Multiple sequence alignment - TraesCS7B01G350800

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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 TraesCS7B01G350800 chr7B 100.000 2579 0 0 1 2579 608183181 608185759 0.000000e+00 4763.0
1 TraesCS7B01G350800 chr7B 88.092 2091 142 40 1 2051 607927720 607929743 0.000000e+00 2383.0
2 TraesCS7B01G350800 chr7B 86.727 1891 184 35 1 1848 607909207 607911073 0.000000e+00 2039.0
3 TraesCS7B01G350800 chr7A 92.161 2041 128 19 32 2051 644456297 644458326 0.000000e+00 2854.0
4 TraesCS7B01G350800 chr7A 86.762 1896 172 35 1 1848 644441321 644443185 0.000000e+00 2037.0
5 TraesCS7B01G350800 chr7A 93.458 214 14 0 2259 2472 644458561 644458774 4.140000e-83 318.0
6 TraesCS7B01G350800 chr7A 90.608 181 6 3 2051 2220 644458382 644458562 2.000000e-56 230.0
7 TraesCS7B01G350800 chr7D 86.013 2059 183 47 1 2012 560222289 560224289 0.000000e+00 2109.0
8 TraesCS7B01G350800 chr6B 77.443 1494 252 59 462 1901 84132337 84133799 0.000000e+00 813.0
9 TraesCS7B01G350800 chr6B 93.128 553 25 1 1375 1927 171038971 171038432 0.000000e+00 798.0
10 TraesCS7B01G350800 chrUn 77.770 1417 245 53 462 1833 143908681 143910072 0.000000e+00 808.0
11 TraesCS7B01G350800 chrUn 76.787 1581 267 72 462 2005 26727075 26728592 0.000000e+00 795.0
12 TraesCS7B01G350800 chrUn 74.682 1572 313 68 68 1607 102497506 102499024 1.010000e-173 619.0
13 TraesCS7B01G350800 chrUn 80.198 404 61 11 21 410 153436492 153436094 4.200000e-73 285.0
14 TraesCS7B01G350800 chrUn 81.791 335 49 8 78 400 153390165 153390499 1.180000e-68 270.0
15 TraesCS7B01G350800 chrUn 84.536 97 13 2 2412 2508 153391887 153391981 7.600000e-16 95.3
16 TraesCS7B01G350800 chrUn 84.536 97 13 2 2412 2508 153408083 153407989 7.600000e-16 95.3
17 TraesCS7B01G350800 chrUn 84.722 72 9 2 1907 1977 104484609 104484539 1.280000e-08 71.3
18 TraesCS7B01G350800 chr6A 77.754 1407 229 55 467 1833 47956547 47957909 0.000000e+00 787.0
19 TraesCS7B01G350800 chr6A 83.120 391 46 14 21 410 47701892 47702263 3.180000e-89 339.0
20 TraesCS7B01G350800 chr6A 80.500 400 56 13 17 401 47983341 47983733 1.170000e-73 287.0
21 TraesCS7B01G350800 chr6A 85.567 97 12 2 2412 2508 48055221 48055127 1.630000e-17 100.0
22 TraesCS7B01G350800 chr2D 91.863 553 30 2 1375 1927 278848123 278848660 0.000000e+00 758.0


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 TraesCS7B01G350800 chr7B 608183181 608185759 2578 False 4763 4763 100.000000 1 2579 1 chr7B.!!$F3 2578
1 TraesCS7B01G350800 chr7B 607927720 607929743 2023 False 2383 2383 88.092000 1 2051 1 chr7B.!!$F2 2050
