Multiple sequence alignment - TraesCS6B01G236000

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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 TraesCS6B01G236000 chr6B 100.000 4634 0 0 1 4634 404984938 404989571 0.000000e+00 8558.0
1 TraesCS6B01G236000 chr6B 88.028 142 14 2 3936 4077 468734458 468734596 1.030000e-36 165.0
2 TraesCS6B01G236000 chr6D 96.593 3551 100 9 349 3892 263930326 263933862 0.000000e+00 5867.0
3 TraesCS6B01G236000 chr6D 89.655 754 37 8 3888 4634 263939356 263940075 0.000000e+00 922.0
4 TraesCS6B01G236000 chr6D 85.965 342 22 9 1 340 263929573 263929890 4.440000e-90 342.0
5 TraesCS6B01G236000 chr6A 97.098 2860 65 8 921 3779 371735788 371732946 0.000000e+00 4806.0
6 TraesCS6B01G236000 chr6A 91.080 639 48 4 4005 4634 371727610 371726972 0.000000e+00 856.0
7 TraesCS6B01G236000 chr6A 87.373 491 61 1 396 885 371736285 371735795 3.130000e-156 562.0
8 TraesCS6B01G236000 chr6A 86.066 244 13 9 3779 4007 371727846 371728083 4.630000e-60 243.0
9 TraesCS6B01G236000 chr3B 79.253 241 47 3 682 920 325875680 325875919 1.030000e-36 165.0
10 TraesCS6B01G236000 chr4D 88.806 134 14 1 3945 4077 74079349 74079482 3.710000e-36 163.0
11 TraesCS6B01G236000 chr4D 86.395 147 20 0 3947 4093 428587794 428587940 1.330000e-35 161.0
12 TraesCS6B01G236000 chr4D 81.875 160 14 13 397 550 374300596 374300746 2.260000e-23 121.0
13 TraesCS6B01G236000 chr2B 78.077 260 54 3 665 922 238638622 238638880 1.330000e-35 161.0
14 TraesCS6B01G236000 chr2B 96.364 55 2 0 466 520 789496824 789496878 1.780000e-14 91.6
15 TraesCS6B01G236000 chr5D 88.636 132 14 1 3947 4077 175299904 175300035 4.800000e-35 159.0
16 TraesCS6B01G236000 chr5D 89.394 66 7 0 140 205 105353323 105353388 2.970000e-12 84.2
17 TraesCS6B01G236000 chr1B 88.550 131 15 0 3947 4077 667230626 667230496 4.800000e-35 159.0
18 TraesCS6B01G236000 chrUn 78.423 241 49 3 682 920 472856928 472857167 2.230000e-33 154.0
19 TraesCS6B01G236000 chr4A 85.034 147 22 0 3947 4093 37807058 37806912 2.890000e-32 150.0
20 TraesCS6B01G236000 chr4A 78.390 236 46 5 686 919 26661634 26661866 1.040000e-31 148.0
21 TraesCS6B01G236000 chr2A 87.023 131 17 0 3947 4077 330080073 330080203 1.040000e-31 148.0


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 TraesCS6B01G236000 chr6B 404984938 404989571 4633 False 8558.0 8558 100.0000 1 4634 1 chr6B.!!$F1 4633
