Multiple sequence alignment - TraesCS6B01G383400

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6B01G383400 chr6B 100.000 2549 0 0 1 2549 658367983 658365435 0.000000e+00 4708.0
1 TraesCS6B01G383400 chr6B 96.159 1614 55 5 937 2549 107038699 107037092 0.000000e+00 2630.0
2 TraesCS6B01G383400 chr6B 79.926 538 73 20 1 521 500422608 500422089 1.860000e-96 363.0
3 TraesCS6B01G383400 chr1B 94.975 1990 67 12 587 2549 498442428 498440445 0.000000e+00 3090.0
4 TraesCS6B01G383400 chr1B 96.040 1616 54 8 936 2549 232741103 232742710 0.000000e+00 2621.0
5 TraesCS6B01G383400 chr1B 82.462 325 52 4 1 322 647846392 647846714 1.930000e-71 279.0
6 TraesCS6B01G383400 chr5B 94.965 1986 66 4 594 2549 269389471 269391452 0.000000e+00 3083.0
7 TraesCS6B01G383400 chr5B 94.907 1983 68 3 596 2549 446193254 446191276 0.000000e+00 3072.0
8 TraesCS6B01G383400 chr5B 96.632 386 12 1 586 971 317969006 317969390 7.690000e-180 640.0
9 TraesCS6B01G383400 chr5B 95.538 381 17 0 591 971 643490993 643490613 6.030000e-171 610.0
10 TraesCS6B01G383400 chr5B 82.398 392 57 11 1 385 688755403 688755017 5.260000e-87 331.0
11 TraesCS6B01G383400 chr5B 83.385 325 47 5 3 323 645874315 645874636 6.900000e-76 294.0
12 TraesCS6B01G383400 chr5B 93.548 62 4 0 458 519 612129518 612129457 2.700000e-15 93.5
13 TraesCS6B01G383400 chr3B 94.761 1985 69 8 596 2549 722334706 722336686 0.000000e+00 3057.0
14 TraesCS6B01G383400 chr3B 96.757 370 12 0 596 965 594400316 594399947 3.600000e-173 617.0
15 TraesCS6B01G383400 chr3B 83.163 392 56 9 1 385 471400643 471400255 1.450000e-92 350.0
16 TraesCS6B01G383400 chr3B 80.556 432 62 13 1 413 468756550 468756978 1.900000e-81 313.0
17 TraesCS6B01G383400 chr3B 82.249 338 46 11 1 329 722012100 722012432 1.930000e-71 279.0
18 TraesCS6B01G383400 chr2B 94.634 1994 72 17 588 2549 596962059 596964049 0.000000e+00 3057.0
19 TraesCS6B01G383400 chr2B 94.716 1987 70 5 595 2549 602077186 602075203 0.000000e+00 3055.0
20 TraesCS6B01G383400 chr2B 96.579 380 12 1 592 971 695148715 695148337 1.660000e-176 628.0
21 TraesCS6B01G383400 chr2B 96.011 376 15 0 596 971 36241850 36242225 1.680000e-171 612.0
22 TraesCS6B01G383400 chr7B 94.581 1993 72 12 586 2549 718488484 718486499 0.000000e+00 3049.0
23 TraesCS6B01G383400 chr7B 96.316 380 14 0 588 967 677862798 677862419 2.150000e-175 625.0
24 TraesCS6B01G383400 chr7B 83.590 390 50 10 1 385 408849193 408848813 1.120000e-93 353.0
25 TraesCS6B01G383400 chr7B 82.143 392 57 11 3 385 321656978 321657365 8.800000e-85 324.0
26 TraesCS6B01G383400 chr7B 77.532 316 46 10 222 523 717971897 717971593 1.570000e-37 167.0
27 TraesCS6B01G383400 chr3A 88.147 1139 92 13 585 1713 120653854 120654959 0.000000e+00 1315.0
