Multiple sequence alignment - TraesCS5B01G052000

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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 TraesCS5B01G052000 chr5B 100.000 3545 0 0 1 3545 56978245 56981789 0.000000e+00 6547
1 TraesCS5B01G052000 chr5B 93.085 911 52 3 905 1815 56915527 56916426 0.000000e+00 1323
2 TraesCS5B01G052000 chr5B 92.340 718 54 1 1383 2099 460971341 460970624 0.000000e+00 1020
3 TraesCS5B01G052000 chr5B 86.686 676 22 21 267 916 56912404 56913037 0.000000e+00 688
4 TraesCS5B01G052000 chr5B 84.574 551 34 23 60 592 56695812 56696329 1.900000e-137 499
5 TraesCS5B01G052000 chr5B 85.959 292 14 4 628 895 56696335 56696623 1.610000e-73 287
6 TraesCS5B01G052000 chr5B 76.484 455 77 18 1014 1465 557354520 557354947 1.660000e-53 220
7 TraesCS5B01G052000 chr5B 95.604 91 4 0 2176 2266 460970541 460970451 2.850000e-31 147
8 TraesCS5B01G052000 chr5B 89.831 118 5 3 157 274 56906198 56906308 1.030000e-30 145
9 TraesCS5B01G052000 chr5D 91.562 2619 120 48 636 3205 54097284 54099850 0.000000e+00 3518
10 TraesCS5B01G052000 chr5D 89.610 616 25 9 1 593 54096404 54097003 0.000000e+00 747
11 TraesCS5B01G052000 chr5D 93.243 370 25 0 1730 2099 321998712 321999081 2.410000e-151 545
12 TraesCS5B01G052000 chr5D 80.952 294 47 6 1175 1465 455614355 455614642 1.280000e-54 224
13 TraesCS5B01G052000 chr5A 89.097 2137 126 45 17 2099 42258384 42260467 0.000000e+00 2556
14 TraesCS5B01G052000 chr5A 87.949 1419 93 38 2176 3545 42260544 42261933 0.000000e+00 1602
15 TraesCS5B01G052000 chr7A 91.480 716 61 0 1383 2098 17262275 17262990 0.000000e+00 985
16 TraesCS5B01G052000 chr3B 92.504 667 49 1 1432 2098 813200986 813200321 0.000000e+00 953
17 TraesCS5B01G052000 chr2B 92.937 538 37 1 1384 1921 723045637 723046173 0.000000e+00 782
18 TraesCS5B01G052000 chr2B 91.682 541 43 2 1383 1921 785072155 785072695 0.000000e+00 749
19 TraesCS5B01G052000 chr7B 92.764 539 39 0 1383 1921 17357310 17356772 0.000000e+00 780
20 TraesCS5B01G052000 chrUn 80.952 294 47 6 1175 1465 63675115 63675402 1.280000e-54 224


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 TraesCS5B01G052000 chr5B 56978245 56981789 3544 False 6547.0 6547 100.0000 1 3545 1 chr5B.!!$F2 3544
1 TraesCS5B01G052000 chr5B 56912404 56916426 4022 False 1005.5 1323 89.8855 267 1815 2 chr5B.!!$F5 1548
2 TraesCS5B01G052000 chr5B 460970451 460971341 890 True 583.5 1020 93.9720 1383 2266 2 chr5B.!!$R1 883
3 TraesCS5B01G052000 chr5B 56695812 56696623 811 False 393.0 499 85.2665 60 895 2 chr5B.!!$F4 835
