Multiple sequence alignment - TraesCS4A01G374700

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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 TraesCS4A01G374700 chr4A 100.000 3059 0 0 1 3059 649427109 649430167 0.000000e+00 5650
1 TraesCS4A01G374700 chr7D 94.069 2647 98 33 427 3059 42545280 42547881 0.000000e+00 3964
2 TraesCS4A01G374700 chr7D 75.751 466 87 12 1378 1818 188874373 188874837 8.590000e-51 211
3 TraesCS4A01G374700 chr7D 88.060 134 10 3 1 131 42543985 42544115 1.470000e-33 154
4 TraesCS4A01G374700 chr7A 93.917 2137 59 32 936 3059 41873113 41875191 0.000000e+00 3160
5 TraesCS4A01G374700 chr7A 93.148 467 22 7 418 877 41872337 41872800 0.000000e+00 676
6 TraesCS4A01G374700 chr7A 75.789 475 89 11 1378 1827 195217981 195217508 1.850000e-52 217
7 TraesCS4A01G374700 chr7A 88.148 135 13 1 1 132 41871300 41871434 1.140000e-34 158
8 TraesCS4A01G374700 chr1D 79.574 470 83 11 1381 1839 22863629 22864096 1.060000e-84 324
9 TraesCS4A01G374700 chr1A 79.274 468 86 8 1381 1838 23857006 23857472 1.770000e-82 316
10 TraesCS4A01G374700 chr6D 79.642 447 81 6 1394 1832 26351136 26351580 2.290000e-81 313
11 TraesCS4A01G374700 chr6D 76.577 444 87 11 1394 1821 364227249 364227691 8.530000e-56 228
12 TraesCS4A01G374700 chr6B 78.959 461 83 13 1382 1832 48552037 48552493 4.960000e-78 302


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 TraesCS4A01G374700 chr4A 649427109 649430167 3058 False 5650.000000 5650 100.000000 1 3059 1 chr4A.!!$F1 3058
1 TraesCS4A01G374700 chr7D 42543985 42547881 3896 False 2059.000000 3964 91.064500 1 3059 2 chr7D.!!$F2 3058
2 TraesCS4A01G374700 chr7A 41871300 41875191 3891 False 1331.333333 3160 91.737667 1 3059 3 chr7A.!!$F1 3058

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
327 1183 1.266989 GAGGACTTTTCAGCCCAAACG 59.733 52.381 0.0 0.0 0.0 3.6 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2307 3458 0.11358 TGGGTAAAAGGGGTGGAAGC 59.886 55.0 0.0 0.0 0.0 3.86 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
37 38 6.358558 GTCACACGGTGTTGTACAAAAATATG 59.641 38.462 11.82 9.07 34.79 1.78
84 85 2.030412 ATGCACGGTCAAGCGTGA 59.970 55.556 31.66 19.41 38.26 4.35
106 107 6.313905 GTGACAGTCGAGTAAAATGGATCATT 59.686 38.462 0.00 0.00 35.39 2.57
132 136 4.812626 GGTGTTGTCTCGAAGGAAAGTTTA 59.187 41.667 0.00 0.00 0.00 2.01
133 137 5.277202 GGTGTTGTCTCGAAGGAAAGTTTAC 60.277 44.000 0.00 0.00 0.00 2.01
