Multiple sequence alignment - TraesCS5A01G401600

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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 TraesCS5A01G401600 chr5A 100.000 3462 0 0 1 3462 594349900 594353361 0.000000e+00 6394.0
1 TraesCS5A01G401600 chr5D 89.997 3219 170 70 342 3462 475209146 475212310 0.000000e+00 4021.0
2 TraesCS5A01G401600 chr5D 83.401 247 22 10 1 246 475208806 475209034 9.730000e-51 211.0
3 TraesCS5A01G401600 chr5D 91.304 46 3 1 2788 2833 486618929 486618885 1.040000e-05 62.1
4 TraesCS5A01G401600 chr5B 88.299 3239 195 96 321 3462 582425074 582428225 0.000000e+00 3712.0
5 TraesCS5A01G401600 chr5B 83.806 247 21 10 1 246 582424665 582424893 2.090000e-52 217.0
6 TraesCS5A01G401600 chr2A 88.176 592 34 15 78 668 216290993 216291549 0.000000e+00 673.0
7 TraesCS5A01G401600 chr6A 82.812 64 11 0 2888 2951 52808529 52808592 1.340000e-04 58.4


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 TraesCS5A01G401600 chr5A 594349900 594353361 3461 False 6394.0 6394 100.0000 1 3462 1 chr5A.!!$F1 3461
1 TraesCS5A01G401600 chr5D 475208806 475212310 3504 False 2116.0 4021 86.6990 1 3462 2 chr5D.!!$F1 3461
2 TraesCS5A01G401600 chr5B 582424665 582428225 3560 False 1964.5 3712 86.0525 1 3462 2 chr5B.!!$F1 3461
3 TraesCS5A01G401600 chr2A 216290993 216291549 556 False 673.0 673 88.1760 78 668 1 chr2A.!!$F1 590

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
931 1102 0.253394 CCTTCCTTCCTCCCTCCCTT 60.253 60.0 0.0 0.0 0.0 3.95 F
1390 1596 0.749454 AGCGGAAATGGATGAGCACC 60.749 55.0 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1869 2087 0.319900 TTGTCTTCCTCGACTGCTGC 60.320 55.0 0.0 0.0 35.0 5.25 R
3202 3474 0.038159 CTTATCGGGTCGGGATCAGC 60.038 60.0 0.0 0.0 0.0 4.26 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
50 51 2.886523 GGCTAATAATGCTGCCACATCA 59.113 45.455 0.00 0.00 44.34 3.07
128 129 7.222224 CACGTACTTACAAACTCTCTCTTTTGT 59.778 37.037 5.17 5.17 45.60 2.83
154 155 1.227409 CAGTGCACACCACCACGTA 60.227 57.895 21.04 0.00 45.83 3.57
161 162 3.184541 GCACACCACCACGTAATACTAG 58.815 50.000 0.00 0.00 0.00 2.57
162 163 3.777478 CACACCACCACGTAATACTAGG 58.223 50.000 0.00 0.00 0.00 3.02
163 164 2.762327 ACACCACCACGTAATACTAGGG 59.238 50.000 0.00 0.00 0.00 3.53