4 TraesCS5B01G052000 chr5D 54096404 54099850 3446 False 2132.5 3518 90.5860 1 3205 2 chr5D.!!$F3 3204
5 TraesCS5B01G052000 chr5A 42258384 42261933 3549 False 2079.0 2556 88.5230 17 3545 2 chr5A.!!$F1 3528
6 TraesCS5B01G052000 chr7A 17262275 17262990 715 False 985.0 985 91.4800 1383 2098 1 chr7A.!!$F1 715
7 TraesCS5B01G052000 chr3B 813200321 813200986 665 True 953.0 953 92.5040 1432 2098 1 chr3B.!!$R1 666
8 TraesCS5B01G052000 chr2B 723045637 723046173 536 False 782.0 782 92.9370 1384 1921 1 chr2B.!!$F1 537
9 TraesCS5B01G052000 chr2B 785072155 785072695 540 False 749.0 749 91.6820 1383 1921 1 chr2B.!!$F2 538
10 TraesCS5B01G052000 chr7B 17356772 17357310 538 True 780.0 780 92.7640 1383 1921 1 chr7B.!!$R1 538

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
984 3826 1.146263 CCTCCACCATTACTCCCGC 59.854 63.158 0.0 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2759 5666 0.031585 CTCGACAAAGTGGACGGACA 59.968 55.0 0.0 0.0 0.0 4.02 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
57 62 2.672098 AGTCCGGATGTAGATGCTCTT 58.328 47.619 7.81 0.00 0.00 2.85
257 291 4.464947 AGAGGATGTACGATGATGAGTGA 58.535 43.478 0.00 0.00 0.00 3.41
620 694 4.408821 GCTCCATGCCCCGACACA 62.409 66.667 0.00 0.00 35.15 3.72
802 1136 4.789807 TCAGTAGGAATACGCCTTCTACT 58.210 43.478 0.00 0.00 39.50 2.57
806 1141 4.820894 AGGAATACGCCTTCTACTTTGT 57.179 40.909 0.00 0.00 33.46 2.83
983 3825 1.696097 CCCCTCCACCATTACTCCCG 61.696 65.000 0.00 0.00 0.00 5.14
984 3826 1.146263 CCTCCACCATTACTCCCGC 59.854 63.158 0.00 0.00 0.00 6.13
991 3833 2.366972 ATTACTCCCGCCCCTGCT 60.367 61.111 0.00 0.00 34.43 4.24
1365 4213 1.291184 CGGCGATGCTGTTTGTGAGA 61.291 55.000 0.00 0.00 0.00 3.27
1524 4372 0.110688 CGTCGGACAAGTCGTCGTTA 60.111 55.000 9.10 0.00 46.42 3.18
1539 4387 1.061570 GTTATCGGCGTCGTCGTCT 59.938 57.895 19.81 10.45 39.73 4.18
1545 4393 2.127496 GCGTCGTCGTCTTCGTCA 60.127 61.111 3.66 0.00 39.49 4.35
1890 4741 4.621832 GACCTCCTCGTCGTCTCT 57.378 61.111 0.00 0.00 0.00 3.10
2148 5004 2.837591 TCTCATCTCCCCATCAAAACGA 59.162 45.455 0.00 0.00 0.00 3.85
2166 5025 1.659098 CGAATTCTAACTGTGGTCGCC 59.341 52.381 3.52 0.00 0.00 5.54
2625 5498 0.179032 TGTACATTGCCCGCCTATGG 60.179 55.000 0.00 0.00 0.00 2.74
2671 5558 8.420374 TTTACGTTTATTTATCCTCTGCTCTG 57.580 34.615 0.00 0.00 0.00 3.35
2683 5583 0.456482 CTGCTCTGCTCTGTCGAGTG 60.456 60.000 0.00 0.00 39.53 3.51
2735 5635 5.988561 CCCTATGAAGTCAAGCTGATTCTAC 59.011 44.000 0.00 0.00 0.00 2.59
2752 5659 7.652727 TGATTCTACTATAGCTCACATCACAC 58.347 38.462 0.00 0.00 0.00 3.82
2758 5665 1.051008 AGCTCACATCACACCTGTCA 58.949 50.000 0.00 0.00 0.00 3.58
