Multiple sequence alignment - TraesCS1A01G041400

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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 TraesCS1A01G041400 chr1A 100.000 2237 0 0 1 2237 22657965 22655729 0.000000e+00 4132.0
1 TraesCS1A01G041400 chr1D 93.278 1696 89 15 512 2192 10986302 10987987 0.000000e+00 2477.0
2 TraesCS1A01G041400 chr1D 96.607 619 21 0 1219 1837 11081967 11082585 0.000000e+00 1027.0
3 TraesCS1A01G041400 chr1D 96.607 619 20 1 1219 1837 11001891 11002508 0.000000e+00 1026.0
4 TraesCS1A01G041400 chr1D 96.000 625 19 1 1219 1837 11115974 11116598 0.000000e+00 1011.0
5 TraesCS1A01G041400 chr1D 96.123 619 21 1 1219 1837 11032761 11033376 0.000000e+00 1007.0
6 TraesCS1A01G041400 chr1D 92.541 362 18 4 1833 2192 11007764 11008118 5.510000e-141 510.0
7 TraesCS1A01G041400 chr1D 92.541 362 18 4 1833 2192 11038625 11038979 5.510000e-141 510.0
8 TraesCS1A01G041400 chr1D 92.541 362 18 4 1833 2192 11121857 11122211 5.510000e-141 510.0
9 TraesCS1A01G041400 chr1D 92.265 362 19 4 1833 2192 11087827 11088181 2.560000e-139 505.0
10 TraesCS1A01G041400 chr1B 89.850 1399 94 19 1 1376 16464498 16465871 0.000000e+00 1753.0
11 TraesCS1A01G041400 chr1B 76.509 464 86 12 14 461 23839699 23840155 4.800000e-57 231.0
12 TraesCS1A01G041400 chr2B 98.113 53 1 0 2185 2237 684629536 684629484 2.370000e-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 TraesCS1A01G041400 chr1A 22655729 22657965 2236 True 4132 4132 100.000 1 2237 1 chr1A.!!$R1 2236
1 TraesCS1A01G041400 chr1D 10986302 10987987 1685 False 2477 2477 93.278 512 2192 1 chr1D.!!$F1 1680
2 TraesCS1A01G041400 chr1D 11081967 11082585 618 False 1027 1027 96.607 1219 1837 1 chr1D.!!$F6 618
3 TraesCS1A01G041400 chr1D 11001891 11002508 617 False 1026 1026 96.607 1219 1837 1 chr1D.!!$F2 618
4 TraesCS1A01G041400 chr1D 11115974 11116598 624 False 1011 1011 96.000 1219 1837 1 chr1D.!!$F8 618
5 TraesCS1A01G041400 chr1D 11032761 11033376 615 False 1007 1007 96.123 1219 1837 1 chr1D.!!$F4 618
6 TraesCS1A01G041400 chr1B 16464498 16465871 1373 False 1753 1753 89.850 1 1376 1 chr1B.!!$F1 1375

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
369 383 0.106708 GGCACACACTCACCAGAAGA 59.893 55.0 0.0 0.0 0.0 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1513 1545 0.541063 TGCCACGTGGAAGGACTAGA 60.541 55.0 38.3 6.22 37.39 2.43 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
