Multiple sequence alignment - TraesCS3D01G106900

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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 TraesCS3D01G106900 chr3D 100.000 2516 0 0 1 2516 59261100 59263615 0.00000 4647.0
1 TraesCS3D01G106900 chr3B 87.930 2502 143 76 78 2511 94864900 94867310 0.00000 2800.0
2 TraesCS3D01G106900 chr3A 84.864 2603 158 94 1 2511 68126829 68129287 0.00000 2407.0
3 TraesCS3D01G106900 chr6B 96.970 33 1 0 2234 2266 417621984 417621952 0.00035 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 TraesCS3D01G106900 chr3D 59261100 59263615 2515 False 4647 4647 100.000 1 2516 1 chr3D.!!$F1 2515
1 TraesCS3D01G106900 chr3B 94864900 94867310 2410 False 2800 2800 87.930 78 2511 1 chr3B.!!$F1 2433
2 TraesCS3D01G106900 chr3A 68126829 68129287 2458 False 2407 2407 84.864 1 2511 1 chr3A.!!$F1 2510

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
972 1013 0.099613 GCGCAATCTCTCTGAGTCGA 59.9 55.0 0.3 3.47 0.0 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2064 2206 0.30776 CCAACACGACTCAACTTGGC 59.692 55.0 0.0 0.0 0.0 4.52 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
42 43 0.329596 GTCCAGTTGCCCCAGAGAAT 59.670 55.000 0.00 0.00 0.00 2.40
57 58 3.693578 CAGAGAATCCCTTTTCTTGCTCC 59.306 47.826 0.00 0.00 36.10 4.70
167 176 3.370209 GGAAGGAACTACCCAAAGCGTAT 60.370 47.826 0.00 0.00 38.49 3.06
187 196 2.809601 CGCCCGTACAGCTCACAC 60.810 66.667 3.63 0.00 0.00 3.82
189 198 2.959372 CCCGTACAGCTCACACGA 59.041 61.111 11.71 0.00 37.89 4.35
201 210 2.223735 GCTCACACGATTAATCCGGAGA 60.224 50.000 11.34 0.00 0.00 3.71
202 211 3.372954 CTCACACGATTAATCCGGAGAC 58.627 50.000 11.34 0.00 0.00 3.36
203 212 2.756207 TCACACGATTAATCCGGAGACA 59.244 45.455 11.34 0.00 0.00 3.41
204 213 2.858344 CACACGATTAATCCGGAGACAC 59.142 50.000 11.34 0.00 0.00 3.67
333 349 1.550065 CAGATAGAGCGGAACACACG 58.450 55.000 0.00 0.00 0.00 4.49
357 373 2.372264 CAGCTGGCCACAATCAATACT 58.628 47.619 0.00 0.00 0.00 2.12
358 374 3.544684 CAGCTGGCCACAATCAATACTA 58.455 45.455 0.00 0.00 0.00 1.82
359 375 3.313526 CAGCTGGCCACAATCAATACTAC 59.686 47.826 0.00 0.00 0.00 2.73
360 376 2.287915 GCTGGCCACAATCAATACTACG 59.712 50.000 0.00 0.00 0.00 3.51
361 377 3.531538 CTGGCCACAATCAATACTACGT 58.468 45.455 0.00 0.00 0.00 3.57
380 396 2.098607 CGTACGACCCAGAGAAATGCTA 59.901 50.000 10.44 0.00 0.00 3.49
