Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020789.1 Corchorus olitorius cultivar O-4 contig20822, 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: 136839
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Found at i:17 original size:10 final size:10
Alignment explanation
Indices: 3--83 Score: 50
Period size: 10 Copynumber: 8.7 Consensus size: 10
1 AT
3 TTAATTATTA
1 TTAATTATTA
13 TTAATTA-T-
1 TTAATTATTA
21 TT-A--ATTA
1 TTAATTATTA
28 TTAATTATTA
1 TTAATTATTA
*
38 TTAATT-TAAA
1 TTAATTAT-TA
*
48 TT-GTTATTA
1 TTAATTATTA
*
57 TTAATTATAA
1 TTAATTATTA
* *
67 TAAATAATTA
1 TTAATTATTA
*
77 ATAATTA
1 TTAATTA
84 AAAAACAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
5 1 0.02
6 1 0.02
7 3 0.06
8 3 0.06
9 7 0.13
10 37 0.71
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (10 bp):
TTAATTATTA
Found at i:21 original size:7 final size:7
Alignment explanation
Indices: 9--83 Score: 57
Period size: 7 Copynumber: 10.6 Consensus size: 7
1 ATTTAATT
9 ATTATTA
1 ATTATTA
16 ATTATTTA
1 ATTA-TTA
24 ATTATTA
1 ATTATTA
31 ATTATT-
1 ATTATTA
37 ATTAATTTAA
1 ATT-A-TT-A
*
47 ATTGTT-
1 ATTATTA
53 ATTATTA
1 ATTATTA
60 ATTA-TA
1 ATTATTA
* *
66 ATAAATA
1 ATTATTA
*
73 ATTAATA
1 ATTATTA
80 ATTA
1 ATTA
84 AAAAACAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
6 13 0.23
7 30 0.53
8 11 0.19
10 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (7 bp):
ATTATTA
Found at i:24 original size:18 final size:18
Alignment explanation
Indices: 1--43 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
1 ATTTAATTATT-ATTAATT
1 ATTTAATTATTAATT-ATT
19 ATTTAATTATTAATTATT
1 ATTTAATTATTAATTATT
37 A-TTAATT
1 ATTTAATT
44 TAAATTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTAATTATTAATTATT
Found at i:37 original size:22 final size:22
Alignment explanation
Indices: 6--64 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
1 ATTTA
6 ATTATTATTAATTATTT-AATT
1 ATTATTATTAATTATTTAAATT
27 ATTAATTATT-ATTAATTTAAATT
1 ATT-ATTATTAATT-ATTTAAATT
*
50 GTTATTATTAATTAT
1 ATTATTATTAATTAT
65 AATAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 6 0.18
22 18 0.55
23 9 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTATTATTAATTATTTAAATT
Found at i:29522 original size:11 final size:11
Alignment explanation
Indices: 29503--29545 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
29493 AAAAATTGAC
*
29503 AACACAACAAA
1 AACAAAACAAA
29514 AACAAAACAAA
1 AACAAAACAAA
*
29525 AACGAAAC-AA
1 AACAAAACAAA
29535 AACGAAAACAA
1 AAC-AAAACAA
29546 GATGCTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 5 0.19
11 21 0.78
12 1 0.04
ACGTcount: A:0.74, C:0.21, G:0.05, T:0.00
Consensus pattern (11 bp):
AACAAAACAAA
Found at i:29532 original size:16 final size:16
Alignment explanation
Indices: 29513--29543 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29503 AACACAACAA
29513 AAACAAAACAAAAACG
1 AAACAAAACAAAAACG
*
29529 AAACAAAACGAAAAC
1 AAACAAAACAAAAAC
29544 AAGATGCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.19, G:0.06, T:0.00
Consensus pattern (16 bp):
AAACAAAACAAAAACG
Found at i:30983 original size:16 final size:16
Alignment explanation
Indices: 30962--31006 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
30952 TTAAAGGAAA
*
30962 ATAATATAAAAATATG
1 ATAATATAAAAAAATG
30978 ATAATACTTAAAAAAATG
1 ATAATA--TAAAAAAATG
*
30996 ATAAAATAAAA
1 ATAATATAAAA
31007 TTAACTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 11 0.44
18 14 0.56
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (16 bp):
ATAATATAAAAAAATG
Found at i:31210 original size:27 final size:27
Alignment explanation
Indices: 31153--31593 Score: 618
Period size: 27 Copynumber: 16.6 Consensus size: 27
31143 AGCCTCAGAG
31153 CTGAATATGCAACTATAT---GCCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
**
31177 CTGAATATGCAACTATATGAAACCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
* * *
31204 CTGAATATGCGACTATATAAGGCTCTA
1 CTGAATATGCAACTATATGAGGCCCTA
31231 CTGAATATGCAACTATATGAGGCCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
*
31258 CTAAATATGCAACTATATGA--CCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
*
31283 CTGAATATGTAACTATATGAGGCCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
31310 CTGAATATGCAAACTATATGAGGCCCTA
1 CTGAATATGC-AACTATATGAGGCCCTA
*
31338 CTGAATATGCAACTATATGAGGGCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
*
31365 TTGAATATGCAACTATAT--GGCCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
