Multiple sequence alignment - TraesCS5A01G298700

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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 TraesCS5A01G298700 chr5A 100.000 4126 0 0 1 4126 505629048 505624923 0.000000e+00 7620
1 TraesCS5A01G298700 chr5A 100.000 774 0 0 1 774 505651661 505652434 0.000000e+00 1430
2 TraesCS5A01G298700 chr5A 97.287 774 19 1 1 774 316223071 316223842 0.000000e+00 1312
3 TraesCS5A01G298700 chr5D 96.851 2255 63 3 772 3026 400297488 400295242 0.000000e+00 3764
4 TraesCS5A01G298700 chr5D 85.766 555 32 17 3334 3871 400295032 400294508 1.010000e-150 544
5 TraesCS5A01G298700 chr5D 92.593 216 13 2 3060 3275 400295246 400295034 1.440000e-79 307
6 TraesCS5A01G298700 chr5D 89.381 226 16 6 3885 4110 400294523 400294306 1.130000e-70 278
7 TraesCS5A01G298700 chr5B 96.843 2059 58 3 994 3052 480303701 480301650 0.000000e+00 3435
8 TraesCS5A01G298700 chr5B 86.387 382 25 10 3504 3872 480300130 480299763 3.870000e-105 392
9 TraesCS5A01G298700 chr5B 94.521 219 5 3 780 995 480309521 480309307 8.550000e-87 331
10 TraesCS5A01G298700 chr5B 90.496 242 17 2 3885 4126 480299779 480299544 8.610000e-82 315
11 TraesCS5A01G298700 chr5B 89.954 219 8 3 3086 3304 480301559 480301355 1.890000e-68 270
12 TraesCS5A01G298700 chr5B 85.279 197 19 3 3290 3485 480301334 480301147 1.170000e-45 195
13 TraesCS5A01G298700 chr7B 90.075 2267 181 30 803 3043 586265990 586263742 0.000000e+00 2900
14 TraesCS5A01G298700 chr7B 90.376 2182 171 26 803 2969 586659427 586661584 0.000000e+00 2830
15 TraesCS5A01G298700 chr7B 88.538 506 57 1 2466 2970 586668643 586669148 2.730000e-171 612
16 TraesCS5A01G298700 chr7A 89.576 2264 190 29 803 3043 624967309 624965069 0.000000e+00 2832
17 TraesCS5A01G298700 chr7D 89.637 2258 173 36 803 3042 543602073 543604287 0.000000e+00 2817
18 TraesCS5A01G298700 chr7D 92.645 1917 132 4 1031 2938 543059615 543057699 0.000000e+00 2750
19 TraesCS5A01G298700 chr2D 82.265 1810 291 21 1116 2913 651417405 651419196 0.000000e+00 1537
20 TraesCS5A01G298700 chr2A 81.346 1828 309 19 1117 2931 776218364 776216556 0.000000e+00 1458
21 TraesCS5A01G298700 chr2A 97.416 774 18 1 1 774 600872512 600873283 0.000000e+00 1317
22 TraesCS5A01G298700 chr2A 97.040 777 21 1 1 777 552852699 552851925 0.000000e+00 1306
23 TraesCS5A01G298700 chr2A 97.158 774 20 1 1 774 563024282 563025053 0.000000e+00 1306
24 TraesCS5A01G298700 chr2A 97.040 777 20 2 1 777 5195712 5194939 0.000000e+00 1304
25 TraesCS5A01G298700 chrUn 100.000 774 0 0 1 774 375371699 375370926 0.000000e+00 1430
26 TraesCS5A01G298700 chr6A 97.169 777 20 1 1 777 65002305 65001531 0.000000e+00 1312
27 TraesCS5A01G298700 chr6A 97.040 777 23 0 1 777 94672797 94672021 0.000000e+00 1308