2759 5666 1.627329 AGCTCACATCACACCTGTCAT 59.373 47.619 0.00 0.00 0.00 3.06
2760 5667 1.736126 GCTCACATCACACCTGTCATG 59.264 52.381 0.00 0.00 0.00 3.07
2761 5668 2.873245 GCTCACATCACACCTGTCATGT 60.873 50.000 0.00 0.00 0.00 3.21
2762 5669 2.998670 CTCACATCACACCTGTCATGTC 59.001 50.000 0.00 0.00 0.00 3.06
2779 5686 1.006571 TCCGTCCACTTTGTCGAGC 60.007 57.895 0.00 0.00 0.00 5.03
2821 5733 1.983605 CGCGAAATACTATACTGCCCG 59.016 52.381 0.00 0.00 0.00 6.13
2879 5791 4.761739 TCAATGTGTAAAGCAGAAAGGAGG 59.238 41.667 0.00 0.00 0.00 4.30
2880 5792 4.640771 ATGTGTAAAGCAGAAAGGAGGA 57.359 40.909 0.00 0.00 0.00 3.71
2882 5794 3.646162 TGTGTAAAGCAGAAAGGAGGAGA 59.354 43.478 0.00 0.00 0.00 3.71
2883 5795 4.287067 TGTGTAAAGCAGAAAGGAGGAGAT 59.713 41.667 0.00 0.00 0.00 2.75
2884 5796 4.633565 GTGTAAAGCAGAAAGGAGGAGATG 59.366 45.833 0.00 0.00 0.00 2.90
2885 5797 2.416680 AAGCAGAAAGGAGGAGATGC 57.583 50.000 0.00 0.00 0.00 3.91
2887 5799 0.254178 GCAGAAAGGAGGAGATGCCA 59.746 55.000 0.00 0.00 40.02 4.92
2888 5800 1.133853 GCAGAAAGGAGGAGATGCCAT 60.134 52.381 0.00 0.00 40.02 4.40
2889 5801 2.848691 CAGAAAGGAGGAGATGCCATC 58.151 52.381 0.00 0.00 40.02 3.51
2890 5802 1.773653 AGAAAGGAGGAGATGCCATCC 59.226 52.381 0.00 0.00 40.02 3.51
2929 5841 1.302192 CTTCCCGTTTTCCCTCGCA 60.302 57.895 0.00 0.00 0.00 5.10
2938 5850 2.748058 TTTCCCTCGCAGGCAGGTTC 62.748 60.000 8.32 0.00 32.73 3.62
2946 5858 1.000385 CGCAGGCAGGTTCAATTGAAA 60.000 47.619 22.07 4.47 35.58 2.69
2984 5896 1.133668 AGCCCTAATTGCCCATCTGTC 60.134 52.381 0.00 0.00 0.00 3.51
3011 5923 4.458951 GCTGACAGACGGCTAATAAATG 57.541 45.455 6.65 0.00 46.39 2.32
3111 6026 1.003580 TGTTGCTGAAGATGGTCTCCC 59.996 52.381 0.00 0.00 0.00 4.30
3180 6096 1.648681 GCAATTTCAACGCGGTTCATC 59.351 47.619 12.47 0.00 0.00 2.92
3193 6109 1.193874 GGTTCATCGAAACGGACACAC 59.806 52.381 0.00 0.00 0.00 3.82
3194 6110 1.193874 GTTCATCGAAACGGACACACC 59.806 52.381 0.00 0.00 0.00 4.16
3202 6118 4.083749 TCGAAACGGACACACCAAATATTG 60.084 41.667 0.00 0.00 38.90 1.90
3220 6136 1.155424 TGGTGGACACGTTCGAAAGC 61.155 55.000 11.16 0.00 0.00 3.51
3228 6144 1.000884 ACGTTCGAAAGCGTTTGTCA 58.999 45.000 11.16 0.00 38.21 3.58
3231 6147 3.033185 CGTTCGAAAGCGTTTGTCAATT 58.967 40.909 0.00 0.00 38.98 2.32
3235 6151 3.245754 TCGAAAGCGTTTGTCAATTACGT 59.754 39.130 10.58 0.00 37.58 3.57
3261 6177 0.250338 GGGCGGCCATCTAAACCTAG 60.250 60.000 25.33 0.00 0.00 3.02
3285 6201 5.351458 ACACCAAAATGTCTGCTTCTTTTC 58.649 37.500 0.00 0.00 0.00 2.29
3286 6202 4.746611 CACCAAAATGTCTGCTTCTTTTCC 59.253 41.667 0.00 0.00 0.00 3.13
3288 6204 5.104982 ACCAAAATGTCTGCTTCTTTTCCAA 60.105 36.000 0.00 0.00 0.00 3.53