504 542 1.268625 GCGAGATTGGGGTTCGTTTTT 59.731 47.619 0.00 0.00 36.74 1.94
632 671 2.394632 GGTTTGGTTTCTTTCCCCACT 58.605 47.619 0.00 0.00 0.00 4.00
648 687 0.111266 CACTCGTCGCGTCCAAAAAG 60.111 55.000 5.77 0.00 0.00 2.27
663 702 3.546714 AAAGGACGCGGTTCCCCAG 62.547 63.158 12.47 0.00 36.12 4.45
665 704 4.452733 GGACGCGGTTCCCCAGAG 62.453 72.222 12.47 0.00 0.00 3.35
886 926 3.917760 GCTCCACCGCGCTATCCT 61.918 66.667 5.56 0.00 0.00 3.24
910 951 1.686355 CACGCCTCACTCTCCTATCT 58.314 55.000 0.00 0.00 0.00 1.98
947 988 2.359975 CCACTTGGCGGTTCCCTC 60.360 66.667 0.00 0.00 0.00 4.30
961 1002 4.880537 CCTCCGCTCGCGCAATCT 62.881 66.667 8.75 0.00 38.24 2.40
972 1013 0.099613 GCGCAATCTCTCTGAGTCGA 59.900 55.000 0.30 3.47 0.00 4.20
973 1014 1.859597 GCGCAATCTCTCTGAGTCGAG 60.860 57.143 0.30 5.86 0.00 4.04
975 1016 2.159448 CGCAATCTCTCTGAGTCGAGTT 60.159 50.000 4.32 0.00 32.83 3.01
977 1018 3.679725 CAATCTCTCTGAGTCGAGTTCG 58.320 50.000 4.32 0.00 41.45 3.95
978 1019 2.459060 TCTCTCTGAGTCGAGTTCGT 57.541 50.000 4.32 0.00 40.80 3.85
979 1020 2.070028 TCTCTCTGAGTCGAGTTCGTG 58.930 52.381 4.32 0.00 40.80 4.35
981 1022 0.169230 CTCTGAGTCGAGTTCGTGGG 59.831 60.000 0.00 0.00 40.80 4.61
982 1023 0.250597 TCTGAGTCGAGTTCGTGGGA 60.251 55.000 0.00 0.00 40.80 4.37
983 1024 0.169230 CTGAGTCGAGTTCGTGGGAG 59.831 60.000 0.00 0.00 40.80 4.30
984 1025 0.536687 TGAGTCGAGTTCGTGGGAGT 60.537 55.000 0.00 0.00 40.80 3.85
985 1026 0.109689 GAGTCGAGTTCGTGGGAGTG 60.110 60.000 0.00 0.00 40.80 3.51
1136 1182 2.123251 GGCGGAGATGGAGGAGGA 60.123 66.667 0.00 0.00 0.00 3.71
1516 1571 1.787057 CGCGCTGGAGGTAGAGTAGG 61.787 65.000 5.56 0.00 0.00 3.18
1517 1572 0.465824 GCGCTGGAGGTAGAGTAGGA 60.466 60.000 0.00 0.00 0.00 2.94
1518 1573 1.600023 CGCTGGAGGTAGAGTAGGAG 58.400 60.000 0.00 0.00 0.00 3.69
1519 1574 1.134037 CGCTGGAGGTAGAGTAGGAGT 60.134 57.143 0.00 0.00 0.00 3.85
1520 1575 2.104451 CGCTGGAGGTAGAGTAGGAGTA 59.896 54.545 0.00 0.00 0.00 2.59
1521 1576 3.746940 GCTGGAGGTAGAGTAGGAGTAG 58.253 54.545 0.00 0.00 0.00 2.57
1550 1612 2.820037 GCACTCGGGTAGGCAAGC 60.820 66.667 0.00 0.00 0.00 4.01
1777 1849 1.079612 GGAAATGGTGCTTGCTGGC 60.080 57.895 0.00 0.00 0.00 4.85
1779 1851 2.824071 GAAATGGTGCTTGCTGGCGG 62.824 60.000 0.00 0.00 34.52 6.13
1848 1931 3.865745 CGGTTTCTACTATGGCTCAGTTG 59.134 47.826 0.00 0.00 0.00 3.16