28 TraesCS5A01G298700 chr4A 75.762 1246 281 15 1485 2715 110638673 110637434 3.530000e-170 608
29 TraesCS5A01G298700 chr4D 75.598 1254 281 18 1470 2706 354136552 354137797 7.630000e-167 597


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 TraesCS5A01G298700 chr5A 505624923 505629048 4125 True 7620.00 7620 100.00000 1 4126 1 chr5A.!!$R1 4125
1 TraesCS5A01G298700 chr5A 505651661 505652434 773 False 1430.00 1430 100.00000 1 774 1 chr5A.!!$F2 773
2 TraesCS5A01G298700 chr5A 316223071 316223842 771 False 1312.00 1312 97.28700 1 774 1 chr5A.!!$F1 773
3 TraesCS5A01G298700 chr5D 400294306 400297488 3182 True 1223.25 3764 91.14775 772 4110 4 chr5D.!!$R1 3338
4 TraesCS5A01G298700 chr5B 480299544 480303701 4157 True 921.40 3435 89.79180 994 4126 5 chr5B.!!$R2 3132
5 TraesCS5A01G298700 chr7B 586263742 586265990 2248 True 2900.00 2900 90.07500 803 3043 1 chr7B.!!$R1 2240
6 TraesCS5A01G298700 chr7B 586659427 586661584 2157 False 2830.00 2830 90.37600 803 2969 1 chr7B.!!$F1 2166
7 TraesCS5A01G298700 chr7B 586668643 586669148 505 False 612.00 612 88.53800 2466 2970 1 chr7B.!!$F2 504
8 TraesCS5A01G298700 chr7A 624965069 624967309 2240 True 2832.00 2832 89.57600 803 3043 1 chr7A.!!$R1 2240
9 TraesCS5A01G298700 chr7D 543602073 543604287 2214 False 2817.00 2817 89.63700 803 3042 1 chr7D.!!$F1 2239
10 TraesCS5A01G298700 chr7D 543057699 543059615 1916 True 2750.00 2750 92.64500 1031 2938 1 chr7D.!!$R1 1907
11 TraesCS5A01G298700 chr2D 651417405 651419196 1791 False 1537.00 1537 82.26500 1116 2913 1 chr2D.!!$F1 1797
12 TraesCS5A01G298700 chr2A 776216556 776218364 1808 True 1458.00 1458 81.34600 1117 2931 1 chr2A.!!$R3 1814
13 TraesCS5A01G298700 chr2A 600872512 600873283 771 False 1317.00 1317 97.41600 1 774 1 chr2A.!!$F2 773
14 TraesCS5A01G298700 chr2A 552851925 552852699 774 True 1306.00 1306 97.04000 1 777 1 chr2A.!!$R2 776
15 TraesCS5A01G298700 chr2A 563024282 563025053 771 False 1306.00 1306 97.15800 1 774 1 chr2A.!!$F1 773
16 TraesCS5A01G298700 chr2A 5194939 5195712 773 True 1304.00 1304 97.04000 1 777 1 chr2A.!!$R1 776
17 TraesCS5A01G298700 chrUn 375370926 375371699 773 True 1430.00 1430 100.00000 1 774 1 chrUn.!!$R1 773
18 TraesCS5A01G298700 chr6A 65001531 65002305 774 True 1312.00 1312 97.16900 1 777 1 chr6A.!!$R1 776
19 TraesCS5A01G298700 chr6A 94672021 94672797 776 True 1308.00 1308 97.04000 1 777 1 chr6A.!!$R2 776
20 TraesCS5A01G298700 chr4A 110637434 110638673 1239 True 608.00 608 75.76200 1485 2715 1 chr4A.!!$R1 1230
21 TraesCS5A01G298700 chr4D 354136552 354137797 1245 False 597.00 597 75.59800 1470 2706 1 chr4D.!!$F1 1236

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
788 791 0.527817 CTCATGGACGTTCCTACCGC 60.528 60.000 0.00 0.0 37.46 5.68 F
