Multiple sequence alignment - TraesCS5D01G017500

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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 TraesCS5D01G017500 chr5D 100.000 3016 0 0 1 3016 10041382 10044397 0.000000e+00 5570.0
1 TraesCS5D01G017500 chr5D 88.032 1880 174 25 904 2756 10067576 10069431 0.000000e+00 2178.0
2 TraesCS5D01G017500 chr5D 84.008 519 68 8 20 529 10066509 10067021 4.520000e-133 484.0
3 TraesCS5D01G017500 chr5D 92.237 219 16 1 594 812 10067337 10067554 2.920000e-80 309.0
4 TraesCS5D01G017500 chr5A 89.031 2416 188 41 627 3013 8062826 8065193 0.000000e+00 2922.0
5 TraesCS5D01G017500 chr5A 85.892 1765 191 34 1022 2756 8112494 8114230 0.000000e+00 1827.0
6 TraesCS5D01G017500 chr5A 85.981 1234 137 19 1532 2756 8074316 8075522 0.000000e+00 1288.0
7 TraesCS5D01G017500 chr5A 90.363 633 51 8 904 1530 8073646 8074274 0.000000e+00 822.0
8 TraesCS5D01G017500 chr5A 85.448 591 49 13 210 792 8089875 8090436 5.600000e-162 580.0
9 TraesCS5D01G017500 chr5A 95.050 202 8 2 792 992 8112300 8112500 1.750000e-82 316.0
10 TraesCS5D01G017500 chr5A 87.594 266 22 9 2 258 8062561 8062824 6.320000e-77 298.0
11 TraesCS5D01G017500 chr5A 90.135 223 21 1 594 816 8073405 8073626 3.800000e-74 289.0
12 TraesCS5D01G017500 chr5B 89.009 2211 182 31 836 3014 42155279 42153098 0.000000e+00 2680.0
13 TraesCS5D01G017500 chr5B 88.004 2259 204 40 594 2809 10170544 10168310 0.000000e+00 2608.0
14 TraesCS5D01G017500 chr5B 87.703 1968 142 53 338 2227 10264819 10262874 0.000000e+00 2202.0
15 TraesCS5D01G017500 chr5B 86.086 654 51 18 2382 3014 10262398 10261764 0.000000e+00 667.0
16 TraesCS5D01G017500 chr5B 87.195 164 17 4 1 161 10264978 10264816 1.850000e-42 183.0
17 TraesCS5D01G017500 chr5B 94.318 88 2 2 29 113 42155631 42155544 6.780000e-27 132.0
18 TraesCS5D01G017500 chr1B 78.215 381 65 8 277 643 674604380 674604004 8.410000e-56 228.0
19 TraesCS5D01G017500 chr1B 94.286 35 2 0 2761 2795 171216996 171217030 2.000000e-03 54.7
20 TraesCS5D01G017500 chr6B 88.889 135 15 0 2622 2756 35816452 35816586 1.860000e-37 167.0
21 TraesCS5D01G017500 chr3A 92.241 116 9 0 2637 2752 69385328 69385213 6.690000e-37 165.0


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 TraesCS5D01G017500 chr5D 10041382 10044397 3015 False 5570.000000 5570 100.000000 1 3016 1 chr5D.!!$F1 3015
1 TraesCS5D01G017500 chr5D 10066509 10069431 2922 False 990.333333 2178 88.092333 20 2756 3 chr5D.!!$F2 2736
