Multiple sequence alignment - TraesCS6D01G241500

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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 TraesCS6D01G241500 chr6D 100.000 2312 0 0 1 2312 343677820 343675509 0.000000e+00 4270.0
1 TraesCS6D01G241500 chr6D 88.736 364 33 7 1596 1954 195978867 195979227 2.730000e-119 438.0
2 TraesCS6D01G241500 chr6D 93.252 163 11 0 1395 1557 195978701 195978863 8.250000e-60 241.0
3 TraesCS6D01G241500 chr6B 91.563 1529 87 23 465 1970 518679778 518678269 0.000000e+00 2071.0
4 TraesCS6D01G241500 chr6B 86.081 467 39 1 2 468 518680490 518680050 1.610000e-131 479.0
5 TraesCS6D01G241500 chr6B 86.774 310 21 12 1970 2267 518678215 518677914 6.160000e-86 327.0
6 TraesCS6D01G241500 chr6A 91.685 914 46 13 463 1362 484079983 484079086 0.000000e+00 1240.0
7 TraesCS6D01G241500 chr6A 87.780 581 39 14 1400 1970 484078743 484078185 0.000000e+00 651.0
8 TraesCS6D01G241500 chr6A 87.680 487 37 6 1 486 484081944 484081480 1.560000e-151 545.0
9 TraesCS6D01G241500 chr6A 86.817 311 18 8 1972 2267 484078129 484077827 2.220000e-85 326.0
10 TraesCS6D01G241500 chr2D 96.825 315 10 0 996 1310 498766983 498767297 5.660000e-146 527.0
11 TraesCS6D01G241500 chr2A 96.508 315 11 0 996 1310 643438489 643438803 2.630000e-144 521.0
12 TraesCS6D01G241500 chr2A 96.154 312 12 0 999 1310 673419994 673420305 5.700000e-141 510.0
13 TraesCS6D01G241500 chr2A 93.750 48 3 0 2264 2311 752013360 752013407 3.190000e-09 73.1
14 TraesCS6D01G241500 chr2B 96.190 315 12 0 996 1310 628157104 628157418 1.220000e-142 516.0
15 TraesCS6D01G241500 chr2B 95.873 315 13 0 996 1310 585890278 585890592 5.700000e-141 510.0
16 TraesCS6D01G241500 chr2B 97.917 48 1 0 2264 2311 596777321 596777368 1.470000e-12 84.2
17 TraesCS6D01G241500 chr1A 95.899 317 11 2 1001 1317 485012905 485012591 1.580000e-141 512.0
18 TraesCS6D01G241500 chr3A 95.873 315 13 0 998 1312 596485445 596485759 5.700000e-141 510.0
19 TraesCS6D01G241500 chr3A 87.173 382 35 10 1582 1954 502782107 502782483 2.750000e-114 422.0
20 TraesCS6D01G241500 chr3A 97.959 49 1 0 2264 2312 93333737 93333785 4.090000e-13 86.1
21 TraesCS6D01G241500 chr3A 92.308 52 4 0 2261 2312 154028901 154028850 8.860000e-10 75.0
22 TraesCS6D01G241500 chr7D 88.189 381 31 9 1582 1954 103192321 103191947 2.110000e-120 442.0
23 TraesCS6D01G241500 chr7D 87.451 255 20 7 1582 1826 538580159 538580411 1.350000e-72 283.0
