Multiple sequence alignment - TraesCS2B01G177000

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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 TraesCS2B01G177000 chr2B 100.000 3824 0 0 1 3824 152155927 152159750 0.000000e+00 7062.0
1 TraesCS2B01G177000 chr2B 96.411 1672 57 1 1049 2717 151909156 151907485 0.000000e+00 2752.0
2 TraesCS2B01G177000 chr2B 82.962 763 90 23 2690 3422 151907590 151906838 0.000000e+00 652.0
3 TraesCS2B01G177000 chr2D 94.795 2824 103 21 1004 3793 100311219 100314032 0.000000e+00 4361.0
4 TraesCS2B01G177000 chr2D 95.758 1603 65 1 1118 2717 100191638 100190036 0.000000e+00 2580.0
5 TraesCS2B01G177000 chr2D 88.488 999 53 31 1 970 100309838 100310803 0.000000e+00 1151.0
6 TraesCS2B01G177000 chr2D 82.654 761 93 21 2690 3422 100190141 100189392 4.170000e-179 638.0
7 TraesCS2B01G177000 chr2A 93.802 2501 108 16 823 3299 100113871 100116348 0.000000e+00 3716.0
8 TraesCS2B01G177000 chr2A 91.832 2571 157 27 885 3422 99794252 99791702 0.000000e+00 3535.0
9 TraesCS2B01G177000 chr2A 84.653 808 65 29 1 790 100113105 100113871 0.000000e+00 750.0
10 TraesCS2B01G177000 chr3A 99.535 430 2 0 3395 3824 699929695 699929266 0.000000e+00 784.0
11 TraesCS2B01G177000 chr3A 85.366 82 10 2 205 286 84013655 84013576 2.450000e-12 84.2
12 TraesCS2B01G177000 chr7B 99.302 430 3 0 3395 3824 103910693 103910264 0.000000e+00 778.0
13 TraesCS2B01G177000 chr7B 99.076 433 4 0 3392 3824 566887190 566887622 0.000000e+00 778.0
14 TraesCS2B01G177000 chr7B 99.070 430 4 0 3395 3824 31305211 31304782 0.000000e+00 773.0
15 TraesCS2B01G177000 chr7B 88.068 352 32 7 1934 2283 28627321 28627664 3.560000e-110 409.0
16 TraesCS2B01G177000 chr1B 99.302 430 3 0 3395 3824 29649325 29648896 0.000000e+00 778.0
17 TraesCS2B01G177000 chr1B 99.076 433 3 1 3393 3824 560669008 560668576 0.000000e+00 776.0
18 TraesCS2B01G177000 chr1B 99.070 430 4 0 3395 3824 617535340 617534911 0.000000e+00 773.0
19 TraesCS2B01G177000 chr6B 99.070 430 4 0 3395 3824 122218898 122218469 0.000000e+00 773.0
20 TraesCS2B01G177000 chr6B 87.273 110 12 2 1 108 635269998 635269889 1.440000e-24 124.0
21 TraesCS2B01G177000 chr6A 99.070 430 4 0 3395 3824 532690051 532689622 0.000000e+00 773.0
22 TraesCS2B01G177000 chr6A 87.273 110 12 2 1 108 27525007 27524898 1.440000e-24 124.0
23 TraesCS2B01G177000 chr7A 90.714 140 12 1 1923 2062 83722611 83722749 6.520000e-43 185.0
24 TraesCS2B01G177000 chr7A 82.576 132 17 2 2272 2397 83725124 83725255 1.120000e-20 111.0
25 TraesCS2B01G177000 chr7D 84.409 186 15 5 1930 2114 589335589 589335761 1.830000e-38 171.0
