Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 63 of 126
Found at i:18437004 original size:11 final size:11
Alignment explanation
Indices: 18436990--18437030 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
18436980 ACCACCACTT
18436990 CACCACCATAA
1 CACCACCATAA
*
18437001 CACCACCATAC
1 CACCACCATAA
18437012 CACCACCATAA
1 CACCACCATAA
18437023 CACCACCA
1 CACCACCA
18437031 CCATAGCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.41, C:0.51, G:0.00, T:0.07
Consensus pattern (11 bp):
CACCACCATAA
Found at i:18437007 original size:22 final size:23
Alignment explanation
Indices: 18436980--18437031 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
18436970 ATTCGATATT
*
18436980 ACCACCACT-TCACCACCATAAC
1 ACCACCACTACCACCACCATAAC
18437002 ACCACCA-TACCACCACCATAAC
1 ACCACCACTACCACCACCATAAC
18437024 ACCACCAC
1 ACCACCAC
18437032 CATAGCACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.10
Consensus pattern (23 bp):
ACCACCACTACCACCACCATAAC
Found at i:18437031 original size:25 final size:25
Alignment explanation
Indices: 18436990--18437054 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
18436980 ACCACCACTT
18436990 CACCACCAT-A-A-CACCACCATAC
1 CACCACCATAACACCACCACCATAC
*
18437012 CACCACCATAACACCACCACCATAG
1 CACCACCATAACACCACCACCATAC
* * *
18437037 CACAACCGTACCACCACC
1 CACCACCATAACACCACC
18437055 TTTGCACCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 9 0.25
23 1 0.03
24 1 0.03
25 25 0.69
ACGTcount: A:0.38, C:0.51, G:0.03, T:0.08
Consensus pattern (25 bp):
CACCACCATAACACCACCACCATAC
Found at i:18441288 original size:14 final size:14
Alignment explanation
Indices: 18441269--18441315 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
18441259 TAAGTATTTT
18441269 TTAAGTTTAATTAA
1 TTAAGTTTAATTAA
18441283 TTAAGTTTAATTAAA
1 TTAAGTTTAATT-AA
***
18441298 TTAAACATAATTAA
1 TTAAGTTTAATTAA
18441312 TTAA
1 TTAA
18441316 CTAAAACATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (14 bp):
TTAAGTTTAATTAA
Found at i:18446423 original size:29 final size:28
Alignment explanation
Indices: 18446376--18446433 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
18446366 CCTTATCCAT
*
18446376 TTTTTTAATAAATGACCTAATATTTTTA
1 TTTTTTAATAAATGACCTAATATGTTTA
* *
18446404 TTTTTTATATAAGTGGCCTAATATGTTTA
1 TTTTTTA-ATAAATGACCTAATATGTTTA
18446433 T
1 T
18446434 ACTTCTTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (28 bp):
TTTTTTAATAAATGACCTAATATGTTTA
Found at i:18447287 original size:3 final size:3
Alignment explanation
Indices: 18447274--18447338 Score: 98
Period size: 3 Copynumber: 22.3 Consensus size: 3
18447264 GGAAATTTTC
*
18447274 TCT TAT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
18447321 TCT TCT TC- TCT GCT TCT T
1 TCT TCT TCT TCT TCT TCT T
18447339 TTTTTATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 4 0.07
3 52 0.93
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:18452763 original size:41 final size:43
Alignment explanation
Indices: 18452714--18452821 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
18452704 AACCGTTACT
* * *
18452714 CGGTGGAATCAGCAGTTAGCAACCAAC-TT-ATATTC-AGTGATA
1 CGGTGGAATCAGCACTTAGCAACC-ACTTTCACAATCAAG-GATA
* *
18452756 CGG-GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATA
1 CGGTGGAATCAGCACTTAGCAACCACTTTCACAATCAAGGATA
18452798 CGGTGGAATCAGCACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
18452822 CCTCGAGGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
40 1 0.02
41 20 0.36
42 14 0.25
43 21 0.38
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACTTTCACAATCAAGGATA
Found at i:18452885 original size:41 final size:41
Alignment explanation
Indices: 18452828--18452935 Score: 191
Period size: 40 Copynumber: 2.7 Consensus size: 41
18452818 AACCCCTCGA
*
18452828 GGAATCTGCACTTAGCAACCCCTTTTTGATTAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAG
*
18452869 GGAATCTGCACTTAGCAACCCC-TTTTGATCAGTGATTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAG
18452909 GGAATCTGCACTTAGCAACCCCTTTTT
1 GGAATCTGCACTTAGCAACCCCTTTTT
18452936 TTTCAATAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 38 0.59
41 26 0.41
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAG
Found at i:18453005 original size:20 final size:20
Alignment explanation
Indices: 18452982--18453020 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18452972 GGGAACCTTA
18452982 TTTTACAATATTTT-ACCAAC
1 TTTTACAA-ATTTTCACCAAC
*
18453002 TTTTTCAAATTTTCACCAA
1 TTTTACAAATTTTCACCAA
18453021 TCCCCGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTACAAATTTTCACCAAC
Found at i:18454211 original size:23 final size:23
Alignment explanation
Indices: 18454184--18454260 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
18454174 GTTAGATTTT
* *
18454184 TTCTAAATATTGTAATTAAATAA
1 TTCTAAATATTATCATTAAATAA
18454207 TTCTAAATATTATCATTAAATAA
1 TTCTAAATATTATCATTAAATAA
*
18454230 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCATTAAATAA
*
18454253 TTCAAAAT
1 TTCTAAAT
18454261 TTTAAAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.48, C:0.09, G:0.01, T:0.42
Consensus pattern (23 bp):
TTCTAAATATTATCATTAAATAA
Found at i:18462919 original size:15 final size:15
Alignment explanation
Indices: 18462901--18462938 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
18462891 TCTTCTAAAG
18462901 AAATAAAATACTCAT
1 AAATAAAATACTCAT
*
18462916 AAATAAAAT-CTCCT
1 AAATAAAATACTCAT
18462930 -AATAAAATA
1 AAATAAAATA
18462939 ATAATAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 4 0.19
15 9 0.43
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAATACTCAT
Found at i:18465912 original size:16 final size:16
Alignment explanation
Indices: 18465891--18465952 Score: 90
Period size: 16 Copynumber: 3.9 Consensus size: 16
18465881 GCTGTATTGG
18465891 AATAGAGGCGTAATGA
1 AATAGAGGCGTAATGA
18465907 AATAGAGGCGTAAT-A
1 AATAGAGGCGTAATGA
* *
18465922 GAATAGAGGTGTAATGG
1 -AATAGAGGCGTAATGA
18465939 AATAGAGGCGTAAT
1 AATAGAGGCGTAAT
18465953 AGCAAATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
15 1 0.02
16 40 0.98
ACGTcount: A:0.42, C:0.05, G:0.32, T:0.21
Consensus pattern (16 bp):
AATAGAGGCGTAATGA
Found at i:18465936 original size:32 final size:32
Alignment explanation
Indices: 18465890--18465954 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
18465880 CGCTGTATTG
18465890 GAATAGAGGCGTAATGAAATAGAGGCGTAATA
1 GAATAGAGGCGTAATGAAATAGAGGCGTAATA
* *
18465922 GAATAGAGGTGTAATGGAATAGAGGCGTAATA
1 GAATAGAGGCGTAATGAAATAGAGGCGTAATA
18465954 G
1 G
18465955 CAAATCAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.34, T:0.20
Consensus pattern (32 bp):
GAATAGAGGCGTAATGAAATAGAGGCGTAATA
Found at i:18466226 original size:61 final size:60
Alignment explanation
Indices: 18466156--18466336 Score: 181
Period size: 61 Copynumber: 3.0 Consensus size: 60
18466146 ATTTAATAAA
**
18466156 AATATATAATTTAGTAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTA-TAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
* * * * * ** * *
18466217 AATATATAATACTATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-TTATAAAATTCTTAATATTAA-AT-ATTCTTATATGAATTTAATAAAATCAT
*
18466276 AATATATAATTTAATACAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
1 AATATATAATTT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
18466337 GTAAAAAGAA
Statistics
Matches: 91, Mismatches: 21, Indels: 16
0.71 0.16 0.12
Matches are distributed among these distances:
58 5 0.05
59 31 0.34
60 16 0.18
61 33 0.36
62 6 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
Found at i:18466254 original size:120 final size:120
Alignment explanation
Indices: 18466116--18466336 Score: 397
Period size: 120 Copynumber: 1.8 Consensus size: 120
18466106 ATAATTTAAT
* *
18466116 TATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
**
18466181 ATATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAA
66 ATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAA
*
18466236 TATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATACAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
18466301 ATATTAAATATTCTTATATGAATTTAATAAAATCAT
66 ATATTAAATATTCTTATATGAATTTAATAAAATCAT
18466337 GTAAAAAGAA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
TATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
ATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAA
Found at i:18468976 original size:17 final size:18
Alignment explanation
Indices: 18468932--18468978 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
18468922 AATTTAGTTT
18468932 TAATATATATAATTGAATG
1 TAATATAT-TAATTGAATG
*
18468951 TAATTTATTCAATT-AA-G
1 TAATATATT-AATTGAATG
18468968 TAATATATTAA
1 TAATATATTAA
18468979 ATTTCCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 2 0.08
17 9 0.36
18 3 0.12
19 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (18 bp):
TAATATATTAATTGAATG
Found at i:18468981 original size:17 final size:19
Alignment explanation
Indices: 18468932--18468981 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
18468922 AATTTAGTTT
18468932 TAATATA-TATAATTGAATG
1 TAATATATTA-AATTGAATG
* *
18468951 TAATTTATTCAATT-AA-G
1 TAATATATTAAATTGAATG
18468968 TAATATATTAAATT
1 TAATATATTAAATT
18468982 TCCTAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 13 0.50
18 2 0.08
19 10 0.38
20 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (19 bp):
TAATATATTAAATTGAATG
Found at i:18470827 original size:3 final size:3
Alignment explanation
Indices: 18470819--18470863 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
18470809 TGTTATTAAG
*
18470819 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18470864 CTATATATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18471353 original size:17 final size:17
Alignment explanation
Indices: 18471307--18471353 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
18471297 TGTACATGTA
18471307 TATATTTATATATTTTTT
1 TATATTTATATA-TTTTT
* * *
18471325 TCTAATGA-ATATTTTT
1 TATATTTATATATTTTT
18471341 TATATTTATATAT
1 TATATTTATATAT
18471354 ATACATATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
16 10 0.45
17 7 0.32
18 5 0.23
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TATATTTATATATTTTT
Found at i:18471466 original size:10 final size:10
Alignment explanation
Indices: 18471427--18471459 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18471417 TTAACGCATA
18471427 TTTTATA-AT
1 TTTTATATAT
*
18471436 TTATATATAT
1 TTTTATATAT
18471446 TTTTATATAT
1 TTTTATATAT
18471456 TTTT
1 TTTT
18471460 CTTTATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATATAT
Found at i:18477175 original size:21 final size:21
Alignment explanation
Indices: 18477151--18477191 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18477141 TTGTGTATTT
*
18477151 ATCCAT-GTCATAGGTAAATTC
1 ATCCATAG-CATAAGTAAATTC
18477172 ATCCATAGCATAAGTAAATT
1 ATCCATAGCATAAGTAAATT
18477192 TCTCACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (21 bp):
ATCCATAGCATAAGTAAATTC
Found at i:18485200 original size:23 final size:22
Alignment explanation
Indices: 18485147--18485196 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
18485137 AAACTGACTC
*
18485147 TTCAGATTTATCGTTTTACCCCT
1 TTCAAATTTATCGTTTTA-CCCT
*
18485170 TTCAAATTTATCGTTTT-GCCT