164 165 2.762327 CACCACCACGTAATACTAGGGT 59.238 50.000 0.00 0.00 0.00 4.34
229 231 4.819630 TGTAAGCAAAGACATCTCGGTTTT 59.180 37.500 0.00 0.00 0.00 2.43
292 387 5.106752 GCAACAAAGTGAACACCAACAAAAT 60.107 36.000 1.11 0.00 0.00 1.82
312 407 9.401058 ACAAAATGAAGAAGAAGAAGAAGAAGA 57.599 29.630 0.00 0.00 0.00 2.87
325 437 0.806868 AAGAAGATGTGCGTGCATGG 59.193 50.000 8.27 0.00 0.00 3.66
343 455 4.038080 GAAACCAGCGGGCAACGG 62.038 66.667 1.46 0.00 44.51 4.44
396 512 3.877508 GAGGTCCACCAAATTAAGGATCG 59.122 47.826 4.01 0.00 36.39 3.69
736 887 2.737039 GCATCACGGTTCTTCTCTCTCC 60.737 54.545 0.00 0.00 0.00 3.71
748 899 2.039418 TCTCTCTCCCTCTCTCTCTCG 58.961 57.143 0.00 0.00 0.00 4.04
753 904 2.477176 CCCTCTCTCTCTCGCACCG 61.477 68.421 0.00 0.00 0.00 4.94
852 1003 2.746375 CCTTCCAGATCCCCCACCG 61.746 68.421 0.00 0.00 0.00 4.94
905 1076 2.512515 CAGCGCTACCAGCTTCCC 60.513 66.667 10.99 0.00 44.06 3.97
909 1080 2.911928 GCTACCAGCTTCCCTCCC 59.088 66.667 0.00 0.00 38.45 4.30
913 1084 2.547123 TACCAGCTTCCCTCCCTCCC 62.547 65.000 0.00 0.00 0.00 4.30
924 1095 0.692756 CTCCCTCCCTTCCTTCCTCC 60.693 65.000 0.00 0.00 0.00 4.30
925 1096 1.694525 CCCTCCCTTCCTTCCTCCC 60.695 68.421 0.00 0.00 0.00 4.30
926 1097 1.398234 CCTCCCTTCCTTCCTCCCT 59.602 63.158 0.00 0.00 0.00 4.20
927 1098 0.692756 CCTCCCTTCCTTCCTCCCTC 60.693 65.000 0.00 0.00 0.00 4.30
928 1099 0.692756 CTCCCTTCCTTCCTCCCTCC 60.693 65.000 0.00 0.00 0.00 4.30
929 1100 1.694525 CCCTTCCTTCCTCCCTCCC 60.695 68.421 0.00 0.00 0.00 4.30
930 1101 1.398234 CCTTCCTTCCTCCCTCCCT 59.602 63.158 0.00 0.00 0.00 4.20
931 1102 0.253394 CCTTCCTTCCTCCCTCCCTT 60.253 60.000 0.00 0.00 0.00 3.95
932 1103 0.915364 CTTCCTTCCTCCCTCCCTTG 59.085 60.000 0.00 0.00 0.00 3.61
1055 1238 3.465403 CCTGGGCCTCGACCTCAG 61.465 72.222 4.53 0.00 0.00 3.35
1204 1396 3.753070 CTCCTCGCCGACGGTAAGC 62.753 68.421 16.73 0.00 40.63 3.09
1330 1536 0.915364 AGTTCATGAAGGAGGAGGCC 59.085 55.000 8.80 0.00 0.00 5.19
1390 1596 0.749454 AGCGGAAATGGATGAGCACC 60.749 55.000 0.00 0.00 0.00 5.01
1456 1662 2.724228 CGTCGTACGTCTTCACTCCTTC 60.724 54.545 16.05 0.00 36.74 3.46
1463 1669 2.805657 CGTCTTCACTCCTTCCCGTTTT 60.806 50.000 0.00 0.00 0.00 2.43
1464 1670 2.806818 GTCTTCACTCCTTCCCGTTTTC 59.193 50.000 0.00 0.00 0.00 2.29
1466 1672 3.072476 TCTTCACTCCTTCCCGTTTTCAT 59.928 43.478 0.00 0.00 0.00 2.57
