Multiple sequence alignment - TraesCS6A01G014600

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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 TraesCS6A01G014600 chr6A 100.000 3188 0 0 1 3188 7079576 7082763 0.000000e+00 5888.0
1 TraesCS6A01G014600 chr6A 92.969 2304 149 11 1 2298 7176003 7173707 0.000000e+00 3345.0
2 TraesCS6A01G014600 chr6A 87.408 818 49 16 2223 3021 7184654 7183872 0.000000e+00 891.0
3 TraesCS6A01G014600 chr6A 88.779 303 17 3 2214 2499 7092339 7092641 3.910000e-94 355.0
4 TraesCS6A01G014600 chr6A 91.566 83 7 0 2289 2371 7184364 7184282 7.230000e-22 115.0
5 TraesCS6A01G014600 chr6A 94.737 57 3 0 2496 2552 7081864 7081920 4.380000e-14 89.8
6 TraesCS6A01G014600 chr6A 94.737 57 3 0 2289 2345 7082071 7082127 4.380000e-14 89.8
7 TraesCS6A01G014600 chr6A 93.220 59 4 0 2496 2554 7092414 7092472 1.580000e-13 87.9
8 TraesCS6A01G014600 chr6A 93.220 59 4 0 2496 2554 7184588 7184530 1.580000e-13 87.9
9 TraesCS6A01G014600 chr6D 89.890 2997 273 22 40 3023 7359505 7356526 0.000000e+00 3829.0
10 TraesCS6A01G014600 chr6D 95.000 100 5 0 3089 3188 7356099 7356000 1.180000e-34 158.0
11 TraesCS6A01G014600 chr6D 94.915 59 3 0 2496 2554 7343648 7343590 3.390000e-15 93.5
12 TraesCS6A01G014600 chr6D 89.394 66 6 1 2495 2560 7357257 7357193 7.330000e-12 82.4
13 TraesCS6A01G014600 chr6B 90.539 2357 208 14 40 2387 26861804 26864154 0.000000e+00 3103.0
14 TraesCS6A01G014600 chr6B 89.542 2295 229 9 1 2292 12886544 12888830 0.000000e+00 2898.0
15 TraesCS6A01G014600 chr6B 89.941 2207 210 8 14 2212 13653949 13651747 0.000000e+00 2835.0
16 TraesCS6A01G014600 chr6B 88.739 1190 120 9 7 1184 13704889 13703702 0.000000e+00 1443.0
17 TraesCS6A01G014600 chr5B 88.650 2511 261 19 1 2500 432982645 432985142 0.000000e+00 3037.0
18 TraesCS6A01G014600 chrUn 89.768 2287 229 5 14 2298 79937079 79939362 0.000000e+00 2922.0
19 TraesCS6A01G014600 chrUn 88.520 2291 253 10 14 2298 80037167 80034881 0.000000e+00 2765.0
20 TraesCS6A01G014600 chr7D 89.682 2297 230 7 7 2298 597677169 597674875 0.000000e+00 2922.0


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 TraesCS6A01G014600 chr6A 7079576 7082763 3187 False 2022.533333 5888 96.491333 1 3188 3 chr6A.!!$F1 3187
1 TraesCS6A01G014600 chr6A 7173707 7176003 2296 True 3345.000000 3345 92.969000 1 2298 1 chr6A.!!$R1 2297