24 TraesCS6D01G241500 chr7D 87.302 252 23 6 1582 1826 638018210 638018459 1.750000e-71 279.0
25 TraesCS6D01G241500 chr5D 87.938 257 20 5 1582 1829 300555096 300554842 2.250000e-75 292.0
26 TraesCS6D01G241500 chr4D 87.008 254 22 5 1582 1826 242981811 242981560 2.260000e-70 276.0
27 TraesCS6D01G241500 chr7A 97.872 47 1 0 2266 2312 119508997 119508951 5.290000e-12 82.4
28 TraesCS6D01G241500 chr7A 93.478 46 3 0 2266 2311 533571949 533571994 4.120000e-08 69.4
29 TraesCS6D01G241500 chr3D 97.826 46 1 0 2266 2311 452583953 452583908 1.900000e-11 80.5
30 TraesCS6D01G241500 chr4B 92.857 42 2 1 2266 2306 620968355 620968314 2.480000e-05 60.2


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 TraesCS6D01G241500 chr6D 343675509 343677820 2311 True 4270.0 4270 100.000000 1 2312 1 chr6D.!!$R1 2311
1 TraesCS6D01G241500 chr6D 195978701 195979227 526 False 339.5 438 90.994000 1395 1954 2 chr6D.!!$F1 559
2 TraesCS6D01G241500 chr6B 518677914 518680490 2576 True 959.0 2071 88.139333 2 2267 3 chr6B.!!$R1 2265
3 TraesCS6D01G241500 chr6A 484077827 484081944 4117 True 690.5 1240 88.490500 1 2267 4 chr6A.!!$R1 2266

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
666 2199 0.033504 CAACTGTAGCCACGTCACCT 59.966 55.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1683 3537 0.392998 AGTGCGGACCAAAGCCATAG 60.393 55.0 2.38 0.0 0.0 2.23 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 5.293324 TCCGATACTGGTCAAATCAAATTCG 59.707 40.000 0.00 0.00 0.00 3.34
34 35 4.987912 TGGTCAAATCAAATTCGGCTTTTC 59.012 37.500 0.00 0.00 0.00 2.29
37 38 5.572896 GTCAAATCAAATTCGGCTTTTCGAT 59.427 36.000 0.00 0.00 39.03 3.59
43 44 0.239879 TTCGGCTTTTCGATTGTGCC 59.760 50.000 8.56 8.56 39.03 5.01
151 152 3.636231 CACCCTGAGCCCGTTGGA 61.636 66.667 0.00 0.00 0.00 3.53
203 204 6.346096 TCCCTTCGATTCGAATTAATTGACT 58.654 36.000 20.77 0.00 44.85 3.41
284 285 9.614792 ACTGAATGGATAACTTTTATGTAGACC 57.385 33.333 0.00 0.00 0.00 3.85
327 328 8.086522 CCAATCAGAAAGCCCAAAATATCATAG 58.913 37.037 0.00 0.00 0.00 2.23
375 376 3.663202 GGTACCAACCAAGCACCG 58.337 61.111 7.15 0.00 45.98 4.94
379 380 2.429478 GTACCAACCAAGCACCGTAAT 58.571 47.619 0.00 0.00 0.00 1.89
391 392 5.372547 AGCACCGTAATTCTTCCTTTTTC 57.627 39.130 0.00 0.00 0.00 2.29
636 2169 3.103911 GACGTCGTTGGCCACTCG 61.104 66.667 19.56 19.56 0.00 4.18
637 2170 3.547249 GACGTCGTTGGCCACTCGA 62.547 63.158 22.87 22.87 0.00 4.04
