Multiple sequence alignment - TraesCS2A01G188900

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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 TraesCS2A01G188900 chr2A 100.000 3650 0 0 1 3650 154850655 154847006 0.000000e+00 6741.0
1 TraesCS2A01G188900 chr2A 93.036 1637 96 6 1001 2620 155074886 155073251 0.000000e+00 2375.0
2 TraesCS2A01G188900 chr2A 93.023 860 56 4 2791 3650 5525622 5524767 0.000000e+00 1253.0
3 TraesCS2A01G188900 chr2A 92.084 859 64 4 2792 3649 661619158 661618303 0.000000e+00 1206.0
4 TraesCS2A01G188900 chr2A 81.618 1360 238 10 1208 2561 154422555 154421202 0.000000e+00 1116.0
5 TraesCS2A01G188900 chr2A 81.799 478 50 23 550 999 155075410 155074942 2.070000e-97 366.0
6 TraesCS2A01G188900 chr2B 95.590 1746 73 3 1000 2742 207471210 207472954 0.000000e+00 2795.0
7 TraesCS2A01G188900 chr2B 91.971 1669 116 8 1000 2651 207100457 207102124 0.000000e+00 2324.0
8 TraesCS2A01G188900 chr2B 90.909 858 57 7 2792 3634 652842531 652843382 0.000000e+00 1133.0
9 TraesCS2A01G188900 chr2B 81.678 1359 237 11 1205 2557 207482283 207483635 0.000000e+00 1120.0
10 TraesCS2A01G188900 chr2B 91.036 502 32 10 1 498 207468057 207468549 0.000000e+00 665.0
11 TraesCS2A01G188900 chr2B 89.537 497 20 6 511 999 207470683 207471155 5.220000e-168 601.0
12 TraesCS2A01G188900 chr2B 83.389 301 29 10 431 717 207099558 207099851 3.620000e-65 259.0
13 TraesCS2A01G188900 chr2B 86.243 189 10 5 728 900 207100118 207100306 1.340000e-44 191.0
14 TraesCS2A01G188900 chr2D 95.076 1767 81 4 1000 2763 147937935 147939698 0.000000e+00 2776.0
15 TraesCS2A01G188900 chr2D 91.895 1678 117 9 1000 2659 147426037 147427713 0.000000e+00 2327.0
16 TraesCS2A01G188900 chr2D 81.531 1359 241 9 1205 2558 147953725 147955078 0.000000e+00 1110.0
17 TraesCS2A01G188900 chr2D 94.378 498 15 4 508 994 147937383 147937878 0.000000e+00 752.0
18 TraesCS2A01G188900 chr2D 91.583 499 31 8 4 498 147936734 147937225 0.000000e+00 678.0
19 TraesCS2A01G188900 chr2D 92.715 453 12 6 3211 3650 360462532 360462088 5.140000e-178 634.0
20 TraesCS2A01G188900 chr2D 92.222 450 15 5 3214 3650 537208748 537208306 1.440000e-173 619.0
21 TraesCS2A01G188900 chr2D 83.669 496 45 16 431 900 147424444 147424929 5.600000e-118 435.0
22 TraesCS2A01G188900 chr3D 94.070 860 48 3 2792 3650 590678836 590679693 0.000000e+00 1303.0
