Multiple sequence alignment - TraesCS6B01G390300

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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 TraesCS6B01G390300 chr6B 100.000 4669 0 0 1 4669 664525796 664521128 0.000000e+00 8623.0
1 TraesCS6B01G390300 chr6B 92.172 1533 83 14 625 2129 664477306 664478829 0.000000e+00 2132.0
2 TraesCS6B01G390300 chr6B 79.739 1530 220 49 640 2127 3799634 3801115 0.000000e+00 1026.0
3 TraesCS6B01G390300 chr6B 82.073 1177 140 41 2558 3673 664479316 664480482 0.000000e+00 939.0
4 TraesCS6B01G390300 chr6B 82.546 974 135 17 1115 2070 664506677 664505721 0.000000e+00 824.0
5 TraesCS6B01G390300 chr6B 79.782 1009 173 18 2210 3197 664505631 664504633 0.000000e+00 704.0
6 TraesCS6B01G390300 chr6B 92.494 453 28 3 2220 2667 664478866 664479317 1.100000e-180 643.0
7 TraesCS6B01G390300 chr6B 86.275 510 42 9 4008 4501 664501719 664501222 3.200000e-146 529.0
8 TraesCS6B01G390300 chr6B 79.398 631 100 16 2222 2830 3801154 3801776 7.230000e-113 418.0
9 TraesCS6B01G390300 chr6B 78.388 583 80 23 1554 2127 4377933 4377388 2.080000e-88 337.0
10 TraesCS6B01G390300 chr6B 94.286 175 10 0 4495 4669 664501032 664500858 7.700000e-68 268.0
11 TraesCS6B01G390300 chr6B 96.591 88 3 0 988 1075 664507916 664508003 3.760000e-31 147.0
12 TraesCS6B01G390300 chr6B 93.333 75 5 0 1718 1792 664508049 664508123 1.370000e-20 111.0
13 TraesCS6B01G390300 chr6A 93.061 2522 97 28 2220 4669 587970637 587968122 0.000000e+00 3616.0
14 TraesCS6B01G390300 chr6A 91.924 1944 95 21 216 2127 587972589 587970676 0.000000e+00 2663.0
15 TraesCS6B01G390300 chr6A 92.871 1529 83 7 624 2127 587890288 587891815 0.000000e+00 2196.0
16 TraesCS6B01G390300 chr6A 86.474 1486 147 29 2220 3673 587891854 587893317 0.000000e+00 1581.0
17 TraesCS6B01G390300 chr6A 89.080 522 28 7 4006 4510 587893739 587894248 5.130000e-174 621.0
18 TraesCS6B01G390300 chr6A 82.870 432 48 16 4259 4669 587894241 587894667 9.550000e-97 364.0
19 TraesCS6B01G390300 chr6A 96.296 189 5 2 1 187 587975035 587974847 4.540000e-80 309.0
20 TraesCS6B01G390300 chr6A 85.057 87 11 2 496 582 587889979 587890063 2.310000e-13 87.9
21 TraesCS6B01G390300 chr6A 96.154 52 2 0 2141 2192 587970690 587970639 8.320000e-13 86.1
22 TraesCS6B01G390300 chr6D 93.216 1990 95 13 175 2127 439662969 439660983 0.000000e+00 2891.0
23 TraesCS6B01G390300 chr6D 93.198 1529 78 7 624 2127 439616051 439617578 0.000000e+00 2224.0