2 TraesCS6A01G014600 chr6A 7183872 7184654 782 True 364.633333 891 90.731333 2223 3021 3 chr6A.!!$R2 798
3 TraesCS6A01G014600 chr6D 7356000 7359505 3505 True 1356.466667 3829 91.428000 40 3188 3 chr6D.!!$R2 3148
4 TraesCS6A01G014600 chr6B 26861804 26864154 2350 False 3103.000000 3103 90.539000 40 2387 1 chr6B.!!$F2 2347
5 TraesCS6A01G014600 chr6B 12886544 12888830 2286 False 2898.000000 2898 89.542000 1 2292 1 chr6B.!!$F1 2291
6 TraesCS6A01G014600 chr6B 13651747 13653949 2202 True 2835.000000 2835 89.941000 14 2212 1 chr6B.!!$R1 2198
7 TraesCS6A01G014600 chr6B 13703702 13704889 1187 True 1443.000000 1443 88.739000 7 1184 1 chr6B.!!$R2 1177
8 TraesCS6A01G014600 chr5B 432982645 432985142 2497 False 3037.000000 3037 88.650000 1 2500 1 chr5B.!!$F1 2499
9 TraesCS6A01G014600 chrUn 79937079 79939362 2283 False 2922.000000 2922 89.768000 14 2298 1 chrUn.!!$F1 2284
10 TraesCS6A01G014600 chrUn 80034881 80037167 2286 True 2765.000000 2765 88.520000 14 2298 1 chrUn.!!$R1 2284
11 TraesCS6A01G014600 chr7D 597674875 597677169 2294 True 2922.000000 2922 89.682000 7 2298 1 chr7D.!!$R1 2291

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
973 987 0.46546 TTTGCAAGAGCGGAAGGTGT 60.465 50.0 0.0 0.0 46.23 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2799 2839 1.102978 ACAGCGCACAAAGGAAAACT 58.897 45.0 11.47 0.0 0.0 2.66 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
109 120 2.995574 AAGGCTCGGTACCACGCT 60.996 61.111 13.54 1.20 0.00 5.07
178 189 2.436109 GTTGCTGGGCCTTCCTCA 59.564 61.111 4.53 0.00 36.20 3.86
183 194 1.614824 CTGGGCCTTCCTCAGTCCT 60.615 63.158 4.53 0.00 36.20 3.85
454 465 3.054139 AGAAGACCAGCTATGCAATGGAA 60.054 43.478 15.16 0.00 37.54 3.53
649 663 5.106555 CGTACTTGATGGCTTGTTGAAAGAT 60.107 40.000 0.00 0.00 0.00 2.40
800 814 5.874093 AGGTTCTTCAACAGATGACTGATT 58.126 37.500 0.00 0.00 46.03 2.57
814 828 3.776969 TGACTGATTGAGGTATTCTGCCT 59.223 43.478 0.00 0.00 39.42 4.75
832 846 2.554032 GCCTGATGTTGCCACATATACC 59.446 50.000 2.94 0.00 44.22 2.73
838 852 4.137116 TGTTGCCACATATACCAGTCTC 57.863 45.455 0.00 0.00 0.00 3.36
973 987 0.465460 TTTGCAAGAGCGGAAGGTGT 60.465 50.000 0.00 0.00 46.23 4.16
1005 1020 6.772716 GCTAGGAAGATTTTGATTCCATGGTA 59.227 38.462 12.58 1.50 46.21 3.25
