Multiple sequence alignment - TraesCS5B01G037600

Loading Multiple Alignment...

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 TraesCS5B01G037600 chr5B 100.000 3024 0 0 1 3024 42156121 42153098 0.000000e+00 5585
1 TraesCS5B01G037600 chr5B 87.030 2020 206 33 843 2828 10170307 10168310 0.000000e+00 2228
2 TraesCS5B01G037600 chr5B 87.351 1344 111 23 931 2233 10264199 10262874 0.000000e+00 1485
3 TraesCS5B01G037600 chr5B 86.830 653 53 18 2387 3024 10262398 10261764 0.000000e+00 699
4 TraesCS5B01G037600 chr5B 90.541 296 17 6 16 309 10265398 10265112 6.120000e-102 381
5 TraesCS5B01G037600 chr5B 87.333 150 13 3 691 840 10264522 10264379 1.860000e-37 167
6 TraesCS5B01G037600 chr5A 91.293 2205 142 25 841 3023 8063017 8065193 0.000000e+00 2963
7 TraesCS5B01G037600 chr5A 86.391 1815 194 27 1022 2809 8112494 8114282 0.000000e+00 1934
8 TraesCS5B01G037600 chr5A 86.804 1311 126 25 1523 2809 8074287 8075574 0.000000e+00 1419
9 TraesCS5B01G037600 chr5A 88.766 632 63 5 908 1538 8073650 8074274 0.000000e+00 767
10 TraesCS5B01G037600 chr5A 81.760 466 40 17 417 840 8062508 8062970 6.200000e-92 348
11 TraesCS5B01G037600 chr5A 77.674 430 43 25 16 430 8062052 8062443 2.360000e-51 213
12 TraesCS5B01G037600 chr5A 88.889 144 16 0 696 839 8073438 8073581 8.610000e-41 178
13 TraesCS5B01G037600 chr5D 89.009 2211 182 32 843 3024 10042217 10044395 0.000000e+00 2680
14 TraesCS5B01G037600 chr5D 88.238 1930 173 28 908 2809 10067580 10069483 0.000000e+00 2257
15 TraesCS5B01G037600 chr5D 89.247 186 20 0 2623 2808 503300305 503300490 1.810000e-57 233
16 TraesCS5B01G037600 chr5D 89.820 167 7 2 414 571 10041324 10041489 3.950000e-49 206
17 TraesCS5B01G037600 chrUn 89.785 186 19 0 2623 2808 469402981 469402796 3.900000e-59 239
18 TraesCS5B01G037600 chr2A 89.247 186 20 0 2623 2808 53985366 53985181 1.810000e-57 233


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 TraesCS5B01G037600 chr5B 42153098 42156121 3023 True 5585.000000 5585 100.000000 1 3024 1 chr5B.!!$R2 3023
1 TraesCS5B01G037600 chr5B 10168310 10170307 1997 True 2228.000000 2228 87.030000 843 2828 1 chr5B.!!$R1 1985
2 TraesCS5B01G037600 chr5B 10261764 10265398 3634 True 683.000000 1485 88.013750 16 3024 4 chr5B.!!$R3 3008
3 TraesCS5B01G037600 chr5A 8112494 8114282 1788 False 1934.000000 1934 86.391000 1022 2809 1 chr5A.!!$F1 1787
4 TraesCS5B01G037600 chr5A 8062052 8065193 3141 False 1174.666667 2963 83.575667 16 3023 3 chr5A.!!$F2 3007
5 TraesCS5B01G037600 chr5A 8073438 8075574 2136 False 788.000000 1419 88.153000 696 2809 3 chr5A.!!$F3 2113