1 TraesCS6B01G236000 chr6D 263929573 263933862 4289 False 3104.5 5867 91.2790 1 3892 2 chr6D.!!$F2 3891
2 TraesCS6B01G236000 chr6D 263939356 263940075 719 False 922.0 922 89.6550 3888 4634 1 chr6D.!!$F1 746
3 TraesCS6B01G236000 chr6A 371732946 371736285 3339 True 2684.0 4806 92.2355 396 3779 2 chr6A.!!$R2 3383
4 TraesCS6B01G236000 chr6A 371726972 371727610 638 True 856.0 856 91.0800 4005 4634 1 chr6A.!!$R1 629

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
305 308 0.041386 AACCTCCTCCTTCCTAGCGT 59.959 55.000 0.00 0.0 0.00 5.07 F
474 904 0.183492 AGCAACAGAAAGGAGGTGCA 59.817 50.000 5.19 0.0 0.00 4.57 F
1244 1680 0.676782 ACCGCCTACTCCAACAATGC 60.677 55.000 0.00 0.0 0.00 3.56 F
2817 3253 1.216178 GCGCATTGCTCCAAACCAT 59.784 52.632 0.30 0.0 41.73 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1503 1939 0.620556 ACATCAGGCCGTTCCAAGAT 59.379 50.000 0.0 0.0 37.29 2.40 R
1687 2123 1.143183 CCTTGTCATACCCCGTCCG 59.857 63.158 0.0 0.0 0.00 4.79 R
2979 3415 0.592637 TGTTGACAAGCTCCATTGCG 59.407 50.000 0.0 0.0 38.13 4.85 R
4515 4964 0.469331 CCTCCCTATCCTGGTGCGTA 60.469 60.000 0.0 0.0 0.00 4.42 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
19 20 1.393603 CTAGCGGACATGAGAGGACA 58.606 55.000 0.00 0.00 0.00 4.02
20 21 1.066303 CTAGCGGACATGAGAGGACAC 59.934 57.143 0.00 0.00 0.00 3.67
21 22 1.517257 GCGGACATGAGAGGACACG 60.517 63.158 0.00 0.00 0.00 4.49
22 23 1.517257 CGGACATGAGAGGACACGC 60.517 63.158 0.00 0.00 0.00 5.34
23 24 1.517257 GGACATGAGAGGACACGCG 60.517 63.158 3.53 3.53 0.00 6.01
24 25 2.125912 ACATGAGAGGACACGCGC 60.126 61.111 5.73 0.00 0.00 6.86
25 26 3.250323 CATGAGAGGACACGCGCG 61.250 66.667 30.96 30.96 0.00 6.86
118 120 4.719616 GCCGTCGTTGCTGCGTTC 62.720 66.667 0.00 0.00 0.00 3.95
119 121 4.072088 CCGTCGTTGCTGCGTTCC 62.072 66.667 0.00 0.00 0.00 3.62
120 122 3.036084 CGTCGTTGCTGCGTTCCT 61.036 61.111 0.00 0.00 0.00 3.36
121 123 2.853914 GTCGTTGCTGCGTTCCTC 59.146 61.111 0.00 0.00 0.00 3.71
122 124 1.664965 GTCGTTGCTGCGTTCCTCT 60.665 57.895 0.00 0.00 0.00 3.69
123 125 1.372997 TCGTTGCTGCGTTCCTCTC 60.373 57.895 0.00 0.00 0.00 3.20
124 126 2.720758 CGTTGCTGCGTTCCTCTCG 61.721 63.158 0.00 0.00 0.00 4.04
131 133 2.811317 CGTTCCTCTCGCACAGCC 60.811 66.667 0.00 0.00 0.00 4.85
132 134 2.811317 GTTCCTCTCGCACAGCCG 60.811 66.667 0.00 0.00 0.00 5.52
