Multiple sequence alignment - TraesCS5A01G200500

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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 TraesCS5A01G200500 chr5A 100.000 4630 0 0 1 4630 406525551 406520922 0.000000e+00 8551.0
1 TraesCS5A01G200500 chr5D 92.511 2417 81 29 2117 4476 312438913 312436540 0.000000e+00 3369.0
2 TraesCS5A01G200500 chr5D 94.075 2059 58 24 1 2035 312440953 312438935 0.000000e+00 3068.0
3 TraesCS5A01G200500 chr5D 95.652 115 5 0 4514 4628 312436534 312436420 7.910000e-43 185.0
4 TraesCS5A01G200500 chr5B 93.240 2145 78 26 2496 4619 358816917 358814819 0.000000e+00 3096.0
5 TraesCS5A01G200500 chr5B 86.533 1938 104 58 647 2499 358818904 358817039 0.000000e+00 1988.0
6 TraesCS5A01G200500 chr5B 89.474 114 12 0 314 427 358819391 358819278 1.340000e-30 145.0
7 TraesCS5A01G200500 chr4D 86.454 657 53 11 809 1462 274235828 274236451 0.000000e+00 688.0
8 TraesCS5A01G200500 chr4D 84.320 676 65 20 173 810 274235128 274235800 1.410000e-174 623.0
9 TraesCS5A01G200500 chr4A 80.479 543 55 20 920 1462 292827489 292826998 7.320000e-98 368.0
10 TraesCS5A01G200500 chr3D 80.328 183 27 7 421 595 574859673 574859854 3.760000e-26 130.0
11 TraesCS5A01G200500 chr3D 78.488 172 27 9 425 591 436022172 436022006 2.280000e-18 104.0
12 TraesCS5A01G200500 chr6D 80.128 156 25 5 431 581 445059373 445059527 1.360000e-20 111.0
13 TraesCS5A01G200500 chr6A 79.245 159 27 5 425 579 592012945 592012789 6.340000e-19 106.0
14 TraesCS5A01G200500 chr3B 78.659 164 29 5 420 579 140436775 140436936 2.280000e-18 104.0
15 TraesCS5A01G200500 chr2B 77.401 177 33 6 420 592 30209152 30209325 1.060000e-16 99.0
16 TraesCS5A01G200500 chr2B 76.842 190 32 8 425 605 72827785 72827599 3.810000e-16 97.1


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 TraesCS5A01G200500 chr5A 406520922 406525551 4629 True 8551.000000 8551 100.000000 1 4630 1 chr5A.!!$R1 4629
1 TraesCS5A01G200500 chr5D 312436420 312440953 4533 True 2207.333333 3369 94.079333 1 4628 3 chr5D.!!$R1 4627
2 TraesCS5A01G200500 chr5B 358814819 358819391 4572 True 1743.000000 3096 89.749000 314 4619 3 chr5B.!!$R1 4305
3 TraesCS5A01G200500 chr4D 274235128 274236451 1323 False 655.500000 688 85.387000 173 1462 2 chr4D.!!$F1 1289

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
