAAGAGATAAA
2314167 A
1 A
2314168 GGTAGCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
ATAAATATATAAGAGATAAA
Found at i:2315723 original size:28 final size:28
Alignment explanation
Indices: 2315690--2315762 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
2315680 AAGCCCATTC
* *
2315690 ATATTATTTTTATTTTTAAAAAATATTT
1 ATATTATTTTTATATTTAAAAAATATAT
* * * *
2315718 ATATTATATTCATATTTAATAATTATAT
1 ATATTATTTTTATATTTAAAAAATATAT
*
2315746 ATATTATTTTTAAATTT
1 ATATTATTTTTATATTT
2315763 TTTTATATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATTATTTTTATATTTAAAAAATATAT
Found at i:2321245 original size:17 final size:17
Alignment explanation
Indices: 2321223--2321256 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2321213 AAAAAGTATT
2321223 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
2321240 TTAAAATTTTTTTAAAA
1 TTAAAAATATTTTAAAA
2321257 AATATATTTA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:2323331 original size:26 final size:26
Alignment explanation
Indices: 2323293--2323367 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
2323283 GGACGACGAG
* *
2323293 GTAAGTTCACAGGCCCAGCTCGTGAT
1 GTAAGTTCGCAGGCCCAGCTCGCGAT
* *
2323319 GTAAGTTCGCAGGCCTAGCTAGCGAT
1 GTAAGTTCGCAGGCCCAGCTCGCGAT
**
2323345 GTAAGCTT-GCAGATCCAGCTCGC
1 GTAAG-TTCGCAGGCCCAGCTCGC
2323368 CACAGTCTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 38 0.95
27 2 0.05
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.23
Consensus pattern (26 bp):
GTAAGTTCGCAGGCCCAGCTCGCGAT
Found at i:2325405 original size:51 final size:51
Alignment explanation
Indices: 2325304--2325410 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
2325294 TCAAAGTTTG
* * *
2325304 CACATTATGTCAATTTGATATTGATTTAACAAATTTAGCTCGTAATATTTA
1 CACATTATGTCAATTTGATATTAATTTAACAAATTTAGCTCGCAACATTTA
* * *
2325355 CACATTTTGTCAATTTGGTCA-TAATTTAATAAATTTAGCAT-GCAACATTTA
1 CACATTATGTCAATTTGAT-ATTAATTTAACAAATTTAGC-TCGCAACATTTA
*
2325406 TACAT
1 CACAT
2325411 AATATATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
51 45 0.96
52 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (51 bp):
CACATTATGTCAATTTGATATTAATTTAACAAATTTAGCTCGCAACATTTA
Found at i:2327664 original size:21 final size:21
Alignment explanation
Indices: 2327640--2327680 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2327630 CTTTTTGTTC
*
2327640 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
2327661 AATTTCTTAACGAAACTTTA
1 AATTAATTAACGAAACTTTA
2327681 TTACTAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:2328319 original size:13 final size:13
Alignment explanation
Indices: 2328303--2328330 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2328293 ATGTTTGAAT
2328303 TAAATGTTGTGTA
1 TAAATGTTGTGTA
2328316 TAAATGTTGTGTA
1 TAAATGTTGTGTA
2328329 TA
1 TA
2328331 TGTGAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (13 bp):
TAAATGTTGTGTA
Found at i:2328362 original size:26 final size:26
Alignment explanation
Indices: 2328312--2328362 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2328302 TTAAATGTTG
* * * *
2328312 TGTATAAATGTTGTGTATATGTGAAT
1 TGTATAAATGTTATGAAAATATGAAT
2328338 TGTATAAATGTTATGAAAATATGAA
1 TGTATAAATGTTATGAAAATATGAA
2328363 ATTGATTACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (26 bp):
TGTATAAATGTTATGAAAATATGAAT
Found at i:2328654 original size:64 final size:64
Alignment explanation
Indices: 2328548--2328667 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
2328538 CGAGCATCTC
* * * * * *
2328548 GATCGGTATTAATCTTGCATATGTTGCGGACATACCGTAGCTCTTTGTGAGCGTCCTGTTATAT
1 GATCGGTATTAATCCTACATATATTGCAGACATACCGCAGCTCTTTATGAGCGTCCTGTTATAT