26 TraesCS2B01G177000 chr7D 82.143 196 27 7 2140 2328 589315347 589315153 1.100000e-35 161.0
27 TraesCS2B01G177000 chr1A 88.182 110 11 2 1 108 12114263 12114154 3.100000e-26 130.0
28 TraesCS2B01G177000 chrUn 87.273 110 12 2 1 108 12163922 12164031 1.440000e-24 124.0
29 TraesCS2B01G177000 chrUn 87.273 110 12 2 1 108 323309770 323309879 1.440000e-24 124.0
30 TraesCS2B01G177000 chrUn 87.273 110 12 2 1 108 341259227 341259336 1.440000e-24 124.0
31 TraesCS2B01G177000 chrUn 85.455 110 14 2 1 108 45535962 45536071 3.120000e-21 113.0


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 TraesCS2B01G177000 chr2B 152155927 152159750 3823 False 7062 7062 100.0000 1 3824 1 chr2B.!!$F1 3823
1 TraesCS2B01G177000 chr2B 151906838 151909156 2318 True 1702 2752 89.6865 1049 3422 2 chr2B.!!$R1 2373
2 TraesCS2B01G177000 chr2D 100309838 100314032 4194 False 2756 4361 91.6415 1 3793 2 chr2D.!!$F1 3792
3 TraesCS2B01G177000 chr2D 100189392 100191638 2246 True 1609 2580 89.2060 1118 3422 2 chr2D.!!$R1 2304
4 TraesCS2B01G177000 chr2A 99791702 99794252 2550 True 3535 3535 91.8320 885 3422 1 chr2A.!!$R1 2537
5 TraesCS2B01G177000 chr2A 100113105 100116348 3243 False 2233 3716 89.2275 1 3299 2 chr2A.!!$F1 3298

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
172 184 0.099791 TATGACGCTCGTTGCATCGA 59.900 50.0 18.18 18.18 43.06 3.59 F
771 799 0.179001 CCCTTCGGTGGTTTTGGTCT 60.179 55.0 0.00 0.00 0.00 3.85 F
792 820 0.250640 GCCCATGCAGATCCAGTAGG 60.251 60.0 0.00 0.00 37.47 3.18 F
2319 2744 0.618458 TTCCTACTGGTGGTGATGCC 59.382 55.0 0.00 0.00 37.90 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1317 1742 1.338200 GGCTTGTCGAGGTTGATGACT 60.338 52.381 0.00 0.0 33.81 3.41 R
2217 2642 0.179034 GGCCCTCAGCGATCATCTTT 60.179 55.000 0.00 0.0 45.17 2.52 R
2472 2900 0.614415 CTGCCTCAGTGACCTCCTCT 60.614 60.000 0.00 0.0 0.00 3.69 R
3486 3984 0.806102 CATAGACGGTCGCAACTGGG 60.806 60.000 1.89 0.0 35.97 4.45 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
32 33 6.510799 CGTCTGCAAATAAGAGATGATTGACC 60.511 42.308 0.00 0.00 0.00 4.02
33 34 6.317140 GTCTGCAAATAAGAGATGATTGACCA 59.683 38.462 0.00 0.00 0.00 4.02
47 48 1.454847 GACCAAGGGTGTTGTGGCA 60.455 57.895 0.00 0.00 35.25 4.92
66 67 2.932622 GCACCACTATGATGCCCGATAG 60.933 54.545 0.00 0.00 28.06 2.08
73 74 5.049405 CACTATGATGCCCGATAGTTTTTCC 60.049 44.000 0.00 0.00 33.90 3.13
118 130 3.368236 GCAAGACAGACCGCTAGTAAAAG 59.632 47.826 0.00 0.00 0.00 2.27
126 138 4.021719 AGACCGCTAGTAAAAGCAAGTACA 60.022 41.667 0.00 0.00 42.91 2.90
135 147 9.614792 CTAGTAAAAGCAAGTACAGGGAAATAT 57.385 33.333 0.00 0.00 0.00 1.28