24 TraesCS6B01G390300 chr6D 90.943 1623 97 21 2220 3809 439660944 439659339 0.000000e+00 2137.0
25 TraesCS6B01G390300 chr6D 80.510 1529 213 41 640 2127 2133977 2135461 0.000000e+00 1094.0
26 TraesCS6B01G390300 chr6D 91.739 690 46 5 2227 2909 439617622 439618307 0.000000e+00 948.0
27 TraesCS6B01G390300 chr6D 89.632 733 46 18 3950 4669 439656837 439656122 0.000000e+00 905.0
28 TraesCS6B01G390300 chr6D 85.777 682 65 16 4006 4669 439619502 439620169 0.000000e+00 693.0
29 TraesCS6B01G390300 chr6D 79.158 998 162 27 2220 3197 2135500 2136471 0.000000e+00 649.0
30 TraesCS6B01G390300 chr6D 83.060 732 99 14 2919 3632 439618357 439619081 3.940000e-180 641.0
31 TraesCS6B01G390300 chr6D 94.180 189 9 2 1 187 439663203 439663015 2.130000e-73 287.0
32 TraesCS6B01G390300 chrUn 78.866 582 79 23 1554 2127 255514960 255515505 2.070000e-93 353.0
33 TraesCS6B01G390300 chr7D 89.744 78 7 1 69 146 334633451 334633527 1.070000e-16 99.0
34 TraesCS6B01G390300 chr5A 87.179 78 10 0 71 148 679558069 679558146 6.430000e-14 89.8
35 TraesCS6B01G390300 chr2D 85.057 87 13 0 67 153 439749738 439749652 6.430000e-14 89.8
36 TraesCS6B01G390300 chr2D 85.057 87 13 0 67 153 439870005 439870091 6.430000e-14 89.8
37 TraesCS6B01G390300 chr2A 85.057 87 13 0 67 153 582873190 582873104 6.430000e-14 89.8
38 TraesCS6B01G390300 chr2A 83.908 87 14 0 67 153 583220462 583220548 2.990000e-12 84.2
39 TraesCS6B01G390300 chr7A 83.951 81 13 0 69 149 239524060 239524140 1.390000e-10 78.7


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 TraesCS6B01G390300 chr6B 664521128 664525796 4668 True 8623.000 8623 100.00000 1 4669 1 chr6B.!!$R2 4668
1 TraesCS6B01G390300 chr6B 664477306 664480482 3176 False 1238.000 2132 88.91300 625 3673 3 chr6B.!!$F2 3048
2 TraesCS6B01G390300 chr6B 3799634 3801776 2142 False 722.000 1026 79.56850 640 2830 2 chr6B.!!$F1 2190
3 TraesCS6B01G390300 chr6B 664500858 664506677 5819 True 581.250 824 85.72225 1115 4669 4 chr6B.!!$R3 3554
4 TraesCS6B01G390300 chr6B 4377388 4377933 545 True 337.000 337 78.38800 1554 2127 1 chr6B.!!$R1 573
5 TraesCS6B01G390300 chr6A 587968122 587975035 6913 True 1668.525 3616 94.35875 1 4669 4 chr6A.!!$R1 4668
6 TraesCS6B01G390300 chr6A 587889979 587894667 4688 False 969.980 2196 87.27040 496 4669 5 chr6A.!!$F1 4173
7 TraesCS6B01G390300 chr6D 439656122 439663203 7081 True 1555.000 2891 91.99275 1 4669 4 chr6D.!!$R1 4668
8 TraesCS6B01G390300 chr6D 439616051 439620169 4118 False 1126.500 2224 88.44350 624 4669 4 chr6D.!!$F2 4045
