Multiple sequence alignment - TraesCS2A01G380300

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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 TraesCS2A01G380300 chr2A 100.000 3461 0 0 1 3461 623564835 623561375 0.000000e+00 6392
1 TraesCS2A01G380300 chr2D 94.216 2801 84 38 2 2743 480778779 480775998 0.000000e+00 4204
2 TraesCS2A01G380300 chr2D 85.544 671 54 26 2805 3454 480775882 480775234 0.000000e+00 662
3 TraesCS2A01G380300 chr2B 92.297 2778 96 59 2 2718 563924212 563921492 0.000000e+00 3836
4 TraesCS2A01G380300 chr2B 84.795 513 50 20 2956 3461 563921482 563920991 1.120000e-134 490
5 TraesCS2A01G380300 chr6A 80.094 1065 158 41 127 1163 415907645 415906607 0.000000e+00 743
6 TraesCS2A01G380300 chr6D 80.057 1058 161 36 127 1158 301268263 301269296 0.000000e+00 739
7 TraesCS2A01G380300 chr6B 79.470 1057 169 31 127 1158 466695814 466696847 0.000000e+00 706
8 TraesCS2A01G380300 chr7A 81.664 649 84 23 140 769 641581303 641580671 1.110000e-139 507
9 TraesCS2A01G380300 chr7D 81.135 652 88 23 133 769 556120955 556121586 1.120000e-134 490
10 TraesCS2A01G380300 chr7D 97.468 79 2 0 1340 1418 598763069 598763147 6.030000e-28 135
11 TraesCS2A01G380300 chr7B 80.401 648 90 17 139 769 602938407 602939034 3.150000e-125 459
12 TraesCS2A01G380300 chr1D 79.961 514 92 8 272 782 217143175 217143680 5.460000e-98 368
13 TraesCS2A01G380300 chr1A 77.644 662 107 30 152 782 278141933 278142584 7.060000e-97 364
14 TraesCS2A01G380300 chr5D 96.341 82 3 0 1340 1421 446044757 446044676 6.030000e-28 135


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 TraesCS2A01G380300 chr2A 623561375 623564835 3460 True 6392 6392 100.000 1 3461 1 chr2A.!!$R1 3460
1 TraesCS2A01G380300 chr2D 480775234 480778779 3545 True 2433 4204 89.880 2 3454 2 chr2D.!!$R1 3452
2 TraesCS2A01G380300 chr2B 563920991 563924212 3221 True 2163 3836 88.546 2 3461 2 chr2B.!!$R1 3459
3 TraesCS2A01G380300 chr6A 415906607 415907645 1038 True 743 743 80.094 127 1163 1 chr6A.!!$R1 1036
4 TraesCS2A01G380300 chr6D 301268263 301269296 1033 False 739 739 80.057 127 1158 1 chr6D.!!$F1 1031
5 TraesCS2A01G380300 chr6B 466695814 466696847 1033 False 706 706 79.470 127 1158 1 chr6B.!!$F1 1031
6 TraesCS2A01G380300 chr7A 641580671 641581303 632 True 507 507 81.664 140 769 1 chr7A.!!$R1 629
7 TraesCS2A01G380300 chr7D 556120955 556121586 631 False 490 490 81.135 133 769 1 chr7D.!!$F1 636
