Multiple sequence alignment - TraesCS5A01G359800

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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 TraesCS5A01G359800 chr5A 100.000 4306 0 0 1 4306 561653948 561658253 0.000000e+00 7952.0
1 TraesCS5A01G359800 chr5A 84.874 476 48 16 295 752 27047114 27046645 3.920000e-125 459.0
2 TraesCS5A01G359800 chr5A 98.000 50 1 0 3906 3955 561657801 561657850 2.130000e-13 87.9
3 TraesCS5A01G359800 chr5A 98.000 50 1 0 3854 3903 561657853 561657902 2.130000e-13 87.9
4 TraesCS5A01G359800 chr5D 93.467 3827 143 37 107 3902 444721872 444725622 0.000000e+00 5583.0
5 TraesCS5A01G359800 chr5D 88.235 425 24 5 3906 4306 444725574 444725996 6.470000e-133 484.0
6 TraesCS5A01G359800 chr5B 96.168 3079 91 11 822 3884 541610344 541613411 0.000000e+00 5007.0
7 TraesCS5A01G359800 chr5B 88.138 843 63 24 1 821 541609353 541610180 0.000000e+00 968.0
8 TraesCS5A01G359800 chr5B 85.084 476 46 17 295 752 265540897 265540429 3.030000e-126 462.0
9 TraesCS5A01G359800 chr5B 85.246 244 17 6 4078 4306 541613571 541613810 2.590000e-57 233.0
10 TraesCS5A01G359800 chr5B 95.238 42 2 0 4110 4151 617167249 617167208 2.780000e-07 67.6
11 TraesCS5A01G359800 chr7B 86.373 477 40 17 295 752 452415844 452416314 8.320000e-137 497.0
12 TraesCS5A01G359800 chr7B 82.452 473 46 18 295 752 122466106 122466556 3.140000e-101 379.0
13 TraesCS5A01G359800 chr7B 87.755 49 6 0 4110 4158 498967205 498967157 1.670000e-04 58.4
14 TraesCS5A01G359800 chr7A 85.263 475 48 13 295 752 734439348 734439817 1.810000e-128 470.0
15 TraesCS5A01G359800 chr7A 88.596 114 12 1 3499 3611 679866887 679866774 2.090000e-28 137.0
16 TraesCS5A01G359800 chr3A 84.874 476 46 17 295 752 579914791 579914324 1.410000e-124 457.0
17 TraesCS5A01G359800 chr3A 84.874 476 46 17 295 752 675999378 675999845 1.410000e-124 457.0
18 TraesCS5A01G359800 chrUn 84.199 462 46 19 309 752 34508058 34508510 1.430000e-114 424.0
19 TraesCS5A01G359800 chr7D 75.444 676 104 28 2656 3291 602183515 602184168 5.490000e-69 272.0
20 TraesCS5A01G359800 chr2A 89.683 126 13 0 3181 3306 306014511 306014636 1.240000e-35 161.0
21 TraesCS5A01G359800 chr2B 95.238 42 2 0 4110 4151 476414769 476414728 2.780000e-07 67.6
22 TraesCS5A01G359800 chr1A 95.238 42 2 0 4110 4151 20084213 20084254 2.780000e-07 67.6
23 TraesCS5A01G359800 chr1A 95.238 42 2 0 4110 4151 312722101 312722060 2.780000e-07 67.6
