Multiple sequence alignment - TraesCS6D01G186400

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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 TraesCS6D01G186400 chr6D 100.000 4874 0 0 1 4874 245268776 245273649 0.000000e+00 9001.0
1 TraesCS6D01G186400 chr6B 97.521 3913 75 12 122 4031 403191754 403187861 0.000000e+00 6669.0
2 TraesCS6D01G186400 chr6B 90.038 793 34 16 4092 4874 403187876 403187119 0.000000e+00 985.0
3 TraesCS6D01G186400 chr6B 79.439 107 21 1 4598 4703 716337967 716338073 1.880000e-09 75.0
4 TraesCS6D01G186400 chr6B 93.750 48 3 0 710 757 271829976 271830023 6.770000e-09 73.1
5 TraesCS6D01G186400 chr6B 92.308 52 2 2 708 757 617617753 617617804 6.770000e-09 73.1
6 TraesCS6D01G186400 chr6A 93.782 1769 63 15 2517 4263 362715192 362713449 0.000000e+00 2614.0
7 TraesCS6D01G186400 chr6A 92.608 717 41 5 1024 1729 362730769 362730054 0.000000e+00 1020.0
8 TraesCS6D01G186400 chr6A 91.346 624 36 6 4261 4874 362713409 362712794 0.000000e+00 837.0
9 TraesCS6D01G186400 chr6A 90.724 539 45 3 1730 2264 362729929 362729392 0.000000e+00 713.0
10 TraesCS6D01G186400 chr6A 92.308 273 21 0 757 1029 362731200 362730928 5.920000e-104 388.0
11 TraesCS6D01G186400 chr6A 91.429 140 11 1 585 723 362731435 362731296 1.790000e-44 191.0
12 TraesCS6D01G186400 chr6A 92.308 117 5 2 2376 2488 362729396 362729280 3.900000e-36 163.0
13 TraesCS6D01G186400 chr6A 89.844 128 11 1 147 274 362731553 362731428 3.900000e-36 163.0
14 TraesCS6D01G186400 chr2D 88.509 322 28 3 271 584 218034301 218034621 9.900000e-102 381.0
15 TraesCS6D01G186400 chr2D 88.256 281 27 1 271 545 386492451 386492171 1.010000e-86 331.0
16 TraesCS6D01G186400 chr2D 75.648 193 26 14 4267 4440 77111337 77111147 5.230000e-10 76.8
17 TraesCS6D01G186400 chr2B 88.509 322 27 4 271 584 331019143 331018824 9.900000e-102 381.0
18 TraesCS6D01G186400 chr2B 76.842 190 32 10 4266 4450 504191035 504191217 4.020000e-16 97.1
19 TraesCS6D01G186400 chr2B 89.041 73 4 4 2312 2382 158149065 158149135 2.420000e-13 87.9
20 TraesCS6D01G186400 chr2B 89.231 65 6 1 4266 4329 34041370 34041306 4.040000e-11 80.5
21 TraesCS6D01G186400 chr7A 87.500 328 32 2 268 587 503428502 503428828 2.140000e-98 370.0
22 TraesCS6D01G186400 chr7A 98.361 122 2 0 1 122 224178332 224178211 1.060000e-51 215.0
23 TraesCS6D01G186400 chr7A 85.950 121 12 3 1307 1424 348176966 348177084 1.840000e-24 124.0
24 TraesCS6D01G186400 chr7A 76.733 202 28 10 4266 4451 192846926 192846728 1.440000e-15 95.3
25 TraesCS6D01G186400 chr2A 87.107 318 33 4 271 582 522502305 522501990 2.160000e-93 353.0