9 TraesCS6B01G390300 chr6D 2133977 2136471 2494 False 871.500 1094 79.83400 640 3197 2 chr6D.!!$F1 2557
10 TraesCS6B01G390300 chrUn 255514960 255515505 545 False 353.000 353 78.86600 1554 2127 1 chrUn.!!$F1 573

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
83 84 1.826096 GCCTCCCTCCCTCGTAATATC 59.174 57.143 0.00 0.00 0.00 1.63 F
1416 3894 1.884235 ACTCCCTTCTTGTTTCAGCG 58.116 50.000 0.00 0.00 0.00 5.18 F
1628 4124 3.295973 CAAGGTCTTTCCCTGTTTGGAA 58.704 45.455 0.00 0.00 42.62 3.53 F
3071 5791 0.248458 CAAGTCCACCACAACGTTGC 60.248 55.000 27.61 9.79 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1724 4220 3.073678 TGTGTTGCTATGGTGCTACTTG 58.926 45.455 0.0 0.0 38.94 3.16 R
2546 5081 0.313043 GCGCCAATCCCATCAGAATG 59.687 55.000 0.0 0.0 37.54 2.67 R
3516 6626 1.215382 CGACCCATGCTTCACTCGA 59.785 57.895 0.0 0.0 0.00 4.04 R
4268 11603 0.171455 CGAAGACAACGAGGAGGAGG 59.829 60.000 0.0 0.0 0.00 4.30 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
46 47 3.858812 CCGCCATATGACAAACATTGTTG 59.141 43.478 3.65 0.60 45.52 3.33
83 84 1.826096 GCCTCCCTCCCTCGTAATATC 59.174 57.143 0.00 0.00 0.00 1.63
260 2492 8.592105 AATTGAACATTGGTATCACAACTTTG 57.408 30.769 0.00 0.00 32.39 2.77
442 2677 6.826231 TCTCTCACAACCAAATTAAACTCACA 59.174 34.615 0.00 0.00 0.00 3.58
443 2678 7.012327 TCTCTCACAACCAAATTAAACTCACAG 59.988 37.037 0.00 0.00 0.00 3.66
447 2682 6.472163 CACAACCAAATTAAACTCACAGTCAC 59.528 38.462 0.00 0.00 0.00 3.67
496 2731 8.964420 TTTAAAGAAAAGTTGAACTGACACTG 57.036 30.769 0.00 0.00 0.00 3.66
497 2732 6.575162 AAAGAAAAGTTGAACTGACACTGT 57.425 33.333 0.00 0.00 0.00 3.55
499 2734 6.183309 AGAAAAGTTGAACTGACACTGTTC 57.817 37.500 0.00 12.28 40.85 3.18
507 2742 2.737376 GACACTGTTCGGTCGGGC 60.737 66.667 0.00 0.00 0.00 6.13
678 3096 6.303021 TGTTAACACTTTCCGTATCAAACC 57.697 37.500 3.59 0.00 0.00 3.27
742 3160 9.970395 CACATCATTTATATGGCATTAACACTT 57.030 29.630 4.78 0.00 32.40 3.16
869 3297 9.964354 ATAGGTGATATAGCTTAATGCAATTGA 57.036 29.630 10.34 0.00 45.94 2.57
870 3298 8.874744 AGGTGATATAGCTTAATGCAATTGAT 57.125 30.769 10.34 0.00 45.94 2.57
871 3299 9.964354 AGGTGATATAGCTTAATGCAATTGATA 57.036 29.630 10.34 0.00 45.94 2.15
1076 3528 4.883083 TGTCATTTCTTGTTCTAGCGACT 58.117 39.130 0.00 0.00 0.00 4.18
1094 3546 4.109050 CGACTAGAGGAAAAGATGTGAGC 58.891 47.826 0.00 0.00 0.00 4.26
1102 3554 8.261349 AGAGGAAAAGATGTGAGCTATAGAAT 57.739 34.615 3.21 0.00 0.00 2.40