133 135 3.303135 TTCCTCTCGCACAGCCGT 61.303 61.111 0.00 0.00 0.00 5.68
134 136 3.282745 TTCCTCTCGCACAGCCGTC 62.283 63.158 0.00 0.00 0.00 4.79
188 190 4.421554 CCTCCTCCTCCCCCAGCA 62.422 72.222 0.00 0.00 0.00 4.41
207 209 4.660938 GCCAACGTTGCCTCCCCT 62.661 66.667 22.93 0.00 0.00 4.79
208 210 2.359975 CCAACGTTGCCTCCCCTC 60.360 66.667 22.93 0.00 0.00 4.30
216 219 1.075601 TTGCCTCCCCTCTGAACAAT 58.924 50.000 0.00 0.00 0.00 2.71
223 226 2.099062 CTCTGAACAATGCGCCGC 59.901 61.111 4.18 0.00 0.00 6.53
249 252 4.154347 CCCTCTCTCCCAGCACGC 62.154 72.222 0.00 0.00 0.00 5.34
300 303 1.846712 GCTGCAACCTCCTCCTTCCT 61.847 60.000 0.00 0.00 0.00 3.36
304 307 0.461961 CAACCTCCTCCTTCCTAGCG 59.538 60.000 0.00 0.00 0.00 4.26
305 308 0.041386 AACCTCCTCCTTCCTAGCGT 59.959 55.000 0.00 0.00 0.00 5.07
307 310 1.439644 CTCCTCCTTCCTAGCGTGC 59.560 63.158 0.00 0.00 0.00 5.34
412 842 1.302033 CGCAGCAGAAAGGAGGTGT 60.302 57.895 0.00 0.00 35.77 4.16
437 867 1.079750 GTCGAGCTTCTTCGGGCTT 60.080 57.895 0.00 0.00 40.83 4.35
446 876 3.689002 CTTCGGGCTTCCCTGCTCC 62.689 68.421 0.00 0.00 42.67 4.70
470 900 3.748568 GTGAAGTAGCAACAGAAAGGAGG 59.251 47.826 0.00 0.00 0.00 4.30
474 904 0.183492 AGCAACAGAAAGGAGGTGCA 59.817 50.000 5.19 0.00 0.00 4.57
564 994 2.835705 CGCCGCCGTAGATCTCACT 61.836 63.158 0.00 0.00 0.00 3.41
566 996 2.005960 GCCGCCGTAGATCTCACTGT 62.006 60.000 0.00 0.00 0.00 3.55
590 1020 1.815421 CCCGCCAAGATCAGAACGG 60.815 63.158 9.51 9.51 40.30 4.44
707 1137 1.823295 CTGATACGTGGGACCAGGG 59.177 63.158 14.74 2.31 36.28 4.45
728 1158 3.649277 GACACGCGAGGGCATGAGT 62.649 63.158 15.93 0.00 38.93 3.41
729 1159 2.434884 CACGCGAGGGCATGAGTT 60.435 61.111 15.93 0.00 33.28 3.01
732 1162 2.825836 GCGAGGGCATGAGTTGGG 60.826 66.667 0.00 0.00 39.62 4.12
777 1207 1.885871 GCAGACCCATTTGTGGCTC 59.114 57.895 0.00 0.00 0.00 4.70
801 1231 1.344065 TTGGGCTCAGTTTAGGTCGA 58.656 50.000 0.00 0.00 0.00 4.20
803 1233 0.896226 GGGCTCAGTTTAGGTCGAGT 59.104 55.000 0.00 0.00 0.00 4.18
810 1240 2.030540 CAGTTTAGGTCGAGTCGGACAA 60.031 50.000 13.54 0.00 38.70 3.18
819 1249 1.670087 CGAGTCGGACAACAAGCTGAT 60.670 52.381 11.27 0.00 0.00 2.90
864 1294 4.268828 TGAATCATCCCATTGGGTCAAT 57.731 40.909 21.31 10.08 44.74 2.57
912 1342 2.202932 CGGGTCGCTGGATTGGAG 60.203 66.667 0.00 0.00 0.00 3.86
