Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 163 of 199
Found at i:48059032 original size:43 final size:43
Alignment explanation
Indices: 48058985--48059162 Score: 252
Period size: 43 Copynumber: 4.2 Consensus size: 43
48058975 TGTTTTTAGG
*
48058985 GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGTTCTATAGC
1 GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAGC
* ***
48059028 GGCGTTTTTCCTAAAAGCGCCGCTAAAGGTCCTGCTCTATAGC
1 GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAGC
*
48059071 GGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCCTGCTCTGTAGC
1 GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAGC
* * *
48059113 GGC-TTTTTCAGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAAC
1 GGCGTTTGT-GGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAGC
48059156 GGCGTTT
1 GGCGTTT
48059163 ATAGAAATAA
Statistics
Matches: 119, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
41 4 0.03
42 34 0.29
43 78 0.66
44 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAGC
Found at i:48059097 original size:85 final size:86
Alignment explanation
Indices: 48058985--48059162 Score: 288
Period size: 85 Copynumber: 2.1 Consensus size: 86
48058975 TGTTTTTAGG
* *
48058985 GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGTTCTATAGCGGCGTTTTTC-CTAAAAGCGCC
1 GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAGCGGC-TTTTTCACAAAAAGCGCC
*
48059049 GCTAAAGGTCCTGCTCTATAGC
65 GCTAAAGGTCCTGCTCTATAAC
* *
48059071 GGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCCTGCTCTGTAGCGGCTTTTTCAGAAAAAGCGCCG
1 GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAGCGGCTTTTTCACAAAAAGCGCCG
48059135 CTAAAGGTCCTGCTCTATAAC
66 CTAAAGGTCCTGCTCTATAAC
48059156 GGCGTTT
1 GGCGTTT
48059163 ATAGAAATAA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
84 6 0.07
85 69 0.80
86 11 0.13
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (86 bp):
GGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGCTCTATAGCGGCTTTTTCACAAAAAGCGCCG
CTAAAGGTCCTGCTCTATAAC
Found at i:48059987 original size:38 final size:39
Alignment explanation
Indices: 48059945--48060018 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 39
48059935 AACTTCCTTT
*
48059945 ATATTAGAAAATTTTAAATTTA-TTATAATTTTTTATAA
1 ATATTAGAAAATTTTAAAATTACTTATAATTTTTTATAA
** * *
48059983 ATATTTTAAAATTTTAAAATTACTTTTATTTTTTTA
1 ATATTAGAAAATTTTAAAATTACTTATAATTTTTTA
48060019 ATTTTTGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 19 0.63
39 11 0.37
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (39 bp):
ATATTAGAAAATTTTAAAATTACTTATAATTTTTTATAA
Found at i:48060704 original size:95 final size:93
Alignment explanation
Indices: 48060556--48060788 Score: 229
Period size: 95 Copynumber: 2.4 Consensus size: 93
48060546 TTAAGGGTGT
* * *
48060556 AAAAAATCGTCAAACTTTTTCAAAAAAAAGCAATTAAGCCCTTCCTC-TCTTTTTTTTGCACTCA
1 AAAAAACCCTCAAA-TTTTTC-AAAAAAAGCAATTAAGCCATTCCTCTTCTTTTTTTTGCACTCA
*
48060620 ATT-GAGGACTTGAACTTTCAAAATGTATAAA
64 ATTGGA-GACTTGAACTTTCAAAATGCAT-AA
* * **
48060651 AAAAAAGCCCTCAAATTTCTTCAAAAAAAGCAATTAAG-TATTCTCTCTTTTTTTTTTTTTACTC
1 AAAAAA-CCCTCAAATTT-TTCAAAAAAAGCAATTAAGCCATTC-CTCTTCTTTTTTTTGCACTC
* *
48060715 AATTGGATACTTGAACTTTCAAAATGCATCA
63 AATTGGAGACTTGAACTTTCAAAATGCATAA
* ***
48060746 AAAAGACCCTCAAAATTTAAAAAAAAAAAGCAATTAAGGCCAT
1 AAAAAACCCTC-AAATTT-TTCAAAAAAAGCAATTAA-GCCAT
48060789 GCTCTTATTA
Statistics
Matches: 114, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
94 8 0.07
95 55 0.48
96 47 0.41
97 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.33
Consensus pattern (93 bp):
AAAAAACCCTCAAATTTTTCAAAAAAAGCAATTAAGCCATTCCTCTTCTTTTTTTTGCACTCAAT
TGGAGACTTGAACTTTCAAAATGCATAA
Found at i:48060867 original size:19 final size:19
Alignment explanation
Indices: 48060816--48060870 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
48060806 GAAAATAAAT
*
48060816 TAAAATAAATAAATTTTAGA
1 TAAAATATA-AAATTTTAGA
* *
48060836 TAAATTATTAAATTTTA-A
1 TAAAATATAAAATTTTAGA
48060854 TAAAAATATAAAATTTT
1 T-AAAATATAAAATTTT
48060871 CAAATTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 2 0.07
19 21 0.72
20 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAATATAAAATTTTAGA
Found at i:48061232 original size:10 final size:10
Alignment explanation
Indices: 48061219--48061298 Score: 71
Period size: 10 Copynumber: 8.5 Consensus size: 10
48061209 CTTTATAAAA
48061219 TTTTATAATT
1 TTTTATAATT
48061229 TTTTAT-A-T
1 TTTTATAATT
* *
48061237 TTCTAT-ATA
1 TTTTATAATT
48061246 TTTTATAATT
1 TTTTATAATT
*
48061256 TTTTATTA-T
1 TTTTATAATT
**
48061265 TTTTATAAAA
1 TTTTATAATT
*
48061275 TTTTACAATT
1 TTTTATAATT
48061285 TTTTAT-ATT
1 TTTTATAATT
48061294 TTTTA
1 TTTTA
48061299 CGATTTTATA
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
8 7 0.12
9 22 0.39
10 27 0.48
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:48061235 original size:20 final size:20
Alignment explanation
Indices: 48061210--48061291 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 20
48061200 TTCTTTCGAC
48061210 TTTATAAAATTTTATAATTT
1 TTTATAAAATTTTATAATTT
*
48061230 TTTAT---ATTTCTAT-ATAT
1 TTTATAAAATTT-TATAATTT
** *
48061247 TTTATAATTTTTTATTA-TT
1 TTTATAAAATTTTATAATTT
*
48061266 TTTATAAAATTTTACAATTT
1 TTTATAAAATTTTATAATTT
48061286 TTTATA
1 TTTATA
48061292 TTTTTTACGA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
17 12 0.24
18 3 0.06
19 17 0.35
20 17 0.35
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATAAAATTTTATAATTT
Found at i:48061297 original size:19 final size:20
Alignment explanation
Indices: 48061246--48061305 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 20
48061236 TTTCTATATA
**
48061246 TTTTATAATTTTTTATTA-T
1 TTTTATAATTTTTTACAATT
**
48061265 TTTTATAAAATTTTACAATT
1 TTTTATAATTTTTTACAATT
*
48061285 TTTTAT-ATTTTTTACGATT
1 TTTTATAATTTTTTACAATT
48061304 TT
1 TT
48061306 ATAAAGTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATAATTTTTTACAATT
Found at i:48061304 original size:27 final size:26
Alignment explanation
Indices: 48061216--48061309 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 26
48061206 CGACTTTATA
*
48061216 AAATTTTATAATTTTTTATATTTCTAT
1 AAATTTTATAATTTTTTATATTT-TTT
*
48061243 ATATTTTATAATTTTTTATTATTTTTAT
1 AAATTTTATAATTTTTTA-TATTTTT-T
*
48061271 AAAATTTTACAATTTTTTATATTTTTT
1 -AAATTTTATAATTTTTTATATTTTTT
*
48061298 ACGATTTTATAA
1 A-AATTTTATAA
48061310 AGTCAAAACG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
26 1 0.02
27 27 0.47
28 13 0.23
29 16 0.28
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (26 bp):
AAATTTTATAATTTTTTATATTTTTT
Found at i:48062818 original size:3 final size:3
Alignment explanation
Indices: 48062810--48062861 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
48062800 ATAAGTAAGT
* *
48062810 ATA ATA ATA TATA AT- ATA ATA ATA ATA A-A CTA ATA ATA AT- ACA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48062853 ATA ATA ATA
1 ATA ATA ATA
48062862 TAAATAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48062836 original size:11 final size:11
Alignment explanation
Indices: 48062810--48062894 Score: 63
Period size: 11 Copynumber: 7.8 Consensus size: 11
48062800 ATAAGTAAGT
48062810 ATAATAATAT-
1 ATAATAATATA
48062820 ATAAT-ATAATA
1 ATAATAAT-ATA
48062831 ATAATAA-ACTA
1 ATAATAATA-TA
*
48062842 ATAATAATACA
1 ATAATAATATA
48062853 ATAATAATATAA
1 ATAATAATAT-A
48062865 ATAA-ACA-ATA
1 ATAATA-ATATA
* *
48062875 TTAACAATATA
1 ATAATAATATA
*
48062886 ATAAAAATA
1 ATAATAATA
48062895 AAAAAACAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
9 2 0.03
10 13 0.21
11 38 0.62
12 8 0.13
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAATAATATA
Found at i:48062843 original size:14 final size:13
Alignment explanation
Indices: 48062810--48062868 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 13
48062800 ATAAGTAAGT
48062810 ATAATAATATATAA
1 ATAATAATA-ATAA
48062824 TATAATAATAATAA
1 -ATAATAATAATAA
48062838 ACTAATAATAATACA
1 A-TAATAATAATA-A
48062853 ATAATAAT-ATAA
1 ATAATAATAATAA
48062865 ATAA
1 ATAA
48062869 ACAATATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.12
13 4 0.10
14 22 0.52
15 11 0.26
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:48064470 original size:100 final size:99
Alignment explanation
Indices: 48064328--48064528 Score: 267
Period size: 100 Copynumber: 2.0 Consensus size: 99
48064318 CTTCTGTCTG
* * *
48064328 TTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTACATCGCC
1 TTTAACTGCAATGTCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCCACTACACCGCC
* *
48064393 AAGGAAGTAAGATTCGCCGTTGTGGCTTCAATATT
66 AAGAAAGTAAGATT-GCCGTGGTGGCTTCAATATT
* * * * * *
48064428 TTTAATTGTAATGTCAGGGAAACCAGATCCGCCTTCGTGGCTTCAATTTGTTCCACTACACCGCC
1 TTTAACTGCAATGTCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCCACTACACCGCC
** *
48064493 AAGAAAGTAAGATTGTTGTGGTGGCTTCAATCTT
66 AAGAAAGTAAGATTGCCGTGGTGGCTTCAATATT
48064527 TT
1 TT
48064529 CCACTGTAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
99 18 0.21
100 69 0.79
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (99 bp):
TTTAACTGCAATGTCAGGGAAACAAGATCCGCCGTCGTGGCTTCAATCTATTCCACTACACCGCC
AAGAAAGTAAGATTGCCGTGGTGGCTTCAATATT
Found at i:48064811 original size:44 final size:44
Alignment explanation
Indices: 48064763--48064901 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 44
48064753 CTGCTCAGAG
48064763 AGACAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGA
1 AGACAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGA
** * * * * * * * ** *
48064807 AGACAATATCTGCTATTTTCAACCTACTCCACTACCGCT-CAGGG
1 AGACAA-GGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGA
*
48064851 AGACAAGGCTGAG-ATCTTCGATCTACTTTGCTGCCAATACAGGA
1 AGACAAGGCTG-GTATCTTCGATCTACTTCGCTGCCAATACAGGA
48064895 AGACAAG
1 AGACAAG
48064902 ATCTACTATT
Statistics
Matches: 67, Mismatches: 25, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
43 19 0.28
44 27 0.40
45 21 0.31
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (44 bp):
AGACAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGA
Found at i:48064950 original size:88 final size:89
Alignment explanation
Indices: 48064689--48064950 Score: 359
Period size: 88 Copynumber: 3.0 Consensus size: 89
48064679 AAAACTGGTG
* * * * * * *
48064689 TCTTTGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATATTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
48064754 TGCTC-AGAGAGACAAGGCTG-GTA
66 TGCTCAAG-GAGACAAGGCTGAGTA
*
