Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold59
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: 3999109
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 268233 characters in sequence are not A, C, G, or T
File 20 of 25
Found at i:2959994 original size:10 final size:10
Alignment explanation
Indices: 2959982--2960035 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
2959972 TTATATAAAT
2959982 TTAAAATAT-
1 TTAAAATATA
*
2959991 TTTAAATATAA
1 TTAAAATAT-A
2960002 TTAAAATATA
1 TTAAAATATA
*
2960012 ATAAAATATA
1 TTAAAATATA
2960022 -T-AAATATA
1 TTAAAATATA
2960030 TTAAAA
1 TTAAAA
2960036 CATCGCATCG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.18
9 10 0.26
10 13 0.34
11 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TTAAAATATA
Found at i:2960421 original size:31 final size:30
Alignment explanation
Indices: 2960381--2960471 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
2960371 AAGATGATGA
2960381 TAAATTAAATATTTATATATTTTTAATATT
1 TAAATTAAATATTTATATATTTTTAATATT
*
2960411 TAAATTTAAATATTTATAAATATTTTAAAATTATT
1 TAAA-TTAAATATTTAT--ATATTTT-TAA-TATT
* *
2960446 TATATT-AA-ATTTATATATTGTTAATA
1 TAAATTAAATATTTATATATTTTTAATA
2960472 AAAAAATTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 10 0.19
31 12 0.23
32 6 0.12
33 9 0.17
34 4 0.08
35 7 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
TAAATTAAATATTTATATATTTTTAATATT
Found at i:2960423 original size:23 final size:24
Alignment explanation
Indices: 2960391--2960435 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2960381 TAAATTAAAT
* *
2960391 ATTTATATATTT-TTAATATTTAA
1 ATTTAAATATTTATAAATATTTAA
2960414 ATTTAAATATTTATAAATATTT
1 ATTTAAATATTTATAAATATTT
2960436 TAAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTAAATATTTATAAATATTTAA
Found at i:2961398 original size:10 final size:10
Alignment explanation
Indices: 2961356--2961399 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
2961346 CCAACAACCA
*
2961356 ATATATATAT
1 ATATATGTAT
*
2961366 ATATATATAT
1 ATATATGTAT
2961376 ATATATGTAT
1 ATATATGTAT
2961386 ATAT-TGTAT
1 ATATATGTAT
2961395 -TATAT
1 ATATAT
2961400 ACATTCATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
8 3 0.09
9 6 0.19
10 23 0.72
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (10 bp):
ATATATGTAT
Found at i:2961400 original size:2 final size:2
Alignment explanation
Indices: 2961356--2961389 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2961346 CCAACAACCA
*
2961356 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2961390 TGTATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2962120 original size:17 final size:17
Alignment explanation
Indices: 2962100--2962144 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
2962090 TTGAATAGAG
2962100 TTTATTTGATT-TTTAAA
1 TTTATTT-ATTATTTAAA
2962117 TTTATTTATTATTT-AA
1 TTTATTTATTATTTAAA
2962133 -TTA-TTATTATTT
1 TTTATTTATTATTT
2962145 GATTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.33
15 3 0.11
16 5 0.19
17 10 0.37
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTATTTATTATTTAAA
Found at i:2962187 original size:21 final size:21
Alignment explanation
Indices: 2962163--2962206 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2962153 TAAAAATATC
*
2962163 AATTAGATATTTAAATTTATT
1 AATTAAATATTTAAATTTATT
2962184 AATTAAATATTTAAATTTATT
1 AATTAAATATTTAAATTTATT
2962205 AA
1 AA
2962207 ATAATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTAAATATTTAAATTTATT
Found at i:2962207 original size:17 final size:17
Alignment explanation
Indices: 2962185--2962265 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 17
2962175 AAATTTATTA
*
2962185 ATTAAATATTTAAATTT
1 ATTAAATATTTAAATAT
*
2962202 ATTAAATAATTTTAAAAAT
1 ATTAAAT-A-TTTAAATAT
2962221 ATATAAA-A-TTAAATAT
1 AT-TAAATATTTAAATAT
*
2962237 ATATAAAGA-TT-AA-AT
1 AT-TAAATATTTAAATAT
2962252 -TTAAATATTTAAAT
1 ATTAAATATTTAAAT
2962266 TCATTATTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
13 5 0.09
14 3 0.06
15 4 0.08
16 16 0.30
17 10 0.19
18 2 0.04
19 9 0.17
20 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTAAATATTTAAATAT
Found at i:2962220 original size:21 final size:21
Alignment explanation
Indices: 2962169--2962217 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2962159 TATCAATTAG
*
2962169 ATATTTAAATTTATTAATTAA
1 ATATTTAAATTTATTAAATAA
2962190 ATATTTAAATTTATTAAAT-A
1 ATATTTAAATTTATTAAATAA
2962210 AT-TTTAAA
1 ATATTTAAA
2962218 AATATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 6 0.22
20 3 0.11
21 18 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTAAATTTATTAAATAA
Found at i:2962232 original size:16 final size:17
Alignment explanation
Indices: 2962213--2962250 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
2962203 TTAAATAATT
2962213 TTAAAAATATATAAA-A
1 TTAAAAATATATAAAGA
*
2962229 TTAAATATATATAAAGA
1 TTAAAAATATATAAAGA
2962246 TTAAA
1 TTAAA
2962251 TTTAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
TTAAAAATATATAAAGA
Found at i:2962912 original size:18 final size:18
Alignment explanation
Indices: 2962891--2962932 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
2962881 ATTTATGTAT
2962891 ATTTTATA-ATTATATAAA
1 ATTTTATATATTATAT-AA
*
2962909 ATTTAATATATTATATAA
1 ATTTTATATATTATATAA
2962927 ATTTTA
1 ATTTTA
2962933 AAATATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTATATATTATATAA
Found at i:2962913 original size:17 final size:18
Alignment explanation
Indices: 2962893--2962932 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
2962883 TTATGTATAT
2962893 TTTATA-ATTATATAAAA
1 TTTATATATTATATAAAA
*
2962910 TTTAATATATTATATAAAT
1 TTT-ATATATTATATAAAA
2962929 TTTA
1 TTTA
2962933 AAATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 4 0.20
19 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATATATTATATAAAA
Found at i:2962920 original size:27 final size:27
Alignment explanation
Indices: 2962888--2962956 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
2962878 ATAATTTATG
2962888 TATATTTTATAATTATATAAAAT-TTAA
1 TATATTTTATAATTAT-TAAAATATTAA
* *
2962915 TATATTATATAAATT-TTAAAATATTTA
1 TATATTTTAT-AATTATTAAAATATTAA
2962942 TATA-TTTA-AATTATT
1 TATATTTTATAATTATT
2962957 TTATATCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 4 0.11
25 2 0.06
26 9 0.25
27 17 0.47
28 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TATATTTTATAATTATTAAAATATTAA
Found at i:2962923 original size:19 final size:19
Alignment explanation
Indices: 2962899--2962945 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
2962889 ATATTTTATA
*
2962899 ATTATATAAAATTTAATAT
1 ATTATATAAAATTTAAAAT
*
2962918 ATTATATAAATTTTAAAAT
1 ATTATATAAAATTTAAAAT
2962937 ATTTATATA
1 A-TTATATA
2962946 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTATATAAAATTTAAAAT
Found at i:2962959 original size:18 final size:17
Alignment explanation
Indices: 2962909--2962969 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
2962899 ATTATATAAA
* *
2962909 ATTTAATATATTATATAA
1 ATTTAAAATATT-TATAT
2962927 ATTTTAAAATATTTATAT
1 A-TTTAAAATATTTATAT
*
2962945 ATTTAAATTATTT-TAT
1 ATTTAAAATATTTATAT
*
2962961 ATCTAAAAT
1 ATTTAAAAT
2962970 TTTTTATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.27
17 11 0.30
18 6 0.16
19 10 0.27
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAAAATATTTATAT
Found at i:2962961 original size:16 final size:16