854 1157 1.448540 CCCACACATCGCTCAGACC 60.449 63.158 0.00 0.00 0.00 3.85 F
1684 2041 0.465460 TGGAAGTTGGTGTGCAGACC 60.465 55.000 25.63 25.63 36.43 3.85 F
2560 3082 0.882927 TGTACGGTTTGCAGCTCCAC 60.883 55.000 0.00 0.00 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2211 2587 0.683973 AGCTCCCACACTGAACTCTG 59.316 55.000 0.00 0.00 0.00 3.35 R
3544 4107 1.630878 AGGAATCACAGGACAGAACCC 59.369 52.381 0.00 0.00 0.00 4.11 R
4349 4927 0.388520 TCATGCTCGGACACTGTTCG 60.389 55.000 3.19 3.19 35.62 3.95 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
88 89 7.639113 AGATGTTGACACCTCTTTTAAAACA 57.361 32.000 0.00 0.00 0.00 2.83
222 223 3.343941 TCCATAACTCCAAGGAAACCG 57.656 47.619 0.00 0.00 0.00 4.44
525 526 1.490910 TCTCTCGGAGGTGCTCATAGA 59.509 52.381 4.96 0.00 31.08 1.98
531 532 3.149981 CGGAGGTGCTCATAGATGTAGA 58.850 50.000 0.00 0.00 31.08 2.59
730 981 6.618287 TGTTCATCTTTTCTTGTACCACAG 57.382 37.500 0.00 0.00 0.00 3.66
854 1157 1.448540 CCCACACATCGCTCAGACC 60.449 63.158 0.00 0.00 0.00 3.85
933 1239 3.884774 GCTCCACCACCACCACCA 61.885 66.667 0.00 0.00 0.00 4.17
935 1241 3.491598 CTCCACCACCACCACCACC 62.492 68.421 0.00 0.00 0.00 4.61
1294 1609 1.398041 TGACATGCACAAATCGCTAGC 59.602 47.619 4.06 4.06 0.00 3.42
1297 1612 2.609459 ACATGCACAAATCGCTAGCTAC 59.391 45.455 13.93 0.00 0.00 3.58
1327 1642 5.812652 GAGCTTCTCGGATAGTAATATCGG 58.187 45.833 10.51 10.51 0.00 4.18
1337 1652 2.494059 AGTAATATCGGTGGTGCATGC 58.506 47.619 11.82 11.82 0.00 4.06
1351 1666 0.649475 GCATGCTTGCGTCTCTAGTG 59.351 55.000 11.37 0.00 39.49 2.74
1435 1756 2.925162 GATTCCTTCCCCTGACGGCG 62.925 65.000 4.80 4.80 30.07 6.46
1530 1866 4.244463 CCACGTCACCAACCCCGT 62.244 66.667 0.00 0.00 0.00 5.28
1539 1875 2.515991 CAACCCCGTGCACACACT 60.516 61.111 18.64 0.00 45.10 3.55
1631 1987 4.021631 CGTAGCGCTCGGCCGATA 62.022 66.667 31.19 15.78 45.17 2.92
1634 1990 2.614446 TAGCGCTCGGCCGATACTC 61.614 63.158 31.19 18.75 45.17 2.59
1684 2041 0.465460 TGGAAGTTGGTGTGCAGACC 60.465 55.000 25.63 25.63 36.43 3.85
1698 2055 2.590007 GACCGCTGCTAGCCCATG 60.590 66.667 13.29 0.86 38.18 3.66
1719 2076 2.566010 CCAACGAACCGGGCAATG 59.434 61.111 6.32 0.00 0.00 2.82
1785 2142 3.181515 CGTGTGGATTTGTTTATGCGCTA 60.182 43.478 9.73 0.00 0.00 4.26
1826 2187 1.464608 CTTTGCAGCGTGCTTTAGCTA 59.535 47.619 10.54 0.00 45.31 3.32
1827 2188 1.078709 TTGCAGCGTGCTTTAGCTAG 58.921 50.000 10.54 0.00 45.31 3.42
