Multiple sequence alignment - TraesCS5A01G425200

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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 TraesCS5A01G425200 chr5A 100.000 3212 0 0 1 3212 610466091 610462880 0.000000e+00 5932.0
1 TraesCS5A01G425200 chr5D 96.550 2319 62 7 899 3208 489313232 489310923 0.000000e+00 3823.0
2 TraesCS5A01G425200 chr5D 89.051 274 24 4 1 268 489316922 489316649 5.130000e-88 335.0
3 TraesCS5A01G425200 chr5D 82.836 268 8 7 681 913 489316476 489316212 4.200000e-49 206.0
4 TraesCS5A01G425200 chr5D 90.647 139 9 2 532 670 489316651 489316517 7.080000e-42 182.0
5 TraesCS5A01G425200 chr5B 95.523 1854 65 5 845 2680 603458487 603456634 0.000000e+00 2948.0
6 TraesCS5A01G425200 chr5B 95.113 532 24 2 2677 3208 603456542 603456013 0.000000e+00 837.0
7 TraesCS5A01G425200 chr5B 85.915 142 15 2 532 673 603560248 603560112 2.580000e-31 147.0
8 TraesCS5A01G425200 chr5B 94.231 52 1 2 750 801 603557572 603557523 9.550000e-11 78.7
9 TraesCS5A01G425200 chr1A 91.259 286 15 3 265 540 22452979 22452694 6.500000e-102 381.0
10 TraesCS5A01G425200 chr6B 91.135 282 15 3 262 534 518680055 518679775 1.090000e-99 374.0
11 TraesCS5A01G425200 chr6B 84.270 89 10 4 164 250 647890228 647890142 2.050000e-12 84.2
12 TraesCS5A01G425200 chr1B 90.614 277 18 3 266 534 599316854 599316578 8.470000e-96 361.0
13 TraesCS5A01G425200 chr1B 84.488 303 33 6 241 532 544944918 544944619 1.460000e-73 287.0
14 TraesCS5A01G425200 chr1B 84.158 303 34 6 241 532 544942998 544942699 6.780000e-72 281.0
15 TraesCS5A01G425200 chr1B 80.714 280 32 12 266 534 179514078 179513810 7.030000e-47 198.0
16 TraesCS5A01G425200 chr1B 94.000 50 3 0 2893 2942 410814071 410814022 3.440000e-10 76.8
17 TraesCS5A01G425200 chr7B 90.511 274 17 2 268 532 138447789 138448062 1.420000e-93 353.0
18 TraesCS5A01G425200 chr7A 89.928 278 19 2 266 534 625740995 625741272 1.830000e-92 350.0
19 TraesCS5A01G425200 chr7A 89.680 281 20 2 266 537 682180192 682179912 1.830000e-92 350.0
20 TraesCS5A01G425200 chr2D 89.209 278 22 7 260 532 64028038 64028312 1.100000e-89 340.0
21 TraesCS5A01G425200 chr2D 85.119 168 17 6 267 426 531600844 531600677 7.130000e-37 165.0
22 TraesCS5A01G425200 chr2A 87.970 266 22 6 276 532 447940061 447939797 4.030000e-79 305.0
23 TraesCS5A01G425200 chr2A 80.000 230 31 10 2891 3109 171956037 171955812 4.290000e-34 156.0
