Multiple sequence alignment - TraesCS3B01G106700

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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 TraesCS3B01G106700 chr3B 100.000 3054 0 0 1 3054 72318852 72321905 0.000000e+00 5640
1 TraesCS3B01G106700 chr3A 91.585 2852 196 23 205 3046 57860701 57863518 0.000000e+00 3897
2 TraesCS3B01G106700 chr3A 88.517 209 24 0 1 209 57860466 57860674 1.410000e-63 254
3 TraesCS3B01G106700 chr3D 94.772 1798 79 7 624 2407 46251049 46252845 0.000000e+00 2785
4 TraesCS3B01G106700 chr3D 86.130 584 72 7 2480 3054 46253161 46253744 3.340000e-174 621
5 TraesCS3B01G106700 chr3D 81.566 396 51 12 1 382 46250671 46251058 1.060000e-79 307


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 TraesCS3B01G106700 chr3B 72318852 72321905 3053 False 5640.000000 5640 100.000000 1 3054 1 chr3B.!!$F1 3053
1 TraesCS3B01G106700 chr3A 57860466 57863518 3052 False 2075.500000 3897 90.051000 1 3046 2 chr3A.!!$F1 3045
2 TraesCS3B01G106700 chr3D 46250671 46253744 3073 False 1237.666667 2785 87.489333 1 3054 3 chr3D.!!$F1 3053

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
691 735 0.384309 TACCGAGCCATGATGTCGTC 59.616 55.0 0.0 0.0 31.65 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2108 2158 0.103208 CTCGAGTCATAGGGTGCCAC 59.897 60.0 3.62 0.0 0.0 5.01 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
27 28 5.776716 ACAATCAAGAAATTGTCCACTCCAT 59.223 36.000 0.00 0.00 44.53 3.41
30 31 6.817765 TCAAGAAATTGTCCACTCCATAAC 57.182 37.500 0.00 0.00 0.00 1.89
41 42 3.815401 CCACTCCATAACGAATCATTCCC 59.185 47.826 0.00 0.00 0.00 3.97
46 47 6.936900 ACTCCATAACGAATCATTCCCTATTG 59.063 38.462 0.00 0.00 0.00 1.90
51 52 9.489084 CATAACGAATCATTCCCTATTGAACTA 57.511 33.333 0.00 0.00 0.00 2.24
75 76 4.787563 GCACGCCAAATGAGACATATTGAG 60.788 45.833 0.00 0.00 0.00 3.02
144 145 5.723295 ACTCAATTTTACATGCATGGAACC 58.277 37.500 29.41 0.00 28.40 3.62
217 260 8.381636 AGTTGATTATCTTATGGCATAGCTCTT 58.618 33.333 7.35 0.00 0.00 2.85
246 290 9.204337 TGCTAATGTTAATAGGTTAGTAGGTCA 57.796 33.333 0.00 0.00 0.00 4.02
283 327 9.862585 GCTTTACAAAATGTCAATAACAAAAGG 57.137 29.630 0.00 0.00 42.37 3.11
312 356 4.053295 CAAAAGTTCCTTCCGACGTTCTA 58.947 43.478 0.00 0.00 0.00 2.10
313 357 4.326504 AAAGTTCCTTCCGACGTTCTAA 57.673 40.909 0.00 0.00 0.00 2.10
317 361 1.962807 TCCTTCCGACGTTCTAAACCA 59.037 47.619 0.00 0.00 0.00 3.67