1828 2189 1.349973 GCAGCGTGCTTTAGCTAGC 59.650 57.895 6.62 6.62 42.52 3.42
1829 2190 1.633171 CAGCGTGCTTTAGCTAGCG 59.367 57.895 9.55 10.96 44.18 4.26
1830 2191 2.321400 GCGTGCTTTAGCTAGCGC 59.679 61.111 9.55 11.31 45.75 5.92
2035 2411 2.538141 ATGGTGGGGTGGTGACAGG 61.538 63.158 0.00 0.00 44.46 4.00
2036 2412 4.660938 GGTGGGGTGGTGACAGGC 62.661 72.222 0.00 0.00 44.46 4.85
2037 2413 3.570212 GTGGGGTGGTGACAGGCT 61.570 66.667 0.00 0.00 44.46 4.58
2038 2414 3.569210 TGGGGTGGTGACAGGCTG 61.569 66.667 14.16 14.16 44.46 4.85
2039 2415 3.249189 GGGGTGGTGACAGGCTGA 61.249 66.667 23.66 0.00 44.46 4.26
2040 2416 2.032681 GGGTGGTGACAGGCTGAC 59.967 66.667 23.66 16.47 44.46 3.51
2041 2417 2.818169 GGGTGGTGACAGGCTGACA 61.818 63.158 23.66 19.30 44.46 3.58
2042 2418 1.302033 GGTGGTGACAGGCTGACAG 60.302 63.158 23.66 0.00 44.46 3.51
2043 2419 1.963338 GTGGTGACAGGCTGACAGC 60.963 63.158 32.00 32.00 44.46 4.40
2059 2435 3.280295 GACAGCCAGCAGTACTAGTAGA 58.720 50.000 1.87 0.00 0.00 2.59
2069 2445 8.305317 CCAGCAGTACTAGTAGATTATTTACCC 58.695 40.741 1.87 0.00 0.00 3.69
2088 2464 1.000274 CCGGCCAAAGGAAAAGAACAG 60.000 52.381 2.24 0.00 0.00 3.16
2113 2489 2.189342 CGAGAGCTAGCTGTAAACTGC 58.811 52.381 24.99 4.66 40.53 4.40
2175 2551 5.731957 TGTGGATGCTGTGTTAGTAGTAA 57.268 39.130 0.00 0.00 0.00 2.24
2195 2571 1.341080 AAACACAGGCCCTTGGATTG 58.659 50.000 0.00 0.00 0.00 2.67
2211 2587 8.674607 CCCTTGGATTGTTTAGTTATGTTAGAC 58.325 37.037 0.00 0.00 0.00 2.59
2263 2642 1.028330 CATGCTGGCGTCACTCCATT 61.028 55.000 0.00 0.00 32.37 3.16
2317 2709 8.723311 GTGATACTACTACTAGATGGTGATGAC 58.277 40.741 0.00 0.00 0.00 3.06
2318 2710 7.603024 TGATACTACTACTAGATGGTGATGACG 59.397 40.741 0.00 0.00 0.00 4.35
2325 2717 2.379005 AGATGGTGATGACGTGCTAGA 58.621 47.619 0.00 0.00 0.00 2.43
2328 2720 1.136891 TGGTGATGACGTGCTAGATGG 59.863 52.381 0.00 0.00 0.00 3.51
2331 2723 3.493350 GGTGATGACGTGCTAGATGGATT 60.493 47.826 0.00 0.00 0.00 3.01
2370 2762 3.873952 GACTGCATATCTCACCAACCTTC 59.126 47.826 0.00 0.00 0.00 3.46
2390 2783 3.963129 TCTTACTTGGGGCCAATGTTAG 58.037 45.455 4.39 6.23 35.20 2.34
2426 2823 8.682710 CAGGCTTATAATATCACTCTCCTAGTC 58.317 40.741 0.00 0.00 35.76 2.59
2469 2866 4.092968 GTGGTTAATGTTGTCCTCTTAGCG 59.907 45.833 0.00 0.00 0.00 4.26
2560 3082 0.882927 TGTACGGTTTGCAGCTCCAC 60.883 55.000 0.00 0.00 0.00 4.02
