Multiple sequence alignment - TraesCS7A01G157400

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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 TraesCS7A01G157400 chr7A 100.000 2714 0 0 1 2714 110427874 110425161 0.000000e+00 5012
1 TraesCS7A01G157400 chr7B 89.896 2781 169 52 1 2714 64073735 64071000 0.000000e+00 3476
2 TraesCS7A01G157400 chr7D 92.287 1102 71 10 592 1686 105461149 105460055 0.000000e+00 1552
3 TraesCS7A01G157400 chr7D 94.810 501 24 2 1 500 105463321 105462822 0.000000e+00 780
4 TraesCS7A01G157400 chr7D 88.504 635 30 19 2109 2709 105457773 105457148 0.000000e+00 728
5 TraesCS7A01G157400 chr7D 85.489 317 24 14 1801 2117 105459664 105459370 7.300000e-81 311


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 TraesCS7A01G157400 chr7A 110425161 110427874 2713 True 5012.00 5012 100.0000 1 2714 1 chr7A.!!$R1 2713
1 TraesCS7A01G157400 chr7B 64071000 64073735 2735 True 3476.00 3476 89.8960 1 2714 1 chr7B.!!$R1 2713
2 TraesCS7A01G157400 chr7D 105457148 105463321 6173 True 842.75 1552 90.2725 1 2709 4 chr7D.!!$R1 2708

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
172 173 0.108585 ATCGCTGCCCCGTTGATAAT 59.891 50.0 0.0 0.0 0.00 1.28 F
1326 2931 0.389817 CTGATCGGCAGGTGTTCGAA 60.390 55.0 0.0 0.0 41.07 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1671 3282 0.033504 TCTTGTGCAGAAGACCGTCC 59.966 55.000 21.46 0.00 0.00 4.79 R
2329 5880 1.200252 CTACTGTCTGGACTGTCCACG 59.800 57.143 25.12 19.59 42.67 4.94 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
25 26 6.381994 AGTGATATCATTTGAACCTGGCAAAT 59.618 34.615 9.02 6.49 44.35 2.32
34 35 3.242518 GAACCTGGCAAATTTAGAACGC 58.757 45.455 0.00 0.00 0.00 4.84
61 62 4.637387 ATTTTTCATGGCAATTCCCACA 57.363 36.364 0.00 0.00 37.79 4.17
107 108 3.181397 CCATTTTGTGGCTTAGATTGCG 58.819 45.455 0.00 0.00 42.12 4.85
119 120 2.202932 ATTGCGCCGGTGCTAGAG 60.203 61.111 37.39 6.30 35.36 2.43
129 130 1.202463 CGGTGCTAGAGGACAAGATGG 60.202 57.143 3.48 0.00 38.19 3.51
172 173 0.108585 ATCGCTGCCCCGTTGATAAT 59.891 50.000 0.00 0.00 0.00 1.28
372 374 2.570284 CCCCAACGAGGCAAAACCC 61.570 63.158 0.00 0.00 40.58 4.11
384 386 1.375523 AAAACCCTCAGCCGCGTAG 60.376 57.895 4.92 0.00 0.00 3.51
385 387 2.108278 AAAACCCTCAGCCGCGTAGT 62.108 55.000 4.92 0.00 0.00 2.73
386 388 2.781595 AAACCCTCAGCCGCGTAGTG 62.782 60.000 4.92 0.00 38.04 2.74
568 2163 2.838736 AGCAGCGACAATTACTATGGG 58.161 47.619 0.00 0.00 0.00 4.00