638 2171 3.103911 CGTCGTTGGCCACTCGAC 61.104 66.667 34.02 34.02 46.57 4.20
640 2173 2.338620 TCGTTGGCCACTCGACAG 59.661 61.111 22.87 8.81 0.00 3.51
641 2174 2.029073 CGTTGGCCACTCGACAGT 59.971 61.111 20.59 0.00 0.00 3.55
642 2175 2.022129 CGTTGGCCACTCGACAGTC 61.022 63.158 20.59 0.00 0.00 3.51
643 2176 2.022129 GTTGGCCACTCGACAGTCG 61.022 63.158 17.33 17.33 42.10 4.18
666 2199 0.033504 CAACTGTAGCCACGTCACCT 59.966 55.000 0.00 0.00 0.00 4.00
682 2215 3.912907 CTATCCGCGCCGAACCCT 61.913 66.667 0.00 0.00 0.00 4.34
785 2320 4.083862 AGAAGGAACGCCCCTCGC 62.084 66.667 0.00 0.00 43.23 5.03
824 2359 3.496884 TCAAACGAATCCTTCCAACGAAG 59.503 43.478 0.00 0.00 44.47 3.79
871 2408 0.821711 CGCTCAAACCCCAAACCAGA 60.822 55.000 0.00 0.00 0.00 3.86
872 2409 1.632589 GCTCAAACCCCAAACCAGAT 58.367 50.000 0.00 0.00 0.00 2.90
877 2414 1.077298 AACCCCAAACCAGATCCCCA 61.077 55.000 0.00 0.00 0.00 4.96
920 2466 1.975680 TCGCCTATAAATCTCACCCCC 59.024 52.381 0.00 0.00 0.00 5.40
962 2508 0.468226 AACTCCACAGCGACTCCAAA 59.532 50.000 0.00 0.00 0.00 3.28
964 2510 1.338200 ACTCCACAGCGACTCCAAATC 60.338 52.381 0.00 0.00 0.00 2.17
967 2513 1.066573 CCACAGCGACTCCAAATCTCT 60.067 52.381 0.00 0.00 0.00 3.10
969 2515 1.135257 ACAGCGACTCCAAATCTCTCG 60.135 52.381 0.00 0.00 0.00 4.04
1356 2902 0.181114 TGACACTGCTGTTTCCTGCT 59.819 50.000 7.34 0.00 36.57 4.24
1370 2916 2.251818 TCCTGCTTTGCTCTGTAGTCT 58.748 47.619 0.00 0.00 0.00 3.24
1373 2919 3.929610 CCTGCTTTGCTCTGTAGTCTTAC 59.070 47.826 0.00 0.00 0.00 2.34
1526 3379 7.878477 AAAACATCATGTCTGCTTATGTTTG 57.122 32.000 15.88 0.00 45.27 2.93
1578 3431 3.320626 TGAAGAAATCGAGTGACAGCTG 58.679 45.455 13.48 13.48 0.00 4.24
1591 3444 6.073548 CGAGTGACAGCTGAAGTTAAATCTTT 60.074 38.462 23.35 0.00 0.00 2.52
1640 3494 2.808543 GTTTGGTTCTGCAGAGTGGTAG 59.191 50.000 17.43 0.00 0.00 3.18
1651 3505 4.467438 TGCAGAGTGGTAGATTCAATCTCA 59.533 41.667 2.18 0.00 37.45 3.27
1683 3537 5.480205 TGGGTTTGTGTTCCTTTGTTTTAC 58.520 37.500 0.00 0.00 0.00 2.01
1685 3539 6.436532 TGGGTTTGTGTTCCTTTGTTTTACTA 59.563 34.615 0.00 0.00 0.00 1.82
1694 3548 6.339587 TCCTTTGTTTTACTATGGCTTTGG 57.660 37.500 0.00 0.00 0.00 3.28
1699 3553 2.032680 TTACTATGGCTTTGGTCCGC 57.967 50.000 0.00 0.00 0.00 5.54
1710 3565 0.466543 TTGGTCCGCACTGTAGTTGT 59.533 50.000 0.00 0.00 0.00 3.32
1761 3625 9.294030 CTTGTTTCATTCTGGTAGAAAATATGC 57.706 33.333 0.00 0.00 37.82 3.14