Alignment explanation
Indices: 2962929--2962976 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
2962919 TTATATAAAT
*
2962929 TTTAAAATATTTATATA
1 TTTAAATTATTT-TATA
2962946 TTTAAATTATTTTATA
1 TTTAAATTATTTTATA
*
2962962 TCTAAAATT-TTTTAT
1 T-TTAAATTATTTTAT
2962977 TATGTTTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAAATTATTTTATA
Found at i:2962970 original size:17 final size:16
Alignment explanation
Indices: 2962930--2962976 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
2962920 TATATAAATT
2962930 TTAAAA-TATTTATATA
1 TTAAAATTATTT-TATA
*
2962946 TTTAAATTATTTTATA
1 TTAAAATTATTTTATA
2962962 TCTAAAATT-TTTTAT
1 T-TAAAATTATTTTAT
2962977 TATGTTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAAATTATTTTATA
Found at i:2963291 original size:22 final size:22
Alignment explanation
Indices: 2963234--2963310 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
2963224 CATTATTTTT
* *
2963234 TATTATTTTTAATAAAAATTTAA
1 TATTATTTTTAA-AAATATTAAA
* * *
2963257 TTTTAATTTTAAATATATTAAA
1 TATTATTTTTAAAAATATTAAA
*
2963279 TATTATTTTTAAAAAATTATTATA
1 TATTATTTTT-AAAAA-TATTAAA
2963303 TATTATTT
1 TATTATTT
2963311 AAATTAAGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
22 15 0.35
23 14 0.33
24 14 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTTTTAAAAATATTAAA
Found at i:2963305 original size:24 final size:24
Alignment explanation
Indices: 2963225--2963310 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 24
2963215 AACGTGCAAC
* *
2963225 ATTATTTTTTATTATTTTTAATAAA
1 ATTATTATATATTATTTTTAA-AAA
* * * *
2963250 AAT-TTA-ATTTTAATTTT-AAAT
1 ATTATTATATATTATTTTTAAAAA
*
2963271 A-TATTAAATATTATTTTTAAAAA
1 ATTATTATATATTATTTTTAAAAA
2963294 ATTATTATATATTATTT
1 ATTATTATATATTATTT
2963311 AAATTAAGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
20 1 0.02
21 6 0.13
22 10 0.21
23 12 0.26
24 16 0.34
25 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTATTATATATTATTTTTAAAAA
Found at i:2965041 original size:23 final size:24
Alignment explanation
Indices: 2965015--2965068 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
2965005 TAGAATAATT
* *
2965015 ATATAAAATATAA-TTAAAATATG
1 ATATAAAATATAATTTAAAAAATA
*
2965038 ATATAAATTATAATTTAAAAAATA
1 ATATAAAATATAATTTAAAAAATA
2965062 ATATAAA
1 ATATAAA
2965069 TAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
ATATAAAATATAATTTAAAAAATA
Found at i:2965056 original size:12 final size:12
Alignment explanation
Indices: 2965018--2965086 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
2965008 AATAATTATA
2965018 TAAAATATAA-T
1 TAAAATATAATT
* *
2965029 TAAAATATGATA
1 TAAAATATAATT
*
2965041 TAAATTATAATT
1 TAAAATATAATT
* *
2965053 TAAAAAATAATA
1 TAAAATATAATT
*
2965065 T-AAATAAAATAT
1 TAAAATATAAT-T
*
2965077 TAATATATAA
1 TAAAATATAA
2965087 AATTATTAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
11 16 0.38
12 20 0.48
13 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:2965079 original size:24 final size:25
Alignment explanation
Indices: 2965027--2965105 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 25
2965017 ATAAAATATA
* * *
2965027 ATTAAAATATGATATAAATTATAAT
1 ATTAAAAAATAATATAAATTAAAAT
2965052 -TTAAAAAATAATATAAA-TAAAAT
1 ATTAAAAAATAATATAAATTAAAAT
* * * *
2965075 ATTAATATATAAAAT-TATTAAAAT
1 ATTAAAAAATAATATAAATTAAAAT
*
2965099 TTTAAAA
1 ATTAAAA
2965106 TATTAAAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
23 6 0.14
24 37 0.86
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (25 bp):
ATTAAAAAATAATATAAATTAAAAT
Found at i:2965103 original size:8 final size:8
Alignment explanation
Indices: 2965084--2965139 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
2965074 TATTAATATA
2965084 TAAAATTAT
1 TAAAATT-T
2965093 TAAAATTT
1 TAAAATTT
*
2965101 TAAAATAT
1 TAAAATTT
2965109 TAAAATTT
1 TAAAATTT
2965117 ATATAAATTT
1 -TA-AAATTT
*
2965127 ATAAAAATT
1 -TAAAATTT
2965136 TAAA
1 TAAA
2965140 TATAATTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
8 19 0.45
9 14 0.33
10 9 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TAAAATTT
Found at i:2965109 original size:16 final size:16
Alignment explanation
Indices: 2965069--2965139 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
2965059 ATAATATAAA
* *
2965069 TAAAATATTAATA-TA
1 TAAAATATTAAAATTT
2965084 TAAAATTATTAAAATTT
1 TAAAA-TATTAAAATTT
2965101 TAAAATATTAAAATTT
1 TAAAATATTAAAATTT
* *
2965117 ATATAAATTTATAAAAATT
1 -TA-AAATAT-TAAAATTT
2965136 TAAA
1 TAAA
2965140 TATAATTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
15 5 0.11
16 18 0.38
17 10 0.21
18 7 0.15
19 7 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATATTAAAATTT
Found at i:2965149 original size:22 final size:20
Alignment explanation
Indices: 2965080--2965147 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
2965070 AAAATATTAA
* *
2965080 TATATAAAATTATTAAAATT
1 TATATAAATTTATAAAAATT
*
2965100 T-TA-AAA--TATTAAAATT
1 TATATAAATTTATAAAAATT
2965116 TATATAAATTTATAAAAATT
1 TATATAAATTTATAAAAATT
*
2965136 TAAATATAATTT
1 TATATA-AATTT
2965148 TAATATATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
16 11 0.27
17 2 0.05
18 6 0.15
19 2 0.05
20 15 0.37
21 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATAAATTTATAAAAATT
Found at i:2977436 original size:23 final size:24
Alignment explanation
Indices: 2977392--2977436 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
2977382 ATCTTTTAAA
* *
2977392 TTAAATTACATTCTTTAGAATAAT
1 TTAAATTACATTATTAAGAATAAT
*
2977416 TTAAA-TACATTATTAATAATA
1 TTAAATTACATTATTAAGAATA
2977437 TTTTGCTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (24 bp):
TTAAATTACATTATTAAGAATAAT
Found at i:2985210 original size:20 final size:19
Alignment explanation
Indices: 2985152--2985241 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 19
2985142 ATATTTATAA
*
2985152 TTAAATTTAAATAAAATTATT
1 TTAAA-TTAAAT-AAATTAAT
* *
2985173 TTATTATTTAAT-AA-TAAT
1 TTA-AATTAAATAAATTAAT
*
2985191 TTAAATTAAATCAGATTAAT
1 TTAAATTAAAT-AAATTAAT
2985211 TTAAATTAAA-AAATTATAT
1 TTAAATTAAATAAATTA-AT
2985230 TTAAACTTAAAT
1 TTAAA-TTAAAT
2985242 TAATAATTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
17 6 0.11
18 11 0.20
19 10 0.18
20 19 0.35
21 8 0.15
22 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (19 bp):
TTAAATTAAATAAATTAAT
Found at i:2989183 original size:16 final size:16
Alignment explanation
Indices: 2989164--2989204 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2989154 ATGTATATAT
*
2989164 TTTTTAATTTTGTTAC
1 TTTTTAATTTTGTTAA
*
2989180 TTTTTAATTTTTTTAA
1 TTTTTAATTTTGTTAA
2989196 TTATTTAAT
1 TT-TTTAAT
2989205 ATTAAGAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTTAATTTTGTTAA
Found at i:2991088 original size:2 final size:2
Alignment explanation
Indices: 2991081--2991119 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2991071 AATTTCTAAA
* * *
2991081 AT AT AT AT AC AT AC AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2991120 ACAATAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:2991161 original size:20 final size:18
Alignment explanation
Indices: 2991123--2991196 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 18
2991113 ATATATAACA
*
2991123 ATAAATTGTA-TACAAGTT
1 ATAAATTATATTA-AAGTT
2991141 ACTAATATTATATTAAAGTT
1 A-TAA-ATTATATTAAAGTT
* *
2991161 ATCAAATTACATTAAAAATT
1 AT-AAATTATATT-AAAGTT
