Multiple sequence alignment - TraesCS3A01G282300

Loading Multiple Alignment...

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 TraesCS3A01G282300 chr3A 100.000 3596 0 0 1 3596 510827475 510831070 0.000000e+00 6641
1 TraesCS3A01G282300 chr3D 92.955 3222 154 28 1 3193 390409988 390413165 0.000000e+00 4625
2 TraesCS3A01G282300 chr3D 87.528 441 25 7 3186 3596 390413546 390413986 1.940000e-132 483
3 TraesCS3A01G282300 chr3B 94.612 1986 84 12 1627 3596 507496828 507498806 0.000000e+00 3053
4 TraesCS3A01G282300 chr3B 97.393 652 14 2 976 1624 507491330 507491981 0.000000e+00 1107
5 TraesCS3A01G282300 chr3B 87.558 217 17 8 1 212 507490497 507490708 3.590000e-60 243
6 TraesCS3A01G282300 chr3B 94.366 142 5 2 818 958 507491202 507491341 7.820000e-52 215
7 TraesCS3A01G282300 chr6D 85.449 323 43 3 379 697 401735614 401735292 2.070000e-87 333
8 TraesCS3A01G282300 chr6A 87.698 252 28 3 449 697 548109252 548109001 1.260000e-74 291


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 TraesCS3A01G282300 chr3A 510827475 510831070 3595 False 6641.000000 6641 100.000000 1 3596 1 chr3A.!!$F1 3595
1 TraesCS3A01G282300 chr3D 390409988 390413986 3998 False 2554.000000 4625 90.241500 1 3596 2 chr3D.!!$F1 3595
2 TraesCS3A01G282300 chr3B 507496828 507498806 1978 False 3053.000000 3053 94.612000 1627 3596 1 chr3B.!!$F1 1969
3 TraesCS3A01G282300 chr3B 507490497 507491981 1484 False 521.666667 1107 93.105667 1 1624 3 chr3B.!!$F2 1623

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
655 662 0.101219 TCATCTCTGATGACCGCACG 59.899 55.0 6.19 0.0 0.0 5.34 F
2139 2547 0.394216 TCCCTTGCAATGATGGACCG 60.394 55.0 0.00 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2254 2664 0.617935 TCCATGCAAGGAACGGATGA 59.382 50.0 8.54 0.0 33.93 2.92 R
3340 4168 0.031994 GCTGGTGTCGGTTTTGCATT 59.968 50.0 0.00 0.0 0.00 3.56 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
23 24 2.483877 TGTCACCTGATTTCAATCGTGC 59.516 45.455 3.81 0.00 38.26 5.34
66 67 3.869832 GAGAAACGTAATCAAGTAGCCCC 59.130 47.826 0.00 0.00 0.00 5.80
158 161 3.126343 CGGTGCTAACCCATCTTGTAAAC 59.874 47.826 0.00 0.00 44.42 2.01
176 179 6.960468 TGTAAACGATGCAACAATTCTTGTA 58.040 32.000 0.00 0.00 44.59 2.41
225 228 5.898630 AAATGTGTTTGTTTACGGAATGC 57.101 34.783 0.00 0.00 0.00 3.56
287 291 2.334946 TGCGAAGGCATCAACCAGC 61.335 57.895 0.00 0.00 46.21 4.85