* *
2328612 GATCGGTATTGATCCTACATATATTGCAGACATACTGCAGCTCTTTATGAGCGTCC
1 GATCGGTATTAATCCTACATATATTGCAGACATACCGCAGCTCTTTATGAGCGTCC
2328668 CGATATAAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (64 bp):
GATCGGTATTAATCCTACATATATTGCAGACATACCGCAGCTCTTTATGAGCGTCCTGTTATAT
Found at i:2339235 original size:30 final size:30
Alignment explanation
Indices: 2339201--2339264 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
2339191 CTAACTTTCA
* * *
2339201 AAAATTGGAACGAACAGGGACTGTAATGAC
1 AAAATTGAAAAGAACAGGGACTGAAATGAC
* *
2339231 AAAATTTAAAAGAATAGGGACTGAAATGAC
1 AAAATTGAAAAGAACAGGGACTGAAATGAC
2339261 AAAA
1 AAAA
2339265 GACTAAGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.09, G:0.22, T:0.17
Consensus pattern (30 bp):
AAAATTGAAAAGAACAGGGACTGAAATGAC
Found at i:2347200 original size:12 final size:13
Alignment explanation
Indices: 2347183--2347219 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
2347173 GAACCGGACA
2347183 CGAACCGAA-CTC
1 CGAACCGAAGCTC
2347195 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
2347207 CGAACCGTAGCTC
1 CGAACCGAAGCTC
2347220 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:2348009 original size:27 final size:26
Alignment explanation
Indices: 2347959--2348020 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
2347949 AGTGAAAAAT
2347959 AAATTAAAATTATAAAAATATTTAAA
1 AAATTAAAATTATAAAAATATTTAAA
*
2347985 AAATTCAAAATTATAAAAA-AGTTTATA
1 AAATT-AAAATTATAAAAATA-TTTAAA
*
2348012 AAACTAAAA
1 AAATTAAAA
2348021 AAATAAGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (26 bp):
AAATTAAAATTATAAAAATATTTAAA
Found at i:2360692 original size:72 final size:72
Alignment explanation
Indices: 2360575--2360719 Score: 245
Period size: 72 Copynumber: 2.0 Consensus size: 72
2360565 ACTTCCACGA
*
2360575 TGCTAAATTTCATTTAAGTAAAGAACCCCTTTCCATTCAACAAAAATCTCAAGTGCTGGAGAGAT
1 TGCTAAATTTCATTTAAGTAAAGAACCCCTTTCCATTCAACAAAAATCACAAGTGCTGGAGAGAT
2360640 ACAAAGC
66 ACAAAGC
* * *
2360647 TGCTAAATTTCATTTAAGTAAAGAATCCCTTTCCATTCAATAAAAATCACAAGTGCTGGAGGGAT
1 TGCTAAATTTCATTTAAGTAAAGAACCCCTTTCCATTCAACAAAAATCACAAGTGCTGGAGAGAT
*
2360712 ACAGAGC
66 ACAAAGC
2360719 T
1 T
2360720 TGCTTGACAC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (72 bp):
TGCTAAATTTCATTTAAGTAAAGAACCCCTTTCCATTCAACAAAAATCACAAGTGCTGGAGAGAT
ACAAAGC
Found at i:2360950 original size:5 final size:6
Alignment explanation
Indices: 2360934--2360958 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2360924 GAGAACAAAT
2360934 GAAAAA GAAAAA GAAAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA G
2360959 GGCATTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:2365290 original size:20 final size:20
Alignment explanation
Indices: 2365261--2365308 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2365251 TAAAATTTAT
* *
2365261 ATTTTTAAAAAATTTATAA-A
1 ATTTTAAAAAAATATA-AAGA
2365281 ATTTTAAAAAAATATAAAGA
1 ATTTTAAAAAAATATAAAGA
2365301 ATTTTAAA
1 ATTTTAAA
2365309 GACTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
ATTTTAAAAAAATATAAAGA
Found at i:2366077 original size:3 final size:3
Alignment explanation
Indices: 2366069--2366097 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2366059 GGCGGCCGAG
2366069 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
2366098 ACAACAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:2371215 original size:5 final size:5
Alignment explanation
Indices: 2371200--2371229 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
2371190 TATGTACGAT
*
2371200 ATTAA AATAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