24 TraesCS5A01G425200 chr2A 79.268 164 28 4 93 252 765832079 765831918 3.390000e-20 110.0
25 TraesCS5A01G425200 chr4D 86.813 273 35 1 263 534 103949595 103949867 1.450000e-78 303.0
26 TraesCS5A01G425200 chrUn 85.149 303 31 6 241 532 390153403 390153702 6.740000e-77 298.0
27 TraesCS5A01G425200 chr1D 81.716 268 30 6 266 524 438210943 438211200 4.200000e-49 206.0
28 TraesCS5A01G425200 chr1D 81.633 98 16 2 136 233 437690345 437690440 2.660000e-11 80.5
29 TraesCS5A01G425200 chr4B 77.737 274 36 22 263 529 87678085 87678340 9.290000e-31 145.0
30 TraesCS5A01G425200 chr3A 86.364 66 7 2 168 232 484655675 484655739 1.600000e-08 71.3
31 TraesCS5A01G425200 chr2B 77.982 109 19 4 133 236 49878261 49878369 2.680000e-06 63.9
32 TraesCS5A01G425200 chr3D 94.737 38 2 0 204 241 497797134 497797171 3.460000e-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 TraesCS5A01G425200 chr5A 610462880 610466091 3211 True 5932.0 5932 100.000 1 3212 1 chr5A.!!$R1 3211
1 TraesCS5A01G425200 chr5D 489310923 489316922 5999 True 1136.5 3823 89.771 1 3208 4 chr5D.!!$R1 3207
2 TraesCS5A01G425200 chr5B 603456013 603458487 2474 True 1892.5 2948 95.318 845 3208 2 chr5B.!!$R1 2363
3 TraesCS5A01G425200 chr1B 544942699 544944918 2219 True 284.0 287 84.323 241 532 2 chr1B.!!$R4 291

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
975 4050 0.253488 TCCCCCTTCCTAAACCCCTC 60.253 60.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2622 5718 1.609555 TGTTGCGGCGTTTTCCTAAAT 59.39 42.857 9.37 0.0 0.0 1.4 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
42 44 9.411801 GGATGTTCCTAAAAAGAAAATCTTGAC 57.588 33.333 4.22 0.00 37.86 3.18
53 55 7.496529 AAGAAAATCTTGACGAAGATCAACA 57.503 32.000 0.00 0.00 46.45 3.33
60 62 3.930336 TGACGAAGATCAACATTGCTCT 58.070 40.909 0.00 0.00 35.36 4.09
91 96 3.572682 TCATCCGTCTATACATGGTGTCC 59.427 47.826 0.00 0.00 0.00 4.02
135 140 2.006888 CCGGCGTGATCTTTTATGTGT 58.993 47.619 6.01 0.00 0.00 3.72
139 144 4.158384 GGCGTGATCTTTTATGTGTGTTG 58.842 43.478 0.00 0.00 0.00 3.33
140 145 4.083537 GGCGTGATCTTTTATGTGTGTTGA 60.084 41.667 0.00 0.00 0.00 3.18
147 152 5.527951 TCTTTTATGTGTGTTGATGTTGGC 58.472 37.500 0.00 0.00 0.00 4.52
151 156 2.924421 TGTGTGTTGATGTTGGCTGTA 58.076 42.857 0.00 0.00 0.00 2.74
154 159 3.253188 GTGTGTTGATGTTGGCTGTATGT 59.747 43.478 0.00 0.00 0.00 2.29