2 TraesCS5D01G017500 chr5A 8062561 8065193 2632 False 1610.000000 2922 88.312500 2 3013 2 chr5A.!!$F2 3011
3 TraesCS5D01G017500 chr5A 8112300 8114230 1930 False 1071.500000 1827 90.471000 792 2756 2 chr5A.!!$F4 1964
4 TraesCS5D01G017500 chr5A 8073405 8075522 2117 False 799.666667 1288 88.826333 594 2756 3 chr5A.!!$F3 2162
5 TraesCS5D01G017500 chr5A 8089875 8090436 561 False 580.000000 580 85.448000 210 792 1 chr5A.!!$F1 582
6 TraesCS5D01G017500 chr5B 10168310 10170544 2234 True 2608.000000 2608 88.004000 594 2809 1 chr5B.!!$R1 2215
7 TraesCS5D01G017500 chr5B 42153098 42155631 2533 True 1406.000000 2680 91.663500 29 3014 2 chr5B.!!$R3 2985
8 TraesCS5D01G017500 chr5B 10261764 10264978 3214 True 1017.333333 2202 86.994667 1 3014 3 chr5B.!!$R2 3013

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
387 405 0.036671 TAGAGTCGTCGGACAGCAGA 60.037 55.000 9.10 0.0 45.92 4.26 F
487 519 1.002430 TCCTCTTTTCTGCAGCACGAT 59.998 47.619 9.47 0.0 0.00 3.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1403 1798 0.463833 CGCTTGGCCCCCTTAGTTAG 60.464 60.0 0.0 0.0 0.00 2.34 R
2145 2607 1.112916 TCACGACTTGAGTGGAGCCA 61.113 55.0 0.0 0.0 39.86 4.75 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
46 47 3.087065 CCCCGGGAGATTGGTTGT 58.913 61.111 26.32 0.00 0.00 3.32
120 124 7.546358 TGATTATTTGCTGATTTTAGTGTGGG 58.454 34.615 0.00 0.00 0.00 4.61
187 198 6.707440 TTTTTCATCAAAGAGGCTACACAA 57.293 33.333 0.00 0.00 0.00 3.33
203 214 5.394115 GCTACACAACCCCCATTTTCATTAG 60.394 44.000 0.00 0.00 0.00 1.73
204 215 4.488770 ACACAACCCCCATTTTCATTAGT 58.511 39.130 0.00 0.00 0.00 2.24
229 241 1.269166 GGAGTCACGATACAAGCACG 58.731 55.000 0.00 0.00 0.00 5.34
230 242 1.269166 GAGTCACGATACAAGCACGG 58.731 55.000 0.00 0.00 0.00 4.94
242 254 0.676782 AAGCACGGCAAGTACCCATC 60.677 55.000 0.00 0.00 0.00 3.51
263 276 7.733955 CCCATCAGATCATACATCCCTAGATAT 59.266 40.741 0.00 0.00 0.00 1.63
292 310 0.687757 TCTAAGGGATGCCAGCGACT 60.688 55.000 5.86 0.00 0.00 4.18
298 316 1.605712 GGGATGCCAGCGACTACATAC 60.606 57.143 0.00 0.00 0.00 2.39
303 321 1.269309 GCCAGCGACTACATACTCCAG 60.269 57.143 0.00 0.00 0.00 3.86
317 335 3.963428 ACTCCAGACTACCACATGAAC 57.037 47.619 0.00 0.00 0.00 3.18
319 337 2.567169 CTCCAGACTACCACATGAACCA 59.433 50.000 0.00 0.00 0.00 3.67
330 348 3.446799 CACATGAACCAACCAAACACAG 58.553 45.455 0.00 0.00 0.00 3.66
341 359 5.392380 CCAACCAAACACAGCTATCATCTTC 60.392 44.000 0.00 0.00 0.00 2.87
