Multiple sequence alignment - TraesCS7D01G378400

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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 TraesCS7D01G378400 chr7D 100.000 4486 0 0 1 4486 489716015 489720500 0.000000e+00 8285.0
1 TraesCS7D01G378400 chr7B 94.179 2474 85 30 214 2663 518383018 518385456 0.000000e+00 3716.0
2 TraesCS7D01G378400 chr7B 95.894 1705 57 6 2663 4354 518385763 518387467 0.000000e+00 2748.0
3 TraesCS7D01G378400 chr7B 93.431 137 5 2 4353 4486 518387511 518387646 2.740000e-47 200.0
4 TraesCS7D01G378400 chr7A 91.733 1137 84 5 2471 3600 556503378 556504511 0.000000e+00 1570.0
5 TraesCS7D01G378400 chr7A 89.890 1177 78 17 153 1294 556500907 556502077 0.000000e+00 1476.0
6 TraesCS7D01G378400 chr7A 89.362 846 53 19 1337 2160 556502080 556502910 0.000000e+00 1029.0
7 TraesCS7D01G378400 chr7A 84.430 745 64 24 3653 4354 556504498 556505233 0.000000e+00 686.0
8 TraesCS7D01G378400 chr7A 88.554 166 10 2 2313 2470 556503172 556503336 4.580000e-45 193.0
9 TraesCS7D01G378400 chr7A 89.474 133 12 1 1 131 556500514 556500646 2.780000e-37 167.0
10 TraesCS7D01G378400 chr7A 88.636 88 6 2 4353 4437 556505271 556505357 2.210000e-18 104.0
11 TraesCS7D01G378400 chr5B 94.340 53 3 0 3596 3648 562467324 562467376 1.030000e-11 82.4
12 TraesCS7D01G378400 chr3D 88.525 61 4 1 3596 3653 131807393 131807453 2.240000e-08 71.3
13 TraesCS7D01G378400 chr3B 90.741 54 3 2 3596 3648 202583359 202583411 2.240000e-08 71.3


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 TraesCS7D01G378400 chr7D 489716015 489720500 4485 False 8285.000000 8285 100.000000 1 4486 1 chr7D.!!$F1 4485
1 TraesCS7D01G378400 chr7B 518383018 518387646 4628 False 2221.333333 3716 94.501333 214 4486 3 chr7B.!!$F1 4272
2 TraesCS7D01G378400 chr7A 556500514 556505357 4843 False 746.428571 1570 88.868429 1 4437 7 chr7A.!!$F1 4436

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
19 20 0.034896 GGTCCCATGTTCACACTCGT 59.965 55.000 0.00 0.0 0.00 4.18 F
1100 1383 0.029834 GCCAATAATGCAGCGTCCAG 59.970 55.000 0.00 0.0 0.00 3.86 F
1209 1492 1.069668 GTAACACGACTTGGTGGACCT 59.930 52.381 0.00 0.0 42.23 3.85 F
1401 1691 1.140816 GACTCTCGACACAGGTTTGC 58.859 55.000 0.00 0.0 0.00 3.68 F
2288 2598 0.311790 ACGCTGAACATTTGCACAGG 59.688 50.000 2.39 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1981 2291 3.964688 TCTACCAGAAAGTTCCACAGTCA 59.035 43.478 0.00 0.0 0.00 3.41 R
2114 2424 0.604578 ATTGTTCATGCAGCCGCTTT 59.395 45.000 0.00 0.0 39.64 3.51 R
