Multiple sequence alignment - TraesCS6A01G261900

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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 TraesCS6A01G261900 chr6A 100.000 4415 0 0 1 4415 485109130 485104716 0.000000e+00 8154
1 TraesCS6A01G261900 chr6A 74.783 460 83 23 442 876 404633047 404633498 4.540000e-40 176
2 TraesCS6A01G261900 chr6D 96.087 3552 85 24 898 4410 344368143 344364607 0.000000e+00 5740
3 TraesCS6A01G261900 chr6D 85.011 934 63 18 1 904 344370368 344369482 0.000000e+00 878
4 TraesCS6A01G261900 chr6D 91.781 73 6 0 4343 4415 37932505 37932577 7.810000e-18 102
5 TraesCS6A01G261900 chr6B 97.953 2833 51 2 936 3767 520240816 520237990 0.000000e+00 4903
6 TraesCS6A01G261900 chr6B 91.785 353 21 6 3960 4309 520230779 520230432 6.640000e-133 484
7 TraesCS6A01G261900 chr6B 75.219 456 80 23 445 876 51740750 51740304 7.540000e-43 185
8 TraesCS6A01G261900 chr6B 82.888 187 27 5 442 626 260118379 260118562 3.530000e-36 163
9 TraesCS6A01G261900 chr6B 93.333 75 5 0 4341 4415 520230303 520230229 1.300000e-20 111
10 TraesCS6A01G261900 chr2D 76.872 454 74 22 442 874 71203078 71203521 1.240000e-55 228
11 TraesCS6A01G261900 chr2D 83.069 189 27 5 442 628 579325914 579326099 2.730000e-37 167
12 TraesCS6A01G261900 chr4B 81.293 294 35 9 66 344 406750108 406750396 2.070000e-53 220
13 TraesCS6A01G261900 chr4B 82.796 186 28 4 445 628 615385314 615385131 3.530000e-36 163
14 TraesCS6A01G261900 chr4B 91.781 73 6 0 4343 4415 602210499 602210427 7.810000e-18 102
15 TraesCS6A01G261900 chr7A 75.870 460 77 24 442 876 191820456 191820906 2.080000e-48 204
16 TraesCS6A01G261900 chr1A 75.355 422 83 18 471 876 440670087 440670503 2.710000e-42 183
17 TraesCS6A01G261900 chr4D 82.979 188 27 5 442 627 488687425 488687609 9.820000e-37 165
18 TraesCS6A01G261900 chr3D 82.199 191 29 5 445 633 420484412 420484225 4.570000e-35 159
19 TraesCS6A01G261900 chr3D 91.781 73 6 0 4343 4415 526190426 526190354 7.810000e-18 102
20 TraesCS6A01G261900 chr3D 91.781 73 6 0 4343 4415 613354961 613354889 7.810000e-18 102
21 TraesCS6A01G261900 chr5B 74.017 458 87 21 445 876 338718188 338717737 1.640000e-34 158
22 TraesCS6A01G261900 chr4A 93.151 73 5 0 4343 4415 607312015 607312087 1.680000e-19 108
23 TraesCS6A01G261900 chr7D 91.781 73 6 0 4343 4415 7568358 7568286 7.810000e-18 102
24 TraesCS6A01G261900 chr5D 91.781 73 6 0 4343 4415 454727413 454727485 7.810000e-18 102
25 TraesCS6A01G261900 chr1D 91.781 73 6 0 4343 4415 431764122 431764050 7.810000e-18 102


