Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold214
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: 304316
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
File 2 of 4
Found at i:126062 original size:8 final size:7
Alignment explanation
Indices: 126043--126171 Score: 87
Period size: 7 Copynumber: 18.9 Consensus size: 7
126033 CGCATGTATT
126043 TTATATA
1 TTATATA
126050 TTATATGA
1 TTATAT-A
126058 TTATAT-
1 TTATATA
*
126064 TTAAAATA
1 TT-ATATA
126072 TTATATA
1 TTATATA
126079 TT-TATA
1 TTATATA
* *
126085 TATAAATTT
1 T-TATA-TA
126094 TTATATA
1 TTATATA
126101 TT-TATA
1 TTATATA
126107 TTAT-TA
1 TTATATA
*
126113 TTTTATA
1 TTATATA
126120 -T-TATA
1 TTATATA
*
126125 TTATATT
1 TTATATA
126132 TTATATTA
1 TTATA-TA
*
126140 TT-TTTA
1 TTATATA
126146 TTATAT-
1 TTATATA
126152 TTATAT-
1 TTATATA
126158 TATATATA
1 T-TATATA
126166 TTATAT
1 TTATAT
126172 CTAAGTATAA
Statistics
Matches: 97, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
5 4 0.04
6 31 0.32
7 43 0.44
8 17 0.18
9 2 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (7 bp):
TTATATA
Found at i:126072 original size:22 final size:22
Alignment explanation
Indices: 126047--126108 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
126037 TGTATTTTAT
126047 ATATTATATGA-TTATATTTAAA
1 ATATTATAT-ATTTATATTTAAA
*
126069 ATATTATATATTTATATATAAA
1 ATATTATATATTTATATTTAAA
* *
126091 TTTTTATATATTTATATT
1 ATATTATATATTTATATT
126109 ATTATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTATATATTTATATTTAAA
Found at i:126141 original size:20 final size:21
Alignment explanation
Indices: 126072--126171 Score: 97
Period size: 20 Copynumber: 5.0 Consensus size: 21
126062 ATTTAAAATA
*
126072 TTATA-TATTTATATATAAATT
1 TTATATTATTTATAT-TATATT
126093 TT-TATATATTTATATTAT-TAT
1 TTATAT-TATTTATATTATAT-T
126114 TT-TA-TA-TTATATTATATT
1 TTATATTATTTATATTATATT
*
126132 TTATATTATTTTTATTATA-T
1 TTATATTATTTATATTATATT
*
126152 TTATATTATATATATTATAT
1 TTATATTATTTATATTATAT
126172 CTAAGTATAA
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
18 12 0.18
19 5 0.07
20 23 0.34
21 18 0.27
22 9 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATATTATTTATATTATATT
Found at i:126146 original size:41 final size:40
Alignment explanation
Indices: 126070--126171 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 40
126060 ATATTTAAAA
* *
126070 TATTATATATTTATATATAAATTTTTATATATTTA-TAT-TAT
1 TATTTTATA-TTATAT-TATATTTTTATATATTTATTATAT-T
*
126111 TATTTTATATTATATTATATTTTATATTATTTTTATTATATT
1 TATTTTATATTATATTATATTTT-TA-TATATTTATTATATT
*
126153 TATATTATA-TATATTATAT
1 TATTTTATATTATATTATAT
126172 CTAAGTATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 7 0.13
40 8 0.15
41 25 0.47
42 12 0.23
43 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (40 bp):
TATTTTATATTATATTATATTTTTATATATTTATTATATT
Found at i:126148 original size:39 final size:35
Alignment explanation
Indices: 126075--126167 Score: 118
Period size: 37 Copynumber: 2.6 Consensus size: 35
126065 TAAAATATTA
*
126075 TATATTTATA-TATAAAT-TTTTATATATTTATAT
1 TATATTTATATTATATATATTTTATATATTTATAT
*
126108 TATTATTTTATATTATATTATATTTTATATTATTTTTAT
1 TA-TA-TTTATATTATA-TATATTTTATA-TATTTATAT
126147 TATATTTATATTATATATATT
1 TATATTTATATTATATATATT
126168 ATATCTAAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
33 2 0.04
34 2 0.04
35 6 0.12
36 10 0.19
37 13 0.25
38 9 0.17
39 10 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (35 bp):
TATATTTATATTATATATATTTTATATATTTATAT
Found at i:126430 original size:29 final size:30
Alignment explanation
Indices: 126379--126445 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 30
126369 AATAAAAAAT
126379 TTAAAATATATATTTTATAATTAAATTTAAA
1 TTAAAA-ATATATTTTATAATTAAATTTAAA
*
126410 -TAAAAATAT-TTTTAATTATTAAATTTAAA
1 TTAAAAATATATTTT-ATAATTAAATTTAAA
126439 TTAAAAA
1 TTAAAAA
126446 AATTAATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 4 0.12
29 18 0.55
30 11 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
TTAAAAATATATTTTATAATTAAATTTAAA
Found at i:129239 original size:2 final size:2
Alignment explanation
Indices: 129232--129256 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
129222 ACCAACGTTT
129232 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 T
129257 GTGTGTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:129273 original size:8 final size:8
Alignment explanation
Indices: 129262--129288 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
129252 TATATGTGTG
129262 TGTATGTA
1 TGTATGTA
129270 TGTATGTA
1 TGTATGTA
129278 TGTATGTA
1 TGTATGTA
129286 TGT
1 TGT
129289 GTGTGTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (8 bp):
TGTATGTA
Found at i:129279 original size:12 final size:12
Alignment explanation
Indices: 129262--129288 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
129252 TATATGTGTG
129262 TGTATGTATGTA
1 TGTATGTATGTA
129274 TGTATGTATGTA
1 TGTATGTATGTA
129286 TGT
1 TGT
129289 GTGTGTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (12 bp):
TGTATGTATGTA
Found at i:129904 original size:14 final size:14
Alignment explanation
Indices: 129865--129919 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
129855 TATTATAAAA
*
129865 AAATATTTTAATTT
1 AAATATTTTAAATT
*
129879 ATATATTATTAAATT
1 AAATATT-TTAAATT
*
129894 AAATATTTTAATTT
1 AAATATTTTAAATT
**
129908 TTATATTTTAAA
1 AAATATTTTAAA
129920 ATTTATAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AAATATTTTAAATT
Found at i:129921 original size:29 final size:30
Alignment explanation
Indices: 129846--129922 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 30
129836 TTGTTGACCG
*
129846 TTTTTATATTATTATAAA-AAAATATTTTAA
1 TTTTTATATTATTA-AAATTAAATATTTTAA
*
129876 TTTATATATTATT-AAATTAAATATTTTAA
1 TTTTTATATTATTAAAATTAAATATTTTAA
129905 TTTTTATATT-TTAAAATT
1 TTTTTATATTATTAAAATT
129923 TATAATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.12
29 25 0.60
30 12 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTTTATATTATTAAAATTAAATATTTTAA
Found at i:130175 original size:25 final size:25
Alignment explanation
Indices: 130147--130201 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
130137 TTTATTTATT
* **
130147 ATATTTTAATAATATAAAAATTAAA
1 ATATTTTAATAATAAAAAAACAAAA
*
130172 ATATTTTTATAATAAAAAAACAAAA
1 ATATTTTAATAATAAAAAAACAAAA
130197 ATATT
1 ATATT
130202 AAATTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
ATATTTTAATAATAAAAAAACAAAA
Found at i:130488 original size:19 final size:19
Alignment explanation
Indices: 130445--130488 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
130435 TGAATTACTT
*
130445 TTATTTAATATAATAAAAG
1 TTATTTAATATAATAAAAA
* *
130464 TAATTTACTATAATAAAAA
1 TTATTTAATATAATAAAAA
130483 TTATTT
1 TTATTT
130489 TTTTAATATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TTATTTAATATAATAAAAA
Found at i:131005 original size:19 final size:21
Alignment explanation
Indices: 130961--131016 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
130951 GATTTGATTT
*
130961 TTTATTTAAATTT-AAATTAAA
1 TTTA-TTATATTTAAAATTAAA
*
130982 TTTATT-TATTTAAAATTTAA
1 TTTATTATATTTAAAATTAAA
*
131002 -TTATTATTTTTAAAA
1 TTTATTATATTTAAAA
131017 CAGCTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATTATATTTAAAATTAAA
Found at i:131092 original size:18 final size:18
Alignment explanation
Indices: 131057--131092 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
131047 AAATTAAATT
**
131057 AATTTTATATATTTTTAA
1 AATTTTATATATAATTAA
131075 AATTTTATATATAATTAA
1 AATTTTATATATAATTAA
131093 TATATTAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTTATATATAATTAA
Found at i:131429 original size:21 final size:21
Alignment explanation