6 TraesCS5B01G037600 chr5D 10067580 10069483 1903 False 2257.000000 2257 88.238000 908 2809 1 chr5D.!!$F1 1901
7 TraesCS5B01G037600 chr5D 10041324 10044395 3071 False 1443.000000 2680 89.414500 414 3024 2 chr5D.!!$F3 2610

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
705 1262 0.105142 ACATCCCTGTATAGGCCGGT 60.105 55.0 1.9 0.0 43.16 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2592 3755 0.106967 TGCTGCACAGGGTACACAAA 60.107 50.0 0.0 0.0 0.0 2.83 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
27 28 1.210931 GTCGACCGACGTTGATGGA 59.789 57.895 3.51 0.00 43.13 3.41
40 41 0.108377 TGATGGATGAACCGACGGTG 60.108 55.000 22.53 0.00 42.61 4.94
121 123 3.618507 GCTAGTATGGATCCTGCATCACC 60.619 52.174 14.23 0.00 32.33 4.02
143 156 6.311445 CACCTGCAGTACTACTTTGATGTAAG 59.689 42.308 13.81 0.00 0.00 2.34
189 202 2.238521 GCCTCTCACTCCTCTCCTATG 58.761 57.143 0.00 0.00 0.00 2.23
194 207 3.894427 TCTCACTCCTCTCCTATGCATTC 59.106 47.826 3.54 0.00 0.00 2.67
221 234 2.046892 CTCTGCCTCCCCACAACG 60.047 66.667 0.00 0.00 0.00 4.10
236 249 3.615056 CCACAACGAAAAGGTTTGGTTTC 59.385 43.478 0.00 0.00 0.00 2.78
288 301 2.032620 GCTCCAACTAATCTCCCTCGA 58.967 52.381 0.00 0.00 0.00 4.04
309 322 4.666397 TGCCGCGCTTCGTTGGTA 62.666 61.111 5.56 0.00 36.19 3.25
310 323 3.849953 GCCGCGCTTCGTTGGTAG 61.850 66.667 5.56 0.00 36.19 3.18
314 366 2.453638 GCGCTTCGTTGGTAGCTCC 61.454 63.158 0.00 0.00 34.71 4.70
347 399 1.542915 TCCTTGCTCTGATTTTGCTGC 59.457 47.619 0.00 0.00 0.00 5.25
350 402 1.900245 TGCTCTGATTTTGCTGCTCA 58.100 45.000 0.00 0.00 0.00 4.26
369 421 3.270027 TCAATTCATGGTGTAGGCTTCG 58.730 45.455 0.00 0.00 0.00 3.79
375 427 1.291272 GGTGTAGGCTTCGACGGTT 59.709 57.895 0.00 0.00 0.00 4.44
398 450 1.215382 GCTTGATTTGGGCCGGTTC 59.785 57.895 1.90 0.00 0.00 3.62
410 462 2.277756 CGGTTCCCGTCGATCGAC 60.278 66.667 33.22 33.22 42.73 4.20
411 463 2.758089 CGGTTCCCGTCGATCGACT 61.758 63.158 37.12 0.00 42.73 4.18
432 562 6.466885 ACTGACTTGGAGCTATAACGTAAT 57.533 37.500 0.00 0.00 0.00 1.89
435 565 6.504398 TGACTTGGAGCTATAACGTAATGAG 58.496 40.000 0.00 0.00 0.00 2.90
461 591 0.392327 GCTCCTCCTCTGTTTCTGCC 60.392 60.000 0.00 0.00 0.00 4.85
470 600 3.748568 CCTCTGTTTCTGCCAGTTTAGTC 59.251 47.826 0.00 0.00 0.00 2.59
475 607 6.377146 TCTGTTTCTGCCAGTTTAGTCTTTTT 59.623 34.615 0.00 0.00 0.00 1.94
566 707 6.312426 CGGTGCCTCTATCTTGATGATTATTC 59.688 42.308 0.00 0.00 36.65 1.75
582 735 5.465390 TGATTATTCGCTGGTATTTTCGGAG 59.535 40.000 0.00 0.00 0.00 4.63
592 747 2.119484 ATTTTCGGAGCCACGACCCA 62.119 55.000 0.00 0.00 43.37 4.51
