Multiple sequence alignment - TraesCS7B01G166800

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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 TraesCS7B01G166800 chr7B 100.000 2662 0 0 808 3469 230214614 230211953 0.000000e+00 4916.0
1 TraesCS7B01G166800 chr7B 100.000 560 0 0 1 560 230215421 230214862 0.000000e+00 1035.0
2 TraesCS7B01G166800 chr7B 87.342 237 30 0 2826 3062 77187701 77187465 4.410000e-69 272.0
3 TraesCS7B01G166800 chr7B 87.879 198 17 4 3112 3309 77187465 77187275 3.480000e-55 226.0
4 TraesCS7B01G166800 chr7B 92.000 75 4 2 2652 2725 77187786 77187713 1.700000e-18 104.0
5 TraesCS7B01G166800 chr7B 96.970 33 1 0 1711 1743 230213649 230213617 4.840000e-04 56.5
6 TraesCS7B01G166800 chr7B 96.970 33 1 0 1773 1805 230213711 230213679 4.840000e-04 56.5
7 TraesCS7B01G166800 chr7A 92.157 2703 120 30 808 3466 266975234 266977888 0.000000e+00 3733.0
8 TraesCS7B01G166800 chr7A 88.235 289 34 0 2825 3113 27488183 27487895 2.560000e-91 346.0
9 TraesCS7B01G166800 chr7A 92.090 177 9 3 389 560 266975009 266975185 9.620000e-61 244.0
10 TraesCS7B01G166800 chr7A 92.105 114 5 3 2631 2743 27488288 27488178 1.290000e-34 158.0
11 TraesCS7B01G166800 chr7A 100.000 30 0 0 1773 1802 266976133 266976162 4.840000e-04 56.5
12 TraesCS7B01G166800 chr7D 92.643 1699 84 15 1801 3469 253155327 253153640 0.000000e+00 2407.0
13 TraesCS7B01G166800 chr7D 92.351 889 48 7 808 1692 253156249 253155377 0.000000e+00 1247.0
14 TraesCS7B01G166800 chr7D 94.004 467 26 1 4 470 253157566 253157102 0.000000e+00 706.0
15 TraesCS7B01G166800 chr7D 85.823 395 54 1 4 396 616498759 616498365 5.350000e-113 418.0
16 TraesCS7B01G166800 chr7D 95.146 103 5 0 458 560 253156397 253156295 2.770000e-36 163.0
17 TraesCS7B01G166800 chr6A 89.870 385 37 2 4 388 567346681 567346299 8.650000e-136 494.0
18 TraesCS7B01G166800 chr1D 87.661 389 47 1 1 389 479599024 479598637 5.280000e-123 451.0
19 TraesCS7B01G166800 chr1D 87.696 382 43 2 4 384 326223973 326223595 3.180000e-120 442.0
20 TraesCS7B01G166800 chr2D 87.435 382 48 0 6 387 366951637 366952018 1.140000e-119 440.0
21 TraesCS7B01G166800 chr5B 87.668 373 43 3 1 372 479205812 479206182 6.880000e-117 431.0
22 TraesCS7B01G166800 chr4D 85.714 392 48 7 1 388 484558946 484559333 1.160000e-109 407.0
23 TraesCS7B01G166800 chr3D 85.825 388 50 4 1 388 150828358 150827976 1.160000e-109 407.0