23 TraesCS2A01G188900 chr7D 93.256 860 53 5 2792 3650 53448208 53447353 0.000000e+00 1262.0
24 TraesCS2A01G188900 chr4B 92.143 840 62 4 2792 3629 125384182 125385019 0.000000e+00 1182.0
25 TraesCS2A01G188900 chr4B 89.492 866 66 12 2792 3650 4989695 4988848 0.000000e+00 1072.0
26 TraesCS2A01G188900 chr4B 89.189 74 6 2 138 209 667200330 667200403 1.400000e-14 91.6
27 TraesCS2A01G188900 chr4D 91.756 837 64 4 2792 3624 201450544 201449709 0.000000e+00 1158.0
28 TraesCS2A01G188900 chr3B 90.676 858 59 7 2792 3634 731133878 731133027 0.000000e+00 1122.0
29 TraesCS2A01G188900 chr3B 79.383 1557 281 33 1022 2558 64538166 64539702 0.000000e+00 1061.0
30 TraesCS2A01G188900 chr3B 82.520 246 32 8 144 382 253489144 253489385 4.780000e-49 206.0
31 TraesCS2A01G188900 chr5D 78.970 233 39 7 123 351 317454222 317453996 2.270000e-32 150.0
32 TraesCS2A01G188900 chr6A 76.062 259 40 17 125 372 584518477 584518724 8.280000e-22 115.0
33 TraesCS2A01G188900 chr5A 89.041 73 8 0 137 209 608271698 608271770 1.400000e-14 91.6
34 TraesCS2A01G188900 chr4A 81.818 77 12 2 287 361 494675107 494675183 3.040000e-06 63.9


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 TraesCS2A01G188900 chr2A 154847006 154850655 3649 True 6741.000000 6741 100.000000 1 3650 1 chr2A.!!$R3 3649
1 TraesCS2A01G188900 chr2A 155073251 155075410 2159 True 1370.500000 2375 87.417500 550 2620 2 chr2A.!!$R5 2070
2 TraesCS2A01G188900 chr2A 5524767 5525622 855 True 1253.000000 1253 93.023000 2791 3650 1 chr2A.!!$R1 859
3 TraesCS2A01G188900 chr2A 661618303 661619158 855 True 1206.000000 1206 92.084000 2792 3649 1 chr2A.!!$R4 857
4 TraesCS2A01G188900 chr2A 154421202 154422555 1353 True 1116.000000 1116 81.618000 1208 2561 1 chr2A.!!$R2 1353
5 TraesCS2A01G188900 chr2B 207468057 207472954 4897 False 1353.666667 2795 92.054333 1 2742 3 chr2B.!!$F4 2741
6 TraesCS2A01G188900 chr2B 652842531 652843382 851 False 1133.000000 1133 90.909000 2792 3634 1 chr2B.!!$F2 842
7 TraesCS2A01G188900 chr2B 207482283 207483635 1352 False 1120.000000 1120 81.678000 1205 2557 1 chr2B.!!$F1 1352
8 TraesCS2A01G188900 chr2B 207099558 207102124 2566 False 924.666667 2324 87.201000 431 2651 3 chr2B.!!$F3 2220
9 TraesCS2A01G188900 chr2D 147936734 147939698 2964 False 1402.000000 2776 93.679000 4 2763 3 chr2D.!!$F3 2759
10 TraesCS2A01G188900 chr2D 147424444 147427713 3269 False 1381.000000 2327 87.782000 431 2659 2 chr2D.!!$F2 2228