1121 3573 4.530161 AGAATGCAAGAGGAAGACAGTACT 59.470 41.667 0.00 0.00 0.00 2.73
1329 3781 8.348285 TGAAAGACCATAAAATCCAGGTAAAG 57.652 34.615 0.00 0.00 33.77 1.85
1330 3782 8.167392 TGAAAGACCATAAAATCCAGGTAAAGA 58.833 33.333 0.00 0.00 33.77 2.52
1331 3783 7.939784 AAGACCATAAAATCCAGGTAAAGAC 57.060 36.000 0.00 0.00 33.77 3.01
1416 3894 1.884235 ACTCCCTTCTTGTTTCAGCG 58.116 50.000 0.00 0.00 0.00 5.18
1611 4107 8.885494 TTATTTTCAAACAGATGAAACCAAGG 57.115 30.769 2.20 0.00 46.06 3.61
1628 4124 3.295973 CAAGGTCTTTCCCTGTTTGGAA 58.704 45.455 0.00 0.00 42.62 3.53
1724 4220 5.924475 ATTCCAATACTGCGTAGTAATGC 57.076 39.130 19.71 0.00 42.37 3.56
1796 4292 4.558697 GCAATGGGAGGTGAGTTTTTGTAC 60.559 45.833 0.00 0.00 0.00 2.90
2035 4536 5.925506 TCGAGGGTCACAATAATGAACTA 57.074 39.130 0.00 0.00 36.48 2.24
2116 4624 3.658725 AGGGCCTCATACTCTACAACAT 58.341 45.455 0.00 0.00 0.00 2.71
2117 4625 4.040755 AGGGCCTCATACTCTACAACATT 58.959 43.478 0.00 0.00 0.00 2.71
2118 4626 4.475016 AGGGCCTCATACTCTACAACATTT 59.525 41.667 0.00 0.00 0.00 2.32
2119 4627 4.576463 GGGCCTCATACTCTACAACATTTG 59.424 45.833 0.84 0.00 0.00 2.32
2120 4628 5.428253 GGCCTCATACTCTACAACATTTGA 58.572 41.667 0.00 0.00 0.00 2.69
2121 4629 5.525378 GGCCTCATACTCTACAACATTTGAG 59.475 44.000 0.00 0.00 0.00 3.02
2122 4630 6.109359 GCCTCATACTCTACAACATTTGAGT 58.891 40.000 0.00 0.00 41.81 3.41
2123 4631 7.265673 GCCTCATACTCTACAACATTTGAGTA 58.734 38.462 0.00 0.00 43.35 2.59
2124 4632 7.436673 GCCTCATACTCTACAACATTTGAGTAG 59.563 40.741 0.00 0.00 42.75 2.57
2125 4633 8.470805 CCTCATACTCTACAACATTTGAGTAGT 58.529 37.037 0.00 0.00 42.75 2.73
2126 4634 9.862371 CTCATACTCTACAACATTTGAGTAGTT 57.138 33.333 0.00 0.00 42.75 2.24
2129 4637 9.998106 ATACTCTACAACATTTGAGTAGTTTGT 57.002 29.630 0.00 0.00 42.75 2.83
2130 4638 8.732746 ACTCTACAACATTTGAGTAGTTTGTT 57.267 30.769 11.65 0.00 37.92 2.83
2131 4639 8.827677 ACTCTACAACATTTGAGTAGTTTGTTC 58.172 33.333 11.65 0.00 37.92 3.18
2132 4640 8.725405 TCTACAACATTTGAGTAGTTTGTTCA 57.275 30.769 11.65 0.00 37.20 3.18
2133 4641 8.826710 TCTACAACATTTGAGTAGTTTGTTCAG 58.173 33.333 11.65 0.00 37.20 3.02
2134 4642 7.391148 ACAACATTTGAGTAGTTTGTTCAGT 57.609 32.000 0.00 0.00 0.00 3.41
2135 4643 7.472543 ACAACATTTGAGTAGTTTGTTCAGTC 58.527 34.615 0.00 0.00 0.00 3.51
2136 4644 7.120579 ACAACATTTGAGTAGTTTGTTCAGTCA 59.879 33.333 0.00 0.00 0.00 3.41
2137 4645 7.624360 ACATTTGAGTAGTTTGTTCAGTCAA 57.376 32.000 0.00 0.00 31.46 3.18
