Multiple sequence alignment - TraesCS3B01G302300

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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 TraesCS3B01G302300 chr3B 100.000 3123 0 0 1 3123 486376909 486380031 0.000000e+00 5768.0
1 TraesCS3B01G302300 chr3D 91.076 3059 161 51 6 2994 372313317 372316333 0.000000e+00 4034.0
2 TraesCS3B01G302300 chr3D 85.965 114 9 6 3014 3123 372316322 372316432 7.080000e-22 115.0
3 TraesCS3B01G302300 chr3D 92.857 42 3 0 1344 1385 602217257 602217298 9.350000e-06 62.1
4 TraesCS3B01G302300 chr3A 89.696 2766 176 52 6 2703 493711086 493713810 0.000000e+00 3428.0
5 TraesCS3B01G302300 chr7B 83.333 264 34 10 980 1239 451656591 451656334 5.210000e-58 235.0
6 TraesCS3B01G302300 chr7B 80.556 252 39 9 1888 2136 451655876 451655632 5.320000e-43 185.0
7 TraesCS3B01G302300 chr7D 80.935 278 42 11 980 1251 434912248 434911976 3.160000e-50 209.0
8 TraesCS3B01G302300 chr7D 78.161 261 41 13 1888 2136 434911527 434911271 5.390000e-33 152.0
9 TraesCS3B01G302300 chr7D 93.023 43 3 0 1340 1382 13035045 13035087 2.600000e-06 63.9
10 TraesCS3B01G302300 chr7A 81.579 266 37 11 980 1239 485200566 485200307 3.160000e-50 209.0
11 TraesCS3B01G302300 chr7A 79.184 245 43 8 1889 2127 485199801 485199559 2.490000e-36 163.0
12 TraesCS3B01G302300 chr1D 93.684 95 6 0 1131 1225 463496711 463496617 3.250000e-30 143.0
13 TraesCS3B01G302300 chr1B 93.684 95 6 0 1131 1225 638930772 638930866 3.250000e-30 143.0
14 TraesCS3B01G302300 chr4B 87.288 118 10 2 1344 1456 254413365 254413248 2.530000e-26 130.0
15 TraesCS3B01G302300 chr5B 84.821 112 12 2 1342 1448 50537212 50537101 1.180000e-19 108.0
16 TraesCS3B01G302300 chr5B 93.023 43 1 2 1344 1385 467945663 467945622 9.350000e-06 62.1
17 TraesCS3B01G302300 chr4A 93.023 43 3 0 1340 1382 724557460 724557502 2.600000e-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 TraesCS3B01G302300 chr3B 486376909 486380031 3122 False 5768.0 5768 100.0000 1 3123 1 chr3B.!!$F1 3122
1 TraesCS3B01G302300 chr3D 372313317 372316432 3115 False 2074.5 4034 88.5205 6 3123 2 chr3D.!!$F2 3117
2 TraesCS3B01G302300 chr3A 493711086 493713810 2724 False 3428.0 3428 89.6960 6 2703 1 chr3A.!!$F1 2697
3 TraesCS3B01G302300 chr7B 451655632 451656591 959 True 210.0 235 81.9445 980 2136 2 chr7B.!!$R1 1156

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
234 243 0.249120 CACTTGACCGAGCCCACATA 59.751 55.0 0.0 0.0 0.0 2.29 F