596 751 4.083862 GGAGCCACGACCCACTCC 62.084 72.222 0.00 0.00 41.81 3.85
601 756 0.822121 GCCACGACCCACTCCTTTTT 60.822 55.000 0.00 0.00 0.00 1.94
608 763 1.693606 ACCCACTCCTTTTTGCCATTG 59.306 47.619 0.00 0.00 0.00 2.82
615 770 4.875536 ACTCCTTTTTGCCATTGTTGTTTC 59.124 37.500 0.00 0.00 0.00 2.78
617 772 5.115480 TCCTTTTTGCCATTGTTGTTTCTC 58.885 37.500 0.00 0.00 0.00 2.87
620 775 6.093909 CCTTTTTGCCATTGTTGTTTCTCTTT 59.906 34.615 0.00 0.00 0.00 2.52
621 776 7.361971 CCTTTTTGCCATTGTTGTTTCTCTTTT 60.362 33.333 0.00 0.00 0.00 2.27
623 799 4.440880 TGCCATTGTTGTTTCTCTTTTGG 58.559 39.130 0.00 0.00 0.00 3.28
627 803 2.745968 TGTTGTTTCTCTTTTGGCCCT 58.254 42.857 0.00 0.00 0.00 5.19
663 840 3.610040 ATGGAGTCACGATACAAGCAA 57.390 42.857 0.00 0.00 0.00 3.91
674 851 4.328983 ACGATACAAGCAAATCAAGTACCG 59.671 41.667 0.00 0.00 0.00 4.02
705 1262 0.105142 ACATCCCTGTATAGGCCGGT 60.105 55.000 1.90 0.00 43.16 5.28
729 1292 2.932614 CAAAGACACCGCTCCATAGAAG 59.067 50.000 0.00 0.00 0.00 2.85
732 1295 1.476891 GACACCGCTCCATAGAAGTCA 59.523 52.381 0.00 0.00 0.00 3.41
733 1296 1.899814 ACACCGCTCCATAGAAGTCAA 59.100 47.619 0.00 0.00 0.00 3.18
741 1304 5.179368 CGCTCCATAGAAGTCAAAGTTTTCA 59.821 40.000 0.00 0.00 0.00 2.69
751 1314 4.402155 AGTCAAAGTTTTCACCATGCTTGA 59.598 37.500 0.22 0.00 0.00 3.02
804 1367 0.168348 AGTCACGTGAATCCTCGACG 59.832 55.000 21.95 0.00 39.03 5.12
819 1382 3.179830 CTCGACGGATTCTTGGTTACAG 58.820 50.000 0.00 0.00 0.00 2.74
867 1491 1.399440 CGGGTGACAATCTTCATGCAG 59.601 52.381 0.00 0.00 0.00 4.41
918 1550 4.334552 TCAAGCTAACATTGCATTCCTGA 58.665 39.130 0.00 0.00 0.00 3.86
933 1565 5.877012 GCATTCCTGAACTTGTTCATCTCTA 59.123 40.000 15.35 2.68 0.00 2.43
1128 1788 6.032985 GCACGCTAGATATTATGTCTTTCTCG 59.967 42.308 0.00 0.00 0.00 4.04
1166 1852 8.532186 AGATGCTATCTCTTTCTCACTCTAAA 57.468 34.615 0.00 0.00 33.42 1.85
1167 1853 8.976353 AGATGCTATCTCTTTCTCACTCTAAAA 58.024 33.333 0.00 0.00 33.42 1.52
1173 1859 7.361457 TCTCTTTCTCACTCTAAAACCTTCA 57.639 36.000 0.00 0.00 0.00 3.02
1175 1861 6.525629 TCTTTCTCACTCTAAAACCTTCAGG 58.474 40.000 0.00 0.00 42.17 3.86
1185 1871 4.607293 AAAACCTTCAGGCAAGATTTCC 57.393 40.909 0.00 0.00 39.32 3.13
1186 1872 1.826385 ACCTTCAGGCAAGATTTCCG 58.174 50.000 0.00 0.00 39.32 4.30
1187 1873 1.098050 CCTTCAGGCAAGATTTCCGG 58.902 55.000 0.00 0.00 33.29 5.14
1257 1950 2.892373 TTCTTAAAGGCGTGCATTCG 57.108 45.000 0.00 0.00 0.00 3.34
1401 2094 1.604308 CATCTGCAGTTGTGGGGCA 60.604 57.895 14.67 0.00 35.96 5.36
1404 2097 1.904865 CTGCAGTTGTGGGGCATGT 60.905 57.895 5.25 0.00 36.87 3.21
