Multiple sequence alignment - TraesCS3A01G368000

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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 TraesCS3A01G368000 chr3A 100.000 2420 0 0 1 2420 616966347 616968766 0.000000e+00 4470.0
1 TraesCS3A01G368000 chr3D 91.417 2004 81 31 1 1964 474549256 474547304 0.000000e+00 2663.0
2 TraesCS3A01G368000 chr3B 88.889 1476 86 32 630 2069 630900663 630902096 0.000000e+00 1746.0
3 TraesCS3A01G368000 chr3B 91.453 585 22 15 1 572 630900090 630900659 0.000000e+00 778.0
4 TraesCS3A01G368000 chr3B 89.308 318 20 5 2107 2420 630902856 630903163 1.050000e-103 387.0
5 TraesCS3A01G368000 chr2B 83.871 93 13 1 2270 2362 379973131 379973041 1.190000e-13 87.9
6 TraesCS3A01G368000 chr2A 82.796 93 14 1 2270 2362 425905981 425905891 5.550000e-12 82.4
7 TraesCS3A01G368000 chr5B 86.364 66 7 1 2270 2335 450420706 450420643 1.200000e-08 71.3
8 TraesCS3A01G368000 chr7B 80.899 89 15 1 2274 2362 667482682 667482768 4.320000e-08 69.4
9 TraesCS3A01G368000 chr7B 92.500 40 3 0 2274 2313 725369662 725369623 9.350000e-05 58.4
10 TraesCS3A01G368000 chr5A 94.737 38 2 0 2274 2311 377003369 377003406 2.600000e-05 60.2
11 TraesCS3A01G368000 chr6A 75.806 124 24 5 1909 2029 35825964 35825844 9.350000e-05 58.4
12 TraesCS3A01G368000 chrUn 80.769 78 9 5 1954 2029 43543312 43543239 3.360000e-04 56.5


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 TraesCS3A01G368000 chr3A 616966347 616968766 2419 False 4470.000000 4470 100.000000 1 2420 1 chr3A.!!$F1 2419
1 TraesCS3A01G368000 chr3D 474547304 474549256 1952 True 2663.000000 2663 91.417000 1 1964 1 chr3D.!!$R1 1963
2 TraesCS3A01G368000 chr3B 630900090 630903163 3073 False 970.333333 1746 89.883333 1 2420 3 chr3B.!!$F1 2419

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
683 702 0.39113 TGCGTACACCTCTTCATGGC 60.391 55.0 0.0 0.0 0.0 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2197 3024 0.03601 ATGTTGGACGCTCCTTGGAG 60.036 55.0 12.07 12.07 37.46 3.86 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
96 98 1.270147 CCACTTCCCGAGAGAAAACGT 60.270 52.381 0.00 0.00 0.00 3.99
153 155 4.508128 CCGGTCCGGTCGTCCATG 62.508 72.222 23.02 0.00 42.73 3.66
155 157 4.077184 GGTCCGGTCGTCCATGCA 62.077 66.667 0.00 0.00 0.00 3.96