387 405 0.036671 TAGAGTCGTCGGACAGCAGA 60.037 55.000 9.10 0.00 45.92 4.26
458 480 9.561069 AGTCTTTTAGAAATCTCACTAAGCAAA 57.439 29.630 0.00 0.00 31.66 3.68
469 491 4.638304 TCACTAAGCAAACCTTGTAGTCC 58.362 43.478 0.00 0.00 34.95 3.85
487 519 1.002430 TCCTCTTTTCTGCAGCACGAT 59.998 47.619 9.47 0.00 0.00 3.73
503 535 3.546815 GCACGATCCATGATTACAGCAAC 60.547 47.826 0.00 0.00 0.00 4.17
509 541 4.068599 TCCATGATTACAGCAACGAACAA 58.931 39.130 0.00 0.00 0.00 2.83
568 875 8.764287 CAATACACTTTGAAATCCTTGTTTTCC 58.236 33.333 0.00 0.00 33.15 3.13
578 885 8.654997 TGAAATCCTTGTTTTCCAAATAATCCA 58.345 29.630 0.00 0.00 33.15 3.41
582 889 7.449247 TCCTTGTTTTCCAAATAATCCAAAGG 58.551 34.615 0.00 0.00 31.20 3.11
587 894 7.443879 TGTTTTCCAAATAATCCAAAGGAAAGC 59.556 33.333 10.39 10.39 43.54 3.51
598 905 3.056328 GGAAAGCGGCAGGACCAC 61.056 66.667 1.45 0.00 39.03 4.16
609 916 1.798813 GCAGGACCACTAGAAACAACG 59.201 52.381 0.00 0.00 0.00 4.10
658 966 1.837439 ACAAAGACACCACTCCACAGA 59.163 47.619 0.00 0.00 0.00 3.41
659 967 2.238646 ACAAAGACACCACTCCACAGAA 59.761 45.455 0.00 0.00 0.00 3.02
660 968 2.614057 CAAAGACACCACTCCACAGAAC 59.386 50.000 0.00 0.00 0.00 3.01
661 969 1.794714 AGACACCACTCCACAGAACT 58.205 50.000 0.00 0.00 0.00 3.01
662 970 1.689273 AGACACCACTCCACAGAACTC 59.311 52.381 0.00 0.00 0.00 3.01
663 971 1.412710 GACACCACTCCACAGAACTCA 59.587 52.381 0.00 0.00 0.00 3.41
674 987 4.698304 TCCACAGAACTCAAAAGTTTTCGT 59.302 37.500 0.00 0.00 45.80 3.85
676 989 4.723862 CACAGAACTCAAAAGTTTTCGTCG 59.276 41.667 0.00 0.00 45.80 5.12
705 1018 1.075536 GGGGTGGGAATTCTTGACACT 59.924 52.381 5.23 0.00 32.88 3.55
725 1038 2.046988 TCCACTCGGAGTCGCGTA 60.047 61.111 7.89 0.00 35.91 4.42
972 1329 5.095490 GTGGCAATGCACTATTTAACTCAC 58.905 41.667 7.79 0.00 0.00 3.51
983 1340 2.961526 TTAACTCACCTGCTCCGATC 57.038 50.000 0.00 0.00 0.00 3.69
999 1356 4.075682 TCCGATCAGTAGTGAGATCATCC 58.924 47.826 6.39 0.00 40.45 3.51
1065 1422 3.065648 TGATGACGATCGTGTTCGGAATA 59.934 43.478 28.12 2.92 43.33 1.75
1122 1481 7.649705 ACACATCACACGAGATATTATGTCTTC 59.350 37.037 0.00 0.00 0.00 2.87
1159 1544 5.010516 TGCTAGATGCTATCTCTTTCTCACC 59.989 44.000 0.00 0.00 43.37 4.02
1178 1565 1.668419 CCTAACCTTCGGCCAAGATG 58.332 55.000 14.33 2.30 33.29 2.90
1180 1567 2.169769 CCTAACCTTCGGCCAAGATGTA 59.830 50.000 14.33 5.01 33.29 2.29
1182 1569 2.109425 ACCTTCGGCCAAGATGTAAC 57.891 50.000 14.33 0.00 33.29 2.50
1297 1692 1.476891 GACCATGGCGAGTTCTCTACA 59.523 52.381 13.04 0.00 0.00 2.74
