Multiple sequence alignment - TraesCS3B01G456100

Loading Multiple Alignment...

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 TraesCS3B01G456100 chr3B 100.000 3129 0 0 1 3129 697576281 697579409 0.000000e+00 5779.0
1 TraesCS3B01G456100 chr3B 86.217 1792 115 56 814 2528 808013071 808014807 0.000000e+00 1820.0
2 TraesCS3B01G456100 chr3B 95.103 388 17 1 2734 3121 808015196 808015581 7.420000e-171 610.0
3 TraesCS3B01G456100 chr3B 92.488 213 14 1 2525 2737 808014860 808015070 1.410000e-78 303.0
4 TraesCS3B01G456100 chr6B 93.835 811 38 3 4 807 57331517 57332322 0.000000e+00 1210.0
5 TraesCS3B01G456100 chr2D 92.734 812 51 3 4 807 634150936 634151747 0.000000e+00 1166.0
6 TraesCS3B01G456100 chr2D 96.392 194 7 0 1160 1353 186646727 186646920 1.400000e-83 320.0
7 TraesCS3B01G456100 chr5A 91.646 814 60 3 5 811 9602944 9603756 0.000000e+00 1120.0
8 TraesCS3B01G456100 chr7A 91.822 807 59 2 5 804 719324302 719325108 0.000000e+00 1118.0
9 TraesCS3B01G456100 chr3A 91.523 814 61 3 5 811 700932059 700932871 0.000000e+00 1114.0
10 TraesCS3B01G456100 chr3A 88.863 862 58 24 1640 2486 730068972 730069810 0.000000e+00 1026.0
11 TraesCS3B01G456100 chr3A 84.515 691 59 29 867 1530 730068052 730068721 9.460000e-180 640.0
12 TraesCS3B01G456100 chr3A 95.153 392 14 3 2734 3122 730070304 730070693 5.740000e-172 614.0
13 TraesCS3B01G456100 chr3A 91.176 170 13 1 2521 2690 730070002 730070169 2.430000e-56 230.0
14 TraesCS3B01G456100 chr1A 92.174 575 35 4 246 812 57760498 57759926 0.000000e+00 804.0
15 TraesCS3B01G456100 chr3D 85.201 723 71 27 1768 2484 600641022 600641714 0.000000e+00 710.0
16 TraesCS3B01G456100 chr3D 81.111 900 62 56 896 1724 600640085 600640947 3.430000e-174 621.0
17 TraesCS3B01G456100 chr4A 91.617 501 35 2 314 807 10231459 10230959 0.000000e+00 686.0
18 TraesCS3B01G456100 chrUn 91.408 419 27 4 413 823 334421968 334421551 1.630000e-157 566.0
19 TraesCS3B01G456100 chrUn 94.007 267 16 0 145 411 463745023 463744757 3.760000e-109 405.0
20 TraesCS3B01G456100 chr2B 96.392 194 7 0 1160 1353 239846443 239846636 1.400000e-83 320.0
21 TraesCS3B01G456100 chr2A 95.939 197 7 1 1160 1356 199086918 199087113 5.040000e-83 318.0
22 TraesCS3B01G456100 chr6D 84.244 311 32 8 1232 1533 202662355 202662657 1.420000e-73 287.0
23 TraesCS3B01G456100 chr6D 94.444 72 2 2 1286 1355 297179790 297179719 3.300000e-20 110.0
