Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013363.1 Corchorus capsularis cultivar CVL-1 contig13384, 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: 31258
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--38 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1 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
39 TCTCTCATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2319 original size:2 final size:2
Alignment explanation
Indices: 2314--2338 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2304 ATGTGTGTGT
2314 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
2339 TCATATATGA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15198 original size:3 final size:3
Alignment explanation
Indices: 15190--15215 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15180 CTATTTGTTA
15190 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
15216 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:21079 original size:21 final size:21
Alignment explanation
Indices: 21053--21097 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
21043 GTAACCTGGA
21053 TTGCTAAATACCGCCCCATTT
1 TTGCTAAATACCGCCCCATTT
** *
21074 TTGCTATTTACCGCCTCATTT
1 TTGCTAAATACCGCCCCATTT
21095 TTG
1 TTG
21098 ACGTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (21 bp):
TTGCTAAATACCGCCCCATTT
Found at i:21423 original size:33 final size:33
Alignment explanation
Indices: 21381--21454 Score: 123
Period size: 33 Copynumber: 2.2 Consensus size: 33
21371 GACCGCCCCG
*
21381 GTGGGGAGGCTCCGCCGTGGTTGAGCC-TCCTTA
1 GTGGGGAGGCTCCGCCGTGGCTGAGCCGTCC-TA
21414 GTGGGGAGGCTCCGCCGTGGCTGAGCCGTCCTA
1 GTGGGGAGGCTCCGCCGTGGCTGAGCCGTCCTA
21447 GTGGGGAG
1 GTGGGGAG
21455 ACTCAGTGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 36 0.92
34 3 0.08
ACGTcount: A:0.09, C:0.26, G:0.45, T:0.20
Consensus pattern (33 bp):
GTGGGGAGGCTCCGCCGTGGCTGAGCCGTCCTA
Found at i:21433 original size:16 final size:16
Alignment explanation
Indices: 21381--21433 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
21371 GACCGCCCCG
21381 GTGGGGAGGCTCCGCC
1 GTGGGGAGGCTCCGCC
* * ***
21397 GTGGTTGAGCCTCCTTA
1 GTGG-GGAGGCTCCGCC
21414 GTGGGGAGGCTCCGCC
1 GTGGGGAGGCTCCGCC
21430 GTGG
1 GTGG
21434 CTGAGCCGTC
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.08, C:0.26, G:0.45, T:0.21
Consensus pattern (16 bp):
GTGGGGAGGCTCCGCC
Found at i:23028 original size:11 final size:11
Alignment explanation
Indices: 22991--23038 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
22981 TTCCTATATA
*
22991 AAATAAATTAT
1 AAATTAATTAT
23002 CAAA-TAATTAT
1 -AAATTAATTAT
23013 AAATTAATTAT
1 AAATTAATTAT
**
23024 AAATTTGTTAT
1 AAATTAATTAT
23035 AAAT
1 AAAT
23039 ATACATGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 3 0.09
11 26 0.81
12 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
AAATTAATTAT
Found at i:25274 original size:324 final size:320
Alignment explanation
Indices: 24332--26266 Score: 1740
Period size: 324 Copynumber: 6.0 Consensus size: 320
24322 TCATGAGTAT
* * * *
24332 TTAACCATCACGGTTTTTTTGCAAAAAACGCGTTTCGGGGCCTCGGCTCAATTTTGCATGATTTT
1 TTAA-CATCACAG-TTTTTGGCTAAAAACGCGTTTCGGGGCC-CGACTCAATTTTGCATGATTTT
* * * *
24397 TGGCTTTG--AGACTCCTTGAAATAT-AATTATTCATCTAATCAAATCTCAGCCACATTGCATTT
63 TGG--TAGAAAGACTCCTTGAAATATCTA-TATTCATCTAACCAAATCTCAGCCACATTGAATTT
* *
24459 AAGGATTTAG-TTTTACGAGCATCTGAATCTTGATTCGATTTAATTAGAAATAAATTCAGAAAAA
125 AAGGATTT-GTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAA
* * * * *
24523 AAATGAAAAAAACGATATTAGAAGCATGAAAAGCCCTTCAATTTTATTGGCGTTGAATTATATAT
189 AATTG--AAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTT-TTGACATTGAATTATATAT
