Multiple sequence alignment - TraesCS5D01G253200

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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 TraesCS5D01G253200 chr5D 100.000 3717 0 0 1 3717 360047707 360051423 0.000000e+00 6865
1 TraesCS5D01G253200 chr5D 86.026 2383 163 72 4 2305 360371669 360369376 0.000000e+00 2399
2 TraesCS5D01G253200 chr5D 90.337 683 36 18 2304 2964 360369345 360368671 0.000000e+00 869
3 TraesCS5D01G253200 chr5D 84.138 145 12 2 3005 3148 360368673 360368539 3.010000e-26 130
4 TraesCS5D01G253200 chr5A 88.090 3518 192 104 256 3681 461006889 461010271 0.000000e+00 3965
5 TraesCS5D01G253200 chr5A 88.335 883 53 27 831 1700 461232003 461231158 0.000000e+00 1014
6 TraesCS5D01G253200 chr5A 84.906 795 69 23 4 794 461233059 461232312 0.000000e+00 756
7 TraesCS5D01G253200 chr5A 89.655 522 28 13 2336 2835 461230035 461229518 3.130000e-180 641
8 TraesCS5D01G253200 chr5A 88.538 506 34 14 1812 2305 461231158 461230665 3.200000e-165 592
9 TraesCS5D01G253200 chr5A 93.878 49 3 0 2916 2964 461229508 461229460 1.430000e-09 75
10 TraesCS5D01G253200 chr5B 92.034 1406 59 25 2304 3682 425381924 425383303 0.000000e+00 1927
11 TraesCS5D01G253200 chr5B 86.229 1750 118 51 4 1719 425379303 425380963 0.000000e+00 1783
12 TraesCS5D01G253200 chr5B 90.730 1219 63 29 528 1719 425612561 425611366 0.000000e+00 1580
13 TraesCS5D01G253200 chr5B 94.380 516 21 4 1759 2266 425380968 425381483 0.000000e+00 785
14 TraesCS5D01G253200 chr5B 89.024 656 41 14 2320 2952 425610631 425609984 0.000000e+00 784
15 TraesCS5D01G253200 chr5B 89.455 550 35 11 1759 2305 425611361 425610832 0.000000e+00 673
16 TraesCS5D01G253200 chr5B 86.450 524 47 11 8 524 425614136 425613630 1.510000e-153 553
17 TraesCS5D01G253200 chr5B 91.720 157 12 1 2992 3147 425609978 425609822 2.250000e-52 217
18 TraesCS5D01G253200 chrUn 97.719 263 5 1 1759 2020 478540211 478539949 5.660000e-123 451
19 TraesCS5D01G253200 chrUn 98.529 136 1 1 1584 1719 478540350 478540216 4.800000e-59 239


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 TraesCS5D01G253200 chr5D 360047707 360051423 3716 False 6865.000000 6865 100.000000 1 3717 1 chr5D.!!$F1 3716
1 TraesCS5D01G253200 chr5D 360368539 360371669 3130 True 1132.666667 2399 86.833667 4 3148 3 chr5D.!!$R1 3144
2 TraesCS5D01G253200 chr5A 461006889 461010271 3382 False 3965.000000 3965 88.090000 256 3681 1 chr5A.!!$F1 3425
3 TraesCS5D01G253200 chr5A 461229460 461233059 3599 True 615.600000 1014 89.062400 4 2964 5 chr5A.!!$R1 2960
