Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold44
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: 3265628
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 491382 characters in sequence are not A, C, G, or T
File 2 of 17
Found at i:152075 original size:21 final size:20
Alignment explanation
Indices: 152049--152101 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
152039 TTCTACAATT
152049 TGTATCGATACAAATAGTGAA
1 TGTATCGATACAAA-AGTGAA
*
152070 TGTATCGATACATAAGTGAA
1 TGTATCGATACAAAAGTGAA
*
152090 TGTATCAATACA
1 TGTATCGATACA
152102 TGTCTGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAAGTGAA
Found at i:152089 original size:20 final size:21
Alignment explanation
Indices: 152049--152120 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
152039 TTCTACAATT
*
152049 TGTATCGATACAAATAGTGAA
1 TGTATCGATACATATAGTGAA
152070 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTGAA
* * *
152090 TGTATCAATACATGT-CTGAAA
1 TGTATCGATACATATAGTG-AA
152111 TGTATCGATA
1 TGTATCGATA
152121 TAGGACCATG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
20 20 0.45
21 24 0.55
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATATAGTGAA
Found at i:152266 original size:52 final size:52
Alignment explanation
Indices: 152159--152299 Score: 169
Period size: 52 Copynumber: 2.8 Consensus size: 52
152149 TTTCAAAAGA
* * * * *
152159 AAATGTATTGATACATTTTTCATTG-ATCGATACATT-TTAGGTTTTAACTC
1 AAATGTATTAATACATTTTTCATTGTATTGATACATTCTAAAGTTTTAACCC
* * *
152209 AAATGTATCAATACATTTTTTATTGTATTGATACATTCTAAATTTTTAACCC
1 AAATGTATTAATACATTTTTCATTGTATTGATACATTCTAAAGTTTTAACCC
* * *
152261 AAATGTATTAATACATTCTTCAATGTATTAATACATTCT
1 AAATGTATTAATACATTTTTCATTGTATTGATACATTCT
152300 TCAATGTATC
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 22 0.29
51 10 0.13
52 44 0.58
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (52 bp):
AAATGTATTAATACATTTTTCATTGTATTGATACATTCTAAAGTTTTAACCC
Found at i:152287 original size:20 final size:20
Alignment explanation
Indices: 152262--152308 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
152252 TTTTAACCCA
152262 AATGTATTAATACATTCTTC
1 AATGTATTAATACATTCTTC
152282 AATGTATTAATACATTCTTC
1 AATGTATTAATACATTCTTC
152302 AATGTAT
1 AATGTAT
152309 CGATACATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (20 bp):
AATGTATTAATACATTCTTC
Found at i:152314 original size:20 final size:20
Alignment explanation
Indices: 152262--152316 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
152252 TTTTAACCCA
*
152262 AATGTATTAATACATTCTTC
1 AATGTATCAATACATTCTTC
*
152282 AATGTATTAATACATTCTTC
1 AATGTATCAATACATTCTTC
*
152302 AATGTATCGATACAT
1 AATGTATCAATACAT
152317 GCAGGCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (20 bp):
AATGTATCAATACATTCTTC
Found at i:153146 original size:11 final size:11
Alignment explanation
Indices: 153130--153158 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
153120 TAGCCTAGGA
153130 TCTTGATGCTT
1 TCTTGATGCTT
153141 TCTTGATGCTT
1 TCTTGATGCTT
153152 TCTTGAT
1 TCTTGAT
153159 TTTCATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.17, G:0.17, T:0.55
Consensus pattern (11 bp):
TCTTGATGCTT
Found at i:154786 original size:79 final size:79
Alignment explanation
Indices: 154635--155087 Score: 450
Period size: 79 Copynumber: 5.7 Consensus size: 79
154625 TTAAAAAAAT
* * *
154635 TTTTTCACCA-CTGGAGATACTCCAACCCCATCATTTCTAAAGGGGATAC-CCTAACCCCGTTTT
1 TTTTTCACCATC-GGGGATACTCCAACCCCATCATTTCTGAA-GGGATACTCC-AACCCCATTTT
154698 TATTTCCAAATTATCAA
63 TATTTCCAAATTATCAA
* * * *
154715 TTTTTCACCATCGGGGATATTCCAACCCCATCATTTTTGAAGAGATACTCCAACCCCGTTTTTAT
1 TTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTAT
* *
154780 TTCCAAAATATTAA
66 TTCCAAATTATCAA
*** * * * * *
154794 TTTTTCACCATTACGGATACTCCAACCCCATCATTTCTAAAGGAATAATCCAACACCTTTTTTAT
1 TTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTAT
154859 TTCCTAAA-TATCAAA
66 TTCC-AAATTATC-AA
* ** * * * * *
154874 TTTTTCGCCATCAAGGATACTCCAACCTCATTATTTCTGAGGGGATACTCTAACCTCATTTTTAT
1 TTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTAT
***
154939 TTCCAAATTATTGT
66 TTCCAAATTATCAA
* * * * * *
154953 TTTTTCACCTTCGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCTAACCTCATTTTTAT
1 TTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTAT
*
155018 TTCCAAATTA-AAGA
66 TTCCAAATTATCA-A
* * * *
155032 TTTTTCACCATCGGGGACACTCCAACCCCAT--TCCTCCGAGGGGATACTCCAACCCC
1 TTTTTCACCATCGGGGATACTCCAACCCCATCAT-TTCTGAAGGGATACTCCAACCCC
155088 GTTTCTCAAC
Statistics
Matches: 315, Mismatches: 51, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
77 1 0.00
78 18 0.06
79 194 0.62
80 101 0.32
81 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (79 bp):
TTTTTCACCATCGGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTAT
TTCCAAATTATCAA
Found at i:155117 original size:159 final size:155
Alignment explanation
Indices: 154633--155091 Score: 467
Period size: 159 Copynumber: 2.9 Consensus size: 155
154623 TATTAAAAAA
* * * * *
154633 ATTTTTTCACC-ACTGGAGATACTCCAACCCCATCATTTCTAAAGGGGATACCCTAACCCCGTTT
1 ATTTTTTCACCTTC-GGGGATACTCCAACCCCATCATTT-TTAAGGGGATACTCTAA-CCCATTT
* * * * *
154697 TTATTTCCAAATTATCAATTTTTCACCATCGGGGATATTCCAACCCCA-TCATTTTTGAAGAGAT
63 TTATTTCCAAATTA-AAATTTTTCACCATCGGGGATACTCCAACCCCATTC--TTCTGAGGGGAT
*
154761 ACTCCAACCCCGTTTTTATTTCCAAAATATT
125 ACTCCAACCCCGTTTTTATTTCCAAATTATT
* * * * * * *
154792 AATTTTTCACCATTAC--GGATACTCCAACCCCATCATTTCTAAAGGAATAATCCAACACCTTTT
1 ATTTTTTCACC-TT-CGGGGATACTCCAACCCCATCATTTTTAAGGGGATACTCTAAC-CCATTT
* * ** * *
154855 TTATTTCCTAAATATCAAATTTTTCGCCATCAAGGATACTCCAACCTCATTATTTCTGAGGGGAT
63 TTATTTCC-AAAT-TAAAATTTTTCACCATCGGGGATACTCCAACCCCATT-CTTCTGAGGGGAT
* * *
154920 ACTCTAACCTCATTTTTATTTCCAAATTATT
125 ACTCCAACCCCGTTTTTATTTCCAAATTATT
* * *
154951 GTTTTTTCACCTTCGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCTAACCTCATTTTT
1 ATTTTTTCACCTTCGGGGATACTCCAACCCCATCATTTTTAAGGGGATACTCTAACC-CATTTTT
* * *
155016 ATTTCCAAATTAAAGATTTTTCACCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTC
65 ATTTCCAAATTAAA-ATTTTTCACCATCGGGGATACTCCAACCCCATTCTTCTGAGGGGATACTC
155081 CAACCCCGTTT
129 CAACCCCGTTT
155092 CTCAACTAGA
Statistics
Matches: 240, Mismatches: 48, Indels: 26
0.76 0.15 0.08
Matches are distributed among these distances:
157 27 0.11
158 58 0.24
159 152 0.63
160 2 0.01
162 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.35
Consensus pattern (155 bp):
ATTTTTTCACCTTCGGGGATACTCCAACCCCATCATTTTTAAGGGGATACTCTAACCCATTTTTA
TTTCCAAATTAAAATTTTTCACCATCGGGGATACTCCAACCCCATTCTTCTGAGGGGATACTCCA
ACCCCGTTTTTATTTCCAAATTATT
Found at i:158515 original size:13 final size:12
Alignment explanation
Indices: 158497--158551 Score: 67
Period size: 13 Copynumber: 4.5 Consensus size: 12
158487 TATTTATAAA
158497 AATTTTTATTTGT
1 AATTTTTATTT-T
158510 AATTTTTATTTT
1 AATTTTTATTTT
*
158522 AAATTTTAATTTT
1 -AATTTTTATTTT
*
158535 AA-TTTTCTTTT
1 AATTTTTATTTT
158546 AATTTT
1 AATTTT
158552 GGATTACTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 9 0.24
12 6 0.16
13 22 0.59
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
AATTTTTATTTT
Found at i:158527 original size:7 final size:6
Alignment explanation
Indices: 158497--158551 Score: 58
Period size: 6 Copynumber: 9.0 Consensus size: 6
158487 TATTTATAAA
* * *
158497 AATTTT TATTTGT AATTTT TATTTT AAATTTT AATTTT AATTTT -CTTTT
1 AATTTT AATTT-T AATTTT AATTTT -AATTTT AATTTT AATTTT AATTTT
158546 AATTTT
1 AATTTT
158552 GGATTACTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 4 0.10
6 26 0.65
7 10 0.25
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (6 bp):
AATTTT
Found at i:165830 original size:19 final size:18
Alignment explanation
Indices: 165782--165828 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
165772 TTCTATTAAT
*
165782 AAAATATAGATCATTTAGC
1 AAAATATAAATCATTTA-C
165801 AAAATATAAATCATTTA-
1 AAAATATAAATCATTTAC
165818 AAAATTATAAA
1 AAAA-TATAAA
165829 ATATTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 6 0.23
19 16 0.62
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (18 bp):
AAAATATAAATCATTTAC
Found at i:166286 original size:31 final size:32
Alignment explanation
Indices: 166245--166313 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
166235 TGTTATTAAT
*
166245 TTATAAAATTTTAAT-TAATTAATA-ATTTATA
1 TTATATAATTTTAATAT-ATTAATATATTTATA
166276 TTATATAATTTTAATATATTAATATATTTATA
1 TTATATAATTTTAATATATTAATATATTTATA
166308 TTATAT
1 TTATAT
166314 TCATATCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TTATATAATTTTAATATATTAATATATTTATA
Found at i:166312 original size:11 final size:11
Alignment explanation
Indices: 166269--166349 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
166259 TTAATTAATA
166269 ATTTATATTAT
1 ATTTATATTAT
* *
166280 A-TAATTTTAAT
1 ATTTATATT-AT
166291 ATATTA-A-TAT
1 AT-TTATATTAT
166301 ATTTATATTAT
1 ATTTATATTAT
* *
166312 ATTCATATCAT
1 ATTTATATTAT
* *
166323 TTTTATATTTT
1 ATTTATATTAT
166334 ATTTTATATTAT
1 A-TTTATATTAT
166346 ATTT
1 ATTT
166350 TAATTATTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
9 3 0.06
10 10 0.19
11 27 0.52
12 10 0.19
13 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:166319 original size:17 final size:16
Alignment explanation
Indices: 166269--166349 Score: 55
Period size: 14 Copynumber: 5.2 Consensus size: 16
166259 TTAATTAATA
166269 ATTTATATTATA-TA-
1 ATTTATATTATATTAT
*
166283 ATTT-TAATATATTA-
1 ATTTATATTATATTAT
*
166297 ATATAT-TTATATTAT
1 ATTTATATTATATTAT
* * *
166312 ATTCATATCATTTTTAT
1 ATTTATATTA-TATTAT
*
166329 ATTTTATTTTATATTAT
1 A-TTTATATTATATTAT
166346 ATTT
1 ATTT
166350 TAATTATTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
13 6 0.12
14 16 0.32
15 5 0.10
16 5 0.10
17 12 0.24
18 6 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTATATTATATTAT
Found at i:166340 original size:12 final size:12
Alignment explanation
Indices: 166290--166360 Score: 69
Period size: 11 Copynumber: 6.1 Consensus size: 12
166280 ATAATTTTAA
166290 TATATTAATATATT
1 TATATT-ATAT-TT
166304 TATATTATA-TT
1 TATATTATATTT
* *
166315 CATATCAT-TTT
1 TATATTATATTT
*
166326 TATATTTTATTT
1 TATATTATATTT
166338 TATATTATATTT
1 TATATTATATTT
166350 TA-ATTAT-TTT
1 TATATTATATTT
166360 T
1 T
166361 TTGAATAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