8 TraesCS2A01G380300 chr7B 602938407 602939034 627 False 459 459 80.401 139 769 1 chr7B.!!$F1 630
9 TraesCS2A01G380300 chr1D 217143175 217143680 505 False 368 368 79.961 272 782 1 chr1D.!!$F1 510
10 TraesCS2A01G380300 chr1A 278141933 278142584 651 False 364 364 77.644 152 782 1 chr1A.!!$F1 630

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
811 909 3.39657 CCGGGTGGGACCACTACC 61.397 72.222 19.94 12.92 45.52 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2524 2659 0.026803 CGGCTTATTTGCTCGCTGAC 59.973 55.0 0.0 0.0 0.0 3.51 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
80 94 4.664677 AGCAGCACCACCGTCGTC 62.665 66.667 0.00 0.00 0.00 4.20
811 909 3.396570 CCGGGTGGGACCACTACC 61.397 72.222 19.94 12.92 45.52 3.18
1159 1257 3.701604 CTCCTCCAGGTACGCACGC 62.702 68.421 0.00 0.00 36.34 5.34
1164 1267 2.663520 CAGGTACGCACGCCACAA 60.664 61.111 0.00 0.00 0.00 3.33
1165 1268 2.109387 AGGTACGCACGCCACAAA 59.891 55.556 0.00 0.00 0.00 2.83
1166 1269 2.248835 AGGTACGCACGCCACAAAC 61.249 57.895 0.00 0.00 0.00 2.93
1167 1270 2.250190 GTACGCACGCCACAAACC 59.750 61.111 0.00 0.00 0.00 3.27
1168 1271 2.203029 TACGCACGCCACAAACCA 60.203 55.556 0.00 0.00 0.00 3.67
1171 1274 2.258286 GCACGCCACAAACCATCC 59.742 61.111 0.00 0.00 0.00 3.51
1226 1330 0.247185 CCATCAACCACATGGCAACC 59.753 55.000 0.00 0.00 39.32 3.77
1227 1331 0.967662 CATCAACCACATGGCAACCA 59.032 50.000 0.00 0.00 39.32 3.67
1228 1332 1.551430 CATCAACCACATGGCAACCAT 59.449 47.619 0.00 0.00 46.37 3.55
1229 1333 2.593925 TCAACCACATGGCAACCATA 57.406 45.000 0.00 0.00 43.15 2.74
1253 1357 1.274167 CAATGCCATGGGACCATATGC 59.726 52.381 15.13 14.65 34.91 3.14
1254 1358 0.781920 ATGCCATGGGACCATATGCT 59.218 50.000 15.13 0.00 35.63 3.79
1257 1361 2.291089 TGCCATGGGACCATATGCTATG 60.291 50.000 15.13 0.00 37.37 2.23
1259 1363 2.372264 CATGGGACCATATGCTATGGC 58.628 52.381 17.24 0.00 42.82 4.40
1305 1409 8.565896 TTAATAATCGGATTCCTCCATGAATG 57.434 34.615 6.49 0.00 42.19 2.67
1306 1410 4.712051 AATCGGATTCCTCCATGAATGA 57.288 40.909 0.30 0.00 42.19 2.57
1308 1412 3.808728 TCGGATTCCTCCATGAATGAAC 58.191 45.455 0.30 0.00 42.19 3.18
1401 1505 2.046023 TCGAGCATGCCCAACCTG 60.046 61.111 15.66 0.00 0.00 4.00
1455 1559 2.905880 CGGATCCCGTCCTACGCT 60.906 66.667 6.06 0.00 45.46 5.07
1737 1853 3.423154 CCTCGCGCACCAAGAACC 61.423 66.667 8.75 0.00 0.00 3.62
1790 1906 3.103911 CCGCGAAGACGACACCAC 61.104 66.667 8.23 0.00 42.66 4.16