586 615 0.320374 CCACTCGTGTTAGCCCTGAA 59.680 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1128 1168 1.068127 GCACCGTACCTGGTACCTATG 59.932 57.143 26.80 22.14 41.38 2.23 R
2409 2651 2.575735 TGCTCATTCATGGGGTGAGTAA 59.424 45.455 17.91 9.07 41.04 2.24 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
76 77 5.265989 TGATTATTTTTAAGGGCTCGGGTT 58.734 37.500 0.00 0.00 0.00 4.11
93 94 6.367969 GCTCGGGTTCGAATATGTTAACATAT 59.632 38.462 27.97 27.97 45.47 1.78
177 179 1.876156 GTGAAGAAAGCCCACTCTGTG 59.124 52.381 0.00 0.00 0.00 3.66
178 180 1.490490 TGAAGAAAGCCCACTCTGTGT 59.510 47.619 0.00 0.00 0.00 3.72
185 194 2.821437 AGCCCACTCTGTGTACATACT 58.179 47.619 0.00 0.00 0.00 2.12
187 196 4.350245 AGCCCACTCTGTGTACATACTTA 58.650 43.478 0.00 0.00 0.00 2.24
224 233 3.005897 CCACCTATCTATCCACTTGACCG 59.994 52.174 0.00 0.00 0.00 4.79
234 243 0.249120 CACTTGACCGAGCCCACATA 59.751 55.000 0.00 0.00 0.00 2.29
294 322 5.692928 TCCGATATATAAGCTCCCCTCTAC 58.307 45.833 0.00 0.00 0.00 2.59
345 373 2.196925 CCATCTCTCCGCCTACGCT 61.197 63.158 0.00 0.00 38.22 5.07
439 467 2.927477 TGCGATAGTGAATCACGTTTCC 59.073 45.455 7.83 0.00 39.64 3.13
447 475 1.463444 GAATCACGTTTCCGTCTTGGG 59.537 52.381 0.00 0.00 46.28 4.12
496 524 4.785975 GCGAGATCGTAGTGTTTCTAGGTC 60.786 50.000 3.94 0.00 42.22 3.85
586 615 0.320374 CCACTCGTGTTAGCCCTGAA 59.680 55.000 0.00 0.00 0.00 3.02
590 619 2.301870 ACTCGTGTTAGCCCTGAATTGA 59.698 45.455 0.00 0.00 0.00 2.57
594 623 3.678806 CGTGTTAGCCCTGAATTGAGCTA 60.679 47.826 0.00 0.00 36.79 3.32
632 661 0.918983 TTCCTCTGGGCCAATCGATT 59.081 50.000 8.04 4.39 0.00 3.34
713 743 2.811431 TCCCTTGTGTACAAAATCTGCG 59.189 45.455 0.00 0.00 35.15 5.18
720 750 2.875317 TGTACAAAATCTGCGCTGACAA 59.125 40.909 19.81 0.00 0.00 3.18
765 795 4.505324 AAGGTAGAATAGCAGGGGAAAC 57.495 45.455 0.00 0.00 42.67 2.78
807 837 3.561310 TGAGTGGAGCATGCGATATTTTC 59.439 43.478 13.01 1.84 0.00 2.29
809 839 3.812053 AGTGGAGCATGCGATATTTTCTC 59.188 43.478 13.01 0.24 0.00 2.87
835 865 5.368989 GGGAAGGATACAAACTGGATGTAG 58.631 45.833 0.00 0.00 36.75 2.74
844 874 9.988815 GATACAAACTGGATGTAGTATCAGAAT 57.011 33.333 0.00 0.00 41.43 2.40
913 951 6.371271 CCGAAGTTAATCAATTGCCCAAATTT 59.629 34.615 0.00 0.00 36.28 1.82
1057 1097 2.658285 TCGTCGGGAAGTATGGTATGT 58.342 47.619 0.00 0.00 0.00 2.29
1091 1131 4.299586 TGGCTCATTTACCTGTTCATGA 57.700 40.909 0.00 0.00 0.00 3.07
1092 1132 4.858850 TGGCTCATTTACCTGTTCATGAT 58.141 39.130 0.00 0.00 0.00 2.45
1101 1141 4.298103 ACCTGTTCATGATCTTCTGCTT 57.702 40.909 0.00 0.00 0.00 3.91
