Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 67 of 82
Found at i:24251563 original size:23 final size:23
Alignment explanation
Indices: 24251527--24251577 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
24251517 CGCTACCGTG
* * *
24251527 TCACATATTCTCACGATGTCGTC
1 TCACACATTATCACCATGTCGTC
* *
24251550 TCACACATTATCACCCTGTCGTG
1 TCACACATTATCACCATGTCGTC
24251573 TCACA
1 TCACA
24251578 GATTCCCTCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.12, T:0.31
Consensus pattern (23 bp):
TCACACATTATCACCATGTCGTC
Found at i:24251600 original size:46 final size:46
Alignment explanation
Indices: 24251457--24251602 Score: 125
Period size: 46 Copynumber: 3.2 Consensus size: 46
24251447 CTATGTCGTT
* * * *
24251457 TCACACATTATGACCCTGCCGTCTCACACG-TTCTGTCCATGGCATG
1 TCACACATTATAACCCTGCCGTGTCACA-GATTCTCTCCATGGCGTG
* * * * * * *
24251503 TCACACACTCTA-AACGCTACCGTGTCACATATTCTCACGATGTCGTC
1 TCACACA-T-TATAACCCTGCCGTGTCACAGATTCTCTCCATGGCGTG
* * *
24251550 TCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCATGGCGTG
1 TCACACATTATAACCCTGCCGTGTCACAGATTCTCTCCATGGCGTG
24251596 TCACACA
1 TCACACA
24251603 CTCTAAAACT
Statistics
Matches: 75, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
45 2 0.03
46 40 0.53
47 31 0.41
48 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (46 bp):
TCACACATTATAACCCTGCCGTGTCACAGATTCTCTCCATGGCGTG
Found at i:24251622 original size:93 final size:93
Alignment explanation
Indices: 24251331--24251624 Score: 281
Period size: 93 Copynumber: 3.1 Consensus size: 93
24251321 GTCACACCCG
* *
24251331 TGTCACATATTCTCACCG-TGTCGTCTCACACATTAACACCCTGTCGTGTCACAAATTCCCTCCA
1 TGTCACATATTCTCA-CGATGTCGTCTCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCA
* *
24251395 TGGTGTGTC-CACACTCTAAACCCTGCCGTGTCACA
65 TGGCGTGTCACACACTCTAAA-ACT----TGT--CA
* * * * * * * * **
24251430 CCCGTCACACATTATCACTATGTCGTTTCACACATTATGACCCTGCCGTCTCACACG-TTCTGTC
1 --TGTCACATATTCTCACGATGTCGTCTCACACATTATCACCCTGTCGTGTCACA-GATTCCCTC
* * ** *
24251494 CATGGCATGTCACACACTCT-AAACGCTACCG
63 CATGGCGTGTCACACACTCTAAAAC-TTGTCA
24251525 TGTCACATATTCTCACGATGTCGTCTCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCAT
1 TGTCACATATTCTCACGATGTCGTCTCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCAT
24251590 GGCGTGTCACACACTCTAAAACTTGTCA
66 GGCGTGTCACACACTCTAAAACTTGTCA
24251618 TGTCACA
1 TGTCACA
24251625 CCCATGTCAC
Statistics
Matches: 153, Mismatches: 34, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
92 1 0.01
93 78 0.51
94 4 0.03
95 1 0.01
97 1 0.01
100 2 0.01
101 58 0.38
102 8 0.05
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (93 bp):
TGTCACATATTCTCACGATGTCGTCTCACACATTATCACCCTGTCGTGTCACAGATTCCCTCCAT
GGCGTGTCACACACTCTAAAACTTGTCA
Found at i:24251882 original size:34 final size:35
Alignment explanation
Indices: 24251844--24251923 Score: 90
Period size: 37 Copynumber: 2.3 Consensus size: 35
24251834 TATACCCTGT
* *
24251844 CGTGTCACAC-TTGTCTCACATATTCTCACCATGA
1 CGTGTCACACATTGTCTCACACATTCCCACCATGA
* *
24251878 CGTGTCACACATGTTGTGTCACACATTCCCACCATGT
1 CGTGTCACACA--TTGTCTCACACATTCCCACCATGA
*
24251915 CGTTTCACA
1 CGTGTCACA
24251924 AACTCTAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 10 0.26
37 28 0.74
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.31
Consensus pattern (35 bp):
CGTGTCACACATTGTCTCACACATTCCCACCATGA
Found at i:24263707 original size:16 final size:16
Alignment explanation
Indices: 24263679--24263717 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
24263669 GGTTCAATGT
*
24263679 AAAA-AAAATAAAAAG
1 AAAAGAAAAGAAAAAG
24263694 AAAAGAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
24263710 AATAAGAA
1 AA-AAGAA
24263718 TCAATTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 12 0.57
17 5 0.24
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:24269320 original size:276 final size:276
Alignment explanation
Indices: 24268769--24269321 Score: 1063
Period size: 276 Copynumber: 2.0 Consensus size: 276
24268759 CATGTAGCAC
24268769 AGTAATTTAAGAAATTGCCAAAATTGGCAATTCTTTTTCCTTTTATAAAATTCAAATGAAATTCG
1 AGTAATTTAAGAAATTGCCAAAATTGGCAATTCTTTTTCCTTTTATAAAATTCAAATGAAATTCG
24268834 AGTGAAATAAAATGAACAAGAAATGAAATTCCCAAAACTTCAAATAAAAGAAAATCAAAACGAAA
66 AGTGAAATAAAATGAACAAGAAATGAAATTCCCAAAACTTCAAATAAAAGAAAATCAAAACGAAA
24268899 AAAAAAAAAAAACCTATAAAATCTGAAGCTCCTTGAAATTTTGTAAAAAAAAATGTCGTTATATG
131 AAAAAAAAAAAACCTATAAAATCTGAAGCTCCTTGAAATTTTGTAAAAAAAAATGTCGTTATATG
24268964 ATATTAATATAATGTTGATGTAAAAAGTGAAAAATGTTATATGATCACATTAACATGTCATGTCA
196 ATATTAATATAATGTTGATGTAAAAAGTGAAAAATGTTATATGATCACATTAACATGTCATGTCA
24269029 TTATCAATTATGATAT
261 TTATCAATTATGATAT
24269045 NAGTAATTTAAGAAATTGCCAAAATTGGCAATTCTTTTTCCTTTTATAAAATTCAAATGAAATTC
1 -AGTAATTTAAGAAATTGCCAAAATTGGCAATTCTTTTTCCTTTTATAAAATTCAAATGAAATTC
* *
24269110 GAGTGAAATGAAATGAACAAGAAATGAAATTCCCAAGACTTCAAATAAAAGAAAATCAAAACG-A
65 GAGTGAAATAAAATGAACAAGAAATGAAATTCCCAAAACTTCAAATAAAAGAAAATCAAAACGAA
24269174 AAAAAAAAAAAAACCTATAAAATCTGAAGCTCCTTGAAATTTTGTAAAAAAAAATGTCGTTATAT
130 AAAAAAAAAAAAACCTATAAAATCTGAAGCTCCTTGAAATTTTGTAAAAAAAAATGTCGTTATAT
24269239 GATATTAATATAATGTTGATGTAAAAAGTGAAAAATGTTATATGATCACATTAACATGTCATGTC
195 GATATTAATATAATGTTGATGTAAAAAGTGAAAAATGTTATATGATCACATTAACATGTCATGTC
*
24269304 ATTATCTATTATGATAT
260 ATTATCAATTATGATAT
24269321 A
1 A
24269322 TTAGTATGTC
Statistics
Matches: 273, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
275 1 0.00
276 147 0.54
277 125 0.46
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (276 bp):
AGTAATTTAAGAAATTGCCAAAATTGGCAATTCTTTTTCCTTTTATAAAATTCAAATGAAATTCG
AGTGAAATAAAATGAACAAGAAATGAAATTCCCAAAACTTCAAATAAAAGAAAATCAAAACGAAA
AAAAAAAAAAAACCTATAAAATCTGAAGCTCCTTGAAATTTTGTAAAAAAAAATGTCGTTATATG
ATATTAATATAATGTTGATGTAAAAAGTGAAAAATGTTATATGATCACATTAACATGTCATGTCA
TTATCAATTATGATAT
Found at i:24269473 original size:30 final size:30
Alignment explanation
Indices: 24269434--24269490 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
24269424 ATAAGAATTC
24269434 ATTTAATTCAAAATAAAAATATAAAAATAT
1 ATTTAATTCAAAATAAAAATATAAAAATAT
* * *
24269464 ATTTCATTCAAAGTAAAATTATAAAAA
1 ATTTAATTCAAAATAAAAATATAAAAA
24269491 ATTAATTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (30 bp):
ATTTAATTCAAAATAAAAATATAAAAATAT
Found at i:24275289 original size:2 final size:2
Alignment explanation
Indices: 24275284--24275336 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
24275274 TAATACTTTT
24275284 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
24275326 TA TA TGA TA TA
1 TA TA T-A TA TA
24275337 GTTACTTTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24278742 original size:30 final size:30
Alignment explanation
Indices: 24278708--24278768 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
24278698 TTGATCAAAT
*
24278708 GAAGAATTACCTTGTTGATCTTCAACTTTG
1 GAAGAATTACCTTGTTGATCTCCAACTTTG
*
24278738 GAAGAATTACCTTGTTTATCTCCAACTTTG
1 GAAGAATTACCTTGTTGATCTCCAACTTTG
24278768 G
1 G
24278769 TTCGTTTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (30 bp):
GAAGAATTACCTTGTTGATCTCCAACTTTG
Found at i:24284945 original size:14 final size:14
Alignment explanation
Indices: 24284897--24284958 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
24284887 ATTTATTTTA
*
24284897 TTAATAATTGATAATT
1 TTAAT-ATTAATAA-T
24284913 TTAAATATTAAT-AT
1 TT-AATATTAATAAT
24284927 TT-AT-TT-ATAAT
1 TTAATATTAATAAT
*
24284938 TTAATATTAATATT
1 TTAATATTAATAAT
24284952 TTAATAT
1 TTAATAT
24284959 ATTAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
10 2 0.05
11 6 0.15
12 4 0.10
13 2 0.05
14 14 0.36
15 1 0.03
16 7 0.18
17 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTAATATTAATAAT
Found at i:24284959 original size:24 final size:24
Alignment explanation
Indices: 24284907--24284967 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
24284897 TTAATAATTG
*
24284907 ATAATTTTAAATATTAATATTTATTT
1 ATAA-TTT-AATATTAATATTTATAT
24284933 ATAATTTAATATTAATATTT-TA-
1 ATAATTTAATATTAATATTTATAT
24284955 AT-ATATTAATATT
1 ATAAT-TTAATATT
24284968 TTATTAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.06
22 10 0.30
23 1 0.03
24 13 0.39
25 3 0.09
26 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATAATTTAATATTAATATTTATAT
Found at i:24290379 original size:18 final size:19
Alignment explanation
Indices: 24290353--24290403 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
24290343 ACACATTTAC
*
24290353 TTAATCGTGTTAT-CGTGT
1 TTAAACGTGTTATACGTGT
24290371 TTAAACGTG-TATACGTGT
1 TTAAACGTGTTATACGTGT
24290389 TTAAACGTGTATATA
1 TTAAACGTGT-TATA
24290404 TGACACGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 3 0.10
18 22 0.76
20 4 0.14
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (19 bp):
TTAAACGTGTTATACGTGT
Found at i:24291857 original size:27 final size:28
Alignment explanation
Indices: 24291818--24291876 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
24291808 TTTATTTTAT
* *
24291818 TTTATTTTTAAATATTAATAATTTATAA
1 TTTATTTTAAAATATTAATAATTGATAA
*
