Multiple sequence alignment - TraesCS6D01G341000

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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 TraesCS6D01G341000 chr6D 100.000 3426 0 0 1 3426 440211832 440208407 0.000000e+00 6327.0
1 TraesCS6D01G341000 chr6D 89.489 999 94 11 1660 2654 440220221 440219230 0.000000e+00 1253.0
2 TraesCS6D01G341000 chr6D 83.654 1040 148 13 1051 2072 440015287 440014252 0.000000e+00 959.0
3 TraesCS6D01G341000 chr6D 83.519 989 142 12 1099 2069 439922051 439921066 0.000000e+00 904.0
4 TraesCS6D01G341000 chr6D 78.635 337 30 18 528 854 439922978 439922674 5.840000e-43 185.0
5 TraesCS6D01G341000 chr6D 83.333 138 19 2 928 1064 440015531 440015397 1.290000e-24 124.0
6 TraesCS6D01G341000 chr6D 93.421 76 5 0 989 1064 440221237 440221162 2.790000e-21 113.0
7 TraesCS6D01G341000 chr6D 95.238 42 1 1 1056 1097 439922137 439922097 7.940000e-07 65.8
8 TraesCS6D01G341000 chr6A 94.053 2539 103 18 895 3426 588411123 588408626 0.000000e+00 3808.0
9 TraesCS6D01G341000 chr6A 85.393 1335 181 11 1310 2638 588354481 588353155 0.000000e+00 1373.0
10 TraesCS6D01G341000 chr6A 88.390 646 68 5 2016 2660 588428794 588428155 0.000000e+00 771.0
11 TraesCS6D01G341000 chr6A 83.947 760 112 8 1326 2078 52406098 52406854 0.000000e+00 719.0
12 TraesCS6D01G341000 chr6A 84.283 509 42 15 395 879 588411697 588411203 2.410000e-126 462.0
13 TraesCS6D01G341000 chr6A 84.343 396 35 16 4 378 588413314 588412925 2.510000e-96 363.0
14 TraesCS6D01G341000 chr6A 77.581 339 54 19 528 854 588355625 588355297 5.840000e-43 185.0
15 TraesCS6D01G341000 chr6A 88.525 122 11 3 945 1064 588355029 588354909 9.910000e-31 145.0
16 TraesCS6D01G341000 chr6B 93.989 1597 77 12 1051 2646 665036894 665035316 0.000000e+00 2399.0
17 TraesCS6D01G341000 chr6B 89.860 1213 111 9 1312 2520 665417277 665416073 0.000000e+00 1548.0
18 TraesCS6D01G341000 chr6B 84.127 1323 192 15 1324 2638 665425339 665424027 0.000000e+00 1264.0
19 TraesCS6D01G341000 chr6B 84.459 1036 141 11 1051 2069 665162322 665161290 0.000000e+00 1003.0
20 TraesCS6D01G341000 chr6B 84.585 759 109 6 1326 2078 95237340 95236584 0.000000e+00 747.0
21 TraesCS6D01G341000 chr6B 90.310 258 24 1 1051 1308 665417579 665417323 1.520000e-88 337.0
22 TraesCS6D01G341000 chr6B 84.320 338 33 8 2816 3147 665035248 665034925 2.570000e-81 313.0
23 TraesCS6D01G341000 chr6B 83.523 176 19 6 891 1064 665037211 665037044 4.580000e-34 156.0