294 298 0.244721 GGCATCAACCAGCAAACCTC 59.755 55.000 0.00 0.00 0.00 3.85
321 326 6.095021 GGTTCATCTACCCAATTACAAACCTC 59.905 42.308 0.00 0.00 31.84 3.85
363 368 5.531122 TTAGCAATCATACGAGCTACCTT 57.469 39.130 0.00 0.00 39.11 3.50
364 369 6.644248 TTAGCAATCATACGAGCTACCTTA 57.356 37.500 0.00 0.00 39.11 2.69
374 379 4.833390 ACGAGCTACCTTATTTGCTTCTT 58.167 39.130 0.00 0.00 35.76 2.52
422 427 8.311395 AGATTCTATCATACCAGACAAAGTGA 57.689 34.615 0.00 0.00 0.00 3.41
456 461 3.969250 TTGCCGATGCTCCGTTCCC 62.969 63.158 0.00 0.00 38.71 3.97
465 470 3.080300 TGCTCCGTTCCCAATTATGTT 57.920 42.857 0.00 0.00 0.00 2.71
468 473 5.010933 TGCTCCGTTCCCAATTATGTTTTA 58.989 37.500 0.00 0.00 0.00 1.52
485 490 6.441093 TGTTTTATCCTGAGCAAGCATTAG 57.559 37.500 0.00 0.00 0.00 1.73
492 497 3.341823 CTGAGCAAGCATTAGTCACCTT 58.658 45.455 0.00 0.00 0.00 3.50
502 507 4.084849 GCATTAGTCACCTTCATCGAATCG 60.085 45.833 0.00 0.00 0.00 3.34
523 528 6.882610 TCGGATTCTATTTGGATGAAATGG 57.117 37.500 0.00 0.00 35.74 3.16
524 529 5.769662 TCGGATTCTATTTGGATGAAATGGG 59.230 40.000 0.00 0.00 35.74 4.00
568 575 3.205784 ACCCATTTCTCATGCTAGAGC 57.794 47.619 0.00 0.00 42.50 4.09
577 584 0.179702 CATGCTAGAGCCTCAGCCAA 59.820 55.000 11.80 0.00 41.25 4.52
623 630 1.612442 AGAGTAGGAGGCCGCCAAA 60.612 57.895 28.68 12.61 0.00 3.28
632 639 2.915137 GCCGCCAAAAAGACCCCA 60.915 61.111 0.00 0.00 0.00 4.96
637 644 2.100749 CCGCCAAAAAGACCCCATATTC 59.899 50.000 0.00 0.00 0.00 1.75
638 645 2.757868 CGCCAAAAAGACCCCATATTCA 59.242 45.455 0.00 0.00 0.00 2.57
643 650 6.131961 CCAAAAAGACCCCATATTCATCTCT 58.868 40.000 0.00 0.00 0.00 3.10
648 655 5.409712 AGACCCCATATTCATCTCTGATGA 58.590 41.667 6.19 6.19 0.00 2.92
650 657 4.288105 ACCCCATATTCATCTCTGATGACC 59.712 45.833 9.46 0.00 0.00 4.02
655 662 0.101219 TCATCTCTGATGACCGCACG 59.899 55.000 6.19 0.00 0.00 5.34
657 664 2.943680 ATCTCTGATGACCGCACGCG 62.944 60.000 3.53 3.53 39.44 6.01
698 705 1.928503 GCCAAAAACGATGCATCCATG 59.071 47.619 20.87 9.66 0.00 3.66
742 749 1.329599 GCTCGTGGTTTCGTTTTCTGT 59.670 47.619 0.00 0.00 0.00 3.41
743 750 2.223180 GCTCGTGGTTTCGTTTTCTGTT 60.223 45.455 0.00 0.00 0.00 3.16
744 751 3.350912 CTCGTGGTTTCGTTTTCTGTTG 58.649 45.455 0.00 0.00 0.00 3.33
745 752 3.001414 TCGTGGTTTCGTTTTCTGTTGA 58.999 40.909 0.00 0.00 0.00 3.18
746 753 3.623960 TCGTGGTTTCGTTTTCTGTTGAT 59.376 39.130 0.00 0.00 0.00 2.57