24291846 TTTA-TTTAAAATATTAATAATTGATCA
1 TTTATTTTAAAATATTAATAATTGATAA
24291873 TTTA
1 TTTA
24291877 AATATCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TTTATTTTAAAATATTAATAATTGATAA
Found at i:24291913 original size:117 final size:114
Alignment explanation
Indices: 24291642--24292019 Score: 386
Period size: 116 Copynumber: 3.2 Consensus size: 114
24291632 GGAAAATACG
* * * * * *
24291642 AATATTTTATTTATAATTTAAATATTATTATGATTATTTATTTTTAAATATTA-ATAATTTGAAA
1 AATATTTTATTTATAATTTAAA-GTCATTATGATTATTTATTTTT-ATTATTATTTTA-TTG--T
* * * *
24291706 AAAATTTAAAATATGAATAATTGACAATTTAAATATTAATAATTTAT-ATTTTCAAATGTT
61 AATA-TT-AAATATTAATAATT---TATTTAAATATTAATAATTTATCA-TTT-AAATATT
*
24291766 AATATTTTATTTATAATTTCAAAGTCATTATGATTATTTATTTTTATT-TTATTTTATTTTTAAA
1 AATATTTTATTTATAATTT-AAAGTCATTATGATTATTTATTTTTATTATTATTTTA-TTGT-AA
* * *
24291830 TATT-AATAATTTATAATTTATTTAAAATATTAATAATTGATCATTTAAATATC
63 TATTAAAT-ATTAATAATTTATTT-AAATATTAATAATTTATCATTTAAATATT
* * *
24291883 AATATTTTATTTATAATTTAAATGTTATTATGATTATTTATTTTTATTATTATTTTATTGTATTT
1 AATATTTTATTTATAATTTAAA-GTCATTATGATTATTTATTTTTATTATTATTTTATTGTAATA
* *
24291948 TTAAATATTAATAATTTATTTTTAATATTAATAATTTATCATTTAAATTTT
65 TTAAATATTAATAATTTA-TTTAAATATTAATAATTTATCATTTAAATATT
24291999 AATATTTTATTTATAATTTAA
1 AATATTTTATTTATAATTTAA
24292020 TCATTAATTT
Statistics
Matches: 221, Mismatches: 23, Indels: 28
0.81 0.08 0.10
Matches are distributed among these distances:
116 64 0.29
117 61 0.28
118 27 0.12
119 4 0.02
120 8 0.04
121 2 0.01
122 6 0.03
123 7 0.03
124 39 0.18
125 3 0.01
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (114 bp):
AATATTTTATTTATAATTTAAAGTCATTATGATTATTTATTTTTATTATTATTTTATTGTAATAT
TAAATATTAATAATTTATTTAAATATTAATAATTTATCATTTAAATATT
Found at i:24291935 original size:22 final size:21
Alignment explanation
Indices: 24291908--24292044 Score: 86
Period size: 21 Copynumber: 6.4 Consensus size: 21
24291898 ATTTAAATGT
*
24291908 TATTATGATTATTTATTTTTAT
1 TATTAT-ATTATTTATTTTTAA
*
24291930 TATTATTTTATTGTATTTTTAAA
1 TATTATATTATT-TATTTTT-AA
*
24291953 TATTA-ATAATTTATTTTTAA
1 TATTATATTATTTATTTTTAA
* *
24291973 TATTA-ATAATTTATCATTTAA
1 TATTATATTATTTAT-TTTTAA
* * *
24291994 -ATTTTAATATTTTATTTATAA
1 TATTATATTA-TTTATTTTTAA
* *
24292015 T-TTA-ATCATTAATTTTTAAA
1 TATTATATTATTTATTTTT-AA
24292035 TATTTATATT
1 TA-TTATATT
24292045 TTATTTATAA
Statistics
Matches: 89, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
19 7 0.08
20 24 0.27
21 25 0.28
22 25 0.28
23 8 0.09
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (21 bp):
TATTATATTATTTATTTTTAA
Found at i:24291964 original size:27 final size:25
Alignment explanation
Indices: 24291811--24292012 Score: 107
Period size: 22 Copynumber: 8.4 Consensus size: 25
24291801 ATTTATTTTT
24291811 ATTTTATTTTATTTTTAAATATTAATA
1 ATTTTA-TTTA-TTTTAAATATTAATA
*
24291838 ATTTATAATTTATTTAAAATATTAATA
1 ATTT-T-ATTTATTTTAAATATTAATA
* * *
24291865 A-TTGA-TCA-TTTAAATATCAAT-
1 ATTTTATTTATTTTAAATATTAATA
* *
24291886 ATTTTATTTATAATTTAAATGTT-ATT
1 ATTTTATTTAT--TTTAAATATTAATA
* *
24291912 ATGATTATTTATTTT---TATT-ATT
1 AT-TTTATTTATTTTAAATATTAATA
24291934 ATTTTATTGTATTTTTAAATATTAATA
1 ATTTTATT-TA-TTTTAAATATTAATA
24291961 A-TTTA--T-TTTT-AATATTAATA
1 ATTTTATTTATTTTAAATATTAATA
* *
24291981 A-TTTA-TCA-TTTAAATTTTAAT-
1 ATTTTATTTATTTTAAATATTAATA
24292002 ATTTTATTTAT
1 ATTTTATTTAT
24292013 AATTTAATCA
Statistics
Matches: 138, Mismatches: 16, Indels: 45
0.69 0.08 0.23
Matches are distributed among these distances:
20 15 0.11
21 14 0.10
22 36 0.26
23 11 0.08
24 1 0.01
25 5 0.04
26 20 0.14
27 30 0.22
28 5 0.04
29 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTTTATTTATTTTAAATATTAATA
Found at i:24291969 original size:20 final size:20
Alignment explanation
Indices: 24291946--24292050 Score: 97
Period size: 20 Copynumber: 5.2 Consensus size: 20
24291936 TTTATTGTAT
24291946 TTTTAAATATTAATAATTTA
1 TTTTAAATATTAATAATTTA
*
24291966 TTTTTAATATTAATAATTTA
1 TTTTAAATATTAATAATTTA
* *
24291986 TCATTTAAATTTTAATATTTTA
1 T--TTTAAATATTAATAATTTA
* *
24292008 -TTTATAAT-TTAATCATTAA
1 TTTTA-AATATTAATAATTTA
* *
24292027 TTTTTAAATATTTATATTTTA
1 -TTTTAAATATTAATAATTTA
24292048 TTT
1 TTT
24292051 ATAATTTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
19 12 0.18
20 29 0.43
21 11 0.16
22 16 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAATATTAATAATTTA
Found at i:24292015 original size:33 final size:35
Alignment explanation
Indices: 24291972--24292061 Score: 109
Period size: 33 Copynumber: 2.7 Consensus size: 35
24291962 TTTATTTTTA
*
24291972 ATATTAATAATTTATCATTTAAATTTT-AATATTT
1 ATATTTATAATTTATCATTTAAATTTTAAATATTT
*
24292006 -TATTTATAATTTAATCA-TTAATTTTTAAATATTT
1 ATATTTATAATTT-ATCATTTAAATTTTAAATATTT
*
24292040 ATATTT-T-ATTTATAATTTAAAT
1 ATATTTATAATTTATCATTTAAAT
24292062 GTTATTATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
32 3 0.06
33 28 0.58
34 12 0.25
35 5 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (35 bp):
ATATTTATAATTTATCATTTAAATTTTAAATATTT
Found at i:24292157 original size:148 final size:145
Alignment explanation
Indices: 24291926--24292497 Score: 642
Period size: 148 Copynumber: 3.9 Consensus size: 145
24291916 TTATTTATTT
* *
24291926 TTATTATTATTTTATTGTATTTTTAAATATTAATAA-TT-T-A-TT-TTT--AATATTAATAATT
1 TTATGATTA-TTTATTTTATTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAA-T
* * * * *
24291984 TATCATTTAAATTTTAATATTTTATTTATAATTTAATCATTAATTTTTAAATATTTATATTTTAT
64 TAACAATTAAATATTAATATTTTATTTATAATTTAATCATTAATTATTAAATATTAATATTTTAT
24292049 TTATAATTTAAATGTTA
129 TTATAATTTAAATGTTA
* * *
24292066 TTATGATTGTTTAATTTTCTTTTCTAAATATTAATAATTTATAATTTATTTATAATATTAATAAT
1 TTATGATTATTT-ATTTTATTTT-TAAATATTAATAATTTATAATTTATTTAAAATATTAATAAT
* * * *
24292131 TCAACAATTAAATATTAATACTTTATTTACAATTTAATCAATAATTTTTCAAATATTAATATTTT
64 T-AACAATTAAATATTAATATTTTATTTATAATTTAATCATTAATTATT-AAATATTAATATTTT
*
24292196 ATTT-TGAATTTAAATGCTA
127 ATTTAT-AATTTAAATGTTA
*
24292215 TTATGATTATTTTTTATTTTATTGTTTAAATATGAATAATTTATAATTTATTTAAAATATTAATA
1 TTATGATTA---TTTATTTTATT-TTTAAATATTAATAATTTATAATTTATTTAAAATATTAAT-
* * * ** * *
24292280 AATGATCATTTAAATATTAATATTTTATCAATAATTTAATCATT-A-TATAAAATACTAATATTT
61 AATTAACAATTAAATATTAATATTTTATTTATAATTTAATCATTAATTATTAAATATTAATATTT
24292343 TATTTATAATTTAAATGTTA
126 TATTTATAATTTAAATGTTA
* * *
24292363 TTATGATTATTTATTTATATTTTTAAATAATAATAATTGATAATTTATTTAAAATATTAATGATT
1 TTATGATTATTTATTT-TATTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATT
* ** **
24292428 AATAATCTAAATATTAATATTTTATTTTATAATTTAATCATTGATATTATTATTTATTTTTATTT
65 AACAAT-TAAATATTAATATTTTA-TTTATAATTTAATCATT-A-ATTATTAAATATTAATATTT
24292493 TATTT
126 TATTT
24292498 TTTAAAATGT
Statistics
Matches: 363, Mismatches: 44, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
139 3 0.01
140 15 0.04
141 13 0.04
142 2 0.01
143 1 0.00
144 6 0.02
145 63 0.17
146 22 0.06
147 2 0.01
148 92 0.25
149 42 0.12
150 18 0.05
151 76 0.21
152 8 0.02
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (145 bp):
TTATGATTATTTATTTTATTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTA
ACAATTAAATATTAATATTTTATTTATAATTTAATCATTAATTATTAAATATTAATATTTTATTT
ATAATTTAAATGTTA
Found at i:24292459 original size:27 final size:28
Alignment explanation
Indices: 24292429--24292482 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
24292419 TTAATGATTA
24292429 ATAATCTAAAT-ATTAATATT-TTATTTT
1 ATAAT-TAAATCATTAATATTATTATTTT
* *
24292456 ATAATTTAATCATTGATATTATTATTT
1 ATAATTAAATCATTAATATTATTATTT
24292483 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 13 0.57
28 6 0.26
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
ATAATTAAATCATTAATATTATTATTTT
Found at i:24292562 original size:115 final size:111
Alignment explanation
Indices: 24292329--24292589 Score: 302
Period size: 115 Copynumber: 2.4 Consensus size: 111
24292319 TCATTATATA
* *
24292329 AAATACTAATATTTTA-TTTATAATTTAA--A-TGTTATTATGATTATTTATTTATATTTTTAAA
1 AAATATTAATATTTTATTTTATAATTTAATCATTGATATTATGATTATTTATTTATATTTTTAAA
* *
24292390 TAATAATAATTGATAATTTATTTAAAATATTAATGATTAATAATCT
66 TAATAATAATTGATAATTTATTTAAAATATAAATAATTAATAATCT
*
24292436 AAATATTAATATTTTATTTTATAATTTAATCATTGATATTATTATTTATTTTTATTT-TATTTTT
1 AAATATTAATATTTTATTTTATAATTTAATCATTGATATTATGA-TTA--TTTATTTATA-TTTT
** * * * *
24292500 TAAAATGTTAATCATTTATAATTTATTTAAAATATAAATAATTGATCA-CTT
62 T-AAATAATAATAATTGATAATTTATTTAAAATATAAATAATTAATAATC-T
* *
24292551 AAATATTAATATTTTATTTT-TAATGTAATCATTAATATT
1 AAATATTAATATTTTATTTTATAATTTAATCATTGATATT
24292590 TGCAAATATT
Statistics
Matches: 131, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
107 15 0.11
108 12 0.09
110 1 0.01
111 9 0.07
112 3 0.02
113 2 0.02
114 30 0.23
115 59 0.45
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (111 bp):
AAATATTAATATTTTATTTTATAATTTAATCATTGATATTATGATTATTTATTTATATTTTTAAA
TAATAATAATTGATAATTTATTTAAAATATAAATAATTAATAATCT
Found at i:24292610 original size:21 final size:20
Alignment explanation
Indices: 24292551--24292625 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