2371230 GTAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATTAA
Found at i:2372647 original size:22 final size:22
Alignment explanation
Indices: 2372607--2372662 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
2372597 TAAAAAAATA
*
2372607 TAAATTTAAA-AGTTTTAT-AT
1 TAAATTTAAATAATTTTATAAT
*
2372627 TCAAATTTATATAATTTTATAAT
1 T-AAATTTAAATAATTTTATAAT
2372650 TAAATTTAAATAA
1 TAAATTTAAATAA
2372663 AATAATCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 8 0.27
22 18 0.60
23 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TAAATTTAAATAATTTTATAAT
Found at i:2386645 original size:31 final size:31
Alignment explanation
Indices: 2386562--2386660 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
2386552 AAGAGTCTTC
* *
2386562 AAAAATATTGAAGGGTCTAATTAAAAATTTT
1 AAAAATTTTGAAGGGACTAATTAAAAATTTT
* * * **
2386593 AAAACTTTT-ACA-TGACTTAATTAGACTTTTT
1 AAAAATTTTGA-AGGGAC-TAATTAAAAATTTT
*
2386624 AAAAATTTTGAAGGGACTAATT-CAAATTTT
1 AAAAATTTTGAAGGGACTAATTAAAAATTTT
*
2386654 CAAAATT
1 AAAAATT
2386661 ATGCATAATA
Statistics
Matches: 51, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
30 14 0.27
31 33 0.65
32 4 0.08
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (31 bp):
AAAAATTTTGAAGGGACTAATTAAAAATTTT
Found at i:2390689 original size:24 final size:25
Alignment explanation
Indices: 2390653--2390699 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2390643 TCACAATATA
**
2390653 AAAAATTTTAATAA-ATAAAAAATT
1 AAAAATTAAAATAATATAAAAAATT
2390677 AAAAATTAAAATAATATAAAAAA
1 AAAAATTAAAATAATATAAAAAA
2390700 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAAATTAAAATAATATAAAAAATT
Found at i:2403857 original size:14 final size:15
Alignment explanation
Indices: 2403838--2403871 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2403828 TATGTAAATT
2403838 AATTTTTTA-TAATA
1 AATTTTTTAGTAATA
*
2403852 AATTTTTTAGTCATA
1 AATTTTTTAGTAATA
2403867 AATTT
1 AATTT
2403872 AGAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (15 bp):
AATTTTTTAGTAATA
Found at i:2404226 original size:20 final size:21
Alignment explanation
Indices: 2404201--2404246 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2404191 TTTTACTCTG
*
2404201 AACCCCGGA-CCAGAACCTTA
1 AACCCCGAACCCAGAACCTTA
**
2404221 AACCCCGAACCCAGATTCTTA
1 AACCCCGAACCCAGAACCTTA
2404242 AACCC
1 AACCC
2404247 TAAATAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.35, C:0.41, G:0.11, T:0.13
Consensus pattern (21 bp):
AACCCCGAACCCAGAACCTTA
Found at i:2407363 original size:154 final size:153
Alignment explanation
Indices: 2407195--2407664 Score: 685
Period size: 154 Copynumber: 3.0 Consensus size: 153
2407185 ATATGTTTGA
* * * *
2407195 TGTGTGAATTACATTTGTTTTTATTAAGCTTCTTGTAAACGAGTCTTGATTTTTTATAATTCAGT
1 TGTGAGAATTACATTTATTTTTATTAAGCTTCTTATAAACGAGTCTTGTTTTTTTATAATTCAGT
*
2407260 TTACGATTCGTTTTTTCTCTTCGGTGATTTGGTAGATTGGCTGGTTTTTGGAATGTGAATTTAGA
66 TTACGATTCGTTTTTTCTCTT-GGTGATTTGGTAGATTGGCTGGTTTTTGGAATGTGAATTTAGT
2407325 GTTTTGTGTTGATTTTCAGTGAGT
130 GTTTTGTGTTGATTTTCAGTGAGT
* *
2407349 TGTGAGAATTACATTTATTTTGATTAAGCTTCTTATAAACGAGGCTTGTTTTTTTATAATTCAGT
1 TGTGAGAATTACATTTATTTTTATTAAGCTTCTTATAAACGAGTCTTGTTTTTTTATAATTCAGT
*
2407414 TTACGATTCGTTTTTTCGCTTTGGTGATTTGGTAGATTGGCTGGTTTTTGGAATGTGAATTTAGT
66 TTACGATTCGTTTTTTCTC-TTGGTGATTTGGTAGATTGGCTGGTTTTTGGAATGTGAATTTAGT
2407479 GTTTTGTGTTGATTTTCAGTGAGT
130 GTTTTGTGTTGATTTTCAGTGAGT
* *
2407503 TGTGAGAATTAAATTTATTTTTTTTAAGCTTCTTATAAACGAGTCTTGTTTTTTTATAATTCAGT
1 TGTGAGAATTACATTTATTTTTATTAAGCTTCTTATAAACGAGTCTTGTTTTTTTATAATTCAGT
* * * * ** * *
2407568 TTAGGATTCAATTTTTTGCT-TTGGTTTG-TTTGGTCGATTGGCTGTTTTTTTAAACGTGAATTG