1811 3675 5.649395 GGAAATCCTGATCTTGACATTGTGA 59.351 40.000 0.00 0.00 0.00 3.58
1853 3717 8.601047 TTCTTCTCTGATCTCCAATAAAGAGA 57.399 34.615 2.01 2.01 44.20 3.10
1854 3718 8.601047 TCTTCTCTGATCTCCAATAAAGAGAA 57.399 34.615 13.93 13.93 44.39 2.87
1924 3788 3.318839 CACAAAGAATTGCTCTGGTTCCA 59.681 43.478 0.00 0.00 40.34 3.53
1927 3791 5.954150 ACAAAGAATTGCTCTGGTTCCATAT 59.046 36.000 0.00 0.00 40.34 1.78
2004 3924 3.988379 TTTAGTTTGCTGAAGCCACAG 57.012 42.857 0.00 3.75 41.18 3.66
2024 3944 5.349817 CACAGGCTTACAAATCTGTCACTAG 59.650 44.000 0.00 0.00 38.27 2.57
2025 3945 4.872691 CAGGCTTACAAATCTGTCACTAGG 59.127 45.833 0.00 0.00 36.96 3.02
2026 3946 4.777896 AGGCTTACAAATCTGTCACTAGGA 59.222 41.667 0.00 0.00 36.96 2.94
2028 3948 6.611642 AGGCTTACAAATCTGTCACTAGGATA 59.388 38.462 0.00 0.00 36.96 2.59
2065 4000 3.370978 ACGTTTGTTGTCAGTGTTCAGAG 59.629 43.478 0.00 0.00 0.00 3.35
2103 4038 3.695830 TGACTGGTTCCTGTGGATAAC 57.304 47.619 6.12 0.00 0.00 1.89
2147 4082 1.608717 AAGCCGGTCTCCAGCTGTAG 61.609 60.000 13.81 6.44 36.84 2.74
2148 4083 3.082579 GCCGGTCTCCAGCTGTAGG 62.083 68.421 13.81 7.40 0.00 3.18
2151 4086 0.895530 CGGTCTCCAGCTGTAGGAAA 59.104 55.000 13.81 0.00 34.08 3.13
2152 4087 1.404315 CGGTCTCCAGCTGTAGGAAAC 60.404 57.143 13.81 0.00 34.08 2.78
2153 4088 1.066071 GGTCTCCAGCTGTAGGAAACC 60.066 57.143 13.81 5.60 38.98 3.27
2154 4089 1.623811 GTCTCCAGCTGTAGGAAACCA 59.376 52.381 13.81 0.00 34.08 3.67
2155 4090 1.623811 TCTCCAGCTGTAGGAAACCAC 59.376 52.381 13.81 0.00 34.08 4.16
2156 4091 1.347707 CTCCAGCTGTAGGAAACCACA 59.652 52.381 13.81 0.00 34.08 4.17
2157 4092 1.347707 TCCAGCTGTAGGAAACCACAG 59.652 52.381 13.81 12.46 44.07 3.66
2162 4097 3.678056 CTGTAGGAAACCACAGCTACA 57.322 47.619 0.00 0.00 36.09 2.74
2199 4134 1.134580 GCAGATGAGCAGCCACTAGAA 60.135 52.381 0.00 0.00 0.00 2.10
2208 4143 4.285863 AGCAGCCACTAGAACTCTAGAAT 58.714 43.478 18.52 0.00 46.80 2.40
2269 4204 7.916552 TGACAGAAACAAAAGTTAGTAAGAGC 58.083 34.615 0.00 0.00 0.00 4.09
2270 4205 7.551262 TGACAGAAACAAAAGTTAGTAAGAGCA 59.449 33.333 0.00 0.00 0.00 4.26
2271 4206 8.276252 ACAGAAACAAAAGTTAGTAAGAGCAA 57.724 30.769 0.00 0.00 0.00 3.91
2272 4207 8.182227 ACAGAAACAAAAGTTAGTAAGAGCAAC 58.818 33.333 0.00 0.00 0.00 4.17
2273 4208 8.398665 CAGAAACAAAAGTTAGTAAGAGCAACT 58.601 33.333 0.00 0.00 34.03 3.16
2274 4209 8.613482 AGAAACAAAAGTTAGTAAGAGCAACTC 58.387 33.333 0.00 0.00 31.43 3.01