31390 CTGAATATGCAACTATAT--GGCCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
*
31415 CTGAATATGCAACTATAT--GGCTCTA
1 CTGAATATGCAACTATATGAGGCCCTA
*
31440 CTGAATATG-TACTATATGAGGCCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
*
31466 CTGAATATGCAACTATATGAGGCCCAA
1 CTGAATATGCAACTATATGAGGCCCTA
*
31493 CTGAATATGCAAACTATATGAGGCCTTA
1 CTGAATATGC-AACTATATGAGGCCCTA
31521 CTGAATATGCAACTATATGAGGCCCTA
1 CTGAATATGCAACTATATGAGGCCCTA
*
31548 CTGAATATGCAACTATATGATTATGACCCTA
1 CTGAATATGCAACTATATG---A-GGCCCTA
31579 CTGAATATGCAACTA
1 CTGAATATGCAACTA
31594 CATTATGCAG
Statistics
Matches: 377, Mismatches: 26, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
24 25 0.07
25 86 0.23
26 15 0.04
27 177 0.47
28 52 0.14
30 1 0.00
31 21 0.06
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (27 bp):
CTGAATATGCAACTATATGAGGCCCTA
Found at i:31483 original size:183 final size:185
Alignment explanation
Indices: 31153--31593 Score: 644
Period size: 183 Copynumber: 2.4 Consensus size: 185
31143 AGCCTCAGAG
* *
31153 CTGAATATGCAACTATAT---GCCCTACTGAATATGCAACTATATGAAACCCTACTGAATATGCG
1 CTGAATATGCAACTATATGAGGCCCTACTGAATATGCAACTATATG-AGCCCTACTGAATATGCA
*
31215 ACTATATAAGGCTCTACTGAATATGCAACTATATGAGGCCCTACTAAATATGCAACTATATGACC
65 ACTATAT-AGGCCCTACTGAATATGCAACTATAT-AGGCCCTACTAAATATGCAACTATATGACC
* *
31280 CTACTGAATATGTAACTATATGAGGCCCTACTGAATATGCAAACTATATGAGGCCCTA
128 CTACTGAATATGCAACTATATGAGGCCCAACTGAATATGCAAACTATATGAGGCCCTA
* *
31338 CTGAATATGCAACTATATGAGGGCCTATTGAATATGCAACTATATG-GCCCTACTGAATATGCAA
1 CTGAATATGCAACTATATGAGGCCCTACTGAATATGCAACTATATGAGCCCTACTGAATATGCAA
* * *
31402 CTATAT-GGCCCTACTGAATATGCAACTATAT-GGCTCTACTGAATATG-TACTATATGAGGCCC
66 CTATATAGGCCCTACTGAATATGCAACTATATAGGCCCTACTAAATATGCAACTATATGA--CCC
*
31464 TACTGAATATGCAACTATATGAGGCCCAACTGAATATGCAAACTATATGAGGCCTTA
129 TACTGAATATGCAACTATATGAGGCCCAACTGAATATGCAAACTATATGAGGCCCTA
31521 CTGAATATGCAACTATATGAGGCCCTACTGAATATGCAACTATATGATTATGACCCTACTGAATA
1 CTGAATATGCAACTATATGAGGCCCTACTGAATATGCAACTATATG---A-G-CCCTACTGAATA
31586 TGCAACTA
61 TGCAACTA
31594 CATTATGCAG
Statistics
Matches: 232, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
181 9 0.04
182 14 0.06
183 101 0.44
184 24 0.10
185 18 0.08
186 22 0.09
188 24 0.10
189 20 0.09
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (185 bp):
CTGAATATGCAACTATATGAGGCCCTACTGAATATGCAACTATATGAGCCCTACTGAATATGCAA
CTATATAGGCCCTACTGAATATGCAACTATATAGGCCCTACTAAATATGCAACTATATGACCCTA
CTGAATATGCAACTATATGAGGCCCAACTGAATATGCAAACTATATGAGGCCCTA
Found at i:33167 original size:21 final size:19
Alignment explanation
Indices: 33141--33190 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
33131 GCTCCTCTAA
33141 TAATCTCATCTGTACAGTAT
1 TAATCTCATCTGTACAGT-T
* *
33161 CTAATCTAATATGTACAGTT
1 -TAATCTCATCTGTACAGTT
33181 TAATCTCATC
1 TAATCTCATC
33191 CTTACAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 8 0.32
20 1 0.04
21 16 0.64
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (19 bp):
TAATCTCATCTGTACAGTT
Found at i:47673 original size:13 final size:13
Alignment explanation
Indices: 47655--47682 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47645 CATTTACTTA
47655 TCTAAATATATTC
1 TCTAAATATATTC
47668 TCTAAATATATTC
1 TCTAAATATATTC
47681 TC
1 TC
47683 CATAGATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (13 bp):
TCTAAATATATTC
Found at i:51125 original size:2 final size:2
Alignment explanation
Indices: 51118--51167 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
51108 CATGAATCAA
*
51118 AT AT AT AT GT AT AT -T AT A- 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
51158 AT AT AT AT AT
1 AT AT AT AT AT
51168 TATTACAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52148 original size:31 final size:31
Alignment explanation
Indices: 52014--52149 Score: 128
Period size: 31 Copynumber: 4.4 Consensus size: 31
52004 TTTGTGCACG
**
52014 TGGCATGCCACGTGTCACTTTTTGAAACACA
1 TGGCATGCCACGTGTCACTTTTTGGTACACA
* *
52045 TGACATGCCACGTGTCACTTTTTTGGTACATA
1 TGGCATGCCACGTGTCAC-TTTTTGGTACACA
* * ** * * **
52077 TAGCGTGATATGTGTTACTTTTTGGTACAGG
1 TGGCATGCCACGTGTCACTTTTTGGTACACA
* * *
52108 TGGCGTGCCACATGTCGCTTTTTGGTACACA
1 TGGCATGCCACGTGTCACTTTTTGGTACACA
52139 TGGCATGCCAC
1 TGGCATGCCAC
52150 CGTCGGACAC
Statistics
Matches: 81, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
31 60 0.74
32 21 0.26
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (31 bp):
TGGCATGCCACGTGTCACTTTTTGGTACACA