2205 2515 1.993369 GCCGTGCCAGAATAAGCCAC 61.993 60.000 0.00 0.0 0.00 5.01 R
3392 4240 0.036952 CTGTGCCGGATGAGAACACT 60.037 55.000 5.05 0.0 32.49 3.55 R
3763 4614 1.243902 GACACCGAGCCCAAAATCAA 58.756 50.000 0.00 0.0 0.00 2.57 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
19 20 0.034896 GGTCCCATGTTCACACTCGT 59.965 55.000 0.00 0.00 0.00 4.18
70 71 0.981183 AGCCACGACCTTGGATTACA 59.019 50.000 0.00 0.00 39.24 2.41
71 72 1.066143 AGCCACGACCTTGGATTACAG 60.066 52.381 0.00 0.00 39.24 2.74
119 122 5.088739 GTGACGTCAGATTTTTAGCATTGG 58.911 41.667 20.73 0.00 0.00 3.16
123 126 6.924111 ACGTCAGATTTTTAGCATTGGATTT 58.076 32.000 0.00 0.00 0.00 2.17
139 142 8.798153 GCATTGGATTTTAGAGAACATAAAACG 58.202 33.333 0.00 0.00 35.54 3.60
142 145 7.735500 TGGATTTTAGAGAACATAAAACGACG 58.264 34.615 0.00 0.00 35.54 5.12
144 147 8.225777 GGATTTTAGAGAACATAAAACGACGTT 58.774 33.333 7.57 7.57 35.54 3.99
151 154 9.630098 AGAGAACATAAAACGACGTTTATAGAA 57.370 29.630 24.98 9.91 34.43 2.10
162 404 8.314143 ACGACGTTTATAGAAATGAAGGAAAA 57.686 30.769 8.98 0.00 35.46 2.29
187 431 8.017418 ACAATAAAGACAATTTTCAAGTGGGA 57.983 30.769 0.00 0.00 0.00 4.37
299 550 3.701664 GACCTGAACCCATCCAAATCTT 58.298 45.455 0.00 0.00 0.00 2.40
300 551 4.625324 CGACCTGAACCCATCCAAATCTTA 60.625 45.833 0.00 0.00 0.00 2.10
301 552 5.449553 GACCTGAACCCATCCAAATCTTAT 58.550 41.667 0.00 0.00 0.00 1.73
302 553 6.590656 ACCTGAACCCATCCAAATCTTATA 57.409 37.500 0.00 0.00 0.00 0.98
303 554 6.605119 ACCTGAACCCATCCAAATCTTATAG 58.395 40.000 0.00 0.00 0.00 1.31
309 564 4.290722 CCCATCCAAATCTTATAGCTCCCT 59.709 45.833 0.00 0.00 0.00 4.20
522 781 7.412853 AATCTTACTAGTTCTTCTGGTCTCC 57.587 40.000 0.00 0.00 38.73 3.71
569 828 3.818773 GGTTTAGTTACCTGCTTTGCTGA 59.181 43.478 0.00 0.00 35.23 4.26
609 868 0.872881 CTGTTGCCTTGTTGTGCTGC 60.873 55.000 0.00 0.00 0.00 5.25
639 898 7.074237 ACTGGGGAAAATGTAGATATCCATCTT 59.926 37.037 0.00 0.00 41.84 2.40
666 925 2.875933 TCTTTCTCGAATTGCAACCGTT 59.124 40.909 18.59 3.47 0.00 4.44
669 928 2.214347 TCTCGAATTGCAACCGTTCAA 58.786 42.857 18.59 0.00 0.00 2.69
759 1023 0.250770 GGCCGAGGGGTTCAATATCC 60.251 60.000 0.00 0.00 34.97 2.59
783 1047 6.917477 CCCATGAAATACATTTGTCAATACGG 59.083 38.462 0.00 0.00 37.07 4.02
793 1057 2.639065 TGTCAATACGGAGGCCAAATC 58.361 47.619 5.01 0.00 0.00 2.17
918 1198 6.437094 ACGAAGCGACTAGATTTCTTATACC 58.563 40.000 0.00 0.00 0.00 2.73
957 1237 0.373716 GCTGTGGCGGAAATCTAACG 59.626 55.000 0.00 0.00 0.00 3.18