* * * *
24588 TTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAGTTATT-G-CAAAATC-
251 TTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCA
24650 T-TAGC
316 TGTA-C
* * * * *
24655 TGAAATCATGTACATCACGATTTTTAGCTAAAAACGCGTTGCAGAGACCCGACTCAATTTTGCAT
1 T-TAA-CA--T-CA-CA-G-TTTTTGGCTAAAAACGCGTTTC-GGGGCCCGACTCAATTTTGCAT
* ** * * * * * *
24720 TATTTTTGGCGTA-AAA-ACTCCTCAAAATATCTAAATTTATCGAAGCAAATCTAAGCCACATCG
57 GATTTTT-G-GTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTG
* * * * * * * *
24783 GATATAAGGATTTGTTTTTACAAGCAACTCAATCTTGTTTTGATTTAATTAGAAATTAATTCGTA
120 AATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGA
* * * * * * *
24848 AAAATATGGAAAAACAATATCAGAAGCGT-AAAAAGCCTGTCAATCTTTTTGGCGTTGAATTATA
185 AAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCT-TCAAT-TTTTTGACATTGAATTATA
* **
24912 TATTTTTTCTTAGTATTGTGGCAAAAAATTTG-GAAAAAAAAAATTCGGGTCAGTTTTTAGCCGA
248 TATTTTTTCTGAGTATTGTGGCAAAAAA-TTGAG-AAAAAAATTTTCGGGTCAGTTTTTAGCCGA
24976 AATCATGTA-
311 AATCATGTAC
* * * * * *
24985 TTAACAGTCACAGTTTTGGGGCTAAAAACGGGTTTCGTGGTCCCGGCTCAGTTTTGAATGATTTT
1 TTAACA-TCACAGTTTT-TGGCTAAAAACGCGTTTCG-GGGCCCGACTCAATTTTGCATGATTTT
*
25050 TGGTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTTAGCCACATTGAATTTTAA
63 TGGTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAA-TTTAA
** * * * *
25115 GGATTTGTTTTTATTAGTATCTGAATCTAGTTTCGATTAAATTAGAAATTAATTCGGAAAAAAAT
127 GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAT
* * * *
25180 TGAAAAATGATATTAGAAGCGTGAAAAGCCCGTCAATCATTTTGACATTGAATTATATA-TTTTT
192 TGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTGACATTGAATTATATATTTTTT
* * * * *
25244 CTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGGTTAGTTTTTAGCTGAAATTATGTAC
256 CTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCATGTAC
* * * *
25309 -TAACCATCACACGATTTTGGGCTAAAAACGCGTTTCGGGGCATCGGCTCAGTTTTGCATGATTT
1 TTAA-CATCACA-G-TTTTTGGCTAAAAACGCGTTTCGGGGC-CCGACTCAATTTTGCATGATTT
* *
25373 TTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATTTCAGCCACATTGAATTTAA
62 TTGGTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAA
* * * * *
25438 GGATTTGTTTTTCCGAGCATTTGAATCTTGTTTCGATATAATTAGTAATAAATTCGG----GAA-
127 GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAT
*
25498 --AAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGGA-AATGAATTATATATTTTT
192 TGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTT-GACATTGAATTATATATTTTT
* * * *
25560 TATGAGTATTGTGGCAAAAAATTGA-AAAAATAATTTTTGGGTCAATTTTTAGCCGAAATCGTGT
255 TCTGAGTATTGTGGCAAAAAATTGAGAAAAA-AATTTTCGGGTCAGTTTTTAGCCGAAATCATGT
25624 AC
319 AC
** * * * * *
25626 GTT-A-ATCATGGTTTTTGGATAAAAACGCGTTTCAGGGCATCGACTCAGTTTTGCATGGTTTTT
1 -TTAACATCACAGTTTTTGGCTAAAAACGCGTTTCGGGGC-CCGACTCAATTTTGCATGATTTTT
* * ** * * * *** *
25689 GGCATAAATTCCCCTTGAAATATCTATATTTATCTAACAAAATCTCAATGACATTGGATTTAAGG
64 GGTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAAGG
* * * *
25754 ATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTATAAATAAATTTGGAAAAAAATGG
129 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATTG
* * *
25819 AAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTATTTGACGTTGAATTATATA-GTTTCCT
194 AAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTT-TTTGACATTGAATTATATATTTTTTC-
* ** * * * * *
25883 TGA-TATTGTGGACCAAAAACTAAAGGAAAAACTTTCCAGGTCAGTGTTTGCGAAAGTTTTGCCG
257 TGAGTATTGTGG--CAAAAAATTGAGAAAAAAATTTTCGGGTCA--G-TT-------TTTAGCCG
*
25947 AAATCGTGTAC
310 AAATCATGTAC
* ** * * *** *
25958 TT-ACTATCACGGTTTTTGGCTAAAATTGTGTTCCGTAACCCCAACTCAATTTTGCATGATTTTT
1 TTAAC-ATCACAGTTTTTGGCTAAAAACGCGTTTCG-GGGCCCGACTCAATTTTGCATGATTTTT
* ** * *