48064777 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAATATCTGCTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
* *
48064842 CGCTCAGGGAGACAAGGCTGAG-A
66 TGCTCAAGGAGACAAGGCTGAGTA
* * * *
48064865 TCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACTATTTTCAACCTATTCTACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
48064930 TACTCAAGGAGACAAGGCTGA
66 TGCTCAAGGAGACAAGGCTGA
48064951 AGTTTCACCG
Statistics
Matches: 154, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
88 152 0.99
89 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCTCAAGGAGACAAGGCTGAGTA
Found at i:48069053 original size:19 final size:20
Alignment explanation
Indices: 48069029--48069075 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
48069019 TAATGGATTT
*
48069029 TAATGCATATG-ATGCAATG
1 TAATGCATATGCATGAAATG
*
48069048 TAATGCAAATGCATGAAATG
1 TAATGCATATGCATGAAATG
48069068 -AATGCATA
1 TAATGCATA
48069076 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCATATGCATGAAATG
Found at i:48069555 original size:16 final size:16
Alignment explanation
Indices: 48069530--48069564 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
48069520 TTCTATAATG
48069530 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
* *
48069546 AAATGTCATGCATTCA
1 AAATGCCATGCAGTCA
48069562 AAA
1 AAA
48069565 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:48071420 original size:3 final size:3
Alignment explanation
Indices: 48071412--48071452 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
48071402 ATAAGTAAGT
*
48071412 ATA ATA ATA ATA TATA AT- ATA ATA AT- ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48071453 TAAATAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:48071453 original size:22 final size:21
Alignment explanation
Indices: 48071417--48071487 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
48071407 TAAGTATAAT
48071417 AATAATATATAATATAATAATAC
1 AATAATA-ATAATATAATAA-AC
48071440 AATAATAATAATATAAATAAAC
1 AATAATAATAATAT-AATAAAC
* * *
48071462 AATATTAACAATATAATAAAA
1 AATAATAATAATATAATAAAC
48071483 AATAA
1 AATAA
48071488 AAAAACAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.23
22 21 0.49
23 12 0.28
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAATAATAATATAATAAAC
Found at i:48076375 original size:45 final size:43
Alignment explanation
Indices: 48076275--48076384 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
48076265 TTTTCCATTA
48076275 TGCTATTACACCTCTATTC----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
* * ***
48076314 TACTATTACGCCTCTATTCAATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTC-ATTACATTCAACCAAACACAAGA-T
48076359 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATT-CATTACA
48076385 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 17 0.30
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
Found at i:48076384 original size:16 final size:16
Alignment explanation
Indices: 48076363--48076416 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
48076353 TTGATTTGCT
*
48076363 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
48076379 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
48076395 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
48076411 AATACA
1 ATTACA
48076417 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:48078492 original size:98 final size:98
Alignment explanation
Indices: 48078323--48078517 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
48078313 ATACAATAAA
*
48078323 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
48078388 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAACATTTCCTTT
* *
48078421 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
* *
48078486 CCTTTAGAATCTCAAACTTGGAACATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAACATTTCCTT
48078518 CATGATTTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAACATTTCCTTT
Found at i:48079725 original size:23 final size:22
Alignment explanation
Indices: 48079694--48079742 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
48079684 GATTAAAGGG
48079694 TATC-TCTAAGATTACAAAATCA
1 TATCTTCTAAGATTAC-AAATCA
* *
48079716 TATCTTCTAAGATTGCATATCA
1 TATCTTCTAAGATTACAAATCA
48079738 TATCT
1 TATCT
48079743 AAGATTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (22 bp):
TATCTTCTAAGATTACAAATCA
Found at i:48079745 original size:19 final size:19
Alignment explanation
Indices: 48079721--48079814 Score: 143
Period size: 19 Copynumber: 4.8 Consensus size: 19
48079711 AATCATATCT
48079721 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
48079740 TCTAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
48079759 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
48079778 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
48079799 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
48079815 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 48 0.72
21 19 0.28
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:48079771 original size:38 final size:39
Alignment explanation
Indices: 48079721--48079814 Score: 163
Period size: 38 Copynumber: 2.4 Consensus size: 39
48079711 AATCATATCT
48079721 TCTAAGATTGCATATCATATCTAAGATT-ATACATCATA
1 TCTAAGATTGCATATCATATCTAAGATTCATACATCATA
*
48079759 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATT-CATACATCATA
48079799 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
48079815 CTCAAAAATT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
38 28 0.53
40 25 0.47
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (39 bp):
TCTAAGATTGCATATCATATCTAAGATTCATACATCATA
Found at i:48080163 original size:44 final size:44
Alignment explanation
Indices: 48080038--48080411 Score: 233
Period size: 44 Copynumber: 8.7 Consensus size: 44
48080028 TTACTTAGTT
* * * * * *
48080038 TGCTTCACTGCAACTTCAGGGAGATAAGACTAGATGC---GATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATC
* *
48080079 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGAT-TATAGGCTTTAATC
* * * * * *
48080122 CGCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATA
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATC
* * *
48080166 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TGATGC---GATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTAT-AGGCTTTAATC
* * *
48080207 TGCT-CTCTGCATCTTCAGAGAGATAAGATCTA-AGGTTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGAT-TATAGGCTTTAATC
* * * * *
48080250 CGCTCTACTGCAACTTTAGAGAGATAGGATTATCGGCTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATC
* * * *
48080294 TGCTCCACTGCAACTTCAGGGAGATAAGACT-T-GCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTATAGGC-T-TT-AATC
* * *
48080339 TGCCCCACTGCAACTTCAG-GAGGATAAGACT-T--GCTTACTTAGTC
1 TGCTCCACTGCAACTTCAGAGA-GATAAGATTATAGGC-T--TTAATC
* *
48080383 TGCTCCACTACAACTTCAGGGAGATAAGA
1 TGCTCCACTGCAACTTCAGAGAGATAAGA
48080412 CTACTGGCTT
Statistics
Matches: 265, Mismatches: 48, Indels: 37
0.76 0.14 0.11
Matches are distributed among these distances:
40 48 0.18
41 13 0.05
42 2 0.01
43 19 0.07
44 147 0.55
45 36 0.14
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATC
Found at i:48080226 original size:128 final size:128
Alignment explanation
Indices: 48080038--48080324 Score: 493
Period size: 128 Copynumber: 2.2 Consensus size: 128
48080028 TTACTTAGTT
*
48080038 TGCTTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
* *
48080103 AAGATCTAAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATA
66 AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATCGGCTTTAATA
* * *
48080166 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCTCTGCATCTTCAGAGAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
* * *
48080231 AAGATCTAAGGTTTTAATCCGCTCTACTGCAACTTTAGAGAGATAGGATTATCGGCTTTAATC
66 AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATCGGCTTTAATA
48080294 TGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT
48080325 TGCCATCTTC
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 149 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (128 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATCGGCTTTAATA
Found at i:48080356 original size:45 final size:44
Alignment explanation
Indices: 48079990--48080413 Score: 224
Period size: 44 Copynumber: 9.8 Consensus size: 44
48079980 TGTCATCTTC
* *
48079990 AGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
1 AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATACTT
* * * * *
48080034 AGTTTGCTTCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* * * * *
48080076 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAG-GT-TTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTT
* * * * *
48080118 AATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TT--ATCGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT--AC-TT
* * * * *
48080162 AATATGCTCCACTGCAACTTCAGGGAGATAAGATTTG-ATGC-G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* * * * * *
48080204 A-TCTGCT-CTCTGCATCTTCAGAGAGATAAGATCTAAG-GT-TTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTT
* * * * * * *
48080246 AATCCGCTCTACTGCAACTTTAGAGAGATAGGA-TT--ATCGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT--AC-TT
*
48080290 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-CTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT
* *
48080334 CAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATACTT
*
48080379 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
48080414 ACTGGCTTCA
Statistics
Matches: 297, Mismatches: 54, Indels: 58
0.73 0.13 0.14
Matches are distributed among these distances:
40 45 0.15
41 13 0.04
42 11 0.04
43 12 0.04
44 167 0.56
45 45 0.15
46 2 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
Found at i:48080421 original size:133 final size:128
Alignment explanation
Indices: 48080038--48080408 Score: 453
Period size: 128 Copynumber: 2.9 Consensus size: 128
48080028 TTACTTAGTT
* * * *
48080038 TGCTTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCCCACTGCAACTTCAGAGAGAT
* *
48080103 AAGATCTAAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATA
66 AAGATCTAAGCTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATA
* * * *
48080166 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCTCTGCATCTTCAGAGAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCCCACTGCAACTTCAGAGAGAT
* * * * *
48080231 AAGATCTAAGGTTTTAATCCGCTCTACTGCAACTTTAGAGAGATAGGATTATCGGCTTTAATC
66 AAGATCTAAGCTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATA
*