24 TraesCS3B01G456100 chr5D 92.424 66 3 2 1286 1349 140961549 140961484 3.320000e-15 93.5


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 TraesCS3B01G456100 chr3B 697576281 697579409 3128 False 5779.0 5779 100.000000 1 3129 1 chr3B.!!$F1 3128
1 TraesCS3B01G456100 chr3B 808013071 808015581 2510 False 911.0 1820 91.269333 814 3121 3 chr3B.!!$F2 2307
2 TraesCS3B01G456100 chr6B 57331517 57332322 805 False 1210.0 1210 93.835000 4 807 1 chr6B.!!$F1 803
3 TraesCS3B01G456100 chr2D 634150936 634151747 811 False 1166.0 1166 92.734000 4 807 1 chr2D.!!$F2 803
4 TraesCS3B01G456100 chr5A 9602944 9603756 812 False 1120.0 1120 91.646000 5 811 1 chr5A.!!$F1 806
5 TraesCS3B01G456100 chr7A 719324302 719325108 806 False 1118.0 1118 91.822000 5 804 1 chr7A.!!$F1 799
6 TraesCS3B01G456100 chr3A 700932059 700932871 812 False 1114.0 1114 91.523000 5 811 1 chr3A.!!$F1 806
7 TraesCS3B01G456100 chr3A 730068052 730070693 2641 False 627.5 1026 89.926750 867 3122 4 chr3A.!!$F2 2255
8 TraesCS3B01G456100 chr1A 57759926 57760498 572 True 804.0 804 92.174000 246 812 1 chr1A.!!$R1 566
9 TraesCS3B01G456100 chr3D 600640085 600641714 1629 False 665.5 710 83.156000 896 2484 2 chr3D.!!$F1 1588
10 TraesCS3B01G456100 chr4A 10230959 10231459 500 True 686.0 686 91.617000 314 807 1 chr4A.!!$R1 493

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
549 551 0.388649 CTGCACTACCGTGGTGTCTC 60.389 60.0 15.57 1.26 41.51 3.36 F
1574 1747 0.394192 CACTCTCTCAACAGTGGCCA 59.606 55.0 0.00 0.00 37.04 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2058 2311 0.446222 CGCAGGTCCCAAACATTACG 59.554 55.0 0.0 0.0 0.0 3.18 R
2636 3066 0.749454 GGTTGGCAGATTCCAGCGAT 60.749 55.0 0.0 0.0 38.1 4.58 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
40 41 2.902457 GCCTTTTCCCCCGACTGGA 61.902 63.158 0.00 0.00 37.49 3.86
255 256 6.449698 AGGTAAACAGAAATTGCATGAAGTG 58.550 36.000 0.00 0.00 0.00 3.16
330 331 9.231297 CCTCCTGAGAAGTACATTAAAATCAAA 57.769 33.333 0.00 0.00 0.00 2.69
350 351 3.610040 AGTTGATGCGTCCTTCATACA 57.390 42.857 2.83 0.00 0.00 2.29
359 360 2.233922 CGTCCTTCATACACTCCTTGGT 59.766 50.000 0.00 0.00 0.00 3.67
373 374 4.202461 ACTCCTTGGTTTTATCTGCTGTGA 60.202 41.667 0.00 0.00 0.00 3.58
416 417 2.105134 TGGGTGTTGTGTTATTCTCGGT 59.895 45.455 0.00 0.00 0.00 4.69
