Multiple sequence alignment - TraesCS5D01G153800

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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 TraesCS5D01G153800 chr5D 100.000 4206 0 0 1 4206 242355621 242359826 0.000000e+00 7768.0
1 TraesCS5D01G153800 chr5D 93.333 45 3 0 1 45 554571877 554571921 2.710000e-07 67.6
2 TraesCS5D01G153800 chr5A 93.137 4240 200 52 4 4206 310876073 310871888 0.000000e+00 6133.0
3 TraesCS5D01G153800 chr5B 95.255 2466 92 16 286 2744 259537370 259539817 0.000000e+00 3882.0
4 TraesCS5D01G153800 chr5B 91.561 1505 85 18 2732 4206 259539832 259541324 0.000000e+00 2037.0
5 TraesCS5D01G153800 chr5B 92.192 333 26 0 1 333 259537055 259537387 4.920000e-129 472.0
6 TraesCS5D01G153800 chr5B 83.004 253 28 8 400 640 391460580 391460331 9.160000e-52 215.0
7 TraesCS5D01G153800 chr4D 84.428 1066 127 27 1189 2248 109911952 109910920 0.000000e+00 1013.0
8 TraesCS5D01G153800 chr4D 84.962 266 22 11 402 654 416060712 416060972 1.940000e-63 254.0
9 TraesCS5D01G153800 chr4A 83.959 1066 133 25 1189 2248 466926025 466927058 0.000000e+00 987.0
10 TraesCS5D01G153800 chr4A 83.908 261 29 9 402 654 47751185 47750930 1.950000e-58 237.0
11 TraesCS5D01G153800 chr4B 83.396 1066 139 26 1189 2248 171028540 171027507 0.000000e+00 953.0
12 TraesCS5D01G153800 chr1A 77.340 1293 240 41 1189 2456 500343352 500342088 0.000000e+00 715.0
13 TraesCS5D01G153800 chr1B 81.552 786 135 9 1189 1969 544726918 544726138 1.280000e-179 640.0
14 TraesCS5D01G153800 chr1B 93.151 73 5 0 2746 2818 556993770 556993842 1.600000e-19 108.0
15 TraesCS5D01G153800 chr1D 80.941 808 142 12 1217 2018 404970783 404969982 2.760000e-176 628.0
16 TraesCS5D01G153800 chr3A 82.486 531 89 4 1189 1717 579552998 579553526 2.960000e-126 462.0
17 TraesCS5D01G153800 chr3A 90.000 60 5 1 2341 2400 467018983 467019041 4.510000e-10 76.8
18 TraesCS5D01G153800 chr2D 87.448 239 17 9 412 640 172409423 172409658 3.220000e-66 263.0
19 TraesCS5D01G153800 chr2D 84.436 257 27 9 399 644 118456496 118456242 1.510000e-59 241.0
20 TraesCS5D01G153800 chr2B 85.659 258 22 10 400 646 225571624 225571371 1.500000e-64 257.0
21 TraesCS5D01G153800 chr2B 92.000 75 5 1 2745 2818 33908842 33908916 2.070000e-18 104.0
22 TraesCS5D01G153800 chr7D 84.064 251 27 11 406 645 387334988 387334740 3.270000e-56 230.0
23 TraesCS5D01G153800 chr7D 90.909 55 5 0 2341 2395 622401682 622401628 1.620000e-09 75.0
24 TraesCS5D01G153800 chr7A 85.022 227 19 11 426 640 105628029 105627806 2.550000e-52 217.0
25 TraesCS5D01G153800 chr6B 93.333 75 5 0 2744 2818 278674610 278674684 1.240000e-20 111.0
26 TraesCS5D01G153800 chr6A 92.308 78 6 0 2741 2818 209391335 209391412 1.240000e-20 111.0
27 TraesCS5D01G153800 chr6A 88.235 85 5 5 2752 2836 14351067 14350988 3.460000e-16 97.1