24 TraesCS5A01G359800 chr6B 87.755 49 6 0 4110 4158 157767106 157767058 1.670000e-04 58.4
25 TraesCS5A01G359800 chr6B 87.755 49 6 0 4110 4158 213480678 213480630 1.670000e-04 58.4
26 TraesCS5A01G359800 chr1B 87.755 49 6 0 4110 4158 158539180 158539132 1.670000e-04 58.4


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 TraesCS5A01G359800 chr5A 561653948 561658253 4305 False 2709.266667 7952 98.666667 1 4306 3 chr5A.!!$F1 4305
1 TraesCS5A01G359800 chr5D 444721872 444725996 4124 False 3033.500000 5583 90.851000 107 4306 2 chr5D.!!$F1 4199
2 TraesCS5A01G359800 chr5B 541609353 541613810 4457 False 2069.333333 5007 89.850667 1 4306 3 chr5B.!!$F1 4305
3 TraesCS5A01G359800 chr7D 602183515 602184168 653 False 272.000000 272 75.444000 2656 3291 1 chr7D.!!$F1 635

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
419 422 0.234884 GCGTGTCCTTGTACACTTGC 59.765 55.000 0.00 0.00 46.13 4.01 F
880 1072 0.687354 ACCGGATCTGCTTCAACTGT 59.313 50.000 9.46 0.00 0.00 3.55 F
1541 1736 1.834263 AGGCCAGATAGGAACACTGTC 59.166 52.381 5.01 0.00 41.22 3.51 F
3023 3232 1.810853 CCTCATCATCACGTGCGCA 60.811 57.895 5.66 5.66 0.00 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2408 2611 0.100325 CAGTGCCAACAAAGACGCAA 59.900 50.0 0.00 0.00 32.04 4.85 R
2636 2839 2.230130 TAACAAAGGCAATCCCTGGG 57.770 50.0 6.33 6.33 45.62 4.45 R
3035 3244 0.036952 GCTGGAAGTAGCAGAGCACA 60.037 55.0 0.00 0.00 43.17 4.57 R
4167 4461 0.174845 CGGATTTAGACTGCCGGTCA 59.825 55.0 6.42 0.00 46.72 4.02 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
32 33 2.383527 GGCAAGGTGAGAACTCGCG 61.384 63.158 0.00 0.00 40.79 5.87
34 35 1.618640 GCAAGGTGAGAACTCGCGTC 61.619 60.000 5.77 0.00 40.79 5.19
289 290 2.576832 GCATGCACCCTTGGTTGCT 61.577 57.895 14.21 0.00 35.01 3.91
340 341 2.279784 GCGCTCCCTTCTGATCCG 60.280 66.667 0.00 0.00 0.00 4.18
367 368 1.791785 GCTCGCTAGATTCACTCATGC 59.208 52.381 0.00 0.00 0.00 4.06
375 376 1.404391 GATTCACTCATGCTGCTTGGG 59.596 52.381 13.29 13.29 0.00 4.12
378 379 1.350684 TCACTCATGCTGCTTGGGTTA 59.649 47.619 17.37 8.19 0.00 2.85
379 380 1.470098 CACTCATGCTGCTTGGGTTAC 59.530 52.381 17.37 0.00 0.00 2.50
380 381 1.073763 ACTCATGCTGCTTGGGTTACA 59.926 47.619 14.60 0.00 0.00 2.41
381 382 1.741706 CTCATGCTGCTTGGGTTACAG 59.258 52.381 14.55 1.33 34.48 2.74
382 383 1.073763 TCATGCTGCTTGGGTTACAGT 59.926 47.619 14.55 0.00 33.87 3.55
383 384 1.888512 CATGCTGCTTGGGTTACAGTT 59.111 47.619 7.58 0.00 33.87 3.16