24 TraesCS7B01G166800 chr4B 87.500 288 36 0 2825 3112 322656367 322656654 2.000000e-87 333.0
25 TraesCS7B01G166800 chr4B 84.192 291 35 5 2825 3112 621863673 621863955 4.410000e-69 272.0
26 TraesCS7B01G166800 chr4B 91.525 118 5 4 2627 2743 322656259 322656372 1.290000e-34 158.0
27 TraesCS7B01G166800 chr4B 88.983 118 9 3 2627 2743 621863564 621863678 3.610000e-30 143.0
28 TraesCS7B01G166800 chr6B 85.766 274 35 2 2825 3095 712640038 712639766 1.580000e-73 287.0
29 TraesCS7B01G166800 chr6B 88.983 118 9 3 2627 2743 712640147 712640033 3.610000e-30 143.0
30 TraesCS7B01G166800 chr5A 89.041 219 20 2 2848 3062 37615732 37615514 5.710000e-68 268.0
31 TraesCS7B01G166800 chr5A 88.384 198 17 5 3112 3309 37615514 37615323 2.080000e-57 233.0
32 TraesCS7B01G166800 chr3B 98.936 94 1 0 2120 2213 380513287 380513194 5.950000e-38 169.0
33 TraesCS7B01G166800 chr3B 91.000 100 7 2 2627 2725 573600457 573600359 2.170000e-27 134.0
34 TraesCS7B01G166800 chr4A 94.000 100 4 2 2627 2725 703413235 703413137 2.160000e-32 150.0


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 TraesCS7B01G166800 chr7B 230211953 230215421 3468 True 1516.000000 4916 98.485000 1 3469 4 chr7B.!!$R2 3468
1 TraesCS7B01G166800 chr7B 77187275 77187786 511 True 200.666667 272 89.073667 2652 3309 3 chr7B.!!$R1 657
2 TraesCS7B01G166800 chr7A 266975009 266977888 2879 False 1344.500000 3733 94.749000 389 3466 3 chr7A.!!$F1 3077
3 TraesCS7B01G166800 chr7D 253153640 253157566 3926 True 1130.750000 2407 93.536000 4 3469 4 chr7D.!!$R2 3465

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
283 284 0.329596 AAGATGGTGGGTTCAGGCTC 59.670 55.0 0.0 0.0 0.0 4.70 F
980 1707 0.780002 CGCAACAACAAGCAAGCATC 59.220 50.0 0.0 0.0 0.0 3.91 F
1749 2491 0.107848 AATCGCTAAACCTCACCCCG 60.108 55.0 0.0 0.0 0.0 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1626 2368 0.033699 AGGAGCTGGCTTCCATTTCC 60.034 55.0 0.0 7.36 36.66 3.13 R
1892 2634 0.106708 TGCTTGACGAAGAACCTGCT 59.893 50.0 0.0 0.00 0.00 4.24 R
3152 3909 0.179062 AGGCTGCGGATGAAGATGAC 60.179 55.0 0.0 0.00 0.00 3.06 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
89 90 0.744874 GATGGATCGGTGGAAGACGA 59.255 55.000 0.00 0.00 43.85 4.20
90 91 0.460311 ATGGATCGGTGGAAGACGAC 59.540 55.000 0.00 0.00 42.39 4.34
94 95 4.351938 CGGTGGAAGACGACGGCA 62.352 66.667 2.19 0.00 0.00 5.69
