Multiple sequence alignment - TraesCS1A01G398200

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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 TraesCS1A01G398200 chr1A 100.000 2846 0 0 1 2846 563610989 563608144 0.000000e+00 5256.0
1 TraesCS1A01G398200 chr1D 92.441 2368 126 19 1 2342 470045735 470043395 0.000000e+00 3332.0
2 TraesCS1A01G398200 chr1D 90.504 337 32 0 2510 2846 470036546 470036210 2.010000e-121 446.0
3 TraesCS1A01G398200 chr1D 93.258 178 12 0 2338 2515 470043337 470043160 2.170000e-66 263.0
4 TraesCS1A01G398200 chr1B 91.536 2351 160 16 7 2342 652303233 652300907 0.000000e+00 3203.0
5 TraesCS1A01G398200 chr1B 88.212 509 52 2 2338 2846 652300849 652300349 4.060000e-168 601.0
6 TraesCS1A01G398200 chr1B 79.452 146 22 5 60 204 549561243 549561381 2.330000e-16 97.1
7 TraesCS1A01G398200 chr1B 78.947 133 23 2 66 198 308616223 308616096 5.050000e-13 86.1
8 TraesCS1A01G398200 chr1B 82.796 93 12 1 63 155 49872266 49872354 2.350000e-11 80.5
9 TraesCS1A01G398200 chr7B 80.088 457 83 8 2393 2846 614663254 614662803 1.630000e-87 333.0
10 TraesCS1A01G398200 chr7A 79.825 456 82 10 2394 2846 650607882 650607434 9.830000e-85 324.0
11 TraesCS1A01G398200 chr7A 80.153 131 22 2 68 198 650405048 650405174 8.390000e-16 95.3
12 TraesCS1A01G398200 chr7A 78.261 138 22 5 63 198 543618442 543618573 6.530000e-12 82.4
13 TraesCS1A01G398200 chr6D 82.796 93 12 2 63 155 419772062 419772150 2.350000e-11 80.5
14 TraesCS1A01G398200 chr7D 77.206 136 27 1 63 198 626898967 626899098 3.040000e-10 76.8


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 TraesCS1A01G398200 chr1A 563608144 563610989 2845 True 5256.0 5256 100.0000 1 2846 1 chr1A.!!$R1 2845
1 TraesCS1A01G398200 chr1D 470043160 470045735 2575 True 1797.5 3332 92.8495 1 2515 2 chr1D.!!$R2 2514
2 TraesCS1A01G398200 chr1B 652300349 652303233 2884 True 1902.0 3203 89.8740 7 2846 2 chr1B.!!$R2 2839

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
248 249 0.250295 TCGTTGCTTCCTTGGGTCTG 60.250 55.0 0.00 0.00 0.0 3.51 F
443 447 0.943835 CATGTGAACTGTGGTCGCGA 60.944 55.0 3.71 3.71 0.0 5.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1726 1759 0.103572 GCTGGTGCCCAAATAGCATG 59.896 55.0 0.0 0.0 43.29 4.06 R
2298 2344 0.466555 GCCCACCAACAACACCACTA 60.467 55.0 0.0 0.0 0.00 2.74 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
43 44 2.112928 TGCTTTGCTCGGCCTTCA 59.887 55.556 0.00 0.00 0.00 3.02