3289 6205 5.816777 CCAAAATGTCTGCTTCTTTTCCAAA 59.183 36.000 0.00 0.00 0.00 3.28
3290 6206 6.315891 CCAAAATGTCTGCTTCTTTTCCAAAA 59.684 34.615 0.00 0.00 0.00 2.44
3291 6207 7.012610 CCAAAATGTCTGCTTCTTTTCCAAAAT 59.987 33.333 0.00 0.00 0.00 1.82
3292 6208 9.044150 CAAAATGTCTGCTTCTTTTCCAAAATA 57.956 29.630 0.00 0.00 0.00 1.40
3293 6209 9.612066 AAAATGTCTGCTTCTTTTCCAAAATAA 57.388 25.926 0.00 0.00 0.00 1.40
3294 6210 9.783081 AAATGTCTGCTTCTTTTCCAAAATAAT 57.217 25.926 0.00 0.00 0.00 1.28
3295 6211 9.783081 AATGTCTGCTTCTTTTCCAAAATAATT 57.217 25.926 0.00 0.00 0.00 1.40
3334 6250 1.742831 TCAAATGTCCGCTATGCAACC 59.257 47.619 0.00 0.00 0.00 3.77
3335 6251 1.745087 CAAATGTCCGCTATGCAACCT 59.255 47.619 0.00 0.00 0.00 3.50
3338 6254 0.391130 TGTCCGCTATGCAACCTCAC 60.391 55.000 0.00 0.00 0.00 3.51
3347 6263 4.397417 GCTATGCAACCTCACTTTGAATCT 59.603 41.667 0.00 0.00 0.00 2.40
3351 6267 3.365364 GCAACCTCACTTTGAATCTTCGG 60.365 47.826 0.00 0.00 0.00 4.30
3355 6271 3.681897 CCTCACTTTGAATCTTCGGTCAG 59.318 47.826 0.00 0.00 0.00 3.51
3356 6272 4.310769 CTCACTTTGAATCTTCGGTCAGT 58.689 43.478 0.00 0.00 0.00 3.41
3357 6273 5.462530 TCACTTTGAATCTTCGGTCAGTA 57.537 39.130 0.00 0.00 0.00 2.74
3358 6274 5.470368 TCACTTTGAATCTTCGGTCAGTAG 58.530 41.667 0.00 0.00 0.00 2.57
3359 6275 5.243060 TCACTTTGAATCTTCGGTCAGTAGA 59.757 40.000 0.00 0.00 0.00 2.59
3360 6276 5.926542 CACTTTGAATCTTCGGTCAGTAGAA 59.073 40.000 0.00 0.00 30.00 2.10
3361 6277 5.927115 ACTTTGAATCTTCGGTCAGTAGAAC 59.073 40.000 0.00 0.00 30.00 3.01
3362 6278 4.451629 TGAATCTTCGGTCAGTAGAACC 57.548 45.455 0.00 0.00 30.00 3.62
3363 6279 4.087182 TGAATCTTCGGTCAGTAGAACCT 58.913 43.478 0.00 0.00 30.00 3.50
3364 6280 5.258841 TGAATCTTCGGTCAGTAGAACCTA 58.741 41.667 0.00 0.00 30.00 3.08
3365 6281 5.713389 TGAATCTTCGGTCAGTAGAACCTAA 59.287 40.000 0.00 0.00 30.00 2.69
3367 6283 6.793505 ATCTTCGGTCAGTAGAACCTAAAT 57.206 37.500 0.00 0.00 30.00 1.40
3369 6285 6.395629 TCTTCGGTCAGTAGAACCTAAATTG 58.604 40.000 0.00 0.00 0.00 2.32
3396 6312 8.722480 ACATTTAAACCCTAGTATAAACGTCC 57.278 34.615 0.00 0.00 0.00 4.79
3398 6314 4.391405 AAACCCTAGTATAAACGTCCGG 57.609 45.455 0.00 0.00 0.00 5.14
3399 6315 3.018423 ACCCTAGTATAAACGTCCGGT 57.982 47.619 0.00 0.00 0.00 5.28
3402 6318 3.131046 CCCTAGTATAAACGTCCGGTGTT 59.869 47.826 0.00 5.05 0.00 3.32
3406 6322 4.630111 AGTATAAACGTCCGGTGTTCAAA 58.370 39.130 13.75 5.31 0.00 2.69
3407 6323 5.240121 AGTATAAACGTCCGGTGTTCAAAT 58.760 37.500 13.75 10.70 0.00 2.32
3408 6324 5.702209 AGTATAAACGTCCGGTGTTCAAATT 59.298 36.000 13.75 2.95 0.00 1.82