66 TTACGATTC-GTTTTTT-CTCTTGG--TGATTTGGTAGATTGGCTGGTTTTTGGAATGTGAATTT
*
2407631 AGTGTTTCGTGTTG-TTGTTCAGTGAGT
127 AGTGTTTTGTGTTGATT-TTCAGTGAGT
2407658 TGTGAGA
1 TGTGAGA
2407665 TTGAGTCAAA
Statistics
Matches: 288, Mismatches: 22, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
154 218 0.76
155 67 0.23
156 3 0.01
ACGTcount: A:0.20, C:0.08, G:0.22, T:0.50
Consensus pattern (153 bp):
TGTGAGAATTACATTTATTTTTATTAAGCTTCTTATAAACGAGTCTTGTTTTTTTATAATTCAGT
TTACGATTCGTTTTTTCTCTTGGTGATTTGGTAGATTGGCTGGTTTTTGGAATGTGAATTTAGTG
TTTTGTGTTGATTTTCAGTGAGT
Found at i:2427641 original size:22 final size:23
Alignment explanation
Indices: 2427605--2427663 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 23
2427595 CGTTCGGTGT
*
2427605 TTTAAAATTTA-AGTTTTAAAG-
1 TTTAAAGTTTAGAGTTTTAAAGA
* *
2427626 TTTAAGGTTTAGAG-TTTCAAGA
1 TTTAAAGTTTAGAGTTTTAAAGA
2427648 TTTAAAGTTTAGAGTT
1 TTTAAAGTTTAGAGTT
2427664 CGGATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 15 0.48
22 15 0.48
23 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.46
Consensus pattern (23 bp):
TTTAAAGTTTAGAGTTTTAAAGA
Found at i:2427651 original size:15 final size:14
Alignment explanation
Indices: 2427605--2427658 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
2427595 CGTTCGGTGT
* *
2427605 TTTAAAATTTAAGT
1 TTTAAAGTTTAAGA
*
2427619 TTTAAAGTTTAAGG
1 TTTAAAGTTTAAGA
*
2427633 TTTAGAGTTTCAAGA
1 TTTAAAGTTT-AAGA
2427648 TTTAAAGTTTA
1 TTTAAAGTTTA
2427659 GAGTTCGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (14 bp):
TTTAAAGTTTAAGA
Found at i:2438951 original size:32 final size:32
Alignment explanation
Indices: 2438894--2438963 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
2438884 TGTTAGTCTC
* *
2438894 TATA-TTTTGATAGAATTTGAGATTTAATCCT
1 TATACTTTTGATAGAATATGAAATTTAATCCT
* *
2438925 TATACTTTTTATAGAATATGAAATTTAGTCCT
1 TATACTTTTGATAGAATATGAAATTTAATCCT
*
2438957 TGTACTT
1 TATACTT
2438964 GAAAGGTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (32 bp):
TATACTTTTGATAGAATATGAAATTTAATCCT
Found at i:2450084 original size:75 final size:75
Alignment explanation
Indices: 2449974--2450148 Score: 314
Period size: 75 Copynumber: 2.3 Consensus size: 75
2449964 CATTGTTGTA
* * *
2449974 CTCATTGTTACCATTGTAATAGTTGTTGTTGTTCTGGTTTTCCTTAGTACTCCATCCTTTCTCAG
1 CTCATTGTTACCATTGTAATAGTTGTTGCTATTCTGGTTTTCCTTAGTACTCCACCCTTTCTCAG
*
2450039 TGAACATGGC
66 TGAACAAGGC
2450049 CTCATTGTTACCATTGTAATAGTTGTTGCTATTCTGGTTTTCCTTAGTACTCCACCCTTTCTCAG
1 CTCATTGTTACCATTGTAATAGTTGTTGCTATTCTGGTTTTCCTTAGTACTCCACCCTTTCTCAG
2450114 TGAACAAGGC
66 TGAACAAGGC
2450124 CTCATTGTTACCATTGTAATAGTTG
1 CTCATTGTTACCATTGTAATAGTTG
2450149 CCATTGTAGT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 96 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (75 bp):
CTCATTGTTACCATTGTAATAGTTGTTGCTATTCTGGTTTTCCTTAGTACTCCACCCTTTCTCAG
TGAACAAGGC
Found at i:2454550 original size:13 final size:13
Alignment explanation
Indices: 2454532--2454556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2454522 AATGGATCGT
2454532 TTTAAATTATTTA
1 TTTAAATTATTTA
2454545 TTTAAATTATTT
1 TTTAAATTATTT
2454557 TAAGCTCAAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAATTATTTA
Found at i:2454634 original size:15 final size:16
Alignment explanation
Indices: 2454601--2454650 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
2454591 ATTTTAAATT
2454601 TTTTGAATTAATTTAA
1 TTTTGAATTAATTTAA
* *
2454617 TTTTGAATTATTTTAT
1 TTTTGAATTAATTTAA
* * *
2454633 TTTTAAAATAAATTAA
1 TTTTGAATTAATTTAA
2454649 TT
1 TT
2454651 CGAATTCAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
TTTTGAATTAATTTAA
