Multiple sequence alignment - TraesCS3D01G281900

Loading Multiple Alignment...

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 TraesCS3D01G281900 chr3D 100.000 3081 0 0 1 3081 390040717 390043797 0.000000e+00 5690.0
1 TraesCS3D01G281900 chr3D 85.470 117 13 4 1463 1577 399380487 399380373 5.400000e-23 119.0
2 TraesCS3D01G281900 chr3B 92.254 2737 109 39 1 2678 507285492 507288184 0.000000e+00 3784.0
3 TraesCS3D01G281900 chr3B 90.663 407 27 7 2680 3081 507288301 507288701 5.850000e-147 531.0
4 TraesCS3D01G281900 chr3B 85.470 117 13 4 1463 1577 525242494 525242380 5.400000e-23 119.0
5 TraesCS3D01G281900 chr3A 92.143 2049 100 28 198 2206 510662966 510664993 0.000000e+00 2835.0
6 TraesCS3D01G281900 chr3A 88.011 759 42 14 2217 2936 510665194 510665942 0.000000e+00 852.0
7 TraesCS3D01G281900 chr3A 94.811 212 7 1 1 212 510662743 510662950 8.240000e-86 327.0
8 TraesCS3D01G281900 chr3A 78.730 315 54 11 2743 3053 544984129 544983824 6.740000e-47 198.0
9 TraesCS3D01G281900 chr3A 79.433 282 40 13 2739 3018 416138581 416138846 1.890000e-42 183.0
10 TraesCS3D01G281900 chr3A 84.615 117 14 4 1463 1577 518642731 518642617 2.510000e-21 113.0
11 TraesCS3D01G281900 chr7A 82.019 317 41 11 2741 3053 55018182 55017878 3.940000e-64 255.0
12 TraesCS3D01G281900 chr7D 81.570 293 37 12 2741 3029 18870001 18870280 3.090000e-55 226.0
13 TraesCS3D01G281900 chr4A 79.310 319 40 16 2741 3057 636097930 636098224 1.870000e-47 200.0
14 TraesCS3D01G281900 chr4D 78.125 320 56 7 2738 3056 415881140 415880834 1.130000e-44 191.0
15 TraesCS3D01G281900 chr5D 77.673 318 54 13 2739 3053 260877939 260878242 8.780000e-41 178.0
16 TraesCS3D01G281900 chr2A 80.804 224 30 10 2833 3054 694150568 694150356 2.460000e-36 163.0
17 TraesCS3D01G281900 chr2A 82.911 158 19 5 2893 3048 632628988 632628837 5.360000e-28 135.0
18 TraesCS3D01G281900 chr2B 86.111 144 18 2 2911 3053 572592735 572592593 1.480000e-33 154.0
19 TraesCS3D01G281900 chr2B 84.459 148 21 2 2909 3055 801071947 801071801 8.900000e-31 145.0
20 TraesCS3D01G281900 chr1D 83.186 113 18 1 1465 1577 283617844 283617955 5.440000e-18 102.0
21 TraesCS3D01G281900 chr1D 85.075 67 10 0 1216 1282 283617778 283617844 5.510000e-08 69.4
22 TraesCS3D01G281900 chr1B 83.186 113 18 1 1465 1577 385296796 385296907 5.440000e-18 102.0
23 TraesCS3D01G281900 chr1B 85.075 67 10 0 1216 1282 385296730 385296796 5.510000e-08 69.4