2991181 ATTAAATTATATTAAA
1 A-TAAATTATATTAAA
2991197 AATTATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.02
19 14 0.30
20 28 0.61
21 3 0.07
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (18 bp):
ATAAATTATATTAAAGTT
Found at i:2991197 original size:20 final size:20
Alignment explanation
Indices: 2991147--2991213 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
2991137 AGTTACTAAT
* *
2991147 ATTATATT-AAAGTTATCAA
1 ATTATATTAAAAATTATTAA
*
2991166 ATTACATTAAAAATTATTAA
1 ATTATATTAAAAATTATTAA
2991186 ATTATATTAAAAATTATTAAA
1 ATTATATTAAAAATTATT-AA
2991207 ATTATAT
1 ATTATAT
2991214 CAAAGCTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.17
20 26 0.62
21 9 0.21
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (20 bp):
ATTATATTAAAAATTATTAA
Found at i:2991263 original size:21 final size:21
Alignment explanation
Indices: 2991204--2991282 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
2991194 AAAAATTATT
* *
2991204 AAAATTATATCAAA-GCTATC
1 AAAATTATATCAAAGGTTTTC
* * * *
2991224 AAAATCACATTAAATGTTTTC
1 AAAATTATATCAAAGGTTTTC
*
2991245 AAAATTATATCAAAGGTTTAC
1 AAAATTATATCAAAGGTTTTC
* *
2991266 ATAATTATATTAAAGGT
1 AAAATTATATCAAAGGT
2991283 AATAAAAATC
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 11 0.24
21 35 0.76
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (21 bp):
AAAATTATATCAAAGGTTTTC
Found at i:2991923 original size:21 final size:20
Alignment explanation
Indices: 2991891--2991937 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
2991881 AAAATATTAA
2991891 TTATTTGTATTTAAATAAATTT
1 TTATTTGTATTT-AATAAA-TT
*
2991913 TTATTTG-ATTTAATTAATT
1 TTATTTGTATTTAATAAATT
2991932 TTATTT
1 TTATTT
2991938 TAAATACTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 5 0.21
21 4 0.17
22 7 0.29
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
TTATTTGTATTTAATAAATT
Found at i:2992235 original size:32 final size:29
Alignment explanation
Indices: 2992197--2992261 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 29
2992187 TATTTTATAT
*
2992197 TTATATAAATTTTAATACATAAATAATTCATA
1 TTATATAAATTTTAAAACAT--AT-ATTCATA
2992229 TTATATAAATTTTAAAACATATATTCATA
1 TTATATAAATTTTAAAACATATATTCATA
2992258 TTAT
1 TTAT
2992262 GTTTCTTTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 11 0.34
30 2 0.06
32 19 0.59
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (29 bp):
TTATATAAATTTTAAAACATATATTCATA
Found at i:2993742 original size:16 final size:16
Alignment explanation
Indices: 2993733--2993808 Score: 50
Period size: 16 Copynumber: 4.8 Consensus size: 16
2993723 AATTCTAATG
2993733 TAAAATAATTTAAATC
1 TAAAATAATTTAAATC
** *
2993749 TAAAATAACATAAA-A
1 TAAAATAATTTAAATC
*
2993764 TAAAA-AATTTTAAATT
1 TAAAATAA-TTTAAATC
* *
2993780 TAAAAT-ATTCAAATTT
1 TAAAATAATTTAAA-TC
*
2993796 TAAAAAAATTTAA
1 TAAAATAATTTAA
2993809 CAGATCGAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
14 2 0.04
15 14 0.30
16 25 0.54
17 5 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAATAATTTAAATC
Found at i:2995925 original size:2 final size:2
Alignment explanation
Indices: 2995918--2995953 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2995908 TTGCCTGCTC
2995918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2995954 GTTGAACCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2996911 original size:12 final size:11
Alignment explanation
Indices: 2996889--2996937 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
2996879 AAATATAATC
2996889 TAAAATA-TTT
1 TAAAATATTTT
2996899 TAAAAGTATTTT
1 TAAAA-TATTTT
*
2996911 TAAAATAATTT
1 TAAAATATTTT
*
2996922 AAAAATATTATT
1 TAAAATATT-TT
2996934 TAAA
1 TAAA
2996938 CTTTATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 5 0.16
11 14 0.44
12 13 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TAAAATATTTT
Found at i:2996914 original size:22 final size:23
Alignment explanation
Indices: 2996878--2996937 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
2996868 ATTTAATGAC
* * *
2996878 AAAATATAATCTAAAATATTTTA
1 AAAATATTATTTAAAATAATTTA
*
2996901 AAAGTATT-TTTAAAATAATTTA
1 AAAATATTATTTAAAATAATTTA
2996923 AAAATATTATTTAAA
1 AAAATATTATTTAAA
2996938 CTTTATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATATTATTTAAAATAATTTA
Found at i:3001139 original size:2 final size:2
Alignment explanation
Indices: 3001132--3001170 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3001122 GATGTAAGCT
3001132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3001171 TTTATTGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3001557 original size:26 final size:27
Alignment explanation
Indices: 3001528--3001581 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3001518 ATAATAATTC
*
3001528 AAATTTATATAAATTTAAATT-ATAAA
1 AAATTTATATAAACTTAAATTAATAAA
* *
3001554 AAATTTATTTAAACTTAATTTAATAAA
1 AAATTTATATAAACTTAAATTAATAAA
3001581 A
1 A
3001582 TTAAATTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATTTATATAAACTTAAATTAATAAA
Found at i:3003602 original size:2 final size:2
Alignment explanation
Indices: 3003595--3003623 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3003585 TTGATGCCTG
3003595 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3003624 GACACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3005422 original size:27 final size:27
Alignment explanation
Indices: 3005362--3005432 Score: 65
Period size: 28 Copynumber: 2.6 Consensus size: 27
3005352 TATATAAATT
* **
3005362 TTAATATGTT-ATTTTTTTATATTTTA
1 TTAATATTTTAATTTTTTTATATTAGA
3005388 -TACTATATTTTAATTTTTTTATATTAGA
1 TTA--ATATTTTAATTTTTTTATATTAGA
3005416 TTAATATCTTGTAATTT
1 TTAATAT-TT-TAATTT
3005433 CACTGTCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
25 2 0.06
27 10 0.28
28 16 0.44
29 8 0.22
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (27 bp):
TTAATATTTTAATTTTTTTATATTAGA
Found at i:3005430 original size:29 final size:28
Alignment explanation
Indices: 3005372--3005432 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
3005362 TTAATATGTT
** * *
3005372 ATTTTTTTATATTTTATACTATATTTTA
1 ATTTTTTTATATTAGATAATATATTGTA
*
3005400 ATTTTTTTATATTAGATTAATATCTTGTA
1 ATTTTTTTATATTAGA-TAATATATTGTA
3005429 ATTT
1 ATTT
3005433 CACTGTCCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (28 bp):
ATTTTTTTATATTAGATAATATATTGTA
Found at i:3011321 original size:26 final size:26
Alignment explanation
Indices: 3011292--3011352 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
3011282 ATTTTTAAAT
* * * *
3011292 TTAATTTTTAATAATTTAATATTTTA
1 TTAATTTTTAAAAAATAAATAATTTA
*
3011318 TTAAATTTTAAAAAATAAATAATTTA
1 TTAATTTTTAAAAAATAAATAATTTA
*
3011344 ATAATTTTT
1 TTAATTTTT
3011353 TTAATTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTAATTTTTAAAAAATAAATAATTTA
Found at i:3011830 original size:17 final size:15
Alignment explanation
Indices: 3011780--3011822 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
3011770 TTAAATTCAA
*
3011780 TAAAATAA-TATA-T
1 TAAAATAATTTTACT
*
3011793 TAAAAAAATTTTACT
1 TAAAATAATTTTACT
3011808 TAAAATAATTTTACT
1 TAAAATAATTTTACT
3011823 GTTAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 7 0.28
14 3 0.12
15 15 0.60
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATAATTTTACT
Found at i:3012589 original size:21 final size:21
Alignment explanation
Indices: 3012563--3012602 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3012553 TTTCAAAGAT
