Multiple sequence alignment - TraesCS3B01G382600

Loading Multiple Alignment...

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 TraesCS3B01G382600 chr3B 100.000 3692 0 0 1 3692 602367668 602363977 0.000000e+00 6818
1 TraesCS3B01G382600 chr3A 93.263 3429 130 39 337 3689 598566978 598563575 0.000000e+00 4959
2 TraesCS3B01G382600 chr3A 86.866 335 41 2 1 335 598567358 598567027 4.500000e-99 372
3 TraesCS3B01G382600 chr3D 93.576 3347 127 27 418 3687 455882858 455879523 0.000000e+00 4909
4 TraesCS3B01G382600 chr3D 91.667 336 28 0 1 336 455931820 455931485 2.010000e-127 466


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 TraesCS3B01G382600 chr3B 602363977 602367668 3691 True 6818.0 6818 100.0000 1 3692 1 chr3B.!!$R1 3691
1 TraesCS3B01G382600 chr3A 598563575 598567358 3783 True 2665.5 4959 90.0645 1 3689 2 chr3A.!!$R1 3688
2 TraesCS3B01G382600 chr3D 455879523 455882858 3335 True 4909.0 4909 93.5760 418 3687 1 chr3D.!!$R1 3269

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
691 759 0.028110 GCACCGCTTTGCTGCTATAC 59.972 55.0 0.0 0.0 39.59 1.47 F
693 761 0.541863 ACCGCTTTGCTGCTATACCT 59.458 50.0 0.0 0.0 0.00 3.08 F
1377 1471 0.681243 GCGCCTTTCTTTGGGAGGAT 60.681 55.0 0.0 0.0 32.11 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2446 2543 0.035820 TCGGGATTCAAAGGGTTCGG 60.036 55.000 0.00 0.00 0.00 4.30 R
2628 2728 1.732259 ACATCTAAAGAAGCCAACGCG 59.268 47.619 3.53 3.53 41.18 6.01 R
3292 3426 1.727880 CCAGCAAATGAAACAATGCCG 59.272 47.619 0.00 0.00 39.59 5.69 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
24 25 6.441093 AATACATGTGTTCATAAGGTGCTG 57.559 37.500 9.11 0.00 32.47 4.41
33 34 5.011635 TGTTCATAAGGTGCTGAAGACTACA 59.988 40.000 0.00 0.00 32.33 2.74
39 40 2.408050 GTGCTGAAGACTACACCTGTG 58.592 52.381 0.00 0.00 0.00 3.66
43 44 3.839293 CTGAAGACTACACCTGTGCTAC 58.161 50.000 0.00 0.00 0.00 3.58
44 45 2.228103 TGAAGACTACACCTGTGCTACG 59.772 50.000 0.00 0.00 0.00 3.51
48 49 3.057456 AGACTACACCTGTGCTACGAAAG 60.057 47.826 0.00 0.00 0.00 2.62
58 59 2.677836 GTGCTACGAAAGGAATGCATCA 59.322 45.455 0.00 0.00 32.98 3.07
84 85 3.673866 CGATATGGCTCAGATCAGCTCAG 60.674 52.174 5.15 0.00 39.58 3.35
99 100 5.811190 TCAGCTCAGAAGTAGAGTTCTAGT 58.189 41.667 0.00 0.00 34.90 2.57
140 141 7.948278 ATTGCTCATACTAAATAAGACGTCC 57.052 36.000 13.01 0.00 0.00 4.79