949 1379 3.685214 CTCCGTGCCTCGACCTTCG 62.685 68.421 0.02 0.00 42.86 3.79
1033 1469 4.166888 GCATCAGCCCGCTCCTCA 62.167 66.667 0.00 0.00 33.58 3.86
1244 1680 0.676782 ACCGCCTACTCCAACAATGC 60.677 55.000 0.00 0.00 0.00 3.56
1557 1993 2.587194 GACCGATGCAGCGATGCT 60.587 61.111 28.29 12.35 40.77 3.79
1611 2047 2.356553 CGGCCGAACGAGTTTGGA 60.357 61.111 24.07 0.00 45.11 3.53
1687 2123 2.359354 TGCACGCCATGGTGGTAC 60.359 61.111 28.34 17.14 40.46 3.34
2003 2439 1.335810 CATGATCAAATCCTGTGCGGG 59.664 52.381 0.00 0.00 0.00 6.13
2207 2643 4.401925 AGGAAGGAAGGTTTTGACATCAG 58.598 43.478 0.00 0.00 0.00 2.90
2442 2878 2.884827 TCAATGATCACAGCACTCTCG 58.115 47.619 0.00 0.00 0.00 4.04
2446 2882 1.419874 GATCACAGCACTCTCGCAGC 61.420 60.000 0.00 0.00 0.00 5.25
2460 2896 2.741985 CAGCGTGACCATGGCGAA 60.742 61.111 13.04 0.00 0.00 4.70
2817 3253 1.216178 GCGCATTGCTCCAAACCAT 59.784 52.632 0.30 0.00 41.73 3.55
2955 3391 7.725818 TTACTCATGCATGATTGATCTTCTC 57.274 36.000 28.81 0.00 36.02 2.87
2958 3394 3.548745 TGCATGATTGATCTTCTCGGT 57.451 42.857 0.00 0.00 0.00 4.69
2979 3415 2.159338 TCGTGCCGGTAAACTAGATGAC 60.159 50.000 1.90 0.00 0.00 3.06
3114 3550 1.227497 GCTCTTCATCCTGGAGCCG 60.227 63.158 1.52 0.00 44.46 5.52
3546 3982 5.343058 CGTCGCATTCAAGTTCATTTCAAAT 59.657 36.000 0.00 0.00 0.00 2.32
3712 4149 0.321653 ACATGCCTTCACGGAGGTTC 60.322 55.000 0.00 0.00 39.11 3.62
3713 4150 0.036010 CATGCCTTCACGGAGGTTCT 60.036 55.000 0.00 0.00 39.11 3.01
3755 4192 2.363406 GCCCTTGGCCTCTGCATT 60.363 61.111 3.32 0.00 44.06 3.56
3784 4221 7.278875 TGACACACACAGCCATATATTATTGA 58.721 34.615 0.00 0.00 0.00 2.57
3847 4284 9.921637 TTTAACACATGTGGAAATTCCTATTTC 57.078 29.630 28.64 0.00 45.81 2.17
3892 4329 2.288579 ACCGTCGCAACTCACATCTTTA 60.289 45.455 0.00 0.00 0.00 1.85
3940 4377 2.028484 GTGTGTTCCCACGCGAGA 59.972 61.111 15.93 3.14 44.92 4.04
3956 4393 2.937799 GCGAGATATACTACTCCCTCCG 59.062 54.545 0.00 0.00 0.00 4.63
3961 4398 5.315348 AGATATACTACTCCCTCCGTTCAC 58.685 45.833 0.00 0.00 0.00 3.18
3967 4404 3.329929 ACTCCCTCCGTTCACAAATAC 57.670 47.619 0.00 0.00 0.00 1.89
3972 4409 3.435671 CCCTCCGTTCACAAATACAAGAC 59.564 47.826 0.00 0.00 0.00 3.01
3994 4431 5.744490 ACGTTCTAACCTTTTTGTGAATCG 58.256 37.500 0.00 0.00 0.00 3.34
4036 4473 9.848172 GTTTTAGTGTGTTTATTTGCTCATTTG 57.152 29.630 0.00 0.00 0.00 2.32