24292541 TTGATCACTT
*
24292551 AAATATTAATATTTTATTTT
1 AAATATTAATATTTTATTTC
* * *
24292571 TAAT-GTAATCATTAATATTTGC
1 AAATATTAAT-ATT-TTATTT-C
24292593 AAATATTAATATTTTATTTC
1 AAATATTAATATTTTATTTC
24292613 TAAATATTAATAT
1 -AAATATTAATAT
24292626 GGGTAAGATT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 4 0.09
20 7 0.16
21 22 0.51
22 6 0.14
23 4 0.09
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (20 bp):
AAATATTAATATTTTATTTC
Found at i:24295299 original size:17 final size:17
Alignment explanation
Indices: 24295272--24295320 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
24295262 TATGTAAAAC
24295272 TAAATAAATCAATCATTT
1 TAAA-AAATCAATCATTT
*
24295290 TAACAAATCAATCATTT
1 TAAAAAATCAATCATTT
*
24295307 TAAAAAATCGATCA
1 TAAAAAATCAATCA
24295321 AATATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAAAATCAATCATTT
Found at i:24295531 original size:39 final size:39
Alignment explanation
Indices: 24295488--24295565 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
24295478 GAAATTAATA
*
24295488 AGAAAACTTCTATGTTATAATGTTTTATATCAAGGTTTG
1 AGAAAACTTCTATGTTATAATGTTTTATATCAAAGTTTG
24295527 AGAAAACTTCTATGTTATAATGTTTTATATCAAAGTTTG
1 AGAAAACTTCTATGTTATAATGTTTTATATCAAAGTTTG
24295566 TATAACTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.44
Consensus pattern (39 bp):
AGAAAACTTCTATGTTATAATGTTTTATATCAAAGTTTG
Found at i:24295747 original size:13 final size:14
Alignment explanation
Indices: 24295718--24295758 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
24295708 ATATTACTTT
24295718 ATTATAT-ATATAAA
1 ATTATATGATA-AAA
24295732 ATTA-ATGATAAAA
1 ATTATATGATAAAA
*
24295745 ATTATATGTTAAAA
1 ATTATATGATAAAA
24295759 TGTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (14 bp):
ATTATATGATAAAA
Found at i:24296263 original size:21 final size:20
Alignment explanation
Indices: 24296226--24296264 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24296216 CTATCCTATA
*
24296226 TTATAATATTAACATATAAG
1 TTATAATATTAAAATATAAG
*
24296246 TTATATTATTTAAAATATA
1 TTATAATA-TTAAAATATA
24296265 TAACTTGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTATAATATTAAAATATAAG
Found at i:24304668 original size:2 final size:2
Alignment explanation
Indices: 24304661--24304696 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
24304651 TTTAGTTTCT
24304661 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24304697 ATGACAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:24309212 original size:2 final size:2
Alignment explanation
Indices: 24309205--24309298 Score: 188
Period size: 2 Copynumber: 47.0 Consensus size: 2
24309195 TTTTGTCTTA
24309205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24309247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24309289 AT AT AT AT AT
1 AT AT AT AT AT
24309299 NNNNNNNNNN
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24313584 original size:46 final size:46
Alignment explanation
Indices: 24313516--24313605 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
24313506 GACATTAAAT
* * *
24313516 ATAATAATTTTTTTAAAATTTTTAAAGTTTGTTTAGAGTAATATTG
1 ATAACAATTTTTTTAAAATTTTTAAAATTTATTTAGAGTAATATTG
* *
24313562 ATAACAATTTTTTTTAATTTTTTAAAATTTATTTAGAGTAATAT
1 ATAACAATTTTTTTAAAATTTTTAAAATTTATTTAGAGTAATAT
24313606 ATTTTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (46 bp):
ATAACAATTTTTTTAAAATTTTTAAAATTTATTTAGAGTAATATTG
Found at i:24316157 original size:24 final size:24
Alignment explanation
Indices: 24316113--24316158 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
24316103 TTTTTAAATT
**
24316113 TTTAGTTTAAAATTATCTTTAAAA
1 TTTAGTTTAAAATTAAATTTAAAA
24316137 TTTA-TTTAATAATTAAATTTAA
1 TTTAGTTTAA-AATTAAATTTAA
24316159 TATATTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAGTTTAAAATTAAATTTAAAA
Found at i:24316510 original size:24 final size:25
Alignment explanation
Indices: 24316464--24316511 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
24316454 AAGTCGGCTA
* *
24316464 ATAAAAAATGAATACAAATAAAAAT
1 ATAAAAAATGAAAACAAAAAAAAAT
*
24316489 ATAAAAAA-GAAAAGAAAAAAAAA
1 ATAAAAAATGAAAACAAAAAAAAA
24316512 ATGGTAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (25 bp):
ATAAAAAATGAAAACAAAAAAAAAT
Found at i:24320919 original size:2 final size:2
Alignment explanation
Indices: 24320898--24321037 Score: 76
Period size: 2 Copynumber: 72.0 Consensus size: 2
24320888 AGTGCATAGT
* * * *
24320898 TA TA TT TA TA TG TA -A TA TA TA TA TA TA TA CA TA -A TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
24320938 CTA -A TT TG TA TA TA TA TA T- TA TA TA TA CA TA TA NA TC TC TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
24320979 TA TA GTA TA TA TA TA TA CA TA TA TA AA CA -A TT TG TA T- TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
24321020 TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA
24321038 AACTAATTTG
Statistics
Matches: 104, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
1 6 0.06
2 95 0.91
3 3 0.03
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:24328342 original size:17 final size:18
Alignment explanation
Indices: 24328320--24328355 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
24328310 AAGAAATTTA
24328320 ATAATCTATTG-TTTAAT
1 ATAATCTATTGTTTTAAT
24328337 ATAATCTATTGTTTTAAT
1 ATAATCTATTGTTTTAAT
24328355 A
1 A
24328356 ATAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
ATAATCTATTGTTTTAAT
Found at i:24329794 original size:2 final size:2
Alignment explanation
Indices: 24329787--24329812 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24329777 TCCCTCCATC
24329787 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
24329813 ACAAGGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:24338969 original size:6 final size:6
Alignment explanation
Indices: 24338958--24338984 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24338948 CTCTTAATCC
24338958 AATTAG AATTAG AATTAG AATTAG AAT
1 AATTAG AATTAG AATTAG AATTAG AAT
24338985 CAGAGCTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
AATTAG
Found at i:24343058 original size:35 final size:35
Alignment explanation
Indices: 24343012--24343083 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
24343002 TTAGATATGA
24343012 TTGATTTTACAATCTGAAGT-CATTATAATCCAATC
1 TTGATTTTACAATCTGAA-TCCATTATAATCCAATC
*
24343047 TTGATTTTACAATCTGAATCCATTATAATCTAATC
1 TTGATTTTACAATCTGAATCCATTATAATCCAATC
24343082 TT
1 TT
24343084 TTTCCTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (35 bp):
TTGATTTTACAATCTGAATCCATTATAATCCAATC
Found at i:24363082 original size:32 final size:33
Alignment explanation
Indices: 24363041--24363105 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
24363031 AGACATCAGA
24363041 AGCAGAACCACAAAAACCAC-AAAAAACAGCCC
1 AGCAGAACCACAAAAACCACAAAAAAACAGCCC
*
24363073 AGCAGAACCACAAAGACCACAAAAAAACAGCCC
1 AGCAGAACCACAAAAACCACAAAAAAACAGCCC
24363106 CTAAACAGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.55, C:0.34, G:0.11, T:0.00
Consensus pattern (33 bp):
AGCAGAACCACAAAAACCACAAAAAAACAGCCC
Found at i:24364111 original size:27 final size:27
Alignment explanation
Indices: 24364050--24364258 Score: 108
Period size: 29 Copynumber: 7.4 Consensus size: 27
24364040 CCATAGTTAG
24364050 ATTGTTACACGTCATATTGAAAAAAAATACT
1 ATTGTTACACGTCATATTG--AAAAAA-A-T
* *
24364081 ATTGTTACACGCCATGTTGAAAAAAAT
1 ATTGTTACACGTCATATTGAAAAAAAT
* * * *
24364108 ATTGTTATTACATGTCAT-GT-ATAAAAAC
1 ATTG---TTACACGTCATATTGAAAAAAAT
*
24364136 A-TGTTACACGCCATGA-T-AAAAAAA-
1 ATTGTTACACGTCAT-ATTGAAAAAAAT
*
24364160 AGTTATTACACGTCATATTGATAAAAAAAT
1 A-TTGTTACACGTCATATTG--AAAAAAAT
**
24364190 ATTGTTGTTACACACCATATTGAAAAAATATT
1 A---TTGTTACACGTCATATTGAAAAAA-A-T
* *
24364222 GTTGTTACACGTCATATTCAAAAATAAT
1 ATTGTTACACGTCATATTGAAAAA-AAT
24364250 -TTGTTACAC
1 ATTGTTACAC
24364259 TTTAATGCTT
Statistics
Matches: 142, Mismatches: 19, Indels: 38
0.71 0.10 0.19
Matches are distributed among these distances:
24 10 0.07
25 8 0.06
26 12 0.08
27 16 0.11
28 9 0.06
29 35 0.25
30 17 0.12
31 18 0.13
32 17 0.12
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (27 bp):
ATTGTTACACGTCATATTGAAAAAAAT
Found at i:24364188 original size:54 final size:59
Alignment explanation
Indices: 24364054--24364239 Score: 171
Period size: 61 Copynumber: 3.2 Consensus size: 59
24364044 AGTTAGATTG
* *
24364054 TTACACGTCATATTGAAAAAAAATACTATTGTTACACGCCATGTTGAAAAAAATATTGTTA
1 TTACACGTCATATTGATAAAAAA-ACTATTGTTACACGCCATGATGAAAAAAATA-TGTTA
* *
24364115 TTACATGTC--A-TG-TATAAAAAC-A-TGTTACACGCCATGAT-AAAAAAA-A-GTTA
1 TTACACGTCATATTGATAAAAAAACTATTGTTACACGCCATGATGAAAAAAATATGTTA
* *
24364165 TTACACGTCATATTGATAAAAAAA-TATTGTTGTTACACACCAT-ATTG-AAAAAATATTGTTG
1 TTACACGTCATATTGATAAAAAAACTA---TTGTTACACGCCATGA-TGAAAAAAATA-TGTTA
24364226 TTACACGTCATATT
1 TTACACGTCATATT
24364240 CAAAAATAAT
Statistics
Matches: 103, Mismatches: 8, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
50 12 0.12
52 2 0.02
53 9 0.09
54 23 0.22
55 1 0.01
56 2 0.02