4 TraesCS5D01G253200 chr5B 425379303 425383303 4000 False 1498.333333 1927 90.881000 4 3682 3 chr5B.!!$F1 3678
5 TraesCS5D01G253200 chr5B 425609822 425614136 4314 True 761.400000 1580 89.475800 8 3147 5 chr5B.!!$R1 3139

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
209 217 0.178958 TTGCCGGGAGCCCTTAAAAA 60.179 50.0 2.18 0.0 42.71 1.94 F
1344 2800 0.742990 CGAGCTGTCTCTCCGTCTCT 60.743 60.0 0.00 0.0 37.19 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1826 3384 0.16747 TCTTCGCCTCGAACACGTAG 59.833 55.0 0.0 2.43 41.05 3.51 R
3055 5803 0.94766 CCCATCTCATCGCATCCACG 60.948 60.0 0.0 0.00 0.00 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
24 25 6.523840 TGCAAGGTTATTTCTGCAAAAAGAT 58.476 32.000 0.00 0.00 0.00 2.40
50 51 2.950781 TGTTATCTGGCAAACACCCAA 58.049 42.857 0.00 0.00 30.88 4.12
59 65 1.536709 GCAAACACCCAAGCTTGTCAG 60.537 52.381 24.35 14.94 0.00 3.51
72 78 2.360801 GCTTGTCAGGCCAACTTTGTAA 59.639 45.455 5.01 0.00 0.00 2.41
88 94 7.230849 ACTTTGTAAGATTTGCCATGATCAA 57.769 32.000 0.00 0.00 0.00 2.57
138 146 1.864565 GCAGGAAAATTGCCACGTTT 58.135 45.000 0.00 0.00 35.54 3.60
141 149 3.804873 GCAGGAAAATTGCCACGTTTTAA 59.195 39.130 0.00 0.00 35.54 1.52
154 162 4.381566 CCACGTTTTAAAGAGAAATTGCCG 59.618 41.667 0.00 0.00 0.00 5.69
162 170 3.071874 AGAGAAATTGCCGTCCATTCA 57.928 42.857 0.00 0.00 0.00 2.57
204 212 2.362889 CATTTGCCGGGAGCCCTT 60.363 61.111 2.18 0.00 42.71 3.95
209 217 0.178958 TTGCCGGGAGCCCTTAAAAA 60.179 50.000 2.18 0.00 42.71 1.94
228 236 3.903530 AAATCTGAAGTTCCCTGGGTT 57.096 42.857 13.56 0.00 0.00 4.11
229 237 5.333566 AAAATCTGAAGTTCCCTGGGTTA 57.666 39.130 13.56 0.00 0.00 2.85
482 506 4.710695 TCACGCCGGCAGTACACG 62.711 66.667 28.98 10.77 0.00 4.49
712 1817 1.006688 GCGCCGTGGAAATTTTGGT 60.007 52.632 0.00 0.00 0.00 3.67
924 2327 1.677966 CGTCGAGGAGGAGGTGGAA 60.678 63.158 0.00 0.00 0.00 3.53
959 2370 4.807039 ACCCGTGCCGTGTATCGC 62.807 66.667 0.00 0.00 38.35 4.58
967 2378 1.129326 GCCGTGTATCGCTGTATCAC 58.871 55.000 0.00 0.00 38.35 3.06
969 2380 0.770590 CGTGTATCGCTGTATCACGC 59.229 55.000 0.00 0.00 43.39 5.34
970 2381 1.835121 GTGTATCGCTGTATCACGCA 58.165 50.000 0.00 0.00 0.00 5.24
971 2382 1.781429 GTGTATCGCTGTATCACGCAG 59.219 52.381 0.00 0.00 37.06 5.18
981 2392 3.339141 TGTATCACGCAGCATTTACCAA 58.661 40.909 0.00 0.00 0.00 3.67
989 2400 3.057596 CGCAGCATTTACCAAGAAGGAAA 60.058 43.478 0.00 0.00 41.22 3.13
1069 2487 3.129502 GCAGCAGCATCTTCGGCA 61.130 61.111 0.00 0.00 41.58 5.69