2138 4646 8.050778 ACATTTGAGTAGTTTGTTCAGTCAAA 57.949 30.769 6.34 6.34 42.61 2.69
2139 4647 8.184192 ACATTTGAGTAGTTTGTTCAGTCAAAG 58.816 33.333 9.05 5.23 42.05 2.77
2140 4648 7.915293 TTTGAGTAGTTTGTTCAGTCAAAGA 57.085 32.000 0.00 0.00 36.93 2.52
2141 4649 7.915293 TTGAGTAGTTTGTTCAGTCAAAGAA 57.085 32.000 0.00 0.00 37.87 2.52
2142 4650 7.303634 TGAGTAGTTTGTTCAGTCAAAGAAC 57.696 36.000 0.00 0.00 44.26 3.01
2192 4700 6.070824 TGTGCCTTCAGATTGTTATCTCTACA 60.071 38.462 0.00 0.00 39.11 2.74
2195 4703 7.882791 TGCCTTCAGATTGTTATCTCTACAAAA 59.117 33.333 0.00 0.00 39.11 2.44
2196 4704 8.897752 GCCTTCAGATTGTTATCTCTACAAAAT 58.102 33.333 0.00 0.00 39.11 1.82
2280 4788 8.480501 CATGAAGGAATTCCAATTTCATTACCT 58.519 33.333 26.35 12.28 36.73 3.08
2364 4882 8.722342 TTAGCATTAAGTTGTTTTCGTTGATC 57.278 30.769 0.00 0.00 0.00 2.92
2428 4948 9.653287 TCTTAAGATTGAAGTTGTATCGACAAT 57.347 29.630 0.00 0.00 46.98 2.71
2522 5057 6.929049 TGTGTCACATAACCTAGAACTTCTTG 59.071 38.462 0.18 0.00 0.00 3.02
2546 5081 7.832769 TGGCTTAATTAGTGGTCCAATTAAAC 58.167 34.615 0.00 0.00 36.61 2.01
2803 5452 2.169832 ATGGAAGAGGACAACACACG 57.830 50.000 0.00 0.00 0.00 4.49
2846 5495 3.132289 TCGGGTATCTCCAACATTGAGTC 59.868 47.826 0.00 0.00 38.11 3.36
2889 5538 4.097741 TCATGTTGCTTGGGTAATGCATAC 59.902 41.667 0.00 0.00 36.55 2.39
3071 5791 0.248458 CAAGTCCACCACAACGTTGC 60.248 55.000 27.61 9.79 0.00 4.17
3087 5807 3.012518 CGTTGCTCCTGGATCAAGAATT 58.987 45.455 12.93 0.00 0.00 2.17
3130 5850 5.163774 GGTGGAGTACAGAAAGTAGTAGACG 60.164 48.000 0.00 0.00 36.50 4.18
3426 6536 2.347322 GCAAATGGGTAGCGGGCAA 61.347 57.895 0.00 0.00 0.00 4.52
3516 6626 3.326880 GGTTTGTGACCCCGGATATATCT 59.673 47.826 0.73 0.00 43.06 1.98
3575 6685 2.031683 CCGCCGATGGATTTGAAGTTAC 59.968 50.000 0.00 0.00 0.00 2.50
3674 6824 6.093633 GGGCTCGACAAGTTAATAAAACAGAT 59.906 38.462 0.00 0.00 0.00 2.90
3675 6825 7.361799 GGGCTCGACAAGTTAATAAAACAGATT 60.362 37.037 0.00 0.00 0.00 2.40
3731 7020 4.779987 TCGTATATCATCGACTTCCGTTG 58.220 43.478 0.00 0.00 38.84 4.10
3905 8942 6.154445 TCTTCTCAACAAATCGTACCACTAC 58.846 40.000 0.00 0.00 0.00 2.73
3907 8944 6.092955 TCTCAACAAATCGTACCACTACTT 57.907 37.500 0.00 0.00 0.00 2.24
3908 8945 7.218228 TCTCAACAAATCGTACCACTACTTA 57.782 36.000 0.00 0.00 0.00 2.24
3909 8946 7.086376 TCTCAACAAATCGTACCACTACTTAC 58.914 38.462 0.00 0.00 0.00 2.34
3910 8947 6.985117 TCAACAAATCGTACCACTACTTACT 58.015 36.000 0.00 0.00 0.00 2.24