984 1267 5.525012 GTGGTTACCTAGTTGACGTTCTTTT 59.475 40.000 2.07 0.00 0.00 2.27
1100 1383 0.029834 GCCAATAATGCAGCGTCCAG 59.970 55.000 0.00 0.00 0.00 3.86
1209 1492 1.069668 GTAACACGACTTGGTGGACCT 59.930 52.381 0.00 0.00 42.23 3.85
1326 1613 4.404715 TCCTACTTCCCTTCATCTTAACCG 59.595 45.833 0.00 0.00 0.00 4.44
1401 1691 1.140816 GACTCTCGACACAGGTTTGC 58.859 55.000 0.00 0.00 0.00 3.68
1521 1817 3.546724 GGCTACTCCAAAGGGAATTCTC 58.453 50.000 5.23 0.00 44.38 2.87
1727 2023 2.676342 GCGGTGGGTAATTGTAGAACAG 59.324 50.000 0.00 0.00 0.00 3.16
1773 2069 3.873361 AGTTCGAATGCACCATGATACAG 59.127 43.478 0.00 0.00 0.00 2.74
1854 2150 1.463444 CGAAAGCTCCCCGTAAGTTTG 59.537 52.381 0.00 0.00 0.00 2.93
2162 2472 6.440965 AGGTAAGTAGATACATTATGGGCTCC 59.559 42.308 0.00 0.00 0.00 4.70
2205 2515 3.254411 TGTTCTAGTGAGCACTCTGTGAG 59.746 47.826 6.38 0.00 42.54 3.51
2240 2550 2.486203 CACGGCTGGCAGTAAAACAATA 59.514 45.455 17.16 0.00 0.00 1.90
2243 2553 2.159435 GGCTGGCAGTAAAACAATACCG 60.159 50.000 17.16 0.00 0.00 4.02
2247 2557 4.897140 TGGCAGTAAAACAATACCGTACT 58.103 39.130 0.00 0.00 0.00 2.73
2288 2598 0.311790 ACGCTGAACATTTGCACAGG 59.688 50.000 2.39 0.00 0.00 4.00
2290 2600 1.664016 CGCTGAACATTTGCACAGGAC 60.664 52.381 0.00 0.00 0.00 3.85
2353 2834 9.638239 TTTCTGCATTGAATCTGGTTAATTTAC 57.362 29.630 0.00 0.00 0.00 2.01
2425 2906 0.403655 TTACAGCAGCACATTCCCCA 59.596 50.000 0.00 0.00 0.00 4.96
2555 3084 4.620184 GCTCAAAATCAGCTGAAACACATC 59.380 41.667 22.50 4.84 33.75 3.06
2694 3530 8.508875 TGCCATAAAACTTAAGTAAACACTAGC 58.491 33.333 8.92 6.53 0.00 3.42
2695 3531 8.727910 GCCATAAAACTTAAGTAAACACTAGCT 58.272 33.333 8.92 0.00 0.00 3.32
2730 3566 8.489990 TTGCAAACATTATATTTGTTGGATGG 57.510 30.769 0.00 0.00 38.93 3.51
2889 3728 2.224018 TGTCTTTGCCTTCCAATTGCAC 60.224 45.455 0.00 0.00 34.16 4.57
3036 3881 2.225491 GTGCTGTGCGAATCAGGTAAAA 59.775 45.455 0.00 0.00 33.98 1.52
3037 3882 3.081061 TGCTGTGCGAATCAGGTAAAAT 58.919 40.909 0.00 0.00 33.98 1.82
3262 4107 2.721231 CAGTTGTGGTGCCGGTTG 59.279 61.111 1.90 0.00 0.00 3.77
3300 4145 1.410882 GAGATAGCAAGAGGGCTCGTT 59.589 52.381 0.00 0.00 44.54 3.85
3346 4191 3.755404 CGAGTTCGCACTTCCTCG 58.245 61.111 0.00 0.00 40.54 4.63
3392 4240 1.002773 TCTGATTTGCAGCTGAGCTCA 59.997 47.619 20.43 17.19 44.52 4.26
3428 4276 0.467384 CAGGGCGATCTGGTTCATCT 59.533 55.000 0.00 0.00 0.00 2.90
3507 4355 1.776662 AGGGTTCGCTAGCTGTATCA 58.223 50.000 13.93 0.00 0.00 2.15
3641 4490 6.753744 GGATCAATAAAGTGTTGGCAAATCTC 59.246 38.462 0.00 0.00 0.00 2.75