24 TraesCS3D01G281900 chr1A 83.186 113 18 1 1465 1577 355343728 355343839 5.440000e-18 102.0
25 TraesCS3D01G281900 chr1A 85.075 67 10 0 1216 1282 355343662 355343728 5.510000e-08 69.4
26 TraesCS3D01G281900 chr6A 80.189 106 11 7 2515 2616 538543790 538543691 1.530000e-08 71.3


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 TraesCS3D01G281900 chr3D 390040717 390043797 3080 False 5690.0 5690 100.0000 1 3081 1 chr3D.!!$F1 3080
1 TraesCS3D01G281900 chr3B 507285492 507288701 3209 False 2157.5 3784 91.4585 1 3081 2 chr3B.!!$F1 3080
2 TraesCS3D01G281900 chr3A 510662743 510665942 3199 False 1338.0 2835 91.6550 1 2936 3 chr3A.!!$F2 2935

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
787 836 0.036164 GATACAGGCACCCACACACA 59.964 55.0 0.0 0.0 0.0 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2149 2233 0.313987 AGCTAACCAACAAAAGCGCC 59.686 50.0 2.29 0.0 39.94 6.53 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
28 29 1.667724 GAAGTTGAGGACATGCATCCG 59.332 52.381 0.00 0.00 44.22 4.18
29 30 0.904649 AGTTGAGGACATGCATCCGA 59.095 50.000 0.00 0.00 44.22 4.55
30 31 1.487976 AGTTGAGGACATGCATCCGAT 59.512 47.619 0.00 0.00 44.22 4.18
31 32 1.869767 GTTGAGGACATGCATCCGATC 59.130 52.381 0.00 0.00 44.22 3.69
226 261 5.316327 TCAAGCATGACAGTACAGACTAG 57.684 43.478 0.00 0.00 33.32 2.57
298 333 4.654091 TTGTTTCTCCTCCAAGCAAAAG 57.346 40.909 0.00 0.00 0.00 2.27
394 429 3.843999 AGACATCGTCAAGAAAGCTCTC 58.156 45.455 0.00 0.00 34.60 3.20
575 610 2.675032 CGCAGAGGTTAGTGCATGAGAA 60.675 50.000 0.00 0.00 39.83 2.87
610 645 4.702081 GTCGCCGTCACACGCTCT 62.702 66.667 0.00 0.00 40.91 4.09
611 646 4.400109 TCGCCGTCACACGCTCTC 62.400 66.667 0.00 0.00 40.91 3.20
777 820 0.461870 GACGGCACATGATACAGGCA 60.462 55.000 0.00 0.00 0.00 4.75
779 828 1.439353 CGGCACATGATACAGGCACC 61.439 60.000 0.00 0.00 0.00 5.01
787 836 0.036164 GATACAGGCACCCACACACA 59.964 55.000 0.00 0.00 0.00 3.72
891 940 0.815615 GGTGGCATCGATCCAAGGAC 60.816 60.000 15.34 0.00 35.01 3.85
978 1029 1.384989 GCTCCACCGTCTGCTAGCTA 61.385 60.000 17.23 0.72 0.00 3.32
993 1044 3.171705 GCTAGTGCTTCTCCGATCG 57.828 57.895 8.51 8.51 36.03 3.69
1170 1221 4.057428 GTGACCGTGCCTCTCGCT 62.057 66.667 0.00 0.00 38.78 4.93
1294 1350 1.479323 TCCCAAGGTACGCTCATGTAC 59.521 52.381 0.00 0.00 43.15 2.90
1295 1351 1.480954 CCCAAGGTACGCTCATGTACT 59.519 52.381 4.29 0.00 43.36 2.73
1296 1352 2.481449 CCCAAGGTACGCTCATGTACTC 60.481 54.545 4.29 0.00 43.36 2.59