157 162 5.709631 TGTGTTGATGTTGGCTGTATGTATT 59.290 36.000 0.00 0.00 0.00 1.89
173 178 8.478775 TGTATGTATTCTAACTATGCAGAGGT 57.521 34.615 13.85 9.06 0.00 3.85
204 209 5.132897 TGCTCATGGTGTTTTGTATTTCC 57.867 39.130 0.00 0.00 0.00 3.13
291 298 4.037923 GGGCATGTACAATGGTTGATAAGG 59.962 45.833 0.00 0.00 0.00 2.69
330 337 8.430801 AGTCTTGCATGTAATTTAGAGATGAC 57.569 34.615 0.00 0.00 0.00 3.06
364 380 7.618019 TGTCTACAATGATAGCCCTATCTTT 57.382 36.000 14.46 11.83 41.80 2.52
375 391 9.321532 TGATAGCCCTATCTTTAATAACTAGCA 57.678 33.333 14.46 0.00 41.80 3.49
397 413 7.542025 AGCAATTCCTTAAAACATGATGAGAC 58.458 34.615 0.00 0.00 0.00 3.36
398 414 7.177216 AGCAATTCCTTAAAACATGATGAGACA 59.823 33.333 0.00 0.00 0.00 3.41
399 415 7.814107 GCAATTCCTTAAAACATGATGAGACAA 59.186 33.333 0.00 0.00 0.00 3.18
405 421 8.918658 CCTTAAAACATGATGAGACAAATTGTG 58.081 33.333 2.20 0.00 0.00 3.33
406 422 9.467258 CTTAAAACATGATGAGACAAATTGTGT 57.533 29.630 2.20 0.00 45.74 3.72
420 436 9.512588 AGACAAATTGTGTTAAGAGATCATCTT 57.487 29.630 2.20 10.82 45.37 2.40
426 442 7.351414 TGTGTTAAGAGATCATCTTTTGTCG 57.649 36.000 11.16 0.00 46.49 4.35
428 444 8.085909 TGTGTTAAGAGATCATCTTTTGTCGTA 58.914 33.333 11.16 0.00 46.49 3.43
463 479 8.980481 AGAGAAGACAAACCTTTTCTTATGAA 57.020 30.769 0.00 0.00 35.01 2.57
464 480 9.579932 AGAGAAGACAAACCTTTTCTTATGAAT 57.420 29.630 0.00 0.00 35.01 2.57
491 507 5.907662 TCTCTCCTCCACCTCATCATTTATT 59.092 40.000 0.00 0.00 0.00 1.40
494 510 7.075797 TCTCCTCCACCTCATCATTTATTCTA 58.924 38.462 0.00 0.00 0.00 2.10
495 511 7.015682 TCTCCTCCACCTCATCATTTATTCTAC 59.984 40.741 0.00 0.00 0.00 2.59
502 518 5.702670 CCTCATCATTTATTCTACGTGGCAT 59.297 40.000 0.00 0.00 0.00 4.40
504 520 7.255242 CCTCATCATTTATTCTACGTGGCATTT 60.255 37.037 0.00 0.00 0.00 2.32
505 521 7.995289 TCATCATTTATTCTACGTGGCATTTT 58.005 30.769 0.00 0.00 0.00 1.82
509 525 9.781834 TCATTTATTCTACGTGGCATTTTTAAG 57.218 29.630 0.00 0.00 0.00 1.85
522 538 6.070881 TGGCATTTTTAAGATAGCACCATTGT 60.071 34.615 0.00 0.00 0.00 2.71
551 567 1.878953 AACACGGCGAGAATGACTTT 58.121 45.000 16.62 0.00 0.00 2.66
553 569 2.218603 ACACGGCGAGAATGACTTTTT 58.781 42.857 16.62 0.00 0.00 1.94
586 602 6.266558 ACAACCAACCATGCTTTATTACTGAA 59.733 34.615 0.00 0.00 0.00 3.02
587 603 6.909550 ACCAACCATGCTTTATTACTGAAA 57.090 33.333 0.00 0.00 0.00 2.69
588 604 7.296628 ACCAACCATGCTTTATTACTGAAAA 57.703 32.000 0.00 0.00 0.00 2.29
