Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 50
Found at i:8933756 original size:56 final size:56
Alignment explanation
Indices: 8933670--8933779 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
8933660 GGGGGGGGGG
8933670 GGTAGGAGACTCAATCCCAGGCCATTGGAGAGAGATGAAGGAAGATCAACCACAGA
1 GGTAGGAGACTCAATCCCAGGCCATTGGAGAGAGATGAAGGAAGATCAACCACAGA
*
8933726 GGTAGGAGACTCAATCCCAGGCCATTGGAGAGAGATGAAGGAAGCTCAACCACA
1 GGTAGGAGACTCAATCCCAGGCCATTGGAGAGAGATGAAGGAAGATCAACCACA
8933780 AAGGCAAGCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.36, C:0.21, G:0.30, T:0.13
Consensus pattern (56 bp):
GGTAGGAGACTCAATCCCAGGCCATTGGAGAGAGATGAAGGAAGATCAACCACAGA
Found at i:8933989 original size:13 final size:13
Alignment explanation
Indices: 8933971--8933995 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8933961 TTTTTATTTT
8933971 TTAAATTCATATC
1 TTAAATTCATATC
8933984 TTAAATTCATAT
1 TTAAATTCATAT
8933996 TTTTTATTTT
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAATTCATATC
Found at i:8934020 original size:12 final size:12
Alignment explanation
Indices: 8934003--8934037 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8933993 TATTTTTTAT
8934003 TTTTTAAATATA
1 TTTTTAAATATA
8934015 TTTTTAAATATA
1 TTTTTAAATATA
8934027 --TTTAAATATA
1 TTTTTAAATATA
8934037 T
1 T
8934038 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
12 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTTAAATATA
Found at i:8934096 original size:38 final size:39
Alignment explanation
Indices: 8934008--8934098 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 39
8933998 TTTATTTTTT
8934008 AAATATATTTTTAAATATATTTAAATATATAAAATAAAAA
1 AAATATATTTTTAAATATA-TTAAATATATAAAATAAAAA
* *
8934048 AAA-ATA-TTTTAAATATA-TGAAT-T-TAAGATAAACATA
1 AAATATATTTTTAAATATATTAAATATATAAAATAAA-A-A
8934084 AAATATATTTTTAAA
1 AAATATATTTTTAAA
8934099 GTTAATATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
34 8 0.18
35 2 0.04
36 8 0.18
37 3 0.07
38 18 0.40
39 3 0.07
40 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (39 bp):
AAATATATTTTTAAATATATTAAATATATAAAATAAAAA
Found at i:8934112 original size:43 final size:45
Alignment explanation
Indices: 8934059--8934162 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 45
8934049 AAATATTTTA
*
8934059 AATATATGAATTTAAGA-TAAACATA-AAATATATTTTT-AAAGTT
1 AATATGTGAATTTAA-ATTAAACATATAAATATATTTTTCAAAGTT
* * * *
8934102 AATATGTGAA-TTAAATTTAATATATAAATTTATTTTTCAATGTT
1 AATATGTGAATTTAAATTAAACATATAAATATATTTTTCAAAGTT
*
8934146 AAGATGTGAA-TTAAATT
1 AATATGTGAATTTAAATT
8934163 TAATATATGA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
41 1 0.02
42 10 0.19
43 20 0.38
44 21 0.40
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (45 bp):
AATATGTGAATTTAAATTAAACATATAAATATATTTTTCAAAGTT
Found at i:8934153 original size:44 final size:43
Alignment explanation
Indices: 8934084--8934177 Score: 143
Period size: 44 Copynumber: 2.2 Consensus size: 43
8934074 GATAAACATA
* *
8934084 AAATATATTTTTAAAGTTAATATGTGAATTAAATTTAATATAT
1 AAATTTATTTTTAAAGTTAAGATGTGAATTAAATTTAATATAT
*
8934127 AAATTTATTTTTCAATGTTAAGATGTGAATTAAATTTAATATAT
1 AAATTTATTTTT-AAAGTTAAGATGTGAATTAAATTTAATATAT
*
8934171 GAATTTA
1 AAATTTA
8934178 AAATATATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 11 0.24
44 35 0.76
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.47
Consensus pattern (43 bp):
AAATTTATTTTTAAAGTTAAGATGTGAATTAAATTTAATATAT
Found at i:8934177 original size:13 final size:13
Alignment explanation
Indices: 8934159--8934295 Score: 77
Period size: 13 Copynumber: 11.5 Consensus size: 13
8934149 ATGTGAATTA
*
8934159 AATTTAATATATG
1 AATTTAAAATATG
8934172 AATTTAAAATAT-
1 AATTTAAAATATG
8934184 -ATTTAAAATAT-
1 AATTTAAAATATG
**
8934195 AAAATAAAA-ATG
1 AATTTAAAATATG
*
8934207 AATTTAAGATATG
1 AATTTAAAATATG
8934220 AATTTTAAAA-AT-
1 AA-TTTAAAATATG
*
8934232 -A---AAAACATG
1 AATTTAAAATATG
* *
8934241 ATTTTAAGATATG
1 AATTTAAAATATG
8934254 AATTT-AAA-AT-
1 AATTTAAAATATG
*
8934264 -ATTTAAAGTATG
1 AATTTAAAATATG
* *
8934276 AACTTAAGATATG
1 AATTTAAAATATG
8934289 AATTTAA
1 AATTTAA
8934296 GATAATTTAA
Statistics
Matches: 93, Mismatches: 17, Indels: 28
0.67 0.12 0.20
Matches are distributed among these distances:
7 4 0.04
8 2 0.02
9 4 0.04
10 2 0.02
11 18 0.19
12 14 0.15
13 43 0.46
14 6 0.06
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.37
Consensus pattern (13 bp):
AATTTAAAATATG
Found at i:8934187 original size:24 final size:24
Alignment explanation
Indices: 8934159--8934305 Score: 78
Period size: 24 Copynumber: 6.3 Consensus size: 24
8934149 ATGTGAATTA
*
8934159 AATTTAATATATGAATTTAAAAT-
1 AATTTAAAATATGAATTTAAAATG
* * *
8934182 ATATTTAAAATATAAAATAAAAATG
1 A-ATTTAAAATATGAATTTAAAATG
* *
8934207 AATTTAAGATATGAATTTTAAA--
1 AATTTAAAATATGAATTTAAAATG
* * *
8934229 AA-TAAAAACATGATTTTAAGATATG
1 AATTTAAAATATGAATTTAA-A-ATG
8934254 AATTT-AAA-AT--ATTTAAAGTATG
1 AATTTAAAATATGAATTTAAA--ATG
* * *
8934276 AACTTAAGATATGAATTTAAGAT-
1 AATTTAAAATATGAATTTAAAATG
8934299 AATTTAA
1 AATTTAA
8934306 GAATCTAAAA
Statistics
Matches: 92, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
21 13 0.14
22 16 0.17
23 10 0.11
24 40 0.43
25 6 0.07
26 7 0.08
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.37
Consensus pattern (24 bp):
AATTTAAAATATGAATTTAAAATG
Found at i:8934275 original size:22 final size:23
Alignment explanation
Indices: 8934241--8934287 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
8934231 TAAAAACATG
* *
8934241 ATTTTAAGATATGAATTTAAAAT
1 ATTTAAAGATATGAACTTAAAAT
*
8934264 ATTTAAAG-TATGAACTTAAGAT
1 ATTTAAAGATATGAACTTAAAAT
8934286 AT
1 AT
8934288 GAATTTAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTTAAAGATATGAACTTAAAAT
Found at i:8934290 original size:35 final size:35
Alignment explanation
Indices: 8934160--8934305 Score: 122
Period size: 35 Copynumber: 4.2 Consensus size: 35
8934150 TGTGAATTAA
* * *
8934160 ATTTAATATATGAATTTAAAATAT--ATTTAAAAT
1 ATTTAAAACATGAATTTAAGATATGAATTTAAAAT
*
8934193 ATAAAATAAAA-ATGAATTTAAGATATGAATTTTAAAA-
1 AT---TTAAAACATGAATTTAAGATATGAA-TTTAAAAT
* *
8934230 A-TAAAAACATGATTTTAAGATATGAATTTAAAAT
1 ATTTAAAACATGAATTTAAGATATGAATTTAAAAT
** * *
8934264 ATTTAAAGTATGAACTTAAGATATGAATTTAAGAT
1 ATTTAAAACATGAATTTAAGATATGAATTTAAAAT
8934299 AATTTAA
1 -ATTTAA
8934306 GAATCTAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
33 13 0.14
34 18 0.20
35 41 0.45
36 10 0.11
37 2 0.02
38 7 0.08
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (35 bp):
ATTTAAAACATGAATTTAAGATATGAATTTAAAAT
Found at i:8935281 original size:28 final size:29
Alignment explanation
Indices: 8935217--8935281 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
8935207 TATTTTCAAC
*
8935217 AAAAAAAAAGTTTGGTTCAATTAACGATTA
1 AAAAAAAAAGTTTGATTCAATT-ACGATTA
*
8935247 AAGAAAAAAATTTTGATT-AATT-CGATTA
1 AA-AAAAAAAGTTTGATTCAATTACGATTA
*
8935275 ATAAAAA
1 AAAAAAA
8935282 TTCGTTTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.16
28 7 0.23
30 6 0.19
31 13 0.42
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.31
Consensus pattern (29 bp):
AAAAAAAAAGTTTGATTCAATTACGATTA
Found at i:8942851 original size:2 final size:2
Alignment explanation
Indices: 8942844--8942876 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8942834 TGTACTTTTC
*
8942844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8942877 CGTAATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8943880 original size:4 final size:4
Alignment explanation
Indices: 8943871--8943973 Score: 170
Period size: 4 Copynumber: 25.8 Consensus size: 4
8943861 GTAAGAGGAT
*
8943871 TATA TATA TACA TATA TATA TATA TATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
8943919 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TTTA TTTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
8943967 TTTA TAT
1 TATA TAT
8943974 TTCAAGAGTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 95 1.00
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (4 bp):
TATA
Found at i:8943975 original size:6 final size:6
Alignment explanation
Indices: 8943871--8943973 Score: 170
Period size: 6 Copynumber: 17.2 Consensus size: 6
8943861 GTAAGAGGAT
*
8943871 TATATA TATACA TATATA TATATA TATATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* *
8943919 TATATA TATATA TATATA TATATA TATATA TATATA TATATT TATTTA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
8943967 TTTATA T
1 TATATA T
8943974 TTCAAGAGTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 90 1.00
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (6 bp):
TATATA
Found at i:8944580 original size:17 final size:18
Alignment explanation
Indices: 8944550--8944593 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
8944540 TTATGAGGTA
*
8944550 AAATAATATTATTATTAT
1 AAATAATATAATTATTAT
*
8944568 AAA-AATATAATTATTTT
1 AAATAATATAATTATTAT
8944585 AAATAATAT
1 AAATAATAT
8944594 CTAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAATATAATTATTAT
Found at i:8947678 original size:22 final size:22
Alignment explanation
Indices: 8947650--8947701 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
8947640 AGTGACCCAA
8947650 TATCGATATTAGATACCTTCAG
1 TATCGATATTAGATACCTTCAG
8947672 TATCGATATTAGATACCTTCAG
1 TATCGATATTAGATACCTTCAG
8947694 TATCGATA
1 TATCGATA
8947702 CCAAAGGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (22 bp):
TATCGATATTAGATACCTTCAG
Found at i:8953102 original size:27 final size:25
Alignment explanation
Indices: 8953072--8953176 Score: 106
Period size: 27 Copynumber: 4.1 Consensus size: 25
8953062 AAGAGACAAG
* *
8953072 AAAAACAAACATAATAGAAGCAAAGAA
1 AAAAACAAAGA-AAAAGAA-CAAAGAA
* *
8953099 AAAAA-ATAGAAAAAGAATAAAGAA
1 AAAAACAAAGAAAAAGAACAAAGAA
*
8953123 AAAAGCAAAGAGAAAAGAAACAAAGAA
1 AAAAACAAAGA-AAAAG-AACAAAGAA
8953150 AAAAATCAAAGAAAAAGAA-AAAGAA
1 AAAAA-CAAAGAAAAAGAACAAAGAA
8953175 AA
1 AA
8953177 GAGCAAAAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
24 10 0.15
25 18 0.27
26 10 0.15
27 22 0.33
28 6 0.09
ACGTcount: A:0.76, C:0.06, G:0.13, T:0.05
Consensus pattern (25 bp):
AAAAACAAAGAAAAAGAACAAAGAA
Found at i:8953108 original size:19 final size:20
Alignment explanation
Indices: 8953084--8953142 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
8953074 AAACAAACAT
8953084 AATAGAAGCAAAGAAAAA-A
1 AATAGAAGCAAAGAAAAAGA
8953103 AATAGAA--AAAGAATAAAGA
1 AATAGAAGCAAAGAA-AAAGA
8953122 AA-A-AAGCAAAGAGAAAAGA
1 AATAGAAGCAAAGA-AAAAGA
8953141 AA
1 AA
8953143 CAAAGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