57 6 0.06
58 21 0.20
59 2 0.02
61 25 0.24
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (59 bp):
TTACACGTCATATTGATAAAAAAACTATTGTTACACGCCATGATGAAAAAAATATGTTA
Found at i:24367586 original size:23 final size:23
Alignment explanation
Indices: 24367560--24367607 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
24367550 TAGTAAAGTA
* **
24367560 AAATTAAAATTTTTTAAAAATTT
1 AAATTAAAATATTAAAAAAATTT
*
24367583 AAATTTAAATATTAAAAAAATTT
1 AAATTAAAATATTAAAAAAATTT
24367606 AA
1 AA
24367608 TAATTAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATTAAAATATTAAAAAAATTT
Found at i:24368073 original size:17 final size:18
Alignment explanation
Indices: 24368053--24368086 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24368043 ATAAAAATTT
*
24368053 ATTTTATTTAAA-ATAAA
1 ATTTTAATTAAATATAAA
24368070 ATTTTAATTAAATATAA
1 ATTTTAATTAAATATAA
24368087 TAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTAATTAAATATAAA
Found at i:24377198 original size:18 final size:19
Alignment explanation
Indices: 24377168--24377205 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
24377158 ACAAGTATTC
24377168 ATCCACTTTTTGATGGGTT
1 ATCCACTTTTTGATGGGTT
24377187 ATCCAC-TTTTGATGGGTT
1 ATCCACTTTTTGATGGGTT
24377205 A
1 A
24377206 GTGGGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (19 bp):
ATCCACTTTTTGATGGGTT
Found at i:24377458 original size:26 final size:26
Alignment explanation
Indices: 24377357--24377458 Score: 77
Period size: 26 Copynumber: 4.0 Consensus size: 26
24377347 GAGTTAGAGC
* *
24377357 ATCCATCTACTTTTTA-TGGTAAAATT
1 ATCCATCTAC-TTCTAGTGATAAAATT
* *
24377383 ATCTATCCACTTCTAGT-AGTAAAATT
1 ATCCATCTACTTCTAGTGA-TAAAATT
* * * *
24377409 ATTC-T-TAAATTCAAATGATAAAATT
1 ATCCATCT-ACTTCTAGTGATAAAATT
24377434 ATCCATCTACTTCTAGTGATAAAAT
1 ATCCATCTACTTCTAGTGATAAAAT
24377459 AATAATTAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
25 21 0.38
26 34 0.61
27 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (26 bp):
ATCCATCTACTTCTAGTGATAAAATT
Found at i:24377909 original size:72 final size:72
Alignment explanation
Indices: 24377828--24377972 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
24377818 AGAAATCAAA
*
24377828 ACCCAATTATTGAAATCCTTTTGAAGCTTGAAGATAATGAAAACATAATAATTGTAAAACTTGAG
1 ACCCAATTATTGAAATCCTTTTGAAGCTTGAAGATAATAAAAACATAATAATTGTAAAACTTGAG
24377893 AGATCAG
66 AGATCAG
24377900 ACCCAATTATTGAAATCCTTTTGAAGCTTGAAGATAATAAAAACATAATAATTGTAAAACTTGAG
1 ACCCAATTATTGAAATCCTTTTGAAGCTTGAAGATAATAAAAACATAATAATTGTAAAACTTGAG
24377965 AGATCAG
66 AGATCAG
24377972 A
1 A
24377973 TATGAAATAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.29
Consensus pattern (72 bp):
ACCCAATTATTGAAATCCTTTTGAAGCTTGAAGATAATAAAAACATAATAATTGTAAAACTTGAG
AGATCAG
Found at i:24381840 original size:91 final size:91
Alignment explanation
Indices: 24381715--24381897 Score: 321
Period size: 91 Copynumber: 2.0 Consensus size: 91
24381705 TAAGGGTGCA
* * *
24381715 TAATATATATACCTGGACTGTGACAAATTCTAATTTTGGATTCTCAGTTATCATTTACTTAGAAA
1 TAATATATATACCTAGACTGTAACAAATACTAATTTTGGATTCTCAGTTATCATTTACTTAGAAA
*
24381780 CGTAATTCTCAACTCAGTAGAACTGC
66 CGCAATTCTCAACTCAGTAGAACTGC
24381806 TAATATATATACCTAGACTGTAACAAATACTAATTTTGGATTCTCAGTTATCATTTACTTAGAAA
1 TAATATATATACCTAGACTGTAACAAATACTAATTTTGGATTCTCAGTTATCATTTACTTAGAAA
*
24381871 CGCAATTCTCAATTCAGTAGAACTGC
66 CGCAATTCTCAACTCAGTAGAACTGC
24381897 T
1 T
24381898 GATAAAAAAG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (91 bp):
TAATATATATACCTAGACTGTAACAAATACTAATTTTGGATTCTCAGTTATCATTTACTTAGAAA
CGCAATTCTCAACTCAGTAGAACTGC
Found at i:24389073 original size:14 final size:14
Alignment explanation
Indices: 24389041--24389084 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
24389031 GTTTTGTTGT
*
24389041 TTTTCTGGTTTTTG
1 TTTTCTGCTTTTTG
* *
24389055 GTTTCTGCTTCTTG
1 TTTTCTGCTTTTTG
*
24389069 TTTTCTACTTTTTG
1 TTTTCTGCTTTTTG
24389083 TT
1 TT
24389085 GTTTTTATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.02, C:0.14, G:0.16, T:0.68
Consensus pattern (14 bp):
TTTTCTGCTTTTTG
Found at i:24413676 original size:17 final size:15
Alignment explanation
Indices: 24413647--24413693 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
24413637 TTGTACAAAT
*
24413647 ATTTTTCATATTTAA
1 ATTTTTAATATTTAA
24413662 CATTTTTAATAATTTAA
1 -ATTTTTAAT-ATTTAA
24413679 A-TTTTAA-ATTTAA
1 ATTTTTAATATTTAA
24413692 AT
1 AT
24413694 AAAAATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.25
15 6 0.21
16 9 0.32
17 6 0.21
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTTAATATTTAA
Found at i:24429417 original size:3 final size:3
Alignment explanation
Indices: 24429409--24429453 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
24429399 CCGGTATTAC
24429409 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24429454 CCTGTAATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24433480 original size:17 final size:18
Alignment explanation
Indices: 24433458--24433491 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24433448 ACTTGAGCTG
24433458 AAATAACTAAA-AAAAAA
1 AAATAACTAAACAAAAAA
*
24433475 AAATAATTAAACAAAAA
1 AAATAACTAAACAAAAA
24433492 TATCCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (18 bp):
AAATAACTAAACAAAAAA
Found at i:24455297 original size:17 final size:18
Alignment explanation
Indices: 24455263--24455297 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24455253 TATCCTCATT
*
24455263 TATTAAAAATATCTACAA
1 TATTAAAAATATCAACAA
24455281 TATTAAAAATAT-AACAA
1 TATTAAAAATATCAACAA
24455298 AAATTATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (18 bp):
TATTAAAAATATCAACAA
Found at i:24461237 original size:33 final size:33
Alignment explanation
Indices: 24461184--24461295 Score: 181
Period size: 33 Copynumber: 3.4 Consensus size: 33
24461174 TTAAATAAAA
*
24461184 TAATATTTTTATTAACAAAATAATATTAAAATAT
1 TAATA-TTTTATTAATAAAATAATATTAAAATAT
*
24461218 TATTATTTTATTAATAAAATAATATTAAAATAT
1 TAATATTTTATTAATAAAATAATATTAAAATAT
24461251 TAATATTTTATTAATAAAA-AATATTAAAAATAT
1 TAATATTTTATTAATAAAATAATATT-AAAATAT
24461284 TAATATTTTATT
1 TAATATTTTATT
24461296 CAGTGTCAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
32 6 0.08
33 64 0.86
34 4 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (33 bp):
TAATATTTTATTAATAAAATAATATTAAAATAT
Found at i:24462746 original size:39 final size:39
Alignment explanation
Indices: 24462682--24462784 Score: 136
Period size: 39 Copynumber: 2.6 Consensus size: 39
24462672 TAGTGCTCGT
* * *
24462682 GTGCACGATGTGGGGGGATGTACACGATGGCACTGACTA
1 GTGCACGATGTGGGGGGATGCACACGATGACACCGACTA
* *
24462721 -TGCACGATGTGAGGGGGATGCACACGATGACTCCGGCTA
1 GTGCACGATGTG-GGGGGATGCACACGATGACACCGACTA
24462760 TGTGCACGATGTGGGGGGATGCACA
1 -GTGCACGATGTGGGGGGATGCACA
24462785 TGAGCTGGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
38 11 0.20
39 22 0.39
40 12 0.21
41 11 0.20
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.19
Consensus pattern (39 bp):
GTGCACGATGTGGGGGGATGCACACGATGACACCGACTA
Found at i:24474096 original size:24 final size:24
Alignment explanation
Indices: 24474047--24474096 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
24474037 TCCAACATGT
24474047 TATATAATATAAAATAACAAATGA
1 TATATAATATAAAATAACAAATGA
*
24474071 TATATTAAT-TAATAATTACAAA-GA
1 TATA-TAATATAA-AATAACAAATGA
24474095 TA
1 TA
24474097 AATTTGAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (24 bp):
TATATAATATAAAATAACAAATGA
Found at i:24474183 original size:20 final size:19
Alignment explanation
Indices: 24474156--24474194 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
24474146 ATATAAATTT
24474156 ATTTAAATTTTTTAAAATA
1 ATTTAAATTTTTTAAAATA
*
24474175 ATTTAAAATTTTTTTAAATA
1 ATTT-AAATTTTTTAAAATA
24474195 TTCTACCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAAATTTTTTAAAATA
Found at i:24476330 original size:24 final size:25
Alignment explanation
Indices: 24476296--24476347 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
24476286 GTTCAAGGTA
* *
24476296 ATGGGTCTTTTCT-TCCCTCTTATG
1 ATGGGTATTTTCTCCCCCTCTTATG
*
24476320 ATGGGTATTTTCTCCCCCTCTTTTG
1 ATGGGTATTTTCTCCCCCTCTTATG
24476345 ATG
1 ATG
24476348 TTGTCAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.10, C:0.25, G:0.17, T:0.48
Consensus pattern (25 bp):
ATGGGTATTTTCTCCCCCTCTTATG
Found at i:24478058 original size:7 final size:7
Alignment explanation
Indices: 24478043--24478076 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
24478033 TCACAAATTA
*
24478043 TTTTCTT
1 TTTTATT
24478050 TTTTATT
1 TTTTATT
24478057 TTTTATT
1 TTTTATT
*
24478064 TTTTGTT
1 TTTTATT
24478071 TTTTAT
1 TTTTAT
24478077 GTTGCCAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:24487425 original size:7 final size:7
Alignment explanation
Indices: 24487413--24487439 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24487403 TTTCATAGTA
24487413 CTAAACC
1 CTAAACC
24487420 CTAAACC
1 CTAAACC
24487427 CTAAACC
1 CTAAACC
24487434 CTAAAC
1 CTAAAC
24487440 TCACCTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:24506975 original size:2 final size:2