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 TraesCS6A01G261900 chr6A 485104716 485109130 4414 True 8154.0 8154 100.000 1 4415 1 chr6A.!!$R1 4414
1 TraesCS6A01G261900 chr6D 344364607 344370368 5761 True 3309.0 5740 90.549 1 4410 2 chr6D.!!$R1 4409
2 TraesCS6A01G261900 chr6B 520237990 520240816 2826 True 4903.0 4903 97.953 936 3767 1 chr6B.!!$R2 2831
3 TraesCS6A01G261900 chr6B 520230229 520230779 550 True 297.5 484 92.559 3960 4415 2 chr6B.!!$R3 455

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
316 317 0.116342 TCTAGCCAGACAAGACCCCA 59.884 55.0 0.0 0.0 0.00 4.96 F
705 721 0.179062 GAGGCCGAACAGCAGATGAT 60.179 55.0 0.0 0.0 0.00 2.45 F
706 722 0.463295 AGGCCGAACAGCAGATGATG 60.463 55.0 0.0 0.0 37.48 3.07 F
2505 3881 0.251341 GTGTGGCTCTTGGGGATGTT 60.251 55.0 0.0 0.0 0.00 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1766 3142 1.203187 TCAGCTGTAGTTCCCTGGACT 60.203 52.381 14.67 0.0 0.00 3.85 R
2505 3881 1.131638 GGATCTCCATGCCACCTACA 58.868 55.000 0.00 0.0 35.64 2.74 R
2628 4004 3.745975 CACGGTTTGAGAGTGATAAGCAA 59.254 43.478 0.00 0.0 38.06 3.91 R
4097 5488 0.036388 TTCAATCCGACTGCCTCCAC 60.036 55.000 0.00 0.0 0.00 4.02 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
28 29 7.223971 TCCGTTAGTTGTGAGCATAATTCATAC 59.776 37.037 0.00 0.00 0.00 2.39
37 38 6.635641 GTGAGCATAATTCATACAACATGCAG 59.364 38.462 7.96 0.00 40.89 4.41
73 74 3.544684 TGAACATAGCTACCCAATGCAG 58.455 45.455 0.00 0.00 0.00 4.41
81 82 5.252586 AGCTACCCAATGCAGATCATAAT 57.747 39.130 0.00 0.00 34.33 1.28
92 93 8.780249 CAATGCAGATCATAATCATGACTACAA 58.220 33.333 0.00 0.00 43.89 2.41
188 189 3.486263 GAGCGGATCCAACCAACG 58.514 61.111 13.41 0.00 0.00 4.10
189 190 2.046314 AGCGGATCCAACCAACGG 60.046 61.111 13.41 0.00 0.00 4.44
190 191 3.131478 GCGGATCCAACCAACGGG 61.131 66.667 13.41 0.00 41.29 5.28
191 192 2.666207 CGGATCCAACCAACGGGA 59.334 61.111 13.41 0.00 38.05 5.14
192 193 1.003112 CGGATCCAACCAACGGGAA 60.003 57.895 13.41 0.00 36.62 3.97
193 194 1.303091 CGGATCCAACCAACGGGAAC 61.303 60.000 13.41 0.00 36.62 3.62
245 246 4.246458 AGAACTTGCGAAGATGGTACTTC 58.754 43.478 0.00 0.00 41.70 3.01
277 278 8.735837 GTTTTCAATGTTTCATGAATTTTGCAC 58.264 29.630 9.40 3.86 35.63 4.57
292 293 4.836125 TTTGCACAGAGTTTCCATCTTC 57.164 40.909 0.00 0.00 0.00 2.87
293 294 2.783135 TGCACAGAGTTTCCATCTTCC 58.217 47.619 0.00 0.00 0.00 3.46
310 311 4.836825 TCTTCCATTTCTAGCCAGACAAG 58.163 43.478 0.00 0.00 0.00 3.16
