Multiple sequence alignment - TraesCS6A01G103800

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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 TraesCS6A01G103800 chr6A 100.000 3338 0 0 1 3338 73062581 73065918 0.000000e+00 6165.0
1 TraesCS6A01G103800 chr6A 78.756 1351 234 41 1056 2379 72429452 72430776 0.000000e+00 856.0
2 TraesCS6A01G103800 chr6A 76.018 1351 258 47 1053 2379 72480332 72481640 1.010000e-179 640.0
3 TraesCS6A01G103800 chr6B 91.537 2505 132 41 889 3338 129850279 129852758 0.000000e+00 3378.0
4 TraesCS6A01G103800 chr6B 79.275 1351 237 25 1053 2379 129447044 129448375 0.000000e+00 904.0
5 TraesCS6A01G103800 chr6B 78.280 1349 244 36 1056 2379 129268712 129270036 0.000000e+00 822.0
6 TraesCS6A01G103800 chr6B 91.821 379 28 3 427 804 129849755 129850131 2.950000e-145 525.0
7 TraesCS6A01G103800 chr6B 74.681 1331 241 67 1056 2347 125645118 125643845 1.380000e-138 503.0
8 TraesCS6A01G103800 chr6B 85.132 417 56 5 1 414 129848296 129848709 3.980000e-114 422.0
9 TraesCS6A01G103800 chr6B 79.540 435 80 8 1917 2348 129680405 129680833 5.410000e-78 302.0
10 TraesCS6A01G103800 chr6B 74.566 633 130 21 1053 1668 129679511 129680129 7.150000e-62 248.0
11 TraesCS6A01G103800 chr6B 84.328 134 17 3 2377 2508 497890799 497890930 9.720000e-26 128.0
12 TraesCS6A01G103800 chr6B 81.818 99 12 4 790 887 129850151 129850244 9.930000e-11 78.7
13 TraesCS6A01G103800 chr6D 91.900 1642 73 13 889 2490 57893909 57895530 0.000000e+00 2241.0
14 TraesCS6A01G103800 chr6D 96.233 876 27 4 2468 3338 57896134 57897008 0.000000e+00 1430.0
15 TraesCS6A01G103800 chr6D 89.626 829 70 11 1 826 57882905 57883720 0.000000e+00 1040.0
16 TraesCS6A01G103800 chr6D 77.314 1318 243 36 1053 2353 57514211 57515489 0.000000e+00 726.0
17 TraesCS6A01G103800 chr6D 82.158 482 74 9 1901 2379 57483275 57483747 1.440000e-108 403.0
18 TraesCS6A01G103800 chr6D 78.862 615 105 18 1053 1662 57482427 57483021 3.120000e-105 392.0
19 TraesCS6A01G103800 chr6D 83.513 279 36 8 1053 1329 57178290 57178560 5.530000e-63 252.0
20 TraesCS6A01G103800 chr6D 80.729 192 29 7 2880 3066 57179715 57179903 3.470000e-30 143.0
21 TraesCS6A01G103800 chr6D 83.704 135 17 4 2377 2508 325387651 325387519 4.520000e-24 122.0


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 TraesCS6A01G103800 chr6A 73062581 73065918 3337 False 6165.000 6165 100.0000 1 3338 1 chr6A.!!$F3 3337