11 TraesCS2A01G188900 chr2D 147953725 147955078 1353 False 1110.000000 1110 81.531000 1205 2558 1 chr2D.!!$F1 1353
12 TraesCS2A01G188900 chr3D 590678836 590679693 857 False 1303.000000 1303 94.070000 2792 3650 1 chr3D.!!$F1 858
13 TraesCS2A01G188900 chr7D 53447353 53448208 855 True 1262.000000 1262 93.256000 2792 3650 1 chr7D.!!$R1 858
14 TraesCS2A01G188900 chr4B 125384182 125385019 837 False 1182.000000 1182 92.143000 2792 3629 1 chr4B.!!$F1 837
15 TraesCS2A01G188900 chr4B 4988848 4989695 847 True 1072.000000 1072 89.492000 2792 3650 1 chr4B.!!$R1 858
16 TraesCS2A01G188900 chr4D 201449709 201450544 835 True 1158.000000 1158 91.756000 2792 3624 1 chr4D.!!$R1 832
17 TraesCS2A01G188900 chr3B 731133027 731133878 851 True 1122.000000 1122 90.676000 2792 3634 1 chr3B.!!$R1 842
18 TraesCS2A01G188900 chr3B 64538166 64539702 1536 False 1061.000000 1061 79.383000 1022 2558 1 chr3B.!!$F1 1536

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
965 3392 0.179034 GACTCCACCATCCCTCATGC 60.179 60.0 0.00 0.00 0.00 4.06 F
1196 4657 0.454196 GTTTATTTCGTGGCCGCCAT 59.546 50.0 16.96 0.85 35.28 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2067 5528 0.881796 AGATGACGAGCGTCTTGACA 59.118 50.000 21.68 4.4 44.80 3.58 R
3149 6618 1.532078 TATCCATGGCTACGGCGGA 60.532 57.895 13.24 0.0 39.81 5.54 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 1.747325 GCTTTGGCTTGGTTCTGGCA 61.747 55.000 0.00 0.00 36.96 4.92
113 114 2.356135 ACCGTGAGTGATTGTAATGCC 58.644 47.619 0.00 0.00 0.00 4.40
129 130 8.437360 TTGTAATGCCTGATTATGAGTAACTG 57.563 34.615 0.00 0.00 0.00 3.16
134 135 4.202305 GCCTGATTATGAGTAACTGCCTCT 60.202 45.833 0.00 0.00 0.00 3.69
352 357 7.064371 TGACAATGTTTGACTTTGACCAAATTG 59.936 33.333 11.98 0.00 36.91 2.32
364 369 3.936453 TGACCAAATTGTATACGCAGACC 59.064 43.478 0.00 0.00 0.00 3.85
365 370 3.936453 GACCAAATTGTATACGCAGACCA 59.064 43.478 0.00 0.00 0.00 4.02
366 371 3.938963 ACCAAATTGTATACGCAGACCAG 59.061 43.478 0.00 0.00 0.00 4.00
370 377 6.348950 CCAAATTGTATACGCAGACCAGAAAA 60.349 38.462 0.00 0.00 0.00 2.29
376 383 0.321671 CGCAGACCAGAAAAGGAGGA 59.678 55.000 0.00 0.00 0.00 3.71
396 403 7.878644 AGGAGGAAGTACAAGAATACTGAAAAC 59.121 37.037 0.00 0.00 35.53 2.43
399 406 9.403583 AGGAAGTACAAGAATACTGAAAACAAA 57.596 29.630 0.00 0.00 35.53 2.83
498 505 9.616156 TGTGTAATTTCCTAGACAAGTTTTACA 57.384 29.630 0.00 0.00 0.00 2.41
