Multiple sequence alignment - TraesCS2A01G381100

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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 TraesCS2A01G381100 chr2A 100.000 4261 0 0 1 4261 624457285 624461545 0.000000e+00 7869
1 TraesCS2A01G381100 chr2A 89.461 2989 213 57 555 3498 624393902 624396833 0.000000e+00 3681
2 TraesCS2A01G381100 chr2A 89.308 2759 226 43 784 3498 624446916 624449649 0.000000e+00 3397
3 TraesCS2A01G381100 chr2A 88.314 2533 254 30 990 3498 624359557 624362071 0.000000e+00 3000
4 TraesCS2A01G381100 chr2A 79.778 361 32 22 3831 4181 624397170 624397499 1.540000e-54 224
5 TraesCS2A01G381100 chr2D 93.449 3740 185 32 485 4220 481987899 481991582 0.000000e+00 5494
6 TraesCS2A01G381100 chr2D 93.924 3588 148 31 371 3925 481960852 481964402 0.000000e+00 5354
7 TraesCS2A01G381100 chr2D 89.229 3008 250 33 537 3498 481688163 481691142 0.000000e+00 3692
8 TraesCS2A01G381100 chr2D 91.010 2525 203 17 989 3498 481656074 481658589 0.000000e+00 3384
9 TraesCS2A01G381100 chr2D 87.776 499 48 5 1 486 481987258 481987756 4.780000e-159 571
10 TraesCS2A01G381100 chr2D 95.370 216 10 0 4005 4220 481964450 481964665 1.130000e-90 344
11 TraesCS2A01G381100 chr2D 84.036 332 22 12 543 869 481655676 481655981 1.500000e-74 291
12 TraesCS2A01G381100 chr2D 93.919 148 9 0 51 198 481960688 481960835 1.540000e-54 224
13 TraesCS2A01G381100 chr2D 86.341 205 19 5 1 196 481687651 481687855 9.280000e-52 215
14 TraesCS2A01G381100 chr2D 92.000 150 10 1 1 148 481703162 481703311 4.320000e-50 209
15 TraesCS2A01G381100 chr2D 85.535 159 23 0 198 356 73402885 73403043 2.640000e-37 167
16 TraesCS2A01G381100 chr2D 100.000 67 0 0 1 67 481960614 481960680 1.610000e-24 124
17 TraesCS2A01G381100 chr2D 78.421 190 34 6 185 372 79992044 79991860 2.690000e-22 117
18 TraesCS2A01G381100 chr2B 93.032 3545 173 27 692 4220 565209751 565213237 0.000000e+00 5110
19 TraesCS2A01G381100 chr2B 91.250 2983 220 22 534 3498 565188530 565191489 0.000000e+00 4024
20 TraesCS2A01G381100 chr2B 88.286 2988 256 46 547 3504 565076034 565078957 0.000000e+00 3493
21 TraesCS2A01G381100 chr2B 88.442 199 17 4 1 193 565209297 565209495 7.120000e-58 235
22 TraesCS2A01G381100 chr2B 85.217 115 9 1 534 640 565209640 565209754 1.250000e-20 111
23 TraesCS2A01G381100 chr5B 87.421 159 20 0 198 356 278430462 278430620 2.620000e-42 183
24 TraesCS2A01G381100 chr5B 80.982 163 28 3 195 356 13084110 13084270 4.470000e-25 126
25 TraesCS2A01G381100 chr5A 84.756 164 23 2 194 356 137279565 137279727 3.410000e-36 163