1128 1168 4.427312 CTGAAATTAGCCCTTGCAATGTC 58.573 43.478 0.00 0.00 41.13 3.06
1303 1348 7.618502 TGTATGAACTGTTGTTGTTTACTGT 57.381 32.000 0.00 0.00 36.39 3.55
1363 1408 5.777449 TCATACTCCCTCAGTCTGGAATTA 58.223 41.667 0.00 0.00 36.43 1.40
1383 1428 8.730680 GGAATTACTTGTCGCATAAATGGATAT 58.269 33.333 0.00 0.00 0.00 1.63
1452 1503 5.380043 ACATGTATTTCTGGATGGATGGAC 58.620 41.667 0.00 0.00 0.00 4.02
1561 1613 8.447924 AATTCCTCTCATCTTGTTATGTCATG 57.552 34.615 0.00 0.00 0.00 3.07
1608 1660 8.526147 AGCTGTTTTATCTTCTATTTGCAACAT 58.474 29.630 0.00 0.00 0.00 2.71
1658 1710 7.333528 TGCCATTCTAATTGTAGTTTCATCC 57.666 36.000 0.00 0.00 0.00 3.51
1704 1756 9.108284 CTTATTGTACATGTTGTCATCACCATA 57.892 33.333 2.30 0.00 31.15 2.74
1708 1760 8.171164 TGTACATGTTGTCATCACCATAAAAA 57.829 30.769 2.30 0.00 31.15 1.94
1954 2165 1.529010 CTGTGGCAAGGTCAAGGCA 60.529 57.895 0.00 0.00 38.03 4.75
2144 2384 6.701340 TGATTGCACTACTGTTATCTTGAGT 58.299 36.000 0.00 0.00 0.00 3.41
2257 2497 8.796475 TCTGATTTTAGGATCTTTGAAACTTGG 58.204 33.333 0.00 0.00 0.00 3.61
2304 2544 7.767261 TGTTATGTGTTATGCCAACCTATTTC 58.233 34.615 0.00 0.00 0.00 2.17
2345 2585 0.784495 ACTCTCTACCCCTCCACACA 59.216 55.000 0.00 0.00 0.00 3.72
2356 2596 2.586425 CCTCCACACACCAAGTCAATT 58.414 47.619 0.00 0.00 0.00 2.32
2409 2651 4.115516 CACAGTATAGATGCAAACGAGCT 58.884 43.478 0.00 0.00 34.99 4.09
2428 2670 3.118112 AGCTTACTCACCCCATGAATGAG 60.118 47.826 15.31 15.31 44.49 2.90
2429 2671 3.209410 CTTACTCACCCCATGAATGAGC 58.791 50.000 16.30 0.00 43.04 4.26
2430 2672 0.994247 ACTCACCCCATGAATGAGCA 59.006 50.000 16.30 0.00 43.04 4.26
2447 2701 3.244156 GAGCATCTATGAGCATCTGTCG 58.756 50.000 0.00 0.00 34.92 4.35
2496 2756 5.420409 GGAGGAAAATGTGAGTAGTAGTGG 58.580 45.833 0.00 0.00 0.00 4.00
2527 2787 1.342674 ACTTATCCTGACGGGCTGGTA 60.343 52.381 6.66 0.00 36.96 3.25
2528 2788 1.760613 CTTATCCTGACGGGCTGGTAA 59.239 52.381 6.66 4.58 36.96 2.85
2529 2789 1.868713 TATCCTGACGGGCTGGTAAA 58.131 50.000 6.66 0.00 36.96 2.01
2642 2920 8.261492 TGTTTTATTGTCATGCAAAGTTTTGT 57.739 26.923 6.48 0.00 40.91 2.83
2643 2921 8.173775 TGTTTTATTGTCATGCAAAGTTTTGTG 58.826 29.630 6.48 0.00 40.91 3.33
2647 2925 3.119209 TGTCATGCAAAGTTTTGTGCTGA 60.119 39.130 6.48 4.74 41.48 4.26
2705 2983 8.715191 TTGATGTTCAAAAGTGCTTACAAAAT 57.285 26.923 0.00 0.00 32.71 1.82
2707 2985 6.900568 TGTTCAAAAGTGCTTACAAAATGG 57.099 33.333 0.00 0.00 0.00 3.16