1 TraesCS6A01G103800 chr6A 72429452 72430776 1324 False 856.000 856 78.7560 1056 2379 1 chr6A.!!$F1 1323
2 TraesCS6A01G103800 chr6A 72480332 72481640 1308 False 640.000 640 76.0180 1053 2379 1 chr6A.!!$F2 1326
3 TraesCS6A01G103800 chr6B 129848296 129852758 4462 False 1100.925 3378 87.5770 1 3338 4 chr6B.!!$F5 3337
4 TraesCS6A01G103800 chr6B 129447044 129448375 1331 False 904.000 904 79.2750 1053 2379 1 chr6B.!!$F2 1326
5 TraesCS6A01G103800 chr6B 129268712 129270036 1324 False 822.000 822 78.2800 1056 2379 1 chr6B.!!$F1 1323
6 TraesCS6A01G103800 chr6B 125643845 125645118 1273 True 503.000 503 74.6810 1056 2347 1 chr6B.!!$R1 1291
7 TraesCS6A01G103800 chr6B 129679511 129680833 1322 False 275.000 302 77.0530 1053 2348 2 chr6B.!!$F4 1295
8 TraesCS6A01G103800 chr6D 57893909 57897008 3099 False 1835.500 2241 94.0665 889 3338 2 chr6D.!!$F5 2449
9 TraesCS6A01G103800 chr6D 57882905 57883720 815 False 1040.000 1040 89.6260 1 826 1 chr6D.!!$F2 825
10 TraesCS6A01G103800 chr6D 57514211 57515489 1278 False 726.000 726 77.3140 1053 2353 1 chr6D.!!$F1 1300
11 TraesCS6A01G103800 chr6D 57482427 57483747 1320 False 397.500 403 80.5100 1053 2379 2 chr6D.!!$F4 1326

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
310 313 0.183492 AGGTGGCTTCAGCTTTCACA 59.817 50.0 8.39 0.0 45.85 3.58 F
637 1673 0.327480 ATATGGGTGGACTCCTGGCA 60.327 55.0 0.00 0.0 0.00 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1299 2447 1.867363 AGGAGTAGGTGAAATCGGCT 58.133 50.0 0.0 0.0 0.00 5.52 R
2609 4499 0.835971 TAGGCAGAAGTGAGGCACCA 60.836 55.0 0.0 0.0 34.49 4.17 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
26 27 0.545171 AGACCCCGATCTCGTCACTA 59.455 55.000 0.00 0.00 37.74 2.74
35 36 0.253894 TCTCGTCACTATCCACCCGA 59.746 55.000 0.00 0.00 0.00 5.14
55 56 2.361104 GGATTGGCGGCCAACTGA 60.361 61.111 34.85 15.36 46.95 3.41
89 92 3.798380 GCATGGCCGCCAATTTTC 58.202 55.556 18.00 0.09 36.95 2.29
92 95 1.805869 CATGGCCGCCAATTTTCAAA 58.194 45.000 18.00 0.00 36.95 2.69
93 96 1.464219 CATGGCCGCCAATTTTCAAAC 59.536 47.619 18.00 0.00 36.95 2.93
94 97 0.465705 TGGCCGCCAATTTTCAAACA 59.534 45.000 10.50 0.00 0.00 2.83
96 99 1.540146 GGCCGCCAATTTTCAAACACT 60.540 47.619 3.91 0.00 0.00 3.55
97 100 1.526464 GCCGCCAATTTTCAAACACTG 59.474 47.619 0.00 0.00 0.00 3.66
153 156 1.496857 TCCTGGAGGAGATCGTCATCT 59.503 52.381 0.00 0.00 42.59 2.90
157 160 2.443632 TGGAGGAGATCGTCATCTACCT 59.556 50.000 5.05 0.00 40.65 3.08
