Multiple sequence alignment - TraesCS3A01G291400

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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 TraesCS3A01G291400 chr3A 100.000 2561 0 0 1 2561 521628276 521630836 0.000000e+00 4730
1 TraesCS3A01G291400 chr3B 91.232 1437 68 21 603 2005 526938136 526939548 0.000000e+00 1903
2 TraesCS3A01G291400 chr3B 95.683 139 5 1 2008 2145 526960192 526960330 3.320000e-54 222
3 TraesCS3A01G291400 chr3B 89.349 169 10 4 2394 2559 526962184 526962347 3.340000e-49 206
4 TraesCS3A01G291400 chr3B 84.656 189 10 3 2146 2317 526961953 526962139 1.220000e-38 171
5 TraesCS3A01G291400 chr3B 82.468 154 20 5 1336 1487 427590204 427590056 7.440000e-26 128
6 TraesCS3A01G291400 chr3D 88.332 1337 45 24 603 1864 401170908 401172208 0.000000e+00 1502
7 TraesCS3A01G291400 chr3D 87.520 617 68 4 3 611 459899633 459899018 0.000000e+00 704
8 TraesCS3A01G291400 chr3D 84.444 495 29 13 1886 2343 401172577 401173060 6.500000e-121 444
9 TraesCS3A01G291400 chr3D 91.124 169 7 3 2394 2559 401173055 401173218 3.320000e-54 222
10 TraesCS3A01G291400 chr3D 83.766 154 18 5 1336 1487 330062833 330062685 3.440000e-29 139
11 TraesCS3A01G291400 chr1D 90.657 578 53 1 3 580 480580176 480580752 0.000000e+00 767
12 TraesCS3A01G291400 chr7D 89.344 610 59 1 3 606 88986587 88985978 0.000000e+00 761
13 TraesCS3A01G291400 chr7D 89.145 608 60 1 3 604 139305271 139305878 0.000000e+00 752
14 TraesCS3A01G291400 chr2D 89.180 610 56 6 4 604 159343823 159343215 0.000000e+00 752
15 TraesCS3A01G291400 chr2D 80.769 182 30 5 1328 1506 528589616 528589437 1.240000e-28 137
16 TraesCS3A01G291400 chr5D 88.980 608 61 1 3 604 306788654 306789261 0.000000e+00 747
17 TraesCS3A01G291400 chr5D 87.150 607 65 11 3 603 394148254 394148853 0.000000e+00 676
18 TraesCS3A01G291400 chr6D 88.816 608 57 6 3 602 410137208 410136604 0.000000e+00 736
19 TraesCS3A01G291400 chr6A 88.052 611 66 5 3 606 573823810 573823200 0.000000e+00 717
20 TraesCS3A01G291400 chr1B 80.114 176 33 2 1333 1507 652925522 652925348 2.070000e-26 130
21 TraesCS3A01G291400 chr5B 78.613 173 33 4 1336 1506 710314067 710313897 7.490000e-21 111
22 TraesCS3A01G291400 chr1A 78.857 175 29 7 1336 1506 517520082 517520252 7.490000e-21 111
23 TraesCS3A01G291400 chr4D 77.778 171 32 5 1339 1506 30755426 30755593 1.620000e-17 100


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 TraesCS3A01G291400 chr3A 521628276 521630836 2560 False 4730.000000 4730 100.000000 1 2561 1 chr3A.!!$F1 2560
1 TraesCS3A01G291400 chr3B 526938136 526939548 1412 False 1903.000000 1903 91.232000 603 2005 1 chr3B.!!$F1 1402