24 TraesCS6D01G341000 chr6B 89.344 122 10 3 945 1064 665132551 665132431 2.130000e-32 150.0
25 TraesCS6D01G341000 chr6B 82.941 170 25 2 896 1064 665162623 665162457 2.130000e-32 150.0
26 TraesCS6D01G341000 chr6B 100.000 30 0 0 2669 2698 624787935 624787906 4.780000e-04 56.5
27 TraesCS6D01G341000 chr5B 83.841 755 118 4 1326 2078 330119943 330120695 0.000000e+00 715.0
28 TraesCS6D01G341000 chr5B 88.163 566 61 5 2091 2654 330430339 330430900 0.000000e+00 669.0
29 TraesCS6D01G341000 chr5B 87.986 566 62 5 2091 2654 330120737 330121298 0.000000e+00 664.0
30 TraesCS6D01G341000 chr7D 81.121 339 55 7 973 1308 46910564 46910232 2.620000e-66 263.0
31 TraesCS6D01G341000 chr4A 80.645 341 58 7 978 1315 661022571 661022236 1.220000e-64 257.0
32 TraesCS6D01G341000 chr2A 77.363 402 70 16 902 1294 639694561 639694950 5.760000e-53 219.0
33 TraesCS6D01G341000 chr3D 79.706 340 36 19 982 1308 515706382 515706701 7.450000e-52 215.0
34 TraesCS6D01G341000 chr3D 85.135 148 18 3 101 247 600656291 600656435 7.660000e-32 148.0
35 TraesCS6D01G341000 chr1D 86.709 158 17 4 101 257 52118846 52118692 4.550000e-39 172.0
36 TraesCS6D01G341000 chr1D 84.314 153 22 2 92 243 462192359 462192510 7.660000e-32 148.0
37 TraesCS6D01G341000 chr1D 100.000 32 0 0 2667 2698 130610031 130610062 3.690000e-05 60.2
38 TraesCS6D01G341000 chr5D 86.928 153 17 3 101 251 462454653 462454804 5.880000e-38 169.0
39 TraesCS6D01G341000 chr7B 84.906 159 23 1 92 250 445461624 445461781 3.540000e-35 159.0
40 TraesCS6D01G341000 chr7B 85.811 148 19 2 101 247 656285525 656285671 4.580000e-34 156.0
41 TraesCS6D01G341000 chr4D 86.000 150 19 2 102 250 112721965 112721817 3.540000e-35 159.0
42 TraesCS6D01G341000 chr2B 86.207 145 17 3 102 244 765556259 765556402 1.650000e-33 154.0
43 TraesCS6D01G341000 chr1A 87.879 132 14 2 102 233 388749920 388749791 1.650000e-33 154.0
44 TraesCS6D01G341000 chr1A 100.000 32 0 0 2667 2698 189960948 189960979 3.690000e-05 60.2
45 TraesCS6D01G341000 chr1B 100.000 32 0 0 2667 2698 207268209 207268240 3.690000e-05 60.2
46 TraesCS6D01G341000 chrUn 100.000 30 0 0 2668 2697 724661 724632 4.780000e-04 56.5
47 TraesCS6D01G341000 chrUn 100.000 30 0 0 2668 2697 229402306 229402335 4.780000e-04 56.5


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 TraesCS6D01G341000 chr6D 440208407 440211832 3425 True 6327.000000 6327 100.000000 1 3426 1 chr6D.!!$R1 3425
1 TraesCS6D01G341000 chr6D 440219230 440221237 2007 True 683.000000 1253 91.455000 989 2654 2 chr6D.!!$R4 1665