3692 4543 4.024556 CAGAGGCTCCATGCTATTTTAACG 60.025 45.833 11.71 0.00 42.39 3.18
3763 4614 4.196971 GTTATTGGGCTTCGGATTGTACT 58.803 43.478 0.00 0.00 0.00 2.73
3780 4631 1.247567 ACTTGATTTTGGGCTCGGTG 58.752 50.000 0.00 0.00 0.00 4.94
3783 4634 0.608035 TGATTTTGGGCTCGGTGTCC 60.608 55.000 0.00 0.00 41.87 4.02
3818 4669 7.198390 ACTGATTTCACAATCTGTTGTCAAAG 58.802 34.615 2.59 0.00 45.14 2.77
3832 4683 7.611467 TCTGTTGTCAAAGTAGGCATGAATATT 59.389 33.333 0.00 0.00 0.00 1.28
3863 4714 9.529325 GATGTATGTCAACAAGTATAAGCTACA 57.471 33.333 0.00 0.00 32.02 2.74
3904 4755 2.740447 GGCGGTCTCTTTTGTTTACGAT 59.260 45.455 0.00 0.00 0.00 3.73
3906 4757 4.201656 GGCGGTCTCTTTTGTTTACGATAC 60.202 45.833 0.00 0.00 0.00 2.24
3907 4758 4.386652 GCGGTCTCTTTTGTTTACGATACA 59.613 41.667 0.00 0.00 0.00 2.29
3908 4759 5.444218 GCGGTCTCTTTTGTTTACGATACAG 60.444 44.000 0.00 0.00 0.00 2.74
3950 4822 2.726760 CGAAGCTGTTACAGACACTGTC 59.273 50.000 17.40 0.38 41.21 3.51
3984 4857 7.009999 GTGTTCAGACATGTCAGTCATTCTATC 59.990 40.741 27.02 7.30 40.98 2.08
3993 4866 7.095695 TGTCAGTCATTCTATCACGAACATA 57.904 36.000 0.00 0.00 0.00 2.29
4031 4919 5.273170 CACCATGCAACCAATTTATAGTCG 58.727 41.667 0.00 0.00 0.00 4.18
4035 4923 2.685897 GCAACCAATTTATAGTCGGCCA 59.314 45.455 2.24 0.00 0.00 5.36
4036 4924 3.317993 GCAACCAATTTATAGTCGGCCAT 59.682 43.478 2.24 0.00 0.00 4.40
4061 4951 0.035317 TCAGCTGTCGCTTCCACATT 59.965 50.000 14.67 0.00 46.47 2.71
4182 5072 0.107800 CTCCTCTGGTGCCATGTGAG 60.108 60.000 0.00 0.00 0.00 3.51
4187 5079 2.886523 CTCTGGTGCCATGTGAGAAAAA 59.113 45.455 1.11 0.00 0.00 1.94
4191 5083 2.029918 GGTGCCATGTGAGAAAAAGGAC 60.030 50.000 0.00 0.00 0.00 3.85
4220 5112 7.169308 ACATTAGTTACCGAATAAGAAGATGCG 59.831 37.037 0.00 0.00 0.00 4.73
4232 5125 2.468831 GAAGATGCGGCTTCTAGACTG 58.531 52.381 17.45 0.00 40.80 3.51
4292 5185 5.987347 CAGAGAAGGCAAAACATTCACAATT 59.013 36.000 0.00 0.00 0.00 2.32
4293 5186 6.480981 CAGAGAAGGCAAAACATTCACAATTT 59.519 34.615 0.00 0.00 0.00 1.82
4294 5187 7.011669 CAGAGAAGGCAAAACATTCACAATTTT 59.988 33.333 0.00 0.00 0.00 1.82
4317 5212 4.823442 TGCAGAGTTTGTTCACAGATGATT 59.177 37.500 0.00 0.00 33.85 2.57
4375 5318 7.431960 CAGAGTTTTCTTCATCTAGATGACTCG 59.568 40.741 30.73 21.83 46.49 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.000843 TCAGACGAGTGTGAACATGGG 59.999 52.381 0.32 0.00 29.36 4.00
10 11 0.960861 AGGCGATCAGACGAGTGTGA 60.961 55.000 5.55 5.55 37.28 3.58