17 8 0.23
18 4 0.11
19 22 0.63
20 1 0.03
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (20 bp):
AATAGAAGCAAAGAAAAAGA
Found at i:8953124 original size:12 final size:11
Alignment explanation
Indices: 8953093--8953178 Score: 52
Period size: 11 Copynumber: 7.5 Consensus size: 11
8953083 TAATAGAAGC
8953093 AAAGAAAAA-A
1 AAAGAAAAAGA
8953103 AATAGAAAAAGA
1 AA-AGAAAAAGA
* *
8953115 ATA-AAGAA-A
1 AAAGAAAAAGA
*
8953124 AAAGCAAAGAGA
1 AAAG-AAAAAGA
8953136 AAAGAAACAAAGA
1 AAAG-AA-AAAGA
*
8953149 AAAAAATCAAAGAA
1 AAAGAA--AAAG-A
8953163 AAAGAAAAAGA
1 AAAGAAAAAGA
8953174 AAAGA
1 AAAGA
8953179 GCAAAAAGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
9 3 0.05
10 6 0.10
11 17 0.29
12 15 0.25
13 12 0.20
14 6 0.10
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:8953124 original size:13 final size:12
Alignment explanation
Indices: 8953093--8953190 Score: 76
Period size: 13 Copynumber: 7.7 Consensus size: 12
8953083 TAATAGAAGC
8953093 AAAGAAAAA-AA
1 AAAGAAAAAGAA
*
8953104 ATAGAAAAAGAA
1 AAAGAAAAAGAA
*
8953116 TAAAGAAAAA-AGC
1 -AAAGAAAAAGA-A
8953129 AAAGAGAAAAGAAA
1 AAAGA-AAAAG-AA
8953143 CAAAGAAAAA-AA
1 -AAAGAAAAAGAA
8953155 TCAAAGAAAAAGAA
1 --AAAGAAAAAGAA
8953169 AAAGAAAAGAGCAA
1 AAAGAAAA-AG-AA
8953183 AAAGAAAA
1 AAAGAAAA
8953191 CAAGGAGCAT
Statistics
Matches: 72, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
11 8 0.11
12 18 0.25
13 24 0.33
14 16 0.22
15 6 0.08
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAGAAAAAGAA
Found at i:8953176 original size:5 final size:6
Alignment explanation
Indices: 8953093--8953190 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
8953083 TAATAGAAGC
* *
8953093 AAAGAA AAA-AA ATAGAA AAAGAA TAAAGAA AAA-AGC AAAGAGA AAAGAAA
1 AAAGAA AAAGAA AAAGAA AAAGAA -AAAGAA AAAGA-A AAAGA-A AAAG-AA
8953143 CAAAGAA AAA-AA TCAAAGAA AAAGAA AAAGAA AAGAGCAA AAAGAA AA
1 -AAAGAA AAAGAA --AAAGAA AAAGAA AAAGAA AA-AG-AA AAAGAA AA
8953191 CAAGGAGCAT
Statistics
Matches: 77, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
5 7 0.09
6 37 0.48
7 22 0.29
8 11 0.14
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:8953182 original size:52 final size:51
Alignment explanation
Indices: 8953087--8953190 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 51
8953077 CAAACATAAT
* * *
8953087 AGAAGCAAAGAAAAAAAATAGAAAAAGAATAAAGAAAAAAGCAAAGAGAAA
1 AGAAACAAAGAAAAAAAAAAGAAAAAGAATAAAGAAAAAAGCAAAAAGAAA
*
8953138 AGAAACAAAGAAAAAAATCAAAGAAAAAGAA-AAAGAAAAGAGCAAAAAGAAA
1 AGAAACAAAGAAAAAAA--AAAGAAAAAGAATAAAGAAAAAAGCAAAAAGAAA
8953190 A
1 A
8953191 CAAGGAGCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
51 16 0.34
52 20 0.43
53 11 0.23
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.03
Consensus pattern (51 bp):
AGAAACAAAGAAAAAAAAAAGAAAAAGAATAAAGAAAAAAGCAAAAAGAAA
Found at i:8954393 original size:16 final size:16
Alignment explanation
Indices: 8954369--8954408 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8954359 ATTGAGAAAA
*
8954369 ACATACATCAATACAT
1 ACATACATCAACACAT
*
8954385 ACATGCATCAACACAT
1 ACATACATCAACACAT
8954401 ACATACAT
1 ACATACAT
8954409 GTTACATGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:8955124 original size:107 final size:105
Alignment explanation
Indices: 8954955--8955193 Score: 268
Period size: 106 Copynumber: 2.3 Consensus size: 105
8954945 AATTTCTCTT
* **
8954955 AAAACAAATTTCGCCTCGCTTGAGACATTTTTCTTTAAGATACAAATTTCGAATTTGATTCAC-T
1 AAAACAAACTTCATCTCGCTTGAGACATTTTTCTTTAAGATACAAATTTCGAATTTGATTCACAT
* *
8955019 TGAAACAAAAATTAATCTCACTTTAGATTGTTATTTCTTTCA
66 T-AAACAAAAA-TAATCTCACTTGAGATCGTTATTTCTTTCA
* * * * *
8955061 AAAA-AAA-TTCATCTCGTTTGAGACATTTTTTCCTTTGAGAATATAAATTTTGAATTTGTTTCA
1 AAAACAAACTTCATCTCGCTTGAGACA-TTTTT-CTTTAAG-ATACAAATTTCGAATTTGATTCA
* * * *
8955124 CATTAAACAAAGATGATCTCACTTGAGATCGTTTTTTTTTTCA
63 CATTAAACAAAAATAATCTCACTTGAGATCGTTATTTCTTTCA
**
8955167 AAAACAAACTTTGTCTCGCTTGAGACA
1 AAAACAAACTTCATCTCGCTTGAGACA
8955194 ATTTCTCTAA
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
104 15 0.14
105 8 0.07
106 39 0.35
107 32 0.29
108 17 0.15
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (105 bp):
AAAACAAACTTCATCTCGCTTGAGACATTTTTCTTTAAGATACAAATTTCGAATTTGATTCACAT
TAAACAAAAATAATCTCACTTGAGATCGTTATTTCTTTCA
Found at i:8955254 original size:37 final size:36
Alignment explanation
Indices: 8955159--8955271 Score: 140
Period size: 37 Copynumber: 3.1 Consensus size: 36
8955149 AGATCGTTTT
*
8955159 TTTTTTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTTTTCTAAAAATAAA-TTTGTCTCGCTTGAGACAA
* * *
8955195 -TTTCTCTAAAAATAATTTTTGTCTCGTTTGAGACAA
1 TTTTTTCTAAAAATAA-ATTTGTCTCGCTTGAGACAA
*
8955231 TTTTTTCTAAAAATAAATGTTGTCTCACTTGAGACAA
1 TTTTTTCTAAAAATAAAT-TTGTCTCGCTTGAGACAA
8955268 TTTT
1 TTTT
8955272 CCAAGTTATG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
35 5 0.08
36 26 0.40
37 34 0.52
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTTTTCTAAAAATAAATTTGTCTCGCTTGAGACAA
Found at i:8955549 original size:132 final size:133
Alignment explanation
Indices: 8955338--8955593 Score: 315
Period size: 132 Copynumber: 1.9 Consensus size: 133
8955328 GAAATAAAGG
* * *
8955338 ATCTTTGAGTCTGTTTCACTTGAAACAAAAAAAAATCTTTGAGTATGTTTCTTTGATAATAAAAT
1 ATCTGTGAGTCTGTTTCACTTGAAACAAAAAAAAATATTTGAGTATGTTTCTTTGATAACAAAAT
** * *
8955403 TTTGTCTCTTTTGAGA-AGGTTTCTT-TTGAAAAA-TCTTTGAGTCTGTTTCTTTGGAAACAACA
66 TTTGTCTCGCTTGAGACA-GTTT-TTCGTGAAAAAGTCTTTGAGTC-CTTTCTTTGGAAACAACA
8955465 TTTACC
128 TTTACC
* *** *
8955471 ATCTGTGAGTCTGTTTCCCTTGAAAC-AAAACTCATATTTGAGTATTTTTCTTTTGA-AACAAAA
1 ATCTGTGAGTCTGTTTCACTTGAAACAAAAAAAAATATTTGAGTATGTTTC-TTTGATAACAAAA
* *
8955534 TTTTTTCTCGCTTGAGACAGTTTTTCGTGAAAAAGTCTTTGAGTCCTTTCTTTTGAAACA
65 TTTTGTCTCGCTTGAGACAGTTTTTCGTGAAAAAGTCTTTGAGTCCTTTCTTTGGAAACA
8955594 TCTATCTTTG
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
131 2 0.02
132 63 0.60
133 40 0.38
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (133 bp):
ATCTGTGAGTCTGTTTCACTTGAAACAAAAAAAAATATTTGAGTATGTTTCTTTGATAACAAAAT
TTTGTCTCGCTTGAGACAGTTTTTCGTGAAAAAGTCTTTGAGTCCTTTCTTTGGAAACAACATTT
ACC
Found at i:8955633 original size:30 final size:30
Alignment explanation
Indices: 8955580--8955653 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
8955570 CTTTGAGTCC
* * * * *
8955580 TTTCTTTTGAAACATCTATCTTTGAGTTAG
1 TTTCTATTGAAACACCCACCTTTGAGATAG
* *
8955610 TTTCTCTTGAAACACCCACCTTTGAGATCG
1 TTTCTATTGAAACACCCACCTTTGAGATAG
*
8955640 TTTCTATTAAAACA
1 TTTCTATTGAAACA
8955654 AATTTTGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (30 bp):
TTTCTATTGAAACACCCACCTTTGAGATAG
Found at i:8955735 original size:32 final size:30
Alignment explanation
Indices: 8955675--8955749 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 30
8955665 CCTTGAGGCA
*
8955675 GTTTCTCTAGAAATACAAAATCTTTGAGTTT
1 GTTTCTCTTGAAATACAAAATCTTTGAG-TT
8955706 GTTTCTCTTGAAATA-AAACCATCTTTGAGTT
1 GTTTCTCTTGAAATACAAA--ATCTTTGAGTT
*
8955737 GTTTCCCTTGAAA
1 GTTTCTCTTGAAA
8955750 CGAATTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 3 0.08
31 28 0.70
32 9 0.22
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (30 bp):
GTTTCTCTTGAAATACAAAATCTTTGAGTT
Found at i:8955808 original size:32 final size:32
Alignment explanation
Indices: 8955694--8955819 Score: 103
Period size: 32 Copynumber: 3.9 Consensus size: 32
8955684 GAAATACAAA
* * *
8955694 ATCTTTGAGTTTGTTTCTCTTGAAATAAAACC
1 ATCTTTGAGTTTGTTTCTCTTGAAACAAGATC
* ** *
8955726 ATCTTTGAG-TTGTTTCCCTTGAAACGAATTTT
1 ATCTTTGAGTTTGTTTCTCTTGAAAC-AAGATC
* ** *
8955758 ATCTCATGAGACAT-TTTCTCTTAAAACAAGATC
1 ATCT-TTGAG-TTTGTTTCTCTTGAAACAAGATC
*
8955791 ATCTTTGAGTTTGTTTCTCTGGAAACAAG
1 ATCTTTGAGTTTGTTTCTCTTGAAACAAG
8955820 GTTTTATCCC
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
31 15 0.21
32 33 0.46
33 11 0.15
34 11 0.15
35 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (32 bp):
ATCTTTGAGTTTGTTTCTCTTGAAACAAGATC
Found at i:8956311 original size:31 final size:28
Alignment explanation
Indices: 8956273--8956341 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
8956263 AGACAGTATA
*
8956273 TTTTGAAACACATCATCTTTGAGTTTGTTT-
1 TTTTGAAACA-A--ATCATTGAGTTTGTTTC
8956303 TTCTTGAAACAAATCATTGAGTTTGTTTC
1 TT-TTGAAACAAATCATTGAGTTTGTTTC
8956332 TTTTGAAACA
1 TTTTGAAACA
8956342 TCACCTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 23 0.64
29 2 0.06
30 3 0.08
31 8 0.22
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (28 bp):
TTTTGAAACAAATCATTGAGTTTGTTTC
Found at i:8956727 original size:135 final size:133
Alignment explanation
Indices: 8956416--8956734 Score: 415
Period size: 135 Copynumber: 2.4 Consensus size: 133
8956406 TAGGAATCCT
* * * * * *
8956416 GTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGTGTTA-ACCTTGATAACCAGTCATCC
1 GTCATCCCCCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCC
* **
8956480 TCATCGCGTAGGAATTGAGTTATCACCTTCCTAAAGATGACCAGAACTCTTCATAACGTATGAGC
66 TCATCACGTAGGAACCGAGTTATCACCTTCCTAAAGATGACCAGAACTCTTCATAACGTATGAGC
8956545 CGC
131 CGC
* * * *
8956548 GTCATCCCCCGACCAGATCTCCTCATCGCGTAGGAGTCGTGTCACCCCTAGATAACCAGTCGTCC
1 GTCATCCCCCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCC
* *
8956613 TCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGTCCAAGAACTCTTCATCACGTATGA
66 TCATCACGTAGGAACCGAGTTATCA-CCTTCCTAAAGATGACC-AGAACTCTTCATAACGTATGA
* *
8956678 GCTGT
129 GCCGC
* * * * *
8956683 GTCATCCCTCGACCAAATTTCCTCATCACGTAGGAACCATGTCACCCTTAGA
1 GTCATCCCCCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCACCCCTAGA
8956735 AGACCCGAAC
Statistics
Matches: 161, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
132 39 0.24
133 39 0.24
134 16 0.10
135 67 0.42
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (133 bp):
GTCATCCCCCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCC
TCATCACGTAGGAACCGAGTTATCACCTTCCTAAAGATGACCAGAACTCTTCATAACGTATGAGC
CGC
Found at i:8956980 original size:18 final size:18
Alignment explanation
Indices: 8956941--8956980 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8956931 ATAAATATTT
* * *
8956941 ATTATTATTATTATTTAT
1 ATTATTATTAATATATAA
8956959 ATTATTATTAATATATAA
1 ATTATTATTAATATATAA
8956977 ATTA
1 ATTA
8956981 CATTTTTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTATTAATATATAA
Found at i:8961559 original size:2 final size:2
Alignment explanation
Indices: 8961552--8961586 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
8961542 ATAAATTACA
8961552 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8961587 GTTAATGACG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8962444 original size:3 final size:3
