Multiple sequence alignment - TraesCS5B01G225700

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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 TraesCS5B01G225700 chr5B 100.000 3173 0 0 1 3173 401666135 401669307 0.000000e+00 5860.0
1 TraesCS5B01G225700 chr5A 90.612 3249 161 63 1 3172 443287938 443291119 0.000000e+00 4178.0
2 TraesCS5B01G225700 chr5A 83.469 490 49 15 2186 2660 666110267 666110739 8.130000e-116 427.0
3 TraesCS5B01G225700 chr5D 89.960 3247 192 70 1 3172 342173643 342176830 0.000000e+00 4067.0
4 TraesCS5B01G225700 chr5D 83.878 490 48 13 2186 2660 557973622 557974095 3.760000e-119 438.0
5 TraesCS5B01G225700 chr7A 83.878 490 48 14 2186 2660 108870677 108870204 3.760000e-119 438.0
6 TraesCS5B01G225700 chr1D 83.469 490 48 15 2186 2660 451053055 451052584 2.930000e-115 425.0
7 TraesCS5B01G225700 chr1D 83.794 253 41 0 1640 1892 74928505 74928253 1.140000e-59 241.0
8 TraesCS5B01G225700 chr1D 79.859 283 54 1 1614 1896 44970449 44970170 1.490000e-48 204.0
9 TraesCS5B01G225700 chr1B 82.609 253 44 0 1640 1892 118488126 118487874 1.150000e-54 224.0
10 TraesCS5B01G225700 chr1A 79.921 254 45 4 1639 1892 75255762 75255515 6.990000e-42 182.0
11 TraesCS5B01G225700 chr4D 80.435 184 32 4 1695 1876 61852297 61852478 1.530000e-28 137.0
12 TraesCS5B01G225700 chr4D 77.564 156 25 9 1117 1270 61851815 61851962 5.640000e-13 86.1
13 TraesCS5B01G225700 chr4A 80.435 184 32 4 1695 1876 535035687 535035868 1.530000e-28 137.0
14 TraesCS5B01G225700 chr4A 77.564 156 25 9 1117 1270 535035202 535035349 5.640000e-13 86.1
15 TraesCS5B01G225700 chr4A 97.143 35 1 0 1235 1269 576576321 576576287 3.420000e-05 60.2
16 TraesCS5B01G225700 chr4B 80.447 179 27 7 1702 1876 90892347 90892173 2.570000e-26 130.0
17 TraesCS5B01G225700 chr4B 88.571 70 6 2 1126 1194 90892824 90892756 2.030000e-12 84.2
18 TraesCS5B01G225700 chr4B 97.222 36 1 0 1235 1270 39289512 39289547 9.500000e-06 62.1
19 TraesCS5B01G225700 chrUn 97.222 36 1 0 1235 1270 61039929 61039894 9.500000e-06 62.1


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 TraesCS5B01G225700 chr5B 401666135 401669307 3172 False 5860 5860 100.000 1 3173 1 chr5B.!!$F1 3172
1 TraesCS5B01G225700 chr5A 443287938 443291119 3181 False 4178 4178 90.612 1 3172 1 chr5A.!!$F1 3171
2 TraesCS5B01G225700 chr5D 342173643 342176830 3187 False 4067 4067 89.960 1 3172 1 chr5D.!!$F1 3171

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