26 TraesCS2A01G381100 chr6B 84.906 159 23 1 198 356 365358327 365358170 4.410000e-35 159
27 TraesCS2A01G381100 chr7D 83.750 160 25 1 197 356 622372181 622372339 2.650000e-32 150
28 TraesCS2A01G381100 chr3A 81.395 172 28 3 195 365 356085370 356085202 2.070000e-28 137


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 TraesCS2A01G381100 chr2A 624457285 624461545 4260 False 7869.000000 7869 100.00000 1 4261 1 chr2A.!!$F3 4260
1 TraesCS2A01G381100 chr2A 624446916 624449649 2733 False 3397.000000 3397 89.30800 784 3498 1 chr2A.!!$F2 2714
2 TraesCS2A01G381100 chr2A 624359557 624362071 2514 False 3000.000000 3000 88.31400 990 3498 1 chr2A.!!$F1 2508
3 TraesCS2A01G381100 chr2A 624393902 624397499 3597 False 1952.500000 3681 84.61950 555 4181 2 chr2A.!!$F4 3626
4 TraesCS2A01G381100 chr2D 481987258 481991582 4324 False 3032.500000 5494 90.61250 1 4220 2 chr2D.!!$F6 4219
5 TraesCS2A01G381100 chr2D 481687651 481691142 3491 False 1953.500000 3692 87.78500 1 3498 2 chr2D.!!$F4 3497
6 TraesCS2A01G381100 chr2D 481655676 481658589 2913 False 1837.500000 3384 87.52300 543 3498 2 chr2D.!!$F3 2955
7 TraesCS2A01G381100 chr2D 481960614 481964665 4051 False 1511.500000 5354 95.80325 1 4220 4 chr2D.!!$F5 4219
8 TraesCS2A01G381100 chr2B 565188530 565191489 2959 False 4024.000000 4024 91.25000 534 3498 1 chr2B.!!$F2 2964
9 TraesCS2A01G381100 chr2B 565076034 565078957 2923 False 3493.000000 3493 88.28600 547 3504 1 chr2B.!!$F1 2957
10 TraesCS2A01G381100 chr2B 565209297 565213237 3940 False 1818.666667 5110 88.89700 1 4220 3 chr2B.!!$F3 4219

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
258 320 0.317479 CTATAGGCTACACACGGGGC 59.683 60.0 0.0 0.0 0.00 5.80 F
623 982 0.455295 GTCGACTGAGTCCAGCTTCG 60.455 60.0 8.7 0.0 44.16 3.79 F
759 1183 1.187087 CCCACTCTCTCACACCTACC 58.813 60.0 0.0 0.0 0.00 3.18 F
1628 2196 0.399091 TGCTCCAGGGATACTCAGGG 60.399 60.0 0.0 0.0 0.00 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1491 2059 0.179094 ACGAGGCAAAGAACACACGA 60.179 50.000 0.00 0.0 0.00 4.35 R
1508 2076 0.921347 CCGCGTTAAGGAATCTGACG 59.079 55.000 4.92 0.0 36.83 4.35 R
1972 2540 1.067565 TCATGACCTCACAGAAGACGC 60.068 52.381 0.00 0.0 0.00 5.19 R
3412 4003 1.003580 CTGTCTACCCAACACTGCCAT 59.996 52.381 0.00 0.0 0.00 4.40 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
77 104 1.291877 GCTACGGTGGCAGTTGAGTG 61.292 60.000 11.90 0.00 0.00 3.51
87 114 1.136141 GCAGTTGAGTGCACGAATCAG 60.136 52.381 12.01 3.11 43.41 2.90