12 13 1.803943 GAGGCGATCAGACGAGTGT 59.196 57.895 0.00 0.00 35.09 3.55
19 20 1.750780 AGCAGTCGAGGCGATCAGA 60.751 57.895 3.58 0.00 38.42 3.27
45 46 1.300620 CAAGGTCGTGGCTTCGTCA 60.301 57.895 3.16 0.00 0.00 4.35
48 49 0.673644 AATCCAAGGTCGTGGCTTCG 60.674 55.000 0.00 0.00 38.68 3.79
51 52 0.981183 TGTAATCCAAGGTCGTGGCT 59.019 50.000 0.00 0.00 38.68 4.75
70 71 4.429854 TTAGCATTTTGGGGCAAAAACT 57.570 36.364 0.00 0.00 44.68 2.66
71 72 5.506686 TTTTAGCATTTTGGGGCAAAAAC 57.493 34.783 0.00 0.00 44.68 2.43
113 116 8.798153 CGTTTTATGTTCTCTAAAATCCAATGC 58.202 33.333 0.00 0.00 32.42 3.56
119 122 9.590088 AAACGTCGTTTTATGTTCTCTAAAATC 57.410 29.630 17.41 0.00 31.10 2.17
134 137 8.314143 TCCTTCATTTCTATAAACGTCGTTTT 57.686 30.769 26.79 16.78 37.01 2.43
137 140 7.894376 TTTCCTTCATTTCTATAAACGTCGT 57.106 32.000 0.00 0.00 0.00 4.34
139 142 9.887406 TTGTTTTCCTTCATTTCTATAAACGTC 57.113 29.630 0.00 0.00 0.00 4.34
162 404 8.017418 TCCCACTTGAAAATTGTCTTTATTGT 57.983 30.769 0.00 0.00 0.00 2.71
192 436 4.471386 AGTGGAGTGCACACCTTATAGATT 59.529 41.667 29.78 6.57 39.63 2.40
195 439 3.895232 AGTGGAGTGCACACCTTATAG 57.105 47.619 29.78 0.00 39.63 1.31
205 449 3.611674 TCGCGGAAGTGGAGTGCA 61.612 61.111 6.13 0.00 43.13 4.57
299 550 2.704190 CCTTCCTCCAGGGAGCTATA 57.296 55.000 9.92 0.00 46.01 1.31
300 551 3.567902 CCTTCCTCCAGGGAGCTAT 57.432 57.895 9.92 0.00 46.01 2.97
309 564 4.649705 TGTCCGCCCCTTCCTCCA 62.650 66.667 0.00 0.00 0.00 3.86
359 614 2.100216 CGGAACCGTACCGTACCG 59.900 66.667 4.99 0.00 44.57 4.02
522 781 3.181454 ACTGAAACCTACACTGGGAAGTG 60.181 47.826 4.36 4.36 44.74 3.16
591 850 1.141449 GCAGCACAACAAGGCAACA 59.859 52.632 0.00 0.00 41.41 3.33
596 855 0.381801 AGTTTCGCAGCACAACAAGG 59.618 50.000 6.49 0.00 0.00 3.61
609 868 6.204882 GGATATCTACATTTTCCCCAGTTTCG 59.795 42.308 2.05 0.00 0.00 3.46
666 925 4.317488 GGAAAGGCATGCAATTTTCTTGA 58.683 39.130 26.52 0.00 31.83 3.02
669 928 2.026915 GGGGAAAGGCATGCAATTTTCT 60.027 45.455 26.52 12.02 31.83 2.52
722 986 1.801178 GCCAAGATCTAGCGCCATAAC 59.199 52.381 2.29 0.00 0.00 1.89
759 1023 7.702386 TCCGTATTGACAAATGTATTTCATGG 58.298 34.615 0.00 0.00 36.81 3.66
781 1045 0.673644 AGTTGTCGATTTGGCCTCCG 60.674 55.000 3.32 2.06 0.00 4.63
783 1047 1.087501 GGAGTTGTCGATTTGGCCTC 58.912 55.000 3.32 0.00 0.00 4.70
793 1057 0.109226 GGAAGGACTCGGAGTTGTCG 60.109 60.000 12.67 0.00 34.33 4.35
918 1198 3.072184 AGCAAGTAGATTATGCAGGGAGG 59.928 47.826 0.00 0.00 42.45 4.30
957 1237 2.030805 ACGTCAACTAGGTAACCACGTC 60.031 50.000 0.00 0.00 34.01 4.34
