Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold831
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: 58181
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Found at i:423 original size:202 final size:199
Alignment explanation
Indices: 63--452 Score: 606
Period size: 202 Copynumber: 1.9 Consensus size: 199
53 AATTATATGA
63 AAAAAAATTTAAGTTATCAAATAAATCTAAAAAATAATCTTAAACATATATTTTTTATAAAATTT
1 AAAAAAATTTAAGTTATCAAATAAATCTAAAAAATAATCTTAAACATATATTTTTTATAAAATTT
* * *
128 AAGTTATATCATATATTAGATAATCCTAGTAAATAAGGTTTTCTTTTCTCAATTTGGGTTAATTT
66 AAGTTATATCAGATATTAGAGAATCCTAATAAATAAGGTTTTCTTTTCTCAATTTGGGTTAATTT
*
193 TTATAAGGCACATATATTTCAAAAATAAAATTATTAACATATGATAAGTGAATATAAAAAAGTCT
131 TTATAAGGCACATATATTTCAAAAATAAAATTATTAACATATAATAAGTGAATATAAAAAAGTCT
258 TAAG
196 TAAG
* *
262 AAAAATATTTAAGTTATTCAAATAAATCTAAAAAATAATCTTAAATATATATATTTTTTATAAAA
1 AAAAAAATTTAAGTTA-TCAAATAAATCTAAAAAATAATCTT-AA-ACATATATTTTTTATAAAA
*
327 TTTAAGTTATATTAGATATTAGAGAATCCTAATAAAT-AGAGTTTTCTTTTCTCAATTTGGGTTT
63 TTTAAGTTATATCAGATATTAGAGAATCCTAATAAATAAG-GTTTTCTTTTCTCAATTTGGG-TT
* * * *
391 GATTTTTATAAGG-TCATATAATTT-AAAAATAAAATTATTAATATATAATAAGTGAATGTAAA
126 AATTTTTATAAGGCACATAT-ATTTCAAAAATAAAATTATTAACATATAATAAGTGAATATAAA
453 GAAGCATCTT
Statistics
Matches: 174, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
199 15 0.09
200 25 0.14
201 4 0.02
202 112 0.64
203 18 0.10
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (199 bp):
AAAAAAATTTAAGTTATCAAATAAATCTAAAAAATAATCTTAAACATATATTTTTTATAAAATTT
AAGTTATATCAGATATTAGAGAATCCTAATAAATAAGGTTTTCTTTTCTCAATTTGGGTTAATTT
TTATAAGGCACATATATTTCAAAAATAAAATTATTAACATATAATAAGTGAATATAAAAAAGTCT
TAAG
Found at i:1504 original size:26 final size:27
Alignment explanation
Indices: 1451--1511 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
1441 TTTATTATAT
* * **
1451 TAAATATTA-AATATTTCAATATTTTA
1 TAAATTTTATAATATTTAAATATGCTA
1477 T-AATTTTATAATATTTAAATATGCTA
1 TAAATTTTATAATATTTAAATATGCTA
1503 TAAATTTTA
1 TAAATTTTA
1512 ATTTAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.21
26 16 0.55
27 7 0.24
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (27 bp):
TAAATTTTATAATATTTAAATATGCTA
Found at i:4104 original size:17 final size:18
Alignment explanation
Indices: 4069--4108 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4059 AGGATACTTT
* *
4069 ATTAATATTTTTGATAAA
1 ATTAAAATTTTTGAGAAA
4087 ATTAAAATTTTT-AGAAA
1 ATTAAAATTTTTGAGAAA
4104 ATTAA
1 ATTAA
4109 GGTAATGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTTGAGAAA
Found at i:5336 original size:21 final size:21
Alignment explanation
Indices: 5307--5347 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5297 TCTATCTAAT
*
5307 AAGTTCATCC-TTACATCCAAC
1 AAGTGCATCCATTA-ATCCAAC
5328 AAGTGCATCCATTAATCCAA
1 AAGTGCATCCATTAATCCAA
5348 ATAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (21 bp):
AAGTGCATCCATTAATCCAAC
Found at i:6907 original size:53 final size:53
Alignment explanation
Indices: 6850--7010 Score: 322
Period size: 53 Copynumber: 3.0 Consensus size: 53
6840 GCATTTGAAA
6850 ATGTAGTCGTTACTAGCCATTACAAGCCCATGTATCGATACATTTGGTCATGT
1 ATGTAGTCGTTACTAGCCATTACAAGCCCATGTATCGATACATTTGGTCATGT
6903 ATGTAGTCGTTACTAGCCATTACAAGCCCATGTATCGATACATTTGGTCATGT
1 ATGTAGTCGTTACTAGCCATTACAAGCCCATGTATCGATACATTTGGTCATGT
6956 ATGTAGTCGTTACTAGCCATTACAAGCCCATGTATCGATACATTTGGTCATGT
1 ATGTAGTCGTTACTAGCCATTACAAGCCCATGTATCGATACATTTGGTCATGT
7009 AT
1 AT
7011 CGATACAATG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 108 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (53 bp):
ATGTAGTCGTTACTAGCCATTACAAGCCCATGTATCGATACATTTGGTCATGT
Found at i:7009 original size:20 final size:20
Alignment explanation
Indices: 6984--7050 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
6974 ATTACAAGCC
6984 CATGTATCGATACATTTGGT
1 CATGTATCGATACATTTGGT
7004 CATGTATCGATACA------
1 CATGTATCGATACATTTGGT
7018 -ATGTATCGATACATTTGGT
1 CATGTATCGATACATTTGGT