2 TraesCS6D01G341000 chr6D 440014252 440015531 1279 True 541.500000 959 83.493500 928 2072 2 chr6D.!!$R3 1144
3 TraesCS6D01G341000 chr6D 439921066 439922978 1912 True 384.933333 904 85.797333 528 2069 3 chr6D.!!$R2 1541
4 TraesCS6D01G341000 chr6A 588408626 588413314 4688 True 1544.333333 3808 87.559667 4 3426 3 chr6A.!!$R3 3422
5 TraesCS6D01G341000 chr6A 588428155 588428794 639 True 771.000000 771 88.390000 2016 2660 1 chr6A.!!$R1 644
6 TraesCS6D01G341000 chr6A 52406098 52406854 756 False 719.000000 719 83.947000 1326 2078 1 chr6A.!!$F1 752
7 TraesCS6D01G341000 chr6A 588353155 588355625 2470 True 567.666667 1373 83.833000 528 2638 3 chr6A.!!$R2 2110
8 TraesCS6D01G341000 chr6B 665424027 665425339 1312 True 1264.000000 1264 84.127000 1324 2638 1 chr6B.!!$R4 1314
9 TraesCS6D01G341000 chr6B 665034925 665037211 2286 True 956.000000 2399 87.277333 891 3147 3 chr6B.!!$R5 2256
10 TraesCS6D01G341000 chr6B 665416073 665417579 1506 True 942.500000 1548 90.085000 1051 2520 2 chr6B.!!$R7 1469
11 TraesCS6D01G341000 chr6B 95236584 95237340 756 True 747.000000 747 84.585000 1326 2078 1 chr6B.!!$R1 752
12 TraesCS6D01G341000 chr6B 665161290 665162623 1333 True 576.500000 1003 83.700000 896 2069 2 chr6B.!!$R6 1173
13 TraesCS6D01G341000 chr5B 330119943 330121298 1355 False 689.500000 715 85.913500 1326 2654 2 chr5B.!!$F2 1328
14 TraesCS6D01G341000 chr5B 330430339 330430900 561 False 669.000000 669 88.163000 2091 2654 1 chr5B.!!$F1 563

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
774 2058 0.741574 TGTGTTATTACGCCTGGCCG 60.742 55.000 14.12 10.92 33.79 6.13 F
802 2087 1.003233 GGGGAAATAATCTCGCGGGAT 59.997 52.381 17.66 17.66 0.00 3.85 F
926 2409 1.146263 GGGGCGATTCGAATCAGGT 59.854 57.895 31.57 3.29 35.11 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1705 3629 1.004918 CCCTGAGTCACAACGGGTC 60.005 63.158 6.96 0.0 31.63 4.46 R
2118 4079 3.125316 CGTGAGTAGTTTTGGGCATTCTC 59.875 47.826 0.00 0.0 0.00 2.87 R
2870 4846 2.296752 CAGGATGCATCACAAACACCAA 59.703 45.455 27.25 0.0 0.00 3.67 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
48 49 9.474920 CAACTTTGGATTAAACATGTGTGTAAT 57.525 29.630 8.03 8.03 40.23 1.89
113 122 5.064558 ACAGTCTTTCTAAGTCTCAGTCGA 58.935 41.667 0.00 0.00 0.00 4.20
122 131 7.987750 TCTAAGTCTCAGTCGATGCTATATT 57.012 36.000 0.00 0.00 0.00 1.28
128 137 5.035784 TCAGTCGATGCTATATTCGTGAG 57.964 43.478 0.00 0.00 36.74 3.51
134 143 7.334671 AGTCGATGCTATATTCGTGAGATCTTA 59.665 37.037 0.00 0.00 41.60 2.10