461 462 1.139853 GGATGCGGAGGAATCTGAAGT 59.860 52.381 0.00 0.00 0.00 3.01
469 470 1.073923 AGGAATCTGAAGTTTGGGCGT 59.926 47.619 0.00 0.00 0.00 5.68
537 539 2.234661 CTGGTGGAATCTGACTGCACTA 59.765 50.000 10.44 3.77 35.63 2.74
549 551 0.388649 CTGCACTACCGTGGTGTCTC 60.389 60.000 15.57 1.26 41.51 3.36
639 641 6.156748 TGACAGCTTTTGAGTCTTGTACTA 57.843 37.500 3.17 0.00 39.07 1.82
710 718 4.759183 GCTAGAATCCATGGTGATTTCCTC 59.241 45.833 12.58 0.00 35.15 3.71
718 726 5.488919 TCCATGGTGATTTCCTCTTCTTAGT 59.511 40.000 12.58 0.00 0.00 2.24
868 876 0.956633 AGAACCACACTGCTGCATTG 59.043 50.000 17.14 17.14 0.00 2.82
875 883 4.409218 CTGCTGCATTGCCGCGTT 62.409 61.111 18.28 0.00 41.50 4.84
876 884 4.403137 TGCTGCATTGCCGCGTTC 62.403 61.111 18.28 0.00 41.50 3.95
877 885 4.107051 GCTGCATTGCCGCGTTCT 62.107 61.111 9.32 0.00 33.35 3.01
878 886 2.099062 CTGCATTGCCGCGTTCTC 59.901 61.111 4.92 0.00 33.35 2.87
879 887 3.386867 CTGCATTGCCGCGTTCTCC 62.387 63.158 4.92 0.00 33.35 3.71
880 888 3.127533 GCATTGCCGCGTTCTCCT 61.128 61.111 4.92 0.00 0.00 3.69
881 889 3.093278 CATTGCCGCGTTCTCCTC 58.907 61.111 4.92 0.00 0.00 3.71
882 890 2.509336 ATTGCCGCGTTCTCCTCG 60.509 61.111 4.92 0.00 0.00 4.63
892 900 1.149148 GTTCTCCTCGTTGCCACTTC 58.851 55.000 0.00 0.00 0.00 3.01
916 924 1.442148 GGCGTGGGTCTGGTCTATC 59.558 63.158 0.00 0.00 0.00 2.08
954 962 1.687368 GGCCCGAGGTTTCTCTAGGTA 60.687 57.143 0.00 0.00 37.86 3.08
955 963 2.317973 GCCCGAGGTTTCTCTAGGTAT 58.682 52.381 0.00 0.00 37.86 2.73
956 964 3.494332 GCCCGAGGTTTCTCTAGGTATA 58.506 50.000 0.00 0.00 37.86 1.47
970 978 7.759465 TCTCTAGGTATAATAAATTCGCTCGG 58.241 38.462 0.00 0.00 0.00 4.63
1369 1412 1.002011 GCTCCACCCTCTTTGTCCC 60.002 63.158 0.00 0.00 0.00 4.46
1376 1419 1.275421 CCCTCTTTGTCCCTCCCTCC 61.275 65.000 0.00 0.00 0.00 4.30
1378 1421 1.612442 TCTTTGTCCCTCCCTCCGG 60.612 63.158 0.00 0.00 0.00 5.14
1407 1450 7.665145 TGTTCCATGATTAAGTGTTCTGATGAA 59.335 33.333 0.00 0.00 0.00 2.57
1410 1453 8.048514 TCCATGATTAAGTGTTCTGATGAATCA 58.951 33.333 0.00 0.00 36.55 2.57
1419 1469 4.032786 TGTTCTGATGAATCATTACGCACG 59.967 41.667 0.00 0.00 36.02 5.34
1420 1470 4.040445 TCTGATGAATCATTACGCACGA 57.960 40.909 0.00 0.00 36.02 4.35
1446 1496 6.946229 AAACACATACGAGCAGTAAGTAAG 57.054 37.500 0.00 0.00 35.33 2.34
1448 1498 6.748333 ACACATACGAGCAGTAAGTAAGTA 57.252 37.500 0.00 0.00 35.33 2.24