1794 1910 1.663702 CGAAGACGACACCACCACC 60.664 63.158 0.00 0.00 42.66 4.61
2041 2157 0.175302 CAGCCCAAGCAACAACAACA 59.825 50.000 0.00 0.00 43.56 3.33
2042 2158 0.901124 AGCCCAAGCAACAACAACAA 59.099 45.000 0.00 0.00 43.56 2.83
2043 2159 1.006086 GCCCAAGCAACAACAACAAC 58.994 50.000 0.00 0.00 39.53 3.32
2079 2195 3.148084 CAGTGGTTCGGGGACAGT 58.852 61.111 0.00 0.00 0.00 3.55
2083 2199 1.534476 TGGTTCGGGGACAGTAGCA 60.534 57.895 0.00 0.00 0.00 3.49
2212 2328 4.838152 AGCTGTACGGCCGCATGG 62.838 66.667 28.58 14.70 38.77 3.66
2362 2479 7.689812 CACTTGAAATCATTGATCACTCGTTAC 59.310 37.037 0.00 0.00 0.00 2.50
2375 2492 7.971722 TGATCACTCGTTACGAATGAATTCTTA 59.028 33.333 21.95 0.76 44.70 2.10
2403 2532 2.694175 TTTGCAGCGCGTTCGTGAAG 62.694 55.000 8.43 2.31 38.14 3.02
2469 2598 1.821332 CGGGGGCTGAGAATGAAGC 60.821 63.158 0.00 0.00 38.76 3.86
2503 2638 6.514063 GTCATTAGCCGAATAACTTAGGTCT 58.486 40.000 0.00 0.00 30.36 3.85
2524 2659 2.452813 CGGCCATTCCAAGTCGTCG 61.453 63.158 2.24 0.00 34.01 5.12
2622 2759 5.044558 CGAGTTAGTAGCTCATTTCCCTTC 58.955 45.833 13.65 0.00 33.45 3.46
2626 2763 4.870021 AGTAGCTCATTTCCCTTCCATT 57.130 40.909 0.00 0.00 0.00 3.16
2627 2764 5.198602 AGTAGCTCATTTCCCTTCCATTT 57.801 39.130 0.00 0.00 0.00 2.32
2628 2765 5.583932 AGTAGCTCATTTCCCTTCCATTTT 58.416 37.500 0.00 0.00 0.00 1.82
2629 2766 5.654209 AGTAGCTCATTTCCCTTCCATTTTC 59.346 40.000 0.00 0.00 0.00 2.29
2640 2777 3.746492 CCTTCCATTTTCTTTCTCGTCGT 59.254 43.478 0.00 0.00 0.00 4.34
2743 2880 1.266696 CGAATGTAACGTACTTGCCGC 60.267 52.381 0.00 0.00 0.00 6.53
2744 2881 0.717224 AATGTAACGTACTTGCCGCG 59.283 50.000 0.00 0.00 0.00 6.46
2745 2882 1.079875 ATGTAACGTACTTGCCGCGG 61.080 55.000 24.05 24.05 0.00 6.46
2746 2883 1.444212 GTAACGTACTTGCCGCGGA 60.444 57.895 33.48 11.82 0.00 5.54
2747 2884 0.803380 GTAACGTACTTGCCGCGGAT 60.803 55.000 33.48 13.39 0.00 4.18
2749 2886 2.104331 CGTACTTGCCGCGGATCT 59.896 61.111 33.48 10.00 0.00 2.75
2751 2888 1.082117 CGTACTTGCCGCGGATCTTT 61.082 55.000 33.48 10.83 0.00 2.52
2754 2910 1.816074 ACTTGCCGCGGATCTTTTTA 58.184 45.000 33.48 2.44 0.00 1.52
2766 2922 5.625311 GCGGATCTTTTTATTATTTCGCTGG 59.375 40.000 0.00 0.00 37.02 4.85
2768 2924 5.920840 GGATCTTTTTATTATTTCGCTGGGC 59.079 40.000 0.00 0.00 0.00 5.36
2791 2947 3.555139 CCGTCAGAGAATTGAATGCTCTC 59.445 47.826 12.79 5.79 36.91 3.20
2792 2948 4.431809 CGTCAGAGAATTGAATGCTCTCT 58.568 43.478 12.79 8.02 45.37 3.10