7037 CATGTATCGATACA
1 CATGTATCGATACA
7051 ATGTATCGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.32
20 27 0.68
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACATTTGGT
Found at i:7022 original size:33 final size:33
Alignment explanation
Indices: 6985--7083 Score: 175
Period size: 33 Copynumber: 3.0 Consensus size: 33
6975 TTACAAGCCC
6985 ATGTATCGATACATTTGGTCATGTATCGATACA
1 ATGTATCGATACATTTGGTCATGTATCGATACA
7018 ATGTATCGATACATTTGGTCATGTATCGATACA
1 ATGTATCGATACATTTGGTCATGTATCGATACA
7051 ATGTATCGATACATCTT-GT-ATGTATCGATACA
1 ATGTATCGATACAT-TTGGTCATGTATCGATACA
7083 A
1 A
7084 ACAGTTAAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
32 14 0.22
33 49 0.75
34 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTTGGTCATGTATCGATACA
Found at i:7023 original size:13 final size:13
Alignment explanation
Indices: 7005--7063 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
6995 ACATTTGGTC
7005 ATGTATCGATACA
1 ATGTATCGATACA
7018 ATGTATCGATAC-
1 ATGTATCGATACA
*
7030 AT-T-T-GGT-C-
1 ATGTATCGATACA
7038 ATGTATCGATACA
1 ATGTATCGATACA
7051 ATGTATCGATACA
1 ATGTATCGATACA
7064 TCTTGTATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 2 0.05
11 3 0.08
12 3 0.08
13 25 0.64
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7170 original size:13 final size:13
Alignment explanation
Indices: 7152--7176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7142 TACAGTGGTC
7152 ATGTATCGATACA
1 ATGTATCGATACA
7165 ATGTATCGATAC
1 ATGTATCGATAC
7177 TGAATATTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:11899 original size:13 final size:13
Alignment explanation
Indices: 11881--11906 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11871 ATAATCACCC
11881 TGTATCGATACAA
1 TGTATCGATACAA
11894 TGTATCGATACAA
1 TGTATCGATACAA
11907 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:15131 original size:21 final size:21
Alignment explanation
Indices: 15105--15145 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15095 GTATATTTAT
*
15105 TTGGAT-TAATGGATGCACTTG
1 TTGGATGTAA-GGATGAACTTG
15126 TTGGATGTAAGGATGAACTT
1 TTGGATGTAAGGATGAACTT
15146 ATTAGATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (21 bp):
TTGGATGTAAGGATGAACTTG
Found at i:16366 original size:17 final size:18
Alignment explanation
Indices: 16344--16383 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
16334 AGACATTACC
* *
16344 TTAATTTTCT-AAAAATT
1 TTAATTTTATCAAAAATA
16361 TTAATTTTATCAAAAATA
1 TTAATTTTATCAAAAATA
16379 TTAAT
1 TTAAT
16384 AAAGTATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAATTTTATCAAAAATA
Found at i:19533 original size:26 final size:26
Alignment explanation
Indices: 19504--19566 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
19494 ATTAACATTG
*
19504 AATTGATTAAATATTATTTA-ATTAC
1 AATTCATTAAATATTATTTACATTAC
* * *
19529 TAATTTA-AAAATATTTTTTACATTAC
1 -AATTCATTAAATATTATTTACATTAC
19555 -ATTCATTAAATA
1 AATTCATTAAATA
19567 AGCCAAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
24 4 0.13
25 16 0.53
26 10 0.33
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTCATTAAATATTATTTACATTAC
Found at i:20387 original size:204 final size:205
Alignment explanation
Indices: 20003--20749 Score: 864
Period size: 217 Copynumber: 3.5 Consensus size: 205
19993 ATGAAGATGC
*
20003 TTCTTTACATTCACTTATTATATATTAATAATTTTATTTTT-AAATTATATG-ACCTTAT-AAAA
1 TTCTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAA-TATATGTACCTTATAAAAA
* * * *
20065 ATCAAACCCAAATTGAGAAAAGAAAACTCTATTTATTAGGATTCTCTAATATCTAATATAACTTA
65 ATTAAACCCAAATTGAGAAAAGAAAACTCTATTTATTAGGATTATCTAATATATGATATAACTTA
*
20130 AATTTTATAAAAAATATATATATTTAAGATTATTTTTTAGATTTTATTTGAATAACTTAAATATT
130 AATTTTAT-AAAAA-ATATATGTTTAAGATTATTTTTTAGATTTTATTTGAATAACTTAAATATT
20195 TTTCTTAAGAC-T
193 TTTCTTAAGACGT
* * * *
20207 TTTTTTATATTCACTTATCATATGTTAATAATTTTATTTTTGAAATATATGTGCCTTATAAAAAA
1 TTCTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATGTACCTTATAAAAAA
*