1500 2193 0.828022 TTCGCAACCCGATATCCTGT 59.172 50.000 0.00 0.00 46.81 4.00
1545 2267 9.020731 ACCAAGGAAAATATCGTCATTAAAACT 57.979 29.630 0.00 0.00 0.00 2.66
1590 2330 2.668212 GCGCTAAGTGGTGGTGCA 60.668 61.111 0.00 0.00 36.61 4.57
1777 2522 1.209128 CGGTGCTACTATTTCTGGCG 58.791 55.000 0.00 0.00 0.00 5.69
1816 2561 2.362077 TGAAGGCTCTGCAAAGAAAACC 59.638 45.455 0.00 0.00 0.00 3.27
1879 2624 2.356386 TCGCGACGTTTTTGTTTCTC 57.644 45.000 3.71 0.00 0.00 2.87
1906 2651 2.753966 CGCCCTTGATGTTGCCTCG 61.754 63.158 0.00 0.00 0.00 4.63
2170 2921 7.221067 TGTTTGTTACGGTTTCATTCAAATCAC 59.779 33.333 0.00 0.00 0.00 3.06
2314 3460 0.249280 TGTCGTCACTCATGTGCGTT 60.249 50.000 0.00 0.00 43.49 4.84
2455 3615 5.181622 GTCCAAATTACGGACCATTTACACA 59.818 40.000 13.65 0.00 46.12 3.72
2463 3623 2.292292 GGACCATTTACACAGTTGCGTT 59.708 45.455 0.00 0.00 0.00 4.84
2591 3754 1.136363 CATTGTGTACTTCGCACGGTG 60.136 52.381 3.15 3.15 39.53 4.94
2592 3755 0.179105 TTGTGTACTTCGCACGGTGT 60.179 50.000 10.24 0.00 39.53 4.16
2595 3758 0.931702 TGTACTTCGCACGGTGTTTG 59.068 50.000 10.24 0.60 0.00 2.93
2596 3759 0.932399 GTACTTCGCACGGTGTTTGT 59.068 50.000 10.24 6.70 0.00 2.83
2599 3762 0.931702 CTTCGCACGGTGTTTGTGTA 59.068 50.000 10.24 0.00 39.53 2.90
2641 3808 3.181497 GGCAGATTGACATGCACGTAAAT 60.181 43.478 0.00 0.00 44.37 1.40
2646 3813 6.037062 CAGATTGACATGCACGTAAATAAGGA 59.963 38.462 0.00 0.00 0.00 3.36
2722 3892 9.903682 TTATACTACTCCGATCCGAAATAAAAG 57.096 33.333 0.00 0.00 0.00 2.27
2776 3947 7.824704 AGTATGCATGCTATTCTAAATCGAG 57.175 36.000 20.33 0.00 0.00 4.04
2779 3950 5.368145 TGCATGCTATTCTAAATCGAGGTT 58.632 37.500 20.33 0.00 0.00 3.50
2967 4150 1.367346 TTGCTTGGAGTGGTATGGGA 58.633 50.000 0.00 0.00 0.00 4.37
2987 4170 4.067896 GGATTATGTAGACCCTGCATGTG 58.932 47.826 7.62 0.00 37.38 3.21
3009 4192 3.847671 TGTGGTGTCAAGTTGTATGGA 57.152 42.857 2.11 0.00 0.00 3.41
3013 4196 4.078537 TGGTGTCAAGTTGTATGGATTGG 58.921 43.478 2.11 0.00 0.00 3.16
3014 4197 4.079253 GGTGTCAAGTTGTATGGATTGGT 58.921 43.478 2.11 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.794439 TCGGTCGACATGCGCTGG 62.794 66.667 18.91 2.61 40.61 4.85
1 2 3.545481 GTCGGTCGACATGCGCTG 61.545 66.667 18.91 7.16 44.02 5.18
4 5 2.803670 AACGTCGGTCGACATGCG 60.804 61.111 18.91 18.65 44.77 4.73
5 6 1.076533 ATCAACGTCGGTCGACATGC 61.077 55.000 18.91 5.18 44.77 4.06
6 7 0.640262 CATCAACGTCGGTCGACATG 59.360 55.000 18.91 18.00 44.77 3.21
7 8 0.457853 CCATCAACGTCGGTCGACAT 60.458 55.000 18.91 5.30 44.77 3.06
8 9 1.081041 CCATCAACGTCGGTCGACA 60.081 57.895 18.91 4.32 44.77 4.35
9 10 0.179145 ATCCATCAACGTCGGTCGAC 60.179 55.000 7.13 7.13 42.86 4.20