747 754 4.809958 TCGTGGTTTCGTTTTCTGTTGATA 59.190 37.500 0.00 0.00 0.00 2.15
748 755 5.467399 TCGTGGTTTCGTTTTCTGTTGATAT 59.533 36.000 0.00 0.00 0.00 1.63
750 757 7.332430 TCGTGGTTTCGTTTTCTGTTGATATAT 59.668 33.333 0.00 0.00 0.00 0.86
751 758 7.960738 CGTGGTTTCGTTTTCTGTTGATATATT 59.039 33.333 0.00 0.00 0.00 1.28
752 759 9.620660 GTGGTTTCGTTTTCTGTTGATATATTT 57.379 29.630 0.00 0.00 0.00 1.40
790 927 5.304778 TCGTTTTCTGTTGATGGAATCTCA 58.695 37.500 0.00 0.00 45.81 3.27
826 1194 0.458889 TACGAGATCAAAACCGGCCG 60.459 55.000 21.04 21.04 0.00 6.13
828 1196 0.810031 CGAGATCAAAACCGGCCGAT 60.810 55.000 30.73 6.36 0.00 4.18
829 1197 1.379527 GAGATCAAAACCGGCCGATT 58.620 50.000 30.73 15.33 0.00 3.34
900 1297 4.020039 TCCTACACGGATCAGCCTTTAAAA 60.020 41.667 0.00 0.00 36.69 1.52
954 1352 2.820059 CGCAGCAATACCTAGGATCA 57.180 50.000 17.98 0.00 0.00 2.92
958 1356 3.181461 GCAGCAATACCTAGGATCACACT 60.181 47.826 17.98 2.39 0.00 3.55
959 1357 4.684485 GCAGCAATACCTAGGATCACACTT 60.684 45.833 17.98 0.00 0.00 3.16
960 1358 4.813161 CAGCAATACCTAGGATCACACTTG 59.187 45.833 17.98 8.67 0.00 3.16
961 1359 4.471386 AGCAATACCTAGGATCACACTTGT 59.529 41.667 17.98 0.00 0.00 3.16
963 1361 5.395768 GCAATACCTAGGATCACACTTGTCT 60.396 44.000 17.98 0.00 0.00 3.41
964 1362 6.183360 GCAATACCTAGGATCACACTTGTCTA 60.183 42.308 17.98 0.00 0.00 2.59
1597 1999 2.355986 AAGTGCGACCGCCTCCATA 61.356 57.895 12.08 0.00 41.09 2.74
1599 2001 1.227556 GTGCGACCGCCTCCATATT 60.228 57.895 12.08 0.00 41.09 1.28
1669 2071 1.413767 CTTCATTGACGACGCTCCCG 61.414 60.000 0.00 0.00 41.14 5.14
1721 2123 4.406648 ACAGCAGATCGGTCATAATCAA 57.593 40.909 0.00 0.00 0.00 2.57
1776 2178 1.737838 ACATCGGCATGAACAACGAT 58.262 45.000 0.00 0.31 45.80 3.73
1914 2321 4.540359 TTGATGCAAATCCAGGAAAAGG 57.460 40.909 0.00 0.00 0.00 3.11
1916 2323 3.511146 TGATGCAAATCCAGGAAAAGGAC 59.489 43.478 0.00 0.00 38.13 3.85
2134 2542 2.669113 CGTGTTGTCCCTTGCAATGATG 60.669 50.000 0.00 0.00 0.00 3.07
2139 2547 0.394216 TCCCTTGCAATGATGGACCG 60.394 55.000 0.00 0.00 0.00 4.79
2140 2548 0.680921 CCCTTGCAATGATGGACCGT 60.681 55.000 0.00 0.00 0.00 4.83
2195 2605 9.880157 ATCCTATTCCTGATTGAAATTTTTGTG 57.120 29.630 0.00 0.00 0.00 3.33
2254 2664 3.300765 GGTCGTGGGACGTCCTGT 61.301 66.667 32.52 0.00 44.36 4.00
2349 2759 2.450476 GACATGGCCAAGTTCCTTCAT 58.550 47.619 15.98 0.00 0.00 2.57