Alignment explanation
Indices: 8962436--8962488 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
8962426 TTTGTTTTAT
*
8962436 TTA TTA TTA TTA TT- TTG TT- TTCA -TA TTA TTA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
8962477 TTA TTA TTA TTA
1 TTA TTA TTA TTA
8962489 AATAAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
2 9 0.20
3 35 0.80
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8962481 original size:19 final size:18
Alignment explanation
Indices: 8962433--8962488 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
8962423 TCATTTGTTT
*
8962433 TATTTATTATTATTATTT
1 TATTTATTATTATTATTA
*
8962451 TGTTT-TCATATTATTATTA
1 TATTTAT--TATTATTATTA
8962470 TATTATATTATTATTATTA
1 TATT-TATTATTATTATTA
8962489 AATAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.03
18 4 0.13
19 24 0.77
20 1 0.03
21 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TATTTATTATTATTATTA
Found at i:8963808 original size:2 final size:2
Alignment explanation
Indices: 8963795--8963838 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
8963785 TATATTAGTC
*
8963795 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8963837 AT
1 AT
8963839 TTGTTTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8964213 original size:127 final size:129
Alignment explanation
Indices: 8964005--8964235 Score: 310
Period size: 127 Copynumber: 1.8 Consensus size: 129
8963995 AATAATTATA
* * *
8964005 TTTTAAATATATATTTATTTTTCAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATGTCCATT
1 TTTTAAATATATATTTATTTTTCAATATTAAGAAAGAGCAGTCTTAAAGCAACTAGAAGTCCATT
*
8964070 TTCTCATATTCTTAAATAAATAAATGTCTTACTTT-TATAAAATATATCTATTTTTAAATAAATG
66 TTCTCATATTCTTAAATAAATAAATATCTTA-TTTATATAAAATATATCTATTTTTAAATAAATG
* * * * *
8964134 TTTT-AATATTTATTTATTTTT-TATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAG-CCCT
1 TTTTAAATATATATTTATTTTTCAATATTAAG-AAAGAGCAGTCTTAAAGCAACTAGAAGTCCAT
*
8964196 TTTCTGATATT-TCTAAATAAATAAATATCTTATTTATATA
65 TTTCTCATATTCT-TAAATAAATAAATATCTTATTTATATA
8964236 TATAAATTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
126 4 0.04
127 43 0.48
128 38 0.43
129 4 0.04
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.44
Consensus pattern (129 bp):
TTTTAAATATATATTTATTTTTCAATATTAAGAAAGAGCAGTCTTAAAGCAACTAGAAGTCCATT
TTCTCATATTCTTAAATAAATAAATATCTTATTTATATAAAATATATCTATTTTTAAATAAATG
Found at i:8973246 original size:22 final size:22
Alignment explanation
Indices: 8973221--8973275 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
8973211 ATCTACACTT
*
8973221 TTCAAAGATGATAGATTCTATC
1 TTCAAAGATGATAAATTCTATC
* * *
8973243 TTCAAATATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTATC
8973265 TTCAAAGATGA
1 TTCAAAGATGA
8973276 AAGCTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTATC
Found at i:8973714 original size:112 final size:110
Alignment explanation
Indices: 8973517--8974080 Score: 580
Period size: 112 Copynumber: 4.9 Consensus size: 110
8973507 GATTTGCATC
* *
8973517 CATCACTCA-ATGGATCAACATTTCCGAAAGAGTTCATAATGAAAAGAACTCATCTGAAGAAGGA
1 CATCACT-AGATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
8973581 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTTGAATT
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCATG-ACT
* * *
8973629 CATCACTTGATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTTATTTGAAGAAGGAA
1 CATCACTAGATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
8973694 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTTGAATT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGCATG-ACT
* * * ** * * *
8973741 CATCACTCGATGGATCAGCATTGCCAGTTAGAGTTCATAATGAGAAGAACTAATCTAAAGAATG-
1 CATCACTAGATGGATCAACATTTCC-GGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
8973805 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCATGACT
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCATGACT
* * * *
8973851 CTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAA-AGTTCATAATAAGAAGAACTT
1 C-ATCAC---------TAGAT--GGATCAACATTTCC-G-GAAGAGTTCATAATGAGAAGAACTC
*
8973915 ATCTGAAG-ATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACT
52 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCATGACT
* * * *
8973974 CTATCACAGAATGAGATAGATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATTTGAA-
1 C-ATCAC----T-AGATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
* *
8974038 AAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTT
60 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT
8974081 TGATAGATTA
Statistics
Matches: 389, Mismatches: 42, Indels: 39
0.83 0.09 0.08
Matches are distributed among these distances:
110 3 0.01
111 13 0.03
112 159 0.41
113 32 0.08
115 8 0.02
116 59 0.15
117 11 0.03
118 2 0.01
119 4 0.01
120 4 0.01
121 3 0.01
122 71 0.18
123 20 0.05
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (110 bp):
CATCACTAGATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCATGACT
Found at i:8974320 original size:3 final size:3
Alignment explanation
Indices: 8974312--8974364 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
8974302 TTTGTTTTAT
* *
8974312 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8974356 TTA TTA TTA
1 TTA TTA TTA
8974365 AATAAATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8974338 original size:19 final size:19
Alignment explanation
Indices: 8974311--8974364 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
8974301 ATTTGTTTTA
* *
8974311 TTTATTATTATTATTTTGT
1 TTTATTATTATTATTATAT
*
8974330 TTTAATATTATTATTATAT
1 TTTATTATTATTATTATAT
8974349 TTTATTATTATTATTA
1 TTTATTATTATTATTA
8974365 AATAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTATTATTATTATTATAT
Found at i:8974338 original size:22 final size:23
Alignment explanation
Indices: 8974301--8974364 Score: 87
Period size: 22 Copynumber: 2.8 Consensus size: 23
8974291 TTTTTATTTC
8974301 ATTTGTTTTATTTATTATTATTAT
1 ATTTGTTTTA-TTATTATTATTAT
*
8974325 -TTTGTTTTAATATTATTATTAT
1 ATTTGTTTTATTATTATTATTAT
*
8974347 ATTT-TATTATTATTATTA
1 ATTTGTTTTATTATTATTA
8974365 AATAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 24 0.67
23 12 0.33
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (23 bp):
ATTTGTTTTATTATTATTATTAT
Found at i:8975734 original size:29 final size:30
Alignment explanation
Indices: 8975701--8975757 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
8975691 GGCTGTAAAT
8975701 TTTAATATTT-TATATTTTAATC-CTATTAC
1 TTTAAT-TTTATATATTTTAATCACTATTAC
* *
8975730 TTTAATTTTATATGTTTTAGTCACTATT
1 TTTAATTTTATATATTTTAATCACTATT
8975758 TAATTGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.67
30 5 0.21
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTAATTTTATATATTTTAATCACTATTAC
Found at i:8975859 original size:2 final size:2
Alignment explanation
Indices: 8975846--8975905 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
8975836 TATATTAGTC
*
8975846 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8975888 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
8975906 TTGTTTAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8976320 original size:26 final size:24
Alignment explanation
Indices: 8976257--8976323 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
8976247 CCTTTTCTGA
* * *
8976257 TATTTCTA-AATAAATAAATATAT
1 TATTTATATAATAAATTAATAGAT
8976280 TATTTATATATATAAATTAATAGAT
1 TATTTATATA-ATAAATTAATAGAT
*
8976305 TTTCTTATATTAATAAATT
1 TAT-TTATA-TAATAAATT
8976324 TGAAATAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 7 0.19
24 1 0.03
25 14 0.39
26 12 0.33
27 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (24 bp):
TATTTATATAATAAATTAATAGAT
Found at i:8981167 original size:3 final size:3
Alignment explanation
Indices: 8981159--8981213 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
8981149 GCTCTAACAA
8981159 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8981207 ATT ATT A
1 ATT ATT A
8981214 GACTAATTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8983517 original size:3 final size:3
Alignment explanation
Indices: 8983509--8983538 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8983499 GGAGGGAGAG
8983509 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
8983539 GGGGGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:8983673 original size:16 final size:17
Alignment explanation
Indices: 8983652--8983684 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8983642 GAGGGAAAAA
8983652 AATTA-TTTTTTATTTT
1 AATTATTTTTTTATTTT
8983668 AATTATTTTTTTATTTT
1 AATTATTTTTTTATTTT
8983685 TAGAAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
AATTATTTTTTTATTTT
Found at i:8983842 original size:31 final size:31
Alignment explanation
Indices: 8983782--8983842 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
8983772 TCACTAAATG
*
8983782 AAACGTTAAGCACCAAACTAGAATAAAAAAA
1 AAACGTTAAGCACCAAACTAGAACAAAAAAA
*
8983813 AAACGTT-AGACACCAAACTAGAACCAAAAA
1 AAACGTTAAG-CACCAAACTAGAACAAAAAA
8983843 CATATATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.59, C:0.20, G:0.10, T:0.11
Consensus pattern (31 bp):
AAACGTTAAGCACCAAACTAGAACAAAAAAA
Found at i:8989322 original size:2 final size:2
Alignment explanation
Indices: 8989317--8989367 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
8989307 TCATATATTC
8989317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8989359 AT AT AT AT A
1 AT AT AT AT A
8989368 ATCCACACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8989768 original size:31 final size:31
Alignment explanation
Indices: 8989730--8989835 Score: 104
Period size: 31 Copynumber: 3.4 Consensus size: 31
8989720 GAACCTTGGC
* *
8989730 AACTGTCCATAGGTCCCAAAAAACCTAGGTA
1 AACTGTCCATATGTCCCAAAAAACATAGGTA
* ** *
8989761 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAAAACATAGGTA
* * * * *
8989792 TACTGTCCATATATCTCGAAAGACATAGGTAA
1 AACTGTCCATATGTCCCAAAAAACATAGGT-A
8989824 AACTGTCCATAT
1 AACTGTCCATAT
8989836 ATTCCGTAGA
Statistics
Matches: 59, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
31 47 0.80
32 12 0.20
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAAAACATAGGTA
Found at i:8989850 original size:32 final size:31
Alignment explanation
Indices: 8989755--8989854 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
8989745 CCAAAAAACC
* *
8989755 TAGGTAAACTGTCCATATGTTCCTTAGAACA
1 TAGGTAAACTGTCCATATATTCCGTAGAACA
* *
8989786 TAGGTATACTGTCCATATA-TCTCG-AAAGACA
1 TAGGTAAACTGTCCATATATTC-CGTAGA-ACA
8989817 TAGGTAAAACTGTCCATATATTCCGTAGAACA