205 206 7.546667 ACAAAAATTCCTCATGCATATGTGTTC 59.453 33.333 0.00 0.00 35.73 3.18
206 207 5.779529 AATTCCTCATGCATATGTGTTCC 57.220 39.130 0.00 0.00 35.73 3.62
234 235 0.512518 TTGCTCGCTTGACATCGTTG 59.487 50.000 0.00 0.00 0.00 4.10
241 242 1.537202 GCTTGACATCGTTGCTTCCTT 59.463 47.619 0.00 0.00 0.00 3.36
248 249 0.250295 TCGTTGCTTCCTTGGGTCTG 60.250 55.000 0.00 0.00 0.00 3.51
269 270 7.047271 GTCTGGATGCTCTCTCTTTTTCTTAT 58.953 38.462 0.00 0.00 0.00 1.73
278 279 9.958234 GCTCTCTCTTTTTCTTATTTTCTTTGT 57.042 29.630 0.00 0.00 0.00 2.83
314 316 4.191544 TGCCTATGTGACATTCTTAGCAC 58.808 43.478 2.29 0.00 0.00 4.40
315 317 4.080919 TGCCTATGTGACATTCTTAGCACT 60.081 41.667 2.29 0.00 32.69 4.40
319 321 7.436933 CCTATGTGACATTCTTAGCACTATGA 58.563 38.462 2.29 0.00 32.69 2.15
438 442 3.072330 TGACATACCATGTGAACTGTGGT 59.928 43.478 13.19 13.19 45.03 4.16
443 447 0.943835 CATGTGAACTGTGGTCGCGA 60.944 55.000 3.71 3.71 0.00 5.87
446 450 1.000052 TGTGAACTGTGGTCGCGAATA 60.000 47.619 12.06 0.00 0.00 1.75
452 456 1.860950 CTGTGGTCGCGAATAGATTGG 59.139 52.381 12.06 0.00 0.00 3.16
456 460 2.049228 GGTCGCGAATAGATTGGTACG 58.951 52.381 12.06 0.00 0.00 3.67
502 506 6.903516 TCCACAACCATCATCTTTATCATCT 58.096 36.000 0.00 0.00 0.00 2.90
507 511 7.439356 ACAACCATCATCTTTATCATCTACACG 59.561 37.037 0.00 0.00 0.00 4.49
521 525 2.734606 TCTACACGCGATTTCAACCAAG 59.265 45.455 15.93 0.00 0.00 3.61
548 552 3.785325 TCTTGGGATGGATGACAACCATA 59.215 43.478 16.55 0.00 46.48 2.74
612 616 0.950836 TTGTTGTCATTGCCGGAGTG 59.049 50.000 5.05 0.00 0.00 3.51
656 660 4.983671 GACAAGGTCCAATATTTGTCCC 57.016 45.455 8.96 0.00 42.06 4.46
748 752 3.572255 GTGGTTAAAGATTGCCAGTGGAA 59.428 43.478 15.20 0.00 0.00 3.53
759 763 3.509442 TGCCAGTGGAATTTGGAAGAAT 58.491 40.909 15.20 0.00 36.55 2.40
824 828 1.037030 CCGGTTTACATGGCTGGCAT 61.037 55.000 11.33 11.33 0.00 4.40
828 832 3.221771 GGTTTACATGGCTGGCATGATA 58.778 45.455 39.89 27.19 34.39 2.15
877 890 5.037015 TGAACACGCAACATTTACATACC 57.963 39.130 0.00 0.00 0.00 2.73
927 940 4.708177 CCACAACCACCATCTCCTATAAG 58.292 47.826 0.00 0.00 0.00 1.73
973 986 1.551883 GCAATCCATCAACCAAAGCCT 59.448 47.619 0.00 0.00 0.00 4.58
974 987 2.675889 GCAATCCATCAACCAAAGCCTG 60.676 50.000 0.00 0.00 0.00 4.85
1160 1183 2.095768 GTGCTCAGAAGTTATGCGCAAA 60.096 45.455 17.11 7.62 39.83 3.68
1164 1187 2.546368 TCAGAAGTTATGCGCAAACGTT 59.454 40.909 17.11 14.74 42.83 3.99