445 489 7.509546 TGGTTGGCCAAACAAAATAAAATAGA 58.490 30.769 33.84 5.41 42.83 1.98
448 492 8.495148 GTTGGCCAAACAAAATAAAATAGACAG 58.505 33.333 22.47 0.00 38.75 3.51
477 521 9.443283 GCTAGTTTAAAAAGCTACATCATCATG 57.557 33.333 13.85 0.00 33.28 3.07
492 536 7.064866 ACATCATCATGATCCACCTTAATGTT 58.935 34.615 4.86 0.00 34.28 2.71
502 546 4.701651 TCCACCTTAATGTTGAGCATTGAG 59.298 41.667 4.71 5.85 46.40 3.02
508 552 7.394359 ACCTTAATGTTGAGCATTGAGTGTTAT 59.606 33.333 11.61 0.00 46.40 1.89
517 561 7.781056 TGAGCATTGAGTGTTATCTATACACA 58.219 34.615 8.61 0.00 46.42 3.72
557 601 7.467557 TTCTCATTTGTTTTCTCAATTGTGC 57.532 32.000 5.13 0.00 33.33 4.57
559 603 5.916318 TCATTTGTTTTCTCAATTGTGCCT 58.084 33.333 5.13 0.00 33.33 4.75
565 609 6.503524 TGTTTTCTCAATTGTGCCTCTTAAC 58.496 36.000 5.13 2.22 0.00 2.01
602 646 6.174049 GTTCTTTAGCTAAGGGATGACAAGT 58.826 40.000 14.93 0.00 34.46 3.16
658 702 9.651913 CCAAATTAGTAAAATATGTTGGTTGCT 57.348 29.630 0.00 0.00 31.60 3.91
671 715 6.554334 TGTTGGTTGCTAGTGATAAGAAAC 57.446 37.500 0.00 0.00 32.49 2.78
691 735 0.384309 TACCGAGCCATGATGTCGTC 59.616 55.000 0.00 0.00 31.65 4.20
718 762 6.848562 ACCTAATGGAATCACCTATTTCCT 57.151 37.500 3.60 0.00 39.86 3.36
719 763 6.605119 ACCTAATGGAATCACCTATTTCCTG 58.395 40.000 3.60 0.00 39.86 3.86
721 765 7.062957 CCTAATGGAATCACCTATTTCCTGTT 58.937 38.462 3.60 2.09 39.86 3.16
778 826 0.479378 AAAGGCAAAACGGGGTAGGA 59.521 50.000 0.00 0.00 0.00 2.94
792 840 4.530946 CGGGGTAGGAATGTAGTATTGGAT 59.469 45.833 0.00 0.00 0.00 3.41
846 895 2.837591 TGTATTGCCAAGCTCTAGGTCA 59.162 45.455 0.00 0.00 0.00 4.02
859 908 7.010339 AGCTCTAGGTCATTTCTTGTTTAGT 57.990 36.000 0.00 0.00 0.00 2.24
1029 1078 1.214175 TCTGACAACCCCAAGAAAGCA 59.786 47.619 0.00 0.00 0.00 3.91
1065 1114 3.110705 TGAAGGAGAGGGAGGATTCTTG 58.889 50.000 0.00 0.00 0.00 3.02
1194 1243 5.761205 AGTCTTGAGAAGGTAGAGCTCATA 58.239 41.667 17.77 2.58 38.35 2.15
1315 1364 1.224315 CCGGATGCTGGAACCATCA 59.776 57.895 0.00 0.00 40.60 3.07
1455 1504 3.010472 TCCATGTTGATGTCCCAGTCATT 59.990 43.478 0.00 0.00 0.00 2.57
1497 1546 0.618968 AGAAAGCCGGTGAGATCCCT 60.619 55.000 1.90 0.00 0.00 4.20
1605 1654 6.483307 TGAATCTCGACAACAAGAATGACTTT 59.517 34.615 0.00 0.00 36.61 2.66
1680 1729 2.224042 TGCTTCTGCTGAGACGAAAGAA 60.224 45.455 0.00 0.00 40.48 2.52