168 201 2.554032 AGCTTTGATCAACCTCCAAACG 59.446 45.455 7.89 0.00 0.00 3.60
206 268 8.478877 CAACTGAAAACATATACTACTCCCTCT 58.521 37.037 0.00 0.00 0.00 3.69
207 269 8.012957 ACTGAAAACATATACTACTCCCTCTG 57.987 38.462 0.00 0.00 0.00 3.35
210 272 8.822805 TGAAAACATATACTACTCCCTCTGTTT 58.177 33.333 0.00 0.00 37.22 2.83
224 286 8.706521 ACTCCCTCTGTTTCTAAATATAAGTCC 58.293 37.037 0.00 0.00 0.00 3.85
256 318 4.924305 TTTACTATAGGCTACACACGGG 57.076 45.455 4.43 0.00 0.00 5.28
258 320 0.317479 CTATAGGCTACACACGGGGC 59.683 60.000 0.00 0.00 0.00 5.80
266 328 2.229302 GCTACACACGGGGCAAAATAAA 59.771 45.455 0.00 0.00 0.00 1.40
277 339 8.522830 CACGGGGCAAAATAAATGAATCTATAT 58.477 33.333 0.00 0.00 0.00 0.86
322 384 4.404394 TCCGAATGCAGTCTTTATAGTGGA 59.596 41.667 12.92 5.86 0.00 4.02
325 387 6.073548 CCGAATGCAGTCTTTATAGTGGAATC 60.074 42.308 12.92 0.00 0.00 2.52
358 421 8.379331 AGGATTTATATTTAGGAACAGAGGAGC 58.621 37.037 0.00 0.00 0.00 4.70
430 510 0.455410 CCATACCAACGTTGCCCATG 59.545 55.000 22.93 20.95 0.00 3.66
617 976 2.265904 CCCACGTCGACTGAGTCCA 61.266 63.158 14.70 0.00 0.00 4.02
621 980 1.173444 ACGTCGACTGAGTCCAGCTT 61.173 55.000 14.70 0.00 44.16 3.74
623 982 0.455295 GTCGACTGAGTCCAGCTTCG 60.455 60.000 8.70 0.00 44.16 3.79
691 1106 4.500116 GGCGACAGGAGCTCCGTC 62.500 72.222 31.19 31.19 42.08 4.79
692 1107 4.500116 GCGACAGGAGCTCCGTCC 62.500 72.222 32.89 25.96 42.08 4.79
693 1108 4.180946 CGACAGGAGCTCCGTCCG 62.181 72.222 32.89 28.09 42.05 4.79
703 1118 3.605749 CTCCGTCCGCACCAACCAT 62.606 63.158 0.00 0.00 0.00 3.55
759 1183 1.187087 CCCACTCTCTCACACCTACC 58.813 60.000 0.00 0.00 0.00 3.18
760 1184 1.272760 CCCACTCTCTCACACCTACCT 60.273 57.143 0.00 0.00 0.00 3.08
761 1185 2.025226 CCCACTCTCTCACACCTACCTA 60.025 54.545 0.00 0.00 0.00 3.08
765 1189 5.120399 CACTCTCTCACACCTACCTACTAG 58.880 50.000 0.00 0.00 0.00 2.57
769 1193 5.723405 TCTCTCACACCTACCTACTAGTACA 59.277 44.000 0.00 0.00 0.00 2.90
1508 2076 3.414549 TTTTCGTGTGTTCTTTGCCTC 57.585 42.857 0.00 0.00 0.00 4.70
1509 2077 0.934496 TTCGTGTGTTCTTTGCCTCG 59.066 50.000 0.00 0.00 0.00 4.63
1622 2190 3.391296 TCAATACCTTGCTCCAGGGATAC 59.609 47.826 0.02 0.00 36.31 2.24
1628 2196 0.399091 TGCTCCAGGGATACTCAGGG 60.399 60.000 0.00 0.00 0.00 4.45
1972 2540 0.671781 CTTGCTGAGGTCTTGTCGGG 60.672 60.000 0.00 0.00 0.00 5.14
2237 2805 0.670546 CCACCAAGTCAATCGAGCGT 60.671 55.000 0.00 0.00 0.00 5.07
2525 3093 1.831106 TGCTCCGAGCTCCAATTCTTA 59.169 47.619 20.87 0.00 42.97 2.10