2 TraesCS7B01G350800 chr7B 607909207 607911073 1866 False 2039 2039 86.727000 1 1848 1 chr7B.!!$F1 1847
3 TraesCS7B01G350800 chr7A 644441321 644443185 1864 False 2037 2037 86.762000 1 1848 1 chr7A.!!$F1 1847
4 TraesCS7B01G350800 chr7A 644456297 644458774 2477 False 1134 2854 92.075667 32 2472 3 chr7A.!!$F2 2440
5 TraesCS7B01G350800 chr7D 560222289 560224289 2000 False 2109 2109 86.013000 1 2012 1 chr7D.!!$F1 2011
6 TraesCS7B01G350800 chr6B 84132337 84133799 1462 False 813 813 77.443000 462 1901 1 chr6B.!!$F1 1439
7 TraesCS7B01G350800 chr6B 171038432 171038971 539 True 798 798 93.128000 1375 1927 1 chr6B.!!$R1 552
8 TraesCS7B01G350800 chrUn 143908681 143910072 1391 False 808 808 77.770000 462 1833 1 chrUn.!!$F3 1371
9 TraesCS7B01G350800 chrUn 26727075 26728592 1517 False 795 795 76.787000 462 2005 1 chrUn.!!$F1 1543
10 TraesCS7B01G350800 chrUn 102497506 102499024 1518 False 619 619 74.682000 68 1607 1 chrUn.!!$F2 1539
11 TraesCS7B01G350800 chr6A 47956547 47957909 1362 False 787 787 77.754000 467 1833 1 chr6A.!!$F2 1366
12 TraesCS7B01G350800 chr2D 278848123 278848660 537 False 758 758 91.863000 1375 1927 1 chr2D.!!$F1 552

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
878 913 0.101579 GTCGTCTCCAAGCTCCTAGC 59.898 60.0 0.0 0.0 42.84 3.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2483 2676 0.251297 CACACAAGGATCCCTGCCAA 60.251 55.0 10.46 0.0 32.13 4.52 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
41 42 0.378257 CCATTGGAACGCATCGAAGG 59.622 55.000 0.00 0.00 0.00 3.46
427 437 4.329256 GGCTACAAGATCTACGGTGAAAAC 59.671 45.833 0.00 0.00 0.00 2.43
430 440 4.817517 ACAAGATCTACGGTGAAAACGAT 58.182 39.130 0.00 0.00 34.93 3.73
584 599 2.886523 CGAGCATCTCTCCTTGATCTCT 59.113 50.000 0.00 0.00 38.62 3.10
609 624 0.453793 CATCTCAGCGGACGTCTTCT 59.546 55.000 16.46 9.76 0.00 2.85
635 650 3.485431 CTCTCTGCTTGCCGTGCG 61.485 66.667 0.00 0.00 0.00 5.34
660 675 2.924290 GAGAGCTTACACATGTCCGAAC 59.076 50.000 0.00 0.00 0.00 3.95
679 694 3.741830 TTCGTGGTGCTCGTTGCCA 62.742 57.895 1.30 0.00 42.00 4.92
818 845 4.023107 CGAGATGATTGTGGTACTATCCGT 60.023 45.833 0.00 0.00 30.93 4.69
843 870 0.107831 TTGTGCGCCTAAACTGGAGT 59.892 50.000 4.18 0.00 0.00 3.85
845 872 0.517316 GTGCGCCTAAACTGGAGTTG 59.483 55.000 4.18 0.00 38.44 3.16
846 873 0.605319 TGCGCCTAAACTGGAGTTGG 60.605 55.000 4.18 0.00 38.44 3.77
847 874 1.305930 GCGCCTAAACTGGAGTTGGG 61.306 60.000 0.00 0.82 38.44 4.12
878 913 0.101579 GTCGTCTCCAAGCTCCTAGC 59.898 60.000 0.00 0.00 42.84 3.42
890 925 1.077334 GCTCCTAGCCTCCCAGGTATA 59.923 57.143 0.00 0.00 37.80 1.47
891 926 2.886391 GCTCCTAGCCTCCCAGGTATAG 60.886 59.091 0.00 0.00 37.80 1.31