3409 6325 3.343380 AAACGTCCGGTGTTCAAATTC 57.657 42.857 13.75 0.00 0.00 2.17
3423 6348 9.405587 GGTGTTCAAATTCTTAAAATTCATCGA 57.594 29.630 0.00 0.00 0.00 3.59
3444 6369 7.439157 TCGATTTCAAATTCAATCACACTCT 57.561 32.000 6.04 0.00 30.84 3.24
3446 6371 8.352201 TCGATTTCAAATTCAATCACACTCTTT 58.648 29.630 6.04 0.00 30.84 2.52
3464 6389 3.989167 TCTTTGAAAGCGGCATTCATTTG 59.011 39.130 19.75 13.05 36.72 2.32
3475 6400 5.036737 CGGCATTCATTTGAAACTATCACC 58.963 41.667 0.00 0.00 37.92 4.02
3481 6406 4.224147 TCATTTGAAACTATCACCCCTCGA 59.776 41.667 0.00 0.00 37.92 4.04
3489 6414 0.250513 ATCACCCCTCGAGCTTGAAC 59.749 55.000 6.99 0.00 0.00 3.18
3525 6450 4.216257 ACATGTTGTTCACCTAGATGTTGC 59.784 41.667 0.00 0.00 0.00 4.17
3530 6455 1.078497 CACCTAGATGTTGCGCCCA 60.078 57.895 4.18 1.13 0.00 5.36
3536 6461 1.226773 GATGTTGCGCCCATTGAGC 60.227 57.895 4.18 0.00 40.63 4.26
3541 6466 1.865788 TTGCGCCCATTGAGCTTCAC 61.866 55.000 4.18 0.00 40.88 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 62 3.181483 GGCGATCGAGGTAAAAAGGACTA 60.181 47.826 21.57 0.00 0.00 2.59
257 291 1.144708 TGGTGACCCAATGTGATGTGT 59.855 47.619 0.00 0.00 37.98 3.72
318 359 2.801996 TTCGTACTGCCGCGTTCG 60.802 61.111 4.92 0.00 0.00 3.95
381 435 0.602562 CACGAACGGTACCACCCTAA 59.397 55.000 13.54 0.00 33.75 2.69
739 1073 0.835941 CATCTGGACTTCTGGAGGGG 59.164 60.000 0.00 0.00 0.00 4.79
802 1136 2.417239 CGAGCTAAACCCGCAATACAAA 59.583 45.455 0.00 0.00 0.00 2.83
806 1141 2.166050 TGTACGAGCTAAACCCGCAATA 59.834 45.455 0.00 0.00 0.00 1.90
838 1179 3.806521 CGACGCTACAGTAGTACCAGTAT 59.193 47.826 9.42 0.00 0.00 2.12
844 1185 3.186119 AGAGACGACGCTACAGTAGTAC 58.814 50.000 9.42 0.00 30.30 2.73
984 3826 3.095163 ATGGGAGCAGAGCAGGGG 61.095 66.667 0.00 0.00 0.00 4.79
991 3833 3.473647 CGAGGCCATGGGAGCAGA 61.474 66.667 15.13 0.00 0.00 4.26
1365 4213 4.643387 GGCCTGCCGTCAACACCT 62.643 66.667 0.00 0.00 0.00 4.00
1524 4372 2.099831 GAAGACGACGACGCCGAT 59.900 61.111 11.37 0.00 43.96 4.18
1533 4381 0.862283 GGAGCGATGACGAAGACGAC 60.862 60.000 0.00 0.00 42.66 4.34
1635 4484 1.371558 GGCGCGGGAGAATAGGAAT 59.628 57.895 8.83 0.00 0.00 3.01
1890 4741 2.203451 GAGGACCCGGAGCCGATA 60.203 66.667 11.05 0.00 42.83 2.92
1989 4840 2.501610 GTGAGGCGGACCATCTCC 59.498 66.667 8.17 0.00 39.06 3.71
2148 5004 1.674817 CCGGCGACCACAGTTAGAATT 60.675 52.381 9.30 0.00 0.00 2.17
2166 5025 1.071471 AGCCTGGAACAACTCACCG 59.929 57.895 0.00 0.00 38.70 4.94
2269 5138 3.382832 CTCCGCCTCCACGTTCCT 61.383 66.667 0.00 0.00 0.00 3.36
2445 5314 4.436998 GACGTGGTGGCCGAGGAG 62.437 72.222 0.00 0.00 0.00 3.69