149 158 7.122550 GTGAGATCTTAAATTGAGATTCGTGC 58.877 38.462 1.74 0.00 34.13 5.34
152 163 8.218338 AGATCTTAAATTGAGATTCGTGCAAT 57.782 30.769 1.74 0.00 34.13 3.56
153 164 8.341173 AGATCTTAAATTGAGATTCGTGCAATC 58.659 33.333 1.74 0.00 41.37 2.67
164 175 6.991485 GATTCGTGCAATCTTTTTCTTCAA 57.009 33.333 0.00 0.00 38.36 2.69
167 178 9.128107 GATTCGTGCAATCTTTTTCTTCAATTA 57.872 29.630 0.00 0.00 38.36 1.40
168 179 9.643693 ATTCGTGCAATCTTTTTCTTCAATTAT 57.356 25.926 0.00 0.00 0.00 1.28
171 182 9.731519 CGTGCAATCTTTTTCTTCAATTATTTC 57.268 29.630 0.00 0.00 0.00 2.17
197 218 4.404507 TCTCGCTTGCATTTTAAGTCAC 57.595 40.909 0.00 0.00 0.00 3.67
202 223 4.379793 CGCTTGCATTTTAAGTCACTTGAC 59.620 41.667 0.00 0.77 45.08 3.18
228 249 6.590292 TGAGACTTGGTTAAATCTCAATCGAC 59.410 38.462 0.41 0.00 43.47 4.20
230 251 7.837863 AGACTTGGTTAAATCTCAATCGACTA 58.162 34.615 0.00 0.00 0.00 2.59
265 286 6.538381 CACACCCTTAGAAAAATTTGCAAAGT 59.462 34.615 18.19 12.65 0.00 2.66
268 289 9.103861 CACCCTTAGAAAAATTTGCAAAGTAAA 57.896 29.630 18.19 4.91 0.00 2.01
297 318 5.360649 AGGGAGTTAAGATTTAGGTGCTC 57.639 43.478 0.00 0.00 0.00 4.26
306 327 8.715088 GTTAAGATTTAGGTGCTCGTTTAGAAA 58.285 33.333 0.00 0.00 0.00 2.52
310 331 3.470645 AGGTGCTCGTTTAGAAACTGT 57.529 42.857 3.80 0.00 36.77 3.55
311 332 3.805207 AGGTGCTCGTTTAGAAACTGTT 58.195 40.909 3.80 0.00 36.77 3.16
312 333 4.196971 AGGTGCTCGTTTAGAAACTGTTT 58.803 39.130 5.29 5.29 36.77 2.83
313 334 4.638865 AGGTGCTCGTTTAGAAACTGTTTT 59.361 37.500 7.28 0.88 36.77 2.43
314 335 5.818857 AGGTGCTCGTTTAGAAACTGTTTTA 59.181 36.000 7.28 0.00 36.77 1.52
315 336 6.485648 AGGTGCTCGTTTAGAAACTGTTTTAT 59.514 34.615 7.28 2.53 36.77 1.40
346 367 2.863809 AGAGTTAAGGTTTGTGGGCTG 58.136 47.619 0.00 0.00 0.00 4.85
352 373 3.751479 AAGGTTTGTGGGCTGAAATTC 57.249 42.857 0.00 0.00 0.00 2.17
371 392 5.559148 ATTCAGGGTTTCAGCTATAGGAG 57.441 43.478 1.04 0.00 0.00 3.69
431 1664 0.976641 AGAGAGGCGAACCATGTTGA 59.023 50.000 0.00 0.00 39.06 3.18
441 1674 4.041723 CGAACCATGTTGACCAAAAACTC 58.958 43.478 0.00 0.00 0.00 3.01
452 1685 2.959707 ACCAAAAACTCGGCCATGTTAA 59.040 40.909 2.24 0.00 0.00 2.01
460 1693 3.005367 ACTCGGCCATGTTAAGGTTTTTG 59.995 43.478 2.24 0.00 0.00 2.44
466 1699 5.762711 GGCCATGTTAAGGTTTTTGATTGTT 59.237 36.000 0.00 0.00 0.00 2.83
467 1700 6.262049 GGCCATGTTAAGGTTTTTGATTGTTT 59.738 34.615 0.00 0.00 0.00 2.83
514 1767 3.057245 TGCTAGCATACGAGGAAGCATAG 60.057 47.826 14.93 0.00 35.20 2.23