2374 2784 0.390472 GAGCAGGTTCCTCAAGACCG 60.390 60.000 0.00 0.00 40.89 4.79
2553 2963 4.200838 TCATGAGTTCAGCCATAACGAA 57.799 40.909 0.00 0.00 32.00 3.85
2643 3053 6.546034 AGAGTTGGCACACTTAAGTTACATTT 59.454 34.615 5.07 0.00 39.29 2.32
2747 3157 1.020437 GCTGAAGCATAGGGAGTTGC 58.980 55.000 0.00 0.00 41.59 4.17
2835 3248 0.440371 GGCTCGTCGCTTTCTTCAAG 59.560 55.000 0.00 0.00 39.13 3.02
2854 3267 1.912043 AGCTCAACCAACCATAGCTCT 59.088 47.619 0.00 0.00 39.23 4.09
2859 3272 1.221840 CCAACCATAGCTCTGCCGT 59.778 57.895 0.00 0.00 0.00 5.68
2926 3340 7.235935 TGAATCAGAGGAAATTGCTGAAAAT 57.764 32.000 0.00 0.00 41.48 1.82
2936 3350 6.293027 GGAAATTGCTGAAAATTTGACTGTGG 60.293 38.462 0.00 0.00 39.31 4.17
2948 3362 7.538303 AATTTGACTGTGGTTCAAACAAATC 57.462 32.000 0.00 0.00 38.97 2.17
2949 3363 5.651387 TTGACTGTGGTTCAAACAAATCA 57.349 34.783 0.00 0.00 0.00 2.57
2950 3364 5.247507 TGACTGTGGTTCAAACAAATCAG 57.752 39.130 0.00 0.00 0.00 2.90
2951 3365 4.946772 TGACTGTGGTTCAAACAAATCAGA 59.053 37.500 0.00 0.00 0.00 3.27
2952 3366 5.593909 TGACTGTGGTTCAAACAAATCAGAT 59.406 36.000 0.00 0.00 0.00 2.90
2953 3367 6.076981 ACTGTGGTTCAAACAAATCAGATC 57.923 37.500 0.00 0.00 0.00 2.75
2954 3368 5.593909 ACTGTGGTTCAAACAAATCAGATCA 59.406 36.000 0.00 0.00 0.00 2.92
2955 3369 5.830912 TGTGGTTCAAACAAATCAGATCAC 58.169 37.500 0.00 0.00 0.00 3.06
2965 3387 1.428869 ATCAGATCACCTGGGCTACC 58.571 55.000 0.00 0.00 43.12 3.18
3009 3431 3.567375 ACAGGGCCCTCAGATATCATA 57.433 47.619 25.77 0.00 0.00 2.15
3051 3473 8.174733 AGAACTTTCTGAATCATTTGTCACAT 57.825 30.769 0.00 0.00 35.89 3.21
3080 3515 7.418942 GGTGGTGCTTTATTCATTATTTCCCAT 60.419 37.037 0.00 0.00 0.00 4.00
3093 3529 8.849168 TCATTATTTCCCATGTACTATTTGCTG 58.151 33.333 0.00 0.00 0.00 4.41
3110 3546 1.798813 GCTGTGAACTTGCAAGCGTTT 60.799 47.619 26.27 13.28 0.00 3.60
3112 3548 2.525055 TGTGAACTTGCAAGCGTTTTC 58.475 42.857 26.27 20.65 0.00 2.29
3319 4147 1.676967 CCTCCTTCCCTGCACAAGC 60.677 63.158 0.00 0.00 42.57 4.01
3361 4218 1.282875 GCAAAACCGACACCAGCTC 59.717 57.895 0.00 0.00 0.00 4.09
3380 4237 3.491619 GCTCTCTGAATGCATCTAACGGA 60.492 47.826 0.00 2.35 0.00 4.69
3411 4269 1.560860 GATAATCAGCCGCGCTCACC 61.561 60.000 5.56 0.00 36.40 4.02
3506 4364 4.704833 TTGCCTCCTCCGTGCTGC 62.705 66.667 0.00 0.00 0.00 5.25
3514 4372 0.957395 CCTCCGTGCTGCAGAAACAT 60.957 55.000 20.43 0.00 0.00 2.71