1009 1024 7.340487 AGGAAGATTTTGATTCCATGGTAAGTC 59.660 37.037 12.58 6.56 46.21 3.01
1219 1234 6.128849 GCATATATTTACAAAAATGCGGCAGG 60.129 38.462 9.25 0.00 36.02 4.85
1500 1518 6.271159 ACCTTTGCAAAAATGGAAGGGTTATA 59.729 34.615 19.65 0.00 44.60 0.98
1634 1652 6.316390 GGGAGGAAGTTACTTGACAATATGTG 59.684 42.308 0.93 0.00 0.00 3.21
1694 1712 8.200024 AGCATACTGATTGATGGTTACTCTAT 57.800 34.615 0.00 0.00 29.68 1.98
1709 1727 6.211785 GGTTACTCTATGAAGGGAAGGATAGG 59.788 46.154 0.00 0.00 0.00 2.57
1755 1773 5.303333 GGAAATGTTGGACAGGAAGGTTAAA 59.697 40.000 0.00 0.00 0.00 1.52
1881 1899 5.126545 AGTGCCTGACGTTGTTACATATAGA 59.873 40.000 0.00 0.00 0.00 1.98
2019 2037 3.704800 AGCTTACTTCAGAAAGGGGAC 57.295 47.619 0.00 0.00 36.78 4.46
2101 2119 4.826274 TCCACTGCTAGCTTATTGACTT 57.174 40.909 17.23 0.00 0.00 3.01
2212 2230 7.631717 AACCATTTCTAGAGATTTTGCCTAC 57.368 36.000 0.00 0.00 0.00 3.18
2280 2301 5.791336 ACATCTCCCAACCTTTTCTTTTC 57.209 39.130 0.00 0.00 0.00 2.29
2345 2366 3.581332 CTGGGAGGAACTTGTACCAGTAA 59.419 47.826 0.00 0.00 41.55 2.24
2390 2413 7.568199 TCTGATGAACGACTATCTGTGATTA 57.432 36.000 0.00 0.00 0.00 1.75
2509 2548 7.783119 ACCTTTTTCCTTGTCTAAAATGTAGGT 59.217 33.333 0.00 0.00 32.41 3.08
2556 2595 5.357596 GGGAGGAACTTGTACTAGTAGTGAG 59.642 48.000 13.29 10.12 41.55 3.51
2557 2596 6.179040 GGAGGAACTTGTACTAGTAGTGAGA 58.821 44.000 13.29 0.00 41.55 3.27
2558 2597 6.829811 GGAGGAACTTGTACTAGTAGTGAGAT 59.170 42.308 13.29 3.34 41.55 2.75
2559 2598 7.201750 GGAGGAACTTGTACTAGTAGTGAGATG 60.202 44.444 13.29 2.49 41.55 2.90
2562 2601 6.687081 ACTTGTACTAGTAGTGAGATGCTC 57.313 41.667 13.29 0.00 0.00 4.26
2564 2603 4.127907 TGTACTAGTAGTGAGATGCTCGG 58.872 47.826 13.29 0.00 32.35 4.63
2565 2604 3.562343 ACTAGTAGTGAGATGCTCGGA 57.438 47.619 0.85 0.00 32.35 4.55
2567 2606 1.686355 AGTAGTGAGATGCTCGGAGG 58.314 55.000 7.20 0.00 32.35 4.30
2568 2607 1.064314 AGTAGTGAGATGCTCGGAGGT 60.064 52.381 7.20 0.00 32.35 3.85
2569 2608 1.751924 GTAGTGAGATGCTCGGAGGTT 59.248 52.381 7.20 0.00 32.35 3.50
2570 2609 1.270907 AGTGAGATGCTCGGAGGTTT 58.729 50.000 7.20 0.00 32.35 3.27
2571 2610 1.205893 AGTGAGATGCTCGGAGGTTTC 59.794 52.381 7.20 0.00 32.35 2.78
2572 2611 1.205893 GTGAGATGCTCGGAGGTTTCT 59.794 52.381 7.20 0.00 32.35 2.52