308 317 0.528684 TGATCACACACGTCGCAACA 60.529 50.0 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2201 2273 0.03889 GCTTTGCCTTTCTCCTCCCT 59.961 55.0 0.0 0.0 0.0 4.2 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
44 46 1.067915 TGCACGATCATCGAGTGTTGA 60.068 47.619 15.60 0.00 43.74 3.18
49 51 4.840772 CACGATCATCGAGTGTTGAAAAAC 59.159 41.667 15.60 0.00 43.74 2.43
50 52 4.750098 ACGATCATCGAGTGTTGAAAAACT 59.250 37.500 15.60 0.00 43.74 2.66
51 53 5.075448 CGATCATCGAGTGTTGAAAAACTG 58.925 41.667 0.00 0.00 43.74 3.16
62 65 9.243637 GAGTGTTGAAAAACTGCATTATGTTAA 57.756 29.630 0.00 0.00 0.00 2.01
65 68 9.755804 TGTTGAAAAACTGCATTATGTTAATGA 57.244 25.926 10.62 0.00 0.00 2.57
151 154 7.665559 ACATAAGTGGTGGCGATAATTGAATAT 59.334 33.333 0.00 0.00 0.00 1.28
153 156 5.376625 AGTGGTGGCGATAATTGAATATGT 58.623 37.500 0.00 0.00 0.00 2.29
156 159 4.475944 GTGGCGATAATTGAATATGTGGC 58.524 43.478 0.00 0.00 0.00 5.01
174 177 5.376625 TGTGGCTTATATCCCAAGATTGAC 58.623 41.667 0.00 0.00 33.67 3.18
175 178 5.104151 TGTGGCTTATATCCCAAGATTGACA 60.104 40.000 0.00 0.00 33.67 3.58
188 191 6.098679 CCAAGATTGACAACTGTGTTTTGAA 58.901 36.000 0.00 0.00 38.41 2.69
192 195 9.868277 AAGATTGACAACTGTGTTTTGAAATTA 57.132 25.926 0.00 0.00 38.41 1.40
246 252 9.531942 TGCATTATGGTTTTAAGATTTGCTATG 57.468 29.630 0.00 0.00 0.00 2.23
265 271 8.325421 TGCTATGGTTTGTAACTTTCGATAAA 57.675 30.769 0.00 0.00 0.00 1.40
272 278 9.934190 GGTTTGTAACTTTCGATAAAAACAGTA 57.066 29.630 10.30 0.00 0.00 2.74
297 303 6.044512 ACACGTTTTCTTACTTGATCACAC 57.955 37.500 0.00 0.00 0.00 3.82
299 305 5.901884 CACGTTTTCTTACTTGATCACACAC 59.098 40.000 0.00 0.00 0.00 3.82
302 311 5.900339 TTTCTTACTTGATCACACACGTC 57.100 39.130 0.00 0.00 0.00 4.34
308 317 0.528684 TGATCACACACGTCGCAACA 60.529 50.000 0.00 0.00 0.00 3.33
318 327 1.464608 ACGTCGCAACATCAAATCCAG 59.535 47.619 0.00 0.00 0.00 3.86
334 345 2.708759 TCCAGGTTAAGGGAGAAACCA 58.291 47.619 6.97 0.00 46.29 3.67
336 347 2.375509 CCAGGTTAAGGGAGAAACCACT 59.624 50.000 6.97 0.00 46.29 4.00
340 351 5.362717 CAGGTTAAGGGAGAAACCACTTTTT 59.637 40.000 6.97 0.00 46.29 1.94
381 403 3.900601 TGGCCAGTGATAATTGGTGTTTT 59.099 39.130 0.00 0.00 36.81 2.43
515 539 9.624697 TGAAAAATATACATTGACAGCTCAAAC 57.375 29.630 0.00 0.00 39.90 2.93
575 615 0.803380 CGTCTCTGTGATGATGCGCA 60.803 55.000 14.96 14.96 33.63 6.09
634 674 1.098050 GGCGCCTGTCTTGATTGATT 58.902 50.000 22.15 0.00 0.00 2.57
638 678 3.486542 GCGCCTGTCTTGATTGATTCTTC 60.487 47.826 0.00 0.00 0.00 2.87
657 698 1.478916 TCGATCAGCGGTCCATGTTTA 59.521 47.619 0.00 0.00 41.33 2.01