2604 3126 8.298729 AGGAATTTGAAGAGGGTTTATTCATC 57.701 34.615 0.00 0.00 33.26 2.92
2611 3133 6.377996 TGAAGAGGGTTTATTCATCCATGTTG 59.622 38.462 0.00 0.00 0.00 3.33
2633 3155 6.748333 TGGCTCATAAAAGAACAAGAGATG 57.252 37.500 0.00 0.00 0.00 2.90
2665 3187 8.360390 TGCTACAAGAACATATAGACATAGTGG 58.640 37.037 0.00 0.00 0.00 4.00
2679 3201 9.817809 ATAGACATAGTGGTACATTACTTTGTG 57.182 33.333 17.92 10.78 44.52 3.33
2680 3202 7.103641 AGACATAGTGGTACATTACTTTGTGG 58.896 38.462 17.92 3.64 44.52 4.17
2681 3203 7.011499 ACATAGTGGTACATTACTTTGTGGA 57.989 36.000 14.58 0.00 44.52 4.02
2688 3210 5.944007 GGTACATTACTTTGTGGATCCTTGT 59.056 40.000 14.23 7.05 0.00 3.16
2697 3234 3.674997 TGTGGATCCTTGTTTCAGCTAC 58.325 45.455 14.23 0.00 0.00 3.58
2709 3246 5.401550 TGTTTCAGCTACATTAATTGCAGC 58.598 37.500 0.00 5.06 43.93 5.25
2848 3385 2.238898 AGGCAATTACACCCACCTACTC 59.761 50.000 0.00 0.00 0.00 2.59
2900 3437 6.368791 TGATCCTCAACTTTGTTACTTCATCG 59.631 38.462 0.00 0.00 0.00 3.84
3404 3960 7.307694 TCAGCACATTGACAAGTTATGAATTC 58.692 34.615 0.00 0.00 0.00 2.17
3544 4107 1.000955 AGTTAACCTGTGCTCAGACGG 59.999 52.381 17.19 4.24 43.76 4.79
3639 4202 4.559153 GGTCATCACATGAAAACAAAGGG 58.441 43.478 0.00 0.00 41.69 3.95
3657 4220 1.406539 GGGACGGCGAGTAGATAAACA 59.593 52.381 16.62 0.00 0.00 2.83
3805 4369 2.936032 ACCTTGGTGGGGGCTCTC 60.936 66.667 0.00 0.00 41.11 3.20
3806 4370 2.612115 CCTTGGTGGGGGCTCTCT 60.612 66.667 0.00 0.00 0.00 3.10
3807 4371 2.674220 CCTTGGTGGGGGCTCTCTC 61.674 68.421 0.00 0.00 0.00 3.20
3873 4437 4.636206 GTCTGTGAAGGATGTGGGAAATAC 59.364 45.833 0.00 0.00 0.00 1.89
3874 4438 4.288366 TCTGTGAAGGATGTGGGAAATACA 59.712 41.667 0.00 0.00 0.00 2.29
3899 4463 3.023832 GAGAAAGAGAGAGGGTCAGAGG 58.976 54.545 0.00 0.00 0.00 3.69
3991 4555 6.018098 CAGAACTGCAGAGGATACATTGATTC 60.018 42.308 23.35 8.68 41.41 2.52
4162 4740 2.066340 CCAAGGTGTGGCAGTAGGA 58.934 57.895 0.00 0.00 41.72 2.94
4180 4758 2.753446 GCCTTCTCCCTGCCAAGC 60.753 66.667 0.00 0.00 0.00 4.01
4181 4759 3.085223 CCTTCTCCCTGCCAAGCT 58.915 61.111 0.00 0.00 0.00 3.74
4281 4859 2.262774 GAGAGAGGGGGCATGGTGTG 62.263 65.000 0.00 0.00 0.00 3.82
4349 4927 3.515602 ATATTTGTCCATCTCCAGGCC 57.484 47.619 0.00 0.00 0.00 5.19
4445 5024 8.986477 AAAGATGTTGCCATTTTTACTACATC 57.014 30.769 0.00 0.00 42.80 3.06