Found at i:2461077 original size:32 final size:33
Alignment explanation
Indices: 2461027--2461095 Score: 131
Period size: 32 Copynumber: 2.1 Consensus size: 33
2461017 AAGAGTTAAC
2461027 AAAAGTAGTTTTTTTTTAAATCTCGTCTAATAA
1 AAAAGTAGTTTTTTTTTAAATCTCGTCTAATAA
2461060 AAAAGTAG-TTTTTTTTAAATCTCGTCTAATAA
1 AAAAGTAGTTTTTTTTTAAATCTCGTCTAATAA
2461092 AAAA
1 AAAA
2461096 TATAAAAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 28 0.78
33 8 0.22
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (33 bp):
AAAAGTAGTTTTTTTTTAAATCTCGTCTAATAA
Found at i:2461784 original size:8 final size:8
Alignment explanation
Indices: 2461767--2461829 Score: 74
Period size: 8 Copynumber: 7.8 Consensus size: 8
2461757 TTTTTTTAAG
2461767 TATATTAT
1 TATATTAT
*
2461775 TATTTTAT
1 TATATTAT
*
2461783 TATATT-G
1 TATATTAT
*
2461790 TAAATTATAT
1 TATA-T-TAT
2461800 TATATTAT
1 TATATTAT
2461808 TATATTAT
1 TATATTAT
2461816 TATATTAT
1 TATATTAT
2461824 TATATT
1 TATATT
2461830 TTAAATAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
7 3 0.07
8 38 0.83
9 2 0.04
10 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:2462883 original size:19 final size:19
Alignment explanation
Indices: 2462859--2462933 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
2462849 TTATGTGTGA
2462859 ATATGTGAATTGTGAATTG
1 ATATGTGAATTGTGAATTG
*
2462878 ATATGTGAATTG-GAAATCG
1 ATATGTGAATTGTG-AATTG
* *
2462897 AGATATGAGATT-TGAA--G
1 ATATGTGA-ATTGTGAATTG
2462914 ATATGTGAATATGTGAATTG
1 ATATGTGAAT-TGTGAATTG
2462934 TGTATTGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.05
17 8 0.18
18 5 0.11
19 24 0.55
20 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.27, T:0.36
Consensus pattern (19 bp):
ATATGTGAATTGTGAATTG
Found at i:2463229 original size:41 final size:37
Alignment explanation
Indices: 2463181--2463280 Score: 92
Period size: 41 Copynumber: 2.6 Consensus size: 37
2463171 TCGACCTTGA
2463181 GTCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-AC--TTACTTCGGATAG
* ** ** * *
2463221 ATTCGATGAGGTACTGGGTACCAACTTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
*
2463259 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
2463281 CTTTATTACT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 16 0.35
38 11 0.24
40 2 0.04
41 17 0.37
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (37 bp):
GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
Found at i:2465742 original size:54 final size:56
Alignment explanation
Indices: 2465667--2465794 Score: 190
Period size: 54 Copynumber: 2.3 Consensus size: 56
2465657 TATTATTTAC
*
2465667 TTATTTATTTATTATTCCAATTTCAGCCTTTCATG-AT-TTTTT-TTATTTACTCAT
1 TTATTTATTTATTATTTCAATTTCAGCCTTTCATGAATCTTTTTATT-TTTACTCAT
*
2465721 TTATTTATTTATTATTTCAATTTTAGCCTTTCATGAATCTTTTTATTTTTACTCAT
1 TTATTTATTTATTATTTCAATTTCAGCCTTTCATGAATCTTTTTATTTTTACTCAT
*
2465777 TTACTTATTTATTTATTT
1 TTATTTATTTA-TTATTT
2465795 ATTATTGCCC
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
54 33 0.49
55 2 0.03
56 24 0.36
57 8 0.12
ACGTcount: A:0.23, C:0.12, G:0.03, T:0.62
Consensus pattern (56 bp):
TTATTTATTTATTATTTCAATTTCAGCCTTTCATGAATCTTTTTATTTTTACTCAT
Found at i:2465985 original size:19 final size:19
Alignment explanation
Indices: 2465961--2466027 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
2465951 AATTTTTATT
2465961 TTTATTTTAAGTTAACTTA
1 TTTATTTTAAGTTAACTTA
**
2465980 TTTATTTT-A-TTATTTTTA
1 TTTATTTTAAGTTA-ACTTA
2465998 TTTTTATTTTAAGTTAACTTA
1 --TTTATTTTAAGTTAACTTA
*
2466019 TCTATTTTA
1 TTTATTTTA
2466028 TTATTATGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.08
18 4 0.11
19 16 0.42