744 794 8.888716 GTGTGTCGTCATGATCTATCTATCTAT 58.111 37.037 0.00 0.00 0.00 1.98
745 795 9.103861 TGTGTCGTCATGATCTATCTATCTATC 57.896 37.037 0.00 0.00 0.00 2.08
802 861 5.467735 GTGTGCATATGCTCATCACTAATGA 59.532 40.000 29.20 3.80 44.75 2.57
920 983 1.229658 CCTCACTCCCTTGACCCCT 60.230 63.158 0.00 0.00 0.00 4.79
1272 1344 2.978010 CGCAACTTCCACCGCCTT 60.978 61.111 0.00 0.00 0.00 4.35
1596 1668 1.900016 ACACCCACACATGCTGCTG 60.900 57.895 0.00 0.00 0.00 4.41
1977 2049 2.107141 GGGCCATTCCGTCTCTCG 59.893 66.667 4.39 0.00 39.52 4.04
2021 2093 2.355115 GCCATTCAACCCCTCCGT 59.645 61.111 0.00 0.00 0.00 4.69
2022 2094 1.304134 GCCATTCAACCCCTCCGTT 60.304 57.895 0.00 0.00 0.00 4.44
2201 2273 1.824230 GAGCAGAGGCAGAGAAGAAGA 59.176 52.381 0.00 0.00 44.61 2.87
2204 2280 1.481772 CAGAGGCAGAGAAGAAGAGGG 59.518 57.143 0.00 0.00 0.00 4.30
2220 2296 0.038890 AGGGAGGAGAAAGGCAAAGC 59.961 55.000 0.00 0.00 0.00 3.51
2269 2345 8.023128 TCATTGCATTACTTTTCTTTCTGTAGC 58.977 33.333 0.00 0.00 0.00 3.58
2271 2347 7.510549 TGCATTACTTTTCTTTCTGTAGCTT 57.489 32.000 0.00 0.00 0.00 3.74
2442 2530 3.067833 GTCTGTTCTTGTCCCTGTAAGC 58.932 50.000 0.00 0.00 0.00 3.09
2444 2532 3.070018 CTGTTCTTGTCCCTGTAAGCTG 58.930 50.000 0.00 0.00 0.00 4.24
2446 2534 3.244215 TGTTCTTGTCCCTGTAAGCTGAG 60.244 47.826 0.00 0.00 0.00 3.35
2483 2573 5.033507 GTCCGTCCGTAATAGAAGAAGTTC 58.966 45.833 0.00 0.00 0.00 3.01
2527 2624 5.767269 ACTTGTAGTATCATCTCATGCTCG 58.233 41.667 0.00 0.00 0.00 5.03
2607 2710 7.451255 ACTCCTGTTGTTCCATTAATCAATTGA 59.549 33.333 11.26 11.26 0.00 2.57
2649 2759 3.809832 TGCGCTTTCCTGCTAGAATAATC 59.190 43.478 9.73 0.00 0.00 1.75
2651 2761 3.120854 CGCTTTCCTGCTAGAATAATCGC 60.121 47.826 0.00 0.00 0.00 4.58
2731 2851 1.305465 TTGCCTTGCATGCATCCCT 60.305 52.632 23.37 0.00 38.76 4.20
2735 2855 1.168407 CCTTGCATGCATCCCTACGG 61.168 60.000 23.37 9.47 0.00 4.02
2736 2856 1.789078 CTTGCATGCATCCCTACGGC 61.789 60.000 23.37 0.00 0.00 5.68
2830 2956 0.933796 GCAGTTAGCATCTTCCTCGC 59.066 55.000 0.00 0.00 44.79 5.03
2831 2957 1.740380 GCAGTTAGCATCTTCCTCGCA 60.740 52.381 0.00 0.00 44.79 5.10
2857 2983 0.745845 CTTGCCATCGCCAGCTACTT 60.746 55.000 0.00 0.00 0.00 2.24
2859 2985 1.450312 GCCATCGCCAGCTACTTGT 60.450 57.895 0.00 0.00 0.00 3.16
2860 2986 0.179084 GCCATCGCCAGCTACTTGTA 60.179 55.000 0.00 0.00 0.00 2.41
2861 2987 1.541233 GCCATCGCCAGCTACTTGTAT 60.541 52.381 0.00 0.00 0.00 2.29
2862 2988 2.138320 CCATCGCCAGCTACTTGTATG 58.862 52.381 0.00 0.00 0.00 2.39