312 313 4.207891 TCCATTTCTAGCCAGACAAGAC 57.792 45.455 0.00 0.00 0.00 3.01
315 316 1.276622 TTCTAGCCAGACAAGACCCC 58.723 55.000 0.00 0.00 0.00 4.95
316 317 0.116342 TCTAGCCAGACAAGACCCCA 59.884 55.000 0.00 0.00 0.00 4.96
367 371 1.544246 TCGATCACTGTCCATGAACGT 59.456 47.619 0.00 0.00 41.51 3.99
369 373 2.671070 CGATCACTGTCCATGAACGTGA 60.671 50.000 10.88 10.88 37.52 4.35
372 376 0.756294 ACTGTCCATGAACGTGACCA 59.244 50.000 0.00 0.00 0.00 4.02
413 417 3.555168 GGGAATGGATTAGCTACGTCCAG 60.555 52.174 23.97 0.00 44.59 3.86
416 420 1.674441 TGGATTAGCTACGTCCAGTCG 59.326 52.381 18.66 0.00 37.12 4.18
443 447 3.800826 GGGCGATTCATACCCAAGT 57.199 52.632 0.00 0.00 43.64 3.16
520 524 2.028484 GGGTCAAGCACGACACGA 59.972 61.111 7.70 0.00 37.66 4.35
548 552 4.367023 TCGTACCCAGCACGTGGC 62.367 66.667 18.88 9.78 46.45 5.01
569 573 1.915228 GCCCCTAGGTCATGCTTGA 59.085 57.895 8.29 0.00 34.57 3.02
590 594 4.498520 GCTAGGCTGAGCACGCGA 62.499 66.667 15.93 0.00 42.36 5.87
661 677 5.429130 GGCATAATACTAGCCCATTAGGTC 58.571 45.833 0.00 0.00 42.58 3.85
678 694 7.070571 CCATTAGGTCAAAATAGGCCCATAAAA 59.929 37.037 0.00 0.00 0.00 1.52
679 695 5.932619 AGGTCAAAATAGGCCCATAAAAC 57.067 39.130 0.00 0.00 0.00 2.43
680 696 4.401202 AGGTCAAAATAGGCCCATAAAACG 59.599 41.667 0.00 0.00 0.00 3.60
692 708 1.062587 CATAAAACGCTCAAGAGGCCG 59.937 52.381 0.00 0.00 0.00 6.13
704 720 1.219124 GAGGCCGAACAGCAGATGA 59.781 57.895 0.00 0.00 0.00 2.92
705 721 0.179062 GAGGCCGAACAGCAGATGAT 60.179 55.000 0.00 0.00 0.00 2.45
706 722 0.463295 AGGCCGAACAGCAGATGATG 60.463 55.000 0.00 0.00 37.48 3.07
710 741 0.745486 CGAACAGCAGATGATGGCCA 60.745 55.000 8.56 8.56 35.42 5.36
738 769 2.507944 CTGATTAGCGGCTGGGCT 59.492 61.111 13.86 0.00 46.88 5.19
753 784 1.144936 GGCTGTGCCTAGGCTACAG 59.855 63.158 36.64 36.64 46.69 2.74
755 786 1.617947 GCTGTGCCTAGGCTACAGGT 61.618 60.000 38.53 0.00 43.52 4.00
757 788 0.613260 TGTGCCTAGGCTACAGGTTG 59.387 55.000 33.07 0.00 42.51 3.77
764 795 2.680913 GGCTACAGGTTGCAGCACG 61.681 63.158 2.05 0.00 38.49 5.34
797 828 2.671396 GGCACGGCCTGTATAATAATCG 59.329 50.000 0.00 0.00 46.69 3.34
798 829 3.323243 GCACGGCCTGTATAATAATCGT 58.677 45.455 0.00 0.00 0.00 3.73
799 830 3.122948 GCACGGCCTGTATAATAATCGTG 59.877 47.826 0.00 0.00 46.09 4.35
800 831 3.122948 CACGGCCTGTATAATAATCGTGC 59.877 47.826 0.00 0.00 39.77 5.34
801 832 3.006537 ACGGCCTGTATAATAATCGTGCT 59.993 43.478 0.00 0.00 0.00 4.40
802 833 3.612860 CGGCCTGTATAATAATCGTGCTC 59.387 47.826 0.00 0.00 0.00 4.26