3012563 ATTTATTATTAACAAACATTA
1 ATTTATTATTAACAAACATTA
*
3012584 ATTTATTATTAATAAACAT
1 ATTTATTATTAACAAACAT
3012603 GTCATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTATTATTAACAAACATTA
Found at i:3014770 original size:2 final size:2
Alignment explanation
Indices: 3014765--3014793 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3014755 TATAAGCCTA
3014765 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3014794 AAGAATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3014971 original size:2 final size:2
Alignment explanation
Indices: 3014964--3014991 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3014954 AAAACCCAAA
3014964 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3014992 GAAAAATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3016692 original size:2 final size:2
Alignment explanation
Indices: 3016685--3016726 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3016675 AAAGTATGCG
3016685 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3016727 GTGTGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3019648 original size:15 final size:15
Alignment explanation
Indices: 3019612--3019650 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3019602 AAAGTTTTTG
*
3019612 TAATATTA-TAATTT
1 TAATATTATTAAATT
*
3019626 TTATATTATTAAATT
1 TAATATTATTAAATT
3019641 TAATATTATT
1 TAATATTATT
3019651 TTTTATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATATTATTAAATT
Found at i:3019658 original size:27 final size:29
Alignment explanation
Indices: 3019612--3019673 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 29
3019602 AAAGTTTTTG
3019612 TAATATTATAATTTTTATATTATTAAAT-T
1 TAATATTAT-ATTTTTATATTATTAAATAT
*
3019641 TAATATTAT-TTTTTATATTTTTAAATAT
1 TAATATTATATTTTTATATTATTAAATAT
3019669 TAATA
1 TAATA
3019674 AATAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 16 0.52
28 6 0.19
29 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TAATATTATATTTTTATATTATTAAATAT
Found at i:3019850 original size:29 final size:28
Alignment explanation
Indices: 3019818--3019883 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
3019808 CGTCATGTCA
* *
3019818 AAATTTTATTTA-TATTTAATTTATTTTTT
1 AAATTTTATTAATTATTT--TTTATTTGTT
*
3019847 AAATATTATTAATTATTTTTTATTTGTT
1 AAATTTTATTAATTATTTTTTATTTGTT
3019875 ATAATTTTA
1 A-AATTTTA
3019884 AAATTATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 10 0.32
29 16 0.52
30 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (28 bp):
AAATTTTATTAATTATTTTTTATTTGTT
Found at i:3020078 original size:23 final size:21
Alignment explanation
Indices: 3020038--3020079 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
3020028 TTCTTTCTCA
3020038 TATTTTTAATTTAAAATAATT
1 TATTTTTAATTTAAAATAATT
3020059 TATTTTTATATATTAAAATAA
1 TATTTTTA-AT-TTAAAATAA
3020080 AATTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTTTAATTTAAAATAATT
Found at i:3020167 original size:32 final size:32
Alignment explanation
Indices: 3020126--3020189 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
3020116 TCAAATGCAC
3020126 TTAATTTATTTTTTTTCATTTTTCATCTTTCA
1 TTAATTTATTTTTTTTCATTTTTCATCTTTCA
3020158 TTAATTTATTTTTTTTCATTTTTCATCTTTCA
1 TTAATTTATTTTTTTTCATTTTTCATCTTTCA
3020190 AATTTTATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (32 bp):
TTAATTTATTTTTTTTCATTTTTCATCTTTCA
Found at i:3020374 original size:18 final size:17
Alignment explanation
Indices: 3020353--3020389 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
3020343 AATAAATTAG
*
3020353 ATATTTATAATTTTTTAA
1 ATATTTA-AAATTTTTAA
3020371 ATATTTAAAATTTTTAA
1 ATATTTAAAATTTTTAA
3020388 AT
1 AT
3020390 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTAAAATTTTTAA
Found at i:3020402 original size:16 final size:17
Alignment explanation
Indices: 3020383--3020424 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
3020373 ATTTAAAATT
3020383 TTTAAATTTATTTA-AA
1 TTTAAATTTATTTATAA
*
3020399 TTTAAATTTATTTATTA
1 TTTAAATTTATTTATAA
3020416 TTTAAATTT
1 TTTAAATTT
3020425 TTATCGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATTTATTTATAA
Found at i:3020412 original size:10 final size:10
Alignment explanation
Indices: 3020354--3020402 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
3020344 ATAAATTAGA
3020354 TATTTATAATT
1 TATTTA-AATT
3020365 T-TTTAAA--
1 TATTTAAATT
*
3020372 TATTTAAAAT
1 TATTTAAATT
3020382 T-TTTAAATT
1 TATTTAAATT
3020391 TATTTAAATT
1 TATTTAAATT
3020401 TA
1 TA
3020403 AATTTATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
7 1 0.03
8 6 0.18
9 10 0.30
10 15 0.45
11 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTTAAATT
Found at i:3020434 original size:23 final size:23
Alignment explanation
Indices: 3020390--3020435 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3020380 ATTTTTAAAT
**
3020390 TTATTTAAATTTAAATTTATTTA
1 TTATTTAAATTTAAATCGATTTA
**
3020413 TTATTTAAATTTTTATCGATTTA
1 TTATTTAAATTTAAATCGATTTA
3020436 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATTTAAATTTAAATCGATTTA
Found at i:3022402 original size:21 final size:22
Alignment explanation
Indices: 3022376--3022430 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
3022366 TTAATACGAT
* *
3022376 TATATTT-ATTTTTTATTTTTA
1 TATATTTAAATTTTTATTTATA
3022397 TATATTTAAAATTTTTATTTATA
1 TATATTT-AAATTTTTATTTATA
*
3022420 TATATATAAAT
1 TATATTTAAAT
3022431 ATGTATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.24
22 4 0.14
23 18 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATATTTAAATTTTTATTTATA
Found at i:3022415 original size:23 final size:23
Alignment explanation
Indices: 3022385--3022429 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3022375 TTATATTTAT
* *
3022385 TTTTTATTTTTATATATTTAAAA
1 TTTTTATTTATATATATATAAAA
3022408 TTTTTATTTATATATATATAAA
1 TTTTTATTTATATATATATAAA
3022430 TATGTATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTATTTATATATATATAAAA
Found at i:3026387 original size:18 final size:17
Alignment explanation
Indices: 3026366--3026417 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
3026356 TTAGTGTTAA
3026366 AATATTTATATAAATTTT
1 AATA-TTATATAAATTTT
3026384 AATA-TAT-TAATATTTT
1 AATATTATATAA-ATTTT
*
3026400 -ATATTAAATAAATTTT
1 AATATTATATAAATTTT
3026416 AA
1 AA
3026418 AATATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
15 6 0.21
16 15 0.52
17 4 0.14
18 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATTATATAAATTTT
Found at i:3026441 original size:19 final size:19
Alignment explanation
Indices: 3026419--3026460 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
3026409 AAATTTTAAA
3026419 ATATTTTTATATT-TATTTT
1 ATATTTTTATATTATA-TTT
3026438 ATATTTTTATATTATATTT
1 ATATTTTTATATTATATTT
3026457 ATAT
1 ATAT
3026461 AATCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATATTTTTATATTATATTT
Found at i:3026485 original size:15 final size:15
Alignment explanation
Indices: 3026467--3026507 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
3026457 ATATAATCAT
**
3026467 ATTTAATATTACTAA
1 ATTTAATATTAAAAA
3026482 ATTTAAT-TTAAAAA
1 ATTTAATATTAAAAA
3026496 ATTT-ATATTAAA
1 ATTTAATATTAAA
3026508 CATCATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 14 0.61
15 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTAATATTAAAAA
Found at i:3026879 original size:19 final size:18
Alignment explanation