156 158 2.186903 GTCCGGTCGTCCATGCAT 59.813 61.111 0.00 0.00 0.00 3.96
157 159 2.173669 GTCCGGTCGTCCATGCATG 61.174 63.158 20.19 20.19 0.00 4.06
158 160 3.576356 CCGGTCGTCCATGCATGC 61.576 66.667 21.69 11.82 0.00 4.06
198 200 1.610967 TCCCATGTCACCGTGCCTA 60.611 57.895 0.00 0.00 0.00 3.93
421 438 3.475774 CGACCGCGTCCTTTTCCG 61.476 66.667 4.92 0.00 0.00 4.30
485 502 4.862092 CAGATCTGCTCGCGCCGT 62.862 66.667 10.38 0.00 34.43 5.68
486 503 4.862092 AGATCTGCTCGCGCCGTG 62.862 66.667 0.00 0.00 34.43 4.94
603 620 4.116961 TGTCGTGTTTTCTCTTCGTGAAT 58.883 39.130 0.00 0.00 0.00 2.57
604 621 4.026062 TGTCGTGTTTTCTCTTCGTGAATG 60.026 41.667 0.00 0.00 0.00 2.67
605 622 4.208460 GTCGTGTTTTCTCTTCGTGAATGA 59.792 41.667 0.00 0.00 0.00 2.57
606 623 4.806775 TCGTGTTTTCTCTTCGTGAATGAA 59.193 37.500 0.00 0.00 0.00 2.57
607 624 5.292345 TCGTGTTTTCTCTTCGTGAATGAAA 59.708 36.000 6.75 6.75 0.00 2.69
679 698 1.404181 GCTGATGCGTACACCTCTTCA 60.404 52.381 0.00 0.00 0.00 3.02
680 699 2.739932 GCTGATGCGTACACCTCTTCAT 60.740 50.000 0.00 0.00 0.00 2.57
681 700 2.862536 CTGATGCGTACACCTCTTCATG 59.137 50.000 0.00 0.00 0.00 3.07
682 701 2.205074 GATGCGTACACCTCTTCATGG 58.795 52.381 0.00 0.00 0.00 3.66
683 702 0.391130 TGCGTACACCTCTTCATGGC 60.391 55.000 0.00 0.00 0.00 4.40
781 803 0.469144 TCCCCGCTTTGCCTCTTTTT 60.469 50.000 0.00 0.00 0.00 1.94
795 817 4.038522 GCCTCTTTTTCTTTTTCTGAGCCT 59.961 41.667 0.00 0.00 0.00 4.58
829 851 3.329386 TCTTGTCACATACTCTTGCAGC 58.671 45.455 0.00 0.00 0.00 5.25
830 852 2.837532 TGTCACATACTCTTGCAGCA 57.162 45.000 0.00 0.00 0.00 4.41
831 853 2.416747 TGTCACATACTCTTGCAGCAC 58.583 47.619 0.00 0.00 0.00 4.40
832 854 2.224257 TGTCACATACTCTTGCAGCACA 60.224 45.455 0.00 0.00 0.00 4.57
833 855 2.414481 GTCACATACTCTTGCAGCACAG 59.586 50.000 0.00 0.00 0.00 3.66
834 856 2.037641 TCACATACTCTTGCAGCACAGT 59.962 45.455 10.48 10.48 0.00 3.55
835 857 3.258123 TCACATACTCTTGCAGCACAGTA 59.742 43.478 13.60 13.60 0.00 2.74
839 861 1.414181 ACTCTTGCAGCACAGTACAGT 59.586 47.619 0.00 0.00 0.00 3.55
840 862 2.628178 ACTCTTGCAGCACAGTACAGTA 59.372 45.455 0.00 0.00 0.00 2.74
841 863 2.989840 CTCTTGCAGCACAGTACAGTAC 59.010 50.000 2.05 2.05 0.00 2.73
842 864 2.069273 CTTGCAGCACAGTACAGTACC 58.931 52.381 7.13 0.00 0.00 3.34