2735 3303 0.389025 TCAAGAGCTGCGTGAAGACA 59.611 50.000 0.00 0.00 31.94 3.41
2900 3468 1.392853 CAGAAGATGCGTGCAGTTCTC 59.607 52.381 15.60 2.88 33.52 2.87
3191 3759 1.066303 GTGTTCGTTGCCATGAACCAA 59.934 47.619 17.58 0.55 45.20 3.67
3317 3907 0.886563 ATTTCAGAAGCCTGCAGTGC 59.113 50.000 13.81 15.45 40.20 4.40
3319 3909 0.887836 TTCAGAAGCCTGCAGTGCTG 60.888 55.000 24.47 16.08 39.48 4.41
3519 4194 5.187687 ACCGGTTCAAGAAAGTAAAACTCA 58.812 37.500 0.00 0.00 0.00 3.41
3648 4323 7.230913 TCAGTACTCTGCTTACTAAGTTCAGTT 59.769 37.037 0.00 0.00 41.10 3.16
3650 4325 7.868415 AGTACTCTGCTTACTAAGTTCAGTTTG 59.132 37.037 0.00 0.00 0.00 2.93
3668 4343 9.444600 TTCAGTTTGGACTTTAGTATAATGACC 57.555 33.333 0.00 0.00 32.54 4.02
3795 4470 7.602265 CCTAACACCAAAACCATCCTTAATTTG 59.398 37.037 0.00 0.00 0.00 2.32
3806 4481 5.507482 CCATCCTTAATTTGCTGCTCATCTG 60.507 44.000 0.00 0.00 0.00 2.90
3833 4508 2.612212 GTCCATAACCAAGGCACATACG 59.388 50.000 0.00 0.00 0.00 3.06
3834 4509 2.237643 TCCATAACCAAGGCACATACGT 59.762 45.455 0.00 0.00 0.00 3.57
3835 4510 2.354510 CCATAACCAAGGCACATACGTG 59.645 50.000 0.00 0.00 46.56 4.49
3912 4593 8.847196 GTCATACGTAGGCAGGAATATATATGA 58.153 37.037 1.53 0.00 0.00 2.15
3959 4652 7.065324 CGTATTTGTATTCTACTCCTTTTGGCA 59.935 37.037 0.00 0.00 40.12 4.92
3989 4682 5.830000 ATCTACACGTATCAACAGCTGTA 57.170 39.130 22.01 5.63 0.00 2.74
4000 4693 0.179111 ACAGCTGTATGTGCGCGTAT 60.179 50.000 20.16 1.62 35.28 3.06
4028 4721 2.717044 CCACCGTATCCTGCCGACA 61.717 63.158 0.00 0.00 0.00 4.35
4044 4737 6.479990 CCTGCCGACATATGTATAATGTATGG 59.520 42.308 8.71 1.49 31.68 2.74
4116 4809 4.728772 TGGATGAAATGAAGGTGTCAACT 58.271 39.130 0.00 0.00 40.50 3.16
4135 4828 2.020720 CTAGCTGTGTCCTGATCTCGT 58.979 52.381 0.00 0.00 0.00 4.18
4208 4901 0.038159 GTGTCCGAGTTCAGAGTGGG 60.038 60.000 0.00 0.00 0.00 4.61
4220 4913 0.322636 AGAGTGGGTCGTCGACAGAT 60.323 55.000 25.64 9.24 33.68 2.90
4221 4914 0.099082 GAGTGGGTCGTCGACAGATC 59.901 60.000 25.64 13.46 33.68 2.75
4232 4925 2.200792 CGACAGATCGCTGATGTTCT 57.799 50.000 0.00 0.00 45.17 3.01
4233 4926 2.115595 CGACAGATCGCTGATGTTCTC 58.884 52.381 0.00 0.00 45.17 2.87
4234 4927 2.468831 GACAGATCGCTGATGTTCTCC 58.531 52.381 0.00 0.00 45.17 3.71
4235 4928 2.100584 GACAGATCGCTGATGTTCTCCT 59.899 50.000 0.00 0.00 45.17 3.69
4236 4929 2.159128 ACAGATCGCTGATGTTCTCCTG 60.159 50.000 0.00 0.00 45.17 3.86
4237 4930 1.202510 AGATCGCTGATGTTCTCCTGC 60.203 52.381 0.00 0.00 0.00 4.85
4238 4931 0.538584 ATCGCTGATGTTCTCCTGCA 59.461 50.000 0.00 0.00 0.00 4.41
