Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold336
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: 179563
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:129277 original size:32 final size:33
Alignment explanation
Indices: 129220--129284 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
129210 TACAAGCCAA
129220 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
129254 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
129285 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:129278 original size:19 final size:19
Alignment explanation
Indices: 129220--129284 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
129210 TACAAGCCAA
129220 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
129241 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
129254 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
129273 TGTATCGATACA
1 TGTATCGATACA
129285 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:131831 original size:13 final size:13
Alignment explanation
Indices: 131813--131876 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
131803 ATAATCCCCC
131813 TGTATCGATACAG
1 TGTATCGATACAG
*
131826 TGTATCGATACAT
1 TGTATCGATACAG
131839 TGTATCGATACAG
1 TGTATCGATACAG
*
131852 TGTATCGATACAT
1 TGTATCGATACAG
131865 TGTATCGATACA
1 TGTATCGATACA
131877 AAGAAAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:131842 original size:26 final size:26
Alignment explanation
Indices: 131813--131876 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
131803 ATAATCCCCC
131813 TGTATCGATACAGTGTATCGATACAT
1 TGTATCGATACAGTGTATCGATACAT
131839 TGTATCGATACAGTGTATCGATACAT
1 TGTATCGATACAGTGTATCGATACAT
131865 TGTATCGATACA
1 TGTATCGATACA
131877 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAT
Found at i:133978 original size:15 final size:15
Alignment explanation
Indices: 133958--133988 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
133948 ATTTCGTTTG
*
133958 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
133973 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
133988 G
1 G
133989 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:136227 original size:19 final size:19
Alignment explanation
Indices: 136203--136270 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
136193 AATTCAACAA
136203 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
136222 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
136237 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
136254 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
136271 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:136242 original size:13 final size:13
Alignment explanation
Indices: 136224--136248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136214 ACATAAGTTT
136224 TGTATCGATACAA
1 TGTATCGATACAA
136237 TGTATCGATACA
1 TGTATCGATACA
136249 TAAGTATTGT
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:136246 original size:32 final size:32
Alignment explanation
Indices: 136205--136267 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
136195 TTCAACAATT
*
136205 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
136237 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
136268 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:136328 original size:13 final size:13
Alignment explanation
Indices: 136310--136335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
136300 CATTTTTCTG
136310 TGTATCGATACAT
1 TGTATCGATACAT
136323 TGTATCGATACAT
1 TGTATCGATACAT
136336 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:136332 original size:33 final size:33
Alignment explanation
Indices: 136290--136356 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
136280 GCCAAGGAAA
***
136290 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
136323 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
136356 T
1 T
136357 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:138816 original size:54 final size:51
Alignment explanation
Indices: 138684--138817 Score: 155
Period size: 51 Copynumber: 2.6 Consensus size: 51
138674 TTGAGTTTAT
* * * *
138684 CAATTCTCCACAATCGAGGATATTCCAACTCCGATTTTATATTCAAGACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCGATTTTATATTCAAAACAC
* *
138735 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTAT-TTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATATT-C--AAAACAC
138788 CAATTTCTTCACAATCGGGGATACTCCAAC
1 CAA-TTCTTCACAATCGGGGATACTCCAAC
138818 CCCGTTGATC
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
50 4 0.06
51 33 0.48
53 8 0.12
54 21 0.30
55 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (51 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCGATTTTATATTCAAAACAC
Found at i:138831 original size:27 final size:27
Alignment explanation
Indices: 138801--138876 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
138791 TTTCTTCACA
138801 ATCGGGGATACTCCAACCCCGTTGA-TC
1 ATCGGGGATACTCCAACCCCGTT-ATTC
*
138828 ATCGGGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTA-TTC
*
138856 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
138877 ACTTTATTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.02
27 23 0.53
28 19 0.44
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTC
Found at i:139049 original size:28 final size:28
Alignment explanation
Indices: 139017--139088 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
139007 TCACAATCGA
* * **
139017 GGATACTCCAACCTCGTTATTTCATTGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
139045 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
139073 GGATACTCCAATCCCG
1 GGATACTCCAACCCCG
139089 ATTTTTTTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:139133 original size:213 final size:212
Alignment explanation
Indices: 138687--139089 Score: 535
Period size: 212 Copynumber: 1.9 Consensus size: 212
138677 AGTTTATCAA
* * * * * * *
138687 TTCTCCACAATCGAGGATATTCCAA-CTCCGATTTTATATTCAAGACACTAATTTTCTATAATCG
1 TTCTCCACAACCGGGGATACTCTAATC-CCGGTTTTATATTCAAAACACCAATTTTCTATAATCG
* *
138751 GGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCA
65 GGGATACTCCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
* * *
138816 ACCCCGTTGATCATCGGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTCCAACCCCGACTT
130 ACCCCGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
138881 TATTGCTAAAACACTAAT