1 TAGGT-AAACTGTCCATATATTCCGTAGAACA
8989849 TAGGTA
1 TAGGTA
8989855 TACCCTCGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 4 0.07
31 27 0.47
32 23 0.40
33 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (31 bp):
TAGGTAAACTGTCCATATATTCCGTAGAACA
Found at i:8990661 original size:63 final size:63
Alignment explanation
Indices: 8990591--8990747 Score: 185
Period size: 63 Copynumber: 2.5 Consensus size: 63
8990581 ATCACTAGAC
* * **
8990591 GGGTGCATCGATGCACT-ATCTATGCATCGGTGCA-TAAATCCCATTCGATGTTTGTATTTT-AG
1 GGGTGCATCGATGCACTCCT-TATGCATCGATGCACT-AATCCCATTCGATGTTTCCATTTTAAG
* * *
8990653 GGGATGCATCGATGCACTCCTTATGCATTGATGCACTAATCGCATTCGATGTTTCCATTTTAAT
1 GGG-TGCATCGATGCACTCCTTATGCATCGATGCACTAATCCCATTCGATGTTTCCATTTTAAG
* *
8990717 GGGTGCATCGATGCACTCCATGTGCATCGAT
1 GGGTGCATCGATGCACTCCTTATGCATCGAT
8990748 ACACACTGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
62 3 0.04
63 72 0.89
64 6 0.07
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (63 bp):
GGGTGCATCGATGCACTCCTTATGCATCGATGCACTAATCCCATTCGATGTTTCCATTTTAAG
Found at i:8992770 original size:18 final size:18
Alignment explanation
Indices: 8992747--8992851 Score: 156
Period size: 18 Copynumber: 5.8 Consensus size: 18
8992737 ACTGAATATT
**
8992747 TGTCTCGATTGACCATTA
1 TGTCTCGAAGGACCATTA
8992765 TGTCTCGAAGGACCATTA
1 TGTCTCGAAGGACCATTA
8992783 TGTCTCGAAGGACCATTA
1 TGTCTCGAAGGACCATTA
8992801 TGTCTCGAAGGACCATTA
1 TGTCTCGAAGGACCATTA
* *
8992819 TTTCTCGAAGGATCATTA
1 TGTCTCGAAGGACCATTA
* *
8992837 TGTCCCGAATGACCA
1 TGTCTCGAAGGACCA
8992852 CTATCCATAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 79 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (18 bp):
TGTCTCGAAGGACCATTA
Found at i:8992891 original size:30 final size:30
Alignment explanation
Indices: 8992853--8992943 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
8992843 GAATGACCAC
*
8992853 TATCCATATGTTTCAAAGAACATAGGTAACT
1 TATCCATATGTCTCAAAG-ACATAGGTAACT
* *
8992884 T-TCCATATGTCCCAAAGGACATAGGTAAAT
1 TATCCATATGTCTCAAA-GACATAGGTAACT
*
8992914 TATCCATATGTCTCGAAAGACATAAGTAAC
1 TATCCATATGTCTC-AAAGACATAGGTAAC
8992944 CCTCGACTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
30 25 0.49
31 23 0.45
32 3 0.06
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (30 bp):
TATCCATATGTCTCAAAGACATAGGTAACT
Found at i:8994393 original size:11 final size:11
Alignment explanation
Indices: 8994377--8994408 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
8994367 TTAGTTGCAA
*
8994377 GAAAATCAACT
1 GAAAATCAAAT
8994388 GAAAATCAAAT
1 GAAAATCAAAT
8994399 GAAAATCAAA
1 GAAAATCAAA
8994409 CTCACCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.16
Consensus pattern (11 bp):
GAAAATCAAAT
Found at i:8997063 original size:18 final size:18
Alignment explanation
Indices: 8997040--8997076 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8997030 ACTGAATATT
8997040 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
8997058 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
8997076 T
1 T
8997077 CCATATGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:8997144 original size:31 final size:31
Alignment explanation
Indices: 8997076--8997163 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 31
8997066 ATGACCACTA
* *
8997076 TCCATATGTTCCAAAGAACATAGGT-AACTG
1 TCCATATGTTCCGAAGGACATAGGTAAACTG
* *
8997106 TCTATATGTCCCGAAGGACATAGGTAAACTG
1 TCCATATGTTCCGAAGGACATAGGTAAACTG
* * *
8997137 TCCATATGTTTCGAAAGACACAGGTAA
1 TCCATATGTTCCGAAGGACATAGGTAA
8997164 CCCTCGACTC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 21 0.44
31 27 0.56
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (31 bp):
TCCATATGTTCCGAAGGACATAGGTAAACTG
Found at i:9002273 original size:8 final size:8
Alignment explanation
Indices: 9002191--9002280 Score: 63
Period size: 8 Copynumber: 10.6 Consensus size: 8
9002181 TGTTAGATAG
9002191 AAAAAATA
1 AAAAAATA
9002199 AACAAAATA
1 AA-AAAATA
9002208 ATAATAAATA
1 A-AA-AAATA
9002218 AAGAAAATA
1 AA-AAAATA
*
9002227 AATAAATCA
1 AAAAAAT-A
* *
9002236 GAAAAATT
1 AAAAAATA
* *
9002244 ATAAAATT
1 AAAAAATA
* *
9002252 ATAAAATT
1 AAAAAATA
*
9002260 ATAAAATA
1 AAAAAATA
9002268 AAAAAATA
1 AAAAAATA
9002276 AAAAA
1 AAAAA
9002281 GAATAAGTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
8 39 0.57
9 22 0.32
10 8 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (8 bp):
AAAAAATA
Found at i:9003792 original size:3 final size:3
Alignment explanation
Indices: 9003786--9003863 Score: 56
Period size: 3 Copynumber: 26.3 Consensus size: 3
9003776 TATGAAAAAA
* * * *
9003786 AAT AAT AAA AAG AA- AAT AATT AAT AA- AAT AA- AAT AAA AAGA AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AA-T AAT
*
9003830 AAAT AAT AAT AAT AAT AAT AAT AA- AAT AAC AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9003864 TTTTCCAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
2 8 0.13
3 45 0.73
4 9 0.15
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:9003819 original size:31 final size:30
Alignment explanation
Indices: 9003780--9003855 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 30
9003770 TTTAGATATG
*
9003780 AAAA-AAAATAATAAAAAGAAAATAATTAAT
1 AAAATAAAATAATAAAAAG-AAATAAATAAT
9003810 AAAAT--AA-AATAAAAAGAAATAAATAAT
1 AAAATAAAATAATAAAAAGAAATAAATAAT
9003837 AATAATAATAATAATAAAA
1 AA-AATAA-AATAATAAAA
9003856 TAACAATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 12 0.31
28 12 0.31
29 2 0.05
30 4 0.10
31 2 0.05
32 7 0.18
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (30 bp):
AAAATAAAATAATAAAAAGAAATAAATAAT
Found at i:9003822 original size:28 final size:29
Alignment explanation
Indices: 9003786--9003850 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 29
9003776 TATGAAAAAA
*
9003786 AATAATAAAAAGAAAATAATTAATAA-AAT
1 AATAATAAAAAG-AAATAAATAATAATAAT
9003815 AA-AATAAAAAGAAATAAATAATAATAAT
1 AATAATAAAAAGAAATAAATAATAATAAT
9003843 AATAATAA
1 AATAATAA
9003851 TAAAATAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 12 0.36
28 14 0.42
29 7 0.21
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (29 bp):
AATAATAAAAAGAAATAAATAATAATAAT
Found at i:9003824 original size:23 final size:23
Alignment explanation
Indices: 9003798--9003863 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
9003788 TAATAAAAAG
9003798 AAAATAATTAATAAAATAA-AATA
1 AAAATAA-TAATAAAATAACAATA
* *
9003821 AAAA-GA-AAT-AAATAATAATA
1 AAAATAATAATAAAATAACAATA
*
9003841 ATAATAATAATAAAATAACAATA
1 AAAATAATAATAAAATAACAATA
9003864 TTTTCCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 6 0.17
20 10 0.29
21 1 0.03
22 4 0.11
23 14 0.40
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATAATAATAAAATAACAATA
Found at i:9003923 original size:35 final size:33
Alignment explanation
Indices: 9003871--9004320 Score: 231
Period size: 35 Copynumber: 12.6 Consensus size: 33
9003861 ATATTTTCCA
*
9003871 AAAACCTATATAATATATATTTTCAAAACATATTTT
1 AAAA-CTATATATTATATATTTTC-AAA-ATATTTT
* * *
9003907 AAAAGTATATATTATATATTTTTAAAAATGTTTT
1 AAAACTATATATTATATA-TTTTCAAAATATTTT
** *
9003941 AAAA--AT-TA-TATA-GCTTTCAAAAATGTTTTT
1 AAAACTATATATTATATATTTTC-AAAAT-ATTTT
*
9003971 AAAACTATATATTATA-AGTTTTCAAAATGATTTC
1 AAAACTATATATTATATA-TTTTCAAAAT-ATTTT
9004005 AAAACTATATAATATATATATATATATGTTCTTCAAAATATTTT
1 AAAAC-------TATATAT-TATATA--TT-TTCAAAATATTTT
** * * *
9004049 ---TTTGAAACTA-TATATATTTTCAAAATGTTTAA
1 AAAACT-ATA-TATTATATATTTTCAAAATATTT-T
*
9004081 AAAACTATATAATATATATATTTTTAAAAATATTTT
1 AAAACTATAT-AT-TATATA-TTTTCAAAATATTTT
*
9004117 AAAAACTATATATTATATTTATTTTCAAAATACTTTA
1 -AAAACTATATATTATA--TATTTTCAAAATA-TTTT
9004154 AAAACTATATAATATATATATATTTTCAAAA-ATATTT
1 AAAAC--TAT-ATAT-TATATATTTTCAAAATAT-TTT
9004191 AAAATCTATATATTATATTTATTTTCAAAATA-TTT
1 AAAA-CTATATATTATA--TATTTTCAAAATATTTT
9004226 AAAATCTATATATTATATTTATTTTCAAAATATTTT
1 AAAA-CTATATATTATA--TATTTTCAAAATATTTT
* *
9004262 AAAAACTATATAATATGTAAATATTTTCAAATATGTTTTT
1 -AAAAC--TAT-ATAT-TATATATTTTCAAA-AT-ATTTT
*
9004302 AAAACTATATAATATATAT
1 AAAACTATATATTATATAT
9004321 ATGAGACGAA
Statistics
Matches: 333, Mismatches: 31, Indels: 101
0.72 0.07 0.22
Matches are distributed among these distances:
28 3 0.01
29 5 0.02
30 12 0.04
31 13 0.04
32 6 0.02
33 3 0.01
34 42 0.13
35 71 0.21
36 55 0.17
37 42 0.13
38 28 0.08
39 15 0.05
40 11 0.03
41 7 0.02
42 4 0.01
43 1 0.00
44 7 0.02
45 8 0.02
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (33 bp):
AAAACTATATATTATATATTTTCAAAATATTTT
Found at i:9003974 original size:29 final size:28
Alignment explanation
Indices: 9003917--9003981 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
9003907 AAAAGTATAT
* *
9003917 ATTATATATTTTTAAAAATGTTTTAAAA
1 ATTATATACTTTCAAAAATGTTTTAAAA
*
9003945 ATTATATAGCTTTCAAAAATGTTTTTAAA
1 ATTATATA-CTTTCAAAAATGTTTTAAAA
*
9003974 ACTATATA
1 ATTATATA
9003982 TTATAAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (28 bp):
ATTATATACTTTCAAAAATGTTTTAAAA
Found at i:9004009 original size:34 final size:36
Alignment explanation
Indices: 9003945--9004022 Score: 106
Period size: 34 Copynumber: 2.2 Consensus size: 36
9003935 TGTTTTAAAA
* *
9003945 ATTATATAGCTTTCAAAAATGTTTTTAAAACTATAT
1 ATTATATAGCTTTCAAAAATGATTTCAAAACTATAT
*
9003981 ATTATA-AGTTTTC-AAAATGATTTCAAAACTATAT
1 ATTATATAGCTTTCAAAAATGATTTCAAAACTATAT
*
9004015 AATATATA
1 ATTATATA
9004023 TATATATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 24 0.65
35 7 0.19
36 6 0.16
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (36 bp):
ATTATATAGCTTTCAAAAATGATTTCAAAACTATAT
Found at i:9004097 original size:36 final size:35
Alignment explanation
Indices: 9004057--9004322 Score: 307
Period size: 36 Copynumber: 7.3 Consensus size: 35
9004047 TTTTTGAAAC
*
9004057 TATATATATTTTCAAAATGTTTAAAAAACTATATAA
1 TATATATATTTTCAAAATATTT-AAAAACTATATAA
* *
9004093 TATATATATTTTTAAAAATATTTTAAAAACTATATAT
1 TATATATA-TTTTCAAAATA-TTTAAAAACTATATAA
*
9004130 TATATTTATTTTCAAAATACTTTAAAAACTATATAATA
1 TATATATATTTTCAAAATA-TTTAAAAACTATAT-A-A
* *
9004168 TATATATATTTTCAAAAATATTTAAAATCTATATAT
1 TATATATATTTTC-AAAATATTTAAAAACTATATAA
* * *
9004204 TATATTTATTTTCAAAATATTTAAAATCTATATAT
1 TATATATATTTTCAAAATATTTAAAAACTATATAA
*
9004239 TATATTTATTTTCAAAATATTTTAAAAACTATATAA
1 TATATATATTTTCAAAATA-TTTAAAAACTATATAA
* * *
9004275 TATGTAAATATTTTCAAATATGTTTTTAAAACTATATAA
1 TA--TATATATTTTCAAA-AT-ATTTAAAAACTATATAA
9004314 TATATATAT
1 TATATATAT
9004323 GAGACGAAAA
Statistics
Matches: 202, Mismatches: 18, Indels: 19
0.85 0.08 0.08
Matches are distributed among these distances:
35 41 0.20