4477 5056 9.591404 GAAAGAATGTGAGAATTTATATGCTCG 57.409 33.333 0.00 0.00 39.06 5.03
4498 5077 1.967319 CCTTTGCGGGTATGCTATGT 58.033 50.000 0.00 0.00 35.36 2.29
4527 5106 4.154918 GCCATGTGTTTCTGTTCCTCTTAG 59.845 45.833 0.00 0.00 0.00 2.18
4580 5159 5.065218 GTGTACATTGTCAGCCTAATTCTGG 59.935 44.000 0.00 0.00 32.63 3.86
4607 5186 0.109342 AGTCAGAAAGTGCCCCACAG 59.891 55.000 0.00 0.00 36.74 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
222 223 3.858247 ACTTATGTTCGTTGGGTAGCTC 58.142 45.455 0.00 0.00 0.00 4.09
478 479 4.517453 AGCCGGCGCATTATTTTAAGATTA 59.483 37.500 23.20 0.00 37.52 1.75
525 526 2.847327 AGCAAGCACACACTCTACAT 57.153 45.000 0.00 0.00 0.00 2.29
531 532 4.651778 TCCTATAAAAGCAAGCACACACT 58.348 39.130 0.00 0.00 0.00 3.55
752 1008 5.413523 TGAGTGTGTGTATGTATGTACGAGT 59.586 40.000 0.00 0.00 0.00 4.18
881 1187 1.393603 CGGTAGTGGAGCTGAGATGA 58.606 55.000 0.00 0.00 0.00 2.92
1313 1628 4.530710 TGCACCACCGATATTACTATCC 57.469 45.455 0.00 0.00 31.67 2.59
1317 1632 2.104792 AGCATGCACCACCGATATTACT 59.895 45.455 21.98 0.00 0.00 2.24
1319 1634 2.877786 CAAGCATGCACCACCGATATTA 59.122 45.455 21.98 0.00 0.00 0.98
1344 1659 7.443879 TGAGATACAGATAGCAGAACACTAGAG 59.556 40.741 0.00 0.00 0.00 2.43
1346 1661 7.503521 TGAGATACAGATAGCAGAACACTAG 57.496 40.000 0.00 0.00 0.00 2.57
1351 1666 5.621104 CGGGATGAGATACAGATAGCAGAAC 60.621 48.000 0.00 0.00 0.00 3.01
1435 1756 0.523072 TGTAGTTCACGGCGAGGTAC 59.477 55.000 16.62 9.41 0.00 3.34
1529 1865 1.265095 CATGGTGAGAAGTGTGTGCAC 59.735 52.381 10.75 10.75 45.57 4.57
1530 1866 1.134128 ACATGGTGAGAAGTGTGTGCA 60.134 47.619 0.00 0.00 0.00 4.57
1539 1875 2.437651 TGGTTGTCTGACATGGTGAGAA 59.562 45.455 11.86 0.00 26.09 2.87
1684 2041 2.182842 GGTTCATGGGCTAGCAGCG 61.183 63.158 18.24 1.51 43.62 5.18
1845 2210 1.609580 GGCCTGTTGTTCCACGATACA 60.610 52.381 0.00 0.00 0.00 2.29
1942 2307 2.092429 TGGCTCCAAACACTATCCCATC 60.092 50.000 0.00 0.00 0.00 3.51
1975 2340 3.760151 CTGAGGCTGAGAGGAGATAGATG 59.240 52.174 0.00 0.00 0.00 2.90
2036 2412 1.821753 ACTAGTACTGCTGGCTGTCAG 59.178 52.381 5.39 4.57 46.03 3.51
2037 2413 1.924731 ACTAGTACTGCTGGCTGTCA 58.075 50.000 5.39 0.00 0.00 3.58
2038 2414 3.280295 TCTACTAGTACTGCTGGCTGTC 58.720 50.000 5.39 2.27 0.00 3.51
2039 2415 3.367646 TCTACTAGTACTGCTGGCTGT 57.632 47.619 5.39 9.77 0.00 4.40
2040 2416 4.927978 AATCTACTAGTACTGCTGGCTG 57.072 45.455 5.39 0.00 0.00 4.85