10 11 0.179148 CATCCATCAACGTCGGTCGA 60.179 55.000 0.92 0.00 42.86 4.20
11 12 0.179148 TCATCCATCAACGTCGGTCG 60.179 55.000 0.00 0.00 46.00 4.79
12 13 1.659098 GTTCATCCATCAACGTCGGTC 59.341 52.381 0.00 0.00 0.00 4.79
13 14 1.674817 GGTTCATCCATCAACGTCGGT 60.675 52.381 0.00 0.00 35.97 4.69
14 15 1.006832 GGTTCATCCATCAACGTCGG 58.993 55.000 0.00 0.00 35.97 4.79
27 28 1.217244 GTAGGCACCGTCGGTTCAT 59.783 57.895 15.97 10.79 31.02 2.57
40 41 3.011760 GACAAGCACGCGTGTAGGC 62.012 63.158 36.80 25.71 38.65 3.93
121 123 7.274468 CAGACTTACATCAAAGTAGTACTGCAG 59.726 40.741 13.48 13.48 39.78 4.41
126 128 7.270793 CGTGACAGACTTACATCAAAGTAGTAC 59.729 40.741 0.00 0.00 39.78 2.73
127 129 7.303261 CGTGACAGACTTACATCAAAGTAGTA 58.697 38.462 0.00 0.00 39.78 1.82
128 130 6.150318 CGTGACAGACTTACATCAAAGTAGT 58.850 40.000 0.00 0.00 39.78 2.73
129 131 5.573282 CCGTGACAGACTTACATCAAAGTAG 59.427 44.000 0.00 0.00 39.78 2.57
130 132 5.242171 TCCGTGACAGACTTACATCAAAGTA 59.758 40.000 0.00 0.00 39.78 2.24
131 133 4.038763 TCCGTGACAGACTTACATCAAAGT 59.961 41.667 0.00 0.00 42.36 2.66
132 134 4.386049 GTCCGTGACAGACTTACATCAAAG 59.614 45.833 0.00 0.00 32.09 2.77
133 135 4.202172 TGTCCGTGACAGACTTACATCAAA 60.202 41.667 0.24 0.00 37.67 2.69
143 156 2.673833 CCTTACTTGTCCGTGACAGAC 58.326 52.381 6.79 0.00 43.69 3.51
189 202 0.249405 CAGAGCGAGAGGAGGAATGC 60.249 60.000 0.00 0.00 0.00 3.56
194 207 2.441901 AGGCAGAGCGAGAGGAGG 60.442 66.667 0.00 0.00 0.00 4.30
221 234 3.119065 TGGAACGGAAACCAAACCTTTTC 60.119 43.478 0.00 0.00 32.93 2.29
236 249 4.029809 GGGTGGGGAGTGGAACGG 62.030 72.222 0.00 0.00 45.86 4.44
261 274 2.941720 GAGATTAGTTGGAGCAGGCAAG 59.058 50.000 0.00 0.00 0.00 4.01
268 281 2.032620 TCGAGGGAGATTAGTTGGAGC 58.967 52.381 0.00 0.00 0.00 4.70
288 301 3.353836 AACGAAGCGCGGCAATGT 61.354 55.556 8.83 0.00 46.49 2.71
309 322 2.588856 GATAAACACGGCCGGGAGCT 62.589 60.000 38.56 20.00 43.05 4.09
310 323 2.124860 ATAAACACGGCCGGGAGC 60.125 61.111 38.56 0.00 42.60 4.70
314 366 1.988834 GCAAGGATAAACACGGCCGG 61.989 60.000 31.76 20.69 0.00 6.13
347 399 3.310774 CGAAGCCTACACCATGAATTGAG 59.689 47.826 0.00 0.00 0.00 3.02
350 402 3.270877 GTCGAAGCCTACACCATGAATT 58.729 45.455 0.00 0.00 0.00 2.17
369 421 2.053627 CAAATCAAGCAAGCAACCGTC 58.946 47.619 0.00 0.00 0.00 4.79
375 427 1.672898 GGCCCAAATCAAGCAAGCA 59.327 52.632 0.00 0.00 0.00 3.91
402 454 0.452184 GCTCCAAGTCAGTCGATCGA 59.548 55.000 15.15 15.15 0.00 3.59
403 455 0.453793 AGCTCCAAGTCAGTCGATCG 59.546 55.000 9.36 9.36 0.00 3.69
404 456 5.216648 GTTATAGCTCCAAGTCAGTCGATC 58.783 45.833 0.00 0.00 0.00 3.69