48080294 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-CTTCAGTCTGCCCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTG--ATGC--GA-TCTG-CCCACTGCAACTTCAG
* * * *
48080358 -GAGGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATA
60 AGA-GATAAGATCTAAGCTT--TTAATCCGCTCCACTGCAACTTCAGGGAGATA
48080409 AGACTACTGG
Statistics
Matches: 212, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
128 151 0.71
129 1 0.00
130 2 0.01
131 4 0.02
132 8 0.04
133 46 0.22
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (128 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCCCACTGCAACTTCAGAGAGAT
AAGATCTAAGCTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATA
Found at i:48080569 original size:131 final size:132
Alignment explanation
Indices: 48080413--48080902 Score: 762
Period size: 131 Copynumber: 3.8 Consensus size: 132
48080403 GAGATAAGAC
*
48080413 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCC
* *
48080478 TCTACTGCTTAGGGAGATAAGA-CTTGAAATCTTCAATCTATTCCACTGTTGCCCA-GGAAGTAG
66 ACTACTGCTTAGGGAGATAAGATC-TGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
48080541 AAT
130 AAT
* * * *
48080544 TACTGGCTTCAATGTACTCCACTGTATCCACAGAGAGGTAAAATCCACCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCC
*
48080609 ACTACTGCTTAGGGAGATAAGATTTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
48080674 AT
131 AT
* * * *
48080676 TACTGGCTTCAATGTACTTCACTATAACCACAGGGAGGTAAGATCCGCCATCTTTGA--T-CT--
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCC
* *
48080736 GCT-CTGCTTAGAGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
48080800 AT
131 AT
* *
48080802 TACTGGCTTCAACGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCC
*
48080867 ACTACTGCTTAGGTAGATAAGATCTGAAATCTTCAA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAA
48080903 CCTTCTCCGC
Statistics
Matches: 328, Mismatches: 23, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
126 114 0.35
127 2 0.01
128 1 0.00
129 4 0.01
130 1 0.00
131 115 0.35
132 91 0.28
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCC
ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
AT
Found at i:48080855 original size:258 final size:261
Alignment explanation
Indices: 48080413--48080902 Score: 765
Period size: 258 Copynumber: 1.9 Consensus size: 261
48080403 GAGATAAGAC
*
48080413 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGA-CTACT-C
* *
48080478 TCTACTGCTTAGGGAGATAAGACTTGAAATCTTCAATCTATTCCACTGTTGCCCAGGAAGTAGAA
64 GCTACTGCTTAGAGAGATAAGACTTGAAATCTTCAATCTATTCCACTGTTGCCCAGGAAGTAGAA
* * * *
48080543 TTACTGGCTTCAATGTACTCCACTGTATCCACAGAGAGGTAAAATCCACCATCTTCGATCTGCTC
129 TTACTGGCTTCAACGTACTCCACTATAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTC
*
48080608 CACTACTGCTTAGGGAGATAAGATTTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
194 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
48080673 AAT
259 AAT
* * * *
48080676 TACTGGCTTCAATGTACTTCACTATAACCACAGGGAGGTAAGATCCGCCATCTTTGA-T-CT-GC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGACTACTCGC
*
48080738 T-CTGCTTAGAGAGATAAGA-TCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAA
66 TACTGCTTAGAGAGATAAGACT-TGAAATCTTCAATCTATTCCACTGTTGCCCA-GGAAGTAGAA
* *
48080801 TTACTGGCTTCAACGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTC
129 TTACTGGCTTCAACGTACTCCACTATAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTC
*
48080866 CACTACTGCTTAGGTAGATAAGATCTGAAATCTTCAA
194 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAA
48080903 CCTTCTCCGC
Statistics
Matches: 209, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
256 1 0.00
257 47 0.22
258 106 0.51
260 2 0.01
261 1 0.00
263 52 0.25
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (261 bp):
TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGACTACTCGC
TACTGCTTAGAGAGATAAGACTTGAAATCTTCAATCTATTCCACTGTTGCCCAGGAAGTAGAATT
ACTGGCTTCAACGTACTCCACTATAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCA
CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAA
T
Found at i:48080995 original size:258 final size:255
Alignment explanation
Indices: 48080482--48080997 Score: 637
Period size: 258 Copynumber: 2.0 Consensus size: 255
48080472 TACTCCTCTA
*
48080482 CTGCTTAGGGAGATAAGACTTGAAATCTTCAATCTATTCCACTGTTGCCCAGGAAGTAGAATTAC
1 CTGCTTAGAGAGATAAGACTTGAAATCTTCAATCTATTCCACTGTTGCCCAGGAAGTAGAATTAC
* * * *
48080547 TGGCTTCAATGTACTCCACTGTATCCACAGAGAGGTAAAATCCACCATCTTCGATCTGCTCCACT
66 TGGCTTCAACGTACTCCACTATAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACT
* * * **
48080612 ACTGCTTAGGGAGATAAGATTTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
131 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGCTGTCCAGGGAACAAGAATT
* * * * *
48080677 ACTGGCTTCAATGTACTTCACTATAACCACAGGGAGGTAAGATCCGCCATCTTTGATCTGCT
196 ACTGGCTTAAATCTACTTCACTAT-A-CACAGGAAGATAAGATCCGCCATCTTCGATCTGCT
*
48080739 CTGCTTAGAGAGATAAGA-TCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
1 CTGCTTAGAGAGATAAGACT-TGAAATCTTCAATCTATTCCACTGTTGCCCA-GGAAGTAGAATT
* *
48080803 ACTGGCTTCAACGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCA
64 ACTGGCTTCAACGTACTCCACTATAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCA
* *
48080868 CTACTGCTTAGGTAGATAAGATCTGAAATCTTCAACCT-TCTCCGCTGCTG-CTCAGGGAGACAA
129 CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTAT-TCCACTGCTGTC-CAGGGA-ACAA
** ** * ** * **
48080931 GGCTTGGTGGCTTAAATCTGCTTCCCACTAT-C-TTGGAAAGATAAGATTCGCTGTCTTCGATCT
191 GAATTACTGGCTTAAATCTACTT--CACTATACACAGG-AAGATAAGATCCGCCATCTTCGATCT
48080994 GCT
253 GCT
48080997 C
1 C
48080998 CACTGTCAGT
Statistics
Matches: 221, Mismatches: 30, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
256 1 0.00
257 51 0.23
258 145 0.66
259 18 0.08
261 6 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (255 bp):
CTGCTTAGAGAGATAAGACTTGAAATCTTCAATCTATTCCACTGTTGCCCAGGAAGTAGAATTAC
TGGCTTCAACGTACTCCACTATAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACT
ACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGCTGTCCAGGGAACAAGAATT
ACTGGCTTAAATCTACTTCACTATACACAGGAAGATAAGATCCGCCATCTTCGATCTGCT
Found at i:48082275 original size:1 final size:1
Alignment explanation
Indices: 48082271--48082351 Score: 81
Period size: 1 Copynumber: 81.0 Consensus size: 1
48082261 TTCACTTTCA
* * * * * * * *
48082271 TTTTTTATTTTTTTTGTTTTTTTTATTTTTTTTGTTTTTTTGTTTTTTTGTTTTTGTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
48082336 TTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTT
48082352 AATCTGAACT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:48082284 original size:8 final size:8
Alignment explanation
Indices: 48082279--48082350 Score: 94
Period size: 8 Copynumber: 8.9 Consensus size: 8
48082269 CATTTTTTAT
48082279 TTTTTTTG
1 TTTTTTTG
*
48082287 TTTTTTTTAT
1 -TTTTTTT-G
48082297 TTTTTTTG
1 TTTTTTTG
48082305 TTTTTTTG
1 TTTTTTTG
48082313 TTTTTTTG
1 TTTTTTTG
48082321 --TTTTTG
1 TTTTTTTG
48082327 TTTTTTTG
1 TTTTTTTG
48082335 TTTTTTTTG
1 -TTTTTTTG
48082344 TTTTTTT
1 TTTTTTT
48082351 TAATCTGAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
6 6 0.11
8 29 0.51
9 22 0.39
ACGTcount: A:0.01, C:0.00, G:0.10, T:0.89
Consensus pattern (8 bp):
TTTTTTTG
Found at i:48082285 original size:9 final size:9
Alignment explanation
Indices: 48082271--48082351 Score: 102
Period size: 9 Copynumber: 9.7 Consensus size: 9
48082261 TTCACTTTCA
*
48082271 TTTTTTATT
1 TTTTTTGTT
48082280 TTTTTTGTT
1 TTTTTTGTT
*
48082289 TTTTTTATT
1 TTTTTTGTT
48082298 TTTTTTG-T
1 TTTTTTGTT
48082306 TTTTTTG-T
1 TTTTTTGTT
48082314 TTTTTTG--
1 TTTTTTGTT
48082321 -TTTTTG-T
1 TTTTTTGTT
48082328 TTTTTTGTT
1 TTTTTTGTT
48082337 TTTTTTGTT
1 TTTTTTGTT
48082346 TTTTTT
1 TTTTTT
48082352 AATCTGAACT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
6 6 0.09
8 22 0.33
9 38 0.58
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:48088276 original size:98 final size:98
Alignment explanation
Indices: 48088107--48088301 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
48088097 ATACTATAAA
*
48088107 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
48088172 CCTTTAGAATCCCAAACTCGGAAGATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAACATTTCCTTT
* *
48088205 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
48088270 CCTTTAGAATCTCAAACTCGGAACATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAACATTTCCTT
48088302 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAACATTTCCTTT
Found at i:48089517 original size:22 final size:21
Alignment explanation
Indices: 48089490--48089617 Score: 83
Period size: 19 Copynumber: 6.3 Consensus size: 21
48089480 AGATTAAAGG
48089490 ATATCTCTAAGATTACAAAATC
1 ATATCTCTAAGATTAC-AAATC
* *
48089512 ATATCTTCTAAGATTGCATATC
1 ATATC-TCTAAGATTACAAATC
* *
48089534 ATA--TCTAAGATTATACATC
1 ATATCTCTAAGATTACAAATC
* *
48089553 ATA--TCTAAGATTGCATATC
1 ATATCTCTAAGATTACAAATC
*
48089572 ATA--TCTAAGATTGCATATATC
1 ATATCTCTAAGATTACA-A-ATC
* *
48089593 ATA--TCTAAGATTGCATATC
1 ATATCTCTAAGATTACAAATC
48089612 ATATCT
1 ATATCT
48089618 AGGATTGCAT
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
19 50 0.55
21 19 0.21
22 12 0.13
23 10 0.11
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCTCTAAGATTACAAATC
Found at i:48089523 original size:23 final size:22
Alignment explanation
Indices: 48089490--48089539 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
48089480 AGATTAAAGG
48089490 ATATC-TCTAAGATTACAAAATC
1 ATATCTTCTAAGATTAC-AAATC
* *
48089512 ATATCTTCTAAGATTGCATATC
1 ATATCTTCTAAGATTACAAATC
48089534 ATATCT
1 ATATCT
48089540 AAGATTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (22 bp):
ATATCTTCTAAGATTACAAATC
Found at i:48089602 original size:59 final size:58
Alignment explanation
Indices: 48089511--48089648 Score: 201
Period size: 59 Copynumber: 2.4 Consensus size: 58
48089501 ATTACAAAAT
*
48089511 CATATCT-TCTAAGATTGC--ATATCATATCTAAGATTATACATCATATCTAAGATTG
1 CATATCTATCTAAGATTGCATATATCATATCTAAGATTACACATCATATCTAAGATTG
* * *
48089566 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATC-TATCTAAGATTGCATATATCATATCTAAGATTACACATCATATCTAAGATTG
48089625 CATATCCTATCTAAGATTGCATAT
1 CATAT-CTATCTAAGATTGCATAT
48089649 CCTCAAAAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 6 0.08
56 1 0.01
57 11 0.15
59 55 0.74
60 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (58 bp):
CATATCTATCTAAGATTGCATATATCATATCTAAGATTACACATCATATCTAAGATTG
Found at i:48089651 original size:19 final size:19
Alignment explanation
Indices: 48089518--48089649 Score: 201