Found at i:89409 original size:49 final size:50
Alignment explanation
Indices: 89337--89436 Score: 193
Period size: 49 Copynumber: 2.0 Consensus size: 50
89327 GACATTGTAA
89337 ACGAGAAAAACATTACAGCACCAGAATC-TTTTTTTTTTTTGATAAGAAC
1 ACGAGAAAAACATTACAGCACCAGAATCTTTTTTTTTTTTTGATAAGAAC
89386 ACGAGAAAAACATTACAGCACCAGAATCTTTTTTTTTTTTTGATAAGAAC
1 ACGAGAAAAACATTACAGCACCAGAATCTTTTTTTTTTTTTGATAAGAAC
89436 A
1 A
89437 GCACCAGAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 28 0.56
50 22 0.44
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (50 bp):
ACGAGAAAAACATTACAGCACCAGAATCTTTTTTTTTTTTTGATAAGAAC
Found at i:102091 original size:20 final size:20
Alignment explanation
Indices: 102063--102107 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
102053 TAAATAATTT
*
102063 AAATCTGAAATTATGAATAC
1 AAATATGAAATTATGAATAC
102083 AAATATGAAATTATGAATAC
1 AAATATGAAATTATGAATAC
102103 AAATA
1 AAATA
102108 AACAGGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.29
Consensus pattern (20 bp):
AAATATGAAATTATGAATAC
Found at i:109301 original size:9 final size:9
Alignment explanation
Indices: 109287--109330 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
109277 TCAGATGTTA
*
109287 CAGCAGCAG
1 CAGCAACAG
*
109296 CAGCAGCAG
1 CAGCAACAG
* *
109305 CAACAACAA
1 CAGCAACAG
109314 CAGCAACAG
1 CAGCAACAG
109323 CAGCAACA
1 CAGCAACA
109331 ACCACAGCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.45, C:0.34, G:0.20, T:0.00
Consensus pattern (9 bp):
CAGCAACAG
Found at i:109323 original size:21 final size:21
Alignment explanation
Indices: 109293--109339 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
109283 GTTACAGCAG
*
109293 CAGCAGCAGCAGCAACAACAA
1 CAGCAACAGCAGCAACAACAA
*
109314 CAGCAACAGCAGCAACAACCA
1 CAGCAACAGCAGCAACAACAA
109335 CAGCA
1 CAGCA
109340 GCAGTCACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.36, G:0.17, T:0.00
Consensus pattern (21 bp):
CAGCAACAGCAGCAACAACAA
Found at i:109852 original size:30 final size:30
Alignment explanation
Indices: 109818--109942 Score: 105
Period size: 30 Copynumber: 4.2 Consensus size: 30
109808 TTACATGAAC
109818 CAGCAACAACAGTTGCAGC-TACAGCAACAG
1 CAGCAACAACAGTTGCAGCAT-CAGCAACAG
* *
109848 CAGCAGCAGCAGTTGCAGCATCAGCAACAG
1 CAGCAACAACAGTTGCAGCATCAGCAACAG
* *
109878 CAG---CAACAGTTGCAGCAGATGCAGCATCAA
1 CAGCAACAACAGTTGCAGC--AT-CAGCAACAG
** * * *
109908 CAGCAACAACAGCAGCAACAACTGCAACAG
1 CAGCAACAACAGTTGCAGCATCAGCAACAG
109938 CAGCA
1 CAGCA
109943 GCAGCAGCAG
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
27 12 0.16
29 2 0.03
30 50 0.66
31 2 0.03
33 10 0.13
ACGTcount: A:0.39, C:0.30, G:0.22, T:0.09
Consensus pattern (30 bp):
CAGCAACAACAGTTGCAGCATCAGCAACAG
Found at i:109853 original size:3 final size:3
Alignment explanation
Indices: 109839--109966 Score: 96
Period size: 3 Copynumber: 42.7 Consensus size: 3
109829 GTTGCAGCTA
* ** * * *
109839 CAG CAA CAG CAG CAG CAG CAG TTG CAG CAT CAG CAA CAG CAG CAA CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
** * * * * * * *
109887 TTG CAG CAG -ATG CAG CAT CAA CAG CAA CAA CAG CAG CAA CAA CTG
1 CAG CAG CAG CA-G CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
*
109932 CAA CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
109967 AGAGACAACC
Statistics
Matches: 96, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
2 1 0.01
3 94 0.98
4 1 0.01
ACGTcount: A:0.38, C:0.31, G:0.24, T:0.06
Consensus pattern (3 bp):
CAG
Found at i:110073 original size:15 final size:15
Alignment explanation
Indices: 110049--110078 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
110039 ACAATTGAAC
*
110049 CAACCTCAGCAACAG
1 CAACCCCAGCAACAG
110064 CAACCCCAGCAACAG
1 CAACCCCAGCAACAG
110079 ACTAGCCCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.43, G:0.13, T:0.03
Consensus pattern (15 bp):
CAACCCCAGCAACAG
Found at i:115666 original size:11 final size:11
Alignment explanation
Indices: 115629--115704 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
115619 TTCCTATATA
*
115629 AAATAAATTAT
1 AAATTAATTAT
115640 CAAA-TAATTAT
1 -AAATTAATTAT
115651 AAATTAATTAT
1 AAATTAATTAT
*
115662 AAATTTATTAT
1 AAATTAATTAT
*
115673 GAATATACATGTATGT
1 AAAT-TA-AT-TA--T
115689 AAATTAATTAT
1 AAATTAATTAT
*
115700 CAATT
1 AAATT
115705 TGTTATGAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
10 3 0.06
11 31 0.60
12 4 0.08
13 4 0.08
14 4 0.08
15 2 0.04
16 4 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (11 bp):
AAATTAATTAT