1456 1506 5.692204 CGAGCAGTAAGTAAGTATGGAATGG 59.308 44.000 0.00 0.00 0.00 3.16
1484 1546 6.946165 TCATTGTGATGCAAACAATTGTTTC 58.054 32.000 29.21 23.05 43.94 2.78
1486 1548 5.970140 TGTGATGCAAACAATTGTTTCTG 57.030 34.783 29.21 22.05 45.54 3.02
1493 1555 4.491591 GCAAACAATTGTTTCTGTTTTGCG 59.508 37.500 29.21 17.42 45.54 4.85
1507 1569 1.982660 TTTGCGACAAACCCATACCA 58.017 45.000 1.63 0.00 0.00 3.25
1512 1574 3.322254 TGCGACAAACCCATACCAAATTT 59.678 39.130 0.00 0.00 0.00 1.82
1520 1582 6.865834 AACCCATACCAAATTTTATCAGCA 57.134 33.333 0.00 0.00 0.00 4.41
1547 1720 3.428452 GCATGTTGCACATATCACTGCTT 60.428 43.478 0.00 0.00 44.26 3.91
1565 1738 1.471829 TTCGCTGGCCACTCTCTCAA 61.472 55.000 0.00 0.00 0.00 3.02
1574 1747 0.394192 CACTCTCTCAACAGTGGCCA 59.606 55.000 0.00 0.00 37.04 5.36
1607 1805 5.476614 CAGTTACCTGTTCCTTGGTACTAC 58.523 45.833 0.00 0.00 38.40 2.73
1638 1836 4.242475 CGCAGATCAGTTAACACTTGGTA 58.758 43.478 8.61 0.00 0.00 3.25
1669 1885 3.781079 TCTAATTTGCATTTCCAGCGG 57.219 42.857 0.00 0.00 33.85 5.52
1677 1893 1.733389 GCATTTCCAGCGGTGATGTTG 60.733 52.381 17.83 9.43 0.00 3.33
1698 1914 2.853594 GTGACCGCATAATGCAAACATG 59.146 45.455 0.00 0.00 45.36 3.21
1727 1944 9.376075 CTCGTTAATCTCATAATATCTGCCATT 57.624 33.333 0.00 0.00 0.00 3.16
1741 1973 9.590451 AATATCTGCCATTTATTCAGTTTTGTG 57.410 29.630 0.00 0.00 0.00 3.33
1748 1983 6.645827 CCATTTATTCAGTTTTGTGCATGACA 59.354 34.615 0.00 0.00 0.00 3.58
1749 1984 7.332430 CCATTTATTCAGTTTTGTGCATGACAT 59.668 33.333 0.00 0.00 33.40 3.06
1750 1985 7.640616 TTTATTCAGTTTTGTGCATGACATG 57.359 32.000 11.27 11.27 33.40 3.21
1786 2034 6.294397 CGTGTTTAGTAGGTCCTCAGTTTACT 60.294 42.308 0.00 0.00 0.00 2.24
1789 2037 6.830873 TTAGTAGGTCCTCAGTTTACTCAC 57.169 41.667 0.00 0.00 0.00 3.51
1794 2042 4.221703 AGGTCCTCAGTTTACTCACTCATG 59.778 45.833 0.00 0.00 0.00 3.07
1796 2044 5.511545 GGTCCTCAGTTTACTCACTCATGTT 60.512 44.000 0.00 0.00 0.00 2.71
1799 2047 7.012421 GTCCTCAGTTTACTCACTCATGTTTTT 59.988 37.037 0.00 0.00 0.00 1.94
1845 2093 1.394917 GTATCTCTTGTGCCGTGCTTG 59.605 52.381 0.00 0.00 0.00 4.01
1884 2136 0.974010 AATCCCACAGCCAGCCATTG 60.974 55.000 0.00 0.00 0.00 2.82
1890 2143 0.675633 ACAGCCAGCCATTGTTGTTC 59.324 50.000 0.00 0.00 0.00 3.18
1892 2145 1.274167 CAGCCAGCCATTGTTGTTCAT 59.726 47.619 0.00 0.00 0.00 2.57
1897 2150 4.487948 CCAGCCATTGTTGTTCATACTTG 58.512 43.478 0.00 0.00 0.00 3.16
