Multiple sequence alignment - TraesCS7A01G268400

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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 TraesCS7A01G268400 chr7A 100.000 3161 0 0 1 3161 271794746 271791586 0.000000e+00 5838.0
1 TraesCS7A01G268400 chr7A 74.880 418 96 5 1026 1440 700160723 700160312 6.960000e-42 182.0
2 TraesCS7A01G268400 chr7B 91.832 3220 156 33 1 3155 226332032 226335209 0.000000e+00 4390.0
3 TraesCS7A01G268400 chr7B 74.757 412 89 8 1026 1431 697422861 697423263 1.510000e-38 171.0
4 TraesCS7A01G268400 chr7B 74.408 422 91 9 1026 1440 697120242 697119831 7.010000e-37 165.0
5 TraesCS7A01G268400 chr7B 97.368 38 1 0 1811 1848 694263986 694264023 7.320000e-07 65.8
6 TraesCS7A01G268400 chr7B 97.368 38 1 0 1811 1848 695367080 695367117 7.320000e-07 65.8
7 TraesCS7A01G268400 chr7D 94.327 2221 68 18 863 3060 249374705 249376890 0.000000e+00 3350.0
8 TraesCS7A01G268400 chr7D 86.478 318 20 7 1 311 249373780 249374081 8.450000e-86 327.0
9 TraesCS7A01G268400 chr7D 85.561 187 19 5 686 864 249374484 249374670 4.160000e-44 189.0
10 TraesCS7A01G268400 chr7D 97.368 38 1 0 1811 1848 609900848 609900885 7.320000e-07 65.8
11 TraesCS7A01G268400 chr7D 97.368 38 1 0 1811 1848 609905753 609905790 7.320000e-07 65.8
12 TraesCS7A01G268400 chr7D 97.368 38 1 0 1811 1848 609946428 609946391 7.320000e-07 65.8
13 TraesCS7A01G268400 chr6D 83.117 77 11 2 1259 1333 21700805 21700881 5.660000e-08 69.4
14 TraesCS7A01G268400 chr6B 97.368 38 1 0 1811 1848 34058218 34058181 7.320000e-07 65.8
15 TraesCS7A01G268400 chr6A 97.368 38 1 0 1811 1848 20125466 20125429 7.320000e-07 65.8
16 TraesCS7A01G268400 chr5B 87.500 56 7 0 580 635 676015443 676015388 7.320000e-07 65.8
17 TraesCS7A01G268400 chr2A 94.286 35 0 2 2113 2146 744641413 744641380 6.000000e-03 52.8


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 TraesCS7A01G268400 chr7A 271791586 271794746 3160 True 5838.000000 5838 100.000000 1 3161 1 chr7A.!!$R1 3160
1 TraesCS7A01G268400 chr7B 226332032 226335209 3177 False 4390.000000 4390 91.832000 1 3155 1 chr7B.!!$F1 3154
2 TraesCS7A01G268400 chr7D 249373780 249376890 3110 False 1288.666667 3350 88.788667 1 3060 3 chr7D.!!$F3 3059

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
538 605 0.250901 GACACATGCCTGGACTGGTT 60.251 55.000 0.0 0.0 0.0 3.67 F