135 139 5.292589 TGTTGTCTCGAAGGAAAGTTTACAC 59.707 40.000 0.00 0.00 0.00 2.90
140 144 4.440880 TCGAAGGAAAGTTTACACCGAAA 58.559 39.130 10.80 0.00 0.00 3.46
142 146 5.528320 TCGAAGGAAAGTTTACACCGAAATT 59.472 36.000 10.80 0.00 0.00 1.82
197 1033 4.750598 CACTCCTCTCATGTGCATCTATTG 59.249 45.833 0.00 0.00 0.00 1.90
223 1059 2.416547 GCTTATCATCGTGGCGCATATT 59.583 45.455 10.83 0.00 0.00 1.28
239 1084 6.519761 GGCGCATATTGTTTATTCGATAACAG 59.480 38.462 10.83 0.79 0.00 3.16
241 1086 7.796660 GCGCATATTGTTTATTCGATAACAGAA 59.203 33.333 0.30 3.06 0.00 3.02
255 1100 5.175126 CGATAACAGAAATATCGTCACCCAC 59.825 44.000 7.56 0.00 44.32 4.61
309 1165 8.975410 TGTTTCATAATGCTTTCATTGAAGAG 57.025 30.769 0.00 2.49 42.50 2.85
326 1182 2.587522 AGAGGACTTTTCAGCCCAAAC 58.412 47.619 0.00 0.00 0.00 2.93
327 1183 1.266989 GAGGACTTTTCAGCCCAAACG 59.733 52.381 0.00 0.00 0.00 3.60
330 1186 2.459934 GACTTTTCAGCCCAAACGTTG 58.540 47.619 0.00 0.00 0.00 4.10
331 1187 2.096248 ACTTTTCAGCCCAAACGTTGA 58.904 42.857 0.00 0.00 0.00 3.18
334 1190 2.791383 TTCAGCCCAAACGTTGAATG 57.209 45.000 0.00 0.00 0.00 2.67
338 1194 3.632604 TCAGCCCAAACGTTGAATGTAAA 59.367 39.130 0.00 0.00 0.00 2.01
344 1200 6.496571 CCCAAACGTTGAATGTAAAGTTGTA 58.503 36.000 0.00 0.00 33.60 2.41
345 1201 6.415573 CCCAAACGTTGAATGTAAAGTTGTAC 59.584 38.462 0.00 0.00 33.60 2.90
350 1206 8.776680 ACGTTGAATGTAAAGTTGTACAATTC 57.223 30.769 12.26 9.86 37.52 2.17
351 1207 8.399425 ACGTTGAATGTAAAGTTGTACAATTCA 58.601 29.630 12.26 12.29 37.52 2.57
352 1208 9.227490 CGTTGAATGTAAAGTTGTACAATTCAA 57.773 29.630 19.73 19.73 38.06 2.69
364 1220 8.311109 AGTTGTACAATTCAAAAATATCCCCAC 58.689 33.333 12.26 0.00 0.00 4.61
370 1226 4.561500 TCAAAAATATCCCCACGAGACA 57.438 40.909 0.00 0.00 0.00 3.41
372 1228 5.505780 TCAAAAATATCCCCACGAGACATT 58.494 37.500 0.00 0.00 0.00 2.71
375 1231 4.982241 AATATCCCCACGAGACATTCAT 57.018 40.909 0.00 0.00 0.00 2.57
380 1236 2.103771 CCCCACGAGACATTCATCTCAT 59.896 50.000 3.85 0.00 44.67 2.90
382 1238 3.806521 CCCACGAGACATTCATCTCATTC 59.193 47.826 3.85 0.00 44.67 2.67
383 1239 3.806521 CCACGAGACATTCATCTCATTCC 59.193 47.826 3.85 0.00 44.67 3.01
387 1243 5.363868 ACGAGACATTCATCTCATTCCCTTA 59.636 40.000 3.85 0.00 44.67 2.69
388 1244 6.127054 ACGAGACATTCATCTCATTCCCTTAA 60.127 38.462 3.85 0.00 44.67 1.85
389 1245 6.763135 CGAGACATTCATCTCATTCCCTTAAA 59.237 38.462 3.85 0.00 44.67 1.52
390 1246 7.042187 CGAGACATTCATCTCATTCCCTTAAAG 60.042 40.741 3.85 0.00 44.67 1.85