4050 4487 6.182039 TGCTCATTTGAGTTTGTATGTAGC 57.818 37.500 9.21 0.00 43.85 3.58
4051 4488 5.123820 TGCTCATTTGAGTTTGTATGTAGCC 59.876 40.000 9.21 0.00 43.85 3.93
4084 4527 8.483307 AAATATCCAAAACATCTTGTGAATGC 57.517 30.769 0.00 0.00 0.00 3.56
4192 4635 9.097257 CATTGATGAACACATACACACTGTATA 57.903 33.333 0.00 0.00 41.28 1.47
4229 4673 8.737175 CAAGTGTACAACTCTGGTACTAGATAA 58.263 37.037 9.62 0.00 41.27 1.75
4312 4757 8.213518 ACTGTCAACATTGTGCTTATAATAGG 57.786 34.615 0.00 0.00 0.00 2.57
4326 4771 7.048512 GCTTATAATAGGTGGACAGACTTTGT 58.951 38.462 0.00 0.00 44.55 2.83
4338 4783 6.422701 TGGACAGACTTTGTACGAAATAGTTG 59.577 38.462 0.00 0.00 44.17 3.16
4348 4793 2.987149 ACGAAATAGTTGAGCGTCAGTG 59.013 45.455 0.00 0.00 0.00 3.66
4353 4798 4.727507 ATAGTTGAGCGTCAGTGAAGAT 57.272 40.909 10.48 2.87 0.00 2.40
4385 4830 7.550712 GGAATAACCTCTGCAGAATTCATTTT 58.449 34.615 27.78 14.10 35.41 1.82
4392 4837 8.248945 ACCTCTGCAGAATTCATTTTTGAATAG 58.751 33.333 18.85 0.00 37.52 1.73
4398 4843 9.798994 GCAGAATTCATTTTTGAATAGTCTGAT 57.201 29.630 22.51 2.23 41.26 2.90
4452 4898 7.672983 AAACTGCATTAAGAAAGAATCTCGA 57.327 32.000 0.00 0.00 37.42 4.04
4453 4899 6.654793 ACTGCATTAAGAAAGAATCTCGAC 57.345 37.500 0.00 0.00 37.42 4.20
4454 4900 5.289675 ACTGCATTAAGAAAGAATCTCGACG 59.710 40.000 0.00 0.00 37.42 5.12
4612 5061 6.473455 GGCAAAAATACAAATCCAAGAGATCG 59.527 38.462 0.00 0.00 32.47 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.250323 CGCGCGTGTCCTCTCATG 61.250 66.667 24.19 0.00 0.00 3.07
24 25 4.540735 GGGTACATCCACGGCCCG 62.541 72.222 0.00 0.00 38.11 6.13
25 26 2.974041 TTGGGTACATCCACGGCCC 61.974 63.158 0.00 0.00 36.38 5.80
27 28 2.104253 CGTTGGGTACATCCACGGC 61.104 63.158 0.00 0.00 36.38 5.68
103 105 3.000080 GAGGAACGCAGCAACGACG 62.000 63.158 5.33 0.00 36.70 5.12
105 107 1.372997 GAGAGGAACGCAGCAACGA 60.373 57.895 5.33 0.00 36.70 3.85
114 116 2.811317 GGCTGTGCGAGAGGAACG 60.811 66.667 0.00 0.00 0.00 3.95
115 117 2.811317 CGGCTGTGCGAGAGGAAC 60.811 66.667 0.00 0.00 0.00 3.62
116 118 3.282745 GACGGCTGTGCGAGAGGAA 62.283 63.158 0.80 0.00 0.00 3.36
117 119 3.749064 GACGGCTGTGCGAGAGGA 61.749 66.667 0.80 0.00 0.00 3.71
132 134 4.115199 AGGGGAAGGCCATGCGAC 62.115 66.667 5.01 0.00 35.15 5.19
133 135 3.797353 GAGGGGAAGGCCATGCGA 61.797 66.667 5.01 0.00 35.15 5.10
134 136 4.883354 GGAGGGGAAGGCCATGCG 62.883 72.222 5.01 0.00 35.15 4.73