1132 2559 3.782443 GGTCCCCCTACTGCGGTG 61.782 72.222 8.92 0.00 0.00 4.94
1133 2560 3.782443 GTCCCCCTACTGCGGTGG 61.782 72.222 8.92 4.95 0.00 4.61
1344 2800 0.742990 CGAGCTGTCTCTCCGTCTCT 60.743 60.000 0.00 0.00 37.19 3.10
1363 2819 1.066587 CCTCTGATTCGCTCCCGTC 59.933 63.158 0.00 0.00 35.54 4.79
1519 2979 2.381911 GTAAGGAGATACGTCCACCCA 58.618 52.381 0.00 0.00 39.34 4.51
1520 2980 2.176247 AAGGAGATACGTCCACCCAT 57.824 50.000 0.00 0.00 39.34 4.00
1521 2981 1.705873 AGGAGATACGTCCACCCATC 58.294 55.000 0.00 0.00 39.34 3.51
1523 2983 1.705873 GAGATACGTCCACCCATCCT 58.294 55.000 0.00 0.00 0.00 3.24
1525 2985 3.432378 GAGATACGTCCACCCATCCTAT 58.568 50.000 0.00 0.00 0.00 2.57
1526 2986 3.165875 AGATACGTCCACCCATCCTATG 58.834 50.000 0.00 0.00 0.00 2.23
1528 2988 1.874129 ACGTCCACCCATCCTATGAA 58.126 50.000 0.00 0.00 0.00 2.57
1630 3099 0.948141 GGATGACGCAGCTGCTATCC 60.948 60.000 32.22 32.22 39.32 2.59
1717 3263 6.779539 TGCAGGTGAGATGAGAATCTAATCTA 59.220 38.462 10.05 0.00 29.08 1.98
1720 3266 9.642327 CAGGTGAGATGAGAATCTAATCTAATG 57.358 37.037 10.05 3.92 29.08 1.90
1728 3274 9.842775 ATGAGAATCTAATCTAATGAAAGCACA 57.157 29.630 0.00 0.00 34.92 4.57
1747 3293 4.925646 GCACATATCTGACGATGAAGCATA 59.074 41.667 8.05 0.00 32.13 3.14
1750 3296 2.492019 TCTGACGATGAAGCATACGG 57.508 50.000 0.00 0.00 0.00 4.02
1751 3297 2.021457 TCTGACGATGAAGCATACGGA 58.979 47.619 0.00 0.00 0.00 4.69
1752 3298 2.623416 TCTGACGATGAAGCATACGGAT 59.377 45.455 0.00 0.00 0.00 4.18
1753 3299 3.818773 TCTGACGATGAAGCATACGGATA 59.181 43.478 0.00 0.00 0.00 2.59
1754 3300 3.897325 TGACGATGAAGCATACGGATAC 58.103 45.455 0.00 0.00 0.00 2.24
1899 3457 1.660560 GCTCAAATGGCGGATGCAGT 61.661 55.000 0.00 0.00 45.35 4.40
2073 3641 3.693654 CAGATCGATATCCAGAGATGCG 58.306 50.000 0.00 0.00 34.71 4.73
2115 3687 1.214325 CACGCTGTGGATCGGTACA 59.786 57.895 0.00 0.00 0.00 2.90
2130 3702 1.274167 GGTACACATGACAGGGACGAA 59.726 52.381 0.00 0.00 0.00 3.85
2198 3770 1.507141 CGTGGCTGTGGAAGAACACC 61.507 60.000 0.00 0.00 40.62 4.16
2208 3780 0.890996 GAAGAACACCCTGCCCACAG 60.891 60.000 0.00 0.00 44.05 3.66
2244 3816 3.021695 CCCACGTAGATAAGGTGAGACA 58.978 50.000 0.00 0.00 44.95 3.41
2257 3829 3.264487 GAGACACGCACGCAACGTC 62.264 63.158 0.00 0.00 42.96 4.34
2291 4231 3.241067 GGCACCACGTCTCATTTACTA 57.759 47.619 0.00 0.00 0.00 1.82
2305 4245 3.672255 TACTACGTCGCAGCGTGGC 62.672 63.158 15.93 5.73 45.17 5.01
2307 4247 4.429212 TACGTCGCAGCGTGGCAT 62.429 61.111 15.93 0.00 45.33 4.40
2353 5044 2.261671 CTGTTCCTGTAGCCGCGT 59.738 61.111 4.92 0.00 0.00 6.01