4239 4932 0.108472 TCGCTGATGTTCTCCTGCAG 60.108 55.000 6.78 6.78 0.00 4.41
4240 4933 0.108472 CGCTGATGTTCTCCTGCAGA 60.108 55.000 17.39 0.00 0.00 4.26
4241 4934 1.472904 CGCTGATGTTCTCCTGCAGAT 60.473 52.381 17.39 0.00 0.00 2.90
4242 4935 2.641305 GCTGATGTTCTCCTGCAGATT 58.359 47.619 17.39 0.00 0.00 2.40
4243 4936 2.355132 GCTGATGTTCTCCTGCAGATTG 59.645 50.000 17.39 4.71 0.00 2.67
4244 4937 2.355132 CTGATGTTCTCCTGCAGATTGC 59.645 50.000 17.39 1.77 45.29 3.56
4245 4938 2.026542 TGATGTTCTCCTGCAGATTGCT 60.027 45.455 17.39 0.00 45.31 3.91
4246 4939 1.817357 TGTTCTCCTGCAGATTGCTG 58.183 50.000 17.39 0.00 45.31 4.41
4247 4940 1.348696 TGTTCTCCTGCAGATTGCTGA 59.651 47.619 17.39 1.10 45.31 4.26
4248 4941 2.026542 TGTTCTCCTGCAGATTGCTGAT 60.027 45.455 17.39 0.00 45.31 2.90
4249 4942 3.198417 TGTTCTCCTGCAGATTGCTGATA 59.802 43.478 17.39 0.00 45.31 2.15
4250 4943 3.465742 TCTCCTGCAGATTGCTGATAC 57.534 47.619 17.39 0.00 45.31 2.24
4251 4944 2.767960 TCTCCTGCAGATTGCTGATACA 59.232 45.455 17.39 0.00 45.31 2.29
4252 4945 3.198417 TCTCCTGCAGATTGCTGATACAA 59.802 43.478 17.39 0.00 45.31 2.41
4253 4946 3.273434 TCCTGCAGATTGCTGATACAAC 58.727 45.455 17.39 0.00 45.31 3.32
4254 4947 2.031314 CCTGCAGATTGCTGATACAACG 59.969 50.000 17.39 0.00 45.31 4.10
4255 4948 2.931969 CTGCAGATTGCTGATACAACGA 59.068 45.455 8.42 0.00 45.31 3.85
4256 4949 2.931969 TGCAGATTGCTGATACAACGAG 59.068 45.455 2.48 0.00 45.31 4.18
4257 4950 2.286294 GCAGATTGCTGATACAACGAGG 59.714 50.000 0.00 0.00 45.17 4.63
4258 4951 2.286294 CAGATTGCTGATACAACGAGGC 59.714 50.000 0.00 0.00 45.17 4.70
4259 4952 1.599542 GATTGCTGATACAACGAGGCC 59.400 52.381 0.00 0.00 31.03 5.19
4260 4953 0.613260 TTGCTGATACAACGAGGCCT 59.387 50.000 3.86 3.86 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 104 2.434185 TCCGTGGCTGATTCGTGC 60.434 61.111 0.00 0.00 0.00 5.34
87 114 2.380084 TGTTCTTATCACTCCGTGGC 57.620 50.000 0.00 0.00 33.87 5.01
103 130 2.038329 TCGACCCCTCCGGATGTT 59.962 61.111 3.57 0.00 34.64 2.71
228 290 9.095065 CGTGTGTAGCCTATAGTAAAATTTCTT 57.905 33.333 0.00 0.00 0.00 2.52
230 292 7.042254 CCCGTGTGTAGCCTATAGTAAAATTTC 60.042 40.741 0.00 0.00 0.00 2.17
232 294 6.285990 CCCGTGTGTAGCCTATAGTAAAATT 58.714 40.000 0.00 0.00 0.00 1.82
237 299 2.867624 CCCCGTGTGTAGCCTATAGTA 58.132 52.381 0.00 0.00 0.00 1.82
241 303 1.268992 TTGCCCCGTGTGTAGCCTAT 61.269 55.000 0.00 0.00 0.00 2.57
251 313 5.009854 AGATTCATTTATTTTGCCCCGTG 57.990 39.130 0.00 0.00 0.00 4.94
286 348 7.499563 AGACTGCATTCGGATATATATAGACGT 59.500 37.037 14.66 0.00 0.00 4.34