48 49 1.071814 GTAGGGGTGTCGGCAACAA 59.928 57.895 7.66 0.00 40.31 2.83
52 53 3.650369 GGTGTCGGCAACAACGAT 58.350 55.556 0.00 0.00 42.82 3.73
89 90 1.303282 GGGCCTTAAGTCCTGGGTG 59.697 63.158 0.84 0.00 0.00 4.61
105 106 0.108992 GGTGACCAACGCATCGACTA 60.109 55.000 0.00 0.00 0.00 2.59
141 142 2.187073 GCATCAGGCTTGTCCTTGG 58.813 57.895 0.00 0.00 44.75 3.61
142 143 1.941999 GCATCAGGCTTGTCCTTGGC 61.942 60.000 0.00 0.00 44.75 4.52
143 144 1.377725 ATCAGGCTTGTCCTTGGCG 60.378 57.895 0.00 0.00 44.75 5.69
167 168 0.321671 TCTCCTTGGCCTTCTCAACG 59.678 55.000 3.32 0.00 0.00 4.10
187 188 1.304217 ACATCCCGACGACCTCTGT 60.304 57.895 0.00 0.00 0.00 3.41
191 192 2.052690 CCCGACGACCTCTGTCCAT 61.053 63.158 0.00 0.00 38.32 3.41
246 247 0.473755 TGCAGGCTCTGGAAACTTCA 59.526 50.000 4.65 0.00 31.21 3.02
316 330 9.087424 GGATCAAGAAAATAAAGCATAAACCAC 57.913 33.333 0.00 0.00 0.00 4.16
333 347 1.546773 CCACGAGGGAAAATGGGTGAA 60.547 52.381 0.00 0.00 40.01 3.18
369 383 0.106708 GGCACACACTCACCAGAAGA 59.893 55.000 0.00 0.00 0.00 2.87
373 387 3.492656 GCACACACTCACCAGAAGAACTA 60.493 47.826 0.00 0.00 0.00 2.24
387 401 9.793259 ACCAGAAGAACTAATTGAATGTTCTAA 57.207 29.630 10.21 0.00 46.39 2.10
496 510 4.188702 CGGAAAACGGCGATGGTA 57.811 55.556 16.62 0.00 39.42 3.25
551 565 1.933853 GAATCACGTGGTATGCTGTCC 59.066 52.381 17.00 0.00 0.00 4.02
635 649 4.496670 GTGTATCACGCGCCTTCT 57.503 55.556 5.73 0.00 0.00 2.85
636 650 2.750815 GTGTATCACGCGCCTTCTT 58.249 52.632 5.73 0.00 0.00 2.52
642 660 4.083862 ACGCGCCTTCTTCCCCTC 62.084 66.667 5.73 0.00 0.00 4.30
702 720 3.173399 CACAACACAGTGTCGCTTATG 57.827 47.619 6.67 2.84 34.83 1.90
735 753 5.457487 CCCTATAAGTACCCATCCATGCAAA 60.457 44.000 0.00 0.00 0.00 3.68
750 774 3.663995 TGCAAAGTGTTTATGCAGCAT 57.336 38.095 13.73 13.73 44.52 3.79
755 779 5.463286 CAAAGTGTTTATGCAGCATCAAGA 58.537 37.500 12.38 2.67 0.00 3.02
767 791 4.012374 CAGCATCAAGATACCAACCAAGT 58.988 43.478 0.00 0.00 0.00 3.16
769 793 4.460382 AGCATCAAGATACCAACCAAGTTG 59.540 41.667 0.00 0.00 42.49 3.16
781 805 6.365520 ACCAACCAAGTTGAGAAGATTAAGT 58.634 36.000 3.87 0.00 45.28 2.24
784 808 9.014297 CCAACCAAGTTGAGAAGATTAAGTAAT 57.986 33.333 3.87 0.00 45.28 1.89
791 818 9.825109 AGTTGAGAAGATTAAGTAATAGGCTTC 57.175 33.333 0.00 0.00 30.39 3.86
801 828 5.297569 AGTAATAGGCTTCAGGTCCATTC 57.702 43.478 0.00 0.00 0.00 2.67