2719 2997 5.585844 GCTTACAAAATGGGGAAATGATTGG 59.414 40.000 0.00 0.00 0.00 3.16
2732 3010 1.902938 TGATTGGAATCAACCACGCA 58.097 45.000 0.00 0.00 42.11 5.24
2733 3011 2.445427 TGATTGGAATCAACCACGCAT 58.555 42.857 0.00 0.00 42.11 4.73
2734 3012 2.824936 TGATTGGAATCAACCACGCATT 59.175 40.909 0.00 0.00 42.11 3.56
2735 3013 2.721274 TTGGAATCAACCACGCATTG 57.279 45.000 0.00 0.00 39.85 2.82
2736 3014 0.243365 TGGAATCAACCACGCATTGC 59.757 50.000 0.00 0.00 34.77 3.56
2764 3042 1.506262 CCCCAAGATCGCCGTTTTG 59.494 57.895 0.00 0.00 0.00 2.44
2786 3066 6.279513 TGTCTCTTCCTCTCAATCTTTCTC 57.720 41.667 0.00 0.00 0.00 2.87
2788 3068 4.111916 CTCTTCCTCTCAATCTTTCTCGC 58.888 47.826 0.00 0.00 0.00 5.03
2809 3089 3.020026 CTTCTCACTTGCAGCGGCG 62.020 63.158 0.51 0.51 45.35 6.46
2823 3103 3.508840 GGCGTCCAGGATTTGCCG 61.509 66.667 13.00 3.64 43.43 5.69
2824 3104 4.179579 GCGTCCAGGATTTGCCGC 62.180 66.667 5.70 5.70 43.43 6.53
2846 3126 4.093952 CGCAAGTGCCGCTCCAAG 62.094 66.667 0.00 0.00 37.91 3.61
2847 3127 2.980233 GCAAGTGCCGCTCCAAGT 60.980 61.111 0.00 0.00 34.31 3.16
2866 3146 0.323633 TCAAGCCACCCATCCATGTG 60.324 55.000 0.00 0.00 0.00 3.21
2905 3185 4.927782 TCGGGTTGCTGCGTGCTT 62.928 61.111 0.00 0.00 43.37 3.91
2999 3281 4.680237 CGGCGGTGGAGTTCTGCA 62.680 66.667 0.00 0.00 38.75 4.41
3001 3283 1.896660 GGCGGTGGAGTTCTGCAAA 60.897 57.895 0.00 0.00 38.75 3.68
3002 3284 1.576421 GCGGTGGAGTTCTGCAAAG 59.424 57.895 0.00 0.00 37.18 2.77
3003 3285 1.856265 GCGGTGGAGTTCTGCAAAGG 61.856 60.000 0.00 0.00 37.18 3.11
3005 3287 0.954452 GGTGGAGTTCTGCAAAGGTG 59.046 55.000 0.00 0.00 0.00 4.00
3006 3288 1.680338 GTGGAGTTCTGCAAAGGTGT 58.320 50.000 0.00 0.00 0.00 4.16
3008 3290 2.023673 TGGAGTTCTGCAAAGGTGTTG 58.976 47.619 0.00 0.00 0.00 3.33
3009 3291 1.269257 GGAGTTCTGCAAAGGTGTTGC 60.269 52.381 4.12 4.12 45.11 4.17
3025 3307 4.577246 GCAAACGGCGGTGGCAAA 62.577 61.111 21.47 0.00 42.47 3.68
3026 3308 2.105128 CAAACGGCGGTGGCAAAA 59.895 55.556 13.24 0.00 42.47 2.44
3027 3309 1.300542 CAAACGGCGGTGGCAAAAT 60.301 52.632 13.24 0.00 42.47 1.82
3028 3310 1.006688 AAACGGCGGTGGCAAAATC 60.007 52.632 13.24 0.00 42.47 2.17
3029 3311 2.428960 AAACGGCGGTGGCAAAATCC 62.429 55.000 13.24 0.00 42.47 3.01
3030 3312 4.128388 CGGCGGTGGCAAAATCCC 62.128 66.667 0.00 0.00 42.47 3.85
3031 3313 2.994417 GGCGGTGGCAAAATCCCA 60.994 61.111 0.00 0.00 42.47 4.37
3032 3314 2.358372 GGCGGTGGCAAAATCCCAT 61.358 57.895 0.00 0.00 42.47 4.00
3033 3315 1.153588 GCGGTGGCAAAATCCCATG 60.154 57.895 0.00 0.00 39.62 3.66