36 60 0.30
37 36 0.18
38 40 0.20
39 25 0.12
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (35 bp):
TATATATATTTTCAAAATATTTAAAAACTATATAA
Found at i:9004158 original size:73 final size:72
Alignment explanation
Indices: 9004057--9004322 Score: 338
Period size: 73 Copynumber: 3.6 Consensus size: 72
9004047 TTTTTGAAAC
*
9004057 TATATATATTTTCAAAATGTTTAAAAAACTATATAATATATATATTTTTAAAAATATTTTAAAAA
1 TATATATATTTTCAAAATATTT-AAAAACTATATAATATATATATTTTTAAAAATATTTTAAAAA
9004122 CTATATAT
65 CTATATAT
*
9004130 TATATTTATTTTCAAAATACTTTAAAAACTATATAATATATATATATTTTCAAAAATA-TTTAAA
1 TATATATATTTTCAAAATA-TTTAAAAACTATATAATATATATAT-TTTT-AAAAATATTTTAAA
*
9004194 ATCTATATAT
63 AACTATATAT
* * * * *
9004204 TATATTTATTTTCAAAATATTTAAAATCTATATATTATATTTA-TTTTCAAAATATTTTAAAAAC
1 TATATATATTTTCAAAATATTTAAAAACTATATAATATATATATTTTTAAAAATATTTTAAAAAC
9004268 TATATAAT
66 TATAT-AT
* * * *
9004276 ATGTAAATATTTTCAAATATGTTTTTAAAACTATATAATATATATAT
1 -TATATATATTTTCAAA-AT-ATTTAAAAACTATATAATATATATAT
9004323 GAGACGAAAA
Statistics
Matches: 168, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
70 6 0.04
71 17 0.10
72 2 0.01
73 73 0.43
74 43 0.26
75 27 0.16
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (72 bp):
TATATATATTTTCAAAATATTTAAAAACTATATAATATATATATTTTTAAAAATATTTTAAAAAC
TATATAT
Found at i:9004210 original size:20 final size:20
Alignment explanation
Indices: 9004185--9004246 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
9004175 ATTTTCAAAA
9004185 ATATTTAAAATCTATATATT
1 ATATTTAAAATCTATATATT
***
9004205 ATATTTATTTTC-A-A-A--
1 ATATTTAAAATCTATATATT
9004220 ATATTTAAAATCTATATATT
1 ATATTTAAAATCTATATATT
9004240 ATATTTA
1 ATATTTA
9004247 TTTTCAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
15 9 0.29
16 1 0.03
17 2 0.06
18 2 0.06
19 1 0.03
20 16 0.52
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTAAAATCTATATATT
Found at i:9004249 original size:109 final size:110
Alignment explanation
Indices: 9004057--9004322 Score: 376
Period size: 109 Copynumber: 2.4 Consensus size: 110
9004047 TTTTTGAAAC
*
9004057 TATATATATTTTC-AAAATGTTTAAAAAACTATATAATATATATATTTTTAAAAATATTTTAAAA
1 TATATATATTTTCAAAAATATTT--AAAACTATATAATATATATATTTTTAAAAATATTTTAAAA
9004121 ACTATATATTATATTTATTTTCAAAATACTTTAAAAACTATATAATA
64 ACTATATATTATATTTATTTTCAAAATACTTTAAAAACTATATAATA
* * * *
9004168 TATATATATTTTCAAAAATATTTAAAATCTATATATTATATTTA-TTTTCAAAATA-TTTAAAAT
1 TATATATATTTTCAAAAATATTTAAAA-CTATATAATATATATATTTTTAAAAATATTTTAAAAA
*
9004231 CTATATATTATATTTATTTTCAAAATATTTTAAAAACTATATAATA
65 CTATATATTATATTTATTTTCAAAATACTTTAAAAACTATATAATA
* * * *
9004277 TGTAAATATTTTCAAATATGTTTTTAAAACTATATAATATATATAT
1 TATATATATTTTCAAA-A-ATATTTAAAACTATATAATATATATAT
9004323 GAGACGAAAA
Statistics
Matches: 138, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
109 66 0.48
110 29 0.21
111 35 0.25
112 8 0.06
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (110 bp):
TATATATATTTTCAAAAATATTTAAAACTATATAATATATATATTTTTAAAAATATTTTAAAAAC
TATATATTATATTTATTTTCAAAATACTTTAAAAACTATATAATA
Found at i:9004665 original size:11 final size:11
Alignment explanation
Indices: 9004649--9004678 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
9004639 AAGGGTAGCT
9004649 TCGTCTTTTTC
1 TCGTCTTTTTC
9004660 TCGTCTTTTTC
1 TCGTCTTTTTC
9004671 TCGTCTTT
1 TCGTCTTT
9004679 CCTCTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.10, T:0.63
Consensus pattern (11 bp):
TCGTCTTTTTC
Found at i:9004810 original size:5 final size:5
Alignment explanation
Indices: 9004800--9004843 Score: 52
Period size: 5 Copynumber: 8.0 Consensus size: 5
9004790 TAAACATTCG
9004800 TTCTC TTCTC TTCTC TTTTCTC TTCTC TTCTC TTTTCTC TTCTC
1 TTCTC TTCTC TTCTC --TTCTC TTCTC TTCTC --TTCTC TTCTC
9004844 AATGCAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 25 0.71
7 10 0.29
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (5 bp):
TTCTC
Found at i:9004820 original size:17 final size:17
Alignment explanation
Indices: 9004800--9004843 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
9004790 TAAACATTCG
9004800 TTCTCTTCTCTTCTCTT
1 TTCTCTTCTCTTCTCTT
9004817 TTCTCTTCTCTTCTCTT
1 TTCTCTTCTCTTCTCTT
9004834 TTCTCTTCTC
1 TTCTCTTCTC
9004844 AATGCAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
TTCTCTTCTCTTCTCTT
Found at i:9004822 original size:12 final size:11
Alignment explanation
Indices: 9004800--9004843 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
9004790 TAAACATTCG
9004800 TTCTCTTCTC-
1 TTCTCTTCTCT
*
9004810 TTCTCTTTTCT
1 TTCTCTTCTCT
9004821 CTTCTCTTCTCTT
1 -TTCTCTTCTC-T
9004834 TTCTCTTCTC
1 TTCTCTTCTC
9004844 AATGCAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
12 19 0.66
13 1 0.03
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCTCT
Found at i:9020810 original size:11 final size:11
Alignment explanation
Indices: 9020787--9020816 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
9020777 AAGAAAGATG
9020787 AAGAAGAGAAA
1 AAGAAGAGAAA
9020798 AAGATAGAGAAA
1 AAGA-AGAGAAA
9020810 AAGAAGA
1 AAGAAGA
9020817 AGATGACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (11 bp):
AAGAAGAGAAA
Found at i:9020817 original size:21 final size:21
Alignment explanation
Indices: 9020775--9020813 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9020765 GAAGAGCAAG
*
9020775 AAAAGAAAGATGAAGAAGAGA
1 AAAAGAAAGATGAAAAAGAGA
*
9020796 AAAAGATAGA-GAAAAAGA
1 AAAAGAAAGATGAAAAAGA
9020814 AGAAGATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (21 bp):
AAAAGAAAGATGAAAAAGAGA
Found at i:9025176 original size:20 final size:20
Alignment explanation
Indices: 9025139--9025177 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9025129 GTTCATCCTT
* *
9025139 TAGTATCGATACTATTCTTA
1 TAGTACCGATAATATTCTTA
*
9025159 TAGTACCGATAATGTTCTT
1 TAGTACCGATAATATTCTT
9025178 GAAGTATTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
TAGTACCGATAATATTCTTA
Found at i:9032988 original size:43 final size:43
Alignment explanation
Indices: 9032667--9033086 Score: 319
Period size: 44 Copynumber: 9.7 Consensus size: 43
9032657 TAAAACATAT
* * ** * * *
9032667 TTACCCTGTGCACAAAGCAGAGGAGCCTGCAAAAATGATAAGGTC
1 TTACCCT-TGCACATAGCAAAGGAGCCTG-GGAAACGGTAAGGAC
** * * *
9032712 TTACCCTTGCACATAGCAAAATAACCTGGGAAACGGTAACGTC
1 TTACCCTTGCACATAGCAAAGGAGCCTGGGAAACGGTAAGGAC
* * * * * *
9032755 TTATCCTTCCACATAACAAAGAAGCTTGGGAAACGTTAAGGAC
1 TTACCCTTGCACATAGCAAAGGAGCCTGGGAAACGGTAAGGAC
** * * *
9032798 TTACCCTTATACATAACAGAGGAGCCTGTGGTAACGGTAAGGAC
1 TTACCCTTGCACATAGCAAAGGAGCCTG-GGAAACGGTAAGGAC
*
9032842 TTACCCTTGCACATAG-AAGAGGAGCCT-GAATTAACGGTAAGGAC
1 TTACCCTTGCACATAGCAA-AGGAGCCTGGGA--AACGGTAAGGAC
* * * ** * *
9032886 TTACCCTTACACATAACAGAGGAGTATGTGGTAACGGTAAGGTC
1 TTACCCTTGCACATAGCAAAGGAGCCTG-GGAAACGGTAAGGAC
* * * *
9032930 TTATCCTTGCACATAGCAAAGGAGCATGGGAAATGGTAAGGTC
1 TTACCCTTGCACATAGCAAAGGAGCCTGGGAAACGGTAAGGAC
* * * *
9032973 TAATCCTTGCACATAGC-AAGGAGCCTCGGAAATGGTAAGGAC
1 TTACCCTTGCACATAGCAAAGGAGCCTGGGAAACGGTAAGGAC
** * *
9033015 TTACCCTTGCACATATG-AGAA-GAGCCTACAGTAACGATAAGGAC
1 TTACCCTTGCACATA-GCA-AAGGAGCCT-GGGAAACGGTAAGGAC
*
9033059 TTACCCTTGCACATAGCAGAGGAGCCTG
1 TTACCCTTGCACATAGCAAAGGAGCCTG
9033087 ATGGAAATAG
Statistics
Matches: 301, Mismatches: 61, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
42 36 0.12
43 104 0.35
44 152 0.50
45 8 0.03
46 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (43 bp):
TTACCCTTGCACATAGCAAAGGAGCCTGGGAAACGGTAAGGAC
Found at i:9038526 original size:23 final size:22
Alignment explanation
Indices: 9038487--9038558 Score: 92
Period size: 23 Copynumber: 3.3 Consensus size: 22
9038477 CACTGAAGTG
* *
9038487 CCACATAGAATGTCCCGAAGGA
1 CCACATAGTATGTCCCGAAAGA
*
9038509 CCACATAGTTATGTCCCGAATGA
1 CCACATAG-TATGTCCCGAAAGA
*
9038532 CCACATA-TATGTCTCGAAAGA
1 CCACATAGTATGTCCCGAAAGA
9038553 CCACAT
1 CCACAT
9038559 TGAAATCTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
21 18 0.40
22 8 0.18
23 19 0.42
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (22 bp):
CCACATAGTATGTCCCGAAAGA
Found at i:9038544 original size:21 final size:21
Alignment explanation
Indices: 9038487--9038664 Score: 99
Period size: 21 Copynumber: 8.3 Consensus size: 21
9038477 CACTGAAGTG
*
9038487 CCACATAGAATGTCCCGAAGGA
1 CCACATA-TATGTCCCGAAGGA
*
9038509 CCACATAGTTATGTCCCGAATGA
1 CCACATA--TATGTCCCGAAGGA
* *
9038532 CCACATATATGTCTCGAAAGA
1 CCACATATATGTCCCGAAGGA
* * **
9038553 CCACATTGAAATCTCCTTAAGGA
1 CCACA-T-ATATGTCCCGAAGGA
*
9038576 CCACATATAT-T-CCAAAGGA
1 CCACATATATGTCCCGAAGGA
* ** **
9038595 CCAAATATATGTTTCGAAAAA
1 CCACATATATGTCCCGAAGGA
* * * *
9038616 CCGCATATATGTTCCAAATGA
1 CCACATATATGTCCCGAAGGA
** * *
9038637 ATAGATATATGTCCCGAATGA
1 CCACATATATGTCCCGAAGGA
9038658 CCACATA
1 CCACATA
9038665 GAAATCTCGA
Statistics
Matches: 117, Mismatches: 34, Indels: 11
0.72 0.21 0.07
Matches are distributed among these distances:
19 15 0.13
20 2 0.02
21 58 0.50
22 9 0.08
23 33 0.28
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
CCACATATATGTCCCGAAGGA
Found at i:9041366 original size:44 final size:44
Alignment explanation
Indices: 9041176--9041595 Score: 391
Period size: 44 Copynumber: 9.6 Consensus size: 44
9041166 TAAAACATAT
* * ** * **
9041176 TTACCCTGTGCACAAAGCAGAGGAGCCTACAAAAATGGTAAGGTT
1 TTACCCT-TGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
* * * * * *
9041221 TTACCCTTGCACATATCAAAAGAGTCTG-GGAAATGGTAAGGTC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
* * * **
9041264 TTATCCTTGCACATAGTAAAGGAGCCTG-GGAAACTTTAAGGAC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
*
9041307 TTACCCTTGCACATAGCAGAGGAGCCTGCGGCAACGGTAAGGAC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
* * * * * *
9041351 TTACCCTTACGCATAGCAGAGGAGTCTACGGTAATGGTAAGGAC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
* * * * *
9041395 TTACCCTTGCATATAGCAGTGGAGCATGCGGTAACGGTAAGGTC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
* * * * * *
9041439 TTATCCTTGCACATAGCAAAGGAGCCTG-AGAAACAGTAAAGTC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
* * * * *
9041482 TTATCCTTGTACATAGAAAAGGAGCCTG-GGAAACGGTAAGGAT
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
* * * *
9041525 TTACCCTTGCACATAACATAGGAGCCTGCGGTAATGGTAAGGAC
1 TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
9041569 TTACCCTTGCACATAGCAGA-GAGCCTG
1 TTACCCTTGCACATAGCAGAGGAGCCTG
9041596 ATGAAAATAG
Statistics
Matches: 308, Mismatches: 65, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
43 148 0.48
44 153 0.50
45 7 0.02
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (44 bp):