Found at i:115693 original size:38 final size:38
Alignment explanation
Indices: 115650--115726 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
115640 CAAATAATTA
115650 TAAATTAATTATAAATTTATTATGAATATACATGTATG
1 TAAATTAATTATAAATTTATTATGAATATACATGTATG
* *
115688 TAAATTAATTATCAATTTGTTATGAATATACATGTATG
1 TAAATTAATTATAAATTTATTATGAATATACATGTATG
115726 T
1 T
115727 TGTAGATGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (38 bp):
TAAATTAATTATAAATTTATTATGAATATACATGTATG
Found at i:117289 original size:31 final size:31
Alignment explanation
Indices: 117232--117299 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
117222 TTGACGTGTT
* **
117232 ATGCCACATGGTAATTTTCGGATGACATGAC
1 ATGCCACATGGCAATTTTCGGATGACACAAC
*
117263 ATGCCACATGGCAATTTT-TGAGTGACACAAC
1 ATGCCACATGGCAATTTTCGGA-TGACACAAC
117294 ATGCCA
1 ATGCCA
117300 TGTCAGCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (31 bp):
ATGCCACATGGCAATTTTCGGATGACACAAC
Found at i:123354 original size:62 final size:62
Alignment explanation
Indices: 123257--123383 Score: 200
Period size: 62 Copynumber: 2.0 Consensus size: 62
123247 AAGTACTAAA
* * * *
123257 CGGTTGGTGTACGGGTTTTGGATTACATACTTCTATCAGCAGCAGCTTTAAAATTTTCTACT
1 CGGTTGATGTACGGATTTTGGATTACATACTTCTATCAACAACAGCTTTAAAATTTTCTACT
* *
123319 CGGTTGATGTACGGATTTTGGATTACGTACTTCTATCAACAACAGCTTTAAAATTTTTTACT
1 CGGTTGATGTACGGATTTTGGATTACATACTTCTATCAACAACAGCTTTAAAATTTTCTACT
123381 CGG
1 CGG
123384 AGACTTTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (62 bp):
CGGTTGATGTACGGATTTTGGATTACATACTTCTATCAACAACAGCTTTAAAATTTTCTACT
Found at i:125914 original size:15 final size:16
Alignment explanation
Indices: 125888--125920 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
125878 AATGGAATCC
125888 TAAAATCCTATAAAAT
1 TAAAATCCTATAAAAT
125904 TAAAA-CCTATAAAAT
1 TAAAATCCTATAAAAT
125919 TA
1 TA
125921 TAAGCAGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATCCTATAAAAT
Found at i:130215 original size:330 final size:329
Alignment explanation
Indices: 128269--135769 Score: 6530
Period size: 330 Copynumber: 22.8 Consensus size: 329
128259 CGGGGCCCAC
* *
128269 GAAATATCTAAATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTG---TTACGAGC
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * *
128331 ATCTGAATCTTGTTTCGATTTAATTAGAAGTAAATTCATAAAAAAAAT-AAAAAATGATATTAGA
66 ATCTGAATCTTGTTTCGATTTAATTAGAA-TTAATTC--GAAAAAAATGGAAAAACGATATTAGA
* * * ** * * *
128395 AGCGTGAAACACCCTTAAATTTTTTTTTCAGTTGAATTATAAATTTCTTGTGAGTATTGTGGCAA
128 AGCGTGAAAAACCCTTCAATCTTTTTGGCA-TTGAATTATATATTTTTTATGAGTATTGTGGCAA
* * * ** *** * ** ** *
128460 AGAATTGAGGAAAAATTTTTTGCATCAATTTTTTCAAAATTTTAGCTAAAATCGTGTGTTAACCA
192 AAAATTGA-GAAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCA
*** * * * * * *
128525 TCATAATTTTTTTTGCTAAAAACGCATTCTGGGGCCTCGACTCAGTTTTGCATGATTTTTGGTGT
256 TC--ACGGTTTTTGGCTAAAAACGCGTTCTGAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGT
128590 AAAGACTTCTT
319 AAAGACTTCTT
* *
128601 GATATATCTATATTCATCAAACCAAATGC-CAACCACATTGGATTTAAGGATTTGTTTTTACGAG
1 GAAATATCTATATTCATCTAACCAAAT-CTCAACCACATTGGATTTAAGGATTTGTTTTTACGAG
* * * * *
128665 CATCTAAATATTGTTTCGATTTAATTAGAAATTAATTCAAAAAAAATGGAAATACGATATTAGAT
65 CATCTGAATCTTGTTTCGATTTAATTAG-AATTAATTCGAAAAAAATGGAAAAACGATATTAGAA
* * * * *
128730 GTGTGAAAAACCCTTCAATCTTTTTGTCATTGAATTACATATTTTTTATTAGTATTGTGGCGAAA
129 GCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAA
* * * *
128795 AATTGAGAAATGATATTTCGGGTTTGTTTTTGCCAAATTTTAGCCGCAATCGTGTACTAACCATC
194 AATTGAGAAA-AATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATC
* * * ** * *
128860 ACAGTTTTTGGTTAAAAACGCATT-TCGAGGCCCTAGCTCACTTTTGCATGATTTTTGGCGCAAA
258 ACGGTTTTTGGCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAA
* *
128924 AAGTTCTT
322 GACTTCTT
* * * * *
128932 GAAATATATATATTCATCGAACCAAATCT-AAGACACAGTGGATATAAGGATTTGTTTTTACGAG
1 GAAATATCTATATTCATCTAACCAAATCTCAA-CCACATTGGATTTAAGGATTTGTTTTTACGAG
*
128996 CATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGGAAAAAAATGGAAAAACGATATTAGA
65 CATCTGAATCTTGTTTCGATTTAATTAG-AATTAATTC-GAAAAAAATGGAAAAACGATATTAGA
* * * ** *
129061 AGCATG-GAAAGCCTGTCAATCTTTTTGGCATTGAATTATATATTTTTCCTGAGTGTTGTGGCAA
128 AGCGTGAAAAACCCT-TCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAA
* * * * *
129125 AAAATTCAGAAAAA-ATTT----TTCG-----GGACAGTTTTAGCCGAAATCGTGTACTAATCAT
192 AAAATTGAGAAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCAT
* * * * * **