979 1231 1.374252 CACTCCACCAGCCACGTAC 60.374 63.158 0.0 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1893 2145 0.109342 ACTGGTTGTCTGCTTCCCTG 59.891 55.0 0.0 0.0 0.0 4.45 R
2965 3246 0.523072 CAAACAGGGCAGATGGTTCG 59.477 55.0 0.0 0.0 0.0 3.95 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
46 47 1.407979 GCTTTCCTGGATCTTGCATGG 59.592 52.381 0.00 0.00 0.00 3.66
47 48 2.029623 CTTTCCTGGATCTTGCATGGG 58.970 52.381 0.00 0.00 0.00 4.00
48 49 1.002069 TTCCTGGATCTTGCATGGGT 58.998 50.000 0.00 0.00 0.00 4.51
49 50 1.002069 TCCTGGATCTTGCATGGGTT 58.998 50.000 0.00 0.00 0.00 4.11
50 51 1.358787 TCCTGGATCTTGCATGGGTTT 59.641 47.619 0.00 0.00 0.00 3.27
51 52 2.181975 CCTGGATCTTGCATGGGTTTT 58.818 47.619 0.00 0.00 0.00 2.43
165 167 2.875296 TGATGGCAACTAATATGGGGC 58.125 47.619 0.00 0.00 37.61 5.80
203 205 9.573133 CAAACTGTAGTTCAAATATTTCCATCC 57.427 33.333 0.00 0.00 37.25 3.51
248 257 2.510928 TAAAAACACCCCATACCCCG 57.489 50.000 0.00 0.00 0.00 5.73
311 322 4.410400 GTGGAGGGAGCCAACCGG 62.410 72.222 0.00 0.00 40.20 5.28
323 380 2.109425 CCAACCGGCTAAAGCTAGTT 57.891 50.000 0.00 3.48 41.70 2.24
380 447 0.395586 TCCCCTTCCATCGGCAATTG 60.396 55.000 0.00 0.00 0.00 2.32
382 449 1.321805 CCCTTCCATCGGCAATTGCA 61.322 55.000 30.32 12.82 44.36 4.08
385 452 1.249469 TTCCATCGGCAATTGCAGCA 61.249 50.000 30.32 16.82 44.36 4.41
386 453 1.517694 CCATCGGCAATTGCAGCAC 60.518 57.895 30.32 13.01 44.36 4.40
408 475 1.596934 CACCGATACCACACTGCCT 59.403 57.895 0.00 0.00 0.00 4.75
502 569 2.158623 CCTGGATTCCCATTTCCGATCA 60.159 50.000 0.00 0.00 42.59 2.92
508 575 3.610040 TCCCATTTCCGATCATATCCG 57.390 47.619 0.00 0.00 0.00 4.18
521 588 4.002906 TCATATCCGGCTGGTTTATGAC 57.997 45.455 24.20 0.00 36.95 3.06
525 592 1.280710 TCCGGCTGGTTTATGACACAT 59.719 47.619 12.43 0.00 36.30 3.21
527 594 1.202177 CGGCTGGTTTATGACACATGC 60.202 52.381 0.00 0.00 0.00 4.06
538 605 0.250901 GACACATGCCTGGACTGGTT 60.251 55.000 0.00 0.00 0.00 3.67
548 615 3.780902 CCTGGACTGGTTGTTTTGTTTC 58.219 45.455 0.00 0.00 0.00 2.78
570 637 2.684881 CAGGCGGAAAATTAGCTGTGAT 59.315 45.455 0.00 0.00 0.00 3.06
571 638 2.945668 AGGCGGAAAATTAGCTGTGATC 59.054 45.455 0.00 0.00 0.00 2.92
573 640 2.286418 GCGGAAAATTAGCTGTGATCGG 60.286 50.000 0.00 0.00 0.00 4.18
574 641 2.287915 CGGAAAATTAGCTGTGATCGGG 59.712 50.000 0.00 0.00 0.00 5.14