803 834 3.933332 GGCCTGTATAATAATCGTGCTCC 59.067 47.826 0.00 0.00 0.00 4.70
804 835 3.612860 GCCTGTATAATAATCGTGCTCCG 59.387 47.826 0.00 0.00 38.13 4.63
840 871 1.873591 CTAGGCACGATTACAATGGGC 59.126 52.381 0.00 0.00 0.00 5.36
845 876 1.153046 CGATTACAATGGGCCGGGT 60.153 57.895 2.18 0.00 0.00 5.28
849 880 2.127027 TTACAATGGGCCGGGTCGTT 62.127 55.000 2.18 0.00 0.00 3.85
883 914 0.744281 CCCGTTTGGCCATACATTCC 59.256 55.000 23.69 0.00 0.00 3.01
925 2301 1.055040 CCTGCTCCCTATCCCTCAAG 58.945 60.000 0.00 0.00 0.00 3.02
973 2349 1.026718 CCTGGCCACTCCATTCGAAC 61.027 60.000 0.00 0.00 45.50 3.95
1149 2525 2.202932 CTGCTTCGCGCCCATACT 60.203 61.111 0.00 0.00 38.05 2.12
1524 2900 1.523154 TTGCCGCACCTGATTTGGTC 61.523 55.000 0.00 0.00 38.45 4.02
1752 3128 3.795688 TTCTTGGAGAACTGCCTGATT 57.204 42.857 0.00 0.00 0.00 2.57
1766 3142 3.523157 TGCCTGATTGAGTTCTATGGGAA 59.477 43.478 0.00 0.00 0.00 3.97
2019 3395 1.270571 GGCTACCTCATTAGAGCAGGC 60.271 57.143 0.00 0.00 40.68 4.85
2274 3650 5.087323 TCAGATCCCTTTGTCACTAGTTCT 58.913 41.667 0.00 0.00 0.00 3.01
2441 3817 0.913451 AGGAGGATGCAGTTGGAGCT 60.913 55.000 0.00 0.00 0.00 4.09
2505 3881 0.251341 GTGTGGCTCTTGGGGATGTT 60.251 55.000 0.00 0.00 0.00 2.71
2693 4069 5.221422 TGGTTAAAGATTTTGCTCAAGGTGG 60.221 40.000 0.00 0.00 0.00 4.61
2807 4183 4.541705 TGTGGAAAATTGGAACTCCTTCA 58.458 39.130 0.00 0.00 36.82 3.02
3147 4523 0.320374 TTGTGTCCATGACCGAGGTC 59.680 55.000 14.98 14.98 44.77 3.85
3254 4630 4.487714 TCATTGATAGTGTGGTCCCTTC 57.512 45.455 0.00 0.00 0.00 3.46
3545 4923 2.290197 TGCACAGTGGCATATGAAGTGA 60.290 45.455 6.97 0.00 39.25 3.41
3672 5050 1.904287 AAGGTATGCCGTTCTTTGCA 58.096 45.000 0.00 0.00 42.52 4.08
3700 5078 7.548196 TTCTGGTAAAAATATAGCGGTTGAG 57.452 36.000 0.00 0.00 32.69 3.02
3753 5131 9.762933 TTTTTCTGCTATGCAAGTTAAAGAAAT 57.237 25.926 11.15 0.00 38.41 2.17
3794 5172 0.036388 TCAGTGATCAAACGGAGGGC 60.036 55.000 0.00 0.00 0.00 5.19
3846 5224 6.489022 GGGTCTGTTTAGTAAACCAAGAATGT 59.511 38.462 20.42 0.00 40.67 2.71
3918 5296 6.869695 TCCTTAAATAGTGCTTACATCGTCA 58.130 36.000 0.00 0.00 0.00 4.35
3937 5315 1.467734 CAACAAGAGCAGGATCAGCAC 59.532 52.381 11.35 5.60 0.00 4.40
4056 5440 1.035923 CGAAGAGAGGAGCAGCCATA 58.964 55.000 0.00 0.00 40.02 2.74
4057 5441 1.000385 CGAAGAGAGGAGCAGCCATAG 60.000 57.143 0.00 0.00 40.02 2.23
4097 5488 1.069636 GCCTGAAGAGTTTCAACAGCG 60.070 52.381 0.00 0.00 42.48 5.18
4225 5626 1.336755 GAACATTTTCACTGCACCCGT 59.663 47.619 0.00 0.00 0.00 5.28