2382 5073 0.251297 CCAGACACCATGCAGGGAAA 60.251 55.000 26.87 0.00 43.89 3.13
2405 5096 1.083806 TGAGCCGCATTTACGCTCTG 61.084 55.000 9.45 0.00 37.22 3.35
2406 5097 1.079127 AGCCGCATTTACGCTCTGT 60.079 52.632 0.00 0.00 0.00 3.41
2407 5098 0.174845 AGCCGCATTTACGCTCTGTA 59.825 50.000 0.00 0.00 0.00 2.74
2408 5099 1.003851 GCCGCATTTACGCTCTGTAA 58.996 50.000 0.00 0.00 41.25 2.41
2409 5100 1.597663 GCCGCATTTACGCTCTGTAAT 59.402 47.619 0.00 0.00 42.45 1.89
2469 5165 2.570181 GGTGCTGAGTTGCCATGC 59.430 61.111 0.00 0.00 0.00 4.06
2658 5369 4.492160 GGCATCGTCGCCGTCTGA 62.492 66.667 2.17 0.00 43.52 3.27
2659 5370 2.506217 GCATCGTCGCCGTCTGAA 60.506 61.111 0.00 0.00 35.01 3.02
2741 5456 4.746535 TTTAGGACGTGATATGCTCCAA 57.253 40.909 0.00 0.00 0.00 3.53
2742 5457 2.604046 AGGACGTGATATGCTCCAAC 57.396 50.000 0.00 0.00 0.00 3.77
2743 5458 1.139058 AGGACGTGATATGCTCCAACC 59.861 52.381 0.00 0.00 0.00 3.77
2787 5518 8.900983 ATAGATTGATTAAAGGTCTCTTCTGC 57.099 34.615 0.00 0.00 31.82 4.26
3055 5803 1.852280 GTTTTGTGCGAAGACAAAGCC 59.148 47.619 9.38 2.86 44.51 4.35
3202 5957 3.791953 TTTCCCCTGATTTCCGTTGTA 57.208 42.857 0.00 0.00 0.00 2.41
3282 6041 3.103447 TGATTGAGATCCATGACGAGC 57.897 47.619 0.00 0.00 0.00 5.03
3292 6051 3.296854 TCCATGACGAGCCAATACTAGT 58.703 45.455 0.00 0.00 0.00 2.57
3293 6052 4.466827 TCCATGACGAGCCAATACTAGTA 58.533 43.478 4.77 4.77 0.00 1.82
3294 6053 4.519350 TCCATGACGAGCCAATACTAGTAG 59.481 45.833 8.85 0.00 0.00 2.57
3295 6054 3.984508 TGACGAGCCAATACTAGTAGC 57.015 47.619 8.85 6.63 0.00 3.58
3297 6056 3.315470 TGACGAGCCAATACTAGTAGCTG 59.685 47.826 17.22 12.22 32.97 4.24
3353 6114 1.963515 GATGTGGAAGTGGGTTTTGCT 59.036 47.619 0.00 0.00 0.00 3.91
3367 6130 4.159693 GGGTTTTGCTTTAGGGGTTATGAG 59.840 45.833 0.00 0.00 0.00 2.90
3632 6400 2.897969 TGGACTCGTTAAAGCTTCTCCT 59.102 45.455 0.00 0.00 0.00 3.69
3633 6401 4.084287 TGGACTCGTTAAAGCTTCTCCTA 58.916 43.478 0.00 0.00 0.00 2.94
3673 6441 4.750021 AATGAGTGCAGCTAGATCTCAA 57.250 40.909 0.00 0.00 38.38 3.02
3681 6449 6.658391 AGTGCAGCTAGATCTCAATTTTCTTT 59.342 34.615 0.00 0.00 0.00 2.52
3682 6450 7.176340 AGTGCAGCTAGATCTCAATTTTCTTTT 59.824 33.333 0.00 0.00 0.00 2.27
3683 6451 7.484324 GTGCAGCTAGATCTCAATTTTCTTTTC 59.516 37.037 0.00 0.00 0.00 2.29
3684 6452 7.392673 TGCAGCTAGATCTCAATTTTCTTTTCT 59.607 33.333 0.00 0.00 0.00 2.52
3685 6453 8.242739 GCAGCTAGATCTCAATTTTCTTTTCTT 58.757 33.333 0.00 0.00 0.00 2.52
3712 6480 8.498054 TTTTGCGATAGAGATCTCAATTTTCT 57.502 30.769 24.39 4.62 36.82 2.52