2275 4210 6.862711 ACAAAAGTTAGTAAGAGCAACTCC 57.137 37.500 0.00 0.00 31.43 3.85
2276 4211 6.354130 ACAAAAGTTAGTAAGAGCAACTCCA 58.646 36.000 0.00 0.00 31.43 3.86
2277 4212 6.826741 ACAAAAGTTAGTAAGAGCAACTCCAA 59.173 34.615 0.00 0.00 31.43 3.53
2278 4213 6.862711 AAAGTTAGTAAGAGCAACTCCAAC 57.137 37.500 0.00 0.00 31.43 3.77
2279 4214 4.557205 AGTTAGTAAGAGCAACTCCAACG 58.443 43.478 0.00 0.00 0.00 4.10
2280 4215 2.457366 AGTAAGAGCAACTCCAACGG 57.543 50.000 0.00 0.00 0.00 4.44
2281 4216 1.968493 AGTAAGAGCAACTCCAACGGA 59.032 47.619 0.00 0.00 0.00 4.69
2282 4217 2.067013 GTAAGAGCAACTCCAACGGAC 58.933 52.381 0.00 0.00 0.00 4.79
2283 4218 0.250338 AAGAGCAACTCCAACGGACC 60.250 55.000 0.00 0.00 0.00 4.46
2284 4219 2.027625 GAGCAACTCCAACGGACCG 61.028 63.158 13.61 13.61 0.00 4.79
2285 4220 2.029964 GCAACTCCAACGGACCGA 59.970 61.111 23.38 0.00 0.00 4.69
2286 4221 1.375523 GCAACTCCAACGGACCGAT 60.376 57.895 23.38 5.64 0.00 4.18
2287 4222 1.359459 GCAACTCCAACGGACCGATC 61.359 60.000 23.38 0.00 0.00 3.69
2288 4223 0.739813 CAACTCCAACGGACCGATCC 60.740 60.000 23.38 0.00 42.28 3.36
2289 4224 1.189524 AACTCCAACGGACCGATCCA 61.190 55.000 23.38 0.27 46.67 3.41
2290 4225 1.189524 ACTCCAACGGACCGATCCAA 61.190 55.000 23.38 0.65 46.67 3.53
2291 4226 0.036765 CTCCAACGGACCGATCCAAA 60.037 55.000 23.38 0.00 46.67 3.28
2292 4227 0.320946 TCCAACGGACCGATCCAAAC 60.321 55.000 23.38 0.00 46.67 2.93
2293 4228 1.632046 CCAACGGACCGATCCAAACG 61.632 60.000 23.38 0.00 46.67 3.60
2300 4235 3.550992 CGATCCAAACGGACGGCG 61.551 66.667 4.80 4.80 34.62 6.46
2301 4236 2.433664 GATCCAAACGGACGGCGT 60.434 61.111 14.65 14.65 34.62 5.68
2302 4237 2.030958 GATCCAAACGGACGGCGTT 61.031 57.895 16.19 0.00 34.62 4.84
2303 4238 1.571215 GATCCAAACGGACGGCGTTT 61.571 55.000 16.19 0.70 39.72 3.60
2304 4239 1.167781 ATCCAAACGGACGGCGTTTT 61.168 50.000 16.19 8.33 37.45 2.43
2305 4240 1.064458 CCAAACGGACGGCGTTTTT 59.936 52.632 16.19 11.54 37.45 1.94
2306 4241 1.203600 CCAAACGGACGGCGTTTTTG 61.204 55.000 24.20 24.20 37.45 2.44
2307 4242 0.523757 CAAACGGACGGCGTTTTTGT 60.524 50.000 23.44 14.66 37.45 2.83
2308 4243 0.248175 AAACGGACGGCGTTTTTGTC 60.248 50.000 16.19 0.00 36.32 3.18
2309 4244 2.050639 AACGGACGGCGTTTTTGTCC 62.051 55.000 16.19 8.73 46.91 4.02
2311 4246 2.426261 GACGGCGTTTTTGTCCGC 60.426 61.111 16.19 0.00 46.49 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 5.925969 ACAATCGAAAAGCCGAATTTGATTT 59.074 32.000 0.00 0.00 42.22 2.17