Indices: 131405--131445 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
131395 AAAATAATTA
131405 ATATTTTAT-ATTTATATTTAT
1 ATATTTTATAATTTA-ATTTAT
131426 ATATTTTATAATTTAATTTA
1 ATATTTTATAATTTAATTTA
131446 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTTTATAATTTAATTTAT
Found at i:131852 original size:13 final size:13
Alignment explanation
Indices: 131793--131857 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
131783 ATTTGATCTA
131793 ATTAAAATATTAATTT
1 ATTAAAAT-TTAA--T
* *
131809 ATTAATATTT-TT
1 ATTAAAATTTAAT
*
131821 ATTTAAATTTAAT
1 ATTAAAATTTAAT
131834 ATTAAAATATTAAT
1 ATTAAAAT-TTAAT
131848 A-TAAAATTTA
1 ATTAAAATTTA
131858 TTATATAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
12 12 0.29
13 14 0.34
14 6 0.15
15 2 0.05
16 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTAAAATTTAAT
Found at i:132229 original size:15 final size:14
Alignment explanation
Indices: 132195--132227 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
132185 TATTTTTTAA
132195 TTTTTAAAATAAAT
1 TTTTTAAAATAAAT
132209 TTTTTAAAA-AATAT
1 TTTTTAAAATAA-AT
132223 TTTTT
1 TTTTT
132228 TACAATGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTTAAAATAAAT
Found at i:132386 original size:20 final size:19
Alignment explanation
Indices: 132352--132436 Score: 59
Period size: 19 Copynumber: 4.4 Consensus size: 19
132342 AAATTTAAAA
*
132352 TATAAAATTTAATTAAATT
1 TATAAAAATTAATTAAATT
*
132371 TATAAAAATTATATTAAAAAAT
1 TATAAAAATTA-ATT--AAATT
*
132393 TA-AAAAATTAATTATTATT
1 TATAAAAATTAATTA-AATT
* *
132412 TTTAATAAATTAA-AAAATT
1 TATAA-AAATTAATTAAATT
132431 T-TAAAA
1 TATAAAA
132437 CAATTTAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.04
18 4 0.08
19 17 0.32
20 9 0.17
21 15 0.28
22 6 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAAAATTAATTAAATT
Found at i:132792 original size:23 final size:24
Alignment explanation
Indices: 132757--132801 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
132747 AATTTTTTGT
*
132757 TATTAGTAATTTT-TTATATTTAA
1 TATTAGTAATTTTAATATATTTAA
* *
132780 TATTATTATTTTTAATATATTT
1 TATTAGTAATTTTAATATATTT
132802 TTATGGTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TATTAGTAATTTTAATATATTTAA
Found at i:134249 original size:74 final size:71
Alignment explanation
Indices: 134150--134407 Score: 245
Period size: 72 Copynumber: 3.6 Consensus size: 71
134140 ATCAACCTAT
* * * *
134150 AAAACAAATTTAAA-TTTCTATAAATAAAAATAAATTATACGATCAAAAATATAAATTCGTATAA
1 AAAACACATTTAAACTTT-TACAAATAAAAATAAATTATACCATCAAAAATTTAAATTCGTATAA
134214 TCATACCCA
65 T-ATA-CCA
* * *
134223 AAAGACACATTTAAACTTTTACAAATAAAAATAAATTATACCATCAATAATTTAAACTCATATAA
1 AAA-ACACATTTAAACTTTTACAAATAAAAATAAATTATACCATCAAAAATTTAAATTCGTAT-A
**
134288 ATATATAA
64 ATATACCA
* * *
134296 AAAACACA-TTAAATCTTTTACAAATAAAAATAAATTATACTAT-AAAAATTTTAACTT-GTGTA
1 AAAACACATTTAAA-CTTTTACAAATAAAAATAAATTATACCATCAAAAA-TTTAAATTCGTATA
134358 ATTATACTCA
64 A-TATAC-CA
* * * * * *
134368 AAAATAAATTTAAACTTCTAAAAATAAAGATAAATAATAC
1 AAAACACATTTAAACTTTTACAAATAAAAATAAATTATAC
134408 TTTAAAATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
70 2 0.01
71 15 0.10
72 68 0.44
73 12 0.08
74 51 0.33
75 6 0.04
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (71 bp):
AAAACACATTTAAACTTTTACAAATAAAAATAAATTATACCATCAAAAATTTAAATTCGTATAAT
ATACCA
Found at i:134331 original size:72 final size:73
Alignment explanation
Indices: 134121--134407 Score: 239
Period size: 72 Copynumber: 3.9 Consensus size: 73
134111 ATACTATCCT
* * * * * *
134121 AAAAATTTAAACTAATGTAATCA-ACCTATAAAACAAATTTAAA-TTTCTATAAATAAAAATAAA
1 AAAAATATAAACTCATATAATCATACC-AAAAAACACATTTAAACTTT-TACAAATAAAAATAAA
*
134184 TTATACGATC
64 TTATACCATC
* * *
134194 AAAAATATAAATTCGTATAATCATACCCAAAAGACACATTTAAACTTTTACAAATAAAAATAAAT
1 AAAAATATAAACTCATATAATCATA-CCAAAAAACACATTTAAACTTTTACAAATAAAAATAAAT
134259 TATACCATC
65 TATACCATC
* * *
134268 AATAATTTAAACTCATATAAAT-ATA-TAAAAAACACA-TTAAATCTTTTACAAATAAAAATAAA
1 AAAAATATAAACTCATAT-AATCATACCAAAAAACACATTTAAA-CTTTTACAAATAAAAATAAA
*
134330 TTATACTAT-
64 TTATACCATC
* * ** * * * * *
134339 AAAAATTTTAACTTGTGTAATTATACTCAAAAATA-A-ATTTAAACTTCTAAAAATAAAGATAAA
1 AAAAATATAAACTCATATAATCATAC-CAAAAA-ACACATTTAAACTTTTACAAATAAAAATAAA
*
134402 TAATAC
64 TTATAC
134408 TTTAAAATTT
Statistics
Matches: 177, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
70 3 0.02
71 21 0.12
72 60 0.34
73 29 0.16
74 56 0.32
75 8 0.05
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.32
Consensus pattern (73 bp):
AAAAATATAAACTCATATAATCATACCAAAAAACACATTTAAACTTTTACAAATAAAAATAAATT
ATACCATC
Found at i:134659 original size:11 final size:10
Alignment explanation
Indices: 134620--134674 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
134610 TGATAATAAA
134620 TTTAATA-AT
1 TTTAATATAT
* *
134629 TTATATTATCT
1 TT-TAATATAT
134640 TTTAATATAT
1 TTTAATATAT
134650 TTTAA-ATAT
1 TTTAATATAT
134659 ATTTAATATTAT
1 -TTTAATA-TAT
134671 TTTA
1 TTTA
134675 TAATATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 6 0.16
10 20 0.54
11 8 0.22
12 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTAATATAT
Found at i:134663 original size:20 final size:22
Alignment explanation
Indices: 134640--134680 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
134630 TATATTATCT
134640 TTTAATA-TATTTTA-AATATA
1 TTTAATATTATTTTATAATATA
134660 TTTAATATTATTTTATAATAT
1 TTTAATATTATTTTATAATAT
134681 TATATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 7 0.37
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTAATATTATTTTATAATATA
Found at i:137432 original size:28 final size:27
Alignment explanation
Indices: 137374--137432 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
137364 AGGTGTTAAT
*
137374 TTATATAAATATCATTATAATTTGAAA
1 TTATATAAATATCATTATAATATGAAA
*
137401 -TATATATATATACTATTATAATAT-AAA
1 TTATATAAATAT-C-ATTATAATATGAAA
137428 TTATA
1 TTATA
137433 CGCTTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 10 0.37
27 4 0.15
28 13 0.48
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (27 bp):
TTATATAAATATCATTATAATATGAAA
Found at i:137710 original size:22 final size:24
Alignment explanation
Indices: 137685--137735 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
137675 AAATATTAAA
*
137685 ATATTATTTTAT-ATTAATT-TTT
1 ATATTATTTGATAATTAATTATTT
137707 ATA-TATTTGATAATTAATTATTT
1 ATATTATTTGATAATTAATTATTT
*
137730 TTATTA
1 ATATTA
137736 AATATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.29
22 10 0.42
23 5 0.21
24 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
ATATTATTTGATAATTAATTATTT
Found at i:137734 original size:21 final size:20
Alignment explanation
Indices: 137686--137734 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
137676 AATATTAAAA
*
137686 TATTATTTTATATTAATTTT
1 TATTATTTGATATTAATTTT
137706 TATATATTTGATAATTAATTATT
1 TAT-TATTTGAT-ATTAATT-TT
137729 T-TTATT
1 TATTATT
137735 AAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 11 0.44
22 8 0.32
23 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTTGATATTAATTTT
Found at i:138415 original size:17 final size:16
Alignment explanation
Indices: 138390--138424 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
138380 TAACATAATT
*
138390 TTATATTTATGTTATA
1 TTATATTTATATTATA
138406 TTATATTTTATATTATA
1 TTATA-TTTATATTATA
138423 TT
1 TT
138425 TTAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTATATTTATATTATA
Found at i:138416 original size:23 final size:23
Alignment explanation
Indices: 138387--138450 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
138377 ATTTAACATA
138387 ATTTTATATT-TATGTTATATTAT
1 ATTTTATATTATATGTTA-ATTAT
*
138410 ATTTTATATTATATTTTAATTAT
1 ATTTTATATTATATGTTAATTAT