581 648 6.619801 AATTAGCTGTGATCGGGAATTTAC 57.380 37.500 0.00 0.00 0.00 2.01
684 751 3.060615 CCAAGCAGCTGGCCAGTC 61.061 66.667 32.81 24.09 46.50 3.51
688 892 2.595463 GCAGCTGGCCAGTCACAA 60.595 61.111 32.81 0.00 36.11 3.33
835 1047 5.823570 ACACTATATATAGAGGCAGCGTAGG 59.176 44.000 23.70 0.00 34.50 3.18
909 1161 2.759973 TCTCTTCTCGGCCGCCAT 60.760 61.111 23.51 0.00 0.00 4.40
910 1162 2.279784 CTCTTCTCGGCCGCCATC 60.280 66.667 23.51 0.00 0.00 3.51
911 1163 2.759973 TCTTCTCGGCCGCCATCT 60.760 61.111 23.51 0.00 0.00 2.90
912 1164 2.587194 CTTCTCGGCCGCCATCTG 60.587 66.667 23.51 6.02 0.00 2.90
913 1165 3.376935 CTTCTCGGCCGCCATCTGT 62.377 63.158 23.51 0.00 0.00 3.41
914 1166 2.859273 CTTCTCGGCCGCCATCTGTT 62.859 60.000 23.51 0.00 0.00 3.16
915 1167 3.197790 CTCGGCCGCCATCTGTTG 61.198 66.667 23.51 0.00 0.00 3.33
918 1170 3.064324 GGCCGCCATCTGTTGCTT 61.064 61.111 3.91 0.00 0.00 3.91
976 1228 3.596066 CTCCACTCCACCAGCCACG 62.596 68.421 0.00 0.00 0.00 4.94
977 1229 3.941188 CCACTCCACCAGCCACGT 61.941 66.667 0.00 0.00 0.00 4.49
978 1230 2.579657 CCACTCCACCAGCCACGTA 61.580 63.158 0.00 0.00 0.00 3.57
979 1231 1.374252 CACTCCACCAGCCACGTAC 60.374 63.158 0.00 0.00 0.00 3.67
1021 1273 2.356194 CGATGCCGGCGATCATCA 60.356 61.111 28.05 10.58 39.11 3.07
1266 1518 2.269241 CCCGGCAAGGACTTCTCC 59.731 66.667 0.00 0.00 45.00 3.71
1809 2061 2.125512 GGTGCTGGGCTAGACACG 60.126 66.667 0.43 0.00 35.57 4.49
1887 2139 4.465305 GGTGGCGTATATTACCTCCACTAT 59.535 45.833 16.53 0.00 43.03 2.12
1893 2145 7.424001 GCGTATATTACCTCCACTATACCATC 58.576 42.308 0.00 0.00 0.00 3.51
2029 2281 2.124151 GGTCATTGGAGCCGGCAT 60.124 61.111 31.54 14.28 35.49 4.40
2037 2289 2.607892 GGAGCCGGCATATTGCGAC 61.608 63.158 31.54 7.56 46.21 5.19
2077 2329 3.126001 AGACGATGCAACTTGAAAGGA 57.874 42.857 0.00 0.00 0.00 3.36
2130 2382 4.929808 GCACAGATATATACCAACTTCCCG 59.070 45.833 0.00 0.00 0.00 5.14
2193 2445 4.631813 AGCTTTCTATTGGCTCAAAGTACG 59.368 41.667 0.00 0.00 0.00 3.67
2196 2448 6.476243 TTTCTATTGGCTCAAAGTACGTTC 57.524 37.500 0.00 0.00 0.00 3.95
2211 2463 1.887198 ACGTTCTCTCGTCTTGATGGT 59.113 47.619 0.00 0.00 40.04 3.55
2212 2464 2.296471 ACGTTCTCTCGTCTTGATGGTT 59.704 45.455 0.00 0.00 40.04 3.67
2213 2465 2.663602 CGTTCTCTCGTCTTGATGGTTG 59.336 50.000 0.00 0.00 0.00 3.77
2256 2508 9.605275 TTATATGATGATGCTTATAGTTCCTGC 57.395 33.333 0.00 0.00 0.00 4.85