1858 1941 0.108585 GGCTCAGTTGTCCTGTTCCA 59.891 55.000 0.00 0.00 42.19 3.53
1862 1945 1.142667 TCAGTTGTCCTGTTCCATGCA 59.857 47.619 0.00 0.00 42.19 3.96
1866 1949 0.478072 TGTCCTGTTCCATGCAACCT 59.522 50.000 0.00 0.00 0.00 3.50
1934 2019 1.009900 CGATCGTACTCCTCCGTGC 60.010 63.158 7.03 0.00 0.00 5.34
1935 2020 1.009900 GATCGTACTCCTCCGTGCG 60.010 63.158 0.00 0.00 43.00 5.34
1937 2022 1.989966 ATCGTACTCCTCCGTGCGTG 61.990 60.000 0.00 0.00 42.39 5.34
1938 2023 2.506438 GTACTCCTCCGTGCGTGC 60.506 66.667 0.00 0.00 0.00 5.34
1978 2067 3.181412 ACCTACCCAACCCACATTCAAAT 60.181 43.478 0.00 0.00 0.00 2.32
1981 2070 4.126520 ACCCAACCCACATTCAAATAGT 57.873 40.909 0.00 0.00 0.00 2.12
1983 2072 5.261216 ACCCAACCCACATTCAAATAGTAG 58.739 41.667 0.00 0.00 0.00 2.57
1984 2073 5.222254 ACCCAACCCACATTCAAATAGTAGT 60.222 40.000 0.00 0.00 0.00 2.73
1985 2074 5.125417 CCCAACCCACATTCAAATAGTAGTG 59.875 44.000 0.00 0.00 0.00 2.74
1986 2075 5.943416 CCAACCCACATTCAAATAGTAGTGA 59.057 40.000 0.00 0.00 0.00 3.41
1987 2076 6.094048 CCAACCCACATTCAAATAGTAGTGAG 59.906 42.308 0.00 0.00 0.00 3.51
1989 2078 6.644347 ACCCACATTCAAATAGTAGTGAGAG 58.356 40.000 0.00 0.00 0.00 3.20
1990 2079 6.213600 ACCCACATTCAAATAGTAGTGAGAGT 59.786 38.462 0.00 0.00 0.00 3.24
1991 2080 7.106239 CCCACATTCAAATAGTAGTGAGAGTT 58.894 38.462 0.00 0.00 0.00 3.01
1992 2081 8.258007 CCCACATTCAAATAGTAGTGAGAGTTA 58.742 37.037 0.00 0.00 0.00 2.24
2016 2119 4.098055 AGTAGCGTGTACAATCAGTCTG 57.902 45.455 0.00 0.00 0.00 3.51
2019 2122 1.726791 GCGTGTACAATCAGTCTGTGG 59.273 52.381 0.00 0.00 0.00 4.17
2055 2158 2.830321 GTCCCGAGGAAAGAAGACCTAA 59.170 50.000 0.00 0.00 36.57 2.69
2064 2206 8.347035 CGAGGAAAGAAGACCTAACTATCTAAG 58.653 40.741 0.00 0.00 36.57 2.18
2073 2215 6.668283 AGACCTAACTATCTAAGCCAAGTTGA 59.332 38.462 3.87 0.00 34.23 3.18
2080 2222 2.364324 TCTAAGCCAAGTTGAGTCGTGT 59.636 45.455 3.87 0.00 0.00 4.49
2081 2223 2.038387 AAGCCAAGTTGAGTCGTGTT 57.962 45.000 3.87 0.00 0.00 3.32
2083 2225 0.307760 GCCAAGTTGAGTCGTGTTGG 59.692 55.000 3.87 11.19 40.63 3.77
2087 2229 2.800544 CAAGTTGAGTCGTGTTGGTAGG 59.199 50.000 0.00 0.00 0.00 3.18
2088 2230 1.145803 GTTGAGTCGTGTTGGTAGGC 58.854 55.000 0.00 0.00 0.00 3.93
2089 2231 0.319211 TTGAGTCGTGTTGGTAGGCG 60.319 55.000 0.00 0.00 0.00 5.52