Alignment explanation
Indices: 24506968--24507004 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
24506958 TGAATATGGC
* *
24506968 AT AT AT AT AT AT AT AT GT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24507005 CGTATGATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24507100 original size:2 final size:2
Alignment explanation
Indices: 24507093--24507175 Score: 134
Period size: 2 Copynumber: 42.0 Consensus size: 2
24507083 GAGTAAAATA
24507093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T NAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
*
24507135 A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24507176 TGTGGTTTAT
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
1 2 0.03
2 73 0.96
3 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24513766 original size:19 final size:19
Alignment explanation
Indices: 24513746--24513781 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24513736 AAAAGAGTAT
24513746 TTTA-AAATAAAATAATAA
1 TTTATAAATAAAATAATAA
*
24513764 TTTATGAATAAAATAATA
1 TTTATAAATAAAATAATA
24513782 TTAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
TTTATAAATAAAATAATAA
Found at i:24515842 original size:269 final size:269
Alignment explanation
Indices: 24515357--24515893 Score: 859
Period size: 269 Copynumber: 2.0 Consensus size: 269
24515347 TTTTTCTCTT
*
24515357 GGGTGGAAGCTCTAGATCTTTCTTTCTTCCTTGCTTTTCACACCATGGGCGGATTGCCTAATGTC
1 GGGTGGAAGCTCTAGATCTTTCTTTCTTCCTTGATTTTCACACCATGGGCGGATTGCCTAATGTC
* *
24515422 CATAGCTTTTTGACTTTTCTTTTCACTTATTTGATGTATTAAGTCACGTGATACAAAATATTTTT
66 CATAGCTTTTTGACTTTTCTTGTCACTTATTTGATGTATTAAGTCACATGATACAAAATATTTTT
* * *
24515487 ACTTCCTTTATCCGCTCATCGCTTCCATTCTTTTTTTCTTCATTATTTAATTTTCTTTTTTCTTC
131 ACTTCCTTTATCCGCCCATCACTTCCATTCTTTCTTTCTTCATTATTTAATTTTCTTTTTTCTTC
*
24515552 ACATCCTTTACATGTGCGGCTTGCTCATGCTTTAATGACTTTTGACTTTTCTTT-TTTCTCTTTA
196 ACATCCTTTACATGGGCGGCTTGCTCATGCTTTAATGACTTTTGACTTTT-TTTCTTTCTCTTTA
24515616 TGTAGTAAAC
260 TGTAGTAAAC
* **
24515626 GGGTGGAAGCTCTAGATCTTTCTTTCTTCTTTGATTTTCACATTAT-GGCTGGATTGTCC-AATG
1 GGGTGGAAGCTCTAGATCTTTCTTTCTTCCTTGATTTTCACACCATGGGC-GGATTG-CCTAATG
*
24515689 TCCATAGCTTTTTTACTTTTCTTGTCACTTATTTGATGTATTAAGTCACATGATACAAAATATTT
64 TCCATAGCTTTTTGACTTTTCTTGTCACTTATTTGATGTATTAAGTCACATGATACAAAATATTT
*
24515754 TTACTTCCTTTATCCGCCCATCACTTCCGTTCTTTCTTTCTTCATTATTTAA-TTT-TTTTTTCT
129 TTACTTCCTTTATCCGCCCATCACTTCCATTCTTTCTTTCTTCATTATTTAATTTTCTTTTTTCT
* * *
24515817 CTCTACATTCTTTACATGGGCGGCTTGCTCATGTTTTAATGACTTTTGACTTTTTTTCTTTTTCT
194 -TC-ACATCCTTTACATGGGCGGCTTGCTCATGCTTTAATGACTTTTGACTTTTTTTCTTTCTCT
24515882 TTATGTAGTAAA
257 TTATGTAGTAAA
24515894 ATTATAAAGC
Statistics
Matches: 248, Mismatches: 15, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
267 8 0.03
268 11 0.04
269 227 0.92
270 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (269 bp):
GGGTGGAAGCTCTAGATCTTTCTTTCTTCCTTGATTTTCACACCATGGGCGGATTGCCTAATGTC
CATAGCTTTTTGACTTTTCTTGTCACTTATTTGATGTATTAAGTCACATGATACAAAATATTTTT
ACTTCCTTTATCCGCCCATCACTTCCATTCTTTCTTTCTTCATTATTTAATTTTCTTTTTTCTTC
ACATCCTTTACATGGGCGGCTTGCTCATGCTTTAATGACTTTTGACTTTTTTTCTTTCTCTTTAT
GTAGTAAAC
Found at i:24516478 original size:18 final size:19
Alignment explanation
Indices: 24516436--24516478 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
24516426 TTAATATTTT
24516436 AATATTATTTTATTTATAA
1 AATATTATTTTATTTATAA
*
24516455 AGTATTATTTTATTT-TAA
1 AATATTATTTTATTTATAA
24516473 AATATT
1 AATATT
24516479 TCTTTCACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATATTATTTTATTTATAA
Found at i:24520678 original size:14 final size:14
Alignment explanation
Indices: 24520659--24520696 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24520649 ACAACTATAT
24520659 ATAAAAATA-AATCA
1 ATAAAAATATAAT-A
24520673 ATAAAAATATAATA
1 ATAAAAATATAATA
*
24520687 TTAAAAATAT
1 ATAAAAATAT
24520697 TTATCTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAAATATAATA
Found at i:24522734 original size:20 final size:20
Alignment explanation
Indices: 24522709--24522749 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24522699 TATGTGTCGG
24522709 ACACGTGTGCTTTAAGGAAA
1 ACACGTGTGCTTTAAGGAAA
24522729 ACACGTGTGCTTTAAGGAAA
1 ACACGTGTGCTTTAAGGAAA
24522749 A
1 A
24522750 TGAAGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (20 bp):
ACACGTGTGCTTTAAGGAAA
Found at i:24526220 original size:24 final size:24
Alignment explanation
Indices: 24526190--24526245 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
24526180 AAAAGCATCA
*
24526190 GCATCAG-TTCCAGCAGCATCAACT
1 GCATCAGCTT-CAGCAGCAACAACT
24526214 GCATCAGCTTCAGCAGCAACAACT
1 GCATCAGCTTCAGCAGCAACAACT
*
24526238 GCAACAGC
1 GCATCAGC
24526246 AACAGGAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (24 bp):
GCATCAGCTTCAGCAGCAACAACT
Found at i:24526255 original size:24 final size:24
Alignment explanation
Indices: 24526200--24526257 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
24526190 GCATCAGTTC
* * **
24526200 CAGCAGCATCAACTGCATCAGCTT
1 CAGCAGCAACAACTGCAACAGCAA
24526224 CAGCAGCAACAACTGCAACAGCAA
1 CAGCAGCAACAACTGCAACAGCAA
*
24526248 CAGGAGCAAC
1 CAGCAGCAAC
24526258 CACAACAGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.33, G:0.19, T:0.10
Consensus pattern (24 bp):
CAGCAGCAACAACTGCAACAGCAA
Found at i:24527164 original size:21 final size:22
Alignment explanation
Indices: 24527123--24527166 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24527113 CGCCTCATAA
24527123 ACTTCTTTTTCATATATAATTT
1 ACTTCTTTTTCATATATAATTT
*
24527145 ACTTTTTTTTACA-ATA-AATTT
1 ACTTCTTTTT-CATATATAATTT
24527166 A
1 A
24527167 AAGTTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 12 0.60
23 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (22 bp):
ACTTCTTTTTCATATATAATTT
Found at i:24527480 original size:23 final size:23
Alignment explanation
Indices: 24527450--24527495 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24527440 CTATACTTCC
*
24527450 GATTTCTCTCTCTCACGTTTTCA
1 GATTTCTCTCTCTCACGCTTTCA
* *
24527473 GATTTCTCTTTCTTACGCTTTCA
1 GATTTCTCTCTCTCACGCTTTCA
24527496 AGACCAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.28, G:0.09, T:0.50
Consensus pattern (23 bp):
GATTTCTCTCTCTCACGCTTTCA
Found at i:24527810 original size:14 final size:15
Alignment explanation
Indices: 24527791--24527819 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24527781 GCCAAATTGT
24527791 CAAAAAAAAA-AAAA
1 CAAAAAAAAAGAAAA
24527805 CAAAAAAAAAGAAAA
1 CAAAAAAAAAGAAAA
24527820 AAATTGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAGAAAA
Found at i:24527876 original size:24 final size:24
Alignment explanation
Indices: 24527841--24527930 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
24527831 ATTTGAAGTT
*
24527841 TCACAGGTTTTTGTACATGGCTTG
1 TCACAGGCTTTTGTACATGGCTTG
* * * *
24527865 TCACAGGCTTTTATATATAGCGTG
1 TCACAGGCTTTTGTACATGGCTTG
* *
24527889 TCACACGC---T-AACCATGGCTTG
1 TCACAGGCTTTTGTA-CATGGCTTG
24527910 TCACAGGCTTTTGTACATGGC
1 TCACAGGCTTTTGTACATGGC
24527931 GTGTAACACA
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
20 1 0.02
21 14 0.29
24 33 0.67
25 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (24 bp):
TCACAGGCTTTTGTACATGGCTTG
Found at i:24527908 original size:45 final size:45
Alignment explanation
Indices: 24527856--24528028 Score: 220
Period size: 45 Copynumber: 3.8 Consensus size: 45
24527846 GGTTTTTGTA
* *
24527856 CATGGCTTGTCACAGGCTTTTATATATAGCGTGTCACACGCTAAC
1 CATGGCTTGTCACAGGCTTTTATACATGGCGTGTCACACGCTAAC
* * *
24527901 CATGGCTTGTCACAGGCTTTTGTACATGGCGTGTAACACACTAAC
1 CATGGCTTGTCACAGGCTTTTATACATGGCGTGTCACACGCTAAC
* * * *
24527946 CATGGCTTGTCACAGGTTTTTGTACATGGCCTATCACACGCTAAC
1 CATGGCTTGTCACAGGCTTTTATACATGGCGTGTCACACGCTAAC
* * * **
24527991 CATGACTTATCACAGGTTTTTATACATGATGTGTCACA
1 CATGGCTTGTCACAGGCTTTTATACATGGCGTGTCACA
24528029 TGTATTTGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 111 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (45 bp):
CATGGCTTGTCACAGGCTTTTATACATGGCGTGTCACACGCTAAC
Found at i:24527913 original size:21 final size:21
Alignment explanation
Indices: 24527887--24527959 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
24527877 ATATATAGCG
24527887 TGTCACACGCTAACCATGGCT
1 TGTCACACGCTAACCATGGCT
* * *
24527908 TGTCACAGGCTTTTGTA-CATGGCG
1 TGTCACACGC---T-AACCATGGCT
* *
24527932 TGTAACACACTAACCATGGCT
1 TGTCACACGCTAACCATGGCT
24527953 TGTCACA
1 TGTCACA
24527960 GGTTTTTGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
20 1 0.03
21 22 0.58
24 14 0.37
25 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (21 bp):
TGTCACACGCTAACCATGGCT
Found at i:24528038 original size:69 final size:69
Alignment explanation
Indices: 24527953--24528236 Score: 327
Period size: 69 Copynumber: 4.1 Consensus size: 69
24527943 AACCATGGCT
* * * * * *
24527953 TGTCACAGGTTTTTGTACATGGCCTATCACACGCTAACCATGACTTATCACAGGTTTTTATACAT
1 TGTCACATGTTTTTGTACATGGCATGTCACACGCTAACCATGGCTTGTCACAGGTTTTTGTACAT