894 961 2.175202 CTAGCCTCCCAGGTATAGCAG 58.825 57.143 4.48 0.00 37.80 4.24
897 964 0.683973 CCTCCCAGGTATAGCAGCAG 59.316 60.000 4.48 0.00 0.00 4.24
1008 1100 1.154413 GGCAAACTCGATGCACACG 60.154 57.895 11.32 8.53 45.60 4.49
1256 1364 4.084328 GGATACGAAAATCGAGCCTCAATG 60.084 45.833 6.78 0.00 43.74 2.82
1356 1467 2.497273 ACAGCTTGAGTTTGCCAAGTTT 59.503 40.909 0.00 0.00 42.11 2.66
1579 1694 0.179045 CCCCTTCGAACAGCCATAGG 60.179 60.000 0.00 0.00 0.00 2.57
1643 1759 6.827641 TGTGCTTGTTTTGTAGACGATATTC 58.172 36.000 0.00 0.00 0.00 1.75
1709 1826 1.414550 CTAGCCTAAGGTTCCTCTGCC 59.585 57.143 0.00 0.00 0.00 4.85
1794 1918 5.139727 ACAGTGTGGAAAATTTCTGATGGA 58.860 37.500 5.65 0.00 0.00 3.41
1878 2002 0.323629 TCTGCCAAAACTCCTACGGG 59.676 55.000 0.00 0.00 0.00 5.28
1913 2037 0.452784 GTGCAATCGTTCGTGGCTTC 60.453 55.000 0.00 0.00 0.00 3.86
1927 2051 2.176926 GCTTCGCTCTGCCTAAGCC 61.177 63.158 11.04 0.00 37.78 4.35
2120 2302 4.478699 CACACGATGTTTGATTGCTGATT 58.521 39.130 0.00 0.00 0.00 2.57
2192 2385 1.807814 CAACCTGTAGGATAGGCCCT 58.192 55.000 0.00 0.00 38.96 5.19
2220 2413 6.926313 TGCTTTTCTAGTTAGGAGAGTTCTC 58.074 40.000 0.39 0.39 42.14 2.87
2221 2414 6.722129 TGCTTTTCTAGTTAGGAGAGTTCTCT 59.278 38.462 8.89 1.67 42.48 3.10
2222 2415 7.889073 TGCTTTTCTAGTTAGGAGAGTTCTCTA 59.111 37.037 8.89 0.00 42.48 2.43
2223 2416 8.186163 GCTTTTCTAGTTAGGAGAGTTCTCTAC 58.814 40.741 8.89 4.02 42.48 2.59
2224 2417 9.233649 CTTTTCTAGTTAGGAGAGTTCTCTACA 57.766 37.037 13.65 0.00 42.48 2.74
2225 2418 9.584008 TTTTCTAGTTAGGAGAGTTCTCTACAA 57.416 33.333 13.65 4.43 42.48 2.41
2226 2419 9.756571 TTTCTAGTTAGGAGAGTTCTCTACAAT 57.243 33.333 13.65 0.00 42.48 2.71
2227 2420 9.756571 TTCTAGTTAGGAGAGTTCTCTACAATT 57.243 33.333 13.65 6.28 42.48 2.32
2228 2421 9.756571 TCTAGTTAGGAGAGTTCTCTACAATTT 57.243 33.333 13.65 0.00 42.48 1.82
2231 2424 8.871125 AGTTAGGAGAGTTCTCTACAATTTTCA 58.129 33.333 13.65 0.00 42.48 2.69
2232 2425 9.490379 GTTAGGAGAGTTCTCTACAATTTTCAA 57.510 33.333 13.65 0.00 42.48 2.69
2233 2426 9.712305 TTAGGAGAGTTCTCTACAATTTTCAAG 57.288 33.333 13.65 0.00 42.48 3.02
2234 2427 7.740805 AGGAGAGTTCTCTACAATTTTCAAGT 58.259 34.615 13.65 0.00 42.48 3.16
2235 2428 8.214364 AGGAGAGTTCTCTACAATTTTCAAGTT 58.786 33.333 13.65 0.00 42.48 2.66
2236 2429 9.490379 GGAGAGTTCTCTACAATTTTCAAGTTA 57.510 33.333 7.14 0.00 42.48 2.24
2238 2431 8.979574 AGAGTTCTCTACAATTTTCAAGTTACG 58.020 33.333 0.01 0.00 0.00 3.18
2239 2432 7.573627 AGTTCTCTACAATTTTCAAGTTACGC 58.426 34.615 0.00 0.00 0.00 4.42
2240 2433 7.441458 AGTTCTCTACAATTTTCAAGTTACGCT 59.559 33.333 0.00 0.00 0.00 5.07