129180 CACGGTTTTTGGGCTAAAAACGCGTTTTGGGGCCCTGGCTTAGTTTTGCATGACTTTTGGCAAAA
257 CACGGTTTTT-GGCTAAAAACGCGTTCTGAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAA
129245 AGAC-TCTT
321 AGACTTCTT
* * * * *
129253 CGAAATAACTATATTCATCTTACCAAATCTCCACCACATTGGATTTAACGG-TTTGGTTTTATGA
1 -GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAA-GGATTTGTTTTTACGA
* *
129317 GCATCTGAATCTTGTTTCGATTTAATCAGAAAGTAATTCGGAAAAAAATGGAAAAACGATATTAG
64 GCATCTGAATCTTGTTTCGATTTAATTAG-AATTAATTC-GAAAAAAATGGAAAAACGATATTAG
* * * ** *
129382 AAGCGTGAAAAACCCGTCAATATTTTTGGCGTTGAATTATATATTTTTCCTGAGTGTTGTGGCAA
127 AAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAA
* * * ** * *
129447 AAAATTCAGATTAAAAAAATTT----TTCG--GGT-C--AGTTTTAGCCGAAATTGTGTACTAAT
192 AAAATT--GA-GAAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAT
* * * *
129503 CATCACGGTTTTTGGGCTAAAAACGCGTT-TCG-GGCCCCGACTTAGTTTTGCATGAATTTTGAC
254 CATCACGGTTTTT-GGCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATGATTTTTGGC
**
129566 AAAAAGAC-TCTT
317 GTAAAGACTTCTT
* ** *
129578 CGAAATATCTATATTCATCTTACCAAATCTCAACCACATTGGATTTAAACATTTGGTTTTACGAG
1 -GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAG
* * *
129643 CATCTGAATCATGTTTCGATTTAATTAGACGTAAATTCAGAAAAAAA-GGAAAAAAAAACGATAT
65 CATCTGAATCTTGTTTCGATTTAATTAGA-ATTAATTC-GAAAAAAATGG----AAAAACGATAT
* * * * * * * ** *
129707 TAGAAACATGAAAAACACTTAAATTTTTTTGTCAGTTGAATTATATATTTCTTGGGAATATTGTG
124 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCA-TTGAATTATATATTTTTTATGAGTATTGTG
* * *** * * *
129772 GCAAAGAATTAAGTAAAAA-ACTTTCGGGTCAATTTTTTCAAAATTTTAGCCGAAATCGTATGCT
188 GCAAAAAATTGAG-AAAAATA-TTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACT
* * * * * * *
129836 AACCATCACAGTTTTTAGCTAAAAACGCGTTCCCG-GGCTCCGTCTCAATTTTGCATGATTTTTG
251 AATCATCACGGTTTTTGGCTAAAAACGCGTT-CTGAGGCCCCGGCTCAGTTTTGCATGATTTTTG
* * *
129900 GTGTAAAGAATTGTT
315 GCGTAAAGACTTCTT
* * * * *
129915 GATATATCTATATTCATCAAACCAAATCTCAACCACATTGCATTTAATGATTTGTTTTTACGAGA
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * * * *
129980 ATCTAAATATTGTTTTGATTAAATTAGAATTAATTC-AAAAAAATGGAAATACGATATTAGATGC
66 ATCTGAATCTTGTTTCGATTTAATTAGAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGC
*
130044 GTGAAAAACCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAA
131 GTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGC-AAAAA
*
130109 ATTGAGAAATAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAATCATCA
195 ATTGAGAAA-AATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATCA
* * * * * * *
130174 CGGTTTTTTGCTAAAAACGAGTTCTGAGGCCGCGACTCAATTTTGCATGATTTTTGACATAAAGA
259 CGGTTTTTGGCTAAAAACGCGTTCTGAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGA
*
130239 CTCCTT
324 CTTCTT
* * * *** * * *
130245 GAAATATATATATATTCATCGAACCAAATATTGGCTACATTGGATATAAGGATTTGTTTTTATGA
1 G-AA-ATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGA
* * **
130310 GCATCTGAATCCTGTTTCAATTTAATTAGAAAGCAATTCAGAAAAAAAATGGAAAAACGATATTA
64 GCATCTGAATCTTGTTTCGATTTAATTAG-AATTAATTC-G-AAAAAAATGGAAAAACGATATTA
* * * ** *
130375 GAAGCGTGAAAAGCCCATCAATCTTTTTGGCGTTGAATTATATATTTTTCCTGAGTGTTGTGGCA
126 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * *
130440 AAAAATTCATAAAAAAATATTTC--G---G-----G-ACAGTTTTAGCCGAAATCGTGTACTAAT
191 AAAAATT--GAGAAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAT
* **
130494 CATCACGGTTTTTGGGCTAAAAACGCGTT-TCGAGGCCCCGGCTCAGTATTGCATGGCTTTTGGC
254 CATCACGGTTTTT-GGCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATGATTTTTGGC
**
130558 AAAAAGAC-TCTT
317 GTAAAGACTTCTT
* * * *
130570 CGAAATATCTATATTTATCTTACCAAACCTCAACCACATTGGATTTAACGG-TTTGGTTTTACGA
1 -GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAA-GGATTTGTTTTTACGA
* * *
130634 GCATCTGAATCTTGTTTCGATTTAATTAGAAGTATATTC-AGGAAAAA---AAAAACGAGATTAG
64 GCATCTGAATCTTGTTTCGATTTAATTAGAATTA-ATTCGA-AAAAAATGGAAAAACGATATTAG
* ** * * * *
130695 AAGCGTGAAAAACCCTTAAAAT-TTTTTTTCAGTTAAATTATGTATTTCTTAGGAGTATTGTGGC
127 AAGCGTGAAAAACCCTT-CAATCTTTTTGGCA-TTGAATTATATATTTTTTATGAGTATTGTGGC
* * * ** * **
130759 AAAGAATTAAGTAAAAAT-TTTCCGAGTCAGTTTTTTCAAAATTTTAGCCGAAATAAT-TAGCTA
190 AAAAAATTGAG-AAAAATATTT-CGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTA-CTA
* * * *
130822 A-CTATCACAGTTTTTTTGCTAAAAACACGTTCCCG-GGCCCCGGCTCAGTTTTGCATGATTTTT
252 ATC-ATCAC-GGTTTTTGGCTAAAAACGCGTT-CTGAGGCCCCGGCTCAGTTTTGCATGATTTTT
*
130885 GGCGTAAAGAAC-TGTT
314 GGCGTAAAG-ACTTCTT
* * * *
130901 GATATATCTATATTCATCAAACCAAATCCCAACCACATTGGATTGAAGGATTTGTTTTTACGAGC