984 995 1.334960 CGACGGCAAAGCAAAACAGAT 60.335 47.619 0.00 0.0 0.00 2.90 F
2043 2112 0.888619 TCGAGGAGCTCAACAACGAT 59.111 50.000 17.19 0.0 0.00 3.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2043 2112 1.621814 ACCATCGTCTTCCGGAAAAGA 59.378 47.619 19.39 16.99 37.11 2.52 R
2836 2906 0.898320 CACTCGTTCACCTCCCTCAT 59.102 55.000 0.00 0.00 0.00 2.90 R
3317 3491 0.110644 GAAGCCACAAAACTCTCGCG 60.111 55.000 0.00 0.00 0.00 5.87 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
788 791 0.527817 CTCATGGACGTTCCTACCGC 60.528 60.000 0.00 0.00 37.46 5.68
923 931 1.519455 CAGACCGCCTCCGATTCAC 60.519 63.158 0.00 0.00 36.29 3.18
940 951 3.725459 CCATGAAGCACGCACGCA 61.725 61.111 0.00 0.00 0.00 5.24
941 952 2.500369 CATGAAGCACGCACGCAC 60.500 61.111 0.00 0.00 0.00 5.34
942 953 4.075910 ATGAAGCACGCACGCACG 62.076 61.111 0.00 0.00 39.50 5.34
984 995 1.334960 CGACGGCAAAGCAAAACAGAT 60.335 47.619 0.00 0.00 0.00 2.90
2043 2112 0.888619 TCGAGGAGCTCAACAACGAT 59.111 50.000 17.19 0.00 0.00 3.73
2175 2244 1.002868 GCAGCAGCTCCTCAAGGAA 60.003 57.895 0.00 0.00 44.91 3.36
2411 2480 2.235016 CGCAGGTGTTCACGACGTT 61.235 57.895 0.00 0.00 0.00 3.99
2836 2906 0.620556 GGAGAAGGTCCAGGATGCAA 59.379 55.000 0.00 0.00 46.10 4.08
2894 2964 0.741915 GCAGAGAAGGAGGACTACGG 59.258 60.000 0.00 0.00 0.00 4.02
2920 2990 1.219393 CTCCGGGAGCTTGAAGACC 59.781 63.158 11.83 0.00 0.00 3.85
2945 3015 4.899239 CCCTGTCATCTCGGCGCC 62.899 72.222 19.07 19.07 0.00 6.53
2978 3048 0.320247 GGAGCTGCACCGGATGATAG 60.320 60.000 9.46 6.43 0.00 2.08
3044 3158 7.330700 GGCAGCTTGCTAGATCTTTAGTATTAG 59.669 40.741 0.00 0.00 44.28 1.73
3102 3241 8.220755 TGTTGCATCTTCCTGTAATATAAACC 57.779 34.615 0.00 0.00 0.00 3.27
3169 3308 6.658188 TCAACGTAATTTTCCCCAATCTTT 57.342 33.333 0.00 0.00 0.00 2.52
3171 3310 8.179509 TCAACGTAATTTTCCCCAATCTTTTA 57.820 30.769 0.00 0.00 0.00 1.52
3235 3374 9.211485 GTATAACTCTAGCGAATCTCTAGACTT 57.789 37.037 5.92 6.63 38.02 3.01
3236 3375 6.371809 AACTCTAGCGAATCTCTAGACTTG 57.628 41.667 5.92 0.72 38.02 3.16
3266 3405 9.654663 GTGTACTTACTCACTATCCAAATTCTT 57.345 33.333 0.00 0.00 0.00 2.52
3317 3491 6.268825 TGTAGTGACCAAAGTACTCATCTC 57.731 41.667 0.00 0.00 0.00 2.75
3319 3493 2.924290 GTGACCAAAGTACTCATCTCGC 59.076 50.000 0.00 0.00 0.00 5.03
3392 3568 3.628032 GGCCTAGATTGGACACTTTTAGC 59.372 47.826 0.00 0.00 34.56 3.09
3467 3643 8.642935 TGATTTTATGGTTGTTGAGATGGTTA 57.357 30.769 0.00 0.00 0.00 2.85
3485 3661 7.551974 AGATGGTTACAGATAGCATGATATTGC 59.448 37.037 4.72 0.00 43.09 3.56
3505 4680 0.822532 ATACACCGTCTCTAGGCCGG 60.823 60.000 0.00 0.00 46.93 6.13
3515 4690 1.067582 CTAGGCCGGCGGAAAGTAG 59.932 63.158 33.44 18.66 0.00 2.57
3522 4697 0.098728 CGGCGGAAAGTAGGCAAATG 59.901 55.000 0.00 0.00 0.00 2.32