10 4 0.08
11 20 0.41
12 16 0.33
13 3 0.06
14 6 0.12
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATTATATTT
Found at i:167324 original size:25 final size:26
Alignment explanation
Indices: 167291--167350 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
167281 TACTTATTTT
*
167291 TAAATATATAGTC-ATTAAAA-TTA-A
1 TAAATATATA-ACAATTAAAATTTACA
167315 TAAATTATATAACAATTAAAATTTACA
1 TAAA-TATATAACAATTAAAATTTACA
167342 TAAATATAT
1 TAAATATAT
167351 GAAGCTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 5 0.16
25 13 0.42
26 8 0.26
27 5 0.16
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (26 bp):
TAAATATATAACAATTAAAATTTACA
Found at i:171768 original size:35 final size:36
Alignment explanation
Indices: 171723--171794 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
171713 AGATAGAAAC
**
171723 CTCCCTATC-TTTTCACGGGCCAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAGGCCAAGATAGAACCTCT
* *
171758 CTCCCTATCTTTTTTAAAGGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAGGCCAAGATAGAACCTCT
171794 C
1 C
171795 AACCACTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (36 bp):
CTCCCTATCTTTTTCAAAGGCCAAGATAGAACCTCT
Found at i:176036 original size:19 final size:20
Alignment explanation
Indices: 175994--176042 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
175984 CAATACTAAA
*
175994 AAATAATAAGCAAATAGAAT
1 AAATAATAAACAAATAGAAT
176014 AAATAATAAAC-AATA-AAT
1 AAATAATAAACAAATAGAAT
176032 GAAATAATAAA
1 -AAATAATAAA
176043 AATCTAGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 14 0.52
20 10 0.37
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.20
Consensus pattern (20 bp):
AAATAATAAACAAATAGAAT
Found at i:177031 original size:20 final size:18
Alignment explanation
Indices: 176991--177045 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 18
176981 CAACACTCAT
176991 TTAAATATTTGAATAAAA
1 TTAAATATTTGAATAAAA
*
177009 TTAAATATTTATAATAGAAA
1 TTAAATATTT-GAATA-AAA
*
177029 TTAGATATTTGAA-AAAA
1 TTAAATATTTGAATAAAA
177046 AAATTTCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.09
18 11 0.34
19 6 0.19
20 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (18 bp):
TTAAATATTTGAATAAAA
Found at i:177341 original size:27 final size:28
Alignment explanation
Indices: 177275--177341 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 28
177265 CACATATGTT
* * * *
177275 TTTTTTTAATTTTTAATAATATTATTTT
1 TTTTTTAAAATTTTAATAATATTAATTC
177303 TATTTTATAAAATTTTAATAAT-TTAATTC
1 T-TTTT-TAAAATTTTAATAATATTAATTC
177332 TTTTTTAAAA
1 TTTTTTAAAA
177342 AATATATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 5 0.15
28 5 0.15
29 10 0.30
30 13 0.39
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTTTAAAATTTTAATAATATTAATTC
Found at i:180188 original size:19 final size:18
Alignment explanation
Indices: 180164--180206 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
180154 TATTTTAATT
*
180164 TTATATTAGATTTGTTTAG
1 TTATATTAGA-TTGATTAG
*
180183 TTATATTTGATTGATTAG
1 TTATATTAGATTGATTAG
180201 TT-TATT
1 TTATATT
180207 TACTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 9 0.41
19 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (18 bp):
TTATATTAGATTGATTAG
Found at i:184220 original size:16 final size:16
Alignment explanation
Indices: 184195--184225 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
184185 GTACGTCAAA
*
184195 ACATATCAATACTAGT
1 ACATAGCAATACTAGT
184211 ACATAGCAATACTAG
1 ACATAGCAATACTAG
184226 AATAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (16 bp):
ACATAGCAATACTAGT
Found at i:184884 original size:23 final size:23
Alignment explanation
Indices: 184858--184924 Score: 134
Period size: 23 Copynumber: 2.9 Consensus size: 23
184848 GATGTGTTAA
184858 CATAGTATGTTTCTTCATTTTAT
1 CATAGTATGTTTCTTCATTTTAT
184881 CATAGTATGTTTCTTCATTTTAT
1 CATAGTATGTTTCTTCATTTTAT
184904 CATAGTATGTTTCTTCATTTT
1 CATAGTATGTTTCTTCATTTT
184925 TGCATGTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (23 bp):
CATAGTATGTTTCTTCATTTTAT
Found at i:185082 original size:26 final size:26
Alignment explanation
Indices: 185046--185098 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
185036 CATCCATGAG
*
185046 TGTTACTGTTGTATTAGTCATAGTTT
1 TGTTACTGTTGCATTAGTCATAGTTT
*
185072 TGTTACTGTTGCATTAGTCATATTTT
1 TGTTACTGTTGCATTAGTCATAGTTT
185098 T
1 T
185099 CTCTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.09, G:0.17, T:0.55
Consensus pattern (26 bp):
TGTTACTGTTGCATTAGTCATAGTTT
Found at i:185784 original size:13 final size:13
Alignment explanation
Indices: 185766--185792 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
185756 ACATTATGCC
185766 TTGTATCGATACA
1 TTGTATCGATACA
185779 TTGTATCGATACA
1 TTGTATCGATACA
185792 T
1 T
185793 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:185807 original size:32 final size:33
Alignment explanation
Indices: 185747--185811 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
185737 AACCCTTGAA
*
185747 TGTATCGATACATTATGCCTTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
*
185780 TGTATCGATACA-TATTCATTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
185812 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAT
Found at i:185822 original size:20 final size:19
Alignment explanation
Indices: 185776--185832 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
185766 TTGTATCGAT
**
185776 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATGG
*
185795 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
185814 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
185833 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:187504 original size:18 final size:18
Alignment explanation
Indices: 187481--187515 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
187471 AGTCAACCAT
187481 TAATGATGATGAAGATGA
1 TAATGATGATGAAGATGA
*
187499 TAATGATGATGATGATG
1 TAATGATGATGAAGATG
187516 GTGACTCGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (18 bp):
TAATGATGATGAAGATGA
Found at i:192076 original size:13 final size:13
Alignment explanation
Indices: 192054--192089 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
192044 CAACATTCCT
192054 TGTATCGATACAG
1 TGTATCGATACAG
* *
192067 TGTATTGATACAT
1 TGTATCGATACAG
192080 TGTATCGATA
1 TGTATCGATA
192090 TATGGGTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:194715 original size:20 final size:21
Alignment explanation
Indices: 194690--194742 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
194680 CTATCACTGT
194690 TTGTATCGATACATGGTA-CA
1 TTGTATCGATACATGGTATCA
* *
194710 TTGTATCGATACATTGTATTGA
1 TTGTATCGATACATGGTA-TCA
194732 TTGTATCGATA
1 TTGTATCGATA
194743 TATTGCGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 17 0.59
22 12 0.41
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (21 bp):
TTGTATCGATACATGGTATCA
Found at i:195482 original size:2 final size:2
Alignment explanation
Indices: 195475--195505 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
195465 TTGAGCTTTC
195475 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 A
195506 GCTTCATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:196932 original size:45 final size:45
Alignment explanation
Indices: 196863--196959 Score: 185
Period size: 45 Copynumber: 2.2 Consensus size: 45
196853 ATATCTCGAT
*
196863 TAATCTTGAAAGTATTAACTCTAAAAATATTTGGTCAAAGTAGAA
1 TAATGTTGAAAGTATTAACTCTAAAAATATTTGGTCAAAGTAGAA
196908 TAATGTTGAAAGTATTAACTCTAAAAATATTTGGTCAAAGTAGAA
1 TAATGTTGAAAGTATTAACTCTAAAAATATTTGGTCAAAGTAGAA
196953 TAATGTT
1 TAATGTT
196960 TAAAAATGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.35
Consensus pattern (45 bp):
TAATGTTGAAAGTATTAACTCTAAAAATATTTGGTCAAAGTAGAA
Found at i:197559 original size:16 final size:15
Alignment explanation
Indices: 197534--197567 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
197524 TCAAATCTTA
197534 TTTAGTTTGAGTCAT
1 TTTAGTTTGAGTCAT
*
197549 TTTATGTTTGAGTTAT
1 TTTA-GTTTGAGTCAT
197565 TTT
1 TTT
197568 TTATTCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.18, C:0.03, G:0.18, T:0.62
Consensus pattern (15 bp):
TTTAGTTTGAGTCAT
Found at i:204306 original size:164 final size:165
Alignment explanation
Indices: 203969--204637 Score: 624
Period size: 166 Copynumber: 4.1 Consensus size: 165
203959 ATTAAATCAG
* * * *** * *
203969 TTTTCAAAAATTCATTCATTTT--TCA-TTTTTCATTTTTCCTTGAAATTTTCTTGGTTCTAAAA
1 TTTTTAAAAATTCATTCATTTTCATGAGTTTTTCATTTTTTCTTGAAATTTTCTAATTTTTGAAA
* * *
204031 TACAAAATTTTCTACTCCGTAAATATTTTCGGGGAGATTTTTTTTGGTTTTTAATTTTTAAAATT
66 TACAGAGTTTTCTACTCCGTAAATATTTTCGGGGAGAGTTTTTTTGGTTTTTAATTTTTAAAATT
* * * * * * *
204096 CATGAACTATTATTATTTAATCCATATTAAATAAG
131 CATAAAATATTATCATTTAATTCACATAAAATAAT
* * *
204131 TTTTTAAAAATTCATTCATTTTCATGAGTTTGTCATATTTTTCTTAAAATTTTTTAATTTTTGAA
1 TTTTTAAAAATTCATTCATTTTCATGAGTTTTTCAT-TTTTTCTTGAAATTTTCTAATTTTTGAA
* * * * *
204196 ATATAGAGTTTTCTACTCTGTAAATGTTTTC-GGAAG-GATTTTTTT-GTTTTTAATTTTGAAAA
65 ATACAGAGTTTTCTACTCCGTAAATATTTTCGGGGAGAG-TTTTTTTGGTTTTTAATTTTTAAAA
* *
204258 TTCATAAAATATTATCATTTAATTCCCATAAAATCAT
129 TTCATAAAATATTATCATTTAATTCACATAAAATAAT
* * * ***
204295 TTTTTAAAAATTCATTCATTTTCATTCA-TTTTTCATTTTTTCTTGAAA-TTTCCATATATCCAA
1 TTTTTAAAAATTCATTCATTTTCA-TGAGTTTTTCATTTTTTCTTGAAATTTTCTA-ATTTTTGA
* * * *
204358 AATGCAGAGTTTTCTACTCCGTTAATATTTTTGGAGG-GAGTTTTTCTTGGTTTTTAATTTTTAT
64 AATACAGAGTTTTCTACTCCGTAAATATTTTCGG-GGAGAGTTTTT-TTGGTTTTTAATTTTTAA
* *
204422 AATTCATAAAATATTATTATTTAATTCATATAAAATAAT
127 AATTCATAAAATATTATCATTTAATTCACATAAAATAAT
* * * ***
204461 TTTTAAAAAATTCATTTATTTTCATGAGTTTTTTATTTTTTCTTTGAAATCCCCT-ATTTTTGAA
1 TTTTTAAAAATTCATTCATTTTCATGAGTTTTTCATTTTTTC-TTGAAATTTTCTAATTTTTGAA
* * * * * **
204525 AAACCGAGTTTTCTAC-CACGTAAATGTTTTCGGGGAGA-TTTTGCTTAGTTTAAAATTTTTAAA
65 ATACAGAGTTTTCTACTC-CGTAAATATTTTCGGGGAGAGTTTT-TTTGGTTTTTAATTTTTAAA
** * * * * *
204588 ATTCATCTAATATTGTCATTAAATTGACATTAAATCAT
128 ATTCATAAAATATTATCATTTAATTCACATAAAATAAT
*
204626 TTTTGAAAAATT
1 TTTTTAAAAATT
204638 AAAATTATTT
Statistics
Matches: 406, Mismatches: 83, Indels: 33
0.78 0.16 0.06
Matches are distributed among these distances:
162 25 0.06
163 41 0.10
164 84 0.21
165 88 0.22
166 161 0.40
167 6 0.01
168 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (165 bp):
TTTTTAAAAATTCATTCATTTTCATGAGTTTTTCATTTTTTCTTGAAATTTTCTAATTTTTGAAA