843 865 1.044611 TGCAGCACAGTACAGTACCA 58.955 50.000 7.13 0.00 0.00 3.25
844 866 1.000843 TGCAGCACAGTACAGTACCAG 59.999 52.381 7.13 3.36 0.00 4.00
845 867 1.714794 CAGCACAGTACAGTACCAGC 58.285 55.000 7.13 8.97 0.00 4.85
986 1037 2.854963 CAAGCAAGCTAGGCATCCATA 58.145 47.619 12.27 0.00 0.00 2.74
1071 1125 2.046285 CAACCCCATGTTCTCCCGC 61.046 63.158 0.00 0.00 34.00 6.13
1272 1326 0.890996 CCAGTTCCACTTCCAGTGCC 60.891 60.000 0.00 0.00 44.63 5.01
1275 1329 3.842925 TTCCACTTCCAGTGCCGCC 62.843 63.158 0.00 0.00 44.63 6.13
1421 1475 1.134560 GTCCAGGAAGTACCGCTAGTG 59.865 57.143 0.00 0.00 44.74 2.74
1422 1476 1.183549 CCAGGAAGTACCGCTAGTGT 58.816 55.000 1.99 0.00 44.74 3.55
1423 1477 1.549170 CCAGGAAGTACCGCTAGTGTT 59.451 52.381 1.99 0.00 44.74 3.32
1424 1478 2.028385 CCAGGAAGTACCGCTAGTGTTT 60.028 50.000 1.99 0.00 44.74 2.83
1425 1479 3.556423 CCAGGAAGTACCGCTAGTGTTTT 60.556 47.826 1.99 0.00 44.74 2.43
1426 1480 3.432252 CAGGAAGTACCGCTAGTGTTTTG 59.568 47.826 1.99 0.00 44.74 2.44
1585 1641 6.535963 TGCATCTTTCTCATCTCTTCTGTA 57.464 37.500 0.00 0.00 0.00 2.74
1603 1659 2.423892 TGTACTCTGGAATCTGTCGCTC 59.576 50.000 0.00 0.00 0.00 5.03
1609 1665 3.701542 TCTGGAATCTGTCGCTCTTACAT 59.298 43.478 0.00 0.00 0.00 2.29
1610 1666 4.160439 TCTGGAATCTGTCGCTCTTACATT 59.840 41.667 0.00 0.00 0.00 2.71
1618 1674 5.050363 TCTGTCGCTCTTACATTTTCAACAC 60.050 40.000 0.00 0.00 0.00 3.32
1619 1675 4.572795 TGTCGCTCTTACATTTTCAACACA 59.427 37.500 0.00 0.00 0.00 3.72
1644 1700 5.048782 TGTGCTTGTCAATATTTGTCACCTC 60.049 40.000 0.00 0.00 0.00 3.85
1676 1732 1.132453 GCCACCGACAAGCTAATTTCC 59.868 52.381 0.00 0.00 0.00 3.13
1678 1734 2.073816 CACCGACAAGCTAATTTCCGT 58.926 47.619 0.00 0.00 0.00 4.69
1679 1735 2.073816 ACCGACAAGCTAATTTCCGTG 58.926 47.619 0.00 0.00 0.00 4.94
1680 1736 2.289195 ACCGACAAGCTAATTTCCGTGA 60.289 45.455 0.00 0.00 0.00 4.35
1682 1738 3.242413 CCGACAAGCTAATTTCCGTGATG 60.242 47.826 0.00 0.00 0.00 3.07
1683 1739 3.370978 CGACAAGCTAATTTCCGTGATGT 59.629 43.478 0.00 0.00 0.00 3.06
1684 1740 4.651994 GACAAGCTAATTTCCGTGATGTG 58.348 43.478 0.00 0.00 0.00 3.21
1685 1741 3.440173 ACAAGCTAATTTCCGTGATGTGG 59.560 43.478 0.00 0.00 0.00 4.17
1686 1742 3.350219 AGCTAATTTCCGTGATGTGGT 57.650 42.857 0.00 0.00 0.00 4.16