Period size: 19 Copynumber: 6.8 Consensus size: 19
48089508 AATCATATCT
48089518 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
48089537 TCTAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
48089556 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
48089575 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
48089596 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
48089615 TCTAGGATTGCATATCCTA
1 TCTAAGATTGCATATCATA
48089634 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
48089650 CTCAAAAATT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 83 0.81
21 19 0.19
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:48093255 original size:3 final size:3
Alignment explanation
Indices: 48093243--48093342 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
48093233 ATTTTATGTG
* * *
48093243 ATT A-T ATT ATT ATC ATAT ATT -TT A-T ATT ATT -TC ACT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
48093285 ATC ATT ATT ATC ATAT AGT ATT ATT AATT GAAT ATTT ATT ATT ATT GTT
1 ATT ATT ATT ATT AT-T ATT ATT ATT -ATT -ATT A-TT ATT ATT ATT ATT
48093334 ATT ATT ATT
1 ATT ATT ATT
48093343 GTATTCACTA
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
2 7 0.10
3 55 0.76
4 10 0.14
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:48093265 original size:28 final size:31
Alignment explanation
Indices: 48093226--48093293 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
48093216 TTTGCTCAAA
*
48093226 TATCA-ATATTTTATGTGA-TT-A-TATTAT
1 TATCATATATTTTATATGATTTCACTATTAT
*
48093253 TATCATATATTTTATATTATTTCACTATTAT
1 TATCATATATTTTATATGATTTCACTATTAT
48093284 TATCAT-TATT
1 TATCATATATT
48093294 ATCATATAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.14
28 11 0.31
29 2 0.06
30 5 0.14
31 12 0.34
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.57
Consensus pattern (31 bp):
TATCATATATTTTATATGATTTCACTATTAT
Found at i:48093269 original size:20 final size:20
Alignment explanation
Indices: 48093243--48093308 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 20
48093233 ATTTTATGTG
48093243 ATTATATTATTATCATATAT
1 ATTATATTATTATCATATAT
*
48093263 TTTATATTATT-TCACTAT-T
1 ATTATATTATTATCA-TATAT
48093282 ATTATCATTATTATCATATAGT
1 ATTAT-ATTATTATCATATA-T
48093304 ATTAT
1 ATTAT
48093309 TAATTGAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 8 0.21
20 22 0.56
21 3 0.08
22 6 0.15
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATATTATTATCATATAT
Found at i:48093324 original size:40 final size:39
Alignment explanation
Indices: 48093243--48093335 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 39
48093233 ATTTTATGTG
* * * *
48093243 ATTATATTATTATCATATATTTTATATTATTTCACTATT
1 ATTATATTATTATCATATAGTATATATTAATTCAATATT
*
48093282 ATTATCATTATTATCATATAGTAT-TATTAATTGAATATTT
1 ATTAT-ATTATTATCATATAGTATATATTAATTCAATA-TT
*
48093322 ATTATTATTGTTAT
1 ATTA-TATTATTAT
48093336 TATTATTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 15 0.33
40 29 0.64
41 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (39 bp):
ATTATATTATTATCATATAGTATATATTAATTCAATATT
Found at i:48093659 original size:13 final size:13
Alignment explanation
Indices: 48093623--48093661 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
48093613 TTGAATATTA
48093623 AATTTTTATAAAT
1 AATTTTTATAAAT
*
48093636 ATATTTATTATATAT
1 A-ATTT-TTATAAAT
48093651 AATTTTTATAA
1 AATTTTTATAA
48093662 TTTAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.27
14 8 0.36
15 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTTTATAAAT
Found at i:48094278 original size:2 final size:2
Alignment explanation
Indices: 48094271--48094298 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48094261 TTTATCAGCA
48094271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48094299 TATGATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48096345 original size:3 final size:3
Alignment explanation
Indices: 48096333--48096432 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
48096323 ATTTTATGTG
* * *
48096333 ATT A-T ATT ATT ATC ATAT ATT -TT A-T ATT ATT -TC ACT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
48096375 ATC ATT ATT ATC ATAT AGT ATT ATT AATT GAAT ATTT ATT ATT ATT GTT
1 ATT ATT ATT ATT AT-T ATT ATT ATT -ATT -ATT A-TT ATT ATT ATT ATT
48096424 ATT ATT ATT
1 ATT ATT ATT
48096433 GTATTCACTA
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
2 7 0.10
3 55 0.76
4 10 0.14
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:48096355 original size:28 final size:31
Alignment explanation
Indices: 48096316--48096383 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
48096306 TTTGCTCAAA
*
48096316 TATCA-ATATTTTATGTGA-TT-A-TATTAT
1 TATCATATATTTTATATGATTTCACTATTAT
*
48096343 TATCATATATTTTATATTATTTCACTATTAT
1 TATCATATATTTTATATGATTTCACTATTAT
48096374 TATCAT-TATT
1 TATCATATATT
48096384 ATCATATAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.14
28 11 0.31
29 2 0.06
30 5 0.14
31 12 0.34
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.57
Consensus pattern (31 bp):
TATCATATATTTTATATGATTTCACTATTAT
Found at i:48096359 original size:20 final size:20
Alignment explanation
Indices: 48096333--48096398 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 20
48096323 ATTTTATGTG
48096333 ATTATATTATTATCATATAT
1 ATTATATTATTATCATATAT
*
48096353 TTTATATTATT-TCACTAT-T
1 ATTATATTATTATCA-TATAT
48096372 ATTATCATTATTATCATATAGT
1 ATTAT-ATTATTATCATATA-T
48096394 ATTAT
1 ATTAT
48096399 TAATTGAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 8 0.21
20 22 0.56
21 3 0.08
22 6 0.15
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATATTATTATCATATAT
Found at i:48096414 original size:40 final size:39
Alignment explanation
Indices: 48096333--48096425 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 39
48096323 ATTTTATGTG
* * * *
48096333 ATTATATTATTATCATATATTTTATATTATTTCACTATT
1 ATTATATTATTATCATATAGTATATATTAATTCAATATT
*
48096372 ATTATCATTATTATCATATAGTAT-TATTAATTGAATATTT
1 ATTAT-ATTATTATCATATAGTATATATTAATTCAATA-TT
*
48096412 ATTATTATTGTTAT
1 ATTA-TATTATTAT
48096426 TATTATTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 15 0.33
40 29 0.64
41 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (39 bp):
ATTATATTATTATCATATAGTATATATTAATTCAATATT
Found at i:48100674 original size:26 final size:25
Alignment explanation
Indices: 48100600--48100666 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
48100590 ATGGAGTTGC
48100600 ATTTTATAAAAAAATAATTTTTATTTA
1 ATTTTA-AAAAAAAT-ATTTTTATTTA
48100627 ATTTTAAAAAAAATATTTTTATTTA
1 ATTTTAAAAAAAATATTTTTATTTA
**
48100652 ATTTTTTAAAAAATA
1 ATTTTAAAAAAAATA
48100667 GGTTTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 24 0.63
26 8 0.21
27 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTTAAAAAAAATATTTTTATTTA
Found at i:48100969 original size:38 final size:38
Alignment explanation
Indices: 48100926--48101046 Score: 99
Period size: 38 Copynumber: 3.2 Consensus size: 38
48100916 ATAAATTGGG
48100926 TTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATAT
1 TTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATAT
* * * * * **
48100964 TTAATTTTAATTCCTTTTTTG---GTTTGGAA-TAAAT-T
1 TTAATTTGATTTTC-TGTTTGAAAGTTT-AAATTTTATAT
48100999 GGGTTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATAT
1 ---TTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATAT
48101040 TTAATTT
1 TTAATTT
48101047 TAATTCCTTT
Statistics
Matches: 59, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
35 1 0.02
36 7 0.12
37 7 0.12
38 29 0.49
39 7 0.12
40 7 0.12
41 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.57
Consensus pattern (38 bp):
TTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATAT
Found at i:48100992 original size:76 final size:76
Alignment explanation
Indices: 48100904--48101059 Score: 312
Period size: 76 Copynumber: 2.1 Consensus size: 76
48100894 GCTGGTCTCA
48100904 TTTTGGTTTGGAATAAATTGGGTTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATATTTAAT
1 TTTTGGTTTGGAATAAATTGGGTTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATATTTAAT
48100969 TTTAATTCCTT
66 TTTAATTCCTT
48100980 TTTTGGTTTGGAATAAATTGGGTTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATATTTAAT
1 TTTTGGTTTGGAATAAATTGGGTTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATATTTAAT
48101045 TTTAATTCCTT
66 TTTAATTCCTT
48101056 TTTT
1 TTTT
48101060 TATTATAAAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (76 bp):
TTTTGGTTTGGAATAAATTGGGTTAATTTGATTTTCTGTTTGAAAGTTTAAATTTTATATTTAAT
TTTAATTCCTT
Found at i:48101663 original size:18 final size:18
Alignment explanation
Indices: 48101640--48101677 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
48101630 ATTTACAAAT
48101640 GAAGTACAACTTTTGATG
1 GAAGTACAACTTTTGATG
*
48101658 GAAGTAGAACTTTTGATG
1 GAAGTACAACTTTTGATG
48101676 GA
1 GA
48101678 TAATCCACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (18 bp):
GAAGTACAACTTTTGATG
Found at i:48102488 original size:108 final size:108
Alignment explanation
Indices: 48102299--48102496 Score: 290
Period size: 108 Copynumber: 1.8 Consensus size: 108
48102289 TATTTACCCG
* * *
48102299 AAAATACTAGTATCAGGCATCTTCTACAATTGGTACATTCTACTTTCCATCCTTCACATCTAGGA
1 AAAATACTAGTATCAGGAATCTTCTACAATTGGTACATACTACTTTCCATCCTTCACATCCAGGA
*
48102364 ACCCAAGCAGAAGTAGAAAAAGAAGTAGCATGCTGCTTTCCCA
66 ACCCAACCAGAAGTAGAAAAAGAAGTAGCATGCTGCTTTCCCA
* * ** *
48102407 AAAATACTA-TCATCGGGAATCTTCTACACTTGGTACATACTACTTTCCATTGTTCACCTCCAGG
1 AAAATACTAGT-ATCAGGAATCTTCTACAATTGGTACATACTACTTTCCATCCTTCACATCCAGG
*
48102471 AATCCAACCAGAAGTAGAAAAAGAAG
65 AACCCAACCAGAAGTAGAAAAAGAAG
48102497 AAGAGAAATT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 1 0.01
108 78 0.99
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (108 bp):
AAAATACTAGTATCAGGAATCTTCTACAATTGGTACATACTACTTTCCATCCTTCACATCCAGGA
ACCCAACCAGAAGTAGAAAAAGAAGTAGCATGCTGCTTTCCCA
Found at i:48103958 original size:3 final size:3
Alignment explanation
Indices: 48103950--48104040 Score: 137
Period size: 3 Copynumber: 30.0 Consensus size: 3
48103940 ATCATTTTGT
*
48103950 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
48103998 TTA TTA TCA TTA TTA TTA TTA TTA TTA GTA CTA TTAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
48104041 GTTTTATTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
3 77 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:48104070 original size:20 final size:20
Alignment explanation