2 TraesCS3A01G291400 chr3D 401170908 401173218 2310 False 722.666667 1502 87.966667 603 2559 3 chr3D.!!$F1 1956
3 TraesCS3A01G291400 chr3D 459899018 459899633 615 True 704.000000 704 87.520000 3 611 1 chr3D.!!$R2 608
4 TraesCS3A01G291400 chr1D 480580176 480580752 576 False 767.000000 767 90.657000 3 580 1 chr1D.!!$F1 577
5 TraesCS3A01G291400 chr7D 88985978 88986587 609 True 761.000000 761 89.344000 3 606 1 chr7D.!!$R1 603
6 TraesCS3A01G291400 chr7D 139305271 139305878 607 False 752.000000 752 89.145000 3 604 1 chr7D.!!$F1 601
7 TraesCS3A01G291400 chr2D 159343215 159343823 608 True 752.000000 752 89.180000 4 604 1 chr2D.!!$R1 600
8 TraesCS3A01G291400 chr5D 306788654 306789261 607 False 747.000000 747 88.980000 3 604 1 chr5D.!!$F1 601
9 TraesCS3A01G291400 chr5D 394148254 394148853 599 False 676.000000 676 87.150000 3 603 1 chr5D.!!$F2 600
10 TraesCS3A01G291400 chr6D 410136604 410137208 604 True 736.000000 736 88.816000 3 602 1 chr6D.!!$R1 599
11 TraesCS3A01G291400 chr6A 573823200 573823810 610 True 717.000000 717 88.052000 3 606 1 chr6A.!!$R1 603

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
762 785 0.165944 GTCGCTTGACAAATCCCACG 59.834 55.0 0.0 0.0 42.41 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2118 2555 0.03467 GCCATAGAGGATCATGGGCC 60.035 60.0 10.83 0.0 41.24 5.8 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
23 24 1.464734 TTGTGGGCAAAGTGTCGAAA 58.535 45.000 0.00 0.00 0.00 3.46
39 40 2.125202 GAAAACCTTGCGGTCGTGGG 62.125 60.000 0.00 0.00 44.73 4.61
65 66 2.203070 GGCCGCGATGATCACCTT 60.203 61.111 8.23 0.00 0.00 3.50
148 149 4.367023 GGCCGCAGTGGTACGTCA 62.367 66.667 0.89 0.00 41.21 4.35
173 174 2.520536 GCCGTATCCCCTCTGCCAT 61.521 63.158 0.00 0.00 0.00 4.40
174 175 2.056906 GCCGTATCCCCTCTGCCATT 62.057 60.000 0.00 0.00 0.00 3.16
204 205 2.943978 CGACGGCCAAACCTCCTCT 61.944 63.158 2.24 0.00 35.61 3.69
211 212 0.905357 CCAAACCTCCTCTGGTCGAT 59.095 55.000 0.00 0.00 39.83 3.59
303 304 3.710926 CTGCTCAGTGAGGAGGCT 58.289 61.111 28.81 0.00 42.97 4.58
304 305 1.981636 CTGCTCAGTGAGGAGGCTT 59.018 57.895 28.81 0.00 42.97 4.35
375 378 3.431725 GCGTTGGAAGCGAAGGGG 61.432 66.667 0.00 0.00 0.00 4.79
379 382 3.567579 TTGGAAGCGAAGGGGCTGG 62.568 63.158 0.00 0.00 43.93 4.85
389 392 2.285442 GGGGCTGGTAGTGTCCCT 60.285 66.667 0.00 0.00 38.78 4.20
420 423 3.072468 CGGGAGGACAAGGGCGTA 61.072 66.667 0.00 0.00 0.00 4.42
447 450 3.545481 CGTCCGCGTGATGTCTGC 61.545 66.667 4.92 0.00 0.00 4.26
475 478 1.403679 CAAACTCGGCACAAGTTTGGA 59.596 47.619 21.13 0.00 44.85 3.53