2041 2417 7.604657 AAATAATCTACTAGTACTGCTGGCT 57.395 36.000 5.39 0.00 0.00 4.75
2042 2418 7.813627 GGTAAATAATCTACTAGTACTGCTGGC 59.186 40.741 5.39 0.00 0.00 4.85
2043 2419 8.305317 GGGTAAATAATCTACTAGTACTGCTGG 58.695 40.741 5.39 0.00 0.00 4.85
2044 2420 8.021973 CGGGTAAATAATCTACTAGTACTGCTG 58.978 40.741 5.39 0.00 0.00 4.41
2045 2421 7.176340 CCGGGTAAATAATCTACTAGTACTGCT 59.824 40.741 5.39 0.00 0.00 4.24
2046 2422 7.311408 CCGGGTAAATAATCTACTAGTACTGC 58.689 42.308 5.39 0.00 0.00 4.40
2050 2426 6.314120 TGGCCGGGTAAATAATCTACTAGTA 58.686 40.000 2.18 1.89 0.00 1.82
2052 2428 5.733620 TGGCCGGGTAAATAATCTACTAG 57.266 43.478 2.18 0.00 0.00 2.57
2059 2435 3.673543 TCCTTTGGCCGGGTAAATAAT 57.326 42.857 2.18 0.00 0.00 1.28
2069 2445 1.000274 CCTGTTCTTTTCCTTTGGCCG 60.000 52.381 0.00 0.00 0.00 6.13
2133 2509 5.401550 CACAAAGCAACAAGAAAGTCAGAA 58.598 37.500 0.00 0.00 0.00 3.02
2175 2551 1.693606 CAATCCAAGGGCCTGTGTTTT 59.306 47.619 6.92 1.22 0.00 2.43
2195 2571 9.694137 ACTGAACTCTGTCTAACATAACTAAAC 57.306 33.333 0.00 0.00 0.00 2.01
2211 2587 0.683973 AGCTCCCACACTGAACTCTG 59.316 55.000 0.00 0.00 0.00 3.35
2283 2662 9.344772 CATCTAGTAGTAGTATCACTTGGAACT 57.655 37.037 4.51 0.00 0.00 3.01
2328 2720 5.007430 CAGTCACATCAGCACTTGGATAATC 59.993 44.000 0.00 0.00 0.00 1.75
2331 2723 3.865446 CAGTCACATCAGCACTTGGATA 58.135 45.455 0.00 0.00 0.00 2.59
2370 2762 3.023832 CCTAACATTGGCCCCAAGTAAG 58.976 50.000 0.00 1.31 39.47 2.34
2390 2783 2.276732 TATAAGCCTGCTTGCCATCC 57.723 50.000 14.42 0.00 37.47 3.51
2469 2866 1.553704 CAGTGGGACCCCTGTAGTTAC 59.446 57.143 8.45 0.00 36.94 2.50
2604 3126 5.389859 TGTTCTTTTATGAGCCAACATGG 57.610 39.130 0.00 0.00 41.55 3.66
2611 3133 5.882557 TCCATCTCTTGTTCTTTTATGAGCC 59.117 40.000 0.00 0.00 0.00 4.70
2633 3155 6.583050 GTCTATATGTTCTTGTAGCACGATCC 59.417 42.308 0.00 0.00 0.00 3.36
2665 3187 7.448748 AACAAGGATCCACAAAGTAATGTAC 57.551 36.000 15.82 0.00 30.84 2.90
2673 3195 3.571401 AGCTGAAACAAGGATCCACAAAG 59.429 43.478 15.82 3.15 0.00 2.77
2674 3196 3.565307 AGCTGAAACAAGGATCCACAAA 58.435 40.909 15.82 0.00 0.00 2.83
2676 3198 2.957402 AGCTGAAACAAGGATCCACA 57.043 45.000 15.82 3.38 0.00 4.17
2677 3199 3.674997 TGTAGCTGAAACAAGGATCCAC 58.325 45.455 15.82 0.00 0.00 4.02
2678 3200 4.574674 ATGTAGCTGAAACAAGGATCCA 57.425 40.909 15.82 0.00 0.00 3.41