3713 6481 8.498054 TTTGCGATAGAGATCTCAATTTTCTT 57.502 30.769 24.39 3.88 36.82 2.52
3714 6482 9.599866 TTTGCGATAGAGATCTCAATTTTCTTA 57.400 29.630 24.39 6.05 36.82 2.10
3715 6483 8.809159 TGCGATAGAGATCTCAATTTTCTTAG 57.191 34.615 24.39 5.73 39.76 2.18
3716 6484 8.633561 TGCGATAGAGATCTCAATTTTCTTAGA 58.366 33.333 24.39 0.00 39.76 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.911752 TCTTTTTGCAGAAATAACCTTGCA 58.088 33.333 2.48 0.00 0.00 4.08
1 2 8.532977 TTATCTTTTTGCAGAAATAACCTTGC 57.467 30.769 2.48 0.00 0.00 4.01
24 25 6.042093 TGGGTGTTTGCCAGATAACATTTTTA 59.958 34.615 0.00 0.00 36.72 1.52
50 51 1.035139 CAAAGTTGGCCTGACAAGCT 58.965 50.000 3.32 0.00 0.00 3.74
59 65 3.244044 TGGCAAATCTTACAAAGTTGGCC 60.244 43.478 0.00 0.00 38.48 5.36
72 78 2.100252 CGCCTTTGATCATGGCAAATCT 59.900 45.455 28.34 0.00 46.39 2.40
138 146 5.475220 TGAATGGACGGCAATTTCTCTTTAA 59.525 36.000 0.00 0.00 0.00 1.52
141 149 3.420893 TGAATGGACGGCAATTTCTCTT 58.579 40.909 0.00 0.00 0.00 2.85
209 217 5.264395 CAATAACCCAGGGAACTTCAGATT 58.736 41.667 14.54 0.00 40.21 2.40
210 218 4.325344 CCAATAACCCAGGGAACTTCAGAT 60.325 45.833 14.54 0.00 40.21 2.90
212 220 3.356290 CCAATAACCCAGGGAACTTCAG 58.644 50.000 14.54 0.00 40.21 3.02
213 221 2.042433 CCCAATAACCCAGGGAACTTCA 59.958 50.000 14.54 0.00 45.80 3.02
214 222 2.042569 ACCCAATAACCCAGGGAACTTC 59.957 50.000 14.54 0.00 45.80 3.01
215 223 2.042569 GACCCAATAACCCAGGGAACTT 59.957 50.000 14.54 0.00 45.80 2.66
216 224 1.639108 GACCCAATAACCCAGGGAACT 59.361 52.381 14.54 0.00 45.80 3.01
217 225 1.341679 GGACCCAATAACCCAGGGAAC 60.342 57.143 14.54 0.00 45.80 3.62
218 226 1.004436 GGACCCAATAACCCAGGGAA 58.996 55.000 14.54 0.00 45.80 3.97
222 230 6.613153 TTATTTTTGGACCCAATAACCCAG 57.387 37.500 1.88 0.00 35.70 4.45
229 237 9.041354 TGCTATTAGTTTATTTTTGGACCCAAT 57.959 29.630 1.88 0.00 35.70 3.16
268 276 8.303876 GGGATTTTCAGCAGAATTTACAACTTA 58.696 33.333 0.00 0.00 32.89 2.24
269 277 7.154656 GGGATTTTCAGCAGAATTTACAACTT 58.845 34.615 0.00 0.00 32.89 2.66
281 289 1.272092 TGTGGAGGGGATTTTCAGCAG 60.272 52.381 0.00 0.00 0.00 4.24
336 344 1.871039 GAGTTGAGCAAGGCGTTAACA 59.129 47.619 6.39 0.00 0.00 2.41
482 506 5.555818 GCATGTACGCGTAAAAAGAGATACC 60.556 44.000 22.44 4.31 0.00 2.73
541 1645 8.317891 TCTGCGTTCTTCTTTTATCATGTTTA 57.682 30.769 0.00 0.00 0.00 2.01
547 1651 5.538118 TGTCTCTGCGTTCTTCTTTTATCA 58.462 37.500 0.00 0.00 0.00 2.15
560 1664 4.115516 CTGCATTACTTATGTCTCTGCGT 58.884 43.478 0.00 0.00 36.57 5.24