419 422 0.234884 GCGTGTCCTTGTACACTTGC 59.765 55.000 0.00 0.00 46.13 4.01
444 448 2.795329 CTGGTGGTTTAAGGCACTGAT 58.205 47.619 0.00 0.00 40.86 2.90
457 461 1.334869 GCACTGATAATTGGAAGCGGG 59.665 52.381 0.00 0.00 0.00 6.13
520 527 7.639039 TGATCTGATCGTTTATGGCAATTTAC 58.361 34.615 12.65 0.00 0.00 2.01
533 540 3.934579 GGCAATTTACAATTGGAAGCAGG 59.065 43.478 10.83 0.17 0.00 4.85
555 562 2.540361 CGCTTATGGCAACTGATTGAGC 60.540 50.000 0.00 0.00 41.91 4.26
680 692 2.383855 ACTGTTTAAAAGGCTGCACCA 58.616 42.857 0.50 0.00 43.14 4.17
750 777 3.992943 ATTCCTGTTTGATACACCGGA 57.007 42.857 9.46 0.00 31.25 5.14
776 803 8.657712 AGTTTAGTACATGTTCCTAGGAAACTT 58.342 33.333 25.89 14.34 43.67 2.66
810 839 8.031864 CAGAGCAGTATAGAATATTGTGTAGGG 58.968 40.741 0.00 0.00 0.00 3.53
821 850 1.956297 TGTGTAGGGTGGTTGAAACG 58.044 50.000 0.00 0.00 0.00 3.60
848 1040 7.035612 AGTTTTGAAAACCAAACTGATGAGTC 58.964 34.615 16.45 0.00 43.82 3.36
880 1072 0.687354 ACCGGATCTGCTTCAACTGT 59.313 50.000 9.46 0.00 0.00 3.55
883 1075 2.416747 CGGATCTGCTTCAACTGTCAA 58.583 47.619 0.00 0.00 0.00 3.18
895 1087 5.029807 TCAACTGTCAATGTACTGGTTGA 57.970 39.130 0.00 0.00 38.78 3.18
915 1107 3.282021 GAGCCAGATATCTTTTGTGCCA 58.718 45.455 1.33 0.00 0.00 4.92
1191 1385 4.499183 GTGGTGATCGAATTGAGAACTCT 58.501 43.478 0.00 0.00 0.00 3.24
1208 1402 6.006449 AGAACTCTCCTTACGTGGTAAGTAA 58.994 40.000 12.91 2.56 42.56 2.24
1272 1466 9.188588 GGAAATGTGCCTAGTTTTTAGTTTAAC 57.811 33.333 0.00 0.00 0.00 2.01
1273 1467 9.738832 GAAATGTGCCTAGTTTTTAGTTTAACA 57.261 29.630 0.00 0.00 0.00 2.41
1288 1482 5.552178 AGTTTAACACATCCTCCTTGTCTC 58.448 41.667 0.00 0.00 0.00 3.36
1401 1595 7.151308 AGAAGATTGAGGATGAATATCGTGTC 58.849 38.462 0.00 0.00 33.98 3.67
1420 1614 6.533723 TCGTGTCAACATGTAAGGACAATATC 59.466 38.462 22.06 12.94 41.45 1.63
1432 1626 5.416271 AGGACAATATCGTAGGTGTTGTT 57.584 39.130 0.00 0.00 33.55 2.83
1441 1635 2.158841 CGTAGGTGTTGTTGCGCTTTAT 59.841 45.455 9.73 0.00 0.00 1.40
1453 1647 2.493675 TGCGCTTTATTTGGCATGGTAA 59.506 40.909 9.73 0.00 0.00 2.85
1541 1736 1.834263 AGGCCAGATAGGAACACTGTC 59.166 52.381 5.01 0.00 41.22 3.51
1646 1841 5.362717 TGTCTTTACATGTATGATCGGGACT 59.637 40.000 6.36 0.00 0.00 3.85
1744 1939 5.556915 TCGGTTAAGTTTCACAAGGATGAT 58.443 37.500 0.00 0.00 0.00 2.45
1814 2009 5.869344 AGGTTTTCTTTCAACTTTGCTTGTC 59.131 36.000 0.00 0.00 0.00 3.18
1886 2085 4.211389 GTGTTCTGTCTTGTATGTTTGCG 58.789 43.478 0.00 0.00 0.00 4.85