* *
138433 TTTTTATATCATAT-TTAA
1 ATTTTATATTATATGTTAA
138451 AATCACATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.11
23 27 0.73
24 6 0.16
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTATATTATATGTTAATTAT
Found at i:138418 original size:12 final size:12
Alignment explanation
Indices: 138387--138448 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
138377 ATTTAACATA
138387 ATTTTATATT-T
1 ATTTTATATTAT
*
138398 ATGTTATATTAT
1 ATTTTATATTAT
138410 ATTTTATATTAT
1 ATTTTATATTAT
138422 ATTTTA-ATTAT
1 ATTTTATATTAT
* *
138433 TTTTTATATCAT
1 ATTTTATATTAT
138445 ATTT
1 ATTT
138449 AAAATCACAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
11 19 0.43
12 25 0.57
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (12 bp):
ATTTTATATTAT
Found at i:139707 original size:8 final size:8
Alignment explanation
Indices: 139691--139841 Score: 54
Period size: 7 Copynumber: 18.8 Consensus size: 8
139681 TCCTAATTTT
139691 TTTTA-AA
1 TTTTATAA
139698 TTTTATAA
1 TTTTATAA
139706 -TTTATATA
1 TTTTATA-A
139714 TTTATATTATA
1 TTT-TA-TA-A
139725 TTTATATAA
1 TTT-TATAA
139734 TTTTAT-A
1 TTTTATAA
* *
139741 TGTCATAA
1 TTTTATAA
139749 --TTAT-A
1 TTTTATAA
139754 -TTTATAATA
1 TTTTAT-A-A
*
139763 TTTTTTAA
1 TTTTATAA
139771 TTTTATAAA
1 TTTTAT-AA
139780 TTTTAATTAA
1 TTTT-A-TAA
*
139790 -TTAATAA
1 TTTTATAA
139797 -TTTAT-A
1 TTTTATAA
*
139803 TTATATAAA
1 TTTTAT-AA
*
139812 TTTTATTA
1 TTTTATAA
*
139820 TATTTATAT
1 T-TTTATAA
139829 TTTTAT-A
1 TTTTATAA
139836 TTTTAT
1 TTTTAT
139842 TTTATATTTT
Statistics
Matches: 113, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
5 1 0.01
6 8 0.07
7 33 0.29
8 21 0.19
9 28 0.25
10 11 0.10
11 11 0.10
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.61
Consensus pattern (8 bp):
TTTTATAA
Found at i:139727 original size:19 final size:19
Alignment explanation
Indices: 139700--139850 Score: 70
Period size: 19 Copynumber: 7.8 Consensus size: 19
139690 TTTTTAAATT
139700 TTATAATTTATATATTTATA
1 TTAT-ATTTATATATTTATA
139720 TTATATTTATATAATTTTATA
1 TTATATTTATAT-A-TTTATA
*
139741 TGTCATAATTATAT-TTATAATA
1 T-T-ATATTTATATATT-T-ATA
139763 TT-T-TTTA-AT-TTTATA
1 TTATATTTATATATTTATA
* *
139778 -AAT-TTTA-ATTAATTAATAA
1 TTATATTTATA-T-ATTTAT-A
*
139797 TTTATATTATATAAATTT-TA
1 -TTATATT-TATATATTTATA
*
139817 TTATATTTATATTTTTATA
1 TTATATTTATATATTTATA
*
139836 TTTTATTT-TATATTT
1 TTATATTTATATATTT
139851 TAATTATTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 36
0.69 0.07 0.24
Matches are distributed among these distances:
15 9 0.09
16 2 0.02
17 4 0.04
18 20 0.19
19 26 0.25
20 8 0.08
21 12 0.12
22 10 0.10
23 11 0.11
24 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TTATATTTATATATTTATA
Found at i:139751 original size:29 final size:28
Alignment explanation
Indices: 139697--139759 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
139687 TTTTTTTTAA
*
139697 ATTT-TATAATTTATATATTTATATTAT
1 ATTTATATAATTTATATATTCATATTAT
139724 ATTTATATAATTT-TATATGTCATAATTAT
1 ATTTATATAATTTATATAT-TCAT-ATTAT
139753 ATTTATA
1 ATTTATA
139760 ATATTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.28
28 11 0.34
29 12 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTATATAATTTATATATTCATATTAT
Found at i:139765 original size:29 final size:27
Alignment explanation
Indices: 139699--139766 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
139689 TTTTTTAAAT
* *
139699 TTTATAAT-TTATATATTTATATTATA
1 TTTATAATATTTTATATTCATATTATA
139725 TTTAT-ATAATTTTATATGTCATAATTATA
1 TTTATAAT-ATTTTATAT-TCAT-ATTATA
139754 TTTATAATATTTT
1 TTTATAATATTTT
139767 TTAATTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 2 0.06
26 5 0.14
27 7 0.20
28 3 0.09
29 16 0.46
30 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTATAATATTTTATATTCATATTATA
Found at i:139834 original size:14 final size:14
Alignment explanation
Indices: 139817--139875 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 14
139807 ATAAATTTTA
139817 TTATATTTATATTT
1 TTATATTTATATTT
139831 TTATATTT-TA-TT
1 TTATATTTATATTT
139843 TTATATTTTAATTATTT
1 TTATA-TTT-A-TATTT
139860 TT-TATGTTATATTT
1 TTATAT-TTATATTT
139874 TT
1 TT
139876 TTTATAGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 7 0.18
13 5 0.13
14 15 0.38
15 2 0.05
16 6 0.15
17 4 0.10
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TTATATTTATATTT
Found at i:139846 original size:12 final size:12
Alignment explanation
Indices: 139817--139881 Score: 71
Period size: 12 Copynumber: 5.4 Consensus size: 12
139807 ATAAATTTTA
139817 TTATATTTATATTT
1 TTATATTT-TA-TT
139831 TTATATTTTATT
1 TTATATTTTATT
*
139843 TTATATTTTA-A
1 TTATATTTTATT
* *
139854 TTATTTTTTATG
1 TTATATTTTATT
139866 TTATATTTT-TT
1 TTATATTTTATT
139877 TTATA
1 TTATA
139882 GTGTCATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
11 15 0.33
12 20 0.44
13 2 0.04
14 8 0.18
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (12 bp):
TTATATTTTATT
Found at i:139864 original size:18 final size:17
Alignment explanation
Indices: 139822--139881 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
139812 TTTTATTATA
139822 TTTATATTTTTATATTTTAT
1 TTTATA-TTTTA-ATTTT-T
*
139842 TTTATATTTTAATTATT
1 TTTATATTTTAATTTTT
*
139859 TTT-TATGTTATATTTTT
1 TTTATATTTTA-ATTTTT
139876 TTTATA
1 TTTATA
139882 GTGTCATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 6 0.17
17 12 0.34
18 6 0.17
19 5 0.14
20 6 0.17
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTATATTTTAATTTTT
Found at i:139876 original size:16 final size:16
Alignment explanation
Indices: 139831--139881 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
139821 ATTTATATTT
139831 TTATATTTTATTTTATA
1 TTATATTTT-TTTTATA
* *
139848 TTTTAATTATTTTTTATG
1 TTAT-ATT-TTTTTTATA
139866 TTATATTTTTTTTATA
1 TTATATTTTTTTTATA
139882 GTGTCATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 8 0.29
17 6 0.21
18 12 0.43
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTATATTTTTTTTATA
Found at i:139880 original size:23 final size:23
Alignment explanation
Indices: 139828--139881 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
139818 TATATTTATA
*
139828 TTTTTATATTTTATTTTATATTT
1 TTTTTATATTTTATGTTATATTT
** *
139851 TAATTATTTTTTATGTTATATTT
1 TTTTTATATTTTATGTTATATTT
139874 TTTTTATA
1 TTTTTATA
139882 GTGTCATTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTATATTTTATGTTATATTT
Found at i:140160 original size:2 final size:2
Alignment explanation
Indices: 140153--140180 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
140143 CTAGCAATCA
140153 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
140181 GATCACCTTG
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:140339 original size:13 final size:12
Alignment explanation
Indices: 140313--140383 Score: 65
Period size: 13 Copynumber: 5.8 Consensus size: 12
140303 ATTTATATTT
140313 AATATATATTAA
1 AATATATATTAA
140325 AATATATACTTAA
1 AATATATA-TTAA
*
140338 AATATAATTTTAA
1 AATAT-ATATTAA
*
140351 AA-ATATATGAA
1 AATATATATTAA
140362 AA-ATATCATGTAA
1 AATATAT-AT-TAA
*
140375 AATAAATAT
1 AATATATAT
140384 CATATTAGAC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 11 0.22
12 12 0.24
13 21 0.43
14 5 0.10
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (12 bp):
AATATATATTAA
Found at i:140341 original size:25 final size:24
Alignment explanation
Indices: 140313--140383 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
140303 ATTTATATTT
*
140313 AATATATATTAAAATATATACTTAA
1 AATATATATTAAAATATATA-TGAA
*
140338 AATATAATTTTAAAA-ATATATGAA
1 AATAT-ATATTAAAATATATATGAA
*
140362 AA-ATATCATGTAAAATAAATAT
1 AATATAT-AT-TAAAATATATAT
140384 CATATTAGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 2 0.05