170 182 3.565516 TCTATATGACGCTCGTTGCATC 58.434 45.455 0.00 0.00 43.06 3.91
172 184 0.099791 TATGACGCTCGTTGCATCGA 59.900 50.000 18.18 18.18 43.06 3.59
212 224 0.537143 AGCCAACCAACGAGCAATCA 60.537 50.000 0.00 0.00 0.00 2.57
253 271 4.455606 AGTCAAGTTCTCCAGTTTTCCTG 58.544 43.478 0.00 0.00 41.15 3.86
286 304 6.615264 ACTTTCTAGAAGGTTTCGGTTTTC 57.385 37.500 14.09 0.00 34.02 2.29
288 306 5.996669 TTCTAGAAGGTTTCGGTTTTCAC 57.003 39.130 0.00 0.00 34.02 3.18
289 307 5.026038 TCTAGAAGGTTTCGGTTTTCACA 57.974 39.130 0.00 0.00 34.02 3.58
444 468 4.670227 AATGCTCGCACTTCTAAAGAAC 57.330 40.909 0.00 0.00 0.00 3.01
446 470 4.514781 TGCTCGCACTTCTAAAGAACTA 57.485 40.909 0.00 0.00 0.00 2.24
543 569 7.414814 TTTCCCACTTTCGAAAATTATTTGC 57.585 32.000 12.41 0.00 0.00 3.68
545 571 6.155827 TCCCACTTTCGAAAATTATTTGCAG 58.844 36.000 12.41 0.00 0.00 4.41
754 782 4.070009 ACAAACTCAATTACTTCGGTCCC 58.930 43.478 0.00 0.00 0.00 4.46
755 783 4.202430 ACAAACTCAATTACTTCGGTCCCT 60.202 41.667 0.00 0.00 0.00 4.20
756 784 4.635699 AACTCAATTACTTCGGTCCCTT 57.364 40.909 0.00 0.00 0.00 3.95
757 785 4.203654 ACTCAATTACTTCGGTCCCTTC 57.796 45.455 0.00 0.00 0.00 3.46
758 786 3.187700 CTCAATTACTTCGGTCCCTTCG 58.812 50.000 0.00 0.00 0.00 3.79
771 799 0.179001 CCCTTCGGTGGTTTTGGTCT 60.179 55.000 0.00 0.00 0.00 3.85
790 818 0.987613 TGGCCCATGCAGATCCAGTA 60.988 55.000 0.00 0.00 40.13 2.74
792 820 0.250640 GCCCATGCAGATCCAGTAGG 60.251 60.000 0.00 0.00 37.47 3.18
793 821 2.656828 GCCCATGCAGATCCAGTAGGA 61.657 57.143 0.00 0.00 42.71 2.94
795 823 4.643142 GCCCATGCAGATCCAGTAGGATA 61.643 52.174 0.00 0.00 45.73 2.59
796 824 6.432219 GCCCATGCAGATCCAGTAGGATAG 62.432 54.167 0.00 0.00 45.73 2.08
970 1007 2.029739 CGTTCCCGCAAAAACCCTAATT 60.030 45.455 0.00 0.00 0.00 1.40
1614 2039 3.222855 CCTCCGCTCATCTCGGCT 61.223 66.667 0.00 0.00 46.05 5.52
1653 2078 2.481449 GGTGCGGACGATTTATGAGAGT 60.481 50.000 0.00 0.00 0.00 3.24
1758 2183 2.437897 CACCTTGGGCTGCTCCTT 59.562 61.111 0.00 0.00 34.39 3.36
1761 2186 3.066814 CTTGGGCTGCTCCTTGGC 61.067 66.667 0.00 0.00 34.39 4.52
2208 2633 2.669569 CTTGGTCCGGTGGCACTG 60.670 66.667 19.65 19.65 0.00 3.66
2217 2642 1.593196 CGGTGGCACTGAAGAAGAAA 58.407 50.000 21.95 0.00 0.00 2.52
2298 2723 2.037902 TGAGTGGCTTCGAAATGTGGTA 59.962 45.455 0.00 0.00 0.00 3.25
2319 2744 0.618458 TTCCTACTGGTGGTGATGCC 59.382 55.000 0.00 0.00 37.90 4.40
2423 2851 6.426633 GTCAAGGAGAAGAAAAAGAGGAAGAG 59.573 42.308 0.00 0.00 0.00 2.85
2585 3013 1.625818 GGCAGTGAAGGAGGAGAAGAA 59.374 52.381 0.00 0.00 0.00 2.52
2852 3286 4.037208 GCTAGTAGTTTACATCGGCTGGTA 59.963 45.833 0.00 0.00 0.00 3.25