28 TraesCS6B01G383400 chr3A 75.682 403 69 13 131 519 749133584 749133197 9.370000e-40 174.0
29 TraesCS6B01G383400 chr2A 89.706 544 50 3 595 1138 695806753 695806216 0.000000e+00 689.0
30 TraesCS6B01G383400 chr1D 79.740 538 76 14 3 521 140996227 140996750 2.410000e-95 359.0
31 TraesCS6B01G383400 chr1D 79.284 391 58 6 222 598 177687119 177686738 4.210000e-63 252.0
32 TraesCS6B01G383400 chr5D 79.775 534 74 16 3 516 235519136 235518617 8.670000e-95 357.0
33 TraesCS6B01G383400 chr5D 78.117 393 52 20 134 521 57343564 57343927 4.270000e-53 219.0
34 TraesCS6B01G383400 chr4B 79.592 539 74 18 1 521 228036189 228036709 1.120000e-93 353.0
35 TraesCS6B01G383400 chr5A 81.122 392 62 9 3 385 639425186 639425574 1.150000e-78 303.0
36 TraesCS6B01G383400 chr2D 78.803 401 58 11 134 521 4153749 4154135 7.040000e-61 244.0
37 TraesCS6B01G383400 chr2D 75.399 313 49 10 222 521 284014761 284014464 2.660000e-25 126.0
38 TraesCS6B01G383400 chr4A 81.690 213 22 6 385 595 716950580 716950777 7.300000e-36 161.0
39 TraesCS6B01G383400 chr7D 75.394 317 42 18 220 517 274322410 274322111 1.240000e-23 121.0
40 TraesCS6B01G383400 chr1A 90.909 66 5 1 457 521 232739380 232739445 1.260000e-13 87.9


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G383400 chr6B 658365435 658367983 2548 True 4708 4708 100.000 1 2549 1 chr6B.!!$R3 2548
1 TraesCS6B01G383400 chr6B 107037092 107038699 1607 True 2630 2630 96.159 937 2549 1 chr6B.!!$R1 1612
2 TraesCS6B01G383400 chr6B 500422089 500422608 519 True 363 363 79.926 1 521 1 chr6B.!!$R2 520
3 TraesCS6B01G383400 chr1B 498440445 498442428 1983 True 3090 3090 94.975 587 2549 1 chr1B.!!$R1 1962
4 TraesCS6B01G383400 chr1B 232741103 232742710 1607 False 2621 2621 96.040 936 2549 1 chr1B.!!$F1 1613
5 TraesCS6B01G383400 chr5B 269389471 269391452 1981 False 3083 3083 94.965 594 2549 1 chr5B.!!$F1 1955
6 TraesCS6B01G383400 chr5B 446191276 446193254 1978 True 3072 3072 94.907 596 2549 1 chr5B.!!$R1 1953
7 TraesCS6B01G383400 chr3B 722334706 722336686 1980 False 3057 3057 94.761 596 2549 1 chr3B.!!$F3 1953
8 TraesCS6B01G383400 chr2B 596962059 596964049 1990 False 3057 3057 94.634 588 2549 1 chr2B.!!$F2 1961
9 TraesCS6B01G383400 chr2B 602075203 602077186 1983 True 3055 3055 94.716 595 2549 1 chr2B.!!$R1 1954
10 TraesCS6B01G383400 chr7B 718486499 718488484 1985 True 3049 3049 94.581 586 2549 1 chr7B.!!$R4 1963
11 TraesCS6B01G383400 chr3A 120653854 120654959 1105 False 1315 1315 88.147 585 1713 1 chr3A.!!$F1 1128
12 TraesCS6B01G383400 chr2A 695806216 695806753 537 True 689 689 89.706 595 1138 1 chr2A.!!$R1 543