1203 1226 4.887615 GGCCTAAGCTGCCCTAAG 57.112 61.111 2.06 0.00 43.33 2.18
1205 1228 1.345715 GGCCTAAGCTGCCCTAAGGA 61.346 60.000 2.06 0.00 43.33 3.36
1401 1428 4.769688 TGGCGTTAGATGATCAGATTTGT 58.230 39.130 0.09 0.00 0.00 2.83
1419 1446 8.800972 CAGATTTGTCATGAATAATTTTCCACG 58.199 33.333 0.00 0.00 0.00 4.94
1526 1555 7.319646 TCCAAAACATCAAGCATATTGTAACC 58.680 34.615 0.00 0.00 0.00 2.85
1545 1574 3.688235 ACCGGGGAATTATTTGTTTCGA 58.312 40.909 6.32 0.00 0.00 3.71
1602 1631 3.005554 GACAGATGAACCAGACACCATG 58.994 50.000 0.00 0.00 0.00 3.66
1663 1692 2.790433 ACATGGTCAACGCAGGTAAAT 58.210 42.857 0.00 0.00 0.00 1.40
1709 1742 6.249035 TCCTGTAAACTAATTGAAAAGGCG 57.751 37.500 0.00 0.00 0.00 5.52
1715 1748 5.372547 AACTAATTGAAAAGGCGAGTTCC 57.627 39.130 0.00 0.00 0.00 3.62
1726 1759 2.000447 GGCGAGTTCCTGACACATAAC 59.000 52.381 0.00 0.00 0.00 1.89
1730 1763 3.062639 CGAGTTCCTGACACATAACATGC 59.937 47.826 0.00 0.00 0.00 4.06
1780 1813 7.099764 TGAAGAGATGAAACTCTATGTGGAAC 58.900 38.462 0.00 0.00 45.08 3.62
1782 1815 6.638610 AGAGATGAAACTCTATGTGGAACAG 58.361 40.000 0.00 0.00 44.42 3.16
1814 1847 3.664025 GCTTGTGTCAATTTCTGTAACGC 59.336 43.478 0.00 0.00 0.00 4.84
1954 1987 0.107214 AACCAGTGTGTCACCCTGTG 60.107 55.000 13.51 8.12 34.49 3.66
1993 2027 7.519032 TTCCATTCCTTGTTCGAATAAAAGT 57.481 32.000 8.73 0.00 0.00 2.66
2001 2035 7.390440 TCCTTGTTCGAATAAAAGTCATCATGT 59.610 33.333 8.73 0.00 0.00 3.21
2011 2045 3.308035 AGTCATCATGTTGGATGCCAT 57.692 42.857 3.98 0.00 43.44 4.40
2012 2046 2.956333 AGTCATCATGTTGGATGCCATG 59.044 45.455 3.98 0.00 43.44 3.66
2013 2047 2.691526 GTCATCATGTTGGATGCCATGT 59.308 45.455 3.98 0.00 43.44 3.21
2014 2048 3.131577 GTCATCATGTTGGATGCCATGTT 59.868 43.478 3.98 0.00 43.44 2.71
2015 2049 3.131400 TCATCATGTTGGATGCCATGTTG 59.869 43.478 3.98 7.66 43.44 3.33
2016 2050 1.205179 TCATGTTGGATGCCATGTTGC 59.795 47.619 3.98 0.00 39.53 4.17
2017 2051 1.066787 CATGTTGGATGCCATGTTGCA 60.067 47.619 0.00 0.00 46.94 4.08
2081 2115 9.806448 AATGGTATATGTTGTATCATTTGCCTA 57.194 29.630 0.00 0.00 30.70 3.93
2154 2188 2.358737 CGTCGGCTCAAAGGGCTT 60.359 61.111 0.00 0.00 0.00 4.35
2159 2193 1.559682 TCGGCTCAAAGGGCTTAGATT 59.440 47.619 0.00 0.00 0.00 2.40
2216 2250 1.229529 ACCTCTTGGGGTCGGTGAT 60.230 57.895 0.00 0.00 40.03 3.06
2298 2344 2.509336 GCGTGCGAGTGGTAGCAT 60.509 61.111 0.00 0.00 45.69 3.79
2343 2389 4.072088 CGTGCTTTGGTCGCGGAC 62.072 66.667 6.13 2.87 34.22 4.79
