Multiple sequence alignment - TraesCS3D01G108600

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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 TraesCS3D01G108600 chr3D 100.000 2693 0 0 1 2693 61704663 61701971 0.000000e+00 4974
1 TraesCS3D01G108600 chr3B 90.538 1860 67 34 365 2148 99172316 99170490 0.000000e+00 2359
2 TraesCS3D01G108600 chr3B 92.632 380 22 4 2319 2693 722587192 722586814 2.360000e-150 542
3 TraesCS3D01G108600 chr3B 86.146 397 21 18 12 378 99172724 99172332 5.400000e-107 398
4 TraesCS3D01G108600 chr3B 92.063 126 8 2 2199 2323 722587447 722587323 2.760000e-40 176
5 TraesCS3D01G108600 chr3B 91.870 123 6 4 2203 2323 722584990 722585110 4.610000e-38 169
6 TraesCS3D01G108600 chr3B 90.756 119 11 0 2573 2691 83208785 83208667 2.780000e-35 159
7 TraesCS3D01G108600 chr3A 88.406 2001 103 52 289 2201 70731503 70729544 0.000000e+00 2290
8 TraesCS3D01G108600 chr3A 92.781 374 26 1 2319 2692 358902768 358903140 8.480000e-150 540
9 TraesCS3D01G108600 chr3A 84.810 316 34 11 1 304 70731830 70731517 3.370000e-79 305
10 TraesCS3D01G108600 chr7D 96.800 375 11 1 2320 2693 406315893 406315519 2.280000e-175 625
11 TraesCS3D01G108600 chr7D 85.326 184 19 8 1115 1293 174992614 174992794 1.650000e-42 183
12 TraesCS3D01G108600 chr1B 94.149 376 20 2 2319 2693 409834585 409834211 3.010000e-159 571
13 TraesCS3D01G108600 chr1B 89.076 119 10 3 2202 2319 409832338 409832454 7.770000e-31 145
14 TraesCS3D01G108600 chr6D 88.136 354 33 4 2349 2693 85812528 85812175 1.930000e-111 412
15 TraesCS3D01G108600 chr6D 87.730 163 18 2 1115 1276 378379440 378379279 3.540000e-44 189
16 TraesCS3D01G108600 chr5A 91.166 283 20 3 2349 2631 437240652 437240929 1.960000e-101 379
17 TraesCS3D01G108600 chr5A 89.677 155 14 2 1111 1264 467585838 467585991 2.120000e-46 196
18 TraesCS3D01G108600 chr5A 90.244 123 9 3 2202 2323 437245514 437245394 9.980000e-35 158
19 TraesCS3D01G108600 chr6A 82.576 396 44 10 2319 2693 103252258 103251867 2.590000e-85 326
20 TraesCS3D01G108600 chr6A 87.222 180 19 4 1115 1291 520355710 520355532 4.550000e-48 202
21 TraesCS3D01G108600 chr7A 86.333 300 37 2 2355 2654 653004356 653004651 9.300000e-85 324
22 TraesCS3D01G108600 chr7A 85.635 181 18 8 1115 1290 177136164 177136341 1.650000e-42 183
23 TraesCS3D01G108600 chr2D 83.621 348 38 7 2349 2693 646423854 646423523 2.600000e-80 309