3034 3316 1.153588 CGGTGGCAAAATCCCATGC 60.154 57.895 0.00 0.00 41.82 4.06
3035 3317 1.606885 CGGTGGCAAAATCCCATGCT 61.607 55.000 0.00 0.00 42.20 3.79
3036 3318 0.614812 GGTGGCAAAATCCCATGCTT 59.385 50.000 0.00 0.00 42.20 3.91
3037 3319 1.405933 GGTGGCAAAATCCCATGCTTC 60.406 52.381 0.00 0.00 42.20 3.86
3038 3320 1.551883 GTGGCAAAATCCCATGCTTCT 59.448 47.619 0.00 0.00 42.20 2.85
3039 3321 2.027837 GTGGCAAAATCCCATGCTTCTT 60.028 45.455 0.00 0.00 42.20 2.52
3040 3322 2.638855 TGGCAAAATCCCATGCTTCTTT 59.361 40.909 0.00 0.00 42.20 2.52
3044 3326 2.165357 AATCCCATGCTTCTTTCCCC 57.835 50.000 0.00 0.00 0.00 4.81
3045 3327 0.262876 ATCCCATGCTTCTTTCCCCC 59.737 55.000 0.00 0.00 0.00 5.40
3047 3329 0.396278 CCCATGCTTCTTTCCCCCTC 60.396 60.000 0.00 0.00 0.00 4.30
3053 3335 1.002857 CTTCTTTCCCCCTCCATGGT 58.997 55.000 12.58 0.00 0.00 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.297664 TGGCATGCACTTTGTTTTGC 58.702 45.000 21.36 0.00 39.33 3.68
45 46 8.379428 AGCCCTTAAAAATAATCAAAGTCCAT 57.621 30.769 0.00 0.00 0.00 3.41
58 59 2.089201 CGAACCCGAGCCCTTAAAAAT 58.911 47.619 0.00 0.00 38.22 1.82
61 62 0.686224 TTCGAACCCGAGCCCTTAAA 59.314 50.000 0.00 0.00 46.39 1.52
177 179 8.513774 GGGCTTATCACTACTCTAAGTATGTAC 58.486 40.741 0.00 0.00 29.08 2.90
178 180 8.222637 TGGGCTTATCACTACTCTAAGTATGTA 58.777 37.037 0.00 0.00 29.08 2.29
185 194 4.880164 AGGTGGGCTTATCACTACTCTAA 58.120 43.478 0.00 0.00 35.61 2.10
187 196 3.406512 AGGTGGGCTTATCACTACTCT 57.593 47.619 0.00 0.00 35.61 3.24
224 233 0.108520 TCGACGGTTTATGTGGGCTC 60.109 55.000 0.00 0.00 0.00 4.70
234 243 2.281276 GTGGGCCTTCGACGGTTT 60.281 61.111 9.98 0.00 0.00 3.27
439 467 0.725117 GAAATACCGCACCCAAGACG 59.275 55.000 0.00 0.00 0.00 4.18
447 475 4.067972 TGGATCCTAAGAAATACCGCAC 57.932 45.455 14.23 0.00 0.00 5.34
496 524 0.527113 TTGCTGCACCATGATTTCGG 59.473 50.000 0.00 0.00 0.00 4.30
594 623 7.118680 CAGAGGAAATTTGCATAAAAAGCACAT 59.881 33.333 12.54 0.00 42.54 3.21
612 641 0.918983 ATCGATTGGCCCAGAGGAAA 59.081 50.000 0.00 0.00 33.47 3.13
632 661 5.763204 AGGTTCTAAGCGAATTGAAGAACAA 59.237 36.000 13.64 0.00 44.97 2.83
684 713 1.235724 GTACACAAGGGACTGGTTGC 58.764 55.000 0.00 0.00 41.93 4.17
713 743 2.032981 CCCACAACACCTTGTCAGC 58.967 57.895 0.00 0.00 38.66 4.26
720 750 1.455587 CCACAAGCCCACAACACCT 60.456 57.895 0.00 0.00 0.00 4.00
768 798 2.031682 ACTCAAACAACTTGCGCAGATC 60.032 45.455 11.31 0.00 34.76 2.75
781 811 0.250252 TCGCATGCTCCACTCAAACA 60.250 50.000 17.13 0.00 0.00 2.83