1687 1743 3.009723 AGCTAATTTCCGTGATGTGGTG 58.990 45.455 0.00 0.00 0.00 4.17
1691 1747 1.588674 TTTCCGTGATGTGGTGTGTC 58.411 50.000 0.00 0.00 0.00 3.67
1692 1748 0.466124 TTCCGTGATGTGGTGTGTCA 59.534 50.000 0.00 0.00 0.00 3.58
1731 1802 8.814235 GCATTTGATCCAATAGTTTGATCTTTG 58.186 33.333 0.00 0.00 34.60 2.77
1742 1813 9.956720 AATAGTTTGATCTTTGTGAGAAAACAG 57.043 29.630 0.00 0.00 38.06 3.16
1745 1816 3.250762 TGATCTTTGTGAGAAAACAGGCG 59.749 43.478 0.00 0.00 38.06 5.52
1832 1906 5.128919 AGTGCATAAGAATGAATGGGAGAC 58.871 41.667 0.00 0.00 34.84 3.36
1854 1928 3.194620 TCCCAATGTACCACCCATAAGT 58.805 45.455 0.00 0.00 0.00 2.24
1903 1977 5.532557 TCATAGAGCAACAAGATCATACCG 58.467 41.667 0.00 0.00 34.30 4.02
1906 1980 1.210478 AGCAACAAGATCATACCGGCT 59.790 47.619 0.00 0.00 0.00 5.52
1962 2036 8.659925 TCATAAATGTGTGCTGAAAAACAAAT 57.340 26.923 0.00 0.00 0.00 2.32
1970 2044 9.593134 TGTGTGCTGAAAAACAAATAAACTAAT 57.407 25.926 0.00 0.00 0.00 1.73
1975 2049 8.484008 GCTGAAAAACAAATAAACTAATGCGAA 58.516 29.630 0.00 0.00 0.00 4.70
2045 2123 3.494626 ACATACTGTGAAGCACGTGAAAG 59.505 43.478 22.23 5.06 37.14 2.62
2048 2126 2.545526 ACTGTGAAGCACGTGAAAGATG 59.454 45.455 22.23 5.52 37.14 2.90
2049 2127 2.545526 CTGTGAAGCACGTGAAAGATGT 59.454 45.455 22.23 0.00 37.14 3.06
2056 2135 5.779806 AGCACGTGAAAGATGTAATGTAC 57.220 39.130 22.23 0.00 0.00 2.90
2103 2930 8.749354 AGAATGAAGTTAACAAAGTGTCCTTTT 58.251 29.630 8.61 0.00 38.87 2.27
2104 2931 9.366216 GAATGAAGTTAACAAAGTGTCCTTTTT 57.634 29.630 8.61 0.00 38.87 1.94
2156 2983 6.074569 CGCAAAATAAACGGAGTGTCATTTTT 60.075 34.615 0.00 0.00 45.00 1.94
2182 3009 3.314541 ACTTGTTAAGCCTGGACTACG 57.685 47.619 0.00 0.00 0.00 3.51
2195 3022 2.007608 GGACTACGAACATTTGCTCCC 58.992 52.381 0.00 0.00 0.00 4.30
2196 3023 2.007608 GACTACGAACATTTGCTCCCC 58.992 52.381 0.00 0.00 0.00 4.81
2197 3024 1.339727 ACTACGAACATTTGCTCCCCC 60.340 52.381 0.00 0.00 0.00 5.40
2198 3025 0.988832 TACGAACATTTGCTCCCCCT 59.011 50.000 0.00 0.00 0.00 4.79
2199 3026 0.322546 ACGAACATTTGCTCCCCCTC 60.323 55.000 0.00 0.00 0.00 4.30
2200 3027 1.032114 CGAACATTTGCTCCCCCTCC 61.032 60.000 0.00 0.00 0.00 4.30
2201 3028 0.039618 GAACATTTGCTCCCCCTCCA 59.960 55.000 0.00 0.00 0.00 3.86
2202 3029 0.486879 AACATTTGCTCCCCCTCCAA 59.513 50.000 0.00 0.00 0.00 3.53
