Multiple sequence alignment - TraesCS2B01G252000

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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 TraesCS2B01G252000 chr2B 100.000 3338 0 0 1 3338 266963512 266960175 0.000000e+00 6165.0
1 TraesCS2B01G252000 chr2B 82.353 136 22 2 1216 1350 489849195 489849329 2.100000e-22 117.0
2 TraesCS2B01G252000 chr2B 88.542 96 11 0 1216 1311 567034936 567035031 2.100000e-22 117.0
3 TraesCS2B01G252000 chr2D 94.727 2617 101 15 731 3338 211198411 211200999 0.000000e+00 4034.0
4 TraesCS2B01G252000 chr2D 91.463 328 22 5 1 324 211196941 211197266 2.360000e-121 446.0
5 TraesCS2B01G252000 chr2D 93.885 278 11 1 456 733 211198076 211198347 6.660000e-112 414.0
6 TraesCS2B01G252000 chr2D 82.353 136 22 2 1216 1350 417625371 417625505 2.100000e-22 117.0
7 TraesCS2B01G252000 chr2D 88.542 96 11 0 1216 1311 482790040 482790135 2.100000e-22 117.0
8 TraesCS2B01G252000 chr2D 88.542 96 11 0 1216 1311 636638927 636639022 2.100000e-22 117.0
9 TraesCS2B01G252000 chr2D 88.764 89 8 2 322 408 211197663 211197751 1.270000e-19 108.0
10 TraesCS2B01G252000 chr2D 80.420 143 21 6 1434 1573 101872746 101872608 5.890000e-18 102.0
11 TraesCS2B01G252000 chr2D 83.168 101 16 1 1434 1534 101956486 101956387 1.280000e-14 91.6
12 TraesCS2B01G252000 chr2A 93.580 2243 81 19 455 2677 265275723 265273524 0.000000e+00 3286.0
13 TraesCS2B01G252000 chr2A 90.071 423 19 10 1 419 265331564 265331967 8.200000e-146 527.0
14 TraesCS2B01G252000 chr2A 91.958 286 21 2 2681 2966 265273261 265272978 1.870000e-107 399.0
15 TraesCS2B01G252000 chr2A 87.164 335 17 12 1 331 265331162 265330850 1.140000e-94 357.0
16 TraesCS2B01G252000 chr2A 91.200 250 19 3 2961 3209 265271774 265271527 1.480000e-88 337.0
17 TraesCS2B01G252000 chr2A 82.353 136 22 2 1216 1350 572487551 572487417 2.100000e-22 117.0
18 TraesCS2B01G252000 chr2A 88.542 96 11 0 1216 1311 625243577 625243672 2.100000e-22 117.0
19 TraesCS2B01G252000 chr2A 79.021 143 23 6 1434 1573 100825947 100825809 1.280000e-14 91.6
20 TraesCS2B01G252000 chr4D 83.045 289 37 10 5 288 338019786 338019505 5.530000e-63 252.0
21 TraesCS2B01G252000 chrUn 82.857 280 39 7 40 315 25042412 25042138 3.330000e-60 243.0
22 TraesCS2B01G252000 chrUn 81.046 306 44 10 7 306 87042048 87042345 7.200000e-57 231.0
23 TraesCS2B01G252000 chr6B 80.449 312 42 14 5 309 632239171 632239470 1.560000e-53 220.0
24 TraesCS2B01G252000 chr3D 79.333 300 48 8 5 300 40072472 40072761 7.300000e-47 198.0
25 TraesCS2B01G252000 chr3D 82.946 129 18 4 1447 1573 253340073 253339947 2.720000e-21 113.0