1902 2155 6.015519 AGCCATTGTTGTTCATACTTGCTAAA 60.016 34.615 0.00 0.00 0.00 1.85
2012 2265 2.010145 TGGATTTAGCAGCGTCTGTC 57.990 50.000 8.32 2.31 33.43 3.51
2013 2266 1.550524 TGGATTTAGCAGCGTCTGTCT 59.449 47.619 8.32 8.20 33.43 3.41
2014 2267 1.929836 GGATTTAGCAGCGTCTGTCTG 59.070 52.381 8.32 0.00 33.43 3.51
2015 2268 2.611518 GATTTAGCAGCGTCTGTCTGT 58.388 47.619 8.32 0.18 33.43 3.41
2058 2311 7.324178 ACCATGAGTATGTTCTAGACTGAAAC 58.676 38.462 0.00 0.00 29.22 2.78
2076 2329 1.530323 ACGTAATGTTTGGGACCTGC 58.470 50.000 0.00 0.00 0.00 4.85
2276 2539 2.158971 CCAGTTGTTTTTCTGGGTTGGG 60.159 50.000 3.58 0.00 45.11 4.12
2356 2622 7.491372 GCAGATTTAAGCCACGCTATATATGTA 59.509 37.037 0.00 0.00 38.25 2.29
2374 2640 5.852282 ATGTAAGTTATGGTCCCAAATGC 57.148 39.130 0.00 0.00 0.00 3.56
2375 2641 4.667573 TGTAAGTTATGGTCCCAAATGCA 58.332 39.130 0.00 0.00 0.00 3.96
2376 2642 4.704540 TGTAAGTTATGGTCCCAAATGCAG 59.295 41.667 0.00 0.00 0.00 4.41
2446 2719 8.737175 GCTTGACATGTCCATATGAATGATATT 58.263 33.333 22.85 0.00 34.84 1.28
2579 3009 7.838079 TTCAGGTACACCTAGTTAACACTTA 57.162 36.000 8.61 0.00 46.65 2.24
2614 3044 5.945784 ACAACTACACAAATCTGCCATGTAT 59.054 36.000 0.00 0.00 0.00 2.29
2615 3045 7.109501 ACAACTACACAAATCTGCCATGTATA 58.890 34.615 0.00 0.00 0.00 1.47
2633 3063 9.973450 CCATGTATAGTTATACTATGATGCTCC 57.027 37.037 9.10 0.00 41.23 4.70
2636 3066 8.119891 TGTATAGTTATACTATGATGCTCCCCA 58.880 37.037 9.10 0.00 41.23 4.96
2653 3083 0.749091 CCATCGCTGGAATCTGCCAA 60.749 55.000 0.00 0.00 46.37 4.52
2661 3091 3.012518 CTGGAATCTGCCAACCTAGTTG 58.987 50.000 0.40 0.40 42.49 3.16
2692 3122 5.989477 ACGATTTGAATCTTATGTGAGGGA 58.011 37.500 0.00 0.00 33.24 4.20
2693 3123 6.414732 ACGATTTGAATCTTATGTGAGGGAA 58.585 36.000 0.00 0.00 33.24 3.97
2718 3148 2.093235 ACAATGCTCTCCTGAAGCTACC 60.093 50.000 0.00 0.00 0.00 3.18
2868 3427 7.982252 TCCTTCTTAATTGATAGATGAGGCAT 58.018 34.615 0.00 0.00 0.00 4.40
2905 3464 2.549926 CCTCATGCGCTACATTACACA 58.450 47.619 9.73 0.00 36.64 3.72
2924 3483 0.253894 ATCAGTATGCTGCACCTGCA 59.746 50.000 20.46 1.19 42.76 4.41
2939 3499 2.149578 CCTGCATATGGCTGCTTAGTC 58.850 52.381 4.56 0.00 45.15 2.59
2975 3535 1.569479 GCTTGTGTTCGCCAGAGTCC 61.569 60.000 0.00 0.00 0.00 3.85