515 1768 3.057174 GCTAGCATACGAGGAAGCATAGT 60.057 47.826 10.63 0.00 0.00 2.12
518 1771 2.922758 GCATACGAGGAAGCATAGTCGG 60.923 54.545 0.00 0.00 36.74 4.79
522 1776 2.232941 ACGAGGAAGCATAGTCGGAAAA 59.767 45.455 0.00 0.00 36.74 2.29
773 2057 1.014352 CTGTGTTATTACGCCTGGCC 58.986 55.000 14.12 0.00 33.79 5.36
774 2058 0.741574 TGTGTTATTACGCCTGGCCG 60.742 55.000 14.12 10.92 33.79 6.13
802 2087 1.003233 GGGGAAATAATCTCGCGGGAT 59.997 52.381 17.66 17.66 0.00 3.85
822 2107 2.896443 GGAGGCGGGAGAAGAGTG 59.104 66.667 0.00 0.00 0.00 3.51
825 2110 1.671901 GAGGCGGGAGAAGAGTGGAG 61.672 65.000 0.00 0.00 0.00 3.86
885 2209 2.155279 TCGGAGTCTGTCTGTTGAGAG 58.845 52.381 0.00 0.00 35.19 3.20
912 2395 3.773154 AGGAGGAGGAGGAGGGGC 61.773 72.222 0.00 0.00 0.00 5.80
926 2409 1.146263 GGGGCGATTCGAATCAGGT 59.854 57.895 31.57 3.29 35.11 4.00
963 2446 2.872245 CCGTTGTCGCAGATCCAATAAT 59.128 45.455 0.00 0.00 40.67 1.28
964 2447 3.059597 CCGTTGTCGCAGATCCAATAATC 60.060 47.826 0.00 0.00 40.67 1.75
974 2458 4.091945 CAGATCCAATAATCACATACGCCG 59.908 45.833 0.00 0.00 0.00 6.46
1139 2861 1.719600 TGCAACGCAAAAAGCAACTT 58.280 40.000 0.00 0.00 46.13 2.66
1431 3195 8.800332 ACTCAAAATCAGATTTGTCTTATTGCT 58.200 29.630 9.24 0.00 40.40 3.91
1705 3629 2.241722 CGCTTGGAGTATTTGCGTTTG 58.758 47.619 0.00 0.00 41.45 2.93
2089 4049 8.942669 TGTATCAACAGTAATTTTGTTAAGCG 57.057 30.769 7.46 0.00 36.67 4.68
2401 4364 1.276622 AGCTCACCATCTACGGGTTT 58.723 50.000 0.00 0.00 36.19 3.27
2402 4365 1.628846 AGCTCACCATCTACGGGTTTT 59.371 47.619 0.00 0.00 36.19 2.43
2680 4643 7.359849 ACATTACTATGGTACTCCCTCTGTAA 58.640 38.462 0.00 0.00 36.01 2.41
2693 4656 5.801380 TCCCTCTGTAAACAAATGTAGGAC 58.199 41.667 0.00 0.00 0.00 3.85
2852 4828 6.200854 ACGCTTTCCTTTAATTGAAGCTTTTG 59.799 34.615 0.00 0.00 0.00 2.44
2950 4926 4.997905 ACAAGTTGACATCACTTCATCG 57.002 40.909 10.54 0.00 0.00 3.84
3004 4980 6.339730 TGACAATTTATTGCAATGGGATGTC 58.660 36.000 26.45 26.45 41.38 3.06
3098 5075 6.618287 TTAACTTTCTGAACATCACACAGG 57.382 37.500 0.00 0.00 33.19 4.00
3151 5129 2.154854 TTCTGACAAACCAGAGAGCG 57.845 50.000 0.00 0.00 43.28 5.03
3159 5137 1.040646 AACCAGAGAGCGACACAGAA 58.959 50.000 0.00 0.00 0.00 3.02
3238 5216 2.232756 TGCGAGCACTTCTTACAACA 57.767 45.000 0.00 0.00 0.00 3.33
3302 5280 7.148641 ACAACTTATGCTAGATAACTCGATGG 58.851 38.462 0.00 0.00 0.00 3.51
3303 5281 6.902771 ACTTATGCTAGATAACTCGATGGT 57.097 37.500 0.00 0.00 0.00 3.55
3335 5314 3.390639 TGTGCCCTGGATGTTTTGATTTT 59.609 39.130 0.00 0.00 0.00 1.82