2381 2489 1.423584 TGTGGCTTCAAGAGTCCTCA 58.576 50.000 0.00 0.00 0.00 3.86
2444 2552 1.228521 CATGGTGTTGTGGAGGCCA 60.229 57.895 5.01 0.00 0.00 5.36
2501 2609 3.203086 TTGATGTTCGCAGGGGCCA 62.203 57.895 4.39 0.00 36.38 5.36
2518 2626 0.183731 CCAGGCCCTTACCTTGGATC 59.816 60.000 0.00 0.00 38.26 3.36
2527 2635 1.204146 TACCTTGGATCAGAGGTGGC 58.796 55.000 22.70 0.00 45.57 5.01
2537 2645 0.531532 CAGAGGTGGCGAGGCATAAG 60.532 60.000 1.94 0.00 0.00 1.73
2568 2676 0.106149 AAGCCTCGTTCTTTGTCGGT 59.894 50.000 0.00 0.00 0.00 4.69
2578 2686 2.424576 CTTTGTCGGTGGTCGTTGCG 62.425 60.000 0.00 0.00 40.32 4.85
2579 2687 4.953868 TGTCGGTGGTCGTTGCGG 62.954 66.667 0.00 0.00 40.32 5.69
2590 2698 2.258286 GTTGCGGGTGATGTTGGC 59.742 61.111 0.00 0.00 0.00 4.52
2612 2720 2.444895 ATGGGCGTCCTCCTCCTC 60.445 66.667 7.97 0.00 0.00 3.71
2613 2721 3.015332 ATGGGCGTCCTCCTCCTCT 62.015 63.158 7.97 0.00 0.00 3.69
2614 2722 2.364448 GGGCGTCCTCCTCCTCTT 60.364 66.667 0.00 0.00 0.00 2.85
2615 2723 2.726351 GGGCGTCCTCCTCCTCTTG 61.726 68.421 0.00 0.00 0.00 3.02
2616 2724 2.726351 GGCGTCCTCCTCCTCTTGG 61.726 68.421 0.00 0.00 0.00 3.61
2617 2725 1.682684 GCGTCCTCCTCCTCTTGGA 60.683 63.158 0.00 0.00 40.69 3.53
2667 2775 1.758440 ATATGTGGCTGGTCGGCGAT 61.758 55.000 14.79 0.00 42.02 4.58
2674 2782 2.994995 TGGTCGGCGATGAGTGGT 60.995 61.111 14.79 0.00 0.00 4.16
2681 2789 0.039074 GGCGATGAGTGGTATCGGAG 60.039 60.000 9.10 0.00 45.50 4.63
2682 2790 0.039074 GCGATGAGTGGTATCGGAGG 60.039 60.000 9.10 0.00 45.50 4.30
2711 2819 5.045359 TGGCTAGGATTGATCTATCCCAATG 60.045 44.000 26.48 16.99 44.34 2.82
2737 2845 2.183300 GACGGTCATGCGCAGGTA 59.817 61.111 22.69 6.01 0.00 3.08
2739 2847 1.490693 GACGGTCATGCGCAGGTATG 61.491 60.000 22.69 12.38 37.58 2.39
2762 2870 2.111756 CGAAAGCTTATTGATTGGCGC 58.888 47.619 0.00 0.00 0.00 6.53
2767 2875 0.307760 CTTATTGATTGGCGCGGGTC 59.692 55.000 8.83 0.00 0.00 4.46
2801 2909 1.745489 GGTGTCCTCGGGCATTGTC 60.745 63.158 0.00 0.00 0.00 3.18
2821 2929 4.099573 TGTCTTTCCTTCTTGAAGTCGTCT 59.900 41.667 9.21 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 2.348472 TGGTGGATCCAGAAACCTCTT 58.652 47.619 16.81 0.00 41.93 2.85
170 171 6.616260 GCATGAGGAATTTTTGTTGCTAAACG 60.616 38.462 0.00 0.00 39.30 3.60
234 235 1.034292 GCATCCAGACCCAAGGAAGC 61.034 60.000 0.00 0.00 40.80 3.86
241 242 0.337773 AGAGAGAGCATCCAGACCCA 59.662 55.000 0.00 0.00 33.66 4.51
248 249 8.955388 AGAAAATAAGAAAAAGAGAGAGCATCC 58.045 33.333 0.00 0.00 33.66 3.51