13 TraesCS6B01G383400 chr1D 140996227 140996750 523 False 359 359 79.740 3 521 1 chr1D.!!$F1 518
14 TraesCS6B01G383400 chr5D 235518617 235519136 519 True 357 357 79.775 3 516 1 chr5D.!!$R1 513
15 TraesCS6B01G383400 chr4B 228036189 228036709 520 False 353 353 79.592 1 521 1 chr4B.!!$F1 520

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
171 178 0.327924 ACCGCACTTCATTGGATGGA 59.672 50.0 0.0 0.0 0.0 3.41 F
361 375 0.380378 TTCACACTTCCACGCTTTGC 59.620 50.0 0.0 0.0 0.0 3.68 F
362 376 0.746204 TCACACTTCCACGCTTTGCA 60.746 50.0 0.0 0.0 0.0 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1263 1344 0.251354 GAGTCTTGGCCAGAGCATCA 59.749 55.0 5.11 0.0 42.56 3.07 R
1306 1387 0.810648 ATGCGCAACCATTCGTCATT 59.189 45.0 17.11 0.0 0.00 2.57 R
2176 2285 1.577328 CGCAGCCCTAAACACCACAG 61.577 60.0 0.00 0.0 0.00 3.66 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 71 4.866508 ACACTATCAAGAAGTGAACCGA 57.133 40.909 10.02 0.00 45.89 4.69
70 72 5.407407 ACACTATCAAGAAGTGAACCGAT 57.593 39.130 10.02 0.00 45.89 4.18
72 74 6.931838 ACACTATCAAGAAGTGAACCGATTA 58.068 36.000 10.02 0.00 45.89 1.75
73 75 6.812160 ACACTATCAAGAAGTGAACCGATTAC 59.188 38.462 10.02 0.00 45.89 1.89
168 175 2.890311 TGAAAACCGCACTTCATTGGAT 59.110 40.909 0.00 0.00 0.00 3.41
171 178 0.327924 ACCGCACTTCATTGGATGGA 59.672 50.000 0.00 0.00 0.00 3.41
178 185 2.821969 ACTTCATTGGATGGACAAGTGC 59.178 45.455 0.00 0.00 33.23 4.40
196 203 4.952460 AGTGCACTGCATGATTTCTTTTT 58.048 34.783 20.97 0.00 41.91 1.94
217 225 7.854934 TTTTTGTGGGACGTAAATTTTATCG 57.145 32.000 0.00 2.47 0.00 2.92
218 226 6.798315 TTTGTGGGACGTAAATTTTATCGA 57.202 33.333 13.89 0.00 0.00 3.59
298 307 2.163815 CGAGTACAAATGGACCTCGACT 59.836 50.000 10.26 0.00 45.81 4.18
301 310 5.069501 AGTACAAATGGACCTCGACTTAC 57.930 43.478 0.00 0.00 0.00 2.34
304 313 4.253685 ACAAATGGACCTCGACTTACATG 58.746 43.478 0.00 0.00 0.00 3.21
314 323 4.556233 CTCGACTTACATGGAAGTGAACA 58.444 43.478 28.15 7.62 39.79 3.18
359 373 3.859411 TTTTTCACACTTCCACGCTTT 57.141 38.095 0.00 0.00 0.00 3.51
360 374 2.842208 TTTCACACTTCCACGCTTTG 57.158 45.000 0.00 0.00 0.00 2.77
361 375 0.380378 TTCACACTTCCACGCTTTGC 59.620 50.000 0.00 0.00 0.00 3.68
362 376 0.746204 TCACACTTCCACGCTTTGCA 60.746 50.000 0.00 0.00 0.00 4.08
373 387 1.201181 ACGCTTTGCACAAGTGAACAA 59.799 42.857 21.19 0.00 0.00 2.83
391 413 3.668447 ACAACATCACTCTCACCACATC 58.332 45.455 0.00 0.00 0.00 3.06
392 414 2.662006 ACATCACTCTCACCACATCG 57.338 50.000 0.00 0.00 0.00 3.84
401 423 1.219124 CACCACATCGGAGGACCAG 59.781 63.158 0.00 0.00 38.63 4.00
412 434 2.046892 GGACCAGACGCACTGCAT 60.047 61.111 1.11 0.00 44.52 3.96
434 456 6.033831 GCATGTGTTTTGATTTAATCGACTGG 59.966 38.462 0.23 0.00 0.00 4.00