2625 5498 7.268447 CGTAAAAACATTTCGATTCCTCTGTTC 59.732 37.037 0.00 0.00 0.00 3.18
2735 5635 4.098501 TGACAGGTGTGATGTGAGCTATAG 59.901 45.833 0.00 0.00 0.00 1.31
2752 5659 0.321671 AAGTGGACGGACATGACAGG 59.678 55.000 0.00 0.00 0.00 4.00
2758 5665 0.677288 TCGACAAAGTGGACGGACAT 59.323 50.000 0.00 0.00 0.00 3.06
2759 5666 0.031585 CTCGACAAAGTGGACGGACA 59.968 55.000 0.00 0.00 0.00 4.02
2760 5667 1.282930 GCTCGACAAAGTGGACGGAC 61.283 60.000 0.00 0.00 0.00 4.79
2761 5668 1.006571 GCTCGACAAAGTGGACGGA 60.007 57.895 0.00 0.00 0.00 4.69
2762 5669 2.372690 CGCTCGACAAAGTGGACGG 61.373 63.158 0.00 0.00 0.00 4.79
2779 5686 3.730715 GGTGAACTGCTTTTTGAATGTCG 59.269 43.478 0.00 0.00 0.00 4.35
2821 5733 4.203764 CGCTGCTCATTCGATTTCAATTTC 59.796 41.667 0.00 0.00 0.00 2.17
2879 5791 3.733077 CGCTTTTCAAAGGATGGCATCTC 60.733 47.826 25.48 15.98 36.53 2.75
2880 5792 2.165030 CGCTTTTCAAAGGATGGCATCT 59.835 45.455 25.48 10.14 36.53 2.90
2882 5794 1.205417 CCGCTTTTCAAAGGATGGCAT 59.795 47.619 0.00 0.00 36.53 4.40
2883 5795 0.602562 CCGCTTTTCAAAGGATGGCA 59.397 50.000 0.00 0.00 36.53 4.92
2884 5796 0.603065 ACCGCTTTTCAAAGGATGGC 59.397 50.000 1.55 0.00 36.53 4.40
2885 5797 3.385193 AAACCGCTTTTCAAAGGATGG 57.615 42.857 1.55 0.00 36.53 3.51
2887 5799 4.937201 AGAAAACCGCTTTTCAAAGGAT 57.063 36.364 16.19 0.00 45.43 3.24
2888 5800 4.729227 AAGAAAACCGCTTTTCAAAGGA 57.271 36.364 16.19 0.00 45.43 3.36
2889 5801 5.109210 AGAAAGAAAACCGCTTTTCAAAGG 58.891 37.500 16.19 0.00 45.43 3.11
2890 5802 6.237835 GGAAGAAAGAAAACCGCTTTTCAAAG 60.238 38.462 16.19 0.00 45.43 2.77
2892 5804 5.106442 GGAAGAAAGAAAACCGCTTTTCAA 58.894 37.500 16.19 0.00 45.43 2.69
2893 5805 4.440940 GGGAAGAAAGAAAACCGCTTTTCA 60.441 41.667 16.19 0.00 45.43 2.69
2894 5806 4.049186 GGGAAGAAAGAAAACCGCTTTTC 58.951 43.478 7.70 7.70 43.97 2.29
2929 5841 1.613437 CGGTTTCAATTGAACCTGCCT 59.387 47.619 20.35 0.00 33.13 4.75
2938 5850 4.433102 CCGCGTCGGTTTCAATTG 57.567 55.556 4.92 0.00 42.73 2.32
2984 5896 1.812922 GCCGTCTGTCAGCATCAGG 60.813 63.158 0.00 0.00 34.15 3.86
3011 5923 5.943706 TCGATCATCAAGCTACTAGTACC 57.056 43.478 0.00 0.00 0.00 3.34
3047 5962 2.627863 TGCATTTGCCGTGTGATTAC 57.372 45.000 0.00 0.00 41.18 1.89
3111 6026 5.948992 ATCAGGAAACGAAAAGAAGAAGG 57.051 39.130 0.00 0.00 0.00 3.46
3153 6069 1.068885 CGCGTTGAAATTGCCCTTACA 60.069 47.619 0.00 0.00 0.00 2.41
3180 6096 4.155449 CAATATTTGGTGTGTCCGTTTCG 58.845 43.478 0.00 0.00 39.52 3.46
3194 6110 3.433957 TCGAACGTGTCCACCAATATTTG 59.566 43.478 0.00 0.00 0.00 2.32
3202 6118 1.568025 GCTTTCGAACGTGTCCACC 59.432 57.895 0.00 0.00 0.00 4.61