24 TraesCS3D01G108600 chr1A 84.192 291 31 9 2342 2631 110063317 110063041 4.420000e-68 268
25 TraesCS3D01G108600 chr7B 85.635 181 18 8 1114 1289 140652906 140653083 1.650000e-42 183
26 TraesCS3D01G108600 chr6B 85.000 180 23 3 1115 1291 564993598 564993420 2.130000e-41 180
27 TraesCS3D01G108600 chr4B 86.179 123 16 1 2201 2323 472088945 472088824 6.050000e-27 132


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 TraesCS3D01G108600 chr3D 61701971 61704663 2692 True 4974.0 4974 100.0000 1 2693 1 chr3D.!!$R1 2692
1 TraesCS3D01G108600 chr3B 99170490 99172724 2234 True 1378.5 2359 88.3420 12 2148 2 chr3B.!!$R2 2136
2 TraesCS3D01G108600 chr3B 722586814 722587447 633 True 359.0 542 92.3475 2199 2693 2 chr3B.!!$R3 494
3 TraesCS3D01G108600 chr3A 70729544 70731830 2286 True 1297.5 2290 86.6080 1 2201 2 chr3A.!!$R1 2200

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
935 1071 0.469917 CATATTGGCTCACCGTCCCT 59.53 55.0 0.0 0.0 39.7 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2448 2796 0.040646 ACACCGATGAGTACCTCCCA 59.959 55.0 0.0 0.0 0.0 4.37 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
136 137 0.832135 TGACTCACCTGACCTGACCC 60.832 60.000 0.00 0.00 0.00 4.46
140 141 2.603776 ACCTGACCTGACCCGACC 60.604 66.667 0.00 0.00 0.00 4.79
153 154 2.263540 CGACCCGACCCGTTTGAT 59.736 61.111 0.00 0.00 0.00 2.57
175 176 0.830444 AGACCGTTGCACCACTCCTA 60.830 55.000 0.00 0.00 0.00 2.94
176 177 0.669625 GACCGTTGCACCACTCCTAC 60.670 60.000 0.00 0.00 0.00 3.18
178 179 0.670546 CCGTTGCACCACTCCTACTG 60.671 60.000 0.00 0.00 0.00 2.74
182 203 1.371183 GCACCACTCCTACTGCACA 59.629 57.895 0.00 0.00 0.00 4.57
190 211 1.301953 CCTACTGCACAGCACAGCA 60.302 57.895 0.00 0.00 38.79 4.41
252 273 1.880675 GGTCTAGATTCATCGCTCCGA 59.119 52.381 0.00 0.00 41.13 4.55
255 276 1.539388 CTAGATTCATCGCTCCGAGCT 59.461 52.381 18.14 0.00 39.91 4.09
333 393 3.728076 TGTGCAGTTCTACGAGAAACT 57.272 42.857 0.00 0.00 35.75 2.66
347 407 3.014623 GAGAAACTAAACGGAATGGGGG 58.985 50.000 0.00 0.00 0.00 5.40
357 417 6.683312 AAACGGAATGGGGGTTAAAAATAA 57.317 33.333 0.00 0.00 0.00 1.40
358 418 5.664294 ACGGAATGGGGGTTAAAAATAAC 57.336 39.130 0.00 0.00 0.00 1.89
363 423 6.876789 GGAATGGGGGTTAAAAATAACAACTG 59.123 38.462 1.65 0.00 0.00 3.16
396 485 2.774439 ACCAGATGTTTCGTGTTTGC 57.226 45.000 0.00 0.00 0.00 3.68