3355 5334 6.735678 TTTTCGCTTGTGCTAGATAAATCA 57.264 33.333 0.00 0.00 36.97 2.57
3363 5342 4.823442 TGTGCTAGATAAATCAATGGCAGG 59.177 41.667 0.00 0.00 0.00 4.85
3402 5381 7.834181 AGCTTGCTTTTCCTTGGTATAAGATAA 59.166 33.333 0.00 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.683069 AGTTGATAATGAAAGTTCACACAAATC 57.317 29.630 0.00 0.00 40.49 2.17
87 88 6.697892 CGACTGAGACTTAGAAAGACTGTTTT 59.302 38.462 0.47 0.00 33.75 2.43
97 98 7.987750 ATATAGCATCGACTGAGACTTAGAA 57.012 36.000 0.47 0.00 0.00 2.10
98 99 7.148557 CGAATATAGCATCGACTGAGACTTAGA 60.149 40.741 0.47 0.00 41.43 2.10
122 131 7.220875 CACGAATCTCAATTTAAGATCTCACGA 59.779 37.037 0.00 0.00 32.29 4.35
128 137 8.341173 AGATTGCACGAATCTCAATTTAAGATC 58.659 33.333 0.00 0.00 46.84 2.75
145 154 9.731519 GAAATAATTGAAGAAAAAGATTGCACG 57.268 29.630 0.00 0.00 0.00 5.34
157 168 9.965824 AAGCGAGAAAAAGAAATAATTGAAGAA 57.034 25.926 0.00 0.00 0.00 2.52
159 170 8.158445 GCAAGCGAGAAAAAGAAATAATTGAAG 58.842 33.333 0.00 0.00 0.00 3.02
164 175 8.538409 AAATGCAAGCGAGAAAAAGAAATAAT 57.462 26.923 0.00 0.00 0.00 1.28
167 178 6.849588 AAAATGCAAGCGAGAAAAAGAAAT 57.150 29.167 0.00 0.00 0.00 2.17
168 179 7.491048 ACTTAAAATGCAAGCGAGAAAAAGAAA 59.509 29.630 0.00 0.00 0.00 2.52
171 182 6.417635 TGACTTAAAATGCAAGCGAGAAAAAG 59.582 34.615 0.00 0.00 0.00 2.27
175 186 4.515191 AGTGACTTAAAATGCAAGCGAGAA 59.485 37.500 0.00 0.00 0.00 2.87
180 191 5.812665 GTCAAGTGACTTAAAATGCAAGC 57.187 39.130 0.00 0.00 41.65 4.01
197 218 6.931281 TGAGATTTAACCAAGTCTCAGTCAAG 59.069 38.462 8.09 0.00 46.61 3.02
204 225 6.814146 AGTCGATTGAGATTTAACCAAGTCTC 59.186 38.462 0.00 3.67 44.01 3.36
228 249 1.867363 AGGGTGTGGCTAGGTCTTAG 58.133 55.000 0.00 0.00 0.00 2.18
230 251 2.188817 CTAAGGGTGTGGCTAGGTCTT 58.811 52.381 0.00 0.00 0.00 3.01
268 289 9.907229 CACCTAAATCTTAACTCCCTAAAGAAT 57.093 33.333 0.00 0.00 33.26 2.40
322 343 3.826729 GCCCACAAACCTTAACTCTTCAT 59.173 43.478 0.00 0.00 0.00 2.57
335 356 2.289010 CCCTGAATTTCAGCCCACAAAC 60.289 50.000 19.04 0.00 42.98 2.93
346 367 6.357367 TCCTATAGCTGAAACCCTGAATTTC 58.643 40.000 0.00 0.00 36.73 2.17
397 1630 4.227864 CCTCTCTAGGGCAGTGATTTTT 57.772 45.455 0.00 0.00 39.48 1.94
431 1664 1.408969 AACATGGCCGAGTTTTTGGT 58.591 45.000 6.79 0.00 0.00 3.67
441 1674 3.651803 TCAAAAACCTTAACATGGCCG 57.348 42.857 0.00 0.00 0.00 6.13
595 1855 1.608336 CGGGGTAGAGTGGTGGTGA 60.608 63.158 0.00 0.00 0.00 4.02
648 1930 3.382832 CCGCGGAGGAGAGTGGTT 61.383 66.667 24.07 0.00 45.00 3.67