478 481 0.817634 CTCGGCACAAGTTTGGACCA 60.818 55.000 0.00 0.00 0.00 4.02
503 506 2.089980 TGGGTCAAAAACGGACGAAAA 58.910 42.857 0.00 0.00 36.12 2.29
656 666 2.802057 CGTCCCTTCGAGAACAACACTT 60.802 50.000 0.00 0.00 0.00 3.16
730 753 0.934901 CCACGGCGATCTATGTCACG 60.935 60.000 16.62 0.00 0.00 4.35
762 785 0.165944 GTCGCTTGACAAATCCCACG 59.834 55.000 0.00 0.00 42.41 4.94
804 831 3.045634 TGTTTCTCTTTGTCCTCCTCCA 58.954 45.455 0.00 0.00 0.00 3.86
887 920 2.124570 CGTCAATGCTCCCCCAGG 60.125 66.667 0.00 0.00 0.00 4.45
952 985 8.297426 TGTAAATAGCAACATATACCTCTCTCG 58.703 37.037 0.00 0.00 0.00 4.04
953 986 5.906113 ATAGCAACATATACCTCTCTCGG 57.094 43.478 0.00 0.00 0.00 4.63
981 1014 1.303317 AGCAAGCTAAACCCCCACG 60.303 57.895 0.00 0.00 0.00 4.94
982 1015 2.989881 GCAAGCTAAACCCCCACGC 61.990 63.158 0.00 0.00 0.00 5.34
984 1017 3.578968 AAGCTAAACCCCCACGCCC 62.579 63.158 0.00 0.00 0.00 6.13
1171 1210 0.809385 GAACGACTCCCTCGACATGA 59.191 55.000 0.00 0.00 46.14 3.07
1177 1216 0.965439 CTCCCTCGACATGATCCTCC 59.035 60.000 0.00 0.00 0.00 4.30
1283 1328 3.955101 CTCTAGCCCCGACGCGAG 61.955 72.222 15.93 6.19 33.25 5.03
1613 1664 4.233789 CTCTCTCTTAGCTGTGTGTTGTC 58.766 47.826 0.00 0.00 0.00 3.18
1639 1700 3.788937 TCTTAGTTTAGGCCGAATTCCG 58.211 45.455 0.00 0.00 38.18 4.30
1670 1731 1.729517 CGTTCATTCATGCGTGGTGTA 59.270 47.619 5.98 0.00 0.00 2.90
1671 1732 2.222796 CGTTCATTCATGCGTGGTGTAG 60.223 50.000 5.98 0.00 0.00 2.74
1672 1733 2.742053 GTTCATTCATGCGTGGTGTAGT 59.258 45.455 5.98 0.00 0.00 2.73
1673 1734 3.878160 TCATTCATGCGTGGTGTAGTA 57.122 42.857 5.98 0.00 0.00 1.82
1684 1745 2.889045 GTGGTGTAGTAGTCTGTGGTGA 59.111 50.000 0.00 0.00 0.00 4.02
1839 1928 2.993899 CTGTGTGAACCGGTAATGAGAC 59.006 50.000 8.00 0.00 0.00 3.36
1850 1939 3.372954 GGTAATGAGACGACAGATTCCG 58.627 50.000 0.00 0.00 0.00 4.30
1866 1955 0.584396 TCCGTCGACAAACATTGCAC 59.416 50.000 17.16 0.00 0.00 4.57
1895 2331 3.626028 GTTCCTTGCATGAACTCGTTT 57.374 42.857 17.75 0.00 39.18 3.60
1898 2334 4.002906 TCCTTGCATGAACTCGTTTAGT 57.997 40.909 0.00 0.00 41.49 2.24
1915 2352 2.479566 AGTGACCGATGAAATGCACT 57.520 45.000 0.00 0.00 0.00 4.40
1946 2383 1.810151 TGGCAGACAAAAATCGGCTAC 59.190 47.619 0.00 0.00 39.45 3.58
1962 2399 2.687370 GCTACAAAGCCACCAAATTGG 58.313 47.619 11.02 11.02 43.40 3.16
2118 2555 0.518636 CACCAGTGCTTCCGTCATTG 59.481 55.000 0.00 0.00 0.00 2.82
2120 2557 1.503542 CAGTGCTTCCGTCATTGGC 59.496 57.895 0.00 0.00 0.00 4.52
2124 2561 1.754234 GCTTCCGTCATTGGCCCAT 60.754 57.895 0.00 0.00 0.00 4.00
2148 2605 3.300388 TCCTCTATGGCCAGAGTTACTG 58.700 50.000 26.07 11.61 40.47 2.74