26 TraesCS2B01G252000 chr6D 77.994 309 52 13 5 306 419282228 419282527 2.650000e-41 180.0
27 TraesCS2B01G252000 chr3A 82.946 129 18 4 1447 1573 330698718 330698844 2.720000e-21 113.0
28 TraesCS2B01G252000 chr3B 83.193 119 18 2 1447 1564 304277893 304278010 1.270000e-19 108.0


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 TraesCS2B01G252000 chr2B 266960175 266963512 3337 True 6165.000000 6165 100.00000 1 3338 1 chr2B.!!$R1 3337
1 TraesCS2B01G252000 chr2D 211196941 211200999 4058 False 1250.500000 4034 92.20975 1 3338 4 chr2D.!!$F4 3337
2 TraesCS2B01G252000 chr2A 265271527 265275723 4196 True 1340.666667 3286 92.24600 455 3209 3 chr2A.!!$R4 2754

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
616 1301 0.500178 CATGCGTGCGTCTCGATAAG 59.500 55.0 0.00 0.0 0.0 1.73 F
1872 2629 0.174162 GCTACCCGTACGTCCACAAT 59.826 55.0 15.21 0.0 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1895 2652 0.250513 GGCGTTCTGATCCCTGAAGT 59.749 55.0 0.0 0.0 32.11 3.01 R
2982 5227 0.871057 TTCATTTGTCGTGCGATGCA 59.129 45.0 0.0 0.0 35.60 3.96 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
38 39 4.223144 ACCTTAAAACTTGGCAGGTCAAT 58.777 39.130 1.58 0.00 31.92 2.57
55 56 5.951747 AGGTCAATTATACACAAGTGCCAAT 59.048 36.000 0.00 0.00 0.00 3.16
137 140 9.716531 TTTGAATTGGTTGTATCATGCATTTTA 57.283 25.926 0.00 0.00 0.00 1.52
138 141 9.716531 TTGAATTGGTTGTATCATGCATTTTAA 57.283 25.926 0.00 0.00 0.00 1.52
204 209 6.163476 TGGTAGTACTTGTGTGATGTTGATC 58.837 40.000 0.00 0.00 0.00 2.92
291 296 5.234116 ACCGAACTTTGATGCAAAAATGAAC 59.766 36.000 0.00 0.00 32.75 3.18
293 298 6.349426 CGAACTTTGATGCAAAAATGAACAG 58.651 36.000 0.00 0.00 32.75 3.16
337 741 7.393515 GTGGGTACAATCAGAACTTTCCTATTT 59.606 37.037 0.00 0.00 0.00 1.40
338 742 7.947890 TGGGTACAATCAGAACTTTCCTATTTT 59.052 33.333 0.00 0.00 0.00 1.82
339 743 8.459635 GGGTACAATCAGAACTTTCCTATTTTC 58.540 37.037 0.00 0.00 0.00 2.29
340 744 8.175716 GGTACAATCAGAACTTTCCTATTTTCG 58.824 37.037 0.00 0.00 0.00 3.46
369 774 8.557029 AGTTAGATGTTCCTTTTGTCTAAAACG 58.443 33.333 0.00 0.00 34.33 3.60
373 778 6.114221 TGTTCCTTTTGTCTAAAACGACAG 57.886 37.500 0.00 0.00 44.02 3.51
374 779 4.806342 TCCTTTTGTCTAAAACGACAGC 57.194 40.909 0.00 0.00 44.02 4.40
377 782 5.007332 TCCTTTTGTCTAAAACGACAGCTTC 59.993 40.000 0.00 0.00 44.02 3.86
408 814 6.885922 ACTGATGGGAGTAACAGTATTAACC 58.114 40.000 0.00 0.00 40.96 2.85
410 816 7.037873 ACTGATGGGAGTAACAGTATTAACCAA 60.038 37.037 0.00 0.00 40.96 3.67