2261 2513 5.500234 TGATGCTTATAGTTCCTGCTTGTT 58.500 37.500 0.00 0.00 0.00 2.83
2262 2514 5.355071 TGATGCTTATAGTTCCTGCTTGTTG 59.645 40.000 0.00 0.00 0.00 3.33
2263 2515 4.651778 TGCTTATAGTTCCTGCTTGTTGT 58.348 39.130 0.00 0.00 0.00 3.32
2264 2516 5.800296 TGCTTATAGTTCCTGCTTGTTGTA 58.200 37.500 0.00 0.00 0.00 2.41
2265 2517 6.414732 TGCTTATAGTTCCTGCTTGTTGTAT 58.585 36.000 0.00 0.00 0.00 2.29
2266 2518 6.884295 TGCTTATAGTTCCTGCTTGTTGTATT 59.116 34.615 0.00 0.00 0.00 1.89
2418 2683 7.140705 ACATGTTTTTGTATGCATCCATATCG 58.859 34.615 0.19 0.00 36.40 2.92
2419 2684 6.691754 TGTTTTTGTATGCATCCATATCGT 57.308 33.333 0.19 0.00 36.40 3.73
2420 2685 6.493978 TGTTTTTGTATGCATCCATATCGTG 58.506 36.000 0.19 0.00 36.40 4.35
2421 2686 6.317391 TGTTTTTGTATGCATCCATATCGTGA 59.683 34.615 0.19 0.00 36.40 4.35
2422 2687 6.544038 TTTTGTATGCATCCATATCGTGAG 57.456 37.500 0.19 0.00 36.40 3.51
2423 2688 4.871933 TGTATGCATCCATATCGTGAGT 57.128 40.909 0.19 0.00 36.40 3.41
2424 2689 4.809673 TGTATGCATCCATATCGTGAGTC 58.190 43.478 0.19 0.00 36.40 3.36
2493 2758 6.244654 TCATCCATCCTTTAACATCACAACA 58.755 36.000 0.00 0.00 0.00 3.33
2497 2762 6.549364 TCCATCCTTTAACATCACAACAGTTT 59.451 34.615 0.00 0.00 0.00 2.66
2514 2779 8.898761 ACAACAGTTTAACAAATATCAGTGTGA 58.101 29.630 0.00 0.00 0.00 3.58
2552 2817 3.617669 CGTGTGACCAGTTGTTTGATTC 58.382 45.455 0.00 0.00 0.00 2.52
2572 2837 2.483877 TCGCTGGAATACAAAACTGCAG 59.516 45.455 13.48 13.48 0.00 4.41
2696 2963 7.158697 TGGTTATCATCGTATTGAGTATTGGG 58.841 38.462 0.00 0.00 0.00 4.12
2704 2973 9.140286 CATCGTATTGAGTATTGGGTACTTATG 57.860 37.037 0.00 0.00 43.66 1.90
2750 3019 2.653726 TGCACAGTTTCATCCACACTT 58.346 42.857 0.00 0.00 0.00 3.16
2767 3036 5.106442 CACACTTACCCTTGTTTTGTTTCC 58.894 41.667 0.00 0.00 0.00 3.13
2814 3084 4.715534 TGTGAAGGACAAGGATACCAAA 57.284 40.909 0.00 0.00 37.17 3.28
2835 3105 0.529773 TCGTTGGATGGCATCTACGC 60.530 55.000 31.65 20.24 37.28 4.42
2912 3182 1.407989 GGTTGAGGAGGGAAGCAGATG 60.408 57.143 0.00 0.00 0.00 2.90
3052 3335 2.757868 TGCGGATTGATTAGGTTTTGGG 59.242 45.455 0.00 0.00 0.00 4.12
3060 3343 2.961531 TTAGGTTTTGGGTAGCAGCA 57.038 45.000 0.00 0.00 0.00 4.41
3090 3377 3.557898 GCAGCTGCTAAATGGAGGCTATA 60.558 47.826 31.33 0.00 38.21 1.31
3091 3378 4.841422 CAGCTGCTAAATGGAGGCTATAT 58.159 43.478 0.00 0.00 34.46 0.86
3094 3381 5.485353 AGCTGCTAAATGGAGGCTATATACA 59.515 40.000 0.00 0.00 34.46 2.29