984 1267 4.409901 TCATACATCTGGCATCCTCTGAAA 59.590 41.667 0.00 0.00 0.00 2.69
1100 1383 6.509418 TGTTTGAGCTATTTCCACCAATAC 57.491 37.500 0.00 0.00 0.00 1.89
1209 1492 4.884668 AAGGAATCGGAACTTACTGTCA 57.115 40.909 0.00 0.00 0.00 3.58
1326 1613 4.940046 CAGGGATCATACATATCAGTTGCC 59.060 45.833 0.00 0.00 0.00 4.52
1401 1691 5.163405 TGGCTGCTCCATTAACTAACTAGAG 60.163 44.000 0.00 0.00 40.72 2.43
1727 2023 4.794169 TCGCAAGCTAAATCAAACCTTTC 58.206 39.130 0.00 0.00 37.18 2.62
1773 2069 7.434013 CCAACTTGTCACCTACAATACAAAAAC 59.566 37.037 0.00 0.00 46.81 2.43
1981 2291 3.964688 TCTACCAGAAAGTTCCACAGTCA 59.035 43.478 0.00 0.00 0.00 3.41
2084 2394 4.041567 TCCATCTGCAACTTTAGAACCTCA 59.958 41.667 0.00 0.00 0.00 3.86
2114 2424 0.604578 ATTGTTCATGCAGCCGCTTT 59.395 45.000 0.00 0.00 39.64 3.51
2205 2515 1.993369 GCCGTGCCAGAATAAGCCAC 61.993 60.000 0.00 0.00 0.00 5.01
2240 2550 6.104665 GGAAAAGCTTAGTATTCAGTACGGT 58.895 40.000 0.00 0.00 38.38 4.83
2243 2553 7.769044 TCCATGGAAAAGCTTAGTATTCAGTAC 59.231 37.037 13.46 0.00 0.00 2.73
2247 2557 5.584649 CGTCCATGGAAAAGCTTAGTATTCA 59.415 40.000 18.20 0.00 0.00 2.57
2288 2598 8.398665 CCATGGAAAAGCTTAGTATTTAGTGTC 58.601 37.037 5.56 0.00 0.00 3.67
2290 2600 8.506168 TCCATGGAAAAGCTTAGTATTTAGTG 57.494 34.615 13.46 0.00 0.00 2.74
2323 2804 5.733620 ACCAGATTCAATGCAGAAAACAT 57.266 34.783 0.00 0.00 0.00 2.71
2353 2834 4.281435 TGCATGTCAATGGGCTTAATATGG 59.719 41.667 0.00 0.00 34.09 2.74
2425 2906 5.226194 TGTTTTGGGGTAACGTACAGTAT 57.774 39.130 0.00 0.00 37.60 2.12
2501 3029 6.274001 AGAATTTGTACGCATGATAAGTCG 57.726 37.500 0.00 0.00 0.00 4.18
2555 3084 5.971202 ACTTCAACTCATTTTTGCAGTAACG 59.029 36.000 0.00 0.00 30.01 3.18
2635 3164 7.330262 TGTCACACAATCTCAGCTGATTTATA 58.670 34.615 18.63 1.05 34.77 0.98
2694 3530 9.630098 AATATAATGTTTGCAAAGTCAGAACAG 57.370 29.630 13.26 0.00 34.17 3.16
2695 3531 9.979578 AAATATAATGTTTGCAAAGTCAGAACA 57.020 25.926 13.26 6.20 35.04 3.18
2730 3566 8.332996 AGATGATTATTGACACAGGATTATGC 57.667 34.615 0.00 0.00 0.00 3.14
2889 3728 5.633601 TGAAGCAGTTAGTGACATAGTTTCG 59.366 40.000 0.00 0.00 0.00 3.46
3036 3881 4.473520 CAGGGCGAGGGCGTTCAT 62.474 66.667 0.00 0.00 41.24 2.57
3137 3982 3.716006 CCACTTGCAGTCACGGCG 61.716 66.667 4.80 4.80 0.00 6.46
3262 4107 1.077429 CTGGGGCTGTTTAGGAGGC 60.077 63.158 0.00 0.00 35.29 4.70
3300 4145 2.202395 GGCCAAGGCTGTTGCTGAA 61.202 57.895 11.40 0.00 41.60 3.02
3346 4191 0.514691 GCTCGATTCCGGAATGATGC 59.485 55.000 33.84 26.26 36.24 3.91