2203 3030 0.040204 ACATTTGCTCCCCCTCCAAG 59.960 55.000 0.00 0.00 0.00 3.61
2204 3031 0.685458 CATTTGCTCCCCCTCCAAGG 60.685 60.000 0.00 0.00 34.30 3.61
2208 3035 3.474570 CTCCCCCTCCAAGGAGCG 61.475 72.222 10.68 2.08 43.11 5.03
2237 3064 6.620678 ACATGTAAACCATTCATTAGCACAC 58.379 36.000 0.00 0.00 0.00 3.82
2242 3069 8.147058 TGTAAACCATTCATTAGCACACAAAAT 58.853 29.630 0.00 0.00 0.00 1.82
2246 3073 9.553064 AACCATTCATTAGCACACAAAATTTAA 57.447 25.926 0.00 0.00 0.00 1.52
2363 3190 5.693555 CACATATATGACTTGTCGATGTGCT 59.306 40.000 19.63 0.00 37.11 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 4.899239 GATCGACGGGCAGGCAGG 62.899 72.222 0.00 0.00 0.00 4.85
74 75 0.690762 TTTTCTCTCGGGAAGTGGGG 59.309 55.000 0.00 0.00 0.00 4.96
78 79 1.000618 GGACGTTTTCTCTCGGGAAGT 59.999 52.381 0.00 0.00 0.00 3.01
79 80 1.672145 GGGACGTTTTCTCTCGGGAAG 60.672 57.143 0.00 0.00 0.00 3.46
214 216 4.715130 CGAGGGACAGGGGTGGGA 62.715 72.222 0.00 0.00 0.00 4.37
421 438 1.617263 GGGAGAGAAAAGGGAAAGGGC 60.617 57.143 0.00 0.00 0.00 5.19
461 478 2.226896 CGAGCAGATCTGGCGAACG 61.227 63.158 23.89 17.54 36.08 3.95
567 584 1.302511 CGACAAGAAGGGGGTGGTG 60.303 63.158 0.00 0.00 0.00 4.17
660 679 2.654749 TGAAGAGGTGTACGCATCAG 57.345 50.000 21.76 0.00 0.00 2.90
679 698 2.859525 ATCACGCAACCCCATGCCAT 62.860 55.000 0.00 0.00 43.47 4.40
680 699 3.582242 ATCACGCAACCCCATGCCA 62.582 57.895 0.00 0.00 43.47 4.92
681 700 2.755469 ATCACGCAACCCCATGCC 60.755 61.111 0.00 0.00 43.47 4.40
682 701 1.750399 AGATCACGCAACCCCATGC 60.750 57.895 0.00 0.00 42.94 4.06
683 702 0.392863 TCAGATCACGCAACCCCATG 60.393 55.000 0.00 0.00 0.00 3.66
781 803 2.664402 AGGCAAGGCTCAGAAAAAGA 57.336 45.000 0.00 0.00 0.00 2.52
829 851 1.673033 GCAGGCTGGTACTGTACTGTG 60.673 57.143 17.64 8.86 38.22 3.66
830 852 0.608640 GCAGGCTGGTACTGTACTGT 59.391 55.000 17.64 10.46 38.22 3.55
831 853 0.898320 AGCAGGCTGGTACTGTACTG 59.102 55.000 19.12 11.30 38.22 2.74
832 854 1.645710 AAGCAGGCTGGTACTGTACT 58.354 50.000 20.91 0.00 38.22 2.73
833 855 2.474410 AAAGCAGGCTGGTACTGTAC 57.526 50.000 20.91 9.46 38.22 2.90
834 856 2.290071 GGAAAAGCAGGCTGGTACTGTA 60.290 50.000 20.91 0.00 38.22 2.74
835 857 1.545651 GGAAAAGCAGGCTGGTACTGT 60.546 52.381 20.91 0.00 38.22 3.55
839 861 2.158534 TCAAAGGAAAAGCAGGCTGGTA 60.159 45.455 20.91 0.00 0.00 3.25