23 3 0.08
24 10 0.26
25 15 0.39
26 8 0.21
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (24 bp):
AATATATATTAAAATATATATGAA
Found at i:142709 original size:106 final size:108
Alignment explanation
Indices: 142587--142801 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
142577 ACACAATATT
*
142587 ATTATCTGATATCTTATAATTTTGATTCTTTTCGTTT-TTATATTTATTATAATTAATAACGATA
1 ATTATCTGATATCTTATAATTTTGATTCTTTTCGTTTCTAATATTTATTATAATTAATAACGATA
*
142651 ATATTTATTTAATT-CTAATCATAATAAATATAACATGATTCA
66 ATATTTATTTAATTCCTAACCATAATAAATATAACATGATTCA
142693 ATTATCTGATATCTTATAATTTTGATTCTTTTCGTTTCTAATATTTATTATAATTAATAACGATA
1 ATTATCTGATATCTTATAATTTTGATTCTTTTCGTTTCTAATATTTATTATAATTAATAACGATA
142758 ATATTTATTTAATTCCTAACCATAATAAATATAACATGATTCA
66 ATATTTATTTAATTCCTAACCATAATAAATATAACATGATTCA
142801 A
1 A
142802 ACCACGTCCA
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
106 37 0.35
107 40 0.38
108 28 0.27
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (108 bp):
ATTATCTGATATCTTATAATTTTGATTCTTTTCGTTTCTAATATTTATTATAATTAATAACGATA
ATATTTATTTAATTCCTAACCATAATAAATATAACATGATTCA
Found at i:142777 original size:24 final size:25
Alignment explanation
Indices: 142731--142784 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
142721 TTTTCGTTTC
*
142731 TAATATTTATTATAATTAATAACGA
1 TAATATTTATTATAATTAATAACCA
**
142756 TAATATTTATT-TAATTCCTAACCA
1 TAATATTTATTATAATTAATAACCA
142780 TAATA
1 TAATA
142785 AATATAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATATTTATTATAATTAATAACCA
Found at i:147278 original size:17 final size:18
Alignment explanation
Indices: 147241--147286 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
147231 TTCATATAAA
147241 TATAA-AAA-TATTATTT
1 TATAATAAATTATTATTT
*
147257 AATAATAAATTATT-TTT
1 TATAATAAATTATTATTT
*
147274 TATAATCAATTAT
1 TATAATAAATTAT
147287 CATATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAATAAATTATTATTT
Found at i:147444 original size:32 final size:32
Alignment explanation
Indices: 147369--147446 Score: 81
Period size: 32 Copynumber: 2.4 Consensus size: 32
147359 AAAAATTTTG
*
147369 AATTATTTAAATATATTTAAATTTTAAATAATT
1 AATTAATTAAATATATTTAAA-TTTAAATAATT
* *
147402 AA-TAACTAAATATAATTATAAA-TT-AATAGTT
1 AATTAATTAAATAT-ATT-TAAATTTAAATAATT
147433 AATTAATTAAATAT
1 AATTAATTAAATAT
147447 TTAAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 8 0.21
32 21 0.55
33 5 0.13
34 4 0.11
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (32 bp):
AATTAATTAAATATATTTAAATTTAAATAATT
Found at i:147543 original size:29 final size:27
Alignment explanation
Indices: 147508--147578 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 27
147498 TATCAATGTA
*
147508 ATTTTATATTAATATTAATATTTATTAT
1 ATTTTATATTAATATTAA-ATGTATTAT
* *
147536 ATTATTATCTTATCTATTAAATGTATTAT
1 ATT-TTATATTA-ATATTAAATGTATTAT
147565 ATTTT-TATT-ATATT
1 ATTTTATATTAATATT
147579 TTTGTATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
25 4 0.11
27 3 0.08
28 5 0.14
29 18 0.50
30 6 0.17
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (27 bp):
ATTTTATATTAATATTAAATGTATTAT
Found at i:147589 original size:40 final size:38
Alignment explanation
Indices: 147520--147603 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 38
147510 TTTATATTAA
*
147520 TATTAATATTTATTATATTATTATCTTATCTATT-AAAT
1 TATTAATATTTATTATATTATTATATTATCT-TTGAAAT
* * *
147558 GTATTATATTTTTATTATATTTTTGTATTATCTTTGAAAT
1 -TATTA-ATATTTATTATATTATTATATTATCTTTGAAAT
147598 TATTAA
1 TATTAA
147604 CTTAACATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
38 1 0.03
39 12 0.31
40 26 0.67
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (38 bp):
TATTAATATTTATTATATTATTATATTATCTTTGAAAT
Found at i:147838 original size:19 final size:19
Alignment explanation
Indices: 147814--147873 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
147804 ATTTTAAACT
147814 TAATTTTGTGCCCAAATCA
1 TAATTTTGTGCCCAAATCA
*** *
147833 TAATTTT-T-TTTAAA-CT
1 TAATTTTGTGCCCAAATCA
147849 TAATTTTGTGCCCAAATCA
1 TAATTTTGTGCCCAAATCA
147868 TAATTT
1 TAATTT
147874 ATTGTATGTT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 8 0.27
17 4 0.13
18 4 0.13
19 14 0.47
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.47
Consensus pattern (19 bp):
TAATTTTGTGCCCAAATCA
Found at i:147846 original size:35 final size:35
Alignment explanation
Indices: 147805--147873 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
147795 ACTTCTTGGA
147805 TTTTAAACTTAATTTTGTGCCCAAATCATAATTTT
1 TTTTAAACTTAATTTTGTGCCCAAATCATAATTTT
147840 TTTTAAACTTAATTTTGTGCCCAAATCATAATTT
1 TTTTAAACTTAATTTTGTGCCCAAATCATAATTT
147874 ATTGTATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (35 bp):
TTTTAAACTTAATTTTGTGCCCAAATCATAATTTT
Found at i:148341 original size:2 final size:2
Alignment explanation
Indices: 148297--148321 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
148287 TATTTGTGTT
148297 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 T
148322 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:148411 original size:21 final size:21
Alignment explanation
Indices: 148370--148417 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
148360 AGTATATTTT
* *
148370 TTAAATATATTTATTTATAAA
1 TTAAATAAATTAATTTATAAA
148391 TTAAATAAATTAAGTTT-TAAA
1 TTAAATAAATTAA-TTTATAAA
*
148412 TAAAAT
1 TTAAAT
148418 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAAATAAATTAATTTATAAA
Found at i:148958 original size:17 final size:17
Alignment explanation
Indices: 148904--148982 Score: 54
Period size: 17 Copynumber: 4.6 Consensus size: 17
148894 TTATTTATTT
* *
148904 ATTTTTTAAATTTATAT
1 ATTTTTTAAATATATAA
** *
148921 ATCATTTACATA-ATAA
1 ATTTTTTAAATATATAA
* *
148937 TATTTTTTAAATATCTTA
1 -ATTTTTTAAATATATAA
148955 ATTTATTT-AATATATAA
1 ATTT-TTTAAATATATAA
*
148972 ATTTATTAAAT
1 ATTTTTTAAAT
148983 TATTTTTAAA
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
16 5 0.11
17 35 0.78
18 5 0.11
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTTTAAATATATAA
Found at i:149019 original size:13 final size:13
Alignment explanation
Indices: 148989--149025 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
148979 AAATTATTTT
148989 TAAATTAAA-ATA
1 TAAATTAAATATA
149001 TAAAATTAAATATA
1 T-AAATTAAATATA
149015 TAAA-TAAATAT
1 TAAATTAAATAT
149026 CAGATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.35
13 11 0.48
14 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATTAAATATA
Found at i:150532 original size:14 final size:15
Alignment explanation
Indices: 150503--150537 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
150493 TTATTTAATT
150503 ATTTTTTAAAACATA
1 ATTTTTTAAAACATA
*
150518 ATTTTTT-AAATATA
1 ATTTTTTAAAACATA
150532 ATTTTT
1 ATTTTT
150538 AATTACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTTAAAACATA
Found at i:150672 original size:21 final size:21
Alignment explanation
Indices: 150648--150689 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
150638 TAAAAATTAT
150648 ATAATATATAAAAATATAAAA
1 ATAATATATAAAAATATAAAA
* *
150669 ATAATATATATAATTATAAAA
1 ATAATATATAAAAATATAAAA
150690 TGGGTTAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATATATAAAAATATAAAA
Found at i:153994 original size:25 final size:26
Alignment explanation
Indices: 153965--154015 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
153955 GTTTAAATTA
153965 TTATTTAAA-TAATTAAAAAAATATT
1 TTATTTAAATTAATTAAAAAAATATT
*
153990 TTATTTAAATTTAATTATAAAAATAT
1 TTATTTAAA-TTAATTAAAAAAATAT
154016 AAAAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
27 14 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTATTTAAATTAATTAAAAAAATATT
Found at i:153997 original size:37 final size:34