*
24528018 GATG
66 GACG
* * * ** *
24528022 TGTCACATGTATTTGTACATGGCATGTCACACGCTAACTATGGCTTGTTACAAATTTTTGTACTT
1 TGTCACATGTTTTTGTACATGGCATGTCACACGCTAACCATGGCTTGTCACAGGTTTTTGTACAT
24528087 GACG
66 GACG
* *
24528091 TGTCACATGTTTTTGTACATGACATGTCACACGCTAATCATGGCTTGTCACAGGTTTTTGTACAT
1 TGTCACATGTTTTTGTACATGGCATGTCACACGCTAACCATGGCTTGTCACAGGTTTTTGTACAT
*
24528156 AACG
66 GACG
* * * * * * *
24528160 TGTTACA-GATTTTTGTACATGACGTGTAACATGCTAACCATGGCTTGTTACAGATTTTTGTACA
1 TGTCACATG-TTTTTGTACATGGCATGTCACACGCTAACCATGGCTTGTCACAGGTTTTTGTACA
*
24528224 TGGCG
65 TGACG
*
24528229 TGTAACAT
1 TGTCACAT
24528237 TATAACGTGT
Statistics
Matches: 181, Mismatches: 32, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
68 1 0.01
69 180 0.99
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (69 bp):
TGTCACATGTTTTTGTACATGGCATGTCACACGCTAACCATGGCTTGTCACAGGTTTTTGTACAT
GACG
Found at i:24528104 original size:138 final size:138
Alignment explanation
Indices: 24527953--24528236 Score: 363
Period size: 138 Copynumber: 2.1 Consensus size: 138
24527943 AACCATGGCT
* * *
24527953 TGTCACAGGTTTTTGTACATGGCCTATCACACGCTAACCATGACTTATCACAGGTTTTTATACAT
1 TGTCACATGTTTTTGTACATGACATATCACACGCTAACCATGACTTATCACAGGTTTTTATACAT
* * * * *
24528018 GATGTGTCACATG-TATTTGTACATGGCATGTCACACGCTAACTATGGCTTGTTACAAATTTTTG
66 AACGTGTCACA-GATATTTGTACATGACATGTAACACGCTAACCATGGCTTGTTACAAATTTTTG
*
24528082 TACTTGACG
130 TACATGACG
* * * * *
24528091 TGTCACATGTTTTTGTACATGACATGTCACACGCTAATCATGGCTTGTCACAGGTTTTTGTACAT
1 TGTCACATGTTTTTGTACATGACATATCACACGCTAACCATGACTTATCACAGGTTTTTATACAT
* * * * *
24528156 AACGTGTTACAGATTTTTGTACATGACGTGTAACATGCTAACCATGGCTTGTTACAGATTTTTGT
66 AACGTGTCACAGATATTTGTACATGACATGTAACACGCTAACCATGGCTTGTTACAAATTTTTGT
*
24528221 ACATGGCG
131 ACATGACG
*
24528229 TGTAACAT
1 TGTCACAT
24528237 TATAACGTGT
Statistics
Matches: 124, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
137 1 0.01
138 123 0.99
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (138 bp):
TGTCACATGTTTTTGTACATGACATATCACACGCTAACCATGACTTATCACAGGTTTTTATACAT
AACGTGTCACAGATATTTGTACATGACATGTAACACGCTAACCATGGCTTGTTACAAATTTTTGT
ACATGACG
Found at i:24528108 original size:24 final size:24
Alignment explanation
Indices: 24528076--24528121 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24528066 TTGTTACAAA
* *
24528076 TTTTTGTACTTGACGTGTCACATG
1 TTTTTGTACATGACATGTCACATG
24528100 TTTTTGTACATGACATGTCACA
1 TTTTTGTACATGACATGTCACA
24528122 CGCTAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTTTGTACATGACATGTCACATG
Found at i:24528172 original size:24 final size:24
Alignment explanation
Indices: 24528140--24528186 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24528130 ATGGCTTGTC
*
24528140 ACAGGTTTTTGTACATAACGTGTT
1 ACAGATTTTTGTACATAACGTGTT
*
24528164 ACAGATTTTTGTACATGACGTGT
1 ACAGATTTTTGTACATAACGTGT
24528187 AACATGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (24 bp):
ACAGATTTTTGTACATAACGTGTT
Found at i:24548583 original size:32 final size:32
Alignment explanation
Indices: 24548547--24548619 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
24548537 TAACATTGTT
24548547 TTATTTTTACGTGTTATTTT-AATATAAATATA
1 TTATTTTTA-GTGTTATTTTAAATATAAATATA
* *
24548579 TTATTTTTATTTTTATTTTAAATATAAATATA
1 TTATTTTTAGTGTTATTTTAAATATAAATATA
* *
24548611 ATATATTTA
1 TTATTTTTA
24548620 AAAAATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 8 0.22
32 28 0.78
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (32 bp):
TTATTTTTAGTGTTATTTTAAATATAAATATA
Found at i:24569532 original size:2 final size:2
Alignment explanation
Indices: 24569520--24569556 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
24569510 TTAAATTAAA
24569520 AT AT A- 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
24569557 TACTTAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24572976 original size:26 final size:27
Alignment explanation
Indices: 24572902--24572980 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
24572892 AATATTACAC
*
24572902 ATCATGTTGAAAAATATAATTGTTACTT
1 ATCATATT-AAAAATATAATTGTTACTT
* *
24572930 GTCATATTAAAAATGTAATTGTTACTT
1 ATCATATTAAAAATATAATTGTTACTT
* *
24572957 ATCATATT-GAAATTTAATTGTTAC
1 ATCATATTAAAAATATAATTGTTAC
24572981 ACACCACGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 14 0.31
27 25 0.56
28 6 0.13
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (27 bp):
ATCATATTAAAAATATAATTGTTACTT
Found at i:24573008 original size:28 final size:27
Alignment explanation
Indices: 24572977--24573037 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
24572967 AATTTAATTG
24572977 TTACACACCACGTTGAAAAATGTAGTTA
1 TTACACACCACGTTG-AAAATGTAGTTA
*** * *
24573005 TTACATGTCATGTTGAAAATTTAGTTA
1 TTACACACCACGTTGAAAATGTAGTTA
24573032 TTACAC
1 TTACAC
24573038 GTCATGTAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (27 bp):
TTACACACCACGTTGAAAATGTAGTTA
Found at i:24573031 original size:27 final size:28
Alignment explanation
Indices: 24572988--24573044 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
24572978 TACACACCAC
*
24572988 GTTGAAAAATGTAGTTATTACATGTCAT
1 GTTGAAAAATGTAGTTATTACACGTCAT
*
24573016 GTTG-AAAATTTAGTTATTACACGTCAT
1 GTTGAAAAATGTAGTTATTACACGTCAT
24573043 GT
1 GT
24573045 AACACCCCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (28 bp):
GTTGAAAAATGTAGTTATTACACGTCAT
Found at i:24575553 original size:60 final size:60
Alignment explanation
Indices: 24575427--24575723 Score: 355
Period size: 60 Copynumber: 5.0 Consensus size: 60
24575417 GACATAATCA
* * * * * * *
24575427 CCTACTTGTGGGAACTGCCCACGCCACC--ATATGAATCGGGGTTTTAGGTCCCCCTTTA
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTTG
* * **
24575485 CCTACTCGTGGGAACTACCCACATCACCAAATATAAATCGAGGCTTCAGGTCCCTTTTTG
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTTG
* * * * * *
24575545 CCTACTCGTGAGAACTACCCGCGTCACCAAATATAAATCGGGGTTTCAGGTTCTCATTTG
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTTG
* *
24575605 CCTACTCGTGGGAACTACCCATGTCACCAAATATAAATCGGGGCTTCAAGTCCCCCTTTG
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTTG
* ** * * *
24575665 CCAACTTATGGGAACTACCCATGTCACAAAATATAAATCGAGGCTTCAGGTCCCCCTTT
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTT
24575724 ACAATCAAAT
Statistics
Matches: 203, Mismatches: 34, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
58 24 0.12
60 179 0.88
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (60 bp):
CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTTG
Found at i:24576287 original size:3 final size:3
Alignment explanation
Indices: 24576279--24576342 Score: 112
Period size: 3 Copynumber: 21.3 Consensus size: 3
24576269 GTGAAACCCG
24576279 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24576326 TAT TAT TAT TAT ATAT T
1 TAT TAT TAT TAT -TAT T
24576343 TTTTTATTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:24578422 original size:2 final size:2
Alignment explanation
Indices: 24578372--24578414 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
24578362 TTAAATTGTT
24578372 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
24578414 T
1 T
24578415 TCATATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24579553 original size:2 final size:2
Alignment explanation
Indices: 24579546--24579580 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
24579536 TTAAATTGTT
*
24579546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24579581 TCATATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:24583582 original size:18 final size:18
Alignment explanation
Indices: 24583561--24583595 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24583551 CTCTACGCAT
24583561 TGTCAAATCATTATAAAC
1 TGTCAAATCATTATAAAC
**
24583579 TGTCATCTCATTATAAA
1 TGTCAAATCATTATAAA
24583596 AGTAAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (18 bp):
TGTCAAATCATTATAAAC
Found at i:24589131 original size:58 final size:58
Alignment explanation
Indices: 24589063--24589178 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
24589053 TTAGTTGCTT
24589063 TATTTAAATAAAAGAAAGGTCCATTTTTGTATGTAACCAAGTTAACTTAAAGTTAATA
1 TATTTAAATAAAAGAAAGGTCCATTTTTGTATGTAACCAAGTTAACTTAAAGTTAATA
*
24589121 TATTTTAATAAAAGAAAGGTCCATTTTTGTATGTAACCAAGTTAACTTAAAGTTAATA
1 TATTTAAATAAAAGAAAGGTCCATTTTTGTATGTAACCAAGTTAACTTAAAGTTAATA
24589179 AGTTCAATAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (58 bp):
TATTTAAATAAAAGAAAGGTCCATTTTTGTATGTAACCAAGTTAACTTAAAGTTAATA
Found at i:24607038 original size:21 final size:21
Alignment explanation
Indices: 24607012--24607062 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
24607002 AGTAAATATA
24607012 AAATATAATTAATTTT-ATAAT
1 AAATATAATTAATTTTCA-AAT
* *
24607033 AAATATGATAAATTTTCAAAT
1 AAATATAATTAATTTTCAAAT
24607054 AAATA-AATT
1 AAATATAATT
24607063 TAACCTCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 2 0.08
21 22 0.88
22 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AAATATAATTAATTTTCAAAT
Found at i:24621446 original size:155 final size:155