503 510 7.935338 TTTCCTAGACAAGTTTTACAGTACG 57.065 36.000 0.00 0.00 0.00 3.67
506 513 8.565896 TCCTAGACAAGTTTTACAGTACGATA 57.434 34.615 0.00 0.00 0.00 2.92
596 2729 0.764890 GTGGGTGGGCTCAGCATATA 59.235 55.000 19.12 0.00 42.72 0.86
661 2801 1.480545 GGTTGGTACCATCATTTGCCC 59.519 52.381 17.17 2.37 44.36 5.36
872 3286 4.523943 TGGAAATCAAACAAGGTCAGGATG 59.476 41.667 0.00 0.00 37.54 3.51
944 3371 6.403527 CCATCATTTCAAGCACTTGTTCGATA 60.404 38.462 10.05 0.00 41.16 2.92
965 3392 0.179034 GACTCCACCATCCCTCATGC 60.179 60.000 0.00 0.00 0.00 4.06
983 3410 6.547141 CCTCATGCTTAATTAGGATCCAAACA 59.453 38.462 15.82 0.70 32.03 2.83
1008 4446 3.776969 ACCAATCAGTAGAGATGGCTTCA 59.223 43.478 3.03 0.00 37.91 3.02
1010 4448 3.749665 ATCAGTAGAGATGGCTTCAGC 57.250 47.619 3.03 0.00 41.14 4.26
1038 4476 1.555075 CTAGAGGCAGTAGCACCCAAA 59.445 52.381 0.00 0.00 44.61 3.28
1040 4478 1.144913 AGAGGCAGTAGCACCCAAAAA 59.855 47.619 0.00 0.00 44.61 1.94
1140 4580 4.943705 ACACATGTTGACATTATCACCTCC 59.056 41.667 0.00 0.00 36.92 4.30
1141 4581 4.943093 CACATGTTGACATTATCACCTCCA 59.057 41.667 0.00 0.00 36.92 3.86
1159 4599 1.153745 ACGCCTGATTCTGTCTCGC 60.154 57.895 0.00 0.00 0.00 5.03
1196 4657 0.454196 GTTTATTTCGTGGCCGCCAT 59.546 50.000 16.96 0.85 35.28 4.40
1428 4889 1.746615 AAGCGGCTACACCATGCTG 60.747 57.895 1.35 0.00 35.52 4.41
1579 5040 2.134287 GGCATCCTCCTCGGCTACA 61.134 63.158 0.00 0.00 0.00 2.74
2112 5573 1.605058 CCATGTTCCTCCTCGACCGT 61.605 60.000 0.00 0.00 0.00 4.83
2545 6006 3.958147 ATGGGCAGTCTGTTCGGCG 62.958 63.158 0.00 0.00 0.00 6.46
2605 6066 4.731612 CACAGGACGCGAGCTGCT 62.732 66.667 15.93 0.00 43.27 4.24
2656 6117 6.157820 TGGACCCAGAGTTGATTAATCACATA 59.842 38.462 17.76 0.76 36.36 2.29
2658 6119 7.721399 GGACCCAGAGTTGATTAATCACATAAT 59.279 37.037 17.76 2.96 36.36 1.28
2699 6162 7.818930 TCACGATGCTATTTATAAGATCATGCA 59.181 33.333 0.00 0.00 0.00 3.96
2759 6222 1.890876 TCTTTACATGTTGCGCCACT 58.109 45.000 13.27 0.00 0.00 4.00
2763 6226 3.546002 TTACATGTTGCGCCACTTAAC 57.454 42.857 13.27 6.88 0.00 2.01
2764 6227 1.604604 ACATGTTGCGCCACTTAACT 58.395 45.000 13.27 0.00 0.00 2.24
2765 6228 2.773487 ACATGTTGCGCCACTTAACTA 58.227 42.857 13.27 0.00 0.00 2.24
2766 6229 2.482721 ACATGTTGCGCCACTTAACTAC 59.517 45.455 13.27 0.00 0.00 2.73
2767 6230 2.536761 TGTTGCGCCACTTAACTACT 57.463 45.000 13.27 0.00 0.00 2.57