1 TTCAAATTTATCGTTTTACCCT
18485191 TTCAAA
1 TTCAAA
18485197 AATTATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.36
23 16 0.64
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.48
Consensus pattern (22 bp):
TTCAAATTTATCGTTTTACCCT
Found at i:18489924 original size:55 final size:55
Alignment explanation
Indices: 18489840--18489951 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
18489830 CCAGCATTAC
18489840 AAGAACCTACAGGGTCACACCCTATGGTTAAAGCGAACAAAATCATAATTTCAAT
1 AAGAACCTACAGGGTCACACCCTATGGTTAAAGCGAACAAAATCATAATTTCAAT
* *
18489895 AAGAACCTACAGGGTCGCACCCTATGGTTAAAGCGAACAATATCATAATTTCAAT
1 AAGAACCTACAGGGTCACACCCTATGGTTAAAGCGAACAAAATCATAATTTCAAT
18489950 AA
1 AA
18489952 TTTGATTACA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.22
Consensus pattern (55 bp):
AAGAACCTACAGGGTCACACCCTATGGTTAAAGCGAACAAAATCATAATTTCAAT
Found at i:18491315 original size:20 final size:20
Alignment explanation
Indices: 18491287--18491343 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
18491277 AATATTAAGA
* *
18491287 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
18491307 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
18491327 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
18491344 ACATAAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:18492079 original size:39 final size:40
Alignment explanation
Indices: 18491999--18492127 Score: 179
Period size: 40 Copynumber: 3.2 Consensus size: 40
18491989 AGATCAACTG
* *
18491999 AACACACCAGACAAAAGCTCATAAGAGCTAATCCAACCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAATCGA
*
18492039 AACACACCAGACAGAATCTCAT-AGAGCTAATCCAATCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAATCGA
** * *
18492078 AACATGCCAGACAGAAGCTCATAAAAGCTAATCCAATCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAATCGA
*
18492118 AACACGCCAG
1 AACACACCAG
18492128 TTAGAGAGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 35 0.44
40 44 0.56
ACGTcount: A:0.46, C:0.29, G:0.13, T:0.12
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTAATCCAATCGA
Found at i:18497471 original size:7 final size:8
Alignment explanation
Indices: 18497454--18497506 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 8
18497444 GAACAGAAAT
18497454 AAATAAAA
1 AAATAAAA
18497462 AAATAAAA
1 AAATAAAA
18497470 AAATAAATTTA
1 AAATAAA---A
*
18497481 AAGTAAAGA
1 AAATAAA-A
18497490 AAATAAATA
1 AAATAAA-A
18497499 AAATAAAA
1 AAATAAAA
18497507 TCCAAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 16 0.42
9 15 0.39
11 7 0.18
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (8 bp):
AAATAAAA
Found at i:18497475 original size:20 final size:21
Alignment explanation
Indices: 18497450--18497501 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
18497440 CAACGAACAG
18497450 AAATAAATAAAAAAATAAA-A
1 AAATAAATAAAAAAATAAAGA
** *
18497470 AAATAAAT-TTAAAGTAAAGA
1 AAATAAATAAAAAAATAAAGA
18497490 AAATAAATAAAA
1 AAATAAATAAAA
18497502 TAAAATCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.28
20 17 0.68
21 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (21 bp):
AAATAAATAAAAAAATAAAGA
Found at i:18500731 original size:50 final size:50
Alignment explanation
Indices: 18500673--18500812 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 50
18500663 TATTGAGGTT
* * * *
18500673 ATGAGAGGTCCCACATAAGATCATGTCTGGGACATGGCGTTGGCTCCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* * *
18500723 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATGGGCACCGAG
** * * * * *
18500773 ATGAGAACTCTCACGTAAGACCATATCTAGGATATGGCAT
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCAT
18500813 TGGTAGTACA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:18500859 original size:49 final size:49
Alignment explanation
Indices: 18500681--18500866 Score: 151
Period size: 50 Copynumber: 3.8 Consensus size: 49
18500671 TTATGAGAGG
* * * * * * **
18500681 TCCCACATAAGATCATGTCTGGGACATGGCGTTGGCTCCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC-ACGACAGGAGAAC
* * * *
18500731 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGAGAAC
* * * * *
18500781 TCTCACGTAAGACCATATCTAGGATATGGCATTGGTA-GTACAGGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAGGAGAAC
* *
18500829 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
18500867 TGTTATTATC
Statistics
Matches: 108, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
48 4 0.04
49 34 0.31
50 70 0.65
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (49 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACGACAGGAGAAC
Found at i:18505351 original size:21 final size:22
Alignment explanation
Indices: 18505325--18505377 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
18505315 CAGCGGTGGT
18505325 GGTGAGATTAGG-TACTGTAGC
1 GGTGAGATTAGGATACTGTAGC
18505346 GGTGAGATT-GGATACTGTAGC
1 GGTGAGATTAGGATACTGTAGC
*
18505367 AGTGAGATTAG
1 GGTGAGATTAG
18505378 AAACAGTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.26, C:0.08, G:0.38, T:0.28
Consensus pattern (22 bp):
GGTGAGATTAGGATACTGTAGC
Found at i:18505585 original size:30 final size:30
Alignment explanation
Indices: 18505545--18505601 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
18505535 TACAATTATA
* *
18505545 TTTATTTGTATTGCTCTTACAAAAATACCT
1 TTTATGTGTATTGCGCTTACAAAAATACCT
18505575 TTTATGTGTATTGCGCTTACAAAAATA
1 TTTATGTGTATTGCGCTTACAAAAATA
18505602 TCGAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTATGTGTATTGCGCTTACAAAAATACCT
Found at i:18506931 original size:111 final size:111
Alignment explanation
Indices: 18506779--18506999 Score: 433
Period size: 111 Copynumber: 2.0 Consensus size: 111
18506769 TTAGACTTCA
*
18506779 TTATCAAACACACACATATATGCATATTGCCCCTTAGTTCAACAAGCCAATGCTTTTATTTTTTG
1 TTATCAAACACACACATATATGCATATTGCACCTTAGTTCAACAAGCCAATGCTTTTATTTTTTG
18506844 CAAATTGCATCTTAGGCATATAAGCATAGATTGATAATATGAATTT
66 CAAATTGCATCTTAGGCATATAAGCATAGATTGATAATATGAATTT
18506890 TTATCAAACACACACATATATGCATATTGCACCTTAGTTCAACAAGCCAATGCTTTTATTTTTTG
1 TTATCAAACACACACATATATGCATATTGCACCTTAGTTCAACAAGCCAATGCTTTTATTTTTTG
18506955 CAAATTGCATCTTAGGCATATAAGCATAGATTGATAATATGAATT
66 CAAATTGCATCTTAGGCATATAAGCATAGATTGATAATATGAATT
18507000 GGACAGACGA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (111 bp):
TTATCAAACACACACATATATGCATATTGCACCTTAGTTCAACAAGCCAATGCTTTTATTTTTTG
CAAATTGCATCTTAGGCATATAAGCATAGATTGATAATATGAATTT
Found at i:18511660 original size:18 final size:18
Alignment explanation
Indices: 18511637--18511675 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
18511627 TACTACGGTT
18511637 TAATCATAATCGGGAAAG
1 TAATCATAATCGGGAAAG
18511655 TAATCATAATCGGGAAAG
1 TAATCATAATCGGGAAAG
18511673 TAA
1 TAA
18511676 AAGACTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (18 bp):
TAATCATAATCGGGAAAG
Found at i:18516575 original size:22 final size:23
Alignment explanation
Indices: 18516545--18516599 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
18516535 TAAAATATTT
* *
18516545 TTAATAATTTAAAAACA-TAAAA
1 TTAAAAATTTAAAAAAACTAAAA
18516567 TTAAAAA-TTAAAAAAACTAAAA
1 TTAAAAATTTAAAAAAACTAAAA
18516589 TTAAAATATTT
1 TTAAAA-ATTT
18516600 GTTGATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.29
22 17 0.61
23 1 0.04
24 2 0.07
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAAAATTTAAAAAAACTAAAA
Found at i:18519951 original size:20 final size:20
Alignment explanation
Indices: 18519911--18519952 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18519901 TCTCTTTTTT
* *
18519911 TTTTATCTTTCTTCTTCTTC
1 TTTTATCTTTCTGCATCTTC
*
18519931 TTTTATCTTTCTGCATGTTC
1 TTTTATCTTTCTGCATCTTC
18519951 TT
1 TT
18519953 CTTTATTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.21, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTATCTTTCTGCATCTTC
Found at i:18523850 original size:19 final size:19
Alignment explanation
Indices: 18523826--18523974 Score: 208
Period size: 19 Copynumber: 7.8 Consensus size: 19
18523816 AATCATATAT
18523826 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
18523845 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
18523864 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
18523883 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
18523902 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
18523921 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
**
18523940 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18523959 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
18523975 CTCAAAAATT
Statistics
Matches: 110, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:18523888 original size:57 final size:57
Alignment explanation
Indices: 18523803--18523974 Score: 200
Period size: 57 Copynumber: 2.9 Consensus size: 57
18523793 AAATTAAATC
* * *
18523803 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATATCTAAGATTATATATCATC
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATATCTAAGATTACATATCATA
* ** * *
18523864 TCTAAGATTGCATATCATATCTAAGATTATATATCATCTCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTACATATCATA
* ** *
18523921 TCTAAGATTATATATCATATCTTGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTACATATC
18523975 CTCAAAAATT
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
57 79 0.82
58 3 0.03
60 4 0.04
61 10 0.10
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (57 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTACATATCATA
Found at i:18523974 original size:38 final size:38
Alignment explanation
Indices: 18523826--18523967 Score: 257
Period size: 38 Copynumber: 3.7 Consensus size: 38
18523816 AATCATATAT
18523826 TCTAAGATTGCATATCATATCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATC
18523864 TCTAAGATTGCATATCATATCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATC
*
18523902 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATC
**
18523940 TCTTGGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
18523968 GCATATCCTC
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 101 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATC
Found at i:18524639 original size:216 final size:217
Alignment explanation
Indices: 18524177--18524836 Score: 1090
Period size: 217 Copynumber: 3.0 Consensus size: 217
18524167 AGGAATTAGT
* * * *
18524177 GCTTCAATCTACTCCACTGCAGCTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
18524242 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
18524307 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
**
18524372 CTTCATAGAGATAGGATTGTCA
196 CTTCAGGGAGATAGGATTGTCA
18524394 GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
18524459 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
* * * *
18524524 AAT-CGATCTGCTCTTTATAACTTCAGAGAGATAAGATCTATAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
*
18524588 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCA
* *
18524610 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * * *
18524675 AACTTTAGGAAGATAAGACTTGCTTCCTTAGTC-TGCTCCACTGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACT
* * * * *
18524739 AGATGAGATCTGCTCTCTGCAACTTCAGAGGGATAAGATCTGTGATTTTAATCCGCTCTACTGCA
130 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
18524804 ACTTCAGGGAGATAGGATTGTCA
195 ACTTCAGGGAGATAGGATTGTCA
*