113 114 3.753434 CGGCCTCTGAGAGTGCGT 61.753 66.667 8.88 0.00 30.49 5.24
149 150 1.078497 CAGTCCCGGCATTGTAGCA 60.078 57.895 0.00 0.00 35.83 3.49
153 154 2.723746 CCGGCATTGTAGCATGGC 59.276 61.111 0.00 0.00 39.60 4.40
155 156 0.534877 CCGGCATTGTAGCATGGCTA 60.535 55.000 6.72 0.00 40.44 3.93
182 183 4.142609 TCTGGCTTTAGATGTTAGGCTG 57.857 45.455 0.00 0.00 35.66 4.85
193 194 1.419762 TGTTAGGCTGTGGTGTGATGT 59.580 47.619 0.00 0.00 0.00 3.06
194 195 2.076863 GTTAGGCTGTGGTGTGATGTC 58.923 52.381 0.00 0.00 0.00 3.06
195 196 0.613260 TAGGCTGTGGTGTGATGTCC 59.387 55.000 0.00 0.00 0.00 4.02
221 222 2.864343 GGTATTCAGTTCGGACATTCGG 59.136 50.000 0.00 0.00 0.00 4.30
258 259 2.101415 TGGATAGGAGAAGCGACATGTG 59.899 50.000 1.15 0.00 0.00 3.21
274 275 0.888736 TGTGTTGCGAAGATGGTGGG 60.889 55.000 0.00 0.00 0.00 4.61
277 278 0.521735 GTTGCGAAGATGGTGGGTTC 59.478 55.000 0.00 0.00 0.00 3.62
280 281 1.026718 GCGAAGATGGTGGGTTCAGG 61.027 60.000 0.00 0.00 0.00 3.86
283 284 0.329596 AAGATGGTGGGTTCAGGCTC 59.670 55.000 0.00 0.00 0.00 4.70
344 345 3.698029 AAAATGGCTACATGCATCGTC 57.302 42.857 0.00 0.00 45.15 4.20
384 385 7.444487 CGGGGGTATATCCTTCTTTTCTAAAAG 59.556 40.741 1.07 8.58 40.31 2.27
488 1207 1.462238 AGCACAGGGGAGGACAAGT 60.462 57.895 0.00 0.00 0.00 3.16
515 1234 3.120060 GGATTGCAACACTAGAGCACAAG 60.120 47.826 0.00 0.00 38.11 3.16
888 1608 2.154462 CGGCAGATTTGGAAGTCTTGT 58.846 47.619 0.00 0.00 0.00 3.16
900 1620 2.789409 AGTCTTGTGGCCAGTATTCC 57.211 50.000 5.11 0.00 0.00 3.01
902 1622 2.644798 AGTCTTGTGGCCAGTATTCCTT 59.355 45.455 5.11 0.00 0.00 3.36
933 1653 5.242838 CCCTACAAGGCTACAATGTCAAAAA 59.757 40.000 0.00 0.00 32.73 1.94
980 1707 0.780002 CGCAACAACAAGCAAGCATC 59.220 50.000 0.00 0.00 0.00 3.91
1181 1912 1.298859 GACGCCATCCAAGGTGACAC 61.299 60.000 0.00 0.00 41.75 3.67
1183 1914 2.040544 GCCATCCAAGGTGACACCG 61.041 63.158 18.93 5.77 44.90 4.94
1184 1915 1.676968 CCATCCAAGGTGACACCGA 59.323 57.895 18.93 10.81 44.90 4.69
1188 1919 2.225382 TCCAAGGTGACACCGATCTA 57.775 50.000 18.93 2.52 44.90 1.98
1390 2129 2.049526 CACTGCCGCGTCTGTGTA 60.050 61.111 17.45 0.00 33.14 2.90
1462 2201 1.805539 TGCCGATCAACGAGAAGCG 60.806 57.895 0.00 0.00 45.77 4.68
1488 2227 6.310711 CGACTATGACTGGTAGGTTCTTTTTC 59.689 42.308 0.00 0.00 0.00 2.29
1489 2228 7.317722 ACTATGACTGGTAGGTTCTTTTTCT 57.682 36.000 0.00 0.00 0.00 2.52