2679 3201 7.573968 ATTAATGTAGCTGAAACAAGGATCC 57.426 36.000 2.48 2.48 0.00 3.36
2680 3202 7.433425 GCAATTAATGTAGCTGAAACAAGGATC 59.567 37.037 0.00 0.00 0.00 3.36
2681 3203 7.093814 TGCAATTAATGTAGCTGAAACAAGGAT 60.094 33.333 0.00 0.00 0.00 3.24
2697 3234 5.131890 CACAAACAAACGCTGCAATTAATG 58.868 37.500 0.00 0.00 0.00 1.90
2709 3246 2.027926 GCTGCAAGAACACAAACAAACG 59.972 45.455 0.00 0.00 34.07 3.60
2848 3385 4.748892 AGAAGTGTATGACAGTGGAATCG 58.251 43.478 0.00 0.00 30.99 3.34
2900 3437 9.520204 CAAATCCATAATTCACATTACAACTCC 57.480 33.333 0.00 0.00 0.00 3.85
3294 3831 1.938657 ATGTGAGGGACTGCGTCTCG 61.939 60.000 8.26 0.00 41.55 4.04
3438 3998 2.022428 TGCTCACCCCTTCCTATTAGGA 60.022 50.000 8.42 8.42 44.10 2.94
3544 4107 1.630878 AGGAATCACAGGACAGAACCC 59.369 52.381 0.00 0.00 0.00 4.11
3639 4202 4.357142 TGATTGTTTATCTACTCGCCGTC 58.643 43.478 0.00 0.00 34.17 4.79
3805 4369 1.664321 GCATGGCCAAGCAAGGAGAG 61.664 60.000 27.36 0.47 0.00 3.20
3806 4370 1.679977 GCATGGCCAAGCAAGGAGA 60.680 57.895 27.36 0.00 0.00 3.71
3807 4371 2.890371 GCATGGCCAAGCAAGGAG 59.110 61.111 27.36 3.05 0.00 3.69
3825 4389 3.285215 GCAGAGGCCGCCATGATG 61.285 66.667 13.15 5.54 0.00 3.07
3873 4437 4.022603 TGACCCTCTCTCTTTCTCTGATG 58.977 47.826 0.00 0.00 0.00 3.07
3874 4438 4.017591 TCTGACCCTCTCTCTTTCTCTGAT 60.018 45.833 0.00 0.00 0.00 2.90
3991 4555 2.898705 CTTCTTCTTCCCTCACCATCG 58.101 52.381 0.00 0.00 0.00 3.84
4162 4740 3.085223 CTTGGCAGGGAGAAGGCT 58.915 61.111 0.00 0.00 0.00 4.58
4180 4758 6.267242 TCTCCCTCATGAATATGAACAGAGAG 59.733 42.308 0.00 0.00 42.48 3.20
4181 4759 6.138967 TCTCCCTCATGAATATGAACAGAGA 58.861 40.000 0.00 0.00 42.48 3.10
4281 4859 2.441532 ATGCATGTGCCTCCCAGC 60.442 61.111 0.00 0.00 41.18 4.85
4349 4927 0.388520 TCATGCTCGGACACTGTTCG 60.389 55.000 3.19 3.19 35.62 3.95
4377 4955 1.923148 AGTACAAATAGCAAGGGCCCT 59.077 47.619 22.28 22.28 42.56 5.19
4476 5055 2.933878 TAGCATACCCGCAAAGGCCG 62.934 60.000 0.00 0.00 39.21 6.13
4477 5056 0.537371 ATAGCATACCCGCAAAGGCC 60.537 55.000 0.00 0.00 39.21 5.19
4527 5106 6.729187 ACTACATTGAGCTCTGTTTGAAAAC 58.271 36.000 16.19 0.00 39.33 2.43
4580 5159 3.003793 GGGCACTTTCTGACTTTCAGTTC 59.996 47.826 3.19 0.00 44.58 3.01
4607 5186 2.363683 CAAAGGATCAGTCCCTTGCTC 58.636 52.381 0.00 0.00 46.34 4.26


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

AutoCloner maintained by Alex Coulton.