26 TraesCS6D01G186400 chr2A 86.738 279 25 10 300 575 608653983 608653714 2.850000e-77 300.0
27 TraesCS6D01G186400 chr2A 96.850 127 3 1 1 126 681243105 681243231 1.370000e-50 211.0
28 TraesCS6D01G186400 chr4D 90.119 253 21 4 334 584 474580635 474580885 4.700000e-85 326.0
29 TraesCS6D01G186400 chr4D 77.551 196 26 10 4266 4446 485483321 485483513 8.630000e-18 102.0
30 TraesCS6D01G186400 chr4D 89.189 74 4 4 2312 2383 62309565 62309494 6.720000e-14 89.8
31 TraesCS6D01G186400 chr4D 89.041 73 4 4 2312 2382 39220605 39220535 2.420000e-13 87.9
32 TraesCS6D01G186400 chr4D 96.970 33 1 0 1307 1339 253866633 253866601 6.820000e-04 56.5
33 TraesCS6D01G186400 chr4B 85.185 324 34 8 270 585 103805571 103805254 2.190000e-83 320.0
34 TraesCS6D01G186400 chr4B 89.474 76 4 4 2312 2385 19743485 19743412 5.190000e-15 93.5
35 TraesCS6D01G186400 chr7D 83.434 332 43 7 268 589 199026809 199026480 1.030000e-76 298.0
36 TraesCS6D01G186400 chr7D 76.216 185 30 8 4282 4454 28195557 28195375 8.690000e-13 86.1
37 TraesCS6D01G186400 chr7D 95.745 47 2 0 711 757 545397529 545397575 5.230000e-10 76.8
38 TraesCS6D01G186400 chr7D 91.071 56 3 2 704 757 567660168 567660223 1.880000e-09 75.0
39 TraesCS6D01G186400 chr3D 83.230 322 39 11 272 584 199208700 199208385 1.030000e-71 281.0
40 TraesCS6D01G186400 chr3D 90.323 62 6 0 4267 4328 277224855 277224916 1.120000e-11 82.4
41 TraesCS6D01G186400 chr3D 75.978 179 31 3 4266 4432 363792437 363792615 1.120000e-11 82.4
42 TraesCS6D01G186400 chr3A 81.646 316 48 9 272 584 313502056 313501748 2.250000e-63 254.0
43 TraesCS6D01G186400 chr3A 82.230 287 46 4 272 557 696904493 696904775 4.870000e-60 243.0
44 TraesCS6D01G186400 chr3A 98.361 122 2 0 1 122 63731771 63731650 1.060000e-51 215.0
45 TraesCS6D01G186400 chr3A 98.361 122 2 0 1 122 313504312 313504191 1.060000e-51 215.0
46 TraesCS6D01G186400 chr3A 97.561 123 3 0 1 123 66273650 66273528 1.370000e-50 211.0
47 TraesCS6D01G186400 chr3A 81.347 193 25 9 1239 1424 356536652 356536840 3.930000e-31 147.0
48 TraesCS6D01G186400 chr3A 92.308 65 4 1 4266 4329 545208804 545208740 1.870000e-14 91.6
49 TraesCS6D01G186400 chr3A 72.727 297 65 8 4579 4860 70490899 70491194 8.690000e-13 86.1
50 TraesCS6D01G186400 chr3A 76.623 154 34 2 4599 4751 10344960 10345112 3.130000e-12 84.2
51 TraesCS6D01G186400 chr5B 98.361 122 2 0 1 122 483955910 483956031 1.060000e-51 215.0
52 TraesCS6D01G186400 chr5B 73.560 382 71 14 4507 4870 496602894 496603263 8.570000e-23 119.0
53 TraesCS6D01G186400 chr5B 89.041 73 4 4 2312 2382 432174769 432174699 2.420000e-13 87.9
54 TraesCS6D01G186400 chr5B 75.521 192 29 14 4274 4463 387746626 387746801 1.450000e-10 78.7