840 862 1.043022 CAAAGGAAAAGCAGGCTGGT 58.957 50.000 14.51 14.51 0.00 4.00
841 863 1.271656 CTCAAAGGAAAAGCAGGCTGG 59.728 52.381 17.64 0.00 0.00 4.85
842 864 1.336609 GCTCAAAGGAAAAGCAGGCTG 60.337 52.381 10.94 10.94 36.06 4.85
843 865 0.964700 GCTCAAAGGAAAAGCAGGCT 59.035 50.000 0.00 0.00 36.06 4.58
844 866 0.675633 TGCTCAAAGGAAAAGCAGGC 59.324 50.000 0.00 0.00 40.91 4.85
1059 1113 2.825836 GCCTGGCGGGAGAACATG 60.826 66.667 18.84 0.00 37.23 3.21
1221 1275 4.452733 CTCGGGGCCGACCAGAAC 62.453 72.222 0.00 0.00 43.09 3.01
1275 1329 1.504647 TATACTCCGGCGAGCGTGAG 61.505 60.000 9.30 8.66 40.03 3.51
1432 1486 4.579869 GCAGAGGGTAGAAACAGAATCAA 58.420 43.478 0.00 0.00 0.00 2.57
1585 1641 1.846007 AGAGCGACAGATTCCAGAGT 58.154 50.000 0.00 0.00 0.00 3.24
1603 1659 6.476380 ACAAGCACATGTGTTGAAAATGTAAG 59.524 34.615 30.59 13.04 33.31 2.34
1609 1665 4.446994 TGACAAGCACATGTGTTGAAAA 57.553 36.364 30.59 19.43 32.57 2.29
1610 1666 4.446994 TTGACAAGCACATGTGTTGAAA 57.553 36.364 30.59 23.85 32.57 2.69
1618 1674 5.574055 GGTGACAAATATTGACAAGCACATG 59.426 40.000 0.00 0.00 37.10 3.21
1619 1675 5.477984 AGGTGACAAATATTGACAAGCACAT 59.522 36.000 0.00 0.00 37.10 3.21
1662 1718 4.437390 CCACATCACGGAAATTAGCTTGTC 60.437 45.833 0.00 0.00 0.00 3.18
1665 1721 3.440173 CACCACATCACGGAAATTAGCTT 59.560 43.478 0.00 0.00 0.00 3.74
1676 1732 1.294857 TTGTGACACACCACATCACG 58.705 50.000 8.05 0.00 45.31 4.35
1678 1734 2.228925 CCATTGTGACACACCACATCA 58.771 47.619 8.05 0.00 45.31 3.07
1679 1735 1.068333 GCCATTGTGACACACCACATC 60.068 52.381 8.05 0.00 45.31 3.06
1680 1736 0.961019 GCCATTGTGACACACCACAT 59.039 50.000 8.05 0.00 45.31 3.21
1682 1738 1.032014 AAGCCATTGTGACACACCAC 58.968 50.000 8.05 0.00 37.55 4.16
1683 1739 1.031235 CAAGCCATTGTGACACACCA 58.969 50.000 8.05 0.00 32.73 4.17
1684 1740 1.317613 TCAAGCCATTGTGACACACC 58.682 50.000 8.05 0.00 37.68 4.16
1685 1741 2.923605 GCATCAAGCCATTGTGACACAC 60.924 50.000 8.05 0.00 37.68 3.82
1686 1742 1.270274 GCATCAAGCCATTGTGACACA 59.730 47.619 3.56 3.56 37.68 3.72
1687 1743 1.270274 TGCATCAAGCCATTGTGACAC 59.730 47.619 0.00 0.00 44.83 3.67
1691 1747 3.591023 TCAAATGCATCAAGCCATTGTG 58.409 40.909 0.00 0.00 44.83 3.33
1692 1748 3.965379 TCAAATGCATCAAGCCATTGT 57.035 38.095 0.00 0.00 44.83 2.71