2825 3018 2.562635 CAGAGGGACAAGCTCATCATG 58.437 52.381 0.00 0.00 0.00 3.07
2834 3027 1.007271 GCTCATCATGCATGCAGGC 60.007 57.895 26.78 18.05 31.70 4.85
2886 3079 6.071784 TGTTGCCTCGAGAACATTTACTACTA 60.072 38.462 15.71 0.00 0.00 1.82
2887 3080 5.888105 TGCCTCGAGAACATTTACTACTAC 58.112 41.667 15.71 0.00 0.00 2.73
2889 3082 5.972382 GCCTCGAGAACATTTACTACTACTG 59.028 44.000 15.71 0.00 0.00 2.74
2893 3086 5.677612 CGAGAACATTTACTACTACTGCTCG 59.322 44.000 0.00 0.00 35.20 5.03
2894 3087 6.512342 AGAACATTTACTACTACTGCTCGT 57.488 37.500 0.00 0.00 0.00 4.18
2895 3088 6.553524 AGAACATTTACTACTACTGCTCGTC 58.446 40.000 0.00 0.00 0.00 4.20
2896 3089 5.246145 ACATTTACTACTACTGCTCGTCC 57.754 43.478 0.00 0.00 0.00 4.79
2897 3090 4.948621 ACATTTACTACTACTGCTCGTCCT 59.051 41.667 0.00 0.00 0.00 3.85
2913 3106 2.592993 CCTCCCTGCCGGTTCTGAA 61.593 63.158 1.90 0.00 0.00 3.02
2955 3148 2.109181 GGGCGTCTCATACTGGCC 59.891 66.667 0.00 0.00 43.01 5.36
2970 3163 1.082235 GGCCGCGTACGTATCTCTC 60.082 63.158 17.90 0.00 37.70 3.20
2971 3164 1.505477 GGCCGCGTACGTATCTCTCT 61.505 60.000 17.90 0.00 37.70 3.10
2972 3165 0.110733 GCCGCGTACGTATCTCTCTC 60.111 60.000 17.90 0.00 37.70 3.20
2973 3166 0.512085 CCGCGTACGTATCTCTCTCC 59.488 60.000 17.90 0.00 37.70 3.71
2974 3167 0.161235 CGCGTACGTATCTCTCTCCG 59.839 60.000 17.90 3.66 33.53 4.63
2975 3168 0.512085 GCGTACGTATCTCTCTCCGG 59.488 60.000 17.90 0.00 0.00 5.14
2976 3169 0.512085 CGTACGTATCTCTCTCCGGC 59.488 60.000 7.22 0.00 0.00 6.13
2985 3178 2.441901 CTCTCCGGCCTCTGCTCT 60.442 66.667 0.00 0.00 37.74 4.09
3017 3210 1.203052 GCATGGTGCAGTGCATTAACT 59.797 47.619 22.87 1.91 44.26 2.24
3018 3211 2.733227 GCATGGTGCAGTGCATTAACTC 60.733 50.000 22.87 6.86 44.26 3.01
3056 3249 0.387929 CATGCCATTGCCATGTCCTC 59.612 55.000 0.00 0.00 36.33 3.71
3082 3275 1.943968 GCAGTGGCGAACATAACTCCA 60.944 52.381 0.00 0.00 0.00 3.86
3165 3366 0.934496 TCGACCAAAAGAACAGTGCG 59.066 50.000 0.00 0.00 0.00 5.34
3215 3416 1.341156 GGACCCTGACCTCCCATCAG 61.341 65.000 0.00 0.00 42.79 2.90
3221 3422 1.348008 TGACCTCCCATCAGCCCATC 61.348 60.000 0.00 0.00 0.00 3.51
3227 3428 0.892358 CCCATCAGCCCATCATTCCG 60.892 60.000 0.00 0.00 0.00 4.30
3261 3462 1.421646 CTCCTCTCCTCTCCTCTCCTC 59.578 61.905 0.00 0.00 0.00 3.71
3268 3469 1.138661 CCTCTCCTCTCCTCATGTTGC 59.861 57.143 0.00 0.00 0.00 4.17
3273 3474 3.378512 TCCTCTCCTCATGTTGCAGTAT 58.621 45.455 0.00 0.00 0.00 2.12