1297 1353 2.427453 CCAAGGTACGCTCATGTACTCT 59.573 50.000 4.29 0.00 43.36 3.24
1298 1354 3.630769 CCAAGGTACGCTCATGTACTCTA 59.369 47.826 4.29 0.00 43.36 2.43
1355 1411 0.322456 CGGAGTTTGGCCTGGATTGA 60.322 55.000 3.32 0.00 0.00 2.57
1368 1424 0.379669 GGATTGAGACGGCATGCAAG 59.620 55.000 21.36 15.25 0.00 4.01
1371 1427 2.045926 GAGACGGCATGCAAGGGT 60.046 61.111 21.36 11.24 0.00 4.34
1374 1432 1.212751 GACGGCATGCAAGGGTTTC 59.787 57.895 21.36 2.75 0.00 2.78
1375 1433 1.523154 GACGGCATGCAAGGGTTTCA 61.523 55.000 21.36 0.00 0.00 2.69
1385 1443 2.871637 GCAAGGGTTTCATTTGCTTCCC 60.872 50.000 1.51 0.00 42.84 3.97
1392 1452 2.488204 TCATTTGCTTCCCGACATGA 57.512 45.000 0.00 0.00 0.00 3.07
1414 1474 3.995199 TCTTGTGCTCTTCGATTGAGTT 58.005 40.909 14.64 0.00 34.30 3.01
1437 1499 1.503542 CATGGCGAGGTTTGCTGAC 59.496 57.895 0.00 0.00 0.00 3.51
1489 1551 0.811915 ACTACAGGTGCAGTAGCTCG 59.188 55.000 10.62 0.00 42.04 5.03
1614 1676 4.329545 GCAGAACCGGCAGACCCA 62.330 66.667 0.00 0.00 0.00 4.51
1617 1679 2.266055 GAACCGGCAGACCCAGAG 59.734 66.667 0.00 0.00 0.00 3.35
1618 1680 3.959991 GAACCGGCAGACCCAGAGC 62.960 68.421 0.00 0.00 0.00 4.09
1945 2007 1.265454 GGGGAGGAGGCGAAGAAGAA 61.265 60.000 0.00 0.00 0.00 2.52
2108 2173 1.040893 TGTCTGACGTGTGGGACAGT 61.041 55.000 0.00 0.00 41.80 3.55
2112 2177 0.828022 TGACGTGTGGGACAGTTCTT 59.172 50.000 0.00 0.00 41.80 2.52
2124 2193 4.811557 GGGACAGTTCTTCAATAAGATCGG 59.188 45.833 0.00 0.00 41.36 4.18
2125 2194 4.271291 GGACAGTTCTTCAATAAGATCGGC 59.729 45.833 0.00 0.00 41.36 5.54
2126 2195 3.865745 ACAGTTCTTCAATAAGATCGGCG 59.134 43.478 0.00 0.00 41.36 6.46
2128 2197 3.132289 AGTTCTTCAATAAGATCGGCGGA 59.868 43.478 7.21 0.00 41.36 5.54
2129 2198 4.058817 GTTCTTCAATAAGATCGGCGGAT 58.941 43.478 7.21 6.45 41.36 4.18
2130 2199 5.010719 AGTTCTTCAATAAGATCGGCGGATA 59.989 40.000 7.21 0.00 41.36 2.59
2149 2233 7.432252 GGCGGATAAAATTAGTTTCATGTTCTG 59.568 37.037 0.00 0.00 0.00 3.02
2167 2255 0.031449 TGGCGCTTTTGTTGGTTAGC 59.969 50.000 7.64 0.00 0.00 3.09
2174 2262 4.299155 GCTTTTGTTGGTTAGCTTTCTCC 58.701 43.478 0.00 0.00 0.00 3.71
2177 2265 1.074889 TGTTGGTTAGCTTTCTCCCCC 59.925 52.381 0.00 0.00 0.00 5.40
2179 2267 1.755200 TGGTTAGCTTTCTCCCCCTT 58.245 50.000 0.00 0.00 0.00 3.95
2180 2268 1.633945 TGGTTAGCTTTCTCCCCCTTC 59.366 52.381 0.00 0.00 0.00 3.46
2184 2272 4.408276 GTTAGCTTTCTCCCCCTTCTTTT 58.592 43.478 0.00 0.00 0.00 2.27