TACAGAGTTTTCTACTCCGTAAATATTTTCGGGGAGAGTTTTTTTGGTTTTTAATTTTTAAAATT
CATAAAATATTATCATTTAATTCACATAAAATAAT
Found at i:204373 original size:329 final size:327
Alignment explanation
Indices: 203962--204637 Score: 810
Period size: 329 Copynumber: 2.1 Consensus size: 327
203952 AAGCACTATT
* * * * *
203962 AAATCAGTTTTCAAAAATTCATTCATTTTTCATTTTTCATTTTTCCTTGAAATTTTCTTGGTTCT
1 AAATCATTTTTCAAAAATTCATTCATTTTTCATTTTTCATTTTTCCTTGAAATTTCCATGATTCC
*
204027 AAAATACAAAATTTTCTACTCCGTAAATATTTTC-G-GGGAGATTTTTTTTGGTTTTTAATTTTT
66 AAAATACAAAATTTTCTACTCCGTAAATATTTTCGGAGGGAG-TTTTTCTTGGTTTTTAATTTTT
* * *
204090 AAAATTCATGAACTATTATTATTTAATCCATATTAAATAAGTTTTT-AAAAATTCATTCATTTTC
130 AAAATTCATAAAATATTATTATTTAATCCATATAAAATAA-TTTTTAAAAAATTCATTCATTTTC
**** * * *
204154 ATGAGTTTGTCATATTTTTC-TTAAAATTTTTTAATTTTTGAAATATAGAGTTTTCTACTC-TGT
194 ATGAGTTTGTCAT-TTTTTCTTTAAAATCCCCT-ATTTTTGAAAAACAGAGTTTTCTAC-CACGT
* ** *
204217 AAATGTTTTCGGA-AGGATTTT-TTTGTTTTTAATTTTGAAAATTCATAAAATATTATCATTTAA
256 AAATGTTTTCGGAGA-GATTTTCTTAGTTTAAAATTTTGAAAATTCATAAAATATTATCATTAAA
*
204280 TTCCCATA
320 TTCACATA
* *
204288 AAATCATTTTTTAAAAATTCATTCATTTTCATTCATTTTTCATTTTTTCTTGAAATTTCCAT-AT
1 AAATCATTTTTCAAAAATTCATTCA-TTT--TTCATTTTTCATTTTTCCTTGAAATTTCCATGAT
* * * * *
204352 ATCCAAAATGCAGAGTTTTCTACTCCGTTAATATTTTTGGAGGGAGTTTTTCTTGGTTTTTAATT
63 -TCCAAAATACAAAATTTTCTACTCCGTAAATATTTTCGGAGGGAGTTTTTCTTGGTTTTTAATT
* * *
204417 TTTATAATTCATAAAATATTATTATTTAATTCATATAAAATAATTTTTAAAAAATTCATTTATTT
127 TTTAAAATTCATAAAATATTATTATTTAATCCATATAAAATAATTTTTAAAAAATTCATTCATTT
* * * *
204482 TCATGAGTTTTTTATTTTTTCTTTGAAATCCCCTATTTTTGAAAAACCGAGTTTTCTACCACGTA
192 TCATGAGTTTGTCATTTTTTCTTTAAAATCCCCTATTTTTGAAAAACAGAGTTTTCTACCACGTA
* * ** *
204547 AATGTTTTCGGGGAGATTTTGCTTAGTTTAAAATTTTTAAAATTCATCTAATATTGTCATTAAAT
257 AATGTTTTCGGAGAGATTTT-CTTAGTTTAAAATTTTGAAAATTCATAAAATATTATCATTAAAT
* *
204612 TGACATT
321 TCACATA
*
204619 AAATCATTTTTGAAAAATT
1 AAATCATTTTTCAAAAATT
204638 AAAATTATTT
Statistics
Matches: 295, Mismatches: 43, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
326 23 0.08
327 3 0.01
328 2 0.01
329 112 0.38
330 93 0.32
331 62 0.21
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (327 bp):
AAATCATTTTTCAAAAATTCATTCATTTTTCATTTTTCATTTTTCCTTGAAATTTCCATGATTCC
AAAATACAAAATTTTCTACTCCGTAAATATTTTCGGAGGGAGTTTTTCTTGGTTTTTAATTTTTA
AAATTCATAAAATATTATTATTTAATCCATATAAAATAATTTTTAAAAAATTCATTCATTTTCAT
GAGTTTGTCATTTTTTCTTTAAAATCCCCTATTTTTGAAAAACAGAGTTTTCTACCACGTAAATG
TTTTCGGAGAGATTTTCTTAGTTTAAAATTTTGAAAATTCATAAAATATTATCATTAAATTCACA
TA
Found at i:204781 original size:19 final size:17
Alignment explanation
Indices: 204757--204796 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
204747 CTGAGAATTG
*
204757 ATTTTAATTTTAACTTTTT
1 ATTTTAAATTT-A-TTTTT
204776 ATTTTAAATTTATTTTT
1 ATTTTAAATTTATTTTT
204793 ATTT
1 ATTT
204797 ACTTATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
19 10 0.50
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTAAATTTATTTTT
Found at i:204809 original size:16 final size:16
Alignment explanation
Indices: 204790--204820 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
204780 TAAATTTATT
204790 TTTATTTACTTATTTG
1 TTTATTTACTTATTTG
*
204806 TTTATTTATTTATTT
1 TTTATTTACTTATTT
204821 TGTATTTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTTACTTATTTG
Found at i:208976 original size:79 final size:78
Alignment explanation
Indices: 208842--209453 Score: 390
Period size: 79 Copynumber: 7.8 Consensus size: 78
208832 TTTTCATCTC
* * * *
208842 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATTGGGGATTCTCCAAT
1 GGGGATACTCCAACCCCGATTTTA-TTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
*
208907 CCTATTATTTCTGA
65 CCCATTATTTCTGA
*
208921 GGGGATACTCCAACCCCGATTTTATTCTCAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATT-TCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
*
208986 CCCGTTATTTCTGA
65 CCCATTATTTCTGA
*
209000 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTC-AAAACACCAATTTTTCATAATCGGGGATACTCCAAC
* *
209065 TCCGATTTTATTT-TCA
65 -CCCA--TTATTTCTGA
* * *** * * * * * *
209081 ----AAACACCAATTTTTACAATCGGTGATACTC-CAAC-CCCATTATTTCATCAA----GGATA
1 GGGGATACTCCAA---CCCCGAT--TTTAT-TTCAAAACACCAATT-TTTCAT-AATCGGGGATA
* *
209136 CTCCAACCCCGTTATTTCCGA
58 CTCCAACCCCATTATTTCTGA
* * * *** * * * *
209157 GGGGATACTCCAACCCC-ACTTTATTTCTAAATATTGATTTCTCACAATCAGGGATACTCTAACC
1 GGGGATACTCCAACCCCGATTTTATTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
* *
209221 CTATTATTTCCGA
66 CCATTATTTCTGA
* *** * * * * * **
209234 GGGGATACTCTAACCCCGGCCTTATTTCTAAGCATCGATTTTCCATAATTAGGGATACTCCAACC
1 GGGGATACTCCAACCCCGATTTTATTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
*
209299 CCGTTATTT-TCGA
66 CCATTATTTCT-GA
* * * * *
209312 GGGGATACTCCAACCCTGATTTTATTTTCAAGACACCGA-TATTCTATAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTA-TTTCAAAACACCAATTTTTC-ATAATCGGGGATACTCCAA
*** *
209376 CCTTGTTATTTCCGA
64 CCCCATTATTTCTGA
* * * ** *
209391 GGGGATACTCCAACTCCGACTTTATTTTCAGAACACTGA-TTTTCTATAATCGGGTATACTCCA
1 GGGGATACTCCAACCCCGATTTTA-TTTCAAAACACCAATTTTTC-ATAATCGGGGATACTCCA
209454 GCCTCGTTGT
Statistics
Matches: 419, Mismatches: 85, Indels: 58
0.75 0.15 0.10
Matches are distributed among these distances:
73 4 0.01
74 9 0.02
75 9 0.02
76 2 0.00
77 49 0.12
78 84 0.20
79 222 0.53
80 16 0.04
81 11 0.03
82 11 0.03
83 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGATTTTATTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
CCATTATTTCTGA
Found at i:209076 original size:51 final size:50
Alignment explanation
Indices: 209000--209117 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 50
208990 TTATTTCTGA
* *
209000 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTT-ACAATC
*
209051 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTACAATC
*
209101 GGTGATACTCCAACCCC
1 GGGGATACTCCAACCCC
209118 ATTATTTCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
50 20 0.33
51 37 0.61
52 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTACAATC
Found at i:209144 original size:28 final size:28
Alignment explanation
Indices: 209104--209183 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
209094 TACAATCGGT
209104 GATACTCCAACCCCATTATTTCATC-A-AG
1 GATACTCCAACCCCATTATTTC--CGAGAG
* *
209132 GATACTCCAACCCCGTTATTTCCGAGGG
1 GATACTCCAACCCCATTATTTCCGAGAG
209160 GATACTCCAACCCCACTTTATTTC
1 GATACTCCAACCCCA--TTATTTC
209184 TAAATATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 36 0.80
30 7 0.16
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (28 bp):
GATACTCCAACCCCATTATTTCCGAGAG
Found at i:209299 original size:78 final size:78
Alignment explanation
Indices: 209126--209417 Score: 347
Period size: 78 Copynumber: 3.7 Consensus size: 78
209116 CCATTATTTC
* **
209126 ATCAAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-ACTTTATTTCTAAATA
1 ATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAGCA
* *
209190 TTGA-TTTCTCACA
66 TCGATTTTC-CATA
* ** * * *
209203 ATCAGGGATACTCTAACCCTATTATTTCCGAGGGGATACTCTAACCCCGGCCTTATTTCTAAGCA
1 ATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAGCA
209268 TCGATTTTCCATA
66 TCGATTTTCCATA
* * * *
209281 ATTAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTT-TCAAGA
1 ATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCT-AAG-
* * *
209345 CACCGATATTCTATA
64 CATCGATTTTCCATA
** *
209360 ATCAGGGATACTCCAACCTTGTTATTTCCGAGGGGATACTCCAACTCCGACTTTATTT
1 ATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTT
209418 TCAGAACACT
Statistics
Matches: 180, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
77 44 0.24
78 69 0.38
79 67 0.37
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (78 bp):
ATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAGCA
TCGATTTTCCATA
Found at i:213415 original size:20 final size:22
Alignment explanation
Indices: 213374--213418 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
213364 GTTAAGTATA
213374 AATGTTTTTCAAGCATAAAAAT
1 AATGTTTTTCAAGCATAAAAAT
*
213396 AATG-TTTTCAAGTA-AAAAAT
1 AATGTTTTTCAAGCATAAAAAT
213416 AAT
1 AAT
213419 CCAAAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 9 0.41
22 4 0.18
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
AATGTTTTTCAAGCATAAAAAT
Found at i:213559 original size:19 final size:20
Alignment explanation
Indices: 213519--213586 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
213509 ACAGATGTAA
213519 CGATACATATTGCTTAGTAT
1 CGATACATATTGCTTAGTAT
* *
213539 CGATACATGTT-CTTGGTAT
1 CGATACATATTGCTTAGTAT
* * *
213558 CGATACACACTGAATT-GTAT
1 CGATACATATTG-CTTAGTAT
213578 CGATACATA
1 CGATACATA
213587 AAACTGGTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 15 0.38
20 22 0.56
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (20 bp):
CGATACATATTGCTTAGTAT
Found at i:213652 original size:13 final size:13
Alignment explanation
Indices: 213613--213652 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
213603 AACTCACTCA
*
213613 GTATCGATACAGT
1 GTATCGATACATT
* *
213626 GTATCCATAGATT
1 GTATCGATACATT
213639 GTATCGATACATT
1 GTATCGATACATT
213652 G
1 G
213653 AGCCCAATGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:217755 original size:19 final size:19
Alignment explanation
Indices: 217728--217794 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
217718 ATTCTACCAT
217728 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
217747 TTGTGTCGATAC--AA---
1 TTGTATCGATACATAAGTG
* *
217761 -TGTATTGATACATAAGTA
1 TTGTATCGATACATAAGTG
217779 TTGTATCGATACATAA
1 TTGTATCGATACATAA
217795 TTAGCTACTG
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
13 9 0.24
15 2 0.05
17 2 0.05
19 25 0.66
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:217771 original size:32 final size:32
Alignment explanation
Indices: 217729--217791 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
217719 TTCTACCATT
* *
217729 TGTATCGATACATAAGTGTTGTGTCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
217761 TGTATTGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
217792 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:217852 original size:13 final size:13
Alignment explanation
Indices: 217834--217859 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
217824 CATTATTTCA