18524827 ACTTTAATCT
1 GCTTTAATCT
18524837 GCTTCCCACT
Statistics
Matches: 413, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
215 2 0.00
216 200 0.48
217 211 0.51
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (217 bp):
GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTGTCA
Found at i:18524762 original size:40 final size:42
Alignment explanation
Indices: 18524706--18524817 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 42
18524696 GCTTCCTTAG
*
18524706 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-AGA-TGAGA
1 TCTGCT-CTCTGCAACTTCAGGGAGATAAGATCTGAGATTGA-A
* *
18524747 TCTGCTCTCTGCAACTTCAGAGG-GATAAGATCTGTGATTTTAA
1 TCTGCTCTCTGCAACTTCAG-GGAGATAAGATCTGAGA-TTGAA
*
18524790 TCCGCTCTACTGCAACTTCAGGGAGATA
1 TCTGCTCT-CTGCAACTTCAGGGAGATA
18524818 GGATTGTCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
40 20 0.33
41 10 0.17
42 2 0.03
43 10 0.17
44 18 0.30
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (42 bp):
TCTGCTCTCTGCAACTTCAGGGAGATAAGATCTGAGATTGAA
Found at i:18524833 original size:44 final size:44
Alignment explanation
Indices: 18524182--18524839 Score: 282
Period size: 44 Copynumber: 15.2 Consensus size: 44
18524172 TTAGTGCTTC
* * * * *
18524182 AATCTACTCCACTGCAGCTTCAGGGAGATAAGACTTGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTCAACTTT
* * *
18524227 AGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTG-CTTAC-TT
1 AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTGTC-AACTTT
* * * **
18524271 AGTCTTG-TCCACCGCAACTTCAGGGAGATAAGA--CT-AGA-TGC
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTGTCA-ACTTT
* * * * *
18524312 GATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTGT-AATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTCAACTTT
* ** * *
18524355 AATCCGCTCCACTGCAACTTCATAGAGATAGGATTGTCAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCAACTTT
* * * * *
18524399 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTCAACTTT
* * *
18524444 AGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTG-CTTAC-TT
1 AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTGTC-AACTTT
* * * * *
18524488 AGTCTTG-TCCACCGCAACTTCAGGGAGATAAGA--CT-AA-ATC
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTGTCAACTTT
* ** ** * * *
18524528 GATCTGCT-CTTTATAACTTCAGAGAGATAAGATCTAT-AATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTCAACTTT
* * **
18524571 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCAACTTT
* * * *
18524615 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTTCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGT-CAACTTT
* * * * ** *
18524660 AGTCTGC-CTCACTGTAACTTTAGGAAGATAAGACTTG-CTTCCTT
1 AATCTGCTC-CACTGCAACTTCAGGGAGATAAGA-TTGTCAACTTT
* * *
18524704 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--CT-AGA--TG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCA-ACTTT
* * *
18524744 AGATCTGCT-CTCTGCAACTTCAGAGG-GATAAGATCTGT-GATTTT
1 A-ATCTGCTCCACTGCAACTTCAG-GGAGATAAGAT-TGTCAACTTT
* * *
18524788 AATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGTCAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCAACTTT
18524832 AATCTGCT
1 AATCTGCT
18524840 TCCCACTATC
Statistics
Matches: 457, Mismatches: 108, Indels: 97
0.69 0.16 0.15
Matches are distributed among these distances:
39 20 0.04
40 49 0.11
41 12 0.03
42 5 0.01
43 33 0.07
44 227 0.50
45 109 0.24
46 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTCAACTTT
Found at i:18524904 original size:44 final size:44
Alignment explanation
Indices: 18524856--18525565 Score: 158
Period size: 44 Copynumber: 16.1 Consensus size: 44
18524846 TATCTTAGAA
* * *
18524856 AGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
18524900 AGATAAGATCT-ACAATCTTCAACCTACTCCACTGCTGCTTAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * * *
18524944 AAACAAGGCTTGGT-GGCTTAAATATGCTTTCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTAC--TCCACTACTGCTTAGG-G
*
18524988 AGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * * * * *
18525032 AGATAATATCT-ACAATTTTCAACCTTCTCCGCTGCTGCTCAAGG
1 AGATAAGATTTGTC-GTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * *
18525076 AGACAATGCTTGGTAG-CCTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
* **
18525120 AGATAAGATTCG-CTGTCTTTGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
18525164 AGATAAGATCT-ACAATCTTCAACCTACTCCACTGCTGCTTAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * * *
18525208 AAACAAGGCTTGGT-GGCTTAAATATGCTTTCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTAC--TCCACTACTGCTTAGG-G
*
18525252 AGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * * * * *
18525296 AGATAATATCT-ACAATTTTCAACCTTCTCCGCTGCTGCTCAAGG
1 AGATAAGATTTGTC-GTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * *
18525340 AGACAATGCTTGGTAG-CCTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
* * * * *
18525384 ATATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
18525428 AGATAAGATCT-ACAATCTTCAACCTACTCCACTGCTGCTTAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * * *
18525472 AAACAAGGCTTGGT-GGCTTAAATATGCTTTCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTAC--TCCACTACTGCTTAGG-G
*
18525516 AGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
18525560 AGATAA
1 AGATAA
18525566 TATCTACAAT
Statistics
Matches: 439, Mismatches: 176, Indels: 102
0.61 0.25 0.14
Matches are distributed among these distances:
42 33 0.08
43 44 0.10
44 311 0.71
45 25 0.06
46 26 0.06
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:18524989 original size:132 final size:132
Alignment explanation
Indices: 18524836--18525712 Score: 1297
Period size: 132 Copynumber: 6.6 Consensus size: 132
18524826 AACTTTAATC
* * *
18524836 TGCTTCCCACTATCTTAGAAAGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
* * * * *
18524901 GATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCTTAAA
66 GATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAAACAAGGCTTGGTAGCCTAAA
18524966 TA
131 TA
*
18524968 TGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
* * * * *
18525033 GATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAGCCTAAA
66 GATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAAACAAGGCTTGGTAGCCTAAA
*
18525098 TC
131 TA
* *
18525100 TGCTTCCCACTATCTTGGAAAGATAAGATTCG-CTGTCTTTGATCTACTCCACTACTGCTTAGGG
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGTC-GTCTTCGATCTACTCCACTACTGCTTAGGG
* * * * *
18525164 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCTTAA
65 AGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAAACAAGGCTTGGTAGCCTAA
18525229 ATA
130 ATA
*
18525232 TGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
* * * * *
18525297 GATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAGCCTAAA
66 GATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAAACAAGGCTTGGTAGCCTAAA
*
18525362 TC
131 TA
* * * *
18525364 TGCTTCCCACTATCTTGGAAATATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
* * * * *
18525429 GATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCTTAAA
66 GATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAAACAAGGCTTGGTAGCCTAAA
18525494 TA
131 TA
*
18525496 TGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
* * * * *
18525561 GATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAGCCTAAA
66 GATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAAACAAGGCTTGGTAGCCTAAA
*
18525626 TC
131 TA
* * * *
18525628 TGCTTCCCACTATCTTGGAAATATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 TGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
18525693 GATAAGATCTACAATTTTCA
66 GATAAGATCTACAATTTTCA
18525713 CTGATCTGTT
Statistics
Matches: 662, Mismatches: 81, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
131 1 0.00
132 660 1.00
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (132 bp):
TGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGA
GATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAAGGAAACAAGGCTTGGTAGCCTAAA
TA
Found at i:18525302 original size:264 final size:264
Alignment explanation
Indices: 18524832--18525712 Score: 1672
Period size: 264 Copynumber: 3.3 Consensus size: 264
18524822 TGTCAACTTT
* * * *
18524832 AATCTGCTTCCCACTATCTTAGAAAGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
18524897 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCT
18524962 TAAATATGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCT
131 TAAATATGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCT
18525027 TAGGGAGATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAG
196 TAGGGAGATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAG
18525092 CCTA
261 CCTA
* * *
18525096 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCTGTCTTTGATCTACTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
18525161 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCT
18525226 TAAATATGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCT
131 TAAATATGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCT
18525291 TAGGGAGATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAG
196 TAGGGAGATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAG
18525356 CCTA
261 CCTA
*
18525360 AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
18525425 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCT
18525490 TAAATATGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCT
131 TAAATATGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCT
18525555 TAGGGAGATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAG
196 TAGGGAGATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAG
18525620 CCTA
261 CCTA
*
18525624 AATCTGCTTCCCACTATCTTGGAAATATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
18525689 GGGAGATAAGATCTACAATTTTCA
66 GGGAGATAAGATCTACAATCTTCA
18525713 CTGATCTGTT
Statistics
Matches: 605, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
264 605 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (264 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGCTTGGTGGCT
TAAATATGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCT
TAGGGAGATAATATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAATGCTTGGTAG
CCTA
Found at i:18526941 original size:20 final size:20
Alignment explanation
Indices: 18526913--18526955 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18526903 TGGCCTCTCC
*
18526913 TTTTACTTTTACTTTTTCTT
1 TTTTACTTTTACCTTTTCTT
* *
18526933 TTTTCCTTTTTCCTTTTCTT
1 TTTTACTTTTACCTTTTCTT
18526953 TTT
1 TTT
18526956 CCCCTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTACTTTTACCTTTTCTT
Found at i:18526948 original size:21 final size:21
Alignment explanation
Indices: 18526919--18526964 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18526909 CTCCTTTTAC
*
18526919 TTTTACTTTTTCTTTTT-TCCT
1 TTTTAC-TTTTCTTTTTCCCCT
*
18526940 TTTTCCTTTTCTTTTTCCCCT
1 TTTTACTTTTCTTTTTCCCCT
18526961 TTTT
1 TTTT
18526965 TTTCAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTACTTTTCTTTTTCCCCT
Found at i:18526963 original size:20 final size:20
Alignment explanation
Indices: 18526926--18526963 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18526916 TACTTTTACT
* *
18526926 TTTTCTTTTTTCCTTTTTCC
1 TTTTCTTTTTCCCCTTTTCC
18526946 TTTTCTTTTTCCCCTTTT