Indices: 3026847--3026891 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
3026837 ACATTTTTAA
*
3026847 AAAATAAAATTTTC-ATTT
1 AAAATAAAAGTTTCTA-TT
3026865 AAAATATAAAGTTTCTATT
1 AAAATA-AAAGTTTCTATT
3026884 AAAATAAA
1 AAAATAAA
3026892 TATTTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 15 0.62
20 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATAAAAGTTTCTATT
Found at i:3026984 original size:20 final size:18
Alignment explanation
Indices: 3026936--3026984 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
3026926 TCTTTGAAAA
*
3026936 AATAATTTTAAACTAAAT
1 AATAATTTTTAACTAAAT
*
3026954 AA-AATTATTAACTAAAAT
1 AATAATTTTTAACT-AAAT
3026972 AGATAATTTTTAA
1 A-ATAATTTTTAA
3026985 TATCAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 9 0.36
18 7 0.28
19 1 0.04
20 8 0.32
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
AATAATTTTTAACTAAAT
Found at i:3027109 original size:16 final size:16
Alignment explanation
Indices: 3027088--3027155 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 16
3027078 TAAATTGATA
3027088 ATTTATATATTATTAT
1 ATTTATATATTATTAT
3027104 ATTTATATATTTATTAT
1 ATTTATATA-TTATTAT
3027121 A-TTATA-ATTA-TAT
1 ATTTATATATTATTAT
* *
3027134 -TTAAAATATT-TTAT
1 ATTTATATATTATTAT
3027148 ATTTATAT
1 ATTTATAT
3027156 TAATTTTAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.14
14 9 0.21
15 6 0.14
16 14 0.33
17 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTATATATTATTAT
Found at i:3027132 original size:20 final size:20
Alignment explanation
Indices: 3027085--3027136 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 20
3027075 AATTAAATTG
3027085 ATAATTTATATATTATTATATT
1 ATAA-TTATAT-TTATTATATT
3027107 -T-A-TATATTTATTATATT
1 ATAATTATATTTATTATATT
3027124 ATAATTATATTTA
1 ATAATTATATTTA
3027137 AAATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 10 0.37
18 6 0.22
19 1 0.04
20 9 0.33
21 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAATTATATTTATTATATT
Found at i:3027156 original size:22 final size:21
Alignment explanation
Indices: 3027088--3027156 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
3027078 TAAATTGATA
*
3027088 ATTTATATATTATTATATTTAT
1 ATTTAAATATT-TTATATTTAT
* * * *
3027110 ATATTTATTATATTATAATTAT
1 AT-TTAAATATTTTATATTTAT
3027132 ATTTAAAATATTTTATATTTAT
1 ATTT-AAATATTTTATATTTAT
3027154 ATT
1 ATT
3027157 AATTTTAACA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.81
23 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTAAATATTTTATATTTAT
Found at i:3027157 original size:27 final size:26
Alignment explanation
Indices: 3027088--3027184 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 26
3027078 TAAATTGATA
* *
3027088 ATTTATATAT-TATTATATTT-ATAT
1 ATTTATATTTATATTATATTTAAAAT
3027112 ATTTATTATATTATAATTATATTTAAAAT
1 ATTTA-TAT-TTAT-ATTATATTTAAAAT
*
3027141 ATTTTATATTTATATTA-ATTTTAACAT
1 A-TTTATATTTATATTATA-TTTAAAAT
*
3027168 ATTAATAATTTATATTA
1 ATTTAT-ATTTATATTA
3027185 AATAAATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
24 5 0.08
25 3 0.05
26 6 0.10
27 23 0.38
28 13 0.21
29 7 0.11
30 4 0.07
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTTATATTTATATTATATTTAAAAT
Found at i:3027180 original size:33 final size:31
Alignment explanation
Indices: 3027138--3027242 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 31
3027128 TTATATTTAA
*
3027138 AATATTTTATATTTATATTAATTTTAACATATT
1 AATAATTTATA-TTATATTAATTTTAA-ATATT
* *
3027171 AATAATTTATATTAAATAAATTTTAAATA-T
1 AATAATTTATATTATATTAATTTTAAATATT
*
3027201 -A-AATTTATATTATATT-ATTTATATTATATT
1 AATAATTTATATTATATTAATTT-TA-AATATT
*
3027231 AATGA-TTATATT
1 AATAATTTATATT
3027243 TAATATTGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
27 4 0.07
28 15 0.25
29 4 0.07
30 2 0.03
31 11 0.18
32 14 0.23
33 10 0.17
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
AATAATTTATATTATATTAATTTTAAATATT
Found at i:3027181 original size:60 final size:61
Alignment explanation
Indices: 3027116--3027246 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 61
3027106 TTATATATTT
* *
3027116 ATTATATTATAATTATA-TTTAAA-AT-ATTTTATATTTATATTAATTT-TAACATATTAATA
1 ATTATATTATAATTAAATTTTAAATATAAATTTATA-TTATATT-ATTTATAACATATTAATA
** *
3027175 ATTTATATTA-AA-TAAATTTTAAATATAAATTTATATTATATTATTTATATTATATTAATG
1 A-TTATATTATAATTAAATTTTAAATATAAATTTATATTATATTATTTATAACATATTAATA
3027235 ATTATATT-TAAT
1 ATTATATTATAAT
3027247 ATTGGTTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
58 3 0.05
59 22 0.37
60 28 0.47
61 7 0.12
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (61 bp):
ATTATATTATAATTAAATTTTAAATATAAATTTATATTATATTATTTATAACATATTAATA
Found at i:3027188 original size:14 final size:15
Alignment explanation
Indices: 3027166--3027226 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 15
3027156 TAATTTTAAC
3027166 ATATT-AAT-AATTT
1 ATATTAAATAAATTT
3027179 ATATTAAATAAATTT
1 ATATTAAATAAATTT
3027194 -TA--AATATAAATTT
1 ATATTAA-ATAAATTT
* *
3027207 ATATTATAT-TATTT
1 ATATTAAATAAATTT
3027221 ATATTA
1 ATATTA
3027227 TATTAATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
12 2 0.05
13 13 0.32
14 17 0.43
15 7 0.17
16 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTAAATAAATTT
Found at i:3027220 original size:27 final size:27
Alignment explanation
Indices: 3027087--3027220 Score: 87
Period size: 28 Copynumber: 4.7 Consensus size: 27
3027077 TTAAATTGAT
* *
3027087 AATTTATA-TATTATTATATTTATATATT
1 AATTTATATTA-TATTAT-TTTAAATATA
*
3027115 TA-TTATATTATAATTATATTTAAA-AT-
1 AATTTATATTAT-ATTAT-TTTAAATATA
*
3027141 ATTTTATATTTATATTAATTTTAACATATTAA
1 AATTTATA-TTATATT-ATTTTAA-ATA-T-A
* *
3027173 TAATTTATATTAAATAAATTTTAAATATA
1 -AATTTATATTATAT-TATTTTAAATATA
3027202 AATTTATATTATATTATTT
1 AATTTATATTATATTATTT
3027221 ATATTATATT
Statistics
Matches: 85, Mismatches: 9, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
27 25 0.29
28 34 0.40
29 2 0.02
30 2 0.02
31 3 0.04
32 12 0.14
33 7 0.08
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (27 bp):
AATTTATATTATATTATTTTAAATATA
Found at i:3027224 original size:9 final size:10
Alignment explanation
Indices: 3027205--3027242 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
3027195 AAATATAAAT
3027205 TTATATTATA
1 TTATATTATA
3027215 TTAT-TTATA
1 TTATATTATA
3027224 TTATATTAATGA
1 TTATATT-AT-A
3027236 TTATATT
1 TTATATT
3027243 TAATATTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
10 6 0.24
11 2 0.08
12 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
TTATATTATA
Found at i:3027227 original size:14 final size:14
Alignment explanation
Indices: 3027203--3027231 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3027193 TTAAATATAA
3027203 ATTTATATTATATT
1 ATTTATATTATATT
3027217 ATTTATATTATATT
1 ATTTATATTATATT
3027231 A
1 A
3027232 ATGATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTATATTATATT
Found at i:3027240 original size:12 final size:10
Alignment explanation
Indices: 3027098--3027242 Score: 61
Period size: 11 Copynumber: 14.4 Consensus size: 10
3027088 ATTTATATAT
3027098 TATTATATT-
1 TATTATATTA
3027107 TA-TATATT-
1 TATTATATTA
3027115 TATTATATTA
1 TATTATATTA
3027125 TAATTATATTTA
1 T-ATTATA-TTA
* * *
3027137 AAATATTTTA
1 TATTATATTA
3027147 TATTTATATTA
1 TA-TTATATTA
* **
3027158 -ATTTTAACA
1 TATTATATTA
*
3027167 TATTA-ATAA
1 TATTATATTA
3027176 T-TTATATTA
1 TATTATATTA
* * *
3027185 AATAAATTTTA