2241 2434 8.706035 GTTCTCTACAATTTTCAAGTTACGCTA 58.294 33.333 0.00 0.00 0.00 4.26
2242 2435 8.997621 TCTCTACAATTTTCAAGTTACGCTAT 57.002 30.769 0.00 0.00 0.00 2.97
2243 2436 9.084164 TCTCTACAATTTTCAAGTTACGCTATC 57.916 33.333 0.00 0.00 0.00 2.08
2244 2437 8.766000 TCTACAATTTTCAAGTTACGCTATCA 57.234 30.769 0.00 0.00 0.00 2.15
2245 2438 8.869897 TCTACAATTTTCAAGTTACGCTATCAG 58.130 33.333 0.00 0.00 0.00 2.90
2246 2439 6.842163 ACAATTTTCAAGTTACGCTATCAGG 58.158 36.000 0.00 0.00 0.00 3.86
2247 2440 4.939509 TTTTCAAGTTACGCTATCAGGC 57.060 40.909 0.00 0.00 0.00 4.85
2248 2441 3.887621 TTCAAGTTACGCTATCAGGCT 57.112 42.857 0.00 0.00 0.00 4.58
2249 2442 3.438297 TCAAGTTACGCTATCAGGCTC 57.562 47.619 0.00 0.00 0.00 4.70
2250 2443 2.758423 TCAAGTTACGCTATCAGGCTCA 59.242 45.455 0.00 0.00 0.00 4.26
2251 2444 3.194755 TCAAGTTACGCTATCAGGCTCAA 59.805 43.478 0.00 0.00 0.00 3.02
2252 2445 3.444703 AGTTACGCTATCAGGCTCAAG 57.555 47.619 0.00 0.00 0.00 3.02
2253 2446 2.761208 AGTTACGCTATCAGGCTCAAGT 59.239 45.455 0.00 0.00 0.00 3.16
2254 2447 3.195825 AGTTACGCTATCAGGCTCAAGTT 59.804 43.478 0.00 0.00 0.00 2.66
2255 2448 2.770164 ACGCTATCAGGCTCAAGTTT 57.230 45.000 0.00 0.00 0.00 2.66
2256 2449 3.059352 ACGCTATCAGGCTCAAGTTTT 57.941 42.857 0.00 0.00 0.00 2.43
2257 2450 2.744202 ACGCTATCAGGCTCAAGTTTTG 59.256 45.455 0.00 0.00 0.00 2.44
2258 2451 2.476854 CGCTATCAGGCTCAAGTTTTGC 60.477 50.000 0.00 0.00 0.00 3.68
2259 2452 2.751806 GCTATCAGGCTCAAGTTTTGCT 59.248 45.455 0.00 0.00 0.00 3.91
2260 2453 3.941483 GCTATCAGGCTCAAGTTTTGCTA 59.059 43.478 0.00 0.00 0.00 3.49
2261 2454 4.396166 GCTATCAGGCTCAAGTTTTGCTAA 59.604 41.667 0.00 0.00 0.00 3.09
2338 2531 0.251354 TCTCTCCAGCTGGAACATGC 59.749 55.000 34.30 0.00 44.91 4.06
2347 2540 2.366590 AGCTGGAACATGCGATGATCTA 59.633 45.455 0.00 0.00 38.20 1.98
2356 2549 5.773575 ACATGCGATGATCTAGTCGTATTT 58.226 37.500 13.31 7.62 40.35 1.40
2358 2551 7.539436 ACATGCGATGATCTAGTCGTATTTAT 58.461 34.615 13.31 4.22 40.35 1.40
2385 2578 9.573133 AAGTTTGAGTTTACTGAAGTGAATTTG 57.427 29.630 0.00 0.00 0.00 2.32
2393 2586 5.733620 ACTGAAGTGAATTTGATTGCCAT 57.266 34.783 0.00 0.00 0.00 4.40
2413 2606 7.721402 TGCCATCTTGTACAAATTTACAAAGT 58.279 30.769 10.03 0.00 40.59 2.66
2443 2636 2.629617 CCTTTCCTGTTGCAAGAACCAT 59.370 45.455 0.00 0.00 0.00 3.55
2459 2652 6.349243 AGAACCATCATTGAATTTTGCTCA 57.651 33.333 0.00 0.00 0.00 4.26
2462 2655 5.484715 ACCATCATTGAATTTTGCTCAAGG 58.515 37.500 0.00 0.00 36.30 3.61
2472 2665 2.957402 TTGCTCAAGGACCTGAACAT 57.043 45.000 0.00 0.00 0.00 2.71
2473 2666 4.365514 TTTGCTCAAGGACCTGAACATA 57.634 40.909 0.00 0.00 0.00 2.29