3559 4734 2.096496 CGCACTTTTCCATCCTTAGCAG 59.904 50.000 0.00 0.00 0.00 4.24
3560 4735 3.347216 GCACTTTTCCATCCTTAGCAGA 58.653 45.455 0.00 0.00 0.00 4.26
3601 4786 7.392953 TGATGTTTACCTTGCATGATCAAGTAA 59.607 33.333 0.00 0.00 41.29 2.24
3602 4787 7.517614 TGTTTACCTTGCATGATCAAGTAAA 57.482 32.000 0.00 5.21 41.29 2.01
3603 4788 7.367285 TGTTTACCTTGCATGATCAAGTAAAC 58.633 34.615 22.90 22.90 42.05 2.01
3604 4789 7.013750 TGTTTACCTTGCATGATCAAGTAAACA 59.986 33.333 25.12 25.12 44.41 2.83
3605 4790 5.633830 ACCTTGCATGATCAAGTAAACAG 57.366 39.130 0.00 0.00 41.29 3.16
3606 4791 5.316167 ACCTTGCATGATCAAGTAAACAGA 58.684 37.500 0.00 0.00 41.29 3.41
3617 4802 8.397906 TGATCAAGTAAACAGAAAACAAGTGAG 58.602 33.333 0.00 0.00 0.00 3.51
3729 4922 2.560542 TGTCACAACAACTTTTGGCACT 59.439 40.909 0.00 0.00 30.70 4.40
3730 4923 3.179048 GTCACAACAACTTTTGGCACTC 58.821 45.455 0.00 0.00 34.12 3.51
3731 4924 2.159448 TCACAACAACTTTTGGCACTCG 60.159 45.455 0.00 0.00 34.12 4.18
3732 4925 2.088423 ACAACAACTTTTGGCACTCGA 58.912 42.857 0.00 0.00 34.12 4.04
3733 4926 2.490115 ACAACAACTTTTGGCACTCGAA 59.510 40.909 0.00 0.00 34.12 3.71
3734 4927 2.844122 ACAACTTTTGGCACTCGAAC 57.156 45.000 0.00 0.00 34.12 3.95
3735 4928 2.365582 ACAACTTTTGGCACTCGAACT 58.634 42.857 0.00 0.00 34.12 3.01
3761 4954 9.273016 TCTCAAAGTAACTTTTTCTATGGACAG 57.727 33.333 0.00 0.00 30.60 3.51
3810 5003 4.798882 TGTTCAAACTACACCCCAGATTT 58.201 39.130 0.00 0.00 0.00 2.17
3833 5026 5.462530 TGGATTGTGTTAAACTCTCTCGA 57.537 39.130 0.00 0.00 0.00 4.04
3858 5051 1.072489 TCCCGTGGTGTGCTATCAAAA 59.928 47.619 0.00 0.00 0.00 2.44
3859 5052 2.091541 CCCGTGGTGTGCTATCAAAAT 58.908 47.619 0.00 0.00 0.00 1.82
3860 5053 2.097466 CCCGTGGTGTGCTATCAAAATC 59.903 50.000 0.00 0.00 0.00 2.17
3861 5054 3.009723 CCGTGGTGTGCTATCAAAATCT 58.990 45.455 0.00 0.00 0.00 2.40
3862 5055 3.440173 CCGTGGTGTGCTATCAAAATCTT 59.560 43.478 0.00 0.00 0.00 2.40
3863 5056 4.406069 CGTGGTGTGCTATCAAAATCTTG 58.594 43.478 0.00 0.00 0.00 3.02
3864 5057 4.154015 CGTGGTGTGCTATCAAAATCTTGA 59.846 41.667 0.00 0.00 45.53 3.02
3917 5110 6.668541 TGAAATTATAGCTCAAGTGCAGTC 57.331 37.500 0.00 0.00 34.99 3.51
3919 5112 6.881065 TGAAATTATAGCTCAAGTGCAGTCTT 59.119 34.615 0.00 0.00 34.99 3.01
3920 5113 7.391554 TGAAATTATAGCTCAAGTGCAGTCTTT 59.608 33.333 0.00 0.00 34.99 2.52
3921 5114 7.693969 AATTATAGCTCAAGTGCAGTCTTTT 57.306 32.000 0.00 0.00 34.99 2.27
3922 5115 6.486253 TTATAGCTCAAGTGCAGTCTTTTG 57.514 37.500 0.00 0.00 34.99 2.44
3923 5116 2.923121 AGCTCAAGTGCAGTCTTTTGA 58.077 42.857 0.00 0.00 34.99 2.69
3924 5117 3.484407 AGCTCAAGTGCAGTCTTTTGAT 58.516 40.909 0.00 0.00 34.99 2.57
3977 5170 1.000060 CATTCCAGTGCAACCCAACTG 60.000 52.381 0.00 0.00 37.80 3.16