1 TAT-TATATTA
* *
3027196 AATATAAATTTA
1 TAT-TATA-TTA
3027208 TATTATATTA
1 TATTATATTA
3027218 T-TTATATTA
1 TATTATATTA
3027227 TATTAATGATTA
1 TATT-AT-ATTA
3027239 TATT
1 TATT
3027243 TAATATTGGT
Statistics
Matches: 102, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
8 11 0.11
9 28 0.27
10 16 0.16
11 31 0.30
12 16 0.16
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (10 bp):
TATTATATTA
Found at i:3028345 original size:16 final size:16
Alignment explanation
Indices: 3028324--3028354 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3028314 ATTATTTTTT
3028324 TTAATATTAATATATA
1 TTAATATTAATATATA
3028340 TTAATATTAATATAT
1 TTAATATTAATATAT
3028355 TTTGATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATATTAATATATA
Found at i:3032341 original size:24 final size:25
Alignment explanation
Indices: 3032313--3032370 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
3032303 TGTATAATTA
3032313 TTTATAATAATATTAAAAATT-AAT
1 TTTATAATAATATTAAAAATTAAAT
* *
3032337 TTTAT-ATAAATATTTATAATTAAAT
1 TTTATAAT-AATATTAAAAATTAAAT
3032362 TTTA-AATAA
1 TTTATAATAA
3032371 AAATAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 2 0.07
24 18 0.62
25 9 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTATAATAATATTAAAAATTAAAT
Found at i:3035100 original size:6 final size:6
Alignment explanation
Indices: 3035084--3035112 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3035074 TCTGCCATAT
3035084 AGCAT- AGCATG AGCATG AGCATG AGCATG
1 AGCATG AGCATG AGCATG AGCATG AGCATG
3035113 GAATGCCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (6 bp):
AGCATG
Found at i:3036582 original size:22 final size:24
Alignment explanation
Indices: 3036522--3036572 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
3036512 TATATGACAG
* *
3036522 ATAATATT--ATTAAATGTGAATA
1 ATAATATTAAATTTAATATGAATA
3036544 ATAATATTTAAATTTAATATGAATA
1 ATAATA-TTAAATTTAATATGAATA
3036569 ATAA
1 ATAA
3036573 ATAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 2 0.08
25 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (24 bp):
ATAATATTAAATTTAATATGAATA
Found at i:3037533 original size:16 final size:17
Alignment explanation
Indices: 3037514--3037546 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3037504 ATTATTATTA
3037514 AAATATAATA-TTAAAT
1 AAATATAATATTTAAAT
*
3037530 AAATTTAATATTTAAAT
1 AAATATAATATTTAAAT
3037547 TTTATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATAATATTTAAAT
Found at i:3038708 original size:13 final size:12
Alignment explanation
Indices: 3038678--3038747 Score: 61
Period size: 12 Copynumber: 5.5 Consensus size: 12
3038668 ATAATTAAAA
* *
3038678 ATATAAAGTAAA
1 ATATAAAATAAT
3038690 ATATAAAATAAT
1 ATATAAAATAAT
*
3038702 ATAATAAAAAAAT
1 AT-ATAAAATAAT
3038715 ATATAAATATAAT
1 ATATAAA-ATAAT
3038728 ATGTATATAAA-AAT
1 A--TATA-AAATAAT
3038742 ATATAA
1 ATATAA
3038748 TATATTTTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
11 1 0.02
12 21 0.43
13 16 0.33
14 4 0.08
15 5 0.10
16 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
ATATAAAATAAT
Found at i:3039156 original size:20 final size:20
Alignment explanation
Indices: 3039133--3039197 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
3039123 TTAAAATATT
3039133 ATATATTTATATAAATTTTA
1 ATATATTTATATAAATTTTA
3039153 ATATA-TTA-AT-AA--TT-
1 ATATATTTATATAAATTTTA
3039167 -TAT-TTTATATAAATTTTA
1 ATATATTTATATAAATTTTA
*
3039185 ATTTATTTATATA
1 ATATATTTATATA
3039198 TTATATCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 16
0.68 0.02 0.30
Matches are distributed among these distances:
13 6 0.17
14 2 0.06
15 4 0.11
17 4 0.11
18 2 0.06
19 5 0.14
20 13 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATATTTATATAAATTTTA
Found at i:3039158 original size:27 final size:27
Alignment explanation
Indices: 3039122--3039203 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 27
3039112 TATAATTATA
*
3039122 TTTAAAATATTATATATTTATATAAAT
1 TTTAATATATTATATATTTATATAAAT
3039149 TTTAATATATTAATAATTTATTTTATATAAAT
1 TTTAATATATT-AT-A--TA-TTTATATAAAT
*
3039181 TTTAATTTATT-TATATATTATAT
1 TTTAATATATTATATAT-TTATAT
3039204 CATATCTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
26 1 0.02
27 18 0.38
28 2 0.04
29 2 0.04
30 1 0.02
31 2 0.04
32 21 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTAATATATTATATATTTATATAAAT
Found at i:3039173 original size:21 final size:21
Alignment explanation
Indices: 3039147--3039200 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
3039137 ATTTATATAA
3039147 ATTTTAATATATTAATAATTT
1 ATTTTAATATATTAATAATTT
* *
3039168 ATTTTATATAAATT-TTAATTT
1 ATTTTA-ATATATTAATAATTT
3039189 A-TTT-ATATATTA
1 ATTTTAATATATTA
3039201 TATCATATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 6 0.21
20 3 0.11
21 13 0.46
22 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTAATATATTAATAATTT
Found at i:3039184 original size:16 final size:16
Alignment explanation
Indices: 3039137--3039190 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
3039127 AATATTATAT
3039137 ATTTATATAAATTTTA
1 ATTTATATAAATTTTA
* *
3039153 ATATAT-TAATAATTTA
1 ATTTATATAA-ATTTTA
*
3039169 TTTTATATAAATTTTA
1 ATTTATATAAATTTTA
3039185 ATTTAT
1 ATTTAT
3039191 TTATATATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTATATAAATTTTA
Found at i:3039195 original size:18 final size:18
Alignment explanation
Indices: 3039142--3039195 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
3039132 TATATATTTA
*
3039142 TATAAATTTTAATATATT
1 TATAAATTTTAATTTATT
* *
3039160 AAT-AA-TTT-ATTT-TA
1 TATAAATTTTAATTTATT
3039174 TATAAATTTTAATTTATT
1 TATAAATTTTAATTTATT
3039192 TATA
1 TATA
3039196 TATTATATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.11
15 5 0.19
16 6 0.22
17 6 0.22
18 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATAAATTTTAATTTATT
Found at i:3040623 original size:36 final size:36
Alignment explanation
Indices: 3040573--3040645 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
3040563 ATAGAAGAAC
3040573 TCCTGCACCGCCACCTCCACCGGTTCCAGCAAAAAG
1 TCCTGCACCGCCACCTCCACCGGTTCCAGCAAAAAG
* * *
3040609 TCCTGCCCCTCCACCTCCACCGGTTCCGGCAAAAAG
1 TCCTGCACCGCCACCTCCACCGGTTCCAGCAAAAAG
3040645 T
1 T
3040646 TATGCTCCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.22, C:0.45, G:0.16, T:0.16
Consensus pattern (36 bp):
TCCTGCACCGCCACCTCCACCGGTTCCAGCAAAAAG
Found at i:3040659 original size:36 final size:36
Alignment explanation
Indices: 3040583--3040660 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
3040573 TCCTGCACCG
* *
3040583 CCACCTCCACCGGTTCCAGCAAAAAGTCCTGCCCCT
1 CCACCTCCACCGGTTCCAGCAAAAAGTCATGCCCCA
* * *
3040619 CCACCTCCACCGGTTCCGGCAAAAAGTTATGCTCCA
1 CCACCTCCACCGGTTCCAGCAAAAAGTCATGCCCCA
3040655 CCACCT
1 CCACCT
3040661 AACAAAGCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (36 bp):
CCACCTCCACCGGTTCCAGCAAAAAGTCATGCCCCA
Found at i:3044843 original size:2 final size:2
Alignment explanation
Indices: 3044836--3044867 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3044826 ATCCAAAATA
3044836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3044868 TAACTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3044949 original size:23 final size:25
Alignment explanation
Indices: 3044905--3044950 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
3044895 ATTTTTTATT
*
3044905 ATATAATATTTATAAAATAATTTTC
1 ATATAATATATATAAAATAATTTTC