820 847 1.758514 AGCCGGTGAGTCGGATCAT 60.759 57.895 1.90 0.00 46.79 2.45
822 849 2.425145 AGCCGGTGAGTCGGATCATAG 61.425 57.143 1.90 0.00 46.79 2.23
826 853 7.849435 AGCCGGTGAGTCGGATCATAGATAT 62.849 48.000 1.90 0.00 46.79 1.63
828 855 6.050454 CGGTGAGTCGGATCATAGATATAC 57.950 45.833 0.00 0.00 0.00 1.47
830 857 6.457122 CGGTGAGTCGGATCATAGATATACAC 60.457 46.154 0.00 0.00 0.00 2.90
831 858 6.374613 GGTGAGTCGGATCATAGATATACACA 59.625 42.308 0.00 0.00 0.00 3.72
832 859 7.067615 GGTGAGTCGGATCATAGATATACACAT 59.932 40.741 0.00 0.00 0.00 3.21
833 860 9.110502 GTGAGTCGGATCATAGATATACACATA 57.889 37.037 0.00 0.00 0.00 2.29
834 861 9.853177 TGAGTCGGATCATAGATATACACATAT 57.147 33.333 0.00 0.00 0.00 1.78
867 894 7.119116 TGCTTTTGTCGATCAATCTTTAGCTAA 59.881 33.333 0.86 0.86 35.84 3.09
906 933 7.325579 GCTTAATTAGAAATGCAGCTTGCTATC 59.674 37.037 9.12 5.47 45.31 2.08
907 934 6.704289 AATTAGAAATGCAGCTTGCTATCA 57.296 33.333 9.12 0.00 45.31 2.15
910 937 5.184340 AGAAATGCAGCTTGCTATCAATC 57.816 39.130 9.12 1.29 45.31 2.67
914 941 4.563337 TGCAGCTTGCTATCAATCAATC 57.437 40.909 9.12 0.00 45.31 2.67
915 942 3.002965 TGCAGCTTGCTATCAATCAATCG 59.997 43.478 9.12 0.00 45.31 3.34
988 1015 7.360353 GCTTTTGGAAAATTGATTTGTAGGCTC 60.360 37.037 0.00 0.00 0.00 4.70
1125 1152 5.424895 AGAGATCATACTCAAAGACAAGCCT 59.575 40.000 0.00 0.00 39.14 4.58
1200 1227 3.353836 AACCGCGTGCGCATCTTT 61.354 55.556 15.91 0.00 42.06 2.52
1513 1545 3.407424 TTAGAGAATGGCATGCGCTAT 57.593 42.857 18.20 8.35 41.84 2.97
1562 1594 6.877611 TTGGTATCCTCTTTGAAACAACTC 57.122 37.500 0.00 0.00 0.00 3.01
1659 1694 5.139727 TGGATGACAGTCAGTTCCAAATTT 58.860 37.500 19.66 0.00 33.83 1.82
1660 1695 5.009911 TGGATGACAGTCAGTTCCAAATTTG 59.990 40.000 19.66 11.40 33.83 2.32
1670 1705 7.177921 AGTCAGTTCCAAATTTGTCATCATCAT 59.822 33.333 16.73 0.00 0.00 2.45
1671 1706 7.487189 GTCAGTTCCAAATTTGTCATCATCATC 59.513 37.037 16.73 0.00 0.00 2.92
1672 1707 6.471198 CAGTTCCAAATTTGTCATCATCATCG 59.529 38.462 16.73 0.00 0.00 3.84
1758 1799 7.823745 ATCAGTTTTTACTGTTGGTCTCATT 57.176 32.000 5.32 0.00 38.75 2.57
1805 1846 4.772624 AGTTGCTAGTGGTGAACTATCTCA 59.227 41.667 0.00 0.00 40.65 3.27
1844 1885 5.104941 TCACCTGGTGATAAAACATCGATCT 60.105 40.000 25.12 0.00 37.67 2.75
1898 1939 9.730705 ATTACTTCCATGTTCTATGGTCATATG 57.269 33.333 5.89 0.00 40.06 1.78