411 817 7.107542 TGATGGGAGTAACAGTATTAACCAAC 58.892 38.462 0.00 0.00 0.00 3.77
412 818 6.436738 TGGGAGTAACAGTATTAACCAACA 57.563 37.500 0.00 0.00 0.00 3.33
414 820 6.043474 TGGGAGTAACAGTATTAACCAACACT 59.957 38.462 0.00 0.00 0.00 3.55
415 821 7.235193 TGGGAGTAACAGTATTAACCAACACTA 59.765 37.037 0.00 0.00 0.00 2.74
416 822 8.262933 GGGAGTAACAGTATTAACCAACACTAT 58.737 37.037 0.00 0.00 0.00 2.12
451 857 9.736414 ATTAAATTCAGATATGACTGATGGGAG 57.264 33.333 0.00 0.00 44.67 4.30
452 858 6.760440 AATTCAGATATGACTGATGGGAGT 57.240 37.500 0.00 0.00 44.67 3.85
505 1188 9.416284 ACCCGATAAATTCAGTAATTAAATGGT 57.584 29.630 0.00 0.00 34.12 3.55
532 1215 5.939883 TCCTATATATGCCTGCAACAATGAC 59.060 40.000 0.00 0.00 0.00 3.06
541 1224 3.079578 CTGCAACAATGACTGGACAGAT 58.920 45.455 6.29 0.00 0.00 2.90
616 1301 0.500178 CATGCGTGCGTCTCGATAAG 59.500 55.000 0.00 0.00 0.00 1.73
714 1399 3.557185 CGCTAGCTCATGATTTGCACTTA 59.443 43.478 13.93 0.00 0.00 2.24
717 1402 4.691860 AGCTCATGATTTGCACTTACAC 57.308 40.909 8.02 0.00 0.00 2.90
735 1486 4.207891 ACACAGAGAGAGAGAGAGAGAC 57.792 50.000 0.00 0.00 0.00 3.36
748 1499 0.957888 GAGAGACTTGGTTGCTGGGC 60.958 60.000 0.00 0.00 0.00 5.36
749 1500 2.281761 AGACTTGGTTGCTGGGCG 60.282 61.111 0.00 0.00 0.00 6.13
750 1501 2.594592 GACTTGGTTGCTGGGCGT 60.595 61.111 0.00 0.00 0.00 5.68
751 1502 2.123897 ACTTGGTTGCTGGGCGTT 60.124 55.556 0.00 0.00 0.00 4.84
939 1690 1.977188 CGTGTGTATGCGTGAGAGAA 58.023 50.000 0.00 0.00 0.00 2.87
1209 1966 2.885894 ACCGTATCGATCTTTCTCCTCC 59.114 50.000 0.00 0.00 0.00 4.30
1373 2130 9.923143 GGTATACATACATACACACATACATGT 57.077 33.333 2.69 2.69 35.98 3.21
1386 2143 3.943381 ACATACATGTGTCTGCCTCAATG 59.057 43.478 9.11 2.47 40.03 2.82
1444 2201 2.333938 GCATCGCATCCATGGCAC 59.666 61.111 6.96 0.00 0.00 5.01
1648 2405 2.028043 GCAACAACCCTGCTGCAC 59.972 61.111 0.00 0.00 42.97 4.57
1801 2558 0.180171 CGTCCATAACCCTGGCATGA 59.820 55.000 0.00 0.00 36.16 3.07
1837 2594 3.345808 GCGGTCAACAAGCTGCGA 61.346 61.111 0.00 0.00 0.00 5.10
1839 2596 1.421485 CGGTCAACAAGCTGCGATC 59.579 57.895 0.00 0.00 0.00 3.69
1872 2629 0.174162 GCTACCCGTACGTCCACAAT 59.826 55.000 15.21 0.00 0.00 2.71
1895 2652 1.816074 GGCGGTGGTTTACTCATGAA 58.184 50.000 0.00 0.00 0.00 2.57
2016 2773 0.179004 ATGGCAACGTCTTCAACCCA 60.179 50.000 0.00 0.00 42.51 4.51
2074 2831 3.041940 CCACCGTTGTCGAGCCAC 61.042 66.667 0.00 0.00 39.71 5.01
2121 2878 1.651240 ATCAGCATCGGCAACAGCAC 61.651 55.000 0.00 0.00 44.61 4.40
2205 2968 1.202818 GGTGGCAAGGGACTGGATATC 60.203 57.143 0.00 0.00 40.86 1.63