Indices: 48104042--48104090 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
48104032 TAATTATTAG
*
48104042 TTTTATTTTCCTT-ATTTTT
1 TTTTCTTTTCCTTCATTTTT
* *
48104061 CTTTTCTTTTTCTTCCTTTTT
1 -TTTTCTTTTCCTTCATTTTT
48104082 TTTTCTTTT
1 TTTTCTTTT
48104091 TTCGTTACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTTTTCCTTCATTTTT
Found at i:48106703 original size:44 final size:44
Alignment explanation
Indices: 48106600--48107067 Score: 242
Period size: 44 Copynumber: 10.6 Consensus size: 44
48106590 TCGCATCAGG
* * ** *
48106600 TCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGGAT-TTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-GATAGT-A-A
*
48106646 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* * **
48106690 TCCTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAACTAGGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA-TAGTAA
* * * * * * * ** *
48106734 TCTGATTTCTCTGA-AGTTACAGTAGAGTAGATCGCA-CCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGATAGTAA
* * *** **
48106775 TCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTTAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-ATAGTA-A
** * *
48106821 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTAAAGATTGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* * *
48106865 TCATATCTCCCTGAGATTACAGTGGAGCAGATT-AAAACCAG-AGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA-TAGTA-A
* * * * * ** *
48106909 TCTTATCTCTCTGA-AGTTATAGTGGAGTAGATCGTA-CCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGATAGTAA
* * ** *
48106950 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATA-GT-A-A
* * *
48106996 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
* * **
48107040 TCCTCTCTCTTTGAGATTACAGTGGAGC
1 TCTTATCTCCCTGAGATTACAGTGGAGC
48107068 GAATTAAAAT
Statistics
Matches: 321, Mismatches: 79, Indels: 46
0.72 0.18 0.10
Matches are distributed among these distances:
41 54 0.17
42 2 0.01
43 14 0.04
44 143 0.45
45 12 0.04
46 95 0.30
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAA
Found at i:48106800 original size:175 final size:175
Alignment explanation
Indices: 48106509--48107136 Score: 929
Period size: 175 Copynumber: 3.6 Consensus size: 175
48106499 GGTTACGAGC
* * **
48106509 TAGTAATCCTATCTCCCTAAGATTATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAA
* * *
48106574 GTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGGA
66 GTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAA
*
48106639 TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGA
131 TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGA
* * *
48106684 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACT-AGGGATCTGATTTCTCTGA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-TAAAGGATCTTATCTCTCTGA
* *
48106748 AGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGA
65 AGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
* *
48106813 ATTTTAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTAAAGA
130 ATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGA
* * **
48106859 TTGTAATCATATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-CCAGAGATCTTATCTCTCTGA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAG-GATCTTATCTCTCTGA
* * * *
48106923 AGTTATAGTGGAGTAGATCGTACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA
65 AGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
*
48106988 ATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGC
130 ATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGA
* **
48107034 TAGTAATCCTCTCTCTTTGAGATTACAGTGGAGC-GAATTAAAATAAAGGATCTTATCTCTCTGA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAG-ATTAAAATAAAGGATCTTATCTCTCTGA
* * * *
48107098 AGTTACAGTAGAATAGATCGTATCAGATCTTATCTCCCT
65 AGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCT
48107137 AAGCAGTAGT
Statistics
Matches: 407, Mismatches: 41, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
174 2 0.00
175 402 0.99
176 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (175 bp):
TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAA
GTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAA
TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGA
Found at i:48111377 original size:12 final size:12
Alignment explanation
Indices: 48111360--48111384 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48111350 AATTCATCAT
48111360 ATTTGATATATA
1 ATTTGATATATA
48111372 ATTTGATATATA
1 ATTTGATATATA
48111384 A
1 A
48111385 AATATCTAAT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTGATATATA
Found at i:48114953 original size:15 final size:14
Alignment explanation
Indices: 48114932--48114967 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
48114922 ATAATCCTTA
*
48114932 ATAATTATCTTAAT
1 ATAATTATCCTAAT
48114946 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
48114961 ATAATTA
1 ATAATTA
48114968 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:48115826 original size:9 final size:9
Alignment explanation
Indices: 48115797--48115833 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
48115787 TGAGTTTTCG
48115797 AATTCGAAT
1 AATTCGAAT
*
48115806 AACTCGAAT
1 AATTCGAAT
48115815 AATTCGAAT
1 AATTCGAAT
*
48115824 AATTCAAAT
1 AATTCGAAT
48115833 A
1 A
48115834 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:48116103 original size:31 final size:30
Alignment explanation
Indices: 48116046--48116105 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48116036 AAACCTTTTA
*
48116046 TTTTCCCCCAAAATTTTTACTCCTTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCTTCCCAC
* * *
48116076 TTTTTCCCTAAAACTTTTATTCTCTTCCCA
1 TTTTCCCCCAAAACTTTTACTC-CTTCCCA
48116106 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCTTCCCAC
Found at i:48116231 original size:20 final size:20
Alignment explanation
Indices: 48116203--48116240 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48116193 CCTCAAACTT
*
48116203 TTATTCCCCAAAACTTTTTA
1 TTATCCCCCAAAACTTTTTA
*
48116223 TTATCCCCCTAAACTTTT
1 TTATCCCCCAAAACTTTT
48116241 ACTTCTCACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
TTATCCCCCAAAACTTTTTA
Found at i:48116867 original size:5 final size:5
Alignment explanation
Indices: 48116857--48116882 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48116847 CTCGAAAATT
48116857 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
48116883 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:48120874 original size:41 final size:41
Alignment explanation
Indices: 48120789--48120885 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 41
48120779 AGATCGATAA
* * *
48120789 TTAGCGGCGTTTTTTAG-AAAGCGCCACTAATGCTTAGGGAT
1 TTAGCGGCG-CTTTTGGTAAAGCGCCACTAATGCTCAGGGAT
* * * *
48120830 TTAGTGGCGCTTTTGGTAAAGCGCCGCTAATGCTCGGGGCT
1 TTAGCGGCGCTTTTGGTAAAGCGCCACTAATGCTCAGGGAT
*
48120871 TTAGCGGCGTTTTTG
1 TTAGCGGCGCTTTTG
48120886 AATTAGTGCC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
40 5 0.11
41 41 0.89
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.33
Consensus pattern (41 bp):
TTAGCGGCGCTTTTGGTAAAGCGCCACTAATGCTCAGGGAT
Found at i:48120942 original size:40 final size:41
Alignment explanation
Indices: 48120847--48120945 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 41
48120837 CGCTTTTGGT
* **
48120847 AAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAA
1 AAAGCGCCGCTAATGCTCGGAGCTTTAGCGGCGTTTTCAAA
** * * * **
48120888 TTAGTGCCGTTAATGCTC-TATTTTTAGCGGCGTTTTCAAA
1 AAAGCGCCGCTAATGCTCGGAGCTTTAGCGGCGTTTTCAAA
48120928 AAAGCGCCGCTAATGCTC
1 AAAGCGCCGCTAATGCTC
48120946 AAGGATTTAA
Statistics
Matches: 44, Mismatches: 14, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
40 30 0.68
41 14 0.32
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
AAAGCGCCGCTAATGCTCGGAGCTTTAGCGGCGTTTTCAAA
Found at i:48121948 original size:14 final size:14
Alignment explanation
Indices: 48121929--48121985 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
48121919 TATGGTTTAT
48121929 GGTTAAGGGTT-GG
1 GGTTAAGGGTTAGG
*
48121942 GGTTTAAGGTTTAGG
1 GG-TTAAGGGTTAGG
*
48121957 GGTTAAGGGTTAGA
1 GGTTAAGGGTTAGG
*
48121971 GGTTAGGGGTTAGG
1 GGTTAAGGGTTAGG
48121985 G
1 G
48121986 TTTATGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 2 0.05
14 31 0.84
15 4 0.11
ACGTcount: A:0.19, C:0.00, G:0.49, T:0.32
Consensus pattern (14 bp):
GGTTAAGGGTTAGG
Found at i:48122010 original size:7 final size:7
Alignment explanation
Indices: 48121922--48122032 Score: 59
Period size: 7 Copynumber: 16.0 Consensus size: 7
48121912 TATAGATTAT
*
48121922 GGTTTAT
1 GGTTTAG
*
48121929 GGTTAAG
1 GGTTTAG
*
48121936 GG-TTGG
1 GGTTTAG
*
48121942 GGTTTAA
1 GGTTTAG
48121949 GGTTTAGG
1 GGTTTA-G
*
48121957 GGTTAAG
1 GGTTTAG
48121964 GG-TTAG
1 GGTTTAG
48121970 AGG-TTAG
1 -GGTTTAG
*
48121977 GGGTTAG
1 GGTTTAG
*
48121984 GGTTTAT
1 GGTTTAG
* *
48121991 GTTTTAT
1 GGTTTAG
*
48121998 GATTTAG
1 GGTTTAG
48122005 GGTTTAG
1 GGTTTAG
*
48122012 GAG-ATAG
1 G-GTTTAG
*
48122019 GGGTTAG
1 GGTTTAG
48122026 GGTTTAG
1 GGTTTAG
48122033 ATTAATTGGT
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
6 10 0.12
7 64 0.80
8 6 0.08
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (7 bp):
GGTTTAG
Found at i:48126035 original size:42 final size:43
Alignment explanation
Indices: 48125989--48126106 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
48125979 GTATCAAAGC
*
48125989 GTCGCTAAAGGTCTTGAG-CTATAGCGGCGTTTGCG-GAAAAAA
1 GTCGCTAAAGGTC-TGAGTCTTTAGCGGCGTTTGCGAGAAAAAA
* * **
48126031 GTCGCTATAGGTCTGAGTCTTTAGCGGCGTTTGTGAGAAAAGC
1 GTCGCTAAAGGTCTGAGTCTTTAGCGGCGTTTGCGAGAAAAAA
*
48126074 GCCGCTAAAGGTCCTG-GTCTTTAGCGGCGTTTG
1 GTCGCTAAAGGT-CTGAGTCTTTAGCGGCGTTTG
48126107 TTTCTAGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 4 0.06
42 27 0.41
43 32 0.48
44 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (43 bp):
GTCGCTAAAGGTCTGAGTCTTTAGCGGCGTTTGCGAGAAAAAA
Found at i:48126086 original size:43 final size:43
Alignment explanation
Indices: 48125966--48126107 Score: 157
Period size: 42 Copynumber: 3.3 Consensus size: 43
48125956 TAATGGTATT
* **
48125966 TTTAACGGCGTTTGT-ATCAAAGCGTCGCTAAAGGTCTTGAG-C
1 TTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTC-TGAGTC
* * ** *
48126008 TATAGCGGCGTTTGCG-GAAAAAAGTCGCTATAGGTCTGAGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCTGAGTC
*
48126050 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCCTG-GTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAGGT-CTGAGTC
48126093 TTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT
48126108 TTCTAGAAAC
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
41 4 0.05
42 42 0.51
43 33 0.40
44 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCTGAGTC
Found at i:48132142 original size:10 final size:11
Alignment explanation
Indices: 48132101--48132141 Score: 82
Period size: 11 Copynumber: 3.7 Consensus size: 11
48132091 ACTCCATGCT
48132101 AATTTTTTTAA
1 AATTTTTTTAA
48132112 AATTTTTTTAA
1 AATTTTTTTAA
48132123 AATTTTTTTAA
1 AATTTTTTTAA
48132134 AATTTTTT
1 AATTTTTT
48132142 ATTTATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTTTTTTAA
Found at i:48135838 original size:50 final size:51
Alignment explanation
Indices: 48135783--48135889 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 51
48135773 CATTTATTTA
* * * *
48135783 TTTATCATTCTCTTACTTTTAAAATATTTAAATTTAATATTAGGTAT-TAT
1 TTTATCATTCTCTTACTCTTAAAATATTTAAAATTAACATTAGGTATACAT
* * * *
48135833 TTTATCTTTTTTTTACTCTTAAAATATTTAAAATTAACATTATGTATACAT
1 TTTATCATTCTCTTACTCTTAAAATATTTAAAATTAACATTAGGTATACAT
48135884 TTTATC
1 TTTATC
48135890 TATTTCGTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 40 0.83
51 8 0.17
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (51 bp):
TTTATCATTCTCTTACTCTTAAAATATTTAAAATTAACATTAGGTATACAT
Found at i:48136149 original size:12 final size:12
Alignment explanation
Indices: 48136110--48136158 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
48136100 ATCGGCTTCT
48136110 TTTTATTTATTTTC
1 TTTTATTTA--TTC
*
48136124 TTTTATTGT-GTC
1 TTTTATT-TATTC
48136136 TTTTATTTATTC
1 TTTTATTTATTC
48136148 TTTTATTTATT
1 TTTTATTTATT
48136159 TGCTACTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 1 0.03
12 22 0.71
14 7 0.23
15 1 0.03
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (12 bp):
TTTTATTTATTC
Found at i:48136210 original size:18 final size:18
Alignment explanation
Indices: 48136187--48136233 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
48136177 AAAATTTAGA
48136187 TATTATTATTAAAAGTAT
1 TATTATTATTAAAAGTAT
* * *
48136205 TATTATTATCACAATTAT
1 TATTATTATTAAAAGTAT
*
48136223 TATTTTTATTA
1 TATTATTATTA
48136234 TACATATTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (18 bp):
TATTATTATTAAAAGTAT
Found at i:48139450 original size:18 final size:18
Alignment explanation
Indices: 48139429--48139473 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
48139419 CATTCGTTTC
48139429 CAAAACATTATTC-ATTT
1 CAAAACATTATTCAATTT
*
48139446 ACAAATCATTATTCAATTT
1 -CAAAACATTATTCAATTT
48139465 CAAAACATT
1 CAAAACATT
48139474 TTCTTACTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (18 bp):
CAAAACATTATTCAATTT
Found at i:48143988 original size:18 final size:17
Alignment explanation
Indices: 48143965--48144024 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
48143955 CTTTTTTTTT
48143965 AAAAAAAAAGAGAAAAAG
1 AAAAAAAAAGA-AAAAAG
* *
48143983 AAAAAAGAAACAAAAAGG
1 AAAAAA-AAAGAAAAAAG
*
48144001 AAAAAGGAAAGAAAAAAAG
1 AAAAA-AAAAG-AAAAAAG
48144020 AAAAA
1 AAAAA
48144025 TGAGAGGCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.82, C:0.02, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:48144971 original size:45 final size:45
Alignment explanation
Indices: 48144904--48145768 Score: 433
Period size: 45 Copynumber: 18.7 Consensus size: 45
48144894 AGTCATCATG
* * * *
48144904 GCAAATCTTATCTTCTTGAAGTTGCAGTGGAGCAAACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * *
48144949 GCGAATCTTATTTCCCTGAAGTTATAGTGGAACAGATTAAAGCTATAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A
** * * *
48144998 TTATACATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATA
1 GCA-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
** * * **
48145045 GTGAATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAGCCA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * * *
48145090 -CAAACCTTATCTCCCTGAAATTGCAGTGGAATAGGTTAAAAATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * *
48145134 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
**
48145179 -CAAATCCCATAC-CCCTGAAGTTGCAGTGG-G-ATGGATTGAAGATCATA
1 GCAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCA--GATTGAAG---ATA
*
48145226 GCAAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * * * **
48145271 -CAAGTCTCATCTCCCTGAAGGTGTAGTGGAACAGCCTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
48145315 GCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAACTATAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAA-GAT--A
** * * * * *
48145364 TTGCAGGTCTTATCTCCCTAAAGTTGTAGTGGAACAGACTAAAGATA
1 --GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
48145411 GCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTATAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGATA
** * ** * **
48145462 GCAAATCTTATAC-CTTTGAAGCTAAAGTAGG-TCAGATCAAAGTTATCA
1 GCAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAG--AT-A
* * * **
48145510 TGGCGAATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGCCA
1 --GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
48145557 -CTAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAAATAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A
* * * * *
48145602 GCTATAAGTCTTATCTCTCTAAAGTTGCGGTGGAGCGGACTGAAGATA
1 GC-A-AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
** * * ** *
48145650 GTGAATCTTATCTCCCTGAGGTTACAGCAGAGCAG-TTGAAGACA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * * *
48145694 -CAAATCTCATCTCCTTGAAGTTGTAGCGGAGTAGGTTGAAGCTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
48145738 -CGATTCGTATCTCTCTGAAGTTGTAGTGGAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
48145769 TGAATCGAAG
Statistics
Matches: 622, Mismatches: 151, Indels: 95
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.00
43 26 0.04
44 175 0.28
45 195 0.31
46 7 0.01
47 13 0.02
48 36 0.06
49 42 0.07
50 33 0.05
51 92 0.15
52 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (45 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:48145114 original size:44 final size:44
Alignment explanation
Indices: 48145006--48145345 Score: 227
Period size: 44 Copynumber: 7.6 Consensus size: 44
48144996 AATTATACAT
* * * * * ** *
48145006 CTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA-CAAAC
* *
48145051 CTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAAC
* * * * ** *
48145095 CTTATCTCCCTGAAATTGCAGTGGAATAGGTTAAAAATAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT-ACAAAC
*
48145140 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAA-C
* * *
48145185 C-CATAC-CCCTGAAGTTGCAGTGG-GATGGATTGAAGATCATAGCAAAT
1 CTTAT-CTCCCTGAAGTTGCAGTGGAG-TAGATTGAAG--C-TA-CAAAC
* * ** **
48145232 ATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAAC
* * * ** ** * *
48145276 CTCATCTCCCTGAAGGTGTAGTGGAACAGCCTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA-CAAAC
* *
48145321 CTTATTTCCCTGAAGTTGTAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
48145346 ACAGATTAAA
Statistics
Matches: 234, Mismatches: 49, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
43 1 0.00
44 100 0.43
45 99 0.42
47 3 0.01
48 30 0.13
49 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAAC
Found at i:48145159 original size:89 final size:89
Alignment explanation
Indices: 48145048--48145345 Score: 323
Period size: 89 Copynumber: 3.3 Consensus size: 89
48145038 GAAGATAGTG
* ** * *
48145048 AATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAGCCACAAACCTTATCTCCCTGAAATTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAACCTCATCTCCCTGAAGTTG
*
48145113 CAGTGGAATAGGTTAAAAATAACA
66 CAGTGGAATAGGTTAAAAATAGCA
48145137 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCC-CATAC-CCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAA-CCTCAT-CTCCCTGAAGT
* *
48145200 TGCAGTGGGAT-GGATTGAAGATCATAGCA
64 TGCAGTGGAATAGG-TT-AA-A-AATAGCA
* * * ** *
48145229 AATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTCATCTCCCTGAAGGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAACCTCATCTCCCTGAAGTTG
* * ** * *
48145294 TAGTGGAACAGCCTGAAGATAGCA
66 CAGTGGAATAGGTTAAAAATAGCA
* *
48145318 AATCTTATTTCCCTGAAGTTGTAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
48145346 ACAGATTAAA
Statistics
Matches: 176, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
88 2 0.01
89 96 0.55
90 6 0.03
91 4 0.02
92 67 0.38
93 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAACCTCATCTCCCTGAAGTTG
CAGTGGAATAGGTTAAAAATAGCA
Found at i:48145471 original size:96 final size:93
Alignment explanation
Indices: 48144905--48145472 Score: 379
Period size: 96 Copynumber: 6.1 Consensus size: 93
48144895 GTCATCATGG
* * * * * * *
48144905 CAAATCTTATCTTCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTGAAG
** *
48144970 TTATAGTGGAACAGATTAAAGCTATAAATTA
66 TTGCAGTGGAACAGATTAAAG--ATAGA-TA
* * * * * * ** *
48145001 TACATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAGTGAATCTTATCTCCCTGAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTGAAG
** **
48145066 TTGCAGTGGAGTAGATT---GA-AGCCA
66 TTGCAGTGGAACAGATTAAAGATAGATA
* * * ** * *
48145090 CAAACCTTATCTCCCTGAAATTGCAGTGGAATAGGTTAAAAATAACAAATCTTATCTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTGAAG
** *
48145155 TTGCAGTGGAGTAGATT---GA-AGTTA
66 TTGCAGTGGAACAGATTAAAGATAGATA
** * ** * * *
48145179 CAAATCCCATAC-CCCTGAAGTTGCAGTGGGATGGATTGAAGATCATAGCAAATATTATCTCCCT
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAACAGACT-AA-A-GATAGCAAATCTTATCTCCCT
* *
48145243 GAAGTTGCAGTGGAGCAGATTGAA-AT---TA
62 GAAGTTGCAGTGGAACAGATTAAAGATAGATA
* * * * * * *
48145271 CAAGTCTCATCTCCCTGAAGGTGTAGTGGAACAGCCTGAAGATAGCAAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTGAAG
* * * *
48145336 TTGTAGTGGAACAGATTAAAACTATAAATTG
66 TTGCAGTGGAACAGATT-AAA-GATAGA-TA
** * * * * *
48145367 CAGGTCTTATCTCCCTAAAGTTGTAGTGGAACAGACTAAAGATAGCGAATCTTATTTCCCTAAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTGAAG
48145432 TTGCAGTGGAACAGATTAAAGCTATAGATA
66 TTGCAGTGGAACAGATTAAAG--ATAGATA
48145462 GCAAATCTTAT
1 -CAAATCTTAT
48145473 ACCTTTGAAG
Statistics
Matches: 376, Mismatches: 77, Indels: 38
0.77 0.16 0.08
Matches are distributed among these distances:
89 137 0.36
90 7 0.02
91 4 0.01
92 68 0.18
93 1 0.00
94 1 0.00
95 4 0.01
96 154 0.41
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (93 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTGAAG
TTGCAGTGGAACAGATTAAAGATAGATA
Found at i:48148265 original size:15 final size:15
Alignment explanation