1490 2229 7.746703 ACTATGACTGGTAGGTTCTTTTTCTT 58.253 34.615 0.00 0.00 0.00 2.52
1491 2230 8.218488 ACTATGACTGGTAGGTTCTTTTTCTTT 58.782 33.333 0.00 0.00 0.00 2.52
1536 2278 1.202348 GGTTCATTTGGCACTAGCACC 59.798 52.381 0.00 0.00 44.61 5.01
1564 2306 6.663734 AGAATTGGTTCTTACATTAGAGGGG 58.336 40.000 0.00 0.00 41.92 4.79
1570 2312 2.961062 TCTTACATTAGAGGGGGTACGC 59.039 50.000 0.29 0.29 42.17 4.42
1611 2353 1.000060 CCTCCAGTTGCACCAATGTTG 60.000 52.381 0.00 0.00 0.00 3.33
1624 2366 2.517959 CAATGTTGCCTTCCCTCAAGA 58.482 47.619 0.00 0.00 33.29 3.02
1625 2367 3.094572 CAATGTTGCCTTCCCTCAAGAT 58.905 45.455 0.00 0.00 33.29 2.40
1626 2368 2.205022 TGTTGCCTTCCCTCAAGATG 57.795 50.000 0.00 0.00 33.29 2.90
1627 2369 1.272092 TGTTGCCTTCCCTCAAGATGG 60.272 52.381 0.00 0.00 33.29 3.51
1628 2370 1.004745 GTTGCCTTCCCTCAAGATGGA 59.995 52.381 0.00 0.00 33.84 3.41
1629 2371 1.371467 TGCCTTCCCTCAAGATGGAA 58.629 50.000 6.64 6.64 38.30 3.53
1703 2445 3.499737 CCCGATCACGCAACCTGC 61.500 66.667 0.00 0.00 40.69 4.85
1745 2487 4.448060 GGTATGCTAATCGCTAAACCTCAC 59.552 45.833 0.00 0.00 40.11 3.51
1748 2490 2.835027 CTAATCGCTAAACCTCACCCC 58.165 52.381 0.00 0.00 0.00 4.95
1749 2491 0.107848 AATCGCTAAACCTCACCCCG 60.108 55.000 0.00 0.00 0.00 5.73
1750 2492 2.588856 ATCGCTAAACCTCACCCCGC 62.589 60.000 0.00 0.00 0.00 6.13
1751 2493 2.349755 GCTAAACCTCACCCCGCA 59.650 61.111 0.00 0.00 0.00 5.69
1752 2494 1.302993 GCTAAACCTCACCCCGCAA 60.303 57.895 0.00 0.00 0.00 4.85
1753 2495 0.891904 GCTAAACCTCACCCCGCAAA 60.892 55.000 0.00 0.00 0.00 3.68
1754 2496 1.611519 CTAAACCTCACCCCGCAAAA 58.388 50.000 0.00 0.00 0.00 2.44
1755 2497 1.957877 CTAAACCTCACCCCGCAAAAA 59.042 47.619 0.00 0.00 0.00 1.94
1784 2526 9.696917 AAAAAGTACATTTATTCAGCTTCAAGG 57.303 29.630 0.00 0.00 0.00 3.61
1786 2528 6.485171 AGTACATTTATTCAGCTTCAAGGGT 58.515 36.000 0.00 0.00 0.00 4.34
1787 2529 7.630082 AGTACATTTATTCAGCTTCAAGGGTA 58.370 34.615 0.00 0.00 0.00 3.69
1788 2530 8.275040 AGTACATTTATTCAGCTTCAAGGGTAT 58.725 33.333 0.00 0.00 0.00 2.73
1789 2531 7.338800 ACATTTATTCAGCTTCAAGGGTATG 57.661 36.000 0.00 0.00 0.00 2.39
1790 2532 5.835113 TTTATTCAGCTTCAAGGGTATGC 57.165 39.130 0.00 0.00 0.00 3.14
1791 2533 3.659183 ATTCAGCTTCAAGGGTATGCT 57.341 42.857 0.00 0.00 0.00 3.79
1792 2534 4.778213 ATTCAGCTTCAAGGGTATGCTA 57.222 40.909 0.00 0.00 32.29 3.49