2232 2995 1.538950 GTCTCTTCGGAAGTGTACGGT 59.461 52.381 16.78 0.00 0.00 4.83
2440 3203 3.940209 TTTGATGTGCATTTCCTGTCC 57.060 42.857 0.00 0.00 0.00 4.02
2498 3261 5.972107 AGAAATGCATGCTAAGTTGAGTT 57.028 34.783 20.33 1.37 0.00 3.01
2546 3309 5.986004 TTAAATTTCTTCCTAGCTAGCGC 57.014 39.130 15.74 0.00 0.00 5.92
2575 3345 7.444487 AGCAGTAATATATACACTGTCGACAGA 59.556 37.037 43.55 26.73 46.59 3.41
2588 3363 7.493320 ACACTGTCGACAGATTGTTTAAGTAAA 59.507 33.333 43.55 6.34 46.59 2.01
2635 3411 8.812513 TCAAATACAGAAGATGGTGATGATTT 57.187 30.769 0.00 0.00 0.00 2.17
2641 3417 6.485984 ACAGAAGATGGTGATGATTTAGATGC 59.514 38.462 0.00 0.00 0.00 3.91
2650 3426 6.035327 GGTGATGATTTAGATGCTGCAAAAAC 59.965 38.462 6.36 2.55 0.00 2.43
2658 3434 0.584396 TGCTGCAAAAACGGTACTCG 59.416 50.000 0.00 0.00 45.88 4.18
2667 3443 1.239968 AACGGTACTCGCTTCGTCCT 61.240 55.000 4.00 0.00 43.89 3.85
2677 3453 8.454106 GGTACTCGCTTCGTCCTATAATATAAA 58.546 37.037 0.00 0.00 0.00 1.40
2700 3735 6.701432 AAACGTTATTGACACTAGTGTAGC 57.299 37.500 27.98 17.03 45.05 3.58
2701 3736 5.381174 ACGTTATTGACACTAGTGTAGCA 57.619 39.130 27.98 19.41 45.05 3.49
2704 3739 6.971184 ACGTTATTGACACTAGTGTAGCATAC 59.029 38.462 27.98 20.08 45.05 2.39
2733 3769 7.281774 CGGAAGGAATATATTTCATAGCTGCAT 59.718 37.037 6.52 0.00 0.00 3.96
2959 3995 4.152580 GCTTACCATATAAAGCGCCTTCTC 59.847 45.833 2.29 0.00 38.80 2.87
2982 5227 7.684186 TCTCTATGTATTATTGGGGATGACCAT 59.316 37.037 0.00 0.00 40.91 3.55
2987 5232 2.005370 ATTGGGGATGACCATGCATC 57.995 50.000 0.00 5.09 43.04 3.91
2994 5239 1.431488 ATGACCATGCATCGCACGAC 61.431 55.000 0.00 0.00 43.04 4.34
3008 5253 3.123453 TCGCACGACAAATGAAATCTCTG 59.877 43.478 0.00 0.00 0.00 3.35
3009 5254 3.725895 CGCACGACAAATGAAATCTCTGG 60.726 47.826 0.00 0.00 0.00 3.86
3142 5387 7.172532 GGTCACTATGTCATATTTTATGGCGAA 59.827 37.037 0.00 0.00 0.00 4.70
3175 5420 1.866601 GCCAGCAAATGTGTGTTTTCC 59.133 47.619 0.00 0.00 0.00 3.13
3178 5423 4.190772 CCAGCAAATGTGTGTTTTCCTTT 58.809 39.130 0.00 0.00 0.00 3.11
3179 5424 4.270808 CCAGCAAATGTGTGTTTTCCTTTC 59.729 41.667 0.00 0.00 0.00 2.62
3196 5441 3.430453 CTTTCAAAAGGGGATAGCACCA 58.570 45.455 0.09 0.00 41.39 4.17
3210 5455 3.652057 AGCACCAGCCACTACATTATT 57.348 42.857 0.00 0.00 43.56 1.40
3221 5466 4.274069 CACTACATTATTGTGATGCACGC 58.726 43.478 0.00 0.00 36.26 5.34
3225 5470 4.746729 ACATTATTGTGATGCACGCATTT 58.253 34.783 5.89 0.00 38.84 2.32
3264 5509 6.654793 AAGTATCAAGCATTCGAGAAAGTC 57.345 37.500 0.00 0.00 0.00 3.01
3269 5514 6.317789 TCAAGCATTCGAGAAAGTCAAAAT 57.682 33.333 0.00 0.00 0.00 1.82