135 137 4.529731 GGGAGGGGAAGGCCATGC 62.530 72.222 5.01 0.00 35.15 4.06
193 195 1.415672 TTCAGAGGGGAGGCAACGTT 61.416 55.000 0.00 0.00 46.39 3.99
194 196 1.841556 TTCAGAGGGGAGGCAACGT 60.842 57.895 0.00 0.00 46.39 3.99
196 198 0.110486 TTGTTCAGAGGGGAGGCAAC 59.890 55.000 0.00 0.00 0.00 4.17
207 209 3.430862 GGCGGCGCATTGTTCAGA 61.431 61.111 34.36 0.00 0.00 3.27
208 210 4.817063 CGGCGGCGCATTGTTCAG 62.817 66.667 34.36 9.58 0.00 3.02
223 226 4.154347 GAGAGAGGGTGGCAGCGG 62.154 72.222 10.99 0.00 0.00 5.52
283 286 1.573108 CTAGGAAGGAGGAGGTTGCA 58.427 55.000 0.00 0.00 0.00 4.08
286 289 0.041386 ACGCTAGGAAGGAGGAGGTT 59.959 55.000 0.00 0.00 0.00 3.50
340 343 4.432741 GTGGGGAGGGAAGGCAGC 62.433 72.222 0.00 0.00 0.00 5.25
341 344 2.935481 TGTGGGGAGGGAAGGCAG 60.935 66.667 0.00 0.00 0.00 4.85
342 345 2.935481 CTGTGGGGAGGGAAGGCA 60.935 66.667 0.00 0.00 0.00 4.75
343 346 2.936032 ACTGTGGGGAGGGAAGGC 60.936 66.667 0.00 0.00 0.00 4.35
344 347 3.081554 CACTGTGGGGAGGGAAGG 58.918 66.667 0.00 0.00 0.00 3.46
345 348 2.352805 GCACTGTGGGGAGGGAAG 59.647 66.667 10.21 0.00 0.00 3.46
346 349 3.636231 CGCACTGTGGGGAGGGAA 61.636 66.667 16.27 0.00 0.00 3.97
391 821 1.003355 CCTCCTTTCTGCTGCGGAA 60.003 57.895 19.45 19.45 0.00 4.30
397 827 1.073897 GGCACACCTCCTTTCTGCT 59.926 57.895 0.00 0.00 0.00 4.24
420 850 1.215647 GAAGCCCGAAGAAGCTCGA 59.784 57.895 0.00 0.00 41.44 4.04
437 867 0.970937 CTACTTCACCGGAGCAGGGA 60.971 60.000 9.46 0.00 35.02 4.20
446 876 2.480419 CCTTTCTGTTGCTACTTCACCG 59.520 50.000 0.00 0.00 0.00 4.94
554 984 2.111384 GGGGAGCAACAGTGAGATCTA 58.889 52.381 0.00 0.00 0.00 1.98
724 1154 2.636412 CGCTCTCGTCCCCAACTCA 61.636 63.158 0.00 0.00 0.00 3.41
777 1207 4.615912 CGACCTAAACTGAGCCCAAATTTG 60.616 45.833 11.40 11.40 0.00 2.32
794 1224 1.538512 CTTGTTGTCCGACTCGACCTA 59.461 52.381 0.00 0.00 31.35 3.08
801 1231 2.675317 GCTATCAGCTTGTTGTCCGACT 60.675 50.000 0.00 0.00 38.45 4.18
803 1233 1.275010 TGCTATCAGCTTGTTGTCCGA 59.725 47.619 0.00 0.00 42.97 4.55
810 1240 0.250234 TCCGCTTGCTATCAGCTTGT 59.750 50.000 0.00 0.00 42.97 3.16
872 1302 1.134818 TCGTCCATTTGAGTCATCCCG 60.135 52.381 0.00 0.00 0.00 5.14
873 1303 2.691409 TCGTCCATTTGAGTCATCCC 57.309 50.000 0.00 0.00 0.00 3.85
874 1304 3.181520 CGTTTCGTCCATTTGAGTCATCC 60.182 47.826 0.00 0.00 0.00 3.51