20 8 0.21
21 4 0.11
22 3 0.08
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTATTTTAAGTTAACTTA
Found at i:2465995 original size:39 final size:39
Alignment explanation
Indices: 2465952--2466032 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
2465942 ACATCTTCTA
*
2465952 ATTTTTATTTTTATTTTAAGTTAACTTATTTATTTTATT
1 ATTTTTATTTTTATTTTAAGTTAACTTATCTATTTTATT
2465991 ATTTTTATTTTTATTTTAAGTTAACTTATCTATTTTATT
1 ATTTTTATTTTTATTTTAAGTTAACTTATCTATTTTATT
2466030 ATT
1 ATT
2466033 ATGATTACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (39 bp):
ATTTTTATTTTTATTTTAAGTTAACTTATCTATTTTATT
Found at i:2467960 original size:27 final size:25
Alignment explanation
Indices: 2467909--2467966 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
2467899 ATAGTTGAAC
*
2467909 TTATTTTTTTTAATTTTGTAATATG
1 TTATTTTTTTTAATTTTATAATATG
* *
2467934 TTATTTTTATTTTATTTATATATTATG
1 TTATTTTT-TTTAATTT-TATAATATG
*
2467961 TAATTT
1 TTATTT
2467967 ATTTCATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.30
26 7 0.26
27 12 0.44
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (25 bp):
TTATTTTTTTTAATTTTATAATATG
Found at i:2469766 original size:12 final size:12
Alignment explanation
Indices: 2469749--2469773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2469739 TATCTGTCAG
2469749 AAAAAAAAAGAA
1 AAAAAAAAAGAA
2469761 AAAAAAAAAGAA
1 AAAAAAAAAGAA
2469773 A
1 A
2469774 TAGTAAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:2473212 original size:12 final size:12
Alignment explanation
Indices: 2473195--2473223 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2473185 TATAAAAACT
2473195 TTTTAAAATTTA
1 TTTTAAAATTTA
2473207 TTTT-AAATTTA
1 TTTTAAAATTTA
2473218 TTTTAA
1 TTTTAA
2473224 TGTTTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTAAAATTTA
Found at i:2474260 original size:17 final size:16
Alignment explanation
Indices: 2474227--2474257 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2474217 TAAAGTTATT
2474227 TTATAAAAAAACTAAA
1 TTATAAAAAAACTAAA
2474243 TTATAAAAAAA-TAAA
1 TTATAAAAAAACTAAA
2474258 AATAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
TTATAAAAAAACTAAA
Found at i:2477565 original size:24 final size:24
Alignment explanation
Indices: 2477533--2477581 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2477523 TATTACAGCC
2477533 CGACCACGATCACCTCTAAATTCA
1 CGACCACGATCACCTCTAAATTCA
*
2477557 CGACCACGATTACCTCTAAATTCA
1 CGACCACGATCACCTCTAAATTCA
2477581 C
1 C
2477582 ATAATTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.37, G:0.08, T:0.22
Consensus pattern (24 bp):
CGACCACGATCACCTCTAAATTCA
Found at i:2480182 original size:18 final size:19
Alignment explanation
Indices: 2480154--2480194 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
2480144 ATTGTTTGGA
2480154 TATTGTATAATTTT-TGTTT
1 TATTGTATAATTTTAT-TTT
2480173 TATTGT-TAATTTTATTTT
1 TATTGTATAATTTTATTTT
2480191 TATT
1 TATT
2480195 TTAGAGGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (19 bp):
TATTGTATAATTTTATTTT
Found at i:2484557 original size:19 final size:20
Alignment explanation
Indices: 2484526--2484575 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2484516 TTAAATATAA
2484526 ATTTTGAAATTTTT-ATAAA-T
1 ATTTTG-AATTTTTGA-AAATT
2484546 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
2484566 ATTTTGAATT
1 ATTTTGAATT
2484576 ATTTTTAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:2485076 original size:30 final size:32
Alignment explanation
Indices: 2485040--2485110 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
2485030 GGTTTCATTT
2485040 CAGTCACTCAAC-TT-TGGAAAAATAACAAAA