451 547 3.554524 CAACGTTACTTTGTCCTGCATG 58.445 45.455 0.00 0.00 0.00 4.06
456 552 0.957395 ACTTTGTCCTGCATGCTCCG 60.957 55.000 20.33 7.22 0.00 4.63
461 557 3.190849 CCTGCATGCTCCGACGTG 61.191 66.667 20.33 0.00 0.00 4.49
509 611 0.674895 GAGCAAACCACGCAGAGGAT 60.675 55.000 0.00 0.00 42.26 3.24
512 614 1.405526 GCAAACCACGCAGAGGATAGA 60.406 52.381 0.00 0.00 42.26 1.98
513 615 2.544685 CAAACCACGCAGAGGATAGAG 58.455 52.381 0.00 0.00 42.26 2.43
514 616 2.145397 AACCACGCAGAGGATAGAGA 57.855 50.000 0.00 0.00 42.26 3.10
515 617 1.686355 ACCACGCAGAGGATAGAGAG 58.314 55.000 0.00 0.00 42.26 3.20
546 654 4.292186 TGAACAGGAGAGGGAATCAAAG 57.708 45.455 0.00 0.00 0.00 2.77
635 752 2.094957 CCTCTCGTCTTTGACTGGAGTC 60.095 54.545 0.00 0.00 44.97 3.36
636 753 2.817258 CTCTCGTCTTTGACTGGAGTCT 59.183 50.000 8.24 0.00 44.99 3.24
637 754 2.814919 TCTCGTCTTTGACTGGAGTCTC 59.185 50.000 8.24 0.00 44.99 3.36
638 755 2.817258 CTCGTCTTTGACTGGAGTCTCT 59.183 50.000 8.24 0.00 44.99 3.10
796 914 0.895559 CTGTTCAAACTGCCCCTCCC 60.896 60.000 0.00 0.00 0.00 4.30
798 916 1.778383 TTCAAACTGCCCCTCCCCT 60.778 57.895 0.00 0.00 0.00 4.79
799 917 2.036256 CAAACTGCCCCTCCCCTG 59.964 66.667 0.00 0.00 0.00 4.45
800 918 3.984732 AAACTGCCCCTCCCCTGC 61.985 66.667 0.00 0.00 0.00 4.85
871 989 2.357517 CACTGTCGTCCTGCACCC 60.358 66.667 0.00 0.00 0.00 4.61
872 990 3.626924 ACTGTCGTCCTGCACCCC 61.627 66.667 0.00 0.00 0.00 4.95
935 1071 0.469917 CATATTGGCTCACCGTCCCT 59.530 55.000 0.00 0.00 39.70 4.20
955 1091 0.595095 CGCCTTCTTCTTGCAAGCTT 59.405 50.000 21.99 0.00 0.00 3.74
957 1093 2.413371 CGCCTTCTTCTTGCAAGCTTAC 60.413 50.000 21.99 6.13 0.00 2.34
958 1094 2.095008 GCCTTCTTCTTGCAAGCTTACC 60.095 50.000 21.99 2.96 0.00 2.85
959 1095 3.149196 CCTTCTTCTTGCAAGCTTACCA 58.851 45.455 21.99 0.00 0.00 3.25
960 1096 3.760684 CCTTCTTCTTGCAAGCTTACCAT 59.239 43.478 21.99 0.00 0.00 3.55
963 1099 4.592942 TCTTCTTGCAAGCTTACCATCAT 58.407 39.130 21.99 0.00 0.00 2.45
964 1100 4.637534 TCTTCTTGCAAGCTTACCATCATC 59.362 41.667 21.99 0.00 0.00 2.92
967 1103 2.646930 TGCAAGCTTACCATCATCCAG 58.353 47.619 0.00 0.00 0.00 3.86
969 1105 2.421952 GCAAGCTTACCATCATCCAGGA 60.422 50.000 0.00 0.00 0.00 3.86
971 1107 2.769209 AGCTTACCATCATCCAGGAGT 58.231 47.619 0.00 0.00 0.00 3.85
983 1138 1.347707 TCCAGGAGTGCTTAGGTTGTG 59.652 52.381 0.00 0.00 0.00 3.33
984 1139 1.072331 CCAGGAGTGCTTAGGTTGTGT 59.928 52.381 0.00 0.00 0.00 3.72