405 457 4.261238 CGTTATAGCTCCAAGTCAGTCGAT 60.261 45.833 0.00 0.00 0.00 3.59
410 462 6.504398 TCATTACGTTATAGCTCCAAGTCAG 58.496 40.000 0.00 0.00 0.00 3.51
411 463 6.096423 ACTCATTACGTTATAGCTCCAAGTCA 59.904 38.462 0.00 0.00 0.00 3.41
432 562 0.033601 GAGGAGGAGCAGAGGACTCA 60.034 60.000 1.75 0.00 35.79 3.41
435 565 0.324275 ACAGAGGAGGAGCAGAGGAC 60.324 60.000 0.00 0.00 0.00 3.85
475 607 1.226262 GGGCGCAGAAATCCCCTAA 59.774 57.895 10.83 0.00 34.59 2.69
476 608 2.915869 GGGCGCAGAAATCCCCTA 59.084 61.111 10.83 0.00 34.59 3.53
566 707 0.742990 TGGCTCCGAAAATACCAGCG 60.743 55.000 0.00 0.00 0.00 5.18
582 735 0.822121 AAAAAGGAGTGGGTCGTGGC 60.822 55.000 0.00 0.00 0.00 5.01
592 747 4.486125 AACAACAATGGCAAAAAGGAGT 57.514 36.364 0.00 0.00 0.00 3.85
596 751 6.667007 AAGAGAAACAACAATGGCAAAAAG 57.333 33.333 0.00 0.00 0.00 2.27
601 756 4.440880 CCAAAAGAGAAACAACAATGGCA 58.559 39.130 0.00 0.00 0.00 4.92
608 763 5.468540 AATAGGGCCAAAAGAGAAACAAC 57.531 39.130 6.18 0.00 0.00 3.32
615 770 8.010733 TCATAATGAAAATAGGGCCAAAAGAG 57.989 34.615 6.18 0.00 0.00 2.85
663 840 7.726216 TGTATGATCTCAATCGGTACTTGATT 58.274 34.615 7.72 7.72 36.52 2.57
674 851 8.420222 CCTATACAGGGATGTATGATCTCAATC 58.580 40.741 10.41 0.00 38.41 2.67
705 1262 2.851263 ATGGAGCGGTGTCTTTGTTA 57.149 45.000 0.00 0.00 0.00 2.41
729 1292 4.681744 TCAAGCATGGTGAAAACTTTGAC 58.318 39.130 0.00 0.00 0.00 3.18
732 1295 4.634199 CCATCAAGCATGGTGAAAACTTT 58.366 39.130 3.20 0.00 46.72 2.66
733 1296 4.261578 CCATCAAGCATGGTGAAAACTT 57.738 40.909 3.20 0.00 46.72 2.66
751 1314 1.715931 TGTCAAGAATTCCCACCCCAT 59.284 47.619 0.65 0.00 0.00 4.00
804 1367 3.421844 AGTTGCCTGTAACCAAGAATCC 58.578 45.455 0.00 0.00 0.00 3.01
867 1491 2.210711 CCGAGGATGGGCTACCTCC 61.211 68.421 15.25 1.77 46.87 4.30
888 1512 6.194796 TGCAATGTTAGCTTGAATAAGGTC 57.805 37.500 0.00 0.00 43.18 3.85
933 1565 4.965119 TGTCGCACGCATATAGATAGAT 57.035 40.909 0.00 0.00 0.00 1.98
1166 1852 2.162681 CGGAAATCTTGCCTGAAGGTT 58.837 47.619 0.00 0.00 36.48 3.50
1167 1853 1.614317 CCGGAAATCTTGCCTGAAGGT 60.614 52.381 0.00 0.00 37.57 3.50
1237 1928 2.550606 ACGAATGCACGCCTTTAAGAAA 59.449 40.909 0.00 0.00 36.70 2.52
1245 1938 1.796151 CATGAACGAATGCACGCCT 59.204 52.632 0.00 0.00 36.70 5.52
1257 1950 5.946298 TCTTGATGATGTTTCTGCATGAAC 58.054 37.500 0.00 5.61 33.88 3.18
1390 2083 1.852157 ATCCGACATGCCCCACAACT 61.852 55.000 0.00 0.00 0.00 3.16
1401 2094 1.424638 CCCCCTTAGTCATCCGACAT 58.575 55.000 0.00 0.00 45.23 3.06
1404 2097 1.764854 GGCCCCCTTAGTCATCCGA 60.765 63.158 0.00 0.00 0.00 4.55