3913 8970 8.857216 CAACAAATCGTACCACTACTTACTTAG 58.143 37.037 0.00 0.00 0.00 2.18
4089 11424 2.507324 GACACCTCGCGCTCCTTC 60.507 66.667 5.56 0.00 0.00 3.46
4267 11602 2.018086 CCCTCCTCCTCCTCCTCCT 61.018 68.421 0.00 0.00 0.00 3.69
4268 11603 1.541672 CCTCCTCCTCCTCCTCCTC 59.458 68.421 0.00 0.00 0.00 3.71
4269 11604 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
4350 11685 1.896660 GTGGACGCAAGCAAGGGAA 60.897 57.895 0.00 0.00 45.62 3.97
4437 11780 0.109597 GCGTCAAATTGGCACAGAGG 60.110 55.000 0.00 0.00 42.39 3.69
4439 11782 1.620822 GTCAAATTGGCACAGAGGGT 58.379 50.000 0.00 0.00 42.39 4.34
4512 12331 2.202932 CACGCATTCCTCCTCCCG 60.203 66.667 0.00 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 5.902431 AGGGAGGCATGGTTATAGATATCTC 59.098 44.000 8.95 0.00 0.00 2.75
83 84 4.508461 TTGTTCATGATGCCACTGAAAG 57.492 40.909 0.00 0.00 42.29 2.62
234 2466 9.044150 CAAAGTTGTGATACCAATGTTCAATTT 57.956 29.630 0.00 0.00 0.00 1.82
260 2492 7.803189 CACATGTTGTCAACTTATCACTAAACC 59.197 37.037 16.45 0.00 0.00 3.27
473 2708 7.681939 ACAGTGTCAGTTCAACTTTTCTTTA 57.318 32.000 0.00 0.00 0.00 1.85
474 2709 6.575162 ACAGTGTCAGTTCAACTTTTCTTT 57.425 33.333 0.00 0.00 0.00 2.52
477 2712 5.022021 CGAACAGTGTCAGTTCAACTTTTC 58.978 41.667 0.00 0.00 44.22 2.29
482 2717 2.277084 ACCGAACAGTGTCAGTTCAAC 58.723 47.619 0.00 0.00 44.22 3.18
485 2720 1.129326 CGACCGAACAGTGTCAGTTC 58.871 55.000 0.00 0.00 41.41 3.01
486 2721 0.249322 CCGACCGAACAGTGTCAGTT 60.249 55.000 0.00 0.00 0.00 3.16
488 2723 1.372997 CCCGACCGAACAGTGTCAG 60.373 63.158 0.00 0.00 0.00 3.51
490 2725 2.737376 GCCCGACCGAACAGTGTC 60.737 66.667 0.00 0.00 0.00 3.67
491 2726 2.391724 ATTGCCCGACCGAACAGTGT 62.392 55.000 0.00 0.00 0.00 3.55
492 2727 0.390603 TATTGCCCGACCGAACAGTG 60.391 55.000 0.00 0.00 0.00 3.66
493 2728 0.322322 TTATTGCCCGACCGAACAGT 59.678 50.000 0.00 0.00 0.00 3.55
494 2729 1.396996 CTTTATTGCCCGACCGAACAG 59.603 52.381 0.00 0.00 0.00 3.16
495 2730 1.444836 CTTTATTGCCCGACCGAACA 58.555 50.000 0.00 0.00 0.00 3.18
496 2731 0.098200 GCTTTATTGCCCGACCGAAC 59.902 55.000 0.00 0.00 0.00 3.95
497 2732 0.035820 AGCTTTATTGCCCGACCGAA 60.036 50.000 0.00 0.00 0.00 4.30
499 2734 0.742990 TCAGCTTTATTGCCCGACCG 60.743 55.000 0.00 0.00 0.00 4.79
678 3096 7.533426 CATAGGAAAATCTTCACAAGTTCCAG 58.467 38.462 0.00 0.00 35.01 3.86
866 3294 9.634163 ACGCGTACAAAAGATATCATATATCAA 57.366 29.630 11.67 0.00 0.00 2.57
989 3441 6.478512 AAAACCTGGAATTGTTAGCTTTGA 57.521 33.333 0.00 0.00 0.00 2.69