1793 2535 4.568072 TTCAGCTTCAAGGGTATGCTAA 57.432 40.909 0.00 0.00 32.29 3.09
1794 2536 4.778213 TCAGCTTCAAGGGTATGCTAAT 57.222 40.909 0.00 0.00 32.29 1.73
1795 2537 4.708177 TCAGCTTCAAGGGTATGCTAATC 58.292 43.478 0.00 0.00 32.29 1.75
1796 2538 3.496130 CAGCTTCAAGGGTATGCTAATCG 59.504 47.826 0.00 0.00 32.29 3.34
1797 2539 2.224314 GCTTCAAGGGTATGCTAATCGC 59.776 50.000 0.00 0.00 39.77 4.58
1798 2540 3.733337 CTTCAAGGGTATGCTAATCGCT 58.267 45.455 0.00 0.00 40.11 4.93
1799 2541 4.799586 GCTTCAAGGGTATGCTAATCGCTA 60.800 45.833 0.00 0.00 40.11 4.26
1853 2595 1.210478 TCTTGGCTAGGGCAGTTCATC 59.790 52.381 0.00 0.00 39.75 2.92
1888 2630 0.971386 CCCAAAACATCAGCCAAGCT 59.029 50.000 0.00 0.00 40.77 3.74
1892 2634 1.999648 AAACATCAGCCAAGCTTCCA 58.000 45.000 0.00 0.00 36.40 3.53
1943 2685 3.114616 CAGCCTTGCACGACCGAG 61.115 66.667 0.00 0.00 0.00 4.63
1991 2733 4.428845 CCCAACAGGCAGCAGAAT 57.571 55.556 0.00 0.00 0.00 2.40
2082 2824 3.429141 CAAGCCAGGACAGCAGCG 61.429 66.667 0.00 0.00 0.00 5.18
2099 2850 2.677003 CGGTGCAAGTACGGCCAAG 61.677 63.158 2.24 0.00 0.00 3.61
2100 2851 2.332654 GGTGCAAGTACGGCCAAGG 61.333 63.158 2.24 0.00 0.00 3.61
2322 3073 2.711542 CCAGGAAGAATGCTTTACCGT 58.288 47.619 0.00 0.00 33.61 4.83
2429 3180 3.643159 AAGGGAATGCGAAAAACAGAC 57.357 42.857 0.00 0.00 0.00 3.51
2438 3189 2.604614 GCGAAAAACAGACGGCAAGAAT 60.605 45.455 0.00 0.00 0.00 2.40
2486 3240 3.129638 AGTGAAGAACGAGCCTATCAGTC 59.870 47.826 0.00 0.00 0.00 3.51
2521 3277 1.713932 GTTTGCAAAAGCGACGATTCC 59.286 47.619 14.67 0.00 0.00 3.01
2551 3307 5.921962 ATAAAAATTTGCTCCTCCCACTC 57.078 39.130 0.00 0.00 0.00 3.51
2725 3481 6.947644 TCACATCAAAATGGGTCATCATAG 57.052 37.500 0.00 0.00 37.57 2.23
2927 3683 0.179000 GAGGAGTGCCGATTGGATGT 59.821 55.000 1.98 0.00 39.96 3.06
3131 3888 1.352083 TAGATACCTGGGCAGCATCC 58.648 55.000 0.00 0.00 0.00 3.51
3152 3909 3.181467 CCTCTGCTTCATACTCTTCAGGG 60.181 52.174 0.00 0.00 0.00 4.45
3218 3975 3.356290 ACCAATCCCATGTTTCTAGTGC 58.644 45.455 0.00 0.00 0.00 4.40
3223 3980 1.281867 CCCATGTTTCTAGTGCCCAGA 59.718 52.381 0.00 0.00 0.00 3.86
3384 4158 4.210331 AGAATGATGCAAGTGGATAACCC 58.790 43.478 0.00 0.00 34.81 4.11
3421 4195 7.933577 TGTTAATGACAAATAGATCTAGCCAGG 59.066 37.037 8.70 0.00 34.69 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.403057 CCACGGCGTCAGACAACG 61.403 66.667 10.85 11.24 45.31 4.10