26022 GGCT-CAAAGACTTTTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGTATTTAAG
64 GG-TAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAAG
* * * * * * * *
26086 AATTTGTTCTTT-TGAGCATCTTAGTCTTGTTTCGATTCAATTAGAAATTAATTTGGAAAAAAAA
128 GATTTGTT-TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAT
* *
26150 TGGAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTATATATTTTTT
192 TGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTGACATTGAATTATATATTTTTT
* * **
26215 -TGGACTATTGTGG-TAAAAATTGAGAAAAACTTTTTCGGGTCAGTTTTTAGCC
256 CT-GAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCC
26267 CCGACTTAGT
Statistics
Matches: 1321, Mismatches: 221, Indels: 142
0.78 0.13 0.08
Matches are distributed among these distances:
314 149 0.11
315 1 0.00
316 58 0.04
317 57 0.04
318 3 0.00
319 3 0.00
320 15 0.01
321 58 0.04
322 20 0.02
323 112 0.08
324 204 0.15
325 109 0.08
326 16 0.01
327 70 0.05
328 31 0.02
329 141 0.11
330 14 0.01
331 25 0.02
332 21 0.02
333 197 0.15
334 17 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (320 bp):
TTAACATCACAGTTTTTGGCTAAAAACGCGTTTCGGGGCCCGACTCAATTTTGCATGATTTTTGG
TAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGAATTTAAGGAT
TTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATTGAA
AAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTGACATTGAATTATATATTTTTTCTGAG
TATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCATGTAC
Found at i:26504 original size:269 final size:269
Alignment explanation
Indices: 26010--26534 Score: 654
Period size: 270 Copynumber: 1.9 Consensus size: 269
26000 AACTCAATTT
* ** *
26010 TGCATGATTTTTGGCTCAAAGACTTTTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACA
1 TGCATGATTTTTGGCTCAAACACTCCTTGAAATATCTATATTCATCGAACCAAATCCCAGCCACA
** * * *
26075 TTGTATTTAAGAATTTGTTCTTTTGAGCATCTTAGTCTTGTTTCGATTCAATTAGAAATTAATTT
66 TTGTATTTAAGAATTTGTTCTTACGAGCATCTTAATCTTATTTCAATTCAATTAGAAATTAATTT
* * *
26140 GGAAAAAAAATGGAAAACGATATTAGAAGCGTGAAAAACCCTTCAATATTTTTGGCATTGAATTA
131 CG-AAAAAAATGGAAAAAGATATTAGAAGCGTGAAAAACACTTCAATATTTTTGGCATTGAATTA
* * *
26205 TATATTTTTTTGGACTATTGTGGTAAAAA-TTGAGAAAAACTTTTTCGGGTCAGTTTTTAGCCCC
195 TATATTTTTATGAACTATTGTGGTAAAAATTTGAGAAAAACTTTTTCGGGTCAGATTTTAGCCCC
26269 GACTTAGTTG
260 GACTTAGTTG
* * *
26279 TGCATGATTTTTGGC-CTAAACACTCCTTGAAATATTCTATATTCATGGAATCAAATCCCAGTCA
1 TGCATGATTTTTGGCTC-AAACACTCCTTGAAATA-TCTATATTCATCGAACCAAATCCCAGCCA
* * *
26343 CATT-TGGTTTAAGGATTTGTT-TCTACGAGCAT-TTGAATCTTATTTCAATTTAATTAGAAATT
64 CATTGT-ATTTAAGAATTTGTTCT-TACGAGCATCTT-AATCTTATTTCAATTCAATTAGAAATT
* *
26405 AA-TTCG-AAAAAATGGGAAAAAAGTTATTAGAAGCGTGAAAAACACTTCAAT-TTTTTGGCCTT
126 AATTTCGAAAAAAAT-GG-AAAAAGATATTAGAAGCGTGAAAAACACTTCAATATTTTTGGCATT
* ** *
26467 GAATTATATATATTTTAT-AAGTATTGTGGTAAAAAATTTGAGAAAATTTTTTTCTGGTCAGATT
189 GAATTATATAT-TTTTATGAACTATTGTGGT-AAAAATTTGAGAAAAACTTTTTCGGGTCAGATT
26531 TTAG
252 TTAG
26535 GCTAAAAATG
Statistics
Matches: 219, Mismatches: 27, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
267 7 0.03
268 34 0.16
269 77 0.35
270 101 0.46
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (269 bp):
TGCATGATTTTTGGCTCAAACACTCCTTGAAATATCTATATTCATCGAACCAAATCCCAGCCACA
TTGTATTTAAGAATTTGTTCTTACGAGCATCTTAATCTTATTTCAATTCAATTAGAAATTAATTT
CGAAAAAAATGGAAAAAGATATTAGAAGCGTGAAAAACACTTCAATATTTTTGGCATTGAATTAT
ATATTTTTATGAACTATTGTGGTAAAAATTTGAGAAAAACTTTTTCGGGTCAGATTTTAGCCCCG
ACTTAGTTG
Found at i:27431 original size:298 final size:298
Alignment explanation
Indices: 26264--28081 Score: 1435
Period size: 298 Copynumber: 5.9 Consensus size: 298
26254 TCAGTTTTTA
* * * * ** * **
26264 GCCCCGACTTAGTTGTGCATGATTTTTGGCCTAAACACTCCTTGAAATATTCTATATTCATGGAA