2874 3308 8.367911 TGGTAATGTTATTTGGTTGCAATTGTA 58.632 29.630 0.59 0.00 0.00 2.41
2974 3413 2.969821 AGGTTACTGCCATTCAACCA 57.030 45.000 5.25 0.00 42.39 3.67
3037 3477 3.888323 TGGACAATGAAGCTTGTTTGCTA 59.112 39.130 2.10 0.00 43.24 3.49
3120 3561 8.213679 TCTACTGAAATATCTGGCTTGCTAATT 58.786 33.333 0.00 0.00 0.00 1.40
3169 3612 4.195225 AGCTGAAGTAGAGTTTACCAGC 57.805 45.455 11.69 11.69 43.99 4.85
3191 3634 4.440112 GCCCTAATATTTTCACCACACTGC 60.440 45.833 0.00 0.00 0.00 4.40
3261 3712 5.709164 CCATCCAGAAACCTATCATCATTCC 59.291 44.000 0.00 0.00 0.00 3.01
3342 3811 3.650281 ATATGTGTGTTCCTGGCATGA 57.350 42.857 0.00 0.00 0.00 3.07
3386 3855 7.721409 TCCTGTGTAACACAAGTGGTATATA 57.279 36.000 0.77 0.00 45.67 0.86
3447 3933 3.753797 TCATATTCGGATCGGAGAGAGTG 59.246 47.826 2.99 1.29 43.63 3.51
3449 3935 1.380524 TTCGGATCGGAGAGAGTGTC 58.619 55.000 2.99 0.00 43.63 3.67
3450 3936 0.252197 TCGGATCGGAGAGAGTGTCA 59.748 55.000 0.00 0.00 43.63 3.58
3469 3957 4.406972 TGTCATTTGGTTTCAATTGTGGGA 59.593 37.500 5.13 0.00 36.31 4.37
3470 3958 4.990426 GTCATTTGGTTTCAATTGTGGGAG 59.010 41.667 5.13 0.00 36.31 4.30
3471 3959 4.898265 TCATTTGGTTTCAATTGTGGGAGA 59.102 37.500 5.13 0.00 36.31 3.71
3472 3960 4.935352 TTTGGTTTCAATTGTGGGAGAG 57.065 40.909 5.13 0.00 32.28 3.20
3486 3984 2.037772 TGGGAGAGTTTCTTGCTCTGTC 59.962 50.000 0.00 0.00 42.74 3.51
3495 3993 1.572085 CTTGCTCTGTCCCAGTTGCG 61.572 60.000 0.00 0.00 35.92 4.85
3591 4089 3.729862 TGCATTGCATTGTCTGTTTCA 57.270 38.095 7.38 0.00 31.71 2.69
3617 4115 7.301054 AGTTAATGAAGTGAAATTTGCTCTCG 58.699 34.615 0.00 0.00 0.00 4.04
3627 4125 5.989168 TGAAATTTGCTCTCGTCTCACTTTA 59.011 36.000 0.00 0.00 0.00 1.85
3672 4170 3.949754 CTGGCTTGCCAATCTTCAATCTA 59.050 43.478 15.63 0.00 0.00 1.98
3698 4196 8.267894 ACTGTCTGCTGATATTGTTAACCTTAT 58.732 33.333 2.48 0.27 0.00 1.73
3699 4197 9.764363 CTGTCTGCTGATATTGTTAACCTTATA 57.236 33.333 2.48 0.00 0.00 0.98
3736 4234 6.773638 AGTCTAGTCAGAACATTTCAACCAT 58.226 36.000 0.00 0.00 30.85 3.55
3747 4245 5.851720 ACATTTCAACCATGTTAATGTGCA 58.148 33.333 7.10 0.00 39.29 4.57
3762 4260 9.243637 TGTTAATGTGCAAACTTCATTTTCTAC 57.756 29.630 4.98 1.57 34.35 2.59
3767 4265 6.183360 TGTGCAAACTTCATTTTCTACGTTCT 60.183 34.615 0.00 0.00 0.00 3.01
3793 4291 5.104360 AGGCATGTATTCCTGTGTCTGTTAT 60.104 40.000 0.00 0.00 0.00 1.89
3794 4292 5.237344 GGCATGTATTCCTGTGTCTGTTATC 59.763 44.000 0.00 0.00 0.00 1.75
3795 4293 6.051717 GCATGTATTCCTGTGTCTGTTATCT 58.948 40.000 0.00 0.00 0.00 1.98
3796 4294 6.018425 GCATGTATTCCTGTGTCTGTTATCTG 60.018 42.308 0.00 0.00 0.00 2.90
3797 4295 6.850752 TGTATTCCTGTGTCTGTTATCTGA 57.149 37.500 0.00 0.00 0.00 3.27