4280 5682 0.961753 CACCTGGCAGGGAGTTTTTC 59.038 55.000 35.34 0.00 40.58 2.29
4286 5688 3.638627 CTGGCAGGGAGTTTTTCTTTTCT 59.361 43.478 6.61 0.00 0.00 2.52
4290 5692 4.218635 GCAGGGAGTTTTTCTTTTCTAGGG 59.781 45.833 0.00 0.00 0.00 3.53
4369 5868 0.745845 TCCGTAGACCACCTAGCGAC 60.746 60.000 0.00 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 3.731295 TGCATCATGCTGCATGTTG 57.269 47.368 33.54 33.54 46.76 3.33
73 74 9.481340 TGCTAAGTTGTAGTCATGATTATGATC 57.519 33.333 3.18 0.00 44.62 2.92
81 82 5.420725 ACCATGCTAAGTTGTAGTCATGA 57.579 39.130 14.15 0.00 34.28 3.07
92 93 6.179756 TGTCATGTGAATTACCATGCTAAGT 58.820 36.000 10.53 0.00 0.00 2.24
182 183 1.916777 AGGATCCGTTCCCGTTGGT 60.917 57.895 5.98 0.00 46.81 3.67
183 184 1.449601 CAGGATCCGTTCCCGTTGG 60.450 63.158 5.98 0.00 46.81 3.77
184 185 0.321298 AACAGGATCCGTTCCCGTTG 60.321 55.000 13.89 4.37 46.81 4.10
185 186 0.321298 CAACAGGATCCGTTCCCGTT 60.321 55.000 15.99 7.62 44.44 4.44
186 187 1.295423 CAACAGGATCCGTTCCCGT 59.705 57.895 15.99 2.50 46.81 5.28
187 188 1.449601 CCAACAGGATCCGTTCCCG 60.450 63.158 15.99 8.06 46.81 5.14
188 189 1.749258 GCCAACAGGATCCGTTCCC 60.749 63.158 15.99 8.65 46.81 3.97
189 190 2.106683 CGCCAACAGGATCCGTTCC 61.107 63.158 15.99 10.74 45.85 3.62
190 191 2.750888 GCGCCAACAGGATCCGTTC 61.751 63.158 15.99 7.99 0.00 3.95
191 192 2.746277 GCGCCAACAGGATCCGTT 60.746 61.111 13.89 13.89 0.00 4.44
192 193 4.778143 GGCGCCAACAGGATCCGT 62.778 66.667 24.80 4.69 0.00 4.69
194 195 2.265467 TTAGGGCGCCAACAGGATCC 62.265 60.000 30.85 2.48 0.00 3.36
195 196 0.815615 CTTAGGGCGCCAACAGGATC 60.816 60.000 30.85 8.01 0.00 3.36
196 197 1.224592 CTTAGGGCGCCAACAGGAT 59.775 57.895 30.85 6.85 0.00 3.24
197 198 2.668632 CTTAGGGCGCCAACAGGA 59.331 61.111 30.85 6.38 0.00 3.86
198 199 2.438434 CCTTAGGGCGCCAACAGG 60.438 66.667 30.85 24.20 0.00 4.00
220 221 3.678056 ACCATCTTCGCAAGTTCTACA 57.322 42.857 0.00 0.00 39.48 2.74
245 246 9.480053 AATTCATGAAACATTGAAAACCTACAG 57.520 29.630 13.09 0.00 35.63 2.74
277 278 6.038050 GCTAGAAATGGAAGATGGAAACTCTG 59.962 42.308 0.00 0.00 0.00 3.35
292 293 3.274288 GGTCTTGTCTGGCTAGAAATGG 58.726 50.000 0.00 0.00 34.01 3.16
293 294 3.274288 GGGTCTTGTCTGGCTAGAAATG 58.726 50.000 0.00 0.00 34.01 2.32
310 311 6.111382 GTGGTTTAAGTTACTAGATGGGGTC 58.889 44.000 0.00 0.00 0.00 4.46
312 313 5.434408 GGTGGTTTAAGTTACTAGATGGGG 58.566 45.833 0.00 0.00 0.00 4.96
315 316 9.729281 TTTTAGGGTGGTTTAAGTTACTAGATG 57.271 33.333 0.00 0.00 0.00 2.90