691 2292 4.572985 TGAAATGCAGAAAGTCCAACAG 57.427 40.909 0.00 0.00 0.00 3.16
710 2311 6.639686 CCAACAGAAACAAAATCATCAGACAG 59.360 38.462 0.00 0.00 0.00 3.51
762 2364 7.989826 AGTGTAGCTTGCAATAGAAAAATAGG 58.010 34.615 0.00 0.00 0.00 2.57
798 2400 4.093952 CGGTTGCTGCTGCTTCCG 62.094 66.667 25.91 25.91 43.94 4.30
876 2478 3.031013 ACCTTATTAAAGTGCCATGGCC 58.969 45.455 33.44 23.56 41.09 5.36
891 2493 3.924507 GCCCTGTAACTGGCCATG 58.075 61.111 5.51 2.78 41.97 3.66
905 2507 2.761465 CCATGCCCTCCCTTCCTCC 61.761 68.421 0.00 0.00 0.00 4.30
946 2550 7.930217 TCAGAATTTTAGCATATAGGCAACAC 58.070 34.615 12.54 0.00 41.41 3.32
947 2551 7.555914 TCAGAATTTTAGCATATAGGCAACACA 59.444 33.333 12.54 0.00 41.41 3.72
957 2561 1.378762 GGCAACACAAGGCCCTCTA 59.621 57.895 0.00 0.00 44.53 2.43
1042 2646 0.614979 TCCTCACCCTTCTTCCTCCG 60.615 60.000 0.00 0.00 0.00 4.63
1076 2680 2.261671 GAGACTCGGCGCAAGGAA 59.738 61.111 10.83 0.00 38.28 3.36
1077 2681 2.048127 AGACTCGGCGCAAGGAAC 60.048 61.111 10.83 2.71 38.28 3.62
1118 2722 1.203441 AGAACCTCTGCAGCCCATGA 61.203 55.000 9.47 0.00 0.00 3.07
1120 2724 0.610232 AACCTCTGCAGCCCATGAAC 60.610 55.000 9.47 0.00 0.00 3.18
1209 2813 2.203139 TGGTCGGTGCACACTTGG 60.203 61.111 20.43 1.96 0.00 3.61
1217 2821 0.729116 GTGCACACTTGGATCATCCG 59.271 55.000 13.17 0.00 40.17 4.18
1223 2827 2.274437 CACTTGGATCATCCGTGTCTG 58.726 52.381 0.00 0.00 40.17 3.51
1246 2850 4.033009 TGCTTGATCCAAGGAGACATCTA 58.967 43.478 8.55 0.00 41.31 1.98
1247 2851 4.100653 TGCTTGATCCAAGGAGACATCTAG 59.899 45.833 8.55 0.00 41.31 2.43
1248 2852 4.502950 GCTTGATCCAAGGAGACATCTAGG 60.503 50.000 8.55 0.00 41.31 3.02
1249 2853 4.271807 TGATCCAAGGAGACATCTAGGT 57.728 45.455 0.00 0.00 0.00 3.08
1250 2854 4.624913 TGATCCAAGGAGACATCTAGGTT 58.375 43.478 0.00 0.00 0.00 3.50
1274 2878 6.391227 TGGTTTCCTCTCTGAATTGTTTTC 57.609 37.500 0.00 0.00 0.00 2.29
1293 2898 6.206048 TGTTTTCCTTTTCGAGTAAATCCTCC 59.794 38.462 0.00 0.00 0.00 4.30
1299 2904 4.467198 TTCGAGTAAATCCTCCCTGAAC 57.533 45.455 0.00 0.00 0.00 3.18
1326 2931 0.389817 CTGATCGGCAGGTGTTCGAA 60.390 55.000 0.00 0.00 41.07 3.71
1392 2997 2.835705 CGTCTGCGAGGGCTACGAT 61.836 63.158 7.86 0.00 45.65 3.73
1450 3055 0.951040 CTGCTTCCCGTGGTGAGTTC 60.951 60.000 0.00 0.00 0.00 3.01
1489 3098 9.617975 GTTTCTGAATGTTTATTTTCTCCTCTG 57.382 33.333 0.00 0.00 0.00 3.35
1493 3102 7.874940 TGAATGTTTATTTTCTCCTCTGTGTG 58.125 34.615 0.00 0.00 0.00 3.82