55 TraesCS6D01G186400 chr5B 75.000 188 36 10 4565 4747 694228972 694228791 5.230000e-10 76.8
56 TraesCS6D01G186400 chr1A 98.361 122 2 0 1 122 455941608 455941487 1.060000e-51 215.0
57 TraesCS6D01G186400 chr1A 98.361 122 2 0 1 122 456038220 456038099 1.060000e-51 215.0
58 TraesCS6D01G186400 chr1A 80.541 185 26 8 1246 1424 294137746 294137566 3.060000e-27 134.0
59 TraesCS6D01G186400 chr1B 94.853 136 4 3 1 136 670436997 670437129 4.940000e-50 209.0
60 TraesCS6D01G186400 chr1B 82.500 120 18 3 4605 4722 549595648 549595530 8.630000e-18 102.0
61 TraesCS6D01G186400 chr1B 87.179 78 5 5 2313 2387 3897907 3897982 3.130000e-12 84.2
62 TraesCS6D01G186400 chr1B 90.566 53 5 0 4276 4328 36514172 36514120 2.430000e-08 71.3
63 TraesCS6D01G186400 chr5D 82.162 185 23 8 1246 1424 98746613 98746433 3.040000e-32 150.0
64 TraesCS6D01G186400 chr5D 82.258 124 21 1 4598 4720 505933876 505933999 6.670000e-19 106.0
65 TraesCS6D01G186400 chr5D 76.804 194 28 12 4267 4446 425035860 425036050 5.190000e-15 93.5
66 TraesCS6D01G186400 chr5D 82.474 97 9 8 2312 2402 255700764 255700670 1.450000e-10 78.7
67 TraesCS6D01G186400 chr7B 81.452 124 22 1 4598 4720 246503868 246503991 3.100000e-17 100.0
68 TraesCS6D01G186400 chr7B 78.571 154 31 2 4599 4751 680158576 680158728 3.100000e-17 100.0
69 TraesCS6D01G186400 chr7B 95.745 47 2 0 711 757 589348310 589348356 5.230000e-10 76.8
70 TraesCS6D01G186400 chr7B 87.931 58 7 0 4266 4323 558363449 558363392 8.750000e-08 69.4
71 TraesCS6D01G186400 chr1D 88.312 77 5 4 2312 2386 64325985 64325911 6.720000e-14 89.8
72 TraesCS6D01G186400 chr1D 95.745 47 2 0 711 757 14482405 14482451 5.230000e-10 76.8
73 TraesCS6D01G186400 chr3B 86.667 75 7 3 4264 4336 737496520 737496593 4.040000e-11 80.5
74 TraesCS6D01G186400 chr3B 86.301 73 7 3 4266 4336 737461273 737461344 5.230000e-10 76.8
75 TraesCS6D01G186400 chr3B 93.878 49 2 1 711 759 804729709 804729662 6.770000e-09 73.1
76 TraesCS6D01G186400 chr3B 82.609 69 12 0 4507 4575 482788659 482788591 1.460000e-05 62.1
77 TraesCS6D01G186400 chr5A 85.333 75 11 0 4265 4339 601244239 601244165 1.450000e-10 78.7
78 TraesCS6D01G186400 chr4A 95.745 47 1 1 711 757 477058663 477058618 1.880000e-09 75.0


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 TraesCS6D01G186400 chr6D 245268776 245273649 4873 False 9001.000000 9001 100.000000 1 4874 1 chr6D.!!$F1 4873
1 TraesCS6D01G186400 chr6B 403187119 403191754 4635 True 3827.000000 6669 93.779500 122 4874 2 chr6B.!!$R1 4752
2 TraesCS6D01G186400 chr6A 362712794 362715192 2398 True 1725.500000 2614 92.564000 2517 4874 2 chr6A.!!$R1 2357