Alignment explanation
Indices: 153956--154030 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 34
153946 TTTGATTCGG
*
153956 TTTAAATTATTATT-TAAATAATTAAAAAAATATTTT
1 TTTAAATT-TAATTATAAA-AA-TAAAAAAATATTTT
*
153992 ATTTAAATTTAATTATAAAAATATAAAAATATTTT
1 -TTTAAATTTAATTATAAAAATAAAAAAATATTTT
154027 TTTA
1 TTTA
154031 TTATTTTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 4 0.11
35 13 0.37
36 6 0.17
37 12 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TTTAAATTTAATTATAAAAATAAAAAAATATTTT
Found at i:155521 original size:2 final size:2
Alignment explanation
Indices: 155514--155547 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
155504 AGATGCGTAC
155514 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
155548 GATTATTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:164129 original size:16 final size:17
Alignment explanation
Indices: 164101--164133 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
164091 AATTTTTTAA
164101 GTCTCTGATTTGGTTCC
1 GTCTCTGATTTGGTTCC
164118 GTCTCTGA-TTGGTTCC
1 GTCTCTGATTTGGTTCC
164134 ATCAAGTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.24, G:0.24, T:0.45
Consensus pattern (17 bp):
GTCTCTGATTTGGTTCC
Found at i:168202 original size:32 final size:32
Alignment explanation
Indices: 168152--168240 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 32
168142 TTTTTATATT
168152 AATATT-TATAATTAAATTTAAATAAA-AA-TA
1 AATATTATATAATT-AATTTAAATAAACAAGTA
168182 ATATATTATATAAATTAATTTAAATAAACAAGTTA
1 A-ATATTATAT-AATTAATTTAAATAAACAAG-TA
*
168217 AATTATTATATAATTTATTTAAAT
1 AA-TATTATATAATTAATTTAAAT
168241 TTAATTTAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
30 1 0.02
31 5 0.10
32 15 0.29
33 6 0.12
34 13 0.25
35 11 0.22
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (32 bp):
AATATTATATAATTAATTTAAATAAACAAGTA
Found at i:168719 original size:18 final size:18
Alignment explanation
Indices: 168692--168727 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
168682 ATACACCATT
168692 TAAAAATTAAATA-AAAA
1 TAAAAATTAAATATAAAA
168709 TAAAAACTTAAATATAAAA
1 TAAAAA-TTAAATATAAAA
168728 AATCTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAATTAAATATAAAA
Found at i:168968 original size:14 final size:13
Alignment explanation
Indices: 168945--168993 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
168935 ATATTATTTT
168945 AAAATAAAATTAA
1 AAAATAAAATTAA
168958 AAAATTAAAATTAA
1 AAAA-TAAAATTAA
** *
168972 AATCTAAATTTAA
1 AAAATAAAATTAA
*
168985 AATATAAAA
1 AAAATAAAA
168994 GACAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATAAAATTAA
Found at i:168979 original size:7 final size:6
Alignment explanation
Indices: 168943--168993 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
168933 ATATATTATT
*
168943 TTAAAA -TAAAA TTAAAAAA TTAAAA TTAAAA TCTAAAT TTAAAA TATAAAA
1 TTAAAA TTAAAA TT--AAAA TTAAAA TTAAAA T-TAAAA TTAAAA T-TAAAA
168994 GACAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 5 0.13
6 17 0.45
7 10 0.26
8 6 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (6 bp):
TTAAAA
Found at i:170269 original size:12 final size:12
Alignment explanation
Indices: 170248--170289 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
170238 AAAATTTATT
170248 AAAATAAAATATA
1 AAAAT-AAATATA
170261 AAAATAAATAT-
1 AAAATAAATATA
* *
170272 AACATAAACATA
1 AAAATAAATATA
170284 AAAATA
1 AAAATA
170290 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 9 0.36
12 11 0.44
13 5 0.20
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAATATA
Found at i:170373 original size:23 final size:23
Alignment explanation
Indices: 170329--170373 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
170319 TATAATATTT
*
170329 TAAATAATAAAAATTATGAATAA
1 TAAATAATAAAAATTATAAATAA
170352 TAAATAATAAATAA-TATAAATA
1 TAAATAATAAA-AATTATAAATA
170374 TGTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
TAAATAATAAAAATTATAAATAA
Found at i:171009 original size:2 final size:2
Alignment explanation
Indices: 171002--171054 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
170992 CTCCTTTTGC
171002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
171044 AT AT AT AT AT A
1 AT AT AT AT AT A
171055 AATCTATATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:171497 original size:3 final size:3
Alignment explanation
Indices: 171485--171557 Score: 60
Period size: 3 Copynumber: 22.7 Consensus size: 3
171475 AGATAGATAG
171485 ATA ATAA ATA ATA ATA ATA A-A TATA A-A TATAA ATAA ATA GATA ATAA
1 ATA AT-A ATA ATA ATA ATA ATA -ATA ATA -AT-A AT-A ATA -ATA AT-A
*
171532 AGA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
171558 TTTTTTGACT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
2 2 0.03
3 42 0.70
4 15 0.25
5 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:171525 original size:40 final size:40
Alignment explanation
Indices: 171467--171544 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
171457 TATATACACG
* * * *
171467 ATAAGTATAGATAGATAGATAATAAATAATAATAATAAAT
1 ATAAATATAAATAAATAGATAATAAAGAATAATAATAAAT
171507 ATAAATATAAATAAATAGATAATAAAGAATAATAATAA
1 ATAAATATAAATAAATAGATAATAAAGAATAATAATAA
171545 TAATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (40 bp):
ATAAATATAAATAAATAGATAATAAAGAATAATAATAAAT
Found at i:171830 original size:24 final size:22
Alignment explanation
Indices: 171803--171861 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 22
171793 TATTATATTT
171803 AAAATTAAAATAATTATTTGATAA
1 AAAATTAAAATAATTATTT--TAA
171827 AAAATTATGAAAATAATTATTTTAA
1 AAAA-T-T-AAAATAATTATTTTAA
*
171852 AAATTTAAAA
1 AAAATTAAAA
171862 AATAATATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
22 4 0.13
23 1 0.03
24 5 0.16
25 7 0.23
26 1 0.03
27 13 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (22 bp):
AAAATTAAAATAATTATTTTAA
Found at i:171863 original size:24 final size:26
Alignment explanation
Indices: 171809--171867 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
171799 ATTTAAAATT
*
171809 AAAATAATTATTTGATAAAAAATTATG
1 AAAATAATTATTT-ATAAAAAATTATA
*
171836 AAAATAATTATTT-TAAAAATTTA-A
1 AAAATAATTATTTATAAAAAATTATA
171860 AAAATAAT
1 AAAATAAT
171868 ATCAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 8 0.27
25 9 0.30
27 13 0.43
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
AAAATAATTATTTATAAAAAATTATA
Found at i:172914 original size:11 final size:11
Alignment explanation
Indices: 172898--172956 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
172888 CGATGAATTA
172898 AAATATAATAT
1 AAATATAATAT
172909 AAATATAATAT
1 AAATATAATAT
*
172920 ATAAAATTAAT-T
1 A-AATA-TAATAT
*
172932 AAAATATAATAA
1 -AAATATAATAT
172944 AAATATAACTAT
1 AAATATAA-TAT
172956 A
1 A
172957 TAAAAATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 24 0.62
12 10 0.26
13 5 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATAATAT
Found at i:172922 original size:35 final size:35
Alignment explanation
Indices: 172876--172961 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 35
172866 ATGATAAACT
* ** *
172876 ATATAAAATATACGATGAATTAAAATATAATATAA
1 ATATAATATATAAAATGAATTAAAATATAATAAAA
*
172911 ATATAATATATAAAATTAATTAAAATATAATAAAA
1 ATATAATATATAAAATGAATTAAAATATAATAAAA
172946 ATATAACTATATAAAA
1 ATATAA-TATATAAAA
172962 ATATCAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 36 0.80
36 9 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (35 bp):
ATATAATATATAAAATGAATTAAAATATAATAAAA
Found at i:172936 original size:24 final size:25
Alignment explanation
Indices: 172896--172942 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
172886 TACGATGAAT
172896 TAAAATATAATATAAATATAATATA
1 TAAAATATAATATAAATATAATATA