2051 2250 5.339008 TGATGTTCGCTTTGAGGTACTAT 57.661 39.130 0.00 0.00 41.55 2.12
2408 2611 4.070716 CTCCAGTCAACTCTGATTTGCTT 58.929 43.478 3.12 0.00 37.61 3.91
2570 2773 3.873361 TGATTGCTGGCTATTCTTCTTCG 59.127 43.478 0.00 0.00 0.00 3.79
2636 2839 2.556287 CGCACGGCTTTCCTGTTC 59.444 61.111 0.00 0.00 0.00 3.18
3023 3232 1.810853 CCTCATCATCACGTGCGCA 60.811 57.895 5.66 5.66 0.00 6.09
3035 3244 1.086067 CGTGCGCAGAGATCACCATT 61.086 55.000 12.22 0.00 0.00 3.16
3131 3344 1.409427 GCGCTGTACCTCTTCCTGTAT 59.591 52.381 0.00 0.00 0.00 2.29
3272 3511 1.597854 CGCCTGCTTCTGGTTCACA 60.598 57.895 0.00 0.00 0.00 3.58
3687 3936 1.473258 TCTTTCGAATTGGGGGCATG 58.527 50.000 0.00 0.00 0.00 4.06
3770 4019 1.391485 GCATGACAACTACTCGTGCAG 59.609 52.381 0.00 0.00 46.03 4.41
3784 4033 1.599071 CGTGCAGTACAATATGCCCTG 59.401 52.381 0.00 0.00 41.85 4.45
3849 4098 9.883142 TTGACAACAATTTTAAGAAGAATTGGT 57.117 25.926 12.62 5.50 43.89 3.67
3869 4118 1.890041 GCGGTGCACTTGTGGTGTA 60.890 57.895 17.98 0.00 46.86 2.90
3902 4151 9.305925 ACAGAATTTCTCTTGTTTCAAATTGTC 57.694 29.630 0.00 0.00 30.35 3.18
3903 4152 9.525409 CAGAATTTCTCTTGTTTCAAATTGTCT 57.475 29.630 0.00 0.00 30.35 3.41
3906 4155 8.652810 ATTTCTCTTGTTTCAAATTGTCTTGG 57.347 30.769 0.00 0.00 0.00 3.61
3907 4156 6.773976 TCTCTTGTTTCAAATTGTCTTGGT 57.226 33.333 0.00 0.00 0.00 3.67
3908 4157 6.563422 TCTCTTGTTTCAAATTGTCTTGGTG 58.437 36.000 0.00 0.00 0.00 4.17
3909 4158 5.108517 TCTTGTTTCAAATTGTCTTGGTGC 58.891 37.500 0.00 0.00 0.00 5.01
3910 4159 4.462508 TGTTTCAAATTGTCTTGGTGCA 57.537 36.364 0.00 0.00 0.00 4.57
3911 4160 4.180057 TGTTTCAAATTGTCTTGGTGCAC 58.820 39.130 8.80 8.80 0.00 4.57
3912 4161 4.081752 TGTTTCAAATTGTCTTGGTGCACT 60.082 37.500 17.98 0.00 0.00 4.40
3913 4162 4.734398 TTCAAATTGTCTTGGTGCACTT 57.266 36.364 17.98 0.00 0.00 3.16
3914 4163 4.044336 TCAAATTGTCTTGGTGCACTTG 57.956 40.909 17.98 9.88 0.00 3.16
3915 4164 3.446873 TCAAATTGTCTTGGTGCACTTGT 59.553 39.130 17.98 0.00 0.00 3.16
3921 4170 1.210722 TCTTGGTGCACTTGTGGTGTA 59.789 47.619 17.98 0.00 46.86 2.90
3955 4204 9.740239 CAGAATTTCTCTTCTTTCAAATTGTCA 57.260 29.630 0.00 0.00 33.18 3.58
3960 4209 6.948353 TCTCTTCTTTCAAATTGTCAAGACG 58.052 36.000 8.98 8.13 0.00 4.18
3970 4238 0.678950 TGTCAAGACGAGCATGGTGA 59.321 50.000 0.00 0.00 0.00 4.02
3983 4251 2.402564 CATGGTGAGGGAGGTCATAGT 58.597 52.381 0.00 0.00 0.00 2.12
3985 4253 2.915869 TGGTGAGGGAGGTCATAGTTT 58.084 47.619 0.00 0.00 0.00 2.66