3306 5551 7.528996 TCAAGACAACAATCAATCAATCCTT 57.471 32.000 0.00 0.00 0.00 3.36
3330 5576 4.285790 ACCCTTGCCCCCTCCTGA 62.286 66.667 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 7.649306 CCAAGTTTTAAGGTCAAATGTTCTCTG 59.351 37.037 0.00 0.00 0.00 3.35
38 39 6.892658 ACAAAGATTGGCACTTGTGTATAA 57.107 33.333 2.61 0.00 34.12 0.98
106 108 8.504815 TGCATGATACAACCAATTCAAAATTTG 58.495 29.630 0.00 0.00 0.00 2.32
107 109 8.618702 TGCATGATACAACCAATTCAAAATTT 57.381 26.923 0.00 0.00 0.00 1.82
143 146 7.758980 TGTATTCAGATTTTTGCGCAACATAAT 59.241 29.630 24.99 21.06 0.00 1.28
148 151 6.393720 AATGTATTCAGATTTTTGCGCAAC 57.606 33.333 24.99 11.66 0.00 4.17
153 156 9.624697 TGTGTAGAAATGTATTCAGATTTTTGC 57.375 29.630 0.00 0.00 28.34 3.68
194 199 9.599866 AATTCGATACTTTACAGATCAACATCA 57.400 29.630 0.00 0.00 0.00 3.07
257 262 1.587946 CAAAGTTCGGTGCAAGCAAAC 59.412 47.619 0.00 0.00 0.00 2.93
268 273 5.233902 TGTTCATTTTTGCATCAAAGTTCGG 59.766 36.000 0.00 0.00 34.72 4.30
291 296 2.894126 ACTGTACCTTCTGTCCTCACTG 59.106 50.000 0.00 0.00 0.00 3.66
293 298 2.028930 CCACTGTACCTTCTGTCCTCAC 60.029 54.545 0.00 0.00 0.00 3.51
337 741 7.497909 AGACAAAAGGAACATCTAACTTTCGAA 59.502 33.333 0.00 0.00 32.44 3.71
338 742 6.990349 AGACAAAAGGAACATCTAACTTTCGA 59.010 34.615 0.00 0.00 32.44 3.71
339 743 7.190920 AGACAAAAGGAACATCTAACTTTCG 57.809 36.000 0.00 0.00 32.44 3.46
369 774 2.999507 TCAGTTCTCTCGAAGCTGTC 57.000 50.000 0.00 0.00 33.68 3.51
373 778 1.478510 TCCCATCAGTTCTCTCGAAGC 59.521 52.381 0.00 0.00 0.00 3.86
374 779 2.757868 ACTCCCATCAGTTCTCTCGAAG 59.242 50.000 0.00 0.00 0.00 3.79
377 782 3.444034 TGTTACTCCCATCAGTTCTCTCG 59.556 47.826 0.00 0.00 0.00 4.04
382 787 7.494952 GGTTAATACTGTTACTCCCATCAGTTC 59.505 40.741 0.00 0.00 40.77 3.01
426 832 8.717717 ACTCCCATCAGTCATATCTGAATTTAA 58.282 33.333 0.62 0.00 45.65 1.52
429 835 6.760440 ACTCCCATCAGTCATATCTGAATT 57.240 37.500 0.62 0.00 45.65 2.17
430 836 9.726652 ATATACTCCCATCAGTCATATCTGAAT 57.273 33.333 0.62 0.00 45.65 2.57
505 1188 6.680148 TTGTTGCAGGCATATATAGGAGTA 57.320 37.500 0.00 0.00 0.00 2.59
506 1189 5.567037 TTGTTGCAGGCATATATAGGAGT 57.433 39.130 0.00 0.00 0.00 3.85
507 1190 6.093219 GTCATTGTTGCAGGCATATATAGGAG 59.907 42.308 0.00 0.00 0.00 3.69
508 1191 5.939883 GTCATTGTTGCAGGCATATATAGGA 59.060 40.000 0.00 0.00 0.00 2.94
509 1192 5.942236 AGTCATTGTTGCAGGCATATATAGG 59.058 40.000 0.00 0.00 0.00 2.57
510 1193 6.128090 CCAGTCATTGTTGCAGGCATATATAG 60.128 42.308 0.00 0.00 0.00 1.31
532 1215 4.153958 GACAGCGATACTATCTGTCCAG 57.846 50.000 9.70 0.00 46.56 3.86