2160 2617 6.203723 GGCCAGAGTTACTGTATTTGATCATC 59.796 42.308 0.00 0.00 44.40 2.92
2171 2628 9.896645 ACTGTATTTGATCATCTGATACACTTT 57.103 29.630 13.36 4.16 34.37 2.66
2188 2645 5.705902 ACACTTTATAATCACAAAACCGCC 58.294 37.500 0.00 0.00 0.00 6.13
2198 2655 3.119101 TCACAAAACCGCCTTAAAAAGCA 60.119 39.130 0.00 0.00 0.00 3.91
2211 2668 0.670162 AAAAGCACAGCAGCACGAAT 59.330 45.000 0.00 0.00 36.85 3.34
2224 2681 4.201523 GCAGCACGAATCAAATTAGCAAAC 60.202 41.667 0.00 0.00 0.00 2.93
2232 2689 3.088532 TCAAATTAGCAAACGGCCAGAT 58.911 40.909 2.24 0.00 46.50 2.90
2249 2722 7.770897 ACGGCCAGATTTCAGGATATAAATATC 59.229 37.037 2.24 1.95 38.70 1.63
2283 2756 1.130054 TCCCCAGCTCATATGCTCCC 61.130 60.000 0.00 0.00 41.98 4.30
2286 2759 0.763652 CCAGCTCATATGCTCCCTGT 59.236 55.000 0.00 0.00 41.98 4.00
2300 2773 2.107552 CTCCCTGTACCCTCCACAAAAA 59.892 50.000 0.00 0.00 0.00 1.94
2306 2779 1.616159 ACCCTCCACAAAAATCCACG 58.384 50.000 0.00 0.00 0.00 4.94
2339 2812 4.846779 TGTTTCTGCCAAACATAACTCC 57.153 40.909 6.91 0.00 35.45 3.85
2340 2813 3.252215 TGTTTCTGCCAAACATAACTCCG 59.748 43.478 6.91 0.00 35.45 4.63
2341 2814 2.107950 TCTGCCAAACATAACTCCGG 57.892 50.000 0.00 0.00 0.00 5.14
2342 2815 1.626321 TCTGCCAAACATAACTCCGGA 59.374 47.619 2.93 2.93 0.00 5.14
2343 2816 2.039216 TCTGCCAAACATAACTCCGGAA 59.961 45.455 5.23 0.00 0.00 4.30
2344 2817 2.420022 CTGCCAAACATAACTCCGGAAG 59.580 50.000 5.23 2.09 0.00 3.46
2345 2818 2.224670 TGCCAAACATAACTCCGGAAGT 60.225 45.455 5.23 2.83 41.10 3.01
2346 2819 2.418976 GCCAAACATAACTCCGGAAGTC 59.581 50.000 5.23 0.00 37.17 3.01
2347 2820 3.007635 CCAAACATAACTCCGGAAGTCC 58.992 50.000 5.23 0.00 37.17 3.85
2359 2832 1.660167 GGAAGTCCGGATTTTACCCG 58.340 55.000 14.03 0.00 46.10 5.28
2360 2833 1.012086 GAAGTCCGGATTTTACCCGC 58.988 55.000 14.03 0.00 45.24 6.13
2361 2834 0.325602 AAGTCCGGATTTTACCCGCA 59.674 50.000 7.81 0.00 45.24 5.69
2362 2835 0.325602 AGTCCGGATTTTACCCGCAA 59.674 50.000 7.81 0.00 45.24 4.85
2363 2836 1.166989 GTCCGGATTTTACCCGCAAA 58.833 50.000 7.81 0.00 45.24 3.68
2364 2837 1.540707 GTCCGGATTTTACCCGCAAAA 59.459 47.619 7.81 0.00 45.24 2.44
2365 2838 2.030096 GTCCGGATTTTACCCGCAAAAA 60.030 45.455 7.81 0.00 45.24 1.94
2405 2878 4.642466 AAAAGGAAGTCCGGATTTCTCT 57.358 40.909 31.30 24.51 42.08 3.10
2411 2884 4.342665 GGAAGTCCGGATTTCTCTATGACT 59.657 45.833 31.30 8.72 33.30 3.41
2419 2892 4.561105 GATTTCTCTATGACTAAGGCCCG 58.439 47.826 0.00 0.00 0.00 6.13
2422 2895 1.412710 CTCTATGACTAAGGCCCGCAA 59.587 52.381 0.00 0.00 0.00 4.85
2423 2896 2.037772 CTCTATGACTAAGGCCCGCAAT 59.962 50.000 0.00 0.00 0.00 3.56
2479 2955 4.864916 ACAACGATATTGTGATGCTGAC 57.135 40.909 0.00 0.00 0.00 3.51