3798 4296 7.239763 TGTATTCCTGTGTCTGTTATCTGAA 57.760 36.000 0.00 0.00 0.00 3.02
3799 4297 7.851228 TGTATTCCTGTGTCTGTTATCTGAAT 58.149 34.615 0.00 0.00 0.00 2.57
3800 4298 8.321353 TGTATTCCTGTGTCTGTTATCTGAATT 58.679 33.333 0.00 0.00 0.00 2.17
3801 4299 7.856145 ATTCCTGTGTCTGTTATCTGAATTC 57.144 36.000 0.00 0.00 0.00 2.17
3802 4300 6.358974 TCCTGTGTCTGTTATCTGAATTCA 57.641 37.500 8.12 8.12 0.00 2.57
3803 4301 6.768483 TCCTGTGTCTGTTATCTGAATTCAA 58.232 36.000 9.88 1.39 0.00 2.69
3804 4302 7.397221 TCCTGTGTCTGTTATCTGAATTCAAT 58.603 34.615 9.88 8.62 0.00 2.57
3805 4303 7.335171 TCCTGTGTCTGTTATCTGAATTCAATG 59.665 37.037 9.88 0.00 0.00 2.82
3806 4304 7.335171 CCTGTGTCTGTTATCTGAATTCAATGA 59.665 37.037 9.88 4.72 0.00 2.57
3807 4305 8.620116 TGTGTCTGTTATCTGAATTCAATGAA 57.380 30.769 9.88 0.00 0.00 2.57
3808 4306 9.234827 TGTGTCTGTTATCTGAATTCAATGAAT 57.765 29.630 9.88 2.07 33.25 2.57
3819 4317 9.467258 TCTGAATTCAATGAATTTTGTTCTCAC 57.533 29.630 20.59 6.92 41.56 3.51
3820 4318 8.592105 TGAATTCAATGAATTTTGTTCTCACC 57.408 30.769 20.59 6.29 41.56 4.02
3821 4319 8.423349 TGAATTCAATGAATTTTGTTCTCACCT 58.577 29.630 20.59 0.00 41.56 4.00
3822 4320 8.822652 AATTCAATGAATTTTGTTCTCACCTC 57.177 30.769 14.86 0.00 38.89 3.85
3823 4321 6.957920 TCAATGAATTTTGTTCTCACCTCA 57.042 33.333 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 2.609747 ACTATCGGGCATCATAGTGGT 58.390 47.619 2.45 0.00 35.01 4.16
66 67 3.987868 GGAGCAAGGAAATTCGGAAAAAC 59.012 43.478 0.00 0.00 0.00 2.43
73 74 5.415415 CTATTGAGGAGCAAGGAAATTCG 57.585 43.478 0.00 0.00 40.42 3.34
118 130 3.287222 TGGCATATTTCCCTGTACTTGC 58.713 45.455 0.00 0.00 0.00 4.01
126 138 0.550914 TTCGCCTGGCATATTTCCCT 59.449 50.000 20.29 0.00 0.00 4.20
135 147 4.515191 GTCATATAGAAAATTCGCCTGGCA 59.485 41.667 20.29 0.00 0.00 4.92
170 182 6.043327 TCTGTGTGAAATAACAACAACTCG 57.957 37.500 0.00 0.00 0.00 4.18
172 184 5.221048 GGCTCTGTGTGAAATAACAACAACT 60.221 40.000 0.00 0.00 0.00 3.16
253 271 8.461249 AAACCTTCTAGAAAGTTCCTAAAACC 57.539 34.615 17.68 0.00 0.00 3.27
325 347 6.605471 AGAAAACCAATAAAATCCAGGGAC 57.395 37.500 0.00 0.00 0.00 4.46
328 350 8.567104 CCAAAAAGAAAACCAATAAAATCCAGG 58.433 33.333 0.00 0.00 0.00 4.45
409 431 7.783209 AGTGCGAGCATTTTATTTAAAACAAC 58.217 30.769 0.00 0.00 37.92 3.32
705 733 2.158841 CCGTGGTTTTGAATACGTGGAG 59.841 50.000 0.00 0.00 34.96 3.86
713 741 2.106857 TGTCCCTACCGTGGTTTTGAAT 59.893 45.455 0.00 0.00 0.00 2.57
754 782 0.951558 CCAGACCAAAACCACCGAAG 59.048 55.000 0.00 0.00 0.00 3.79
755 783 1.104577 GCCAGACCAAAACCACCGAA 61.105 55.000 0.00 0.00 0.00 4.30
756 784 1.527380 GCCAGACCAAAACCACCGA 60.527 57.895 0.00 0.00 0.00 4.69