1034 1189 2.593978 CATGGACCAGCTGGAGGG 59.406 66.667 39.19 18.36 38.94 4.30
1321 1488 3.330720 CCCACTCCCACTCCCACC 61.331 72.222 0.00 0.00 0.00 4.61
1322 1489 2.529136 CCACTCCCACTCCCACCA 60.529 66.667 0.00 0.00 0.00 4.17
1554 1742 2.113139 CCCAACTTCGCCACCAGT 59.887 61.111 0.00 0.00 0.00 4.00
1558 1746 1.021202 CAACTTCGCCACCAGTTTCA 58.979 50.000 0.00 0.00 30.48 2.69
1703 1893 3.041211 TGTCCATCTAGTCCCCATCAAG 58.959 50.000 0.00 0.00 0.00 3.02
1785 1975 7.489574 AATCGATCTAGCATTTTCTTTCCTC 57.510 36.000 0.00 0.00 0.00 3.71
1800 1990 5.126067 TCTTTCCTCTAATTAGGTGCATGC 58.874 41.667 11.82 11.82 37.91 4.06
1815 2005 1.673033 GCATGCTCAGTTGACGGTAGT 60.673 52.381 11.37 0.00 0.00 2.73
1944 2142 4.828939 TGTTAGTTAGGTTCGTTCAGGAGA 59.171 41.667 0.00 0.00 0.00 3.71
1989 2187 2.619931 TCTGAGGATGGTGGTGAAGAA 58.380 47.619 0.00 0.00 0.00 2.52
2018 2216 6.680874 TGTTAATCCGTGTGTTTTGTACTT 57.319 33.333 0.00 0.00 0.00 2.24
2019 2217 7.783090 TGTTAATCCGTGTGTTTTGTACTTA 57.217 32.000 0.00 0.00 0.00 2.24
2020 2218 8.206325 TGTTAATCCGTGTGTTTTGTACTTAA 57.794 30.769 0.00 0.00 0.00 1.85
2083 2296 4.271696 ACTGAAACTGATGGAACGATCA 57.728 40.909 0.00 0.00 0.00 2.92
2134 2347 7.647907 ATGCAAATCTTGTTTCTTTGTGATC 57.352 32.000 0.00 0.00 33.46 2.92
2149 2362 7.445121 TCTTTGTGATCTCACTAGTTGAATGT 58.555 34.615 11.35 0.00 46.55 2.71
2154 2367 7.178451 TGTGATCTCACTAGTTGAATGTCCTTA 59.822 37.037 11.35 0.00 46.55 2.69
2215 2428 2.221055 GCGATTTGAGGTAATAGCACCG 59.779 50.000 0.00 0.00 43.84 4.94
2272 2485 3.130340 GGTCCTCAAACTTGCAAAAGTGA 59.870 43.478 0.00 3.11 32.47 3.41
2281 2494 9.376075 TCAAACTTGCAAAAGTGAATTATTTGA 57.624 25.926 0.00 0.00 36.41 2.69
2287 2500 6.591062 TGCAAAAGTGAATTATTTGATCCTGC 59.409 34.615 1.95 0.00 36.41 4.85
2315 2528 2.665165 TCTCAAGGTGCACATTTGGTT 58.335 42.857 24.38 0.61 0.00 3.67
2317 2530 1.686052 TCAAGGTGCACATTTGGTTCC 59.314 47.619 24.38 5.03 0.00 3.62
2329 2677 0.324923 TTGGTTCCTAGCCTCGCCTA 60.325 55.000 0.00 0.00 0.00 3.93
2333 2681 0.818445 TTCCTAGCCTCGCCTAGACG 60.818 60.000 0.00 0.00 37.57 4.18
2355 2703 3.561213 CATGCCAGCTGCTCGACG 61.561 66.667 8.66 0.00 42.00 5.12
2356 2704 4.827087 ATGCCAGCTGCTCGACGG 62.827 66.667 8.66 0.00 42.00 4.79
2400 2748 3.019003 GCCGAAGTGCCTAGGCTCA 62.019 63.158 33.07 12.84 45.67 4.26
2473 2821 1.076533 GTACTCATCGGTGTGGCACG 61.077 60.000 13.77 0.77 34.83 5.34