1494 3103 5.689383 TGTTTATTTTCTCCTCTGTGTGC 57.311 39.130 0.00 0.00 0.00 4.57
1495 3104 5.376625 TGTTTATTTTCTCCTCTGTGTGCT 58.623 37.500 0.00 0.00 0.00 4.40
1496 3105 5.239306 TGTTTATTTTCTCCTCTGTGTGCTG 59.761 40.000 0.00 0.00 0.00 4.41
1508 3119 0.593128 GTGTGCTGTTGCTTGGTAGG 59.407 55.000 0.00 0.00 40.48 3.18
1513 3124 2.158682 TGCTGTTGCTTGGTAGGAGAAA 60.159 45.455 0.00 0.00 40.48 2.52
1515 3126 2.814336 CTGTTGCTTGGTAGGAGAAACC 59.186 50.000 0.00 0.00 32.64 3.27
1516 3127 1.804748 GTTGCTTGGTAGGAGAAACCG 59.195 52.381 0.00 0.00 44.74 4.44
1538 3149 3.365472 AGAAAGAGGTGTTTGTTGCCTT 58.635 40.909 0.00 0.00 31.89 4.35
1567 3178 7.094506 TGGAAAATTCTTGTGTCTGATGATCAG 60.095 37.037 16.15 16.15 45.59 2.90
1635 3246 0.902531 AGGTCACCGATTTCATCCGT 59.097 50.000 0.00 0.00 0.00 4.69
1719 3337 0.034616 AGTGGCAGCTCTGAAGTGAC 59.965 55.000 0.29 0.00 0.00 3.67
1756 3375 5.234543 GGACCGATCAAGTAAGAGCAATAAC 59.765 44.000 0.00 0.00 0.00 1.89
1833 3720 7.972277 CAGTGATATTTTATTCTGCAAACAGCT 59.028 33.333 0.00 0.00 44.10 4.24
1848 3735 5.336372 GCAAACAGCTTGGTTAATATCACCA 60.336 40.000 3.09 3.09 42.90 4.17
1849 3736 5.897377 AACAGCTTGGTTAATATCACCAC 57.103 39.130 6.28 0.00 44.34 4.16
1853 3740 6.095440 ACAGCTTGGTTAATATCACCACAATC 59.905 38.462 6.28 0.00 44.34 2.67
1868 3755 3.305964 CACAATCACTTCTGCTTTGCTG 58.694 45.455 0.00 0.00 0.00 4.41
1878 3767 1.921887 CTGCTTTGCTGTTGTTGTGTG 59.078 47.619 0.00 0.00 0.00 3.82
1900 3789 7.542477 GTGTGCTAGCATACGAATCAGTTATAT 59.458 37.037 25.95 0.00 0.00 0.86
1904 3793 7.755373 GCTAGCATACGAATCAGTTATATGACA 59.245 37.037 10.63 0.00 30.46 3.58
1905 3794 9.283420 CTAGCATACGAATCAGTTATATGACAG 57.717 37.037 0.00 0.00 30.46 3.51
1906 3795 7.661968 AGCATACGAATCAGTTATATGACAGT 58.338 34.615 0.00 0.00 30.46 3.55
1907 3796 7.596621 AGCATACGAATCAGTTATATGACAGTG 59.403 37.037 0.00 0.00 30.46 3.66
1910 3799 7.936950 ACGAATCAGTTATATGACAGTGATG 57.063 36.000 0.00 0.00 30.46 3.07
1972 3861 3.984633 GGCGAGATCTTGATACTACTTGC 59.015 47.826 14.59 0.00 35.01 4.01
1979 3868 2.447089 TGATACTACTTGCGTCGACG 57.553 50.000 32.57 32.57 43.27 5.12
1980 3869 2.001872 TGATACTACTTGCGTCGACGA 58.998 47.619 39.74 22.22 43.02 4.20
1981 3870 2.610833 TGATACTACTTGCGTCGACGAT 59.389 45.455 39.74 21.81 43.02 3.73
2024 3915 6.231258 TCTGAATATCTGATCACTGCAACT 57.769 37.500 0.00 0.00 0.00 3.16
2026 3917 7.205992 TCTGAATATCTGATCACTGCAACTAC 58.794 38.462 0.00 0.00 0.00 2.73