221 224 2.346803 CGTTTCCACGGAATCATCACT 58.653 47.619 0.00 0.00 43.16 3.41
224 227 3.694043 TTCCACGGAATCATCACTGAA 57.306 42.857 0.00 0.00 34.37 3.02
225 228 3.912496 TCCACGGAATCATCACTGAAT 57.088 42.857 0.00 0.00 34.37 2.57
236 239 4.914983 TCATCACTGAATGCTCCTTTCTT 58.085 39.130 0.00 0.00 0.00 2.52
238 241 3.329386 TCACTGAATGCTCCTTTCTTCG 58.671 45.455 0.00 0.00 0.00 3.79
239 242 3.006859 TCACTGAATGCTCCTTTCTTCGA 59.993 43.478 0.00 0.00 0.00 3.71
247 250 2.744202 GCTCCTTTCTTCGATGCTTCAA 59.256 45.455 0.08 0.00 0.00 2.69
252 255 5.067153 TCCTTTCTTCGATGCTTCAACAAAA 59.933 36.000 0.08 0.00 0.00 2.44
253 256 5.173854 CCTTTCTTCGATGCTTCAACAAAAC 59.826 40.000 0.08 0.00 0.00 2.43
301 304 0.878523 CGACGACAAAGGTGGCTTCA 60.879 55.000 0.00 0.00 30.24 3.02
302 305 0.868406 GACGACAAAGGTGGCTTCAG 59.132 55.000 0.00 0.00 31.25 3.02
303 306 1.166531 ACGACAAAGGTGGCTTCAGC 61.167 55.000 0.00 0.00 39.04 4.26
309 312 3.027419 AGGTGGCTTCAGCTTTCAC 57.973 52.632 0.00 0.00 45.85 3.18
310 313 0.183492 AGGTGGCTTCAGCTTTCACA 59.817 50.000 8.39 0.00 45.85 3.58
311 314 0.595095 GGTGGCTTCAGCTTTCACAG 59.405 55.000 8.39 0.00 41.70 3.66
312 315 0.595095 GTGGCTTCAGCTTTCACAGG 59.405 55.000 0.00 0.00 41.70 4.00
313 316 1.174712 TGGCTTCAGCTTTCACAGGC 61.175 55.000 0.00 0.00 41.70 4.85
314 317 1.208614 GCTTCAGCTTTCACAGGCG 59.791 57.895 0.00 0.00 38.21 5.52
315 318 1.208614 CTTCAGCTTTCACAGGCGC 59.791 57.895 0.00 0.00 0.00 6.53
318 321 3.958860 AGCTTTCACAGGCGCCCT 61.959 61.111 26.15 7.38 0.00 5.19
319 322 2.046314 GCTTTCACAGGCGCCCTA 60.046 61.111 26.15 2.56 29.64 3.53
325 328 2.760385 ACAGGCGCCCTACTCCTC 60.760 66.667 26.15 0.00 28.00 3.71
332 335 4.475444 CCCTACTCCTCCGCCCCA 62.475 72.222 0.00 0.00 0.00 4.96
333 336 2.840102 CCTACTCCTCCGCCCCAG 60.840 72.222 0.00 0.00 0.00 4.45
377 380 2.936498 CGCGGATTTCACATACTCCTTT 59.064 45.455 0.00 0.00 0.00 3.11
378 381 3.242413 CGCGGATTTCACATACTCCTTTG 60.242 47.826 0.00 0.00 0.00 2.77
392 395 2.203625 TTTGTCCCCAAGCCCAGC 60.204 61.111 0.00 0.00 0.00 4.85
407 410 1.523258 CAGCGATGGAAGCTCCTGG 60.523 63.158 0.00 0.00 44.06 4.45
414 417 1.920835 GGAAGCTCCTGGTGTCCCT 60.921 63.158 0.00 0.00 32.53 4.20
417 420 4.767255 GCTCCTGGTGTCCCTGCG 62.767 72.222 0.00 0.00 0.00 5.18
418 421 2.997315 CTCCTGGTGTCCCTGCGA 60.997 66.667 0.00 0.00 0.00 5.10
421 424 3.991051 CTGGTGTCCCTGCGACGT 61.991 66.667 0.00 0.00 45.23 4.34
434 1470 2.623915 CGACGTCCGTGTCCTCCTT 61.624 63.158 10.58 0.00 35.40 3.36