1710 1759 7.434013 ACAAACATTAAAAAGCAGGAAGTAACG 59.566 33.333 0.00 0.00 0.00 3.18
1815 1864 4.853924 CACCATAAAGGGGCATATTGAC 57.146 45.455 0.00 0.00 43.89 3.18
1860 1909 8.363390 CACATGAAGATACCTATTAGCAGAGAA 58.637 37.037 0.00 0.00 0.00 2.87
1890 1939 5.530712 ACAACTCGACTAAAGAAGGAAGAC 58.469 41.667 0.00 0.00 0.00 3.01
1896 1945 4.794246 CGACTAAAGAAGGAAGACGATGAC 59.206 45.833 0.00 0.00 31.62 3.06
2072 2121 8.084684 AGGACTAAAAATTGAAGAAATGCACTC 58.915 33.333 0.00 0.00 0.00 3.51
2075 2124 8.632679 ACTAAAAATTGAAGAAATGCACTCTCA 58.367 29.630 0.00 0.00 0.00 3.27
2082 2131 3.350833 AGAAATGCACTCTCATGGAACC 58.649 45.455 0.00 0.00 0.00 3.62
2108 2158 8.682016 CGAGTTAATGCTTTGAAGTTTAACAAG 58.318 33.333 20.59 14.70 38.17 3.16
2113 2163 4.081972 TGCTTTGAAGTTTAACAAGTGGCA 60.082 37.500 0.00 0.00 0.00 4.92
2138 2201 4.096532 CCTATGACTCGAGAGCACTTTGTA 59.903 45.833 21.68 5.04 0.00 2.41
2139 2202 4.727507 ATGACTCGAGAGCACTTTGTAT 57.272 40.909 21.68 0.00 0.00 2.29
2140 2203 3.838120 TGACTCGAGAGCACTTTGTATG 58.162 45.455 21.68 0.00 0.00 2.39
2141 2204 2.600867 GACTCGAGAGCACTTTGTATGC 59.399 50.000 21.68 0.00 43.74 3.14
2194 2257 9.453572 TGCTAACTGTGAGAATTTTGAGATATT 57.546 29.630 0.00 0.00 0.00 1.28
2258 2321 1.340600 TGTGATTCCAATTCGGGGTCC 60.341 52.381 0.00 0.00 34.36 4.46
2309 2379 7.363205 CAAAGTCATTGTTGTTTGGAGTTTT 57.637 32.000 0.00 0.00 34.16 2.43
2376 2447 3.181487 GCTTTCAAAGAGTCCAAGCAACA 60.181 43.478 0.00 0.00 39.76 3.33
2407 2479 1.987807 AAGGTGGCGCTGGCATAGAT 61.988 55.000 7.64 0.00 40.92 1.98
2411 2483 0.533531 TGGCGCTGGCATAGATTCTG 60.534 55.000 7.64 0.00 42.47 3.02
2443 2518 1.993391 GGGTCTCCGATGGTTGGGA 60.993 63.158 0.00 0.00 0.00 4.37
2460 2535 1.141858 GGGATCACATCTCCAAGGTCC 59.858 57.143 0.00 0.00 34.24 4.46
2461 2536 1.202580 GGATCACATCTCCAAGGTCCG 60.203 57.143 0.00 0.00 32.72 4.79
2464 2539 0.321671 CACATCTCCAAGGTCCGTGT 59.678 55.000 4.00 0.00 0.00 4.49
2471 2546 1.024579 CCAAGGTCCGTGTGTATGCC 61.025 60.000 4.00 0.00 0.00 4.40
2472 2547 0.321210 CAAGGTCCGTGTGTATGCCA 60.321 55.000 0.00 0.00 0.00 4.92
2506 2821 2.609244 GCAAATGTTATTGGTGTGCCGT 60.609 45.455 0.00 0.00 37.67 5.68
2507 2822 3.366476 GCAAATGTTATTGGTGTGCCGTA 60.366 43.478 0.00 0.00 37.67 4.02
2510 2825 0.372334 GTTATTGGTGTGCCGTAGCG 59.628 55.000 0.00 0.00 44.31 4.26
2520 2835 4.104776 GTGTGCCGTAGCGTATTAGTAAA 58.895 43.478 0.00 0.00 44.31 2.01