3124 3413 5.127031 TCTTTTGAAAGTGGAGGGTGAAAAG 59.873 40.000 3.63 0.00 37.31 2.27
3155 3444 2.659897 CCTGCATCTCGGCGCTAC 60.660 66.667 7.64 0.00 36.28 3.58
3156 3445 2.415010 CTGCATCTCGGCGCTACT 59.585 61.111 7.64 0.00 36.28 2.57
3157 3446 1.659954 CTGCATCTCGGCGCTACTC 60.660 63.158 7.64 0.00 36.28 2.59
3158 3447 2.355244 GCATCTCGGCGCTACTCC 60.355 66.667 7.64 0.00 0.00 3.85
3159 3448 2.336809 CATCTCGGCGCTACTCCC 59.663 66.667 7.64 0.00 0.00 4.30
3160 3449 2.196229 ATCTCGGCGCTACTCCCT 59.804 61.111 7.64 0.00 0.00 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 1.409790 ACCGGTAGCAAAACCAAAACC 59.590 47.619 4.49 0.00 39.71 3.27
47 48 2.861335 CAACCGGTAGCAAAACCAAAAC 59.139 45.455 8.00 0.00 39.71 2.43
48 49 2.496470 ACAACCGGTAGCAAAACCAAAA 59.504 40.909 8.00 0.00 39.71 2.44
49 50 2.100989 ACAACCGGTAGCAAAACCAAA 58.899 42.857 8.00 0.00 39.71 3.28
50 51 1.405821 CACAACCGGTAGCAAAACCAA 59.594 47.619 8.00 0.00 39.71 3.67
51 52 1.025812 CACAACCGGTAGCAAAACCA 58.974 50.000 8.00 0.00 39.71 3.67
165 167 2.225068 ACAGTTTGAGGAGTCGTGTG 57.775 50.000 0.00 0.00 0.00 3.82
203 205 5.362556 AGAGTTCGTCCAATCAAACATTG 57.637 39.130 0.00 0.00 0.00 2.82
218 220 3.501062 GGGGTGTTTTTAAGGAGAGTTCG 59.499 47.826 0.00 0.00 0.00 3.95
248 257 2.507058 TGCATCTCCCCATCTATATGCC 59.493 50.000 0.00 0.00 39.11 4.40
311 322 1.393883 GTGGTCGCAACTAGCTTTAGC 59.606 52.381 0.00 0.00 42.61 3.09
314 325 0.032952 TCGTGGTCGCAACTAGCTTT 59.967 50.000 0.00 0.00 42.61 3.51
380 447 1.521681 GTATCGGTGGAGGTGCTGC 60.522 63.158 0.00 0.00 0.00 5.25
382 449 1.305802 TGGTATCGGTGGAGGTGCT 60.306 57.895 0.00 0.00 0.00 4.40
385 452 0.252103 AGTGTGGTATCGGTGGAGGT 60.252 55.000 0.00 0.00 0.00 3.85
386 453 0.175760 CAGTGTGGTATCGGTGGAGG 59.824 60.000 0.00 0.00 0.00 4.30
408 475 2.568956 AGATGTGTTGCTCTAGAAGGCA 59.431 45.455 2.67 2.67 36.62 4.75
502 569 3.135712 TGTGTCATAAACCAGCCGGATAT 59.864 43.478 5.05 0.00 35.59 1.63
508 575 1.134946 GGCATGTGTCATAAACCAGCC 59.865 52.381 0.00 0.00 0.00 4.85
521 588 0.538057 ACAACCAGTCCAGGCATGTG 60.538 55.000 0.00 0.00 32.64 3.21
525 592 1.110442 CAAAACAACCAGTCCAGGCA 58.890 50.000 0.00 0.00 0.00 4.75
527 594 3.430236 GGAAACAAAACAACCAGTCCAGG 60.430 47.826 0.00 0.00 0.00 4.45
538 605 3.192799 TCCGCCTGGAAACAAAACA 57.807 47.368 0.00 0.00 42.85 2.83