316 317 9.955102 CTTTTAGGGTGGTTTAAGTTACTAGAT 57.045 33.333 0.00 0.00 0.00 1.98
345 349 2.791560 CGTTCATGGACAGTGATCGATC 59.208 50.000 18.72 18.72 39.76 3.69
356 360 2.386661 ATCTGGTCACGTTCATGGAC 57.613 50.000 0.00 0.00 0.00 4.02
381 385 1.874129 ATCCATTCCCCTGTACGTCA 58.126 50.000 0.00 0.00 0.00 4.35
385 389 4.560919 CGTAGCTAATCCATTCCCCTGTAC 60.561 50.000 0.00 0.00 0.00 2.90
413 417 0.249489 AATCGCCCAGCATCTACGAC 60.249 55.000 0.00 0.00 35.33 4.34
416 420 2.175878 ATGAATCGCCCAGCATCTAC 57.824 50.000 0.00 0.00 0.00 2.59
531 535 4.367023 GCCACGTGCTGGGTACGA 62.367 66.667 10.91 0.00 43.77 3.43
548 552 2.203070 GCATGACCTAGGGGCGTG 60.203 66.667 14.81 16.37 35.63 5.34
552 556 0.179034 GCTCAAGCATGACCTAGGGG 60.179 60.000 14.81 0.48 41.59 4.79
562 566 0.464013 CAGCCTAGCAGCTCAAGCAT 60.464 55.000 0.00 0.00 42.61 3.79
661 677 4.142271 TGAGCGTTTTATGGGCCTATTTTG 60.142 41.667 7.02 0.00 0.00 2.44
678 694 2.048127 GTTCGGCCTCTTGAGCGT 60.048 61.111 0.00 0.00 0.00 5.07
679 695 2.048222 TGTTCGGCCTCTTGAGCG 60.048 61.111 0.00 0.00 0.00 5.03
680 696 2.394563 GCTGTTCGGCCTCTTGAGC 61.395 63.158 0.00 0.00 0.00 4.26
692 708 1.022735 CTGGCCATCATCTGCTGTTC 58.977 55.000 5.51 0.00 0.00 3.18
722 753 2.190313 CAGCCCAGCCGCTAATCA 59.810 61.111 0.00 0.00 36.82 2.57
738 769 0.613260 CAACCTGTAGCCTAGGCACA 59.387 55.000 34.70 30.00 44.88 4.57
882 913 4.776322 TGGGCGTCGCTGGAATGG 62.776 66.667 18.11 0.00 0.00 3.16
883 914 3.499737 GTGGGCGTCGCTGGAATG 61.500 66.667 18.11 0.00 0.00 2.67
904 2280 0.105453 TGAGGGATAGGGAGCAGGAC 60.105 60.000 0.00 0.00 0.00 3.85
932 2308 2.288525 AGGGGAGCAGGATAAGGTTTT 58.711 47.619 0.00 0.00 0.00 2.43
1752 3128 3.107601 CCTGGACTTCCCATAGAACTCA 58.892 50.000 0.00 0.00 45.57 3.41
1766 3142 1.203187 TCAGCTGTAGTTCCCTGGACT 60.203 52.381 14.67 0.00 0.00 3.85
2019 3395 7.890515 TCATAACATGCTTATCTGAGTCTAGG 58.109 38.462 0.00 0.00 0.00 3.02
2274 3650 4.729227 TTTAGCATACATGTCGACCAGA 57.271 40.909 14.12 0.00 0.00 3.86
2385 3761 6.580788 TGCTCTTTCAAATTGACCATTCAAA 58.419 32.000 0.00 0.00 45.01 2.69
2441 3817 2.610374 GTGAACTCGTTAGGTTGCACAA 59.390 45.455 0.00 0.00 31.61 3.33
2505 3881 1.131638 GGATCTCCATGCCACCTACA 58.868 55.000 0.00 0.00 35.64 2.74
2628 4004 3.745975 CACGGTTTGAGAGTGATAAGCAA 59.254 43.478 0.00 0.00 38.06 3.91
2693 4069 6.331061 AGATTAAGTACTCCAACGTGATCAC 58.669 40.000 16.21 16.21 30.04 3.06
3178 4554 5.025453 ACCCAAAACCTCAATCATATGCTT 58.975 37.500 0.00 0.00 0.00 3.91