20272 TTAAACCCAAATTGAGAAAAGAAAAC-CTTATTTACTAGGATTATCTAATATATGATATAACTTA
66 TTAAACCCAAATTGAGAAAAGAAAACTC-TATTTATTAGGATTATCTAATATATGATATAACTTA
*
20336 AATTTTATAAAAAATATATGTTTAAGATTATTTTTTAGATTTTATTTGAATAACTTAAATTTTTT
130 AATTTTATAAAAAATATATGTTTAAGATTATTTTTTAGATTTTATTTGAATAACTTAAA-TATTT
20401 TTCATATAATTTTATGAAGACGT
194 TTC---------T-T-AAGACGT
* *
20424 TTCTTAACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATGTACCTTATAAATAA
1 TTCTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATGTACCTTATAAAAAA
* * * *
20489 TTAAACCCAAATTGTGAAAAGAAAACTCTATTTATTAGGATTATCTAGTGTTTGATATAACTTAA
66 TTAAACCCAAATTGAGAAAAGAAAACTCTATTTATTAGGATTATCTAATATATGATATAACTTAA
* * * * *
20554 ATCTTATAAAAAATATATGTGTAAGATTATTTTTTAGATTTTGTTTGAATAATTTAAATCTTTTT
131 ATTTTATAAAAAATATATGTTTAAGATTATTTTTTAGATTTTATTTGAATAACTTAAATATTTTT
**
20619 CTTAAATAATTTTATGAAGACAC
196 C-----------T-T-AAGACGT
* * * *
20642 TTCCTTACATTTACTTATCATATATTAATAATTTTATTTTTAAAATATATATACCTTATAAAAAA
1 TTCTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATGTACCTTATAAAAAA
* * * * *
20707 TAAAATCTAAATT-A-AAAA-AAAA-TCTATTTACTAGGATCATCTA
66 TTAAACCCAAATTGAGAAAAGAAAACTCTATTTATTAGGATTATCTA
20750 GTGTCTAATA
Statistics
Matches: 480, Mismatches: 43, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
204 88 0.18
205 22 0.05
206 70 0.15
214 20 0.04
215 5 0.01
216 16 0.03
217 172 0.36
218 87 0.18
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (205 bp):
TTCTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATGTACCTTATAAAAAA
TTAAACCCAAATTGAGAAAAGAAAACTCTATTTATTAGGATTATCTAATATATGATATAACTTAA
ATTTTATAAAAAATATATGTTTAAGATTATTTTTTAGATTTTATTTGAATAACTTAAATATTTTT
CTTAAGACGT
Found at i:20999 original size:20 final size:20
Alignment explanation
Indices: 20974--21014 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20964 AATTAGCATA
20974 TATGCTTTGTATCGATACAT
1 TATGCTTTGTATCGATACAT
20994 TATGCTTTGTATCGATACAT
1 TATGCTTTGTATCGATACAT
21014 T
1 T
21015 GTATTGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
TATGCTTTGTATCGATACAT
Found at i:21112 original size:13 final size:13
Alignment explanation
Indices: 21091--21143 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
21081 CGATACATGG
*
21091 TACAATGTATCGA
1 TACATTGTATCGA
21104 TACATTGTATCGA
1 TACATTGTATCGA
21117 TACA-TG-AT-G-
1 TACATTGTATCGA
21126 -A-ATTGTATCGA
1 TACATTGTATCGA
21137 TACATTG
1 TACATTG
21144 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:21117 original size:33 final size:33
Alignment explanation
Indices: 21075--21143 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
21065 CTACCACTGT
*
21075 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
21108 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
21141 TTG
1 TTG
21144 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:22250 original size:21 final size:21
Alignment explanation
Indices: 22205--22256 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
22195 TGGATTAATG
* *
22205 GATGCACTTGTTAGATGTAAG
1 GATGAACTTGTTAGATGTAAA
22226 GATGAACTTGTTAGATAG-AAA
1 GATGAACTTGTTAGAT-GTAAA
22247 GATGCAACTT
1 GATG-AACTT
22257 TTATAACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.31
Consensus pattern (21 bp):
GATGAACTTGTTAGATGTAAA
Found at i:24944 original size:4 final size:4
Alignment explanation
Indices: 24935--24960 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24925 AATAAAAGGA
24935 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
24961 CCAAAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:26367 original size:26 final size:25
Alignment explanation
Indices: 26338--26418 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 25
26328 TTACAATGAA
26338 AAATATAAAATAATTATAAAAATATT
1 AAATATAAAATAATTAT-AAAATATT
**
26364 AAAT-TAAAAT--TTATAGCATATTT
1 AAATATAAAATAATTATAAAATA-TT
26387 AAATATAATAA-AATTATAAAATATT
1 AAATATAA-AATAATTATAAAATATT
26412 GAAATAT
1 -AAATAT
26419 TTTATATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