3 TraesCS6D01G186400 chr6A 362729280 362731553 2273 True 439.666667 1020 91.536833 147 2488 6 chr6A.!!$R2 2341
4 TraesCS6D01G186400 chr3A 313501748 313504312 2564 True 234.500000 254 90.003500 1 584 2 chr3A.!!$R4 583

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
989 3056 2.285220 GCCATACATGTGTCAAGCTACG 59.715 50.000 9.11 0.0 0.0 3.51 F
1062 3293 1.207089 TCTAAGACGAACAGGGGCATG 59.793 52.381 0.00 0.0 0.0 4.06 F
2019 4392 2.862541 AGCACAATACAAGGAGCAACA 58.137 42.857 0.00 0.0 0.0 3.33 F
2273 4646 2.909504 TCAGAAGTACTCCCTCTGCT 57.090 50.000 15.43 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2019 4392 2.040813 ACAAAGTCCATGCCATCTCACT 59.959 45.455 0.00 0.00 0.00 3.41 R
3012 5399 2.288763 CCAAATTAAGGCGCCAAACTGT 60.289 45.455 31.54 2.66 0.00 3.55 R
3849 6241 0.937304 ATATGTTCGGCACATGCGAC 59.063 50.000 3.46 0.00 46.37 5.19 R
4045 6444 1.269051 CGGGAACTGAAGCAAACCAAC 60.269 52.381 0.00 0.00 36.31 3.77 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
107 108 6.824305 ACATGATTTTAAGGGAGTGTCAAG 57.176 37.500 0.00 0.00 0.00 3.02
316 2237 5.520376 ACTCATCCAAAAGTCCAAACTTG 57.480 39.130 0.00 0.00 45.07 3.16
399 2399 5.297278 ACACGTGAATAGACTCAGAGGTATC 59.703 44.000 25.01 0.00 0.00 2.24
469 2469 5.404466 TTGATAAATTGTGAAAGCCAGGG 57.596 39.130 0.00 0.00 0.00 4.45
522 2522 2.672874 TGTTAAGCTTCATGCACTAGCG 59.327 45.455 0.00 0.00 46.23 4.26
618 2620 3.553511 CGAGTGATGAGGTCTTGTTATGC 59.446 47.826 0.00 0.00 0.00 3.14
632 2634 4.313277 TGTTATGCCTCTTCGATCTCTG 57.687 45.455 0.00 0.00 0.00 3.35
665 2667 3.411446 TGACTGCAGTTTCCAACCATAG 58.589 45.455 22.65 0.00 0.00 2.23
729 2732 5.730296 AATCTAATGACATACTCCCTCCG 57.270 43.478 0.00 0.00 0.00 4.63
753 2756 6.565999 CGTCCCAAAATAAGTGTCTCAACTTC 60.566 42.308 0.00 0.00 40.77 3.01
843 2908 6.769512 TGAGGCCATATGTTATACTTCCTTC 58.230 40.000 5.01 0.00 0.00 3.46
989 3056 2.285220 GCCATACATGTGTCAAGCTACG 59.715 50.000 9.11 0.00 0.00 3.51
1002 3069 5.236263 TGTCAAGCTACGGCATTTATACATG 59.764 40.000 0.00 0.00 41.70 3.21
1053 3284 6.854778 AGTTAGGATGAAGTCTAAGACGAAC 58.145 40.000 0.00 0.00 37.67 3.95
1062 3293 1.207089 TCTAAGACGAACAGGGGCATG 59.793 52.381 0.00 0.00 0.00 4.06
1094 3328 5.010922 CAGGAAGAGTAGATCATCTCCAAGG 59.989 48.000 11.72 0.00 0.00 3.61
1095 3329 5.103301 AGGAAGAGTAGATCATCTCCAAGGA 60.103 44.000 11.72 0.00 0.00 3.36
1096 3330 5.243730 GGAAGAGTAGATCATCTCCAAGGAG 59.756 48.000 9.90 9.90 43.21 3.69
1192 3426 8.687824 ATTAAAGCAAATGTTTGATACGAAGG 57.312 30.769 9.53 0.00 40.55 3.46
1570 3807 4.009002 TGATCAAATCGTCATCTTTGCCA 58.991 39.130 0.00 0.00 33.40 4.92
1580 3817 4.439057 GTCATCTTTGCCATGCATTGATT 58.561 39.130 1.13 0.00 38.76 2.57