2768 6231 2.841215 TGTTGCGCCACTTAACTACTT 58.159 42.857 13.27 0.00 0.00 2.24
2769 6232 2.546368 TGTTGCGCCACTTAACTACTTG 59.454 45.455 13.27 0.00 0.00 3.16
2770 6233 2.803956 GTTGCGCCACTTAACTACTTGA 59.196 45.455 4.18 0.00 0.00 3.02
2771 6234 2.409975 TGCGCCACTTAACTACTTGAC 58.590 47.619 4.18 0.00 0.00 3.18
2772 6235 2.036733 TGCGCCACTTAACTACTTGACT 59.963 45.455 4.18 0.00 0.00 3.41
2773 6236 2.412089 GCGCCACTTAACTACTTGACTG 59.588 50.000 0.00 0.00 0.00 3.51
2774 6237 3.859627 GCGCCACTTAACTACTTGACTGA 60.860 47.826 0.00 0.00 0.00 3.41
2775 6238 3.921021 CGCCACTTAACTACTTGACTGAG 59.079 47.826 0.00 0.00 0.00 3.35
2776 6239 4.321008 CGCCACTTAACTACTTGACTGAGA 60.321 45.833 0.00 0.00 0.00 3.27
2777 6240 5.164954 GCCACTTAACTACTTGACTGAGAG 58.835 45.833 0.00 0.00 0.00 3.20
2778 6241 5.279056 GCCACTTAACTACTTGACTGAGAGT 60.279 44.000 0.00 0.00 0.00 3.24
2779 6242 6.739008 GCCACTTAACTACTTGACTGAGAGTT 60.739 42.308 0.00 0.00 34.78 3.01
2780 6243 6.642950 CCACTTAACTACTTGACTGAGAGTTG 59.357 42.308 0.00 0.00 32.75 3.16
2781 6244 6.144724 CACTTAACTACTTGACTGAGAGTTGC 59.855 42.308 0.00 0.00 32.75 4.17
2782 6245 4.946478 AACTACTTGACTGAGAGTTGCT 57.054 40.909 0.00 0.00 0.00 3.91
2783 6246 4.946478 ACTACTTGACTGAGAGTTGCTT 57.054 40.909 0.00 0.00 0.00 3.91
2784 6247 5.283457 ACTACTTGACTGAGAGTTGCTTT 57.717 39.130 0.00 0.00 0.00 3.51
2785 6248 5.675538 ACTACTTGACTGAGAGTTGCTTTT 58.324 37.500 0.00 0.00 0.00 2.27
2786 6249 6.817184 ACTACTTGACTGAGAGTTGCTTTTA 58.183 36.000 0.00 0.00 0.00 1.52
2787 6250 6.926272 ACTACTTGACTGAGAGTTGCTTTTAG 59.074 38.462 0.00 0.00 0.00 1.85
2788 6251 4.513318 ACTTGACTGAGAGTTGCTTTTAGC 59.487 41.667 0.00 0.00 42.82 3.09
2789 6252 3.403038 TGACTGAGAGTTGCTTTTAGCC 58.597 45.455 0.00 0.00 41.51 3.93
2802 6265 5.792741 TGCTTTTAGCCAAGTAAATTGCAT 58.207 33.333 0.00 0.00 41.51 3.96
2820 6288 8.523915 AATTGCATAGAAGTATCACAATTGGA 57.476 30.769 10.83 4.78 34.28 3.53
2824 6292 6.512415 GCATAGAAGTATCACAATTGGAGCAC 60.512 42.308 10.83 6.82 0.00 4.40
2940 6408 5.407407 ACGTATTGACAAGGAATCTGACT 57.593 39.130 0.00 0.00 0.00 3.41
2944 6412 3.685139 TGACAAGGAATCTGACTGGTC 57.315 47.619 0.00 0.00 38.01 4.02
3024 6492 3.217743 GACTAGGACGAGGCCGGG 61.218 72.222 2.18 0.00 40.78 5.73
3043 6511 1.747367 TCCAACCATTTAGGGCGCG 60.747 57.895 0.00 0.00 43.89 6.86
3479 6953 1.191489 TGGACTCATGGCTTCGGTGA 61.191 55.000 0.00 0.00 0.00 4.02