450 1486 4.742201 TTGAGGGCAGCGCGTCTC 62.742 66.667 8.43 8.49 32.89 3.36
471 1507 3.081061 CGGGAAATCATCACAAACCTCA 58.919 45.455 0.00 0.00 0.00 3.86
490 1526 3.346315 TCATGGTGTGTGATCCATTGTC 58.654 45.455 0.00 0.00 41.79 3.18
494 1530 1.464608 GTGTGTGATCCATTGTCACGG 59.535 52.381 2.32 0.00 46.89 4.94
536 1572 1.789523 TACCTATGGACCTGGCACTC 58.210 55.000 0.00 0.00 0.00 3.51
593 1629 2.124151 GCACCCATTGGCGAGGAT 60.124 61.111 0.00 0.00 33.59 3.24
599 1635 1.895707 CATTGGCGAGGATGAGGGC 60.896 63.158 0.00 0.00 0.00 5.19
627 1663 2.936202 CCTTCAAGGTGATATGGGTGG 58.064 52.381 0.00 0.00 0.00 4.61
633 1669 1.295292 AGGTGATATGGGTGGACTCCT 59.705 52.381 0.00 0.00 0.00 3.69
637 1673 0.327480 ATATGGGTGGACTCCTGGCA 60.327 55.000 0.00 0.00 0.00 4.92
702 1738 3.503749 AAAAACAGCACGCACCGA 58.496 50.000 0.00 0.00 0.00 4.69
720 1756 2.673368 CCGAATTTTTCCTCTCCTCACG 59.327 50.000 0.00 0.00 0.00 4.35
742 1778 3.257375 GTGGTAATTTTCCTTCGGCCTTT 59.743 43.478 0.00 0.00 0.00 3.11
743 1779 3.508402 TGGTAATTTTCCTTCGGCCTTTC 59.492 43.478 0.00 0.00 0.00 2.62
750 1786 1.144093 TCCTTCGGCCTTTCTTTTGGA 59.856 47.619 0.00 0.00 0.00 3.53
753 1789 3.181470 CCTTCGGCCTTTCTTTTGGAAAA 60.181 43.478 0.00 0.00 42.52 2.29
754 1790 4.503123 CCTTCGGCCTTTCTTTTGGAAAAT 60.503 41.667 0.00 0.00 42.52 1.82
763 1800 8.531982 GCCTTTCTTTTGGAAAATAATACTCCT 58.468 33.333 0.00 0.00 42.52 3.69
831 1901 2.683572 GCCCTCCCGCCCATTTTT 60.684 61.111 0.00 0.00 0.00 1.94
877 1947 2.849081 TTTTTCTGGATCGGCCGTC 58.151 52.632 27.15 20.82 40.66 4.79
960 2090 1.076632 CTACTCCGTCCCCTGAGCT 60.077 63.158 0.00 0.00 31.65 4.09
961 2091 1.379977 TACTCCGTCCCCTGAGCTG 60.380 63.158 0.00 0.00 31.65 4.24
962 2092 4.154347 CTCCGTCCCCTGAGCTGC 62.154 72.222 0.00 0.00 0.00 5.25
964 2094 4.020617 CCGTCCCCTGAGCTGCAA 62.021 66.667 1.02 0.00 0.00 4.08
965 2095 2.743928 CGTCCCCTGAGCTGCAAC 60.744 66.667 1.02 0.00 0.00 4.17
966 2096 2.753029 GTCCCCTGAGCTGCAACT 59.247 61.111 1.02 0.00 0.00 3.16
967 2097 1.376553 GTCCCCTGAGCTGCAACTC 60.377 63.158 10.26 10.26 37.19 3.01
968 2098 1.537397 TCCCCTGAGCTGCAACTCT 60.537 57.895 17.56 0.56 37.58 3.24
969 2099 1.376942 CCCCTGAGCTGCAACTCTG 60.377 63.158 17.56 16.22 37.58 3.35
970 2100 1.675801 CCCTGAGCTGCAACTCTGA 59.324 57.895 21.53 1.78 37.71 3.27
971 2101 0.673022 CCCTGAGCTGCAACTCTGAC 60.673 60.000 21.53 0.00 37.71 3.51
972 2102 0.673022 CCTGAGCTGCAACTCTGACC 60.673 60.000 21.53 0.00 37.71 4.02