613 629 3.989817 GGGATGTTTTCAGCAATGACAAC 59.010 43.478 1.33 1.33 38.04 3.32
614 630 4.501229 GGGATGTTTTCAGCAATGACAACA 60.501 41.667 11.16 11.16 41.02 3.33
621 637 3.076621 TCAGCAATGACAACAGGATCAC 58.923 45.455 0.00 0.00 0.00 3.06
664 680 1.669999 CCCATGCCTAGCCAACTTGC 61.670 60.000 0.00 0.00 0.00 4.01
719 765 4.081642 CCACTCCTTAATCTCCTTGACGAA 60.082 45.833 0.00 0.00 0.00 3.85
748 794 6.959366 ACCATAATTTCCTCCAAATCCTTCAA 59.041 34.615 0.00 0.00 33.16 2.69
749 795 7.624879 ACCATAATTTCCTCCAAATCCTTCAAT 59.375 33.333 0.00 0.00 33.16 2.57
750 796 7.929785 CCATAATTTCCTCCAAATCCTTCAATG 59.070 37.037 0.00 0.00 33.16 2.82
752 798 5.982890 TTTCCTCCAAATCCTTCAATGAC 57.017 39.130 0.00 0.00 0.00 3.06
754 800 4.592942 TCCTCCAAATCCTTCAATGACAG 58.407 43.478 0.00 0.00 0.00 3.51
755 801 3.129988 CCTCCAAATCCTTCAATGACAGC 59.870 47.826 0.00 0.00 0.00 4.40
756 802 3.760151 CTCCAAATCCTTCAATGACAGCA 59.240 43.478 0.00 0.00 0.00 4.41
758 804 3.508762 CAAATCCTTCAATGACAGCAGC 58.491 45.455 0.00 0.00 0.00 5.25
790 847 5.239306 TCAGAAGCAACGAAAAGATGTTGAT 59.761 36.000 9.09 0.00 46.45 2.57
814 886 1.181098 AGCAAGCACCAATCCACCAC 61.181 55.000 0.00 0.00 0.00 4.16
817 889 0.606401 AAGCACCAATCCACCACGAG 60.606 55.000 0.00 0.00 0.00 4.18
819 891 1.302431 CACCAATCCACCACGAGCA 60.302 57.895 0.00 0.00 0.00 4.26
823 895 1.003355 AATCCACCACGAGCACAGG 60.003 57.895 0.00 0.00 0.00 4.00
838 910 4.711949 AGGCCCAGCGCTGTCAAG 62.712 66.667 33.75 19.29 37.74 3.02
947 4022 3.691342 CCACCTCTTCACCGCCGA 61.691 66.667 0.00 0.00 0.00 5.54
949 4024 4.052229 ACCTCTTCACCGCCGACG 62.052 66.667 0.00 0.00 39.67 5.12
975 4050 0.253488 TCCCCCTTCCTAAACCCCTC 60.253 60.000 0.00 0.00 0.00 4.30
981 4056 3.078836 CCTAAACCCCTCCGCGGA 61.079 66.667 29.03 29.03 33.16 5.54
983 4058 1.297364 CTAAACCCCTCCGCGGAAA 59.703 57.895 30.53 8.03 33.16 3.13
1320 4395 4.263572 CCCGAGCACAACCACCCA 62.264 66.667 0.00 0.00 0.00 4.51
1335 4410 2.190578 CCATGGTTCCGCCTCTCC 59.809 66.667 2.57 0.00 38.35 3.71
1530 4605 0.378257 CGGATTTCGACATTGGGCAG 59.622 55.000 0.00 0.00 42.43 4.85
1536 4611 1.825191 CGACATTGGGCAGGATGGG 60.825 63.158 0.00 0.00 35.86 4.00
1566 4641 1.002888 CTGACCACTGGAGATGCTGTT 59.997 52.381 0.71 0.00 0.00 3.16
1598 4673 2.265367 TGAGAACCATGGTAAGGAGCA 58.735 47.619 20.12 8.16 37.51 4.26
1680 4755 4.925576 CGGAGGTTCGGATCGGCG 62.926 72.222 0.00 0.00 0.00 6.46