2864 2990 1.480789 TCGCCAGCTACTTGTATGGA 58.519 50.000 5.00 0.00 34.60 3.41
2867 2993 3.118408 TCGCCAGCTACTTGTATGGAAAT 60.118 43.478 5.00 0.00 34.60 2.17
2868 2994 4.100344 TCGCCAGCTACTTGTATGGAAATA 59.900 41.667 5.00 0.00 34.60 1.40
2870 2996 5.611374 GCCAGCTACTTGTATGGAAATAGA 58.389 41.667 5.00 0.00 34.60 1.98
2871 2997 5.698545 GCCAGCTACTTGTATGGAAATAGAG 59.301 44.000 5.00 0.00 34.60 2.43
2872 2998 6.686632 GCCAGCTACTTGTATGGAAATAGAGT 60.687 42.308 5.00 0.00 34.60 3.24
2873 2999 7.471539 GCCAGCTACTTGTATGGAAATAGAGTA 60.472 40.741 5.00 0.00 34.60 2.59
2874 3000 8.589338 CCAGCTACTTGTATGGAAATAGAGTAT 58.411 37.037 0.00 0.00 34.60 2.12
2884 3010 6.919775 TGGAAATAGAGTATTAGGAGGAGC 57.080 41.667 0.00 0.00 0.00 4.70
2895 3021 1.036707 AGGAGGAGCAGAATAGTCGC 58.963 55.000 0.00 0.00 0.00 5.19
2900 3026 0.937231 GAGCAGAATAGTCGCCGCTC 60.937 60.000 13.70 13.70 37.87 5.03
2902 3028 1.658717 CAGAATAGTCGCCGCTCCG 60.659 63.158 0.00 0.00 0.00 4.63
2903 3029 2.119655 AGAATAGTCGCCGCTCCGT 61.120 57.895 0.00 0.00 0.00 4.69
2904 3030 1.944676 GAATAGTCGCCGCTCCGTG 60.945 63.158 0.00 0.00 0.00 4.94
2905 3031 4.570663 ATAGTCGCCGCTCCGTGC 62.571 66.667 0.00 0.00 38.57 5.34
2915 3041 3.151022 CTCCGTGCTCCCCTCTCC 61.151 72.222 0.00 0.00 0.00 3.71
2970 3096 7.327975 TCGTGTAATTCTTCTTCCATGTATGT 58.672 34.615 0.00 0.00 0.00 2.29
2971 3097 7.491372 TCGTGTAATTCTTCTTCCATGTATGTC 59.509 37.037 0.00 0.00 0.00 3.06
2988 3114 1.272536 TGTCCCCTTTCGCTCTCTAGT 60.273 52.381 0.00 0.00 0.00 2.57
2995 3121 2.421751 TTCGCTCTCTAGTGCCTAGT 57.578 50.000 8.51 0.00 35.72 2.57
3128 3264 3.034635 AGAAGATAGCCATCAAGTCGGT 58.965 45.455 0.00 0.00 33.21 4.69
3143 3279 1.937846 CGGTCGATCGTGCGGTTAG 60.938 63.158 15.94 0.00 0.00 2.34
3172 3308 2.863484 AGATGTGGGTTGGGGCCA 60.863 61.111 4.39 0.00 0.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 24 2.078849 ACACTCGATGATCGTGCAAA 57.921 45.000 15.06 0.00 41.35 3.68
24 26 1.067915 TCAACACTCGATGATCGTGCA 60.068 47.619 15.06 0.00 41.35 4.57
25 27 1.629013 TCAACACTCGATGATCGTGC 58.371 50.000 15.06 0.00 41.35 5.34
28 30 5.075448 CAGTTTTTCAACACTCGATGATCG 58.925 41.667 8.83 8.83 36.94 3.69
34 36 4.630894 AATGCAGTTTTTCAACACTCGA 57.369 36.364 0.00 0.00 35.05 4.04
62 65 4.937015 GCCACAAGCCATAACAAATTTCAT 59.063 37.500 0.00 0.00 34.35 2.57
65 68 4.348863 TGCCACAAGCCATAACAAATTT 57.651 36.364 0.00 0.00 42.71 1.82
112 115 2.157668 CACTTATGTCGGTGTCAAGCAC 59.842 50.000 0.00 0.00 46.97 4.40
113 116 2.412870 CACTTATGTCGGTGTCAAGCA 58.587 47.619 0.00 0.00 0.00 3.91