994 3446 7.870445 TCATTGTTAAAACCTGGAATTGTTAGC 59.130 33.333 0.00 0.00 0.00 3.09
1076 3528 8.768501 TTCTATAGCTCACATCTTTTCCTCTA 57.231 34.615 0.00 0.00 0.00 2.43
1094 3546 6.815089 ACTGTCTTCCTCTTGCATTCTATAG 58.185 40.000 0.00 0.00 0.00 1.31
1102 3554 3.230976 TGAGTACTGTCTTCCTCTTGCA 58.769 45.455 0.00 0.00 0.00 4.08
1121 3573 7.487822 AACTCCTTGATAAGTGAGAATCTGA 57.512 36.000 11.43 0.00 34.92 3.27
1330 3782 9.797642 TGACAATATATTGAGCAATTCTATGGT 57.202 29.630 28.13 4.12 40.14 3.55
1335 3787 9.399797 TGAACTGACAATATATTGAGCAATTCT 57.600 29.630 28.13 6.56 40.14 2.40
1365 3843 4.911610 CGAAAGCAACATTTGTGGACTTAG 59.088 41.667 0.00 0.00 0.00 2.18
1416 3894 7.765307 TGTGAAAAAGCATATCCAGAAAGATC 58.235 34.615 0.00 0.00 0.00 2.75
1611 4107 3.223674 TCCTTCCAAACAGGGAAAGAC 57.776 47.619 0.00 0.00 45.87 3.01
1628 4124 4.270008 CGAAGGAAATGTTTGGGTATCCT 58.730 43.478 0.00 0.00 38.91 3.24
1724 4220 3.073678 TGTGTTGCTATGGTGCTACTTG 58.926 45.455 0.00 0.00 38.94 3.16
2116 4624 7.915293 TCTTTGACTGAACAAACTACTCAAA 57.085 32.000 0.00 0.00 36.11 2.69
2117 4625 7.748847 GTTCTTTGACTGAACAAACTACTCAA 58.251 34.615 0.00 0.00 42.22 3.02
2118 4626 7.303634 GTTCTTTGACTGAACAAACTACTCA 57.696 36.000 0.00 0.00 42.22 3.41
2128 4636 5.659048 ACTCGAATGTTCTTTGACTGAAC 57.341 39.130 0.00 0.00 42.77 3.18
2129 4637 6.513180 ACTACTCGAATGTTCTTTGACTGAA 58.487 36.000 0.00 0.00 0.00 3.02
2130 4638 6.085555 ACTACTCGAATGTTCTTTGACTGA 57.914 37.500 0.00 0.00 0.00 3.41
2131 4639 6.771188 AACTACTCGAATGTTCTTTGACTG 57.229 37.500 0.00 0.00 0.00 3.51
2132 4640 7.039923 TCCTAACTACTCGAATGTTCTTTGACT 60.040 37.037 1.46 0.00 0.00 3.41
2133 4641 7.088905 TCCTAACTACTCGAATGTTCTTTGAC 58.911 38.462 1.46 0.00 0.00 3.18
2134 4642 7.223260 TCCTAACTACTCGAATGTTCTTTGA 57.777 36.000 1.46 0.00 0.00 2.69
2135 4643 7.884816 TTCCTAACTACTCGAATGTTCTTTG 57.115 36.000 1.46 0.00 0.00 2.77
2136 4644 8.311836 TCATTCCTAACTACTCGAATGTTCTTT 58.688 33.333 8.11 0.00 41.41 2.52
2137 4645 7.837863 TCATTCCTAACTACTCGAATGTTCTT 58.162 34.615 8.11 0.00 41.41 2.52
2138 4646 7.406031 TCATTCCTAACTACTCGAATGTTCT 57.594 36.000 8.11 0.00 41.41 3.01
2139 4647 8.649973 AATCATTCCTAACTACTCGAATGTTC 57.350 34.615 8.11 0.00 41.41 3.18
2140 4648 9.449719 AAAATCATTCCTAACTACTCGAATGTT 57.550 29.630 8.11 0.00 41.41 2.71
2141 4649 9.449719 AAAAATCATTCCTAACTACTCGAATGT 57.550 29.630 8.11 0.00 41.41 2.71
2142 4650 9.708222 CAAAAATCATTCCTAACTACTCGAATG 57.292 33.333 0.00 0.00 41.83 2.67