391 1247 7.059156 AGACATTCATCTCATTCCCTTAAAGG 58.941 38.462 0.00 0.00 34.30 3.11
412 1272 8.966069 AAAGGAAAAACTATGATAGACTAGCC 57.034 34.615 6.45 2.43 0.00 3.93
451 1336 9.211485 GGAATATTTGCCATCTTGGAATATTTG 57.789 33.333 11.49 0.00 40.96 2.32
453 1338 4.405116 TTGCCATCTTGGAATATTTGCC 57.595 40.909 0.00 0.00 40.96 4.52
464 1349 7.342541 TCTTGGAATATTTGCCATGAAAGATGA 59.657 33.333 8.51 0.00 35.98 2.92
520 1409 9.656040 TTTGAATTTGATATGAGATTTTGGGTG 57.344 29.630 0.00 0.00 0.00 4.61
531 1420 4.019174 AGATTTTGGGTGGCAAGTATCTG 58.981 43.478 0.00 0.00 0.00 2.90
739 1628 3.521529 GACCCGATCGCCATCAGGG 62.522 68.421 10.32 15.80 43.32 4.45
904 1794 2.852180 AAACGCAAAACCCGGCCTC 61.852 57.895 0.00 0.00 0.00 4.70
997 2144 3.055470 TAGCCGGCAGGGATTTGGG 62.055 63.158 31.54 0.00 38.47 4.12
1362 2509 4.052229 GGGCAACAGCAGCAGCAG 62.052 66.667 3.17 0.00 45.49 4.24
1363 2510 4.719369 GGCAACAGCAGCAGCAGC 62.719 66.667 3.17 0.46 45.49 5.25
1364 2511 3.973516 GCAACAGCAGCAGCAGCA 61.974 61.111 12.92 0.00 45.49 4.41
1932 3082 4.767255 CAGCACCAGCCGTCCTCC 62.767 72.222 0.00 0.00 43.56 4.30
2064 3214 1.068885 GTCTCGCCCTACTGATCATCG 60.069 57.143 0.00 0.00 0.00 3.84
2074 3224 2.242926 ACTGATCATCGACCGATCCAT 58.757 47.619 19.02 8.37 38.83 3.41
2076 3226 2.229784 CTGATCATCGACCGATCCATCA 59.770 50.000 19.02 16.48 38.83 3.07
2110 3260 0.108756 ACGGAACCGAAGCTAAGAGC 60.109 55.000 20.14 0.00 41.13 4.09
2140 3290 6.496565 CCATTATCAACTCCTATCTCCTCTGT 59.503 42.308 0.00 0.00 0.00 3.41
2154 3304 6.412362 TCTCCTCTGTTAATTATGCTCCTC 57.588 41.667 0.00 0.00 0.00 3.71
2155 3305 5.899547 TCTCCTCTGTTAATTATGCTCCTCA 59.100 40.000 0.00 0.00 0.00 3.86
2156 3306 6.384015 TCTCCTCTGTTAATTATGCTCCTCAA 59.616 38.462 0.00 0.00 0.00 3.02
2157 3307 6.349300 TCCTCTGTTAATTATGCTCCTCAAC 58.651 40.000 0.00 0.00 0.00 3.18
2170 3320 3.003068 GCTCCTCAACCATCAATCAATCG 59.997 47.826 0.00 0.00 0.00 3.34
2259 3410 4.141367 TGGACCATGGTGAAACAAACTAGA 60.141 41.667 25.52 0.00 39.98 2.43
2308 3459 9.569167 GTTAATTCTATGTTTTTACCTTCCAGC 57.431 33.333 0.00 0.00 0.00 4.85
2309 3460 9.528489 TTAATTCTATGTTTTTACCTTCCAGCT 57.472 29.630 0.00 0.00 0.00 4.24
2310 3461 8.422577 AATTCTATGTTTTTACCTTCCAGCTT 57.577 30.769 0.00 0.00 0.00 3.74
2311 3462 7.448748 TTCTATGTTTTTACCTTCCAGCTTC 57.551 36.000 0.00 0.00 0.00 3.86
2312 3463 5.944007 TCTATGTTTTTACCTTCCAGCTTCC 59.056 40.000 0.00 0.00 0.00 3.46