1 TTTTCTTTTTCCCCTTTT
18526964 TTTTCAAATA
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCTTTTTCCCCTTTTCC
Found at i:18531289 original size:40 final size:40
Alignment explanation
Indices: 18531206--18532033 Score: 1606
Period size: 40 Copynumber: 20.7 Consensus size: 40
18531196 TATGTTCTAA
* **
18531206 GATTGCATATCATATCTAAGGATT--ATATATCATCTCTAA
1 GATTGCATATCATATCTAA-GATTGCATATATCATATCTTG
18531245 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531285 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531325 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531365 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531405 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531445 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531485 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531525 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531565 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531605 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531645 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531685 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531725 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531765 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531805 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531845 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531885 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531925 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18531965 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
1 GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
18532005 GATTGCATATCATATCTAAGATTGCATAT
1 GATTGCATATCATATCTAAGATTGCATAT
18532034 CCTCAAAAAT
Statistics
Matches: 784, Mismatches: 3, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
38 4 0.01
39 19 0.02
40 761 0.97
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (40 bp):
GATTGCATATCATATCTAAGATTGCATATATCATATCTTG
Found at i:18540350 original size:23 final size:22
Alignment explanation
Indices: 18540315--18540358 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
18540305 TCATAACACA
*
18540315 TTTAGAGAATTTTGTGTTTACGT
1 TTTAAAGAATTTT-TGTTTACGT
*
18540338 TTTAAAGATTTTTTGTTTACG
1 TTTAAAGAATTTTTGTTTACG
18540359 GGTTTTTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.55
Consensus pattern (22 bp):
TTTAAAGAATTTTTGTTTACGT
Found at i:18541042 original size:18 final size:18
Alignment explanation
Indices: 18541027--18541067 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
18541017 GTATCTTTTG
18541027 AATAAATCACCACTTTCT
1 AATAAATCACCACTTTCT
18541045 AATAAATCACCACTTTCT
1 AATAAATCACCACTTTCT
18541063 AATAA
1 AATAA
18541068 GTGCTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATCACCACTTTCT
Found at i:18551271 original size:32 final size:33
Alignment explanation
Indices: 18551231--18551295 Score: 123
Period size: 32 Copynumber: 2.0 Consensus size: 33
18551221 TTTTTAAATT
18551231 TAAATTTAATTATAAAAG-ATATAAAATATCAA
1 TAAATTTAATTATAAAAGTATATAAAATATCAA
18551263 TAAATTTAATTATAAAAGTATATAAAATATCAA
1 TAAATTTAATTATAAAAGTATATAAAATATCAA
18551296 GTGCAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 18 0.56
33 14 0.44
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (33 bp):
TAAATTTAATTATAAAAGTATATAAAATATCAA
Found at i:18556609 original size:30 final size:29
Alignment explanation
Indices: 18556575--18556640 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
18556565 TAGTCGCTAT
* *
18556575 ATAAAAAGAAAATACAAGAGTTTTAGTTGA
1 ATAAAAAGAAAATA-AAGAATATTAGTTGA
* * * *
18556605 ATAAAGAGTAAATAAATAATATTATTTGA
1 ATAAAAAGAAAATAAAGAATATTAGTTGA
18556634 ATAAAAA
1 ATAAAAA
18556641 AATAACACAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.29
Consensus pattern (29 bp):
ATAAAAAGAAAATAAAGAATATTAGTTGA
Found at i:18558004 original size:51 final size:52
Alignment explanation
Indices: 18557947--18558222 Score: 319
Period size: 51 Copynumber: 5.1 Consensus size: 52
18557937 AGGTTATTTT
* * *
18557947 CATTTTCATTTTGGAGAAAACTACATTCATTTCCAAATGA-TTCCATTTCTC
1 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTC
* *
18557998 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGA-TTCTATTTCTA
1 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTC
18558049 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTTCCATTTCTC
1 CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTC
*
18558100 CATTTTCACTTTCATTTTGAAGAAAACCATAATCA-TTCCAAATGATTTGCCATTTCTC
1 CA---T---TTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTT-CCATTTCTC
* *
18558158 CATTTTCACTTTTATTTTGAAGAAAACCATCATCA-TTCCAAATGATTTCCCATTTCTC
1 CATTTT--C----ATTTTGGAGAAAACCATAATCATTTCCAAATGATTT-CCATTTCTC
18558216 CATTTTC
1 CATTTTC
18558223 TCTATTTCTT
Statistics
Matches: 200, Mismatches: 10, Indels: 25
0.85 0.04 0.11
Matches are distributed among these distances:
50 1 0.00
51 95 0.47
52 3 0.01
54 2 0.01
55 1 0.00
56 9 0.05
57 29 0.14
58 60 0.30
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (52 bp):
CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCCATTTCTC
Found at i:18558059 original size:57 final size:58
Alignment explanation
Indices: 18557988--18558222 Score: 294
Period size: 58 Copynumber: 4.2 Consensus size: 58
18557978 TCCAAATGAT
* *
18557988 TCCATTTCTCCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGA-TT-CTATTTC
1 TCCATTT-T-CATTTTCATTTTGAAGAAAACCATAATCA-TTCCAAATGATTTCCCATTTC
*
18558047 T--A----CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTT-CCATTTC
1 TCCATTTTCATTTTCATTTTGAAGAAAACCATAATCA-TTCCAAATGATTTCCCATTTC
* *
18558098 TCCATTTTCACTTTCATTTTGAAGAAAACCATAATCATTCCAAATGATTTGCCATTTC
1 TCCATTTTCATTTTCATTTTGAAGAAAACCATAATCATTCCAAATGATTTCCCATTTC
*
18558156 TCCATTTTCACTTTT-ATTTTGAAGAAAACCATCATCATTCCAAATGATTTCCCATTTC
1 TCCATTTTCA-TTTTCATTTTGAAGAAAACCATAATCATTCCAAATGATTTCCCATTTC
18558214 TCCATTTTC
1 TCCATTTTC
18558223 TCTATTTCTT
Statistics
Matches: 160, Mismatches: 6, Indels: 21
0.86 0.03 0.11
Matches are distributed among these distances:
50 1 0.01
51 47 0.29
53 1 0.01
56 8 0.05
57 32 0.20
58 67 0.42
59 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.42
Consensus pattern (58 bp):
TCCATTTTCATTTTCATTTTGAAGAAAACCATAATCATTCCAAATGATTTCCCATTTC
Found at i:18561993 original size:2 final size:2
Alignment explanation
Indices: 18561986--18562018 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18561976 CATTACCAAA
*
18561986 AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
18562019 TATGAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:18566081 original size:63 final size:63
Alignment explanation
Indices: 18566000--18566192 Score: 188
Period size: 63 Copynumber: 3.1 Consensus size: 63
18565990 TAGTTTGGCT
* ** ** *
18566000 ACAACATTATTGAGTGGCTTGACCACAACGTGCTGCTTGTATGTGATATTCAGTGGCTTGACC
1 ACAACGTTATTGAGTGGCTTGACCACAACGTGCAACTTGTATACGATATTCAGAGGCTTGACC
* * * * *
18566063 ACAACGTTATTGAGTGGCTTGACCACTATGTGCAACTTGTCTACGATATTGAGAGGTTTGACC
1 ACAACGTTATTGAGTGGCTTGACCACAACGTGCAACTTGTATACGATATTCAGAGGCTTGACC
* * * * * * * * * * *
18566126 ACAACGTTATTTAGTGGTTTGACTACAATGAGCAACTTCTCTGCAATATACAGTGGCTTGACC
1 ACAACGTTATTGAGTGGCTTGACCACAACGTGCAACTTGTATACGATATTCAGAGGCTTGACC
18566189 ACAA
1 ACAA
18566193 TGTGGAGTGT
Statistics
Matches: 107, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 107 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (63 bp):
ACAACGTTATTGAGTGGCTTGACCACAACGTGCAACTTGTATACGATATTCAGAGGCTTGACC
Found at i:18569019 original size:644 final size:643
Alignment explanation
Indices: 18567785--18569039 Score: 2077
Period size: 644 Copynumber: 1.9 Consensus size: 643
18567775 AATTGTTGAC
18567785 CATTCTAGAAGGTCAACCCTCATTATTGTCCAAGCTTTTCCATAAAAGGGGGAGATTCCTTTCCT
1 CATTCTAGAAGGTCAACCCTCATTATTGTCCAAGCTTTTCCATAAAAGGGGGAGATTCCTTTCCT
* *
18567850 TTTGTTTTGAATCAACTTACCATCCAAAGCCCCCTTTTTACTCATGATCCACTTTTTACTCCTTT
66 TTTGTTTTGAATCAACTTACAATCCAAAGCCCCCTTTTTACTCATGATCCACTTTTTACTCCCTT
* *
18567915 TGCCCCTAAACATACCATCTTTTCACCTTTGACTACCCATGGCCGGTCATAGCACCCCAAAAACC
131 TGCCCCTAAACATACCATCTTTTCACCTTTGACTACACATGGCCGGTCACAGCACCCCAAAAACC
* * *
18567980 CTACTTTTCATTTTATTTTTCTAGTTTTTCACTCCTCTCTTCTCTTTACCGTCCACCACCCTTTT
196 CCACTTTTCATTTTATTTTTCTAGTTTTTCACTCCTCTCCTCTCTTTACCGTCCACCACCCTTCT
* * *
18568045 GCACAAGATTTTCAGCTTTTTCTTCTTTATTTTACCACCTTTGAAGCCATATTTCTTCATTCTTC
261 CCACAAGATTTTCAGCTTTTCCTTCTTTATTTTACCACCTTTGAAGCCATATTTCTTCATTCCTC
* *
18568110 TTCTACTCCACCACCACACACGACAATCACACCGCCACCTTACCTCCATCATCGTCGTTGTCGCA
326 TTCCACTCCACCACCACACACGACAATCACACCACCACCTTACCTCCATCATCGTCGTTGTCGCA
* * * *
18568175 CTGTCGCCGCACCGTTGCCATCGGCCACTGTTGATTTTCACCATTTTTCTTATTTTCTTCTCTTT
391 CAGCCGCCGCACCG-TGCCATCGACCACTGTTGATTTTCACCATTTTTCTTATTTTCTCCTCTTT
18568240 CCAAAAATCATCTCCGTAAATTCTTGAATTTGATTTTTAAATATTAAAATATCAAATTTTGTATT
455 CCAAAAATCATCTCCGTAAATTCTTGAATTTGATTTTTAAATATTAAAATATCAAATTTTGTATT
** **
18568305 ATTTTCTCTAAACTCTTCTATTTTGTGTTTATAGTGTTGAATCCTCCACTTTAATCGGCTTTTCG
520 ATTTTCTCTAAACTCTTCTATTTTGCATTTATAGTGCCGAATCCTCCACTTTAATCGGCTTTTCG
18568370 GGATTTATCGT-TGAGCCTTTTTCCTCCGTTTTATCGTAGGTATGAAGGACTACTATTCA
585 GGATTTATCGTCT-AGCCTTTTTCCTCCGTTTTATCGTAGGTATGAAGGACTACTATTCA
*
18568429 CATTTTAGAAGGTCAACCCTCATTATTGTCCAAGCTTTTCCATAAAAGGGGGAGATTCCTTTCCT
1 CATTCTAGAAGGTCAACCCTCATTATTGTCCAAGCTTTTCCATAAAAGGGGGAGATTCCTTTCCT
18568494 TTTGTTTTGAATCAACTTACAATCCAAAG-CCCCTGTTTTACTCATGATCCACTTTTTACTCCCT
66 TTTGTTTTGAATCAACTTACAATCCAAAGCCCCCT-TTTTACTCATGATCCACTTTTTACTCCCT
* * *
18568558 TTGTCTCTAAACATACCATCTTTTCACCTTTGACTACACATGGCCGGTCCCAGCACCCCAAAAAC
130 TTGCCCCTAAACATACCATCTTTTCACCTTTGACTACACATGGCCGGTCACAGCACCCCAAAAAC
*
18568623 CCCACTTTTCATTTTATTTTTCTAGTTTTTCTCTCCTCTCCTCTCTTTACCGTCCACCACCCTTC
195 CCCACTTTTCATTTTATTTTTCTAGTTTTTCACTCCTCTCCTCTCTTTACCGTCCACCACCCTTC
*
18568688 TCCACAAGTTTTTCAGCTTTTCCTTCTTTATTTTACCACCTTTGAAGCCATATTTCTTCATTCCT
260 TCCACAAGATTTTCAGCTTTTCCTTCTTTATTTTACCACCTTTGAAGCCATATTTCTTCATTCCT
* * * *
18568753 CTTCCACTCCACCACCACACATGGCAATCGCACCACCACCTTACCTCCATCATCGTCGTTGTTGC
325 CTTCCACTCCACCACCACACACGACAATCACACCACCACCTTACCTCCATCATCGTCGTTGTCGC
*
18568818 ACAGCCGCTGCGCCACC-T-CCATCGACCACTGTTGATTTTCACCATTTTTCTTCTTTTCTCCTC
390 ACAGCCGC--CG-CACCGTGCCATCGACCACTGTTGATTTTCACCATTTTTCTTATTTTCTCCTC
* * **
18568881 TTTCCAAAAATCATCTCCGTAAATTCTTGAATTTTATTTTTAAATATTAAAATATTAGCTTTTGT
452 TTTCCAAAAATCATCTCCGTAAATTCTTGAATTTGATTTTTAAATATTAAAATATCAAATTTTGT
* *
18568946 ATTATTTTCTCTAAACTCTTCTATTTTGCATTTATAGTGCCGACTCGTCCACTTTAATCGGCTTT
517 ATTATTTTCTCTAAACTCTTCTATTTTGCATTTATAGTGCCGAATCCTCCACTTTAATCGGCTTT
* *
18569011 TTGGGATTTATTGTCTAGCCTTTTTCCTC
582 TCGGGATTTATCGTCTAGCCTTTTTCCTC
18569040 TATTTTGTAA
Statistics
Matches: 567, Mismatches: 39, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
643 5 0.01
644 554 0.98
645 2 0.00
646 2 0.00
647 4 0.01
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.40
Consensus pattern (643 bp):
CATTCTAGAAGGTCAACCCTCATTATTGTCCAAGCTTTTCCATAAAAGGGGGAGATTCCTTTCCT
TTTGTTTTGAATCAACTTACAATCCAAAGCCCCCTTTTTACTCATGATCCACTTTTTACTCCCTT
TGCCCCTAAACATACCATCTTTTCACCTTTGACTACACATGGCCGGTCACAGCACCCCAAAAACC
CCACTTTTCATTTTATTTTTCTAGTTTTTCACTCCTCTCCTCTCTTTACCGTCCACCACCCTTCT
CCACAAGATTTTCAGCTTTTCCTTCTTTATTTTACCACCTTTGAAGCCATATTTCTTCATTCCTC