807 837 3.370953 CCAGTTTGTATCCTTCCCCAGAG 60.371 52.174 0.00 0.00 0.00 3.35
809 839 2.576191 TCCAGTTTGTATCCTTCCCCAG 59.424 50.000 0.00 0.00 0.00 4.45
852 882 9.769093 GCTTAACATCAACGAAACACTAAATAT 57.231 29.630 0.00 0.00 0.00 1.28
913 951 6.751425 GCAACTGCTAATGCACATTTAACATA 59.249 34.615 0.47 0.00 45.31 2.29
969 1008 6.151691 ACAACAAATTACACAGCAGCATAAG 58.848 36.000 0.00 0.00 0.00 1.73
1014 1054 2.564721 GGCCTTCTTGGTGCGCTTT 61.565 57.895 9.73 0.00 38.35 3.51
1057 1097 4.870123 AATGAGCCAAATGTTACAAGCA 57.130 36.364 0.00 0.00 0.00 3.91
1091 1131 6.127786 GCTAATTTCAGGACAAAGCAGAAGAT 60.128 38.462 0.00 0.00 0.00 2.40
1092 1132 5.182001 GCTAATTTCAGGACAAAGCAGAAGA 59.818 40.000 0.00 0.00 0.00 2.87
1101 1141 2.825532 GCAAGGGCTAATTTCAGGACAA 59.174 45.455 0.00 0.00 36.96 3.18
1128 1168 1.068127 GCACCGTACCTGGTACCTATG 59.932 57.143 26.80 22.14 41.38 2.23
1363 1408 8.445275 TGTTTATATCCATTTATGCGACAAGT 57.555 30.769 0.00 0.00 0.00 3.16
1428 1479 6.329986 AGTCCATCCATCCAGAAATACATGTA 59.670 38.462 8.27 8.27 0.00 2.29
1432 1483 7.392766 AATAGTCCATCCATCCAGAAATACA 57.607 36.000 0.00 0.00 0.00 2.29
1530 1582 5.422214 ACAAGATGAGAGGAATTTACGGT 57.578 39.130 0.00 0.00 0.00 4.83
1561 1613 7.038659 CAGCTAGCATAAGATATTACAGGGTC 58.961 42.308 18.83 0.00 0.00 4.46
1608 1660 7.731054 ACAATAAAACCAAATTGGACAGCTTA 58.269 30.769 20.25 8.39 40.96 3.09
1612 1664 6.293353 GGCAACAATAAAACCAAATTGGACAG 60.293 38.462 20.25 3.76 40.96 3.51
1704 1756 9.338622 AGATTACTACAGTACAACAAGCTTTTT 57.661 29.630 0.00 0.00 0.00 1.94
1708 1760 7.039644 ACTCAGATTACTACAGTACAACAAGCT 60.040 37.037 0.00 0.00 0.00 3.74
2136 2376 4.164988 CAGAACCCCTGGATTACTCAAGAT 59.835 45.833 0.00 0.00 39.23 2.40
2257 2497 3.532542 GGCAACTGTAGGGACATACTTC 58.467 50.000 0.00 0.00 34.24 3.01
2286 2526 9.868277 CAAAAATAGAAATAGGTTGGCATAACA 57.132 29.630 5.59 0.00 0.00 2.41
2304 2544 5.905903 GTGAGAGACGTGTCACAAAAATAG 58.094 41.667 14.09 0.00 44.60 1.73
2375 2616 7.661437 TGCATCTATACTGTGTTCAAAAAGAGT 59.339 33.333 0.00 0.00 0.00 3.24
2384 2626 5.500931 GCTCGTTTGCATCTATACTGTGTTC 60.501 44.000 0.00 0.00 0.00 3.18
2409 2651 2.575735 TGCTCATTCATGGGGTGAGTAA 59.424 45.455 17.91 9.07 41.04 2.24
2428 2670 2.985809 GACGACAGATGCTCATAGATGC 59.014 50.000 0.00 0.00 0.00 3.91
2429 2671 4.023365 TCAGACGACAGATGCTCATAGATG 60.023 45.833 0.00 0.00 0.00 2.90
2430 2672 4.140536 TCAGACGACAGATGCTCATAGAT 58.859 43.478 0.00 0.00 0.00 1.98
2447 2701 6.256686 GCAATGTTCATTCTCAATCTCAGAC 58.743 40.000 0.00 0.00 0.00 3.51