435 457 6.627395 TGTGTTTTGATTTAATCGACTGGT 57.373 33.333 0.23 0.00 0.00 4.00
478 500 4.679197 GCGAAACAAATTGCACTTCATACA 59.321 37.500 0.00 0.00 0.00 2.29
479 501 5.174761 GCGAAACAAATTGCACTTCATACAA 59.825 36.000 0.00 0.00 0.00 2.41
480 502 6.571588 CGAAACAAATTGCACTTCATACAAC 58.428 36.000 0.00 0.00 0.00 3.32
481 503 6.417635 CGAAACAAATTGCACTTCATACAACT 59.582 34.615 0.00 0.00 0.00 3.16
497 519 2.571653 ACAACTGGGTAATGAGCTGCTA 59.428 45.455 0.15 0.00 0.00 3.49
500 522 2.093447 ACTGGGTAATGAGCTGCTACAC 60.093 50.000 0.15 0.00 0.00 2.90
508 530 2.703416 TGAGCTGCTACACAAATGGAG 58.297 47.619 0.15 0.00 40.19 3.86
524 546 5.924475 AATGGAGTGAACTACTTTTGTCG 57.076 39.130 0.00 0.00 40.53 4.35
525 547 4.395959 TGGAGTGAACTACTTTTGTCGT 57.604 40.909 0.00 0.00 40.53 4.34
526 548 4.761975 TGGAGTGAACTACTTTTGTCGTT 58.238 39.130 0.00 0.00 40.53 3.85
527 549 5.180271 TGGAGTGAACTACTTTTGTCGTTT 58.820 37.500 0.00 0.00 40.53 3.60
528 550 6.339730 TGGAGTGAACTACTTTTGTCGTTTA 58.660 36.000 0.00 0.00 40.53 2.01
529 551 6.256321 TGGAGTGAACTACTTTTGTCGTTTAC 59.744 38.462 0.00 0.00 41.56 2.01
531 553 7.230466 AGTGAACTACTTTTGTCGTTTACTG 57.770 36.000 9.11 0.00 45.87 2.74
532 554 7.037438 AGTGAACTACTTTTGTCGTTTACTGA 58.963 34.615 9.11 0.00 45.87 3.41
533 555 7.546667 AGTGAACTACTTTTGTCGTTTACTGAA 59.453 33.333 9.11 0.00 45.87 3.02
534 556 8.333186 GTGAACTACTTTTGTCGTTTACTGAAT 58.667 33.333 0.00 0.00 39.66 2.57
535 557 8.885722 TGAACTACTTTTGTCGTTTACTGAATT 58.114 29.630 0.00 0.00 38.26 2.17
536 558 9.712359 GAACTACTTTTGTCGTTTACTGAATTT 57.288 29.630 0.00 0.00 38.26 1.82
561 583 6.450845 TTTATTACAAACGTGTCTGTACCG 57.549 37.500 5.23 0.00 39.30 4.02
562 584 3.706802 TTACAAACGTGTCTGTACCGA 57.293 42.857 5.23 0.00 39.30 4.69
563 585 2.582728 ACAAACGTGTCTGTACCGAA 57.417 45.000 0.00 0.00 29.49 4.30
564 586 3.102052 ACAAACGTGTCTGTACCGAAT 57.898 42.857 0.00 0.00 29.49 3.34
565 587 2.798283 ACAAACGTGTCTGTACCGAATG 59.202 45.455 0.00 0.00 29.49 2.67
566 588 2.074547 AACGTGTCTGTACCGAATGG 57.925 50.000 0.00 0.00 42.84 3.16
567 589 6.767208 ACAAACGTGTCTGTACCGAATGGT 62.767 45.833 0.00 0.00 43.07 3.55
583 605 5.659048 GAATGGTCGAGGCTAATTTACTG 57.341 43.478 0.00 0.00 0.00 2.74
592 614 8.129211 GTCGAGGCTAATTTACTGCATTATTTT 58.871 33.333 0.00 0.00 0.00 1.82
790 812 2.427095 GGCGGCCAATTTTATTCAGACT 59.573 45.455 15.62 0.00 0.00 3.24
893 916 2.347490 GGCAGTGACCACGGTGAT 59.653 61.111 10.28 0.00 36.20 3.06
953 1005 1.605058 GACGGCAGTGGGAAGCTAGA 61.605 60.000 0.00 0.00 0.00 2.43
967 1019 2.441348 TAGATGTGGAGGGCGCGA 60.441 61.111 12.10 0.00 0.00 5.87
981 1062 1.878069 CGCGACGGCATTGAGATCA 60.878 57.895 0.00 0.00 39.92 2.92
982 1063 1.217585 CGCGACGGCATTGAGATCAT 61.218 55.000 0.00 0.00 39.92 2.45