1772 4847 1.101331 GGATTCCAGAAGCTGCCTTG 58.899 55.000 0.00 0.00 0.00 3.61
2121 5196 1.688735 TCACAGGAGATCATAAGGCGG 59.311 52.381 0.00 0.00 0.00 6.13
2153 5228 0.957395 AAGCCTGCACAGTTGGATCG 60.957 55.000 0.00 0.00 0.00 3.69
2174 5249 2.744760 TGAGGATCAAGAGAGTGAGGG 58.255 52.381 0.00 0.00 45.97 4.30
2218 5293 5.624159 CTGCAATCCCTTCATAGGATGTTA 58.376 41.667 0.00 0.00 43.54 2.41
2270 5346 1.469308 TGGGCAATACGGCTTTTTACG 59.531 47.619 0.00 0.00 40.90 3.18
2285 5361 6.251549 GCTTTTTACGGATTTTTGCAACAAA 58.748 32.000 0.00 3.95 0.00 2.83
2459 5543 6.881602 AGTCCAAATTTCTTCTGGTAGATGTC 59.118 38.462 0.00 0.00 0.00 3.06
2542 5637 5.048782 TGCTGTTGTGACTTTCCAATGTATC 60.049 40.000 0.00 0.00 0.00 2.24
2544 5639 6.558771 TGTTGTGACTTTCCAATGTATCTG 57.441 37.500 0.00 0.00 0.00 2.90
2621 5717 6.846710 CAAGTGCTATTCTTGATTGGGAAACC 60.847 42.308 0.00 0.00 46.57 3.27
2668 5764 4.599041 ACTGGCAAATAACAGGCAAGATA 58.401 39.130 0.00 0.00 39.95 1.98
2840 6274 0.553819 TAGTTTTGGTGTGTGGCCCT 59.446 50.000 0.00 0.00 0.00 5.19
2999 7337 4.937201 TTCTATGTGGCAGACATATCGT 57.063 40.909 7.95 0.00 44.85 3.73
3040 7378 4.858850 TGATTTGGTTGATGCATACCTCT 58.141 39.130 17.55 4.56 35.41 3.69
3170 7508 5.557136 GCATTGCACGAGTATTTAGCTAGTG 60.557 44.000 3.15 0.00 40.77 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 5.932619 TTTAGGAACATCCTCATCGAGAA 57.067 39.130 1.36 0.00 45.66 2.87
76 81 4.533815 AGAAGACGGACACCATGTATAGA 58.466 43.478 0.00 0.00 0.00 1.98
84 89 0.535335 GCCATAGAAGACGGACACCA 59.465 55.000 0.00 0.00 0.00 4.17
87 92 1.134367 CGAAGCCATAGAAGACGGACA 59.866 52.381 0.00 0.00 0.00 4.02
135 140 6.179756 AGAATACATACAGCCAACATCAACA 58.820 36.000 0.00 0.00 0.00 3.33
139 144 9.712305 ATAGTTAGAATACATACAGCCAACATC 57.288 33.333 0.00 0.00 0.00 3.06
140 145 9.494271 CATAGTTAGAATACATACAGCCAACAT 57.506 33.333 0.00 0.00 0.00 2.71
147 152 8.580720 ACCTCTGCATAGTTAGAATACATACAG 58.419 37.037 0.00 0.00 0.00 2.74
151 156 7.603180 TCACCTCTGCATAGTTAGAATACAT 57.397 36.000 0.00 0.00 0.00 2.29
154 159 7.124298 ACACTTCACCTCTGCATAGTTAGAATA 59.876 37.037 0.00 0.00 0.00 1.75
157 162 4.772624 ACACTTCACCTCTGCATAGTTAGA 59.227 41.667 0.00 0.00 0.00 2.10
173 178 3.701205 ACACCATGAGCATACACTTCA 57.299 42.857 0.00 0.00 0.00 3.02
248 255 4.038042 GCCCTTAAGCTTGTTGACTTCTTT 59.962 41.667 9.86 0.00 0.00 2.52
265 272 4.308526 TCAACCATTGTACATGCCCTTA 57.691 40.909 0.00 0.00 0.00 2.69