1698 1754 5.839621 ACTATTGGATCAAATGCATCAAGC 58.160 37.500 5.52 0.00 45.96 4.01
1731 1802 0.534203 TGGGACGCCTGTTTTCTCAC 60.534 55.000 0.00 0.00 0.00 3.51
1742 1813 0.657840 CAGAAAATCGATGGGACGCC 59.342 55.000 0.00 0.00 0.00 5.68
1745 1816 5.175859 TCTGTAACAGAAAATCGATGGGAC 58.824 41.667 0.00 0.00 37.57 4.46
1832 1906 3.202151 ACTTATGGGTGGTACATTGGGAG 59.798 47.826 0.00 0.00 44.52 4.30
1854 1928 3.808726 GTCTTGCCATGATTTTGTTTGCA 59.191 39.130 0.00 0.00 0.00 4.08
1970 2044 9.663904 GAAATCTTATACATATTTGCTTTCGCA 57.336 29.630 0.00 0.00 46.24 5.10
2028 2106 2.545526 ACATCTTTCACGTGCTTCACAG 59.454 45.455 11.67 0.00 33.40 3.66
2029 2107 2.560504 ACATCTTTCACGTGCTTCACA 58.439 42.857 11.67 0.00 33.40 3.58
2030 2108 4.725556 TTACATCTTTCACGTGCTTCAC 57.274 40.909 11.67 0.00 0.00 3.18
2072 2899 9.651718 GACACTTTGTTAACTTCATTCTACAAG 57.348 33.333 7.22 0.00 30.81 3.16
2075 2902 8.379457 AGGACACTTTGTTAACTTCATTCTAC 57.621 34.615 7.22 0.00 0.00 2.59
2103 2930 6.783708 AGGACACTTTGTACCATTCAAAAA 57.216 33.333 0.00 0.00 34.96 1.94
2104 2931 6.783708 AAGGACACTTTGTACCATTCAAAA 57.216 33.333 0.00 0.00 34.96 2.44
2105 2932 6.263617 GGTAAGGACACTTTGTACCATTCAAA 59.736 38.462 0.00 0.00 38.14 2.69
2106 2933 5.766174 GGTAAGGACACTTTGTACCATTCAA 59.234 40.000 0.00 0.00 38.14 2.69
2107 2934 5.310451 GGTAAGGACACTTTGTACCATTCA 58.690 41.667 0.00 0.00 38.14 2.57
2108 2935 4.698780 GGGTAAGGACACTTTGTACCATTC 59.301 45.833 0.00 0.00 35.46 2.67
2109 2936 4.659115 GGGTAAGGACACTTTGTACCATT 58.341 43.478 0.00 0.00 35.46 3.16
2110 2937 3.307199 CGGGTAAGGACACTTTGTACCAT 60.307 47.826 0.00 0.00 35.46 3.55
2111 2938 2.037511 CGGGTAAGGACACTTTGTACCA 59.962 50.000 0.00 0.00 35.46 3.25
2112 2939 2.691927 CGGGTAAGGACACTTTGTACC 58.308 52.381 0.00 0.00 38.14 3.34
2113 2940 2.071540 GCGGGTAAGGACACTTTGTAC 58.928 52.381 0.00 0.00 38.14 2.90
2114 2941 1.693062 TGCGGGTAAGGACACTTTGTA 59.307 47.619 0.00 0.00 38.14 2.41
2115 2942 0.470766 TGCGGGTAAGGACACTTTGT 59.529 50.000 0.00 0.00 38.14 2.83
2116 2943 1.600023 TTGCGGGTAAGGACACTTTG 58.400 50.000 0.00 0.00 38.14 2.77
2117 2944 2.351706 TTTGCGGGTAAGGACACTTT 57.648 45.000 0.00 0.00 38.14 2.66
2118 2945 2.351706 TTTTGCGGGTAAGGACACTT 57.648 45.000 0.00 0.00 40.74 3.16