1376 1771 1.300971 GCAGATTCTTGCCAGCGTGA 61.301 55.000 0.00 0.00 38.13 4.35
1512 1911 1.728971 CACCTGCTTTCTGTCGCTAAG 59.271 52.381 0.00 0.00 0.00 2.18
1524 1923 4.630069 TCTGTCGCTAAGCAAGGAAAATAC 59.370 41.667 0.00 0.00 0.00 1.89
1574 2029 0.327924 CATGGTGCCCTAAGTGGTGA 59.672 55.000 0.00 0.00 0.00 4.02
1575 2030 1.072266 ATGGTGCCCTAAGTGGTGAA 58.928 50.000 0.00 0.00 0.00 3.18
1588 2043 2.125106 GTGAAGCGGCCCGAGAAT 60.125 61.111 7.68 0.00 0.00 2.40
1709 2165 9.095065 GTTGTATAATTAATATGGCCTCTACCG 57.905 37.037 3.32 0.00 0.00 4.02
1711 2167 2.736144 TTAATATGGCCTCTACCGCG 57.264 50.000 3.32 0.00 0.00 6.46
1712 2168 1.624336 TAATATGGCCTCTACCGCGT 58.376 50.000 3.32 0.00 0.00 6.01
1713 2169 0.033504 AATATGGCCTCTACCGCGTG 59.966 55.000 3.32 0.00 0.00 5.34
1714 2170 1.113517 ATATGGCCTCTACCGCGTGT 61.114 55.000 3.32 5.32 0.00 4.49
1715 2171 2.011741 TATGGCCTCTACCGCGTGTG 62.012 60.000 3.32 0.00 0.00 3.82
1721 2177 1.275471 CTCTACCGCGTGTGTGTGTG 61.275 60.000 4.92 0.00 0.00 3.82
1757 2213 1.260825 CTTGCGATCATAGCAGTGCTG 59.739 52.381 27.97 13.01 46.01 4.41
1808 2264 3.023119 TGAAGGCTCTGCAAAGAAAACA 58.977 40.909 0.00 0.00 0.00 2.83
2023 2485 4.700213 GCCAAATCAAGTCTAAGGTTAGCA 59.300 41.667 0.00 0.00 0.00 3.49
2029 2491 2.541466 AGTCTAAGGTTAGCACTGCCT 58.459 47.619 0.00 0.00 0.00 4.75
2070 2532 2.256117 CTTCCAAAGGAGGAACACGT 57.744 50.000 0.00 0.00 42.56 4.49
2115 2577 1.820581 GTAGGCTACGACCCATGCA 59.179 57.895 9.23 0.00 0.00 3.96
2145 2607 4.486090 TGCGTGTTTTGTGTGTTTGTTAT 58.514 34.783 0.00 0.00 0.00 1.89
2161 2623 2.271800 GTTATGGCTCCACTCAAGTCG 58.728 52.381 0.00 0.00 0.00 4.18
2288 3143 9.224267 ACTATCGAAATCATTGATGGGAATAAG 57.776 33.333 0.00 0.00 0.00 1.73
2466 3342 1.675641 ACCGTTGCATCCCTCTTGC 60.676 57.895 0.00 0.00 40.55 4.01
2520 3396 6.451064 AGGTTTCAATGAACTTTTTCGAGT 57.549 33.333 0.00 0.00 34.04 4.18
2579 3456 6.148811 CCTCCGAAACAACATATGTGTACTTT 59.851 38.462 9.63 4.76 42.99 2.66
2601 3478 2.311463 CATGGTTGTTTGGTGTACCCA 58.689 47.619 0.00 0.00 43.27 4.51
2631 3508 4.669318 CACAAGATTGGCAGATTGACATC 58.331 43.478 13.23 0.99 33.90 3.06
2634 3511 4.180377 AGATTGGCAGATTGACATCCAT 57.820 40.909 0.00 0.00 33.90 3.41
2731 3613 5.970317 TCCGAAATAAAAAGGAAACCTCC 57.030 39.130 0.00 0.00 42.81 4.30
2748 3630 9.639601 GGAAACCTCCAACTAATTTTAGAAATG 57.360 33.333 4.40 1.40 41.96 2.32
2811 3711 0.323178 CTTGCTCTCCCAATGTGCCT 60.323 55.000 0.00 0.00 0.00 4.75