986 1067 2.352651 CGACGGCATTGAGATCATGTTT 59.647 45.455 0.00 0.00 0.00 2.83
1071 1152 0.976641 TGGAGATGCCTGTCTTCGTT 59.023 50.000 0.00 0.00 37.63 3.85
1263 1344 2.037641 GGCATGCTTCTTTCTTTGGGTT 59.962 45.455 18.92 0.00 0.00 4.11
1306 1387 7.389232 TCTGATAAATGAACTGCAAGAAGAGA 58.611 34.615 0.00 0.00 37.43 3.10
1885 1990 6.493458 AGATGTTTACACCTAGTGCCAAAATT 59.507 34.615 0.00 0.00 36.98 1.82
2014 2120 1.837538 CGCGTGGGTTAGTGGTGTTG 61.838 60.000 0.00 0.00 0.00 3.33
2279 2389 9.817365 CATAGTGAGACTGTGAAATTTGTAAAG 57.183 33.333 0.00 0.00 39.34 1.85
2453 2563 6.098409 TGGCACTTGGTTTAGGATTTAAACAA 59.902 34.615 10.79 0.00 38.71 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 31 5.136828 AGTGTTGTGATTCATTTACACCCA 58.863 37.500 17.74 0.00 37.25 4.51
43 45 5.758296 GGTTCACTTCTTGATAGTGTTGTGA 59.242 40.000 0.00 0.00 42.77 3.58
95 99 6.357579 TGTTCATCCCATAAGTGCAAAAAT 57.642 33.333 0.00 0.00 0.00 1.82
108 112 0.676466 GCCGTGTGATGTTCATCCCA 60.676 55.000 9.83 2.52 0.00 4.37
168 175 0.179023 TCATGCAGTGCACTTGTCCA 60.179 50.000 22.44 12.34 43.04 4.02
171 178 2.889045 AGAAATCATGCAGTGCACTTGT 59.111 40.909 22.44 7.38 43.04 3.16
196 203 6.601264 GTTCGATAAAATTTACGTCCCACAA 58.399 36.000 0.00 0.00 0.00 3.33
198 205 5.062058 TCGTTCGATAAAATTTACGTCCCAC 59.938 40.000 8.34 4.15 0.00 4.61
199 206 5.167121 TCGTTCGATAAAATTTACGTCCCA 58.833 37.500 8.34 0.00 0.00 4.37
200 207 5.289434 ACTCGTTCGATAAAATTTACGTCCC 59.711 40.000 8.34 1.33 0.00 4.46
214 222 7.806149 AAAAGAAAACAAAAACTCGTTCGAT 57.194 28.000 0.00 0.00 0.00 3.59
241 249 6.088085 CCACTCTCGTTCATAAAAATTGTTGC 59.912 38.462 0.00 0.00 0.00 4.17
245 253 6.314784 GGTCCACTCTCGTTCATAAAAATTG 58.685 40.000 0.00 0.00 0.00 2.32
281 290 5.416083 CATGTAAGTCGAGGTCCATTTGTA 58.584 41.667 0.00 0.00 0.00 2.41
282 291 4.253685 CATGTAAGTCGAGGTCCATTTGT 58.746 43.478 0.00 0.00 0.00 2.83
289 298 3.192844 TCACTTCCATGTAAGTCGAGGTC 59.807 47.826 0.00 0.00 37.61 3.85
298 307 6.237901 AGTAATGCTGTTCACTTCCATGTAA 58.762 36.000 0.00 0.00 0.00 2.41
301 310 6.932356 ATAGTAATGCTGTTCACTTCCATG 57.068 37.500 0.00 0.00 0.00 3.66
345 359 1.029408 TGTGCAAAGCGTGGAAGTGT 61.029 50.000 0.00 0.00 0.00 3.55
348 362 0.381801 ACTTGTGCAAAGCGTGGAAG 59.618 50.000 8.09 0.00 0.00 3.46
355 369 2.605030 TGTTGTTCACTTGTGCAAAGC 58.395 42.857 8.09 0.00 0.00 3.51
356 370 4.266029 GTGATGTTGTTCACTTGTGCAAAG 59.734 41.667 0.00 0.00 42.22 2.77
357 371 4.172505 GTGATGTTGTTCACTTGTGCAAA 58.827 39.130 0.00 0.00 42.22 3.68
358 372 3.768406 GTGATGTTGTTCACTTGTGCAA 58.232 40.909 0.00 0.00 42.22 4.08
359 373 3.419264 GTGATGTTGTTCACTTGTGCA 57.581 42.857 0.00 0.00 42.22 4.57