TTACCCTTGCACATAGCAGAGGAGCCTGCGGAAACGGTAAGGAC
Found at i:9043924 original size:7 final size:7
Alignment explanation
Indices: 9043914--9043973 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
9043904 TAAATGGTAA
9043914 TCAACGG
1 TCAACGG
9043921 TCAACGG
1 TCAACGG
9043928 TCAACGACG
1 TCAACG--G
*
9043937 ATAAACGG
1 -TCAACGG
9043945 TCAACGG
1 TCAACGG
9043952 TCAACGGCG
1 TCAAC-G-G
9043961 ATCAACGG
1 -TCAACGG
9043969 TCAAC
1 TCAAC
9043974 TTAGACCGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
7 29 0.64
8 3 0.07
9 3 0.07
10 10 0.22
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.13
Consensus pattern (7 bp):
TCAACGG
Found at i:9043928 original size:24 final size:24
Alignment explanation
Indices: 9043913--9043973 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
9043903 GTAAATGGTA
*
9043913 ATCAACGGTCAACGGTCAACGACG
1 ATCAACGGTCAACGGTCAACGGCG
*
9043937 ATAAACGGTCAACGGTCAACGGCG
1 ATCAACGGTCAACGGTCAACGGCG
9043961 ATCAACGGTCAAC
1 ATCAACGGTCAAC
9043974 TTAGACCGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (24 bp):
ATCAACGGTCAACGGTCAACGGCG
Found at i:9047134 original size:21 final size:21
Alignment explanation
Indices: 9047108--9047253 Score: 73
Period size: 21 Copynumber: 7.0 Consensus size: 21
9047098 GTCACATAGA
9047108 ATGTCCCGAATGACCACATAT
1 ATGTCCCGAATGACCACATAT
* *
9047129 ATGTCCCGAAAGACCACATAGAA
1 ATGTCCCGAATGACCACAT--AT
* ** *
9047152 ATCTCCTTAAGGACCACATAT
1 ATGTCCCGAATGACCACATAT
** * *
9047173 AT-T-CTAAAGGACCAAATAT
1 ATGTCCCGAATGACCACATAT
* ** *
9047192 GTGTTTCGAA-GAACCGCATAT
1 ATGTCCCGAATG-ACCACATAT
* * ** *
9047213 ATGTTCCAAATGATTAGATAT
1 ATGTCCCGAATGACCACATAT
9047234 ATGTCCCGAATGACCACATA
1 ATGTCCCGAATGACCACATA
9047254 GAAATCTCGA
Statistics
Matches: 92, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
19 15 0.16
20 3 0.03
21 57 0.62
22 1 0.01
23 16 0.17
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (21 bp):
ATGTCCCGAATGACCACATAT
Found at i:9050233 original size:31 final size:32
Alignment explanation
Indices: 9050141--9050234 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 32
9050131 CACTTAAAAA
* * *
9050141 ACCCGACCCGACCCGAACAAAAT-AAAGTTTC
1 ACCCGACCCGACCCGAACATAATAAAAATCTC
* *
9050172 ACCCGACCCGACCCGAATATATGAATTAAAAATCTG
1 ACCCGACCCGACCCG-A-ACAT-AA-TAAAAATCTC
9050208 ACCCGACCCGACCCGAA-ATAATAAAAA
1 ACCCGACCCGACCCGAACATAATAAAAA
9050235 AATATTTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
31 21 0.40
32 3 0.06
33 4 0.08
34 3 0.06
35 2 0.04
36 20 0.38
ACGTcount: A:0.41, C:0.32, G:0.13, T:0.14
Consensus pattern (32 bp):
ACCCGACCCGACCCGAACATAATAAAAATCTC
Found at i:9050418 original size:267 final size:260
Alignment explanation
Indices: 9049941--9050449 Score: 729
Period size: 267 Copynumber: 1.9 Consensus size: 260
9049931 TGAATTATAA
*
9049941 ACCCGACCCGACACAAAATAATAAAAAAATTATTTTTATTCAATAAAAACATTAACTTAATTGAA
1 ACCCGACCCGACACAAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAA
* * *
9050006 AAAATTATATATAGAGGGGTATTATTGTAATTATTCATAAATATATAAGGTAAAATTATATATTT
66 AAAATTATATAGAGAGGGGTATTATTGTAATTATTCATAAATATATAAGATAAAATTATATATTA
* *
9050071 TTTTCGGGCCGGTCCGATTTTTTTCACCCTAAACCCAAACTTGACCCGACCCGAATATCACACTT
131 TTTTCGGGCCGG--CGATATTTTTCACCCTAAACCCAAACTCGACCCGACCCGAATATCACACTT
9050136 AAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAA
194 AAAAAACCCGACCCGA--C---CAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAA
9050201 AAATCTG
254 AAATCTG
* * *
9050208 ACCCGACCCGACCCGAAATAATAAAAAAA-TATTTTTATTCAATAAAAACAGTGACTTAATTGAA
1 ACCCGACCCGACACAAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAA
*
9050272 AAAATATATATAGAGAGGGGTATTATTGTAATTATTCTTAAATATATAAGATAAAATTATATA-T
66 AAAAT-TATATAGAGAGGGGTATTATTGTAATTATTCATAAATATATAAGATAAAATTATATATT
* * * *
9050336 ATTTTCGGGCTGG-G-TATTTTTCACCCTAAACCCGAAGTCGACCTGACCCGAATATCACACTTA
130 ATTTTCGGGCCGGCGATATTTTTCACCCTAAACCCAAACTCGACCCGACCCGAATATCACACTT-
* *
9050399 AAAAAACTGACCAGACCCGACCAAAATAAAGTTTCACCCGATCCGATCCGA
194 AAAAAAC---CC-GACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGA
9050450 CTCGACCCGA
Statistics
Matches: 220, Mismatches: 16, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
262 71 0.32
263 8 0.04
265 1 0.00
266 52 0.24
267 88 0.40
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (260 bp):
ACCCGACCCGACACAAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTAACTTAATTGAA
AAAATTATATAGAGAGGGGTATTATTGTAATTATTCATAAATATATAAGATAAAATTATATATTA
TTTTCGGGCCGGCGATATTTTTCACCCTAAACCCAAACTCGACCCGACCCGAATATCACACTTAA
AAAACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAAAAATCTG
Found at i:9050481 original size:267 final size:266
Alignment explanation
Indices: 9049925--9050514 Score: 786
Period size: 262 Copynumber: 2.2 Consensus size: 266
9049915 ATTTTTATTC
* * *
9049925 AATATATGAATTATAAACCCGACCCGACACAAAATAATAAAAAAATTATTTTTATTCAATAAAAA
1 AATATATGAATTA-GAACCCGACCCGACCCGAAATAATAAAAAAA-TATTTTTATTCAATAAAAA
* *
9049990 CATTAACTTAATTGAAAAAATTATATATAGAGGGGTATTATTGTAATTATTCATAAATATATAAG
64 CAGTAACTTAATTGAAAAAATTATATAGAGAGGGGTATTATTGTAATTATTCATAAATATATAAG
* * * *
9050055 GTAAAATTATATATTTTTTTCGGGCCGGTCCGATTTTTTTCACCCTAAACCCAAACTTGACCCGA
129 ATAAAATTATATATTATTTTCGGGCCGG--CGATATTTTTCACCCTAAACCCAAACTCGACCCGA
* *
9050120 CCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACC
192 CCCGAATATCACACTTAAAAAAACCGACCAGACCCGAACAAAATAAAGTTTCACCCGACCCGACC
* *
9050185 CGAATATATG
257 CGAATACACG
**
9050195 AAT-TAAAAATCT-G-ACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAAC
1 AATATATGAAT-TAGAACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAAC
* *
9050257 AGTGACTTAATTGAAAAAATATATATAGAGAGGGGTATTATTGTAATTATTCTTAAATATATAAG
65 AGTAACTTAATTGAAAAAAT-TATATAGAGAGGGGTATTATTGTAATTATTCATAAATATATAAG
* * * *
9050322 ATAAAATTATATA-TATTTTCGGGCTGG-G-TATTTTTCACCCTAAACCCGAAGTCGACCTGACC
129 ATAAAATTATATATTATTTTCGGGCCGGCGATATTTTTCACCCTAAACCCAAACTCGACCCGACC
* * * *
9050384 CGAATATCACACTTAAAAAAACTGACCAGACCCGACCAAAATAAAGTTTCACCCGATCCGATCCG
194 CGAATATCACACTTAAAAAAACCGACCAGACCCGAACAAAATAAAGTTTCACCCGACCCGACCCG
* *
9050449 ACTCGACCCG
259 AAT--ACACG
9050459 AATATATGAATTAGAA----ACCCGACCCGAAATAATAAAAAAAATATTTTTATTCAATA
1 AATATATGAATTAGAACCCGACCCGACCCGAAATAAT-AAAAAAATATTTTTATTCAATA
9050515 TATGAATAAG
Statistics
Matches: 283, Mismatches: 29, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
262 107 0.38
263 23 0.08
264 6 0.02
265 6 0.02
266 51 0.18
267 81 0.29
269 5 0.02
270 4 0.01
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (266 bp):
AATATATGAATTAGAACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACA
GTAACTTAATTGAAAAAATTATATAGAGAGGGGTATTATTGTAATTATTCATAAATATATAAGAT
AAAATTATATATTATTTTCGGGCCGGCGATATTTTTCACCCTAAACCCAAACTCGACCCGACCCG
AATATCACACTTAAAAAAACCGACCAGACCCGAACAAAATAAAGTTTCACCCGACCCGACCCGAA
TACACG
Found at i:9053259 original size:25 final size:25
Alignment explanation
Indices: 9053211--9053281 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
9053201 AATAATTTTT
*
9053211 TGCTCTGTTTTAGAAACAGATAATTA
1 TGCTCTATTTTAG-AACAGATAATTA
9053237 TGCTCTATTTTAGAACAGATAATTA
1 TGCTCTATTTTAGAACAGATAATTA
9053262 TGCTCTATTTTAGAACAGAT
1 TGCTCTATTTTAGAACAGAT
9053282 TGTAATGTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 32 0.73
26 12 0.27
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (25 bp):
TGCTCTATTTTAGAACAGATAATTA
Found at i:9053295 original size:25 final size:25
Alignment explanation
Indices: 9053218--9053297 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
9053208 TTTTGCTCTG
* *
9053218 TTTTAGAAACAGATAATTATGCTCTA
1 TTTTAG-AACAGATAATAATGCTATA
* *
9053244 TTTTAGAACAGATAATTATGCTCTA
1 TTTTAGAACAGATAATAATGCTATA
** *
9053269 TTTTAGAACAGATTGTAATGTTATA
1 TTTTAGAACAGATAATAATGCTATA
9053294 TTTT
1 TTTT
9053298 TCTTTTCAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 43 0.88
26 6 0.12
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (25 bp):
TTTTAGAACAGATAATAATGCTATA
Found at i:9055163 original size:21 final size:21
Alignment explanation
Indices: 9055137--9055179 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9055127 CTGTTGAACA
9055137 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
9055158 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
9055179 G
1 G
9055180 ACATTCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.44, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:9055270 original size:18 final size:18
Alignment explanation
Indices: 9055214--9055276 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
9055204 AACCTGCAGG
9055214 GGGGAATCTGTACCCCGT
1 GGGGAATCTGTACCCCGT
**
9055232 GGGGGGGAATC--TATTCC-T
1 ---GGGGAATCTGTACCCCGT
9055250 GGGGAATCTGTACCCCGT
1 GGGGAATCTGTACCCCGT
*
9055268 GGGCAATCT
1 GGGGAATCT
9055277 TGAAACCTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
15 8 0.24
17 4 0.12
18 10 0.29
19 4 0.12
21 8 0.24
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.24
Consensus pattern (18 bp):
GGGGAATCTGTACCCCGT
Found at i:9055393 original size:29 final size:31
Alignment explanation
Indices: 9055361--9055420 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
9055351 AAACTTTGAA
9055361 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
9055390 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
9055421 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:9059252 original size:30 final size:30
Alignment explanation
Indices: 9059213--9059300 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 30
9059203 TGTATTATTG
9059213 ATCTACATGGGATTAATTCCCCGTTTTGAC
1 ATCTACATGGGATTAATTCCCCGTTTTGAC
* * *
9059243 ATCTTCATGGGATTAATTCTCCGTTATGAC
1 ATCTACATGGGATTAATTCCCCGTTTTGAC
*
9059273 ATCTGCATGGGATT-ATATCCCCGTTTTG
1 ATCTACATGGGATTAAT-TCCCCGTTTTG
9059301 TTTCTCTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
29 2 0.04
30 49 0.96
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (30 bp):
ATCTACATGGGATTAATTCCCCGTTTTGAC
Found at i:9062046 original size:10 final size:10
Alignment explanation
Indices: 9062031--9062057 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9062021 TTTAAATGCC
9062031 CATTTTCCCT
1 CATTTTCCCT
9062041 CATTTTCCCT
1 CATTTTCCCT
9062051 CATTTTC
1 CATTTTC
9062058 ATCTTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.37, G:0.00, T:0.52
Consensus pattern (10 bp):
CATTTTCCCT
Found at i:9062841 original size:2 final size:2
Alignment explanation
Indices: 9062829--9062860 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9062819 CTTTGGGTTT
*