172921 TAAAAT-TAAT-TAAAATATAATA
1 TAAAATATAATAT-AAATATAATA
172943 AAAATATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 14 0.67
25 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAAATATAATATAAATATAATATA
Found at i:172940 original size:17 final size:17
Alignment explanation
Indices: 172852--172940 Score: 63
Period size: 17 Copynumber: 5.2 Consensus size: 17
172842 AATTATTATC
* *
172852 TAAATTAAATTATAATGA
1 TAAAATAAATTAAAAT-A
* *
172870 TAAACTATA-TAAAATA
1 TAAAATAAATTAAAATA
** *
172886 TACGATGAATTAAAATA
1 TAAAATAAATTAAAATA
* *
172903 TAATATAAATATAATATA
1 TAAAATAAAT-TAAAATA
*
172921 TAAAATTAATTAAAATA
1 TAAAATAAATTAAAATA
172938 TAA
1 TAA
172941 TAAAAATATA
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
16 5 0.09
17 28 0.52
18 21 0.39
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (17 bp):
TAAAATAAATTAAAATA
Found at i:172957 original size:19 final size:18
Alignment explanation
Indices: 172900--172959 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
172890 ATGAATTAAA
*
172900 ATATAATATAAATATAAT
1 ATATAATAAAAATATAAT
* *
172918 ATATAA-AATTAAT-TAAA
1 ATATAATAA-AAATATAAT
172935 ATATAATAAAAATATAACT
1 ATATAATAAAAATATAA-T
172954 ATATAA
1 ATATAA
172960 AAATATCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
17 13 0.39
18 14 0.42
19 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATAATAAAAATATAAT
Found at i:172965 original size:8 final size:8
Alignment explanation
Indices: 172909--172991 Score: 60
Period size: 8 Copynumber: 9.9 Consensus size: 8
172899 AATATAATAT
172909 AAATAT-A
1 AAATATAA
*
172916 ATATATAA
1 AAATATAA
*
172924 AATTAATTAA
1 AAAT-A-TAA
172934 AATATAATAA
1 AA-AT-ATAA
172944 AAATATAA
1 AAATATAA
**
172952 CTATATAA
1 AAATATAA
172960 AAATATCAA
1 AAATAT-AA
*
172969 AAATATTA
1 AAATATAA
*
172977 AAATATCA
1 AAATATAA
172985 AAATATA
1 AAATATA
172992 TATAAATGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
7 5 0.08
8 31 0.52
9 11 0.18
10 10 0.17
11 3 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (8 bp):
AAATATAA
Found at i:172974 original size:17 final size:17
Alignment explanation
Indices: 172940--172998 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
172930 TTAAAATATA
**
172940 ATAAAAATAT-AACTAT
1 ATAAAAATATCAAAAAT
172956 ATAAAAATATCAAAAAT
1 ATAAAAATATCAAAAAT
*
172973 ATTAAAATATCAAAATAT
1 ATAAAAATATCAAAA-AT
*
172991 ATATAAAT
1 ATAAAAAT
172999 GATAATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
16 10 0.28
17 18 0.50
18 8 0.22
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAATATCAAAAAT
Found at i:173896 original size:14 final size:15
Alignment explanation
Indices: 173879--173910 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
173869 ATAAATAATA
173879 ATTATTATTAT-ATT
1 ATTATTATTATCATT
173893 ATTATTATTATCATT
1 ATTATTATTATCATT
173908 ATT
1 ATT
173911 TAAAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTATTATCATT
Found at i:174112 original size:29 final size:26
Alignment explanation
Indices: 174039--174123 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 26
174029 AATTAACTCT
**
174039 TTATTTAAAATAATAATAAAAATTAAAAA
1 TTATTT-AAATAATAATTTAAATT--AAA
*
174068 TTATTTTTATATTAAT-ATTTATAATTAAA
1 TTA--TTTA-AATAATAATTTA-AATTAAA
174097 TTATTTAAATAATAATTTAAATTAAA
1 TTATTTAAATAATAATTTAAATTAAA
174123 T
1 T
174124 AAATAATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
26 13 0.28
27 9 0.19
29 9 0.19
30 4 0.09
31 12 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTATTTAAATAATAATTTAAATTAAA
Found at i:174116 original size:21 final size:21
Alignment explanation
Indices: 174088--174146 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
174078 ATTAATATTT
*
174088 ATAA-TTAAATTATTTAAATA
1 ATAATTTAAATTATATAAATA
*
174108 ATAATTTAAATTAAATAAATA
1 ATAATTTAAATTATATAAATA
174129 AT--TTTAAATTATA-AAATA
1 ATAATTTAAATTATATAAATA
174147 CATTGCTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.14
19 10 0.29
20 4 0.11
21 16 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAATTTAAATTATATAAATA
Found at i:174130 original size:18 final size:18
Alignment explanation
Indices: 174101--174139 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
174091 ATTAAATTAT
174101 TTAAATAATAA-TTTAAA
1 TTAAATAATAATTTTAAA
174118 TTAAATAAATAATTTTAAA
1 TTAAAT-AATAATTTTAAA
174137 TTA
1 TTA
174140 TAAAATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATAATAATTTTAAA
Found at i:175497 original size:21 final size:22
Alignment explanation
Indices: 175468--175515 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
175458 AAGCATATTG
175468 ATAATGGTTATAAAGATAT-AAA
1 ATAATGGTTA-AAAGATATGAAA
*
175490 ATAA-GGTTAAAATATATGAAA
1 ATAATGGTTAAAAGATATGAAA
175511 A-AATG
1 ATAATG
175516 ATGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 10 0.43
22 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (22 bp):
ATAATGGTTAAAAGATATGAAA
Found at i:175856 original size:13 final size:12
Alignment explanation
Indices: 175832--175930 Score: 56
Period size: 11 Copynumber: 9.0 Consensus size: 12
175822 GAATTATTTC
175832 TATAT-TTATAT
1 TATATATTATAT
175843 TATAT-TTATA-
1 TATATATTATAT
*
175853 TATTTTATTATAT
1 TA-TATATTATAT
*
175866 TATAAATT-T-T
1 TATATATTATAT
* *
175876 T-TAAAATATAT
1 TATATATTATAT
*
175887 T-TATATCATAT
1 TATATATTATAT
175898 TATAT-TT-TAT
1 TATATATTATAT
* *
175908 TTTA-ATTATCT
1 TATATATTATAT
175919 TATATATTATAT
1 TATATATTATAT
175931 ATTTATATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
9 5 0.07
10 13 0.19
11 29 0.43
12 18 0.27
13 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATATTATAT
Found at i:176535 original size:41 final size:40
Alignment explanation
Indices: 176458--176546 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 40
176448 AAATAATATG
*
176458 AAATATAATT-ATATGAATATCATAT-ATA--AAATTATTA
1 AAATATAATTAATATAAATAT-ATATAATATTAAATTATTA
176495 AAATATAATATAATATAAATATATATAATATTAAATTATTA
1 AAATATAAT-TAATATAAATATATATAATATTAAATTATTA
*
176536 ATATATTAATT
1 AAATA-TAATT
176547 TTTATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
37 9 0.20
38 5 0.11
39 12 0.27
41 14 0.32
42 4 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (40 bp):
AAATATAATTAATATAAATATATATAATATTAAATTATTA
Found at i:176555 original size:16 final size:16
Alignment explanation
Indices: 176516--176565 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
176506 AATATAAATA
*
176516 TATATAATATTAAATTAT
1 TATAT-ATATT-AATTTT
176534 TA-ATATATTAATTTT
1 TATATATATTAATTTT
*
176549 TATATATAAT-ATTTT
1 TATATATATTAATTTT
176564 TA
1 TA
176566 AAATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 14 0.48
16 11 0.38
17 2 0.07
18 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATATATTAATTTT
Found at i:176582 original size:8 final size:9
Alignment explanation
Indices: 176565--176602 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
176555 TAATATTTTT
176565 AAAATAATA
1 AAAATAATA
176574 AAAAT-ATA
1 AAAATAATA
176582 AAAATAATA
1 AAAATAATA
*
176591 TAAATATATA
1 AAAATA-ATA
176601 AA
1 AA
176603 TTATCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 8 0.32
9 13 0.52
10 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAATAATA
Found at i:176585 original size:17 final size:17
Alignment explanation
Indices: 176565--176603 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
176555 TAATATTTTT
176565 AAAATAATAAAAATATA
1 AAAATAATAAAAATATA
*
176582 AAAATAATATAAATATA
1 AAAATAATAAAAATATA
*
176599 TAAAT
1 AAAAT
176604 TATCAAATTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATAATAAAAATATA
Found at i:176603 original size:8 final size:8
Alignment explanation
Indices: 176479--176603 Score: 55
Period size: 8 Copynumber: 15.2 Consensus size: 8