3551 7037 6.126968 GGATTAGTGTTAGGGTTTACTGCCTA 60.127 42.308 0.00 0.00 0.00 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 0.032540 CCAGAACCAAGCCAAAGCAC 59.967 55.000 0.00 0.00 43.56 4.40
5 6 0.752054 TTGCCAGAACCAAGCCAAAG 59.248 50.000 0.00 0.00 0.00 2.77
23 24 3.490348 ACTGTGCAATCTACCAAAGCTT 58.510 40.909 0.00 0.00 0.00 3.74
97 98 7.281841 TCATAATCAGGCATTACAATCACTCA 58.718 34.615 0.00 0.00 29.24 3.41
113 114 9.202273 GAAATAGAGGCAGTTACTCATAATCAG 57.798 37.037 0.00 0.00 37.43 2.90
129 130 6.254281 TGCAAACTAACAAGAAATAGAGGC 57.746 37.500 0.00 0.00 0.00 4.70
209 212 6.857777 AGCTTTGATATTGTAGATGCAGAC 57.142 37.500 0.00 0.00 0.00 3.51
212 215 9.387257 CCATATAGCTTTGATATTGTAGATGCA 57.613 33.333 0.00 0.00 0.00 3.96
213 216 9.388506 ACCATATAGCTTTGATATTGTAGATGC 57.611 33.333 0.00 0.00 0.00 3.91
352 357 4.113354 CTCCTTTTCTGGTCTGCGTATAC 58.887 47.826 0.00 0.00 0.00 1.47
364 369 8.097662 AGTATTCTTGTACTTCCTCCTTTTCTG 58.902 37.037 0.00 0.00 30.95 3.02
365 370 8.097662 CAGTATTCTTGTACTTCCTCCTTTTCT 58.902 37.037 0.00 0.00 32.74 2.52
366 371 8.095169 TCAGTATTCTTGTACTTCCTCCTTTTC 58.905 37.037 0.00 0.00 32.74 2.29
370 377 7.554959 TTTCAGTATTCTTGTACTTCCTCCT 57.445 36.000 0.00 0.00 32.74 3.69
396 403 7.687757 CGATTTTGAAAACCACAACTCTTTTTG 59.312 33.333 0.00 0.00 0.00 2.44
399 406 5.290885 GCGATTTTGAAAACCACAACTCTTT 59.709 36.000 0.00 0.00 0.00 2.52
498 505 5.878627 AGGGCTACAGTTCTATATCGTACT 58.121 41.667 0.00 0.00 0.00 2.73
499 506 5.939296 AGAGGGCTACAGTTCTATATCGTAC 59.061 44.000 0.00 0.00 0.00 3.67
502 509 5.968528 AAGAGGGCTACAGTTCTATATCG 57.031 43.478 0.00 0.00 0.00 2.92
503 510 6.459923 CCAAAGAGGGCTACAGTTCTATATC 58.540 44.000 0.00 0.00 0.00 1.63
506 513 4.762289 CCAAAGAGGGCTACAGTTCTAT 57.238 45.455 0.00 0.00 0.00 1.98
661 2801 2.029649 AGCTTTGCCAGTTAGTGCATTG 60.030 45.455 0.00 0.00 37.33 2.82
872 3286 2.969443 ACGTGCAAGCAAGTTCATAC 57.031 45.000 7.80 0.00 35.24 2.39
944 3371 1.842562 CATGAGGGATGGTGGAGTCTT 59.157 52.381 0.00 0.00 0.00 3.01
965 3392 7.880160 TGGTGATGTTTGGATCCTAATTAAG 57.120 36.000 14.23 0.00 0.00 1.85
983 3410 3.972638 AGCCATCTCTACTGATTGGTGAT 59.027 43.478 0.00 0.00 31.67 3.06
1010 4448 2.642183 TACTGCCTCTAGGAGCCCGG 62.642 65.000 0.00 0.00 37.39 5.73
1011 4449 1.152735 TACTGCCTCTAGGAGCCCG 60.153 63.158 0.00 0.00 37.39 6.13
1019 4457 1.651737 TTTGGGTGCTACTGCCTCTA 58.348 50.000 0.00 0.00 38.71 2.43