1 GCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATA-TCTATATTCATCTAA
* * * * * *
26329 TCAAATCCCAGTCACATTTGG-TTTAAGGATTTGTTTCTACGAGCATTTGAATCTTATTTCAATT
65 CCAAATCTCAGCCACA-TTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATT
* * * * *
26393 TAATTAGAAATTAATTC-G-AAAAAATGGGAAAAAAGTTATTAGAAGCGTGAAAAACACTTCAAT
129 TAATTAGAAATTAATTCGGAAAAAAAT--GAAAAACGATATTAGAAGTGTGAAAAACCCGTCAAT
* * * * ***
26456 -TTTTTGGCCTTGAATTATATATATTTTATAAGTATTGTGGTAAAAAATTTGAGAAAATTTTTTT
192 CTTTTTGGCGTTGAATTATATAT-TTTTTTGAGTATTGTGGCAAAAAA-TTGAGAAAAAACTTTT
* * *
26520 CTGGTCAGATTTTAG--G----C---TAAAAAT-GCATTTCAGG
255 CGGGTCAGTTTTTAGCAGAAATCGTGTAAAAATCGCATTTCGGG
* * ** * * ** *
26554 ACCCTGATTCAGTTATGCATGATTTTTGGCAGAAAGAAACCTTGAAATATATATATTCATCTAAC
1 GCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * **
26619 CAAATTTCAGCCACATTGGATTTAAGGAATTTGTTTTTACGAGTATCTGAATCTTGCTTCGATTT
66 CAAATCTCAGCCACATTGGATTTAAGG-ATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTT
* * * ** * * *
26684 AATTAGAAATTAGTTCGG-AAAAATTGAAAAACGGTATTAGAACCGTGAAAAGCCCATCGATCTT
130 AATTAGAAATTAATTCGGAAAAAAATGAAAAACGATATTAGAAGTGTGAAAAACCCGTCAATCTT
* * * * * *
26748 TTTGGCTTTAAATTATATATTTTTTCTGAGTATTTTGACAAAAAATTCAGGAAAAAA-TATTCGA
195 TTTGGCGTTGAATTATATATTTTTT-TGAGTATTGTGGCAAAAAATTGA-GAAAAAACTTTTCG-
* * * *
26812 AGTCAGTTTTCAGCTGAATTGGTATACTAACCATCACGAATTTGGACTAAAAA-CGCGTTTTGGG
257 GGTCAGTTTTTAGC---A---G------AA--AT--CG----T-G--TAAAAATCGCATTTCGGG
* *
26876 GGCCCGACTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
1 GCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * * * **
26941 CAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACAAACATCTTAATCTTATTTATATTTA
66 CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTA
* *
27006 ATTAGAAATTAATTCGGAAAAGAAATTGAAAAACGATATTAGAAGTGTAAAAAACCCGTCAATTT
131 ATTAGAAATTAATTCGGAAAA-AAA-TGAAAAACGATATTAGAAGTGTGAAAAACCCGTCAA-TC
* *
27071 TTTTTGGTGTTGAATTATAT-TTTTTTT-AGTATTGTGGCAAAAAATTGAGAAAATACTTTTCGG
193 TTTTTGGCGTTGAATTATATATTTTTTTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCGG
* *
27134 GTCTGTTTTTAGCCGAAATCGTGTAAAAAT-GCATTTCGGG
258 GTCAGTTTTTAGCAGAAATCGTGTAAAAATCGCATTTCGGG
* * *
27174 GCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAGAGTCTCCTAGAAATATCTATATTCATCTAAC
1 GCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * * *
27239 AAAATCTCAGCCACAGTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTA
66 CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTA
* * * ****
27304 ATTAGAAATTAATTCGGAAATAAATGAAAAGCGATATTAGAAATGTGAAAAGTTTGTCAATCTTT
131 ATTAGAAATTAATTCGGAAAAAAATGAAAAACGATATTAGAAGTGTGAAAAACCCGTCAATCTTT
* * *
27369 TTGG-GTTGGATTATATATTTTTTCTGAGTATTGTGGCAAAAAACTGAGAAAAAAAGTTTTCGGG
196 TTGGCGTTGAATTATATATTTTTT-TGAGTATTGTGGCAAAAAATTGAG-AAAAAACTTTTCGGG
* * * *
27433 TCAGTTTTTAGGAGAAATCGTGTACATCACAGTTTTTGGCTGAAAACGCGTTTCAGG
259 TCAGTTTTTAGCAGAAATCGTG----T-A-A-----------AAATCGCATTTCGGG
* * * * * *
27490 GTCTCGGTTCAGTTTTGTACGATTTTTGGCAAAAAGACTCCTTCAAATATCTATATTCATCTAAC
1 GCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * *
27555 CAAATCTCAGGCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTGAATCTTATTT-AAGTTT
66 CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGA-TTT
* ** *
27619 AATTAGAAATAAATTCGAGGGGGGAAAAACAAAAAAAAACGATATTAGAAGCGTGAAAAACCCGT
130 AATTAGAAATTAATTC------GGAAAAA-AATGAAAAACGATATTAGAAGTGTGAAAAACCCGT
* * * * *
27684 TAATCATTTTGGCGTTAAATTATATATTTTTTTTGAGTATTGTGGCAAAAAATTCAGAAAAAATT
188 CAATCTTTTTGGCGTTGAATTATATA-TTTTTTTGAGTATTGTGGCAAAAAATTGAGAAAAAACT
* * *
27749 TTTCGGGTCAGTTTTTAGCTGAAATTGTGTACCATCACGGTTTTTATACAAAAATCGCGTTTCGG