176469 TATGAATATC
176479 ATATATAA
1 ATATATAA
176487 A-ATTATTAA
1 ATA-TA-TAA
176496 A-ATATAA
1 ATATATAA
176503 TATAATATAA
1 -AT-ATATAA
176513 ATATATATA
1 ATATATA-A
176522 ATAT-TAA
1 ATATATAA
*
176529 AT-TATTA
1 ATATATAA
*
176536 ATATATTA
1 ATATATAA
**
176544 AT-T-TTT
1 ATATATAA
176550 ATATATAA
1 ATATATAA
* *
176558 TATTTTTAAA
1 -ATATAT-AA
*
176568 ATAATAAAA
1 AT-ATATAA
*
176577 ATATAAAA
1 ATATATAA
176585 ATAATATAA
1 AT-ATATAA
176594 ATATATAA
1 ATATATAA
176602 AT
1 AT
176604 TATCAAATTT
Statistics
Matches: 93, Mismatches: 10, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
6 5 0.05
7 13 0.14
8 37 0.40
9 29 0.31
10 9 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATATAA
Found at i:177463 original size:4 final size:4
Alignment explanation
Indices: 177432--177492 Score: 59
Period size: 4 Copynumber: 14.5 Consensus size: 4
177422 TGGGTGAATT
* * * *
177432 AATA AATA ATTA AATA ATATA TAATA AATAA AATA AATA AAGA AAGA AAAA
1 AATA AATA AATA AATA A-ATA -AATA AAT-A AATA AATA AATA AATA AATA
177483 AATA AATA AA
1 AATA AATA AA
177493 AAGTAGTGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
4 38 0.78
5 10 0.20
6 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:177881 original size:5 final size:5
Alignment explanation
Indices: 177871--177944 Score: 52
Period size: 5 Copynumber: 15.8 Consensus size: 5
177861 AAAATATATA
* * *
177871 ATAAT ATAAT A-AAT ATGAT ATAAT -T-TT TTAAT ATAAT -TAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* *
177917 AT-GT ATTAT ATTAAT ATAAT A-AAT ATAA
1 ATAAT ATAAT A-TAAT ATAAT ATAAT ATAA
177945 AATTTTAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
3 1 0.02
4 17 0.31
5 32 0.59
6 4 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (5 bp):
ATAAT
Found at i:177903 original size:27 final size:29
Alignment explanation
Indices: 177867--177944 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 29
177857 TTAAAAAATA
* *
177867 TATAATAATATAATAAATATGATAT-AAT
1 TATATTAATATAATAAATATAATATGAAT
* * *
177895 T-TTTTAATATAATTAATATAATATGTAT
1 TATATTAATATAATAAATATAATATGAAT
177923 TATATTAATATAATAAATATAA
1 TATATTAATATAATAAATATAA
177945 AATTTTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 19 0.46
28 4 0.10
29 18 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
TATATTAATATAATAAATATAATATGAAT
Found at i:180061 original size:24 final size:22
Alignment explanation
Indices: 180020--180069 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
180010 TCAATATGTA
* * *
180020 ATTTAAATTATTTTAATTTTTTT
1 ATTTAAAATATTTGAA-TTGTTT
180043 ATTTAATAATATTTGAATTGTTT
1 ATTTAA-AATATTTGAATTGTTT
180066 ATTT
1 ATTT
180070 GATGGTGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
ATTTAAAATATTTGAATTGTTT
Found at i:181863 original size:22 final size:22
Alignment explanation
Indices: 181830--181882 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
181820 ATGTTACTTT
* *
181830 AAAAAT-ATAATAATTATAATA
1 AAAAATAAAAATAATTATAAGA
* *
181851 TAAAATAAAAATAATTTTAAGA
1 AAAAATAAAAATAATTATAAGA
181873 AAAAATAAAA
1 AAAAATAAAA
181883 TTTACATATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAATAAAAATAATTATAAGA
Found at i:182332 original size:29 final size:30
Alignment explanation
Indices: 182272--182331 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
182262 ATTTTAATTG
*
182272 AATTAGCTTAAAATTAATTTAAATAATAAA
1 AATTAGCTTAAAATTAATTTAAAAAATAAA
182302 AATTA-CTTAAAAATT-A-TTAAAAAATAAA
1 AATTAGCTT-AAAATTAATTTAAAAAATAAA
182330 AA
1 AA
182332 AATTGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 13 0.46
29 4 0.14
30 11 0.39
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (30 bp):
AATTAGCTTAAAATTAATTTAAAAAATAAA
Found at i:186578 original size:30 final size:31
Alignment explanation
Indices: 186542--186606 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
186532 AATAACTATA
186542 TAATTT-AAA-TACTAAGAAAGTAAATAAAA-C
1 TAATTTAAAACTACTAA-AAA-TAAATAAAATC
186572 TAATTTAAAAACTACTAAAAATAAATAAAATC
1 TAATTT-AAAACTACTAAAAATAAATAAAATC
186604 TAA
1 TAA
186607 ATAAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
30 6 0.19
31 9 0.29
32 10 0.32
33 6 0.19
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (31 bp):
TAATTTAAAACTACTAAAAATAAATAAAATC
Found at i:196280 original size:2 final size:2
Alignment explanation
Indices: 196273--196310 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
196263 ATTCTTTGGC
*
196273 CT CT CT CT CT CT CT CT CT CT CT CT CA CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
196311 GGGATATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:196599 original size:29 final size:29
Alignment explanation
Indices: 196545--196604 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
196535 AACACATAAT
* *
196545 TTTTTTTTTCTCTTTAGTTTTTTCTTTTC
1 TTTTTTTTTCTCTTTACTTTTCTCTTTTC
*
196574 TTTTTTTTTCT-TTTCCTTTTGCTCTTTTC
1 TTTTTTTTTCTCTTTACTTTT-CTCTTTTC
196603 TT
1 TT
196605 CCCCTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (29 bp):
TTTTTTTTTCTCTTTACTTTTCTCTTTTC
Found at i:196829 original size:5 final size:5
Alignment explanation
Indices: 196805--196888 Score: 61
Period size: 5 Copynumber: 16.6 Consensus size: 5
196795 CATGACACAA
*
196805 TTTT- TTTTCC TTTATC TTTTC -TTT- TTTTC TTCCTTC TTTTC TTGGTC
1 TTTTC TTTT-C TTT-TC TTTTC TTTTC TTTTC TT--TTC TTTTC TT-TTC
*
196852 TTCTT- TTTTC TTTTC TTTTC TTTTC TGTTC -TTTC TTT
1 TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
196889 CCTCATTCAC
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
4 15 0.23
5 32 0.49
6 12 0.18
7 6 0.09
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:196868 original size:15 final size:15
Alignment explanation
Indices: 196807--196888 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 15
196797 TGACACAATT
196807 TTTTTTCCTTTATCTT-
1 TTTTTT-CTTT-TCTTC
*
196823 TTCTTT-TTTTCTTCC
1 TTTTTTCTTTTCTT-C
*
196838 TTCTTTTCTTGGTCTTC
1 TT-TTTTCTT-TTCTTC
196855 TTTTTTCTTTTCTT-
1 TTTTTTCTTTTCTTC
*
196869 TTCTTTTCTGTTCTTTC
1 TT-TTTTCTTTTC-TTC
196886 TTT
1 TTT
196889 CCTCATTCAC
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
13 4 0.08
14 5 0.09
15 15 0.28
16 18 0.34
17 7 0.13
18 4 0.08
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTTTTCTTTTCTTC
Found at i:200336 original size:27 final size:27
Alignment explanation
Indices: 200304--200380 Score: 145
Period size: 27 Copynumber: 2.9 Consensus size: 27
200294 AAAACAAGTT
*
200304 TGAATAGCTAAAAAATAGAAAAAAATA
1 TGAATAGCTAAAACATAGAAAAAAATA
200331 TGAATAGCTAAAACATAGAAAAAAATA
1 TGAATAGCTAAAACATAGAAAAAAATA
200358 TGAATAGCTAAAACATAGAAAAA
1 TGAATAGCTAAAACATAGAAAAA
200381 CAAATTTTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (27 bp):
TGAATAGCTAAAACATAGAAAAAAATA
Found at i:200707 original size:31 final size:29
Alignment explanation
Indices: 200665--200730 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 29
200655 AATTACTATA
* *
200665 AATAATTTAATTTATTAATAATAAAAAATTT
1 AATAATATAATTTAATAA-AAT-AAAAATTT
*
200696 AATAATATAATTTAATAAAATTAAAATTT
1 AATAATATAATTTAATAAAATAAAAATTT
*
200725 TATAAT
1 AATAAT
200731 TTATATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 12 0.39
30 3 0.10
31 16 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AATAATATAATTTAATAAAATAAAAATTT
Found at i:201686 original size:4 final size:4
Alignment explanation
Indices: 201669--201705 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
201659 AATATAATGT
*
201669 TTTA TTTA TGTA TTTA TTTA TTTA -TT- TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
201706 GCATATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 4 0.14
4 25 0.86
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:202504 original size:16 final size:16