3274 3475 3.386078 TCCTCTCCTCATGTTGCAGTATC 59.614 47.826 0.00 0.00 0.00 2.24
3275 3476 3.387374 CCTCTCCTCATGTTGCAGTATCT 59.613 47.826 0.00 0.00 0.00 1.98
3278 3497 4.099113 TCTCCTCATGTTGCAGTATCTCTG 59.901 45.833 0.00 0.00 46.12 3.35
3289 3508 3.069289 CAGTATCTCTGTTTGCACTGCA 58.931 45.455 0.00 0.00 39.17 4.41
3296 3515 1.847999 CTGTTTGCACTGCAGAAAACG 59.152 47.619 23.35 17.11 40.61 3.60
3359 3578 1.036707 TTGCCTGCGCCTAACTTTTT 58.963 45.000 4.18 0.00 0.00 1.94
3370 3589 3.935828 GCCTAACTTTTTGGTGTTTTGCA 59.064 39.130 0.00 0.00 0.00 4.08
3374 3593 3.194062 ACTTTTTGGTGTTTTGCATCCG 58.806 40.909 0.00 0.00 0.00 4.18
3379 3598 1.579084 GGTGTTTTGCATCCGCCGTA 61.579 55.000 0.00 0.00 37.32 4.02
3415 3634 0.529992 CGTCGCCTACCTGGAAATCC 60.530 60.000 0.00 0.00 38.35 3.01
3426 3645 1.404391 CTGGAAATCCATCAGCACTGC 59.596 52.381 1.93 0.00 46.46 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.529389 GGTGGAGTGAGTGGGGGT 60.529 66.667 0.00 0.00 0.00 4.95
80 94 3.531207 TGAGCATCCTCCCTCGCG 61.531 66.667 0.00 0.00 37.29 5.87
859 957 2.361737 GACCTTCCCCTTGGCAGC 60.362 66.667 0.00 0.00 0.00 5.25
1159 1257 2.017049 GAATCTCCGGATGGTTTGTGG 58.983 52.381 3.57 0.00 36.30 4.17
1226 1330 3.087031 GGTCCCATGGCATTGAGATATG 58.913 50.000 6.09 0.00 0.00 1.78
1227 1331 2.718062 TGGTCCCATGGCATTGAGATAT 59.282 45.455 6.09 0.00 0.00 1.63
1228 1332 2.134354 TGGTCCCATGGCATTGAGATA 58.866 47.619 6.09 0.00 0.00 1.98
1229 1333 0.928505 TGGTCCCATGGCATTGAGAT 59.071 50.000 6.09 0.00 0.00 2.75
1253 1357 5.487433 TCGATTTGGTACCATATGCCATAG 58.513 41.667 20.96 6.81 43.49 2.23
1254 1358 5.491323 TCGATTTGGTACCATATGCCATA 57.509 39.130 20.96 0.00 43.49 2.74
1257 1361 4.323417 TCATCGATTTGGTACCATATGCC 58.677 43.478 20.96 8.01 0.00 4.40
1258 1362 6.500684 AATCATCGATTTGGTACCATATGC 57.499 37.500 20.96 11.93 0.00 3.14
1305 1409 4.268687 CAGGTCACCTGCGAGTTC 57.731 61.111 12.03 0.00 45.13 3.01
1401 1505 2.435059 GAGAAGGACGGCAGGTGC 60.435 66.667 0.00 0.00 41.14 5.01
1737 1853 1.807165 CGTCAGGTCGGTGCTGATG 60.807 63.158 0.00 0.00 0.00 3.07
1803 1919 2.746277 CCGGCCTTCTTTGTCGGG 60.746 66.667 0.00 0.00 37.35 5.14
2187 2303 1.226717 GCCGTACAGCTCCTCGAAG 60.227 63.158 0.00 0.00 0.00 3.79
2212 2328 2.537560 CCATGCCGAACATCTCCGC 61.538 63.158 0.00 0.00 36.64 5.54
2329 2445 6.716173 TGATCAATGATTTCAAGTGGAGTTGA 59.284 34.615 0.00 0.00 34.56 3.18
2362 2479 7.887709 GCAAATTCAACGTTAAGAATTCATTCG 59.112 33.333 20.50 9.11 42.02 3.34