2313 3464 3.904717 TGTTTTTACCTTCCAGCTTCCA 58.095 40.909 0.00 0.00 0.00 3.53
2398 3549 7.415206 GGGCTTAGTGGTAATTACAATCAAGTG 60.415 40.741 17.16 2.12 0.00 3.16
2418 3569 3.630312 GTGGTAGAAGCTTTGTTGGTTCA 59.370 43.478 0.00 0.00 44.18 3.18
2519 3670 4.879295 TTTTATGGAGGATGATGGGTGT 57.121 40.909 0.00 0.00 0.00 4.16
2523 3674 1.008815 TGGAGGATGATGGGTGTCTCT 59.991 52.381 0.00 0.00 0.00 3.10
2542 3693 4.164221 TCTCTCTTGTTGTTTCTCTTGGGT 59.836 41.667 0.00 0.00 0.00 4.51
2555 3706 2.099921 CTCTTGGGTCAGTTCGATCGAT 59.900 50.000 20.18 1.17 0.00 3.59
2625 3776 4.878971 TCGATGACTTGGTTAGAGAGAGAG 59.121 45.833 0.00 0.00 0.00 3.20
2628 3779 4.986783 TGACTTGGTTAGAGAGAGAGACA 58.013 43.478 0.00 0.00 0.00 3.41
2632 3783 3.601435 TGGTTAGAGAGAGAGACAGACG 58.399 50.000 0.00 0.00 0.00 4.18
2773 3925 0.462937 TACACCAGCACACCACACAC 60.463 55.000 0.00 0.00 0.00 3.82
2774 3926 1.748500 CACCAGCACACCACACACA 60.749 57.895 0.00 0.00 0.00 3.72
2775 3927 1.102809 CACCAGCACACCACACACAT 61.103 55.000 0.00 0.00 0.00 3.21
2776 3928 0.472044 ACCAGCACACCACACACATA 59.528 50.000 0.00 0.00 0.00 2.29
2777 3929 1.073763 ACCAGCACACCACACACATAT 59.926 47.619 0.00 0.00 0.00 1.78
2778 3930 1.469703 CCAGCACACCACACACATATG 59.530 52.381 0.00 0.00 0.00 1.78
2779 3931 2.425539 CAGCACACCACACACATATGA 58.574 47.619 10.38 0.00 0.00 2.15
2782 3934 2.160219 GCACACCACACACATATGACAG 59.840 50.000 10.38 1.42 0.00 3.51
2835 3987 2.300152 ACCGGACATATATGCTCACAGG 59.700 50.000 9.46 12.97 0.00 4.00
2875 4028 3.260884 TCTCTTTGAGACACCCACATACC 59.739 47.826 0.00 0.00 33.35 2.73
2876 4029 3.248024 TCTTTGAGACACCCACATACCT 58.752 45.455 0.00 0.00 0.00 3.08
2877 4030 3.007940 TCTTTGAGACACCCACATACCTG 59.992 47.826 0.00 0.00 0.00 4.00
2878 4031 1.275666 TGAGACACCCACATACCTGG 58.724 55.000 0.00 0.00 0.00 4.45
2879 4032 0.107654 GAGACACCCACATACCTGGC 60.108 60.000 0.00 0.00 0.00 4.85
2880 4033 0.547712 AGACACCCACATACCTGGCT 60.548 55.000 0.00 0.00 0.00 4.75
2881 4034 0.328258 GACACCCACATACCTGGCTT 59.672 55.000 0.00 0.00 0.00 4.35
2895 4051 2.768527 CCTGGCTTAGGTGATGAGAGAA 59.231 50.000 0.06 0.00 42.00 2.87
2896 4052 3.390639 CCTGGCTTAGGTGATGAGAGAAT 59.609 47.826 0.06 0.00 42.00 2.40
2897 4053 4.502950 CCTGGCTTAGGTGATGAGAGAATC 60.503 50.000 0.06 0.00 42.00 2.52
2901 4058 5.423015 GCTTAGGTGATGAGAGAATCAACA 58.577 41.667 5.13 0.00 45.14 3.33
2907 4064 3.773667 TGATGAGAGAATCAACAGCCTCT 59.226 43.478 0.00 0.00 42.53 3.69