1988 2029 3.584294 AGTACTTAATGGGGGCTCGTAT 58.416 45.455 0.00 0.00 0.00 3.06
2043 2084 6.286240 TGTCACTAGATACACATTCTTGCT 57.714 37.500 0.00 0.00 0.00 3.91
2047 2088 6.925718 TCACTAGATACACATTCTTGCTATGC 59.074 38.462 0.00 0.00 0.00 3.14
2065 2106 8.830201 TGCTATGCAATTCTTAAAACAAACAT 57.170 26.923 0.00 0.00 34.76 2.71
2071 2114 9.202273 TGCAATTCTTAAAACAAACATATCACC 57.798 29.630 0.00 0.00 0.00 4.02
2077 2120 9.290988 TCTTAAAACAAACATATCACCTGCTTA 57.709 29.630 0.00 0.00 0.00 3.09
2108 2151 4.831155 TCTTCTCGAGACCTTCCTTTGTTA 59.169 41.667 16.36 0.00 0.00 2.41
2134 2177 8.034215 ACAAGAAAACACACAATTTGAAGATCA 58.966 29.630 2.79 0.00 0.00 2.92
2135 2178 9.037737 CAAGAAAACACACAATTTGAAGATCAT 57.962 29.630 2.79 0.00 0.00 2.45
2150 2193 2.821969 AGATCATGTTGGTGGCAAGTTC 59.178 45.455 0.00 0.00 0.00 3.01
2156 2199 3.826524 TGTTGGTGGCAAGTTCAAGATA 58.173 40.909 0.00 0.00 0.00 1.98
2174 2217 5.344743 AGATAGATCCGCTCAAAGACAAA 57.655 39.130 0.00 0.00 0.00 2.83
2200 2243 7.837202 TTATTTGTAACTAGTCATCAACCCG 57.163 36.000 0.00 0.00 0.00 5.28
2201 2244 4.877378 TTGTAACTAGTCATCAACCCGT 57.123 40.909 0.00 0.00 0.00 5.28
2202 2245 4.182693 TGTAACTAGTCATCAACCCGTG 57.817 45.455 0.00 0.00 0.00 4.94
2203 2246 2.094762 AACTAGTCATCAACCCGTGC 57.905 50.000 0.00 0.00 0.00 5.34
2204 2247 0.108804 ACTAGTCATCAACCCGTGCG 60.109 55.000 0.00 0.00 0.00 5.34
2205 2248 0.806102 CTAGTCATCAACCCGTGCGG 60.806 60.000 3.25 3.25 37.81 5.69
2206 2249 2.845752 TAGTCATCAACCCGTGCGGC 62.846 60.000 4.91 0.00 33.26 6.53
2207 2250 4.321966 TCATCAACCCGTGCGGCA 62.322 61.111 0.00 0.00 33.26 5.69
2208 2251 3.803082 CATCAACCCGTGCGGCAG 61.803 66.667 1.18 0.00 33.26 4.85
2226 2269 3.656066 GCACGGGCTAGGTACTTAC 57.344 57.895 0.00 0.00 41.75 2.34
2227 2270 0.819582 GCACGGGCTAGGTACTTACA 59.180 55.000 0.00 0.00 41.75 2.41
2228 2271 1.411612 GCACGGGCTAGGTACTTACAT 59.588 52.381 0.00 0.00 41.75 2.29
2229 2272 2.802057 GCACGGGCTAGGTACTTACATG 60.802 54.545 0.00 0.00 41.75 3.21
2230 2273 2.429610 CACGGGCTAGGTACTTACATGT 59.570 50.000 2.69 2.69 41.75 3.21
2231 2274 3.102204 ACGGGCTAGGTACTTACATGTT 58.898 45.455 2.30 0.00 41.75 2.71
2232 2275 3.131755 ACGGGCTAGGTACTTACATGTTC 59.868 47.826 2.30 0.00 41.75 3.18
2233 2276 3.131577 CGGGCTAGGTACTTACATGTTCA 59.868 47.826 2.30 0.00 41.75 3.18
2234 2277 4.382254 CGGGCTAGGTACTTACATGTTCAA 60.382 45.833 2.30 0.00 41.75 2.69