2537 2885 0.537143 TGCAAAGACCAACGGCTCAT 60.537 50.000 0.00 0.00 0.00 2.90
2629 2977 3.539563 CACGTTCGTTACCTGTATGTACG 59.460 47.826 0.00 0.00 0.00 3.67
2630 2978 2.527487 CGTTCGTTACCTGTATGTACGC 59.473 50.000 0.00 0.00 0.00 4.42
2654 3007 1.672363 GCCGATGTTGATGATCTTGCA 59.328 47.619 0.00 0.00 0.00 4.08
2658 3011 3.546218 CGATGTTGATGATCTTGCAGCTG 60.546 47.826 10.11 10.11 0.00 4.24
2660 3013 1.100510 TTGATGATCTTGCAGCTGCC 58.899 50.000 34.64 19.64 41.18 4.85
2662 3015 0.812811 GATGATCTTGCAGCTGCCGA 60.813 55.000 34.64 28.87 41.18 5.54
2663 3016 0.814410 ATGATCTTGCAGCTGCCGAG 60.814 55.000 34.64 29.30 41.18 4.63
2664 3017 2.821688 GATCTTGCAGCTGCCGAGC 61.822 63.158 34.64 27.52 46.64 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 6.358974 TTTCAACACATCAGTCTAGGATCA 57.641 37.500 0.00 0.00 0.00 2.92
36 37 3.330126 ACAAGCTAGGCATAGGGTCTA 57.670 47.619 7.62 0.00 30.82 2.59
136 137 2.098233 CATCAAACGGGTCGGGTCG 61.098 63.158 0.00 0.00 0.00 4.79
140 141 1.375396 TCTGCATCAAACGGGTCGG 60.375 57.895 0.00 0.00 0.00 4.79
175 176 2.191513 CCTTGCTGTGCTGTGCAGT 61.192 57.895 0.00 0.00 40.08 4.40
176 177 1.853114 CTCCTTGCTGTGCTGTGCAG 61.853 60.000 0.00 0.00 40.08 4.41
178 179 0.603707 TACTCCTTGCTGTGCTGTGC 60.604 55.000 0.00 0.00 0.00 4.57
182 203 1.197430 AGGCTACTCCTTGCTGTGCT 61.197 55.000 0.00 0.00 44.75 4.40
204 225 1.518572 CGGTACATGTCGGCTGGAC 60.519 63.158 0.00 0.00 46.27 4.02
252 273 0.308993 GAACTTTCGTTGCAGCAGCT 59.691 50.000 7.73 0.00 42.74 4.24
255 276 0.380378 GGTGAACTTTCGTTGCAGCA 59.620 50.000 0.24 0.00 33.23 4.41
333 393 7.234166 TGTTATTTTTAACCCCCATTCCGTTTA 59.766 33.333 0.00 0.00 0.00 2.01
357 417 4.461081 TGGTTACTCTTTTTGTGCAGTTGT 59.539 37.500 0.00 0.00 0.00 3.32
358 418 4.992688 TGGTTACTCTTTTTGTGCAGTTG 58.007 39.130 0.00 0.00 0.00 3.16
363 423 5.438761 ACATCTGGTTACTCTTTTTGTGC 57.561 39.130 0.00 0.00 0.00 4.57
396 485 7.575365 TGTAGATTGCAATAATGTGAATAGCG 58.425 34.615 12.97 0.00 0.00 4.26
428 524 1.265905 GCAGGACAAAGTAACGTTGGG 59.734 52.381 11.99 0.00 0.00 4.12
429 525 1.944024 TGCAGGACAAAGTAACGTTGG 59.056 47.619 11.99 0.00 0.00 3.77
456 552 3.782244 CCAAGCAGCTCGCACGTC 61.782 66.667 0.00 0.00 46.13 4.34
461 557 2.202570 CATTGCCAAGCAGCTCGC 60.203 61.111 0.00 0.72 40.61 5.03
494 590 2.428890 CTCTCTATCCTCTGCGTGGTTT 59.571 50.000 0.00 0.00 0.00 3.27
509 611 5.665360 TCCTGTTCATCTCTCTCTCTCTCTA 59.335 44.000 0.00 0.00 0.00 2.43