1467 1673 3.502123 TCACTCCTTCCCGTTTTCATT 57.498 42.857 0.00 0.00 0.00 2.57
1468 1674 3.827722 TCACTCCTTCCCGTTTTCATTT 58.172 40.909 0.00 0.00 0.00 2.32
1469 1675 3.568007 TCACTCCTTCCCGTTTTCATTTG 59.432 43.478 0.00 0.00 0.00 2.32
1478 1684 7.225734 CCTTCCCGTTTTCATTTGTTTGTTTAT 59.774 33.333 0.00 0.00 0.00 1.40
1502 1708 6.422776 TTTCGCTCTGGTTTGATCTTTATC 57.577 37.500 0.00 0.00 0.00 1.75
1503 1709 5.344743 TCGCTCTGGTTTGATCTTTATCT 57.655 39.130 0.00 0.00 32.93 1.98
1504 1710 5.111989 TCGCTCTGGTTTGATCTTTATCTG 58.888 41.667 0.00 0.00 32.93 2.90
1506 1712 4.637534 GCTCTGGTTTGATCTTTATCTGCA 59.362 41.667 0.00 0.00 32.93 4.41
1533 1743 6.988109 AGTTGTTGCTATACGATACGATTC 57.012 37.500 0.00 0.00 0.00 2.52
1535 1745 7.868775 AGTTGTTGCTATACGATACGATTCTA 58.131 34.615 0.00 0.00 0.00 2.10
1536 1746 8.347771 AGTTGTTGCTATACGATACGATTCTAA 58.652 33.333 0.00 0.00 0.00 2.10
1542 1756 9.608617 TGCTATACGATACGATTCTAAGAAAAG 57.391 33.333 0.00 0.00 0.00 2.27
1611 1829 1.142965 GAAGAAGGAGAGCGCCCTC 59.857 63.158 10.96 10.96 38.42 4.30
1869 2087 1.370609 CTGGCTTGCAGACTCATGAG 58.629 55.000 21.37 21.37 0.00 2.90
1989 2223 9.838975 TTAATCAAATGTTAGCTGTATGTTGTG 57.161 29.630 0.00 0.00 0.00 3.33
2021 2258 7.393234 TGGAACATTCGAAAAATATTGGAGTCT 59.607 33.333 0.00 0.00 0.00 3.24
2039 2276 6.655003 TGGAGTCTTTACAGAATTGTTCCATC 59.345 38.462 0.00 0.00 38.76 3.51
2142 2379 4.455606 CCTCCAGGTTACCAATCATTCTC 58.544 47.826 3.51 0.00 0.00 2.87
2148 2385 4.410555 AGGTTACCAATCATTCTCTCCCTC 59.589 45.833 3.51 0.00 0.00 4.30
2150 2387 5.363939 GTTACCAATCATTCTCTCCCTCTG 58.636 45.833 0.00 0.00 0.00 3.35
2153 2390 3.204526 CAATCATTCTCTCCCTCTGTGC 58.795 50.000 0.00 0.00 0.00 4.57
2154 2391 1.942776 TCATTCTCTCCCTCTGTGCA 58.057 50.000 0.00 0.00 0.00 4.57
2155 2392 2.259917 TCATTCTCTCCCTCTGTGCAA 58.740 47.619 0.00 0.00 0.00 4.08
2156 2393 2.027745 TCATTCTCTCCCTCTGTGCAAC 60.028 50.000 0.00 0.00 37.35 4.17
2157 2394 1.722034 TTCTCTCCCTCTGTGCAACT 58.278 50.000 0.00 0.00 38.04 3.16
2192 2430 9.932207 AACAATTCTCATTTTGAAATGCTATCA 57.068 25.926 10.78 0.00 44.15 2.15
2193 2431 9.932207 ACAATTCTCATTTTGAAATGCTATCAA 57.068 25.926 10.78 0.00 44.15 2.57
2195 2433 9.932207 AATTCTCATTTTGAAATGCTATCAACA 57.068 25.926 10.78 0.00 44.15 3.33