217834 TGTATCGATACAT
1 TGTATCGATACAT
217847 TGTATCGATACAT
1 TGTATCGATACAT
217860 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:220502 original size:52 final size:53
Alignment explanation
Indices: 220423--220522 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 53
220413 GATTTCTCAC
* * *
220423 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
* *
220475 AATCAGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1 AATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTT
220523 TTCACAATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 28 0.67
53 14 0.33
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (53 bp):
AATCAGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
Found at i:220538 original size:53 final size:53
Alignment explanation
Indices: 220378--220546 Score: 152
Period size: 51 Copynumber: 3.2 Consensus size: 53
220368 ATTTTCGAAG
** * * *** *
220378 GGATACTCCAACCCCGGCTTCATTTCCAAAATATTGA-TTTC-TCACAATCGG
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTTCACAATCGA
* * *
220429 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT--TAATC-A
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTT-CTTCACAATCGA
* *
220480 GGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT-TTCACAATCGA
1 -GGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCTTCACAATCGA
220534 GGATACTCCAACC
1 GGATACTCCAACC
220547 TCGTTATTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
51 32 0.34
52 30 0.32
53 30 0.32
54 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (53 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTTCACAATCGA
Found at i:220623 original size:212 final size:202
Alignment explanation
Indices: 220243--220656 Score: 562
Period size: 212 Copynumber: 2.0 Consensus size: 202
220233 CCATCTCTGA
* *
220243 TTTTATTTTCAAAACACTAATTTTCTATAATCGGGATACCCCAACTTCGATTTTATTTCCAAAAA
1 TTTTATTTTCAAAACACCAATTTTCTATAATCGGGATACCCCAACTCCGATTTTATTTCC-AAAA
* ** *
220308 AACACCAAATTTTCACAATCGGGGATACTCCAACCCCGTTAATCATACTCCAACCCCGTTATTTT
65 AACACCAAATTTTCACAATCGAGGATACTCCAACCCCGTTAATCATACTCCAACCCCGTTACCTC
220373 CGAAGGGATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCC
130 CGAAGGGATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCC
220438 AACCCCGG
195 AACCCCGG
* * *
220446 TTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAGCTCCGATTTTATTTCC-AA
1 TTTTATTTTCAAAACACCAATTTT-CTATAATC-GGGATACCCCAACTCCGATTTTATTTCCAAA
* *
220510 AAACACCAATTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTAATCGGGGATACTCCAACC
64 AAACACCAA-ATTTTCACAATCGAGGATACTCCAACCCCG----TTAATC----ATACTCCAACC
* * * *
220575 CCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCCGAAAATATTGATTTCTCATAATT
120 CCGTTACCTCCGAAGGGATACTCCAACCCCGGCTTCATTTCC-AAAATATTGATTTCTCACAATC
220639 GGGGATACTCCAACCCCG
184 GGGGATACTCCAACCCCG
220657 TTACCTCTGA
Statistics
Matches: 184, Mismatches: 15, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
203 34 0.18
204 34 0.18
205 25 0.14
208 6 0.03
211 4 0.02
212 81 0.44
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (202 bp):
TTTTATTTTCAAAACACCAATTTTCTATAATCGGGATACCCCAACTCCGATTTTATTTCCAAAAA
ACACCAAATTTTCACAATCGAGGATACTCCAACCCCGTTAATCATACTCCAACCCCGTTACCTCC
GAAGGGATACTCCAACCCCGGCTTCATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCA
ACCCCGG
Found at i:220691 original size:79 final size:79
Alignment explanation
Indices: 220555--220763 Score: 355
Period size: 79 Copynumber: 2.6 Consensus size: 79
220545 CCTCGTTATT
* *
220555 TAATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCGAAA
1 TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAA
220620 ATATTGATTTCTCA
66 ATATTGATTTCTCA
*
220634 TAATTGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAA
1 TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAA
220699 ATATTGATTTCTCA
66 ATATTGATTTCTCA
* ** *
220713 TAATTAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCG
1 TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCG
220764 ATTTTTTTTT
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 122 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (79 bp):
TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAA
ATATTGATTTCTCA
Found at i:220787 original size:79 final size:78
Alignment explanation
Indices: 220555--220872 Score: 327
Period size: 79 Copynumber: 4.0 Consensus size: 78
220545 CCTCGTTATT
* *
220555 TAATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGC-TTTATTCCGAA
1 TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCC-GCTTTTTTTCC-AA
220619 AATATTGATTTCTCA
64 AATATTGATTTCTCA
* * *
220634 TAATTGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAA
1 TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCC-GCTTTTTTTCCAAA
220699 ATATTGATTTCTCA
65 ATATTGATTTCTCA
* ** * * * *
220713 TAATTAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TA
1 TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCG-CTTTTTTTCCAAA
*
220777 ATCATCGATTTCTCA
65 AT-ATTGATTTCTCA
* ** * ** * * * *
220792 CAACCGGGGATACTCCAGCCCCGTTATTTTCAAGGGGACACTCCAACCCCG-TTATTATCTCCAA
1 TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGCTT-TT-TTTCCAA
*
220856 AATATTAAATTTCTCA
64 AATATT-GATTTCTCA
220872 T
1 T
220873 CGGGAAATAT
Statistics
Matches: 201, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
77 2 0.01
78 6 0.03
79 177 0.88
80 16 0.08
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (78 bp):
TAATTGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGCTTTTTTTCCAAAA
TATTGATTTCTCA
Found at i:220856 original size:158 final size:158
Alignment explanation
Indices: 220561--220872 Score: 364
Period size: 158 Copynumber: 2.0 Consensus size: 158
220551 TATTTAATCG
*
220561 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCGAAAATATTG
1 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCC-AAAATATCG
* ** * *
220626 ATTTCTCATAATTGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTA
65 ATTTCTCACAACCGGGGATACTCCAACCCCGTTACCTCTAAGGGGACACTCCAACCCCGGCTTTA
*
220691 TTCCCAAAATATT-GATTTCTCATAATTA
130 TTCCCAAAATATTAAATTTCTCATAATTA
** * ** * * *
220719 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCATC
1 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCG-GCTTTATTCCAAAAT-ATC
* * * *
220783 GATTTCTCACAACCGGGGATACTCCAGCCCCGTTA-TTTTCAAGGGGACACTCCAACCCC-GTTA
64 GATTTCTCACAACCGGGGATACTCCAACCCCGTTACCTCT-AAGGGGACACTCCAACCCCGGCT-
220846 TTA-TCTCCAAAATATTAAATTTCTCAT
127 TTATTC-CCAAAATATTAAATTTCTCAT
220873 CGGGAAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
157 9 0.07
158 105 0.81
159 15 0.12
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (158 bp):
GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCAAAATATCGA
TTTCTCACAACCGGGGATACTCCAACCCCGTTACCTCTAAGGGGACACTCCAACCCCGGCTTTAT
TCCCAAAATATTAAATTTCTCATAATTA
Found at i:225928 original size:37 final size:37
Alignment explanation
Indices: 225887--225965 Score: 133
Period size: 37 Copynumber: 2.1 Consensus size: 37
225877 ATAAATTTGT
*
225887 TTTGTAAAATTTGGGAGATAACAAAAAA-GAGGAGAAA
1 TTTGTAAAATTTGGGAAATAACAAAAAATG-GGAGAAA
225924 TTTGTAAAATTTGGGAAATAACAAAAAATGGGAGAAA
1 TTTGTAAAATTTGGGAAATAACAAAAAATGGGAGAAA
225961 TTTGT
1 TTTGT
225966 TTTAGAGTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 39 0.98
38 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.23, T:0.27
Consensus pattern (37 bp):
TTTGTAAAATTTGGGAAATAACAAAAAATGGGAGAAA
Found at i:226619 original size:19 final size:20
Alignment explanation
Indices: 226582--226624 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
226572 AATGTATTAG
226582 TACATATTGCTTAGTATCGA
1 TACATATTGCTTAGTATCGA
*
226602 TACATATT-CTTGGTATCGA
1 TACATATTGCTTAGTATCGA
226621 TACA
1 TACA
226625 CACAGAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
TACATATTGCTTAGTATCGA
Found at i:239222 original size:19 final size:19
Alignment explanation
Indices: 239179--239231 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
239169 GTTAAAAGCA
239179 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCA-C
239199 ATGTATCGATACAATGTC-C
1 ATGTATCGATACAAT-TCAC
*
239218 ATGTATCGGTACAA
1 ATGTATCGATACAA
239232 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 14 0.45
20 15 0.48
21 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACAATTCAC
Found at i:239285 original size:20 final size:20
Alignment explanation
Indices: 239260--239319 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
239250 CTGCCACTTT
239260 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATC
*
239280 CATGTATCGATACAATGAT-
1 CATGTATCGATACAATTATC
239299 CATGTATCGATACAATGTATC
1 CATGTATCGATACAAT-TATC
239320 GATACAAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTATC
Found at i:239304 original size:19 final size:19
Alignment explanation
Indices: 239259--239315 Score: 96
Period size: 19 Copynumber: 2.9 Consensus size: 19
239249 ACTGCCACTT
*
239259 TCATGTATCGATACAATTA
1 TCATGTATCGATACAATGA
239278 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
239298 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
239316 TATCGATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:239318 original size:13 final size:13
Alignment explanation
Indices: 239300--239326 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
239290 TACAATGATC
239300 ATGTATCGATACA
1 ATGTATCGATACA
239313 ATGTATCGATACA
1 ATGTATCGATACA
239326 A
1 A
239327 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:239342 original size:33 final size:32
Alignment explanation
Indices: 239281--239345 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
239271 ACAATTATCC
* *
239281 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
239313 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
239346 TCTGGTTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:241691 original size:20 final size:21
Alignment explanation
Indices: 241661--241706 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
241651 CCGTTTTTGT
241661 TGAAGATTTTG-A-TGAAAAA
1 TGAAGATTTTGAAGTGAAAAA
241680 TGAAGTATTTTGAAGTGAAAAA
1 TGAAG-ATTTTGAAGTGAAAAA
241702 T-AAGA
1 TGAAGA
241707 AATTTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 7 0.29
21 4 0.17
22 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (21 bp):
TGAAGATTTTGAAGTGAAAAA