266 273 3.168035 TCAACCATTGTACATGCCCTT 57.832 42.857 0.00 0.00 0.00 3.95
291 298 6.314896 ACATGCAAGACTTAAGATAAGACTGC 59.685 38.462 10.09 8.18 0.00 4.40
339 346 7.805083 AAGATAGGGCTATCATTGTAGACAT 57.195 36.000 0.00 0.00 43.27 3.06
370 386 8.896744 TCTCATCATGTTTTAAGGAATTGCTAG 58.103 33.333 0.00 0.00 0.00 3.42
386 402 8.394971 TCTTAACACAATTTGTCTCATCATGT 57.605 30.769 0.00 0.00 37.51 3.21
387 403 8.724229 TCTCTTAACACAATTTGTCTCATCATG 58.276 33.333 0.00 0.00 37.51 3.07
391 407 8.853077 TGATCTCTTAACACAATTTGTCTCAT 57.147 30.769 0.00 0.00 37.51 2.90
405 421 9.522804 AGATACGACAAAAGATGATCTCTTAAC 57.477 33.333 0.00 0.00 43.60 2.01
463 479 3.052262 TGATGAGGTGGAGGAGAGAGAAT 60.052 47.826 0.00 0.00 0.00 2.40
464 480 2.313041 TGATGAGGTGGAGGAGAGAGAA 59.687 50.000 0.00 0.00 0.00 2.87
491 507 6.036735 GTGCTATCTTAAAAATGCCACGTAGA 59.963 38.462 0.00 0.00 0.00 2.59
494 510 4.142469 GGTGCTATCTTAAAAATGCCACGT 60.142 41.667 0.00 0.00 0.00 4.49
495 511 4.142491 TGGTGCTATCTTAAAAATGCCACG 60.142 41.667 0.00 0.00 0.00 4.94
502 518 7.973388 GCATGTACAATGGTGCTATCTTAAAAA 59.027 33.333 11.12 0.00 34.85 1.94
504 520 6.039270 GGCATGTACAATGGTGCTATCTTAAA 59.961 38.462 16.47 0.00 37.70 1.52
505 521 5.530915 GGCATGTACAATGGTGCTATCTTAA 59.469 40.000 16.47 0.00 37.70 1.85
509 525 2.554032 GGGCATGTACAATGGTGCTATC 59.446 50.000 16.47 3.12 37.70 2.08
565 581 9.520204 CTATTTTCAGTAATAAAGCATGGTTGG 57.480 33.333 11.56 0.00 0.00 3.77
568 584 8.058847 TCCCTATTTTCAGTAATAAAGCATGGT 58.941 33.333 0.00 0.00 0.00 3.55
586 602 6.211184 TGTCATTGCTGAAAACATCCCTATTT 59.789 34.615 0.00 0.00 31.85 1.40
587 603 5.716228 TGTCATTGCTGAAAACATCCCTATT 59.284 36.000 0.00 0.00 31.85 1.73
588 604 5.263599 TGTCATTGCTGAAAACATCCCTAT 58.736 37.500 0.00 0.00 31.85 2.57
664 680 2.949714 ATGTTGAAACTCGCAACTCG 57.050 45.000 0.00 0.00 44.43 4.18
670 686 5.049680 TGAAGACCTTTATGTTGAAACTCGC 60.050 40.000 0.00 0.00 0.00 5.03
672 688 7.174946 TGGATGAAGACCTTTATGTTGAAACTC 59.825 37.037 0.00 0.00 0.00 3.01
673 689 7.004086 TGGATGAAGACCTTTATGTTGAAACT 58.996 34.615 0.00 0.00 0.00 2.66
674 690 7.040409 AGTGGATGAAGACCTTTATGTTGAAAC 60.040 37.037 0.00 0.00 0.00 2.78
675 691 7.004086 AGTGGATGAAGACCTTTATGTTGAAA 58.996 34.615 0.00 0.00 0.00 2.69
678 694 5.355350 GGAGTGGATGAAGACCTTTATGTTG 59.645 44.000 0.00 0.00 0.00 3.33
679 695 5.251700 AGGAGTGGATGAAGACCTTTATGTT 59.748 40.000 0.00 0.00 0.00 2.71