2235 2278 4.874396 GGGCTAGGTACTTACATGTTCAAC 59.126 45.833 2.30 0.00 41.75 3.18
2236 2279 5.484715 GGCTAGGTACTTACATGTTCAACA 58.515 41.667 2.30 0.00 41.75 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 2.289444 ACCGTGTCCAAATCTTCATCGT 60.289 45.455 0.00 0.00 0.00 3.73
52 53 1.606994 CCGACCGTGTCCAAATCTTCA 60.607 52.381 0.00 0.00 0.00 3.02
89 90 0.457853 TGCTAGTCGATGCGTTGGTC 60.458 55.000 0.00 0.00 0.00 4.02
93 94 0.179134 GTCCTGCTAGTCGATGCGTT 60.179 55.000 0.00 0.00 0.00 4.84
105 106 1.063341 TGCTGAGATAGAGGTCCTGCT 60.063 52.381 0.00 0.00 0.00 4.24
138 139 0.464373 GCCAAGGAGATCATCGCCAA 60.464 55.000 10.43 0.00 38.94 4.52
141 142 0.179034 AAGGCCAAGGAGATCATCGC 60.179 55.000 5.01 0.00 0.00 4.58
142 143 1.415659 AGAAGGCCAAGGAGATCATCG 59.584 52.381 5.01 0.00 0.00 3.84
143 144 2.437281 TGAGAAGGCCAAGGAGATCATC 59.563 50.000 5.01 0.00 0.00 2.92
167 168 1.753463 AGAGGTCGTCGGGATGTCC 60.753 63.158 0.00 0.00 0.00 4.02
187 188 1.605457 GCAGTGTGAAGACGTCATGGA 60.605 52.381 19.50 0.00 38.90 3.41
191 192 0.249447 CCAGCAGTGTGAAGACGTCA 60.249 55.000 19.50 0.00 0.00 4.35
224 225 0.475906 AGTTTCCAGAGCCTGCAAGT 59.524 50.000 0.00 0.00 0.00 3.16
226 227 1.133823 TGAAGTTTCCAGAGCCTGCAA 60.134 47.619 0.00 0.00 0.00 4.08
233 234 2.843701 AGCACTGTGAAGTTTCCAGAG 58.156 47.619 12.86 9.02 32.97 3.35
246 247 0.842030 TCCATGGAGGGAAGCACTGT 60.842 55.000 11.44 0.00 38.24 3.55
316 330 1.904287 TGTTCACCCATTTTCCCTCG 58.096 50.000 0.00 0.00 0.00 4.63
349 363 0.107456 CTTCTGGTGAGTGTGTGCCT 59.893 55.000 0.00 0.00 0.00 4.75
393 407 9.093458 TGATGCTATATCATCAACTTCTCCTTA 57.907 33.333 15.21 0.00 46.84 2.69
490 504 3.658709 GCTAGGAGCTCAATGTACCATC 58.341 50.000 17.19 0.00 38.45 3.51
551 565 2.358267 ACGTACGGATGCTAAGGAAGAG 59.642 50.000 21.06 0.00 0.00 2.85
635 649 0.180171 CATGCATGTACCGAGGGGAA 59.820 55.000 18.91 0.00 36.97 3.97
636 650 1.829456 CATGCATGTACCGAGGGGA 59.171 57.895 18.91 0.00 36.97 4.81
684 702 2.159973 CGACATAAGCGACACTGTGTTG 60.160 50.000 21.29 21.29 34.88 3.33
694 712 0.959553 GGGGAGATCGACATAAGCGA 59.040 55.000 0.00 0.00 42.48 4.93
702 720 4.015764 GGGTACTTATAGGGGAGATCGAC 58.984 52.174 0.00 0.00 0.00 4.20
735 753 5.297776 GGTATCTTGATGCTGCATAAACACT 59.702 40.000 16.23 2.57 0.00 3.55
750 774 5.560722 TCTCAACTTGGTTGGTATCTTGA 57.439 39.130 9.98 0.00 42.99 3.02
755 779 8.164070 ACTTAATCTTCTCAACTTGGTTGGTAT 58.836 33.333 9.98 0.00 42.99 2.73