2375 2492 1.268113 CGCGCTGCAAATTCAACGTT 61.268 50.000 5.56 0.00 0.00 3.99
2469 2598 0.861837 GGCTAATGACGATTCTGCGG 59.138 55.000 0.00 0.00 35.12 5.69
2503 2638 2.361104 GACTTGGAATGGCCGGCA 60.361 61.111 30.85 15.30 40.66 5.69
2524 2659 0.026803 CGGCTTATTTGCTCGCTGAC 59.973 55.000 0.00 0.00 0.00 3.51
2536 2671 1.077716 GGCACTTGGTCCGGCTTAT 60.078 57.895 0.00 0.00 0.00 1.73
2622 2759 2.729882 ACGACGACGAGAAAGAAAATGG 59.270 45.455 15.32 0.00 42.66 3.16
2626 2763 2.578495 GCTACGACGACGAGAAAGAAA 58.422 47.619 15.32 0.00 42.66 2.52
2627 2764 1.135859 GGCTACGACGACGAGAAAGAA 60.136 52.381 15.32 0.00 42.66 2.52
2628 2765 0.445436 GGCTACGACGACGAGAAAGA 59.555 55.000 15.32 0.00 42.66 2.52
2629 2766 0.856490 CGGCTACGACGACGAGAAAG 60.856 60.000 15.32 6.79 44.60 2.62
2640 2777 0.961857 TGCAGTTCCTACGGCTACGA 60.962 55.000 0.00 0.00 44.48 3.43
2654 2791 3.540314 TGATTTGGTTTGCTTTGCAGT 57.460 38.095 0.00 0.00 40.61 4.40
2662 2799 2.481185 CTGCCACATTGATTTGGTTTGC 59.519 45.455 0.00 0.00 35.09 3.68
2743 2880 6.142817 CCCAGCGAAATAATAAAAAGATCCG 58.857 40.000 0.00 0.00 0.00 4.18
2744 2881 5.920840 GCCCAGCGAAATAATAAAAAGATCC 59.079 40.000 0.00 0.00 0.00 3.36
2745 2882 5.920840 GGCCCAGCGAAATAATAAAAAGATC 59.079 40.000 0.00 0.00 0.00 2.75
2746 2883 5.221441 GGGCCCAGCGAAATAATAAAAAGAT 60.221 40.000 19.95 0.00 0.00 2.40
2747 2884 4.098807 GGGCCCAGCGAAATAATAAAAAGA 59.901 41.667 19.95 0.00 0.00 2.52
2749 2886 3.181485 CGGGCCCAGCGAAATAATAAAAA 60.181 43.478 24.92 0.00 0.00 1.94
2751 2888 1.950909 CGGGCCCAGCGAAATAATAAA 59.049 47.619 24.92 0.00 0.00 1.40
2754 2910 0.818040 GACGGGCCCAGCGAAATAAT 60.818 55.000 24.92 0.00 0.00 1.28
2766 2922 1.672881 CATTCAATTCTCTGACGGGCC 59.327 52.381 0.00 0.00 0.00 5.80
2768 2924 2.611292 GAGCATTCAATTCTCTGACGGG 59.389 50.000 0.00 0.00 0.00 5.28
2834 3027 5.390145 GCACAAATTTCATTTAAGCCTGCTG 60.390 40.000 0.00 0.00 0.00 4.41
2835 3028 4.692155 GCACAAATTTCATTTAAGCCTGCT 59.308 37.500 0.00 0.00 0.00 4.24
2886 3079 3.386237 GCAGGGAGGACGAGCAGT 61.386 66.667 0.00 0.00 0.00 4.40
2887 3080 4.154347 GGCAGGGAGGACGAGCAG 62.154 72.222 0.00 0.00 0.00 4.24
2893 3086 3.003763 AGAACCGGCAGGGAGGAC 61.004 66.667 8.08 0.00 43.47 3.85
2894 3087 3.003173 CAGAACCGGCAGGGAGGA 61.003 66.667 8.08 0.00 43.47 3.71
2895 3088 1.915078 ATTCAGAACCGGCAGGGAGG 61.915 60.000 8.08 0.00 43.47 4.30
2896 3089 0.462759 GATTCAGAACCGGCAGGGAG 60.463 60.000 8.08 0.00 43.47 4.30