215 216 4.277423 TCGATGACGCATCCTCTATACAAA 59.723 41.667 12.27 0.00 37.57 2.83
222 223 0.387202 CCTTCGATGACGCATCCTCT 59.613 55.000 12.27 0.00 37.57 3.69
229 230 2.288961 TTTACTCCCTTCGATGACGC 57.711 50.000 0.00 0.00 39.58 5.19
375 376 6.796705 TCAGTCGGAAAAAGGAAGAATTAC 57.203 37.500 0.00 0.00 0.00 1.89
391 392 4.497507 GGGAAAACTCAGTTTTTCAGTCGG 60.498 45.833 20.85 0.00 44.33 4.79
449 451 1.066143 CATTAGCTCGTTGGGGTCAGT 60.066 52.381 0.00 0.00 0.00 3.41
639 2172 1.037493 TGGCTACAGTTGTGTCGACT 58.963 50.000 17.92 0.00 38.19 4.18
640 2173 1.137513 GTGGCTACAGTTGTGTCGAC 58.862 55.000 9.11 9.11 38.19 4.20
641 2174 0.318360 CGTGGCTACAGTTGTGTCGA 60.318 55.000 0.00 0.00 38.19 4.20
642 2175 0.596600 ACGTGGCTACAGTTGTGTCG 60.597 55.000 0.00 0.00 38.19 4.35
643 2176 1.137513 GACGTGGCTACAGTTGTGTC 58.862 55.000 0.00 0.00 38.19 3.67
666 2199 4.215742 CAGGGTTCGGCGCGGATA 62.216 66.667 18.95 7.08 34.93 2.59
682 2215 2.698797 GGATGGAGGTAGATTCGGAACA 59.301 50.000 0.00 0.00 0.00 3.18
759 2292 1.671850 GGCGTTCCTTCTGTTGATCGA 60.672 52.381 0.00 0.00 0.00 3.59
785 2320 0.459899 TGAGACGTCGGATTGGGATG 59.540 55.000 10.46 0.00 0.00 3.51
824 2359 2.696759 CGGTTTTCACGGGATGGGC 61.697 63.158 0.00 0.00 0.00 5.36
877 2414 3.739613 GGATTTGGGAGGCGGGGT 61.740 66.667 0.00 0.00 0.00 4.95
920 2466 0.178767 TGAGGAGGTGATGCGGATTG 59.821 55.000 0.00 0.00 0.00 2.67
962 2508 2.428544 AGCTGTCTACCACGAGAGAT 57.571 50.000 0.00 0.00 0.00 2.75
964 2510 1.133407 GGAAGCTGTCTACCACGAGAG 59.867 57.143 0.00 0.00 0.00 3.20
967 2513 1.476891 GATGGAAGCTGTCTACCACGA 59.523 52.381 0.00 0.00 35.19 4.35
969 2515 2.497675 TGAGATGGAAGCTGTCTACCAC 59.502 50.000 0.00 0.00 35.19 4.16
1116 2662 3.612247 CTTCACACCGCCCCTCCTG 62.612 68.421 0.00 0.00 0.00 3.86
1128 2674 2.125552 CCCGAGATGCGCTTCACA 60.126 61.111 23.42 0.00 39.11 3.58
1329 2875 4.694233 AGCAGTGTCAGCCAGCGG 62.694 66.667 0.00 0.00 0.00 5.52
1341 2887 0.386838 GCAAAGCAGGAAACAGCAGT 59.613 50.000 0.00 0.00 46.80 4.40
1356 2902 3.514309 GGGGAGTAAGACTACAGAGCAAA 59.486 47.826 0.00 0.00 27.88 3.68
1381 2927 3.071459 GCGCACTGGATTCACGACG 62.071 63.158 0.30 0.00 0.00 5.12
1392 2938 2.110967 AAGCATAGCCAGCGCACTG 61.111 57.895 11.47 0.00 44.05 3.66
1526 3379 9.141400 CTCCAATACTAGAAGCCGATATTAAAC 57.859 37.037 0.00 0.00 0.00 2.01
1548 3401 4.937620 CACTCGATTTCTTCAATTCCTCCA 59.062 41.667 0.00 0.00 0.00 3.86
1591 3444 4.081087 GGGTTCTTCCAGCTCTATACACAA 60.081 45.833 0.00 0.00 38.11 3.33