767 791 9.823647 CTGAAGCCTATTACTTAATCTTCTCAA 57.176 33.333 0.00 0.00 31.05 3.02
769 793 8.425703 ACCTGAAGCCTATTACTTAATCTTCTC 58.574 37.037 0.00 0.00 31.05 2.87
781 805 4.444876 GCTGAATGGACCTGAAGCCTATTA 60.445 45.833 0.00 0.00 0.00 0.98
784 808 1.210478 GCTGAATGGACCTGAAGCCTA 59.790 52.381 0.00 0.00 0.00 3.93
786 810 1.034292 GGCTGAATGGACCTGAAGCC 61.034 60.000 10.87 10.87 43.05 4.35
791 818 1.746615 CACCGGCTGAATGGACCTG 60.747 63.158 0.00 0.00 0.00 4.00
826 853 6.037062 CGACAAAAGCAAGATGGATATGTGTA 59.963 38.462 0.00 0.00 0.00 2.90
828 855 5.065090 TCGACAAAAGCAAGATGGATATGTG 59.935 40.000 0.00 0.00 0.00 3.21
830 857 5.739752 TCGACAAAAGCAAGATGGATATG 57.260 39.130 0.00 0.00 0.00 1.78
831 858 6.057533 TGATCGACAAAAGCAAGATGGATAT 58.942 36.000 0.00 0.00 0.00 1.63
832 859 5.427378 TGATCGACAAAAGCAAGATGGATA 58.573 37.500 0.00 0.00 0.00 2.59
833 860 4.264253 TGATCGACAAAAGCAAGATGGAT 58.736 39.130 0.00 0.00 0.00 3.41
834 861 3.673902 TGATCGACAAAAGCAAGATGGA 58.326 40.909 0.00 0.00 0.00 3.41
841 868 5.412594 AGCTAAAGATTGATCGACAAAAGCA 59.587 36.000 4.87 0.00 42.03 3.91
842 869 5.873732 AGCTAAAGATTGATCGACAAAAGC 58.126 37.500 4.87 8.39 42.03 3.51
843 870 8.660373 AGTTAGCTAAAGATTGATCGACAAAAG 58.340 33.333 7.99 1.33 42.03 2.27
897 924 4.558538 AACCGATTGATTGATAGCAAGC 57.441 40.909 1.19 1.19 40.69 4.01
906 933 5.175491 CACCAAAACTGAAACCGATTGATTG 59.825 40.000 0.00 0.00 0.00 2.67
907 934 5.288804 CACCAAAACTGAAACCGATTGATT 58.711 37.500 0.00 0.00 0.00 2.57
910 937 2.794350 GCACCAAAACTGAAACCGATTG 59.206 45.455 0.00 0.00 0.00 2.67
914 941 2.616842 AGTAGCACCAAAACTGAAACCG 59.383 45.455 0.00 0.00 0.00 4.44
915 942 4.649088 AAGTAGCACCAAAACTGAAACC 57.351 40.909 0.00 0.00 0.00 3.27
988 1015 1.203928 GAGCTCATCGTTGATGGACG 58.796 55.000 9.40 0.00 40.15 4.79
1247 1274 2.476185 GCATACATTTCTTCGCGCTTGT 60.476 45.455 5.56 0.93 0.00 3.16
1337 1364 1.479323 ACAAATCCATGCCATGCTGAC 59.521 47.619 0.00 0.00 0.00 3.51
1386 1418 6.055231 AGTAGATGAAACGATTCTCTCTCG 57.945 41.667 6.98 0.00 41.77 4.04
1513 1545 0.541063 TGCCACGTGGAAGGACTAGA 60.541 55.000 38.30 6.22 37.39 2.43
1562 1594 1.135972 GCATGGTTCGTACAGCAACAG 60.136 52.381 0.00 0.00 0.00 3.16
1659 1694 5.204409 TGATGATGACGATGATGATGACA 57.796 39.130 0.00 0.00 0.00 3.58
1660 1695 5.118817 CACTGATGATGACGATGATGATGAC 59.881 44.000 0.00 0.00 0.00 3.06