269 270 7.117092 GGCAACAAGTTGAAGTAACAAAGAAAA 59.883 33.333 16.54 0.00 42.93 2.29
278 279 6.017440 GTCACATAGGCAACAAGTTGAAGTAA 60.017 38.462 16.54 0.00 42.93 2.24
282 283 4.203226 TGTCACATAGGCAACAAGTTGAA 58.797 39.130 16.54 1.89 42.93 2.69
290 291 4.635765 TGCTAAGAATGTCACATAGGCAAC 59.364 41.667 0.00 0.00 34.09 4.17
314 316 2.031437 GGCTTTTCTCAGCGCTTCATAG 59.969 50.000 7.50 3.00 41.12 2.23
315 317 2.009774 GGCTTTTCTCAGCGCTTCATA 58.990 47.619 7.50 0.00 41.12 2.15
319 321 2.185004 TTAGGCTTTTCTCAGCGCTT 57.815 45.000 7.50 0.00 41.12 4.68
347 349 3.371285 GGCAGTTAGCTAGTTCTTTTCCG 59.629 47.826 0.00 0.00 44.79 4.30
351 353 5.828328 ACTTTTGGCAGTTAGCTAGTTCTTT 59.172 36.000 0.00 0.00 44.79 2.52
438 442 3.181498 TGTTCGTACCAATCTATTCGCGA 60.181 43.478 3.71 3.71 0.00 5.87
456 460 0.041312 ACGTGCAAGCGAACATGTTC 60.041 50.000 25.68 25.68 32.12 3.18
502 506 2.485903 ACTTGGTTGAAATCGCGTGTA 58.514 42.857 5.77 0.00 0.00 2.90
507 511 4.489679 AGAGAAACTTGGTTGAAATCGC 57.510 40.909 0.00 0.00 0.00 4.58
521 525 3.955471 TGTCATCCATCCCAAGAGAAAC 58.045 45.455 0.00 0.00 0.00 2.78
621 625 1.613836 CTTGTCCTTCTTGCCTTGCT 58.386 50.000 0.00 0.00 0.00 3.91
674 678 7.611467 AGTTGCATATCACTCCTTAAACATGAA 59.389 33.333 0.00 0.00 0.00 2.57
707 711 1.130955 CACGCAACAGCAACAAATCC 58.869 50.000 0.00 0.00 0.00 3.01
715 719 1.064803 CTTTAACCACACGCAACAGCA 59.935 47.619 0.00 0.00 0.00 4.41
748 752 4.726825 TGGAGGGCTACTATTCTTCCAAAT 59.273 41.667 0.00 0.00 0.00 2.32
759 763 2.565834 GAGTGTGTTTGGAGGGCTACTA 59.434 50.000 0.00 0.00 0.00 1.82
852 865 4.560136 TGTAAATGTTGCGTGTTCATGT 57.440 36.364 0.00 0.00 0.00 3.21
877 890 2.095768 GGATGTTCACGTGATGGTTGTG 60.096 50.000 20.80 0.00 34.96 3.33
927 940 1.346068 CTAGGCTTGGATGGCTCCTAC 59.654 57.143 0.00 0.00 42.59 3.18
973 986 2.703416 CAGGCTATCTTGCAGAACACA 58.297 47.619 0.00 0.00 34.04 3.72
974 987 1.399791 GCAGGCTATCTTGCAGAACAC 59.600 52.381 0.00 0.00 34.04 3.32
1094 1117 2.569404 CAGTTTCTTCCTAGGGTGCTCT 59.431 50.000 9.46 0.00 0.00 4.09
1104 1127 4.439253 AAGGTTGTAGCAGTTTCTTCCT 57.561 40.909 0.00 0.00 0.00 3.36
1160 1183 2.353579 GTGAGTTTACACCTGCAAACGT 59.646 45.455 0.00 0.00 39.18 3.99
1164 1187 3.376859 CACTTGTGAGTTTACACCTGCAA 59.623 43.478 0.00 0.00 39.69 4.08
1167 1190 2.290641 GCCACTTGTGAGTTTACACCTG 59.709 50.000 1.89 0.00 39.69 4.00
1203 1226 4.017126 CAAGGACCAATTTAGGGAAGTCC 58.983 47.826 0.00 0.00 43.33 3.85