2248 2487 4.678509 TGTTGATGTTCAGAAATACCGC 57.321 40.909 0.00 0.00 0.00 5.68
2284 2523 0.539051 GCCCTAGCTCTTCTTCAGCA 59.461 55.000 0.00 0.00 39.56 4.41
2473 2712 1.472376 CGGAGGTGATCTGAAGGCTTC 60.472 57.143 20.27 20.27 36.25 3.86
2605 2847 1.202879 GGGATATTGGGCGTTGATCCA 60.203 52.381 8.71 0.00 38.26 3.41
2606 2848 2.555227 GGGATATTGGGCGTTGATCCAT 60.555 50.000 8.71 0.00 38.26 3.41
2607 2849 2.749621 GGATATTGGGCGTTGATCCATC 59.250 50.000 0.00 0.00 36.79 3.51
2608 2850 2.270352 TATTGGGCGTTGATCCATCC 57.730 50.000 0.00 0.00 32.48 3.51
2671 2913 3.472652 TGTACATGAGGCTTTGTTTCGT 58.527 40.909 0.00 0.00 0.00 3.85
2755 2998 4.787598 AGATTCGAATGTTGTTCAGTTGC 58.212 39.130 16.96 0.00 0.00 4.17
2983 3251 1.900351 CCATGGTTGCTCTCTCCGA 59.100 57.895 2.57 0.00 0.00 4.55
2997 3269 1.135083 TCTCCGATTTCTCCTTCGCAC 60.135 52.381 0.00 0.00 34.10 5.34
3029 3301 4.613622 CGACTGAATCGCACCATTCTTTTT 60.614 41.667 2.67 0.00 45.52 1.94
3072 3344 4.154347 CCTCTCGGGGCTGTCTGC 62.154 72.222 0.00 0.00 41.94 4.26
3073 3345 3.385384 CTCTCGGGGCTGTCTGCA 61.385 66.667 3.96 0.00 45.15 4.41
3076 3348 1.600636 CTCGGGGCTGTCTGCAAAA 60.601 57.895 3.96 0.00 45.15 2.44
3077 3349 0.962356 CTCGGGGCTGTCTGCAAAAT 60.962 55.000 3.96 0.00 45.15 1.82
3123 3395 4.551126 GCGACAGACAAAATCAAATCTTCG 59.449 41.667 0.00 0.00 0.00 3.79
3128 3400 5.048083 CAGACAAAATCAAATCTTCGGGGAA 60.048 40.000 0.00 0.00 0.00 3.97
3212 3484 4.819761 GCACTGCGCTGATCCCGA 62.820 66.667 21.92 0.00 37.77 5.14
3213 3485 2.887568 CACTGCGCTGATCCCGAC 60.888 66.667 21.92 0.29 0.00 4.79
3269 3541 5.248640 CCCTAATCGCCATTGTTATCATCT 58.751 41.667 0.00 0.00 0.00 2.90
3323 3595 2.109181 GCTCCTACCACCGCATCC 59.891 66.667 0.00 0.00 0.00 3.51
3347 3637 5.335127 GTTTGCTGTCTGTGCTTATAATGG 58.665 41.667 0.00 0.00 0.00 3.16
3403 3694 1.802960 GATGAGCATGTGCCGATTAGG 59.197 52.381 0.57 0.00 43.38 2.69
3404 3695 0.541392 TGAGCATGTGCCGATTAGGT 59.459 50.000 0.57 0.00 43.70 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.814005 TTATTAGCCAGAGACGTTCCC 57.186 47.619 0.00 0.00 0.00 3.97
19 20 4.210120 CAGCATTATTAGCCAGAGACGTTC 59.790 45.833 0.00 0.00 0.00 3.95
50 51 4.816385 CACTGTAAAGGATATGCATCGGTT 59.184 41.667 0.19 0.00 31.33 4.44
87 88 2.563798 CGTGCCACCAGCCAACATT 61.564 57.895 0.00 0.00 42.71 2.71