TTCCACTCCACCACCACACACGACAATCACACCACCACCTTACCTCCATCATCGTCGTTGTCGCA
CAGCCGCCGCACCGTGCCATCGACCACTGTTGATTTTCACCATTTTTCTTATTTTCTCCTCTTTC
CAAAAATCATCTCCGTAAATTCTTGAATTTGATTTTTAAATATTAAAATATCAAATTTTGTATTA
TTTTCTCTAAACTCTTCTATTTTGCATTTATAGTGCCGAATCCTCCACTTTAATCGGCTTTTCGG
GATTTATCGTCTAGCCTTTTTCCTCCGTTTTATCGTAGGTATGAAGGACTACTATTCA
Found at i:18576730 original size:45 final size:45
Alignment explanation
Indices: 18576662--18576752 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
18576652 GTGATCTTTA
*
18576662 TATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATTTTG
1 TATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATGTTG
*
18576707 TATGTGGCTATGGAACTGGAAGTTGAATGGTCGATAAGCATGTTG
1 TATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATGTTG
18576752 T
1 T
18576753 GTTTGTATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.09, G:0.31, T:0.33
Consensus pattern (45 bp):
TATGTGGCTATGGAACTGAAAGTTGAATGGTCGATAAGCATGTTG
Found at i:18577748 original size:40 final size:40
Alignment explanation
Indices: 18576848--18577736 Score: 1631
Period size: 40 Copynumber: 22.2 Consensus size: 40
18576838 GGCTAAATCT
18576848 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18576888 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18576928 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18576968 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577008 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577048 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577088 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577128 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577168 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577208 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577248 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577288 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577328 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577368 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577408 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577448 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577488 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577528 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
*
18577568 CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577607 TCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
1 -CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
* ***
18577648 CGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTTC
* * * * * *
18577688 CGAAGAGCATTTGTGCTGGTGTTATATCCGGGCT-AGGTC
1 CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
18577727 TCGAAGAGCA
1 -CGAAGAGCA
18577737 ATCATGCTGG
Statistics
Matches: 832, Mismatches: 12, Indels: 10
0.97 0.01 0.01
Matches are distributed among these distances:
39 5 0.01
40 824 0.99
41 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC
Found at i:18584370 original size:21 final size:19
Alignment explanation
Indices: 18584293--18584376 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 19
18584283 TTTCATGTCA
18584293 TTATTAAGCTAACATAAAAAT
1 TTATTAA-CT-ACATAAAAAT
* * *
18584314 TTATTGAAATA-ATCAAACT
1 TTATT-AACTACATAAAAAT
* *
18584333 TTATTCA-TACTTAAAAAT
1 TTATTAACTACATAAAAAT
*
18584351 TTATTAAGCTAACATAAAAAA
1 TTATTAA-CT-ACATAAAAAT
18584372 TTATT
1 TTATT
18584377 GAAATAATCA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
17 2 0.04
18 12 0.25
19 11 0.23
20 2 0.04
21 19 0.40
22 2 0.04
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (19 bp):
TTATTAACTACATAAAAAT
Found at i:18584383 original size:58 final size:58
Alignment explanation
Indices: 18584293--18584405 Score: 217
Period size: 58 Copynumber: 1.9 Consensus size: 58
18584283 TTTCATGTCA
*
18584293 TTATTAAGCTAACATAAAAATTTATTGAAATAATCAAACTTTATTCATACTTAAAAAT
1 TTATTAAGCTAACATAAAAAATTATTGAAATAATCAAACTTTATTCATACTTAAAAAT
18584351 TTATTAAGCTAACATAAAAAATTATTGAAATAATCAAACTTTATTCATACTTAAA
1 TTATTAAGCTAACATAAAAAATTATTGAAATAATCAAACTTTATTCATACTTAAA
18584406 TTTAGTATAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.37
Consensus pattern (58 bp):
TTATTAAGCTAACATAAAAAATTATTGAAATAATCAAACTTTATTCATACTTAAAAAT
Found at i:18594711 original size:40 final size:40
Alignment explanation
Indices: 18594656--18594735 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
18594646 TTAGAATAAG
18594656 TGTACCATTCGAATTTCAACATTAGTGAAACTTCTCCTCT
1 TGTACCATTCGAATTTCAACATTAGTGAAACTTCTCCTCT
*
18594696 TGTACCATTCGAATTTCAACATTAGTGACACTTCTCCTCT
1 TGTACCATTCGAATTTCAACATTAGTGAAACTTCTCCTCT
18594736 ACCGTTGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (40 bp):
TGTACCATTCGAATTTCAACATTAGTGAAACTTCTCCTCT
Found at i:18597507 original size:93 final size:94
Alignment explanation
Indices: 18597363--18597533 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 94
18597353 TTATTACCCA
18597363 AAAAATATGAAAGTAACAAAAAAATAAAAAAAAACTATGTTAAAAACTCTATTTTTCTCGAGAAA
1 AAAAATATGAAAGTAACAAAAAAATAAAAAAAAACTATGTTAAAAACTCTATTTTTCTCGAGAAA
18597428 AAGATCATTAAGTAACAAAAAAATATGTT
66 AAGATCATTAAGTAACAAAAAAATATGTT
*
18597457 AAAAATATGAAAGTAACAAAAAAA-CAAAAAAAACTATGTTAAAAACTCTATTTTTCTCGAGAAA
1 AAAAATATGAAAGTAACAAAAAAATAAAAAAAAACTATGTTAAAAACTCTATTTTTCTCGAGAAA
*
18597521 AAGCTCATTAAGT
66 AAGATCATTAAGT
18597534 GCATCGGAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
93 51 0.68
94 24 0.32
ACGTcount: A:0.56, C:0.10, G:0.09, T:0.25
Consensus pattern (94 bp):
AAAAATATGAAAGTAACAAAAAAATAAAAAAAAACTATGTTAAAAACTCTATTTTTCTCGAGAAA
AAGATCATTAAGTAACAAAAAAATATGTT
Found at i:18600625 original size:15 final size:15
Alignment explanation
Indices: 18600605--18600637 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
18600595 TAGCTAGTTA
18600605 AATTATGCAAAATTT
1 AATTATGCAAAATTT
18600620 AATTATGCAAAATTT
1 AATTATGCAAAATTT
18600635 AAT
1 AAT
18600638 GCATAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
AATTATGCAAAATTT
Found at i:18607834 original size:61 final size:61
Alignment explanation
Indices: 18607739--18607856 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 61
18607729 ACATTAATAA
* *
18607739 TAAATTAATAAAATATTATATAGATAAATATTAAATTTAATTCCATATCTCATATTAGTAT
1 TAAATTAATAAAATACTATATAGATAAATATTAAATTTAATTCAATATCTCATATTAGTAT
* *
18607800 TAAATTAATAAAATACTATCTAGATAAATATTAAATTTAATTTAATATCTCATATTA
1 TAAATTAATAAAATACTATATAGATAAATATTAAATTTAATTCAATATCTCATATTA
18607857 ATATCTAGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (61 bp):
TAAATTAATAAAATACTATATAGATAAATATTAAATTTAATTCAATATCTCATATTAGTAT
Found at i:18607840 original size:32 final size:30
Alignment explanation
Indices: 18607734--18607836 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 30
18607724 TAATCACATT
* *
18607734 AATAATAAATTAATAAAATATTATATAGATA
1 AATATTAAATTAATAAAATA-TATCTAGATA
*** * * *
18607765 AATATTAAATTTAATTCCATATCTC-ATATT
1 AATATTAAA-TTAATAAAATATATCTAGATA
*
18607795 AGTATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATA-TATCTAGATA
18607826 AATATTAAATT
1 AATATTAAATT
18607837 TAATTTAATA
Statistics
Matches: 53, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 8 0.15
30 14 0.26
31 23 0.43
32 8 0.15
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATATCTAGATA
Found at i:18609168 original size:23 final size:23
Alignment explanation
Indices: 18609140--18609191 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
18609130 AAATTAACTT
18609140 AATAAATAATGTTTATTTTGAGA
1 AATAAATAATGTTTATTTTGAGA
18609163 AATAAATAATGTTTATTTTGAGA
1 AATAAATAATGTTTATTTTGAGA
18609186 AATAAA
1 AATAAA
18609192 AAAACATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (23 bp):
AATAAATAATGTTTATTTTGAGA
Found at i:18622020 original size:32 final size:31
Alignment explanation
Indices: 18621968--18622038 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 31
18621958 AAATTACTCT
* * * *
18621968 TCCCCTAACTTATTATAAGTTGTTATTTTTC
1 TCCCCTAACTCATTACAAGTTATTATTTCTC
18621999 TCCCTCTAACTCATTACAAGTTATTATTTCTC
1 TCCC-CTAACTCATTACAAGTTATTATTTCTC
18622031 TCCCCTAA
1 TCCCCTAA
18622039 TGTCGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 8 0.23
32 27 0.77
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.45
Consensus pattern (31 bp):
TCCCCTAACTCATTACAAGTTATTATTTCTC
Found at i:18626484 original size:40 final size:41
Alignment explanation
Indices: 18626400--18626484 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 41
18626390 AATTATAGAA
* * * * *
18626400 TACTGAATATTATTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTAGTTATGAGTACTGAATTGAACTGTAAAAT
* *
18626441 TACTGAATATT-GTTATGTGTACTGCATTGAACTGTAAAAT
1 TACTGAATATTAGTTATGAGTACTGAATTGAACTGTAAAAT
18626481 TACT
1 TACT
18626485 AAAGTAATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 26 0.70
41 11 0.30
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (41 bp):
TACTGAATATTAGTTATGAGTACTGAATTGAACTGTAAAAT
Found at i:18626759 original size:45 final size:45
Alignment explanation
Indices: 18626691--18626791 Score: 150
Period size: 45 Copynumber: 2.2 Consensus size: 45
18626681 GCCAACTACT
* *
18626691 GTTACTGTTACCGAATTGACACTTTGTGTGTTGAATACTGTTACC
1 GTTACTGTTACAGAATTCACACTTTGTGTGTTGAATACTGTTACC
* *
18626736 GTTACTGTTACAG-ATTCAGCACTTTGTGTGTTGAATATTGTTACT
1 GTTACTGTTACAGAATTCA-CACTTTGTGTGTTGAATACTGTTACC
18626781 GTTACTGTTAC
1 GTTACTGTTAC
18626792 TGCTATCGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 4 0.08
45 47 0.92
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (45 bp):
GTTACTGTTACAGAATTCACACTTTGTGTGTTGAATACTGTTACC
Found at i:18632229 original size:17 final size:17
Alignment explanation
Indices: 18632181--18632219 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18632171 GAAAGAAGAT
* *
18632181 ATTTCGTTTAAGTTTTA
1 ATTTTGTTTAATTTTTA
18632198 ATTTTGTTTAATTTTTA
1 ATTTTGTTTAATTTTTA
18632215 ATTTT
1 ATTTT
18632220 TTATGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (17 bp):
ATTTTGTTTAATTTTTA
Found at i:18633589 original size:140 final size:140
Alignment explanation
Indices: 18633383--18633951 Score: 940
Period size: 140 Copynumber: 4.1 Consensus size: 140
18633373 AATCATAAGA
** * * * *
18633383 TGACACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATATGCTTTGGTCAA
1 TGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
** * *
18633448 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATATTAGTTGGCTTTGTTT
66 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCT
*
18633513 GACACTATGC
131 AACACTATGC
* * * *
18633523 CGATACTTTTGGGCCGACACTTTCCTAAGTGTTGGTATAGATTTGCCGACATACGCTTTGGCCAA
1 TGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
18633588 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCT
66 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCT
18633653 AACACTATGC
131 AACACTATGC
*
18633663 TGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATACGCTTTGGCCAA
1 TGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
*
18633728 CTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCT
66 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCT
18633793 AACACTATGC
131 AACACTATGC
* *
18633803 TGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGTATAGATTTGCCGACATACGCTTTGGCCAA
1 TGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
* * *