3095 3657 3.041940 GTTCACGCACTCACGGGG 61.042 66.667 0.00 0.00 36.98 5.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 9.915629 TGAACACAAACTTAAGTTTTGTAACAT 57.084 25.926 28.84 20.93 45.07 2.71
99 100 5.103687 TCCCTTATATGCCAAGATCTCCAT 58.896 41.667 0.00 2.30 0.00 3.41
255 256 1.153469 GCTAGGAGCTGGCACTGAC 60.153 63.158 0.00 0.00 37.89 3.51
330 331 3.055819 AGTGTATGAAGGACGCATCAACT 60.056 43.478 0.00 0.00 0.00 3.16
350 351 4.074970 CACAGCAGATAAAACCAAGGAGT 58.925 43.478 0.00 0.00 0.00 3.85
359 360 3.138884 TGGCACTCACAGCAGATAAAA 57.861 42.857 0.00 0.00 0.00 1.52
373 374 2.260822 ACTGTCTCTACCAATGGCACT 58.739 47.619 0.00 0.00 0.00 4.40
416 417 2.154567 ACCCTGAATACGACAGCCTA 57.845 50.000 0.00 0.00 34.47 3.93
461 462 0.395862 TCCAAAGGACAACGCCCAAA 60.396 50.000 0.00 0.00 0.00 3.28
537 539 1.183549 GATACTGGAGACACCACGGT 58.816 55.000 0.00 0.00 44.64 4.83
577 579 0.625316 ATAGCTTGCCCACCACATGA 59.375 50.000 0.00 0.00 0.00 3.07
580 582 0.035152 CTCATAGCTTGCCCACCACA 60.035 55.000 0.00 0.00 0.00 4.17
619 621 6.091441 GGTCATAGTACAAGACTCAAAAGCTG 59.909 42.308 10.75 0.00 39.81 4.24
622 624 7.962964 TTGGTCATAGTACAAGACTCAAAAG 57.037 36.000 10.75 0.00 39.81 2.27
639 641 3.638160 ACATTGCACTCAGTTTTGGTCAT 59.362 39.130 0.00 0.00 0.00 3.06
710 718 5.877012 ACTATGTGGCACATCAACTAAGAAG 59.123 40.000 34.48 23.89 44.52 2.85
832 840 5.061684 GTGGTTCTTTCGGTTTTCTGTTTTG 59.938 40.000 0.00 0.00 0.00 2.44
833 841 5.165676 GTGGTTCTTTCGGTTTTCTGTTTT 58.834 37.500 0.00 0.00 0.00 2.43
873 881 1.149148 GAAGTGGCAACGAGGAGAAC 58.851 55.000 0.00 0.00 42.51 3.01
874 882 0.319555 CGAAGTGGCAACGAGGAGAA 60.320 55.000 0.00 0.00 42.51 2.87
875 883 1.289066 CGAAGTGGCAACGAGGAGA 59.711 57.895 0.00 0.00 42.51 3.71
876 884 1.738099 CCGAAGTGGCAACGAGGAG 60.738 63.158 10.61 0.00 42.51 3.69
877 885 2.342279 CCGAAGTGGCAACGAGGA 59.658 61.111 10.61 0.00 42.51 3.71
911 919 0.190069 AGGCCGTGGTATGGGATAGA 59.810 55.000 0.00 0.00 0.00 1.98
913 921 1.125093 CCAGGCCGTGGTATGGGATA 61.125 60.000 11.85 0.00 42.17 2.59
932 940 0.175989 CTAGAGAAACCTCGGGCCAC 59.824 60.000 4.39 0.00 35.86 5.01
954 962 2.484264 GCCTGCCGAGCGAATTTATTAT 59.516 45.455 0.00 0.00 0.00 1.28
955 963 1.871039 GCCTGCCGAGCGAATTTATTA 59.129 47.619 0.00 0.00 0.00 0.98
956 964 0.663153 GCCTGCCGAGCGAATTTATT 59.337 50.000 0.00 0.00 0.00 1.40
1020 1028 2.595095 CAAATCCTAGGGGCGGCA 59.405 61.111 12.47 0.00 0.00 5.69
1053 1077 0.034756 CAACTCACCATGGTGGACGA 59.965 55.000 38.12 21.85 45.43 4.20