876 1306 2.742053 CCGTTTCGTCCATTTGAGTCAT 59.258 45.455 0.00 0.00 0.00 3.06
877 1307 2.139917 CCGTTTCGTCCATTTGAGTCA 58.860 47.619 0.00 0.00 0.00 3.41
878 1308 1.463444 CCCGTTTCGTCCATTTGAGTC 59.537 52.381 0.00 0.00 0.00 3.36
879 1309 1.202722 ACCCGTTTCGTCCATTTGAGT 60.203 47.619 0.00 0.00 0.00 3.41
880 1310 1.463444 GACCCGTTTCGTCCATTTGAG 59.537 52.381 0.00 0.00 0.00 3.02
881 1311 1.515081 GACCCGTTTCGTCCATTTGA 58.485 50.000 0.00 0.00 0.00 2.69
883 1313 1.571215 GCGACCCGTTTCGTCCATTT 61.571 55.000 5.00 0.00 41.26 2.32
912 1342 1.351350 AGGGGGAACTGTTAGAGCAAC 59.649 52.381 0.00 0.00 37.67 4.17
1293 1729 1.954146 GAACTCGTTGCAGCGGACA 60.954 57.895 22.99 2.71 0.00 4.02
1503 1939 0.620556 ACATCAGGCCGTTCCAAGAT 59.379 50.000 0.00 0.00 37.29 2.40
1557 1993 1.664649 CTCGCCAAACAGCTCGACA 60.665 57.895 0.00 0.00 0.00 4.35
1593 2029 4.084888 CCAAACTCGTTCGGCCGC 62.085 66.667 23.51 6.46 0.00 6.53
1611 2047 2.350522 GCATTCACGACACAGGAGAAT 58.649 47.619 0.00 0.00 0.00 2.40
1687 2123 1.143183 CCTTGTCATACCCCGTCCG 59.857 63.158 0.00 0.00 0.00 4.79
2003 2439 5.692204 CCAACACCGATATAGTCATCTGAAC 59.308 44.000 0.00 0.00 0.00 3.18
2207 2643 2.893398 CAGCCAGGGTCGTCCTAC 59.107 66.667 0.00 0.00 46.12 3.18
2446 2882 2.009108 CATCTTCGCCATGGTCACG 58.991 57.895 14.67 8.84 0.00 4.35
2457 2893 6.252015 CCATGAACAACTTTATTGCATCTTCG 59.748 38.462 0.00 0.00 0.00 3.79
2460 2896 6.660521 TCTCCATGAACAACTTTATTGCATCT 59.339 34.615 0.00 0.00 0.00 2.90
2817 3253 4.095036 CAGAGAACACTAGTCAGCGTGATA 59.905 45.833 0.00 0.00 35.23 2.15
2937 3373 4.063689 GACCGAGAAGATCAATCATGCAT 58.936 43.478 0.00 0.00 0.00 3.96
2979 3415 0.592637 TGTTGACAAGCTCCATTGCG 59.407 50.000 0.00 0.00 38.13 4.85
3114 3550 1.021390 CATGTGTGCCCGACTTCTCC 61.021 60.000 0.00 0.00 0.00 3.71
3546 3982 7.962441 TGATGATAATCTCCCTTGAAACGATA 58.038 34.615 0.00 0.00 0.00 2.92
3755 4192 0.469494 ATGGCTGTGTGTGTCACTCA 59.531 50.000 4.27 3.93 46.27 3.41
3794 4231 5.389098 GCTGCAACATCATTTGTTTGACATC 60.389 40.000 0.00 0.00 46.51 3.06
3847 4284 7.414540 GGTCTGTTCATTTCATTAGTTGCTAGG 60.415 40.741 0.00 0.00 0.00 3.02
3848 4285 7.467623 GGTCTGTTCATTTCATTAGTTGCTAG 58.532 38.462 0.00 0.00 0.00 3.42
3849 4286 6.092122 CGGTCTGTTCATTTCATTAGTTGCTA 59.908 38.462 0.00 0.00 0.00 3.49
3850 4287 5.106555 CGGTCTGTTCATTTCATTAGTTGCT 60.107 40.000 0.00 0.00 0.00 3.91