18633868 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAGGGCAACGCTTAAATAAGAGTTGGCTTTGTCC
66 CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCT
18633933 AACACTATGC
131 AACACTATGC
18633943 TGACACTTT
1 TGACACTTT
18633952 CCTAAGTGTT
Statistics
Matches: 401, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 401 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (140 bp):
TGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
CCCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCT
AACACTATGC
Found at i:18638014 original size:18 final size:17
Alignment explanation
Indices: 18637988--18638022 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18637978 AATATTAAGA
*
18637988 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18638005 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18638023 TTACTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18638272 original size:45 final size:44
Alignment explanation
Indices: 18638179--18638276 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 44
18638169 CTATTACACC
*
18638179 TCCATTTCATTCAACCAAACACAAGAATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACACAAGAATACTATTACGCCTCTAT
*
18638223 TCCATTACATTCAACCAAACA-ATTA-AATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACACA--AGAA-TACTATTACGCCTCTAT
18638268 TCCATTACA
1 TCCATTACA
18638277 CCTCTATTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
43 1 0.02
44 22 0.45
45 26 0.53
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (44 bp):
TCCATTACATTCAACCAAACACAAGAATACTATTACGCCTCTAT
Found at i:18639268 original size:125 final size:125
Alignment explanation
Indices: 18639078--18639546 Score: 834
Period size: 125 Copynumber: 3.8 Consensus size: 125
18639068 CGAGTTGATG
* * *
18639078 TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCG
18639143 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACT
66 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACT
18639203 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCG
*
18639268 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATATAAGAAATAA--TTTTTTTGACT
66 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACT
* * * *
18639326 TTTCTGACAAAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCG
18639391 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACT
66 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACT
18639451 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCG
* *
18639516 CGGCCTCGTGGGCGCGCTTTTGCTACAGTAG
66 CGGCCTCGTGGACGCGCTTTTGCTATAGTAG
18639547 CATGTTTGGG
Statistics
Matches: 327, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
123 118 0.36
125 209 0.64
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (125 bp):
TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCG
CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACT
Found at i:18639516 original size:248 final size:248
Alignment explanation
Indices: 18639078--18639546 Score: 895
Period size: 248 Copynumber: 1.9 Consensus size: 248
18639068 CGAGTTGATG
*
18639078 TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGAGCAAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
18639143 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACTTTTCT
66 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACTTTTCT
18639208 GACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCGCGGCC
131 GACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCGCGGCC
*
18639273 TCGTGGACGCGCTTTTGCTATAGTAGGTCATATAAGAAATAATTTTTTTGACT
196 TCGTGGACGCGCTTTTGCTACAGTAGGTCATATAAGAAATAATTTTTTTGACT
18639326 TTTCTGA-CAAAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
1 TTTCTGAGC-AAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATC
18639390 GCGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACTTTTC
65 GCGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACTTTTC
18639455 TGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCGCGGC
130 TGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCGCGGC
*
18639520 CTCGTGGGCGCGCTTTTGCTACAGTAG
195 CTCGTGGACGCGCTTTTGCTACAGTAG
18639547 CATGTTTGGG
Statistics
Matches: 217, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
247 1 0.00
248 216 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (248 bp):
TTTCTGAGCAAATAGTATAAAATCACTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTTGACTTTTCT
GACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATGTGTGAAATCGCGGCC
TCGTGGACGCGCTTTTGCTACAGTAGGTCATATAAGAAATAATTTTTTTGACT
Found at i:18639938 original size:19 final size:18
Alignment explanation
Indices: 18639914--18640057 Score: 113
Period size: 19 Copynumber: 7.7 Consensus size: 18
18639904 TCAAATTATA
*
18639914 TAAAATTATATATGGTTAG
1 TAAAATTATAAAT-GTTAG
18639933 TAAAATTATCAAAT-TATA-
1 TAAAATTAT-AAATGT-TAG
18639951 TAAAATTATTAAA-GTTTAG
1 TAAAATTA-TAAATG-TTAG
18639970 TAAAATTATCAAAT-TATA-
1 TAAAATTAT-AAATGT-TAG
*
18639988 TAAAATTATTAAAGGTTAG
1 TAAAATTA-TAAATGTTAG
18640007 TAAAATTATCAAAT-TATA-
1 TAAAATTAT-AAATGT-TAG
18640025 TAAAATTATAAATGGTTAG
1 TAAAATTATAAAT-GTTAG
18640044 TAAAATTATTAAAT
1 TAAAATTA-TAAAT
18640058 TATATAAAAT
Statistics
Matches: 104, Mismatches: 3, Indels: 35
0.73 0.02 0.25
Matches are distributed among these distances:
17 4 0.04
18 42 0.40
19 50 0.48
20 8 0.08
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (18 bp):
TAAAATTATAAATGTTAG
Found at i:18639946 original size:37 final size:37
Alignment explanation
Indices: 18639904--18640068 Score: 271
Period size: 37 Copynumber: 4.5 Consensus size: 37
18639894 TTGTATTAAC
*
18639904 TCAAATTATATAAAATTA-TATATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATTA-AAGGTTAGTAAAATTA
*
18639941 TCAAATTATATAAAATTATTAAAGTTTAGTAAAATTA
1 TCAAATTATATAAAATTATTAAAGGTTAGTAAAATTA
18639978 TCAAATTATATAAAATTATTAAAGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATTAAAGGTTAGTAAAATTA
18640015 TCAAATTATATAAAATTA-TAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATTAAA-GGTTAGTAAAATTA
*
18640052 TTAAATTATATAAAATT
1 TCAAATTATATAAAATT
18640069 GGGTTAGGGT
Statistics
Matches: 122, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
36 4 0.03
37 116 0.95
38 2 0.02
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (37 bp):
TCAAATTATATAAAATTATTAAAGGTTAGTAAAATTA
Found at i:18640060 original size:27 final size:25
Alignment explanation
Indices: 18639935--18640036 Score: 55
Period size: 27 Copynumber: 3.8 Consensus size: 25
18639925 ATGGTTAGTA
18639935 AAATTATCAAAT-TATATAAAATTATT
1 AAATTAT-AAATAT-TATAAAATTATT
*
18639961 AAAGTTTAGTAAA-ATTATCAAATTATAT
1 AAA--TTA-TAAATATTATAAAATTAT-T
** *
18639989 AAAATTATTAAAGGTTAGTAAAATTATC
1 -AAATTA-TAAATATTA-TAAAATTATT
*
18640017 AAATTATATAAAATTATAAA
1 AAATTATA-AATATTATAAA
18640037 TGGTTAGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
26 9 0.15
27 28 0.47
28 11 0.18
29 12 0.20
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (25 bp):
AAATTATAAATATTATAAAATTATT
Found at i:18640104 original size:29 final size:28
Alignment explanation
Indices: 18640065--18640440 Score: 409
Period size: 29 Copynumber: 13.4 Consensus size: 28
18640055 AATTATATAA
18640065 AATTGGGTTAGGGTTAGGGTTTTTAATT
1 AATTGGGTTAGGGTTAGGGTTTTTAATT
* *
18640093 AAGTTTGGTTAGGGTTAAGGTTTTTAATT
1 AA-TTGGGTTAGGGTTAGGGTTTTTAATT
18640122 GAATTGGGTTAGGGTTAGGGTTTTTAATT
1 -AATTGGGTTAGGGTTAGGGTTTTTAATT
18640151 AA----GTTA-GGTTAGGGTTTTTAATT
1 AATTGGGTTAGGGTTAGGGTTTTTAATT
18640174 GAATTGGGTTAGGGTTAGGGTTTTTAATT
1 -AATTGGGTTAGGGTTAGGGTTTTTAATT
*
18640203 AA----ATTA-GGTTAGGGTTTTTAATT
1 AATTGGGTTAGGGTTAGGGTTTTTAATT
* * *
18640226 AAGTTAGGTTAGGGTAAAGGTTTTTAATT
1 AA-TTGGGTTAGGGTTAGGGTTTTTAATT
18640255 GAATTGGGTTAGGGTTAGGGTTAAGGTTT--TT
1 -AATTGGGTTAGGGTTAGGGTT----TTTAATT
***
18640286 AATTAAATT-GGGTTAGGGTTTTTAATT
1 AATTGGGTTAGGGTTAGGGTTTTTAATT
18640313 GAATTGGGTTAGGGTTAGGGTTTTTAATT
1 -AATTGGGTTAGGGTTAGGGTTTTTAATT
18640342 AAATTGGGTTAGGGTTAGGGTTTTTAATT
1 -AATTGGGTTAGGGTTAGGGTTTTTAATT
* * *
18640371 AAGTTAGGTTAGTGTTAGGGCTTTTAATT
1 AA-TTGGGTTAGGGTTAGGGTTTTTAATT
* *
18640400 GAATTGAGTTAGGGTTAGAGTTTTTAATT
1 -AATTGGGTTAGGGTTAGGGTTTTTAATT
18640429 AAATTGGGTTAG
1 -AATTGGGTTAG
18640441 TGTAACAGCC
Statistics
Matches: 295, Mismatches: 28, Indels: 49
0.79 0.08 0.13
Matches are distributed among these distances:
23 36 0.12
24 9 0.03
25 3 0.01
27 2 0.01
28 21 0.07
29 207 0.70
30 12 0.04
31 2 0.01
33 3 0.01
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (28 bp):
AATTGGGTTAGGGTTAGGGTTTTTAATT
Found at i:18640161 original size:52 final size:52
Alignment explanation
Indices: 18640065--18640439 Score: 310
Period size: 52 Copynumber: 6.8 Consensus size: 52
18640055 AATTATATAA
18640065 AATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTTGGTTAGGGTTAAGGTTTTTAATTG
1 AATTGGGTTAGGGTTAGGGTTTTTAATTAA-----GTTA-GGTTAAGGTTTTTAATTG
*
18640123 AATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTG
1 AATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAAGGTTTTTAATTG
* *
18640175 AATTGGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATT-
1 AATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAAGGTTTTTAATTG
* * * *
18640226 AAGTTAGGTTAGGGTAAAGGTTTTTAATTGAATTGGGTTAGGGTTAGGGTTAAGGTTTTTAATTA
1 AA-TTGGGTTAGGGTTAGGGTTTTTAATT--A-------A--GTTA-GGTTAAGGTTTTTAATTG
** * *
18640291 AATTGGGTTAGGGTT----TTTAATTGAATTGGGTTAGGGTTAGGGTTTTTAATTA
1 AATTGGGTTAGGGTTAGGGTTT--TT-AATTAAGTTA-GGTTAAGGTTTTTAATTG
*
18640343 AATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGTGTTAGGGCTTTTAATTG
1 AATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTA-----A-GGTTTTTAATTG
* * * *
18640401 AATTGAGTTAGGGTTAGAGTTTTTAATTAAATTGGGTTA
1 AATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTA
18640440 GTGTAACAGC
Statistics
Matches: 269, Mismatches: 21, Indels: 54
0.78 0.06 0.16
Matches are distributed among these distances:
51 2 0.01
52 132 0.49
53 12 0.04
54 3 0.01
56 3 0.01
58 75 0.28
60 3 0.01
61 1 0.00
62 2 0.01
63 7 0.03
64 27 0.10
65 2 0.01
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (52 bp):
AATTGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAAGGTTTTTAATTG
Found at i:18640247 original size:35 final size:32
Alignment explanation
Indices: 18640208--18640304 Score: 94
Period size: 35 Copynumber: 3.0 Consensus size: 32
18640198 TAATTAAATT
*
18640208 AGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTA
1 AGGTTA-GGTTTTTAATTAA-TTGGGTTAGGGTA
18640242 A----AGGTTTTTAATTGAATTGGGTTAGGGTTA
1 AGGTTAGGTTTTTAATT-AATTGGGTTAGGG-TA
*
18640272 GGGTTAAGGTTTTTAATTAAATTGGGTTAGGGT
1 AGGTT-AGGTTTTTAATT-AATTGGGTTAGGGT
18640305 TTTTAATTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
29 21 0.40
30 5 0.09
34 2 0.04
35 25 0.47
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (32 bp):
AGGTTAGGTTTTTAATTAATTGGGTTAGGGTA
Found at i:18640270 original size:23 final size:23
Alignment explanation
Indices: 18640129--18640240 Score: 152
Period size: 23 Copynumber: 4.6 Consensus size: 23
18640119 ATTGAATTGG
18640129 GTTAGGGTTAGGGTTTTTAATTAA
1 GTTA-GGTTAGGGTTTTTAATTAA
18640153 GTTAGGTTAGGGTTTTTAATTGAA
1 GTTAGGTTAGGGTTTTTAATT-AA
18640177 TTGGGTTAGGGTTAGGGTTTTTAATTAA
1 ----GTTA-GGTTAGGGTTTTTAATTAA
*
18640205 ATTAGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAGGGTTTTTAATTAA
18640228 GTTAGGTTAGGGT