195 TATTGCTAAAACACTAAT
* * * * * *
138899 TTTTCCTCAATCGGGGATACTCTAATCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCG
1 TTCTCCACAACCGGGGATACTCTAATCCCGGTTTTATATTCAAAACACCAATTTT-CTATAATCG
* *
138964 GGGATATTCCAACTCCGATTCTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCA
65 GGGATACTCCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
* * *
139027 ACCTCGTT-ATTTCATTGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCCGA
130 ACCCCGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGA
139090 TTTTTTTTCT
Statistics
Matches: 166, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
210 1 0.01
211 27 0.16
212 103 0.62
213 35 0.21
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TTCTCCACAACCGGGGATACTCTAATCCCGGTTTTATATTCAAAACACCAATTTTCTATAATCGG
GGATACTCCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
CCCCGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
ATTGCTAAAACACTAAT
Found at i:145361 original size:55 final size:55
Alignment explanation
Indices: 145273--148220 Score: 4813
Period size: 55 Copynumber: 53.4 Consensus size: 55
145263 CTTTTAGCCC
*
145273 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
145328 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
145383 TTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCT
1 TTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--T
*
145440 TTT--AGTCCGCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
145493 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
145548 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
145603 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
145658 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
145713 TTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCT
1 TTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--T
*
145770 TTT--AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
145823 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
145878 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
145933 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--T
*
145990 TTT--AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
146043 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
146098 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
* *
146153 TTTTCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
146208 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
146263 TTTCCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
146318 TTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCT
1 TTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--T
*
146375 TTT--AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
146428 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
146483 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
146538 TTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCT
1 TTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--T
*
146595 TTT--AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
146648 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
146703 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
146758 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
146813 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
146868 TTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCT
1 TTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--T
*
146925 TTT--AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
146978 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
147033 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
147088 TTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCT
1 TTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--T
*
147145 TTT--AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
147198 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
147253 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
* *
147308 TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-T
* * *
147364 TTT-C-GTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCAT
*
147423 TTCCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
* *
147478 TTTCCAGTCCTCAAAGAGCAGGACGCCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
147533 TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
* * *
147588 TTTCCAATCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-T
* *
147644 TTT-C-GTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCA--T
*
147705 TTT--AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
147758 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
* * *
147813 TTTCCAGTCCTCAAAGAGTAGGACGCCTCTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
147868 TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
* * *
147923 TTTTCAATCCTCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
147978 TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
148033 TTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACC
1 TTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-T
* *
148089 TTT-CAGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCACC
1 TTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-T
* * ** *
148144 TTT-CAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGTGTTTGTGGCAT
1 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
** * *
148198 TTTTTACTCCTCAATGAGCAGGA
1 TTTCCAGTCCTCAAAGAGCAGGA
148221 TACACTTTAT
Statistics
Matches: 2744, Mismatches: 85, Indels: 128
0.93 0.03 0.04
Matches are distributed among these distances:
53 32 0.01
54 56 0.02
55 2504 0.91
56 23 0.01
57 28 0.01
59 5 0.00
60 49 0.02
61 47 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
Found at i:145523 original size:27 final size:27
Alignment explanation
Indices: 145493--145575 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
145483 TTGGTGGCAT
145493 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
145520 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
145548 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
145575 T
1 T
145576 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:145853 original size:27 final size:27
Alignment explanation
Indices: 145823--145905 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
145813 TTGGTGGCAT
145823 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
145850 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