2926 4083 7.121168 CAGCCTCTGAATAACTCAAAAATGGTA 59.879 37.037 0.00 0.00 32.44 3.25
2934 4091 9.490663 GAATAACTCAAAAATGGTACTCGAATG 57.509 33.333 0.00 0.00 0.00 2.67
2935 4092 5.880054 ACTCAAAAATGGTACTCGAATGG 57.120 39.130 0.00 0.00 0.00 3.16
2936 4093 5.313712 ACTCAAAAATGGTACTCGAATGGT 58.686 37.500 0.00 0.00 0.00 3.55
2937 4094 5.411669 ACTCAAAAATGGTACTCGAATGGTC 59.588 40.000 0.00 0.00 0.00 4.02
2938 4095 4.698304 TCAAAAATGGTACTCGAATGGTCC 59.302 41.667 0.00 0.00 0.00 4.46
2939 4096 3.992943 AAATGGTACTCGAATGGTCCA 57.007 42.857 0.00 0.00 0.00 4.02
2940 4097 3.992943 AATGGTACTCGAATGGTCCAA 57.007 42.857 0.00 0.00 0.00 3.53
2941 4098 4.503714 AATGGTACTCGAATGGTCCAAT 57.496 40.909 0.00 0.00 0.00 3.16
2942 4099 3.992943 TGGTACTCGAATGGTCCAATT 57.007 42.857 0.00 0.00 0.00 2.32
2943 4100 3.869065 TGGTACTCGAATGGTCCAATTC 58.131 45.455 0.00 0.00 33.92 2.17
2946 4103 4.511826 GGTACTCGAATGGTCCAATTCATC 59.488 45.833 0.00 0.00 36.52 2.92
2947 4104 3.198068 ACTCGAATGGTCCAATTCATCG 58.802 45.455 0.00 2.02 36.52 3.84
2951 4112 3.242739 CGAATGGTCCAATTCATCGAACC 60.243 47.826 0.00 0.00 36.52 3.62
2954 4115 2.017049 GGTCCAATTCATCGAACCCTG 58.983 52.381 0.00 0.00 0.00 4.45
2986 4147 2.364632 TGTTTTGGACACTGGTGTGAG 58.635 47.619 11.28 0.00 46.55 3.51
2989 4150 1.199615 TTGGACACTGGTGTGAGTCA 58.800 50.000 11.28 0.00 46.55 3.41
2995 4156 3.230976 ACACTGGTGTGAGTCAGACATA 58.769 45.455 20.82 9.14 46.55 2.29
2996 4157 3.641436 ACACTGGTGTGAGTCAGACATAA 59.359 43.478 20.82 6.20 46.55 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 1.279152 TTGTACAACACCGTGTGACG 58.721 50.000 4.57 0.00 42.11 4.35
84 85 6.475727 CGTAATGATCCATTTTACTCGACTGT 59.524 38.462 0.00 0.00 35.54 3.55
106 107 1.608055 TCCTTCGAGACAACACCGTA 58.392 50.000 0.00 0.00 0.00 4.02
132 136 2.249844 AGTTGACGGAATTTCGGTGT 57.750 45.000 11.59 1.31 29.69 4.16
133 137 4.939509 ATAAGTTGACGGAATTTCGGTG 57.060 40.909 11.59 0.00 29.69 4.94
135 139 6.178239 AGAAATAAGTTGACGGAATTTCGG 57.822 37.500 11.59 2.69 40.06 4.30
197 1033 1.595489 CGCCACGATGATAAGCAAAGC 60.595 52.381 0.00 0.00 0.00 3.51
249 1094 0.322098 TGGTTATTCCAGCGTGGGTG 60.322 55.000 4.52 0.00 41.93 4.61
292 1146 6.661304 AAAGTCCTCTTCAATGAAAGCATT 57.339 33.333 0.00 0.00 37.80 3.56
294 1148 5.593909 TGAAAAGTCCTCTTCAATGAAAGCA 59.406 36.000 0.00 0.00 32.90 3.91
295 1149 6.076981 TGAAAAGTCCTCTTCAATGAAAGC 57.923 37.500 0.00 0.00 32.90 3.51
306 1162 2.587522 GTTTGGGCTGAAAAGTCCTCT 58.412 47.619 0.00 0.00 34.00 3.69