9062829 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9062861 ATTCGAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9063507 original size:273 final size:273
Alignment explanation
Indices: 9063015--9063797 Score: 1111
Period size: 273 Copynumber: 2.9 Consensus size: 273
9063005 AGATCTAACT
* * * *
9063015 GGTGTATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTGAGGATATTTGAGATAACC
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTGAGATAACA
* * * *
9063080 CGGTTCCTTTGTGATGAGGACATCTGGCTATCTAAGGATGATGTTACTCCTTCGTGATGAGGATT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTTGCTCCTTCGTGATGAGGAGT
* * * * **
9063145 TCTTAACAGTGATGACATTGCTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAG
131 TCTGATCGGTGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGAG
*
9063210 ATAACA-TGGTTCCTTCGGGATGAGGACATCTGGTTATCTAAAGATGACGCGGCTCCTTCGTGAT
196 ATAACACT-GTTCCTTCGTGATGAGGACATCTGGTTATCTAAAGATGACGCGGCTCCTTCGTGAT
*
9063274 GAGGAGTTCTGGTC
260 GAGGAGTTCTGATC
* *
9063288 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATATTTAAAG-TATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTGAGATAACA
* * ** ** *
9063352 TGGTTCCTTCATGATGAGGACATCTGATTATCTAAGGATGACGCGGCTCCTTCGTGGTGAGGAGT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTTGCTCCTTCGTGATGAGGAGT
* * * *
9063417 TCTGGTCGGTGATTGACATTATTCCTTCGTGATGAGGATGTATGGTCATCTTTTCAGATATTTGA
131 TCTGATCGGTGA-TGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGA
* * * *
9063482 GATAATACTGTTCCTTCATGATGAGGACATCTGGTTATCTAAAGATGATGTGGCTCCTTCGTGAT
195 GATAACACTGTTCCTTCGTGATGAGGACATCTGGTTATCTAAAGATGACGCGGCTCCTTCGTGAT
9063547 GAGGAGTTCTGATC
260 GAGGAGTTCTGATC
** * **
9063561 TATGGATGACATTGTTCCTTCGTGATGAGGACATCTGGTCATCTTTTCAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTGAGATAACA
*
9063626 CGGTTCCTTCGTGATGAGGATATCTGGCTATCTAAGGATGACGTTGCTCCTTCGTGATGAGGAGT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTTGCTCCTTCGTGATGAGGAGT
* * * *
9063691 TCTGATCGATGGAGGACATTGTTCCTTCATGATGAGGACCTCTGGTCATCTTTTCAGATATTTGA
131 TCTGATCGGT-GATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGA
* * *
9063756 GATAACACGGTTCCTTCGTGATGAGGACATTTGGCTATCTAA
195 GATAACACTGTTCCTTCGTGATGAGGACATCTGGTTATCTAA
9063798 GAATGATATT
Statistics
Matches: 445, Mismatches: 61, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
272 75 0.17
273 205 0.46
274 163 0.37
275 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (273 bp):
GGTGGATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTGAGATAACA
CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTTGCTCCTTCGTGATGAGGAGT
TCTGATCGGTGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGAG
ATAACACTGTTCCTTCGTGATGAGGACATCTGGTTATCTAAAGATGACGCGGCTCCTTCGTGATG
AGGAGTTCTGATC
Found at i:9063543 original size:137 final size:137
Alignment explanation
Indices: 9063015--9063803 Score: 1055
Period size: 137 Copynumber: 5.8 Consensus size: 137
9063005 AGATCTAACT
* * * *
9063015 GGTGTATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATC-TTTGAGGATATTTGAGATAAC
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCA-GATATTTGAGATAAC
* * * ** *
9063079 CCGGTTCCTTTGTGATGAGGACATCTGGCTATCTAAGGATGATGTTACTCCTTCGTGATGAGGAT
65 ACGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTGGCTCCTTCGTGATGAGGAG
* *
9063144 TTCTTAAC
130 TTCTGATC
* * **
9063152 AGT-GATGACATTGCTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGAGATAACA
* * * * *
9063216 TGGTTCCTTCGGGATGAGGACATCTGGTTATCTAAAGATGACGCGGCTCCTTCGTGATGAGGAGT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTGGCTCCTTCGTGATGAGGAGT
*
9063281 TCTGGTC
131 TCTGATC
* * **
9063288 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATATTTAAAG-TATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGAGATAACA
* * ** * *
9063352 TGGTTCCTTCATGATGAGGACATCTGATTATCTAAGGATGACGCGGCTCCTTCGTGGTGAGGAGT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTGGCTCCTTCGTGATGAGGAGT
*
9063417 TCTGGTC
131 TCTGATC
* * * *
9063424 GGT-GATTGACATTATTCCTTCGTGATGAGGATGTATGGTCATCTTTTCAGATATTTGAGATAAT
1 GGTGGA-TGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGAGATAAC
* * * * *
9063488 ACTGTTCCTTCATGATGAGGACATCTGGTTATCTAAAGATGATGTGGCTCCTTCGTGATGAGGAG
65 ACGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTGGCTCCTTCGTGATGAGGAG
9063553 TTCTGATC
130 TTCTGATC
** *
9063561 TATGGATGACATTGTTCCTTCGTGATGAGGACATCTGGTCATCTTTTCAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGAGATAACA
* *
9063626 CGGTTCCTTCGTGATGAGGATATCTGGCTATCTAAGGATGACGTTGCTCCTTCGTGATGAGGAGT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTGGCTCCTTCGTGATGAGGAGT
9063691 TCTGATC
131 TCTGATC
* * * *
9063698 GATGGAGGACATTGTTCCTTCATGATGAGGACCTCTGGTCATCTTTTCAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGAGATAACA
* *
9063763 CGGTTCCTTCGTGATGAGGACATTTGGCTATCTAAGAATGA
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGA
9063804 TATTGGTTTA
Statistics
Matches: 580, Mismatches: 67, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
135 2 0.00
136 232 0.40
137 344 0.59
138 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (137 bp):
GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTTCAGATATTTGAGATAACA
CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGACGTGGCTCCTTCGTGATGAGGAGT
TCTGATC
Found at i:9063990 original size:36 final size:36
Alignment explanation
Indices: 9063931--9064031 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 36
9063921 TGATTTTATC
* *
9063931 TTGCTTCACTACTCTTCTGTAAAGGCTATA-ATTGTT
1 TTGCTTCACTACTCTTCCGTAAAGGCTA-AGATTGCT
* * * *
9063967 TTTCTTCTCTATTCTTCCGTAAAGGTTAAGATTGCT
1 TTGCTTCACTACTCTTCCGTAAAGGCTAAGATTGCT
*
9064003 TTGCTTCACTACTCTTCCGTGAAGGCTAA
1 TTGCTTCACTACTCTTCCGTAAAGGCTAA
9064032 ATCTGAAATA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
35 1 0.02
36 52 0.98
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.43
Consensus pattern (36 bp):
TTGCTTCACTACTCTTCCGTAAAGGCTAAGATTGCT
Found at i:9064060 original size:47 final size:47
Alignment explanation
Indices: 9064009--9064163 Score: 162
Period size: 47 Copynumber: 3.4 Consensus size: 47
9063999 TGCTTTGCTT
*
9064009 CACTACTCTTCCGTGAAGGCTAAATCTGAAATAAGAAGAATATGTTC
1 CACTACTCTTCCGTGAAGGCTAAATCTGAAATAAGAAGAATTTGTTC
* * **
9064056 CACTACTCTTCCGTGAA-GAT-CATACTCG----AAGTTG-ATTTGCTTC
1 CACTACTCTTCCGTGAAGGCTAAAT-CT-GAAATAAGAAGAATTTG-TTC
* * *
9064099 CACTACTCTTCCGTGGAGACCAAATCTGAAATAAGAAGAATTTGTTC
1 CACTACTCTTCCGTGAAGGCTAAATCTGAAATAAGAAGAATTTGTTC
9064146 CACTACTCTTCCGTGAAG
1 CACTACTCTTCCGTGAAG
9064164 ATCAGACTCG
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
42 4 0.05
43 24 0.28
44 2 0.02
45 4 0.05
46 4 0.05
47 42 0.49
48 5 0.06
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (47 bp):
CACTACTCTTCCGTGAAGGCTAAATCTGAAATAAGAAGAATTTGTTC
Found at i:9064113 original size:43 final size:42
Alignment explanation
Indices: 9064053--9064394 Score: 190
Period size: 43 Copynumber: 7.7 Consensus size: 42
9064043 GAAGAATATG
*
9064053 TTCCACTACTCTTCCGTGAAGATCATACTCGAAGTTGATTTGC
1 TTCCACTACTCTTCCGTGAAGATCA-AATCGAAGTTGATTTGC
* * **
9064096 TTCCACTACTCTTCCGTGGAGACCAAATCTGAAATAAGAAGAATTTG-
1 TTCCACTACTCTTCCGTGAAGATCAAATC-G----AAGTTG-ATTTGC
* * *
9064143 TTCCACTACTCTTCCGTGAAGATCAGACTCGAGGTTGATTCGC
1 TTCCACTACTCTTCCGTGAAGATCA-AATCGAAGTTGATTTGC
* * * *
9064186 TTCCACTACTCTTCTGTGGAGACCAAATCTGAAATATGAAGAATTTG-
1 TTCCACTACTCTTCCGTGAAGATCAAATC-GAAGT-T---G-ATTTGC
* * * * *
9064233 TTCCACTACTCTTCAGTGAACATCAGACTCGAGGTTGATTCGC
1 TTCCACTACTCTTCCGTGAAGATCA-AATCGAAGTTGATTTGC
* * * *
9064276 TTCCACTACTCTTTCATGGAGACCAAATCTGAA-TTAAAAAGAATTTG-
1 TTCCACTACTCTTCCGTGAAGATCAAATC-GAAGTT-----G-ATTTGC
* *
9064323 TTCCACTACTCTTCCATGAAGATCAGAGTC-AAGATTGATTTGC
1 TTCCACTACTCTTCCGTGAAGATCA-AATCGAAG-TTGATTTGC
* * * *
9064366 TTCTACTACTCTTCCATGGAGACCAAATC
1 TTCCACTACTCTTCCGTGAAGATCAAATC
9064395 TGACCTAATT
Statistics
Matches: 228, Mismatches: 44, Indels: 55
0.70 0.13 0.17
Matches are distributed among these distances:
42 27 0.12
43 97 0.43
44 1 0.00
46 3 0.01
47 76 0.33
48 24 0.11
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
TTCCACTACTCTTCCGTGAAGATCAAATCGAAGTTGATTTGC
Found at i:9064162 original size:90 final size:90
Alignment explanation
Indices: 9064002--9064397 Score: 580
Period size: 90 Copynumber: 4.4 Consensus size: 90
9063992 TTAAGATTGC
* * * *
9064002 TTTGCTT-CACTACTCTTCCGTGAAGGCTAAATCTGAAATAAGAAGAATATGTTCCACTACTCTT
1 TTTGCTTCCACTACTCTTCCGTGGAGACCAAATCTGAAATAAGAAGAATTTGTTCCACTACTCTT
*
9064066 CCGTGAAGATCATACTCGAAGTTGA
66 CCGTGAAGATCAGACTCGAAGTTGA
9064091 TTTGCTTCCACTACTCTTCCGTGGAGACCAAATCTGAAATAAGAAGAATTTGTTCCACTACTCTT
1 TTTGCTTCCACTACTCTTCCGTGGAGACCAAATCTGAAATAAGAAGAATTTGTTCCACTACTCTT
*
9064156 CCGTGAAGATCAGACTCGAGGTTGA
66 CCGTGAAGATCAGACTCGAAGTTGA
* * *
9064181 TTCGCTTCCACTACTCTTCTGTGGAGACCAAATCTGAAATATGAAGAATTTGTTCCACTACTCTT
1 TTTGCTTCCACTACTCTTCCGTGGAGACCAAATCTGAAATAAGAAGAATTTGTTCCACTACTCTT
* * *
9064246 CAGTGAACATCAGACTCGAGGTTGA
66 CCGTGAAGATCAGACTCGAAGTTGA
* * * * *
9064271 TTCGCTTCCACTACTCTTTCATGGAGACCAAATCTGAATTAAAAAGAATTTGTTCCACTACTCTT
1 TTTGCTTCCACTACTCTTCCGTGGAGACCAAATCTGAAATAAGAAGAATTTGTTCCACTACTCTT
* *
9064336 CCATGAAGATCAGAGTC-AAGATTGA
66 CCGTGAAGATCAGACTCGAAG-TTGA
* *
9064361 TTTGCTTCTACTACTCTTCCATGGAGACCAAATCTGA
1 TTTGCTTCCACTACTCTTCCGTGGAGACCAAATCTGA
9064398 CCTAATTTAC
Statistics
Matches: 280, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
89 9 0.03
90 271 0.97
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (90 bp):
TTTGCTTCCACTACTCTTCCGTGGAGACCAAATCTGAAATAAGAAGAATTTGTTCCACTACTCTT
CCGTGAAGATCAGACTCGAAGTTGA
Found at i:9064556 original size:62 final size:61
Alignment explanation
Indices: 9064490--9064648 Score: 178
Period size: 61 Copynumber: 2.6 Consensus size: 61
9064480 AGGGAGTTAG
9064490 AAATAATACATGTTGACTTCTCTTCACGAGGAAGTAAAAAATTGAATCTACTGAGG-AGTCAA
1 AAATAATA-ATGTTGACTTCTCTTCACGAGGAAGTAAAAAATTGAATCTACTG-GGAAGTCAA
* * * * * *
9064552 AAATAATAAAGATTGACTTCT-TTTACGAGGAAGTTAGAAATTGACTCTATTGGGAAGTCAGA
1 AAATAATAATG-TTGACTTCTCTTCACGAGGAAGTAAAAAATTGAATCTACTGGGAAGTCA-A
* * *
9064614 AATAAAAAAATGTTGACTTCTCTTCATGAGGAAGT
1 AA-ATAATAATGTTGACTTCTCTTCACGAGGAAGT
9064649 CAAGGATTGA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
60 2 0.02
61 33 0.41
62 29 0.36
63 17 0.21
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (61 bp):
AAATAATAATGTTGACTTCTCTTCACGAGGAAGTAAAAAATTGAATCTACTGGGAAGTCAA
Found at i:9065483 original size:171 final size:171
Alignment explanation
Indices: 9065167--9065484 Score: 413
Period size: 171 Copynumber: 1.9 Consensus size: 171