1828 4201 9.961265 GCAAACAAAGTTCTACCTTATAGTTTT 57.039 29.630 0.00 0.00 29.39 2.43
1912 4285 6.069331 AGATAGAAATACAACCGGAGAGCTA 58.931 40.000 9.46 0.00 0.00 3.32
2019 4392 2.862541 AGCACAATACAAGGAGCAACA 58.137 42.857 0.00 0.00 0.00 3.33
2076 4449 9.090692 CATATGGCTTTTAAATTTGTCAAGAGG 57.909 33.333 0.00 0.00 0.00 3.69
2273 4646 2.909504 TCAGAAGTACTCCCTCTGCT 57.090 50.000 15.43 0.00 0.00 4.24
2750 5135 4.818534 CAGTCATAACAAACACTGCACT 57.181 40.909 0.00 0.00 30.43 4.40
2838 5223 3.350219 TCAACTTCCCTATTGGCTGTC 57.650 47.619 0.00 0.00 0.00 3.51
2937 5324 5.477510 AGTTCAGCATTTAGAGACACAGAG 58.522 41.667 0.00 0.00 0.00 3.35
2938 5325 5.244851 AGTTCAGCATTTAGAGACACAGAGA 59.755 40.000 0.00 0.00 0.00 3.10
2963 5350 5.763204 TGTCATCTTCCTACTTGGTTGTTTC 59.237 40.000 0.00 0.00 37.07 2.78
3012 5399 7.857456 AGTACCTTGGTCACATTGTATCATTA 58.143 34.615 0.00 0.00 0.00 1.90
3013 5400 7.769044 AGTACCTTGGTCACATTGTATCATTAC 59.231 37.037 0.00 0.00 0.00 1.89
3334 5726 4.079970 ACGTGTTTCAGAGTCAGGATCTA 58.920 43.478 0.00 0.00 0.00 1.98
3695 6087 5.069516 AGCTGCATTTTATTGGTATTGGGAG 59.930 40.000 1.02 0.00 0.00 4.30
3711 6103 6.704056 ATTGGGAGGAAGAAAGAAGAGTTA 57.296 37.500 0.00 0.00 0.00 2.24
3849 6241 3.366374 GGGAATTGCAGGAAAAACTCTCG 60.366 47.826 0.00 0.00 0.00 4.04
3879 6271 5.057149 GTGCCGAACATATTGTAGGATCTT 58.943 41.667 0.00 0.00 32.30 2.40
4045 6444 6.773976 TTCTTTCTTGGCCATATTGTTAGG 57.226 37.500 6.09 0.00 0.00 2.69
4174 6573 4.193865 ACTTACGGTGCTGTACAGTTTTT 58.806 39.130 23.44 7.85 38.65 1.94
4180 6579 5.099575 CGGTGCTGTACAGTTTTTCTTTTT 58.900 37.500 23.44 0.00 0.00 1.94
4181 6580 6.127952 ACGGTGCTGTACAGTTTTTCTTTTTA 60.128 34.615 23.44 0.00 33.79 1.52
4192 6595 7.821846 ACAGTTTTTCTTTTTATGGTTTGCAGA 59.178 29.630 0.00 0.00 0.00 4.26
4221 6624 9.388506 CCTCTGTGTGATGTTTAGAGAAATATT 57.611 33.333 0.00 0.00 37.63 1.28
4247 6650 4.345859 TTCCTTTCTAATGTGTGGTCGT 57.654 40.909 0.00 0.00 0.00 4.34
4331 6777 6.968263 TCAAAGGGATACAAACACAATTGA 57.032 33.333 13.59 0.00 39.74 2.57
4332 6778 6.744112 TCAAAGGGATACAAACACAATTGAC 58.256 36.000 13.59 0.00 39.74 3.18
4339 6787 4.511617 ACAAACACAATTGACACACACA 57.488 36.364 13.59 0.00 34.38 3.72
4446 6896 5.717654 TGGGTAGGCGAGGAAAAATAAAAAT 59.282 36.000 0.00 0.00 0.00 1.82
4447 6897 6.890814 TGGGTAGGCGAGGAAAAATAAAAATA 59.109 34.615 0.00 0.00 0.00 1.40
4448 6898 7.396623 TGGGTAGGCGAGGAAAAATAAAAATAA 59.603 33.333 0.00 0.00 0.00 1.40
4449 6899 8.252417 GGGTAGGCGAGGAAAAATAAAAATAAA 58.748 33.333 0.00 0.00 0.00 1.40
4450 6900 9.642327 GGTAGGCGAGGAAAAATAAAAATAAAA 57.358 29.630 0.00 0.00 0.00 1.52