2206 2295 9.503399 CTTTTGGTACCTTCTTTTACTCATACT 57.497 33.333 14.36 0.00 0.00 2.12
2207 2296 9.498176 TTTTGGTACCTTCTTTTACTCATACTC 57.502 33.333 14.36 0.00 0.00 2.59
2208 2297 7.179076 TGGTACCTTCTTTTACTCATACTCC 57.821 40.000 14.36 0.00 0.00 3.85
2210 2299 7.402071 TGGTACCTTCTTTTACTCATACTCCAT 59.598 37.037 14.36 0.00 0.00 3.41
2211 2300 8.265764 GGTACCTTCTTTTACTCATACTCCATT 58.734 37.037 4.06 0.00 0.00 3.16
2214 2303 9.047947 ACCTTCTTTTACTCATACTCCATTACT 57.952 33.333 0.00 0.00 0.00 2.24
2273 2553 2.613595 TGCACATATTGATTGGACGAGC 59.386 45.455 0.00 0.00 0.00 5.03
2302 2601 4.942852 TGTCAATGGTTTGGTTGAATCAC 58.057 39.130 0.00 0.00 36.23 3.06
2348 2655 1.159285 CGGTCGCCGGTAGATATACA 58.841 55.000 1.90 0.00 44.15 2.29
2349 2656 1.741706 CGGTCGCCGGTAGATATACAT 59.258 52.381 1.90 0.00 44.15 2.29
2350 2657 2.938451 CGGTCGCCGGTAGATATACATA 59.062 50.000 1.90 0.00 44.15 2.29
2351 2658 3.242543 CGGTCGCCGGTAGATATACATAC 60.243 52.174 1.90 0.00 44.15 2.39
2352 2659 3.691118 GGTCGCCGGTAGATATACATACA 59.309 47.826 1.90 0.00 0.00 2.29
2353 2660 4.337555 GGTCGCCGGTAGATATACATACAT 59.662 45.833 1.90 0.00 0.00 2.29
2405 2713 3.944650 TCTTCAACTTTTGCACTGCTACA 59.055 39.130 1.98 0.00 0.00 2.74
2497 2817 4.034510 GTGGAAATCTCAGCGATTACTTGG 59.965 45.833 0.00 0.00 41.42 3.61
2500 2820 2.988010 TCTCAGCGATTACTTGGCAT 57.012 45.000 0.00 0.00 0.00 4.40
2504 2824 1.335810 CAGCGATTACTTGGCATGCAT 59.664 47.619 21.36 2.33 0.00 3.96
2508 2828 3.851105 GCGATTACTTGGCATGCATTCTC 60.851 47.826 21.36 1.47 0.00 2.87
2520 2840 4.577693 GCATGCATTCTCAATCCTACTTCA 59.422 41.667 14.21 0.00 0.00 3.02
2523 2843 5.052481 TGCATTCTCAATCCTACTTCATCG 58.948 41.667 0.00 0.00 0.00 3.84
2524 2844 4.450419 GCATTCTCAATCCTACTTCATCGG 59.550 45.833 0.00 0.00 0.00 4.18
2660 2980 9.961265 CATGCAAATGTACTTTATGATCAATCT 57.039 29.630 0.00 0.00 0.00 2.40
2763 3199 4.497006 GGCCTCTTTGATTCACATGATTCG 60.497 45.833 0.00 0.00 0.00 3.34
2776 3212 3.120199 ACATGATTCGAAAAACGCTGGAG 60.120 43.478 0.00 0.00 42.26 3.86
2780 3216 3.374220 TTCGAAAAACGCTGGAGTAGA 57.626 42.857 0.00 0.00 42.26 2.59
2831 3268 6.769822 GGTCATCTCAATCCTACATGATTTGT 59.230 38.462 0.00 0.00 42.62 2.83
2832 3269 7.933577 GGTCATCTCAATCCTACATGATTTGTA 59.066 37.037 0.00 0.00 39.87 2.41
2853 3290 7.920160 TGTAGTTGTTTGATTGCATCATAGA 57.080 32.000 0.00 0.00 39.39 1.98
2939 3380 7.337184 GGAAAGTAGGACAAAGAAATCCTTAGG 59.663 40.741 0.00 0.00 43.09 2.69