629 1734 1.226407 GCGCCGGAATGCTTTTCTC 60.226 57.895 5.05 0.00 0.00 2.87
712 1817 4.742201 GGGCGCTGACTCGAGCAA 62.742 66.667 13.61 0.00 39.07 3.91
959 2370 2.935849 TGGTAAATGCTGCGTGATACAG 59.064 45.455 15.62 0.00 38.22 2.74
967 2378 2.083774 TCCTTCTTGGTAAATGCTGCG 58.916 47.619 0.00 0.00 37.07 5.18
968 2379 4.237724 GTTTCCTTCTTGGTAAATGCTGC 58.762 43.478 0.00 0.00 37.07 5.25
969 2380 5.452078 TGTTTCCTTCTTGGTAAATGCTG 57.548 39.130 0.00 0.00 37.07 4.41
970 2381 4.021981 GCTGTTTCCTTCTTGGTAAATGCT 60.022 41.667 0.00 0.00 37.07 3.79
971 2382 4.237724 GCTGTTTCCTTCTTGGTAAATGC 58.762 43.478 0.00 0.00 37.07 3.56
981 2392 1.048601 TCGGTCTGCTGTTTCCTTCT 58.951 50.000 0.00 0.00 0.00 2.85
989 2400 2.581354 GAGCCATCGGTCTGCTGT 59.419 61.111 0.00 0.00 34.99 4.40
1344 2800 1.379977 ACGGGAGCGAATCAGAGGA 60.380 57.895 0.00 0.00 0.00 3.71
1363 2819 3.989698 AAGCACTGGATCGACGCGG 62.990 63.158 12.47 0.00 0.00 6.46
1519 2979 3.148084 CCGGCCGGTTCATAGGAT 58.852 61.111 36.64 0.00 0.00 3.24
1520 2980 3.857038 GCCGGCCGGTTCATAGGA 61.857 66.667 42.53 0.00 37.65 2.94
1521 2981 4.929707 GGCCGGCCGGTTCATAGG 62.930 72.222 42.53 17.60 37.65 2.57
1523 2983 1.697082 TAATGGCCGGCCGGTTCATA 61.697 55.000 42.53 27.42 39.42 2.15
1525 2985 2.559922 ATTAATGGCCGGCCGGTTCA 62.560 55.000 42.53 37.15 39.42 3.18
1526 2986 1.826487 ATTAATGGCCGGCCGGTTC 60.826 57.895 42.53 33.31 39.42 3.62
1528 2988 2.518349 CATTAATGGCCGGCCGGT 60.518 61.111 42.53 30.52 39.42 5.28
1630 3099 1.956170 AAGAGACAAGCACGCCACG 60.956 57.895 0.00 0.00 0.00 4.94
1702 3248 9.842775 TGTGCTTTCATTAGATTAGATTCTCAT 57.157 29.630 0.00 0.00 0.00 2.90
1703 3249 9.842775 ATGTGCTTTCATTAGATTAGATTCTCA 57.157 29.630 0.00 0.00 0.00 3.27
1717 3263 6.051074 TCATCGTCAGATATGTGCTTTCATT 58.949 36.000 0.00 0.00 34.85 2.57
1720 3266 5.557893 GCTTCATCGTCAGATATGTGCTTTC 60.558 44.000 0.00 0.00 34.85 2.62
1727 3273 4.560427 CCGTATGCTTCATCGTCAGATATG 59.440 45.833 0.00 0.00 34.85 1.78
1728 3274 4.459337 TCCGTATGCTTCATCGTCAGATAT 59.541 41.667 0.00 0.00 34.85 1.63
1732 3278 2.492019 TCCGTATGCTTCATCGTCAG 57.508 50.000 0.00 0.00 0.00 3.51
1747 3293 3.397230 ACCAAATGGGCACGTATCCGT 62.397 52.381 4.17 0.00 44.56 4.69
1750 3296 1.134175 CCAACCAAATGGGCACGTATC 59.866 52.381 4.17 0.00 42.05 2.24
1751 3297 1.181786 CCAACCAAATGGGCACGTAT 58.818 50.000 4.17 0.00 42.05 3.06
1752 3298 0.178987 ACCAACCAAATGGGCACGTA 60.179 50.000 4.17 0.00 45.18 3.57
1753 3299 1.456705 ACCAACCAAATGGGCACGT 60.457 52.632 4.17 0.00 45.18 4.49
1754 3300 3.453988 ACCAACCAAATGGGCACG 58.546 55.556 4.17 0.00 45.18 5.34