1205 1228 4.354087 ACTCAAGGACCAATTTAGGGAAGT 59.646 41.667 0.00 0.00 0.00 3.01
1357 1384 9.599322 CGCCATCTAACATATTCAAAATACTTC 57.401 33.333 0.00 0.00 0.00 3.01
1526 1555 5.049398 TGTTCGAAACAAATAATTCCCCG 57.951 39.130 0.00 0.00 38.72 5.73
1545 1574 8.732746 ATCTAGCGTGTAAATAAAATCCTGTT 57.267 30.769 0.00 0.00 0.00 3.16
1602 1631 2.290323 ACATCCCAAGTTGCAGTACTCC 60.290 50.000 0.00 0.00 0.00 3.85
1633 1662 3.551890 GCGTTGACCATGTAGTCACATAG 59.448 47.826 4.49 0.00 46.18 2.23
1635 1664 2.289382 TGCGTTGACCATGTAGTCACAT 60.289 45.455 4.49 0.00 46.18 3.21
1709 1742 4.256920 AGCATGTTATGTGTCAGGAACTC 58.743 43.478 0.00 0.00 34.60 3.01
1715 1748 5.734220 GCCCAAATAGCATGTTATGTGTCAG 60.734 44.000 16.06 7.72 0.00 3.51
1726 1759 0.103572 GCTGGTGCCCAAATAGCATG 59.896 55.000 0.00 0.00 43.29 4.06
1780 1813 1.265095 GACACAAGCATCACCACACTG 59.735 52.381 0.00 0.00 0.00 3.66
1782 1815 1.308047 TGACACAAGCATCACCACAC 58.692 50.000 0.00 0.00 0.00 3.82
1814 1847 0.818445 GGATGTGAGGCCAGCATCAG 60.818 60.000 25.19 0.00 40.35 2.90
1954 1987 7.391148 AGGAATGGAAATACACACACATAAC 57.609 36.000 0.00 0.00 0.00 1.89
1993 2027 3.021177 ACATGGCATCCAACATGATGA 57.979 42.857 11.17 0.00 45.55 2.92
2016 2050 0.892755 ACATCAGGGCAGCAACAATG 59.107 50.000 0.00 0.00 0.00 2.82
2017 2051 2.094675 GTACATCAGGGCAGCAACAAT 58.905 47.619 0.00 0.00 0.00 2.71
2018 2052 1.073763 AGTACATCAGGGCAGCAACAA 59.926 47.619 0.00 0.00 0.00 2.83
2139 2173 1.204146 ATCTAAGCCCTTTGAGCCGA 58.796 50.000 0.00 0.00 0.00 5.54
2249 2283 2.278596 CCCATCGCCACGTCTACG 60.279 66.667 0.04 0.04 46.33 3.51
2250 2284 1.518572 CACCCATCGCCACGTCTAC 60.519 63.158 0.00 0.00 0.00 2.59
2251 2285 1.980232 ACACCCATCGCCACGTCTA 60.980 57.895 0.00 0.00 0.00 2.59
2252 2286 3.311110 ACACCCATCGCCACGTCT 61.311 61.111 0.00 0.00 0.00 4.18
2253 2287 3.118454 CACACCCATCGCCACGTC 61.118 66.667 0.00 0.00 0.00 4.34
2254 2288 4.697756 CCACACCCATCGCCACGT 62.698 66.667 0.00 0.00 0.00 4.49
2257 2291 4.720902 CTGCCACACCCATCGCCA 62.721 66.667 0.00 0.00 0.00 5.69
2298 2344 0.466555 GCCCACCAACAACACCACTA 60.467 55.000 0.00 0.00 0.00 2.74
2350 2458 1.401318 AAGCCACAATGCAGCAACCA 61.401 50.000 0.00 0.00 0.00 3.67
2381 2489 1.906574 CACCACCACCACCACTACTAT 59.093 52.381 0.00 0.00 0.00 2.12
2404 2512 1.821332 GGCTGCCTGCATAGGTGTC 60.821 63.158 12.43 0.00 46.41 3.67
2501 2609 1.216990 CTGATCCAAGGTAAGGGCCT 58.783 55.000 0.00 0.00 41.41 5.19
2507 2615 1.559682 GCCACCTCTGATCCAAGGTAA 59.440 52.381 14.05 0.00 44.13 2.85