2052 3943 0.378257 GCAATATGTGGCCTGTGACG 59.622 55.000 3.32 0.00 0.00 4.35
2054 3945 0.618458 AATATGTGGCCTGTGACGGT 59.382 50.000 3.32 0.00 0.00 4.83
2068 3963 2.031870 TGACGGTGAGGTATCATCCTG 58.968 52.381 0.00 0.00 37.87 3.86
2127 5627 7.569677 AAAGTGATTTTCGTCGAAACAAAAA 57.430 28.000 19.59 5.74 30.83 1.94
2295 5846 2.169330 GGTAGAACTCTCTCGTGGGTT 58.831 52.381 0.00 0.00 32.70 4.11
2298 5849 1.149148 GAACTCTCTCGTGGGTTTGC 58.851 55.000 0.00 0.00 0.00 3.68
2306 5857 2.908073 CGTGGGTTTGCAGCTGGAC 61.908 63.158 17.12 0.92 0.00 4.02
2329 5880 0.028505 GTGTGCATGTCGCCATCATC 59.971 55.000 0.00 0.00 41.33 2.92
2400 5951 3.127589 CGCCGTGTCATCACCAATTATA 58.872 45.455 0.00 0.00 41.09 0.98
2465 6022 1.779569 ACGCACGAACCACTTAGAAG 58.220 50.000 0.00 0.00 0.00 2.85
2469 6026 3.326747 GCACGAACCACTTAGAAGATGT 58.673 45.455 0.00 0.00 0.00 3.06
2472 6029 5.171476 CACGAACCACTTAGAAGATGTCAT 58.829 41.667 0.00 0.00 0.00 3.06
2485 6045 2.785269 AGATGTCATTATCTGGCCCCAA 59.215 45.455 0.00 0.00 36.12 4.12
2545 6110 9.193806 ACATTACTAAAAGGATCATCTGCATTT 57.806 29.630 0.00 0.00 0.00 2.32
2552 6117 8.937634 AAAAGGATCATCTGCATTTCAAATAC 57.062 30.769 0.00 0.00 0.00 1.89
2553 6118 7.649533 AAGGATCATCTGCATTTCAAATACA 57.350 32.000 0.00 0.00 0.00 2.29
2554 6119 7.273320 AGGATCATCTGCATTTCAAATACAG 57.727 36.000 4.14 4.14 0.00 2.74
2555 6120 6.832384 AGGATCATCTGCATTTCAAATACAGT 59.168 34.615 9.74 0.00 0.00 3.55
2556 6121 7.994911 AGGATCATCTGCATTTCAAATACAGTA 59.005 33.333 9.74 0.00 0.00 2.74
2559 6124 8.565896 TCATCTGCATTTCAAATACAGTAGTT 57.434 30.769 9.74 0.00 0.00 2.24
2626 6191 3.934579 TGATTCAGTTGGATCATGACACG 59.065 43.478 0.00 0.00 0.00 4.49
2627 6192 3.676291 TTCAGTTGGATCATGACACGA 57.324 42.857 0.00 0.00 0.00 4.35
2628 6193 3.676291 TCAGTTGGATCATGACACGAA 57.324 42.857 0.00 0.00 0.00 3.85
2629 6194 3.325870 TCAGTTGGATCATGACACGAAC 58.674 45.455 16.15 16.15 0.00 3.95
2630 6195 3.066380 CAGTTGGATCATGACACGAACA 58.934 45.455 21.77 5.86 0.00 3.18
2671 6237 2.101125 CATCTTGCCGAAATTAACGCG 58.899 47.619 3.53 3.53 0.00 6.01
2710 6277 5.768980 AACCTCTGAATTCTTGAGATCCA 57.231 39.130 22.01 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 7.540745 GCCATGAAAAATAAGAAGCGTTCTAAA 59.459 33.333 0.00 0.00 39.61 1.85
34 35 7.064966 GTGGGAATTGCCATGAAAAATAAGAAG 59.935 37.037 22.56 0.00 38.95 2.85
61 62 4.322650 GGGTTATGACATGGCAAACATTGT 60.323 41.667 20.80 2.10 37.84 2.71