108 109 7.308782 ACACACAAAAGAGAGAGTTTGTAAG 57.691 36.000 1.78 1.40 44.14 2.34
144 145 3.105959 ACCCTAGTATTACGTGGTGGT 57.894 47.619 0.00 0.00 0.00 4.16
154 155 8.534496 ACAAACACGAGTTTATACCCTAGTATT 58.466 33.333 10.67 0.00 45.80 1.89
161 162 5.678132 ACAACAAACACGAGTTTATACCC 57.322 39.130 10.67 0.00 45.80 3.69
162 163 8.020861 TCATACAACAAACACGAGTTTATACC 57.979 34.615 10.67 0.00 45.80 2.73
284 379 9.793252 TTCTTCTTCTTCTTCTTCATTTTGTTG 57.207 29.630 0.00 0.00 0.00 3.33
292 387 6.426328 GCACATCTTCTTCTTCTTCTTCTTCA 59.574 38.462 0.00 0.00 0.00 3.02
312 407 1.586028 GTTTCCCATGCACGCACAT 59.414 52.632 0.00 0.00 0.00 3.21
313 408 2.560119 GGTTTCCCATGCACGCACA 61.560 57.895 0.00 0.00 0.00 4.57
325 437 4.038080 CGTTGCCCGCTGGTTTCC 62.038 66.667 0.00 0.00 0.00 3.13
363 478 3.967335 GGACCTCTCCGATCGCCG 61.967 72.222 10.32 2.30 38.18 6.46
443 559 1.193874 GTACCGCCTTTGTCTTGTTCG 59.806 52.381 0.00 0.00 0.00 3.95
497 613 2.369394 GTTGGCTTGCCAAGTATAGCT 58.631 47.619 25.26 0.00 34.16 3.32
685 820 3.155167 GGTGGCTACGGAGAGGGG 61.155 72.222 0.00 0.00 0.00 4.79
686 821 2.363795 TGGTGGCTACGGAGAGGG 60.364 66.667 0.00 0.00 0.00 4.30
687 822 2.722201 GGTGGTGGCTACGGAGAGG 61.722 68.421 0.00 0.00 0.00 3.69
688 823 2.722201 GGGTGGTGGCTACGGAGAG 61.722 68.421 0.00 0.00 0.00 3.20
689 824 2.682494 GGGTGGTGGCTACGGAGA 60.682 66.667 0.00 0.00 0.00 3.71
690 825 3.782443 GGGGTGGTGGCTACGGAG 61.782 72.222 0.00 0.00 0.00 4.63
691 826 4.642488 TGGGGTGGTGGCTACGGA 62.642 66.667 0.00 0.00 0.00 4.69
692 827 4.404098 GTGGGGTGGTGGCTACGG 62.404 72.222 0.00 0.00 0.00 4.02
693 828 4.752879 CGTGGGGTGGTGGCTACG 62.753 72.222 0.00 0.00 0.00 3.51
727 862 2.434336 CGAGAGAGAGAGGGAGAGAGAA 59.566 54.545 0.00 0.00 0.00 2.87
736 887 3.106552 CGGTGCGAGAGAGAGAGG 58.893 66.667 0.00 0.00 0.00 3.69
852 1003 1.905894 GGAGGAGGAGGATAGGAATGC 59.094 57.143 0.00 0.00 0.00 3.56
905 1076 0.692756 GGAGGAAGGAAGGGAGGGAG 60.693 65.000 0.00 0.00 0.00 4.30
909 1080 0.692756 GGAGGGAGGAAGGAAGGGAG 60.693 65.000 0.00 0.00 0.00 4.30
913 1084 0.915364 CAAGGGAGGGAGGAAGGAAG 59.085 60.000 0.00 0.00 0.00 3.46
929 1100 3.431725 GAAACCTCGGCGGCCAAG 61.432 66.667 20.71 10.43 35.61 3.61
932 1103 4.717313 AAGGAAACCTCGGCGGCC 62.717 66.667 9.54 9.54 35.61 6.13
972 1143 0.178533 AAACGGACGGACAACAAGGA 59.821 50.000 0.00 0.00 0.00 3.36