1670 1705 6.025749 ACTAAAACTCACTGATGATGACGA 57.974 37.500 0.00 0.00 33.22 4.20
1671 1706 6.528826 CAACTAAAACTCACTGATGATGACG 58.471 40.000 0.00 0.00 33.22 4.35
1672 1707 6.310197 GCAACTAAAACTCACTGATGATGAC 58.690 40.000 0.00 0.00 33.22 3.06
1758 1799 1.101635 AGCGATGAAGATCCGGTCGA 61.102 55.000 12.02 0.00 34.46 4.20
1805 1846 6.042781 TCACCAGGTGACTAAGTGTCTAAAAT 59.957 38.462 19.21 0.00 45.54 1.82
1844 1885 1.405526 GCGGCTTCATTAGAGGTGTGA 60.406 52.381 0.00 0.00 0.00 3.58
1898 1939 6.017275 CAGTGCAATCAGGAAATAGGAGATTC 60.017 42.308 0.00 0.00 0.00 2.52
1988 2029 7.815840 TCTTTGTGAAATCCATTTAGTGACA 57.184 32.000 0.00 0.00 0.00 3.58
2061 2102 4.310769 GCGAGATAAGCAGGTGATATGTT 58.689 43.478 0.00 0.00 34.19 2.71
2065 2106 2.558795 GAGGCGAGATAAGCAGGTGATA 59.441 50.000 0.00 0.00 36.08 2.15
2071 2114 2.604373 CGAGAAGAGGCGAGATAAGCAG 60.604 54.545 0.00 0.00 36.08 4.24
2108 2151 8.034215 TGATCTTCAAATTGTGTGTTTTCTTGT 58.966 29.630 0.00 0.00 0.00 3.16
2134 2177 2.665165 TCTTGAACTTGCCACCAACAT 58.335 42.857 0.00 0.00 0.00 2.71
2135 2178 2.136298 TCTTGAACTTGCCACCAACA 57.864 45.000 0.00 0.00 0.00 3.33
2150 2193 4.686972 TGTCTTTGAGCGGATCTATCTTG 58.313 43.478 0.00 0.00 0.00 3.02
2156 2199 7.396540 AATAAATTTGTCTTTGAGCGGATCT 57.603 32.000 0.00 0.00 0.00 2.75
2174 2217 8.889717 CGGGTTGATGACTAGTTACAAATAAAT 58.110 33.333 0.00 0.00 0.00 1.40
2186 2229 0.806102 CCGCACGGGTTGATGACTAG 60.806 60.000 0.00 0.00 0.00 2.57
2187 2230 1.216977 CCGCACGGGTTGATGACTA 59.783 57.895 0.00 0.00 0.00 2.59
2188 2231 2.047274 CCGCACGGGTTGATGACT 60.047 61.111 0.00 0.00 0.00 3.41
2189 2232 3.799755 GCCGCACGGGTTGATGAC 61.800 66.667 11.65 0.00 38.44 3.06
2190 2233 4.321966 TGCCGCACGGGTTGATGA 62.322 61.111 11.65 0.00 38.44 2.92
2191 2234 3.803082 CTGCCGCACGGGTTGATG 61.803 66.667 11.65 0.00 38.44 3.07
2208 2251 0.819582 TGTAAGTACCTAGCCCGTGC 59.180 55.000 0.00 0.00 37.95 5.34
2209 2252 2.429610 ACATGTAAGTACCTAGCCCGTG 59.570 50.000 0.00 0.00 0.00 4.94
2210 2253 2.743553 ACATGTAAGTACCTAGCCCGT 58.256 47.619 0.00 0.00 0.00 5.28
2211 2254 3.131577 TGAACATGTAAGTACCTAGCCCG 59.868 47.826 0.00 0.00 0.00 6.13
2212 2255 4.748277 TGAACATGTAAGTACCTAGCCC 57.252 45.455 0.00 0.00 0.00 5.19
2213 2256 5.484715 TGTTGAACATGTAAGTACCTAGCC 58.515 41.667 0.00 0.00 0.00 3.93


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

AutoCloner maintained by Alex Coulton.