45 46 0.246635 AGCAGGTACTAACGCACTGG 59.753 55.000 0.00 0.00 36.02 4.00
94 95 2.659610 GCACTCTCAGAGGCCGTT 59.340 61.111 6.64 0.00 33.35 4.44
113 114 3.608662 GGTCACACACCGGTCCGA 61.609 66.667 14.39 0.00 34.56 4.55
149 150 1.358830 AAGCCAGATGCCCTAGCCAT 61.359 55.000 0.00 0.00 42.71 4.40
153 154 3.672808 CATCTAAAGCCAGATGCCCTAG 58.327 50.000 7.42 0.00 43.95 3.02
155 156 2.653234 CATCTAAAGCCAGATGCCCT 57.347 50.000 7.42 0.00 43.95 5.19
182 183 0.591170 CCAAACGGACATCACACCAC 59.409 55.000 0.00 0.00 0.00 4.16
193 194 2.299582 TCCGAACTGAATACCAAACGGA 59.700 45.455 0.00 0.00 39.51 4.69
194 195 2.414138 GTCCGAACTGAATACCAAACGG 59.586 50.000 0.00 0.00 36.69 4.44
195 196 3.061322 TGTCCGAACTGAATACCAAACG 58.939 45.455 0.00 0.00 0.00 3.60
221 222 2.571548 CCACTTGATGAAGGGGTGC 58.428 57.895 4.81 0.00 46.61 5.01
258 259 0.521735 GAACCCACCATCTTCGCAAC 59.478 55.000 0.00 0.00 0.00 4.17
277 278 3.834489 AGGAATACATCAGTGAGCCTG 57.166 47.619 0.00 0.00 42.97 4.85
280 281 6.985188 TTACAAAGGAATACATCAGTGAGC 57.015 37.500 0.00 0.00 0.00 4.26
318 319 7.138736 ACGATGCATGTAGCCATTTTATTAAC 58.861 34.615 2.46 0.00 44.83 2.01
344 345 2.511452 CCCCGGCCTCTACATCTGG 61.511 68.421 0.00 0.00 0.00 3.86
488 1207 5.181245 GTGCTCTAGTGTTGCAATCCTTTTA 59.819 40.000 0.59 0.00 38.50 1.52
515 1234 1.327507 GGCATCGTTTGTTTCTTCGC 58.672 50.000 0.00 0.00 0.00 4.70
836 1556 0.871722 CGACCGCTGGAATTGTTTGA 59.128 50.000 1.50 0.00 0.00 2.69
864 1584 2.033448 TTCCAAATCTGCCGGCGT 59.967 55.556 23.90 7.56 0.00 5.68
888 1608 3.287222 GTTGCATAAGGAATACTGGCCA 58.713 45.455 4.71 4.71 0.00 5.36
900 1620 3.004752 AGCCTTGTAGGGTTGCATAAG 57.995 47.619 0.00 0.00 45.25 1.73
902 1622 2.841266 TGTAGCCTTGTAGGGTTGCATA 59.159 45.455 2.39 0.00 45.25 3.14
933 1653 3.049344 GGAAAGATGAGAGGTATGGGGT 58.951 50.000 0.00 0.00 0.00 4.95
980 1707 2.494059 TCTTCTTCAGGGAACAAAGCG 58.506 47.619 0.00 0.00 0.00 4.68
991 1718 3.264947 TCATGCGGTTCATCTTCTTCAG 58.735 45.455 0.00 0.00 31.79 3.02
1181 1912 4.082190 ACGAGAGAGAGAGAGATAGATCGG 60.082 50.000 0.00 0.00 0.00 4.18
1183 1914 5.186021 AGGACGAGAGAGAGAGAGATAGATC 59.814 48.000 0.00 0.00 0.00 2.75
1184 1915 5.087323 AGGACGAGAGAGAGAGAGATAGAT 58.913 45.833 0.00 0.00 0.00 1.98
1188 1919 3.808728 CAAGGACGAGAGAGAGAGAGAT 58.191 50.000 0.00 0.00 0.00 2.75
1379 2118 2.417933 ACCTAGTTAGTACACAGACGCG 59.582 50.000 3.53 3.53 0.00 6.01