2840 3740 1.817357 GGCACCGCCTTTAAGTACTT 58.183 50.000 13.68 13.68 46.69 2.24
2846 3746 3.181452 ACCGCCTTTAAGTACTTGGTTCA 60.181 43.478 18.56 0.00 0.00 3.18
2948 3859 3.130516 CCTACGTGTAGATTGCTTGGAGA 59.869 47.826 8.59 0.00 35.21 3.71
2959 3870 0.470341 GCTTGGAGAGGTATGGGGTC 59.530 60.000 0.00 0.00 0.00 4.46
3002 3913 3.252458 GTGGTGTCAAGTTGTATGGGTTC 59.748 47.826 2.11 0.00 0.00 3.62
3014 3925 4.735369 TGTATGGGTTCAACTGGATGTTT 58.265 39.130 0.00 0.00 36.63 2.83
3015 3926 4.522405 TGTATGGGTTCAACTGGATGTTTG 59.478 41.667 0.00 0.00 36.63 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 6.578944 ACACAATGCGGTGATAAATAGACTA 58.421 36.000 9.58 0.00 41.32 2.59
128 132 4.208686 GAGCGGGGTCGTGGCTAG 62.209 72.222 0.00 0.00 37.10 3.42
135 139 3.475774 CGAAAACGAGCGGGGTCG 61.476 66.667 17.58 17.58 45.76 4.79
136 140 3.785499 GCGAAAACGAGCGGGGTC 61.785 66.667 0.00 0.00 0.00 4.46
177 188 0.783850 AAATGGGGGTTGTGTAGCCT 59.216 50.000 0.00 0.00 44.17 4.58
203 214 5.350365 TGCTTGTATCGTGACTCCATTTTAC 59.650 40.000 0.00 0.00 0.00 2.01
204 215 5.350365 GTGCTTGTATCGTGACTCCATTTTA 59.650 40.000 0.00 0.00 0.00 1.52
229 241 3.498774 ATGATCTGATGGGTACTTGCC 57.501 47.619 0.00 0.00 0.00 4.52
230 242 4.960938 TGTATGATCTGATGGGTACTTGC 58.039 43.478 0.00 0.00 0.00 4.01
284 302 2.033550 GTCTGGAGTATGTAGTCGCTGG 59.966 54.545 0.00 0.00 0.00 4.85
288 306 4.272991 GTGGTAGTCTGGAGTATGTAGTCG 59.727 50.000 0.00 0.00 0.00 4.18
292 310 5.762279 TCATGTGGTAGTCTGGAGTATGTA 58.238 41.667 0.00 0.00 0.00 2.29
298 316 2.567169 TGGTTCATGTGGTAGTCTGGAG 59.433 50.000 0.00 0.00 0.00 3.86
303 321 3.134574 TGGTTGGTTCATGTGGTAGTC 57.865 47.619 0.00 0.00 0.00 2.59
317 335 4.012374 AGATGATAGCTGTGTTTGGTTGG 58.988 43.478 0.00 0.00 0.00 3.77
319 337 5.182001 GTGAAGATGATAGCTGTGTTTGGTT 59.818 40.000 0.00 0.00 0.00 3.67
330 348 3.262420 ACCGTTGTGTGAAGATGATAGC 58.738 45.455 0.00 0.00 0.00 2.97
341 359 1.985334 TGATAGCGTACCGTTGTGTG 58.015 50.000 0.00 0.00 0.00 3.82
354 372 6.129062 CCGACGACTCTATTGATTTTGATAGC 60.129 42.308 0.00 0.00 0.00 2.97
387 405 2.108514 CGTTCGCATGGATGTGGCT 61.109 57.895 0.00 0.00 38.75 4.75
458 480 3.391296 TGCAGAAAAGAGGACTACAAGGT 59.609 43.478 0.00 0.00 0.00 3.50
469 491 1.396301 GGATCGTGCTGCAGAAAAGAG 59.604 52.381 20.43 0.00 0.00 2.85
487 519 3.669536 TGTTCGTTGCTGTAATCATGGA 58.330 40.909 0.00 0.00 0.00 3.41
540 847 5.460646 ACAAGGATTTCAAAGTGTATTGCG 58.539 37.500 0.00 0.00 0.00 4.85
568 875 3.865164 GCCGCTTTCCTTTGGATTATTTG 59.135 43.478 0.00 0.00 0.00 2.32