3044930 ATATAATA-ATAT-AAATAATTT
1 ATATAATATATATAAAATAATTT
3044951 ATTTCTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATAATATATATAAAATAATTTTC
Found at i:3045627 original size:2 final size:2
Alignment explanation
Indices: 3045620--3045647 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3045610 AATAGCTACA
3045620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3045648 TTCTAGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3048245 original size:2 final size:2
Alignment explanation
Indices: 3048199--3048229 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3048189 GTTATCCAAC
*
3048199 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3048230 GCAAATAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3050353 original size:19 final size:18
Alignment explanation
Indices: 3050322--3050371 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
3050312 TGTATCCAAT
* *
3050322 AATATTTATATATTTAAA
1 AATATTTAAATATATAAA
3050340 AATATTTTAAATATAT-AA
1 AATA-TTTAAATATATAAA
3050358 AA-ATTTAAATATAT
1 AATATTTAAATATAT
3050372 TTATATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.38
17 1 0.03
18 8 0.28
19 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATTTAAATATATAAA
Found at i:3052730 original size:18 final size:17
Alignment explanation
Indices: 3052678--3052730 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
3052668 ATTATAATAA
3052678 ATATTA-AAAA-AATTT
1 ATATTATAAAATAATTT
*
3052693 AAATTATAAAATAATATT
1 ATATTATAAAATAAT-TT
*
3052711 ATATTATAATAATTATTT
1 ATATTATAA-AATAATTT
3052729 AT
1 AT
3052731 CATTGTGCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 5 0.16
16 4 0.13
17 3 0.10
18 14 0.45
19 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTATAAAATAATTT
Found at i:3057846 original size:130 final size:130
Alignment explanation
Indices: 3057705--3057962 Score: 455
Period size: 130 Copynumber: 2.0 Consensus size: 130
3057695 TATAAAAATA
*
3057705 AATTAAACACAAAAAATTTTCTTAAAATAATAAATAAAAATTCTTAATTAATGCCTACGTACATC
1 AATTAAACACAAAAAATTTTCTTAAAATAATAAATAAAAATTCTTAATTAATGCCTAAGTACATC
*
3057770 AGTTAAATAAATTCATTTTATTTTTAAATATTAAATAAATCT-AAATTAAAACAATTCAAAATTT
66 ACTTAAATAAATTCATTTTATTTTTAAATATTAAATAAAT-TAAAATTAAAACAATTCAAAATTT
3057834 C
130 C
3057835 AATTAAACACAAAAAATTTTCTTAAAATAATAAATAAAAATTCTTAATTAATGCCTAAGTACATC
1 AATTAAACACAAAAAATTTTCTTAAAATAATAAATAAAAATTCTTAATTAATGCCTAAGTACATC
** *
3057900 ACTTAAATAGGTTCATTTTATTTTTAAATATTAAATAAATTAAAATTAAAACAATTCGAAATT
66 ACTTAAATAAATTCATTTTATTTTTAAATATTAAATAAATTAAAATTAAAACAATTCAAAATT
3057963 CCAAAACCAA
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
129 1 0.01
130 121 0.99
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (130 bp):
AATTAAACACAAAAAATTTTCTTAAAATAATAAATAAAAATTCTTAATTAATGCCTAAGTACATC
ACTTAAATAAATTCATTTTATTTTTAAATATTAAATAAATTAAAATTAAAACAATTCAAAATTTC
Found at i:3058138 original size:2 final size:2
Alignment explanation
Indices: 3058131--3058171 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3058121 CATGCAGCGA
3058131 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3058172 CGAGGCATCG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3059784 original size:21 final size:21
Alignment explanation
Indices: 3059760--3059799 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3059750 TTAATAAAAA
3059760 TATTTTAT-ATTAATATTTATT
1 TATTTTATAATTAA-ATTTATT
3059781 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
3059800 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATT
Found at i:3059823 original size:14 final size:14
Alignment explanation
Indices: 3059782--3059823 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
3059772 ATATTTATTT
3059782 ATTTT-ATAATTAA
1 ATTTTAATAATTAA
* *
3059795 ATTTAAATAA-AAA
1 ATTTTAATAATTAA
3059808 ATTTTAATAATTAA
1 ATTTTAATAATTAA
3059822 AT
1 AT
3059824 ATCAATTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATTAA
Found at i:3060968 original size:31 final size:30
Alignment explanation
Indices: 3060930--3061040 Score: 140
Period size: 31 Copynumber: 3.7 Consensus size: 30
3060920 AATATAAGGT
3060930 AAAATATATTTATTTTTTAAATTTTACATAA
1 AAAATATATTTATTTTTTAAATTTTA-ATAA
*
3060961 AAAATATATTTATTTTTT-AATATT--TAA
1 AAAATATATTTATTTTTTAAATTTTAATAA
3060988 AAAATATTAATTTAATTTTTTAAA-TTTAATAA
1 AAAATA-T-ATTT-ATTTTTTAAATTTTAATAA
*
3061020 AAAATATATTTATTTCTTAAA
1 AAAATATATTTATTTTTTAAA
3061041 CTATTATTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
27 9 0.13
28 1 0.01
29 13 0.18
30 18 0.25
31 21 0.30
32 9 0.13
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
AAAATATATTTATTTTTTAAATTTTAATAA
Found at i:3061006 original size:30 final size:26
Alignment explanation
Indices: 3060958--3061040 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 26
3060948 AAATTTTACA
3060958 TAAAAAATATATTTATTTTTTAATATT
1 TAAAAAATATATTTATTTTTTAA-ATT
3060985 TAAAAAATATTAATTTAATTTTTTAAATTT
1 TAAAAAATA-T-ATTT-ATTTTTTAAA-TT
*
3061015 AATAAAAAATATATTTATTTCTTAAA
1 --TAAAAAATATATTTATTTTTTAAA
3061041 CTATTATTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
27 9 0.18
28 1 0.02
29 14 0.29
30 15 0.31
31 1 0.02
32 9 0.18
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (26 bp):
TAAAAAATATATTTATTTTTTAAATT
Found at i:3061156 original size:25 final size:25
Alignment explanation
Indices: 3061128--3061204 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
3061118 TCAAATTTTT
3061128 TTAATTACAAAATAATAAGATTCAG
1 TTAATTACAAAATAATAAGATTCAG
** ** * *
3061153 TTAATTTTAAAAT--T-ATTTTTAA
1 TTAATTACAAAATAATAAGATTCAG
3061175 TT-ATTACAAAATAATAAGATTCAG
1 TTAATTACAAAATAATAAGATTCAG
3061199 TTAATT
1 TTAATT
3061205 TATAATTATT
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
21 8 0.22
22 6 0.17
23 2 0.06
24 6 0.17
25 14 0.39
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (25 bp):
TTAATTACAAAATAATAAGATTCAG
Found at i:3061171 original size:45 final size:44
Alignment explanation
Indices: 3061122--3061225 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 44
3061112 TTTTACTCAA
3061122 ATTTTT-TTAATTACAAAATAATAAGATTCAGTTAATTTTAAAATT
1 ATTTTTATT-ATTACAAAATAATAAGATTCAGTTAA-TTTAAAATT
*
3061167 ATTTTTAATTATTACAAAATAATAAGATTCAGTTAATTTATAATT
1 ATTTTT-ATTATTACAAAATAATAAGATTCAGTTAATTTAAAATT
3061212 ATTTTTAATTATTA
1 ATTTTT-ATTATTA
3061226 TTAATTAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
45 28 0.50
46 26 0.46
47 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (44 bp):
ATTTTTATTATTACAAAATAATAAGATTCAGTTAATTTAAAATT
Found at i:3061187 original size:46 final size:45
Alignment explanation
Indices: 3061131--3061225 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 45
3061121 AATTTTTTTA
3061131 ATTACAAAATAATAAGATTCAGTTAATTTTAAAATTATTTTTAATT
1 ATTACAAAATAATAAGATTCAGTTAA-TTTAAAATTATTTTTAATT
*
3061177 ATTACAAAATAATAAGATTCAGTTAATTTATAATTATTTTTAATT
1 ATTACAAAATAATAAGATTCAGTTAATTTAAAATTATTTTTAATT
3061222 ATTA
1 ATTA
3061226 TTAATTAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 22 0.46
46 26 0.54
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (45 bp):
ATTACAAAATAATAAGATTCAGTTAATTTAAAATTATTTTTAATT
Found at i:3061559 original size:16 final size:16
Alignment explanation
Indices: 3061534--3061568 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3061524 TTAACTAATC
3061534 TTAAAATATTATTAAA
1 TTAAAATATTATTAAA
* *
3061550 TTAAATTATTATTTAA