548 615 1.133025 CACAGCTAATTTTCCGCCTGG 59.867 52.381 0.00 0.00 0.00 4.45
603 670 6.090223 CGCTTGGATTGGGTGTAAATTTTTAC 59.910 38.462 0.00 6.30 42.51 2.01
641 708 0.774908 TCCACCGGTTCCCTCAAAAT 59.225 50.000 2.97 0.00 0.00 1.82
668 735 2.281970 TGACTGGCCAGCTGCTTG 60.282 61.111 33.06 8.68 40.92 4.01
684 751 7.747888 TGATTAATGAGTACGTTGGAATTGTG 58.252 34.615 0.00 0.00 0.00 3.33
825 1034 1.362406 GAGAAAGCACCTACGCTGCC 61.362 60.000 0.00 0.00 42.89 4.85
835 1047 2.565841 AGGTTCACACTGAGAAAGCAC 58.434 47.619 0.00 0.00 0.00 4.40
915 1167 2.621000 CGGCGTATGCGAGAAAGC 59.379 61.111 7.60 0.00 44.10 3.51
916 1168 2.621000 GCGGCGTATGCGAGAAAG 59.379 61.111 7.60 0.00 44.10 2.62
917 1169 2.888534 GGCGGCGTATGCGAGAAA 60.889 61.111 7.60 0.00 44.10 2.52
1266 1518 2.124942 GCGGGCAGGAAGGAGAAG 60.125 66.667 0.00 0.00 0.00 2.85
1351 1603 0.878961 GTGAACTCCGCGTCCTTGTT 60.879 55.000 4.92 2.18 0.00 2.83
1697 1949 3.326747 CAACTCGTTTCCCAGTAGAAGG 58.673 50.000 0.00 0.00 0.00 3.46
1721 1973 2.045926 GCACGAGCCACATTCCCT 60.046 61.111 0.00 0.00 33.58 4.20
1887 2139 1.951209 TGTCTGCTTCCCTGATGGTA 58.049 50.000 0.00 0.00 34.77 3.25
1893 2145 0.109342 ACTGGTTGTCTGCTTCCCTG 59.891 55.000 0.00 0.00 0.00 4.45
1942 2194 3.149196 GGATGCAATACCAGTACCCATG 58.851 50.000 0.00 0.00 0.00 3.66
2029 2281 1.134995 CAGTGAGAGGCAGTCGCAATA 60.135 52.381 2.99 0.00 36.65 1.90
2037 2289 0.900421 TGATGTCCAGTGAGAGGCAG 59.100 55.000 0.00 0.00 0.00 4.85
2066 2318 2.851195 ACGAGCACATCCTTTCAAGTT 58.149 42.857 0.00 0.00 0.00 2.66
2067 2319 2.549754 CAACGAGCACATCCTTTCAAGT 59.450 45.455 0.00 0.00 0.00 3.16
2112 2364 4.546829 TGGCGGGAAGTTGGTATATATC 57.453 45.455 0.00 0.00 0.00 1.63
2130 2382 1.718757 GGGATGACAGCAACGATGGC 61.719 60.000 0.00 0.00 0.00 4.40
2193 2445 3.654414 ACAACCATCAAGACGAGAGAAC 58.346 45.455 0.00 0.00 0.00 3.01
2196 2448 5.289675 GTGATAACAACCATCAAGACGAGAG 59.710 44.000 0.00 0.00 34.32 3.20
2304 2559 3.947868 AGCTTCAACATGCAGACATACT 58.052 40.909 0.00 0.00 33.67 2.12
2305 2560 4.409570 CAAGCTTCAACATGCAGACATAC 58.590 43.478 0.00 0.00 33.67 2.39
2306 2561 3.119743 GCAAGCTTCAACATGCAGACATA 60.120 43.478 0.00 0.00 38.63 2.29
2307 2562 2.352421 GCAAGCTTCAACATGCAGACAT 60.352 45.455 0.00 0.00 38.63 3.06
2309 2564 1.001048 TGCAAGCTTCAACATGCAGAC 60.001 47.619 4.41 0.00 43.32 3.51
2418 2683 4.744570 TCTTCATTACGGTCATGACTCAC 58.255 43.478 24.50 8.08 30.09 3.51