1 GTTAGGTTAGGGT
18640241 AAAGGTTTTT
Statistics
Matches: 80, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
23 48 0.60
24 9 0.11
28 6 0.08
29 17 0.21
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (23 bp):
GTTAGGTTAGGGTTTTTAATTAA
Found at i:18640298 original size:23 final size:23
Alignment explanation
Indices: 18640272--18640357 Score: 91
Period size: 23 Copynumber: 3.5 Consensus size: 23
18640262 GTTAGGGTTA
18640272 GGGTTAAGGTTTTTAATTAAATT
1 GGGTTAAGGTTTTTAATTAAATT
* *
18640295 GGGTTAGGGTTTTTAATTGAATT
1 GGGTTAAGGTTTTTAATTAAATT
18640318 GGGTTAGGGTTAGGGTTTTTAATTAAATT
1 GGGTTA-----A-GGTTTTTAATTAAATT
*
18640347 GGGTTAGGGTT
1 GGGTTAAGGTT
18640358 AGGGTTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
23 31 0.60
29 21 0.40
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (23 bp):
GGGTTAAGGTTTTTAATTAAATT
Found at i:18640305 original size:35 final size:35
Alignment explanation
Indices: 18640228--18640305 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
18640218 TTTTAATTAA
*
18640228 GTTA-GGTTAGGGTAAAGGTTTTTAATTGAATTGG
1 GTTAGGGTTAGGGTAAAGGTTTTTAATTAAATTGG
*
18640262 GTTAGGGTTAGGGTTAAGGTTTTTAATTAAATTGG
1 GTTAGGGTTAGGGTAAAGGTTTTTAATTAAATTGG
18640297 GTTAGGGTT
1 GTTAGGGTT
18640306 TTTAATTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.42
Consensus pattern (35 bp):
GTTAGGGTTAGGGTAAAGGTTTTTAATTAAATTGG
Found at i:18642232 original size:28 final size:28
Alignment explanation
Indices: 18642192--18642345 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
18642182 TAAATTGTAC
18642192 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18642220 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18642248 AACACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18642276 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
18642304 AGCGCTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
18642331 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18642346 GACTTAATAT
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.19
28 95 0.81
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:18643921 original size:29 final size:29
Alignment explanation
Indices: 18643888--18644156 Score: 400
Period size: 29 Copynumber: 9.3 Consensus size: 29
18643878 TGTTACAGTC
18643888 AGGGTTAGGGTTTTTAATTGAATTGGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTT
* *
18643917 AGGGTTAGAGTTTTTAATTAAATTGGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTT
*
18643946 AGGGTTAGGGTTTTTAATT-AAGTTAGGTT
1 AGGGTTAGGGTTTTTAATTGAA-TTGGGTT
18643975 AGGGTTAGGG-TTTTAATTGAATTGGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTT
* * *
18644003 AGAGTTAGGGTTTTTAATTAAATTTGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTT
18644032 AGGGTTAGGGTTTTTAATTGAATTGGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTT
* *
18644061 ACGGTTAGGGTTTTTAATT-AAGTTAGGTT
1 AGGGTTAGGGTTTTTAATTGAA-TTGGGTT
* *
18644090 AGGGTTAGGGTTTGTAATTGAATTAGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTT
*
18644119 AGGGTTAGGGTTTTTAATTAAATTGGGTT
1 AGGGTTAGGGTTTTTAATTGAATTGGGTT
18644148 AGGGTTAGG
1 AGGGTTAGG
18644157 AATAAACTTC
Statistics
Matches: 217, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
28 27 0.12
29 188 0.87
30 2 0.01
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTGAATTGGGTT
Found at i:18644032 original size:115 final size:116
Alignment explanation
Indices: 18643891--18644155 Score: 460
Period size: 115 Copynumber: 2.3 Consensus size: 116
18643881 TACAGTCAGG
* *
18643891 GTTAGGGTTTTTAATTGAATTGGGTTAGGGTTAGAGTTTTTAATTAAATTGGGTTAGGGTTAGGG
1 GTTAGGGTTTTTAATTAAATTGGGTTAGGGTTAGAGTTTTTAATTAAATTGGGTTACGGTTAGGG
*
18643956 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTT-TAATTGAATTGGGTTAGA
66 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTGTAATTGAATTAGGTTAGA
* * *
18644006 GTTAGGGTTTTTAATTAAATTTGGTTAGGGTTAGGGTTTTTAATTGAATTGGGTTACGGTTAGGG
1 GTTAGGGTTTTTAATTAAATTGGGTTAGGGTTAGAGTTTTTAATTAAATTGGGTTACGGTTAGGG
*
18644071 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTGTAATTGAATTAGGTTAGG
66 TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTGTAATTGAATTAGGTTAGA
18644122 GTTAGGGTTTTTAATTAAATTGGGTTAGGGTTAG
1 GTTAGGGTTTTTAATTAAATTGGGTTAGGGTTAG
18644156 GAATAAACTT
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
115 92 0.65
116 49 0.35
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (116 bp):
GTTAGGGTTTTTAATTAAATTGGGTTAGGGTTAGAGTTTTTAATTAAATTGGGTTACGGTTAGGG
TTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTGTAATTGAATTAGGTTAGA
Found at i:18644397 original size:21 final size:21
Alignment explanation
Indices: 18644355--18644401 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18644345 TTTTCTCTAG
* *
18644355 CTTCCGGCGGCGGTTGTTGTT
1 CTTCCGGCGGCGGTTCTGGTT
18644376 CTTCCGGCGG-GGATTCTGGTT
1 CTTCCGGCGGCGG-TTCTGGTT
18644397 CTTCC
1 CTTCC
18644402 AGTACAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.02, C:0.28, G:0.34, T:0.36
Consensus pattern (21 bp):
CTTCCGGCGGCGGTTCTGGTT
Found at i:18645361 original size:7 final size:7
Alignment explanation
Indices: 18645349--18645374 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18645339 TATACATAAT
18645349 AATACTA
1 AATACTA
18645356 AATACTA
1 AATACTA
18645363 AATACTA
1 AATACTA
18645370 AATAC
1 AATAC
18645375 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:18646581 original size:22 final size:22
Alignment explanation
Indices: 18646553--18646595 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
18646543 TATGGATTTG
18646553 AGAGAATTTTAGAAGGAAATTA
1 AGAGAATTTTAGAAGGAAATTA
*
18646575 AGAGAATTTTGGAAGGAAATT
1 AGAGAATTTTAGAAGGAAATT
18646596 GAGATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.28
Consensus pattern (22 bp):
AGAGAATTTTAGAAGGAAATTA
Found at i:18646610 original size:147 final size:147
Alignment explanation
Indices: 18646451--18646746 Score: 583
Period size: 147 Copynumber: 2.0 Consensus size: 147
18646441 TCCGGCCATT
18646451 GATGAAATCGGACAAATTTTTACGATTTATAAAAATATAAAAAAATTTAAAATTATTTTAAAAAA
1 GATGAAATCGGACAAATTTTTACGATTTATAAAAATATAAAAAAATTTAAAATTATTTTAAAAAA
18646516 GGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTAGAAGGAAATTAAGAGAA
66 GGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTAGAAGGAAATTAAGAGAA
*
18646581 TTTTGGAAGGAAATTGA
131 TTTTGGAAAGAAATTGA
18646598 GATGAAATCGGACAAATTTTTACGATTTATAAAAATATAAAAAAATTTAAAATTATTTTAAAAAA
1 GATGAAATCGGACAAATTTTTACGATTTATAAAAATATAAAAAAATTTAAAATTATTTTAAAAAA
18646663 GGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTAGAAGGAAATTAAGAGAA
66 GGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTAGAAGGAAATTAAGAGAA
18646728 TTTTGGAAAGAAATTGA
131 TTTTGGAAAGAAATTGA
18646745 GA
1 GA
18646747 GGAATTGAGA
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 148 1.00
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.30
Consensus pattern (147 bp):
GATGAAATCGGACAAATTTTTACGATTTATAAAAATATAAAAAAATTTAAAATTATTTTAAAAAA
GGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTAGAAGGAAATTAAGAGAA
TTTTGGAAAGAAATTGA
Found at i:18646728 original size:22 final size:22
Alignment explanation
Indices: 18646700--18646752 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
18646690 TATGGATTTG
*
18646700 AGAGAATTTTAGAAGGAAATTA
1 AGAGAATTTTAGAAAGAAATTA
* *
18646722 AGAGAATTTTGGAAAGAAATTG
1 AGAGAATTTTAGAAAGAAATTA
18646744 AGAGGAATT
1 AGA-GAATT
18646753 GAGAGGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTAGAAAGAAATTA
Found at i:18646769 original size:12 final size:11
Alignment explanation
Indices: 18646737--18646769 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
18646727 ATTTTGGAAA
18646737 GAAATTGAGAG
1 GAAATTGAGAG
18646748 G-AATTGAGAG
1 GAAATTGAGAG
18646758 GAAATATGAGAG
1 GAAAT-TGAGAG
18646770 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:18648629 original size:13 final size:12
Alignment explanation
Indices: 18648609--18648640 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
18648599 TCACCAACTT
18648609 ATATGTTAGTCC
1 ATATGTTAGTCC
18648621 ATGATGTTAGTCC
1 AT-ATGTTAGTCC
18648634 ATATGTT
1 ATATGTT
18648641 CAAAATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (12 bp):
ATATGTTAGTCC
Found at i:18649956 original size:72 final size:72
Alignment explanation
Indices: 18649838--18650050 Score: 205
Period size: 72 Copynumber: 2.9 Consensus size: 72
18649828 TAGACGTGTC
* * * ** * **
18649838 TATTCCAACCTTTTAAAGGTTGTCTTAGACGGGTCTATCCTAACCTTTTTAAATGTTGTTTTAGA
1 TATTCCAACCTTTTTAGGGTTGTATTAGACGACTCTATCCTAACCTTTTTAAAGGTTACTTTAGA
*
18649903 TAAGGTA
66 CAAGGTA
* * * *
18649910 TATTCCAACCTTTTTAGGGTTGTATTAGATGACTCTATCTTGACCTTTTTAAAGGTTACTTTCGA
1 TATTCCAACCTTTTTAGGGTTGTATTAGACGACTCTATCCTAACCTTTTTAAAGGTTACTTTAGA
*
18649975 CAAGGTC
66 CAAGGTA
* * ** * *
18649982 TATCCCAACTTTTTTAGGGTTGCT-TTAGACGGGTCTATTCC-AACCTTTTTTAAGGGTTACCTT
1 TATTCCAACCTTTTTAGGGTTG-TATTAGACGACTCTA-TCCTAACC-TTTTTAAAGGTTACTTT
18650045 AGACAA
63 AGACAA
18650051 TGTCTAGCCT
Statistics
Matches: 114, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
72 91 0.80
73 23 0.20
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (72 bp):
TATTCCAACCTTTTTAGGGTTGTATTAGACGACTCTATCCTAACCTTTTTAAAGGTTACTTTAGA
CAAGGTA
Found at i:18649996 original size:37 final size:38
Alignment explanation
Indices: 18649955--18650056 Score: 120
Period size: 36 Copynumber: 2.8 Consensus size: 38
18649945 TATCTTGACC
* *
18649955 TTTTTAAAGGTTACTTTCGACAAGGTCTATCCCAA-CT
1 TTTTTAAGGGTTACTTTAGACAAGGTCTATCCCAACCT
* * *
18649992 TTTTT-AGGGTTGCTTTAGAC-GGGTCTATTCCAACCT
1 TTTTTAAGGGTTACTTTAGACAAGGTCTATCCCAACCT
* *
18650028 TTTTTAAGGGTTACCTTAGACAATGTCTA
1 TTTTTAAGGGTTACTTTAGACAAGGTCTA
18650057 GCCTAATCTT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
35 11 0.21
36 19 0.36
37 18 0.34
38 5 0.09
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (38 bp):
TTTTTAAGGGTTACTTTAGACAAGGTCTATCCCAACCT
Found at i:18650031 original size:35 final size:34
Alignment explanation
Indices: 18649827--18650036 Score: 136
Period size: 36 Copynumber: 5.9 Consensus size: 34
18649817 AAAAATTACC
* *
18649827 TTAGACGTGTCTATTCCAACCTTTTAAAGGTTGT
1 TTAGACGGGTCTATTCCAACCTTTTTAAGGTTGT
*
18649861 CTTAGACGGGTCTA-TCCTAACCTTTTTAAATGTTGTT
1 -TTAGACGGGTCTATTCC-AACCTTTTT-AAGGTTG-T
** * *
18649898 TTAGATAAGGTATATTCCAACCTTTTTAGGGTTGT
1 TTAGA-CGGGTCTATTCCAACCTTTTTAAGGTTGT
* ** ** *
18649933 ATTAGATGACTCTA-TCTTGACCTTTTTAAAGGTTACT
1 -TTAGACGGGTCTATTC-CAACCTTTTT-AAGGTT-GT
* * * * *
18649970 TTCGACAAGGTCTATCCCAACTTTTTTAGGGTTGCT
1 TTAGAC-GGGTCTATTCCAACCTTTTTAAGGTTG-T
18650006 TTAGACGGGTCTATTCCAACCTTTTTTAAGG
1 TTAGACGGGTCTATTCCAACC-TTTTTAAGG
18650037 GTTACCTTAG
Statistics
Matches: 129, Mismatches: 33, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
34 5 0.04
35 44 0.34
36 49 0.38
37 27 0.21
38 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (34 bp):
TTAGACGGGTCTATTCCAACCTTTTTAAGGTTGT
Found at i:18651534 original size:47 final size:47
Alignment explanation
Indices: 18651480--18651574 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
18651470 TTTTTATTTT
18651480 TTATAGATGACAATCTTAGTTCTGGAGAAGTGTCATCAATGGAAATC
1 TTATAGATGACAATCTTAGTTCTGGAGAAGTGTCATCAATGGAAATC
* * * * * **
18651527 TTATAGATGGCAGTCTTATTTTTGGAGAAGTGTCGTCGGTGGAAATC