1 TTAAAATATTATTAAA
3061566 TTA
1 TTA
3061569 TATTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAATATTATTAAA
Found at i:3062458 original size:14 final size:15
Alignment explanation
Indices: 3062429--3062458 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3062419 AAGAATAATT
3062429 TAAAATTTATATAAA
1 TAAAATTTATATAAA
3062444 TAAAATTTA-ATAAA
1 TAAAATTTATATAAA
3062458 T
1 T
3062459 TTTATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAATTTATATAAA
Found at i:3062458 original size:24 final size:24
Alignment explanation
Indices: 3062387--3062470 Score: 64
Period size: 24 Copynumber: 3.4 Consensus size: 24
3062377 TATGTTTTAG
**
3062387 ATATAATATAAAATAAAATAAAATTT
1 ATATAA-ATAAAATTTAAT-AAATTT
* *
3062413 AAATATAAGAATAATTT-A-AAATTT
1 ATATA-AATAA-AATTTAATAAATTT
3062437 ATATAAATAAAATTTAATAAATTTT
1 ATATAAATAAAATTTAATAAA-TTT
*
3062462 ATATTAATA
1 ATATAAATA
3062471 TATAATATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
22 5 0.11
23 5 0.11
24 13 0.28
25 11 0.24
26 8 0.17
27 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (24 bp):
ATATAAATAAAATTTAATAAATTT
Found at i:3062482 original size:20 final size:20
Alignment explanation
Indices: 3062453--3062505 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
3062443 ATAAAATTTA
*
3062453 ATAA-ATTTTATAT-TAATAT
1 ATAATATTTTAAATATAAT-T
3062472 ATAATATTTTAAATATAATT
1 ATAATATTTTAAATATAATT
3062492 ATAATAATTTTAAA
1 ATAAT-ATTTTAAA
3062506 AAATAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 14 0.47
21 12 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATATTTTAAATATAATT
Found at i:3062511 original size:22 final size:21
Alignment explanation
Indices: 3062466--3062507 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3062456 AATTTTATAT
*
3062466 TAATATATAATATTTTAAATA
1 TAATATATAATATTTTAAAAA
3062487 TAAT-TATAATAATTTTAAAAA
1 TAATATATAAT-ATTTTAAAAA
3062508 ATAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATATATAATATTTTAAAAA
Found at i:3063102 original size:26 final size:26
Alignment explanation
Indices: 3063073--3063123 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
3063063 AGTTAATCAA
3063073 ATTAATTAAATTTT-AATTATTTTTTT
1 ATTAA-TAAATTTTAAATTATTTTTTT
*
3063099 ATTAATAATTTTTAAAATTATTTTT
1 ATTAATAAATTTT-AAATTATTTTT
3063124 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 5 0.23
27 10 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTAATAAATTTTAAATTATTTTTTT
Found at i:3063753 original size:2 final size:2
Alignment explanation
Indices: 3063746--3063787 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3063736 ATAAGTTGAA
*
3063746 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3063788 GAATTTAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3067633 original size:54 final size:54
Alignment explanation
Indices: 3067560--3067667 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
3067550 ATGTTAACCA
3067560 AGAGTAGCAAGAACTAATATGGAAGTATTTCACAAGTTGACATTGAACCATACT
1 AGAGTAGCAAGAACTAATATGGAAGTATTTCACAAGTTGACATTGAACCATACT
3067614 AGAGTAGCAAGAACTAATATGGAAGTATTTCACAAGTTGACATTGAACCATACT
1 AGAGTAGCAAGAACTAATATGGAAGTATTTCACAAGTTGACATTGAACCATACT
3067668 TATGATCTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (54 bp):
AGAGTAGCAAGAACTAATATGGAAGTATTTCACAAGTTGACATTGAACCATACT
Found at i:3072245 original size:32 final size:33
Alignment explanation
Indices: 3072189--3072265 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 33
3072179 AATATAATAT
* * *
3072189 AATATAAATATTTTAATATTTTAAAATTTACAA
1 AATATAAATATATAAATATATTAAAATTTACAA
*
3072222 AATATAAAT-TATAAATATATTAAAATTTATAA
1 AATATAAATATATAAATATATTAAAATTTACAA
*
3072254 ATTATAAA-ATAT
1 AATATAAATATAT
3072266 TTTAATATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 29 0.76
33 9 0.24
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
AATATAAATATATAAATATATTAAAATTTACAA
Found at i:3072256 original size:40 final size:37
Alignment explanation
Indices: 3072184--3072265 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 37
3072174 TTTATAATAT
* *
3072184 AATATAATATAAATATTTTAATATTTTAAAATTTACAA
1 AATATAATATAAATATATTAAAATTTTAAAA-TTACAA
*
3072222 AATATAAATTATAAATATATTAAAA-TTTATAAATTATAA
1 AATAT-AA-TATAAATATATTAAAATTTTA-AAATTACAA
3072261 AATAT
1 AATAT
3072266 TTTAATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
38 5 0.13
39 16 0.42
40 17 0.45
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (37 bp):
AATATAATATAAATATATTAAAATTTTAAAATTACAA
Found at i:3072275 original size:40 final size:40
Alignment explanation
Indices: 3072170--3072313 Score: 93
Period size: 40 Copynumber: 3.6 Consensus size: 40
3072160 TATATAATAA
* * * * * *
3072170 ATAATTTATAATATAATATAATATAAATATTTTAATATTT
1 ATAAATTATAAAATATTTTAATATAAATATATTAAAATTT
* *
3072210 -TAAAATT-TACAAA-ATATAAATTATAAATATATTAAAATTT
1 AT-AAATTATA-AAATATTTTAA-TATAAATATATTAAAATTT
* * *
3072250 ATAAATTATAAAATATTTTAATATAATTATAATATAA--T
1 ATAAATTATAAAATATTTTAATATAAATATATTAAAATTT
*
3072288 A-AAATATATAAAAAATTTTAAATATA
1 ATAAAT-TATAAAATATTTT-AATATA
3072314 TTTGTAATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
37 4 0.05
38 14 0.17
39 12 0.15
40 44 0.54
41 8 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (40 bp):
ATAAATTATAAAATATTTTAATATAAATATATTAAAATTT
Found at i:3072323 original size:39 final size:38
Alignment explanation
Indices: 3072252--3072334 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
3072242 TAAAATTTAT
* *
3072252 AAAT-TATAAAATATTTTAATATAATTATAATATAATA
1 AAATATATAAAAAATTTTAATATAATTATAATATAAAA
* *
3072289 AAATATATAAAAAATTTTAAATATATTTGTAATATAAAA
1 AAATATATAAAAAATTTT-AATATAATTATAATATAAAA
3072328 AAATATA
1 AAATATA
3072335 ATTATAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 4 0.10
38 12 0.30
39 24 0.60
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (38 bp):
AAATATATAAAAAATTTTAATATAATTATAATATAAAA
Found at i:3073411 original size:22 final size:22
Alignment explanation
Indices: 3073386--3073459 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
3073376 ACATAAAATA
3073386 TTAAAAAAAATTATATTAATTT
1 TTAAAAAAAATTATATTAATTT
* ** *
3073408 TTAAATAATTTTATAATTAAATT
1 TTAAAAAAAATTAT-ATTAATTT
* * *
3073431 TAAATAAAAATATTATTTTAATAT
1 TTAA-AAAAA-ATTATATTAATTT
3073455 TTAAA
1 TTAAA
3073460 TAATTATTCA
Statistics
Matches: 37, Mismatches: 12, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
22 11 0.30
23 11 0.30
24 11 0.30
25 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAAAAAAAATTATATTAATTT
Found at i:3074307 original size:2 final size:2
Alignment explanation
Indices: 3074300--3074332 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3074290 ACCATAACTG
3074300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3074333 AATAGAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3074713 original size:5 final size:5
Alignment explanation
Indices: 3074705--3074744 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
3074695 TAATTTAGTT
3074705 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
3074745 GTTCTTCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:3074832 original size:2 final size:2
Alignment explanation
Indices: 3074827--3074855 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3074817 ATACACACAC
3074827 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3074856 AACACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.