666 1948 1.678970 GGGGTTGACACAGGGATGC 60.679 63.158 0.00 0.00 0.00 3.91
739 2023 2.046507 CAGGCAGCAGAGGTGGTC 60.047 66.667 0.00 0.00 29.64 4.02
744 2028 2.119801 AATAACACAGGCAGCAGAGG 57.880 50.000 0.00 0.00 0.00 3.69
745 2029 2.604914 CGTAATAACACAGGCAGCAGAG 59.395 50.000 0.00 0.00 0.00 3.35
746 2030 2.616960 CGTAATAACACAGGCAGCAGA 58.383 47.619 0.00 0.00 0.00 4.26
747 2031 1.062587 GCGTAATAACACAGGCAGCAG 59.937 52.381 0.00 0.00 0.00 4.24
748 2032 1.083489 GCGTAATAACACAGGCAGCA 58.917 50.000 0.00 0.00 0.00 4.41
773 2057 1.066454 GATTATTTCCCCCAAACGCCG 59.934 52.381 0.00 0.00 0.00 6.46
774 2058 2.361119 GAGATTATTTCCCCCAAACGCC 59.639 50.000 0.00 0.00 0.00 5.68
802 2087 1.453379 CTCTTCTCCCGCCTCCGTA 60.453 63.158 0.00 0.00 0.00 4.02
822 2107 0.804989 CCGATTGCACAAGGAACTCC 59.195 55.000 0.00 0.00 38.49 3.85
825 2110 0.608035 TCCCCGATTGCACAAGGAAC 60.608 55.000 2.38 0.00 0.00 3.62
885 2209 2.436173 CCTCCTCCTCCTGATTACAACC 59.564 54.545 0.00 0.00 0.00 3.77
912 2395 2.123342 GAGCTGACCTGATTCGAATCG 58.877 52.381 28.07 22.31 38.26 3.34
963 2446 0.107897 AATGGCTTCGGCGTATGTGA 60.108 50.000 6.85 0.00 42.91 3.58
964 2447 0.732571 AAATGGCTTCGGCGTATGTG 59.267 50.000 6.85 0.00 42.91 3.21
974 2458 3.378112 TGATCGGATCAACAAATGGCTTC 59.622 43.478 17.94 0.00 36.11 3.86
1431 3195 3.849574 TCCAATGGTTAGGGAGACATCAA 59.150 43.478 0.00 0.00 0.00 2.57
1705 3629 1.004918 CCCTGAGTCACAACGGGTC 60.005 63.158 6.96 0.00 31.63 4.46
2118 4079 3.125316 CGTGAGTAGTTTTGGGCATTCTC 59.875 47.826 0.00 0.00 0.00 2.87
2401 4364 5.712446 TCATAAAATTGTCATCGGGTTGGAA 59.288 36.000 0.00 0.00 0.00 3.53
2402 4365 5.257262 TCATAAAATTGTCATCGGGTTGGA 58.743 37.500 0.00 0.00 0.00 3.53
2680 4643 7.159372 AGTGATCTAAACGTCCTACATTTGTT 58.841 34.615 0.00 0.00 0.00 2.83
2717 4680 6.432107 TGTAAAGAAATGCCAGACGTTTTAC 58.568 36.000 0.00 0.00 37.62 2.01
2794 4757 7.175641 ACAATAACTTTCATCAACTCCTTCCAG 59.824 37.037 0.00 0.00 0.00 3.86
2859 4835 5.205056 TCACAAACACCAAAATACTTCCCT 58.795 37.500 0.00 0.00 0.00 4.20
2870 4846 2.296752 CAGGATGCATCACAAACACCAA 59.703 45.455 27.25 0.00 0.00 3.67
2999 4975 6.331369 TCAAAAGGAACATCAAAGGACATC 57.669 37.500 0.00 0.00 0.00 3.06
3151 5129 6.040504 ACTTTCCTTGGGTAATTTTCTGTGTC 59.959 38.462 0.00 0.00 0.00 3.67
3159 5137 8.764558 AGTGTAAAAACTTTCCTTGGGTAATTT 58.235 29.630 0.00 0.00 0.00 1.82
3355 5334 3.825014 CTGCTATTAAGATGCCTGCCATT 59.175 43.478 0.00 0.00 33.29 3.16


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

AutoCloner maintained by Alex Coulton.