2090 2232 1.288127 GAGTCGTGTTGGTAGGCGT 59.712 57.895 0.00 0.00 0.00 5.68
2110 2252 4.899239 GTCTCGGCCGGAGCATGG 62.899 72.222 27.83 7.12 42.82 3.66
2133 2275 5.395546 GGACTAATTTCCACCGGTACATGTA 60.396 44.000 6.87 0.08 35.49 2.29
2298 2446 1.342496 TCAGGCTATCATCAGCTTCCG 59.658 52.381 0.00 0.00 41.50 4.30
2342 2490 0.251354 AGCCTGCTGTGTGGATAGTG 59.749 55.000 0.00 0.00 0.00 2.74
2343 2491 1.372087 GCCTGCTGTGTGGATAGTGC 61.372 60.000 0.00 0.00 0.00 4.40
2344 2492 0.036105 CCTGCTGTGTGGATAGTGCA 60.036 55.000 0.00 0.00 0.00 4.57
2345 2493 1.366679 CTGCTGTGTGGATAGTGCAG 58.633 55.000 0.00 0.00 41.15 4.41
2346 2494 2.093216 GCTGTGTGGATAGTGCAGC 58.907 57.895 0.00 0.00 44.24 5.25
2384 2532 6.929606 AGGCTTTACTTACTTTCACTGTAGTG 59.070 38.462 5.67 5.67 46.91 2.74
2399 2547 0.323629 TAGTGGTTTCAGGCTTCGGG 59.676 55.000 0.00 0.00 0.00 5.14
2445 2603 3.316588 TCAAAGGCAGCACGTTTCATTAA 59.683 39.130 0.00 0.00 34.20 1.40
2455 2617 4.168014 CACGTTTCATTAAGCATGCATGT 58.832 39.130 26.79 11.59 32.13 3.21
2476 2638 1.866015 TGCAGCTACCACCACTATCT 58.134 50.000 0.00 0.00 0.00 1.98
2477 2639 3.026707 TGCAGCTACCACCACTATCTA 57.973 47.619 0.00 0.00 0.00 1.98
2478 2640 3.576861 TGCAGCTACCACCACTATCTAT 58.423 45.455 0.00 0.00 0.00 1.98
2479 2641 3.574396 TGCAGCTACCACCACTATCTATC 59.426 47.826 0.00 0.00 0.00 2.08
2480 2642 3.829601 GCAGCTACCACCACTATCTATCT 59.170 47.826 0.00 0.00 0.00 1.98
2481 2643 5.010933 GCAGCTACCACCACTATCTATCTA 58.989 45.833 0.00 0.00 0.00 1.98
2505 2667 3.378602 TCTAGCCGCCGTGCTTCA 61.379 61.111 5.45 0.00 42.75 3.02
2506 2668 2.202932 CTAGCCGCCGTGCTTCAT 60.203 61.111 5.45 0.00 42.75 2.57
2507 2669 2.511373 TAGCCGCCGTGCTTCATG 60.511 61.111 5.45 0.00 42.75 3.07
2509 2671 2.796483 TAGCCGCCGTGCTTCATGTT 62.796 55.000 5.45 0.00 42.75 2.71
2513 2675 1.052287 CGCCGTGCTTCATGTTTTTC 58.948 50.000 0.00 0.00 0.00 2.29
2514 2676 1.052287 GCCGTGCTTCATGTTTTTCG 58.948 50.000 0.00 0.00 0.00 3.46
2515 2677 1.052287 CCGTGCTTCATGTTTTTCGC 58.948 50.000 0.00 0.00 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 1.075536 GGAAGGGAGCAAGAAAAGGGA 59.924 52.381 0.00 0.00 0.00 4.20
57 58 2.351276 CACACCGGGGAAGGAAGG 59.649 66.667 12.96 0.00 34.73 3.46
96 102 1.802300 CGCGCACGTCTATCTCTTGC 61.802 60.000 8.75 0.00 33.53 4.01
174 183 3.486108 GGATTAATCGTGTGAGCTGTACG 59.514 47.826 9.32 0.00 39.04 3.67