2480 2956 4.252878 ACAACGATATTGTGATGCTGACA 58.747 39.130 0.00 0.00 0.00 3.58
2481 2957 4.093408 ACAACGATATTGTGATGCTGACAC 59.907 41.667 0.00 0.00 38.55 3.67
2482 2958 2.860136 ACGATATTGTGATGCTGACACG 59.140 45.455 0.00 0.00 40.61 4.49
2483 2959 3.115554 CGATATTGTGATGCTGACACGA 58.884 45.455 0.00 0.00 40.61 4.35
2522 2998 3.628942 GTCCACACCGAAAAAGTTTACCT 59.371 43.478 0.00 0.00 0.00 3.08
2546 3022 2.611224 CCATTTGCTTTGCTCCTCCAAC 60.611 50.000 0.00 0.00 0.00 3.77
2559 3035 4.056740 CTCCTCCAACGATCAATCATCAG 58.943 47.826 0.00 0.00 0.00 2.90
2560 3036 3.452264 TCCTCCAACGATCAATCATCAGT 59.548 43.478 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
156 157 0.250467 CAATGGCAGAGGGGATACGG 60.250 60.000 0.00 0.00 37.60 4.02
173 174 4.764336 CGTCGCCGTCGTAGCCAA 62.764 66.667 0.00 0.00 36.96 4.52
204 205 1.816074 GTAGTTTTGGCCATCGACCA 58.184 50.000 6.09 0.00 34.65 4.02
237 238 4.634703 ACATGGCCGCCAACACGA 62.635 61.111 18.00 0.00 36.95 4.35
290 291 1.984570 CCGGAAGCCTCCTCACTGA 60.985 63.158 0.00 0.00 39.93 3.41
375 378 0.247736 CTGTCAGGGACACTACCAGC 59.752 60.000 0.00 0.00 37.67 4.85
379 382 1.215647 CGCCTGTCAGGGACACTAC 59.784 63.158 20.72 0.78 37.67 2.73
447 450 1.228124 TGCCGAGTTTGGGGTGAAG 60.228 57.895 0.00 0.00 0.00 3.02
475 478 1.821666 CGTTTTTGACCCATCCCTGGT 60.822 52.381 0.00 0.00 41.37 4.00
478 481 0.774908 TCCGTTTTTGACCCATCCCT 59.225 50.000 0.00 0.00 0.00 4.20
614 624 0.178990 ACAGGCAGGACAAAGGTTCC 60.179 55.000 0.00 0.00 0.00 3.62
707 730 0.755698 ACATAGATCGCCGTGGGAGT 60.756 55.000 0.00 0.00 0.00 3.85
712 735 0.934901 CCGTGACATAGATCGCCGTG 60.935 60.000 0.00 0.00 0.00 4.94
730 753 2.051166 GCGACGAGCGTAGATCCC 60.051 66.667 7.31 0.00 41.58 3.85
762 785 4.736896 GAGTGTGGCGGACCCGTC 62.737 72.222 6.05 6.05 45.14 4.79
773 796 3.947834 ACAAAGAGAAACAAGGGAGTGTG 59.052 43.478 0.00 0.00 0.00 3.82
804 831 1.778383 TTGGGGAGGAAGGCAAGGT 60.778 57.895 0.00 0.00 0.00 3.50
887 920 1.876156 CTCTGGCAAGACACTGGTTTC 59.124 52.381 0.00 0.00 0.00 2.78
1074 1113 3.238497 CCCATGCCCATGCCCATG 61.238 66.667 13.76 13.76 38.78 3.66
1078 1117 3.936203 CATGCCCATGCCCATGCC 61.936 66.667 9.83 0.00 37.49 4.40
1079 1118 3.936203 CCATGCCCATGCCCATGC 61.936 66.667 14.78 1.70 37.96 4.06
1080 1119 3.238497 CCCATGCCCATGCCCATG 61.238 66.667 13.76 13.76 38.78 3.66
1084 1123 3.936203 CATGCCCATGCCCATGCC 61.936 66.667 9.83 0.00 37.49 4.40
1085 1124 3.936203 CCATGCCCATGCCCATGC 61.936 66.667 14.78 1.70 37.96 4.06
1086 1125 2.123208 TCCATGCCCATGCCCATG 60.123 61.111 13.76 13.76 38.78 3.66
1087 1126 2.123164 GTCCATGCCCATGCCCAT 60.123 61.111 2.75 0.00 37.49 4.00