3851 4288 5.088739 CGGTCTGTTCATTTCATTAGTTGC 58.911 41.667 0.00 0.00 0.00 4.17
3898 4335 7.561356 ACCCAGATGCAAAGCTATATTTTTAGT 59.439 33.333 0.00 0.00 0.00 2.24
3905 4342 4.139786 CACACCCAGATGCAAAGCTATAT 58.860 43.478 0.00 0.00 0.00 0.86
3939 4376 5.068636 TGTGAACGGAGGGAGTAGTATATC 58.931 45.833 0.00 0.00 0.00 1.63
3940 4377 5.057843 TGTGAACGGAGGGAGTAGTATAT 57.942 43.478 0.00 0.00 0.00 0.86
3956 4393 7.042254 AGGTTAGAACGTCTTGTATTTGTGAAC 60.042 37.037 0.00 0.00 0.00 3.18
3961 4398 8.953990 CAAAAAGGTTAGAACGTCTTGTATTTG 58.046 33.333 0.00 0.00 0.00 2.32
3967 4404 6.114221 TCACAAAAAGGTTAGAACGTCTTG 57.886 37.500 0.00 7.68 0.00 3.02
3972 4409 5.049954 TCCGATTCACAAAAAGGTTAGAACG 60.050 40.000 0.00 0.00 0.00 3.95
4036 4473 4.941263 TCAACATGGGCTACATACAAACTC 59.059 41.667 0.00 0.00 37.84 3.01
4050 4487 7.558604 AGATGTTTTGGATATTTCAACATGGG 58.441 34.615 0.00 0.00 38.02 4.00
4051 4488 8.875803 CAAGATGTTTTGGATATTTCAACATGG 58.124 33.333 0.00 0.00 38.02 3.66
4084 4527 4.340950 ACAAACACAAAATGGTACTCCCTG 59.659 41.667 0.00 0.00 0.00 4.45
4142 4585 4.521639 AGACAATGACACAATGACAATGCT 59.478 37.500 0.00 0.00 28.54 3.79
4192 4635 5.186198 AGTTGTACACTTGAAGAGTTGCTT 58.814 37.500 0.00 0.00 36.10 3.91
4254 4698 8.877864 ATAGTCAGTTATTTGTTCCAATGGAA 57.122 30.769 11.23 11.23 39.66 3.53
4312 4757 5.924825 ACTATTTCGTACAAAGTCTGTCCAC 59.075 40.000 0.00 0.00 39.64 4.02
4326 4771 4.083164 TCACTGACGCTCAACTATTTCGTA 60.083 41.667 0.00 0.00 33.21 3.43
4338 4783 2.412065 GCAAACATCTTCACTGACGCTC 60.412 50.000 0.00 0.00 0.00 5.03
4348 4793 4.636206 AGAGGTTATTCCGCAAACATCTTC 59.364 41.667 0.00 0.00 42.30 2.87
4353 4798 1.810151 GCAGAGGTTATTCCGCAAACA 59.190 47.619 0.00 0.00 41.99 2.83
4392 4837 6.094186 TCGAGCATCTGTATATACCATCAGAC 59.906 42.308 10.38 0.00 39.27 3.51
4398 4843 4.703645 GCTCGAGCATCTGTATATACCA 57.296 45.455 31.91 0.00 41.59 3.25
4412 4857 3.422217 GCAGTTTTTACTTTTGCTCGAGC 59.578 43.478 30.42 30.42 42.50 5.03
4452 4898 5.655488 CTGAAGAGGTCTATGAATTGTCGT 58.345 41.667 0.00 0.00 0.00 4.34
4453 4899 4.505922 GCTGAAGAGGTCTATGAATTGTCG 59.494 45.833 0.00 0.00 0.00 4.35
4454 4900 5.669477 AGCTGAAGAGGTCTATGAATTGTC 58.331 41.667 0.00 0.00 0.00 3.18
4515 4964 0.469331 CCTCCCTATCCTGGTGCGTA 60.469 60.000 0.00 0.00 0.00 4.42


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

AutoCloner maintained by Alex Coulton.