1 TTATAGATGACAATCTTAGTTCTGGAGAAGTGTCATCAATGGAAATC
18651574 T
1 T
18651575 CAAGTTGCGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (47 bp):
TTATAGATGACAATCTTAGTTCTGGAGAAGTGTCATCAATGGAAATC
Found at i:18656217 original size:18 final size:19
Alignment explanation
Indices: 18656178--18656218 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
18656168 AAACTTTAAA
*
18656178 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTAT
18656197 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
18656215 AAAA
1 AAAA
18656219 AATTTAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:18656219 original size:19 final size:20
Alignment explanation
Indices: 18656172--18656219 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
18656162 TCAACAAAAC
*
18656172 TTTAAAAAAATTCAAAATAA
1 TTTATAAAAATTCAAAATAA
*
18656192 TTT-TTAAAATTCAAAAT-A
1 TTTATAAAAATTCAAAATAA
18656210 TTTATAAAAA
1 TTTATAAAAA
18656220 ATTTAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTATAAAAATTCAAAATAA
Found at i:18656232 original size:12 final size:11
Alignment explanation
Indices: 18656217--18656261 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
18656207 ATATTTATAA
18656217 AAAATTTAAAAG
1 AAAATTT-AAAG
18656229 AAAATTCTAAAG
1 AAAATT-TAAAG
* *
18656241 AATATATAAAG
1 AAAATTTAAAG
18656252 AAAATTTAAA
1 AAAATTTAAA
18656262 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 13 0.46
12 14 0.50
13 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (11 bp):
AAAATTTAAAG
Found at i:18659617 original size:4 final size:4
Alignment explanation
Indices: 18659608--18660435 Score: 1656
Period size: 4 Copynumber: 207.0 Consensus size: 4
18659598 TTCAAAACAC
18659608 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18659656 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18659704 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18659752 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18659800 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18659848 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18659896 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18659944 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18659992 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660040 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660088 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660136 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660184 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660232 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660280 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660328 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660376 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18660424 CATA CATA CATA
1 CATA CATA CATA
18660436 AAAAAACTAA
Statistics
Matches: 824, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 824 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:18661247 original size:21 final size:21
Alignment explanation
Indices: 18661218--18661258 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18661208 AAAATGCTAA
18661218 GTTTAGGATTCAAGATTTAGT
1 GTTTAGGATTCAAGATTTAGT
* * *
18661239 GTTTGGGATTTAAGGTTTAG
1 GTTTAGGATTCAAGATTTAG
18661259 GGTTCAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (21 bp):
GTTTAGGATTCAAGATTTAGT
Found at i:18683893 original size:22 final size:22
Alignment explanation
Indices: 18683868--18683955 Score: 128
Period size: 22 Copynumber: 4.0 Consensus size: 22
18683858 ACAAAAGGTG
*
18683868 ACTTAGAAATTAATTTAATTTT
1 ACTTAGAAATTAAATTAATTTT
18683890 ACTTAGAAATTAAATTAATTTT
1 ACTTAGAAATTAAATTAATTTT
18683912 ACTTAGAAATTAAATTAATTTT
1 ACTTAGAAATTAAATTAATTTT
18683934 A-TT-G-AATTATTAATTAATTTT
1 ACTTAGAAATTA--AATTAATTTT
18683955 A
1 A
18683956 ATTATAGAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
19 5 0.08
20 1 0.02
21 13 0.21
22 44 0.70
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (22 bp):
ACTTAGAAATTAAATTAATTTT
Found at i:18688020 original size:58 final size:58
Alignment explanation
Indices: 18687930--18688044 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
18687920 TTTGAAGGTA
18687930 AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
1 AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
*
18687988 AAAAGGATCTAGCCCAGAT-AGGTGATCTTGATATAAGCCCTCCCGAAGAATATGTGT
1 AAAAGGATCTAGCCCAGATGA-GTGATCCTGATATAAGCCCTCCCGAAGAATATGTGT
18688045 GAAATAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 1 0.02
58 54 0.98
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (58 bp):
AAAAGGATCTAGCCCAGATGAGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTT
Found at i:18688914 original size:15 final size:15
Alignment explanation
Indices: 18688894--18688926 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
18688884 CTGTGTGTCT
18688894 CACACGGTCTGATCA
1 CACACGGTCTGATCA
18688909 CACACGGTCTGATCA
1 CACACGGTCTGATCA
18688924 CAC
1 CAC
18688927 GCCCGTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.18
Consensus pattern (15 bp):
CACACGGTCTGATCA
Found at i:18694023 original size:10 final size:10
Alignment explanation
Indices: 18694008--18694044 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
18693998 ATTTTGATTA
18694008 TTTATCTTAT
1 TTTATCTTAT
18694018 TTTATCTTAT
1 TTTATCTTAT
*
18694028 TTTATTTTAT
1 TTTATCTTAT
18694038 TTT-TCTT
1 TTTATCTT
18694045 TTATTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 3 0.12
10 22 0.88
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATCTTAT
Found at i:18694032 original size:15 final size:14
Alignment explanation
Indices: 18694005--18694044 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
18693995 AAAATTTTGA
18694005 TTATTTATCTTATT
1 TTATTTATCTTATT
*
18694019 TTATCTTATTTTATT
1 TTAT-TTATCTTATT
*
18694034 TTATTTTTCTT
1 TTATTTATCTT
18694045 TTATTAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTATCTTATT
Found at i:18697559 original size:37 final size:37
Alignment explanation
Indices: 18697509--18697582 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
18697499 TACAAATCGT
18697509 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
1 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
* *
18697546 AATTCTCGGATTACTCTTCGTCAACCTTCTTTTTTCC
1 AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
18697583 TTTCTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.31, G:0.07, T:0.45
Consensus pattern (37 bp):
AATTCTCAGATTACTCTCCGTCAACCTTCTTTTTTCC
Found at i:18703058 original size:17 final size:17
Alignment explanation
Indices: 18703029--18703079 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
18703019 TAGGTTTGCA
*
18703029 ATAACATGAGTTCGCAT
1 ATAACATGGGTTCGCAT
* * *
18703046 TTATCATGGGTTCACAT
1 ATAACATGGGTTCGCAT
18703063 ATAACATGGGTTCGCAT
1 ATAACATGGGTTCGCAT
18703080 GTACATTGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (17 bp):
ATAACATGGGTTCGCAT
Found at i:18703076 original size:34 final size:33
Alignment explanation
Indices: 18703029--18703092 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
18703019 TAGGTTTGCA
*
18703029 ATAACATGAGTTCGCATTTATCATGGGTTCACAT
1 ATAACATGAGTTCGCATGTA-CATGGGTTCACAT
* *
18703063 ATAACATGGGTTCGCATGTACATTGGTTCA
1 ATAACATGAGTTCGCATGTACATGGGTTCA
18703093 TACAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (33 bp):
ATAACATGAGTTCGCATGTACATGGGTTCACAT
Found at i:18703090 original size:16 final size:16
Alignment explanation
Indices: 18703032--18703091 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
18703022 GTTTGCAATA
* *
18703032 ACATGAGTTCGCATTT
1 ACATGGGTTCGCATAT
*
18703048 ATCATGGGTTCACATAT
1 A-CATGGGTTCGCATAT
*
18703065 AACATGGGTTCGCATGT
1 -ACATGGGTTCGCATAT
*
18703082 ACATTGGTTC
1 ACATGGGTTC
18703092 ATACAATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 10 0.28
17 25 0.69
18 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (16 bp):
ACATGGGTTCGCATAT
Found at i:18703777 original size:26 final size:26
Alignment explanation
Indices: 18703741--18703803 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
18703731 GATTTGTATA
18703741 ATTTTCTCTTTAGATTTAATCTTTAG
1 ATTTTCTCTTTAGATTTAATCTTTAG
18703767 ATTTTCTCTTTAGATTTAATCTTTAG
1 ATTTTCTCTTTAGATTTAATCTTTAG
18703793 ATTTTCTCTTT
1 ATTTTCTCTTT
18703804 CTTAGGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (26 bp):
ATTTTCTCTTTAGATTTAATCTTTAG
Found at i:18703802 original size:13 final size:13
Alignment explanation
Indices: 18703741--18703803 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
18703731 GATTTGTATA
18703741 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
18703754 ATTTAATCTTTAG
1 ATTTTCTCTTTAG
18703767 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
18703780 ATTTAATCTTTAG
1 ATTTTCTCTTTAG
18703793 ATTTTCTCTTT
1 ATTTTCTCTTT
18703804 CTTAGGTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (13 bp):
ATTTTCTCTTTAG
Found at i:18705202 original size:20 final size:20
Alignment explanation
Indices: 18705183--18705219 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
18705173 TAAATGTGTG
18705183 GTAATAAA-AATATACATGT
1 GTAATAAATAATATACATGT
*
18705202 GTAATAAATATTATACAT
1 GTAATAAATAATATACAT
18705220 ACATTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (20 bp):
GTAATAAATAATATACATGT
Found at i:18705633 original size:18 final size:19
Alignment explanation
Indices: 18705607--18705642 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18705597 GTTTAATGAA
18705607 AATAAAAGAAA-GAAACAT
1 AATAAAAGAAACGAAACAT
*
18705625 AATAGAAGAAACGAAACA
1 AATAAAAGAAACGAAACA
18705643 AAGAAGGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.69, C:0.08, G:0.14, T:0.08
Consensus pattern (19 bp):
AATAAAAGAAACGAAACAT
Found at i:18705672 original size:17 final size:16
Alignment explanation
Indices: 18705628--18705673 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
18705618 GAAACATAAT
* *
18705628 AGAAGAAACGAAACAA
1 AGAAGAAAGGAAAAAA
*
18705644 AGAAGGAAGGAAAAAA
1 AGAAGAAAGGAAAAAA
18705660 AGATAGAAAGGAAA
1 AGA-AGAAAGGAAA
18705674 GAAGAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.67, C:0.04, G:0.26, T:0.02
Consensus pattern (16 bp):
AGAAGAAAGGAAAAAA
Found at i:18705958 original size:15 final size:17
Alignment explanation
Indices: 18705938--18705976 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
18705928 AATTCGATTT
18705938 AATTCAATCA-ATA-TA
1 AATTCAATCACATACTA
18705953 AATTC-ATCACATACTA
1 AATTCAATCACATACTA
18705969 AATT-AATC
1 AATTCAATC
18705977 CATTTCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTCAATCACATACTA
Found at i:18706707 original size:18 final size:17
Alignment explanation
Indices: 18706630--18706710 Score: 51
Period size: 18 Copynumber: 4.6 Consensus size: 17
18706620 TTCCCTTTTC
18706630 TTCTTTCCTTTCTATCTTT
1 TTCTTT-CTTTCT-TCTTT
*
18706649 TT-TTTCCTTC--CTTCT
1 TTCTTTCTTTCTTCTT-T
*
18706664 TTGTTTCGTTTCTTCTATT
1 TTCTTTC-TTTCTTCT-TT
* *
18706683 CTGTTTCTTTCCTTCTTT
1 TTCTTTCTTT-CTTCTTT
18706701 TTCTTTCTTT
1 TTCTTTCTTT
18706711 TATTTTCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
14 3 0.06
15 3 0.06
16 4 0.08
17 7 0.14
18 16 0.32
19 16 0.32
20 1 0.02
ACGTcount: A:0.02, C:0.25, G:0.04, T:0.69
Consensus pattern (17 bp):
TTCTTTCTTTCTTCTTT
Done.