287 349 7.866729 AGACTGCATTCGGATATATATAGACG 58.133 38.462 10.84 10.84 0.00 4.18
297 359 6.266786 TCCACTATAAAGACTGCATTCGGATA 59.733 38.462 0.00 0.00 0.00 2.59
301 363 6.703607 AGATTCCACTATAAAGACTGCATTCG 59.296 38.462 0.00 0.00 0.00 3.34
336 398 8.713971 TCATGCTCCTCTGTTCCTAAATATAAA 58.286 33.333 0.00 0.00 0.00 1.40
358 421 3.591023 TCACCTTTTTGCATGCATCATG 58.409 40.909 23.37 13.84 43.91 3.07
430 510 3.261981 TCCGAGGAATCTAACTTTGCC 57.738 47.619 0.00 0.00 0.00 4.52
690 1105 0.179004 ACTGAAATGGTTGGTGCGGA 60.179 50.000 0.00 0.00 0.00 5.54
691 1106 0.039256 CACTGAAATGGTTGGTGCGG 60.039 55.000 0.00 0.00 0.00 5.69
692 1107 0.039256 CCACTGAAATGGTTGGTGCG 60.039 55.000 0.00 0.00 34.77 5.34
693 1108 3.892200 CCACTGAAATGGTTGGTGC 57.108 52.632 0.00 0.00 34.77 5.01
703 1118 0.534203 GGCGAGGTTGACCACTGAAA 60.534 55.000 2.56 0.00 38.89 2.69
759 1183 3.528594 CGCAGCCGTGTACTAGTAG 57.471 57.895 1.87 0.00 0.00 2.57
787 1211 3.479088 AGGGAGGGGAGGGATTAAATAGA 59.521 47.826 0.00 0.00 0.00 1.98
982 1511 2.602933 CCATCGAAATATGCAGCAACGG 60.603 50.000 0.00 0.00 0.00 4.44
986 1515 2.874086 CACTCCATCGAAATATGCAGCA 59.126 45.455 0.00 0.00 0.00 4.41
1230 1759 3.688086 GACTCGTCCAGCTCCACT 58.312 61.111 0.00 0.00 0.00 4.00
1489 2057 1.329292 CGAGGCAAAGAACACACGAAA 59.671 47.619 0.00 0.00 0.00 3.46
1491 2059 0.179094 ACGAGGCAAAGAACACACGA 60.179 50.000 0.00 0.00 0.00 4.35
1500 2068 2.393271 AGGAATCTGACGAGGCAAAG 57.607 50.000 0.00 0.00 0.00 2.77
1508 2076 0.921347 CCGCGTTAAGGAATCTGACG 59.079 55.000 4.92 0.00 36.83 4.35
1509 2077 1.134907 TCCCGCGTTAAGGAATCTGAC 60.135 52.381 4.92 0.00 0.00 3.51
1622 2190 1.103987 TCTCGAAGCGGATCCCTGAG 61.104 60.000 6.06 8.36 0.00 3.35
1628 2196 3.784845 GAGGATCTCGAAGCGGATC 57.215 57.895 4.26 4.26 38.01 3.36
1916 2484 1.089920 CCTCGAAAAGCACCATGGAG 58.910 55.000 21.47 12.70 0.00 3.86
1972 2540 1.067565 TCATGACCTCACAGAAGACGC 60.068 52.381 0.00 0.00 0.00 5.19
2237 2805 3.250744 GTCGTTGACGGAATTGATCTCA 58.749 45.455 3.48 0.00 40.29 3.27
2360 2928 1.886313 CATGAGCTTGCCGATCGCT 60.886 57.895 10.32 0.00 38.78 4.93
2525 3093 1.152756 GTTGGTCACAGGGTTGCCT 60.153 57.895 0.00 0.00 0.00 4.75
2735 3303 2.175202 CTCAGTGTCTTCCTAGCCACT 58.825 52.381 0.00 0.00 0.00 4.00
2942 3510 2.654912 GGCAAACACCGACGTCTCG 61.655 63.158 14.70 5.97 39.83 4.04
3044 3612 2.111932 TACGGTTTTGCTGTGCTGCG 62.112 55.000 0.00 0.00 37.27 5.18
3191 3759 3.121030 GCGTCGATGTGCTTGCCT 61.121 61.111 6.48 0.00 0.00 4.75
3267 3835 4.872691 ACGCTACTCTTCCATTTCTTGATG 59.127 41.667 0.00 0.00 0.00 3.07