4076 4369 4.102367 GGATCCCTCTTAAGTGAAGCTCAT 59.898 45.833 0.00 0.00 34.87 2.90
4140 4434 1.260544 GCAAAGAGGGCAAAGACCAT 58.739 50.000 0.00 0.00 29.21 3.55
4167 4461 0.036010 CCAATCACGCCTCTCCAACT 60.036 55.000 0.00 0.00 0.00 3.16
4265 4574 9.601217 GTAGCGTAAATTCCATCCATAGAATAT 57.399 33.333 0.00 0.00 32.46 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 1.009389 CGAGTTCTCACCTTGCCGAC 61.009 60.000 0.79 0.00 0.00 4.79
15 16 1.664965 ACGCGAGTTCTCACCTTGC 60.665 57.895 15.93 0.00 46.40 4.01
204 205 3.923017 AATTGGACTGCTAACACTTGC 57.077 42.857 0.00 0.00 0.00 4.01
213 214 1.679032 GGCGAAGGTAATTGGACTGCT 60.679 52.381 0.00 0.00 0.00 4.24
214 215 0.733150 GGCGAAGGTAATTGGACTGC 59.267 55.000 0.00 0.00 0.00 4.40
289 290 2.954346 CGACGCGCGAATCATGGA 60.954 61.111 39.36 0.00 44.57 3.41
327 328 0.613853 ACGTTCCGGATCAGAAGGGA 60.614 55.000 4.15 4.23 34.28 4.20
340 341 1.201343 GAATCTAGCGAGCACGTTCC 58.799 55.000 5.23 0.00 41.98 3.62
367 368 2.034558 CCAACAACTGTAACCCAAGCAG 59.965 50.000 0.00 0.00 36.41 4.24
375 376 5.583495 TGCAACATAACCAACAACTGTAAC 58.417 37.500 0.00 0.00 0.00 2.50
378 379 4.619973 CATGCAACATAACCAACAACTGT 58.380 39.130 0.00 0.00 0.00 3.55
379 380 3.429543 GCATGCAACATAACCAACAACTG 59.570 43.478 14.21 0.00 0.00 3.16
380 381 3.652274 GCATGCAACATAACCAACAACT 58.348 40.909 14.21 0.00 0.00 3.16
381 382 2.408032 CGCATGCAACATAACCAACAAC 59.592 45.455 19.57 0.00 0.00 3.32
382 383 2.035193 ACGCATGCAACATAACCAACAA 59.965 40.909 19.57 0.00 0.00 2.83
383 384 1.611006 ACGCATGCAACATAACCAACA 59.389 42.857 19.57 0.00 0.00 3.33
419 422 0.598065 GCCTTAAACCACCAGCACTG 59.402 55.000 0.00 0.00 0.00 3.66
721 748 9.626045 GGTGTATCAAACAGGAATTTTCTTTAG 57.374 33.333 0.00 0.00 39.29 1.85
722 749 8.293867 CGGTGTATCAAACAGGAATTTTCTTTA 58.706 33.333 0.00 0.00 39.29 1.85
726 753 5.182380 TCCGGTGTATCAAACAGGAATTTTC 59.818 40.000 0.00 0.00 38.69 2.29
727 754 5.074115 TCCGGTGTATCAAACAGGAATTTT 58.926 37.500 0.00 0.00 38.69 1.82
728 755 4.658063 TCCGGTGTATCAAACAGGAATTT 58.342 39.130 0.00 0.00 38.69 1.82
729 756 4.261801 CTCCGGTGTATCAAACAGGAATT 58.738 43.478 0.00 0.00 40.67 2.17
730 757 3.263425 ACTCCGGTGTATCAAACAGGAAT 59.737 43.478 7.54 0.00 40.67 3.01
731 758 2.635915 ACTCCGGTGTATCAAACAGGAA 59.364 45.455 7.54 0.00 40.67 3.36
732 759 2.253610 ACTCCGGTGTATCAAACAGGA 58.746 47.619 7.54 0.00 39.29 3.86
733 760 2.762535 ACTCCGGTGTATCAAACAGG 57.237 50.000 7.54 0.00 39.29 4.00