2485 2745 4.336153 GTCCTAGACTTGCCACTACTACTC 59.664 50.000 0.00 0.00 0.00 2.59
2518 2778 6.127730 ACAATTTTAGAGATTTTACCAGCCCG 60.128 38.462 0.00 0.00 0.00 6.13
2553 2813 3.922171 TTCAAAAACTGGGGTGCATTT 57.078 38.095 0.00 0.00 0.00 2.32
2627 2905 3.797451 TCAGCACAAAACTTTGCATGA 57.203 38.095 0.00 2.19 41.79 3.07
2705 2983 3.774216 GGTTGATTCCAATCATTTCCCCA 59.226 43.478 2.83 0.00 44.27 4.96
2707 2985 4.677779 CGTGGTTGATTCCAATCATTTCCC 60.678 45.833 2.83 2.88 44.37 3.97
2745 3023 2.340328 AAAACGGCGATCTTGGGGC 61.340 57.895 16.62 0.00 0.00 5.80
2746 3024 1.241315 ACAAAACGGCGATCTTGGGG 61.241 55.000 16.62 0.00 0.00 4.96
2753 3031 1.002087 AGGAAGAGACAAAACGGCGAT 59.998 47.619 16.62 0.00 0.00 4.58
2760 3038 7.512992 AGAAAGATTGAGAGGAAGAGACAAAA 58.487 34.615 0.00 0.00 0.00 2.44
2764 3042 5.339990 CGAGAAAGATTGAGAGGAAGAGAC 58.660 45.833 0.00 0.00 0.00 3.36
2786 3066 0.096628 GCTGCAAGTGAGAAGATGCG 59.903 55.000 0.00 0.00 41.61 4.73
2809 3089 2.435938 TCGCGGCAAATCCTGGAC 60.436 61.111 6.13 0.00 0.00 4.02
2837 3117 2.032528 TGGCTTGACTTGGAGCGG 59.967 61.111 0.00 0.00 39.78 5.52
2838 3118 2.328099 GGTGGCTTGACTTGGAGCG 61.328 63.158 0.00 0.00 39.78 5.03
2839 3119 1.973812 GGGTGGCTTGACTTGGAGC 60.974 63.158 0.00 0.00 38.17 4.70
2841 3121 0.038166 GATGGGTGGCTTGACTTGGA 59.962 55.000 0.00 0.00 0.00 3.53
2843 3123 0.251297 TGGATGGGTGGCTTGACTTG 60.251 55.000 0.00 0.00 0.00 3.16
2844 3124 0.706433 ATGGATGGGTGGCTTGACTT 59.294 50.000 0.00 0.00 0.00 3.01
2845 3125 0.033796 CATGGATGGGTGGCTTGACT 60.034 55.000 0.00 0.00 0.00 3.41
2846 3126 0.323725 ACATGGATGGGTGGCTTGAC 60.324 55.000 0.00 0.00 0.00 3.18
2847 3127 0.323633 CACATGGATGGGTGGCTTGA 60.324 55.000 0.00 0.00 0.00 3.02
2866 3146 2.159517 CGGCTAAACCTCTCAACAATGC 60.160 50.000 0.00 0.00 35.61 3.56
2997 3279 1.761244 GCCGTTTGCAACACCTTTGC 61.761 55.000 0.00 1.95 45.11 3.68
2998 3280 1.478622 CGCCGTTTGCAACACCTTTG 61.479 55.000 0.00 0.00 41.33 2.77
2999 3281 1.226831 CGCCGTTTGCAACACCTTT 60.227 52.632 0.00 0.00 41.33 3.11
3001 3283 3.591835 CCGCCGTTTGCAACACCT 61.592 61.111 0.00 0.00 41.33 4.00
3002 3284 3.894947 ACCGCCGTTTGCAACACC 61.895 61.111 0.00 0.00 41.33 4.16
3003 3285 2.653766 CACCGCCGTTTGCAACAC 60.654 61.111 0.00 0.00 41.33 3.32
3008 3290 4.577246 TTTGCCACCGCCGTTTGC 62.577 61.111 0.00 0.00 0.00 3.68
3009 3291 1.281566 GATTTTGCCACCGCCGTTTG 61.282 55.000 0.00 0.00 0.00 2.93
3011 3293 2.648454 GATTTTGCCACCGCCGTT 59.352 55.556 0.00 0.00 0.00 4.44