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * *
130966 ATCT-ATATATTGTTTCGATTTAATTAGAATTAATTC-AAAAAAATGGAAATACGATATTAGATG
66 ATCTGA-ATCTTGTTTCGATTTAATTAGAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAG
* * * * *
131029 CGTGAAAAACCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTAATGAGTATTATGGCAACAA
130 CGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAA
* *
131094 ATTGAGAAATGATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAATCATCA
195 ATTGAGAAA-AATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATCA
* * * *
131159 CGGTTTTTGGCTAAAAACGAGTTCTGAGGCCCCCGGCTCAATTTTGCATGACTTTTGACGTAAAG
259 CGGTTTTTGGCTAAAAACGCGTTCTGAGG-CCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAG
*
131224 ACTCCTT
323 ACTTCTT
* * ** * * * *
131231 CAAATA--TATATTCCT-TGAACCAAATCTCGGCTACACTGGATATAAGGATTTGTTTTTATGAG
1 GAAATATCTATATTCATCT-AACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAG
* *
131293 CATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGGAAAAAAATGGAAAAATGATATTAGA
65 CATCTGAATCTTGTTTCGATTTAATTAG-AATTAATTC-GAAAAAAATGGAAAAACGATATTAGA
* * * * * **
131358 AGCGTGAAAAGCCCGTCAATTTTTTTGGCGTTGAGTTATATATTTTTCCTGAGTATTGTGGCAAA
128 AGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAA
* * * * *
131423 AAATTCAGTAAAAAATTTTTC-GG---G----T-C--AGTTTTAGCCGAAATCATGTACT-ACCT
193 AAATTGAG--AAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATC-
* * * * * *
131476 ATCACGGTTTTTGAGTTAAAAACGC-TTTTCGGGGCCCCAGCTCAGTTTTGCATCACTTTTGGCA
255 ATCACGGTTTTTG-GCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATGATTTTTGGC-
* * *
131540 G-AAACACTCCTC
317 GTAAAGACTTCTT
* * * *
131552 GAAATATCTATATTCATCTAACCAAATCTTAACGACATTGAATTTAAGGATTTGGTTTTACGAGC
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * *
131617 ATCCGAATCTTGTTTCGATTTAATTAGAAGTAAATTC-AGAAAAA---AAAAACGATATTCGAAG
66 ATCTGAATCTTGTTTCGATTTAATTAGAA-TTAATTCGAAAAAAATGGAAAAACGATATTAGAAG
* * ** * * * *
131678 CGTGAAAAACCCTTAAATATTTTTTTCAGTTGAATTATATATTTCTTGTGAGTATTATGGCAAAG
130 CGTGAAAAACCCTTCAATCTTTTTGGCA-TTGAATTATATATTTTTTATGAGTATTGTGGCAAAA
* * * *
131743 AATTGAGTAAAAA-ATTTTTGGGTCAGTT-TTTTTTCAAAATTTTAGCCGAAATCGTGTGCTAAC
194 AATTGAG-AAAAATA-TTTCGGGT---TTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAT
* *
131806 CATCACGGTTTTTTGCTAAAAACGCGTT-TCGTGGCCCCGGCTCAGTTTTGCATGATTTTTGGCG
254 CATCACGGTTTTTGGCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCG
131870 TAAAGACTTCTT
318 TAAAGACTTCTT
* * * * * * * *
131882 GATATATCTATATTCTTCAAACCAAATCCCAGCCACTTTGGATTGAAGGATTTGTTTTTACGAGT
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * * *
131947 ATCTAAATATTGTTTCGAATTAATTAGAAATTAATT---AAAAAATGGAAATACGATATTAGATG
66 ATCTGAATCTTGTTTCGATTTAATTAG-AATTAATTCGAAAAAAATGGAAAAACGATATTAGAAG
* * *
132009 CATGAAAAACCGTTCAATCTTTTTGGCATTGAATTATATA-TTTTT-TGAGTATTGCGGCAAAAA
130 CGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAA
* * * *
132072 ATTGTGAAATAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGCAAATCGTGTATTCACCATC
195 ATTGAGAAA-AATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCG-AAATCGTGTACTAATCATC
* * * * *
132137 ACGGTTTTTGGCTAAAAACGCGTT-TCGAGACCTCGGCTTACTTTTGCATGATTTTTGGCGCAAA
258 ACGGTTTTTGGCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAA
* *
132201 AACTCCTT
322 GACTTCTT
* * ** * *
132209 GAAATATATATATTCATCGAACCAAATCTCGGCCACATTGGATATAAGGATTTGTTTTTACAAGC
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * * *
132274 ATTTGAATCTTGTTTTGATTTACA-TAGAAAGTAATTCGGAATAAAAAATGGATAAACAATATTA
66 ATCTGAATCTTGTTTCGATTTA-ATTAG-AATTAATTC-G-A-AAAAAATGGAAAAACGATATTA
* * *** * *** * ** *
132338 GAAGCGTGAAAAGCCCGTCAATCTTTTTGGGGGTAAATTATATATTTTTCCCGAGTGTTGCAGTA
126 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * *
132403 AAATATTTAGAAAAACTTTTTC-GG---G----T-C--AGTTTTAGCCGAAATCGTGTACTAACT
191 AAAAATTGAGAAAAA-TATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA-T
* * * * * * **
132457 AACTATCACGGTTTTTGAGCTAAAAACGCTTTTTGGGGCCCCTGCTCAGTTTTACATCACATTTG
254 --C-ATCACGGTTTTTG-GCTAAAAACGCGTTCTGAGGCCCCGGCTCAGTTTTGCATGATTTTTG
* *
132522 GTAG-AAAGAC-TCATC
315 G-CGTAAAGACTTC-TT
* *
132537 GAAATATCTATATTCTTCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGGTTTTACGAGC
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * **
132602 ATCCGAATCTTGTTTCGATTTCATTAGAAAGTAAATTCAGAAAAAAAATTAAAAAAAAACGATAT
66 ATCTGAATCTTGTTTCGATTTAATTAG-AA-TTAATTC-G-AAAAAAA-T--GGAAAAACGATAT
* * * * *