Found at i:241711 original size:22 final size:20
Alignment explanation
Indices: 241661--241713 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
241651 CCGTTTTTGT
241661 TGAAG-ATTTTGATGAAAAA
1 TGAAGAATTTTGATGAAAAA
*
241680 TGAAGTATTTTGAAGTGAAAAA
1 TGAAGAATTTTG-A-TGAAAAA
*
241702 T-AAGAAATTTGA
1 TGAAGAATTTTGA
241714 AAAGGATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 5 0.17
20 7 0.24
21 9 0.31
22 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (20 bp):
TGAAGAATTTTGATGAAAAA
Found at i:241712 original size:21 final size:22
Alignment explanation
Indices: 241673--241714 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
241663 AAGATTTTGA
* *
241673 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
241695 TGAAAAAT-AAGAAATTTGAA
1 TGAAAAATGAAGAAATTTGAA
241715 AAGGATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:248508 original size:13 final size:13
Alignment explanation
Indices: 248490--248515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
248480 AATTTTTTGG
248490 TGTATCGATACAT
1 TGTATCGATACAT
248503 TGTATCGATACAT
1 TGTATCGATACAT
248516 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:255762 original size:13 final size:13
Alignment explanation
Indices: 255744--255768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
255734 AATTTTTTGG
255744 TGTATCGATACAA
1 TGTATCGATACAA
255757 TGTATCGATACA
1 TGTATCGATACA
255769 TACTTGGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:255781 original size:32 final size:34
Alignment explanation
Indices: 255720--255788 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 34
255710 CGTTACAAGT
**
255720 CAATGTATCGATACAATTTTTTGGTGTATCGATA
1 CAATGTATCGATACAATTACTTGGTGTATCGATA
255754 CAATGTATCGATAC-A-TACTTGGTGTATCGATA
1 CAATGTATCGATACAATTACTTGGTGTATCGATA
255786 CAA
1 CAA
255789 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 18 0.55
33 1 0.03
34 14 0.42
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (34 bp):
CAATGTATCGATACAATTACTTGGTGTATCGATA
Found at i:256538 original size:20 final size:19
Alignment explanation
Indices: 256512--256605 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 19
256502 ACTGCCACTT
256512 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
256531 TCCATGTATTGATACAATGA
1 T-CATGTATCGATACAATGA
*
256551 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
* * *
256571 TAATGTATCGATGCATCTGA
1 TCATGTATCGATACA-ATGA
**
256591 TTGTGTATCGATACA
1 TCATGTATCGATACA
256606 TTCAAGGGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
19 18 0.30
20 42 0.69
21 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:256557 original size:19 final size:19
Alignment explanation
Indices: 256512--256566 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
256502 ACTGCCACTT
256512 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
*
256531 TCCATGTATTGATACAA-TG
1 T-CATGTATCGATACAATTG
256550 ATCATGTATCGATACAA
1 -TCATGTATCGATACAA
256567 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:259991 original size:75 final size:76
Alignment explanation
Indices: 259902--260103 Score: 221
Period size: 75 Copynumber: 2.6 Consensus size: 76
259892 ATAGAAACCG
*
259902 CATATT-CCTCATCATGTTCTTCTTTTTTAGCTTGTTATTAGTTTGTTTCGGCTG-CAATGGAAA
1 CATATTCCCT-ATCATGTTCTTCTTTTTTAGCTTGTTATCAGTTTGTTTCGGCTGTCAATGGAAA
**
259965 TTGTA-AAAACT
65 TTACAGAAAACT
* * ** * **
259976 ACGTATTCCCTATCATGTTCTTCTTTTTCAGCACGTTATCAGTTTGTTTCGGTTGTTGATGGAAA
1 -CATATTCCCTATCATGTTCTTCTTTTTTAGCTTGTTATCAGTTTGTTTCGGCTGTCAATGGAAA
*
260041 TTACAGAAACCT
65 TTACAGAAAACT
* *
260053 CATATTCCCCATCATGTTTTTCTTCTTTGTCAGCTTGTTATCAGTTTGTTT
1 CATATTCCCTATCATGTTCTTCTT-TTT-T-AGCTTGTTATCAGTTTGTTT
260104 TAGCCGTTGA
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
75 44 0.42
76 34 0.33
77 8 0.08
79 18 0.17
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (76 bp):
CATATTCCCTATCATGTTCTTCTTTTTTAGCTTGTTATCAGTTTGTTTCGGCTGTCAATGGAAAT
TACAGAAAACT
Found at i:260137 original size:79 final size:77
Alignment explanation
Indices: 259885--260137 Score: 246
Period size: 79 Copynumber: 3.3 Consensus size: 77
259875 ACTGTTATTA
* * * *
259885 GGAAAATATAGAAACCGCATATTCCTCATCATGTTCTTCTT-TTTT-AGCTTGTTATTAGTTTGT
1 GGAAATTATAGAAACCACATATTCCCCATCATGTT-TTCTTCTTTTCAGCTTGTTATCAGTTTGT
**
259948 TTCGGCTG-CAAT
65 TTCGGCTGTTGAT
* * * * * **
259960 GGAAATTGTAAAAACTACGTATTCCCTATCATG--TTCTTCTTTTTCAGCACGTTATCAGTTTGT
1 GGAAATTATAGAAACCACATATTCCCCATCATGTTTTCTTC-TTTTCAGCTTGTTATCAGTTTGT
*
260023 TTCGGTTGTTGAT
65 TTCGGCTGTTGAT
* *
260036 GGAAATTACAGAAACCTCATATTCCCCATCATGTTTTTCTTCTTTGTCAGCTTGTTATCAGTTTG
1 GGAAATTATAGAAACCACATATTCCCCATCATG-TTTTCTTCTTT-TCAGCTTGTTATCAGTTTG
** *
260101 TTTTAGCCGTTGAT
64 TTTCGGCTGTTGAT
* *
260115 GGAAATTTTAGAAACCATATATT
1 GGAAATTATAGAAACCACATATT
260138 TTTAATAGCT
Statistics
Matches: 139, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
72 5 0.04
74 4 0.03
75 47 0.34
76 28 0.20
78 3 0.02
79 52 0.37
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (77 bp):
GGAAATTATAGAAACCACATATTCCCCATCATGTTTTCTTCTTTTCAGCTTGTTATCAGTTTGTT
TCGGCTGTTGAT
Found at i:260876 original size:64 final size:64
Alignment explanation
Indices: 260655--260878 Score: 188
Period size: 65 Copynumber: 3.5 Consensus size: 64
260645 CCCTTCACCT
* ** * * *
260655 TTAGTTGACTATTCTATTTTTGCTTTAGTCAACC-CTTTCTAACTTAGGTCTCATCCTAGTCAAC
1 TTAGTTGACTATTCTAGTTTCACCTT-GT-AACCATTTTCTAACTTAGGTTTCATCCTAGTCAAC
260719 C
64 C
* * * *
260720 TTAGTTGACTATTCTAGTTTCACCTTAATTAACCAGTTTT-T-ACTTCGGTTTCATCTTAGTCAC
1 TTAGTTGACTATTCTAGTTTCACCTT--GTAACCA-TTTTCTAACTTAGGTTTCATCCTAGTCAA
260783 CC
63 CC
* * * * *
260785 TTAGTTGACTATTGTGGTTTTGC-CCTTGTCACC-TTTTCTAAATTAGGTTTCATCCTAGTCATC
1 TTAGTTGACTATTCTAG-TTT-CACCTTGTAACCATTTTCTAACTTAGGTTTCATCCTAGTCAAC
*
260848 T
64 C
*
260849 TTAATTGACTATTCTAGTTTCATCCTTGTA
1 TTAGTTGACTATTCTAGTTTCA-CCTTGTA
260879 TTATTCTAGT
Statistics
Matches: 127, Mismatches: 23, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
62 5 0.04
63 4 0.03
64 43 0.34
65 61 0.48
66 10 0.08
67 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.46
Consensus pattern (64 bp):
TTAGTTGACTATTCTAGTTTCACCTTGTAACCATTTTCTAACTTAGGTTTCATCCTAGTCAACC
Found at i:260981 original size:65 final size:64
Alignment explanation
Indices: 260912--261321 Score: 376
Period size: 65 Copynumber: 6.3 Consensus size: 64
260902 ACCCTTTTTG
* * * *
260912 ACTTAGGTTTCATCCTAGTCACCCTGAGTTGACTATTTTAGTTTTGCCCTGGTCAAACCTTTTCA
1 ACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTTGCCCTAGTC-AACCTTTTCA
* ** * * * * * * **
260977 ACTTAGGTTTCATTATATTTA-GCTTATTTGACTATTTTGGTTTTGCTCTAGTTAACCCTTTTTT
1 ACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTTGCCCTAGTCAA-CCTTTTCA
* * * *
261041 AGTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTCGTCCTAGTCAACCTTTTTCG
1 ACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTTGCCCTAGTCAACC-TTTTCA
* * * * * **
261106 ACTTAGGCTTCATCCTAGTCACCCTTAGTTGACTATTCTGGTTTTACCCTAGTCAACGATTTTTT
1 ACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTTGCCCTAGTCAAC-CTTTTCA
* * *** *
261171 ACTTAAGTTTCATCCTAGTTACCTTTAGTTGACTATTTTGGTGCCGCCTTAGTCAACCTTTTCTA
1 ACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTTGCCCTAGTCAACCTTTTC-A
* * *** *
261236 ACTTAAGTTTCATTCTAGTCACTCTTAGTTGACTATTCTT-GTTTCATCCTAATCAACCTTTTCT
1 ACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATT-TTGGTTTTGCCCTAGTCAACCTTTTC-
*
261300 G
64 A
261301 A-TTAAGATTTCATCCTAGTCA
1 ACTTAAG-TTTCATCCTAGTCA
261322 TTTTTGTTTC
Statistics
Matches: 276, Mismatches: 62, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
63 2 0.01
64 57 0.21
65 215 0.78
66 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (64 bp):
ACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTTGCCCTAGTCAACCTTTTCA
Found at i:260988 original size:216 final size:215
Alignment explanation
Indices: 260683--261077 Score: 456
Period size: 216 Copynumber: 1.8 Consensus size: 215
260673 TTTGCTTTAG
* *
260683 TCAACCCTTTCTAACTTAGGTCTCATCCTAGTCAACCTTAGTTGACTATTCTAGTTTCACCTTAA
1 TCAACCCTTTCTAACTTAGGTCTCATCCTAGTCAACCTGAGTTGACTATTCTAGTTTCACCCTAA
* * * *
260748 TTAACCAGTTTTTACTTCGGTTTCATCT-TAGTCACCCTTAGTTGACTATTGTGGTTTTGCCCTT
66 TAAACCA-TTTTAACTTAGGTTTCAT-TATAGTCA-CCTTAGTTGACTATTGTGGTTTTGCCCTA
* * * *
260812 G-TCA-CCTTTTCTAAATTAGGTTTCATCCTAGTCATCTTTAATTGACTATTCTAGTTTCATCCT
128 GTTAACCCTTTT-TAAATTAAGTTTCATCCTAGTCACCCTTAATTGACTATTCTAGTTTCATCCT
260875 TGTATTATTCTAGTTTCACCTTGA
192 TGTATTATTCTAGTTTCACCTTGA
* * * * * ** **
260899 TCAACCCTTTTTGACTTAGGTTTCATCCTAGTCACCCTGAGTTGACTATTTTAGTTTTGCCCTGG
1 TCAACCCTTTCTAACTTAGGTCTCATCCTAGTCAACCTGAGTTGACTATTCTAGTTTCACCCTAA
* * * * * *
260964 TCAAACC-TTTTCAACTTAGGTTTCATTATATTTAGCTTATTTGACTATTTTGGTTTTGCTCTAG
66 T-AAACCATTTT-AACTTAGGTTTCATTATAGTCACCTTAGTTGACTATTGTGGTTTTGCCCTAG
* * *
261028 TTAACCCTTTTTTAGTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATT
129 TTAACCCTTTTTAAATTAAGTTTCATCCTAGTCACCCTTAATTGACTATT
261078 TTGGTTTCGT
Statistics
Matches: 146, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
215 30 0.21
216 106 0.73
217 10 0.07
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (215 bp):
TCAACCCTTTCTAACTTAGGTCTCATCCTAGTCAACCTGAGTTGACTATTCTAGTTTCACCCTAA
TAAACCATTTTAACTTAGGTTTCATTATAGTCACCTTAGTTGACTATTGTGGTTTTGCCCTAGTT
AACCCTTTTTAAATTAAGTTTCATCCTAGTCACCCTTAATTGACTATTCTAGTTTCATCCTTGTA
TTATTCTAGTTTCACCTTGA
Found at i:261008 original size:151 final size:151
Alignment explanation
Indices: 260729--261012 Score: 376
Period size: 151 Copynumber: 1.9 Consensus size: 151
260719 CTTAGTTGAC
* * * * *
260729 TATTCTAGTTTCACCTTAATTAACCAGTTTTTACTTCGGTTTCATCTTAGTCACCCTTAGTTGAC
1 TATTCTAGTTTCACCTTAATCAACCACTTTTTACTTAGGTTTCATCCTAGTCACCCTGAGTTGAC
* * * *
260794 TATTGTGGTTTTGCCCTTGTCACCTTTTCTAAATTAGGTTTCATCCTAGTCATCTTTAATTGACT
66 TATTGTAGTTTTGCCCTGGTCACCTTTTCTAAATTAGGTTTCATCATAGTCAGCTTTAATTGACT
260859 ATTCTAGTTTCATCCTTGTAT
131 ATTCTAGTTTCATCCTTGTAT
*
260880 TATTCTAGTTTCACCTTGATCAACC-CTTTTTGACTTAGGTTTCATCCTAGTCACCCTGAGTTGA
1 TATTCTAGTTTCACCTTAATCAACCACTTTTT-ACTTAGGTTTCATCCTAGTCACCCTGAGTTGA
* * * * * *
260944 CTATTTTAGTTTTGCCCTGGTCAAACCTTTTC-AACTTAGGTTTCATTATATTTAGC-TTATTTG
65 CTATTGTAGTTTTGCCCTGGTC--ACCTTTTCTAAATTAGGTTTCATCATAGTCAGCTTTAATTG
261007 ACTATT
128 ACTATT
261013 TTGGTTTTGC
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