2573 2612 1.902508 TGAGATGCTCGGAGGTTTCTT 59.097 47.619 7.20 0.00 32.35 2.52
2574 2613 3.096852 TGAGATGCTCGGAGGTTTCTTA 58.903 45.455 7.20 0.00 32.35 2.10
2575 2614 3.119101 TGAGATGCTCGGAGGTTTCTTAC 60.119 47.826 7.20 0.00 32.35 2.34
2576 2615 6.184266 TGAGATGCTCGGAGGTTTCTTACC 62.184 50.000 7.20 0.00 39.21 2.85
2600 2640 6.153340 CCTTTACCATTCTGAAATGTGGTCAT 59.847 38.462 15.43 0.00 43.53 3.06
2751 2791 3.505836 GCCTGAACTAAGCTGCAATTTC 58.494 45.455 1.02 0.54 0.00 2.17
2869 2911 4.448537 TTTCATAATGCTGGGAAAACCG 57.551 40.909 0.00 0.00 44.64 4.44
2911 2954 6.183360 ACAACTATTGTCAATATCCAGCAAGC 60.183 38.462 5.74 0.00 40.56 4.01
2942 2985 0.038599 TGATGACCATGCTGTGCCTT 59.961 50.000 0.00 0.00 0.00 4.35
3038 3490 9.079833 CATGCAGTTTCTATTGTATTGAAAAGG 57.920 33.333 0.00 0.00 36.17 3.11
3039 3491 7.090173 TGCAGTTTCTATTGTATTGAAAAGGC 58.910 34.615 0.00 0.00 36.17 4.35
3041 3493 7.761249 GCAGTTTCTATTGTATTGAAAAGGCAT 59.239 33.333 11.74 0.00 36.17 4.40
3042 3494 9.079833 CAGTTTCTATTGTATTGAAAAGGCATG 57.920 33.333 0.00 0.00 36.17 4.06
3043 3495 9.023962 AGTTTCTATTGTATTGAAAAGGCATGA 57.976 29.630 0.00 0.00 36.17 3.07
3044 3496 9.638239 GTTTCTATTGTATTGAAAAGGCATGAA 57.362 29.630 0.00 0.00 36.17 2.57
3045 3497 9.638239 TTTCTATTGTATTGAAAAGGCATGAAC 57.362 29.630 0.00 0.00 32.56 3.18
3046 3498 8.347004 TCTATTGTATTGAAAAGGCATGAACA 57.653 30.769 0.00 0.00 0.00 3.18
3047 3499 8.801299 TCTATTGTATTGAAAAGGCATGAACAA 58.199 29.630 0.00 0.00 0.00 2.83
3048 3500 9.421806 CTATTGTATTGAAAAGGCATGAACAAA 57.578 29.630 0.00 0.00 0.00 2.83
3049 3501 7.712264 TTGTATTGAAAAGGCATGAACAAAG 57.288 32.000 0.00 0.00 0.00 2.77
3050 3502 5.695816 TGTATTGAAAAGGCATGAACAAAGC 59.304 36.000 0.00 0.00 0.00 3.51
3051 3503 4.405116 TTGAAAAGGCATGAACAAAGCT 57.595 36.364 0.00 0.00 0.00 3.74
3052 3504 5.528043 TTGAAAAGGCATGAACAAAGCTA 57.472 34.783 0.00 0.00 0.00 3.32
3053 3505 4.870363 TGAAAAGGCATGAACAAAGCTAC 58.130 39.130 0.00 0.00 0.00 3.58
3054 3506 3.559238 AAAGGCATGAACAAAGCTACG 57.441 42.857 0.00 0.00 0.00 3.51
3055 3507 2.185004 AGGCATGAACAAAGCTACGT 57.815 45.000 0.00 0.00 0.00 3.57
3056 3508 2.504367 AGGCATGAACAAAGCTACGTT 58.496 42.857 0.00 0.50 0.00 3.99
3057 3509 2.484264 AGGCATGAACAAAGCTACGTTC 59.516 45.455 17.25 17.25 41.53 3.95