2539 2854 7.859325 AGTAAAAGAAAGTGCAAAGTCTACA 57.141 32.000 0.00 0.00 0.00 2.74
2540 2855 7.920738 AGTAAAAGAAAGTGCAAAGTCTACAG 58.079 34.615 0.00 0.00 0.00 2.74
2544 2859 1.884235 AGTGCAAAGTCTACAGGTGC 58.116 50.000 0.00 0.00 35.75 5.01
2550 2865 1.254026 AAGTCTACAGGTGCACGCTA 58.746 50.000 11.45 0.00 0.00 4.26
2556 2871 0.321671 ACAGGTGCACGCTACTCAAT 59.678 50.000 11.45 0.00 0.00 2.57
2718 3035 4.232354 AGGTAGGTTGAGGACTGGTACTAT 59.768 45.833 0.00 0.00 0.00 2.12
2734 3051 7.560262 ACTGGTACTATACTTCACTTCTATGCA 59.440 37.037 0.00 0.00 0.00 3.96
2771 3088 5.588648 AGTTTGTTATGCGCATTAGTGGTAT 59.411 36.000 30.42 3.47 0.00 2.73
2859 3177 3.390639 CCCTTCTACTCCTCTACTACCGA 59.609 52.174 0.00 0.00 0.00 4.69
2860 3178 4.041938 CCCTTCTACTCCTCTACTACCGAT 59.958 50.000 0.00 0.00 0.00 4.18
2905 3224 2.045926 GCTGTGAAGGCGATGGGT 60.046 61.111 0.00 0.00 0.00 4.51
2921 3240 4.796231 GTCCGACCATGCGCGAGT 62.796 66.667 12.10 0.00 0.00 4.18
2962 3285 2.265739 GCATGCGAGGTGTGGAGA 59.734 61.111 0.00 0.00 0.00 3.71
2977 3300 0.753848 GGAGAAGACGAGGGAGAGGG 60.754 65.000 0.00 0.00 0.00 4.30
2990 3313 1.542375 AGAGGGGAGGCAATGGTGT 60.542 57.895 0.00 0.00 0.00 4.16
3046 3369 2.738521 GACACGTCGTGGCAGCAT 60.739 61.111 26.19 4.89 41.94 3.79
3047 3370 3.015293 GACACGTCGTGGCAGCATG 62.015 63.158 26.19 0.00 41.94 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 7.656137 GCTAGTTCAATAGGGAATGATTCGTTA 59.344 37.037 0.00 0.00 0.00 3.18
30 31 5.991606 TGCTAGTTCAATAGGGAATGATTCG 59.008 40.000 0.00 0.00 0.00 3.34
41 42 4.332543 TCATTTGGCGTGCTAGTTCAATAG 59.667 41.667 0.00 0.00 0.00 1.73
46 47 2.094417 GTCTCATTTGGCGTGCTAGTTC 59.906 50.000 0.00 0.00 0.00 3.01
51 52 2.401583 TATGTCTCATTTGGCGTGCT 57.598 45.000 0.00 0.00 0.00 4.40
124 125 5.933463 ACTTGGTTCCATGCATGTAAAATTG 59.067 36.000 24.58 12.17 0.00 2.32
317 361 6.153340 CACATCCAAAATAGTCAACCATCCTT 59.847 38.462 0.00 0.00 0.00 3.36
445 489 6.531021 TGTAGCTTTTTAAACTAGCCTCTGT 58.469 36.000 14.70 3.05 35.53 3.41
448 492 7.611213 TGATGTAGCTTTTTAAACTAGCCTC 57.389 36.000 14.70 10.25 35.53 4.70
463 507 3.908733 AGGTGGATCATGATGATGTAGCT 59.091 43.478 14.30 12.51 37.20 3.32
492 536 7.781056 TGTGTATAGATAACACTCAATGCTCA 58.219 34.615 7.75 0.00 45.95 4.26
552 596 1.982226 TGCTAGGGTTAAGAGGCACAA 59.018 47.619 0.00 0.00 0.00 3.33
556 600 0.810426 GCGTGCTAGGGTTAAGAGGC 60.810 60.000 0.00 0.00 0.00 4.70