150 5 0.04
151 83 0.73
152 18 0.16
153 8 0.07
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (151 bp):
TATTCTAGTTTCACCTTAATCAACCACTTTTTACTTAGGTTTCATCCTAGTCACCCTGAGTTGAC
TATTGTAGTTTTGCCCTGGTCACCTTTTCTAAATTAGGTTTCATCATAGTCAGCTTTAATTGACT
ATTCTAGTTTCATCCTTGTAT
Found at i:261091 original size:34 final size:34
Alignment explanation
Indices: 261047--261160 Score: 119
Period size: 34 Copynumber: 3.4 Consensus size: 34
261037 TTTTAGTTAA
261047 GTTTCATCCTAGTCACCCTTAGTTGACTATTTTG
1 GTTTCATCCTAGTCACCCTTAGTTGACTATTTTG
* * * *
261081 GTTTCGTCCTAGTCAACCTT-TTTCGAC---TTAG
1 GTTTCATCCTAGTCACCCTTAGTT-GACTATTTTG
* *
261112 GCTTCATCCTAGTCACCCTTAGTTGACTATTCTG
1 GTTTCATCCTAGTCACCCTTAGTTGACTATTTTG
* *
261146 GTTTTACCCTAGTCA
1 GTTTCATCCTAGTCA
261161 ACGATTTTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
31 23 0.37
32 2 0.03
33 2 0.03
34 35 0.56
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (34 bp):
GTTTCATCCTAGTCACCCTTAGTTGACTATTTTG
Found at i:261199 original size:130 final size:127
Alignment explanation
Indices: 260899--261321 Score: 454
Period size: 130 Copynumber: 3.3 Consensus size: 127
260889 TTCACCTTGA
* * * * *
260899 TCAACCCTTTTTGACTTAGGTTTCATCCTAGTCACCCTGAGTTGACTATTTTAGTTTTGCCCTGG
1 TCAA-CCTTTTTGACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTCG-CCTAG
* * * * * * * *
260964 TCAAACCTTTTCAACTTAGGTTTCATTATATTTA-GCTTATTTGACTATTTTGGTTTTGCTCTAG
64 TC-AACCTTTTCAACTTAGGTTTCATTCTAGTCACCCTTAGTTGACTATTCTGGTTTTACCCTAG
* * *
261028 TTAACCCTTTTTTAGTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTCGTCCTAG
1 TCAA-CCTTTTTGACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTCG-CCTAG
* * *
261093 TCAACCTTTTTCGACTTAGGCTTCATCCTAGTCACCCTTAGTTGACTATTCTGGTTTTACCCTAG
64 TCAACC-TTTTCAACTTAGGTTTCATTCTAGTCACCCTTAGTTGACTATTCTGGTTTTACCCTAG
* * * * **
261158 TCAACGATTTTTTACTTAAGTTTCATCCTAGTTACCTTTAGTTGACTATTTTGGTGCCGCCTTAG
1 TCAAC-CTTTTTGACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTCGCC-TAG
* * * * * *
261223 TCAACCTTTTCTAACTTAAGTTTCATTCTAGTCACTCTTAGTTGACTATTCTTGTTTCATCCTAA
64 TCAACCTTTTC-AACTTAGGTTTCATTCTAGTCACCCTTAGTTGACTATTCTGGTTTTACCCTAG
261288 TCAACCTTTTCTGA-TTAAGATTTCATCCTAGTCA
1 TCAACCTTTT-TGACTTAAG-TTTCATCCTAGTCA
261322 TTTTTGTTTC
Statistics
Matches: 248, Mismatches: 39, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
128 4 0.02
129 96 0.39
130 148 0.60
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (127 bp):
TCAACCTTTTTGACTTAAGTTTCATCCTAGTCACCCTTAGTTGACTATTTTGGTTTCGCCTAGTC
AACCTTTTCAACTTAGGTTTCATTCTAGTCACCCTTAGTTGACTATTCTGGTTTTACCCTAG
Found at i:261315 original size:195 final size:193
Alignment explanation
Indices: 260880--261321 Score: 500
Period size: 195 Copynumber: 2.3 Consensus size: 193
260870 ATCCTTGTAT
* *
260880 TATTCTAGTTTCA-CCTTGATCAACCCTTTTTGACTTAGGTTTCATCCTAGTCACCCTGAGTTGA
1 TATTCTTGTTTCATCC-TAATCAA-CCTTTTTGACTTAGGTTTCATCCTAGTCACCCTGAGTTGA
* * * * * * * * *
260944 CTATTTTAGTTTTGCCCTGGTCAAACCTTTTCAACTTAGGTTTCATTATATTTAGCTTATTTGAC
64 CTATTCTAGTTTTACCCTAGTCAAACATTTTCAACTTAAGTTTCATCATAGTTACCTTAGTTGAC
*** * * *
261009 TATTTTGGTTTTGCTCTAGTTAACCCTTTTTTAGTTAAGTTTCATCCTAGTCACCCTTAGTTGAC
129 TATTTTGGTGCCGCTCTAGTCAACCCTTTTTAACTTAAGTTTCATCCTAGTCACCCTTAGTTGAC
* * * *
261074 TATT-TTGGTTTCGTCCTAGTCAACCTTTTTCGACTTAGGCTTCATCCTAGTCACCCTTAGTTGA
1 TATTCTT-GTTTCATCCTAATCAACCTTTTT-GACTTAGGTTTCATCCTAGTCACCCTGAGTTGA
* ** *
261138 CTATTCTGGTTTTACCCTAGTC-AACGATTTTTTACTTAAGTTTCATCCTAGTTACCTTTAGTTG
64 CTATTCTAGTTTTACCCTAGTCAAAC-ATTTTCAACTTAAGTTTCATCATAGTTACC-TTAGTTG
* *
261202 ACTATTTTGGTGCCGC-CTTAGTCAA-CCTTTTCTAACTTAAGTTTCATTCTAGTCACTCTTAGT
127 ACTATTTTGGTGCCGCTC-TAGTCAACCCTTTT-TAACTTAAGTTTCATCCTAGTCACCCTTAGT
261265 TGAC
190 TGAC
*
261269 TATTCTTGTTTCATCCTAATCAACCTTTTCTGA-TTAAGATTTCATCCTAGTCA
1 TATTCTTGTTTCATCCTAATCAACCTTTT-TGACTT-AGGTTTCATCCTAGTCA
261322 TTTTTGTTTC
Statistics
Matches: 207, Mismatches: 31, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
193 11 0.05
194 94 0.45
195 99 0.48
196 3 0.01
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (193 bp):
TATTCTTGTTTCATCCTAATCAACCTTTTTGACTTAGGTTTCATCCTAGTCACCCTGAGTTGACT
ATTCTAGTTTTACCCTAGTCAAACATTTTCAACTTAAGTTTCATCATAGTTACCTTAGTTGACTA
TTTTGGTGCCGCTCTAGTCAACCCTTTTTAACTTAAGTTTCATCCTAGTCACCCTTAGTTGAC
Found at i:261409 original size:65 final size:65
Alignment explanation
Indices: 261340--261485 Score: 168
Period size: 65 Copynumber: 2.2 Consensus size: 65
261330 TCACTGTATC
* * * *
261340 AGTTTTACCCTAGTCAAACCTTTAAACCCAAGATTATATTCTAGTTACTTTCGTTTGACTATACT
1 AGTTTTACCCTAGTCAAACCTCTAAACCCAAGATTATATCCTAGTCACCTTCGTTTGACTATACT
* * * * * *
261405 AGTTTCACCC-ATGTCAACCCTCTAGACCTAGGATTATATCCTAGTCACCTTCGTTTGACTATAT
1 AGTTTTACCCTA-GTCAAACCTCTAAACCCAAGATTATATCCTAGTCACCTTCGTTTGACTATAC
261469 T
65 T
* *
261470 GGTTTTACCCTGGTCA
1 AGTTTTACCCTAGTCA
261486 TCCATCTAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
64 1 0.02
65 65 0.98
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (65 bp):
AGTTTTACCCTAGTCAAACCTCTAAACCCAAGATTATATCCTAGTCACCTTCGTTTGACTATACT
Found at i:261764 original size:19 final size:19
Alignment explanation
Indices: 261742--261800 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
261732 TGCCCTTGGT
261742 TATTTATTTTTTATGAATA
1 TATTTATTTTTTATGAATA
*** *
261761 TATTT-TGCCTT-TG-GT-
1 TATTTATTTTTTATGAATA
261776 TATTTATTTTTTATGAATA
1 TATTTATTTTTTATGAATA
261795 TATTTA
1 TATTTA
261801 ACATAGTTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
15 5 0.18
16 4 0.14
17 4 0.14
18 4 0.14
19 11 0.39
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (19 bp):
TATTTATTTTTTATGAATA
Found at i:261767 original size:34 final size:34
Alignment explanation
Indices: 261729--261799 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
261719 TTAACCTAGG
261729 TTTTGCCCTTGGTTATTTATTTTTTATGAATATA
1 TTTTGCCCTTGGTTATTTATTTTTTATGAATATA
*
261763 TTTTGCCTTTGGTTATTTATTTTTTATGAATATA
1 TTTTGCCCTTGGTTATTTATTTTTTATGAATATA
261797 TTT
1 TTT
261800 AACATAGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.20, C:0.07, G:0.11, T:0.62
Consensus pattern (34 bp):
TTTTGCCCTTGGTTATTTATTTTTTATGAATATA
Found at i:262170 original size:23 final size:22
Alignment explanation
Indices: 262128--262174 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
262118 AAAGAATTTT
262128 ATTTTTAAATATTTTCTTGTCAA
1 ATTTTTAAATATTTTCTTGT-AA
262151 ATTTTTATAAT-TATTT-TTGTAA
1 ATTTTTA-AATAT-TTTCTTGTAA
262173 AT
1 AT
262175 GATAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 4 0.18
23 12 0.55
24 6 0.27
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
ATTTTTAAATATTTTCTTGTAA
Found at i:262659 original size:148 final size:149
Alignment explanation
Indices: 262496--262791 Score: 436
Period size: 149 Copynumber: 2.0 Consensus size: 149
262486 GTATGTTGTA
*
262496 TTGATTCATTTTACAAGTTTCAATGTATTTCTTCAA-TTTTTTCTAGGTTCCAAAATATGAGT-T
1 TTGATTCATTTTACAAGTTTCAATGTATTTCTTCAATTTTTTTCTAGGTTCCAAAATACGAGTCT
* ** * * *
262559 TT-TTTATCCGTAAAATTCTCAAAAAAATTTTCTCAAGTTTTGAACTTTGAAATTTTTTAAGTAT
66 TTCTTTATCCATAAAATTCTCAAAAAAA-AAT-TCAAGTTTTAAACTTTGAAATTCTTTAAATAT
* *
262623 TCCCATTAAATTACCATAAAT
129 TCCAATCAAATTACCATAAAT
*
262644 TTGATTCATTTTACAAGTTTCAATGTATTTCTTCAATTTTTTTCTAGGTTTCAAAATACGAGTCT
1 TTGATTCATTTTACAAGTTTCAATGTATTTCTTCAATTTTTTTCTAGGTTCCAAAATACGAGTCT
* *
262709 TTCTTTATCCATAAAATTTTCAAAAAAAAATTCGAGTTTTAAACTTTGAAATTCTTTAAATATTC
66 TTCTTTATCCATAAAATTCTCAAAAAAAAATTCAAGTTTTAAACTTTGAAATTCTTTAAATATTC
*
262774 CAATCAAATTATCATAAA
131 CAATCAAATTACCATAAA
262792 ATCATATTTG
Statistics
Matches: 132, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
148 36 0.27
149 69 0.52
150 4 0.03
151 23 0.17
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (149 bp):
TTGATTCATTTTACAAGTTTCAATGTATTTCTTCAATTTTTTTCTAGGTTCCAAAATACGAGTCT
TTCTTTATCCATAAAATTCTCAAAAAAAAATTCAAGTTTTAAACTTTGAAATTCTTTAAATATTC
CAATCAAATTACCATAAAT
Found at i:265446 original size:33 final size:32
Alignment explanation
Indices: 265404--265467 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
265394 TACAAGCCAA
*
265404 TGTATCGATACATTTTGGGATGCATCGATACAT
1 TGTATCGATACATCTTGGG-TGCATCGATACAT
* *
265437 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGCATCGATACA
265468 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGCATCGATACAT
Found at i:266172 original size:21 final size:22
Alignment explanation
Indices: 266133--266173 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
266123 CTTTTCTCTC
266133 CCCCTTAATCAAAAAAATTTCT
1 CCCCTTAATCAAAAAAATTTCT
*
266155 CCCCTTAAT-AAAATAATTT
1 CCCCTTAATCAAAAAAATTT
266174 AACAATTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (22 bp):
CCCCTTAATCAAAAAAATTTCT
Found at i:267464 original size:21 final size:21
Alignment explanation
Indices: 267435--267475 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
267425 TGCTAGTGTG
*
267435 GGGGCTGCCCGGTTGCGACCTA
1 GGGGCTG-CCGGTCGCGACCTA
267457 GGGG-TGCCGGTCGCGACCT
1 GGGGCTGCCGGTCGCGACCT
267476 GGTGAGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 2 0.11
22 4 0.22
ACGTcount: A:0.07, C:0.32, G:0.44, T:0.17
Consensus pattern (21 bp):
GGGGCTGCCGGTCGCGACCTA
Found at i:267934 original size:13 final size:13
Alignment explanation
Indices: 267916--267954 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
267906 TATAAACCCT
267916 TTGTATCGATACA
1 TTGTATCGATACA
267929 TTGTATCGATACA
1 TTGTATCGATACA
*
267942 ATGTATCGATACA
1 TTGTATCGATACA
267955 GAGAATGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:268170 original size:8 final size:8
Alignment explanation
Indices: 268157--268182 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
268147 AACATCATTC
268157 ATCACAAA
1 ATCACAAA
268165 ATCACAAA
1 ATCACAAA
268173 ATCACAAA
1 ATCACAAA
268181 AT
1 AT
268183 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:274138 original size:19 final size:20
Alignment explanation
Indices: 274093--274144 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
274083 TTACAAGCCA
* *
274093 ATGTATTGATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
274113 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
274133 -TGTATCGATACA
1 ATGTATCGATACA
274145 AATAGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:274244 original size:13 final size:13
Alignment explanation