2995 3437 8.602328 TCAAACAAGCAACATAGAAAACAAATG 58.398 29.630 0.00 0.00 0.00 2.32
3004 3446 9.927668 CAACATAGAAAACAAATGGTAAGGATT 57.072 29.630 0.00 0.00 0.00 3.01
3037 3479 8.807948 TCCAAAGTTCCTATGAAAATCCTTAG 57.192 34.615 0.00 0.00 30.79 2.18
3039 3481 8.897752 CCAAAGTTCCTATGAAAATCCTTAGAG 58.102 37.037 0.00 0.00 30.79 2.43
3052 3494 2.792370 TCCTTAGAGTCATAGGAGGCCT 59.208 50.000 3.86 3.86 33.23 5.19
3065 3507 6.216868 TCATAGGAGGCCTAAACCTAAACTTT 59.783 38.462 19.74 3.57 41.32 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 9.118236 CTTTGTTTCTTTGTTTAATCCTCGATC 57.882 33.333 0.00 0.00 0.00 3.69
29 30 7.595130 GCTTTGTTTCTTTGTTTAATCCTCGAT 59.405 33.333 0.00 0.00 0.00 3.59
30 31 6.915843 GCTTTGTTTCTTTGTTTAATCCTCGA 59.084 34.615 0.00 0.00 0.00 4.04
31 32 6.695278 TGCTTTGTTTCTTTGTTTAATCCTCG 59.305 34.615 0.00 0.00 0.00 4.63
146 151 2.815211 GCCAGATTGTGCGCTCGA 60.815 61.111 9.73 5.13 0.00 4.04
147 152 3.869272 GGCCAGATTGTGCGCTCG 61.869 66.667 9.73 0.00 0.00 5.03
148 153 3.869272 CGGCCAGATTGTGCGCTC 61.869 66.667 9.73 5.51 0.00 5.03
149 154 2.796483 TTACGGCCAGATTGTGCGCT 62.796 55.000 9.73 0.00 0.00 5.92
203 238 9.176713 AGACTAGTCTGTACTGTCATGCTTGAC 62.177 44.444 24.62 22.34 44.28 3.18
298 333 0.759346 ACAGACCTGGTGTGTTCTCC 59.241 55.000 22.61 0.00 36.66 3.71
344 379 5.258456 AGAATTTTCAGCTACATGCATGG 57.742 39.130 29.41 14.48 45.94 3.66
445 480 9.902196 GAGGAGTAGCAGTTTTCTAGAATATAC 57.098 37.037 5.89 5.51 0.00 1.47
498 533 2.102252 AGCTGTCCCTTCGATCTCAATC 59.898 50.000 0.00 0.00 0.00 2.67
575 610 0.032017 ACGCCTCCCCAACTATCTCT 60.032 55.000 0.00 0.00 0.00 3.10
610 645 3.706698 CTTGGCTTGAGAATACGATCGA 58.293 45.455 24.34 5.87 0.00 3.59
611 646 2.219674 GCTTGGCTTGAGAATACGATCG 59.780 50.000 14.88 14.88 0.00 3.69
777 820 3.161450 ACGAGGCTGTGTGTGGGT 61.161 61.111 0.00 0.00 0.00 4.51
787 836 3.311596 GTGAACTAAACAAACACGAGGCT 59.688 43.478 0.00 0.00 0.00 4.58
828 877 2.746269 TCCGCCGGATATAAAGAAACG 58.254 47.619 5.05 0.00 0.00 3.60
978 1029 0.603569 AACACGATCGGAGAAGCACT 59.396 50.000 20.98 0.00 43.58 4.40
993 1044 3.027170 CTCGCCGTCCATGCAACAC 62.027 63.158 0.00 0.00 0.00 3.32
1065 1116 3.114616 CTGTTGCAGTCCGCCGAG 61.115 66.667 0.00 0.00 41.33 4.63
1315 1371 4.260784 CCGAGTTAATTGCAGAGTTATGGC 60.261 45.833 0.00 0.00 0.00 4.40
1355 1411 1.228552 AAACCCTTGCATGCCGTCT 60.229 52.632 16.68 0.00 0.00 4.18
1368 1424 1.067846 GTCGGGAAGCAAATGAAACCC 60.068 52.381 0.00 0.00 0.00 4.11