2419 2684 5.598416 ATCTTCATTACGGTCATGACTCA 57.402 39.130 24.50 8.00 30.09 3.41
2420 2685 8.594881 AATAATCTTCATTACGGTCATGACTC 57.405 34.615 24.50 13.90 30.09 3.36
2421 2686 9.698309 CTAATAATCTTCATTACGGTCATGACT 57.302 33.333 24.50 9.24 30.09 3.41
2422 2687 8.926710 CCTAATAATCTTCATTACGGTCATGAC 58.073 37.037 17.91 17.91 30.09 3.06
2423 2688 8.647796 ACCTAATAATCTTCATTACGGTCATGA 58.352 33.333 0.97 0.97 0.00 3.07
2424 2689 8.833231 ACCTAATAATCTTCATTACGGTCATG 57.167 34.615 0.00 0.00 0.00 3.07
2493 2758 9.337396 TCAAGTCACACTGATATTTGTTAAACT 57.663 29.630 0.00 0.00 0.00 2.66
2497 2762 8.367911 AGTCTCAAGTCACACTGATATTTGTTA 58.632 33.333 0.00 0.00 0.00 2.41
2514 2779 4.674080 ACACGCCAAACGAGTCTCAAGT 62.674 50.000 0.00 0.00 42.11 3.16
2552 2817 2.855180 CTGCAGTTTTGTATTCCAGCG 58.145 47.619 5.25 0.00 0.00 5.18
2696 2963 7.627585 TCGACACAACTAACAACATAAGTAC 57.372 36.000 0.00 0.00 0.00 2.73
2704 2973 5.901884 CAGAACAATCGACACAACTAACAAC 59.098 40.000 0.00 0.00 0.00 3.32
2750 3019 4.354662 ACAAGGGAAACAAAACAAGGGTA 58.645 39.130 0.00 0.00 0.00 3.69
2814 3084 1.202417 CGTAGATGCCATCCAACGACT 60.202 52.381 19.79 0.00 39.90 4.18
2960 3241 0.539438 AGGGCAGATGGTTCGCAAAA 60.539 50.000 0.00 0.00 0.00 2.44
2961 3242 1.074775 AGGGCAGATGGTTCGCAAA 59.925 52.632 0.00 0.00 0.00 3.68
2962 3243 1.675310 CAGGGCAGATGGTTCGCAA 60.675 57.895 0.00 0.00 0.00 4.85
2965 3246 0.523072 CAAACAGGGCAGATGGTTCG 59.477 55.000 0.00 0.00 0.00 3.95
2966 3247 1.909700 TCAAACAGGGCAGATGGTTC 58.090 50.000 0.00 0.00 0.00 3.62
2967 3248 2.610438 ATCAAACAGGGCAGATGGTT 57.390 45.000 0.00 0.00 0.00 3.67
2968 3249 3.959495 ATATCAAACAGGGCAGATGGT 57.041 42.857 0.00 0.00 0.00 3.55
3052 3335 2.174349 GCACGCACTTGCTGCTAC 59.826 61.111 14.55 0.00 44.64 3.58
3060 3343 1.165907 TTTAGCAGCTGCACGCACTT 61.166 50.000 38.24 19.63 45.16 3.16
3066 3349 0.737219 CCTCCATTTAGCAGCTGCAC 59.263 55.000 38.24 12.54 45.16 4.57
3091 3378 8.802267 CCCTCCACTTTCAAAAGATAAAATGTA 58.198 33.333 9.39 0.00 39.31 2.29
3094 3381 7.508977 TCACCCTCCACTTTCAAAAGATAAAAT 59.491 33.333 9.39 0.00 39.31 1.82
3099 3386 4.453480 TCACCCTCCACTTTCAAAAGAT 57.547 40.909 9.39 0.00 39.31 2.40
3101 3388 5.127031 TCTTTTCACCCTCCACTTTCAAAAG 59.873 40.000 0.97 0.97 41.73 2.27
3124 3413 3.881688 AGATGCAGGCAGACATAACAATC 59.118 43.478 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.