120 123 1.358725 CGCCACCACTTATGTCGGTG 61.359 60.000 16.61 16.61 41.09 4.94
123 126 2.502213 TATCGCCACCACTTATGTCG 57.498 50.000 0.00 0.00 0.00 4.35
151 154 5.104151 TGTCAATCTTGGGATATAAGCCACA 60.104 40.000 0.00 0.00 0.00 4.17
153 156 5.645056 TGTCAATCTTGGGATATAAGCCA 57.355 39.130 0.00 0.00 0.00 4.75
156 159 7.554118 ACACAGTTGTCAATCTTGGGATATAAG 59.446 37.037 4.54 0.00 0.00 1.73
246 252 8.845942 ACTGTTTTTATCGAAAGTTACAAACC 57.154 30.769 0.00 0.00 36.13 3.27
265 271 9.316730 TCAAGTAAGAAAACGTGTATACTGTTT 57.683 29.630 16.24 16.24 36.12 2.83
272 278 7.439955 TGTGTGATCAAGTAAGAAAACGTGTAT 59.560 33.333 0.00 0.00 31.74 2.29
297 303 1.196581 TGGATTTGATGTTGCGACGTG 59.803 47.619 2.72 0.00 0.00 4.49
299 305 1.202065 CCTGGATTTGATGTTGCGACG 60.202 52.381 0.00 0.00 0.00 5.12
302 311 4.414852 CTTAACCTGGATTTGATGTTGCG 58.585 43.478 0.00 0.00 0.00 4.85
308 317 5.796502 TTCTCCCTTAACCTGGATTTGAT 57.203 39.130 0.00 0.00 0.00 2.57
318 327 5.864418 AAAAAGTGGTTTCTCCCTTAACC 57.136 39.130 0.00 0.00 43.28 2.85
340 351 4.187694 GCCACAACAATTCTGGAAAACAA 58.812 39.130 0.00 0.00 0.00 2.83
352 363 4.081531 CCAATTATCACTGGCCACAACAAT 60.082 41.667 0.00 0.00 0.00 2.71
415 437 5.034200 ACCAACCCCAGAATACATACTGTA 58.966 41.667 0.00 0.00 37.24 2.74
496 520 5.185454 CCCAGTTTGAGCTGTCAATGTATA 58.815 41.667 0.00 0.00 42.41 1.47
515 539 1.000060 CTGTTGCACATTTGTCCCCAG 60.000 52.381 0.00 0.00 0.00 4.45
557 582 1.362768 TTGCGCATCATCACAGAGAC 58.637 50.000 12.75 0.00 0.00 3.36
575 615 7.201600 CGTTTTTGTTTGACCTCCATCATTTTT 60.202 33.333 0.00 0.00 0.00 1.94
621 661 5.292834 GCTGATCGAAGAATCAATCAAGACA 59.707 40.000 0.00 0.00 43.58 3.41
634 674 0.103026 CATGGACCGCTGATCGAAGA 59.897 55.000 0.00 0.00 45.75 2.87
638 678 1.934589 TAAACATGGACCGCTGATCG 58.065 50.000 0.00 0.00 38.08 3.69
657 698 4.003788 CGTCACCGCCCAGGAGTT 62.004 66.667 0.00 0.00 45.00 3.01
744 794 7.841282 ATTTCCCAAAGATCGTAGAGATAGA 57.159 36.000 0.00 0.00 43.63 1.98
745 795 8.894768 AAATTTCCCAAAGATCGTAGAGATAG 57.105 34.615 0.00 0.00 43.63 2.08
802 861 2.091885 ACGAAGCCCCATTAATCCATGT 60.092 45.455 0.00 0.00 0.00 3.21
920 983 0.251073 GCTTTAGTTAGGGACGGGCA 59.749 55.000 0.00 0.00 0.00 5.36
1272 1344 2.290287 CGACCCCTCCACCATCACA 61.290 63.158 0.00 0.00 0.00 3.58
1342 1414 3.238497 CATGGGCATGGGCATGGG 61.238 66.667 0.00 0.00 43.71 4.00
1343 1415 3.936203 GCATGGGCATGGGCATGG 61.936 66.667 0.00 0.00 43.71 3.66
1344 1416 3.936203 GGCATGGGCATGGGCATG 61.936 66.667 0.00 0.00 43.71 4.06