3591 4449 1.938625 AATGTTGCTTGCCACACAAC 58.061 45.000 1.62 2.78 43.10 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 7.281991 TCATATATCGCACGATTGAAATCAG 57.718 36.000 11.22 0.00 36.17 2.90
66 67 5.769484 TTTAGTCATCCTAGCTAGTTCGG 57.231 43.478 19.31 5.22 0.00 4.30
144 147 3.066291 TGCATCGTTTACAAGATGGGT 57.934 42.857 6.88 0.00 43.14 4.51
176 179 8.519799 TTGACAAACTTCTCCTTTATTCACTT 57.480 30.769 0.00 0.00 0.00 3.16
206 209 2.688446 TGGCATTCCGTAAACAAACACA 59.312 40.909 0.00 0.00 34.14 3.72
207 210 3.357166 TGGCATTCCGTAAACAAACAC 57.643 42.857 0.00 0.00 34.14 3.32
211 214 3.428725 GCATGATGGCATTCCGTAAACAA 60.429 43.478 0.00 0.00 30.68 2.83
213 216 2.358898 AGCATGATGGCATTCCGTAAAC 59.641 45.455 0.00 0.00 35.83 2.01
218 221 0.596600 GCAAGCATGATGGCATTCCG 60.597 55.000 5.19 0.00 35.83 4.30
219 222 0.750850 AGCAAGCATGATGGCATTCC 59.249 50.000 13.84 0.00 35.83 3.01
225 228 6.018262 CCAAATCAATAAAGCAAGCATGATGG 60.018 38.462 0.00 0.00 0.00 3.51
270 274 1.865788 TTGCTGGTTGATGCCTTCGC 61.866 55.000 0.00 0.00 0.00 4.70
272 276 1.337167 GGTTTGCTGGTTGATGCCTTC 60.337 52.381 0.00 0.00 0.00 3.46
287 291 2.629051 GGTAGATGAACCCGAGGTTTG 58.371 52.381 9.31 0.00 46.95 2.93
335 340 8.770828 GGTAGCTCGTATGATTGCTAAATTTTA 58.229 33.333 7.32 0.00 39.33 1.52
350 355 6.163135 AGAAGCAAATAAGGTAGCTCGTAT 57.837 37.500 0.00 0.00 36.07 3.06
353 358 5.803020 AAAGAAGCAAATAAGGTAGCTCG 57.197 39.130 0.00 0.00 36.07 5.03
364 369 9.709495 TTCTTGCATTGTAATAAAGAAGCAAAT 57.291 25.926 0.00 0.00 39.82 2.32
396 401 9.421399 TCACTTTGTCTGGTATGATAGAATCTA 57.579 33.333 0.00 0.00 0.00 1.98
398 403 8.948631 TTCACTTTGTCTGGTATGATAGAATC 57.051 34.615 0.00 0.00 0.00 2.52
401 406 6.070824 TGCTTCACTTTGTCTGGTATGATAGA 60.071 38.462 0.00 0.00 0.00 1.98
456 461 7.259882 TGCTTGCTCAGGATAAAACATAATTG 58.740 34.615 0.00 0.00 0.00 2.32
465 470 5.586243 GTGACTAATGCTTGCTCAGGATAAA 59.414 40.000 0.00 0.00 30.78 1.40
468 473 3.539604 GTGACTAATGCTTGCTCAGGAT 58.460 45.455 0.00 0.00 34.29 3.24
485 490 2.579207 TCCGATTCGATGAAGGTGAC 57.421 50.000 7.83 0.00 0.00 3.67
492 497 6.096673 TCCAAATAGAATCCGATTCGATGA 57.903 37.500 15.10 7.67 43.92 2.92
502 507 6.015095 GGTCCCATTTCATCCAAATAGAATCC 60.015 42.308 0.00 0.00 32.48 3.01
523 528 6.711277 TGATGTTAGCTAATGATATGGGTCC 58.289 40.000 9.88 0.00 0.00 4.46
524 529 7.119846 GGTTGATGTTAGCTAATGATATGGGTC 59.880 40.741 9.88 0.00 0.00 4.46