145878 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
145905 T
1 T
145906 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:146073 original size:27 final size:27
Alignment explanation
Indices: 146043--146125 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
146033 TTGGTGGCAT
146043 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
146070 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
146098 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
146125 T
1 T
146126 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:146458 original size:27 final size:27
Alignment explanation
Indices: 146428--146510 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
146418 TTGGTGGCAT
146428 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
146455 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
146483 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
146510 T
1 T
146511 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:146678 original size:27 final size:27
Alignment explanation
Indices: 146648--146730 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
146638 TTGGTGGCAT
146648 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
146675 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
146703 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
146730 T
1 T
146731 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:147008 original size:27 final size:27
Alignment explanation
Indices: 146978--147060 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
146968 TTGGTGGCAT
146978 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
147005 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
147033 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
147060 T
1 T
147061 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:147228 original size:27 final size:27
Alignment explanation
Indices: 147198--147335 Score: 68
Period size: 27 Copynumber: 5.0 Consensus size: 27
147188 TTGGTGGCAT
147198 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
147225 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
147253 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
147280 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
147308 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
147335 T
1 T
147336 CTCAAAGCCC
Statistics
Matches: 73, Mismatches: 28, Indels: 20
0.60 0.23 0.17
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 21 0.29
28 20 0.27
29 10 0.14
30 6 0.08
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:149076 original size:19 final size:19
Alignment explanation
Indices: 149052--149151 Score: 107
Period size: 19 Copynumber: 5.9 Consensus size: 19
149042 AATTCAACAA
149052 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
149071 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
149086 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
149103 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
149118 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
149135 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
149152 TTAGCTACTG
Statistics
Matches: 69, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.32
15 4 0.06
17 4 0.06
19 39 0.57
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:149091 original size:13 final size:13
Alignment explanation
Indices: 149073--149129 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
149063 ACATAAGTTT
149073 TGTATCGATACAA
1 TGTATCGATACAA
149086 TGTATCGATACATAA
1 TGTATCGATAC--AA
149101 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
149118 TGTATCGATACA
1 TGTATCGATACA
149130 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:149095 original size:32 final size:32
Alignment explanation
Indices: 149054--149148 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
149044 TTCAACAATT
149054 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
149086 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
149118 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
149149 TAATTAGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:149209 original size:13 final size:13
Alignment explanation
Indices: 149191--149216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
149181 CATTTTTCTG
149191 TGTATCGATACAT
1 TGTATCGATACAT
149204 TGTATCGATACAT
1 TGTATCGATACAT
149217 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:149213 original size:33 final size:33
Alignment explanation
Indices: 149171--149237 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
149161 GCCAAGGAAA
***
149171 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
149204 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
149237 T
1 T
149238 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:151630 original size:51 final size:53
Alignment explanation
Indices: 151566--151907 Score: 178
Period size: 52 Copynumber: 6.5 Consensus size: 53
151556 AGTTTATCAA
* * * *
151566 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
151617 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
151671 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * * *
151729 TAT-TTC-CGA--GGGGATACTCCAACCCCGGTTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * * *
151778 TT-TTCCTCAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAA-T
* * * *
151831 TTCCTT--TAATCGGGGATATTCCAACTCCGATTCTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
151883 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
151908 CTCGTTATTT
Statistics
Matches: 223, Mismatches: 39, Indels: 57
0.70 0.12 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 33 0.15
52 80 0.36
53 31 0.14
54 33 0.15
55 23 0.10
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:151710 original size:27 final size:28
Alignment explanation
Indices: 151680--151755 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
151670 TTTCTTCACA
151680 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
151707 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
151735 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
151756 GTTTTATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:151927 original size:28 final size:30
Alignment explanation
Indices: 151891--151959 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 30
151881 ATTTTTCACA
* *
151891 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