107 108 1.153549 CTTGTCCTCTAGCACCGGC 60.154 63.158 0.00 0.00 41.61 6.13
119 120 2.043953 GGGGTGGCCATCTTGTCC 60.044 66.667 17.44 7.71 0.00 4.02
129 130 2.941583 AAAGAGGGGAGGGGTGGC 60.942 66.667 0.00 0.00 0.00 5.01
172 173 2.439409 CTTTGCCATGTGACCATCTCA 58.561 47.619 0.00 0.00 0.00 3.27
212 214 4.241999 ATGCGCGCCAAGAATCGC 62.242 61.111 30.77 0.00 46.98 4.58
214 216 0.385223 GATGATGCGCGCCAAGAATC 60.385 55.000 30.77 23.58 0.00 2.52
372 374 1.922570 AATAACACTACGCGGCTGAG 58.077 50.000 12.47 4.43 0.00 3.35
534 537 9.503427 AATTGTCGCTGCTTTAATATAACTTTC 57.497 29.630 0.00 0.00 0.00 2.62
568 2163 5.595257 AATCTTTTACTACTCCCTCCGAC 57.405 43.478 0.00 0.00 0.00 4.79
604 2205 9.730420 ACATTCTCAAAACTGTGTAAACATTAC 57.270 29.630 0.00 0.00 0.00 1.89
644 2245 3.684305 GCCTTTTTGTAATCCATGTTGCC 59.316 43.478 0.00 0.00 0.00 4.52
647 2248 5.990996 CAGTTGCCTTTTTGTAATCCATGTT 59.009 36.000 0.00 0.00 0.00 2.71
664 2265 3.311966 GACTTTCTGCATTTCAGTTGCC 58.688 45.455 0.00 0.00 43.32 4.52
691 2292 6.902341 TGTAGCTGTCTGATGATTTTGTTTC 58.098 36.000 0.00 0.00 0.00 2.78
710 2311 0.392461 TCGTGGCCTTCCATTGTAGC 60.392 55.000 3.32 0.00 45.62 3.58
798 2400 1.943340 GCAATCATCGGAAGGAAGGAC 59.057 52.381 0.00 0.00 0.00 3.85
835 2437 4.820173 AGGTGTTTGTACTTTCTTGTAGGC 59.180 41.667 0.00 0.00 0.00 3.93
891 2493 2.770475 GGAGGAGGAAGGGAGGGC 60.770 72.222 0.00 0.00 0.00 5.19
896 2498 1.372501 TTTCTTGGGAGGAGGAAGGG 58.627 55.000 0.00 0.00 0.00 3.95
946 2550 0.177604 CAGCAGAGTAGAGGGCCTTG 59.822 60.000 7.89 0.96 0.00 3.61
947 2551 0.041833 TCAGCAGAGTAGAGGGCCTT 59.958 55.000 7.89 0.00 0.00 4.35
957 2561 0.472734 AGTCTGGGGTTCAGCAGAGT 60.473 55.000 0.00 0.00 43.06 3.24
1012 2616 1.341156 GGGTGAGGATGGCAGTAGCT 61.341 60.000 0.00 0.00 41.70 3.32
1118 2722 1.675641 GAGGATGGCTGGTTGCGTT 60.676 57.895 0.00 0.00 44.05 4.84
1120 2724 3.197790 CGAGGATGGCTGGTTGCG 61.198 66.667 0.00 0.00 44.05 4.85
1209 2813 1.662629 CAAGCACAGACACGGATGATC 59.337 52.381 0.00 0.00 0.00 2.92
1217 2821 1.808945 CCTTGGATCAAGCACAGACAC 59.191 52.381 0.00 0.00 39.85 3.67
1223 2827 2.479566 TGTCTCCTTGGATCAAGCAC 57.520 50.000 0.00 0.55 39.85 4.40
1246 2850 4.731313 ATTCAGAGAGGAAACCAAACCT 57.269 40.909 0.00 0.00 39.41 3.50
1247 2851 4.584743 ACAATTCAGAGAGGAAACCAAACC 59.415 41.667 0.00 0.00 0.00 3.27
1248 2852 5.774498 ACAATTCAGAGAGGAAACCAAAC 57.226 39.130 0.00 0.00 0.00 2.93
1249 2853 6.790232 AAACAATTCAGAGAGGAAACCAAA 57.210 33.333 0.00 0.00 0.00 3.28