Indices: 48148232--48148270 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
48148222 AAATTTAGAT
**
48148232 ATTATTATTATAAGT
1 ATTATTATTATAACA
*
48148247 ATTATTATTATCACA
1 ATTATTATTATAACA
48148262 ATTATTATT
1 ATTATTATT
48148271 TTCATTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (15 bp):
ATTATTATTATAACA
Found at i:48148267 original size:18 final size:18
Alignment explanation
Indices: 48148231--48148270 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48148221 AAAATTTAGA
* *
48148231 TATTATTATTATAAGTAT
1 TATTATTATCACAAGTAT
*
48148249 TATTATTATCACAATTAT
1 TATTATTATCACAAGTAT
48148267 TATT
1 TATT
48148271 TTCATTGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (18 bp):
TATTATTATCACAAGTAT
Found at i:48151831 original size:89 final size:90
Alignment explanation
Indices: 48151692--48151893 Score: 243
Period size: 89 Copynumber: 2.2 Consensus size: 90
48151682 ACCGTTAAAC
* * *
48151692 TTTTTCAAAAAAAGCAATTAAACTCCTCCTCTCTTTTTTTGCACTCAATT-GAGCACTTGAACTT
1 TTTTTCAAAAAAAGCAATT-AAGT-CTCCTCTCTTTTTTTACACTCAATTGGA-CACTTAAACTT
* *
48151756 TCAAAATGCATTAAAAAGGCCCTC-AAA
63 TCAAAATGCATCAAAAAGACCCTCAAAA
* *
48151783 TTTCTTCAAAAAAAAGCAATTAAGT-TCCT-TTTTTTTTTACACTCAATTGGATACTTAAACTTT
1 TTT-TTC-AAAAAAAGCAATTAAGTCTCCTCTCTTTTTTTACACTCAATTGGACACTTAAACTTT
**
48151846 CAAAATGCATCAAAATTACCCTCAAAA
64 CAAAATGCATCAAAAAGACCCTCAAAA
48151873 TTTTTC-AAAAAAGCAATTAAG
1 TTTTTCAAAAAAAGCAATTAAG
48151894 GCGCTGCTCT
Statistics
Matches: 98, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
87 15 0.15
89 49 0.50
90 12 0.12
91 3 0.03
92 6 0.06
93 13 0.13
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (90 bp):
TTTTTCAAAAAAAGCAATTAAGTCTCCTCTCTTTTTTTACACTCAATTGGACACTTAAACTTTCA
AAATGCATCAAAAAGACCCTCAAAA
Found at i:48151967 original size:27 final size:26
Alignment explanation
Indices: 48151924--48151996 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
48151914 TAGAAAAATA
*
48151924 AATAAAAATAAATAAATTTTTAAATTTT
1 AATAAAAATATA-AAATTTTTAAA-TTT
**
48151952 AATAAAAATATAAAATTTCCAAATTT
1 AATAAAAATATAAAATTTTTAAATTT
* *
48151978 ATTAAAAAT-TAGAATTTTT
1 AATAAAAATATAAAATTTTT
48151997 TATAAAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 7 0.18
26 11 0.29
27 9 0.24
28 11 0.29
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (26 bp):
AATAAAAATATAAAATTTTTAAATTT
Found at i:48152052 original size:21 final size:23
Alignment explanation
Indices: 48152028--48152075 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 23
48152018 AAAAAATTGT
*
48152028 AAAATTTTGTAAAAAT-CAT-AA
1 AAAATTTTATAAAAATGCATCAA
48152049 AAAA-TTTATAAAAATGCATCAA
1 AAAATTTTATAAAAATGCATCAA
48152071 AAAAT
1 AAAAT
48152076 CCTTTTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 10 0.43
21 7 0.30
22 6 0.26
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAATTTTATAAAAATGCATCAA
Found at i:48152293 original size:9 final size:9
Alignment explanation
Indices: 48152274--48152418 Score: 51
Period size: 10 Copynumber: 15.0 Consensus size: 9
48152264 TTTTACAAAA
48152274 TTTATATTTT
1 TTTATA-TTT
48152284 TTTATATTT
1 TTTATATTT
*
48152293 TGTATAATTT
1 TTTAT-ATTT
* *
48152303 TCTTACAACTT
1 T-TTA-TATTT
* * *
48152314 TATAAAATT
1 TTTATATTT
48152323 -TTATAGTTT
1 TTTATA-TTT
*
48152332 TTTTTATATT
1 TTTATAT-TT
*
48152342 TCTATATATT
1 TTTATAT-TT
*
48152352 TCTATATATT
1 TTTATAT-TT
48152362 TTTATGA-TT
1 TTTAT-ATTT
**
48152371 TTTATAAAAT
1 TTTAT-ATTT
*
48152381 TTTACAATTT
1 TTTA-TATTT
48152391 TTTATATTT
1 TTTATATTT
48152400 TTTATAATTT
1 TTTAT-ATTT
*
48152410 TTAATATTT
1 TTTATATTT
48152419 GAAATTTTTT
Statistics
Matches: 105, Mismatches: 20, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
8 3 0.03
9 35 0.33
10 60 0.57
11 7 0.07
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTATATTT
Found at i:48152317 original size:19 final size:18
Alignment explanation
Indices: 48152255--48152318 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
48152245 GTACGATAAT
48152255 TTTATAATTTTTTACAAAA
1 TTTATAATTTTTTAC-AAA
* * **
48152274 TTTATATTTTTTTATATT
1 TTTATAATTTTTTACAAA
*
48152292 TTGTATAATTTTCTTACAAC
1 TT-TATAATTTT-TTACAAA
48152312 TTTATAA
1 TTTATAA
48152319 AATTTTATAG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.09
19 26 0.74
20 6 0.17
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTATAATTTTTTACAAA
Found at i:48152325 original size:38 final size:39
Alignment explanation
Indices: 48152257--48152332 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 39
48152247 ACGATAATTT
***
48152257 TATAATTTTTTACAAAATTTATATTTTTTTATA-TTTTG
1 TATAATTTTTTACAAAATTTATAAAATTTTATAGTTTTG
*
48152295 TATAATTTTCTTAC-AACTTTATAAAATTTTATAGTTTT
1 TATAATTTT-TTACAAAATTTATAAAATTTTATAGTTTT
48152333 TTTTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 24 0.75
39 8 0.25
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (39 bp):
TATAATTTTTTACAAAATTTATAAAATTTTATAGTTTTG
Found at i:48152349 original size:10 final size:10
Alignment explanation
Indices: 48152336--48152362 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
48152326 TAGTTTTTTT
48152336 TATATTTCTA
1 TATATTTCTA
48152346 TATATTTCTA
1 TATATTTCTA
48152356 TATATTT
1 TATATTT
48152363 TTATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTCTA
Found at i:48152373 original size:10 final size:10
Alignment explanation
Indices: 48152360--48152411 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
48152350 TTTCTATATA
*
48152360 TTTTTATGA-
1 TTTTTATAAT
*
48152369 TTTTTATAAA
1 TTTTTATAAT
* *
48152379 ATTTTACAAT
1 TTTTTATAAT
48152389 TTTTTAT-AT
1 TTTTTATAAT
48152398 TTTTTATAAT
1 TTTTTATAAT
48152408 TTTT
1 TTTT
48152412 AATATTTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
9 17 0.49
10 18 0.51
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:48152376 original size:19 final size:19
Alignment explanation
Indices: 48152274--48152418 Score: 84
Period size: 19 Copynumber: 7.6 Consensus size: 19
48152264 TTTTACAAAA
*
48152274 TTTATATTTTTTTAT-ATT
1 TTTATATATTTTTATAATT
**
48152292 TTGTATA-ATTTTCT-TACAAC
1 TT-TATATATTTT-TATA-ATT
* * *
48152312 TTTATAAAATTTTATAGTTT
1 TTTATATATTTTTATA-ATT
* *
48152332 TTTTTATATTTCTATATATT
1 TTTATATATTTTTATA-ATT
* *
48152352 TCTATATATTTTTATGATT
1 TTTATATATTTTTATAATT
* * *
48152371 TTTATAAAATTTTACAATT
1 TTTATATATTTTTATAATT
48152390 TTT-TATATTTTTTATAATT
1 TTTATATA-TTTTTATAATT
48152409 TTTA-ATATTT
1 TTTATATATTT
48152419 GAAATTTTTT
Statistics
Matches: 93, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
18 13 0.14
19 45 0.48
20 35 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATATATTTTTATAATT
Found at i:48152401 original size:29 final size:28
Alignment explanation
Indices: 48152312--48152438 Score: 82
Period size: 29 Copynumber: 4.4 Consensus size: 28
48152302 TTCTTACAAC
* *
48152312 TTTATAAAATTTTATAGTTTTTTTTATATT
1 TTTATAAAATTTTA-AATTTTTTATAT-TT
* * *
48152342 TCTAT-ATATTTCTATATATTTTTATGA-TT
1 TTTATAAAATTT-TAAAT-TTTTTAT-ATTT
48152371 TTTATAAAATTTTACAATTTTTTATATTT
1 TTTATAAAATTTTA-AATTTTTTATATTT
* * * *
48152400 TTTAT--AATTTTTAATATTTGAAATTT
1 TTTATAAAATTTTAAATTTTTTATATTT
48152426 TTTATTAAAATTT
1 TTTA-TAAAATTT
48152439 AATAATATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
26 15 0.20
27 7 0.09
28 1 0.01
29 33 0.43
30 19 0.25
31 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTATAAAATTTTAAATTTTTTATATTT
Found at i:48152411 original size:20 final size:21
Alignment explanation
Indices: 48152312--48152411 Score: 68
Period size: 20 Copynumber: 5.0 Consensus size: 21
48152302 TTCTTACAAC
* * *
48152312 TTTATAAAATTTTATAGTTTT
1 TTTATATATTTTTATAATTTT
* *
48152333 TTT-TATATTTCTAT-ATATT
1 TTTATATATTTTTATAATTTT
* *
48152352 TCTATATATTTTTATGA--TT
1 TTTATATATTTTTATAATTTT
* * *
48152371 TTTATAAAATTTTACAA-TTT
1 TTTATATATTTTTATAATTTT
48152391 TTTATAT-TTTTTATAATTTT
1 TTTATATATTTTTATAATTTT
48152411 T
1 T
48152412 AATATTTGAA
Statistics
Matches: 60, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
19 26 0.43
20 30 0.50
21 4 0.07
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATATATTTTTATAATTTT
Found at i:48152976 original size:15 final size:15
Alignment explanation
Indices: 48152946--48152975 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48152936 TCTATCCCTC
48152946 TCTTTTTTTCTTTTT
1 TCTTTTTTTCTTTTT
48152961 TCTTTTTTT-TTTTT
1 TCTTTTTTTCTTTTT
48152975 T
1 T
48152976 TTGAGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TCTTTTTTTCTTTTT
Found at i:48162749 original size:25 final size:25
Alignment explanation
Indices: 48162697--48162749 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
48162687 AGATCATGTA
**
48162697 AGCTGTATAACAGAAAGCTTATCCG
1 AGCTGTATAACAGAAAGCTTATAAG
48162722 AGCTGTATAAC-GAGAAGCTTATAAG
1 AGCTGTATAACAGA-AAGCTTATAAG
48162747 AGC
1 AGC
48162750 CATATTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
AGCTGTATAACAGAAAGCTTATAAG
Found at i:48169191 original size:15 final size:16
Alignment explanation
Indices: 48169149--48169191 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
48169139 TTATTATTTT
*
48169149 AAGCAAAATAAAATAA
1 AAGCAAAATAAAACAA
*
48169165 AA-TAAAATAAAACAA
1 AAGCAAAATAAAACAA
48169180 AAGCAAAA-AAAA
1 AAGCAAAATAAAA
48169192 GTAAAAGATC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.09
Consensus pattern (16 bp):
AAGCAAAATAAAACAA
Found at i:48174445 original size:8 final size:9
Alignment explanation
Indices: 48174402--48174448 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
48174392 TTTTAAAAAA
48174402 TAAACA-TT
1 TAAACATTT
48174410 TAAACATTT
1 TAAACATTT
*
48174419 TAAAAATATT
1 TAAACAT-TT
48174429 TAAACATTT
1 TAAACATTT
48174438 TAAA-ATTT
1 TAAACATTT
48174446 TAA
1 TAA
48174449 TAAAATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 13 0.37
9 14 0.40
10 8 0.23
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (9 bp):
TAAACATTT
Found at i:48174604 original size:2 final size:2
Alignment explanation
Indices: 48174599--48174646 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
48174589 AAAAAAAATC
*
48174599 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48174641 AT AT AT
1 AT AT AT
48174647 TCCTGCTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:48176837 original size:21 final size:23
Alignment explanation
Indices: 48176813--48176856 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48176803 ATATTTGAAT
48176813 ATTT-ATATAAATAT-ATAAAAA
1 ATTTAATATAAATATGATAAAAA
*
48176834 ATTTAAATATAATTATGATAAAA
1 ATTT-AATATAAATATGATAAAA
48176857 TATATAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTAATATAAATATGATAAAAA
Found at i:48183026 original size:26 final size:27
Alignment explanation
Indices: 48182996--48183057 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
48182986 CTTTTTGAAA
**
48182996 TATTTGAAATTTAGTCTCTTTATTT-T
1 TATTTGAAATTTAGTCTCTCCATTTCT
***
48183022 TATTTCTGATTTAGTCTCTCCATTTCT
1 TATTTGAAATTTAGTCTCTCCATTTCT
48183049 TATTTGAAA
1 TATTTGAAA
48183058 AAATTAAAGT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.23, C:0.13, G:0.08, T:0.56
Consensus pattern (27 bp):
TATTTGAAATTTAGTCTCTCCATTTCT
Found at i:48186429 original size:6 final size:6
Alignment explanation
Indices: 48186418--48186445 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48186408 AAGAGAAACC
48186418 CCATGA CCATGA CCATGA CCATGA CCAT
1 CCATGA CCATGA CCATGA CCATGA CCAT
48186446 CCAACAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (6 bp):
CCATGA
Found at i:48189118 original size:2 final size:2
Alignment explanation
Indices: 48189111--48189174 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
48189101 AATTACCTAG
48189111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
48189153 TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
48189175 CATTGTTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48196003 original size:10 final size:9
Alignment explanation
Indices: 48195963--48196002 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
48195953 ATATATATAT
48195963 ATCAATTCA
1 ATCAATTCA
*
48195972 ATCCATTCA
1 ATCAATTCA
48195981 ATCAACTTCA
1 ATCAA-TTCA
48195991 ATTCAATTCA
1 A-TCAATTCA
48196001 AT
1 AT
48196003 TTCAAAGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 13 0.48
10 10 0.37
11 4 0.15
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (9 bp):
ATCAATTCA
Found at i:48197621 original size:29 final size:29
Alignment explanation
Indices: 48197579--48197637 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
48197569 GGTTCATAGC
48197579 TTAGTCTACCATGCAATTTCGATTAACTT
1 TTAGTCTACCATGCAATTTCGATTAACTT
*
48197608 TTAGTCTACCATGCAATTTTGATTAACTT
1 TTAGTCTACCATGCAATTTCGATTAACTT
48197637 T
1 T
48197638 AATATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (29 bp):
TTAGTCTACCATGCAATTTCGATTAACTT
Found at i:48198817 original size:17 final size:18
Alignment explanation
Indices: 48198780--48198817 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
48198770 ATAAAAAACC
*
48198780 ATAAAAATAATTAATATT
1 ATAAAAATAATTAATAAT
*
48198798 ATAAAAATATTTAA-AAT
1 ATAAAAATAATTAATAAT
48198815 ATA
1 ATA
48198818 TGTAACAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAAATAATTAATAAT
Found at i:48198891 original size:22 final size:23
Alignment explanation
Indices: 48198850--48198900 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
48198840 ATAAACTTAT
48198850 AAAAATTCATAAAAACTTATAAA
1 AAAAATTCATAAAAACTTATAAA
48198873 AAAAATTC-TAATAAA-TTATAAA
1 AAAAATTCATAA-AAACTTATAAA
48198895 AAAAAT
1 AAAAAT
48198901 AAAACATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAATTCATAAAAACTTATAAA
Found at i:48198937 original size:19 final size:21
Alignment explanation
Indices: 48198913--48198955 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
48198903 AACATATTTG
*
48198913 AAATTTCT-ATAAAA-TTATA
1 AAATTTATAATAAAACTTATA
48198932 AAATTTATAATAAAACTTATA
1 AAATTTATAATAAAACTTATA
48198953 AAA
1 AAA
48198956 ACTTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 6 0.29
21 8 0.38
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTATAATAAAACTTATA
Found at i:48198941 original size:9 final size:8
Alignment explanation
Indices: 48198920--48199012 Score: 50
Period size: 9 Copynumber: 11.1 Consensus size: 8
48198910 TTGAAATTTC
48198920 TATAAAAT
1 TATAAAAT
48198928 TATAAAAT
1 TATAAAAT
*
48198936 T-TATAA-
1 TATAAAAT
*
48198942 TA-AAACT
1 TATAAAAT
48198949 TATAAAAACT
1 TAT-AAAA-T
48198959 TATAAATAT
1 TATAAA-AT
48198968 TATAATAAAT
1 TAT-A-AAAT
*
48198978 TATAACA-
1 TATAAAAT
48198985 TATCAATAAT
1 TAT-AA-AAT
*
48198995 TATAAACCT
1 TATAAA-AT
48199004 TATAAAAT
1 TATAAAAT
48199012 T
1 T
48199013 CAAAACAAGT
Statistics
Matches: 65, Mismatches: 8, Indels: 24
0.67 0.08 0.25
Matches are distributed among these distances:
6 3 0.05
7 9 0.14
8 16 0.25
9 21 0.32
10 14 0.22
11 2 0.03
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAAAAT
Found at i:48198958 original size:10 final size:9
Alignment explanation
Indices: 48198836--48198982 Score: 69
Period size: 10 Copynumber: 14.7 Consensus size: 9
48198826 CATTACAAAT
*
48198836 TTATATAAAC
1 TTATA-AAAA
48198846 TTATAAAAA
1 TTATAAAAA
48198855 TTCATAAAAA
1 TT-ATAAAAA
48198865 CTTATAAAAAAAA
1 -TTAT---AAAAA
*
48198878 TTCTAATAAA
1 TTATAA-AAA
48198888 TTATAAAAA
1 TTATAAAAA
**
48198897 AAATAAAACA
1 TTATAAAA-A
* * *
48198907 TATTTGAAAT
1 T-TATAAAAA
*
48198917 TTCTATAAAA
1 TTATA-AAAA
*
48198927 TTATAAAAT
1 TTATAAAAA
48198936 TTATAATAAAA
1 TTAT-A-AAAA
48198947 CTTATAAAAA
1 -TTATAAAAA
*
48198957 CTTATAAATA
1 -TTATAAAAA
48198967 TTATAATAAA
1 TTATAA-AAA
48198977 TTATAA
1 TTATAA
48198983 CATATCAATA
Statistics
Matches: 106, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
9 31 0.29
10 53 0.50
11 10 0.09
12 7 0.07
13 5 0.05
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:48198970 original size:19 final size:20
Alignment explanation
Indices: 48198948--48198987 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
48198938 ATAATAAAAC
48198948 TTATAA-AAACTTATAA-ATA
1 TTATAATAAA-TTATAACATA
48198967 TTATAATAAATTATAACATA
1 TTATAATAAATTATAACATA
48198987 T
1 T
48198988 CAATAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATAATAAATTATAACATA
Found at i:48201695 original size:16 final size:16
Alignment explanation
Indices: 48201674--48201738 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
48201664 CATTTGGTTC
*
48201674 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
48201690 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
48201706 GGTGTAATAGAATAGA
1 GCTGTAATGGAATAGA
48201722 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
48201738 G
1 G
48201739 GCGTAATAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.40, C:0.05, G:0.31, T:0.25
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:48201719 original size:32 final size:32
Alignment explanation
Indices: 48201676--48201747 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
48201666 TTTGGTTCGC
*
48201676 TGTAATGGAATAAAGCTGTAATGGAATAGAGG
1 TGTAATAGAATAAAGCTGTAATGGAATAGAGG
*
48201708 TGTAATAGAATAGAGCTGTAATGGAATAGAGG
1 TGTAATAGAATAAAGCTGTAATGGAATAGAGG
*
48201740 CGTAATAG
1 TGTAATAG
48201748 TAATTCAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.40, C:0.04, G:0.31, T:0.25
Consensus pattern (32 bp):
TGTAATAGAATAAAGCTGTAATGGAATAGAGG
Found at i:48201790 original size:45 final size:44
Alignment explanation
Indices: 48201727--48201818 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
48201717 ATAGAGCTGT
* *
48201727 AATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGACGTAATAGT-ATTC-ATGTGTTTGGTTGAATAG
*
48201772 AATGGAATAGA-ACTGTAATAGTATTCTTGTGTTTGGTTGAATAG
1 AATGGAATAGAGAC-GTAATAGTATTCATGTGTTTGGTTGAATAG
48201816 AAT
1 AAT
48201819 AATGTTGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 22 0.52
45 19 0.45
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGACGTAATAGTATTCATGTGTTTGGTTGAATAG
Found at i:48203512 original size:29 final size:29
Alignment explanation
Indices: 48203480--48203554 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
48203470 AAATGACCTC
*
48203480 TTTATAATTTTTATAATTTATT-TGAATTT
1 TTTATAATTTTTATAAGTTATTATG-ATTT
48203509 TTTAT-ATTCTTTATAAGTTATTATGATTT
1 TTTATAATT-TTTATAAGTTATTATGATTT
*
48203538 TTTATAAGTTATTATAA
1 TTTATAA-TTTTTATAA
48203555 AGTTCTAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 3 0.08
29 26 0.65
30 9 0.22
31 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTATAATTTTTATAAGTTATTATGATTT
Found at i:48203542 original size:10 final size:10
Alignment explanation
Indices: 48203480--48203554 Score: 57
Period size: 10 Copynumber: 7.7 Consensus size: 10
48203470 AAATGACCTC
48203480 TTTATAA-TT
1 TTTATAATTT
48203489 TTTATAATTT
1 TTTATAATTT
*
48203499 ATTT-GAATTT
1 -TTTATAATTT
*
48203509 TTTAT-ATTC
1 TTTATAATTT
*
48203518 TTTATAAGTT
1 TTTATAATTT
* *
48203528 ATTATGATTT
1 TTTATAATTT
*
48203538 TTTATAAGTT
1 TTTATAATTT
*
48203548 ATTATAA
1 TTTATAA
48203555 AGTTCTAAAC
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
9 18 0.36
10 29 0.58
11 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.61
Consensus pattern (10 bp):
TTTATAATTT
Found at i:48209423 original size:27 final size:27
Alignment explanation
Indices: 48209374--48209429 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
48209364 GCACCTTTTG
* * *
48209374 CCAAAGGTACCAGTGACAGAGGCGGCA
1 CCAAAGGTACCACTGACACAGGCGACA
* *
48209401 CCAAAGGTGCCACTGCCACAGGCGACA
1 CCAAAGGTACCACTGACACAGGCGACA
48209428 CC
1 CC
48209430 TGTGCCATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.34, G:0.29, T:0.07
Consensus pattern (27 bp):
CCAAAGGTACCACTGACACAGGCGACA
Found at i:48209618 original size:20 final size:21
Alignment explanation
Indices: 48209576--48209619 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
48209566 AAAGAAAAAA
*
48209576 AAAGAGAGAAAGAGAATAGAG
1 AAAGAGAGAAAGAGAAGAGAG
48209597 AAAG-GAGAAAGA-AAGAGAAG
1 AAAGAGAGAAAGAGAAGAG-AG
48209617 AAA
1 AAA
48209620 AAAATAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (21 bp):
AAAGAGAGAAAGAGAAGAGAG
Found at i:48210011 original size:3 final size:3
Alignment explanation
Indices: 48209996--48210047 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
48209986 TAGTAAAAAC
*
48209996 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48210044 TAT T
1 TAT T
48210048 GTGTTAGTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:48210021 original size:40 final size:41
Alignment explanation
Indices: 48209920--48210022 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 41
48209910 TAGTTTTTAC
* *
48209920 ATTATATTATTGTTAGTTATTATTTTTAGTAAAACCCTAATT
1 ATTATATTATTGTTA-TTATTATCTTTAGTAAAACACTAATT
*
48209962 ATTATAGTTA--GTTAGTATTATCTTTAGTAAAA-ACT-ATT
1 ATTATA-TTATTGTTATTATTATCTTTAGTAAAACACTAATT
*
48210000 ATTAATATTATTATTATTATTAT
1 ATT-ATATTATTGTTATTATTAT
48210023 TATTATTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
38 9 0.17
39 5 0.10
40 25 0.48
41 4 0.08
42 6 0.12
43 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (41 bp):
ATTATATTATTGTTATTATTATCTTTAGTAAAACACTAATT
Done.