187 196 2.768833 TCGTGTCTCCGGATTAATCG 57.231 50.000 3.57 7.22 0.00 3.34
189 198 3.641906 AGGATTCGTGTCTCCGGATTAAT 59.358 43.478 3.57 0.00 36.62 1.40
262 271 0.825840 AAAAGCTGCGGGGCTGTTTA 60.826 50.000 0.00 0.00 42.24 2.01
324 334 2.591715 AGCTGGTGCGTGTGTTCC 60.592 61.111 0.00 0.00 45.42 3.62
325 335 2.633657 CAGCTGGTGCGTGTGTTC 59.366 61.111 5.57 0.00 45.42 3.18
333 349 2.993264 ATTGTGGCCAGCTGGTGC 60.993 61.111 32.81 22.22 37.57 5.01
335 351 0.251922 ATTGATTGTGGCCAGCTGGT 60.252 50.000 32.81 13.11 37.57 4.00
357 373 2.159338 GCATTTCTCTGGGTCGTACGTA 60.159 50.000 16.05 0.00 0.00 3.57
358 374 1.403780 GCATTTCTCTGGGTCGTACGT 60.404 52.381 16.05 0.00 0.00 3.57
359 375 1.135083 AGCATTTCTCTGGGTCGTACG 60.135 52.381 9.53 9.53 0.00 3.67
360 376 2.674796 AGCATTTCTCTGGGTCGTAC 57.325 50.000 0.00 0.00 0.00 3.67
361 377 2.429610 GGTAGCATTTCTCTGGGTCGTA 59.570 50.000 0.00 0.00 0.00 3.43
568 607 2.354188 TGTTGACCGTCGTCGCTG 60.354 61.111 0.00 0.00 42.37 5.18
632 671 1.067749 TCCTTTTTGGACGCGACGA 59.932 52.632 15.93 0.00 40.56 4.20
663 702 1.421646 CTCTCCTCTCCTCTCCTCCTC 59.578 61.905 0.00 0.00 0.00 3.71
664 703 1.522900 CTCTCCTCTCCTCTCCTCCT 58.477 60.000 0.00 0.00 0.00 3.69
665 704 0.478507 CCTCTCCTCTCCTCTCCTCC 59.521 65.000 0.00 0.00 0.00 4.30
834 874 1.002468 ACGTCGGTTTATATAGCGCGT 60.002 47.619 21.09 21.09 42.25 6.01
886 926 2.203640 AGAGTGAGGCGTGGTGGA 60.204 61.111 0.00 0.00 0.00 4.02
910 951 3.458118 TGGAACTGAAAACAGAGGAGGAA 59.542 43.478 0.00 0.00 0.00 3.36
949 990 3.790899 ACTCAGAGAGATTGCGCGAGC 62.791 57.143 12.10 4.26 45.00 5.03
950 991 0.100325 ACTCAGAGAGATTGCGCGAG 59.900 55.000 12.10 2.38 33.32 5.03
953 994 0.099613 TCGACTCAGAGAGATTGCGC 59.900 55.000 3.79 0.00 33.32 6.09
954 995 1.400142 ACTCGACTCAGAGAGATTGCG 59.600 52.381 3.79 0.00 40.57 4.85
955 996 3.434637 GAACTCGACTCAGAGAGATTGC 58.565 50.000 3.79 0.00 40.57 3.56
956 997 3.126171 ACGAACTCGACTCAGAGAGATTG 59.874 47.826 3.79 4.14 43.02 2.67
957 998 3.126171 CACGAACTCGACTCAGAGAGATT 59.874 47.826 3.79 0.00 43.02 2.40
958 999 2.675844 CACGAACTCGACTCAGAGAGAT 59.324 50.000 3.79 0.00 43.02 2.75
959 1000 2.070028 CACGAACTCGACTCAGAGAGA 58.930 52.381 3.79 2.38 43.02 3.10
960 1001 1.129624 CCACGAACTCGACTCAGAGAG 59.870 57.143 3.79 0.00 43.02 3.20
961 1002 1.157585 CCACGAACTCGACTCAGAGA 58.842 55.000 3.79 0.00 43.02 3.10