2474 2667 4.365514 TTGCTCAAGGACCTGAACATAA 57.634 40.909 0.00 0.00 0.00 1.90
2475 2668 4.574674 TGCTCAAGGACCTGAACATAAT 57.425 40.909 0.00 0.00 0.00 1.28
2476 2669 4.264253 TGCTCAAGGACCTGAACATAATG 58.736 43.478 0.00 0.00 0.00 1.90
2477 2670 3.065925 GCTCAAGGACCTGAACATAATGC 59.934 47.826 0.00 0.00 0.00 3.56
2478 2671 3.620488 TCAAGGACCTGAACATAATGCC 58.380 45.455 0.00 0.00 0.00 4.40
2479 2672 2.332063 AGGACCTGAACATAATGCCG 57.668 50.000 0.00 0.00 0.00 5.69
2480 2673 1.134098 AGGACCTGAACATAATGCCGG 60.134 52.381 0.00 0.00 0.00 6.13
2481 2674 0.663153 GACCTGAACATAATGCCGGC 59.337 55.000 22.73 22.73 0.00 6.13
2482 2675 0.255890 ACCTGAACATAATGCCGGCT 59.744 50.000 29.70 11.31 0.00 5.52
2483 2676 1.340991 ACCTGAACATAATGCCGGCTT 60.341 47.619 29.70 19.97 0.00 4.35
2484 2677 1.750778 CCTGAACATAATGCCGGCTTT 59.249 47.619 29.70 28.80 0.00 3.51
2485 2678 2.480073 CCTGAACATAATGCCGGCTTTG 60.480 50.000 31.62 21.60 0.00 2.77
2486 2679 1.476085 TGAACATAATGCCGGCTTTGG 59.524 47.619 31.62 25.23 0.00 3.28
2495 2688 2.830370 CGGCTTTGGCAGGGATCC 60.830 66.667 1.92 1.92 40.87 3.36
2496 2689 2.685999 GGCTTTGGCAGGGATCCT 59.314 61.111 12.58 0.00 40.87 3.24
2497 2690 1.000866 GGCTTTGGCAGGGATCCTT 59.999 57.895 12.58 0.00 40.87 3.36
2498 2691 1.325476 GGCTTTGGCAGGGATCCTTG 61.325 60.000 19.29 19.29 40.87 3.61
2499 2692 0.613012 GCTTTGGCAGGGATCCTTGT 60.613 55.000 23.56 0.86 38.54 3.16
2500 2693 1.180029 CTTTGGCAGGGATCCTTGTG 58.820 55.000 23.56 13.95 0.00 3.33
2501 2694 0.482446 TTTGGCAGGGATCCTTGTGT 59.518 50.000 23.56 0.00 0.00 3.72
2502 2695 0.251297 TTGGCAGGGATCCTTGTGTG 60.251 55.000 23.56 9.40 0.00 3.82
2503 2696 1.380302 GGCAGGGATCCTTGTGTGT 59.620 57.895 23.56 0.00 0.00 3.72
2504 2697 0.618458 GGCAGGGATCCTTGTGTGTA 59.382 55.000 23.56 0.00 0.00 2.90
2505 2698 1.679032 GGCAGGGATCCTTGTGTGTAC 60.679 57.143 23.56 7.00 0.00 2.90
2506 2699 1.279271 GCAGGGATCCTTGTGTGTACT 59.721 52.381 23.56 0.66 0.00 2.73
2507 2700 2.936993 GCAGGGATCCTTGTGTGTACTG 60.937 54.545 23.56 13.76 0.00 2.74
2508 2701 2.303022 CAGGGATCCTTGTGTGTACTGT 59.697 50.000 15.62 0.00 0.00 3.55
2509 2702 2.567615 AGGGATCCTTGTGTGTACTGTC 59.432 50.000 12.58 0.00 0.00 3.51
2510 2703 2.567615 GGGATCCTTGTGTGTACTGTCT 59.432 50.000 12.58 0.00 0.00 3.41
2511 2704 3.589988 GGATCCTTGTGTGTACTGTCTG 58.410 50.000 3.84 0.00 0.00 3.51
2512 2705 3.589988 GATCCTTGTGTGTACTGTCTGG 58.410 50.000 0.00 0.00 0.00 3.86
2513 2706 1.070134 TCCTTGTGTGTACTGTCTGGC 59.930 52.381 0.00 0.00 0.00 4.85
2514 2707 1.070758 CCTTGTGTGTACTGTCTGGCT 59.929 52.381 0.00 0.00 0.00 4.75
2515 2708 2.299013 CCTTGTGTGTACTGTCTGGCTA 59.701 50.000 0.00 0.00 0.00 3.93