3205 6121 0.302589 AAACGCTTTCGAACGTGTCC 59.697 50.000 19.46 0.00 42.68 4.02
3212 6128 4.205334 CGTAATTGACAAACGCTTTCGAA 58.795 39.130 0.00 0.00 39.41 3.71
3220 6136 5.461078 CCCTCCTATACGTAATTGACAAACG 59.539 44.000 10.16 10.16 42.17 3.60
3228 6144 1.274447 GCCGCCCTCCTATACGTAATT 59.726 52.381 0.00 0.00 0.00 1.40
3231 6147 1.604593 GGCCGCCCTCCTATACGTA 60.605 63.158 0.00 0.00 0.00 3.57
3235 6151 0.708209 TAGATGGCCGCCCTCCTATA 59.292 55.000 7.03 0.00 0.00 1.31
3261 6177 4.574599 AAGAAGCAGACATTTTGGTGTC 57.425 40.909 0.00 0.00 46.90 3.67
3299 6215 9.997482 GCGGACATTTGATTTAGTTTTATTCTA 57.003 29.630 0.00 0.00 0.00 2.10
3313 6229 2.358898 GGTTGCATAGCGGACATTTGAT 59.641 45.455 0.00 0.00 0.00 2.57
3314 6230 1.742831 GGTTGCATAGCGGACATTTGA 59.257 47.619 0.00 0.00 0.00 2.69
3323 6239 2.076100 TCAAAGTGAGGTTGCATAGCG 58.924 47.619 0.00 0.00 0.00 4.26
3334 6250 4.310769 ACTGACCGAAGATTCAAAGTGAG 58.689 43.478 0.00 0.00 0.00 3.51
3335 6251 4.336889 ACTGACCGAAGATTCAAAGTGA 57.663 40.909 0.00 0.00 0.00 3.41
3338 6254 5.348997 GGTTCTACTGACCGAAGATTCAAAG 59.651 44.000 0.00 0.00 0.00 2.77
3347 6263 6.105397 ACAATTTAGGTTCTACTGACCGAA 57.895 37.500 0.00 0.00 0.00 4.30
3357 6273 9.596308 AGGGTTTAAATGTACAATTTAGGTTCT 57.404 29.630 0.00 1.53 0.00 3.01
3377 6293 3.769300 ACCGGACGTTTATACTAGGGTTT 59.231 43.478 9.46 0.00 0.00 3.27
3380 6296 2.689983 ACACCGGACGTTTATACTAGGG 59.310 50.000 9.46 0.00 0.00 3.53
3385 6301 4.988708 TTTGAACACCGGACGTTTATAC 57.011 40.909 9.46 0.00 0.00 1.47
3388 6304 4.128643 AGAATTTGAACACCGGACGTTTA 58.871 39.130 9.46 5.06 0.00 2.01
3391 6307 2.249844 AGAATTTGAACACCGGACGT 57.750 45.000 9.46 0.78 0.00 4.34
3396 6312 8.365210 CGATGAATTTTAAGAATTTGAACACCG 58.635 33.333 0.00 0.00 0.00 4.94
3423 6348 9.820725 TTCAAAGAGTGTGATTGAATTTGAAAT 57.179 25.926 7.51 0.00 40.33 2.17
3426 6351 7.436080 GCTTTCAAAGAGTGTGATTGAATTTGA 59.564 33.333 0.00 0.00 41.26 2.69
3433 6358 3.558505 CCGCTTTCAAAGAGTGTGATTG 58.441 45.455 0.00 0.00 0.00 2.67
3439 6364 2.030893 TGAATGCCGCTTTCAAAGAGTG 60.031 45.455 16.94 0.00 30.44 3.51
3444 6369 3.987547 TCAAATGAATGCCGCTTTCAAA 58.012 36.364 21.53 8.50 36.72 2.69
3446 6371 3.657015 TTCAAATGAATGCCGCTTTCA 57.343 38.095 20.36 20.36 37.49 2.69
3464 6389 1.757699 AGCTCGAGGGGTGATAGTTTC 59.242 52.381 15.58 0.00 0.00 2.78
3475 6400 2.289072 TGAAGAAGTTCAAGCTCGAGGG 60.289 50.000 15.58 0.00 39.85 4.30
3481 6406 4.883585 TGTGTTGATGAAGAAGTTCAAGCT 59.116 37.500 5.50 0.00 45.88 3.74
3525 6450 2.093216 GAGTGAAGCTCAATGGGCG 58.907 57.895 0.00 0.00 43.58 6.13


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

AutoCloner maintained by Alex Coulton.