309 1165 1.029681 ACGTTTGGGCTGAAAAGTCC 58.970 50.000 0.00 0.00 0.00 3.85
326 1182 8.775220 TGAATTGTACAACTTTACATTCAACG 57.225 30.769 11.22 0.00 32.55 4.10
338 1194 8.311109 GTGGGGATATTTTTGAATTGTACAACT 58.689 33.333 11.22 0.00 0.00 3.16
344 1200 5.949354 TCTCGTGGGGATATTTTTGAATTGT 59.051 36.000 0.00 0.00 0.00 2.71
345 1201 6.127758 TGTCTCGTGGGGATATTTTTGAATTG 60.128 38.462 0.00 0.00 0.00 2.32
350 1206 5.356751 TGAATGTCTCGTGGGGATATTTTTG 59.643 40.000 0.00 0.00 0.00 2.44
351 1207 5.505780 TGAATGTCTCGTGGGGATATTTTT 58.494 37.500 0.00 0.00 0.00 1.94
352 1208 5.110814 TGAATGTCTCGTGGGGATATTTT 57.889 39.130 0.00 0.00 0.00 1.82
358 1214 1.757118 GAGATGAATGTCTCGTGGGGA 59.243 52.381 0.00 0.00 35.70 4.81
361 1217 3.806521 GGAATGAGATGAATGTCTCGTGG 59.193 47.826 0.00 0.00 46.04 4.94
364 1220 4.333913 AGGGAATGAGATGAATGTCTCG 57.666 45.455 0.00 0.00 46.04 4.04
370 1226 8.899887 TTTTCCTTTAAGGGAATGAGATGAAT 57.100 30.769 18.81 0.00 43.82 2.57
372 1228 7.950124 AGTTTTTCCTTTAAGGGAATGAGATGA 59.050 33.333 18.81 0.56 43.82 2.92
375 1231 9.243105 CATAGTTTTTCCTTTAAGGGAATGAGA 57.757 33.333 18.81 2.34 43.82 3.27
382 1238 9.907229 AGTCTATCATAGTTTTTCCTTTAAGGG 57.093 33.333 11.50 0.00 35.59 3.95
387 1243 7.711339 CGGCTAGTCTATCATAGTTTTTCCTTT 59.289 37.037 0.00 0.00 0.00 3.11
388 1244 7.069578 TCGGCTAGTCTATCATAGTTTTTCCTT 59.930 37.037 0.00 0.00 0.00 3.36
389 1245 6.550108 TCGGCTAGTCTATCATAGTTTTTCCT 59.450 38.462 0.00 0.00 0.00 3.36
390 1246 6.746120 TCGGCTAGTCTATCATAGTTTTTCC 58.254 40.000 0.00 0.00 0.00 3.13
391 1247 8.301002 AGATCGGCTAGTCTATCATAGTTTTTC 58.699 37.037 11.07 0.00 0.00 2.29
402 1262 8.880991 TCCTATTTAAAGATCGGCTAGTCTAT 57.119 34.615 0.00 0.00 0.00 1.98
404 1264 7.598759 TTCCTATTTAAAGATCGGCTAGTCT 57.401 36.000 0.00 0.00 0.00 3.24
410 1270 7.755373 GGCAAATATTCCTATTTAAAGATCGGC 59.245 37.037 0.00 0.00 35.77 5.54
411 1271 8.792633 TGGCAAATATTCCTATTTAAAGATCGG 58.207 33.333 0.00 0.00 35.77 4.18
520 1409 1.448985 TTTCGGTGCAGATACTTGCC 58.551 50.000 0.00 0.00 43.43 4.52
821 1711 1.146263 GCGTAGATTGGGGGTGAGG 59.854 63.158 0.00 0.00 0.00 3.86
823 1713 2.897207 CGCGTAGATTGGGGGTGA 59.103 61.111 0.00 0.00 0.00 4.02
824 1714 2.869503 AAGCGCGTAGATTGGGGGTG 62.870 60.000 8.43 0.00 0.00 4.61
825 1715 2.666098 AAGCGCGTAGATTGGGGGT 61.666 57.895 8.43 0.00 0.00 4.95
858 1748 1.151908 CTCGGAGGAGGGTAGGGAG 59.848 68.421 0.00 0.00 36.61 4.30