28 TraesCS5D01G153800 chr6A 97.143 35 1 0 604 638 521556089 521556123 4.540000e-05 60.2
29 TraesCS5D01G153800 chr6D 92.105 76 6 0 2741 2816 155601955 155602030 1.600000e-19 108.0
30 TraesCS5D01G153800 chr2A 88.235 85 5 3 2752 2836 67713282 67713361 3.460000e-16 97.1


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 TraesCS5D01G153800 chr5D 242355621 242359826 4205 False 7768.000000 7768 100.000000 1 4206 1 chr5D.!!$F1 4205
1 TraesCS5D01G153800 chr5A 310871888 310876073 4185 True 6133.000000 6133 93.137000 4 4206 1 chr5A.!!$R1 4202
2 TraesCS5D01G153800 chr5B 259537055 259541324 4269 False 2130.333333 3882 93.002667 1 4206 3 chr5B.!!$F1 4205
3 TraesCS5D01G153800 chr4D 109910920 109911952 1032 True 1013.000000 1013 84.428000 1189 2248 1 chr4D.!!$R1 1059
4 TraesCS5D01G153800 chr4A 466926025 466927058 1033 False 987.000000 987 83.959000 1189 2248 1 chr4A.!!$F1 1059
5 TraesCS5D01G153800 chr4B 171027507 171028540 1033 True 953.000000 953 83.396000 1189 2248 1 chr4B.!!$R1 1059
6 TraesCS5D01G153800 chr1A 500342088 500343352 1264 True 715.000000 715 77.340000 1189 2456 1 chr1A.!!$R1 1267
7 TraesCS5D01G153800 chr1B 544726138 544726918 780 True 640.000000 640 81.552000 1189 1969 1 chr1B.!!$R1 780
8 TraesCS5D01G153800 chr1D 404969982 404970783 801 True 628.000000 628 80.941000 1217 2018 1 chr1D.!!$R1 801
9 TraesCS5D01G153800 chr3A 579552998 579553526 528 False 462.000000 462 82.486000 1189 1717 1 chr3A.!!$F2 528

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
191 192 0.250234 ACACTCACATCCCATGGACG 59.750 55.000 15.22 3.14 32.98 4.79 F
748 783 0.307760 CCGATCAAAGCGGTATTGCC 59.692 55.000 0.00 0.00 43.66 4.52 F
813 848 0.463654 TCAGGTTGTGACACCAGCAC 60.464 55.000 11.02 0.00 39.62 4.40 F
1710 1745 1.002087 GGCCTCTCCGTCTTCTTCAAA 59.998 52.381 0.00 0.00 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1710 1745 0.035458 CCTTGAACACCTCGCCTTCT 59.965 55.000 0.00 0.0 0.00 2.85 R
2568 2659 1.012841 GCCTGGAAATCGAAGCAGAG 58.987 55.000 0.00 0.0 0.00 3.35 R
2832 2949 9.042008 GTTTCTTTTCTTTTTCCAGGAAATACC 57.958 33.333 15.75 0.0 39.35 2.73 R
3714 3864 1.135402 GGATCACAATGGTGGAAACGC 60.135 52.381 0.00 0.0 45.32 4.84 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
108 109 1.695989 CCCCATCTACCCAACCTAGCT 60.696 57.143 0.00 0.00 0.00 3.32
145 146 6.663953 ACTAGTGCACCTTCTTCTATAGTCAA 59.336 38.462 14.63 0.00 0.00 3.18
150 151 6.818644 TGCACCTTCTTCTATAGTCAACATTC 59.181 38.462 0.00 0.00 0.00 2.67
157 158 7.126061 TCTTCTATAGTCAACATTCTCCTCCA 58.874 38.462 0.00 0.00 0.00 3.86
158 159 6.716934 TCTATAGTCAACATTCTCCTCCAC 57.283 41.667 0.00 0.00 0.00 4.02
187 188 4.124970 CACATCTACACTCACATCCCATG 58.875 47.826 0.00 0.00 0.00 3.66
191 192 0.250234 ACACTCACATCCCATGGACG 59.750 55.000 15.22 3.14 32.98 4.79