1008 1191 4.939915 CCGATCTCGCCGACGTCG 62.940 72.222 30.33 30.33 41.18 5.12
1210 1402 4.506255 CCTTCGGGATGGGTGGGC 62.506 72.222 0.00 0.00 37.25 5.36
1235 1427 9.230932 CAAACAAACAAACAAACAAACAGAAAT 57.769 25.926 0.00 0.00 0.00 2.17
1239 1431 7.961325 AACAAACAAACAAACAAACAAACAG 57.039 28.000 0.00 0.00 0.00 3.16
1245 1437 8.567369 AAATCCAAACAAACAAACAAACAAAC 57.433 26.923 0.00 0.00 0.00 2.93
1299 1505 2.884827 TCATGAACTCGATGACTGCAG 58.115 47.619 13.48 13.48 0.00 4.41
1456 1662 9.216087 GAAAATAAACAAACAAATGAAAACGGG 57.784 29.630 0.00 0.00 0.00 5.28
1463 1669 7.168972 CCAGAGCGAAAATAAACAAACAAATGA 59.831 33.333 0.00 0.00 0.00 2.57
1464 1670 7.042791 ACCAGAGCGAAAATAAACAAACAAATG 60.043 33.333 0.00 0.00 0.00 2.32
1466 1672 6.334202 ACCAGAGCGAAAATAAACAAACAAA 58.666 32.000 0.00 0.00 0.00 2.83
1467 1673 5.897050 ACCAGAGCGAAAATAAACAAACAA 58.103 33.333 0.00 0.00 0.00 2.83
1468 1674 5.508200 ACCAGAGCGAAAATAAACAAACA 57.492 34.783 0.00 0.00 0.00 2.83
1469 1675 6.474102 TCAAACCAGAGCGAAAATAAACAAAC 59.526 34.615 0.00 0.00 0.00 2.93
1478 1684 6.655003 AGATAAAGATCAAACCAGAGCGAAAA 59.345 34.615 0.00 0.00 34.17 2.29
1506 1712 9.472361 AATCGTATCGTATAGCAACAACTTATT 57.528 29.630 0.00 0.00 0.00 1.40
1533 1743 5.755861 GGTCAGGATCGGATTCTTTTCTTAG 59.244 44.000 0.00 0.00 0.00 2.18
1535 1745 4.518249 GGTCAGGATCGGATTCTTTTCTT 58.482 43.478 0.00 0.00 0.00 2.52
1536 1746 3.430929 CGGTCAGGATCGGATTCTTTTCT 60.431 47.826 0.00 0.00 0.00 2.52
1542 1756 2.202566 GTTTCGGTCAGGATCGGATTC 58.797 52.381 1.70 0.00 35.26 2.52
1869 2087 0.319900 TTGTCTTCCTCGACTGCTGC 60.320 55.000 0.00 0.00 35.00 5.25
1987 2221 4.742438 TTTCGAATGTTCCAACTAGCAC 57.258 40.909 0.00 0.00 0.00 4.40
1988 2222 5.759506 TTTTTCGAATGTTCCAACTAGCA 57.240 34.783 0.00 0.00 0.00 3.49
1989 2223 8.798153 CAATATTTTTCGAATGTTCCAACTAGC 58.202 33.333 0.00 0.00 0.00 3.42
2039 2276 1.135199 GGAGTGGCAACTGCAATCATG 60.135 52.381 8.06 0.00 43.82 3.07
2131 2368 3.806380 CACAGAGGGAGAGAATGATTGG 58.194 50.000 0.00 0.00 0.00 3.16
2136 2373 2.027377 AGTTGCACAGAGGGAGAGAATG 60.027 50.000 0.00 0.00 0.00 2.67
2137 2374 2.264455 AGTTGCACAGAGGGAGAGAAT 58.736 47.619 0.00 0.00 0.00 2.40
2140 2377 2.557920 AAAGTTGCACAGAGGGAGAG 57.442 50.000 0.00 0.00 0.00 3.20
2222 2461 7.128331 CGGTATTTCTGAACATCAACATGATC 58.872 38.462 0.00 0.00 34.28 2.92