904 1794 1.743252 GGAGGCGGTCAAAGCTCAG 60.743 63.158 0.00 0.00 34.52 3.35
1281 2428 1.725169 CGGATCCTCCTCCTCCTCCT 61.725 65.000 10.75 0.00 33.30 3.69
1767 2917 3.211963 GCCATGATGACCACGGGC 61.212 66.667 0.00 0.00 40.11 6.13
2064 3214 0.739462 TGTGCGTTGATGGATCGGTC 60.739 55.000 0.00 0.00 0.00 4.79
2074 3224 1.003839 GTCCCTCCATGTGCGTTGA 60.004 57.895 0.00 0.00 0.00 3.18
2076 3226 2.047274 CGTCCCTCCATGTGCGTT 60.047 61.111 0.00 0.00 0.00 4.84
2110 3260 7.399765 AGGAGATAGGAGTTGATAATGGATGAG 59.600 40.741 0.00 0.00 0.00 2.90
2140 3290 7.779326 TGATTGATGGTTGAGGAGCATAATTAA 59.221 33.333 0.00 0.00 46.01 1.40
2307 3458 0.113580 TGGGTAAAAGGGGTGGAAGC 59.886 55.000 0.00 0.00 0.00 3.86
2308 3459 2.687003 TTGGGTAAAAGGGGTGGAAG 57.313 50.000 0.00 0.00 0.00 3.46
2309 3460 2.451273 TGATTGGGTAAAAGGGGTGGAA 59.549 45.455 0.00 0.00 0.00 3.53
2310 3461 2.074579 TGATTGGGTAAAAGGGGTGGA 58.925 47.619 0.00 0.00 0.00 4.02
2311 3462 2.614134 TGATTGGGTAAAAGGGGTGG 57.386 50.000 0.00 0.00 0.00 4.61
2312 3463 2.233676 GCTTGATTGGGTAAAAGGGGTG 59.766 50.000 0.00 0.00 0.00 4.61
2313 3464 2.158234 TGCTTGATTGGGTAAAAGGGGT 60.158 45.455 0.00 0.00 0.00 4.95
2398 3549 5.009610 TGAATGAACCAACAAAGCTTCTACC 59.990 40.000 0.00 0.00 0.00 3.18
2519 3670 4.164221 ACCCAAGAGAAACAACAAGAGAGA 59.836 41.667 0.00 0.00 0.00 3.10
2523 3674 4.199310 CTGACCCAAGAGAAACAACAAGA 58.801 43.478 0.00 0.00 0.00 3.02
2542 3693 6.803154 ATACAGTATGATCGATCGAACTGA 57.197 37.500 39.23 29.66 41.16 3.41
2625 3776 2.159240 TGATACCATCTGTGCGTCTGTC 60.159 50.000 0.00 0.00 0.00 3.51
2628 3779 2.099921 GACTGATACCATCTGTGCGTCT 59.900 50.000 3.75 0.00 40.84 4.18
2632 3783 1.212616 GCGACTGATACCATCTGTGC 58.787 55.000 3.75 4.82 40.84 4.57
2773 3925 4.378770 GCAAGGTTGTGTGTCTGTCATATG 60.379 45.833 0.00 0.00 0.00 1.78
2774 3926 3.753272 GCAAGGTTGTGTGTCTGTCATAT 59.247 43.478 0.00 0.00 0.00 1.78
2775 3927 3.138304 GCAAGGTTGTGTGTCTGTCATA 58.862 45.455 0.00 0.00 0.00 2.15
2776 3928 1.949525 GCAAGGTTGTGTGTCTGTCAT 59.050 47.619 0.00 0.00 0.00 3.06
2777 3929 1.065491 AGCAAGGTTGTGTGTCTGTCA 60.065 47.619 0.00 0.00 0.00 3.58
2778 3930 1.668419 AGCAAGGTTGTGTGTCTGTC 58.332 50.000 0.00 0.00 0.00 3.51
2779 3931 3.492102 ATAGCAAGGTTGTGTGTCTGT 57.508 42.857 0.00 0.00 0.00 3.41
2782 3934 8.458843 ACATAAAATATAGCAAGGTTGTGTGTC 58.541 33.333 0.00 0.00 0.00 3.67
2835 3987 4.826556 AGAGAATAAGCACAAGGAGACAC 58.173 43.478 0.00 0.00 0.00 3.67
2875 4028 4.100653 TGATTCTCTCATCACCTAAGCCAG 59.899 45.833 0.00 0.00 0.00 4.85