1371 1427 3.153130 TCATGTCGGGAAGCAAATGAAA 58.847 40.909 0.00 0.00 0.00 2.69
1374 1432 2.947652 AGATCATGTCGGGAAGCAAATG 59.052 45.455 0.00 0.00 0.00 2.32
1375 1433 3.287867 AGATCATGTCGGGAAGCAAAT 57.712 42.857 0.00 0.00 0.00 2.32
1385 1443 2.280971 CGAAGAGCACAAGATCATGTCG 59.719 50.000 0.00 0.00 30.99 4.35
1392 1452 4.199432 ACTCAATCGAAGAGCACAAGAT 57.801 40.909 15.70 0.00 43.63 2.40
1414 1474 1.936436 GCAAACCTCGCCATGCATGA 61.936 55.000 28.31 7.35 38.63 3.07
1437 1499 1.341080 AATTGAACACCAAGCCCAGG 58.659 50.000 0.00 0.00 38.31 4.45
1443 1505 3.120199 CCTGCTCGTAATTGAACACCAAG 60.120 47.826 0.00 0.00 38.31 3.61
1618 1680 4.293671 TTGTTGGGCTTCCGGGGG 62.294 66.667 0.00 0.00 0.00 5.40
1621 1683 1.675641 CTCCTTGTTGGGCTTCCGG 60.676 63.158 0.00 0.00 36.20 5.14
1622 1684 2.335712 GCTCCTTGTTGGGCTTCCG 61.336 63.158 0.00 0.00 36.20 4.30
1623 1685 2.335712 CGCTCCTTGTTGGGCTTCC 61.336 63.158 0.00 0.00 36.20 3.46
1657 1719 1.447838 GTCGGATTTCGCTGGCTCA 60.448 57.895 0.00 0.00 39.05 4.26
1834 1896 1.198759 AGAACATGGGCCCGTACAGT 61.199 55.000 18.59 8.07 0.00 3.55
1929 1991 1.468395 CGTCTTCTTCTTCGCCTCCTC 60.468 57.143 0.00 0.00 0.00 3.71
2108 2173 3.812156 TCCGCCGATCTTATTGAAGAA 57.188 42.857 0.00 0.00 44.85 2.52
2112 2177 7.876068 ACTAATTTTATCCGCCGATCTTATTGA 59.124 33.333 0.00 0.00 0.00 2.57
2124 2193 7.432252 CCAGAACATGAAACTAATTTTATCCGC 59.568 37.037 0.00 0.00 0.00 5.54
2125 2194 7.432252 GCCAGAACATGAAACTAATTTTATCCG 59.568 37.037 0.00 0.00 0.00 4.18
2126 2195 7.432252 CGCCAGAACATGAAACTAATTTTATCC 59.568 37.037 0.00 0.00 0.00 2.59
2128 2197 6.751888 GCGCCAGAACATGAAACTAATTTTAT 59.248 34.615 0.00 0.00 0.00 1.40
2129 2198 6.072175 AGCGCCAGAACATGAAACTAATTTTA 60.072 34.615 2.29 0.00 0.00 1.52
2130 2199 4.923281 GCGCCAGAACATGAAACTAATTTT 59.077 37.500 0.00 0.00 0.00 1.82
2149 2233 0.313987 AGCTAACCAACAAAAGCGCC 59.686 50.000 2.29 0.00 39.94 6.53
2167 2255 3.244887 ACCAAAAGAAGGGGGAGAAAG 57.755 47.619 0.00 0.00 0.00 2.62
2174 2262 3.808834 AGAAGGTACCAAAAGAAGGGG 57.191 47.619 15.94 0.00 0.00 4.79
2177 2265 8.446599 TGAGTAAAAGAAGGTACCAAAAGAAG 57.553 34.615 15.94 0.00 0.00 2.85
2179 2267 9.498176 GTATGAGTAAAAGAAGGTACCAAAAGA 57.502 33.333 15.94 0.00 0.00 2.52
2180 2268 9.503399 AGTATGAGTAAAAGAAGGTACCAAAAG 57.497 33.333 15.94 0.00 0.00 2.27
2184 2272 6.727231 TGGAGTATGAGTAAAAGAAGGTACCA 59.273 38.462 15.94 0.00 0.00 3.25
2206 2295 8.245195 TCTGTGTGCTAATGTATAGTAATGGA 57.755 34.615 0.00 0.00 0.00 3.41