1826 3384 0.167470 TCTTCGCCTCGAACACGTAG 59.833 55.000 0.00 2.43 41.05 3.51
1899 3457 1.512201 TAGGAGAAGGGGGTGACGGA 61.512 60.000 0.00 0.00 0.00 4.69
2092 3662 0.668535 CCGATCCACAGCGTGAGATA 59.331 55.000 9.75 0.00 35.23 1.98
2115 3687 0.320771 GCAGTTCGTCCCTGTCATGT 60.321 55.000 0.00 0.00 32.41 3.21
2185 3757 1.150536 GGCAGGGTGTTCTTCCACA 59.849 57.895 0.00 0.00 37.06 4.17
2187 3759 2.081787 TGGGCAGGGTGTTCTTCCA 61.082 57.895 0.00 0.00 0.00 3.53
2244 3816 1.426223 AAAAAGACGTTGCGTGCGT 59.574 47.368 0.00 0.00 41.37 5.24
2328 4454 1.534476 TACAGGAACAGGGGCGACA 60.534 57.895 0.00 0.00 0.00 4.35
2353 5044 2.281539 TGGTGTCTGGAGAAGTACGA 57.718 50.000 0.00 0.00 0.00 3.43
2405 5096 6.427150 CCATTAAGTCGCCATGTTACATTAC 58.573 40.000 0.00 0.00 0.00 1.89
2406 5097 5.008217 GCCATTAAGTCGCCATGTTACATTA 59.992 40.000 0.00 0.00 0.00 1.90
2407 5098 4.202010 GCCATTAAGTCGCCATGTTACATT 60.202 41.667 0.00 0.00 0.00 2.71
2408 5099 3.315191 GCCATTAAGTCGCCATGTTACAT 59.685 43.478 0.00 0.00 0.00 2.29
2409 5100 2.680841 GCCATTAAGTCGCCATGTTACA 59.319 45.455 0.00 0.00 0.00 2.41
2469 5165 1.890979 GTGGCCTGGATCATCGCTG 60.891 63.158 3.32 0.00 0.00 5.18
2721 5432 3.181469 GGTTGGAGCATATCACGTCCTAA 60.181 47.826 0.00 0.00 0.00 2.69
2722 5433 2.364324 GGTTGGAGCATATCACGTCCTA 59.636 50.000 0.00 0.00 0.00 2.94
3055 5803 0.947660 CCCATCTCATCGCATCCACG 60.948 60.000 0.00 0.00 0.00 4.94
3129 5884 2.619074 GGCCAAAACAGAGCTAGGACAT 60.619 50.000 0.00 0.00 0.00 3.06
3282 6041 7.578310 TTACTGTACCAGCTACTAGTATTGG 57.422 40.000 22.69 22.69 34.37 3.16
3292 6051 8.508883 TTCTTTTGTTTTTACTGTACCAGCTA 57.491 30.769 0.00 0.00 34.37 3.32
3293 6052 7.399245 TTCTTTTGTTTTTACTGTACCAGCT 57.601 32.000 0.00 0.00 34.37 4.24
3294 6053 7.971722 TCTTTCTTTTGTTTTTACTGTACCAGC 59.028 33.333 0.00 0.00 34.37 4.85
3295 6054 9.285770 GTCTTTCTTTTGTTTTTACTGTACCAG 57.714 33.333 0.00 0.00 37.52 4.00
3297 6056 9.628746 TTGTCTTTCTTTTGTTTTTACTGTACC 57.371 29.630 0.00 0.00 0.00 3.34
3353 6114 6.569127 TGTTGATAGCTCATAACCCCTAAA 57.431 37.500 0.00 0.00 0.00 1.85
3367 6130 6.336566 ACCGATCATAGATGATGTTGATAGC 58.663 40.000 9.73 0.00 46.84 2.97
3632 6400 8.748412 ACTCATTTTATAACTGCAATTTGGCTA 58.252 29.630 0.00 0.00 34.04 3.93
3633 6401 7.546667 CACTCATTTTATAACTGCAATTTGGCT 59.453 33.333 0.00 0.00 34.04 4.75
3690 6458 8.633561 TCTAAGAAAATTGAGATCTCTATCGCA 58.366 33.333 22.95 0.00 39.76 5.10


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

AutoCloner maintained by Alex Coulton.