1 CAGTCACTCAACGTTATGGAAAAATAACAAAA
* * * *
2485070 CAGTCACT-AACGTTATTGAAAAGTGACAAAT
1 CAGTCACTCAACGTTATGGAAAAATAACAAAA
2485101 CAGTCACTCA
1 CAGTCACTCA
2485111 TTAACATTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 10 0.29
31 20 0.59
32 1 0.03
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (32 bp):
CAGTCACTCAACGTTATGGAAAAATAACAAAA
Found at i:2485165 original size:21 final size:21
Alignment explanation
Indices: 2485139--2485179 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2485129 CTTAACGGGA
2485139 TAGCTGACGTGGCCAATTAAC
1 TAGCTGACGTGGCCAATTAAC
* *
2485160 TAGCTGATGTGGCCAGTTAA
1 TAGCTGACGTGGCCAATTAA
2485180 TTTGCCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (21 bp):
TAGCTGACGTGGCCAATTAAC
Found at i:2485958 original size:98 final size:98
Alignment explanation
Indices: 2485784--2485980 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
2485774 GTACAATAAA
*
2485784 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
2485849 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
*
2485882 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACATCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
2485947 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
2485980 A
1 A
2485981 TTATTTTTAA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:2487299 original size:22 final size:21
Alignment explanation
Indices: 2487264--2487397 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
2487254 AAAGGGTATC
* *
2487264 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
2487285 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
2487308 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
2487327 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
2487346 TGCATATCACA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
2487365 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
2487384 TGCATATCATATCT
1 TACAAATCATATCT
2487398 AAGATTGCAT
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
17 1 0.01
19 59 0.64
21 7 0.08
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:2487307 original size:23 final size:22
Alignment explanation
Indices: 2487264--2487321 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
2487254 AAAGGGTATC
* *
2487264 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
2487285 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
2487308 TGCATATCATATCT
1 TACAAATCATATCT
2487322 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:2487324 original size:19 final size:19
Alignment explanation
Indices: 2487300--2487410 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
2487290 AATCATATCT
2487300 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
2487319 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
2487338 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
** *
2487357 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
2487376 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
2487395 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
2487411 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:2487347 original size:38 final size:38
Alignment explanation
Indices: 2487300--2487403 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
2487290 AATCATATCT
2487300 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
* *
2487338 TCTAAGATTGCATATCACATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
2487376 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
2487404 GCATATCCCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:2487961 original size:132 final size:132
Alignment explanation