557 601 0.179081 GGCGTGCTAGGGTTAAGAGG 60.179 60.000 0.00 0.00 0.00 3.69
559 603 1.902556 GGGCGTGCTAGGGTTAAGA 59.097 57.895 0.00 0.00 0.00 2.10
565 609 2.798148 AAAGAACGGGCGTGCTAGGG 62.798 60.000 0.00 0.00 31.60 3.53
602 646 8.846943 AATAAATACAGATGATATGGCAACGA 57.153 30.769 0.00 0.00 42.51 3.85
658 702 4.951715 TGGCTCGGTAGTTTCTTATCACTA 59.048 41.667 0.00 0.00 0.00 2.74
671 715 0.385751 ACGACATCATGGCTCGGTAG 59.614 55.000 3.02 0.00 0.00 3.18
691 735 9.014297 GGAAATAGGTGATTCCATTAGGTATTG 57.986 37.037 0.00 0.00 43.73 1.90
824 873 3.198872 GACCTAGAGCTTGGCAATACAC 58.801 50.000 0.00 0.00 0.00 2.90
877 926 5.751243 AACGACACTGACAAAATAGCTTT 57.249 34.783 0.00 0.00 0.00 3.51
991 1040 2.872858 CAGAGGATGACATGCTGTGATG 59.127 50.000 24.37 10.01 43.26 3.07
1029 1078 3.251484 TCCTTCATCCTGGTCTTTGTCT 58.749 45.455 0.00 0.00 0.00 3.41
1101 1150 2.093467 GCTGACTGCGTCTTCAATCTTC 59.907 50.000 9.49 0.00 33.15 2.87
1194 1243 6.186957 TGGGTTTGTAATCATAACATCAGCT 58.813 36.000 0.00 0.00 0.00 4.24
1204 1253 4.488770 ACAGGGTTTGGGTTTGTAATCAT 58.511 39.130 0.00 0.00 0.00 2.45
1315 1364 1.281287 AGTCTCTGAGCCATGTGCATT 59.719 47.619 0.00 0.00 44.83 3.56
1605 1654 0.623723 GGGCATTAAGTCCCAGGTCA 59.376 55.000 9.34 0.00 42.18 4.02
1680 1729 8.860088 ACTTCCTGCTTTTTAATGTTTGTAGAT 58.140 29.630 0.00 0.00 0.00 1.98
1695 1744 2.922740 TGGTCGTTACTTCCTGCTTT 57.077 45.000 0.00 0.00 0.00 3.51
1710 1759 0.107703 TGATCGGCAAGGTCATGGTC 60.108 55.000 0.00 0.00 34.48 4.02
1815 1864 1.226746 GTCCAAAGGGAGTGTTCACG 58.773 55.000 0.00 0.00 46.12 4.35
1860 1909 3.640029 TCTTTAGTCGAGTTGTTCCACCT 59.360 43.478 0.00 0.00 0.00 4.00
1890 1939 2.897015 CTCATCGTTATCGTCGTCATCG 59.103 50.000 0.00 0.00 38.33 3.84
1896 1945 5.527511 AGTATACCTCATCGTTATCGTCG 57.472 43.478 0.00 0.00 38.33 5.12
2072 2121 3.535561 AGCATTAACTCGGTTCCATGAG 58.464 45.455 0.00 0.00 38.21 2.90
2075 2124 4.331968 TCAAAGCATTAACTCGGTTCCAT 58.668 39.130 0.00 0.00 0.00 3.41
2082 2131 8.555166 TTGTTAAACTTCAAAGCATTAACTCG 57.445 30.769 20.63 0.00 39.64 4.18
2108 2158 0.103208 CTCGAGTCATAGGGTGCCAC 59.897 60.000 3.62 0.00 0.00 5.01
2113 2163 1.064314 AGTGCTCTCGAGTCATAGGGT 60.064 52.381 13.13 0.00 0.00 4.34
2140 2203 9.586150 CGATTCAAATGTAAGTACATGATTAGC 57.414 33.333 0.00 0.00 45.55 3.09
2141 2204 9.586150 GCGATTCAAATGTAAGTACATGATTAG 57.414 33.333 0.00 0.63 45.55 1.73