972 1013 2.122547 ACCCCACTCCCACGAACT 60.123 61.111 0.00 0.00 0.00 3.01
973 1014 2.032071 CACCCCACTCCCACGAAC 59.968 66.667 0.00 0.00 0.00 3.95
975 1016 3.163231 TACCACCCCACTCCCACGA 62.163 63.158 0.00 0.00 0.00 4.35
977 1018 2.298661 CCTACCACCCCACTCCCAC 61.299 68.421 0.00 0.00 0.00 4.61
978 1019 2.124085 CCTACCACCCCACTCCCA 59.876 66.667 0.00 0.00 0.00 4.37
979 1020 2.691252 CCCTACCACCCCACTCCC 60.691 72.222 0.00 0.00 0.00 4.30
981 1022 2.298661 CCACCCTACCACCCCACTC 61.299 68.421 0.00 0.00 0.00 3.51
982 1023 2.132946 ATCCACCCTACCACCCCACT 62.133 60.000 0.00 0.00 0.00 4.00
983 1024 1.618447 ATCCACCCTACCACCCCAC 60.618 63.158 0.00 0.00 0.00 4.61
984 1025 1.618143 CATCCACCCTACCACCCCA 60.618 63.158 0.00 0.00 0.00 4.96
985 1026 2.383601 CCATCCACCCTACCACCCC 61.384 68.421 0.00 0.00 0.00 4.95
1136 1182 1.621822 TCGTACTCCTCCCCCTCCT 60.622 63.158 0.00 0.00 0.00 3.69
1516 1571 3.130227 CTGCGCCCTACCCTACTC 58.870 66.667 4.18 0.00 0.00 2.59
1517 1572 3.155167 GCTGCGCCCTACCCTACT 61.155 66.667 4.18 0.00 0.00 2.57
1518 1573 3.467226 TGCTGCGCCCTACCCTAC 61.467 66.667 4.18 0.00 0.00 3.18
1519 1574 3.467226 GTGCTGCGCCCTACCCTA 61.467 66.667 4.18 0.00 0.00 3.53
1521 1576 4.840005 GAGTGCTGCGCCCTACCC 62.840 72.222 9.97 0.00 0.00 3.69
1534 1589 2.125106 GGCTTGCCTACCCGAGTG 60.125 66.667 4.11 0.00 0.00 3.51
1535 1590 2.185310 CTTGGCTTGCCTACCCGAGT 62.185 60.000 13.18 0.00 0.00 4.18
1537 1592 2.668632 CTTGGCTTGCCTACCCGA 59.331 61.111 13.18 0.00 0.00 5.14
1540 1595 2.530958 TACGCCTTGGCTTGCCTACC 62.531 60.000 13.18 0.00 0.00 3.18
1542 1597 0.392461 CTTACGCCTTGGCTTGCCTA 60.392 55.000 13.18 4.37 0.00 3.93
1550 1612 3.380671 CGTACGCTTACGCCTTGG 58.619 61.111 9.97 0.00 44.38 3.61
1653 1716 0.460284 AAGAAAGCGATGCGACCGAT 60.460 50.000 0.00 0.00 0.00 4.18
1808 1881 1.372128 GGACGCAAAAGCAGGCAAG 60.372 57.895 0.00 0.00 0.00 4.01
1848 1931 1.620822 AAGGTTGCATGGAACAGGAC 58.379 50.000 28.21 13.10 46.40 3.85
1934 2019 1.136224 GGCGAAAGAGAAAGAAGCACG 60.136 52.381 0.00 0.00 0.00 5.34
1935 2020 1.873591 TGGCGAAAGAGAAAGAAGCAC 59.126 47.619 0.00 0.00 0.00 4.40
1937 2022 2.350868 GGTTGGCGAAAGAGAAAGAAGC 60.351 50.000 0.00 0.00 0.00 3.86
1938 2023 3.142174 AGGTTGGCGAAAGAGAAAGAAG 58.858 45.455 0.00 0.00 0.00 2.85
1978 2067 6.977502 CACGCTACTAGTAACTCTCACTACTA 59.022 42.308 3.76 0.00 30.98 1.82