174 175 6.775708 TGATAGGGTTATTTACATGCCTACC 58.224 40.000 0.00 0.00 0.00 3.18
188 189 3.462982 TGCCTACCACTATTATTGCACG 58.537 45.455 0.00 0.00 0.00 5.34
192 193 4.272504 CCTACCACTATTATTGCACGTTGG 59.727 45.833 0.00 0.00 0.00 3.77
201 202 2.126914 TTGCACGTTGGCATTACAAC 57.873 45.000 0.97 0.00 44.48 3.32
225 226 8.927675 ACTTTATTTATTATCATTACCCGCCA 57.072 30.769 0.00 0.00 0.00 5.69
239 240 3.214328 ACCCGCCAAAGAATGATACATC 58.786 45.455 0.00 0.00 0.00 3.06
240 241 2.224079 CCCGCCAAAGAATGATACATCG 59.776 50.000 0.00 0.00 0.00 3.84
244 245 4.033932 CGCCAAAGAATGATACATCGACAA 59.966 41.667 0.00 0.00 0.00 3.18
247 248 6.432936 CCAAAGAATGATACATCGACAATGG 58.567 40.000 0.00 0.00 39.90 3.16
250 251 5.311265 AGAATGATACATCGACAATGGCAT 58.689 37.500 0.00 0.00 39.90 4.40
258 259 2.689646 TCGACAATGGCATAAACACGA 58.310 42.857 0.00 5.80 0.00 4.35
262 263 3.407698 ACAATGGCATAAACACGACTCA 58.592 40.909 0.00 0.00 0.00 3.41
263 264 4.009675 ACAATGGCATAAACACGACTCAT 58.990 39.130 0.00 0.00 0.00 2.90
270 271 4.963953 GCATAAACACGACTCATATGCAAC 59.036 41.667 10.29 0.00 45.04 4.17
273 274 2.621338 ACACGACTCATATGCAACTGG 58.379 47.619 0.00 0.00 0.00 4.00
315 316 2.774439 AGATGCCACAAAACGACAAC 57.226 45.000 0.00 0.00 0.00 3.32
329 330 6.671614 AAACGACAACTTGACAAGAATACA 57.328 33.333 21.95 0.00 0.00 2.29
335 336 7.483375 CGACAACTTGACAAGAATACACAAAAA 59.517 33.333 21.95 0.00 0.00 1.94
355 403 1.118838 CTTCTTCTCCGATGCCTCCT 58.881 55.000 0.00 0.00 0.00 3.69
374 422 2.490115 CCTATCTCTCACCATCTACCGC 59.510 54.545 0.00 0.00 0.00 5.68
423 471 2.650116 GCCTTCTCCTCGTGCTCCA 61.650 63.158 0.00 0.00 0.00 3.86
428 476 2.755876 TCCTCGTGCTCCATCGCT 60.756 61.111 0.00 0.00 0.00 4.93
446 496 1.271926 GCTGCCTTCCTTTTCTACCCA 60.272 52.381 0.00 0.00 0.00 4.51
451 501 4.904853 TGCCTTCCTTTTCTACCCATTTTT 59.095 37.500 0.00 0.00 0.00 1.94
491 541 2.169832 TCTTCTTCCTCTTTGTGCCG 57.830 50.000 0.00 0.00 0.00 5.69
495 545 3.860930 TTCCTCTTTGTGCCGGGCC 62.861 63.158 17.97 8.58 0.00 5.80
498 548 3.850098 CTCTTTGTGCCGGGCCACT 62.850 63.158 17.97 0.00 36.68 4.00
544 594 7.636856 GCCTAGCTAGATGGCTATATTTTCCAT 60.637 40.741 22.70 3.59 42.84 3.41
589 639 2.826128 AGCTGTCGATGAAAGGTCTACA 59.174 45.455 0.00 0.00 0.00 2.74
592 642 4.416620 CTGTCGATGAAAGGTCTACAGTC 58.583 47.826 0.00 0.00 0.00 3.51
598 648 2.364324 TGAAAGGTCTACAGTCAAGCGT 59.636 45.455 0.00 0.00 0.00 5.07
603 653 2.870411 GGTCTACAGTCAAGCGTTTTGT 59.130 45.455 2.52 0.00 0.00 2.83