3179 4555 4.613437 ACCCAAAACCTCAATCATATGCT 58.387 39.130 0.00 0.00 0.00 3.79
3254 4630 1.137872 AGGCTGAAGCACTAGATTCCG 59.862 52.381 4.43 0.00 44.36 4.30
3322 4698 3.322828 AGTTTGTCCATTGCAAGCTTCAT 59.677 39.130 4.94 0.00 34.53 2.57
3672 5050 7.875327 ACCGCTATATTTTTACCAGAAACAT 57.125 32.000 0.00 0.00 0.00 2.71
3700 5078 0.391528 ATTGGTAACCGCGGTACCAC 60.392 55.000 37.35 30.71 42.88 4.16
3753 5131 8.919145 ACTGACAAAACCATTACAGGATAAAAA 58.081 29.630 0.00 0.00 0.00 1.94
3760 5138 5.473162 TGATCACTGACAAAACCATTACAGG 59.527 40.000 0.00 0.00 0.00 4.00
3794 5172 4.404507 AACCTCAAATGATTCGAACACG 57.595 40.909 0.00 0.00 0.00 4.49
3853 5231 8.586398 CATGATGGCATTCCTTTAGAAAAAGGC 61.586 40.741 11.29 1.29 45.59 4.35
3883 5261 6.603201 AGCACTATTTAAGGAGCAATAAAGCA 59.397 34.615 0.00 0.00 36.85 3.91
3887 5265 9.627123 ATGTAAGCACTATTTAAGGAGCAATAA 57.373 29.630 0.00 0.00 34.01 1.40
3918 5296 1.612726 GGTGCTGATCCTGCTCTTGTT 60.613 52.381 8.84 0.00 0.00 2.83
3991 5374 7.335627 CCCACCTTTAGTTCTGTCACATATAA 58.664 38.462 0.00 0.00 0.00 0.98
3996 5379 2.105821 CCCCACCTTTAGTTCTGTCACA 59.894 50.000 0.00 0.00 0.00 3.58
3997 5380 2.552373 CCCCCACCTTTAGTTCTGTCAC 60.552 54.545 0.00 0.00 0.00 3.67
4056 5440 1.283321 GGGTGGCTTTTCCTCATCTCT 59.717 52.381 0.00 0.00 35.26 3.10
4057 5441 1.756430 GGGTGGCTTTTCCTCATCTC 58.244 55.000 0.00 0.00 35.26 2.75
4097 5488 0.036388 TTCAATCCGACTGCCTCCAC 60.036 55.000 0.00 0.00 0.00 4.02
4150 5541 1.206132 TGCCATTCGACGTGGAGTAAT 59.794 47.619 17.87 0.00 39.12 1.89
4151 5542 0.604073 TGCCATTCGACGTGGAGTAA 59.396 50.000 17.87 0.20 39.12 2.24
4152 5543 0.604073 TTGCCATTCGACGTGGAGTA 59.396 50.000 17.87 3.01 39.12 2.59
4153 5544 0.670546 CTTGCCATTCGACGTGGAGT 60.671 55.000 17.87 0.00 39.12 3.85
4154 5545 0.670546 ACTTGCCATTCGACGTGGAG 60.671 55.000 17.87 10.50 39.12 3.86
4155 5546 0.948623 CACTTGCCATTCGACGTGGA 60.949 55.000 17.87 0.00 39.12 4.02
4156 5547 1.497278 CACTTGCCATTCGACGTGG 59.503 57.895 10.91 10.91 39.80 4.94
4157 5548 1.154413 GCACTTGCCATTCGACGTG 60.154 57.895 0.00 0.00 34.31 4.49
4225 5626 3.639716 CTCGCATAGCAGATTCAGAGA 57.360 47.619 0.00 0.00 0.00 3.10
4286 5688 6.011981 AATGAGTACATTGGAAGGTTTCCCTA 60.012 38.462 5.45 0.00 43.90 3.53
4290 5692 6.183360 GGCTAATGAGTACATTGGAAGGTTTC 60.183 42.308 9.72 0.00 44.17 2.78
4300 5702 4.442706 CCTCAACGGCTAATGAGTACATT 58.557 43.478 0.00 0.00 46.64 2.71
4369 5868 3.722082 GCTCGTTTCAATGCTTGTAGTCG 60.722 47.826 0.00 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.