4001 5194 6.327365 TGAGTCTATAAATTCTGGATCCAGCA 59.673 38.462 33.39 25.70 43.31 4.41
4008 5201 4.574674 ATTCTGGATCCAGCAACACTTA 57.425 40.909 33.39 13.65 43.31 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
774 777 1.298938 GATCGCGGTAGGAACGTCC 60.299 63.158 6.13 0.00 36.58 4.79
788 791 1.454653 CGTATGCATGCTGACTGATCG 59.545 52.381 20.33 8.41 0.00 3.69
905 908 1.519455 GTGAATCGGAGGCGGTCTG 60.519 63.158 0.00 0.00 0.00 3.51
923 931 3.725459 TGCGTGCGTGCTTCATGG 61.725 61.111 0.00 0.00 35.36 3.66
940 951 3.811497 TCGTATATATAGCGGCATAGCGT 59.189 43.478 1.45 0.00 43.00 5.07
941 952 4.400036 TCGTATATATAGCGGCATAGCG 57.600 45.455 1.45 1.68 43.00 4.26
942 953 4.611782 CGTTCGTATATATAGCGGCATAGC 59.388 45.833 1.45 0.00 37.41 2.97
943 954 5.844914 GTCGTTCGTATATATAGCGGCATAG 59.155 44.000 1.45 4.25 0.00 2.23
984 995 6.990939 TGCTTGGTTTGATTTGATTTGATTGA 59.009 30.769 0.00 0.00 0.00 2.57
1308 1362 1.433879 GTCGTAGATGGTGCGCTCT 59.566 57.895 9.73 5.41 40.67 4.09
2043 2112 1.621814 ACCATCGTCTTCCGGAAAAGA 59.378 47.619 19.39 16.99 37.11 2.52
2115 2184 2.791927 CCGACGAGCACGATCTCA 59.208 61.111 11.40 0.00 42.66 3.27
2175 2244 1.739067 GCTCCTTGCCGTTGAAGTAT 58.261 50.000 0.00 0.00 35.15 2.12
2411 2480 1.754745 GTGGTCTGCTTGTCCTGGA 59.245 57.895 0.00 0.00 0.00 3.86
2836 2906 0.898320 CACTCGTTCACCTCCCTCAT 59.102 55.000 0.00 0.00 0.00 2.90
2920 2990 1.446907 GAGATGACAGGGTTGCACAG 58.553 55.000 0.00 0.00 0.00 3.66
2963 3033 0.940126 GTTGCTATCATCCGGTGCAG 59.060 55.000 0.00 1.75 35.02 4.41
2978 3048 1.996191 GATCGTCCTCTTCAGTGTTGC 59.004 52.381 0.00 0.00 0.00 4.17
3169 3308 7.036996 TCATTGAAACAAAGAGTGCACATAA 57.963 32.000 21.04 0.00 0.00 1.90
3171 3310 5.068198 ACTCATTGAAACAAAGAGTGCACAT 59.932 36.000 21.04 3.86 38.08 3.21
3235 3374 5.771165 TGGATAGTGAGTAAGTACACACACA 59.229 40.000 17.54 10.00 45.94 3.72
3236 3375 6.263516 TGGATAGTGAGTAAGTACACACAC 57.736 41.667 17.54 11.39 45.94 3.82
3317 3491 0.110644 GAAGCCACAAAACTCTCGCG 60.111 55.000 0.00 0.00 0.00 5.87
3319 3493 1.532868 CCAGAAGCCACAAAACTCTCG 59.467 52.381 0.00 0.00 0.00 4.04
3327 3501 1.412079 AAATGCACCAGAAGCCACAA 58.588 45.000 0.00 0.00 0.00 3.33
3328 3502 2.284754 TAAATGCACCAGAAGCCACA 57.715 45.000 0.00 0.00 0.00 4.17
3329 3503 3.019564 AGATAAATGCACCAGAAGCCAC 58.980 45.455 0.00 0.00 0.00 5.01
3330 3504 3.282021 GAGATAAATGCACCAGAAGCCA 58.718 45.455 0.00 0.00 0.00 4.75
3331 3505 3.282021 TGAGATAAATGCACCAGAAGCC 58.718 45.455 0.00 0.00 0.00 4.35
3332 3506 4.970662 TTGAGATAAATGCACCAGAAGC 57.029 40.909 0.00 0.00 0.00 3.86
3366 3542 0.988678 GTGTCCAATCTAGGCCCCCT 60.989 60.000 0.00 0.00 37.71 4.79
3368 3544 0.919710 AAGTGTCCAATCTAGGCCCC 59.080 55.000 0.00 0.00 0.00 5.80