22 4 0.09
23 10 0.22
24 3 0.07
25 10 0.22
26 18 0.40
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATATAAAATAATTATAAAATATT
Found at i:26485 original size:13 final size:14
Alignment explanation
Indices: 26467--26495 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
26457 TATGATTTAG
26467 AAAAATAAAAT-TA
1 AAAAATAAAATATA
26480 AAAAATAAAATATA
1 AAAAATAAAATATA
26494 AA
1 AA
26496 GCAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAAATATA
Found at i:27812 original size:206 final size:208
Alignment explanation
Indices: 27378--28202 Score: 984
Period size: 219 Copynumber: 3.8 Consensus size: 208
27368 TTTATTGGTA
* * * *
27378 ATATGTTTAAGATTATTTTTTAGATTTTGTTTAAATAACTTAAATTTTTTTCTCAGATAAATTTA
1 ATATATTTAAGATTATTTTTTAGATTTTGTTTGAATAACTTAAATATTTTTCTC--AT--A-TGA
* * * *
27443 TGAAGATGCTTCTTTACATTCACTTATTATATATTAATAGTTTTATTTTTG-AAT-TATATGACC
61 T--ATAT--TTTTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATAT-ACC
* *
27506 TTATAAA-AATCAAACCCAAATTGAGAAAAGAAAACTCTATTTTATTAGGATTCTCTAGTATG-T
121 TTATAAATAATCAAACCCAAATTGAGAAAAGAAAACTCTA-TTTACTAGGATTATCTA--ATGTT
*
27569 TATATAACTTAAATTTTATAAAAAAT
183 TATATAACTTAAATCTTATAAAAAAT
* *
27595 ATATATTTAAGATTATTTTTTAGATTTTATTTGAATAACTTAAATATTTTTCTCA-A-GA-CT-T
1 ATATATTTAAGATTATTTTTTAGATTTTGTTTGAATAACTTAAATATTTTTCTCATATGATATAT
* * *
27656 TTTTTTATATTCACTTGTCATATATTAATAATTTTATTTTTGAAATATATGTACCTTATAAATAA
66 TTTTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATATACCTTATAAATAA
* *
27721 TCAAACCCAAATTGAGAAAAGAAAACTTTATTTACTAGGATTATCTAATGTTTAATATAACTGAA
131 TCAAACCCAAATTGAGAAAAGAAAACTCTATTTACTAGGATTATCTAATGTTT-ATATAACTTAA
27786 ATCTTATAAAAAAAT
195 ATCTTAT-AAAAAAT
* *
27801 ATACATTTAAGATTATTTTTTAGATTTTGTTTGAATAACTTAAATCTTTTTCTCATATGATTTTA
1 ATATATTTAAGATTATTTTTTAGATTTTGTTTGAATAACTTAAATATTTTTCTCATATGA---TA
* *
27866 TGAAGATGTTTCCTTAAATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATATACCT
63 T----AT-TTT-TTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATATACCT
* * *
27931 TATAAAAAATCAAACCCAAATTGAGAAAAGAAAAC-CTTATTTACTAGGATTATCTAGTGTATGA
122 TATAAATAATCAAACCCAAATTGAGAAAAGAAAACTC-TATTTACTAGGATTATCTAATGT-TTA
27995 TATAACTTAAATCTTATAAAAAAT
185 TATAACTTAAATCTTATAAAAAAT
* * * * *
28019 ATATGTTTAAGATTACTTTTTAGATTTTGTTTGAATAACTTAAATCTTTTTTTCATATAATTTTA
1 ATATATTTAAGATTATTTTTTAGATTTTGTTTGAATAACTTAAATATTTTTCTCATATGA---TA
28084 TGAAGATAGTTTCTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATATACC
63 T----AT--TTT-TTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATATACC
*
28149 TTATAAATAATCAAACTCAAATTGAGAAAAGAAAACTCTATTTACTAGGATTAT
121 TTATAAATAATCAAACCCAAATTGAGAAAAGAAAACTCTATTTACTAGGATTAT
28203 TTAGTGTCTG
Statistics
Matches: 545, Mismatches: 40, Indels: 44
0.87 0.06 0.07
Matches are distributed among these distances:
203 3 0.01
204 39 0.07
205 44 0.08
206 95 0.17
207 1 0.00
208 2 0.00
210 1 0.00
212 2 0.00
215 1 0.00
217 51 0.09
218 77 0.14
219 227 0.42
220 2 0.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (208 bp):
ATATATTTAAGATTATTTTTTAGATTTTGTTTGAATAACTTAAATATTTTTCTCATATGATATAT
TTTTTTACATTCACTTATCATATATTAATAATTTTATTTTTGAAATATATATACCTTATAAATAA
TCAAACCCAAATTGAGAAAAGAAAACTCTATTTACTAGGATTATCTAATGTTTATATAACTTAAA
TCTTATAAAAAAT
Found at i:28337 original size:170 final size:166
Alignment explanation
Indices: 28041--28376 Score: 469
Period size: 170 Copynumber: 2.0 Consensus size: 166
28031 TTACTTTTTA
* * * * *
28041 GATTTTGTTTGAATAACTTAAATCTTTTTTTCATATAATTTTATGAAGATAGTTTCTTTACATTC
1 GATTTTATTTGAATAACTTAAATCTTTTTTTCAAATAATTTTATGAAGACAGTCTCCTTACATTC
* * *
28106 ACTTATCATATATTAATAATTTTATTTTTGAAATATATATACCTTATAAATAATCAAACTCAAAT
66 ACTTATCATATATTAATAATTTTATTTTTAAAATATATATACCTTATAAAAAATAAAACTCAAAT
* *
28171 TGAGAAAAGAAAACTCTATTTACTAGGATTATTTAGTGTCT
131 T---AAAA-AAAA-TCTATTTACTAAGATTATCTAGTGTCT
* *
28212 GATTTTATTTGAATAATTTAAAT-TTTTTTCTTAAATAATTTTATGAAGACA-TCTCCTTACATT
1 GATTTTATTTGAATAACTTAAATCTTTTTT-TCAAATAATTTTATGAAGACAGTCTCCTTACATT