973 2103 1.005748 TGAGCTGCAACTCTGACCG 60.006 57.895 17.56 0.00 37.58 4.79
974 2104 2.358003 AGCTGCAACTCTGACCGC 60.358 61.111 1.02 0.00 0.00 5.68
975 2105 3.782244 GCTGCAACTCTGACCGCG 61.782 66.667 0.00 0.00 0.00 6.46
976 2106 3.114616 CTGCAACTCTGACCGCGG 61.115 66.667 26.86 26.86 0.00 6.46
2171 3419 1.522668 CTGGACATTGTTGAAGGCGA 58.477 50.000 0.00 0.00 0.00 5.54
2312 3569 1.749258 GCTACTTTGGCTTCCCCCG 60.749 63.158 0.00 0.00 0.00 5.73
2413 3671 4.003788 AGTTGGCTAGTGGCGCGT 62.004 61.111 8.43 0.00 42.94 6.01
2572 4460 3.643199 TGGTTAGAGCACATGCCAATA 57.357 42.857 0.00 0.00 43.38 1.90
2580 4470 1.202336 GCACATGCCAATAAGCTCACC 60.202 52.381 0.00 0.00 34.31 4.02
2582 4472 1.035139 CATGCCAATAAGCTCACCCC 58.965 55.000 0.00 0.00 0.00 4.95
2646 4549 7.422399 TCTGCCTAAACAACATACAGTTTTTC 58.578 34.615 0.00 0.00 38.74 2.29
2865 4768 7.905604 TTATGTCCTGTTCAATAGTTGTCAG 57.094 36.000 9.05 9.05 35.39 3.51
2913 4816 7.397192 ACAAATTCATTACATAGCAGGAAAGGT 59.603 33.333 0.00 0.00 0.00 3.50
3210 5146 5.904080 GCATTTAGATGACTTGCGTGTTATC 59.096 40.000 0.00 5.81 35.16 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 0.945813 GTGACGAGATCGGGGTCTAG 59.054 60.000 7.22 0.00 44.95 2.43
9 10 1.606903 GATAGTGACGAGATCGGGGT 58.393 55.000 7.22 0.00 44.95 4.95
13 14 1.267261 GGGTGGATAGTGACGAGATCG 59.733 57.143 0.00 0.00 46.33 3.69
18 19 1.381928 GCTCGGGTGGATAGTGACGA 61.382 60.000 0.00 0.00 0.00 4.20
50 51 2.672996 GCCATGGTGCGGTCAGTT 60.673 61.111 14.67 0.00 0.00 3.16
52 53 4.415150 AGGCCATGGTGCGGTCAG 62.415 66.667 14.67 0.00 0.00 3.51
60 63 4.511246 CCATGCCGAGGCCATGGT 62.511 66.667 24.56 0.00 40.97 3.55
74 77 1.071385 TGTTTGAAAATTGGCGGCCAT 59.929 42.857 24.49 7.70 31.53 4.40
112 115 2.257371 CGTCGCCGAAGTCTTGGA 59.743 61.111 0.00 0.00 35.63 3.53
134 137 1.993956 AGATGACGATCTCCTCCAGG 58.006 55.000 0.00 0.00 33.20 4.45
147 150 1.527370 GGGTGGGCAGGTAGATGAC 59.473 63.158 0.00 0.00 0.00 3.06
150 153 1.694169 CAGGGGTGGGCAGGTAGAT 60.694 63.158 0.00 0.00 0.00 1.98
201 204 2.094258 CAGTGATGATTCCGTGGAAACG 59.906 50.000 5.27 0.00 37.69 3.60
208 211 3.201290 GAGCATTCAGTGATGATTCCGT 58.799 45.455 0.00 0.00 0.00 4.69
212 215 5.507637 AGAAAGGAGCATTCAGTGATGATT 58.492 37.500 0.00 0.00 0.00 2.57
221 224 2.679837 GCATCGAAGAAAGGAGCATTCA 59.320 45.455 0.00 0.00 43.58 2.57
224 227 2.706339 AGCATCGAAGAAAGGAGCAT 57.294 45.000 0.00 0.00 43.58 3.79