252 TTTCGGGTCAGTTTTTAGC----A----G-A-AAT--C-G----TGT--AAAAATCGCATTTCGG
27814 G
298 G
* * * *
27815 GCCCCGGCTCCGTTTTGCATGATTTTTGGCAGAAAGACTCATTGAAATATCTATATTTATCTAAC
1 GCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * *
27880 CAAATCTCA-CTTACATTGAATTTAAGGATTTGTTTTTATGAGCATCTGAATC-TAGTTTCGATT
66 CAAATCTCAGC-CACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTA-TTTCGATT
* * * *
27943 TAATTAGAAATTAATTCGGAAAAAAAAATTGCAAAACAATATTAGAAGCGTGAAAAACCC-TAAA
129 TAATTAGAAATTAATTCGG--AAAAAAA-TGAAAAACGATATTAGAAGTGTGAAAAACCCGTCAA
** * * *
28007 TAATTTTGGCATTGAA-T-TAT-TTTTCTTGAGTATTGTGTCAAAAAATTGAG-AAAAACTATTT
191 TCTTTTTGGCGTTGAATTATATATTTTTTTGAGTATTGTGGCAAAAAATTGAGAAAAAACT-TTT
28068 CGGGTCAGTTTTTA
255 CGGGTCAGTTTTTA
28082 TCCCCGGCTC
Statistics
Matches: 1231, Mismatches: 194, Indels: 180
0.77 0.12 0.11
Matches are distributed among these distances:
288 4 0.00
289 71 0.06
290 135 0.11
291 7 0.01
294 11 0.01
295 14 0.01
296 30 0.02
297 24 0.02
298 183 0.15
300 1 0.00
301 1 0.00
302 1 0.00
303 1 0.00
304 1 0.00
305 2 0.00
307 2 0.00
309 2 0.00
312 1 0.00
315 11 0.01
316 178 0.14
318 3 0.00
319 3 0.00
320 18 0.01
321 95 0.08
322 126 0.10
323 64 0.05
324 70 0.06
325 159 0.13
326 1 0.00
327 1 0.00
331 1 0.00
332 1 0.00
333 2 0.00
335 1 0.00
336 3 0.00
337 2 0.00
340 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (298 bp):
GCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTA
ATTAGAAATTAATTCGGAAAAAAATGAAAAACGATATTAGAAGTGTGAAAAACCCGTCAATCTTT
TTGGCGTTGAATTATATATTTTTTTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTC
AGTTTTTAGCAGAAATCGTGTAAAAATCGCATTTCGGG
Found at i:27880 original size:325 final size:316
Alignment explanation
Indices: 27157--28081 Score: 1080
Period size: 316 Copynumber: 2.9 Consensus size: 316
27147 CGAAATCGTG
* * * *
27157 TAAAAAT-GCATTTCGGGGCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAGAGTCTCCTAGAAA
1 TAAAAATCGCGTTTCGGGGCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAA
* *
27221 TATCTATATTCATCTAACAAAATCTCAGCCACAGTGGATTTAAGGATTTGTTTTTACGAGCATCT
66 TATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCT
* * * ** * **
27286 AAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAATAAATGAAAAGCGATATTAGAAATGTG
131 GAATCTTATTTCGATTTAATTAGAAATTAATTCGGAAAAAAAAAAAAAACGATATTAGAAGCGTG
**** * * * *
27351 AAAAGTTTGTCAATCTTTTTGG-GTTGGATTATATATTTTTTCTGAGTATTGTGGCAAAAAACTG
196 AAAAACCCGTAAATCATTTTGGCGTT-GATTATATATTTTTTTTGAGTATTGTGGCAAAAAATTG
* * *
27415 AGAAAAAAAGTTTTCGGGTCAGTTTTTAGGAGAAATCGTGTACATCACAGTTTTTGGC
260 AG-AAAAAATTTTTCGGGTCAGTTTTTAGCAGAAATCGTGTACATCACAGTTTTTGAC
* * * * * * * *
27473 TGAAAA-CGCGTTTCAGGGTCTCGGTTCAGTTTTGTACGATTTTTGGCAAAAAGACTCCTTCAAA
1 TAAAAATCGCGTTTCGGGGCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAA
* *
27537 TATCTATATTCATCTAACCAAATCTCAGGCACATTGGATTTAAAGATTTGTTTTTACGAGCATCT
66 TATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCT
* *
27602 GAATCTTATTT-AAGTTTAATTAGAAATAAATTCGAGGGGGGAAAAACAAAAAAAAACGATATTA
131 GAATCTTATTTCGA-TTTAATTAGAAATTAATTC------GGAAAAA-AAAAAAAAACGATATTA
* *
27666 GAAGCGTGAAAAACCCGTTAATCATTTTGGCGTTAAATTATATATTTTTTTTGAGTATTGTGGCA
188 GAAGCGTGAAAAACCCGTAAATCATTTTGGCGTT-GATTATATATTTTTTTTGAGTATTGTGGCA
* * * * *
27731 AAAAATTCAGAAAAAATTTTTCGGGTCAGTTTTTAGCTGAAATTGTGTACCATCACGGTTTTTAT
252 AAAAATTGAGAAAAAATTTTTCGGGTCAGTTTTTAGCAGAAATCGTGTA-CATCACAGTTTTT-G
27796 AC
315 AC
* * *
27798 -AAAAATCGCGTTTCGGGGCCCCGGCTCCGTTTTGCATGATTTTTGGCAGAAAGACTCATTGAAA
1 TAAAAATCGCGTTTCGGGGCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAA
* * * *
27862 TATCTATATTTATCTAACCAAATCTCA-CTTACATTGAATTTAAGGATTTGTTTTTATGAGCATC
66 TATCTATATTCATCTAACCAAATCTCAGC-CACATTGGATTTAAGGATTTGTTTTTACGAGCATC