Alignment explanation
Indices: 24621164--24621472 Score: 564
Period size: 155 Copynumber: 2.0 Consensus size: 155
24621154 TCTATTTGGC
24621164 GTTCTAGTGATATGGCTGAAAAATTGTGCAAAATAAGGCAAGATTGAGAAAGAAGTGGTCTAAAG
1 GTTCTAGTGATATGGCTGAAAAATTGTGCAAAATAAGGCAAGATTGAGAAAGAAGTGGTCTAAAG
*
24621229 AGAATTTTAGTGCGAGTGGCAGGTGAGCACTGAATGAATCCTGTAGGAATAAATGACAGCTGGGT
66 AGAATTTTAGTGCGAGTGGCAGGTGAGCACTGAATGAATCCTGTAGGAATAAATAACAGCTGGGT
24621294 CCACGGCTTCCCCCTGAACAAAGGT
131 CCACGGCTTCCCCCTGAACAAAGGT
* *
24621319 GTTCTAGTGATATGGCTGAGAAATTGTGCAAAATAAGGCAAGATTGAGAAAGATGTGGTCTAAAG
1 GTTCTAGTGATATGGCTGAAAAATTGTGCAAAATAAGGCAAGATTGAGAAAGAAGTGGTCTAAAG
*
24621384 AGAATTTTAGTGCGAGTGGCAGGTGAGCACTGAATGAATCCTGTATGAATAAATAACAGCTGGGT
66 AGAATTTTAGTGCGAGTGGCAGGTGAGCACTGAATGAATCCTGTAGGAATAAATAACAGCTGGGT
* *
24621449 CCACGGCTTCTCCCTGAGCAAAGG
131 CCACGGCTTCCCCCTGAACAAAGG
24621473 GAAGCCAGTA
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 148 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (155 bp):
GTTCTAGTGATATGGCTGAAAAATTGTGCAAAATAAGGCAAGATTGAGAAAGAAGTGGTCTAAAG
AGAATTTTAGTGCGAGTGGCAGGTGAGCACTGAATGAATCCTGTAGGAATAAATAACAGCTGGGT
CCACGGCTTCCCCCTGAACAAAGGT
Found at i:24636614 original size:30 final size:31
Alignment explanation
Indices: 24636560--24636617 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
24636550 GTCGGCACCT
* *
24636560 TTTAAATGGGGTACCCGCATCAATGTCAAGA
1 TTTAAATGGGGTACACGCACCAATGTCAAGA
*
24636591 TTTAAAT-GGGTACATGCACCAATGTCA
1 TTTAAATGGGGTACACGCACCAATGTCA
24636618 GACAAGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (31 bp):
TTTAAATGGGGTACACGCACCAATGTCAAGA
Found at i:24638168 original size:40 final size:41
Alignment explanation
Indices: 24638108--24638187 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 41
24638098 TCTCTCTCTC
* * *
24638108 CTTTACCTCTCTCTATAAAGATTACTAGAAA-AAAAAAAAT
1 CTTTACATCTCTCTACAAAGACTACTAGAAAGAAAAAAAAT
*
24638148 CTTTACATCTCTCTACAAAGACTATTAGAAAGAAAAAAAA
1 CTTTACATCTCTCTACAAAGACTACTAGAAAGAAAAAAAA
24638188 AAAAAGACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (41 bp):
CTTTACATCTCTCTACAAAGACTACTAGAAAGAAAAAAAAT
Found at i:24640976 original size:47 final size:47
Alignment explanation
Indices: 24640907--24641000 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
24640897 TAATATATAA
24640907 GCAATAAAGTGCGTCAAACTTATTGATGCTAGGGCTTGTTTTATTTT
1 GCAATAAAGTGCGTCAAACTTATTGATGCTAGGGCTTGTTTTATTTT
*
24640954 GCAATAAAGTGCGTCAAACTTATTGATGCTAGGGTTTGTTTTATTTT
1 GCAATAAAGTGCGTCAAACTTATTGATGCTAGGGCTTGTTTTATTTT
24641001 TTATTTTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (47 bp):
GCAATAAAGTGCGTCAAACTTATTGATGCTAGGGCTTGTTTTATTTT
Found at i:24644789 original size:23 final size:23
Alignment explanation
Indices: 24644763--24644807 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
24644753 CTTGCTTTCG
*
24644763 ATTTCTCTCTCTCACGTTTTCAT
1 ATTTCTCTCTCTCACGCTTTCAT
* *
24644786 ATTTCTCTTTCTTACGCTTTCA
1 ATTTCTCTCTCTCACGCTTTCA
24644808 AGACACCAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.13, C:0.29, G:0.04, T:0.53
Consensus pattern (23 bp):
ATTTCTCTCTCTCACGCTTTCAT
Found at i:24645171 original size:24 final size:24
Alignment explanation
Indices: 24645139--24645191 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
24645129 ATTTGAAGTT
*
24645139 TCACAGGTTTTTGTACATGGCTTG
1 TCACAGGTTTTTGTACATGGCGTG
*
24645163 TCACAGGTTTTTGTATATGGCGTG
1 TCACAGGTTTTTGTACATGGCGTG
24645187 TCACA
1 TCACA
24645192 CGCTAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.40
Consensus pattern (24 bp):
TCACAGGTTTTTGTACATGGCGTG
Found at i:24645204 original size:21 final size:20
Alignment explanation
Indices: 24645179--24645288 Score: 67
Period size: 21 Copynumber: 5.0 Consensus size: 20
24645169 GTTTTTGTAT
24645179 ATGGCGTGTCACACGCTAAC
1 ATGGCGTGTCACACGCTAAC
* * *
24645199 TATGGCTTGTCACAAGCTTTTGTAC
1 -ATGGCGTGTCACACGC---T-AAC
*
24645224 ATGGCGTGTAACACGCTAACC
1 ATGGCGTGTCACACGCTAA-C
* * *
24645245 ATGACTTGTCACAGGCTTTTATAC
1 ATGGCGTGTCACACGC---TA-AC
24645269 ATGGCGTGTCACACGCTAAC
1 ATGGCGTGTCACACGCTAAC
24645289 CATGACTTGT
Statistics
Matches: 66, Mismatches: 14, Indels: 19
0.67 0.14 0.19
Matches are distributed among these distances:
20 3 0.05
21 30 0.45
24 30 0.45
25 3 0.05
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (20 bp):
ATGGCGTGTCACACGCTAAC
Found at i:24645278 original size:24 final size:24
Alignment explanation
Indices: 24645139--24645281 Score: 86
Period size: 24 Copynumber: 6.2 Consensus size: 24
24645129 ATTTGAAGTT
* * *
24645139 TCACAGGTTTTTGTACATGGCTTG
1 TCACAGGCTTTTATACATGGCGTG
* * *
24645163 TCACAGGTTTTTGTATATGGCGTG
1 TCACAGGCTTTTATACATGGCGTG
* *
24645187 TCACACGC---TA-ACTATGGCTTG
1 TCACAGGCTTTTATAC-ATGGCGTG
* *
24645208 TCACAAGCTTTTGTACATGGCGTG
1 TCACAGGCTTTTATACATGGCGTG
* * * *
24645232 TAACACGC---TA-ACCATGACTTG
1 TCACAGGCTTTTATA-CATGGCGTG
24645253 TCACAGGCTTTTATACATGGCGTG
1 TCACAGGCTTTTATACATGGCGTG
24645277 TCACA
1 TCACA
24645282 CGCTAACCAT
Statistics
Matches: 90, Mismatches: 19, Indels: 20
0.70 0.15 0.16
Matches are distributed among these distances:
20 2 0.02
21 29 0.32
24 56 0.62
25 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (24 bp):
TCACAGGCTTTTATACATGGCGTG
Found at i:24645299 original size:21 final size:21
Alignment explanation
Indices: 24645234--24645300 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
24645224 ATGGCGTGTA
24645234 ACACGCTAACCATGACTTGTC
1 ACACGCTAACCATGACTTGTC
* * *
24645255 ACAGGCTTTTATA-CATGGCGTGTC
1 ACACGC---TA-ACCATGACTTGTC
24645279 ACACGCTAACCATGACTTGTC
1 ACACGCTAACCATGACTTGTC
24645300 A
1 A
24645301 TAGGTTTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
20 1 0.03
21 17 0.49
24 16 0.46
25 1 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (21 bp):
ACACGCTAACCATGACTTGTC
Found at i:24645326 original size:45 final size:45
Alignment explanation
Indices: 24645154--24645313 Score: 230
Period size: 45 Copynumber: 3.6 Consensus size: 45
24645144 GGTTTTTGTA
* * *
24645154 CATGGCTTGTCACAGGTTTTTGTATATGGCGTGTCACACGCTAAC
1 CATGACTTGTCACAGGCTTTTGTACATGGCGTGTCACACGCTAAC
* * * *
24645199 TATGGCTTGTCACAAGCTTTTGTACATGGCGTGTAACACGCTAAC
1 CATGACTTGTCACAGGCTTTTGTACATGGCGTGTCACACGCTAAC
*
24645244 CATGACTTGTCACAGGCTTTTATACATGGCGTGTCACACGCTAAC
1 CATGACTTGTCACAGGCTTTTGTACATGGCGTGTCACACGCTAAC
* *
24645289 CATGACTTGTCATAGGTTTTTGTAC
1 CATGACTTGTCACAGGCTTTTGTAC
24645314 GTAGTGTGTC
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 102 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (45 bp):
CATGACTTGTCACAGGCTTTTGTACATGGCGTGTCACACGCTAAC
Found at i:24645339 original size:69 final size:69
Alignment explanation
Indices: 24645251--24645459 Score: 258
Period size: 68 Copynumber: 3.0 Consensus size: 69
24645241 AACCATGACT
* * * * *
24645251 TGTCACAGGCTTTTATACATGGCGTGTCACACGCTAACCATGACTTGTCATAGGTTTTTGTACGT
1 TGTCACATGTTTTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCATAGGTTTTTGTACAT
*
24645316 AGTG
66 AGCG
* * * ** *
24645320 TGTCACATGTTTTTGTACATGACGTGTCACACGCTAATCATGGCTTGTTATATATTTTTGTATAT
1 TGTCACATGTTTTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCATAGGTTTTTGTACAT
*
24645385 GGCG
66 AGCG
* * *
24645389 TG-CACATGTTTTTGTATATGGCGTGTCACACGCTAACCATGGCTGGTCACAGGTTTTTGTACAT
1 TGTCACATGTTTTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCATAGGTTTTTGTACAT
*
24645453 GGCG
66 AGCG
24645457 TGT
1 TGT
24645460 AACACGCTAA
Statistics
Matches: 117, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
68 59 0.50
69 58 0.50
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (69 bp):
TGTCACATGTTTTTGTACATGGCGTGTCACACGCTAACCATGGCTTGTCATAGGTTTTTGTACAT
AGCG
Found at i:24645401 original size:23 final size:24
Alignment explanation
Indices: 24645374--24645418 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
24645364 TTGTTATATA
24645374 TTTTTGTATATGGCGTG-CACATG
1 TTTTTGTATATGGCGTGTCACATG
24645397 TTTTTGTATATGGCGTGTCACA
1 TTTTTGTATATGGCGTGTCACA
24645419 CGCTAACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.18, C:0.13, G:0.24, T:0.44
Consensus pattern (24 bp):
TTTTTGTATATGGCGTGTCACATG
Found at i:24645445 original size:45 final size:45
Alignment explanation
Indices: 24645391--24645508 Score: 182
Period size: 45 Copynumber: 2.6 Consensus size: 45
24645381 ATATGGCGTG
* * *
24645391 CACATGTTTTTGTATATGGCGTGTCACACGCTAACCATGGCTGGT
1 CACAGGTTTTTGTACATGGCGTGTAACACGCTAACCATGGCTGGT
*
24645436 CACAGGTTTTTGTACATGGCGTGTAACACGCTAACCATGGCTTGT
1 CACAGGTTTTTGTACATGGCGTGTAACACGCTAACCATGGCTGGT
* *
24645481 TACAGATTTTTGTACATGGCGTGTAACA
1 CACAGGTTTTTGTACATGGCGTGTAACA
24645509 TCATAGTGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (45 bp):
CACAGGTTTTTGTACATGGCGTGTAACACGCTAACCATGGCTGGT
Found at i:24645846 original size:24 final size:23
Alignment explanation
Indices: 24645794--24645846 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
24645784 TATTAATTAA
24645794 AATTTT-AAAATTATGAATATTT
1 AATTTTAAAAATTATGAATATTT
24645816 -ATGTTTAAAAATTTATGAACT-TTT