1440 1512 0.322322 AGTCGGAGTCAGAGTCGTCT 59.678 55.000 0.00 0.00 0.00 4.18
1556 1628 1.607713 CGCAGAAGAGATATACGGCG 58.392 55.000 4.80 4.80 39.82 6.46
1557 1629 1.341606 GCGCAGAAGAGATATACGGC 58.658 55.000 0.30 0.00 0.00 5.68
1558 1630 1.269723 TGGCGCAGAAGAGATATACGG 59.730 52.381 10.83 0.00 0.00 4.02
1563 1635 0.175760 GGTGTGGCGCAGAAGAGATA 59.824 55.000 10.83 0.00 0.00 1.98
1596 1668 1.803519 CGCGCTGGAGTTGAGAGAC 60.804 63.158 5.56 0.00 0.00 3.36
1818 1890 2.434185 TTGCTGACGCCGATGTCC 60.434 61.111 0.00 0.00 38.11 4.02
1997 2069 2.568090 GGTTGAATGGCGCTGGTG 59.432 61.111 7.64 0.00 0.00 4.17
1998 2070 2.676471 GGGTTGAATGGCGCTGGT 60.676 61.111 7.64 0.00 0.00 4.00
1999 2071 3.451894 GGGGTTGAATGGCGCTGG 61.452 66.667 7.64 0.00 0.00 4.85
2000 2072 2.361610 AGGGGTTGAATGGCGCTG 60.362 61.111 7.64 0.00 0.00 5.18
2047 2119 0.179004 TTCATGTTGAAGCCCGTGGT 60.179 50.000 0.00 0.00 31.83 4.16
2135 2207 1.004440 GAGGCTCCGTTCAGCTTGT 60.004 57.895 2.15 0.00 39.58 3.16
2173 2245 0.396974 CTGCCTCTGCTCTCCCTAGT 60.397 60.000 0.00 0.00 38.71 2.57
2201 2273 0.038890 GCTTTGCCTTTCTCCTCCCT 59.961 55.000 0.00 0.00 0.00 4.20
2265 2341 2.973945 AGAACCAACGATCCAAGCTAC 58.026 47.619 0.00 0.00 0.00 3.58
2267 2343 2.567615 AGTAGAACCAACGATCCAAGCT 59.432 45.455 0.00 0.00 0.00 3.74
2268 2344 2.973945 AGTAGAACCAACGATCCAAGC 58.026 47.619 0.00 0.00 0.00 4.01
2269 2345 5.962433 TCTTAGTAGAACCAACGATCCAAG 58.038 41.667 0.00 0.00 0.00 3.61
2271 2347 5.988310 TTCTTAGTAGAACCAACGATCCA 57.012 39.130 0.00 0.00 35.49 3.41
2344 2428 1.912731 TCCATCGGATCCCAAGAACAA 59.087 47.619 6.06 0.00 0.00 2.83
2407 2495 0.178990 ACAGACCAAGAAAGGTGCCC 60.179 55.000 0.00 0.00 43.38 5.36
2442 2530 3.827898 GGACGGACGGGAGCTCAG 61.828 72.222 17.19 11.44 0.00 3.35
2527 2624 3.564235 TCATGAATTCACAGCACAAGC 57.436 42.857 11.07 0.00 42.56 4.01
2607 2710 0.391263 GGCGCAAGTACAGGCTAAGT 60.391 55.000 10.83 0.00 41.68 2.24
2651 2761 2.049526 GGAAACCGCGCAAAAGGG 60.050 61.111 8.75 1.66 0.00 3.95
2677 2787 2.554032 GCGCTGCTAATGATGGGTTTAT 59.446 45.455 0.00 0.00 0.00 1.40
2678 2788 1.946768 GCGCTGCTAATGATGGGTTTA 59.053 47.619 0.00 0.00 0.00 2.01
2731 2851 0.464916 TCTATCTGCTCGTGGCCGTA 60.465 55.000 0.00 0.00 40.92 4.02
2735 2855 2.726760 CGTTAATCTATCTGCTCGTGGC 59.273 50.000 0.00 0.00 42.22 5.01
2736 2856 3.731216 CACGTTAATCTATCTGCTCGTGG 59.269 47.826 0.00 0.00 41.95 4.94
2857 2983 9.535170 CTCCTCCTAATACTCTATTTCCATACA 57.465 37.037 0.00 0.00 0.00 2.29
2859 2985 8.177456 TGCTCCTCCTAATACTCTATTTCCATA 58.823 37.037 0.00 0.00 0.00 2.74