568 575 1.179152 TGATGCACATTTGGCTGAGG 58.821 50.000 0.00 0.00 0.00 3.86
577 584 3.025978 CCCCATGTAGTTGATGCACATT 58.974 45.455 0.00 0.00 30.59 2.71
623 630 6.331042 TCATCAGAGATGAATATGGGGTCTTT 59.669 38.462 7.20 0.00 0.00 2.52
632 639 4.564041 GTGCGGTCATCAGAGATGAATAT 58.436 43.478 10.95 0.00 0.00 1.28
637 644 1.485838 GCGTGCGGTCATCAGAGATG 61.486 60.000 0.62 0.62 0.00 2.90
638 645 1.227089 GCGTGCGGTCATCAGAGAT 60.227 57.895 0.00 0.00 0.00 2.75
650 657 4.498520 AGAGGATCCACGCGTGCG 62.499 66.667 33.17 24.75 40.29 5.34
655 662 0.532573 TGAGTTGAGAGGATCCACGC 59.467 55.000 15.82 10.52 33.66 5.34
657 664 3.740764 GCTGATGAGTTGAGAGGATCCAC 60.741 52.174 15.82 8.01 33.66 4.02
760 767 4.618489 CCATCAACAGAAAACGATTTGCTC 59.382 41.667 0.00 0.00 0.00 4.26
900 1297 2.108970 GATCGACTAGGGAGTTTGGGT 58.891 52.381 0.00 0.00 35.45 4.51
930 1328 2.644555 CTAGGTATTGCTGCGCCGGT 62.645 60.000 4.18 0.00 0.00 5.28
974 1373 2.228822 GGTGAATTTGTGCGATCCAAGT 59.771 45.455 0.00 0.00 0.00 3.16
977 1376 0.801872 CGGTGAATTTGTGCGATCCA 59.198 50.000 0.00 0.00 0.00 3.41
1365 1767 2.543067 ATTCCGGGACCTTCTGCTGC 62.543 60.000 0.00 0.00 0.00 5.25
1597 1999 0.970937 TTGAGGCTCCGAGACCGAAT 60.971 55.000 12.86 0.00 38.22 3.34
1599 2001 2.035155 TTGAGGCTCCGAGACCGA 59.965 61.111 12.86 0.00 38.22 4.69
1691 2093 1.478510 CCGATCTGCTGTTCAGGTAGT 59.521 52.381 1.97 0.00 43.06 2.73
1707 2109 3.245797 CGCGATCTTGATTATGACCGAT 58.754 45.455 0.00 0.00 0.00 4.18
1715 2117 1.924335 GCGTGCGCGATCTTGATTA 59.076 52.632 26.19 0.00 41.33 1.75
1845 2249 2.478539 GGAAGCGATTGCAAGGTCAATC 60.479 50.000 7.90 6.45 45.35 2.67
2114 2522 2.353011 CCATCATTGCAAGGGACAACAC 60.353 50.000 11.73 0.00 0.00 3.32
2134 2542 2.258286 GGCAAACATGCACGGTCC 59.742 61.111 2.97 0.00 36.33 4.46
2139 2547 2.605097 GCAAATTTGGGCAAACATGCAC 60.605 45.455 19.47 0.00 41.23 4.57
2140 2548 1.607628 GCAAATTTGGGCAAACATGCA 59.392 42.857 19.47 0.00 41.23 3.96
2158 2568 2.785269 AGGAATAGGATCCACCAATGCA 59.215 45.455 15.82 0.00 42.27 3.96
2195 2605 3.796667 GACCAAGAGTCCGACTGTC 57.203 57.895 5.57 3.44 39.84 3.51
2254 2664 0.617935 TCCATGCAAGGAACGGATGA 59.382 50.000 8.54 0.00 33.93 2.92
2349 2759 2.530151 AGGAACCTGCTCCTGCCA 60.530 61.111 0.00 0.00 44.56 4.92
2352 2762 0.979665 TCTTGAGGAACCTGCTCCTG 59.020 55.000 0.00 0.00 46.33 3.86