3058 3510 2.484264 GGCATGAACAAAGCTACGTTCT 59.516 45.455 22.01 10.23 41.67 3.01
3059 3511 3.482786 GCATGAACAAAGCTACGTTCTG 58.517 45.455 22.01 18.42 41.67 3.02
3060 3512 3.058914 GCATGAACAAAGCTACGTTCTGT 60.059 43.478 22.01 12.34 41.67 3.41
3061 3513 4.457810 CATGAACAAAGCTACGTTCTGTG 58.542 43.478 22.01 17.66 41.67 3.66
3062 3514 2.286833 TGAACAAAGCTACGTTCTGTGC 59.713 45.455 22.01 5.32 41.67 4.57
3063 3515 2.240493 ACAAAGCTACGTTCTGTGCT 57.760 45.000 0.00 0.00 36.80 4.40
3064 3516 3.380479 ACAAAGCTACGTTCTGTGCTA 57.620 42.857 0.00 0.00 35.02 3.49
3065 3517 3.724374 ACAAAGCTACGTTCTGTGCTAA 58.276 40.909 0.00 0.00 35.02 3.09
3066 3518 4.315803 ACAAAGCTACGTTCTGTGCTAAT 58.684 39.130 0.00 0.00 35.02 1.73
3067 3519 4.152402 ACAAAGCTACGTTCTGTGCTAATG 59.848 41.667 0.00 2.99 35.02 1.90
3068 3520 3.594603 AGCTACGTTCTGTGCTAATGT 57.405 42.857 0.00 0.00 34.56 2.71
3069 3521 4.713824 AGCTACGTTCTGTGCTAATGTA 57.286 40.909 0.00 0.00 34.56 2.29
3070 3522 4.421948 AGCTACGTTCTGTGCTAATGTAC 58.578 43.478 0.00 0.00 34.56 2.90
3071 3523 4.082408 AGCTACGTTCTGTGCTAATGTACA 60.082 41.667 0.00 0.00 37.27 2.90
3072 3524 4.804139 GCTACGTTCTGTGCTAATGTACAT 59.196 41.667 1.41 1.41 38.09 2.29
3073 3525 5.276395 GCTACGTTCTGTGCTAATGTACATG 60.276 44.000 9.63 0.00 38.09 3.21
3074 3526 3.370978 ACGTTCTGTGCTAATGTACATGC 59.629 43.478 9.63 10.12 38.09 4.06
3075 3527 3.242413 CGTTCTGTGCTAATGTACATGCC 60.242 47.826 9.63 4.71 38.09 4.40
3076 3528 3.912496 TCTGTGCTAATGTACATGCCT 57.088 42.857 9.63 0.00 38.09 4.75
3077 3529 5.116180 GTTCTGTGCTAATGTACATGCCTA 58.884 41.667 9.63 0.00 38.09 3.93
3078 3530 5.351948 TCTGTGCTAATGTACATGCCTAA 57.648 39.130 9.63 0.00 38.09 2.69
3079 3531 5.359756 TCTGTGCTAATGTACATGCCTAAG 58.640 41.667 9.63 7.19 38.09 2.18
3080 3532 5.097742 TGTGCTAATGTACATGCCTAAGT 57.902 39.130 9.63 0.00 33.97 2.24
3081 3533 4.875536 TGTGCTAATGTACATGCCTAAGTG 59.124 41.667 9.63 0.00 33.97 3.16
3082 3534 4.273480 GTGCTAATGTACATGCCTAAGTGG 59.727 45.833 9.63 0.00 39.35 4.00
3083 3535 3.815401 GCTAATGTACATGCCTAAGTGGG 59.185 47.826 9.63 0.00 36.00 4.61
3102 3554 2.552743 GGGCAGGTACAGAACAAGAAAC 59.447 50.000 0.00 0.00 0.00 2.78
3105 3557 3.251004 GCAGGTACAGAACAAGAAACAGG 59.749 47.826 0.00 0.00 0.00 4.00
3144 3596 2.932614 CAGCAGGATGTACACTACTTGC 59.067 50.000 18.68 18.68 39.31 4.01