1981 2070 5.728471 ACACGCTACTAGTAACTCTCACTA 58.272 41.667 3.76 0.00 0.00 2.74
1983 2072 4.943142 ACACGCTACTAGTAACTCTCAC 57.057 45.455 3.76 0.00 0.00 3.51
1984 2073 5.482006 TGTACACGCTACTAGTAACTCTCA 58.518 41.667 3.76 0.00 0.00 3.27
1985 2074 6.414408 TTGTACACGCTACTAGTAACTCTC 57.586 41.667 3.76 0.00 0.00 3.20
1986 2075 6.596888 TGATTGTACACGCTACTAGTAACTCT 59.403 38.462 3.76 0.00 0.00 3.24
1987 2076 6.779117 TGATTGTACACGCTACTAGTAACTC 58.221 40.000 3.76 0.00 0.00 3.01
1989 2078 6.549952 ACTGATTGTACACGCTACTAGTAAC 58.450 40.000 3.76 0.00 0.00 2.50
1990 2079 6.596888 AGACTGATTGTACACGCTACTAGTAA 59.403 38.462 3.76 0.00 0.00 2.24
1991 2080 6.036844 CAGACTGATTGTACACGCTACTAGTA 59.963 42.308 1.89 1.89 0.00 1.82
1992 2081 4.942483 AGACTGATTGTACACGCTACTAGT 59.058 41.667 0.00 0.00 0.00 2.57
1997 2086 3.366985 CCACAGACTGATTGTACACGCTA 60.367 47.826 10.08 0.00 0.00 4.26
2016 2119 3.369576 GGGACTCTGAGATTGGTTACCAC 60.370 52.174 12.44 0.00 30.78 4.16
2019 2122 2.758979 TCGGGACTCTGAGATTGGTTAC 59.241 50.000 12.44 0.00 0.00 2.50
2055 2158 4.463186 ACGACTCAACTTGGCTTAGATAGT 59.537 41.667 0.00 0.00 0.00 2.12
2064 2206 0.307760 CCAACACGACTCAACTTGGC 59.692 55.000 0.00 0.00 0.00 4.52
2073 2215 1.006571 CACGCCTACCAACACGACT 60.007 57.895 0.00 0.00 0.00 4.18
2080 2222 2.260434 GAGACGCACGCCTACCAA 59.740 61.111 0.00 0.00 0.00 3.67
2081 2223 4.111016 CGAGACGCACGCCTACCA 62.111 66.667 0.00 0.00 0.00 3.25
2110 2252 4.510571 ACATGTACCGGTGGAAATTAGTC 58.489 43.478 19.93 0.00 0.00 2.59
2133 2275 0.672342 AAGGACACGAACGCACTACT 59.328 50.000 0.00 0.00 0.00 2.57
2298 2446 3.060020 ATTGCATGCAGTCTGCCGC 62.060 57.895 21.50 22.54 44.23 6.53
2384 2532 3.431725 CGCCCGAAGCCTGAAACC 61.432 66.667 0.00 0.00 38.78 3.27
2421 2579 0.380378 GAAACGTGCTGCCTTTGACA 59.620 50.000 0.00 0.00 0.00 3.58
2455 2617 3.576861 AGATAGTGGTGGTAGCTGCATA 58.423 45.455 3.61 0.00 0.00 3.14
2476 2638 1.887088 GCGGCTAGACCTGGCTAGATA 60.887 57.143 21.62 0.00 40.20 1.98
2477 2639 1.182385 GCGGCTAGACCTGGCTAGAT 61.182 60.000 21.62 0.00 40.20 1.98
2478 2640 1.828660 GCGGCTAGACCTGGCTAGA 60.829 63.158 21.62 0.00 40.20 2.43
2479 2641 2.731374 GCGGCTAGACCTGGCTAG 59.269 66.667 16.19 16.19 40.62 3.42
2480 2642 2.838225 GGCGGCTAGACCTGGCTA 60.838 66.667 0.00 0.00 37.24 3.93


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

AutoCloner maintained by Alex Coulton.