* *
27926 TGAATC-TAGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAAAATTGCAAAACAATATTAGAA
130 TGAATCTTA-TTTCGATTTAATTAGAAATTAATTCGGAAAAAAAAA---AAAAACGATATTAGAA
* * * *
27990 GCGTGAAAAACCC-TAAATAATTTTGGCATTGA--AT-TATTTTTCTTGAGTATTGTGTCAAAAA
191 GCGTGAAAAACCCGTAAATCATTTTGGCGTTGATTATATATTTTTTTTGAGTATTGTGGCAAAAA
* *
28051 ATTGAGAAAAACTATTTCGGGTCAGTTTTTA
256 ATTGAGAAAAAATTTTTCGGGTCAGTTTTTA
28082 TCCCCGGCTC
Statistics
Matches: 516, Mismatches: 74, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
315 1 0.00
316 192 0.37
317 2 0.00
318 4 0.01
319 8 0.02
320 14 0.03
321 27 0.05
322 6 0.01
323 71 0.14
324 57 0.11
325 133 0.26
326 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (316 bp):
TAAAAATCGCGTTTCGGGGCCCCGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAA
TATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCT
GAATCTTATTTCGATTTAATTAGAAATTAATTCGGAAAAAAAAAAAAAACGATATTAGAAGCGTG
AAAAACCCGTAAATCATTTTGGCGTTGATTATATATTTTTTTTGAGTATTGTGGCAAAAAATTGA
GAAAAAATTTTTCGGGTCAGTTTTTAGCAGAAATCGTGTACATCACAGTTTTTGAC
Found at i:28379 original size:268 final size:263
Alignment explanation
Indices: 27816--28505 Score: 809
Period size: 268 Copynumber: 2.6 Consensus size: 263
27806 CGTTTCGGGG
* * * * *
27816 CCCCGGCTCCGTTTTGCATGATTTTTGGCAG-AAAGACTCATTGAAATATCTATATTTATCTAAC
1 CCCCGGCTCAGTTTTGCATGATTTTTGGC-GTAAAGACTCCTTCAAATATCTATATTCATCGAAC
* * * *
27880 CAAATCTCA-CTTACATTGAATTTAAGGATTTGTTTTTATGAGCATCTGAATCTAGTTTCGATTT
65 CAAATCACATC-CACATTG-ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
* * * *
27944 AATTAGAAATTAATTCGGAAAAAAAAATTGCAAAACAATATTAGAAGCGTGAAAAACCCTAAATA
128 AATTACAAATCAATTC---AAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACCCTAAATA
*
28009 ATTTTGGCATTGAATTATTTTTCTTGAGTATTGTGTCAAAAAATTGAGAAAAACTATTTCGGGTC
190 ATTTTGGCATTGAATTATTTTTCTTGAGTATTGTGGCAAAAAATTGAGAAAAACTATTTCGGGTC
*
28074 AGTTTTTAT
255 AGTTTTTAC
* *
28083 CCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAAACTCCTTCAAATGTCTATATTCATCGAACC
1 CCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTCAAATATCTATATTCATCGAACC
* *
28148 AAAGCACATCCACATTCGATTTAAGGATTTGTTTTTACGAGCATCTTAATCTTGTTTCGATTTAA
66 AAATCACATCCACATT-GATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
* * * * * *
28213 TTTCAAATCAATTC-AGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCATTCAATCATTT
130 TTACAAATCAATTCAAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACC-CTAAATAATTT
* * * *
28277 TGGCATTGAATTATATATTTTTTATGAGTATTTTGGGAAAAAATTGAGAAAAACTCTCTT-GGGT
194 TGGCATTGAA-T-TAT-TTTTCT-TGAGTATTGTGGCAAAAAATTGAGAAAAACTAT-TTCGGGT
28341 CAGTTTTTAC
254 CAGTTTTTAC
* * *
28351 CCCCGGCTCAATTTTGCATGAATTTTGGCGTAAAGACTCC-TCGAAATATCTATATTCATTGAAC
1 CCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTC-AAATATCTATATTCATCGAAC
* ** *
28415 CAAATCTA-AGT-CATATTAGATTTAAGGATTTGTTTTTACGTTCATCTGAATATTGTTTCGATT
65 CAAATC-ACA-TCCACATT-GATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATT
* * *
28478 TAATAAAAAATTAATTCGGAAAAAAAAT
127 TAATTACAAATCAATTC--AAAAAAAAT
28506 AAAAAAACGT
Statistics
Matches: 362, Mismatches: 46, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
263 34 0.09
264 18 0.05
265 1 0.00
266 4 0.01
267 129 0.36
268 165 0.46
269 4 0.01
271 7 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (263 bp):
CCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTCAAATATCTATATTCATCGAACC
AAATCACATCCACATTGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
TACAAATCAATTCAAAAAAAATGGAAAAACAATATTAGAAGCGTGAAAAACCCTAAATAATTTTG
GCATTGAATTATTTTTCTTGAGTATTGTGGCAAAAAATTGAGAAAAACTATTTCGGGTCAGTTTT
TAC
Found at i:30110 original size:324 final size:324