2599 3009 5.454062 ACTCTATGCAGATAACAGACTCCT 58.546 41.667 0.00 0.00 0.00 3.69
2643 3053 9.005777 AGTCGCTATAAGAAAACCACAATAAAA 57.994 29.630 0.00 0.00 0.00 1.52
2835 3248 2.012673 CAGAGCTATGGTTGGTTGAGC 58.987 52.381 0.00 0.00 0.00 4.26
2843 3256 0.176680 CAGACGGCAGAGCTATGGTT 59.823 55.000 10.92 0.00 0.00 3.67
2895 3308 5.733655 GCAATTTCCTCTGATTCATGCTCAG 60.734 44.000 15.30 15.30 41.23 3.35
2926 3340 6.030548 TGATTTGTTTGAACCACAGTCAAA 57.969 33.333 0.00 0.00 37.33 2.69
2936 3350 5.464168 CCAGGTGATCTGATTTGTTTGAAC 58.536 41.667 0.00 0.00 46.18 3.18
2948 3362 1.043116 TCGGTAGCCCAGGTGATCTG 61.043 60.000 0.00 0.00 43.00 2.90
2949 3363 0.325296 TTCGGTAGCCCAGGTGATCT 60.325 55.000 0.00 0.00 0.00 2.75
2950 3364 0.539986 TTTCGGTAGCCCAGGTGATC 59.460 55.000 0.00 0.00 0.00 2.92
2951 3365 0.988832 TTTTCGGTAGCCCAGGTGAT 59.011 50.000 0.00 0.00 0.00 3.06
2952 3366 0.988832 ATTTTCGGTAGCCCAGGTGA 59.011 50.000 0.00 0.00 0.00 4.02
2953 3367 1.065418 AGATTTTCGGTAGCCCAGGTG 60.065 52.381 0.00 0.00 0.00 4.00
2954 3368 1.065418 CAGATTTTCGGTAGCCCAGGT 60.065 52.381 0.00 0.00 0.00 4.00
2955 3369 1.668419 CAGATTTTCGGTAGCCCAGG 58.332 55.000 0.00 0.00 0.00 4.45
2989 3411 2.429933 ATGATATCTGAGGGCCCTGT 57.570 50.000 34.59 15.05 0.00 4.00
3009 3431 8.371699 AGAAAGTTCTACTTCATGTCTAAGCTT 58.628 33.333 3.48 3.48 37.47 3.74
3051 3473 2.799126 ATGAATAAAGCACCACCGGA 57.201 45.000 9.46 0.00 0.00 5.14
3080 3515 4.819088 TGCAAGTTCACAGCAAATAGTACA 59.181 37.500 0.00 0.00 34.97 2.90
3093 3529 2.797491 AGAAAACGCTTGCAAGTTCAC 58.203 42.857 26.55 9.80 0.00 3.18
3110 3546 7.114095 AGTTTGTACTGTACCCTGAAAAAGAA 58.886 34.615 14.91 0.00 31.99 2.52
3112 3548 6.937436 AGTTTGTACTGTACCCTGAAAAAG 57.063 37.500 14.91 0.00 31.99 2.27
3340 4168 0.031994 GCTGGTGTCGGTTTTGCATT 59.968 50.000 0.00 0.00 0.00 3.56
3342 4170 1.444119 GAGCTGGTGTCGGTTTTGCA 61.444 55.000 0.00 0.00 0.00 4.08
3361 4218 4.686972 TCTTCCGTTAGATGCATTCAGAG 58.313 43.478 0.00 0.00 0.00 3.35
3380 4237 4.339247 CGGCTGATTATCCACCAATTTCTT 59.661 41.667 0.00 0.00 0.00 2.52
3411 4269 0.037326 TCAAGCGGACCAGTTAGCAG 60.037 55.000 0.00 0.00 0.00 4.24
3506 4364 7.751793 TGATCGATGACATTTTTGATGTTTCTG 59.248 33.333 0.54 0.00 31.52 3.02
3514 4372 7.102993 TCTTAGGTGATCGATGACATTTTTGA 58.897 34.615 16.93 4.36 0.00 2.69


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

AutoCloner maintained by Alex Coulton.