578 885 1.603739 GGTCCTGCCGCTTTCCTTT 60.604 57.895 0.00 0.00 0.00 3.11
587 894 0.320374 TGTTTCTAGTGGTCCTGCCG 59.680 55.000 0.00 0.00 41.21 5.69
598 905 3.565905 AGACCGTACCGTTGTTTCTAG 57.434 47.619 0.00 0.00 0.00 2.43
609 916 2.632987 ATATGGGCAAAGACCGTACC 57.367 50.000 0.00 0.00 34.68 3.34
658 966 3.126343 AGCACGACGAAAACTTTTGAGTT 59.874 39.130 0.00 0.00 0.00 3.01
659 967 2.676342 AGCACGACGAAAACTTTTGAGT 59.324 40.909 0.00 0.00 0.00 3.41
660 968 3.319238 AGCACGACGAAAACTTTTGAG 57.681 42.857 0.00 0.00 0.00 3.02
661 969 3.421741 CAAGCACGACGAAAACTTTTGA 58.578 40.909 0.00 0.00 0.00 2.69
662 970 2.529894 CCAAGCACGACGAAAACTTTTG 59.470 45.455 0.00 0.00 0.00 2.44
663 971 2.162809 ACCAAGCACGACGAAAACTTTT 59.837 40.909 0.00 0.00 0.00 2.27
674 987 4.263572 CCACCCCACCAAGCACGA 62.264 66.667 0.00 0.00 0.00 4.35
676 989 2.730129 ATTCCCACCCCACCAAGCAC 62.730 60.000 0.00 0.00 0.00 4.40
725 1038 4.082125 AGCCAAAAATCTGTCGAGGATTT 58.918 39.130 16.05 16.05 42.82 2.17
810 1123 9.845740 TGCTCCATTTCTTGTAAGCTATATTAA 57.154 29.630 0.00 0.00 34.77 1.40
811 1124 9.845740 TTGCTCCATTTCTTGTAAGCTATATTA 57.154 29.630 0.00 0.00 34.77 0.98
812 1125 8.752005 TTGCTCCATTTCTTGTAAGCTATATT 57.248 30.769 0.00 0.00 34.77 1.28
972 1329 1.336440 CTCACTACTGATCGGAGCAGG 59.664 57.143 25.26 12.23 37.69 4.85
983 1340 3.007723 CCCCATGGATGATCTCACTACTG 59.992 52.174 15.22 0.00 0.00 2.74
999 1356 3.211865 CATGAGACATCTGTTCCCCATG 58.788 50.000 0.00 0.00 0.00 3.66
1010 1367 2.029838 GGTCACCACCATGAGACATC 57.970 55.000 0.00 0.00 43.17 3.06
1065 1422 1.021390 CCAAGAGAACCGCGCTGATT 61.021 55.000 5.61 0.00 0.00 2.57
1122 1481 3.812053 GCATCTAGCAGGTTACAATGAGG 59.188 47.826 0.00 0.00 44.79 3.86
1351 1746 1.063616 CTGGCAAGAATCTGCGTCATG 59.936 52.381 0.00 0.00 43.60 3.07
1376 1771 1.304713 CCCCAAAGCAGCAGATGGT 60.305 57.895 9.52 0.00 42.89 3.55
1403 1798 0.463833 CGCTTGGCCCCCTTAGTTAG 60.464 60.000 0.00 0.00 0.00 2.34
1433 1828 4.384978 CCATGAGGTGATGAAGAAGACCAT 60.385 45.833 0.00 0.00 0.00 3.55
1490 1886 1.598130 GCGACAGAAAGCAGGTGGT 60.598 57.895 0.00 0.00 0.00 4.16
1493 1889 1.941668 GCTTAGCGACAGAAAGCAGGT 60.942 52.381 1.62 0.00 43.98 4.00
1512 1911 8.474006 AATTTTAATGACGGTATTTTCCTTGC 57.526 30.769 0.00 0.00 0.00 4.01
1545 1992 4.984194 GCACCATGCCACATAGGA 57.016 55.556 0.00 0.00 41.22 2.94
1563 2011 1.745489 GGCCGCTTCACCACTTAGG 60.745 63.158 0.00 0.00 45.67 2.69
1574 2029 2.052782 ATAAAATTCTCGGGCCGCTT 57.947 45.000 23.83 9.05 0.00 4.68