1088 1127 3.670319 TGTCCATGCCCATGCCCA 61.670 61.111 2.75 0.00 37.49 5.36
1171 1210 1.152922 GGAGGACGTCGAGGAGGAT 60.153 63.158 12.85 0.00 0.00 3.24
1554 1599 0.320421 ACGCACGTAGCATTCACCTT 60.320 50.000 9.95 0.00 46.13 3.50
1613 1664 3.247006 TCGGCCTAAACTAAGAAGCTG 57.753 47.619 0.00 0.00 0.00 4.24
1639 1700 5.266242 GCATGAATGAACGGTTACAGAATC 58.734 41.667 0.00 0.00 0.00 2.52
1684 1745 2.103941 ACCCACGAAATGCAAATTGGTT 59.896 40.909 0.00 0.00 0.00 3.67
1773 1859 6.524586 CACTTCGTAAAAATTTCAGATGAGGC 59.475 38.462 0.00 0.00 0.00 4.70
1850 1939 1.873591 AGGAGTGCAATGTTTGTCGAC 59.126 47.619 9.11 9.11 0.00 4.20
1894 2330 3.932710 GAGTGCATTTCATCGGTCACTAA 59.067 43.478 0.00 0.00 35.23 2.24
1895 2331 3.056179 TGAGTGCATTTCATCGGTCACTA 60.056 43.478 0.00 0.00 35.23 2.74
1898 2334 2.076100 GTGAGTGCATTTCATCGGTCA 58.924 47.619 7.08 0.00 0.00 4.02
1962 2399 3.457234 TGCCATCGTCATCTATGAACAC 58.543 45.455 0.00 0.00 38.75 3.32
1968 2405 3.470709 CCAAGTTGCCATCGTCATCTAT 58.529 45.455 0.00 0.00 0.00 1.98
2007 2444 4.918810 ATGGAAAATATTTCGGAGTGGC 57.081 40.909 0.10 0.00 0.00 5.01
2118 2555 0.034670 GCCATAGAGGATCATGGGCC 60.035 60.000 10.83 0.00 41.24 5.80
2120 2557 1.281287 CTGGCCATAGAGGATCATGGG 59.719 57.143 5.51 0.00 41.24 4.00
2124 2561 2.783379 ACTCTGGCCATAGAGGATCA 57.217 50.000 23.93 0.00 46.69 2.92
2160 2617 9.702726 CGGTTTTGTGATTATAAAGTGTATCAG 57.297 33.333 0.00 0.00 0.00 2.90
2171 2628 7.542824 GCTTTTTAAGGCGGTTTTGTGATTATA 59.457 33.333 0.00 0.00 0.00 0.98
2174 2631 4.509970 GCTTTTTAAGGCGGTTTTGTGATT 59.490 37.500 0.00 0.00 0.00 2.57
2175 2632 4.055360 GCTTTTTAAGGCGGTTTTGTGAT 58.945 39.130 0.00 0.00 0.00 3.06
2179 2636 3.190874 TGTGCTTTTTAAGGCGGTTTTG 58.809 40.909 0.00 0.00 0.00 2.44
2180 2637 3.453424 CTGTGCTTTTTAAGGCGGTTTT 58.547 40.909 0.00 0.00 0.00 2.43
2181 2638 2.801699 GCTGTGCTTTTTAAGGCGGTTT 60.802 45.455 0.00 0.00 0.00 3.27
2188 2645 2.046313 CGTGCTGCTGTGCTTTTTAAG 58.954 47.619 0.00 0.00 0.00 1.85
2198 2655 3.426695 GCTAATTTGATTCGTGCTGCTGT 60.427 43.478 0.00 0.00 0.00 4.40
2211 2668 2.509569 TCTGGCCGTTTGCTAATTTGA 58.490 42.857 0.00 0.00 40.92 2.69
2224 2681 7.989741 AGATATTTATATCCTGAAATCTGGCCG 59.010 37.037 0.00 0.00 39.94 6.13
2249 2722 3.253432 GCTGGGGAACAAGTAACTTGAAG 59.747 47.826 0.00 0.00 43.42 3.02
2252 2725 2.814336 GAGCTGGGGAACAAGTAACTTG 59.186 50.000 0.00 0.00 45.85 3.16
2262 2735 1.544314 GGAGCATATGAGCTGGGGAAC 60.544 57.143 6.97 0.00 46.75 3.62
2283 2756 3.506067 GTGGATTTTTGTGGAGGGTACAG 59.494 47.826 0.00 0.00 0.00 2.74
2286 2759 2.785562 CGTGGATTTTTGTGGAGGGTA 58.214 47.619 0.00 0.00 0.00 3.69