3392 4240 0.036952 CTGTGCCGGATGAGAACACT 60.037 55.000 5.05 0.00 32.49 3.55
3469 4317 4.538490 ACCCTAATCAAACATCACTACCCA 59.462 41.667 0.00 0.00 0.00 4.51
3507 4355 3.961408 ACCAATAGCTCTACCGACTGATT 59.039 43.478 0.00 0.00 0.00 2.57
3648 4497 7.857885 CCTCTGACAGAATAAACACAAGTTTTC 59.142 37.037 6.61 0.00 45.32 2.29
3692 4543 5.116180 TCCAGATCGTTAACATCACAATCC 58.884 41.667 6.39 0.00 0.00 3.01
3763 4614 1.243902 GACACCGAGCCCAAAATCAA 58.756 50.000 0.00 0.00 0.00 2.57
3780 4631 3.742369 TGAAATCAGTTTAACGACCGGAC 59.258 43.478 9.46 0.00 0.00 4.79
3783 4634 4.718858 TGTGAAATCAGTTTAACGACCG 57.281 40.909 0.00 0.00 32.20 4.79
3818 4669 8.618677 CATACATCATCCAATATTCATGCCTAC 58.381 37.037 0.00 0.00 0.00 3.18
3832 4683 9.546428 CTTATACTTGTTGACATACATCATCCA 57.454 33.333 0.00 0.00 0.00 3.41
3863 4714 1.608590 CCCGTGCTGATTTGTTCTTGT 59.391 47.619 0.00 0.00 0.00 3.16
3904 4755 5.163530 CCTCCATTGCACAAATTATGCTGTA 60.164 40.000 13.95 2.93 43.77 2.74
3906 4757 4.116961 CCTCCATTGCACAAATTATGCTG 58.883 43.478 13.95 6.54 43.77 4.41
3907 4758 3.431207 GCCTCCATTGCACAAATTATGCT 60.431 43.478 13.95 0.00 43.77 3.79
3908 4759 2.867975 GCCTCCATTGCACAAATTATGC 59.132 45.455 7.51 7.51 43.68 3.14
3950 4822 3.849911 ACATGTCTGAACACCTGTATCG 58.150 45.455 0.00 0.00 38.48 2.92
3984 4857 9.113876 GTGGTTTTATCTTCTTTTATGTTCGTG 57.886 33.333 0.00 0.00 0.00 4.35
3993 4866 6.418057 TGCATGGTGGTTTTATCTTCTTTT 57.582 33.333 0.00 0.00 0.00 2.27
4031 4919 1.869767 CGACAGCTGAAGAATATGGCC 59.130 52.381 23.35 0.00 0.00 5.36
4061 4951 2.731027 CGAGGACGACGATGAATGAACA 60.731 50.000 0.00 0.00 42.66 3.18
4182 5072 8.483307 TCGGTAACTAATGTATGTCCTTTTTC 57.517 34.615 0.00 0.00 0.00 2.29
4187 5079 9.139734 TCTTATTCGGTAACTAATGTATGTCCT 57.860 33.333 0.00 0.00 33.46 3.85
4220 5112 1.273606 TGCACTGTCAGTCTAGAAGCC 59.726 52.381 1.37 0.00 0.00 4.35
4232 5125 5.412594 TCCAAAACTGATAATCTGCACTGTC 59.587 40.000 0.00 0.00 0.00 3.51
4292 5185 4.639755 TCATCTGTGAACAAACTCTGCAAA 59.360 37.500 0.00 0.00 0.00 3.68
4293 5186 4.198530 TCATCTGTGAACAAACTCTGCAA 58.801 39.130 0.00 0.00 0.00 4.08
4294 5187 3.807553 TCATCTGTGAACAAACTCTGCA 58.192 40.909 0.00 0.00 0.00 4.41
4328 5223 6.567959 TCTGAATGTAGCTACTTGATGTCAG 58.432 40.000 23.84 22.61 0.00 3.51
4375 5318 6.817270 TTTTAACGTTCACTCTACACTCAC 57.183 37.500 2.82 0.00 0.00 3.51
4438 5381 4.406648 TTGACTGGACATATGCCTACTG 57.593 45.455 14.63 5.30 0.00 2.74


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

AutoCloner maintained by Alex Coulton.