4453 6903 9.990360 AGGCGAGGAAAAATAAAAATAAAAAGA 57.010 25.926 0.00 0.00 0.00 2.52
4558 7008 5.845391 TTCATGATACTACATGGACGACA 57.155 39.130 0.00 0.00 45.10 4.35
4584 7034 1.855978 CTTCAACAACACGTAGCGACA 59.144 47.619 0.00 0.00 0.00 4.35
4591 7041 0.453950 ACACGTAGCGACACTTAGCG 60.454 55.000 0.00 0.00 38.61 4.26
4603 7053 0.885879 ACTTAGCGTCGATGTCACCA 59.114 50.000 6.48 0.00 0.00 4.17
4695 7145 8.658609 CAATGTTTTCAACAAGACAATGACTTT 58.341 29.630 0.00 0.00 45.86 2.66
4724 7174 8.974060 AATCGTCATTGTTAGGTATAACCAAT 57.026 30.769 0.00 0.00 41.95 3.16
4754 7204 1.770061 ACTTAGGTTTTCACCCCGTCA 59.230 47.619 0.00 0.00 45.63 4.35
4796 7255 3.499048 GACGTCACTCATGTGTTATCGT 58.501 45.455 11.55 16.09 44.14 3.73
4808 7267 5.163302 TGTGTTATCGTCACCACTTTTTG 57.837 39.130 0.00 0.00 35.25 2.44
4821 7280 5.243730 CACCACTTTTTGTAGATCCCAACAT 59.756 40.000 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 62 8.017418 TGTTCCTTATTTGACACTGGAAAAAT 57.983 30.769 0.00 0.00 35.68 1.82
107 108 7.148557 CGTCTTTCTTTGGAGAGAATTCCTTAC 60.149 40.741 0.65 0.00 35.03 2.34
188 2105 3.780173 GGCTCGCCTCTCCAAGCT 61.780 66.667 0.00 0.00 35.12 3.74
316 2237 1.393603 GATTGCCTAGCCCTTTCCAC 58.606 55.000 0.00 0.00 0.00 4.02
399 2399 0.669077 ACGTATAGGCCTCTTGAGCG 59.331 55.000 9.68 9.53 0.00 5.03
522 2522 2.570442 TTGGACTTTTGGTTGCGTTC 57.430 45.000 0.00 0.00 0.00 3.95
592 2594 3.360867 ACAAGACCTCATCACTCGAGAT 58.639 45.455 21.68 0.00 31.84 2.75
618 2620 3.449528 TTGCATCAGAGATCGAAGAGG 57.550 47.619 0.00 0.00 43.63 3.69
632 2634 3.709987 ACTGCAGTCAAAGTTTTGCATC 58.290 40.909 15.25 0.00 44.61 3.91
701 2704 8.970859 AGGGAGTATGTCATTAGATTTTTCTG 57.029 34.615 0.00 0.00 0.00 3.02
729 2732 6.565999 CGAAGTTGAGACACTTATTTTGGGAC 60.566 42.308 0.00 0.00 37.11 4.46
843 2908 9.019764 CAACAACAATAACCTTCTGTGTTAAAG 57.980 33.333 0.00 0.00 32.37 1.85
849 2914 6.618287 TCTCAACAACAATAACCTTCTGTG 57.382 37.500 0.00 0.00 0.00 3.66
989 3056 4.916983 TTCAGCCACATGTATAAATGCC 57.083 40.909 0.00 0.00 0.00 4.40
1002 3069 6.759497 AAGATAACCAGTTTATTCAGCCAC 57.241 37.500 0.00 0.00 29.85 5.01
1053 3284 3.145551 GCCTTCTGCATGCCCCTG 61.146 66.667 16.68 2.95 40.77 4.45
1062 3293 1.827969 TCTACTCTTCCTGCCTTCTGC 59.172 52.381 0.00 0.00 41.77 4.26
1094 3328 2.573915 AGAATCCAGTTTGGTCCTCCTC 59.426 50.000 0.00 0.00 39.03 3.71
1095 3329 2.637165 AGAATCCAGTTTGGTCCTCCT 58.363 47.619 0.00 0.00 39.03 3.69
1096 3330 3.084786 CAAGAATCCAGTTTGGTCCTCC 58.915 50.000 0.00 0.00 39.03 4.30
1222 3456 5.948742 AAGGTTTCAACTGAAAATGGGAA 57.051 34.783 6.46 0.00 44.58 3.97
1570 3807 7.232188 AGAGACCAAGATCATAATCAATGCAT 58.768 34.615 0.00 0.00 35.38 3.96