689 757 2.753966 CGCACCGCTTTGCTGCTAT 61.754 57.895 0.00 0.00 40.62 2.97
690 758 1.428370 CGCACCGCTTTGCTGCTATA 61.428 55.000 0.00 0.00 40.62 1.31
691 759 0.028110 GCACCGCTTTGCTGCTATAC 59.972 55.000 0.00 0.00 39.59 1.47
692 760 0.657840 CACCGCTTTGCTGCTATACC 59.342 55.000 0.00 0.00 0.00 2.73
693 761 0.541863 ACCGCTTTGCTGCTATACCT 59.458 50.000 0.00 0.00 0.00 3.08
711 779 1.208293 CCTTTTTCCCTCTCCTCCTCG 59.792 57.143 0.00 0.00 0.00 4.63
712 780 1.208293 CTTTTTCCCTCTCCTCCTCGG 59.792 57.143 0.00 0.00 0.00 4.63
876 964 2.501128 CCATCCATGACGAGCCGT 59.499 61.111 0.00 0.00 45.10 5.68
1146 1234 3.024356 TCCTCGCCCTCCTCCTCT 61.024 66.667 0.00 0.00 0.00 3.69
1233 1321 2.592993 CCTTTCTCCTCCGCCACCA 61.593 63.158 0.00 0.00 0.00 4.17
1368 1462 2.743928 CGAGCCAGCGCCTTTCTT 60.744 61.111 2.29 0.00 34.57 2.52
1377 1471 0.681243 GCGCCTTTCTTTGGGAGGAT 60.681 55.000 0.00 0.00 32.11 3.24
1410 1504 2.364448 ACGGCCTCCTCCTCCTTC 60.364 66.667 0.00 0.00 0.00 3.46
1439 1533 1.868997 CTGCAACAAGGTACAGGCG 59.131 57.895 0.00 0.00 0.00 5.52
1485 1579 2.443016 CTCCGCTCTAGGCCCACT 60.443 66.667 0.00 0.00 37.74 4.00
1573 1670 1.820906 CCGGTGCCACATCATGAGG 60.821 63.158 5.68 5.68 0.00 3.86
1574 1671 1.078214 CGGTGCCACATCATGAGGT 60.078 57.895 7.30 7.30 30.35 3.85
1585 1682 4.581409 CACATCATGAGGTGGCAATTGATA 59.419 41.667 28.43 0.00 39.22 2.15
1620 1717 1.575419 AGGTAACCGGCAATGGAGTA 58.425 50.000 0.00 0.00 37.17 2.59
1770 1867 6.633500 TGCTTATACCAATGGCTTAATGTC 57.367 37.500 0.00 0.00 0.00 3.06
1842 1939 6.553100 AGGCTAATATCACTCCTATCTATGGC 59.447 42.308 0.00 0.00 0.00 4.40
1926 2023 2.440147 CCACCAAGGCCACATGGA 59.560 61.111 24.22 0.00 39.12 3.41
1956 2053 1.067060 GAAAGTTTCCGGCAGCAGTTT 59.933 47.619 4.11 0.00 0.00 2.66
1968 2065 0.868406 AGCAGTTTCAGCACTTACGC 59.132 50.000 0.00 0.00 0.00 4.42
2013 2110 2.483538 CGCACATGGGATACTGTCATCA 60.484 50.000 0.00 0.00 0.00 3.07
2079 2176 2.943978 CGAAGGCCCGTCTGAACCT 61.944 63.158 0.00 0.00 0.00 3.50
2101 2198 0.943673 TGTGCATGAAACAGGTGACG 59.056 50.000 0.00 0.00 0.00 4.35
2432 2529 1.819632 CACCTGGCCAATACGGAGC 60.820 63.158 15.38 0.00 36.56 4.70
2499 2596 1.457267 AACCCATGTTGGTGCAGCA 60.457 52.632 15.99 15.99 39.05 4.41
2628 2728 4.814041 AGGAGGGGGAGGAGCAGC 62.814 72.222 0.00 0.00 0.00 5.25
2718 2818 1.866925 GGTCGCGGAGTTTCTTTGG 59.133 57.895 6.13 0.00 0.00 3.28