1602 3456 0.538287 AACTGCAGGGTTCTTCCAGC 60.538 55.000 19.93 0.00 38.62 4.85
1640 3494 5.066505 ACCCATAAAGCGTTGAGATTGAATC 59.933 40.000 0.00 0.00 0.00 2.52
1651 3505 3.243602 GGAACACAAACCCATAAAGCGTT 60.244 43.478 0.00 0.00 0.00 4.84
1683 3537 0.392998 AGTGCGGACCAAAGCCATAG 60.393 55.000 2.38 0.00 0.00 2.23
1685 3539 1.973281 CAGTGCGGACCAAAGCCAT 60.973 57.895 2.38 0.00 0.00 4.40
1694 3548 2.228343 ACTAGACAACTACAGTGCGGAC 59.772 50.000 0.00 0.00 0.00 4.79
1699 3553 4.871513 TGCAGAACTAGACAACTACAGTG 58.128 43.478 0.00 0.00 0.00 3.66
1761 3625 6.199531 CACAAAAGTTGATGATGTTCCAGTTG 59.800 38.462 0.00 0.00 0.00 3.16
1933 3797 4.285863 TGAAAAACAAGAGGAACCACCAT 58.714 39.130 0.00 0.00 42.04 3.55
1980 3900 4.202010 TGTGGCTTCAGCAAACTAAAACTC 60.202 41.667 0.30 0.00 44.36 3.01
2004 3924 5.086104 TCCTAGTGACAGATTTGTAAGCC 57.914 43.478 0.00 0.00 37.76 4.35
2024 3944 9.971922 ACAAACGTATGGTTACTAGTATTATCC 57.028 33.333 2.79 5.41 38.08 2.59
2028 3948 9.143631 GACAACAAACGTATGGTTACTAGTATT 57.856 33.333 2.79 0.00 38.08 1.89
2032 3967 6.643770 ACTGACAACAAACGTATGGTTACTAG 59.356 38.462 0.00 0.00 38.08 2.57
2065 4000 2.094417 GTCAACACGCTTCTAATCTGCC 59.906 50.000 0.00 0.00 0.00 4.85
2122 4057 0.460987 CTGGAGACCGGCTTCATCAC 60.461 60.000 0.00 0.00 29.75 3.06
2160 4095 9.301897 TCATCTGCTTATGAGTACTACATATGT 57.698 33.333 13.93 13.93 32.18 2.29
2161 4096 9.786105 CTCATCTGCTTATGAGTACTACATATG 57.214 37.037 16.34 0.00 45.19 1.78
2175 4110 1.489649 AGTGGCTGCTCATCTGCTTAT 59.510 47.619 0.00 0.00 39.31 1.73
2184 4119 1.930251 AGAGTTCTAGTGGCTGCTCA 58.070 50.000 0.00 0.00 0.00 4.26
2199 4134 6.707161 ACGAGCTTTACGATCTATTCTAGAGT 59.293 38.462 0.00 0.00 38.38 3.24
2208 4143 2.794981 GCTGCACGAGCTTTACGATCTA 60.795 50.000 6.36 0.00 45.21 1.98
2267 4202 1.827399 ATCGGTCCGTTGGAGTTGCT 61.827 55.000 11.88 0.00 29.39 3.91
2268 4203 1.359459 GATCGGTCCGTTGGAGTTGC 61.359 60.000 11.88 0.00 29.39 4.17
2269 4204 0.739813 GGATCGGTCCGTTGGAGTTG 60.740 60.000 11.88 0.00 34.13 3.16
2270 4205 1.595357 GGATCGGTCCGTTGGAGTT 59.405 57.895 11.88 0.00 34.13 3.01
2271 4206 3.295800 GGATCGGTCCGTTGGAGT 58.704 61.111 11.88 0.00 34.13 3.85
2292 4227 2.250190 GGACAAAAACGCCGTCCG 59.750 61.111 0.00 0.00 39.86 4.79
2293 4228 2.250190 CGGACAAAAACGCCGTCC 59.750 61.111 0.00 0.00 44.79 4.79


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

AutoCloner maintained by Alex Coulton.