1580 3817 8.981659 TGAAACTGATAAGAGACCAAGATCATA 58.018 33.333 0.00 0.00 0.00 2.15
1828 4201 7.493971 CCATGCGGAAATGTTAATAAAAATCCA 59.506 33.333 0.00 0.00 0.00 3.41
2019 4392 2.040813 ACAAAGTCCATGCCATCTCACT 59.959 45.455 0.00 0.00 0.00 3.41
2351 4724 8.848182 ACTCCCTCTGTAAACTAATATAAGTCG 58.152 37.037 0.00 0.00 0.00 4.18
2381 4754 5.709164 ACAGCAGAATGATTTTGCTCTAAGT 59.291 36.000 18.86 11.76 45.75 2.24
2849 5234 6.690194 ATCATCCTGACTAATTTTGCAGAC 57.310 37.500 0.00 0.00 0.00 3.51
2937 5324 5.491982 ACAACCAAGTAGGAAGATGACATC 58.508 41.667 7.39 7.39 41.22 3.06
2938 5325 5.505181 ACAACCAAGTAGGAAGATGACAT 57.495 39.130 0.00 0.00 41.22 3.06
3012 5399 2.288763 CCAAATTAAGGCGCCAAACTGT 60.289 45.455 31.54 2.66 0.00 3.55
3013 5400 2.336667 CCAAATTAAGGCGCCAAACTG 58.663 47.619 31.54 20.40 0.00 3.16
3334 5726 7.187824 TGACCTCTCTCTTGCTATAAATGTT 57.812 36.000 0.00 0.00 0.00 2.71
3459 5851 3.589988 AGACTGCAAATTAGACGACTGG 58.410 45.455 0.00 0.00 0.00 4.00
3695 6087 6.844097 TCCTCTCTAACTCTTCTTTCTTCC 57.156 41.667 0.00 0.00 0.00 3.46
3711 6103 2.771562 TGAGCATCTCCATCCTCTCT 57.228 50.000 0.00 0.00 34.92 3.10
3849 6241 0.937304 ATATGTTCGGCACATGCGAC 59.063 50.000 3.46 0.00 46.37 5.19
3879 6271 2.852449 TGGCAAACGAACATTACCAGA 58.148 42.857 0.00 0.00 0.00 3.86
4045 6444 1.269051 CGGGAACTGAAGCAAACCAAC 60.269 52.381 0.00 0.00 36.31 3.77
4174 6573 4.892934 AGGTGTCTGCAAACCATAAAAAGA 59.107 37.500 13.68 0.00 39.05 2.52
4180 6579 3.057969 CAGAGGTGTCTGCAAACCATA 57.942 47.619 13.68 0.00 43.89 2.74
4181 6580 1.901591 CAGAGGTGTCTGCAAACCAT 58.098 50.000 13.68 1.54 43.89 3.55
4221 6624 6.017440 CGACCACACATTAGAAAGGAAAAAGA 60.017 38.462 0.00 0.00 0.00 2.52
4223 6626 5.591067 ACGACCACACATTAGAAAGGAAAAA 59.409 36.000 0.00 0.00 0.00 1.94
4224 6627 5.127491 ACGACCACACATTAGAAAGGAAAA 58.873 37.500 0.00 0.00 0.00 2.29
4331 6777 2.355108 GCATCCTAGTCCATGTGTGTGT 60.355 50.000 0.00 0.00 0.00 3.72
4332 6778 2.283298 GCATCCTAGTCCATGTGTGTG 58.717 52.381 0.00 0.00 0.00 3.82
4339 6787 2.356125 GGTTGTGTGCATCCTAGTCCAT 60.356 50.000 0.00 0.00 32.94 3.41
4558 7008 3.311596 GCTACGTGTTGTTGAAGAACCTT 59.688 43.478 0.00 0.00 0.00 3.50
4584 7034 0.885879 TGGTGACATCGACGCTAAGT 59.114 50.000 0.00 0.00 33.40 2.24
4591 7041 2.271800 GTTGGATCTGGTGACATCGAC 58.728 52.381 0.00 0.00 41.51 4.20
4603 7053 0.259938 GGCCTTGGATGGTTGGATCT 59.740 55.000 0.00 0.00 0.00 2.75
4724 7174 1.061546 AAACCTAAGTCTGGCCCGAA 58.938 50.000 0.00 0.00 0.00 4.30
4796 7255 4.715534 TGGGATCTACAAAAAGTGGTGA 57.284 40.909 0.00 0.00 0.00 4.02
4821 7280 4.398988 GGGCAATCACAAATCACATGTAGA 59.601 41.667 0.00 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.