2723 2823 1.194772 CGCGGAGTTTCTTTGGACTTC 59.805 52.381 0.00 0.00 0.00 3.01
2726 2826 3.365364 GCGGAGTTTCTTTGGACTTCATG 60.365 47.826 0.00 0.00 0.00 3.07
2727 2827 3.189287 CGGAGTTTCTTTGGACTTCATGG 59.811 47.826 0.00 0.00 0.00 3.66
2729 2829 4.584743 GGAGTTTCTTTGGACTTCATGGTT 59.415 41.667 0.00 0.00 0.00 3.67
2770 2873 6.095440 CCATTTCGTTTCTTTGGATGGTATCT 59.905 38.462 0.00 0.00 0.00 1.98
2795 2898 6.127869 TGCTGTGTTGTAGTGTAACAATGTTT 60.128 34.615 3.17 0.00 41.18 2.83
2859 2962 1.462432 TGGGGCCTGTTGTACCTCA 60.462 57.895 0.84 0.00 0.00 3.86
2970 3073 7.255173 GCATTCAGAGCAATGAGATTTCTATGT 60.255 37.037 0.00 0.00 36.03 2.29
3171 3274 4.824479 TCATTCACTGATAGTTCTGGCA 57.176 40.909 0.00 0.00 0.00 4.92
3246 3368 6.588756 TGAGAGCAAGTTAAAACGTGGTATAG 59.411 38.462 12.28 0.00 46.17 1.31
3247 3369 5.873164 AGAGCAAGTTAAAACGTGGTATAGG 59.127 40.000 12.28 0.00 46.17 2.57
3267 3401 5.022282 AGGAAACAACAAACTGGAAATGG 57.978 39.130 0.00 0.00 0.00 3.16
3292 3426 6.099159 ACCTCTAAAGAAACACCTGACTAC 57.901 41.667 0.00 0.00 0.00 2.73
3309 3443 3.574614 ACTACGGCATTGTTTCATTTGC 58.425 40.909 0.00 0.00 0.00 3.68
3381 3515 0.792031 ATTCGCCGGACGTTTACAAC 59.208 50.000 5.05 0.00 44.19 3.32
3414 3548 2.758979 GGTTCTTGGAGACCGATCACTA 59.241 50.000 0.00 0.00 0.00 2.74
3415 3549 3.181485 GGTTCTTGGAGACCGATCACTAG 60.181 52.174 0.00 0.00 0.00 2.57
3480 3615 6.200475 GTCTACACACCAAGTAACTTGAAGAC 59.800 42.308 0.00 0.00 43.42 3.01
3589 3724 2.445654 GAGAGGAGCAGGAGGGGG 60.446 72.222 0.00 0.00 0.00 5.40
3599 3734 1.478631 CAGGAGGGGGAAAAAGATGC 58.521 55.000 0.00 0.00 0.00 3.91
3618 3753 5.763698 AGATGCAATGTGATCAAGACCTATG 59.236 40.000 0.00 0.00 0.00 2.23
3645 3780 6.046593 TCTTTTAGTGTTCGTGGCCTATATG 58.953 40.000 3.32 0.00 0.00 1.78
3676 3811 2.906389 ACTCATACAGTTCAGAGCCCAA 59.094 45.455 0.00 0.00 26.56 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 4.623932 AGTCTTCAGCACCTTATGAACA 57.376 40.909 0.00 0.00 32.25 3.18
22 23 3.670895 CGTAGCACAGGTGTAGTCTTCAG 60.671 52.174 0.91 0.00 0.00 3.02
24 25 2.486982 TCGTAGCACAGGTGTAGTCTTC 59.513 50.000 0.91 0.00 0.00 2.87
33 34 2.699954 CATTCCTTTCGTAGCACAGGT 58.300 47.619 0.00 0.00 0.00 4.00
35 36 2.076100 TGCATTCCTTTCGTAGCACAG 58.924 47.619 0.00 0.00 0.00 3.66
39 40 4.285292 CATTGATGCATTCCTTTCGTAGC 58.715 43.478 0.00 0.00 0.00 3.58
58 59 3.597255 CTGATCTGAGCCATATCGCATT 58.403 45.455 0.00 0.00 0.00 3.56