373 387 1.205655 CCGATGTGGTGAGAGTGATGT 59.794 52.381 0.00 0.00 0.00 3.06
382 396 1.229051 TGGTCCTCCGATGTGGTGA 60.229 57.895 0.00 0.00 39.52 4.02
383 397 1.219124 CTGGTCCTCCGATGTGGTG 59.781 63.158 0.00 0.00 39.52 4.17
391 413 3.374402 AGTGCGTCTGGTCCTCCG 61.374 66.667 0.00 0.00 36.30 4.63
392 414 2.262915 CAGTGCGTCTGGTCCTCC 59.737 66.667 1.43 0.00 40.23 4.30
412 434 6.627395 ACCAGTCGATTAAATCAAAACACA 57.373 33.333 0.00 0.00 0.00 3.72
442 464 7.690224 GCAATTTGTTTCGCTTGTTTAGAAAAA 59.310 29.630 0.00 0.00 35.91 1.94
443 465 7.148573 TGCAATTTGTTTCGCTTGTTTAGAAAA 60.149 29.630 0.00 0.00 35.91 2.29
444 466 6.311445 TGCAATTTGTTTCGCTTGTTTAGAAA 59.689 30.769 0.00 0.00 0.00 2.52
445 467 5.807520 TGCAATTTGTTTCGCTTGTTTAGAA 59.192 32.000 0.00 0.00 0.00 2.10
446 468 5.231147 GTGCAATTTGTTTCGCTTGTTTAGA 59.769 36.000 0.00 0.00 0.00 2.10
447 469 5.231991 AGTGCAATTTGTTTCGCTTGTTTAG 59.768 36.000 0.00 0.00 0.00 1.85
448 470 5.105752 AGTGCAATTTGTTTCGCTTGTTTA 58.894 33.333 0.00 0.00 0.00 2.01
450 472 3.520569 AGTGCAATTTGTTTCGCTTGTT 58.479 36.364 0.00 0.00 0.00 2.83
451 473 3.163630 AGTGCAATTTGTTTCGCTTGT 57.836 38.095 0.00 0.00 0.00 3.16
452 474 3.551082 TGAAGTGCAATTTGTTTCGCTTG 59.449 39.130 0.00 0.00 30.45 4.01
453 475 3.779759 TGAAGTGCAATTTGTTTCGCTT 58.220 36.364 0.00 0.24 32.66 4.68
454 476 3.435105 TGAAGTGCAATTTGTTTCGCT 57.565 38.095 0.00 0.00 0.00 4.93
455 477 4.679197 TGTATGAAGTGCAATTTGTTTCGC 59.321 37.500 0.00 0.00 0.00 4.70
456 478 6.417635 AGTTGTATGAAGTGCAATTTGTTTCG 59.582 34.615 0.00 0.00 34.87 3.46
457 479 7.306749 CCAGTTGTATGAAGTGCAATTTGTTTC 60.307 37.037 0.00 0.00 34.87 2.78
458 480 6.479660 CCAGTTGTATGAAGTGCAATTTGTTT 59.520 34.615 0.00 0.00 34.87 2.83
464 486 3.766545 ACCCAGTTGTATGAAGTGCAAT 58.233 40.909 0.00 0.00 34.87 3.56
478 500 2.571653 TGTAGCAGCTCATTACCCAGTT 59.428 45.455 0.00 0.00 0.00 3.16
479 501 2.093447 GTGTAGCAGCTCATTACCCAGT 60.093 50.000 0.00 0.00 0.00 4.00
480 502 2.093500 TGTGTAGCAGCTCATTACCCAG 60.093 50.000 0.00 0.00 0.00 4.45
481 503 1.905894 TGTGTAGCAGCTCATTACCCA 59.094 47.619 0.00 0.00 0.00 4.51
497 519 6.377146 ACAAAAGTAGTTCACTCCATTTGTGT 59.623 34.615 5.42 0.00 36.04 3.72
500 522 6.136071 CGACAAAAGTAGTTCACTCCATTTG 58.864 40.000 0.33 0.33 36.04 2.32
508 530 7.225523 TCAGTAAACGACAAAAGTAGTTCAC 57.774 36.000 0.00 0.00 0.00 3.18
536 558 7.223582 TCGGTACAGACACGTTTGTAATAAAAA 59.776 33.333 2.46 0.00 35.47 1.94
537 559 6.699204 TCGGTACAGACACGTTTGTAATAAAA 59.301 34.615 2.46 0.00 35.47 1.52
538 560 6.212235 TCGGTACAGACACGTTTGTAATAAA 58.788 36.000 2.46 0.00 35.47 1.40
539 561 5.767269 TCGGTACAGACACGTTTGTAATAA 58.233 37.500 2.46 0.00 35.47 1.40
540 562 5.369685 TCGGTACAGACACGTTTGTAATA 57.630 39.130 2.46 0.00 35.47 0.98