1038 4476 7.574592 GCATACTTGATGTTGCTCTTCTTCTTT 60.575 37.037 0.00 0.00 37.90 2.52
1040 4478 5.353678 GCATACTTGATGTTGCTCTTCTTCT 59.646 40.000 0.00 0.00 37.90 2.85
1140 4580 1.416813 GCGAGACAGAATCAGGCGTG 61.417 60.000 0.00 0.00 0.00 5.34
1141 4581 1.153745 GCGAGACAGAATCAGGCGT 60.154 57.895 0.00 0.00 0.00 5.68
1159 4599 9.221775 GAAATAAACACTTCATATAGCCAAACG 57.778 33.333 0.00 0.00 0.00 3.60
1196 4657 0.530744 GCTCATCACACCGGTGTCTA 59.469 55.000 36.92 27.04 45.45 2.59
1428 4889 2.202623 ACGAAGCGACCGAGCATC 60.203 61.111 0.00 0.00 40.15 3.91
1579 5040 2.291190 GAGCGAAGGCGTAGTTAGAGAT 59.709 50.000 0.00 0.00 46.35 2.75
1669 5130 2.690778 GCATGCCGGACACCAAGAC 61.691 63.158 5.05 0.00 0.00 3.01
1815 5276 2.745100 CCGTCGAGGTCGTCTGGA 60.745 66.667 4.18 0.00 40.80 3.86
2058 5519 3.131326 CGTCTTGACAACGCCCATA 57.869 52.632 1.59 0.00 32.84 2.74
2067 5528 0.881796 AGATGACGAGCGTCTTGACA 59.118 50.000 21.68 4.40 44.80 3.58
2258 5719 4.201920 CGATGGAGAAGAATGACACGTAGA 60.202 45.833 0.00 0.00 0.00 2.59
2605 6066 3.650950 GCCCAAGAGTCTGGCCCA 61.651 66.667 9.86 0.00 39.30 5.36
2610 6071 2.125350 GAGGCGCCCAAGAGTCTG 60.125 66.667 26.15 0.00 0.00 3.51
2656 6117 4.780815 TCGTGAGATTTAGCAATCCCATT 58.219 39.130 0.00 0.00 39.95 3.16
2658 6119 3.904800 TCGTGAGATTTAGCAATCCCA 57.095 42.857 0.00 0.00 39.95 4.37
2732 6195 5.233263 GGCGCAACATGTAAAGAAAAAGAAA 59.767 36.000 10.83 0.00 0.00 2.52
2738 6201 2.621055 AGTGGCGCAACATGTAAAGAAA 59.379 40.909 19.06 0.00 0.00 2.52
2746 6209 2.742053 AGTAGTTAAGTGGCGCAACATG 59.258 45.455 19.06 0.00 0.00 3.21
2750 6213 2.803956 GTCAAGTAGTTAAGTGGCGCAA 59.196 45.455 10.83 0.00 0.00 4.85
2752 6215 2.412089 CAGTCAAGTAGTTAAGTGGCGC 59.588 50.000 0.00 0.00 0.00 6.53
2753 6216 3.909430 TCAGTCAAGTAGTTAAGTGGCG 58.091 45.455 0.00 0.00 0.00 5.69
2759 6222 6.406692 AGCAACTCTCAGTCAAGTAGTTAA 57.593 37.500 0.00 0.00 0.00 2.01
2763 6226 6.128688 GCTAAAAGCAACTCTCAGTCAAGTAG 60.129 42.308 0.00 0.00 41.89 2.57
2764 6227 5.696724 GCTAAAAGCAACTCTCAGTCAAGTA 59.303 40.000 0.00 0.00 41.89 2.24
2765 6228 4.513318 GCTAAAAGCAACTCTCAGTCAAGT 59.487 41.667 0.00 0.00 41.89 3.16
2766 6229 4.083590 GGCTAAAAGCAACTCTCAGTCAAG 60.084 45.833 0.78 0.00 44.75 3.02
2767 6230 3.815401 GGCTAAAAGCAACTCTCAGTCAA 59.185 43.478 0.78 0.00 44.75 3.18
2768 6231 3.181455 TGGCTAAAAGCAACTCTCAGTCA 60.181 43.478 0.78 0.00 44.75 3.41
2769 6232 3.403038 TGGCTAAAAGCAACTCTCAGTC 58.597 45.455 0.78 0.00 44.75 3.51