65 66 2.954792 TCTGAGCTGATCTGAGCCATA 58.045 47.619 3.42 0.00 40.08 2.74
68 69 1.481772 ACTTCTGAGCTGATCTGAGCC 59.518 52.381 3.42 0.00 40.08 4.70
84 85 8.421673 ACACAACAAAACTAGAACTCTACTTC 57.578 34.615 0.00 0.00 0.00 3.01
99 100 8.659925 ATGAGCAATTTTATGACACAACAAAA 57.340 26.923 0.00 0.00 0.00 2.44
147 148 9.297037 GTAGGCATGTAAATAACCCTATCAAAT 57.703 33.333 0.00 0.00 0.00 2.32
152 153 6.331837 AGTGGTAGGCATGTAAATAACCCTAT 59.668 38.462 0.00 0.00 0.00 2.57
153 154 5.668535 AGTGGTAGGCATGTAAATAACCCTA 59.331 40.000 0.00 0.00 0.00 3.53
168 169 3.463944 ACGTGCAATAATAGTGGTAGGC 58.536 45.455 0.00 0.00 0.00 3.93
169 170 4.272504 CCAACGTGCAATAATAGTGGTAGG 59.727 45.833 0.00 0.00 0.00 3.18
174 175 3.755965 TGCCAACGTGCAATAATAGTG 57.244 42.857 0.00 0.00 38.56 2.74
217 218 3.916359 TGTATCATTCTTTGGCGGGTA 57.084 42.857 0.00 0.00 0.00 3.69
221 222 3.555547 TGTCGATGTATCATTCTTTGGCG 59.444 43.478 0.00 0.00 0.00 5.69
223 224 6.432936 CCATTGTCGATGTATCATTCTTTGG 58.567 40.000 0.00 0.00 33.71 3.28
225 226 5.589855 TGCCATTGTCGATGTATCATTCTTT 59.410 36.000 0.00 0.00 33.71 2.52
239 240 2.415168 AGTCGTGTTTATGCCATTGTCG 59.585 45.455 0.00 0.00 0.00 4.35
240 241 3.435327 TGAGTCGTGTTTATGCCATTGTC 59.565 43.478 0.00 0.00 0.00 3.18
244 245 4.214119 GCATATGAGTCGTGTTTATGCCAT 59.786 41.667 6.97 0.00 39.32 4.40
247 248 4.794248 TGCATATGAGTCGTGTTTATGC 57.206 40.909 6.97 9.85 43.34 3.14
250 251 4.629634 CCAGTTGCATATGAGTCGTGTTTA 59.370 41.667 6.97 0.00 0.00 2.01
315 316 9.573133 AAGAAGTTTTTGTGTATTCTTGTCAAG 57.427 29.630 6.21 6.21 38.45 3.02
329 330 3.253432 GGCATCGGAGAAGAAGTTTTTGT 59.747 43.478 0.00 0.00 43.58 2.83
335 336 0.827368 GGAGGCATCGGAGAAGAAGT 59.173 55.000 0.00 0.00 43.58 3.01
355 403 2.515854 GGCGGTAGATGGTGAGAGATA 58.484 52.381 0.00 0.00 0.00 1.98
374 422 4.426313 GGAGGGGCGTGGAAAGGG 62.426 72.222 0.00 0.00 0.00 3.95
401 449 2.182030 CACGAGGAGAAGGCGGTC 59.818 66.667 0.00 0.00 0.00 4.79
423 471 2.633488 GTAGAAAAGGAAGGCAGCGAT 58.367 47.619 0.00 0.00 0.00 4.58
428 476 3.825908 AATGGGTAGAAAAGGAAGGCA 57.174 42.857 0.00 0.00 0.00 4.75
468 518 4.137543 GGCACAAAGAGGAAGAAGAAAGA 58.862 43.478 0.00 0.00 0.00 2.52
498 548 1.955778 CTTGCAAACACACTCCATGGA 59.044 47.619 15.27 15.27 0.00 3.41
589 639 2.032924 GCTGGTTACAAAACGCTTGACT 59.967 45.455 4.94 0.00 36.39 3.41
592 642 2.223479 ACAGCTGGTTACAAAACGCTTG 60.223 45.455 19.93 0.00 36.39 4.01