1513 2207 6.654959 TGACGATATTTTCCTTGGTAATGGA 58.345 36.000 0.00 0.00 0.00 3.41
1519 2213 9.020731 AGTTTTAATGACGATATTTTCCTTGGT 57.979 29.630 0.00 0.00 0.00 3.67
1544 2266 8.663025 CATGCCACATAGACTAGCATTAATTAG 58.337 37.037 4.61 0.00 42.04 1.73
1545 2267 7.607607 CCATGCCACATAGACTAGCATTAATTA 59.392 37.037 4.61 0.00 42.04 1.40
1546 2268 6.432162 CCATGCCACATAGACTAGCATTAATT 59.568 38.462 4.61 0.00 42.04 1.40
1547 2269 5.942236 CCATGCCACATAGACTAGCATTAAT 59.058 40.000 4.61 0.00 42.04 1.40
1590 2330 8.980481 ACAATGAATTATAAAGTTCTCGGGAT 57.020 30.769 0.00 0.00 0.00 3.85
1759 2504 1.583054 CCGCCAGAAATAGTAGCACC 58.417 55.000 0.00 0.00 0.00 5.01
1777 2522 2.358372 AAATCCCAACATGGCGCCC 61.358 57.895 26.77 6.44 35.79 6.13
1789 2534 1.549203 TTGCAGAGCCTTCAAATCCC 58.451 50.000 0.00 0.00 0.00 3.85
1816 2561 2.614057 GACAATCCTAGCATTCCCAACG 59.386 50.000 0.00 0.00 0.00 4.10
1879 2624 1.449601 ATCAAGGGCGGCAACTACG 60.450 57.895 12.47 0.00 0.00 3.51
1933 2678 3.016736 ACTGCCAACATATGCTTGGTAC 58.983 45.455 25.11 16.26 40.46 3.34
2170 2921 8.844690 GCAGATAAACTTTTGAATTCTTTCTCG 58.155 33.333 7.05 0.57 32.78 4.04
2314 3460 5.344743 AAACTCTCTGATGGCGATAAGAA 57.655 39.130 0.00 0.00 0.00 2.52
2411 3571 8.877864 TTGGACACTTGGTTCAATAGATATTT 57.122 30.769 0.00 0.00 40.14 1.40
2455 3615 5.531287 AGATTTTAACAAGAGGAACGCAACT 59.469 36.000 0.00 0.00 0.00 3.16
2522 3683 2.277084 GATGGGGTACAAGTTACGCTG 58.723 52.381 0.00 0.00 0.00 5.18
2591 3754 0.310854 GCTGCACAGGGTACACAAAC 59.689 55.000 0.00 0.00 0.00 2.93
2592 3755 0.106967 TGCTGCACAGGGTACACAAA 60.107 50.000 0.00 0.00 0.00 2.83
2595 3758 0.817634 TTGTGCTGCACAGGGTACAC 60.818 55.000 31.27 4.93 45.39 2.90
2596 3759 0.534877 CTTGTGCTGCACAGGGTACA 60.535 55.000 30.38 17.38 45.39 2.90
2616 3782 1.730121 CGTGCATGTCAATCTGCCAAC 60.730 52.381 0.00 0.00 37.59 3.77
2688 3857 6.569801 CGGATCGGAGTAGTATAATTGCAAGA 60.570 42.308 4.94 0.00 0.00 3.02
2691 3860 4.763279 TCGGATCGGAGTAGTATAATTGCA 59.237 41.667 0.00 0.00 0.00 4.08
2756 3927 4.960938 ACCTCGATTTAGAATAGCATGCA 58.039 39.130 21.98 6.36 0.00 3.96
2809 3980 2.694628 AGGCACATTGAAAGAGCAAACA 59.305 40.909 0.00 0.00 0.00 2.83
2811 3982 4.405116 AAAGGCACATTGAAAGAGCAAA 57.595 36.364 0.00 0.00 0.00 3.68
2819 3990 4.524316 CCATCAGAAAAGGCACATTGAA 57.476 40.909 0.00 0.00 0.00 2.69
2868 4040 6.282167 TCACGAAGGAATAAAACTGTGTACA 58.718 36.000 0.00 0.00 0.00 2.90
2967 4150 4.778213 ACACATGCAGGGTCTACATAAT 57.222 40.909 2.31 0.00 0.00 1.28
2987 4170 3.880490 TCCATACAACTTGACACCACAAC 59.120 43.478 0.00 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.