3373 3549 6.708054 CCATAGGCTAAAAGTGTCCAATCTAG 59.292 42.308 0.00 0.00 0.00 2.43
3456 3632 6.484364 TCATGCTATCTGTAACCATCTCAA 57.516 37.500 0.00 0.00 0.00 3.02
3461 3637 7.170277 TGCAATATCATGCTATCTGTAACCAT 58.830 34.615 1.32 0.00 46.54 3.55
3467 3643 6.596888 GGTGTATGCAATATCATGCTATCTGT 59.403 38.462 0.00 0.00 46.54 3.41
3485 3661 0.311165 CGGCCTAGAGACGGTGTATG 59.689 60.000 0.00 0.00 0.00 2.39
3505 4680 3.329114 GCATTTGCCTACTTTCCGC 57.671 52.632 0.00 0.00 34.31 5.54
3539 4714 3.347216 TCTGCTAAGGATGGAAAAGTGC 58.653 45.455 0.00 0.00 0.00 4.40
3559 4734 3.888934 ACATCAGCATCACACGTTTTTC 58.111 40.909 0.00 0.00 0.00 2.29
3560 4735 3.988379 ACATCAGCATCACACGTTTTT 57.012 38.095 0.00 0.00 0.00 1.94
3601 4786 5.186198 AGCTGTACTCACTTGTTTTCTGTT 58.814 37.500 0.00 0.00 0.00 3.16
3602 4787 4.770795 AGCTGTACTCACTTGTTTTCTGT 58.229 39.130 0.00 0.00 0.00 3.41
3603 4788 5.335827 GAGCTGTACTCACTTGTTTTCTG 57.664 43.478 0.00 0.00 45.49 3.02
3706 4899 3.367630 GTGCCAAAAGTTGTTGTGACAAG 59.632 43.478 0.00 0.00 45.86 3.16
3729 4922 9.760077 ATAGAAAAAGTTACTTTGAGAGTTCGA 57.240 29.630 11.35 7.60 39.86 3.71
3730 4923 9.798885 CATAGAAAAAGTTACTTTGAGAGTTCG 57.201 33.333 11.35 0.00 39.86 3.95
3732 4925 9.847224 TCCATAGAAAAAGTTACTTTGAGAGTT 57.153 29.630 11.35 1.36 39.86 3.01
3733 4926 9.274206 GTCCATAGAAAAAGTTACTTTGAGAGT 57.726 33.333 11.35 0.00 42.55 3.24
3734 4927 9.273016 TGTCCATAGAAAAAGTTACTTTGAGAG 57.727 33.333 11.35 0.63 33.64 3.20
3735 4928 9.273016 CTGTCCATAGAAAAAGTTACTTTGAGA 57.727 33.333 11.35 0.70 33.64 3.27
3761 4954 7.715265 TTCAAGAAGTCAAGTCATACTGAAC 57.285 36.000 0.00 0.00 0.00 3.18
3810 5003 5.849510 TCGAGAGAGTTTAACACAATCCAA 58.150 37.500 0.00 0.00 34.84 3.53
3833 5026 0.324368 TAGCACACCACGGGAGAGAT 60.324 55.000 0.00 0.00 0.00 2.75
3907 5100 6.890663 TCAAAAATCAAAAGACTGCACTTG 57.109 33.333 0.00 0.00 0.00 3.16
3917 5110 9.421806 TGCACCAGTATATTCAAAAATCAAAAG 57.578 29.630 0.00 0.00 0.00 2.27
3919 5112 9.202273 GTTGCACCAGTATATTCAAAAATCAAA 57.798 29.630 0.00 0.00 0.00 2.69
3920 5113 7.816995 GGTTGCACCAGTATATTCAAAAATCAA 59.183 33.333 0.00 0.00 38.42 2.57
3921 5114 7.039434 TGGTTGCACCAGTATATTCAAAAATCA 60.039 33.333 4.16 0.00 44.79 2.57
3922 5115 7.319646 TGGTTGCACCAGTATATTCAAAAATC 58.680 34.615 4.16 0.00 44.79 2.17
3923 5116 7.238486 TGGTTGCACCAGTATATTCAAAAAT 57.762 32.000 4.16 0.00 44.79 1.82
3924 5117 6.656632 TGGTTGCACCAGTATATTCAAAAA 57.343 33.333 4.16 0.00 44.79 1.94
3949 5142 4.361451 GTTGCACTGGAATGGAACATAG 57.639 45.455 5.41 0.00 46.74 2.23
3977 5170 6.763355 TGCTGGATCCAGAATTTATAGACTC 58.237 40.000 40.29 20.17 46.30 3.36
4001 5194 3.135994 ACGGCTGATTTCGTTAAGTGTT 58.864 40.909 0.00 0.00 36.04 3.32


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

AutoCloner maintained by Alex Coulton.