2516 2709 3.244078 CCTTGTGTGTACTGTCTGGCTAA 60.244 47.826 0.00 0.00 0.00 3.09
2517 2710 4.563580 CCTTGTGTGTACTGTCTGGCTAAT 60.564 45.833 0.00 0.00 0.00 1.73
2518 2711 4.617253 TGTGTGTACTGTCTGGCTAATT 57.383 40.909 0.00 0.00 0.00 1.40
2519 2712 4.968259 TGTGTGTACTGTCTGGCTAATTT 58.032 39.130 0.00 0.00 0.00 1.82
2520 2713 5.373222 TGTGTGTACTGTCTGGCTAATTTT 58.627 37.500 0.00 0.00 0.00 1.82
2521 2714 5.825679 TGTGTGTACTGTCTGGCTAATTTTT 59.174 36.000 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 4.451150 AAATCGGCGGCGCTCTCA 62.451 61.111 32.30 9.69 0.00 3.27
427 437 5.732647 CGCCACAATAAGTTCTTGTAAATCG 59.267 40.000 6.34 4.84 35.15 3.34
430 440 5.992829 TCTCGCCACAATAAGTTCTTGTAAA 59.007 36.000 6.34 0.00 35.15 2.01
446 456 1.657751 GGCAGGGAAATTCTCGCCAC 61.658 60.000 18.83 0.00 39.38 5.01
635 650 3.003480 GGACATGTGTAAGCTCTCCAAC 58.997 50.000 1.15 0.00 0.00 3.77
660 675 2.551270 GCAACGAGCACCACGAAG 59.449 61.111 0.00 0.00 44.79 3.79
679 694 4.063967 TCGGCGAGCGAACATGGT 62.064 61.111 4.99 0.00 0.00 3.55
818 845 3.057876 CCAGTTTAGGCGCACAAATTACA 60.058 43.478 10.83 0.00 0.00 2.41
843 870 1.134037 ACGACAGGTAACAAAGCCCAA 60.134 47.619 0.00 0.00 41.41 4.12
845 872 1.154197 GACGACAGGTAACAAAGCCC 58.846 55.000 0.00 0.00 41.41 5.19
846 873 2.067013 GAGACGACAGGTAACAAAGCC 58.933 52.381 0.00 0.00 41.41 4.35
847 874 2.067013 GGAGACGACAGGTAACAAAGC 58.933 52.381 0.00 0.00 41.41 3.51
878 913 0.683973 CTGCTGCTATACCTGGGAGG 59.316 60.000 0.00 0.00 42.49 4.30
890 925 2.046864 CAAGGATGCTGCTGCTGCT 61.047 57.895 27.67 15.76 40.48 4.24
891 926 2.490217 CAAGGATGCTGCTGCTGC 59.510 61.111 22.51 22.51 40.48 5.25
1008 1100 4.156739 CACCTAAGAGCCAAAATCTTCACC 59.843 45.833 0.00 0.00 38.05 4.02
1152 1247 7.767198 TCTGTACTAAAGCTGTTACAAACAAGT 59.233 33.333 0.00 0.00 41.61 3.16
1172 1277 2.991434 TCTGTCAAGCGTCTCTGTAC 57.009 50.000 0.00 0.00 0.00 2.90
1256 1364 6.347725 GCATTCAATTGGATATAGTCGGTCAC 60.348 42.308 5.42 0.00 0.00 3.67
1291 1402 5.913137 TCAAACACCACTGTTTTGAGATT 57.087 34.783 2.19 0.00 46.55 2.40
1404 1515 3.053831 ACACTGTTGTAGGCACCATAC 57.946 47.619 0.00 0.00 32.60 2.39
1504 1615 6.015095 TGGAGATGCTTCACAGTATATCGATT 60.015 38.462 1.71 0.00 34.96 3.34
1509 1620 6.261826 GCTTTTGGAGATGCTTCACAGTATAT 59.738 38.462 2.07 0.00 0.00 0.86
1643 1759 7.283807 TGGAACATGATGTGATCTTAAGGAATG 59.716 37.037 0.00 0.00 30.89 2.67
1794 1918 3.508793 CAGTGATGTTTTTGCATCCCTCT 59.491 43.478 0.00 0.00 43.28 3.69
1913 2037 2.887568 CACGGCTTAGGCAGAGCG 60.888 66.667 6.60 0.00 41.03 5.03
1984 2109 4.387862 GCAATCAAACATCTCCTGCTTTTG 59.612 41.667 0.00 0.00 0.00 2.44