1250 2854 6.183360 GGAAAACAATTCAGAGAGGAAACCAA 60.183 38.462 0.00 0.00 0.00 3.67
1274 2878 4.081087 TCAGGGAGGATTTACTCGAAAAGG 60.081 45.833 0.00 0.00 38.39 3.11
1293 2898 2.482664 CCGATCAGATCACCAGTTCAGG 60.483 54.545 11.12 0.00 0.00 3.86
1299 2904 0.249784 CCTGCCGATCAGATCACCAG 60.250 60.000 11.12 13.84 45.72 4.00
1326 2931 0.396417 CGATCCCTCTCACCTGGTCT 60.396 60.000 0.00 0.00 0.00 3.85
1450 3055 7.142306 ACATTCAGAAACAGATGATCAGTTG 57.858 36.000 3.93 4.63 0.00 3.16
1489 3098 0.593128 CCTACCAAGCAACAGCACAC 59.407 55.000 0.00 0.00 0.00 3.82
1493 3102 2.185004 TTCTCCTACCAAGCAACAGC 57.815 50.000 0.00 0.00 0.00 4.40
1494 3103 2.814336 GGTTTCTCCTACCAAGCAACAG 59.186 50.000 0.00 0.00 35.67 3.16
1495 3104 2.808933 CGGTTTCTCCTACCAAGCAACA 60.809 50.000 0.00 0.00 35.31 3.33
1496 3105 1.804748 CGGTTTCTCCTACCAAGCAAC 59.195 52.381 0.00 0.00 35.31 4.17
1508 3119 3.388345 ACACCTCTTTCTCGGTTTCTC 57.612 47.619 0.00 0.00 0.00 2.87
1513 3124 2.943033 CAACAAACACCTCTTTCTCGGT 59.057 45.455 0.00 0.00 0.00 4.69
1515 3126 2.287009 GGCAACAAACACCTCTTTCTCG 60.287 50.000 0.00 0.00 0.00 4.04
1516 3127 2.952310 AGGCAACAAACACCTCTTTCTC 59.048 45.455 0.00 0.00 41.41 2.87
1538 3149 4.531854 TCAGACACAAGAATTTTCCACCA 58.468 39.130 0.00 0.00 0.00 4.17
1567 3178 4.681483 GCACAAAATGAGTAAGTTTCAGGC 59.319 41.667 0.00 0.00 0.00 4.85
1671 3282 0.033504 TCTTGTGCAGAAGACCGTCC 59.966 55.000 21.46 0.00 0.00 4.79
1756 3375 0.830648 TGCTCCTCCGGTTATTCCAG 59.169 55.000 0.00 0.00 35.57 3.86
1786 3405 3.427161 CTAGTTAAGCAGGGCATTTGC 57.573 47.619 0.00 0.00 41.83 3.68
1848 3735 2.954318 ACAGCAAAGCAGAAGTGATTGT 59.046 40.909 0.00 0.00 30.96 2.71
1849 3736 3.637998 ACAGCAAAGCAGAAGTGATTG 57.362 42.857 0.00 0.00 30.96 2.67
1853 3740 2.855963 CAACAACAGCAAAGCAGAAGTG 59.144 45.455 0.00 0.00 0.00 3.16
1868 3755 2.734606 TCGTATGCTAGCACACAACAAC 59.265 45.455 24.85 11.32 0.00 3.32
1878 3767 7.755373 TGTCATATAACTGATTCGTATGCTAGC 59.245 37.037 8.10 8.10 0.00 3.42
1900 3789 9.904198 TTCCATATAAAAAGATCATCACTGTCA 57.096 29.630 0.00 0.00 0.00 3.58
1922 3811 6.419791 TCAGAAACCTTTCTAACTGTTTCCA 58.580 36.000 0.00 0.00 45.23 3.53
1923 3812 6.937436 TCAGAAACCTTTCTAACTGTTTCC 57.063 37.500 0.00 0.00 45.23 3.13
1972 3861 3.482472 CACCTATCTTTTCATCGTCGACG 59.518 47.826 31.30 31.30 41.45 5.12
1979 3868 5.309282 AGATCTCCCCACCTATCTTTTCATC 59.691 44.000 0.00 0.00 0.00 2.92