2207 2296 8.887036 TTCTGTGTGCTAATGTATAGTAATGG 57.113 34.615 0.00 0.00 0.00 3.16
2208 2297 9.750125 TCTTCTGTGTGCTAATGTATAGTAATG 57.250 33.333 0.00 0.00 0.00 1.90
2211 2300 9.967346 GATTCTTCTGTGTGCTAATGTATAGTA 57.033 33.333 0.00 0.00 0.00 1.82
2213 2302 8.976471 CAGATTCTTCTGTGTGCTAATGTATAG 58.024 37.037 0.00 0.00 43.73 1.31
2214 2303 8.877808 CAGATTCTTCTGTGTGCTAATGTATA 57.122 34.615 0.00 0.00 43.73 1.47
2215 2304 7.783090 CAGATTCTTCTGTGTGCTAATGTAT 57.217 36.000 0.00 0.00 43.73 2.29
2273 2553 4.135747 ACCAAACCATTGACAAAAGGTG 57.864 40.909 14.33 6.85 37.44 4.00
2302 2601 9.953697 GAGTATAGAATACCACTACAAGACAAG 57.046 37.037 0.00 0.00 0.00 3.16
2348 2655 9.019656 TGCTCACCACTTTTTATTTGTATGTAT 57.980 29.630 0.00 0.00 0.00 2.29
2349 2656 8.397575 TGCTCACCACTTTTTATTTGTATGTA 57.602 30.769 0.00 0.00 0.00 2.29
2350 2657 7.283625 TGCTCACCACTTTTTATTTGTATGT 57.716 32.000 0.00 0.00 0.00 2.29
2351 2658 8.761575 AATGCTCACCACTTTTTATTTGTATG 57.238 30.769 0.00 0.00 0.00 2.39
2353 2660 9.290988 TCTAATGCTCACCACTTTTTATTTGTA 57.709 29.630 0.00 0.00 0.00 2.41
2405 2713 4.018415 ACCTTGACCTAGGCAATGTACAAT 60.018 41.667 18.28 0.00 38.99 2.71
2488 2808 4.906065 TGAGAATGCATGCCAAGTAATC 57.094 40.909 16.68 4.91 0.00 1.75
2497 2817 4.577693 TGAAGTAGGATTGAGAATGCATGC 59.422 41.667 11.82 11.82 0.00 4.06
2500 2820 5.052481 CGATGAAGTAGGATTGAGAATGCA 58.948 41.667 0.00 0.00 0.00 3.96
2504 2824 5.677319 AACCGATGAAGTAGGATTGAGAA 57.323 39.130 0.00 0.00 0.00 2.87
2508 2828 6.494893 TTTGAAACCGATGAAGTAGGATTG 57.505 37.500 0.00 0.00 0.00 2.67
2801 3238 6.271624 TCATGTAGGATTGAGATGACCATGAT 59.728 38.462 0.00 0.00 33.31 2.45
2953 3394 9.970395 TGCTTGTTTGATTCATATGATAAATCC 57.030 29.630 6.17 0.26 0.00 3.01
2965 3407 7.978414 TGTTTTCTATGTTGCTTGTTTGATTCA 59.022 29.630 0.00 0.00 0.00 2.57
2974 3416 8.586570 TTACCATTTGTTTTCTATGTTGCTTG 57.413 30.769 0.00 0.00 0.00 4.01
2977 3419 7.375053 TCCTTACCATTTGTTTTCTATGTTGC 58.625 34.615 0.00 0.00 0.00 4.17
3006 3448 9.408648 GATTTTCATAGGAACTTTGGAGGATTA 57.591 33.333 0.00 0.00 41.75 1.75
3025 3467 6.183361 GCCTCCTATGACTCTAAGGATTTTCA 60.183 42.308 0.00 0.00 38.70 2.69
3037 3479 3.310193 AGGTTTAGGCCTCCTATGACTC 58.690 50.000 9.68 0.00 35.87 3.36
3039 3481 5.130643 AGTTTAGGTTTAGGCCTCCTATGAC 59.869 44.000 17.26 17.20 39.94 3.06


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

AutoCloner maintained by Alex Coulton.