1 AAT-TTTAAAAA-TTATGAA-TATTT
24645840 AATTTTA
1 AATTTTA
24645847 TTTATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 4 0.15
24 14 0.54
25 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (23 bp):
AATTTTAAAAATTATGAATATTT
Found at i:24646600 original size:27 final size:27
Alignment explanation
Indices: 24646560--24646643 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
24646550 ATATTAGCAT
* *
24646560 TTATTTTTAGCAAAATAATACATTGTA
1 TTATTTTCATCAAAATAATACATTGTA
*
24646587 TTATTTTCATCAAAATAATATATATTGTA
1 TTATTTTCATCAAAAT-A-ATACATTGTA
* * *
24646616 TTACTTTGATTAAAATAATACATTGTA
1 TTATTTTCATCAAAATAATACATTGTA
24646643 T
1 T
24646644 ATATAATTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 24 0.50
28 2 0.04
29 22 0.46
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.46
Consensus pattern (27 bp):
TTATTTTCATCAAAATAATACATTGTA
Found at i:24647642 original size:29 final size:30
Alignment explanation
Indices: 24647608--24647693 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 30
24647598 ATTTAGAAAA
24647608 ATTCAAATAAATCTTTATACTTTTATTACG
1 ATTCAAATAAATCTTTATACTTTTATTACG
* * * **
24647638 -TTC-AATCAAGTTTTTATATTTTTATTTTG
1 ATTCAAAT-AAATCTTTATACTTTTATTACG
*
24647667 AATT-AAATAAATCCTTATACTTTTATT
1 -ATTCAAATAAATCTTTATACTTTTATT
24647694 TTTAGTTAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
28 3 0.07
29 20 0.47
30 15 0.35
31 5 0.12
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTCAAATAAATCTTTATACTTTTATTACG
Found at i:24650715 original size:1 final size:1
Alignment explanation
Indices: 24650711--24650741 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
24650701 CCCCACACAA
24650711 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
24650742 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:24651276 original size:17 final size:17
Alignment explanation
Indices: 24651225--24651269 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
24651215 AAAAAAAGAG
*
24651225 AGAAAAAAATAAAGGAAAA
1 AGAAAATAATAAA--AAAA
24651244 AGAAAATAATAAAAAAA
1 AGAAAATAATAAAAAAA
24651261 AGAATAATA
1 AGAA-AATA
24651270 TGAAAAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 4 0.17
19 12 0.50
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AGAAAATAATAAAAAAA
Found at i:24670476 original size:16 final size:16
Alignment explanation
Indices: 24670455--24670486 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24670445 AACCACAAAA
*
24670455 GGACATGCGCATGCAT
1 GGACATGCACATGCAT
24670471 GGACATGCACATGCAT
1 GGACATGCACATGCAT
24670487 AGGCAAGCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (16 bp):
GGACATGCACATGCAT
Found at i:24672251 original size:23 final size:23
Alignment explanation
Indices: 24672208--24672252 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24672198 TTTTCAAAAA
* *
24672208 AAAATTATACAATAATAATTTTT
1 AAAATTATAAAAAAATAATTTTT
24672231 AAAATTAATAAAAAAAT-ATTTT
1 AAAATT-ATAAAAAAATAATTTT
24672253 AATCTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTATAAAAAAATAATTTTT
Found at i:24678381 original size:62 final size:64
Alignment explanation
Indices: 24678315--24678446 Score: 148
Period size: 62 Copynumber: 2.1 Consensus size: 64
24678305 TCTCACCAAA
*
24678315 TAAAAAATTATT-ATAGAGATAAAATTAT-AAATTTCAAAAAAATAAA-AT-A-TATTAAAAATT
1 TAAAAAATT-TTGA-AGAGACAAAATTATAAAATTTCAAAAAAATAAAGATAAGTA-TAAAAATT
24678375 TT
63 TT
* * *
24678377 TAAAAACTTTTGGAAGGGACGAAATTATAAAATTTCAAAAAAATAAAGATAAGTTATAAAAATTT
1 TAAAAAATTTT-GAAGAGACAAAATTATAAAATTTCAAAAAAATAAAGATAAG-TATAAAAATTT
24678442 T
64 T
24678443 TAAA
1 TAAA
24678447 TTGTTGTGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
61 2 0.03
62 19 0.32
63 19 0.32
64 2 0.03
65 1 0.02
66 14 0.24
67 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.33
Consensus pattern (64 bp):
TAAAAAATTTTGAAGAGACAAAATTATAAAATTTCAAAAAAATAAAGATAAGTATAAAAATTTT
Found at i:24678637 original size:8 final size:8
Alignment explanation
Indices: 24678624--24678656 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
24678614 AGTTTTCAAA
24678624 ATTTTTTT
1 ATTTTTTT
24678632 ATTTTTTT
1 ATTTTTTT
24678640 ATTTTTTT
1 ATTTTTTT
*
24678648 -TTATTTT
1 ATTTTTTT
24678655 AT
1 AT
24678657 CTTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
ATTTTTTT
Found at i:24678646 original size:15 final size:15
Alignment explanation
Indices: 24678626--24678667 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24678616 TTTTCAAAAT
24678626 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
24678641 TTTTTT-TTTATTTTA
1 TTTTTTATTT-TTTTA
*
24678656 -TCTTTATTTTTT
1 TTTTTTATTTTTT
24678668 ATAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:24678665 original size:18 final size:18
Alignment explanation
Indices: 24678626--24678669 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24678616 TTTTCAAAAT
* *
24678626 TTTTTTATTTTTTTATTT
1 TTTTTTATTTTTCTATTA
24678644 TTTTTTATTTTATCT-TTA
1 TTTTTTATTTT-TCTATTA
24678662 TTTTTTAT
1 TTTTTTAT
24678670 AAATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTATTTTTCTATTA
Found at i:24680226 original size:12 final size:12
Alignment explanation
Indices: 24680209--24680235 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24680199 TAGTAGAAAC
24680209 TAAAATGTTAGT
1 TAAAATGTTAGT
24680221 TAAAATGTTAGT
1 TAAAATGTTAGT
24680233 TAA
1 TAA
24680236 GATGGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (12 bp):
TAAAATGTTAGT
Found at i:24680929 original size:14 final size:14
Alignment explanation
Indices: 24680912--24680938 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24680902 AGTTTTCAAA
24680912 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
24680926 TTTTATTTTTTTA
1 TTTTATTTTTTTA
24680939 AAAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:24683476 original size:22 final size:22
Alignment explanation
Indices: 24683428--24683476 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
24683418 GCCAGATACC
*
24683428 GAGATTGTACAAGGTAGGTGCT
1 GAGATTGTACAAGGTAGGTACT
* *
24683450 TAGATTGTGCATA-GTAGGTACT
1 GAGATTGTACA-AGGTAGGTACT
24683472 GAGAT
1 GAGAT
24683477 AATTTAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (22 bp):
GAGATTGTACAAGGTAGGTACT
Found at i:24683884 original size:25 final size:25
Alignment explanation
Indices: 24683854--24683905 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
24683844 TAGATTTAAT
*
24683854 AAATAATATTCCTAATAAAAA-ATAA
1 AAATAATA-TCATAATAAAAATATAA
*
24683879 AAATAATATGATAATAAAAATATAA
1 AAATAATATCATAATAAAAATATAA
24683904 AA
1 AA
24683906 TACTTACCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATAATATCATAATAAAAATATAA
Found at i:24683947 original size:24 final size:23
Alignment explanation
Indices: 24683866--24683947 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 23
24683856 ATAATATTCC
*
24683866 TAATAAAAAATAAAAATAATA-TGA
1 TAATAAAAAAT-AAAATAA-ACTTA
24683890 TAATAAAAATATAAAAT--ACTTA
1 TAATAAAAA-ATAAAATAAACTTA
* *
24683912 CCCAATATAAAATAAACATAAACTTA
1 --TAATAAAAAATAAA-ATAAACTTA
24683938 TAATAAAAAA
1 TAATAAAAAA
24683948 ATTCTAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
21 1 0.02
22 2 0.04
23 5 0.11
24 31 0.67
25 2 0.04
26 5 0.11
ACGTcount: A:0.66, C:0.07, G:0.01, T:0.26
Consensus pattern (23 bp):
TAATAAAAAATAAAATAAACTTA
Found at i:24686292 original size:23 final size:24
Alignment explanation
Indices: 24686257--24686302 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
24686247 AAAGGAGAAC
24686257 AATTAAAAAATTA-TACTTAATTT
1 AATTAAAAAATTATTACTTAATTT
* *
24686280 AATTAGAATATTATTACTTAATT
1 AATTAAAAAATTATTACTTAATT
24686303 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTAAAAAATTATTACTTAATTT
Found at i:24686415 original size:88 final size:88
Alignment explanation
Indices: 24686266--24686441 Score: 336
Period size: 88 Copynumber: 2.0 Consensus size: 88
24686256 CAATTAAAAA
24686266 ATTATACTTAATTTAATTAGAATATTATTACTTAATTATTTTATTTTATTTTTTGCTTCAAACTT
1 ATTATACTTAATTTAATTAGAATATTATTACTTAATTATTTTATTTTATTTTTTGCTTCAAACTT
24686331 GTGAG-TTTTTTTTTTTGAATTG
66 GTGAGTTTTTTTTTTTTGAATTG
24686353 NATTATACTTAATTTAATTAGAATATTATTACTTAATTATTTTATTTTATTTTTTGCTTCAAACT
1 -ATTATACTTAATTTAATTAGAATATTATTACTTAATTATTTTATTTTATTTTTTGCTTCAAACT
24686418 TGTGAGTTTTTTTTTTTTGAATTG
65 TGTGAGTTTTTTTTTTTTGAATTG
24686442 TTAAGAAAAT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 70 0.80
89 17 0.20
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (88 bp):
ATTATACTTAATTTAATTAGAATATTATTACTTAATTATTTTATTTTATTTTTTGCTTCAAACTT
GTGAGTTTTTTTTTTTTGAATTG
Found at i:24686601 original size:15 final size:17
Alignment explanation
Indices: 24686565--24686604 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
24686555 AATTAAATTA
24686565 AATTA-TTATATTTTCT
1 AATTATTTATATTTTCT
*
24686581 ATTTATTTAT-TTTTC-
1 AATTATTTATATTTTCT
24686596 AATTATTTA
1 AATTATTTA
24686605 AAAATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 9 0.43
17 4 0.19
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTATTTATATTTTCT
Done.