598 648 5.066764 GTCAGGTTAACAGCTGGTTACAAAA 59.933 40.000 21.43 1.25 46.84 2.44
603 653 2.868839 GCGTCAGGTTAACAGCTGGTTA 60.869 50.000 19.93 11.21 46.84 2.85
689 757 3.451890 GAGGAGGAGAGGGAAAAAGGTA 58.548 50.000 0.00 0.00 0.00 3.08
690 758 2.270858 GAGGAGGAGAGGGAAAAAGGT 58.729 52.381 0.00 0.00 0.00 3.50
691 759 1.208293 CGAGGAGGAGAGGGAAAAAGG 59.792 57.143 0.00 0.00 0.00 3.11
692 760 1.208293 CCGAGGAGGAGAGGGAAAAAG 59.792 57.143 0.00 0.00 45.00 2.27
693 761 1.276622 CCGAGGAGGAGAGGGAAAAA 58.723 55.000 0.00 0.00 45.00 1.94
1284 1372 3.490793 CTCATCGATGACCGGCGCT 62.491 63.158 23.99 0.00 39.14 5.92
1285 1373 3.032609 CTCATCGATGACCGGCGC 61.033 66.667 23.99 0.00 39.14 6.53
1297 1391 1.739338 ATGTCGTCCGGGAGCTCATC 61.739 60.000 17.19 6.14 0.00 2.92
1361 1455 1.383523 GCGATCCTCCCAAAGAAAGG 58.616 55.000 0.00 0.00 0.00 3.11
1362 1456 1.383523 GGCGATCCTCCCAAAGAAAG 58.616 55.000 0.00 0.00 0.00 2.62
1368 1462 3.467226 GACGGGCGATCCTCCCAA 61.467 66.667 15.70 0.00 44.11 4.12
1377 1471 2.488355 GTCGATGAAGACGGGCGA 59.512 61.111 0.00 0.00 0.00 5.54
1410 1504 2.743928 GTTGCAGCGTCAGGGAGG 60.744 66.667 0.00 0.00 0.00 4.30
1485 1579 1.518774 GTCCGATCTAAACCGCCCA 59.481 57.895 0.00 0.00 0.00 5.36
1526 1620 2.421952 GCATCATGCCCTAGAGGTTGAA 60.422 50.000 0.00 0.00 37.42 2.69
1533 1627 0.108019 CTGCTGCATCATGCCCTAGA 59.892 55.000 7.30 0.00 44.23 2.43
1536 1630 1.753078 CACTGCTGCATCATGCCCT 60.753 57.895 7.30 0.00 44.23 5.19
1573 1670 3.876914 TCTCCAACGATATCAATTGCCAC 59.123 43.478 0.00 0.00 0.00 5.01
1574 1671 4.149511 TCTCCAACGATATCAATTGCCA 57.850 40.909 0.00 0.00 0.00 4.92
1576 1673 5.929697 TCATCTCCAACGATATCAATTGC 57.070 39.130 0.00 0.00 0.00 3.56
1585 1682 5.509163 CGGTTACCTTATCATCTCCAACGAT 60.509 44.000 0.00 0.00 0.00 3.73
1620 1717 1.359474 TCCTCTGAGGCACCTACTTCT 59.641 52.381 19.08 0.00 34.61 2.85
1770 1867 2.749621 GCATTCCTTGTGGTTGGAGTAG 59.250 50.000 0.00 0.00 33.46 2.57
1821 1918 7.782168 CCTCTGCCATAGATAGGAGTGATATTA 59.218 40.741 0.00 0.00 34.21 0.98
1842 1939 4.096081 GCATCTGAACAAGAATTCCCTCTG 59.904 45.833 0.65 0.00 38.79 3.35
1926 2023 3.304458 GCCGGAAACTTTCAAGACGATTT 60.304 43.478 5.05 0.00 0.00 2.17
1956 2053 0.036164 ACATTGGGCGTAAGTGCTGA 59.964 50.000 0.00 0.00 41.68 4.26
2013 2110 0.179034 GATCAAGAAGGCGCCTCCAT 60.179 55.000 32.93 15.66 37.29 3.41