750 777 8.203681 AGTTTCCTAGGAACATGTACTAAACT 57.796 34.615 24.21 16.48 33.41 2.66
810 839 6.183360 GGTTTTCAAAACTACGTTTCAACCAC 60.183 38.462 12.74 0.00 34.43 4.16
821 850 7.973944 ACTCATCAGTTTGGTTTTCAAAACTAC 59.026 33.333 12.74 8.66 45.74 2.73
828 1020 5.450412 GCTTGACTCATCAGTTTGGTTTTCA 60.450 40.000 0.00 0.00 35.83 2.69
895 1087 3.370840 TGGCACAAAAGATATCTGGCT 57.629 42.857 5.86 0.00 31.92 4.75
996 1189 5.594317 CCGAGGGATAATCAAGGACATTTTT 59.406 40.000 0.00 0.00 0.00 1.94
997 1190 5.133221 CCGAGGGATAATCAAGGACATTTT 58.867 41.667 0.00 0.00 0.00 1.82
998 1191 4.166144 ACCGAGGGATAATCAAGGACATTT 59.834 41.667 0.00 0.00 0.00 2.32
999 1192 3.716872 ACCGAGGGATAATCAAGGACATT 59.283 43.478 0.00 0.00 0.00 2.71
1015 1209 3.068307 CCCTGTAGACAGATAAACCGAGG 59.932 52.174 11.31 0.00 46.59 4.63
1191 1385 4.016444 ACCGATTACTTACCACGTAAGGA 58.984 43.478 14.33 4.67 46.69 3.36
1272 1466 3.332919 CAGTTGAGACAAGGAGGATGTG 58.667 50.000 0.00 0.00 0.00 3.21
1273 1467 2.289945 GCAGTTGAGACAAGGAGGATGT 60.290 50.000 0.00 0.00 0.00 3.06
1288 1482 5.428496 TCTCTCATTTGAAACTGCAGTTG 57.572 39.130 31.73 19.12 38.44 3.16
1401 1595 6.984474 ACCTACGATATTGTCCTTACATGTTG 59.016 38.462 2.30 0.00 34.97 3.33
1420 1614 0.306533 AAAGCGCAACAACACCTACG 59.693 50.000 11.47 0.00 0.00 3.51
1432 1626 0.894141 ACCATGCCAAATAAAGCGCA 59.106 45.000 11.47 0.00 35.35 6.09
1471 1666 2.101249 TCAAGAACCCTGCAAAGCAAAG 59.899 45.455 0.00 0.00 38.41 2.77
1541 1736 1.691976 TGATATCCACCTTGGTAGGCG 59.308 52.381 0.00 0.00 46.22 5.52
1744 1939 7.147655 CCCACTATCCTAGAAAGTTCTGAATCA 60.148 40.741 3.76 0.00 38.19 2.57
1814 2009 8.376942 GGTATGGCAAAAATTATTAACAACACG 58.623 33.333 0.00 0.00 0.00 4.49
1886 2085 0.815734 AACTGATGCTTGATGCTGGC 59.184 50.000 0.00 0.00 43.37 4.85
2058 2258 4.858850 TCATGCCATAGGAGACAACAATT 58.141 39.130 0.00 0.00 0.00 2.32
2408 2611 0.100325 CAGTGCCAACAAAGACGCAA 59.900 50.000 0.00 0.00 32.04 4.85
2570 2773 3.614616 CCTTGAACATCTTGTAGAGTCGC 59.385 47.826 0.00 0.00 0.00 5.19
2636 2839 2.230130 TAACAAAGGCAATCCCTGGG 57.770 50.000 6.33 6.33 45.62 4.45
3035 3244 0.036952 GCTGGAAGTAGCAGAGCACA 60.037 55.000 0.00 0.00 43.17 4.57
3131 3344 1.623811 GTCCAGAAGTAGAACCCAGCA 59.376 52.381 0.00 0.00 0.00 4.41
3272 3511 2.619177 CACGGACGAGTAGATCATCCTT 59.381 50.000 0.00 0.00 0.00 3.36
3616 3864 1.815003 AGCAGCACAAGAATTACAGGC 59.185 47.619 0.00 0.00 0.00 4.85