3173 3625 2.880268 TCAAGGTGCAGACATGAAACAG 59.120 45.455 0.00 0.00 0.00 3.16
3185 3637 5.009410 AGACATGAAACAGAGCAAAGAAAGG 59.991 40.000 0.00 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
109 120 1.296392 CTCGGTGCCAATGTCTCCA 59.704 57.895 0.00 0.00 0.00 3.86
178 189 1.078848 GCAGTTGATGGCGAGGACT 60.079 57.895 0.00 0.00 0.00 3.85
431 442 2.877168 CCATTGCATAGCTGGTCTTCTC 59.123 50.000 0.00 0.00 0.00 2.87
649 663 4.284550 GCCTTGCCCACCTCACCA 62.285 66.667 0.00 0.00 0.00 4.17
800 814 3.877559 CAACATCAGGCAGAATACCTCA 58.122 45.455 0.00 0.00 34.42 3.86
973 987 4.910195 TCAAAATCTTCCTAGCTTCTGCA 58.090 39.130 0.00 0.00 42.74 4.41
1005 1020 0.106419 TCGGTTTTTGGCCCAGACTT 60.106 50.000 0.00 0.00 0.00 3.01
1009 1024 2.914908 CGGTCGGTTTTTGGCCCAG 61.915 63.158 0.00 0.00 0.00 4.45
1068 1083 5.810587 ACAATGCATCTCATGAAAAGATTGC 59.189 36.000 0.00 4.36 35.13 3.56
1219 1234 3.119352 GCAACATCAGGGTTCAATCCTTC 60.119 47.826 0.00 0.00 31.06 3.46
1374 1390 2.364970 CTCCCATTTGCCACAAGAACAA 59.635 45.455 0.00 0.00 0.00 2.83
1500 1518 1.118838 CGAAGAGATCCTGGGCTTCT 58.881 55.000 13.47 6.31 35.72 2.85
1509 1527 2.810439 CCATCAGGTCGAAGAGATCC 57.190 55.000 0.00 0.00 36.95 3.36
1694 1712 2.439507 GCATCACCTATCCTTCCCTTCA 59.560 50.000 0.00 0.00 0.00 3.02
1709 1727 4.171005 CCTGACAACAATCAATGCATCAC 58.829 43.478 0.00 0.00 0.00 3.06
1923 1941 9.384849 TCCATAGAAAGGAATAGATCATCAGAA 57.615 33.333 0.00 0.00 30.71 3.02
2071 2089 2.154462 GCTAGCAGTGGAAGCTTCAAA 58.846 47.619 27.02 12.55 43.25 2.69
2152 2170 5.412904 CCTGTTCCAGAAAAGAGTGGTATTC 59.587 44.000 0.00 0.00 35.14 1.75
2212 2230 5.167121 CCTCGATTAGCAGTCCAGAATATG 58.833 45.833 0.00 0.00 0.00 1.78
2345 2366 7.559486 TCAGAATAGTGCAGTCAGACATTTAT 58.441 34.615 2.66 0.00 0.00 1.40
2390 2413 2.749600 TGCACAGCCCCATTGAAATAT 58.250 42.857 0.00 0.00 0.00 1.28
2481 2520 7.654022 ACATTTTAGACAAGGAAAAAGGTGA 57.346 32.000 0.00 0.00 36.21 4.02
2483 2522 7.783119 ACCTACATTTTAGACAAGGAAAAAGGT 59.217 33.333 0.00 0.00 39.54 3.50
2509 2548 9.096823 TCCCAGAATTACTAGTAAGAAAAGTGA 57.903 33.333 19.58 8.77 0.00 3.41
2556 2595 2.552031 GGTAAGAAACCTCCGAGCATC 58.448 52.381 0.00 0.00 45.75 3.91
2557 2596 2.693267 GGTAAGAAACCTCCGAGCAT 57.307 50.000 0.00 0.00 45.75 3.79
2567 2606 9.626045 CATTTCAGAATGGTAAAGGTAAGAAAC 57.374 33.333 0.00 0.00 39.17 2.78