1575 2030 2.922740 TATAAAATTCTCGGGCCGCT 57.077 45.000 23.83 2.28 0.00 5.52
1656 2112 4.582701 TGAACAAGCCACCAAGTAAATG 57.417 40.909 0.00 0.00 0.00 2.32
1659 2115 6.322712 ACTTAAATGAACAAGCCACCAAGTAA 59.677 34.615 0.00 0.00 0.00 2.24
1701 2157 1.733041 CACACACACGCGGTAGAGG 60.733 63.158 12.47 0.00 0.00 3.69
1708 2164 1.693467 AGTATACACACACACACGCG 58.307 50.000 3.53 3.53 0.00 6.01
1709 2165 2.411031 GCAAGTATACACACACACACGC 60.411 50.000 5.50 0.00 0.00 5.34
1711 2167 3.186409 CCTGCAAGTATACACACACACAC 59.814 47.826 5.50 0.00 0.00 3.82
1712 2168 3.398406 CCTGCAAGTATACACACACACA 58.602 45.455 5.50 0.00 0.00 3.72
1713 2169 2.742053 CCCTGCAAGTATACACACACAC 59.258 50.000 5.50 0.00 0.00 3.82
1714 2170 2.370519 ACCCTGCAAGTATACACACACA 59.629 45.455 5.50 0.00 0.00 3.72
1715 2171 3.000727 GACCCTGCAAGTATACACACAC 58.999 50.000 5.50 0.00 0.00 3.82
1721 2177 2.289565 GCAAGGACCCTGCAAGTATAC 58.710 52.381 10.35 0.00 0.00 1.47
1772 2228 2.760092 GCCTTCAAATCCTAACATGGCA 59.240 45.455 0.00 0.00 37.91 4.92
1808 2264 3.682718 CGACAATCCTAGCATTCCCAACT 60.683 47.826 0.00 0.00 0.00 3.16
2070 2532 2.563620 TCACCTACCGCAGTTCATACAA 59.436 45.455 0.00 0.00 0.00 2.41
2115 2577 2.165437 ACACAAAACACGCAAGATGGTT 59.835 40.909 0.00 0.00 43.62 3.67
2145 2607 1.112916 TCACGACTTGAGTGGAGCCA 61.113 55.000 0.00 0.00 39.86 4.75
2246 3101 1.960040 TAGTCCAGATGGCAGCCACG 61.960 60.000 19.10 8.42 35.80 4.94
2358 3216 3.859411 AAACACGAACACACAAACCAT 57.141 38.095 0.00 0.00 0.00 3.55
2520 3396 1.541147 CTCGACGGGGTACAAGTTACA 59.459 52.381 0.00 0.00 0.00 2.41
2579 3456 3.488363 GGGTACACCAAACAACCATGTA 58.512 45.455 0.00 0.00 37.84 2.29
2601 3478 0.245539 GCCAATCTTGTGCTGCACAT 59.754 50.000 33.25 18.08 44.16 3.21
2706 3586 6.152154 GGAGGTTTCCTTTTTATTTCGGATCA 59.848 38.462 0.00 0.00 40.58 2.92
2711 3592 6.745116 AGTTGGAGGTTTCCTTTTTATTTCG 58.255 36.000 0.00 0.00 44.36 3.46
2788 3688 0.610232 ACATTGGGAGAGCAAGCCAC 60.610 55.000 0.00 0.00 0.00 5.01
2832 3732 1.340889 ACGCGGTGAACCAAGTACTTA 59.659 47.619 12.47 0.00 35.14 2.24
2840 3740 1.300311 CTGTGTACGCGGTGAACCA 60.300 57.895 12.47 0.00 35.14 3.67
2846 3746 2.738314 GGAATAAAACTGTGTACGCGGT 59.262 45.455 15.20 15.20 0.00 5.68
2890 3798 1.216710 GAAGTGTCCAGAGCCCTCG 59.783 63.158 0.00 0.00 34.09 4.63
2959 3870 4.274214 CACAATACATGCAGGGTCTACATG 59.726 45.833 2.31 6.59 45.28 3.21


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

AutoCloner maintained by Alex Coulton.