541 563 4.241590 TCGGTACAGACACGTTTGTAAT 57.758 40.909 2.46 0.00 35.47 1.89
542 564 3.706802 TCGGTACAGACACGTTTGTAA 57.293 42.857 2.46 0.00 35.47 2.41
543 565 3.706802 TTCGGTACAGACACGTTTGTA 57.293 42.857 0.00 0.00 35.47 2.41
544 566 2.582728 TTCGGTACAGACACGTTTGT 57.417 45.000 0.00 0.00 39.32 2.83
545 567 2.156891 CCATTCGGTACAGACACGTTTG 59.843 50.000 0.00 0.00 0.00 2.93
546 568 2.224113 ACCATTCGGTACAGACACGTTT 60.224 45.455 0.00 0.00 46.71 3.60
547 569 1.342174 ACCATTCGGTACAGACACGTT 59.658 47.619 0.00 0.00 46.71 3.99
548 570 0.963962 ACCATTCGGTACAGACACGT 59.036 50.000 0.00 0.00 46.71 4.49
549 571 3.806591 ACCATTCGGTACAGACACG 57.193 52.632 0.00 0.00 46.71 4.49
559 581 2.240493 AATTAGCCTCGACCATTCGG 57.760 50.000 0.00 0.00 45.90 4.30
561 583 4.024809 GCAGTAAATTAGCCTCGACCATTC 60.025 45.833 0.00 0.00 0.00 2.67
562 584 3.877508 GCAGTAAATTAGCCTCGACCATT 59.122 43.478 0.00 0.00 0.00 3.16
563 585 3.118408 TGCAGTAAATTAGCCTCGACCAT 60.118 43.478 0.00 0.00 0.00 3.55
564 586 2.235155 TGCAGTAAATTAGCCTCGACCA 59.765 45.455 0.00 0.00 0.00 4.02
565 587 2.901249 TGCAGTAAATTAGCCTCGACC 58.099 47.619 0.00 0.00 0.00 4.79
566 588 6.787085 ATAATGCAGTAAATTAGCCTCGAC 57.213 37.500 0.00 0.00 0.00 4.20
567 589 7.801716 AAATAATGCAGTAAATTAGCCTCGA 57.198 32.000 0.00 0.00 0.00 4.04
568 590 8.856490 AAAAATAATGCAGTAAATTAGCCTCG 57.144 30.769 0.00 0.00 0.00 4.63
592 614 5.788014 AGGGCAAAAGGATAATTAACCCAAA 59.212 36.000 8.09 0.00 37.28 3.28
790 812 4.249020 CAAGCCACGCGTGCAACA 62.249 61.111 33.17 0.00 35.74 3.33
879 902 2.370349 CTCTCTATCACCGTGGTCACT 58.630 52.381 0.00 0.00 0.00 3.41
940 992 2.114616 CTCCACATCTAGCTTCCCACT 58.885 52.381 0.00 0.00 0.00 4.00
967 1019 3.313526 GCTAAACATGATCTCAATGCCGT 59.686 43.478 0.00 0.00 0.00 5.68
1198 1279 3.942829 TCAACCGATTGCTCAAAGATCT 58.057 40.909 0.00 0.00 35.63 2.75
1263 1344 0.251354 GAGTCTTGGCCAGAGCATCA 59.749 55.000 5.11 0.00 42.56 3.07
1306 1387 0.810648 ATGCGCAACCATTCGTCATT 59.189 45.000 17.11 0.00 0.00 2.57
1638 1732 6.377327 TTTTCAACATGGTCACTTCTTCTC 57.623 37.500 0.00 0.00 0.00 2.87
1639 1733 6.773976 TTTTTCAACATGGTCACTTCTTCT 57.226 33.333 0.00 0.00 0.00 2.85
1792 1897 9.921637 ATTTAAATCACGGTGTATTTGAATTGT 57.078 25.926 19.56 8.03 31.17 2.71
1971 2077 3.319198 GGTTCGAGTCCCCAGCCA 61.319 66.667 0.00 0.00 0.00 4.75
2144 2253 3.003763 GGGTTCGAGTCCCCAGCT 61.004 66.667 14.49 0.00 40.88 4.24
2176 2285 1.577328 CGCAGCCCTAAACACCACAG 61.577 60.000 0.00 0.00 0.00 3.66
2276 2385 5.828299 TTCACGGTCTCACATTTTTCTTT 57.172 34.783 0.00 0.00 0.00 2.52
2279 2389 5.108385 ACATTCACGGTCTCACATTTTTC 57.892 39.130 0.00 0.00 0.00 2.29


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.