757 785 2.561037 GGCCAGACCAAAACCACCG 61.561 63.158 0.00 0.00 38.86 4.94
758 786 2.207229 GGGCCAGACCAAAACCACC 61.207 63.158 4.39 0.00 42.05 4.61
771 799 0.987613 TACTGGATCTGCATGGGCCA 60.988 55.000 9.61 9.61 40.13 5.36
790 818 4.421131 ACGAGGGCTCATTTATCTATCCT 58.579 43.478 0.00 0.00 0.00 3.24
792 820 5.409826 CCAAACGAGGGCTCATTTATCTATC 59.590 44.000 0.00 0.00 0.00 2.08
793 821 5.308825 CCAAACGAGGGCTCATTTATCTAT 58.691 41.667 0.00 0.00 0.00 1.98
794 822 4.444306 CCCAAACGAGGGCTCATTTATCTA 60.444 45.833 0.00 0.00 43.10 1.98
795 823 3.545703 CCAAACGAGGGCTCATTTATCT 58.454 45.455 0.00 0.00 0.00 1.98
796 824 2.618709 CCCAAACGAGGGCTCATTTATC 59.381 50.000 0.00 0.00 43.10 1.75
798 826 2.122783 CCCAAACGAGGGCTCATTTA 57.877 50.000 0.00 0.00 43.10 1.40
1317 1742 1.338200 GGCTTGTCGAGGTTGATGACT 60.338 52.381 0.00 0.00 33.81 3.41
1641 2066 7.945033 CTCCAGAAGCTTACTCTCATAAATC 57.055 40.000 0.00 0.00 0.00 2.17
1758 2183 1.813337 CATATGTGCACCGACGCCA 60.813 57.895 15.69 0.00 0.00 5.69
2208 2633 6.414408 TCAGCGATCATCTTTTTCTTCTTC 57.586 37.500 0.00 0.00 0.00 2.87
2217 2642 0.179034 GGCCCTCAGCGATCATCTTT 60.179 55.000 0.00 0.00 45.17 2.52
2298 2723 1.279271 GCATCACCACCAGTAGGAAGT 59.721 52.381 0.00 0.00 38.69 3.01
2319 2744 1.269102 GCTGCAAGGCTAGCAATCATG 60.269 52.381 18.24 8.41 42.17 3.07
2423 2851 4.701765 AGCAGTTACATCATCCTCATCAC 58.298 43.478 0.00 0.00 0.00 3.06
2472 2900 0.614415 CTGCCTCAGTGACCTCCTCT 60.614 60.000 0.00 0.00 0.00 3.69
2535 2963 1.134250 GCTGATCCTGGTTCTCCCTTC 60.134 57.143 6.35 0.00 0.00 3.46
2585 3013 3.448093 TCTCCTCATCAGACAGACTGT 57.552 47.619 8.12 8.12 45.86 3.55
2676 3107 3.823873 TCTTCTCGCTCTTCTCAACTTCT 59.176 43.478 0.00 0.00 0.00 2.85
2852 3286 6.878389 CCCTACAATTGCAACCAAATAACATT 59.122 34.615 0.00 0.00 34.05 2.71
2874 3308 2.702748 ACAGGTAGTTCAAACTCCCCT 58.297 47.619 0.00 3.77 39.65 4.79
3120 3561 5.111148 ATCAGCAAACAGCAGATTGATGGA 61.111 41.667 15.37 5.18 45.96 3.41
3169 3612 4.949856 AGCAGTGTGGTGAAAATATTAGGG 59.050 41.667 0.00 0.00 0.00 3.53
3191 3634 4.575236 ACATATGAAAGCATGCTCTCACAG 59.425 41.667 25.46 18.92 35.94 3.66
3261 3712 6.531594 TCATAGAATTTAAGACTCAGTGCACG 59.468 38.462 12.01 6.78 0.00 5.34
3386 3855 2.239654 ACTAGGCTGTTATGCACCACAT 59.760 45.455 0.00 0.00 43.18 3.21
3447 3933 4.954875 TCCCACAATTGAAACCAAATGAC 58.045 39.130 13.59 0.00 30.93 3.06
3449 3935 5.212532 TCTCCCACAATTGAAACCAAATG 57.787 39.130 13.59 0.00 32.27 2.32
3450 3936 4.901250 ACTCTCCCACAATTGAAACCAAAT 59.099 37.500 13.59 0.00 0.00 2.32
3469 3957 2.050144 TGGGACAGAGCAAGAAACTCT 58.950 47.619 0.00 0.00 45.39 3.24