Indices: 274226--274250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
274216 ACATTTGGTC
274226 ATGTATCGATACA
1 ATGTATCGATACA
274239 ATGTATCGATAC
1 ATGTATCGATAC
274251 TGTGCAATCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:274905 original size:152 final size:155
Alignment explanation
Indices: 274625--274997 Score: 414
Period size: 152 Copynumber: 2.4 Consensus size: 155
274615 TATCATTTTT
* * * * * *
274625 GTGTCTTTTAGGGTTATCGAGATACTTTTACGTTGAAGGTATACCTTAAGGGTATTTTGGTAATT
1 GTGTCTTTTAGAGTTATCAAGATACTTTCACGTCGAAGGTATAACTTAAGGGCATTTTGGTAATT
* * * *
274690 TTCTTAAAACCAAGTCCTAGGTGGTCATCGGATCACTTTTATGCCAAAAGTGTATGTCTAGGATA
66 TTCTTAAAACCAAGTCCTAGGTAGCCACCGAATCACTTTTATGCCAAAAGTGTATGTCTAGGATA
* *
274755 GGTTCACTCTCTTAGCTTTAATTTC
131 GGTTCACTCTCATAGCTTCAATTTC
* *
274780 GTGTCTTTTAGAGTTATCAAGATACTTTCAC-TCGAAGGTA-AACTTAGGGGCATTTTGGTAGTT
1 GTGTCTTTTAGAGTTATCAAGATACTTTCACGTCGAAGGTATAACTTAAGGGCATTTTGGTAATT
* *** * * ** * *
274843 TT-TTAGAATTGAGTCCTAGGTAGCCACCGAATCGCTTTTATGCCGATGGTGTGTGTTTAGGATA
66 TTCTTAAAACCAAGTCCTAGGTAGCCACCGAATCACTTTTATGCCAAAAGTGTATGTCTAGGATA
*
274907 GGTTCACTCTCATAGCTTCAATTTT
131 GGTTCACTCTCATAGCTTCAATTTC
* * * * * *
274932 GTGTCTTTTA-AGGCTATCGAA-ATGCTTTCCCGTCGAAAGTATACCATAAGGGCATTTTGGTAA
1 GTGTCTTTTAGA-GTTATC-AAGATACTTTCACGTCGAAGGTATAACTTAAGGGCATTTTGGTAA
274995 TTT
64 TTT
274998 CTTTGAAATT
Statistics
Matches: 181, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
151 1 0.01
152 93 0.51
153 31 0.17
154 28 0.15
155 28 0.15
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (155 bp):
GTGTCTTTTAGAGTTATCAAGATACTTTCACGTCGAAGGTATAACTTAAGGGCATTTTGGTAATT
TTCTTAAAACCAAGTCCTAGGTAGCCACCGAATCACTTTTATGCCAAAAGTGTATGTCTAGGATA
GGTTCACTCTCATAGCTTCAATTTC
Found at i:275078 original size:155 final size:151
Alignment explanation
Indices: 274625--275079 Score: 373
Period size: 152 Copynumber: 3.0 Consensus size: 151
274615 TATCATTTTT
* * * * * * * * *
274625 GTGTCTTTTAGGGTTATCGAGATACTTTTACGTTGAAGGTATACCTTAAGGGTATTTTGGTAATT
1 GTGTCTTTTAGAGCTATCAAGATACTTTCAC-TCGAAAGTA-AACATAAGGGCATTTTGGTAATT
** * * * * * *
274690 TTCTTA-AAACCAAGTCCTAGGTGGTCATCGGATCACTTTTATGCCAAAAGTGTATGTCTAGGAT
64 TT-TTAGAATTC-AGTCATAGGTAGCCA-CAGATCACTTTTATGCCAAAAGTGTGTGTTTAGGAT
* *
274754 AGGTTCACTCTCTTAGCTTTAATTTC
126 AGGTTCACTCTCATAGCTTCAATTTC
* * * * *
274780 GTGTCTTTTAGAGTTATCAAGATACTTTCACTCGAAGGTAAACTTAGGGGCATTTTGGTAGTTTT
1 GTGTCTTTTAGAGCTATCAAGATACTTTCACTCGAAAGTAAACATAAGGGCATTTTGGTAATTTT
* * * * * **
274845 TTAGAATTGAGTCCTAGGTAGCCACCGAATCGCTTTTATGCCGATGGTGTGTGTTTAGGATAGGT
66 TTAGAATTCAGTCATAGGTAGCCACAG-ATCACTTTTATGCCAAAAGTGTGTGTTTAGGATAGGT
*
274910 TCACTCTCATAGCTTCAATTTT
130 TCACTCTCATAGCTTCAATTTC
* * *
274932 GTGTCTTTTA-AGGCTATCGAA-ATGCTTTCCCGTCGAAAGTATACCATAAGGGCATTTTGGTAA
1 GTGTCTTTTAGA-GCTATC-AAGATACTTTCAC-TCGAAAGTA-AACATAAGGGCATTTTGGTAA
* *
274995 TTTCTTT-GAAATTCA-TACATAGGTAGTCACTAGATCACGTTTATGCCAAAAGTGTGTGTTTCA
62 TTT-TTTAG-AATTCAGT-CATAGGTAGCCAC-AGATCACTTTTATGCCAAAAGTGTGTGTTT-A
* * *
275058 -GATAGGTCCACTTTCCTAGCTT
122 GGATAGGTTCACTCTCATAGCTT
275080 TCTTTTCCTG
Statistics
Matches: 246, Mismatches: 43, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
151 3 0.01
152 89 0.36
153 33 0.13
154 30 0.12
155 89 0.36
156 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (151 bp):
GTGTCTTTTAGAGCTATCAAGATACTTTCACTCGAAAGTAAACATAAGGGCATTTTGGTAATTTT
TTAGAATTCAGTCATAGGTAGCCACAGATCACTTTTATGCCAAAAGTGTGTGTTTAGGATAGGTT
CACTCTCATAGCTTCAATTTC
Found at i:275290 original size:18 final size:17
Alignment explanation
Indices: 275263--275299 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
275253 TTCTTTTTTT
*
275263 ATTAATATTTTTAATAAA
1 ATTAAAATTTTTAA-AAA
275281 ATTAAAATTTTTAAAAA
1 ATTAAAATTTTTAAAAA
275298 AT
1 AT
275300 AAATACAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTAAAATTTTTAAAAA
Found at i:276281 original size:58 final size:57
Alignment explanation
Indices: 276168--276820 Score: 329
Period size: 58 Copynumber: 11.4 Consensus size: 57
276158 CTTTTATCCC
* * ** * *
276168 ATTTCATGCATTTTATG-TCATTTTAGTCATTTGTTCATGGATCAGGGACTGTTATGTA
1 ATTTCATGCATTTTAGGACCATTTTAGTCATTT-TTCATGTTTTA-GGACTATTATGTA
* * *
276226 ATTTCATGCATTTTAGAACCATTTTA-TACATTTTTCTTGTTTTAGGCACTATTATGCCA
1 ATTTCATGCATTTTAGGACCATTTTAGT-CATTTTTCATGTTTTAGG-ACTATTATG-TA
* * * ** * * *
276285 A-TTCATGTACTTTTAGGACTATTTTAGTCATTTTCCATAATATAGGAATTACTATGTA
1 ATTTCATGCA-TTTTAGGACCATTTTAGTCATTTTTCATGTTTTAGG-ACTATTATGTA
* *** * *
276343 ATTTCATGTATTTT-GGGTTATTTAAG-AATTTTTTCATGTATTTAGAGACTA-TATGTA
1 ATTTCATGCATTTTAGGACCATTTTAGTCA-TTTTTCATGT-TTTAG-GACTATTATGTA
* * ** * * ** *
276400 ATTTCATGTATTTTAGAAATATTCTAGTTATTTTTCATGAATTAGGGA-TCATTTATGTT
1 ATTTCATGCATTTTAGGACCATTTTAGTCATTTTTCATGTTTTA-GGACT-A-TTATGTA
* * **
276459 ATTTCATGCATTTTAGG---------GTTATTTTTCATGTTTTAGACACTATTATGCC
1 ATTTCATGCATTTTAGGACCATTTTAGTCATTTTTCATGTTTTAG-GACTATTATGTA
* * * * * * *
276508 AGTTCATGTATTTTAGGACCATTTCAGTCA-TTTTCTATGATATGGGAATTATTATGTA
1 ATTTCATGCATTTTAGGACCATTTTAGTCATTTTTC-ATGTTTTAGG-ACTATTATGTA
* * * * * *
276566 ATTTCATGCGTTTTAGG-TCATTTAAGGCATTTTTCATATATTTAGGAATTATTATGTA
1 ATTTCATGCATTTTAGGACCATTTTAGTCATTTTTCATGT-TTTAGG-ACTATTATGTA
* * *** *
276624 ATTTCATGCATTTTAGAACCATTCTAGTCATTTTTCATGAAATAGGGATTATTTATGCT-
1 ATTTCATGCATTTTAGGACCATTTTAGTCATTTTTCATGTTTTA-GGACTA-TTATG-TA
* * ** * * * * *
276683 ATTTCATTCA-TTTAAGTTCATTTTAGTAATTTGTCATATTTTAGAGACTTTTATATA
1 ATTTCATGCATTTTAGGACCATTTTAGTCATTTTTCATGTTTTAG-GACTATTATGTA
* * * * *
276740 ATTTCACGTATTTTAGGACTATTTTAGTCATTTTTTATATTTTAGAGACTATTATGTA
1 ATTTCATGCATTTTAGGACCATTTTAGTCATTTTTCATGTTTTAG-GACTATTATGTA
*
276798 ATTTCATGCATTTTAGCACCATT
1 ATTTCATGCATTTTAGGACCATT
276821 CTAACATTTC
Statistics
Matches: 450, Mismatches: 107, Indels: 76
0.71 0.17 0.12
Matches are distributed among these distances:
49 21 0.05
50 18 0.04
51 1 0.00
56 3 0.01
57 72 0.16
58 223 0.50
59 110 0.24
60 2 0.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (57 bp):
ATTTCATGCATTTTAGGACCATTTTAGTCATTTTTCATGTTTTAGGACTATTATGTA
Found at i:276650 original size:224 final size:224
Alignment explanation
Indices: 276255--276695 Score: 618
Period size: 224 Copynumber: 2.0 Consensus size: 224
276245 CATTTTATAC
* * * *
276255 ATTTTTCTTGTTTTAGGCACTATTATGCCAATTCATGTACTTTTAGGACTATTTTAGTCATTTTC
1 ATTTTTCATGTTTTAGACACTATTATGCCAATTCATGTACTTTTAGGACCATTTCAGTCATTTTC
* * * *
276320 CATAATATAGGAATTACTATGTAATTTCATGTATTTTGGGTTATTTAAGAATTTTTTCATGTATT
66 CATAATATAGGAATTACTATGTAATTTCATGCATTTTAGGTCATTTAAGAATTTTTTCATATATT
* * * *
276385 TAGAGACTATATGTAATTTCATGTATTTTAGAAATATTCTAGTTATTTTTCATGAATTAGGGATC
131 TAGAGACTATATGTAATTTCATGCATTTTAGAAACATTCTAGTCATTTTTCATGAAATAGGGATC
*
276450 ATTTATGTTATTTCATGCATTTTAGGGTT
196 ATTTATGCTATTTCATGCATTTTAGGGTT
*
276479 ATTTTTCATGTTTTAGACACTATTATGCCAGTTCATGTA-TTTTAGGACCATTTCAGTCATTTTC
1 ATTTTTCATGTTTTAGACACTATTATGCCAATTCATGTACTTTTAGGACCATTTCAGTCATTTTC
* * * * * *
276543 TATGATATGGGAATTATTATGTAATTTCATGCGTTTTAGGTCATTTAAGGCA-TTTTTCATATAT
66 CATAATATAGGAATTACTATGTAATTTCATGCATTTTAGGTCATTTAA-GAATTTTTTCATATAT
* *
276607 TTAG-GAATTATTATGTAATTTCATGCATTTTAGAACCATTCTAGTCATTTTTCATGAAATAGGG
130 TTAGAG-ACTA-TATGTAATTTCATGCATTTTAGAAACATTCTAGTCATTTTTCATGAAATAGGG
* *
276671 ATTATTTATGCTATTTCATTCATTT
193 ATCATTTATGCTATTTCATGCATTT
276696 AAGTTCATTT
Statistics
Matches: 190, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
222 1 0.01
223 81 0.43
224 108 0.57
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (224 bp):
ATTTTTCATGTTTTAGACACTATTATGCCAATTCATGTACTTTTAGGACCATTTCAGTCATTTTC
CATAATATAGGAATTACTATGTAATTTCATGCATTTTAGGTCATTTAAGAATTTTTTCATATATT
TAGAGACTATATGTAATTTCATGCATTTTAGAAACATTCTAGTCATTTTTCATGAAATAGGGATC
ATTTATGCTATTTCATGCATTTTAGGGTT
Found at i:276742 original size:29 final size:29
Alignment explanation
Indices: 276709--276802 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
276699 TTCATTTTAG
*
276709 TAATTTGTCATATTTTAGAGACTTTTATA
1 TAATTTCTCATATTTTAGAGACTTTTATA
* *
276738 TAATTTCACGTATTTTAG-GACTATTT-TA
1 TAATTTCTCATATTTTAGAGACT-TTTATA
* * * * *
276766 GTCATTTTTTATATTTTAGAGACTATTATG
1 -TAATTTCTCATATTTTAGAGACTTTTATA
276796 TAATTTC
1 TAATTTC
276803 ATGCATTTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
28 6 0.12
29 38 0.78
30 5 0.10
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.52
Consensus pattern (29 bp):
TAATTTCTCATATTTTAGAGACTTTTATA
Found at i:276810 original size:29 final size:29
Alignment explanation
Indices: 276719--276813 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 29
276709 TAATTTGTCA
* * *
276719 TATTTTAGAGACTTTTATATAATTTCACG
1 TATTTTAGAGACTATTATGTAATTTCATG
* * ** *
276748 TATTTTAG-GACTATTTTAGTCATTTTTTA
1 TATTTTAGAGACTATTAT-GTAATTTCATG
276777 TATTTTAGAGACTATTATGTAATTTCATG
1 TATTTTAGAGACTATTATGTAATTTCATG
*
276806 CATTTTAG
1 TATTTTAG
276814 CACCATTCTA
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
28 7 0.14
29 35 0.70
30 8 0.16
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (29 bp):
TATTTTAGAGACTATTATGTAATTTCATG
Found at i:276841 original size:58 final size:58
Alignment explanation
Indices: 276718--276833 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 58
276708 GTAATTTGTC
* * * * * * *
276718 ATATTTTAGAGACTTTTATATAATTTCACGTATTTTAGGACTATTTTAGTCATTTTTT
1 ATATTTTAGAGACTATTATATAATTTCACGCATTTTAGCACCATTCTAGACATTTTCT
* *
276776 ATATTTTAGAGACTATTATGTAATTTCATGCATTTTAGCACCATTCTA-ACA-TTTCT
1 ATATTTTAGAGACTATTATATAATTTCACGCATTTTAGCACCATTCTAGACATTTTCT
276832 AT
1 AT
276834 GCATTTTAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
56 6 0.12
57 2 0.04
58 41 0.84
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.49
Consensus pattern (58 bp):
ATATTTTAGAGACTATTATATAATTTCACGCATTTTAGCACCATTCTAGACATTTTCT
Found at i:278524 original size:20 final size:21
Alignment explanation
Indices: 278494--278532 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
278484 TGATTTCCCG
278494 TGTGAATGTATCGATACAATT
1 TGTGAATGTATCGATACAATT
278515 TGTG-ATGTATCGATACAA
1 TGTGAATGTATCGATACAA
278533 GTATTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (21 bp):
TGTGAATGTATCGATACAATT
Found at i:278693 original size:20 final size:21
Alignment explanation
Indices: 278646--278698 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
278636 GCCAATGACC