361 393 6.482898 TGTTAAACCACCCGCTTATATAGA 57.517 37.500 0.00 0.00 0.00 1.98
376 408 7.328737 GCTTATATAGACGGTTCATTACCCAT 58.671 38.462 0.00 0.00 44.70 4.00
390 422 4.556592 TTACCCATTACAGCGGTTAAGT 57.443 40.909 0.00 0.00 0.00 2.24
399 431 6.923928 TTACAGCGGTTAAGTTACTTGTTT 57.076 33.333 8.00 0.00 0.00 2.83
661 695 7.829706 AGGAGAAATAACAAGAATAACCACTCC 59.170 37.037 0.00 0.00 38.20 3.85
748 783 0.307760 CCGATCAAAGCGGTATTGCC 59.692 55.000 0.00 0.00 43.66 4.52
765 800 2.985896 TGCCAGAAATGCTACACCTAC 58.014 47.619 0.00 0.00 0.00 3.18
774 809 4.744795 ATGCTACACCTACCTGAAGAAG 57.255 45.455 0.00 0.00 0.00 2.85
775 810 3.774734 TGCTACACCTACCTGAAGAAGA 58.225 45.455 0.00 0.00 0.00 2.87
776 811 4.157246 TGCTACACCTACCTGAAGAAGAA 58.843 43.478 0.00 0.00 0.00 2.52
777 812 4.591498 TGCTACACCTACCTGAAGAAGAAA 59.409 41.667 0.00 0.00 0.00 2.52
778 813 5.071250 TGCTACACCTACCTGAAGAAGAAAA 59.929 40.000 0.00 0.00 0.00 2.29
779 814 5.408909 GCTACACCTACCTGAAGAAGAAAAC 59.591 44.000 0.00 0.00 0.00 2.43
780 815 5.367945 ACACCTACCTGAAGAAGAAAACA 57.632 39.130 0.00 0.00 0.00 2.83
813 848 0.463654 TCAGGTTGTGACACCAGCAC 60.464 55.000 11.02 0.00 39.62 4.40
1263 1298 1.226888 GACCTACACCATCGGCGAC 60.227 63.158 13.76 0.00 0.00 5.19
1644 1679 1.002544 CTCAAGCCGGAGAACTTCCTT 59.997 52.381 5.05 0.00 44.41 3.36
1710 1745 1.002087 GGCCTCTCCGTCTTCTTCAAA 59.998 52.381 0.00 0.00 0.00 2.69
1900 1935 2.976840 GCCATTCTGCGCGGTGAAA 61.977 57.895 17.37 3.38 0.00 2.69
1954 1989 1.054406 CCCCGGAGCCAAGGATCTTA 61.054 60.000 0.73 0.00 0.00 2.10
2011 2046 4.760047 CGGCCACCCAAGTCCTCG 62.760 72.222 2.24 0.00 0.00 4.63
2268 2313 2.161012 GCACATGGACTGACATTGACAG 59.839 50.000 13.44 13.44 40.68 3.51
2274 2319 2.225019 GGACTGACATTGACAGCACTTG 59.775 50.000 14.68 0.00 38.74 3.16
2309 2354 8.175716 ACTAACTAATCTTTGATAACTTTGCGC 58.824 33.333 0.00 0.00 0.00 6.09
2501 2587 3.049708 TGATGGAAGCAGTGAGTCTTG 57.950 47.619 0.00 0.00 0.00 3.02
3086 3206 5.479716 TCGAAAGGAACTGAAACTGTTTC 57.520 39.130 22.94 22.94 40.86 2.78
3094 3214 2.943033 ACTGAAACTGTTTCCTTGACGG 59.057 45.455 25.66 11.46 38.90 4.79
3097 3217 1.782028 AACTGTTTCCTTGACGGCGC 61.782 55.000 6.90 0.00 0.00 6.53
3612 3759 6.176975 TCAATCGGACATGTACAAATGAAC 57.823 37.500 9.21 0.00 0.00 3.18
3639 3786 7.482474 CATGCACACATCCAATTTAGATTACA 58.518 34.615 0.00 0.00 32.87 2.41
3714 3864 4.442705 GACGTGTGTCGAAAACTACAATG 58.557 43.478 0.00 0.00 42.86 2.82
3715 3865 3.215244 CGTGTGTCGAAAACTACAATGC 58.785 45.455 0.00 0.00 42.86 3.56
3725 3875 2.264005 ACTACAATGCGTTTCCACCA 57.736 45.000 0.00 0.00 0.00 4.17
3731 3881 1.614996 ATGCGTTTCCACCATTGTGA 58.385 45.000 0.00 0.00 45.76 3.58
3732 3882 1.614996 TGCGTTTCCACCATTGTGAT 58.385 45.000 0.00 0.00 45.76 3.06
3758 3913 3.988379 TCACAAGATGTTCAAAGCCAC 57.012 42.857 0.00 0.00 0.00 5.01