225 228 2.289631 TGAAGCATCGAAGAAAGGAGCA 60.290 45.455 0.00 0.00 43.58 4.26
236 239 1.334599 GGCGTTTTGTTGAAGCATCGA 60.335 47.619 0.00 0.00 0.00 3.59
238 241 2.132740 TGGCGTTTTGTTGAAGCATC 57.867 45.000 0.00 0.00 0.00 3.91
239 242 2.610232 GGATGGCGTTTTGTTGAAGCAT 60.610 45.455 0.00 0.00 0.00 3.79
247 250 1.906333 GGGGTGGATGGCGTTTTGT 60.906 57.895 0.00 0.00 0.00 2.83
280 283 0.878961 AAGCCACCTTTGTCGTCGAC 60.879 55.000 18.51 18.51 0.00 4.20
301 304 2.592993 TAGGGCGCCTGTGAAAGCT 61.593 57.895 28.56 14.64 34.61 3.74
302 305 2.046314 TAGGGCGCCTGTGAAAGC 60.046 61.111 28.56 6.68 34.61 3.51
303 306 0.741221 GAGTAGGGCGCCTGTGAAAG 60.741 60.000 28.56 0.00 34.61 2.62
304 307 1.295423 GAGTAGGGCGCCTGTGAAA 59.705 57.895 28.56 2.41 34.61 2.69
305 308 2.656069 GGAGTAGGGCGCCTGTGAA 61.656 63.158 28.56 4.39 34.61 3.18
306 309 3.075005 GGAGTAGGGCGCCTGTGA 61.075 66.667 28.56 6.18 34.61 3.58
307 310 3.077556 AGGAGTAGGGCGCCTGTG 61.078 66.667 28.56 0.00 45.96 3.66
315 318 4.475444 TGGGGCGGAGGAGTAGGG 62.475 72.222 0.00 0.00 0.00 3.53
318 321 2.043248 GACTGGGGCGGAGGAGTA 60.043 66.667 0.00 0.00 0.00 2.59
378 381 4.115199 ATCGCTGGGCTTGGGGAC 62.115 66.667 0.00 0.00 0.00 4.46
392 395 0.460987 GACACCAGGAGCTTCCATCG 60.461 60.000 0.00 0.00 39.61 3.84
397 400 1.298014 CAGGGACACCAGGAGCTTC 59.702 63.158 0.00 0.00 40.13 3.86
414 417 4.034258 GAGGACACGGACGTCGCA 62.034 66.667 9.92 0.00 43.89 5.10
417 420 1.080705 CAAGGAGGACACGGACGTC 60.081 63.158 7.13 7.13 35.03 4.34
418 421 1.524863 CTCAAGGAGGACACGGACGT 61.525 60.000 0.00 0.00 0.00 4.34
446 1482 3.127030 GGTTTGTGATGATTTCCCGAGAC 59.873 47.826 0.00 0.00 0.00 3.36
450 1486 3.081061 TGAGGTTTGTGATGATTTCCCG 58.919 45.455 0.00 0.00 0.00 5.14
471 1507 4.422020 CGTGACAATGGATCACACACCAT 61.422 47.826 6.01 0.00 45.64 3.55
536 1572 1.138883 TGATTTCTCCTCGACCGCG 59.861 57.895 0.00 0.00 39.35 6.46
588 1624 2.105128 CGTCACGCCCTCATCCTC 59.895 66.667 0.00 0.00 0.00 3.71
593 1629 2.915659 AAGGTCGTCACGCCCTCA 60.916 61.111 0.00 0.00 0.00 3.86
627 1663 0.392327 GCTTCCTTCTGCCAGGAGTC 60.392 60.000 0.00 0.00 44.18 3.36
633 1669 1.480212 TTCTCCGCTTCCTTCTGCCA 61.480 55.000 0.00 0.00 0.00 4.92
637 1673 1.407258 CGATCTTCTCCGCTTCCTTCT 59.593 52.381 0.00 0.00 0.00 2.85
688 1724 0.383949 AAAATTCGGTGCGTGCTGTT 59.616 45.000 0.00 0.00 0.00 3.16
700 1736 3.123621 CACGTGAGGAGAGGAAAAATTCG 59.876 47.826 10.90 0.00 0.00 3.34
702 1738 3.181443 ACCACGTGAGGAGAGGAAAAATT 60.181 43.478 19.30 0.00 0.00 1.82