3012 3294 3.370231 GGATTTTGCCACCGCCGT 61.370 61.111 0.00 0.00 0.00 5.68
3013 3295 4.128388 GGGATTTTGCCACCGCCG 62.128 66.667 0.00 0.00 0.00 6.46
3014 3296 2.358372 ATGGGATTTTGCCACCGCC 61.358 57.895 0.00 0.00 41.95 6.13
3015 3297 1.153588 CATGGGATTTTGCCACCGC 60.154 57.895 0.00 0.00 41.95 5.68
3016 3298 1.153588 GCATGGGATTTTGCCACCG 60.154 57.895 0.00 0.00 41.95 4.94
3017 3299 0.614812 AAGCATGGGATTTTGCCACC 59.385 50.000 0.00 0.00 41.95 4.61
3018 3300 1.551883 AGAAGCATGGGATTTTGCCAC 59.448 47.619 0.00 0.00 41.95 5.01
3019 3301 1.941377 AGAAGCATGGGATTTTGCCA 58.059 45.000 0.00 0.00 43.78 4.92
3020 3302 3.264947 GAAAGAAGCATGGGATTTTGCC 58.735 45.455 0.00 0.00 39.72 4.52
3021 3303 3.264947 GGAAAGAAGCATGGGATTTTGC 58.735 45.455 0.00 0.00 39.17 3.68
3022 3304 3.369787 GGGGAAAGAAGCATGGGATTTTG 60.370 47.826 0.00 0.00 0.00 2.44
3023 3305 2.840038 GGGGAAAGAAGCATGGGATTTT 59.160 45.455 0.00 0.00 0.00 1.82
3024 3306 2.470990 GGGGAAAGAAGCATGGGATTT 58.529 47.619 0.00 0.00 0.00 2.17
3025 3307 1.343377 GGGGGAAAGAAGCATGGGATT 60.343 52.381 0.00 0.00 0.00 3.01
3026 3308 0.262876 GGGGGAAAGAAGCATGGGAT 59.737 55.000 0.00 0.00 0.00 3.85
3027 3309 0.850883 AGGGGGAAAGAAGCATGGGA 60.851 55.000 0.00 0.00 0.00 4.37
3028 3310 0.396278 GAGGGGGAAAGAAGCATGGG 60.396 60.000 0.00 0.00 0.00 4.00
3029 3311 0.396278 GGAGGGGGAAAGAAGCATGG 60.396 60.000 0.00 0.00 0.00 3.66
3030 3312 0.332632 TGGAGGGGGAAAGAAGCATG 59.667 55.000 0.00 0.00 0.00 4.06
3031 3313 1.063417 CATGGAGGGGGAAAGAAGCAT 60.063 52.381 0.00 0.00 0.00 3.79
3032 3314 0.332632 CATGGAGGGGGAAAGAAGCA 59.667 55.000 0.00 0.00 0.00 3.91
3033 3315 0.396278 CCATGGAGGGGGAAAGAAGC 60.396 60.000 5.56 0.00 0.00 3.86
3034 3316 1.002857 ACCATGGAGGGGGAAAGAAG 58.997 55.000 21.47 0.00 43.89 2.85
3035 3317 0.999712 GACCATGGAGGGGGAAAGAA 59.000 55.000 21.47 0.00 43.89 2.52
3036 3318 1.271840 CGACCATGGAGGGGGAAAGA 61.272 60.000 21.47 0.00 43.89 2.52
3037 3319 1.224592 CGACCATGGAGGGGGAAAG 59.775 63.158 21.47 0.00 43.89 2.62
3038 3320 2.305607 CCGACCATGGAGGGGGAAA 61.306 63.158 21.47 0.00 43.89 3.13
3039 3321 2.690881 CCGACCATGGAGGGGGAA 60.691 66.667 21.47 0.00 43.89 3.97
3044 3326 0.886490 GCATTAGCCGACCATGGAGG 60.886 60.000 21.47 21.43 38.00 4.30
3045 3327 2.621763 GCATTAGCCGACCATGGAG 58.378 57.895 21.47 11.91 33.58 3.86
3081 3363 2.693069 CAAAACAGGGTTGTTGTTGCA 58.307 42.857 0.00 0.00 46.54 4.08


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

AutoCloner maintained by Alex Coulton.