2143 4651 9.449719 ACAAAAATCATTCCTAACTACTCGAAT 57.550 29.630 0.00 0.00 0.00 3.34
2146 4654 6.961554 GCACAAAAATCATTCCTAACTACTCG 59.038 38.462 0.00 0.00 0.00 4.18
2280 4788 8.701908 TCTCCAAGAGAGTGTTACTAAAACTA 57.298 34.615 0.00 0.00 43.71 2.24
2358 4876 4.630505 GGGAAGGAAAGAGTAACGATCAAC 59.369 45.833 0.00 0.00 0.00 3.18
2364 4882 5.240844 ACATTTTGGGAAGGAAAGAGTAACG 59.759 40.000 0.00 0.00 0.00 3.18
2428 4948 6.587206 TCACTTTCATTTCATATTGCCACA 57.413 33.333 0.00 0.00 0.00 4.17
2522 5057 7.832769 TGTTTAATTGGACCACTAATTAAGCC 58.167 34.615 15.69 9.66 44.16 4.35
2546 5081 0.313043 GCGCCAATCCCATCAGAATG 59.687 55.000 0.00 0.00 37.54 2.67
2803 5452 4.996434 CCAGCGCCCATCCGATCC 62.996 72.222 2.29 0.00 0.00 3.36
2846 5495 6.803320 ACATGAAATCTAACAAAAGCATCACG 59.197 34.615 0.00 0.00 0.00 4.35
3035 5755 2.573462 ACTTGCACATATCCAGGACAGT 59.427 45.455 0.00 0.00 0.00 3.55
3071 5791 4.592942 TGGTTGAATTCTTGATCCAGGAG 58.407 43.478 7.05 0.00 0.00 3.69
3157 5881 8.490355 GTGCTTGAGAAATCACAAATTTTAAGG 58.510 33.333 0.00 0.00 0.00 2.69
3242 6350 8.918202 TGTCGGCTCCTAAAATAATAATTCAT 57.082 30.769 0.00 0.00 0.00 2.57
3426 6536 3.955471 TCTGAATCCTTCCGAAGCAAAT 58.045 40.909 2.27 0.00 0.00 2.32
3471 6581 3.393609 AGCCCTTATCATCAGCAATCTCA 59.606 43.478 0.00 0.00 0.00 3.27
3512 6622 2.362397 GACCCATGCTTCACTCGAGATA 59.638 50.000 21.68 3.07 0.00 1.98
3516 6626 1.215382 CGACCCATGCTTCACTCGA 59.785 57.895 0.00 0.00 0.00 4.04
3575 6685 7.657761 AGAAGATACGCATACCTAAATCCTTTG 59.342 37.037 0.00 0.00 0.00 2.77
3674 6824 1.340889 GCAAGACCACTTTGCATGGAA 59.659 47.619 11.80 0.00 39.87 3.53
3675 6825 0.961019 GCAAGACCACTTTGCATGGA 59.039 50.000 11.80 0.00 39.87 3.41
3731 7020 6.313658 AGAAACAAGAAACAAAAATCAGCACC 59.686 34.615 0.00 0.00 0.00 5.01
3786 7161 4.346734 TCAACTTGTATCGTCTACCGTC 57.653 45.455 0.00 0.00 37.94 4.79
3909 8946 9.755064 CCGAGTTTGTCATTTGTTATTACTAAG 57.245 33.333 0.00 0.00 0.00 2.18
3910 8947 9.275398 ACCGAGTTTGTCATTTGTTATTACTAA 57.725 29.630 0.00 0.00 0.00 2.24
3913 8970 7.577979 TGACCGAGTTTGTCATTTGTTATTAC 58.422 34.615 0.00 0.00 37.80 1.89
4089 11424 2.186384 CAGAGGAAGCTGCGGGAG 59.814 66.667 0.00 0.00 0.00 4.30
4267 11602 1.546961 GAAGACAACGAGGAGGAGGA 58.453 55.000 0.00 0.00 0.00 3.71
4268 11603 0.171455 CGAAGACAACGAGGAGGAGG 59.829 60.000 0.00 0.00 0.00 4.30
4269 11604 0.882474 ACGAAGACAACGAGGAGGAG 59.118 55.000 0.00 0.00 34.70 3.69


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

AutoCloner maintained by Alex Coulton.