2568 2607 9.362151 ACATTTCAGAATGGTAAAGGTAAGAAA 57.638 29.630 4.39 0.00 45.56 2.52
2569 2608 8.792633 CACATTTCAGAATGGTAAAGGTAAGAA 58.207 33.333 4.39 0.00 45.56 2.52
2570 2609 7.393234 CCACATTTCAGAATGGTAAAGGTAAGA 59.607 37.037 4.39 0.00 45.56 2.10
2571 2610 7.176690 ACCACATTTCAGAATGGTAAAGGTAAG 59.823 37.037 5.26 0.00 45.56 2.34
2572 2611 7.007723 ACCACATTTCAGAATGGTAAAGGTAA 58.992 34.615 5.26 0.00 45.56 2.85
2573 2612 6.548321 ACCACATTTCAGAATGGTAAAGGTA 58.452 36.000 5.26 0.00 45.56 3.08
2574 2613 5.393866 ACCACATTTCAGAATGGTAAAGGT 58.606 37.500 5.26 0.00 45.56 3.50
2575 2614 5.476599 TGACCACATTTCAGAATGGTAAAGG 59.523 40.000 6.87 0.00 45.56 3.11
2576 2615 6.573664 TGACCACATTTCAGAATGGTAAAG 57.426 37.500 6.87 0.00 45.56 1.85
2577 2616 7.537596 AATGACCACATTTCAGAATGGTAAA 57.462 32.000 6.87 0.70 45.56 2.01
2631 2671 5.394333 CCAGTCAGAAGTTTACTACTAGCCC 60.394 48.000 0.00 0.00 35.54 5.19
2799 2839 1.102978 ACAGCGCACAAAGGAAAACT 58.897 45.000 11.47 0.00 0.00 2.66
2800 2840 1.199624 CACAGCGCACAAAGGAAAAC 58.800 50.000 11.47 0.00 0.00 2.43
2807 2849 3.211245 AGCAGCACAGCGCACAAA 61.211 55.556 11.47 0.00 46.13 2.83
2869 2911 1.770294 TGTCAAAGGTTTGGTCCCAC 58.230 50.000 2.69 0.00 38.66 4.61
2942 2985 6.714810 ACTGCTAACAACTTCAATGGATGTAA 59.285 34.615 0.00 0.00 31.74 2.41
3022 3065 8.984891 TTGTTCATGCCTTTTCAATACAATAG 57.015 30.769 0.00 0.00 0.00 1.73
3023 3066 9.421806 CTTTGTTCATGCCTTTTCAATACAATA 57.578 29.630 0.00 0.00 0.00 1.90
3038 3490 3.058914 ACAGAACGTAGCTTTGTTCATGC 60.059 43.478 24.21 6.39 45.34 4.06
3039 3491 4.457810 CACAGAACGTAGCTTTGTTCATG 58.542 43.478 24.21 20.72 45.34 3.07
3041 3493 2.286833 GCACAGAACGTAGCTTTGTTCA 59.713 45.455 24.21 0.00 45.34 3.18
3042 3494 2.544267 AGCACAGAACGTAGCTTTGTTC 59.456 45.455 18.15 18.15 43.71 3.18
3043 3495 2.561569 AGCACAGAACGTAGCTTTGTT 58.438 42.857 0.00 0.00 30.76 2.83
3044 3496 2.240493 AGCACAGAACGTAGCTTTGT 57.760 45.000 0.00 0.00 30.76 2.83
3045 3497 4.152402 ACATTAGCACAGAACGTAGCTTTG 59.848 41.667 0.00 0.00 34.90 2.77
3046 3498 4.315803 ACATTAGCACAGAACGTAGCTTT 58.684 39.130 0.00 0.00 34.90 3.51
3047 3499 3.926616 ACATTAGCACAGAACGTAGCTT 58.073 40.909 0.00 0.00 34.90 3.74
3048 3500 3.594603 ACATTAGCACAGAACGTAGCT 57.405 42.857 0.00 0.00 36.42 3.32