2770 6233 3.492102 TGGCTAAAAGCAACTCTCAGT 57.508 42.857 0.78 0.00 44.75 3.41
2771 6234 3.817647 ACTTGGCTAAAAGCAACTCTCAG 59.182 43.478 0.78 0.00 44.75 3.35
2772 6235 3.820557 ACTTGGCTAAAAGCAACTCTCA 58.179 40.909 0.78 0.00 44.75 3.27
2773 6236 5.941948 TTACTTGGCTAAAAGCAACTCTC 57.058 39.130 0.78 0.00 44.75 3.20
2774 6237 6.901081 ATTTACTTGGCTAAAAGCAACTCT 57.099 33.333 0.78 0.00 44.75 3.24
2775 6238 6.128822 GCAATTTACTTGGCTAAAAGCAACTC 60.129 38.462 0.78 0.00 44.75 3.01
2776 6239 5.696270 GCAATTTACTTGGCTAAAAGCAACT 59.304 36.000 0.78 0.00 44.75 3.16
2777 6240 5.465056 TGCAATTTACTTGGCTAAAAGCAAC 59.535 36.000 0.78 0.00 44.75 4.17
2778 6241 5.605534 TGCAATTTACTTGGCTAAAAGCAA 58.394 33.333 0.78 0.00 44.75 3.91
2779 6242 5.207110 TGCAATTTACTTGGCTAAAAGCA 57.793 34.783 0.78 0.00 44.75 3.91
2780 6243 7.257722 TCTATGCAATTTACTTGGCTAAAAGC 58.742 34.615 0.00 0.00 41.46 3.51
2781 6244 9.294030 CTTCTATGCAATTTACTTGGCTAAAAG 57.706 33.333 0.00 0.00 35.25 2.27
2782 6245 8.802267 ACTTCTATGCAATTTACTTGGCTAAAA 58.198 29.630 0.00 0.00 35.25 1.52
2783 6246 8.348285 ACTTCTATGCAATTTACTTGGCTAAA 57.652 30.769 0.00 0.00 35.25 1.85
2784 6247 7.938140 ACTTCTATGCAATTTACTTGGCTAA 57.062 32.000 0.00 0.00 35.25 3.09
2785 6248 9.273016 GATACTTCTATGCAATTTACTTGGCTA 57.727 33.333 0.00 0.00 35.25 3.93
2786 6249 7.775093 TGATACTTCTATGCAATTTACTTGGCT 59.225 33.333 0.00 0.00 35.25 4.75
2787 6250 7.857885 GTGATACTTCTATGCAATTTACTTGGC 59.142 37.037 0.00 0.00 35.25 4.52
2788 6251 8.892723 TGTGATACTTCTATGCAATTTACTTGG 58.107 33.333 0.00 0.00 35.25 3.61
2802 6265 6.108687 CAGTGCTCCAATTGTGATACTTCTA 58.891 40.000 4.43 0.00 0.00 2.10
2820 6288 4.263462 TGGTATCAATCTGTTTCCAGTGCT 60.263 41.667 0.00 0.00 39.82 4.40
2824 6292 7.415989 CCAATCTTGGTATCAATCTGTTTCCAG 60.416 40.741 0.55 0.00 43.43 3.86
2929 6397 1.617947 GCCCGACCAGTCAGATTCCT 61.618 60.000 0.00 0.00 0.00 3.36
3024 6492 1.807226 GCGCCCTAAATGGTTGGAC 59.193 57.895 0.00 0.00 0.00 4.02
3027 6495 2.798009 CCGCGCCCTAAATGGTTG 59.202 61.111 0.00 0.00 0.00 3.77
3028 6496 3.138128 GCCGCGCCCTAAATGGTT 61.138 61.111 0.00 0.00 0.00 3.67
3149 6618 1.532078 TATCCATGGCTACGGCGGA 60.532 57.895 13.24 0.00 39.81 5.54
3479 6953 3.071602 ACAGTGGAGCACTTACAGAACAT 59.928 43.478 0.00 0.00 42.59 2.71


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

AutoCloner maintained by Alex Coulton.