9065157 AGCATATGAT
** * *
9065167 AACACATTCATCCTTTCCTGTAGCTTCTGTCTAGATTTTTCAAACAGGGAAGCTCTTTGCATAAT
1 AACACATTCATCCTTTCCTGTAGCTAATGCCCAGATTTTTCAAACAGGGAAGCTCTTTGCATAAT
* * ** * * *
9065232 TTTCAGAGCTTTTGTATGATGTCACAAAGACACTTAAGAACAAAACTCAGTGGGAATATAAATAG
66 GTTCAGAGCTTTTGTATAACATCAAAAAGACACTTAAGAACAAAACTCAATGGGAATACAAATAG
**
9065297 GATGCTTTAGCTTGCCAACATCATATCAGAGAACATTTGAC
131 GAAACTTTAGCTTGCCAACATCATATCAGAGAACATTTGAC
* * * *
9065338 AACACATTCATCCTTTCCTGTAGCTAATGCCCAGTTTTTTCAATCAGGGAAGCTCTTTGTATAGT
1 AACACATTCATCCTTTCCTGTAGCTAATGCCCAGATTTTTCAAACAGGGAAGCTCTTTGCATAAT
* * * * *
9065403 GTTCAGAGCTTTTTTATAACATCAAAAAGACACTTAAGAA-AAAAGCTTAATTGGAATACAAGTG
66 GTTCAGAGCTTTTGTATAACATCAAAAAGACACTTAAGAACAAAA-CTCAATGGGAATACAAATA
*
9065467 GGAAACTTTGGCTTGCCA
130 GGAAACTTTAGCTTGCCA
9065485 GCATTAATGT
Statistics
Matches: 123, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
170 4 0.03
171 119 0.97
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (171 bp):
AACACATTCATCCTTTCCTGTAGCTAATGCCCAGATTTTTCAAACAGGGAAGCTCTTTGCATAAT
GTTCAGAGCTTTTGTATAACATCAAAAAGACACTTAAGAACAAAACTCAATGGGAATACAAATAG
GAAACTTTAGCTTGCCAACATCATATCAGAGAACATTTGAC
Found at i:9082519 original size:22 final size:23
Alignment explanation
Indices: 9082478--9082524 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
9082468 CGGAAGGAGC
*
9082478 TCCGATCACCAGCCAGTCACTAT
1 TCCGATCACCAGCCAATCACTAT
*
9082501 TCCGGTCACC-GCCAATCACTAT
1 TCCGATCACCAGCCAATCACTAT
9082523 TC
1 TC
9082525 ACCTATGTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.23, C:0.40, G:0.13, T:0.23
Consensus pattern (23 bp):
TCCGATCACCAGCCAATCACTAT
Found at i:9088333 original size:26 final size:26
Alignment explanation
Indices: 9088290--9088341 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9088280 GTTCTGTTCG
* *
9088290 TTTATATTCACGATCAAACTCGTTTA
1 TTTATATTCACGAGCAAACTCATTTA
* *
9088316 TTTATGTTCATGAGCAAACTCATTTA
1 TTTATATTCACGAGCAAACTCATTTA
9088342 CATGTTTCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (26 bp):
TTTATATTCACGAGCAAACTCATTTA
Found at i:9088587 original size:23 final size:23
Alignment explanation
Indices: 9088561--9088644 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
9088551 ATATTAAACG
*
9088561 AACATGTTCGTGAACGCTAAATA
1 AACATGTTCATGAACGCTAAATA
*
9088584 AACATATTCATGAACGCTAAATA
1 AACATGTTCATGAACGCTAAATA
*
9088607 AACATGTTCATGAATGCTAAATA
1 AACATGTTCATGAACGCTAAATA
*
9088630 AACATGTTCGTGAAC
1 AACATGTTCATGAAC
9088645 ATATAAAGGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (23 bp):
AACATGTTCATGAACGCTAAATA
Found at i:9088692 original size:47 final size:44
Alignment explanation
Indices: 9088624--9088713 Score: 108
Period size: 47 Copynumber: 2.0 Consensus size: 44
9088614 TCATGAATGC
* * * *
9088624 TAAATAAACATGTTCGTGAACATATAAAGGAACACATTCACAAATAT
1 TAAACAAACATGTTCGCGAACA-ATAAA--AAAACATTCAAAAATAT
*
9088671 TAAACAAACATGTTTGCGAACAATAAAAAAACATTCAAAAATA
1 TAAACAAACATGTTCGCGAACAATAAAAAAACATTCAAAAATA
9088714 AATAAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
44 14 0.37
46 5 0.13
47 19 0.50
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (44 bp):
TAAACAAACATGTTCGCGAACAATAAAAAAACATTCAAAAATAT
Found at i:9088718 original size:4 final size:4
Alignment explanation
Indices: 9088709--9088733 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9088699 AAACATTCAA
9088709 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
9088734 CGAACATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:9104068 original size:21 final size:21
Alignment explanation
Indices: 9104042--9104081 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9104032 CCCCCTTTGA
*
9104042 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
9104063 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
9104082 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:9120766 original size:85 final size:85
Alignment explanation
Indices: 9120619--9120774 Score: 233
Period size: 85 Copynumber: 1.8 Consensus size: 85
9120609 GTGAGGCGTC
* * *
9120619 GCTGATTCGAAATGTCGTGAATCAAGCAAAGGATATGTTGAAAACATCCTGCCCGAAAGTCTTAT
1 GCTGATTCGAAATGTCGTGAATCAAGCAAAGGAAATATTGAAAACATCATGCCCGAAAGTCTTAT
9120684 GGATGGGCCGAAGGACTTAA
66 GGATGGGCCGAAGGACTTAA
* * * *
9120704 GCTGATTC-AAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAACATCATGTCCGAATGTCTTA
1 GCTGATTCGAAA-TGTCGTGAATCAAGCAAAGGAAATATTGAAAACATCATGCCCGAAAGTCTTA
9120768 TGGATGG
65 TGGATGG
9120775 CCCGCATGAC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
84 3 0.05
85 60 0.95
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (85 bp):
GCTGATTCGAAATGTCGTGAATCAAGCAAAGGAAATATTGAAAACATCATGCCCGAAAGTCTTAT
GGATGGGCCGAAGGACTTAA
Found at i:9121085 original size:22 final size:21
Alignment explanation
Indices: 9121014--9121086 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
9121004 TCCGAAGGAT
*
9121014 TTATCATCTTGCTCGAAAGAC
1 TTATCATCATGCTCGAAAGAC
* * *
9121035 TTAT-A-GATGACCCGAAAGAT
1 TTATCATCATG-CTCGAAAGAC
*
9121055 TTAAGCATCATGCTCGAAAGAC
1 TT-ATCATCATGCTCGAAAGAC
9121077 TTACTCATCA
1 TTA-TCATCA
9121087 AGAAACCCTT
Statistics
Matches: 38, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
19 2 0.05
20 11 0.29
21 6 0.16
22 16 0.42
23 3 0.08
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (21 bp):
TTATCATCATGCTCGAAAGAC
Found at i:9121258 original size:52 final size:53
Alignment explanation
Indices: 9121123--9121376 Score: 253
Period size: 52 Copynumber: 4.7 Consensus size: 53
9121113 TTCTTAGTTG
* **
9121123 TCAAGGAACCCCTAAAAATTAGGCTTAGTTTCCTTTTAAAAACTCATTAAAAATCATCA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTT-C--TTAAAAACTCATTTGAAA--A-CA
* * * *
9121182 TCAAGAAACACCTGAAAATCAGGCTTAGTTTC-TAAAAACTCATTCGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAACTCATTTGAAAACA
* * ** *
9121234 TCAAGAAATCCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAACTCATTTGAAAACA
* * ** *
9121287 TTAAGAAACCCCT-AAAATTAGGCTTAGGTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAACTCATTTGAAAACA
** *
9121339 TTGAGAAACCCCTGAAAATTAGGCTTAGTTTC-TAAAAA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAA
9121377 TCTTTTGTTT
Statistics
Matches: 169, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
52 81 0.48
53 45 0.27
55 15 0.09
58 1 0.01
59 27 0.16
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (53 bp):
TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAACTCATTTGAAAACA
Found at i:9121426 original size:39 final size:39
Alignment explanation
Indices: 9121373--9121461 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
9121363 TTAGTTTCTA
*
9121373 AAAATCTTT-TGTTTCG-GCCGAAACTATCTCAAGCGAAAT
1 AAAAT-TTTCTGTTTCGAG-CGAAACAATCTCAAGCGAAAT
* *
9121412 AAAATTTTCTGTTTCGAGTGAAACAATCTCAAGCGAGAT
1 AAAATTTTCTGTTTCGAGCGAAACAATCTCAAGCGAAAT
*
9121451 AAAATCTTCTG
1 AAAATTTTCTG
9121462 GTTTTAAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
38 3 0.07
39 40 0.91
40 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (39 bp):
AAAATTTTCTGTTTCGAGCGAAACAATCTCAAGCGAAAT
Found at i:9121475 original size:39 final size:39
Alignment explanation
Indices: 9121393--9121479 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
9121383 GTTTCGGCCG
* * * *
9121393 AAACTATCTCAAGCGAAATAAAATTTTCTGTTTCGAGTG
1 AAACAATCTCAAGCGAAATAAAATCTTCTGTTTCAAGTA
* *
9121432 AAACAATCTCAAGCGAGATAAAATCTTCTGGTTTTAAG-A
1 AAACAATCTCAAGCGAAATAAAATCTTCT-GTTTCAAGTA
9121471 AAACAATCT
1 AAACAATCT
9121480 TGAGTGAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 35 0.85
40 6 0.15
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (39 bp):
AAACAATCTCAAGCGAAATAAAATCTTCTGTTTCAAGTA
Found at i:9122437 original size:45 final size:47
Alignment explanation
Indices: 9122377--9122479 Score: 129
Period size: 45 Copynumber: 2.2 Consensus size: 47
9122367 TGTTATTAAC
9122377 AAAAAGAAATACTAACCGCATGATATCTAATTCACATGC-TTATTCA
1 AAAAAGAAATACTAACCGCATGATATCTAATTCACATGCATTATTCA
* * * *
9122423 AAAAATAAAT-CTAACCGTATGATATCTAGTTCGCATGCATTTATTCGA
1 AAAAAGAAATACTAACCGCATGATATCTAATTCACATGCA-TTATTC-A
*
9122471 AAAACGAAA
1 AAAAAGAAA
9122480 ATAAATTACT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 25 0.52
46 9 0.19
47 6 0.12
48 8 0.17
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (47 bp):
AAAAAGAAATACTAACCGCATGATATCTAATTCACATGCATTATTCA
Found at i:9126867 original size:8 final size:8
Alignment explanation
Indices: 9126847--9126877 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
9126837 GGAATAAAAC
9126847 AAAATAA-
1 AAAATAAT
9126854 AAAATAAT
1 AAAATAAT
9126862 AAAATAAT
1 AAAATAAT
9126870 AAAATAAT
1 AAAATAAT
9126878 TGAAAGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:9130614 original size:2 final size:2
Alignment explanation
Indices: 9130603--9130641 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
9130593 TCGGGGGACG
9130603 AT AT -T AT AT AT AT AT A- 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 A
9130642 ACTCGTAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9130807 original size:9 final size:9
Alignment explanation
Indices: 9130795--9130849 Score: 60
Period size: 8 Copynumber: 6.2 Consensus size: 9
9130785 TAAAATAATC
9130795 ATTAAATTT
1 ATTAAATTT
9130804 ATT-AATTT
1 ATTAAATTT
***
9130812 ATTAAAAAC
1 ATTAAATTT
9130821 ATTAAAATTT
1 ATT-AAATTT
9130831 ATTAAA-TT
1 ATTAAATTT
9130839 ATTAAATTT
1 ATTAAATTT
9130848 AT
1 AT
9130850 CAGGATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 16 0.43
9 15 0.41
10 6 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (9 bp):
ATTAAATTT
Found at i:9130828 original size:27 final size:26
Alignment explanation
Indices: 9130779--9130844 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 26
9130769 ATAATTTTAA
*
9130779 AAATTATAAAATAATCATTAAATTTATT
1 AAATTATTAAA-AA-CATTAAATTTATT
*
9130807 AATTTATTAAAAACATTAAAATTTATT
1 AAATTATTAAAAACATT-AAATTTATT
9130834 AAATTATTAAA
1 AAATTATTAAA
9130845 TTTATCAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 21 0.62
28 9 0.26
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATTATTAAAAACATTAAATTTATT
Found at i:9131350 original size:27 final size:27
Alignment explanation
Indices: 9131295--9131351 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
9131285 TTAAAAAATC
* *
9131295 TTAATATAATGCATTAATTGCATAGTT
1 TTAATATAATGCACTAATTGCATACTT
*
9131322 TTAATATAATGCACTAATTGCATTCTT
1 TTAATATAATGCACTAATTGCATACTT
9131349 TTA
1 TTA
9131352 TAACTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (27 bp):
TTAATATAATGCACTAATTGCATACTT
Done.