2518 2626 0.531532 CTTATGCCTCGCCACCTCTG 60.532 60.000 0.00 0.00 0.00 3.35
2524 2632 0.461548 CAGAGTCTTATGCCTCGCCA 59.538 55.000 0.00 0.00 32.88 5.69
2527 2635 0.249657 GCCCAGAGTCTTATGCCTCG 60.250 60.000 0.00 0.00 32.88 4.63
2555 2663 0.872881 ACGACCACCGACAAAGAACG 60.873 55.000 0.00 0.00 41.76 3.95
2562 2670 4.953868 CCGCAACGACCACCGACA 62.954 66.667 0.00 0.00 41.76 4.35
2568 2676 2.358125 CATCACCCGCAACGACCA 60.358 61.111 0.00 0.00 0.00 4.02
2579 2687 2.755469 ATGGGCGCCAACATCACC 60.755 61.111 30.85 8.62 36.95 4.02
2612 2720 7.033530 AGTACTCTTCGACAATATCTCCAAG 57.966 40.000 0.00 0.00 0.00 3.61
2613 2721 7.406031 AAGTACTCTTCGACAATATCTCCAA 57.594 36.000 0.00 0.00 0.00 3.53
2614 2722 7.028926 GAAGTACTCTTCGACAATATCTCCA 57.971 40.000 0.00 0.00 40.24 3.86
2644 2752 0.465705 CCGACCAGCCACATATCAGT 59.534 55.000 0.00 0.00 0.00 3.41
2647 2755 1.956170 CGCCGACCAGCCACATATC 60.956 63.158 0.00 0.00 0.00 1.63
2650 2758 3.785859 ATCGCCGACCAGCCACAT 61.786 61.111 0.00 0.00 0.00 3.21
2655 2763 2.887568 CACTCATCGCCGACCAGC 60.888 66.667 0.00 0.00 0.00 4.85
2667 2775 2.447408 TTAGCCTCCGATACCACTCA 57.553 50.000 0.00 0.00 0.00 3.41
2674 2782 2.042569 TCCTAGCCATTAGCCTCCGATA 59.957 50.000 0.00 0.00 45.47 2.92
2681 2789 4.566426 AGATCAATCCTAGCCATTAGCC 57.434 45.455 0.00 0.00 45.47 3.93
2682 2790 6.287525 GGATAGATCAATCCTAGCCATTAGC 58.712 44.000 0.00 0.00 41.13 3.09
2711 2819 1.875963 CATGACCGTCCTGCCAAAC 59.124 57.895 0.00 0.00 0.00 2.93
2718 2826 4.457496 CCTGCGCATGACCGTCCT 62.457 66.667 12.24 0.00 0.00 3.85
2721 2829 1.521457 CATACCTGCGCATGACCGT 60.521 57.895 19.95 9.24 0.00 4.83
2731 2839 0.804989 AAGCTTTCGCACATACCTGC 59.195 50.000 0.00 0.00 39.10 4.85
2732 2840 4.332543 TCAATAAGCTTTCGCACATACCTG 59.667 41.667 3.20 0.00 39.10 4.00
2733 2841 4.513442 TCAATAAGCTTTCGCACATACCT 58.487 39.130 3.20 0.00 39.10 3.08
2737 2845 4.675510 CCAATCAATAAGCTTTCGCACAT 58.324 39.130 3.20 0.00 39.10 3.21
2739 2847 2.854185 GCCAATCAATAAGCTTTCGCAC 59.146 45.455 3.20 0.00 39.10 5.34
2781 2889 4.778143 AATGCCCGAGGACACCGC 62.778 66.667 0.00 0.00 0.00 5.68
2785 2893 0.400213 AAAGACAATGCCCGAGGACA 59.600 50.000 0.00 0.00 0.00 4.02
2788 2896 0.035056 AGGAAAGACAATGCCCGAGG 60.035 55.000 0.00 0.00 0.00 4.63
2821 2929 5.932303 AGCGATAGTAAGCAAGTTCTTTGAA 59.068 36.000 4.19 0.00 37.42 2.69


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

AutoCloner maintained by Alex Coulton.