2897 3090 1.198094 TGATTCAGAACCGGCAGGGA 61.198 55.000 8.08 0.00 43.47 4.20
2906 3099 1.363744 CGGAGCCAGTGATTCAGAAC 58.636 55.000 0.00 0.00 0.00 3.01
2913 3106 1.992277 AAGAGCCGGAGCCAGTGAT 60.992 57.895 5.05 0.00 41.25 3.06
2955 3148 0.161235 CGGAGAGAGATACGTACGCG 59.839 60.000 16.72 3.53 44.93 6.01
2970 3163 3.847602 CCAGAGCAGAGGCCGGAG 61.848 72.222 5.05 0.00 42.56 4.63
2998 3191 2.159338 GGAGTTAATGCACTGCACCATG 60.159 50.000 5.67 0.00 43.04 3.66
3003 3196 1.350684 TGGAGGAGTTAATGCACTGCA 59.649 47.619 6.09 6.09 44.86 4.41
3017 3210 4.393778 GGACCCGGACCTGGAGGA 62.394 72.222 9.25 0.00 38.94 3.71
3018 3211 4.400251 AGGACCCGGACCTGGAGG 62.400 72.222 17.16 0.28 42.17 4.30
3082 3275 3.795905 CCAAAATGGGCAGGCAGT 58.204 55.556 0.00 0.00 32.67 4.40
3114 3307 4.655762 TGAAACGTCCATCTCAGATAGG 57.344 45.455 0.00 0.00 0.00 2.57
3117 3310 6.276847 GTTAGATGAAACGTCCATCTCAGAT 58.723 40.000 26.57 12.72 45.36 2.90
3119 3312 4.806247 GGTTAGATGAAACGTCCATCTCAG 59.194 45.833 26.57 0.00 45.36 3.35
3192 3393 4.393778 GGAGGTCAGGGTCCCGGA 62.394 72.222 6.66 6.66 0.00 5.14
3215 3416 4.256090 GCGCACGGAATGATGGGC 62.256 66.667 0.30 0.00 45.81 5.36
3221 3422 1.136252 GCAGTATATGCGCACGGAATG 60.136 52.381 14.90 11.42 46.99 2.67
3268 3469 3.069289 TGCAGTGCAAACAGAGATACTG 58.931 45.455 17.26 0.00 43.24 2.74
3273 3474 2.330440 TTCTGCAGTGCAAACAGAGA 57.670 45.000 20.22 8.85 41.21 3.10
3274 3475 3.111098 GTTTTCTGCAGTGCAAACAGAG 58.889 45.455 20.22 6.35 41.21 3.35
3275 3476 2.477694 CGTTTTCTGCAGTGCAAACAGA 60.478 45.455 23.83 14.35 38.41 3.41
3278 3497 1.199624 CCGTTTTCTGCAGTGCAAAC 58.800 50.000 20.22 18.60 38.41 2.93
3289 3508 3.934391 CTCCGCGCCTCCGTTTTCT 62.934 63.158 0.00 0.00 36.67 2.52
3325 3544 1.353103 GCAAACAGGATCGCGGATG 59.647 57.895 6.13 2.54 0.00 3.51
3359 3578 2.913765 CGGCGGATGCAAAACACCA 61.914 57.895 0.00 0.00 45.35 4.17
3370 3589 1.542030 CTGATAAGAGCTACGGCGGAT 59.458 52.381 13.24 0.00 44.37 4.18
3374 3593 1.278849 GCGCTGATAAGAGCTACGGC 61.279 60.000 0.00 0.00 36.77 5.68
3379 3598 1.298713 CGACGCGCTGATAAGAGCT 60.299 57.895 5.73 0.00 36.77 4.09
3409 3628 0.379669 CGGCAGTGCTGATGGATTTC 59.620 55.000 19.71 0.00 37.02 2.17
3415 3634 2.747822 GCTGACGGCAGTGCTGATG 61.748 63.158 30.43 18.47 44.17 3.07
3442 3661 1.079819 CTGTACAGGGTGCAGTCGG 60.080 63.158 15.49 0.00 40.45 4.79


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

AutoCloner maintained by Alex Coulton.