151919 ATCGGGGATACTCCAACCCCGTTACTTTCG
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
151949 A--GGGGATACTC
1 ATCGGGGATACTC
151960 TAATCCCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACTTTCG
Found at i:151940 original size:212 final size:212
Alignment explanation
Indices: 151573--151959 Score: 602
Period size: 212 Copynumber: 1.8 Consensus size: 212
151563 CAATTCTCCA
* *
151573 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACT
1 CAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
* * *
151638 CTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTT
66 CCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTT
151703 AATCATCGGGGATACTCCAACCCCGTTA-TTTCCGAGGGGATACTCCAACCCCGGTTTTATCGCT
131 AATCATCGGGGATACTCCAACCCCGTTACTTT-CGAGGGGATACTCCAACCCCGGTTTTATCGCT
151767 AAAACACTAATTTTTCCT
195 AAAACACTAATTTTTCCT
* * *
151785 CAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGATA
1 CAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* * *
151849 TTCCAACTCCGATTCTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCG
64 CTCCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
*
151912 TTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTC
129 TTA-ATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTC
151960 TAATCCCGAT
Statistics
Matches: 159, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
211 29 0.18
212 94 0.59
213 36 0.23
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTT
AATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGTTTTATCGCTA
AAACACTAATTTTTCCT
Found at i:155194 original size:13 final size:13
Alignment explanation
Indices: 155176--155201 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
155166 CAATTTTTTG
155176 TGTATCGATACAT
1 TGTATCGATACAT
155189 TGTATCGATACAT
1 TGTATCGATACAT
155202 ACTTTGTGTA
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:155213 original size:32 final size:33
Alignment explanation
Indices: 155156--155219 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
155146 TACAAGCCAA
**
155156 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
155189 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
155220 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:156994 original size:20 final size:20
Alignment explanation
Indices: 156971--157023 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
156961 ACATAAGTAA
156971 ATGTATCAATACATTCCTAG
1 ATGTATCAATACATTCCTAG
**
156991 ATGTATCGGT-CTATTCCTAG
1 ATGTATCAATAC-ATTCCTAG
157011 ATGTATCAATACA
1 ATGTATCAATACA
157024 ATTTGTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCAATACATTCCTAG
Found at i:162277 original size:4 final size:4
Alignment explanation
Indices: 162268--162302 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
162258 TTAAATTAGT
* *
162268 TTTA TTTA TTTA TTTA ATTA TTTA TTTA TTCA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
162303 TTTCCACGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:169246 original size:28 final size:28
Alignment explanation
Indices: 169214--169276 Score: 110
Period size: 28 Copynumber: 2.2 Consensus size: 28
169204 AATGCCACCC
169214 TTTGTATTTGTCAAATATGGTGGTT-TCT
1 TTTGTATTTGTCAAATATGGTGGTTAT-T
169242 TTTGTATTTGTCAAATATGGTGGTTATT
1 TTTGTATTTGTCAAATATGGTGGTTATT
169270 TTTGTAT
1 TTTGTAT
169277 GTAAAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.56
Consensus pattern (28 bp):
TTTGTATTTGTCAAATATGGTGGTTATT
Found at i:169285 original size:28 final size:28
Alignment explanation
Indices: 169226--169285 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
169216 TGTATTTGTC
* ***
169226 AAATATGGTGGTTTCTTTTGTATTTGTC
1 AAATATGGTGGTTTCTTTTGTATGTAAA
169254 AAATATGGTGGTTAT-TTTTGTATGTAAA
1 AAATATGGTGGTT-TCTTTTGTATGTAAA
169282 AAAT
1 AAAT
169286 GGTGGCTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.48
Consensus pattern (28 bp):
AAATATGGTGGTTTCTTTTGTATGTAAA
Found at i:169307 original size:24 final size:24
Alignment explanation
Indices: 169248--169316 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
169238 TTCTTTTGTA
* * *
169248 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
* *
169274 TATGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
169298 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
169317 AATTTTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 21 0.60
26 14 0.40
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:169996 original size:16 final size:16
Alignment explanation
Indices: 169975--170024 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
169965 AAAAAGATAT
*
169975 ATGATTATTTGGTGAA
1 ATGATTATTTGGTAAA
169991 ATGATTATTTGGTAAA
1 ATGATTATTTGGTAAA
* *
170007 ATAATTATTTGATAAA
1 ATGATTATTTGGTAAA
170023 AT
1 AT
170025 TGGGACATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (16 bp):
ATGATTATTTGGTAAA
Found at i:170457 original size:22 final size:21
Alignment explanation
Indices: 170432--170473 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
170422 TAGTAGTCTC
170432 ATATCATTATTGATCATCTCCA
1 ATATCATTATTGATC-TCTCCA
* *
170454 ATATCCTTATTGGTCTCTCC
1 ATATCATTATTGATCTCTCC
170474 TTCAAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (21 bp):
ATATCATTATTGATCTCTCCA
Found at i:174702 original size:7 final size:7
Alignment explanation
Indices: 174690--174730 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
174680 CAATCATCAT
174690 TTTTTAA
1 TTTTTAA
174697 TTTTTAA
1 TTTTTAA
174704 TTTTTAA
1 TTTTTAA
174711 TTTTTAA
1 TTTTTAA
174718 TTTTTAA
1 TTTTTAA
174725 TTTTTA
1 TTTTTA
174731 TATAATAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:174739 original size:21 final size:21
Alignment explanation
Indices: 174694--174740 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
174684 CATCATTTTT
**
174694 TAATTTTTAATTTTTAATTTT
1 TAATTTTTAATTTTTAATTAA
174715 TAATTTTTAATTTTT-ATATAA
1 TAATTTTTAATTTTTAAT-TAA
174736 TAATT
1 TAATT
174741 AACTCACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TAATTTTTAATTTTTAATTAA
Found at i:176233 original size:2 final size:2
Alignment explanation
Indices: 176221--176266 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
176211 AATATGCTAT
* *
176221 TA TA TA CA TA TA TA TG TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
176262 TA TA T
1 TA TA T
176267 TACAAGATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Done.