3049 3501 4.171005 TGTACATTAGCACAGAACGTAGC 58.829 43.478 0.00 0.00 0.00 3.58
3050 3502 5.276395 GCATGTACATTAGCACAGAACGTAG 60.276 44.000 5.37 0.00 0.00 3.51
3051 3503 4.565166 GCATGTACATTAGCACAGAACGTA 59.435 41.667 5.37 0.00 0.00 3.57
3052 3504 3.370978 GCATGTACATTAGCACAGAACGT 59.629 43.478 5.37 0.00 0.00 3.99
3053 3505 3.242413 GGCATGTACATTAGCACAGAACG 60.242 47.826 17.19 0.00 0.00 3.95
3054 3506 3.941483 AGGCATGTACATTAGCACAGAAC 59.059 43.478 17.19 2.36 0.00 3.01
3055 3507 4.220693 AGGCATGTACATTAGCACAGAA 57.779 40.909 17.19 0.00 0.00 3.02
3056 3508 3.912496 AGGCATGTACATTAGCACAGA 57.088 42.857 17.19 0.00 0.00 3.41
3057 3509 5.007039 CACTTAGGCATGTACATTAGCACAG 59.993 44.000 17.19 12.13 0.00 3.66
3058 3510 4.875536 CACTTAGGCATGTACATTAGCACA 59.124 41.667 17.19 4.33 0.00 4.57
3059 3511 4.273480 CCACTTAGGCATGTACATTAGCAC 59.727 45.833 17.19 8.72 0.00 4.40
3060 3512 4.450976 CCACTTAGGCATGTACATTAGCA 58.549 43.478 17.19 0.00 0.00 3.49
3061 3513 3.815401 CCCACTTAGGCATGTACATTAGC 59.185 47.826 5.37 7.64 35.39 3.09
3074 3526 1.568504 TCTGTACCTGCCCACTTAGG 58.431 55.000 0.00 0.00 40.01 2.69
3075 3527 2.301870 TGTTCTGTACCTGCCCACTTAG 59.698 50.000 0.00 0.00 0.00 2.18
3076 3528 2.331166 TGTTCTGTACCTGCCCACTTA 58.669 47.619 0.00 0.00 0.00 2.24
3077 3529 1.136828 TGTTCTGTACCTGCCCACTT 58.863 50.000 0.00 0.00 0.00 3.16
3078 3530 1.072331 CTTGTTCTGTACCTGCCCACT 59.928 52.381 0.00 0.00 0.00 4.00
3079 3531 1.071699 TCTTGTTCTGTACCTGCCCAC 59.928 52.381 0.00 0.00 0.00 4.61
3080 3532 1.429930 TCTTGTTCTGTACCTGCCCA 58.570 50.000 0.00 0.00 0.00 5.36
3081 3533 2.552743 GTTTCTTGTTCTGTACCTGCCC 59.447 50.000 0.00 0.00 0.00 5.36
3082 3534 3.211045 TGTTTCTTGTTCTGTACCTGCC 58.789 45.455 0.00 0.00 0.00 4.85
3083 3535 3.251004 CCTGTTTCTTGTTCTGTACCTGC 59.749 47.826 0.00 0.00 0.00 4.85
3084 3536 3.815401 CCCTGTTTCTTGTTCTGTACCTG 59.185 47.826 0.00 0.00 0.00 4.00
3085 3537 3.747708 GCCCTGTTTCTTGTTCTGTACCT 60.748 47.826 0.00 0.00 0.00 3.08
3086 3538 2.552743 GCCCTGTTTCTTGTTCTGTACC 59.447 50.000 0.00 0.00 0.00 3.34
3087 3539 3.211045 TGCCCTGTTTCTTGTTCTGTAC 58.789 45.455 0.00 0.00 0.00 2.90
3102 3554 0.613012 CCCCTCTTTCCTTTGCCCTG 60.613 60.000 0.00 0.00 0.00 4.45
3105 3557 1.984570 GGCCCCTCTTTCCTTTGCC 60.985 63.158 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.