2876 4029 4.033009 TGATTCTCTCATCACCTAAGCCA 58.967 43.478 0.00 0.00 0.00 4.75
2877 4030 4.679373 TGATTCTCTCATCACCTAAGCC 57.321 45.455 0.00 0.00 0.00 4.35
2878 4031 5.423015 TGTTGATTCTCTCATCACCTAAGC 58.577 41.667 0.00 0.00 32.68 3.09
2879 4032 5.523188 GCTGTTGATTCTCTCATCACCTAAG 59.477 44.000 0.00 0.00 32.68 2.18
2880 4033 5.423015 GCTGTTGATTCTCTCATCACCTAA 58.577 41.667 0.00 0.00 32.68 2.69
2881 4034 4.141846 GGCTGTTGATTCTCTCATCACCTA 60.142 45.833 0.00 0.00 32.68 3.08
2895 4051 5.426689 TGAGTTATTCAGAGGCTGTTGAT 57.573 39.130 0.00 0.00 32.61 2.57
2896 4052 4.890158 TGAGTTATTCAGAGGCTGTTGA 57.110 40.909 0.00 0.00 32.61 3.18
2897 4053 5.947228 TTTGAGTTATTCAGAGGCTGTTG 57.053 39.130 0.00 0.00 37.07 3.33
2901 4058 6.012745 ACCATTTTTGAGTTATTCAGAGGCT 58.987 36.000 0.00 0.00 37.07 4.58
2903 4060 8.567285 AGTACCATTTTTGAGTTATTCAGAGG 57.433 34.615 0.00 0.00 37.07 3.69
2907 4064 8.610248 TTCGAGTACCATTTTTGAGTTATTCA 57.390 30.769 0.00 0.00 0.00 2.57
2926 4083 3.118775 TCGATGAATTGGACCATTCGAGT 60.119 43.478 0.00 0.00 0.00 4.18
2934 4091 2.017049 CAGGGTTCGATGAATTGGACC 58.983 52.381 0.00 0.00 38.88 4.46
2935 4092 2.678336 GACAGGGTTCGATGAATTGGAC 59.322 50.000 0.00 0.00 0.00 4.02
2936 4093 2.571653 AGACAGGGTTCGATGAATTGGA 59.428 45.455 0.00 0.00 0.00 3.53
2937 4094 2.679837 CAGACAGGGTTCGATGAATTGG 59.320 50.000 0.00 0.00 0.00 3.16
2938 4095 3.338249 ACAGACAGGGTTCGATGAATTG 58.662 45.455 0.00 0.00 0.00 2.32
2939 4096 3.600388 GACAGACAGGGTTCGATGAATT 58.400 45.455 0.00 0.00 0.00 2.17
2940 4097 2.093447 GGACAGACAGGGTTCGATGAAT 60.093 50.000 0.00 0.00 0.00 2.57
2941 4098 1.275291 GGACAGACAGGGTTCGATGAA 59.725 52.381 0.00 0.00 0.00 2.57
2942 4099 0.895530 GGACAGACAGGGTTCGATGA 59.104 55.000 0.00 0.00 0.00 2.92
2943 4100 0.608130 TGGACAGACAGGGTTCGATG 59.392 55.000 0.00 0.00 0.00 3.84
2946 4103 3.198068 CATTATGGACAGACAGGGTTCG 58.802 50.000 0.00 0.00 0.00 3.95
2947 4104 4.222124 ACATTATGGACAGACAGGGTTC 57.778 45.455 0.00 0.00 0.00 3.62
2951 4112 5.009631 TCCAAAACATTATGGACAGACAGG 58.990 41.667 0.00 0.00 40.74 4.00
2977 4138 4.631131 TGTTTATGTCTGACTCACACCAG 58.369 43.478 9.51 0.00 0.00 4.00
2986 4147 8.299570 ACATCAATCCTTTTGTTTATGTCTGAC 58.700 33.333 0.00 0.00 0.00 3.51
2989 4150 8.641541 ACAACATCAATCCTTTTGTTTATGTCT 58.358 29.630 0.00 0.00 30.23 3.41


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

AutoCloner maintained by Alex Coulton.