Alignment explanation
Indices: 28351--30931 Score: 2642
Period size: 321 Copynumber: 8.0 Consensus size: 324
28341 CAGTTTTTAC
* * * *
28351 CCCCGGCTCAATTTTGCATGAATTTTGGC-GTAAAGACTCCTCGAAATATCTATATTCAT-TGAA
1 CCCCGACTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCT-AA
* * * * ** *
28414 CCAAATCTAAGTCATATTAGATTTAAGGATTTGTTTTTACGTTCATCTGAATATTGTTTCGATTT
64 CCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
* * * ** * * * *
28479 AATAAAAAATTAATTCGGAAAAAAAATAAAAAAACGTTA-TAGAAGTGTAAAAAG-CCAGCCAAT
129 AATTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCCCA-TCAAT
* * **
28542 CTTTTTGGAGTTAAATTATATATTTTTTCTGTGTATTGTTGCAAAAAATTCAGGAAAAAAAATTT
193 CTTTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGCAAAAAATTCAGGAAAAAACTTTT
* * * * *
28607 -GGGTCAATTTTTAGCCGAAATCGTATACTAATCATCACGAATTTTGCCATTTTGGACTGAAAAC
258 CGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACG------G--TTTTTGG-CTAAAAAC
* *
28671 GTGTTTCAGGG
314 GCGTTTCGGGG
* *
28682 CCCC-AGCTCAGTTTTGCATGATTTTTGGAAGAAAGACTCCTTGAAATATCTATATTCACCTAAC
1 CCCCGA-CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * *
28746 CAAATTTCAGCCACATTGGATTTAAGGGTTTTTTTTTTACGAGCATCTGAATCTTGTTTCGATTT
65 CAAATCTCAGCCACATTGGATTTAA-GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
* ** * *
28811 AATTAGAAATAAATTCTGGGAAAAAAAAAGAAGAAAAAACGATATTATAAGCGTGTAAAGCCCAT
129 AATTAGAAATTAATTC--GGAAAAAAATTG--G-AAAAACGATATTAGAAGCGTGAAAAGCCCAT
** ** *
28876 CAATCTTTTTGACGTTAAATTATATATTTTTTCTGAGTATTGTTGC-AAAAATTCATCAAAAAAA
189 CAATCTTTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGCAAAAAATTCAGGAAAAAAC
* * * ** *
28940 ATTTCGGGTTAG-TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGAATTAAAAAACGAG
254 TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTG-GCT-AAAAACGCG
*
29004 TTTCGAGG
317 TTTCGGGG
** * * * *
29012 CCCTAACTCAGTTTTGCATGATTTTTGACA-AATAGAATCCTTCAAATATTTATATTCATCTAAC
1 CCCCGACTCAGTTTTGCATGATTTTTGGCAGAA-AGACTCCTTGAAATATCTATATTCATCTAAC
* * * *
29076 CAAATCTCAGCCAAATTGGATTTAAGG-TTTTTTTTTACGAACATTTGAATCTTGTTTCGATTTA
65 CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
* * *
29140 ATTAGAAATAAATTCAGGGAAAAAAA-TGGAAAAACGTTATTAGAAGCGTGAAAAGCCCATTAAT
130 ATTAGAAATTAATTC--GGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAAT
* * *
29204 C-TTTTAGCGTTAAATTATATATTTTTTCTTAGTATTG-TGCTAAAAAATTCAGG-AAAAA-TTT
193 CTTTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGC-AAAAAATTCAGGAAAAAACTTT
* * * *
29265 CCGGGTCAGTTTTTAGCTGAAATCGTGCACTAACCATCACGGTTTTTGAACT-AAAACGCGTTTC
257 TCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTG-GCTAAAAACGCGTTTC
29329 GGGG
321 GGGG
* * * * *
29333 CCTCGACTTAGTTTTGCATGATTTTAGTCTGAAAGACTCCTTGAAATATCTATATTCATCTAACC
1 CCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
* *
29398 AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCAACTGAATCTTGTTTCGATTTAA
66 AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
* * **
29463 TTAGAAATTAATTCGGATAAAAAATT-GAAAAATGATATTA-AGAGTGTGAAAAAACCAGTCAAT
131 TTAGAAATTAATTCGGA-AAAAAATTGGAAAAACGATATTAGA-AGCGTGAAAAGCCCA-TCAAT
* * * * * *
29526 CTTTTTTGTGTTGAACTATATATTTTTTCTGAGTATTGTGGCTAAAAATTGA-GAAAAAACTTTT
193 CTTTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGCAAAAAATTCAGGAAAAAACTTTT
** * *
29590 CGGGTCAGTTTTTAGTTGAAATCGTG---T----ATCACGGTTTCTGGCTAAAAACGCGTTTCGC
258 CGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGG
29648 GG
323 GG
* * * * * * *
29650 CTTCTG-CTCAGTTTTGCATGATTTTTGGCAGAAAGACACATCGAAATATCAATATTTATCTAAC
1 C-CCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * * *
29714 CAAATCTCAGCTACATTGGATTT----A-TTGTTTTTATGAGCATTTTAATCTTGTTTCGATTTA