132667 GAGAAGCGTGAAAAACCCTT-AATTTTTTTAG--TTGAATTATATATTTCTTAGGAGTATTGTGG
124 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGG
* * * ** * * **
132729 -AAAAGAATTAAGTAAAAATTTTTCAGGTCAGTTTTTTCAAAATTTTAACCGAAATCAAG-AGCT
189 CAAAA-AATTGAG-AAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTA-CT
* * * * * * * *
132792 AAACATCACAGTTTTTTGCTAAAAACGCGTTCCCG-TGCCCCGGTTCTGTTTTACATGATTTTTG
251 AATCATCACGGTTTTTGGCTAAAAACGCGTT-CTGAGGCCCCGGCTCAGTTTTGCATGATTTTTG
*
132856 GCGTAAAGAAC-TGTT
315 GCGTAAAG-ACTTCTT
** * *
132871 GTTATATCTATATTCATCAAACCAAATC-CAAAGCACATTGGATTTAAGGATTTGTTTTTACGAG
1 GAAATATCTATATTCATCTAACCAAATCTC-AACCACATTGGATTTAAGGATTTGTTTTTACGAG
* * * *
132935 CATGT-ATATATTGTTTCGATTTAATTAGAATTAATTC-AAAAAAATGGAAATACGATATTAGAT
65 CATCTGA-ATCTTGTTTCGATTTAATTAGAATTAATTCGAAAAAAATGGAAAAACGATATTAGAA
* * * *
132998 GCGTGAAAAACCTTTCAATCTTTTTGGCATCGAATTATATATTTTTTATGAGTATTATGGCAACA
129 GCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAA
* * * *
133063 AACTGAGAAATAATATTTCGGGTTTGTTTTTGCCAAATTTTAGGCAAAATCGTGTACTAATCATC
194 AATTGAGAAA-AATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATC
* * * *
133128 ACGGTTTCTGGCTAAAAACGAGTTCTGAGGCCCCCGGCTCAATTTTGCATGATTTTTGACGTAAA
258 ACGGTTTTTGGCTAAAAACGCGTTCTGAGG-CCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAA
*
133193 GACTCCTT
322 GACTTCTT
* ** * * *
133201 GAAA-ATATATATTCAT-TGAACCAAATCTCGGCTACATTGCATATAAGGATTTGTTTTTACGAG
1 GAAATATCTATATTCATCT-AACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAG
* *
133264 CATCT-ATATATTGTTTCGATTTAATTAAAATTAATTC-AAAAAAATGGAAAAACGATATTAGAA
65 CATCTGA-ATCTTGTTTCGATTTAATTAGAATTAATTCGAAAAAAATGGAAAAACGATATTAGAA
* * * **
133327 GCGTGAAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATTATTCCTGAGTATTGTGGCAAAA
129 GCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAA
* * * *
133392 AATTCAGTAAAAAAATTTTC-GG---G----T-C--AGTTTTAGCCGAAATCATGTACTAATCAT
194 AATTGAG-AAAAATA-TTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCAT
* * * **
133446 CACGGTTTTTGGGCTAAAAACGCGTT-TCGAGGCCTCGGCTCAGTTTTGCATGACTTTTGACAAA
257 CACGGTTTTT-GGCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTA
*
133510 AAGACTAT-TC
320 AAGACT-TCTT
* *
133520 GAAATATCTATATTCATCTTACCAAATCTCAACCACATTGGATTTAACGG-TTTGGTTTTACGAG
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAA-GGATTTGTTTTTACGAG
* * **
133584 CATCTGAATCTTGTTTCGATTTAATTAGACGTAAATTCAGAAAAACAAAATTTTAAAAAAAAAAC
65 CATCTGAATCTTGTTTCGATTTAATTAGA-ATTAATTC-G--AAA-AAAA---T---GGAAAAAC
* * * * * * ** *
133649 TATATTAGAAGCGTGAAAACCCCTTAAATTTTTTTTGTCAGTTGAATTATATATTTCTTGGGAAT
119 GATATTAGAAGCGTGAAAAACCCTTCAA-TCTTTTTGGCA-TTGAATTATATATTTTTTATGAGT
* * * ** *
133714 ATTGTGGCAAAGAATTAAGTAAAAATATTTCGTGTCAGTTTTTTCAAAATTTTAGCCGAAATCGT
182 ATTGTGGCAAAAAATTGAG-AAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGT
** * ** * * * *
133779 GTGTTAACCATCATAGTTTTTTGCTAAAAACGCGTTCCTG-GGCCCCGACTCAATTTTGAATGAT
246 GTACTAATCATCACGGTTTTTGGCTAAAAACGCGTT-CTGAGGCCCCGGCTCAGTTTTGCATGAT
* *
133843 TTTTGGCGTAAAGAATTGTT
310 TTTTGGCGTAAAGACTTCTT
* * *
133863 GATATATCTATATTCATCAAACCAAATCCCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * * *
133928 ATCTAAATATTGTTTCGATTAAATTAGAATTAATTC-AAAAAAATGGAAATACGATATTAGATGC
66 ATCTGAATCTTGTTTCGATTTAATTAGAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGC
*
133992 GTGAAAAACCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAA
131 GTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAA
* * *
134057 TTGAGAAATAATATTTCGGGTTTGTTTTTGTAAAATTTTATCCAAAATCGTGTACTAATCATCAC
196 TTGAGAAA-AATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATCAC
* * * * * *
134122 GGTTTTTGGATAAAAACGAGTTCTGAGGCCCCGGCTTAATTTTGCATGATTTTTGACATAAAGAC
260 GGTTTTTGGCTAAAAACGCGTTCTGAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGAC
**
134187 CCCTT
325 TTCTT
* * * *** * *
134192 GATATATATATATATTCATCGAACCAAATATTGGCTACATTGGATATAAGGATTTGTTTTTACGA
1 GA-A-ATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGA
* *
134257 GCATCTGAATCTTGTTTCAATTTAATTAGAAAGTAATTCGGAATAAAAATGGAAAAACGATATTA
64 GCATCTGAATCTTGTTTCGATTTAATTAG-AATTAATTC-GAA-AAAAATGGAAAAACGATATTA
* * * * * *
134322 GATGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTCT-TGAGTGTTATGGC
126 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTT-TATGAGTATTGTGGC
* * * * * *
134386 AAAAAATTCAGAAAAAAATTT----TTCG-----GGACAGTTTTAGCCGAAATCGTGTACTAATC
190 AAAAAATTGAGAAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATC
* ** * * * * * *
134442 ATGACAAATTTTGGGCTTAAAACGCGTT-TCGGGGCCCCGGGTCAGTATTGCATGCCTTTTTGGC
255 ATCAC-GGTTTTTGGCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATG-ATTTTTGGC
134506 AG-AAAGAC-TCTT
317 -GTAAAGACTTCTT
* * *
134518 CAAAATATCTATATTCATCTTACCAAATCTCAACCACATTGGATTTAACGG-TTTGGTTTTACGA
1 -GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAA-GGATTTGTTTTTACGA
* * * *
134582 GCATCTGAATTTTGTTTCGATTTAATTAGAAGTATATTC--AGAAAA---AAAAACGAGATTAGA
64 GCATCTGAATCTTGTTTCGATTTAATTAGAATTA-ATTCGAAAAAAATGGAAAAACGATATTAGA
* * * ** * * **
134642 AGCGTGAAAAATCCTTAAATTTTTTTTTTCAATTGAATTA-ATACTTCTTGGGAGTATTGTGGCA
128 AGCGTGAAAAACCCTTCAA-TCTTTTTGGC-ATTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * ** * ** * *
134706 AAGAATTAAGTAAAAAAAATTTCGGGTCAGTTTTTTCAAAATTTTAGCCGAAATCGTGTGTTTAC
191 AAAAATTGAG--AAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAT
* * * * *
134771 CATCACAGTTTTTTGCTAAAAACACGTTCCTGA-GCCCTGGCTCAGTTTTGCATGATTTCTGGCG
254 CATCACGGTTTTTGGCTAAAAACGCGTT-CTGAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCG
134835 TAAAGAAC--CATT
318 TAAAG-ACTTC-TT
* * * * *
134847 GATATATCTATATTCATCAAACCAAATCCCAACCACATTGGATTAAAGGATTTGTTTTTTCGAGC
1 GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
* * * *
134912 ATCT-ATATATTGTTTCGATTTAATTAGAATTAATTC-AAAAAAATGGAAATACAATATTAGATG
66 ATCTGA-ATCTTGTTTCGATTTAATTAGAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAG
* * *
134975 CGTGAAAAACCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTATGGCAACAA
130 CGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAA
* * * *
135040 ACTGAGAAATAATATTTTGGGTTTGTTTTTGCAGAATTTTAGCCAAAATCGTGTACTAATCATCA
195 ATTGAGAAA-AATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATCA
* * * * * *
135105 CGGTTTTTGGCTAAAAACGAGTTCTGAGGCCCCCAGCTTAATTTTGCATGATTTTTGACGTAAAT
259 CGGTTTTTGGCTAAAAACGCGTTCTGAGG-CCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAG
*
135170 TCTTCTT
323 ACTTCTT
* ** * * *
135177 GAAATATATATATTCAT-TGAACCAAATCTCGGCTACATTGGATATAAAGATTTGTTTTTACGAG
1 GAAATATCTATATTCATCT-AACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAG
* *
135241 CATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGGAAAAAAAATGGAAAAACGATATTAA
65 CATCTGAATCTTGTTTCGATTTAATTAG-AATTAATTC-G-AAAAAAATGGAAAAACGATATTAG
* ** * * **
135306 AAGCGTGAAAAGCCCGCCAATCTTTTTGGCGTAGAATTATATATTTTTCCTGAGTATTGTGGCAA
127 AAGCGTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAA
* * * * ** *
135371 AAAATTCAGTAAAACATTT----TTCG--GAT-C--AGTTTTAGCCGAAATCGTGTACTAATCAT
192 AAAATTGAGAAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCAT
* * * * * **
135427 GACGGTTTTTGGGCTAAAAACGCATT-TCGGGGCCCCGGCTCAGTTTTGCATGACTTTTGACAAA
257 CACGGTTTTT-GGCTAAAAACGCGTTCT-GAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTA
135491 AAGAC-TCTT
320 AAGACTTCTT
* * * * * *
135500 CGAAATATCTATATTCATATTACCAAGTCTCAACCACATTGTATTTAACGG-TTTGATTTTACAA
1 -GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAA-GGATTTGTTTTTACGA
* * **
135564 GCATCTGAATCTTGTTTCGATTTAATTAGACGTAAATTCAGAAAAAGAAAATTAAAAAAAATCGA
64 GCATCTGAATCTTGTTTCGATTTAATTAGA-ATTAATTC-G--AAA-AAAA-T-GGAAAAA-CGA
* * * * * ** *
135629 TATTAGAAGCGTAAAAAACCCTTAAATTTTTTTTGTCAGTTGAATTATATATTTCTTGGGAATAT
121 TATTAGAAGCGTGAAAAACCCTTCAA-TCTTTTTGGCA-TTGAATTATATATTTTTTATGAGTAT
* * * ** * *
135694 TGTGGCAAATAATTAAGTAAAAATTTTTCGGGTCAGTTTTTTCAAAATTTTAGCCGAAATAGTGT
184 TGTGGCAAAAAATTGAG-AAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGT
* *
135759 GCTAACCATCA
248 ACTAATCATCA
135770 AATTTTTTTG
Statistics
Matches: 5813, Mismatches: 1047, Indels: 609
0.78 0.14 0.08
Matches are distributed among these distances:
318 77 0.01
319 184 0.03
320 134 0.02
321 148 0.03
322 238 0.04
323 107 0.02
324 246 0.04
325 327 0.06
326 214 0.04
327 226 0.04
328 435 0.07
329 688 0.12
330 804 0.14
331 568 0.10
332 264 0.05
333 180 0.03
334 304 0.05
335 196 0.03
336 236 0.04
337 13 0.00
338 5 0.00
339 20 0.00
341 27 0.00
342 10 0.00
343 128 0.02
344 33 0.01
345 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (329 bp):
GAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGC
ATCTGAATCTTGTTTCGATTTAATTAGAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGC
GTGAAAAACCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAA
TTGAGAAAAATATTTCGGGTTTGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATCACG
GTTTTTGGCTAAAAACGCGTTCTGAGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACT
TCTT
Done.