2306 2779 2.098770 GGCAGAAACATCTCTTCCATGC 59.901 50.000 0.00 0.00 29.90 4.06
2319 2792 3.365969 CCGGAGTTATGTTTGGCAGAAAC 60.366 47.826 0.00 4.11 29.31 2.78
2321 2794 2.039216 TCCGGAGTTATGTTTGGCAGAA 59.961 45.455 0.00 0.00 0.00 3.02
2340 2813 1.660167 CGGGTAAAATCCGGACTTCC 58.340 55.000 6.12 0.00 43.45 3.46
2341 2814 1.012086 GCGGGTAAAATCCGGACTTC 58.988 55.000 6.12 0.00 46.86 3.01
2342 2815 0.325602 TGCGGGTAAAATCCGGACTT 59.674 50.000 6.12 0.00 46.86 3.01
2343 2816 1.984817 TGCGGGTAAAATCCGGACT 59.015 52.632 6.12 0.00 46.86 3.85
2344 2817 4.621832 TGCGGGTAAAATCCGGAC 57.378 55.556 6.12 0.00 46.86 4.79
2345 2818 1.906990 TTTTGCGGGTAAAATCCGGA 58.093 45.000 6.61 6.61 46.86 5.14
2346 2819 2.726832 TTTTTGCGGGTAAAATCCGG 57.273 45.000 0.00 0.00 46.86 5.14
2383 2856 4.986783 AGAGAAATCCGGACTTCCTTTTT 58.013 39.130 21.42 9.29 0.00 1.94
2384 2857 4.642466 AGAGAAATCCGGACTTCCTTTT 57.358 40.909 21.42 10.04 0.00 2.27
2385 2858 5.425539 TCATAGAGAAATCCGGACTTCCTTT 59.574 40.000 21.42 10.80 0.00 3.11
2386 2859 4.962995 TCATAGAGAAATCCGGACTTCCTT 59.037 41.667 21.42 12.56 0.00 3.36
2387 2860 4.342665 GTCATAGAGAAATCCGGACTTCCT 59.657 45.833 21.42 18.82 0.00 3.36
2388 2861 4.342665 AGTCATAGAGAAATCCGGACTTCC 59.657 45.833 21.42 13.05 30.53 3.46
2389 2862 5.523438 AGTCATAGAGAAATCCGGACTTC 57.477 43.478 17.78 17.78 30.53 3.01
2390 2863 6.041069 CCTTAGTCATAGAGAAATCCGGACTT 59.959 42.308 6.12 0.00 35.85 3.01
2391 2864 5.536916 CCTTAGTCATAGAGAAATCCGGACT 59.463 44.000 6.12 0.00 37.79 3.85
2392 2865 5.774630 CCTTAGTCATAGAGAAATCCGGAC 58.225 45.833 6.12 0.00 0.00 4.79
2402 2875 1.040646 TGCGGGCCTTAGTCATAGAG 58.959 55.000 0.84 0.00 0.00 2.43
2405 2878 2.948979 CAAATTGCGGGCCTTAGTCATA 59.051 45.455 0.84 0.00 0.00 2.15
2411 2884 0.968393 GGGTCAAATTGCGGGCCTTA 60.968 55.000 0.84 0.00 0.00 2.69
2419 2892 0.244721 GCTCTGGTGGGTCAAATTGC 59.755 55.000 0.00 0.00 0.00 3.56
2422 2895 0.478072 TGTGCTCTGGTGGGTCAAAT 59.522 50.000 0.00 0.00 0.00 2.32
2423 2896 0.478072 ATGTGCTCTGGTGGGTCAAA 59.522 50.000 0.00 0.00 0.00 2.69
2479 2955 3.164358 CTGATGTAGAGTTCGTGTCGTG 58.836 50.000 0.00 0.00 0.00 4.35
2480 2956 2.812591 ACTGATGTAGAGTTCGTGTCGT 59.187 45.455 0.00 0.00 0.00 4.34
2481 2957 3.418094 GACTGATGTAGAGTTCGTGTCG 58.582 50.000 0.00 0.00 0.00 4.35
2482 2958 3.190744 TGGACTGATGTAGAGTTCGTGTC 59.809 47.826 0.00 0.00 0.00 3.67
2483 2959 3.057456 GTGGACTGATGTAGAGTTCGTGT 60.057 47.826 0.00 0.00 0.00 4.49
2522 2998 2.825532 GGAGGAGCAAAGCAAATGGTTA 59.174 45.455 0.00 0.00 35.00 2.85


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

AutoCloner maintained by Alex Coulton.