3687 3936 9.174166 TCTTATTTAACAGGTAAGGCAAATCTC 57.826 33.333 0.00 0.00 0.00 2.75
3770 4019 5.008712 GCTAAGAAACCAGGGCATATTGTAC 59.991 44.000 0.00 0.00 0.00 2.90
3784 4033 2.185004 TCTGCAGGTGCTAAGAAACC 57.815 50.000 15.13 0.00 42.66 3.27
3849 4098 4.497984 ACCACAAGTGCACCGCCA 62.498 61.111 14.63 0.00 0.00 5.69
3869 4118 8.956426 TGAAACAAGAGAAATTCTGTGTTTACT 58.044 29.630 23.33 10.74 41.61 2.24
3921 4170 9.396022 TGAAAGAAGAGAAATTCTGTGTTTACT 57.604 29.630 0.00 0.00 39.47 2.24
3933 4182 9.741647 GTCTTGACAATTTGAAAGAAGAGAAAT 57.258 29.630 15.78 0.00 30.12 2.17
3934 4183 7.910162 CGTCTTGACAATTTGAAAGAAGAGAAA 59.090 33.333 18.11 0.00 31.13 2.52
3935 4184 7.279981 TCGTCTTGACAATTTGAAAGAAGAGAA 59.720 33.333 19.88 8.37 32.49 2.87
3936 4185 6.761242 TCGTCTTGACAATTTGAAAGAAGAGA 59.239 34.615 19.88 15.57 32.49 3.10
3937 4186 6.948353 TCGTCTTGACAATTTGAAAGAAGAG 58.052 36.000 19.88 14.38 32.49 2.85
3938 4187 6.511767 GCTCGTCTTGACAATTTGAAAGAAGA 60.512 38.462 21.14 21.14 34.33 2.87
3939 4188 5.622856 GCTCGTCTTGACAATTTGAAAGAAG 59.377 40.000 15.78 16.68 30.12 2.85
3940 4189 5.065859 TGCTCGTCTTGACAATTTGAAAGAA 59.934 36.000 15.78 6.12 30.12 2.52
3941 4190 4.574421 TGCTCGTCTTGACAATTTGAAAGA 59.426 37.500 2.79 8.89 0.00 2.52
3942 4191 4.847633 TGCTCGTCTTGACAATTTGAAAG 58.152 39.130 2.79 6.80 0.00 2.62
3946 4195 3.058016 ACCATGCTCGTCTTGACAATTTG 60.058 43.478 1.59 0.00 0.00 2.32
3955 4204 0.904865 TCCCTCACCATGCTCGTCTT 60.905 55.000 0.00 0.00 0.00 3.01
3960 4209 1.267574 TGACCTCCCTCACCATGCTC 61.268 60.000 0.00 0.00 0.00 4.26
3970 4238 6.663523 CCAAATAAACAAACTATGACCTCCCT 59.336 38.462 0.00 0.00 0.00 4.20
3983 4251 9.995003 ATAGATGCAAAACTCCAAATAAACAAA 57.005 25.926 0.00 0.00 0.00 2.83
3985 4253 9.421806 CAATAGATGCAAAACTCCAAATAAACA 57.578 29.630 0.00 0.00 0.00 2.83
4076 4369 3.773119 ACCCGCCTCTTCTTCAATAAGTA 59.227 43.478 0.00 0.00 34.13 2.24
4110 4404 1.331214 CCTCTTTGCAAAAGGGAGCA 58.669 50.000 22.55 0.00 39.32 4.26
4140 4434 1.748493 GAGGCGTGATTGGGCAAATTA 59.252 47.619 0.00 0.00 0.00 1.40
4167 4461 0.174845 CGGATTTAGACTGCCGGTCA 59.825 55.000 6.42 0.00 46.72 4.02
4179 4473 1.295792 GCATTGCGAGGTCGGATTTA 58.704 50.000 0.89 0.00 39.94 1.40
4229 4538 1.513858 TTTACGCTACCCCCATGGAT 58.486 50.000 15.22 0.19 38.00 3.41
4273 4582 8.148807 TGACGAAGAAAACAAAGATGACATTA 57.851 30.769 0.00 0.00 0.00 1.90
4285 4594 2.993937 ACCACCTTGACGAAGAAAACA 58.006 42.857 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.