* * *
28275 TATTTATTATATATTAATAATTTTATTTTTAAAATATATATACCTTATAAAAAATAAAACTCAAA
65 CACTTATCATATATTAATAATTTTATTTTTAAAATATATATACCTTATAAAAAATAAAACTCAAA
28340 TTAAAAAAAATCTATTTACTAAGATTATCTAGTGTCT
130 TTAAAAAAAATCTATTTACTAAGATTATCTAGTGTCT
28377 AATATAAAAA
Statistics
Matches: 149, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
165 25 0.17
166 4 0.03
167 4 0.03
170 77 0.52
171 39 0.26
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (166 bp):
GATTTTATTTGAATAACTTAAATCTTTTTTTCAAATAATTTTATGAAGACAGTCTCCTTACATTC
ACTTATCATATATTAATAATTTTATTTTTAAAATATATATACCTTATAAAAAATAAAACTCAAAT
TAAAAAAAATCTATTTACTAAGATTATCTAGTGTCT
Found at i:30726 original size:43 final size:43
Alignment explanation
Indices: 30644--30726 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
30634 AATAATTATT
* * *
30644 ATATTAATAAAATAATATTTTAATAATTATTGTAATATTTAAA
1 ATATTAATAAAATAATATTTTAATAATAATAGCAATATTTAAA
* * *
30687 ATATTAATATAATTAT-TTTTAATAATAAATAGCATTATTT
1 ATATTAATAAAATAATATTTTAATAAT-AATAGCAATATTT
30727 TAAGTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
42 10 0.30
43 23 0.70
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (43 bp):
ATATTAATAAAATAATATTTTAATAATAATAGCAATATTTAAA
Found at i:34165 original size:2 final size:2
Alignment explanation
Indices: 34160--34184 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34150 GTCATATATA
34160 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
34185 ACATGATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:35927 original size:2 final size:2
Alignment explanation
Indices: 35920--35963 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
35910 TAAGAGCGAG
* *
35920 TA TA TA TA TA TA TA TA TA TA TA TA AA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35962 TA
1 TA
35964 ACAACTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:35993 original size:2 final size:2
Alignment explanation
Indices: 35986--36020 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
35976 TAAGAGCTAG
*
35986 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36021 TCTAGCTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:36003 original size:66 final size:66
Alignment explanation
Indices: 35897--36020 Score: 203
Period size: 66 Copynumber: 1.9 Consensus size: 66
35887 CTCAACAGAA
*
35897 AACAACTTCAAACTAAGAGCGAGTATATATATATATATATATATATAAACATATATATATATATA
1 AACAACTTCAAACTAAGAGCGAGTATATATAAATATATATATATATAAACATATATATATATATA
35962 T
66 T
* * * *
35963 AACAACTTCAAATTAAGAGCTAGTATATATAAATATATATATATATATATATATATAT
1 AACAACTTCAAACTAAGAGCGAGTATATATAAATATATATATATATAAACATATATAT
36021 TCTAGCTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (66 bp):
AACAACTTCAAACTAAGAGCGAGTATATATAAATATATATATATATAAACATATATATATATATA
T
Found at i:36588 original size:15 final size:16
Alignment explanation
Indices: 36560--36589 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36550 AAGAATAAAG
36560 ATTTAATATTTTTTCT
1 ATTTAATATTTTTTCT
36576 ATTTAAT-TTTTTTC
1 ATTTAATATTTTTTC
36590 AAGTGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTAATATTTTTTCT
Found at i:41378 original size:17 final size:17
Alignment explanation
Indices: 41358--41413 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
41348 CATTTTATAT
41358 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
* *
41375 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTTTTTTTTC
** * *
41392 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
41409 TTTTT
1 TTTTT
41414 TACATAACTC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:42704 original size:32 final size:32
Alignment explanation
Indices: 42649--43081 Score: 715
Period size: 32 Copynumber: 13.6 Consensus size: 32
42639 AAAATGGTGA
* * **
42649 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
42681 TTTTAAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* **
42713 TTTGAAAAGGGTCACCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
42745 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