2142 2205 9.325198 AGCGATTCAAATGTAAGTACATGATTA 57.675 29.630 0.00 0.00 45.55 1.75
2143 2206 8.124823 CAGCGATTCAAATGTAAGTACATGATT 58.875 33.333 0.00 0.00 45.55 2.57
2144 2207 7.633621 CAGCGATTCAAATGTAAGTACATGAT 58.366 34.615 0.00 0.00 45.55 2.45
2145 2208 6.456853 GCAGCGATTCAAATGTAAGTACATGA 60.457 38.462 0.00 0.00 45.55 3.07
2146 2209 5.678483 GCAGCGATTCAAATGTAAGTACATG 59.322 40.000 4.75 0.00 45.55 3.21
2148 2211 4.935205 AGCAGCGATTCAAATGTAAGTACA 59.065 37.500 0.00 0.00 40.98 2.90
2149 2212 5.470845 AGCAGCGATTCAAATGTAAGTAC 57.529 39.130 0.00 0.00 0.00 2.73
2150 2213 6.816640 AGTTAGCAGCGATTCAAATGTAAGTA 59.183 34.615 0.00 0.00 0.00 2.24
2151 2214 5.643777 AGTTAGCAGCGATTCAAATGTAAGT 59.356 36.000 0.00 0.00 0.00 2.24
2194 2257 8.428186 ACGAGAAAAGTGTTACACAATCTTTA 57.572 30.769 18.19 0.00 36.74 1.85
2258 2321 8.461222 TGCCATTGAACATCTTAATTACTTCTG 58.539 33.333 0.00 0.00 0.00 3.02
2309 2379 6.544928 TGGAATGTCAGAGCAATAGTAGAA 57.455 37.500 0.00 0.00 0.00 2.10
2347 2418 6.870439 GCTTGGACTCTTTGAAAGCAAATTAT 59.130 34.615 0.00 0.00 42.66 1.28
2348 2419 6.215845 GCTTGGACTCTTTGAAAGCAAATTA 58.784 36.000 0.00 0.00 42.66 1.40
2358 2429 2.951642 CCTTGTTGCTTGGACTCTTTGA 59.048 45.455 0.00 0.00 0.00 2.69
2376 2447 3.014623 GCGCCACCTTAGTTATTTCCTT 58.985 45.455 0.00 0.00 0.00 3.36
2429 2504 0.541392 TGTGATCCCAACCATCGGAG 59.459 55.000 0.00 0.00 0.00 4.63
2430 2505 1.140852 GATGTGATCCCAACCATCGGA 59.859 52.381 0.00 0.00 0.00 4.55
2431 2506 1.141657 AGATGTGATCCCAACCATCGG 59.858 52.381 0.00 0.00 38.91 4.18
2432 2507 2.487934 GAGATGTGATCCCAACCATCG 58.512 52.381 0.00 0.00 38.91 3.84
2433 2508 2.173356 TGGAGATGTGATCCCAACCATC 59.827 50.000 0.00 0.00 35.86 3.51
2434 2509 2.207988 TGGAGATGTGATCCCAACCAT 58.792 47.619 0.00 0.00 35.86 3.55
2435 2510 1.667595 TGGAGATGTGATCCCAACCA 58.332 50.000 0.00 0.00 35.86 3.67
2436 2511 2.648059 CTTGGAGATGTGATCCCAACC 58.352 52.381 0.00 0.00 35.84 3.77
2437 2512 2.025887 ACCTTGGAGATGTGATCCCAAC 60.026 50.000 0.00 0.00 35.84 3.77
2438 2513 2.239654 GACCTTGGAGATGTGATCCCAA 59.760 50.000 0.00 0.00 37.31 4.12
2439 2514 1.839994 GACCTTGGAGATGTGATCCCA 59.160 52.381 0.00 0.00 35.86 4.37
2440 2515 1.141858 GGACCTTGGAGATGTGATCCC 59.858 57.143 0.00 0.00 35.86 3.85
2443 2518 1.208052 CACGGACCTTGGAGATGTGAT 59.792 52.381 0.00 0.00 0.00 3.06
2460 2535 6.844696 ACTCTATATTTTGGCATACACACG 57.155 37.500 0.00 0.00 0.00 4.49