1980 3869 5.072872 CAGATCTCCCCACCTATCTTTTCAT 59.927 44.000 0.00 0.00 0.00 2.57
1981 3870 4.410228 CAGATCTCCCCACCTATCTTTTCA 59.590 45.833 0.00 0.00 0.00 2.69
2022 3913 3.565307 CCACATATTGCAATGGGGTAGT 58.435 45.455 22.27 8.06 44.20 2.73
2052 3943 3.452627 AGAACACAGGATGATACCTCACC 59.547 47.826 0.00 0.00 39.69 4.02
2054 3945 4.160439 GTGAGAACACAGGATGATACCTCA 59.840 45.833 0.00 0.00 45.32 3.86
2068 3963 2.625790 ACTCTCTGTCCAGTGAGAACAC 59.374 50.000 25.16 0.00 46.44 3.32
2127 5627 5.105554 TGCTAACTGAAATGTTGTTGTGGTT 60.106 36.000 0.00 0.00 0.00 3.67
2128 5628 4.400884 TGCTAACTGAAATGTTGTTGTGGT 59.599 37.500 0.00 0.00 0.00 4.16
2129 5629 4.930963 TGCTAACTGAAATGTTGTTGTGG 58.069 39.130 0.00 0.00 0.00 4.17
2142 5642 5.935206 TGGTCGACATAATTTTGCTAACTGA 59.065 36.000 18.91 0.00 0.00 3.41
2295 5846 1.451207 ACACAACGTCCAGCTGCAA 60.451 52.632 8.66 0.00 0.00 4.08
2298 5849 1.509644 ATGCACACAACGTCCAGCTG 61.510 55.000 6.78 6.78 0.00 4.24
2329 5880 1.200252 CTACTGTCTGGACTGTCCACG 59.800 57.143 25.12 19.59 42.67 4.94
2400 5951 3.625764 TGAGTTTTGTAACGCTGAAGCTT 59.374 39.130 0.00 0.00 39.31 3.74
2465 6022 2.887152 GTTGGGGCCAGATAATGACATC 59.113 50.000 4.39 0.00 0.00 3.06
2469 6026 2.204463 TCTGTTGGGGCCAGATAATGA 58.796 47.619 4.39 0.00 34.12 2.57
2472 6029 2.173356 CTGATCTGTTGGGGCCAGATAA 59.827 50.000 4.39 0.00 46.84 1.75
2531 6096 7.035840 ACTGTATTTGAAATGCAGATGATCC 57.964 36.000 32.62 0.00 35.69 3.36
2545 6110 8.896320 TCAGCAGTTTTAACTACTGTATTTGA 57.104 30.769 17.87 11.65 46.04 2.69
2552 6117 6.560253 ACCAATCAGCAGTTTTAACTACTG 57.440 37.500 14.11 14.11 46.87 2.74
2553 6118 6.546034 ACAACCAATCAGCAGTTTTAACTACT 59.454 34.615 0.00 0.00 37.08 2.57
2554 6119 6.735130 ACAACCAATCAGCAGTTTTAACTAC 58.265 36.000 0.00 0.00 37.08 2.73
2555 6120 6.952773 ACAACCAATCAGCAGTTTTAACTA 57.047 33.333 0.00 0.00 37.08 2.24
2556 6121 5.852282 ACAACCAATCAGCAGTTTTAACT 57.148 34.783 0.00 0.00 40.60 2.24
2559 6124 6.067263 GTGTACAACCAATCAGCAGTTTTA 57.933 37.500 0.00 0.00 0.00 1.52
2626 6191 9.042008 TGTTCAGTAAGTTCTGTTAATCTGTTC 57.958 33.333 0.00 0.00 36.85 3.18
2627 6192 8.958119 TGTTCAGTAAGTTCTGTTAATCTGTT 57.042 30.769 0.00 0.00 36.85 3.16
2628 6193 9.209175 GATGTTCAGTAAGTTCTGTTAATCTGT 57.791 33.333 0.00 0.00 36.85 3.41
2629 6194 9.429359 AGATGTTCAGTAAGTTCTGTTAATCTG 57.571 33.333 0.00 0.00 36.85 2.90
2671 6237 7.159372 TCAGAGGTTAATCTTGAACTGTTACC 58.841 38.462 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.