2022 2148 6.698329 GCAAATGATATATGCACACACACAAT 59.302 34.615 0.00 0.00 39.81 2.71
2023 2149 6.035217 GCAAATGATATATGCACACACACAA 58.965 36.000 0.00 0.00 39.81 3.33
2085 2267 9.157104 TCAAACATCGTGTGCTTCTTTATATAA 57.843 29.630 0.00 0.00 0.00 0.98
2092 2274 4.539870 CAATCAAACATCGTGTGCTTCTT 58.460 39.130 0.00 0.00 0.00 2.52
2102 2284 4.919168 ACACAAATCAGCAATCAAACATCG 59.081 37.500 0.00 0.00 0.00 3.84
2120 2302 1.265365 CACACACACACACACACACAA 59.735 47.619 0.00 0.00 0.00 3.33
2192 2385 9.654663 GAACTCTCCTAACTAGAAAAGCATAAA 57.345 33.333 0.00 0.00 0.00 1.40
2220 2413 8.116753 CCTGATAGCGTAACTTGAAAATTGTAG 58.883 37.037 0.00 0.00 0.00 2.74
2221 2414 7.413657 GCCTGATAGCGTAACTTGAAAATTGTA 60.414 37.037 0.00 0.00 0.00 2.41
2222 2415 6.622896 GCCTGATAGCGTAACTTGAAAATTGT 60.623 38.462 0.00 0.00 0.00 2.71
2223 2416 5.739161 GCCTGATAGCGTAACTTGAAAATTG 59.261 40.000 0.00 0.00 0.00 2.32
2224 2417 5.648092 AGCCTGATAGCGTAACTTGAAAATT 59.352 36.000 0.00 0.00 38.01 1.82
2225 2418 5.186198 AGCCTGATAGCGTAACTTGAAAAT 58.814 37.500 0.00 0.00 38.01 1.82
2226 2419 4.575885 AGCCTGATAGCGTAACTTGAAAA 58.424 39.130 0.00 0.00 38.01 2.29
2227 2420 4.181578 GAGCCTGATAGCGTAACTTGAAA 58.818 43.478 0.00 0.00 38.01 2.69
2228 2421 3.194755 TGAGCCTGATAGCGTAACTTGAA 59.805 43.478 0.00 0.00 38.01 2.69
2229 2422 2.758423 TGAGCCTGATAGCGTAACTTGA 59.242 45.455 0.00 0.00 38.01 3.02
2230 2423 3.165058 TGAGCCTGATAGCGTAACTTG 57.835 47.619 0.00 0.00 38.01 3.16
2231 2424 3.195825 ACTTGAGCCTGATAGCGTAACTT 59.804 43.478 0.00 0.00 38.01 2.66
2232 2425 2.761208 ACTTGAGCCTGATAGCGTAACT 59.239 45.455 0.00 0.00 38.01 2.24
2233 2426 3.166489 ACTTGAGCCTGATAGCGTAAC 57.834 47.619 0.00 0.00 38.01 2.50
2234 2427 3.887621 AACTTGAGCCTGATAGCGTAA 57.112 42.857 0.00 0.00 38.01 3.18
2235 2428 3.887621 AAACTTGAGCCTGATAGCGTA 57.112 42.857 0.00 0.00 38.01 4.42
2236 2429 2.744202 CAAAACTTGAGCCTGATAGCGT 59.256 45.455 0.00 0.00 38.01 5.07
2237 2430 2.476854 GCAAAACTTGAGCCTGATAGCG 60.477 50.000 0.00 0.00 38.01 4.26
2238 2431 2.751806 AGCAAAACTTGAGCCTGATAGC 59.248 45.455 0.00 0.00 0.00 2.97
2239 2432 6.317140 TCATTAGCAAAACTTGAGCCTGATAG 59.683 38.462 0.00 0.00 0.00 2.08
2240 2433 6.179756 TCATTAGCAAAACTTGAGCCTGATA 58.820 36.000 0.00 0.00 0.00 2.15
2241 2434 5.012239 TCATTAGCAAAACTTGAGCCTGAT 58.988 37.500 0.00 0.00 0.00 2.90
2242 2435 4.397420 TCATTAGCAAAACTTGAGCCTGA 58.603 39.130 0.00 0.00 0.00 3.86
2243 2436 4.771590 TCATTAGCAAAACTTGAGCCTG 57.228 40.909 0.00 0.00 0.00 4.85
2244 2437 4.400567 GGATCATTAGCAAAACTTGAGCCT 59.599 41.667 0.00 0.00 38.26 4.58
2245 2438 4.400567 AGGATCATTAGCAAAACTTGAGCC 59.599 41.667 0.00 0.00 40.54 4.70