1407 1450 3.248841 TGTGTTTTGTCGTGCGTAATGAT 59.751 39.130 0.00 0.00 0.00 2.45
1410 1453 3.889196 ATGTGTTTTGTCGTGCGTAAT 57.111 38.095 0.00 0.00 0.00 1.89
1419 1469 5.176958 ACTTACTGCTCGTATGTGTTTTGTC 59.823 40.000 5.08 0.00 35.76 3.18
1420 1470 5.054477 ACTTACTGCTCGTATGTGTTTTGT 58.946 37.500 5.08 0.00 35.76 2.83
1446 1496 7.086376 GCATCACAATGATTACCATTCCATAC 58.914 38.462 0.00 0.00 43.27 2.39
1448 1498 5.599242 TGCATCACAATGATTACCATTCCAT 59.401 36.000 0.00 0.00 43.27 3.41
1456 1506 8.020861 ACAATTGTTTGCATCACAATGATTAC 57.979 30.769 20.09 0.00 42.80 1.89
1484 1546 2.507339 ATGGGTTTGTCGCAAAACAG 57.493 45.000 17.83 0.00 41.00 3.16
1486 1548 2.034812 TGGTATGGGTTTGTCGCAAAAC 59.965 45.455 10.63 10.63 42.08 2.43
1493 1555 7.277760 GCTGATAAAATTTGGTATGGGTTTGTC 59.722 37.037 0.00 0.00 0.00 3.18
1507 1569 7.360607 GCAACATGCTTCTTGCTGATAAAATTT 60.361 33.333 10.59 0.00 40.96 1.82
1512 1574 3.506844 TGCAACATGCTTCTTGCTGATAA 59.493 39.130 16.78 0.00 45.31 1.75
1547 1720 1.908299 TTGAGAGAGTGGCCAGCGA 60.908 57.895 5.11 0.00 0.00 4.93
1565 1738 3.905454 TGGTGAGATGGCCACTGT 58.095 55.556 8.16 0.00 35.05 3.55
1607 1805 3.428746 AACTGATCTGCGCAGTACTAG 57.571 47.619 34.70 27.30 45.27 2.57
1617 1815 4.392138 GGTACCAAGTGTTAACTGATCTGC 59.608 45.833 7.15 0.00 36.51 4.26
1638 1836 7.226523 GGAAATGCAAATTAGAACAAACAAGGT 59.773 33.333 0.00 0.00 0.00 3.50
1669 1885 3.683989 CATTATGCGGTCACAACATCAC 58.316 45.455 0.00 0.00 0.00 3.06
1698 1914 6.256757 GCAGATATTATGAGATTAACGAGGCC 59.743 42.308 0.00 0.00 0.00 5.19
1748 1983 6.761714 CCTACTAAACACGATTTAAGAGGCAT 59.238 38.462 0.00 0.00 0.00 4.40
1749 1984 6.103997 CCTACTAAACACGATTTAAGAGGCA 58.896 40.000 0.00 0.00 0.00 4.75
1750 1985 6.104665 ACCTACTAAACACGATTTAAGAGGC 58.895 40.000 15.73 0.00 0.00 4.70
1751 1986 6.755607 GGACCTACTAAACACGATTTAAGAGG 59.244 42.308 14.95 14.95 0.00 3.69
1752 1987 7.545489 AGGACCTACTAAACACGATTTAAGAG 58.455 38.462 0.00 0.00 0.00 2.85
1756 2002 6.435277 ACTGAGGACCTACTAAACACGATTTA 59.565 38.462 0.00 0.00 0.00 1.40
1761 2007 4.516365 AACTGAGGACCTACTAAACACG 57.484 45.455 0.00 0.00 0.00 4.49
1822 2070 1.594862 GCACGGCACAAGAGATACATC 59.405 52.381 0.00 0.00 0.00 3.06
1845 2093 1.968540 GAGCAACAGTGGGTCAGGC 60.969 63.158 1.92 0.00 33.16 4.85
1884 2136 8.236586 TCATCACATTTAGCAAGTATGAACAAC 58.763 33.333 0.00 0.00 0.00 3.32