3771 3926 3.190327 TCAAAGCCACATCCAAATGTACG 59.810 43.478 0.00 0.00 44.41 3.67
3784 3939 2.979401 ATGTACGCGTTGCAATGAAA 57.021 40.000 20.78 3.48 0.00 2.69
3788 3943 3.247886 TGTACGCGTTGCAATGAAAGTTA 59.752 39.130 20.78 8.35 0.00 2.24
3790 3945 3.896122 ACGCGTTGCAATGAAAGTTATT 58.104 36.364 22.81 0.00 0.00 1.40
3791 3946 3.668191 ACGCGTTGCAATGAAAGTTATTG 59.332 39.130 22.81 0.00 38.30 1.90
3818 3973 7.460120 CGAAGCAACTTATTGTGATTAAAAGCG 60.460 37.037 0.00 0.00 38.17 4.68
3831 3986 9.642327 TGTGATTAAAAGCGAGTTTGTACTATA 57.358 29.630 0.00 0.00 33.84 1.31
3852 4007 8.718734 ACTATAAATCCGTTTTTCTCTCACAAC 58.281 33.333 0.00 0.00 0.00 3.32
3855 4010 2.171870 TCCGTTTTTCTCTCACAACCCT 59.828 45.455 0.00 0.00 0.00 4.34
3857 4012 2.943033 CGTTTTTCTCTCACAACCCTGT 59.057 45.455 0.00 0.00 35.63 4.00
3858 4013 4.124238 CGTTTTTCTCTCACAACCCTGTA 58.876 43.478 0.00 0.00 33.22 2.74
3859 4014 4.755123 CGTTTTTCTCTCACAACCCTGTAT 59.245 41.667 0.00 0.00 33.22 2.29
3860 4015 5.334105 CGTTTTTCTCTCACAACCCTGTATG 60.334 44.000 0.00 0.00 33.22 2.39
3861 4016 4.974645 TTTCTCTCACAACCCTGTATGT 57.025 40.909 0.00 0.00 33.22 2.29
3863 4018 4.974645 TCTCTCACAACCCTGTATGTTT 57.025 40.909 0.00 0.00 33.22 2.83
3864 4019 6.428083 TTCTCTCACAACCCTGTATGTTTA 57.572 37.500 0.00 0.00 33.22 2.01
3866 4021 6.228258 TCTCTCACAACCCTGTATGTTTAAC 58.772 40.000 0.00 0.00 33.22 2.01
3868 4023 5.050126 TCACAACCCTGTATGTTTAACCA 57.950 39.130 0.00 0.00 33.22 3.67
3873 4029 5.313280 ACCCTGTATGTTTAACCAGTTGA 57.687 39.130 0.00 0.00 0.00 3.18
3876 4032 6.208599 ACCCTGTATGTTTAACCAGTTGATTG 59.791 38.462 0.00 0.00 0.00 2.67
3922 4079 3.498397 CACGAAGCAGGTTTCAAGTGTAT 59.502 43.478 0.00 0.00 0.00 2.29
3980 4137 1.777941 TTTTAAGGGTTTGCACCGGT 58.222 45.000 0.00 0.00 45.39 5.28
3984 4141 1.541379 AAGGGTTTGCACCGGTATTC 58.459 50.000 6.87 0.00 45.39 1.75
3986 4143 1.074889 AGGGTTTGCACCGGTATTCTT 59.925 47.619 6.87 0.00 45.39 2.52
3987 4144 1.890489 GGGTTTGCACCGGTATTCTTT 59.110 47.619 6.87 0.00 45.39 2.52
3988 4145 2.297880 GGGTTTGCACCGGTATTCTTTT 59.702 45.455 6.87 0.00 45.39 2.27
3989 4146 3.243941 GGGTTTGCACCGGTATTCTTTTT 60.244 43.478 6.87 0.00 45.39 1.94
4028 4185 8.076178 GTGTGACAAAGAGCAACTTGTAATAAT 58.924 33.333 0.00 0.00 38.98 1.28
4078 4235 5.055812 ACACAATGGCATGTTTTGGTTTAG 58.944 37.500 0.00 0.00 0.00 1.85
4083 4240 4.125703 TGGCATGTTTTGGTTTAGCAAAG 58.874 39.130 7.12 0.00 0.00 2.77
4118 4275 2.109425 AAGGTCCATCGTAAACAGGC 57.891 50.000 0.00 0.00 0.00 4.85
4140 4297 3.149196 GGTGGCGGATATGATGAATTGT 58.851 45.455 0.00 0.00 0.00 2.71
4145 4302 3.370978 GCGGATATGATGAATTGTACCCG 59.629 47.826 0.00 0.00 36.63 5.28
4161 4319 6.189677 TGTACCCGAATTGATTTTGATGAC 57.810 37.500 0.00 0.00 0.00 3.06
4198 4356 1.425066 TGAGAGGACCAGTGGCAAAAT 59.575 47.619 9.78 0.00 0.00 1.82