65 CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
** * * *
29774 ATTTCAAATTAATTCAGAAAAAAATTGGAAAAACAATATTAGAAGCGGGAAAAGCCCATCAATCT
130 ATTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCT
* * * * * * * *
29839 TTTTGGTGTTAAATTACATATATTTTATAAGTATAGTTGTAAAAAATTTAGGGAAAAA-TTTTCC
195 TTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGCAAAAAATTCAGGAAAAAACTTTT-C
* * * *
29903 GGATCAGTTTTTAGCCGAAAACGTGTACTAACCATCACGGTTTTTGGACTAGAATCGCGTTTCGG
259 GGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGG-CTAAAAACGCGTTTCGG
29968 GG
323 GG
* * * * *
29970 CCCCGGCTCAGTTTTGCTTGATTTTTGGCAGAAAGACTCTTTGAAATATCTATATT-ATGTAATC
1 CCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
* * * *
30034 AAATCTCAGCCAAATTGGATTTATGGATTTGTTTTTACGAGCATTTTAATCTTGTTTCGATTTAA
66 AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
** *
30099 TTTCAAATTAATTC-GAAAAAAATT-GAAAAACGATATTAGAAGCGTGAAAA-CCCTGTCAATCT
131 TTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCCC-ATCAATCT
* * ** * *
30161 TTTTGGTTTTAAATTATATATCTTTTCCAAGTATTGTGGCAAATAATTCAGG-AAAAACTTTTCC
195 TTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGCAAAAAATTCAGGAAAAAACTTTT-C
* * ** * * *
30225 GGTTTAGTTTTTAGTTGAAATCGTGTACTAACAATCACGGTTTTTTGGCTAAATATGCGTTTCGG
259 GGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTTCGG
30290 GG
323 GG
** * * * * * * *
30292 CTTCTACTAAGTTTTGTATGATTTTTGGCAAAAAAAACACCTCGAAATATCTATATTCATCTAAC
1 CCCCGACTCAGTTTTGCATGATTTTTGGC-AGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * * * * * * *
30357 AAAATCCCAACCACATTGGATTTCAGGATTTGTTTTTACGAGCGTCTTAATTTTGTTTCGAATTA
65 CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
* ** * * * * * *
30422 GTTTCAAATTAATTC--AAAAAAAATGGAAAAATGATATTAGAATCATGAAAAGCGCATCAACCT
130 ATTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCT
* * * * * *
30485 TTTTGGCGTTGAATTATATATTTTTTCTGTGTATTG-TGCAAAATATTGAGAAAAAAACTTTTCG
195 TTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGCAAAAAATTCAGGAAAAAACTTTTCG
* * * *
30549 TGTCAGTTTTTAGCCGAAATCGCGTGCTTACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGG
260 GGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGG
* * *** *
30614 CCTCGACTTAGTTTTGCATGATTTTTCATAGAAAGACTCCTTGAAATATCTATATTCATCTAATC
1 CCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
* * * * * *
30679 AAATCTCAGCCACATTGTATTTAAGGATTTCTTTTTACGAACATCTTAATCTCGTTTCTATTTAA
66 AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
* * * *
30744 TTAGAAATTAATT-GGAAAAATATT-GAAAAACGATATTAGAAGCGT-AAAATCCCCGTCAATCA
131 TTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAAA-GCCCATCAATCT
* * *
30806 TTTTGGTGTTGAATTATATATTTTTTCTGAGTATTGTTGCAAAAACA-GCTGAGAAAAAACTTTT
195 TTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGCAAAAA-ATTCAG-GAAAAAACTTTT
* * * *
30870 CGGGTCAGTTTTTAGCTGAAATCGGGTACTAACCATTACAGTTTTTGGCTAAAAACGCGTTT
258 CGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTT
30932 TGTCAGAAAG
Statistics
Matches: 1888, Mismatches: 299, Indels: 134
0.81 0.13 0.06
Matches are distributed among these distances:
311 57 0.03
312 99 0.05
313 2 0.00
315 1 0.00
316 2 0.00
317 99 0.05
318 1 0.00
319 41 0.02
320 70 0.04
321 283 0.15
322 278 0.15
323 277 0.15
324 263 0.14
325 3 0.00
327 1 0.00
328 60 0.03
329 9 0.00
330 88 0.05
331 75 0.04
332 49 0.03
334 10 0.01
337 58 0.03
338 59 0.03
339 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (324 bp):
CCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
TTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTT
TTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTTGCAAAAAATTCAGGAAAAAACTTTTCGG
GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGG
Done.