3412 4003 1.003580 CTGTCTACCCAACACTGCCAT 59.996 52.381 0.00 0.00 0.00 4.40
3416 4007 5.365619 AGTTTTACTGTCTACCCAACACTG 58.634 41.667 0.00 0.00 0.00 3.66
3498 4091 5.625311 GCATGAGTTTTACTTTCTTGAACCG 59.375 40.000 0.00 0.00 0.00 4.44
3519 4194 2.274760 GGCAGCTCTGGAAGGCAT 59.725 61.111 0.00 0.00 33.36 4.40
3648 4323 9.747898 AATGTTGGTCATTATACTAAAGTCCAA 57.252 29.630 0.00 0.00 43.93 3.53
3650 4325 9.174166 ACAATGTTGGTCATTATACTAAAGTCC 57.826 33.333 0.00 0.00 43.93 3.85
3748 4423 8.680903 GTTAGGATCTTCATTCATGTGACATTT 58.319 33.333 0.00 0.00 0.00 2.32
3806 4481 3.378427 GTGCCTTGGTTATGGACATCTTC 59.622 47.826 0.00 0.00 0.00 2.87
3833 4508 2.663879 CGCAGAGAAACTTCATGTGCAC 60.664 50.000 10.75 10.75 32.34 4.57
3834 4509 1.532437 CGCAGAGAAACTTCATGTGCA 59.468 47.619 0.00 0.00 32.34 4.57
3835 4510 1.727213 GCGCAGAGAAACTTCATGTGC 60.727 52.381 0.30 13.79 41.75 4.57
3836 4511 1.802960 AGCGCAGAGAAACTTCATGTG 59.197 47.619 11.47 4.68 32.91 3.21
3912 4593 2.943033 GCGCCACATACCTTACAATCTT 59.057 45.455 0.00 0.00 0.00 2.40
3959 4652 8.818057 GCTGTTGATACGTGTAGATTAAAGAAT 58.182 33.333 0.00 0.00 0.00 2.40
3989 4682 2.794910 GACAGTCAATATACGCGCACAT 59.205 45.455 5.73 1.44 0.00 3.21
4000 4693 3.383505 CAGGATACGGTGGACAGTCAATA 59.616 47.826 2.17 0.00 46.39 1.90
4028 4721 5.368145 CAGCCGGCCATACATTATACATAT 58.632 41.667 26.15 0.00 0.00 1.78
4116 4809 2.130272 ACGAGATCAGGACACAGCTA 57.870 50.000 0.00 0.00 0.00 3.32
4135 4828 5.417894 TGCTTTCTGTTTCTCCTATCGAGTA 59.582 40.000 0.00 0.00 39.84 2.59
4220 4913 0.108472 CTGCAGGAGAACATCAGCGA 60.108 55.000 5.57 0.00 34.28 4.93
4221 4914 0.108472 TCTGCAGGAGAACATCAGCG 60.108 55.000 15.13 0.00 34.28 5.18
4222 4915 2.328819 ATCTGCAGGAGAACATCAGC 57.671 50.000 15.13 0.00 33.12 4.26
4223 4916 2.355132 GCAATCTGCAGGAGAACATCAG 59.645 50.000 15.13 0.00 44.26 2.90
4224 4917 2.362736 GCAATCTGCAGGAGAACATCA 58.637 47.619 15.13 0.00 44.26 3.07
4236 4929 2.286294 CCTCGTTGTATCAGCAATCTGC 59.714 50.000 0.00 0.00 45.46 4.26
4237 4930 2.286294 GCCTCGTTGTATCAGCAATCTG 59.714 50.000 0.00 0.00 41.67 2.90
4238 4931 2.555199 GCCTCGTTGTATCAGCAATCT 58.445 47.619 0.00 0.00 0.00 2.40
4239 4932 1.599542 GGCCTCGTTGTATCAGCAATC 59.400 52.381 0.00 0.00 0.00 2.67
4240 4933 1.210478 AGGCCTCGTTGTATCAGCAAT 59.790 47.619 0.00 0.00 0.00 3.56
4241 4934 0.613260 AGGCCTCGTTGTATCAGCAA 59.387 50.000 0.00 0.00 0.00 3.91
4242 4935 2.286826 AGGCCTCGTTGTATCAGCA 58.713 52.632 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.