1380 2119 3.427233 CCACCTAGTTAGTACACAGACGC 60.427 52.174 0.00 0.00 0.00 5.19
1390 2129 3.514309 GGACATGTGACCACCTAGTTAGT 59.486 47.826 1.15 0.00 0.00 2.24
1462 2201 2.688958 AGAACCTACCAGTCATAGTCGC 59.311 50.000 0.00 0.00 0.00 5.19
1536 2278 7.169982 CCTCTAATGTAAGAACCAATTCTAGCG 59.830 40.741 0.00 0.00 44.82 4.26
1564 2306 1.702491 GGCCTGAAATCACGCGTACC 61.702 60.000 13.44 0.00 0.00 3.34
1570 2312 0.804989 GTCTTGGGCCTGAAATCACG 59.195 55.000 4.53 0.00 0.00 4.35
1611 2353 2.514458 TTTCCATCTTGAGGGAAGGC 57.486 50.000 14.94 0.00 43.59 4.35
1624 2366 1.687368 GGAGCTGGCTTCCATTTCCAT 60.687 52.381 0.00 0.00 36.52 3.41
1625 2367 0.323725 GGAGCTGGCTTCCATTTCCA 60.324 55.000 0.00 0.00 36.52 3.53
1626 2368 0.033699 AGGAGCTGGCTTCCATTTCC 60.034 55.000 0.00 7.36 36.66 3.13
1627 2369 1.387539 GAGGAGCTGGCTTCCATTTC 58.612 55.000 0.00 0.00 30.82 2.17
1628 2370 0.033699 GGAGGAGCTGGCTTCCATTT 60.034 55.000 0.00 0.00 30.82 2.32
1629 2371 1.611965 GGAGGAGCTGGCTTCCATT 59.388 57.895 0.00 0.00 30.82 3.16
1703 2445 3.756117 ACCCTTGAAGCTGAAGGTTTAG 58.244 45.455 18.97 9.44 38.73 1.85
1758 2500 9.696917 CCTTGAAGCTGAATAAATGTACTTTTT 57.303 29.630 11.52 5.95 0.00 1.94
1759 2501 8.306761 CCCTTGAAGCTGAATAAATGTACTTTT 58.693 33.333 11.09 11.09 0.00 2.27
1760 2502 7.451566 ACCCTTGAAGCTGAATAAATGTACTTT 59.548 33.333 0.00 0.00 0.00 2.66
1761 2503 6.948309 ACCCTTGAAGCTGAATAAATGTACTT 59.052 34.615 0.00 0.00 0.00 2.24
1762 2504 6.485171 ACCCTTGAAGCTGAATAAATGTACT 58.515 36.000 0.00 0.00 0.00 2.73
1763 2505 6.759497 ACCCTTGAAGCTGAATAAATGTAC 57.241 37.500 0.00 0.00 0.00 2.90
1764 2506 7.013274 GCATACCCTTGAAGCTGAATAAATGTA 59.987 37.037 0.00 0.00 0.00 2.29
1784 2526 9.019222 AAACCCAGTTTTAGCGATTAGCATACC 62.019 40.741 0.00 0.00 39.58 2.73
1786 2528 5.883673 AAACCCAGTTTTAGCGATTAGCATA 59.116 36.000 0.00 0.00 39.58 3.14
1787 2529 4.705023 AAACCCAGTTTTAGCGATTAGCAT 59.295 37.500 0.00 0.00 39.58 3.79
1788 2530 4.076394 AAACCCAGTTTTAGCGATTAGCA 58.924 39.130 0.00 0.00 39.58 3.49
1789 2531 4.155280 TCAAACCCAGTTTTAGCGATTAGC 59.845 41.667 0.00 0.00 38.87 3.09
1790 2532 5.873179 TCAAACCCAGTTTTAGCGATTAG 57.127 39.130 0.00 0.00 33.10 1.73
1791 2533 5.766174 ACTTCAAACCCAGTTTTAGCGATTA 59.234 36.000 0.00 0.00 33.10 1.75
1792 2534 4.583073 ACTTCAAACCCAGTTTTAGCGATT 59.417 37.500 0.00 0.00 33.10 3.34
1793 2535 4.142038 ACTTCAAACCCAGTTTTAGCGAT 58.858 39.130 0.00 0.00 33.10 4.58