3470 3958 2.550830 TGGGACAGAGCAAGAAACTC 57.449 50.000 0.00 0.00 0.00 3.01
3486 3984 0.806102 CATAGACGGTCGCAACTGGG 60.806 60.000 1.89 0.00 35.97 4.45
3495 3993 3.429960 GGACTACCAAACCATAGACGGTC 60.430 52.174 0.00 0.00 35.51 4.79
3542 4040 7.067372 CCTCATTTCAGTTGAGTGGCATTATAA 59.933 37.037 0.00 0.00 39.16 0.98
3543 4041 6.543465 CCTCATTTCAGTTGAGTGGCATTATA 59.457 38.462 0.00 0.00 39.16 0.98
3544 4042 5.359009 CCTCATTTCAGTTGAGTGGCATTAT 59.641 40.000 0.00 0.00 39.16 1.28
3545 4043 4.701651 CCTCATTTCAGTTGAGTGGCATTA 59.298 41.667 0.00 0.00 39.16 1.90
3546 4044 3.508793 CCTCATTTCAGTTGAGTGGCATT 59.491 43.478 0.00 0.00 39.16 3.56
3547 4045 3.087031 CCTCATTTCAGTTGAGTGGCAT 58.913 45.455 0.00 0.00 39.16 4.40
3548 4046 2.507484 CCTCATTTCAGTTGAGTGGCA 58.493 47.619 0.00 0.00 39.16 4.92
3549 4047 1.200948 GCCTCATTTCAGTTGAGTGGC 59.799 52.381 0.00 0.00 39.16 5.01
3579 4077 8.902806 TCACTTCATTAACTTGAAACAGACAAT 58.097 29.630 0.00 0.00 35.31 2.71
3582 4080 9.736023 ATTTCACTTCATTAACTTGAAACAGAC 57.264 29.630 0.00 0.00 38.60 3.51
3590 4088 8.807667 AGAGCAAATTTCACTTCATTAACTTG 57.192 30.769 0.00 0.00 0.00 3.16
3591 4089 7.805071 CGAGAGCAAATTTCACTTCATTAACTT 59.195 33.333 0.00 0.00 0.00 2.66
3617 4115 3.190953 ACAGCGGACTACTAAAGTGAGAC 59.809 47.826 0.00 0.00 39.07 3.36
3627 4125 3.119101 CCATTTGACTACAGCGGACTACT 60.119 47.826 0.00 0.00 0.00 2.57
3672 4170 6.054860 AGGTTAACAATATCAGCAGACAGT 57.945 37.500 8.10 0.00 0.00 3.55
3709 4207 7.556275 TGGTTGAAATGTTCTGACTAGACTTTT 59.444 33.333 0.00 0.00 31.21 2.27
3731 4229 5.911752 TGAAGTTTGCACATTAACATGGTT 58.088 33.333 0.00 0.00 34.27 3.67
3736 4234 9.243637 GTAGAAAATGAAGTTTGCACATTAACA 57.756 29.630 2.09 0.00 34.48 2.41
3747 4245 6.293462 GCCTGAGAACGTAGAAAATGAAGTTT 60.293 38.462 0.00 0.00 0.00 2.66
3762 4260 3.185246 AGGAATACATGCCTGAGAACG 57.815 47.619 0.00 0.00 32.06 3.95
3793 4291 9.467258 GTGAGAACAAAATTCATTGAATTCAGA 57.533 29.630 21.63 0.54 40.77 3.27
3794 4292 8.706035 GGTGAGAACAAAATTCATTGAATTCAG 58.294 33.333 21.63 18.54 40.77 3.02
3795 4293 8.423349 AGGTGAGAACAAAATTCATTGAATTCA 58.577 29.630 21.63 12.58 40.77 2.57
3796 4294 8.822652 AGGTGAGAACAAAATTCATTGAATTC 57.177 30.769 21.63 11.91 40.77 2.17
3797 4295 8.423349 TGAGGTGAGAACAAAATTCATTGAATT 58.577 29.630 17.03 17.03 43.07 2.17
3798 4296 7.954835 TGAGGTGAGAACAAAATTCATTGAAT 58.045 30.769 6.06 6.06 33.25 2.57
3799 4297 7.345422 TGAGGTGAGAACAAAATTCATTGAA 57.655 32.000 0.75 0.75 34.38 2.69
3800 4298 6.957920 TGAGGTGAGAACAAAATTCATTGA 57.042 33.333 0.00 0.00 34.38 2.57


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

AutoCloner maintained by Alex Coulton.