616 1301 1.271102 ACAAGAGAAGAGCAGGTCGAC 59.729 52.381 7.13 7.13 0.00 4.20
714 1399 3.840666 AGTCTCTCTCTCTCTCTCTGTGT 59.159 47.826 0.00 0.00 0.00 3.72
717 1402 4.194640 CCAAGTCTCTCTCTCTCTCTCTG 58.805 52.174 0.00 0.00 0.00 3.35
735 1486 2.644992 GAACGCCCAGCAACCAAG 59.355 61.111 0.00 0.00 0.00 3.61
748 1499 2.124903 AGTAGCAACAGTGAACGAACG 58.875 47.619 0.00 0.00 0.00 3.95
749 1500 3.381949 AGAGTAGCAACAGTGAACGAAC 58.618 45.455 0.00 0.00 0.00 3.95
750 1501 3.318275 AGAGAGTAGCAACAGTGAACGAA 59.682 43.478 0.00 0.00 0.00 3.85
751 1502 2.885266 AGAGAGTAGCAACAGTGAACGA 59.115 45.455 0.00 0.00 0.00 3.85
939 1690 2.277404 GACTCGCCCCTCTCCTCT 59.723 66.667 0.00 0.00 0.00 3.69
1062 1819 0.704664 TGTACCTGAGGAGCCTCTCA 59.295 55.000 16.87 6.46 43.12 3.27
1067 1824 0.103208 CGTGATGTACCTGAGGAGCC 59.897 60.000 4.99 0.00 0.00 4.70
1209 1966 2.960170 GCTGCAGCCCTGAACAAG 59.040 61.111 28.76 0.00 34.31 3.16
1373 2130 2.875672 GCAACCTACATTGAGGCAGACA 60.876 50.000 0.00 0.00 40.65 3.41
1386 2143 0.443869 CGTGTCATGCAGCAACCTAC 59.556 55.000 0.00 0.00 0.00 3.18
1464 2221 4.545706 CGGCCCGGCAGATGCTTA 62.546 66.667 12.58 0.00 41.70 3.09
1585 2342 2.789842 CATGTGCATGGAGGAGGTG 58.210 57.895 4.35 0.00 35.24 4.00
1648 2405 2.412937 GGAATGGAATTGGGCGCG 59.587 61.111 0.00 0.00 36.07 6.86
1801 2558 2.191375 CTCGTGCTGCCCCATCAT 59.809 61.111 0.00 0.00 0.00 2.45
1827 2584 2.124983 ATGGCGATCGCAGCTTGT 60.125 55.556 38.00 15.87 44.11 3.16
1839 2596 4.862447 TAGCCCTGCTGCATGGCG 62.862 66.667 33.19 17.48 46.98 5.69
1872 2629 0.678395 TGAGTAAACCACCGCCGTTA 59.322 50.000 0.00 0.00 0.00 3.18
1895 2652 0.250513 GGCGTTCTGATCCCTGAAGT 59.749 55.000 0.00 0.00 32.11 3.01
2074 2831 2.591715 GATCCCGGCACCCATTCG 60.592 66.667 0.00 0.00 0.00 3.34
2112 2869 3.977244 CCCAACCCGTGCTGTTGC 61.977 66.667 0.00 0.00 41.33 4.17
2205 2968 1.202582 ACTTCCGAAGAGACGTCCATG 59.797 52.381 15.23 0.00 0.00 3.66
2232 2995 2.049248 GTCGTTGTACCGGCGGAA 60.049 61.111 35.78 14.51 0.00 4.30
2356 3119 5.013183 CGAAAGGATCTAATTAGGGGGTGAT 59.987 44.000 12.54 0.00 0.00 3.06
2388 3151 5.629079 AAGAACGAAGGCCTCAATTAAAG 57.371 39.130 5.23 0.00 0.00 1.85
2440 3203 4.569966 CGGTCTGAAATTCTGGATCAAGAG 59.430 45.833 0.00 0.00 0.00 2.85
2540 3303 7.012515 AGTGTATATATTACTGCTAGGCGCTAG 59.987 40.741 7.64 8.43 40.11 3.42
2541 3304 6.827251 AGTGTATATATTACTGCTAGGCGCTA 59.173 38.462 7.64 0.00 40.11 4.26
2542 3305 5.652891 AGTGTATATATTACTGCTAGGCGCT 59.347 40.000 7.64 0.00 40.11 5.92
2543 3306 5.744345 CAGTGTATATATTACTGCTAGGCGC 59.256 44.000 13.73 0.00 35.87 6.53