42777 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
42809 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
42841 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
42873 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
42905 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
42937 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
42969 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
43001 TTTGAAATGAGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
43033 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
43065 TTTGAAATGGG-TGCCAC
1 TTTGAAATGGGTTGCCAC
43082 AGAGTTATGG
Statistics
Matches: 377, Mismatches: 24, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
31 6 0.02
32 371 0.98
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:43114 original size:27 final size:27
Alignment explanation
Indices: 43073--44243 Score: 1919
Period size: 27 Copynumber: 43.0 Consensus size: 27
43063 GCTTTGAAAT
* * *
43073 GGGTGCCACAGAGTTATGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
43100 GGATGCCACAGAGTTGTGAACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43127 GGGCGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43154 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43181 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43208 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
43236 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
43263 GAGATGCCACGGAGTTATAGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
43291 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
43318 GTGTGCCACGGAGTTATGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43345 GGGATGCCAGGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
43373 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43400 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43427 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
43454 GAATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43481 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43508 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
43536 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43563 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43590 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43617 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43644 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43671 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43698 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43725 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43752 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
43780 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43807 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43834 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43861 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43888 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
43915 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
43942 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
43970 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* ** * *
43997 GAGATGCCATTGAGTTATGCACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
44025 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
44052 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
44079 GGGTACCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
44106 GGGTACCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
44133 GGGTGCCATGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
44160 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
44188 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
44215 GGATACCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
44243 G
1 G
44244 AAAATGCCAC
Statistics
Matches: 1074, Mismatches: 61, Indels: 17
0.93 0.05 0.01
Matches are distributed among these distances:
27 870 0.81