2246 2439 5.124457 TGAGGATCATTAGCAAAACTTGAGC 59.876 40.000 0.00 0.00 42.56 4.26
2247 2440 6.748333 TGAGGATCATTAGCAAAACTTGAG 57.252 37.500 0.00 0.00 42.56 3.02
2294 2487 4.773013 TGATGACTATTGCAGCATTCAGA 58.227 39.130 0.00 0.00 0.00 3.27
2365 2558 7.327032 GGCAATCAAATTCACTTCAGTAAACTC 59.673 37.037 0.00 0.00 0.00 3.01
2384 2577 7.890515 TGTAAATTTGTACAAGATGGCAATCA 58.109 30.769 8.56 0.00 35.03 2.57
2385 2578 8.755696 TTGTAAATTTGTACAAGATGGCAATC 57.244 30.769 8.56 0.00 38.70 2.67
2413 2606 6.551601 TCTTGCAACAGGAAAGGGTAAAATTA 59.448 34.615 0.00 0.00 0.00 1.40
2443 2636 4.834496 AGGTCCTTGAGCAAAATTCAATGA 59.166 37.500 0.00 0.00 34.33 2.57
2459 2652 2.643551 CGGCATTATGTTCAGGTCCTT 58.356 47.619 0.00 0.00 0.00 3.36
2462 2655 0.663153 GCCGGCATTATGTTCAGGTC 59.337 55.000 24.80 0.00 0.00 3.85
2477 2670 2.830370 GATCCCTGCCAAAGCCGG 60.830 66.667 0.00 0.00 42.72 6.13
2478 2671 2.830370 GGATCCCTGCCAAAGCCG 60.830 66.667 0.00 0.00 38.69 5.52
2479 2672 1.000866 AAGGATCCCTGCCAAAGCC 59.999 57.895 8.55 0.00 38.69 4.35
2480 2673 0.613012 ACAAGGATCCCTGCCAAAGC 60.613 55.000 10.46 0.00 40.48 3.51
2481 2674 1.180029 CACAAGGATCCCTGCCAAAG 58.820 55.000 10.46 0.00 32.13 2.77
2482 2675 0.482446 ACACAAGGATCCCTGCCAAA 59.518 50.000 10.46 0.00 32.13 3.28
2483 2676 0.251297 CACACAAGGATCCCTGCCAA 60.251 55.000 10.46 0.00 32.13 4.52
2484 2677 1.379916 CACACAAGGATCCCTGCCA 59.620 57.895 10.46 0.00 32.13 4.92
2485 2678 0.618458 TACACACAAGGATCCCTGCC 59.382 55.000 10.46 0.00 32.13 4.85
2486 2679 1.279271 AGTACACACAAGGATCCCTGC 59.721 52.381 10.46 0.00 32.13 4.85
2487 2680 2.303022 ACAGTACACACAAGGATCCCTG 59.697 50.000 8.55 8.76 32.13 4.45
2488 2681 2.567615 GACAGTACACACAAGGATCCCT 59.432 50.000 8.55 0.00 33.87 4.20
2489 2682 2.567615 AGACAGTACACACAAGGATCCC 59.432 50.000 8.55 0.00 0.00 3.85
2490 2683 3.589988 CAGACAGTACACACAAGGATCC 58.410 50.000 2.48 2.48 0.00 3.36
2491 2684 3.589988 CCAGACAGTACACACAAGGATC 58.410 50.000 0.00 0.00 0.00 3.36
2492 2685 2.289694 GCCAGACAGTACACACAAGGAT 60.290 50.000 0.00 0.00 0.00 3.24
2493 2686 1.070134 GCCAGACAGTACACACAAGGA 59.930 52.381 0.00 0.00 0.00 3.36
2494 2687 1.070758 AGCCAGACAGTACACACAAGG 59.929 52.381 0.00 0.00 0.00 3.61
2495 2688 2.533266 AGCCAGACAGTACACACAAG 57.467 50.000 0.00 0.00 0.00 3.16
2496 2689 4.617253 ATTAGCCAGACAGTACACACAA 57.383 40.909 0.00 0.00 0.00 3.33
2497 2690 4.617253 AATTAGCCAGACAGTACACACA 57.383 40.909 0.00 0.00 0.00 3.72
2498 2691 5.941948 AAAATTAGCCAGACAGTACACAC 57.058 39.130 0.00 0.00 0.00 3.82


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

AutoCloner maintained by Alex Coulton.