2544 3307 6.853720 ACAGTGTATATATTACTGCTAGGCG 58.146 40.000 20.99 5.51 44.22 5.52
2545 3308 6.967767 CGACAGTGTATATATTACTGCTAGGC 59.032 42.308 20.99 10.65 44.22 3.93
2546 3309 8.176365 GTCGACAGTGTATATATTACTGCTAGG 58.824 40.741 20.99 12.56 44.22 3.02
2574 3344 9.170584 GTTGAAGCAGACTTTACTTAAACAATC 57.829 33.333 0.00 0.00 35.61 2.67
2575 3345 8.903820 AGTTGAAGCAGACTTTACTTAAACAAT 58.096 29.630 10.46 0.00 37.27 2.71
2635 3411 3.670625 AGTACCGTTTTTGCAGCATCTA 58.329 40.909 0.00 0.00 0.00 1.98
2641 3417 0.865769 AGCGAGTACCGTTTTTGCAG 59.134 50.000 5.79 0.00 41.15 4.41
2650 3426 0.942962 ATAGGACGAAGCGAGTACCG 59.057 55.000 0.00 0.00 42.21 4.02
2677 3453 6.218019 TGCTACACTAGTGTCAATAACGTTT 58.782 36.000 31.11 5.64 43.74 3.60
2679 3714 5.381174 TGCTACACTAGTGTCAATAACGT 57.619 39.130 31.11 6.93 43.74 3.99
2684 3719 5.805486 CGTTGTATGCTACACTAGTGTCAAT 59.195 40.000 31.11 22.78 43.74 2.57
2704 3739 8.446273 CAGCTATGAAATATATTCCTTCCGTTG 58.554 37.037 0.00 0.00 0.00 4.10
2710 3745 8.737175 CACATGCAGCTATGAAATATATTCCTT 58.263 33.333 3.45 0.00 0.00 3.36
2755 3791 7.061789 GGGTTGCAAAAACATCTCGTTAATTAG 59.938 37.037 0.00 0.00 36.59 1.73
2764 3800 5.359756 AGAAAAGGGTTGCAAAAACATCTC 58.640 37.500 0.00 0.00 0.00 2.75
2893 3929 6.530120 TGTTGGAGAAACTTGTATGCTTCTA 58.470 36.000 0.00 0.00 39.70 2.10
2959 3995 6.319658 GCATGGTCATCCCCAATAATACATAG 59.680 42.308 0.00 0.00 38.20 2.23
2970 5215 1.148949 CGATGCATGGTCATCCCCA 59.851 57.895 2.46 0.00 39.64 4.96
2982 5227 0.871057 TTCATTTGTCGTGCGATGCA 59.129 45.000 0.00 0.00 35.60 3.96
2987 5232 3.410850 CAGAGATTTCATTTGTCGTGCG 58.589 45.455 0.00 0.00 0.00 5.34
2994 5239 6.452494 AGATTGCTCCAGAGATTTCATTTG 57.548 37.500 0.00 0.00 0.00 2.32
3009 5254 7.315142 TGTGTGATTTAAATTGGAGATTGCTC 58.685 34.615 1.43 0.00 40.54 4.26
3026 5271 4.339247 AGCAAGCTACAAGTTTGTGTGATT 59.661 37.500 7.73 3.33 42.31 2.57
3142 5387 6.148150 CACATTTGCTGGCAAACTGAATATTT 59.852 34.615 20.65 1.74 46.80 1.40
3175 5420 3.430453 TGGTGCTATCCCCTTTTGAAAG 58.570 45.455 0.00 0.00 35.79 2.62
3178 5423 1.340991 GCTGGTGCTATCCCCTTTTGA 60.341 52.381 0.00 0.00 36.03 2.69
3179 5424 1.106285 GCTGGTGCTATCCCCTTTTG 58.894 55.000 0.00 0.00 36.03 2.44
3190 5435 3.282021 CAATAATGTAGTGGCTGGTGCT 58.718 45.455 0.00 0.00 39.59 4.40
3196 5441 4.336433 GTGCATCACAATAATGTAGTGGCT 59.664 41.667 0.00 0.00 37.82 4.75
3210 5455 4.700268 AAAGATAAATGCGTGCATCACA 57.300 36.364 7.94 0.00 35.31 3.58


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

AutoCloner maintained by Alex Coulton.