1892 2145 8.390354 CGAAAAGATCATCACATTTAGCAAGTA 58.610 33.333 0.00 0.00 0.00 2.24
1897 2150 5.680229 CAGCGAAAAGATCATCACATTTAGC 59.320 40.000 0.00 7.26 33.59 3.09
1902 2155 3.011818 TGCAGCGAAAAGATCATCACAT 58.988 40.909 0.00 0.00 0.00 3.21
2012 2265 5.571778 GTAAACTCGTTTACTGGACACAG 57.428 43.478 19.96 0.00 46.81 3.66
2058 2311 0.446222 CGCAGGTCCCAAACATTACG 59.554 55.000 0.00 0.00 0.00 3.18
2076 2329 6.537566 CAAGTGAAATAACACAGAATCCTCG 58.462 40.000 0.00 0.00 42.45 4.63
2276 2539 4.767409 AGTAAAAGAACTTGCTTGGATCCC 59.233 41.667 9.90 0.00 0.00 3.85
2356 2622 2.497273 GCTGCATTTGGGACCATAACTT 59.503 45.455 0.00 0.00 0.00 2.66
2374 2640 8.797438 TCTGTAACTATTATACTGGATCTGCTG 58.203 37.037 0.00 0.00 0.00 4.41
2375 2641 8.941995 TCTGTAACTATTATACTGGATCTGCT 57.058 34.615 0.00 0.00 0.00 4.24
2376 2642 9.015367 TCTCTGTAACTATTATACTGGATCTGC 57.985 37.037 0.00 0.00 0.00 4.26
2411 2684 3.446873 TGGACATGTCAAGCAACAAAACT 59.553 39.130 26.47 0.00 31.81 2.66
2446 2719 4.107127 ACATTGCCTACCCACAAACTAA 57.893 40.909 0.00 0.00 0.00 2.24
2447 2720 3.799432 ACATTGCCTACCCACAAACTA 57.201 42.857 0.00 0.00 0.00 2.24
2532 2904 4.942761 ATACCAATAGCAATGCCTTTGG 57.057 40.909 25.73 25.73 42.76 3.28
2588 3018 5.068987 ACATGGCAGATTTGTGTAGTTGTTT 59.931 36.000 0.00 0.00 0.00 2.83
2614 3044 6.321435 CGATGGGGAGCATCATAGTATAACTA 59.679 42.308 0.00 0.00 36.25 2.24
2615 3045 5.127845 CGATGGGGAGCATCATAGTATAACT 59.872 44.000 0.00 0.00 36.25 2.24
2633 3063 1.895707 GGCAGATTCCAGCGATGGG 60.896 63.158 21.53 3.94 0.00 4.00
2636 3066 0.749454 GGTTGGCAGATTCCAGCGAT 60.749 55.000 0.00 0.00 38.10 4.58
2653 3083 1.080974 CGTCGCCGAACAACTAGGT 60.081 57.895 0.00 0.00 35.63 3.08
2675 3105 6.720309 TGTTCATTCCCTCACATAAGATTCA 58.280 36.000 0.00 0.00 0.00 2.57
2678 3108 6.040166 GCATTGTTCATTCCCTCACATAAGAT 59.960 38.462 0.00 0.00 0.00 2.40
2692 3122 3.442977 GCTTCAGGAGAGCATTGTTCATT 59.557 43.478 3.25 0.00 0.00 2.57
2693 3123 3.015327 GCTTCAGGAGAGCATTGTTCAT 58.985 45.455 3.25 0.00 0.00 2.57
2718 3148 1.691196 CTCAGGACTAGGAGGCTCTG 58.309 60.000 15.23 7.72 0.00 3.35
2868 3427 2.225242 TGAGGGGCTAAGGCAAATTTGA 60.225 45.455 22.31 0.00 40.87 2.69
2924 3483 5.144100 AGTACTCAGACTAAGCAGCCATAT 58.856 41.667 0.00 0.00 0.00 1.78
2925 3484 4.537751 AGTACTCAGACTAAGCAGCCATA 58.462 43.478 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.