2079 2176 0.669619 CACCTGTTTCATGCACAGCA 59.330 50.000 15.88 0.00 44.86 4.41
2198 2295 0.467384 CAGACCACTATCAGGGGCAG 59.533 60.000 0.00 0.00 44.74 4.85
2432 2529 0.302890 GTTCGGCGATGAAGCAGATG 59.697 55.000 11.76 0.00 40.68 2.90
2446 2543 0.035820 TCGGGATTCAAAGGGTTCGG 60.036 55.000 0.00 0.00 0.00 4.30
2499 2596 2.906389 TGATGCTTGGTCTGTAGAAGGT 59.094 45.455 0.00 0.00 0.00 3.50
2628 2728 1.732259 ACATCTAAAGAAGCCAACGCG 59.268 47.619 3.53 3.53 41.18 6.01
2718 2818 4.583871 ACTGGAATCAGAACCATGAAGTC 58.416 43.478 0.00 0.00 43.49 3.01
2723 2823 5.887598 TGGAATAACTGGAATCAGAACCATG 59.112 40.000 0.00 0.00 43.49 3.66
2726 2826 7.410120 AAATGGAATAACTGGAATCAGAACC 57.590 36.000 0.00 0.00 43.49 3.62
2727 2827 7.148239 ACGAAATGGAATAACTGGAATCAGAAC 60.148 37.037 0.00 0.00 43.49 3.01
2729 2829 6.414732 ACGAAATGGAATAACTGGAATCAGA 58.585 36.000 0.00 0.00 43.49 3.27
2770 2873 4.878971 ACATTGTTACACTACAACACAGCA 59.121 37.500 0.00 0.00 40.53 4.41
2795 2898 8.770010 TCTAGTAAACAAATGGAAAGGGAAAA 57.230 30.769 0.00 0.00 0.00 2.29
2859 2962 5.680619 TGACCAACAGTTTGACAGACTAAT 58.319 37.500 0.00 0.00 34.24 1.73
3066 3169 2.869233 TCTCAAGCAACAAAGGCAAC 57.131 45.000 0.00 0.00 0.00 4.17
3171 3274 3.366679 CGAAAATGATGAGTTGGCTTGCT 60.367 43.478 0.00 0.00 0.00 3.91
3246 3368 5.017294 TCCATTTCCAGTTTGTTGTTTCC 57.983 39.130 0.00 0.00 0.00 3.13
3247 3369 5.293324 GGTTCCATTTCCAGTTTGTTGTTTC 59.707 40.000 0.00 0.00 0.00 2.78
3267 3401 5.612351 AGTCAGGTGTTTCTTTAGAGGTTC 58.388 41.667 0.00 0.00 0.00 3.62
3292 3426 1.727880 CCAGCAAATGAAACAATGCCG 59.272 47.619 0.00 0.00 39.59 5.69
3309 3443 4.238761 TCAGAAAGACTACACGAACCAG 57.761 45.455 0.00 0.00 0.00 4.00
3381 3515 4.398358 TCTCCAAGAACCTCACTATACACG 59.602 45.833 0.00 0.00 0.00 4.49
3414 3548 5.036117 TGTAGTTTCTTTGCTCAGGAACT 57.964 39.130 12.46 12.46 43.86 3.01
3415 3549 4.816925 ACTGTAGTTTCTTTGCTCAGGAAC 59.183 41.667 0.00 0.00 32.90 3.62
3480 3615 8.880878 TGAATAAATGAGATGCAATTTGATGG 57.119 30.769 0.00 0.00 0.00 3.51
3520 3655 5.754890 GTGAGTTCCAAATGCACAATCTTTT 59.245 36.000 0.00 0.00 0.00 2.27
3589 3724 6.309737 GGTCTTGATCACATTGCATCTTTTTC 59.690 38.462 0.00 0.00 0.00 2.29
3599 3734 7.621428 AGAAACATAGGTCTTGATCACATTG 57.379 36.000 0.00 0.00 0.00 2.82
3618 3753 3.314357 AGGCCACGAACACTAAAAGAAAC 59.686 43.478 5.01 0.00 0.00 2.78


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

AutoCloner maintained by Alex Coulton.