2461 2536 7.441157 TGCTACTCTATATTTTGGCATACACAC 59.559 37.037 0.00 0.00 0.00 3.82
2464 2539 8.972458 TTTGCTACTCTATATTTTGGCATACA 57.028 30.769 0.00 0.00 0.00 2.29
2506 2821 8.537049 TTGCACTTTCTTTTACTAATACGCTA 57.463 30.769 0.00 0.00 0.00 4.26
2507 2822 7.429636 TTGCACTTTCTTTTACTAATACGCT 57.570 32.000 0.00 0.00 0.00 5.07
2520 2835 4.576463 CACCTGTAGACTTTGCACTTTCTT 59.424 41.667 0.00 0.00 0.00 2.52
2539 2854 2.185004 AAATTGAGTAGCGTGCACCT 57.815 45.000 12.15 11.92 0.00 4.00
2540 2855 2.989422 AAAATTGAGTAGCGTGCACC 57.011 45.000 12.15 4.10 0.00 5.01
2544 2859 5.938322 ACCACAATAAAATTGAGTAGCGTG 58.062 37.500 6.64 0.00 0.00 5.34
2550 2865 6.493458 ACAAGGCTACCACAATAAAATTGAGT 59.507 34.615 6.64 6.11 0.00 3.41
2556 2871 8.519526 CAAGAATACAAGGCTACCACAATAAAA 58.480 33.333 0.00 0.00 0.00 1.52
2624 2940 1.133823 TGAACACAAGCCATCACACCT 60.134 47.619 0.00 0.00 0.00 4.00
2625 2941 1.317613 TGAACACAAGCCATCACACC 58.682 50.000 0.00 0.00 0.00 4.16
2667 2983 5.488341 TGTGCTGAGTATTCCCTTTTCTAC 58.512 41.667 0.00 0.00 0.00 2.59
2734 3051 9.592720 GCGCATAACAAACTTCAAATTTTTATT 57.407 25.926 0.30 0.00 0.00 1.40
2744 3061 5.389778 CACTAATGCGCATAACAAACTTCA 58.610 37.500 25.61 0.00 0.00 3.02
2745 3062 4.793216 CCACTAATGCGCATAACAAACTTC 59.207 41.667 25.61 0.00 0.00 3.01
2771 3088 6.014647 ACTAGTTCCCTGTGTCTATGTTGTA 58.985 40.000 0.00 0.00 0.00 2.41
2832 3149 5.635278 AGTAGAGGAGTAGAAGGGACTAC 57.365 47.826 0.00 0.00 38.49 2.73
2833 3150 5.606329 GGTAGTAGAGGAGTAGAAGGGACTA 59.394 48.000 0.00 0.00 38.49 2.59
2835 3152 4.717877 GGTAGTAGAGGAGTAGAAGGGAC 58.282 52.174 0.00 0.00 0.00 4.46
2859 3177 4.049186 GTCAACGACTTGTGTGTAGTCAT 58.951 43.478 0.00 0.00 41.64 3.06
2860 3178 3.129813 AGTCAACGACTTGTGTGTAGTCA 59.870 43.478 0.00 0.00 40.28 3.41
2905 3224 4.794439 CACTCGCGCATGGTCGGA 62.794 66.667 8.75 0.00 0.00 4.55
2917 3236 2.738521 CCAGGACGTTGCCACTCG 60.739 66.667 0.00 0.00 0.00 4.18
2946 3268 0.247460 TCTTCTCCACACCTCGCATG 59.753 55.000 0.00 0.00 0.00 4.06
2957 3279 0.033991 CCTCTCCCTCGTCTTCTCCA 60.034 60.000 0.00 0.00 0.00 3.86
2962 3285 1.308326 CTCCCCTCTCCCTCGTCTT 59.692 63.158 0.00 0.00 0.00 3.01
2977 3300 2.359850 TGCGACACCATTGCCTCC 60.360 61.111 0.00 0.00 36.80 4.30
3036 3359 2.103538 GATTGCCATGCTGCCACG 59.896 61.111 0.00 0.00 0.00 4.94


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

AutoCloner maintained by Alex Coulton.