1794 2536 3.547746 ACTTCAAACCCAGTTTTAGCGA 58.452 40.909 0.00 0.00 33.10 4.93
1795 2537 3.982576 ACTTCAAACCCAGTTTTAGCG 57.017 42.857 0.00 0.00 33.10 4.26
1796 2538 5.257082 TCAACTTCAAACCCAGTTTTAGC 57.743 39.130 0.00 0.00 33.10 3.09
1797 2539 5.741982 CGTTCAACTTCAAACCCAGTTTTAG 59.258 40.000 0.00 0.00 33.10 1.85
1798 2540 5.415077 TCGTTCAACTTCAAACCCAGTTTTA 59.585 36.000 0.00 0.00 33.10 1.52
1799 2541 4.218852 TCGTTCAACTTCAAACCCAGTTTT 59.781 37.500 0.00 0.00 33.10 2.43
1869 2611 0.971386 AGCTTGGCTGATGTTTTGGG 59.029 50.000 0.00 0.00 37.57 4.12
1888 2630 0.756294 TGACGAAGAACCTGCTGGAA 59.244 50.000 17.64 0.00 37.04 3.53
1892 2634 0.106708 TGCTTGACGAAGAACCTGCT 59.893 50.000 0.00 0.00 0.00 4.24
1943 2685 4.930592 GCTGAAGCTGGTCTCCTC 57.069 61.111 0.00 0.00 38.21 3.71
1991 2733 2.025037 AGTATTGGCTTTGGCATCTGGA 60.025 45.455 0.00 0.00 38.08 3.86
2031 2773 4.996434 GTGCGAGTGTGCCCTGCT 62.996 66.667 0.00 0.00 0.00 4.24
2035 2777 3.851845 TACGTGTGCGAGTGTGCCC 62.852 63.158 0.00 0.00 42.00 5.36
2082 2824 2.332654 CCTTGGCCGTACTTGCACC 61.333 63.158 0.00 0.00 0.00 5.01
2277 3028 1.377994 CCTGCAGCTCCTTGGAAGT 59.622 57.895 8.66 0.00 0.00 3.01
2322 3073 2.115910 CACAGCCTTGCCCTTGGA 59.884 61.111 0.00 0.00 0.00 3.53
2422 3173 1.537202 GCTCATTCTTGCCGTCTGTTT 59.463 47.619 0.00 0.00 0.00 2.83
2429 3180 1.153568 TCTCCGCTCATTCTTGCCG 60.154 57.895 0.00 0.00 0.00 5.69
2486 3240 7.164171 GCTTTTGCAAACATATACTACATGTCG 59.836 37.037 12.39 0.00 46.58 4.35
2521 3277 7.545615 GGGAGGAGCAAATTTTTATAGTTGTTG 59.454 37.037 0.00 0.00 0.00 3.33
2551 3307 6.630443 CGACAAATCAACAGAAAGAAGTCTTG 59.370 38.462 0.00 0.00 36.12 3.02
2725 3481 3.353836 TTGGCAGAACGGCGCTTC 61.354 61.111 6.90 10.41 45.16 3.86
2778 3534 1.375140 CCGCAGTGCTGTCTGATGT 60.375 57.895 14.33 0.00 37.61 3.06
2927 3683 3.147595 CAGAGTCGGGATGGCGGA 61.148 66.667 0.00 0.00 0.00 5.54
3131 3888 3.450457 ACCCTGAAGAGTATGAAGCAGAG 59.550 47.826 0.00 0.00 0.00 3.35
3152 3909 0.179062 AGGCTGCGGATGAAGATGAC 60.179 55.000 0.00 0.00 0.00 3.06
3309 4066 5.175856 GTGTAAGCCTGCTTAGTGAATATCG 59.824 44.000 11.68 0.00 38.95 2.92
3313 4087 4.508662 GAGTGTAAGCCTGCTTAGTGAAT 58.491 43.478 11.68 0.00 38.95 2.57
3421 4195 6.688578 TGTGTTCCTTGTCTGTCTTACTATC 58.311 40.000 0.00 0.00 0.00 2.08


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

AutoCloner maintained by Alex Coulton.