2248 2487 4.069869 CACCTCTGGTTGTGCAGG 57.930 61.111 0.00 0.00 31.02 4.85
2284 2523 0.466189 CCAGCATAACCGGATGGCTT 60.466 55.000 9.46 0.00 39.70 4.35
2487 2726 7.581213 TCTCTACCTCTCTCATGAAAATCTC 57.419 40.000 0.00 0.00 0.00 2.75
2671 2913 2.357034 GTCTGCCCGAAACGCTCA 60.357 61.111 0.00 0.00 0.00 4.26
2743 2986 1.133025 ACACAGCAGCAACTGAACAAC 59.867 47.619 12.43 0.00 40.25 3.32
2755 2998 3.461061 TCTCAAGTTCTCAACACAGCAG 58.539 45.455 0.00 0.00 0.00 4.24
2983 3251 3.890674 GCCGTGCGAAGGAGAAAT 58.109 55.556 0.00 0.00 0.00 2.17
2997 3269 1.586564 GATTCAGTCGAGGTCGCCG 60.587 63.158 0.00 0.00 39.60 6.46
3058 3330 0.962356 ATTTTGCAGACAGCCCCGAG 60.962 55.000 0.00 0.00 44.83 4.63
3076 3348 7.604164 CGCCTGGATACTGAAATATTTACTCAT 59.396 37.037 0.00 0.00 37.83 2.90
3077 3349 6.929049 CGCCTGGATACTGAAATATTTACTCA 59.071 38.462 0.00 0.00 37.83 3.41
3094 3366 2.290260 TGATTTTGTCTGTCGCCTGGAT 60.290 45.455 0.00 0.00 0.00 3.41
3123 3395 4.838423 TCTTTCCTTCCTTCAATTTTCCCC 59.162 41.667 0.00 0.00 0.00 4.81
3128 3400 6.484364 TTGCTTCTTTCCTTCCTTCAATTT 57.516 33.333 0.00 0.00 0.00 1.82
3169 3441 3.702147 CCAGCTCATGGTCAGGATC 57.298 57.895 0.00 0.00 44.91 3.36
3197 3469 4.148825 GGTCGGGATCAGCGCAGT 62.149 66.667 11.47 0.00 0.00 4.40
3202 3474 0.038159 CTTATCGGGTCGGGATCAGC 60.038 60.000 0.00 0.00 0.00 4.26
3210 3482 2.230940 CGTGCAGCTTATCGGGTCG 61.231 63.158 0.00 0.00 0.00 4.79
3211 3483 1.146358 GACGTGCAGCTTATCGGGTC 61.146 60.000 0.00 0.00 0.00 4.46
3212 3484 1.153628 GACGTGCAGCTTATCGGGT 60.154 57.895 0.00 0.00 0.00 5.28
3213 3485 2.230940 CGACGTGCAGCTTATCGGG 61.231 63.158 0.00 0.00 0.00 5.14
3269 3541 0.828022 AGTTGTTGACCCACGACAGA 59.172 50.000 0.00 0.00 42.89 3.41
3306 3578 2.109181 GGATGCGGTGGTAGGAGC 59.891 66.667 0.00 0.00 0.00 4.70
3312 3584 3.361977 GCAAACGGATGCGGTGGT 61.362 61.111 12.44 0.00 36.45 4.16
3323 3595 4.661993 TTATAAGCACAGACAGCAAACG 57.338 40.909 0.00 0.00 0.00 3.60
3347 3637 0.229753 CGGCGTGCGAATCAATACTC 59.770 55.000 0.00 0.00 0.00 2.59
3379 3669 2.528743 CGGCACATGCTCATCGGAC 61.529 63.158 3.48 0.00 41.70 4.79
3382 3672 1.458445 CTAATCGGCACATGCTCATCG 59.542 52.381 3.48 0.00 41.70 3.84


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

AutoCloner maintained by Alex Coulton.