719 765 5.840693 GGATTTGGAGGAAATTATGGTGGAT 59.159 40.000 0.00 0.00 34.18 3.41
755 801 0.949397 TGCTTCTGACTGCAAAGCTG 59.051 50.000 18.21 2.04 44.45 4.24
756 802 1.683943 TTGCTTCTGACTGCAAAGCT 58.316 45.000 18.21 0.00 44.75 3.74
790 847 1.202915 TGGATTGGTGCTTGCTGAAGA 60.203 47.619 0.00 0.00 0.00 2.87
823 895 3.123620 CTCTTGACAGCGCTGGGC 61.124 66.667 38.27 29.16 44.05 5.36
826 898 1.739562 GGACCTCTTGACAGCGCTG 60.740 63.158 34.89 34.89 0.00 5.18
827 899 2.659610 GGACCTCTTGACAGCGCT 59.340 61.111 2.64 2.64 0.00 5.92
828 900 2.435059 GGGACCTCTTGACAGCGC 60.435 66.667 0.00 0.00 0.00 5.92
949 4024 2.562973 TTAGGAAGGGGGAGGAGGCC 62.563 65.000 0.00 0.00 0.00 5.19
957 4032 1.287038 GGAGGGGTTTAGGAAGGGGG 61.287 65.000 0.00 0.00 0.00 5.40
960 4035 1.223763 GCGGAGGGGTTTAGGAAGG 59.776 63.158 0.00 0.00 0.00 3.46
975 4050 3.060000 GGAAAGGGGTTTCCGCGG 61.060 66.667 22.12 22.12 40.81 6.46
1320 4395 3.090532 GGGGAGAGGCGGAACCAT 61.091 66.667 0.00 0.00 43.14 3.55
1358 4433 3.587170 AAGACGTCCCGCTCCTCCT 62.587 63.158 13.01 0.00 0.00 3.69
1566 4641 3.780804 TGGTTCTCATCCTCGGAAAAA 57.219 42.857 0.00 0.00 0.00 1.94
1598 4673 1.486997 CCCATCATCGATGAGCCCCT 61.487 60.000 30.11 12.95 42.09 4.79
2141 5216 2.094026 TGATCCTCACGATCCAACTGTG 60.094 50.000 0.00 0.00 46.06 3.66
2153 5228 2.430332 CCCTCACTCTCTTGATCCTCAC 59.570 54.545 0.00 0.00 0.00 3.51
2174 5249 3.751698 AGCTGAATTTACACCCTTCGAAC 59.248 43.478 0.00 0.00 0.00 3.95
2238 5313 5.683770 GCCGTATTGCCCATTTCCTTATTTT 60.684 40.000 0.00 0.00 0.00 1.82
2270 5346 5.278414 CCCCTCATTTTTGTTGCAAAAATCC 60.278 40.000 22.13 0.00 37.64 3.01
2459 5543 2.720933 CGTCATGTATCACCTCACTCG 58.279 52.381 0.00 0.00 0.00 4.18
2542 5637 4.518211 AGCAGGAAGAAAAGATGTTCACAG 59.482 41.667 0.00 0.00 33.06 3.66
2544 5639 5.444663 AAGCAGGAAGAAAAGATGTTCAC 57.555 39.130 0.00 0.00 33.06 3.18
2621 5717 1.982913 GTTGCGGCGTTTTCCTAAATG 59.017 47.619 9.37 0.00 34.12 2.32
2622 5718 1.609555 TGTTGCGGCGTTTTCCTAAAT 59.390 42.857 9.37 0.00 0.00 1.40
2740 5931 9.864034 CATACCAACGTAATATGATCAAGAAAC 57.136 33.333 0.00 0.00 0.00 2.78
2840 6274 2.761208 CCTTACCCCAAACAACAACACA 59.239 45.455 0.00 0.00 0.00 3.72
2986 7324 3.650070 TGAGATCACGATATGTCTGCC 57.350 47.619 0.00 0.00 0.00 4.85
3127 7465 8.042515 TGCAATGCTACAGATAATATATGCTCA 58.957 33.333 6.82 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.