512 614 4.474651 TCTCCTGTTCATCTCTCTCTCTCT 59.525 45.833 0.00 0.00 0.00 3.10
513 615 4.780815 TCTCCTGTTCATCTCTCTCTCTC 58.219 47.826 0.00 0.00 0.00 3.20
514 616 4.385643 CCTCTCCTGTTCATCTCTCTCTCT 60.386 50.000 0.00 0.00 0.00 3.10
515 617 3.885297 CCTCTCCTGTTCATCTCTCTCTC 59.115 52.174 0.00 0.00 0.00 3.20
546 654 3.721706 CTGACCCTCCCTGCACCC 61.722 72.222 0.00 0.00 0.00 4.61
635 752 2.025898 TGCTCAGCATCTCAGAGAGAG 58.974 52.381 6.24 8.01 42.26 3.20
636 753 1.750206 GTGCTCAGCATCTCAGAGAGA 59.250 52.381 0.54 1.59 41.91 3.10
637 754 1.202440 GGTGCTCAGCATCTCAGAGAG 60.202 57.143 0.54 0.00 41.91 3.20
638 755 0.822811 GGTGCTCAGCATCTCAGAGA 59.177 55.000 0.54 1.54 41.91 3.10
871 989 3.979497 GGAAGTGGTGGGGTGGGG 61.979 72.222 0.00 0.00 0.00 4.96
872 990 2.092904 AATGGAAGTGGTGGGGTGGG 62.093 60.000 0.00 0.00 0.00 4.61
935 1071 0.250467 AGCTTGCAAGAAGAAGGCGA 60.250 50.000 30.39 0.00 0.00 5.54
955 1091 2.180946 AGCACTCCTGGATGATGGTA 57.819 50.000 0.00 0.00 0.00 3.25
957 1093 2.224475 CCTAAGCACTCCTGGATGATGG 60.224 54.545 0.00 0.00 0.00 3.51
958 1094 2.437281 ACCTAAGCACTCCTGGATGATG 59.563 50.000 0.00 0.00 0.00 3.07
959 1095 2.769209 ACCTAAGCACTCCTGGATGAT 58.231 47.619 0.00 0.00 0.00 2.45
960 1096 2.237143 CAACCTAAGCACTCCTGGATGA 59.763 50.000 0.00 0.00 0.00 2.92
963 1099 1.347707 CACAACCTAAGCACTCCTGGA 59.652 52.381 0.00 0.00 0.00 3.86
964 1100 1.072331 ACACAACCTAAGCACTCCTGG 59.928 52.381 0.00 0.00 0.00 4.45
967 1103 2.302157 ACCTACACAACCTAAGCACTCC 59.698 50.000 0.00 0.00 0.00 3.85
969 1105 4.102681 AGAAACCTACACAACCTAAGCACT 59.897 41.667 0.00 0.00 0.00 4.40
971 1107 4.699925 AGAAACCTACACAACCTAAGCA 57.300 40.909 0.00 0.00 0.00 3.91
983 1138 2.280628 CCATCGCTCCAAGAAACCTAC 58.719 52.381 0.00 0.00 0.00 3.18
984 1139 1.906574 ACCATCGCTCCAAGAAACCTA 59.093 47.619 0.00 0.00 0.00 3.08
1011 1166 2.044555 CAGCTGGTCCATGGCAGTG 61.045 63.158 17.57 11.90 0.00 3.66
1034 1189 2.283676 TGACGACCACCTCCTCCC 60.284 66.667 0.00 0.00 0.00 4.30
1134 1301 3.895656 TGTAGTAGCAGAACTTGGTGTCT 59.104 43.478 0.00 0.00 38.18 3.41
1554 1742 2.049618 GCGCCGCCAAACATGAAA 60.050 55.556 0.00 0.00 0.00 2.69
1654 1842 4.847367 CCCCATGCCCCAGAAGCC 62.847 72.222 0.00 0.00 0.00 4.35
1695 1885 2.276740 GGTGGGGAGCTTGATGGG 59.723 66.667 0.00 0.00 0.00 4.00
1785 1975 4.877823 TCAACTGAGCATGCACCTAATTAG 59.122 41.667 21.98 8.34 0.00 1.73