787 1824 2.849473 CCTCGTTTGGTTCAACGTTTTG 59.151 45.455 0.00 0.00 0.00 2.44
792 1829 0.316689 GTGCCTCGTTTGGTTCAACG 60.317 55.000 0.00 0.00 0.00 4.10
828 1898 4.583907 ACCGAACGAATTTCCCCTTAAAAA 59.416 37.500 0.00 0.00 0.00 1.94
829 1899 4.143543 ACCGAACGAATTTCCCCTTAAAA 58.856 39.130 0.00 0.00 0.00 1.52
830 1900 3.753815 ACCGAACGAATTTCCCCTTAAA 58.246 40.909 0.00 0.00 0.00 1.52
831 1901 3.421919 ACCGAACGAATTTCCCCTTAA 57.578 42.857 0.00 0.00 0.00 1.85
832 1902 3.008266 AGAACCGAACGAATTTCCCCTTA 59.992 43.478 0.00 0.00 0.00 2.69
833 1903 2.156917 GAACCGAACGAATTTCCCCTT 58.843 47.619 0.00 0.00 0.00 3.95
835 1905 1.817357 AGAACCGAACGAATTTCCCC 58.183 50.000 0.00 0.00 0.00 4.81
836 1906 3.909776 AAAGAACCGAACGAATTTCCC 57.090 42.857 0.00 0.00 0.00 3.97
861 1931 2.582436 GGACGGCCGATCCAGAAA 59.418 61.111 35.90 0.00 36.15 2.52
862 1932 3.467226 GGGACGGCCGATCCAGAA 61.467 66.667 33.19 0.00 38.06 3.02
863 1933 4.770362 TGGGACGGCCGATCCAGA 62.770 66.667 33.19 22.52 38.06 3.86
864 1934 2.996168 GAATGGGACGGCCGATCCAG 62.996 65.000 33.75 10.35 38.06 3.86
865 1935 3.087253 AATGGGACGGCCGATCCA 61.087 61.111 33.30 33.30 38.06 3.41
866 1936 2.280865 GAATGGGACGGCCGATCC 60.281 66.667 35.90 31.13 30.53 3.36
877 1947 1.887344 CGCAGTTTTGGGGGAATGGG 61.887 60.000 0.00 0.00 33.88 4.00
1035 2165 1.007271 CGTGAGCACCGACTGAGTT 60.007 57.895 0.00 0.00 0.00 3.01
1060 2193 4.544689 CTCCAGGAGCTCGTCGCG 62.545 72.222 5.82 0.00 45.59 5.87
1299 2447 1.867363 AGGAGTAGGTGAAATCGGCT 58.133 50.000 0.00 0.00 0.00 5.52
2171 3419 1.899814 TCGTCAACAAGCTCATAGGGT 59.100 47.619 0.00 0.00 0.00 4.34
2312 3569 1.292992 ACTCGGTTTTGACAACGACC 58.707 50.000 9.05 9.05 0.00 4.79
2572 4460 4.021925 GCACGGAGGGGTGAGCTT 62.022 66.667 0.00 0.00 40.38 3.74
2609 4499 0.835971 TAGGCAGAAGTGAGGCACCA 60.836 55.000 0.00 0.00 34.49 4.17
2646 4549 1.801178 GGGAGCTCGTTGTCTCAAAAG 59.199 52.381 7.83 0.00 0.00 2.27
2746 4649 2.390306 TAGGACAGCAAAGCACGCCA 62.390 55.000 0.00 0.00 0.00 5.69
2913 4816 6.012337 TGCAAATTTGGTGGGATAGAGATA 57.988 37.500 19.47 0.00 0.00 1.98
3061 4967 6.602410 TTTCAAATGTTCCATAGCCATCAA 57.398 33.333 0.00 0.00 0.00 2.57
3137 5043 4.154195 ACAGTAATGTCTTTCATGCGGAAC 59.846 41.667 0.00 0.00 36.81 3.62
3140 5046 3.684305 TCACAGTAATGTCTTTCATGCGG 59.316 43.478 0.00 0.00 36.81 5.69
3210 5146 9.903682 CCCTGCAGATATATTCAATTAAAACTG 57.096 33.333 17.39 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.