**
278646 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
278667 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
278687 TGTATCGATACA
1 TGTATCGATACA
278699 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:278704 original size:13 final size:13
Alignment explanation
Indices: 278686--278710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
278676 ACATTTGGTC
278686 ATGTATCGATACA
1 ATGTATCGATACA
278699 ATGTATCGATAC
1 ATGTATCGATAC
278711 TGTGCAACAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:283008 original size:21 final size:21
Alignment explanation
Indices: 282982--283040 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
282972 TACAAAGATC
282982 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
283003 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
283024 AATGTATCGATACATTT
1 AATGTATCGATACATTT
283041 CCTTGGCAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:283114 original size:21 final size:19
Alignment explanation
Indices: 283068--283121 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
283058 TAGCGATACA
283068 TTGTATCGATACAACACTT
1 TTGTATCGATACAACACTT
*
283087 ATGTATCGATACAATTC-CTGT
1 TTGTATCGATACAA--CACT-T
283108 TTGTATCGATACAA
1 TTGTATCGATACAA
283122 ATCGTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.43
20 2 0.07
21 15 0.50
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACAACACTT
Found at i:283611 original size:10 final size:10
Alignment explanation
Indices: 283596--283621 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
283586 TAAATAATAA
283596 TTAGTCCAAT
1 TTAGTCCAAT
283606 TTAGTCCAAT
1 TTAGTCCAAT
283616 TTAGTC
1 TTAGTC
283622 TTATCCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (10 bp):
TTAGTCCAAT
Found at i:287358 original size:15 final size:16
Alignment explanation
Indices: 287326--287356 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
287316 TTTATGTACT
*
287326 TTTATATTTAAAAAAA
1 TTTAAATTTAAAAAAA
287342 TTTAAATTTAAAAAA
1 TTTAAATTTAAAAAA
287357 TTACTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAAAAAAA
Found at i:287978 original size:48 final size:48
Alignment explanation
Indices: 287913--288028 Score: 180
Period size: 48 Copynumber: 2.4 Consensus size: 48
287903 TTTGCAATCG
287913 TAAAACTTGATTACACGTTAAATCATTCACTAGATAAGTTTTGTAAGTA
1 TAAAACTTGATTACACGTTAAATCATTCACTAGATAAG-TTTGTAAGTA
* * * *
287962 -CAAACTTGATTGCACGTTAGATCATTCACTAGATAAGTTTGTAATTA
1 TAAAACTTGATTACACGTTAAATCATTCACTAGATAAGTTTGTAAGTA
288009 TAAAACTTGATTACACGTTA
1 TAAAACTTGATTACACGTTA
288029 TAAATCGTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
47 9 0.15
48 51 0.85
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (48 bp):
TAAAACTTGATTACACGTTAAATCATTCACTAGATAAGTTTGTAAGTA
Found at i:296521 original size:12 final size:12
Alignment explanation
Indices: 296501--296570 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
296491 AAGTGTAGAG
296501 ATGGGTTCAGAC
1 ATGGGTTCAGAC
* *
296513 ATAGGTTCAAAC
1 ATGGGTTCAGAC
**
296525 CCGGGTTCAGAC
1 ATGGGTTCAGAC
*** *
296537 ACAAGTTCAAAC
1 ATGGGTTCAGAC
*
296549 ATGGGTTCATAC
1 ATGGGTTCAGAC
296561 ATGGGTTCAG
1 ATGGGTTCAG
296571 CTTGATTCTT
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (12 bp):
ATGGGTTCAGAC
Found at i:296535 original size:24 final size:24
Alignment explanation
Indices: 296503--296569 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
296493 GTGTAGAGAT
*
296503 GGGTTCAGACATAGGTTCAAACCC
1 GGGTTCAGACATAGGTTCAAACAC
* * *
296527 GGGTTCAGACACAAGTTCAAACAT
1 GGGTTCAGACATAGGTTCAAACAC
* *
296551 GGGTTCATACATGGGTTCA
1 GGGTTCAGACATAGGTTCA
296570 GCTTGATTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (24 bp):
GGGTTCAGACATAGGTTCAAACAC
Found at i:320777 original size:14 final size:15
Alignment explanation
Indices: 320760--320816 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 15
320750 TTTAAATTTT
320760 TAATT-TTATTATTA
1 TAATTATTATTATTA
*
320774 TAA-T-TTATTTTTA
1 TAATTATTATTATTA
* *
320787 AAATTATT-TTTTTA
1 TAATTATTATTATTA
*
320801 TAATTATTTTTATTA
1 TAATTATTATTATTA
320816 T
1 T
320817 TTTTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 11 0.31
14 17 0.47
15 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTATTATTATTA
Found at i:320782 original size:13 final size:13
Alignment explanation
Indices: 320755--320827 Score: 64
Period size: 12 Copynumber: 5.8 Consensus size: 13
320745 AATAGTTTAA
*
320755 ATTTTTA-ATTTT
1 ATTTTTATAATTT
*
320767 ATTATTATAATTT
1 ATTTTTATAATTT
*
320780 ATTTTTAAAATTAT
1 ATTTTTATAATT-T
*
320794 TTTTTTATAA-TT
1 ATTTTTATAATTT
*
320806 ATTTTTATTA-TT
1 ATTTTTATAATTT
320818 -TTTTTATAAT
1 ATTTTTATAAT
320828 ATGTGATAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
11 8 0.16
12 17 0.35
13 15 0.31
14 9 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTTATAATTT
Found at i:320810 original size:11 final size:12
Alignment explanation
Indices: 320765--320827 Score: 65
Period size: 12 Copynumber: 5.1 Consensus size: 12
320755 ATTTTTAATT
*
320765 TTATTATTATAA
1 TTATTTTTATAA
*
320777 TTTATTTTTAAAA
1 -TTATTTTTATAA
320790 TTATTTTTTTATAA
1 TTA--TTTTTATAA
*
320804 TTATTTTTATTA
1 TTATTTTTATAA
320816 TT-TTTTTATAA
1 TTATTTTTATAA
320827 T
1 T
320828 ATGTGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
11 9 0.21
12 13 0.30
13 10 0.23
14 11 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTTTATAA
Found at i:320819 original size:23 final size:24
Alignment explanation
Indices: 320755--320827 Score: 87
Period size: 23 Copynumber: 3.0 Consensus size: 24
320745 AATAGTTTAA
*
320755 ATTTTTAATT-TTATTATTATAATTT
1 ATTTTTAATTATT-TTTTTATAA-TT
320780 ATTTTTAAAATTATTTTTTTATAATT
1 ATTTTT--AATTATTTTTTTATAATT
320806 ATTTTT-ATTATTTTTTTATAAT
1 ATTTTTAATTATTTTTTTATAAT
320828 ATGTGATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
23 16 0.36
25 6 0.14
26 8 0.18
27 12 0.27
28 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTTTAATTATTTTTTTATAATT
Found at i:320907 original size:20 final size:21
Alignment explanation
Indices: 320878--320918 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
320868 ATTCAAATAA
320878 TTTAA-CTTTTAATTTATTTT
1 TTTAATCTTTTAATTTATTTT
* *
320898 TTTAATTTTTTATTTTATTTT
1 TTTAATCTTTTAATTTATTTT
320919 GTTTCACCGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTAATCTTTTAATTTATTTT
Found at i:324992 original size:2 final size:2
Alignment explanation
Indices: 324979--325023 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
324969 TTAAGCGAAC
*
324979 AT AT AC AT 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 AT AT AT AT AT
325020 AT AT
1 AT AT
325024 GTGATGAAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:326508 original size:24 final size:23
Alignment explanation
Indices: 326462--326513 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
326452 CTAAATAATT
* *
326462 TTAAATACAATATAATTATATAA
1 TTAAATACAATATAATAAAATAA
326485 TATAAATACAATATTAA-AAAATAA
1 T-TAAATACAATA-TAATAAAATAA
326509 TTAAA
1 TTAAA
326514 ACACAACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 5 0.20
24 17 0.68
25 3 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
TTAAATACAATATAATAAAATAA
Found at i:328275 original size:3 final size:3
Alignment explanation
Indices: 328267--328293 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
328257 AGCTTCAGTT
328267 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
328294 AAATTCAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:330479 original size:14 final size:14
Alignment explanation
Indices: 330444--330493 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
330434 GTAAAAAAAC
*
330444 TTTAAAAAATATAA
1 TTTAAAAAATATAT
*
330458 TATAAAAAATATAT
1 TTTAAAAAATATAT
*
330472 TTTTAAAAA-A-AT
1 TTTAAAAAATATAT
330484 TTTAAAAAAT
1 TTTAAAAAAT
330494 TGATAAACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 10 0.33
13 1 0.03
14 19 0.63
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTAAAAAATATAT
Found at i:333978 original size:94 final size:94
Alignment explanation
Indices: 333808--333997 Score: 308
Period size: 94 Copynumber: 2.0 Consensus size: 94
333798 GATAGCTAGG
* *
333808 TATCATTTAACAGACAAATGCACATTTTAAAGATGATTTTGTTATTTACTTATTTGAAATTACAT
1 TATCATTTAACAGACAAATGCACATTTTAAAGATGATTTTGTTATTTACTTACTTGAAACTACAT
* **
333873 GGCAGTGGGATAAAGTGGCAAGGACTCTC
66 AGCAGCAGGATAAAGTGGCAAGGACTCTC
* *
333902 TATCATTTAACAGACAAATGCACATTTTAAAGATGATTTTTTTATTTGCTTACTTGAAACTACAT
1 TATCATTTAACAGACAAATGCACATTTTAAAGATGATTTTGTTATTTACTTACTTGAAACTACAT
*
333967 AGTAGCAGGATAAAGTGGCAAGGACTCTC
66 AGCAGCAGGATAAAGTGGCAAGGACTCTC
333996 TA
1 TA
333998 ACAAAAAGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (94 bp):
TATCATTTAACAGACAAATGCACATTTTAAAGATGATTTTGTTATTTACTTACTTGAAACTACAT
AGCAGCAGGATAAAGTGGCAAGGACTCTC
Found at i:343882 original size:42 final size:42
Alignment explanation
Indices: 343834--343941 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 42
343824 TTTACTTTTT
343834 AATATTACAAGCTTTTATAAACATTTTAACTATTTACAATTC
1 AATATTACAAGCTTTTATAAACATTTTAACTATTTACAATTC
* ** *
343876 ATTATTACAAGCTTTTATAAACATTTTAACTATTTACTTTTT
1 AATATTACAAGCTTTTATAAACATTTTAACTATTTACAATTC
343918 AATATTACAAGCTTTTAT-AACATT
1 AATATTACAAGCTTTTATAAACATT
343942 GAAAAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 6 0.10
42 55 0.90
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (42 bp):
AATATTACAAGCTTTTATAAACATTTTAACTATTTACAATTC
Found at i:344379 original size:17 final size:19
Alignment explanation
Indices: 344349--344387 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
344339 GAAGTTGATT
*
344349 AAAAAATAATAAAT-AACA
1 AAAAAAGAATAAATAAACA
344367 AAAAAAGAA-AAATAAACA
1 AAAAAAGAATAAATAAACA
344385 AAA
1 AAA
344388 TAATGGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (19 bp):
AAAAAAGAATAAATAAACA
Found at i:344924 original size:11 final size:11
Alignment explanation
Indices: 344908--344960 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
344898 TCTTTTTTTG
344908 TATTTATATTA
1 TATTTATATTA
344919 TATTTATATTA
1 TATTTATATTA
*
344930 TTTTTATATTA
1 TATTTATATTA
* *
344941 AAATTATTATT-
1 TATTTA-TATTA
344952 TATTTATAT
1 TATTTATAT
344961 AATTTTTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 3 0.09
11 28 0.80
12 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATATTA
Done.