1800 1990 5.175126 CACTAACAAACTACCGTCAACTGAG 59.825 44.000 0.00 0.00 0.00 3.35
1815 2005 6.526526 TGGATGCAGTAGTAACACTAACAAA 58.473 36.000 0.00 0.00 31.62 2.83
1944 2142 5.630121 TGACTCTCATAACCACACCATTTT 58.370 37.500 0.00 0.00 0.00 1.82
1989 2187 6.183360 ACAAAACACACGGATTAACATGAGTT 60.183 34.615 0.00 0.00 41.74 3.01
2018 2216 1.153469 TGCATGCAGTCGCGGATTA 60.153 52.632 18.46 0.00 42.97 1.75
2019 2217 2.436469 TGCATGCAGTCGCGGATT 60.436 55.556 18.46 0.00 42.97 3.01
2020 2218 2.893895 CTGCATGCAGTCGCGGAT 60.894 61.111 34.76 0.00 42.97 4.18
2083 2296 6.112734 TCAACATCAATAAGCTACCATCGTT 58.887 36.000 0.00 0.00 0.00 3.85
2177 2390 7.028962 TCAAATCGCATCAACAAAGAAATAGG 58.971 34.615 0.00 0.00 0.00 2.57
2179 2392 7.028962 CCTCAAATCGCATCAACAAAGAAATA 58.971 34.615 0.00 0.00 0.00 1.40
2190 2403 4.511454 GTGCTATTACCTCAAATCGCATCA 59.489 41.667 0.10 0.00 39.04 3.07
2215 2428 4.578928 TGAAGAACAAGTTTAAGGACCTGC 59.421 41.667 0.00 0.00 0.00 4.85
2225 2438 6.469782 AACCATCACATGAAGAACAAGTTT 57.530 33.333 0.00 0.00 0.00 2.66
2233 2446 3.074390 AGGACCAAACCATCACATGAAGA 59.926 43.478 0.00 0.00 0.00 2.87
2264 2477 8.437742 GTTGCAGGATCAAATAATTCACTTTTG 58.562 33.333 0.00 0.00 0.00 2.44
2272 2485 7.899973 AGAACAAGTTGCAGGATCAAATAATT 58.100 30.769 1.81 0.00 0.00 1.40
2307 2520 1.017387 GCGAGGCTAGGAACCAAATG 58.983 55.000 0.00 0.00 0.00 2.32
2315 2528 1.227883 CGTCTAGGCGAGGCTAGGA 60.228 63.158 26.43 14.58 0.00 2.94
2317 2530 2.640421 GCGTCTAGGCGAGGCTAG 59.360 66.667 23.19 22.82 47.00 3.42
2428 2776 3.181967 CGTCTTCTCGCCGCCAAG 61.182 66.667 0.00 0.00 0.00 3.61
2429 2777 4.735132 CCGTCTTCTCGCCGCCAA 62.735 66.667 0.00 0.00 0.00 4.52
2437 2785 0.683504 TACCTCCCAGCCGTCTTCTC 60.684 60.000 0.00 0.00 0.00 2.87
2442 2790 1.043673 ATGAGTACCTCCCAGCCGTC 61.044 60.000 0.00 0.00 0.00 4.79
2448 2796 0.040646 ACACCGATGAGTACCTCCCA 59.959 55.000 0.00 0.00 0.00 4.37
2520 2868 0.523072 CCATGAGCCGTTGGTCTTTG 59.477 55.000 0.00 0.00 39.75 2.77
2537 2885 0.817634 CGGTTTGTTCTCTGGCACCA 60.818 55.000 0.00 0.00 0.00 4.17
2614 2962 1.203065 GCCGCGTACATACAGGTAAC 58.797 55.000 4.92 0.00 0.00 2.50
2629 2977 4.596180 CATCAACATCGGCGCCGC 62.596 66.667 42.78 9.12 39.59 6.53
2630 2978 2.162921 GATCATCAACATCGGCGCCG 62.163 60.000 42.13 42.13 41.35 6.46


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

AutoCloner maintained by Alex Coulton.