Indices: 2487739--2487978 Score: 385
Period size: 132 Copynumber: 1.8 Consensus size: 132
2487729 TAGGACTTAC
*
2487739 AATCTTCAACCTATTCCACTGCTAACCAGGGAGATATGATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAACCTATTCCACTGCTAACCAGGGAGATATGATTACTGGCTTCAATGTACTCCACTAT
*
2487804 AACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
2487869 GA
131 GA
* * **
2487871 AATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGTA-GAATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAACCTATTCCACTGCTAACCAGGGAGA-TATG-ATTACTGGCTTCAATGTACTCCACT
*
2487934 ATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
64 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
2487979 GTCAATGCAG
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
131 2 0.02
132 97 0.98
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (132 bp):
AATCTTCAACCTATTCCACTGCTAACCAGGGAGATATGATTACTGGCTTCAATGTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:2493517 original size:98 final size:98
Alignment explanation
Indices: 2493343--2493539 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
2493333 GTACAATAAA
*
2493343 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
2493408 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
*
2493441 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACATCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
2493506 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
2493539 A
1 A
2493540 TTATTTTTAA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:2494849 original size:22 final size:21
Alignment explanation
Indices: 2494814--2494947 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
2494804 AAAGGGTATC
* *
2494814 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
2494835 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
2494858 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
2494877 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
2494896 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
2494915 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
2494934 TGCATATCATATCT
1 TACAAATCATATCT
2494948 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:2494857 original size:23 final size:22
Alignment explanation
Indices: 2494814--2494871 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
2494804 AAAGGGTATC
* *
2494814 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
2494835 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
2494858 TGCATATCATATCT
1 TACAAATCATATCT
2494872 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:2494874 original size:19 final size:19
Alignment explanation
Indices: 2494850--2494960 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
2494840 AATCATATCT
2494850 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
2494869 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
2494888 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
2494907 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
2494926 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
2494945 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
2494961 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:2494897 original size:38 final size:38
Alignment explanation
Indices: 2494850--2494953 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
2494840 AATCATATCT
2494850 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
2494888 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
2494926 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
2494954 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Done.