2860 2986 7.019388 TGCTCCTCCTAATACTCTATTTCCAT 58.981 38.462 0.00 0.00 0.00 3.41
2861 2987 6.382087 TGCTCCTCCTAATACTCTATTTCCA 58.618 40.000 0.00 0.00 0.00 3.53
2862 2988 6.722129 TCTGCTCCTCCTAATACTCTATTTCC 59.278 42.308 0.00 0.00 0.00 3.13
2864 2990 8.734593 ATTCTGCTCCTCCTAATACTCTATTT 57.265 34.615 0.00 0.00 0.00 1.40
2867 2993 7.991174 ACTATTCTGCTCCTCCTAATACTCTA 58.009 38.462 0.00 0.00 0.00 2.43
2868 2994 6.858941 ACTATTCTGCTCCTCCTAATACTCT 58.141 40.000 0.00 0.00 0.00 3.24
2870 2996 5.708230 CGACTATTCTGCTCCTCCTAATACT 59.292 44.000 0.00 0.00 0.00 2.12
2871 2997 5.620429 GCGACTATTCTGCTCCTCCTAATAC 60.620 48.000 0.00 0.00 0.00 1.89
2872 2998 4.459685 GCGACTATTCTGCTCCTCCTAATA 59.540 45.833 0.00 0.00 0.00 0.98
2873 2999 3.257127 GCGACTATTCTGCTCCTCCTAAT 59.743 47.826 0.00 0.00 0.00 1.73
2874 3000 2.623889 GCGACTATTCTGCTCCTCCTAA 59.376 50.000 0.00 0.00 0.00 2.69
2884 3010 1.658717 CGGAGCGGCGACTATTCTG 60.659 63.158 12.98 0.48 0.00 3.02
2900 3026 4.787280 AGGGAGAGGGGAGCACGG 62.787 72.222 0.00 0.00 0.00 4.94
2902 3028 1.760480 GAGAGGGAGAGGGGAGCAC 60.760 68.421 0.00 0.00 0.00 4.40
2903 3029 1.597905 ATGAGAGGGAGAGGGGAGCA 61.598 60.000 0.00 0.00 0.00 4.26
2904 3030 0.831711 GATGAGAGGGAGAGGGGAGC 60.832 65.000 0.00 0.00 0.00 4.70
2905 3031 0.178935 GGATGAGAGGGAGAGGGGAG 60.179 65.000 0.00 0.00 0.00 4.30
2906 3032 0.931250 TGGATGAGAGGGAGAGGGGA 60.931 60.000 0.00 0.00 0.00 4.81
2907 3033 0.762461 GTGGATGAGAGGGAGAGGGG 60.762 65.000 0.00 0.00 0.00 4.79
2908 3034 1.112315 CGTGGATGAGAGGGAGAGGG 61.112 65.000 0.00 0.00 0.00 4.30
2909 3035 1.743321 GCGTGGATGAGAGGGAGAGG 61.743 65.000 0.00 0.00 0.00 3.69
2910 3036 1.039785 TGCGTGGATGAGAGGGAGAG 61.040 60.000 0.00 0.00 0.00 3.20
2911 3037 1.000359 TGCGTGGATGAGAGGGAGA 60.000 57.895 0.00 0.00 0.00 3.71
2915 3041 0.320683 TGTTGTGCGTGGATGAGAGG 60.321 55.000 0.00 0.00 0.00 3.69
2970 3096 1.475403 CACTAGAGAGCGAAAGGGGA 58.525 55.000 0.00 0.00 0.00 4.81
2971 3097 0.179097 GCACTAGAGAGCGAAAGGGG 60.179 60.000 0.00 0.00 0.00 4.79
2988 3114 4.878987 TTCGGGAGGAACTAGGCA 57.121 55.556 0.00 0.00 41.55 4.75
2995 3121 2.999063 GGACGGGTTCGGGAGGAA 60.999 66.667 0.00 0.00 41.39 3.36
3022 3148 3.264845 GGATGGTGGTGGGGGTGT 61.265 66.667 0.00 0.00 0.00 4.16
3023 3149 4.060667 GGGATGGTGGTGGGGGTG 62.061 72.222 0.00 0.00 0.00 4.61
3128 3264 2.777972 CCCCTAACCGCACGATCGA 61.778 63.158 24.34 0.00 0.00 3.59


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

AutoCloner maintained by Alex Coulton.