Alignment explanation
Indices: 202483--202535 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
202473 GTTTGAATTT
* *
202483 GAAAAGATTCAAACCC
1 GAAAAGATTTAAACTC
*
202499 GAAAAGATTTGAACTC
1 GAAAAGATTTAAACTC
*
202515 GAAACGATTTAAACTC
1 GAAAAGATTTAAACTC
202531 GAAAA
1 GAAAA
202536 AAATTCGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (16 bp):
GAAAAGATTTAAACTC
Found at i:202510 original size:32 final size:32
Alignment explanation
Indices: 202474--202535 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
202464 ATAACTCAAG
* *
202474 TTTGAATTTGAAAAGATTCAAACCCGAAAAGA
1 TTTGAACTCGAAAAGATTCAAACCCGAAAAGA
* * *
202506 TTTGAACTCGAAACGATTTAAACTCGAAAA
1 TTTGAACTCGAAAAGATTCAAACCCGAAAA
202536 AAATTCGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (32 bp):
TTTGAACTCGAAAAGATTCAAACCCGAAAAGA
Found at i:202799 original size:25 final size:22
Alignment explanation
Indices: 202771--202816 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
202761 ATAATCTCAT
202771 ATATTTGAATTTGATATTTGTTTAC
1 ATATTT-AATTT-ATATTT-TTTAC
202796 ATATTTAATTTATATTTTTTA
1 ATATTTAATTTATATTTTTTA
202817 TTTTTTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 6 0.29
24 5 0.24
25 6 0.29
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (22 bp):
ATATTTAATTTATATTTTTTAC
Found at i:203174 original size:24 final size:24
Alignment explanation
Indices: 203147--203210 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
203137 ACTGTGAAAT
*
203147 TAATTTTGATAAAATTAAAAATAA
1 TAATTATGATAAAATTAAAAATAA
* * * *
203171 TAATTATGATGAGATTAAATATTA
1 TAATTATGATAAAATTAAAAATAA
203195 TAA-TA--ATAAAATTAAA
1 TAATTATGATAAAATTAAA
203211 TATTAAAGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 9 0.27
23 2 0.06
24 22 0.67
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (24 bp):
TAATTATGATAAAATTAAAAATAA
Found at i:203224 original size:21 final size:22
Alignment explanation
Indices: 203184--203238 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
203174 TTATGATGAG
203184 ATTAAATATTATAA-TAATAA-A
1 ATTAAATATTA-AAGTAATAAGA
*
203205 ATTAAATATTAAAGTGATAAGA
1 ATTAAATATTAAAGTAATAAGA
203227 A-TAAA-ATTAAAG
1 ATTAAATATTAAAG
203239 ATGAGATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 9 0.29
21 20 0.65
22 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
ATTAAATATTAAAGTAATAAGA
Found at i:203435 original size:22 final size:20
Alignment explanation
Indices: 203384--203440 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
203374 TATATTTATG
*
203384 TATTTTAAATAAT-AATAAT
1 TATTTAAAATAATAAATAAT
*
203403 TATTAATAAATATATAAATAAT
1 TATTTA-AAATA-ATAAATAAT
203425 TCATTTAAAATAATAA
1 T-ATTTAAAATAATAA
203441 CTATATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
21 6 0.19
22 12 0.39
23 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TATTTAAAATAATAAATAAT
Found at i:203468 original size:29 final size:28
Alignment explanation
Indices: 203389--203469 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
203379 TTATGTATTT
*
203389 TAAATAATAATAATTATT-AATAAATATA
1 TAAATAATAA-ATTTATTAAATAAATATA
** ** *
203417 TAAATAATTCATTTAAAATAATAACTATA
1 TAAATAATAAATTTATTA-AATAAATATA
203446 TAAATAATAAATTTATTTAAATAA
1 TAAATAATAAATTTA-TTAAATAA
203470 TTTTAAATAA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
27 4 0.10
28 8 0.20
29 27 0.68
30 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
TAAATAATAAATTTATTAAATAAATATA
Found at i:203478 original size:42 final size:39
Alignment explanation
Indices: 203385--203486 Score: 98
Period size: 42 Copynumber: 2.5 Consensus size: 39
203375 ATATTTATGT
* *
203385 ATTTTAAATAATAA-TAATTATTAATAAATATATAAATA
1 ATTTTAAATAATAACTAATAAATAATAAATATATAAATA
*
203423 ATTCATTTAAAATAATAACTATATAAATAATAAATTTATTTAAATA
1 A-T--TTT-AAATAATAACTA-ATAAATAATAAA--TATATAAATA
*
203469 ATTTTAAATAAAAACTAA
1 ATTTTAAATAATAACTAA
203487 AATTAAGACT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
38 1 0.02
39 1 0.02
41 4 0.08
42 20 0.38
43 5 0.10
44 10 0.19
45 1 0.02
46 10 0.19
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (39 bp):
ATTTTAAATAATAACTAATAAATAATAAATATATAAATA
Found at i:203781 original size:13 final size:13
Alignment explanation
Indices: 203763--203787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
203753 ACATAACATA
203763 ATTATATATAAAT
1 ATTATATATAAAT
203776 ATTATATATAAA
1 ATTATATATAAA
203788 ATATAACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTATATATAAAT
Found at i:203803 original size:28 final size:30
Alignment explanation
Indices: 203772--203837 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 30
203762 AATTATATAT
203772 AAATATTATATATAAAATAT-AACATA-AA
1 AAATATTATATATAAAATATAAACATACAA
* ** *
203800 AAATAATATATATACGATATAAATATACAA
1 AAATATTATATATAAAATATAAACATACAA
203830 AAATATTA
1 AAATATTA
203838 AAATTTATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 17 0.55
29 5 0.16
30 9 0.29
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (30 bp):
AAATATTATATATAAAATATAAACATACAA
Found at i:205407 original size:3 final size:3
Alignment explanation
Indices: 205399--205430 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
205389 TAATGAATCC
*
205399 TCT TCT TCT TCT TCT TCT TCT TCC TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
205431 AGCATTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:213224 original size:21 final size:22
Alignment explanation
Indices: 213189--213229 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
213179 AAATCTAATT
213189 TATTATTTATTAATTATTAAAA
1 TATTATTTATTAATTATTAAAA
*
213211 TATTATTT-TTAATTTTTAA
1 TATTATTTATTAATTATTAA
213230 TTATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATTTATTAATTATTAAAA
Found at i:213238 original size:28 final size:30
Alignment explanation
Indices: 213176--213253 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 30
213166 TTTTTCTCAT
* *
213176 TTAAAATCTAATTTATT-ATTTATTAATTA
1 TTAAAATATTATTTATTAATTTATTAATTA
213205 TTAAAATATTATTT-TTAATTT-TTAATTA
1 TTAAAATATTATTTATTAATTTATTAATTA
*
213233 TTAAAAAATTATTTATTAATT
1 TTAAAATATTATTTATTAATT
213254 ATAAAAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 22 0.50
29 22 0.50
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (30 bp):
TTAAAATATTATTTATTAATTTATTAATTA
Found at i:213539 original size:6 final size:6
Alignment explanation
Indices: 213520--213561 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
213510 GAGTTACATG
* *
213520 TATACA TATTCA TATACA TATACA AATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA
213562 CATTTAAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:214382 original size:2 final size:2
Alignment explanation
Indices: 214375--214410 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
214365 TACATGTTAT
214375 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
214411 ACAATAATTA
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):
TA
Found at i:217132 original size:22 final size:20
Alignment explanation
Indices: 217107--217150 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
217097 AATCGTGATT
*
217107 TTAAAATATTTAAAATAATATA
1 TTAAAATATGTAAAA-AAT-TA
217129 TTAAAATATGTAAAAAATTA
1 TTAAAATATGTAAAAAATTA
217149 TT
1 TT
217151 TTATATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TTAAAATATGTAAAAAATTA
Found at i:221518 original size:2 final size:2
Alignment explanation
Indices: 221511--221556 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
221501 TAATTGTATG
*
221511 TA TA TA TA TA TA TA TA TA AA 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
221553 TA TA
1 TA TA
221557 AAGGCACTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.