28 204 0.19
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:43489 original size:163 final size:162
Alignment explanation
Indices: 43073--44243 Score: 1919
Period size: 163 Copynumber: 7.2 Consensus size: 162
43063 GCTTTGAAAT
* * * * * * *
43073 GGGTGCCACAGAGTTATGGATTTAAAAGGATGCCACAGAGTTGTGAACTTAAAAGGGCGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
43138 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACT
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
*
43203 AAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
131 TAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * * *
43236 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATAGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* * * *
43301 GAGTTGTGGACTTAAAAGTGTGCCACGGAGTTATGGTCTTAAAAGGGATGCCAGGGAGTTGTGGA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGA
43366 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
129 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* **
43400 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGAATGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
43465 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGAC
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGAC
43530 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
130 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
43563 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
43628 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACT
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
43693 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
131 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
43725 GGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
43790 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
43855 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
130 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
43888 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* ** * *
43953 AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCATTGAGTTATGCA
66 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGA
*
44018 CTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
129 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
44052 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGACTTAAAAGGGTACCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
44117 AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACT
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-
*
44182 TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
130 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
44215 GGATACCACAGAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAG
44244 AAAATGCCAC
Statistics
Matches: 952, Mismatches: 49, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
162 139 0.15
163 537 0.56
164 233 0.24
165 43 0.05
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (162 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:54042 original size:50 final size:50
Alignment explanation
Indices: 53964--54223 Score: 340
Period size: 50 Copynumber: 5.2 Consensus size: 50
53954 AGTTGCTTAG
* * * *
53964 AGTCAACAATTATGATCACTTCTCTCTATTATCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
* *
54014 AGTCAACAATTACGACCACCTCTTTCTATTGTCAAAGGTTGGTGAAGAGT
1 AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
* * *
54064 AGTCAACAATTACAACCACCTCCCTTTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
* * * *
54114 AGTCAACAATTATGGCCATCTCTCTCTATTGTTAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
* * * * * * *
54164 AGTCAATAATTAGGGCCACCTCTCTCGATTGTAAAAGATTAGTGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
54214 AGTCAACAAT
1 AGTCAACAAT
54224 GGCAACAACT
Statistics
Matches: 184, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 184 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTACGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
Done.