2119 2946 2.579410 ATTTTGCGGGTAAGGACACT 57.421 45.000 0.00 0.00 0.00 3.55
2120 2947 4.478699 GTTTATTTTGCGGGTAAGGACAC 58.521 43.478 0.00 0.00 0.00 3.67
2121 2948 3.188873 CGTTTATTTTGCGGGTAAGGACA 59.811 43.478 0.00 0.00 0.00 4.02
2122 2949 3.426560 CCGTTTATTTTGCGGGTAAGGAC 60.427 47.826 0.00 0.00 41.60 3.85
2123 2950 2.748532 CCGTTTATTTTGCGGGTAAGGA 59.251 45.455 0.00 0.00 41.60 3.36
2124 2951 2.748532 TCCGTTTATTTTGCGGGTAAGG 59.251 45.455 0.00 0.00 44.97 2.69
2125 2952 3.437741 ACTCCGTTTATTTTGCGGGTAAG 59.562 43.478 0.00 0.00 44.97 2.34
2168 2995 4.250464 CAAATGTTCGTAGTCCAGGCTTA 58.750 43.478 0.00 0.00 0.00 3.09
2182 3009 0.039618 TGGAGGGGGAGCAAATGTTC 59.960 55.000 0.00 0.00 0.00 3.18
2195 3022 2.592993 TTGGACGCTCCTTGGAGGG 61.593 63.158 25.72 25.72 37.46 4.30
2196 3023 1.376037 GTTGGACGCTCCTTGGAGG 60.376 63.158 17.33 10.30 37.46 4.30
2197 3024 0.036010 ATGTTGGACGCTCCTTGGAG 60.036 55.000 12.07 12.07 37.46 3.86
2198 3025 0.321564 CATGTTGGACGCTCCTTGGA 60.322 55.000 5.77 0.00 37.46 3.53
2199 3026 0.606401 ACATGTTGGACGCTCCTTGG 60.606 55.000 0.00 0.00 37.46 3.61
2200 3027 2.093306 TACATGTTGGACGCTCCTTG 57.907 50.000 2.30 2.30 37.46 3.61
2201 3028 2.812011 GTTTACATGTTGGACGCTCCTT 59.188 45.455 2.30 0.00 37.46 3.36
2202 3029 2.423577 GTTTACATGTTGGACGCTCCT 58.576 47.619 2.30 0.00 37.46 3.69
2203 3030 1.467342 GGTTTACATGTTGGACGCTCC 59.533 52.381 2.30 0.00 36.96 4.70
2204 3031 2.147958 TGGTTTACATGTTGGACGCTC 58.852 47.619 2.30 0.00 0.00 5.03
2208 3035 6.751888 GCTAATGAATGGTTTACATGTTGGAC 59.248 38.462 2.30 0.25 40.44 4.02
2268 3095 6.432162 GCCACCTCAACAATCATACATATCAT 59.568 38.462 0.00 0.00 0.00 2.45
2272 3099 5.109500 TGCCACCTCAACAATCATACATA 57.891 39.130 0.00 0.00 0.00 2.29
2316 3143 9.619316 TGTGATTGTAAGTTACATTTAATGCAC 57.381 29.630 16.26 14.85 38.68 4.57
2336 3163 7.095481 GCACATCGACAAGTCATATATGTGATT 60.095 37.037 23.98 0.00 43.28 2.57
2338 3165 5.691754 GCACATCGACAAGTCATATATGTGA 59.308 40.000 23.98 0.00 43.28 3.58
2347 3174 1.511850 CCAAGCACATCGACAAGTCA 58.488 50.000 0.72 0.00 0.00 3.41
2348 3175 0.166814 GCCAAGCACATCGACAAGTC 59.833 55.000 0.00 0.00 0.00 3.01
2363 3190 4.099419 TCACTATCTATTTGCTCTCGCCAA 59.901 41.667 0.00 0.00 34.43 4.52


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

AutoCloner maintained by Alex Coulton.