4201 4359 4.079253 GAGAGGACCAGTGGCAAAATAAA 58.921 43.478 9.78 0.00 0.00 1.40
4203 4361 4.898861 AGAGGACCAGTGGCAAAATAAAAA 59.101 37.500 9.78 0.00 0.00 1.94
4205 4363 6.043127 AGAGGACCAGTGGCAAAATAAAAATT 59.957 34.615 9.78 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 7.654520 TGTTGTACTAACGAGTTTAATGAGCTT 59.345 33.333 0.00 0.00 37.10 3.74
71 72 1.479757 GGGGGAGGTGCTACAAAAACA 60.480 52.381 0.00 0.00 0.00 2.83
72 73 1.254026 GGGGGAGGTGCTACAAAAAC 58.746 55.000 0.00 0.00 0.00 2.43
145 146 3.636764 GTGGTTTTTGTGGAGGAGAATGT 59.363 43.478 0.00 0.00 0.00 2.71
150 151 3.490348 AGATGTGGTTTTTGTGGAGGAG 58.510 45.455 0.00 0.00 0.00 3.69
157 158 5.189928 TGTGAGTGTAGATGTGGTTTTTGT 58.810 37.500 0.00 0.00 0.00 2.83
158 159 5.749596 TGTGAGTGTAGATGTGGTTTTTG 57.250 39.130 0.00 0.00 0.00 2.44
191 192 3.754188 AATAGACTACGACGTGTCACC 57.246 47.619 23.15 6.50 35.81 4.02
376 408 6.018016 GGAAACAAGTAACTTAACCGCTGTAA 60.018 38.462 0.00 0.00 0.00 2.41
416 448 5.878332 TGACTTGCACAAAATCGATACAT 57.122 34.783 0.00 0.00 0.00 2.29
661 695 4.506654 CGTCAGATCCCTTTAACCGTTATG 59.493 45.833 0.00 0.00 0.00 1.90
748 783 4.471904 TCAGGTAGGTGTAGCATTTCTG 57.528 45.455 0.00 0.00 0.00 3.02
765 800 4.133078 AGCTGTCTGTTTTCTTCTTCAGG 58.867 43.478 0.00 0.00 0.00 3.86
774 809 3.627577 TGAACCTGAAGCTGTCTGTTTTC 59.372 43.478 0.00 0.00 0.00 2.29
775 810 3.620488 TGAACCTGAAGCTGTCTGTTTT 58.380 40.909 0.00 0.00 0.00 2.43
776 811 3.209410 CTGAACCTGAAGCTGTCTGTTT 58.791 45.455 0.00 0.00 0.00 2.83
777 812 2.486191 CCTGAACCTGAAGCTGTCTGTT 60.486 50.000 0.00 0.00 0.00 3.16
778 813 1.071385 CCTGAACCTGAAGCTGTCTGT 59.929 52.381 0.00 0.00 0.00 3.41
779 814 1.071385 ACCTGAACCTGAAGCTGTCTG 59.929 52.381 0.00 0.00 0.00 3.51
780 815 1.428869 ACCTGAACCTGAAGCTGTCT 58.571 50.000 0.00 0.00 0.00 3.41
813 848 2.551071 GCGGGAAGGAGGAGGATTATTG 60.551 54.545 0.00 0.00 0.00 1.90
1644 1679 0.968901 ACTCGTCCCGGTTGAGCATA 60.969 55.000 13.08 0.00 32.98 3.14
1710 1745 0.035458 CCTTGAACACCTCGCCTTCT 59.965 55.000 0.00 0.00 0.00 2.85
1954 1989 5.514484 GGTTGATATGGAGCATCTTCCTGAT 60.514 44.000 0.00 0.00 38.12 2.90
2011 2046 1.826385 ACATGCAGAAGTGGCTTACC 58.174 50.000 0.00 0.00 0.00 2.85
2086 2129 2.632377 TCAGGGCATCGATTGTCTTTC 58.368 47.619 0.00 0.00 0.00 2.62
2268 2313 7.603024 AGATTAGTTAGTTACCTGAACAAGTGC 59.397 37.037 0.00 0.00 40.86 4.40
2309 2354 4.320494 GGCAATGACCTACACAAAGTTGAG 60.320 45.833 0.00 0.00 0.00 3.02
2501 2587 5.122239 TCGTTGATTGGTTGTCATCTGAATC 59.878 40.000 0.00 0.00 0.00 2.52
2568 2659 1.012841 GCCTGGAAATCGAAGCAGAG 58.987 55.000 0.00 0.00 0.00 3.35
2832 2949 9.042008 GTTTCTTTTCTTTTTCCAGGAAATACC 57.958 33.333 15.75 0.00 39.35 2.73
3086 3206 4.170062 CTGCATGCGCCGTCAAGG 62.170 66.667 14.09 0.00 44.97 3.61
3094 3214 3.285215 CTCCCATCCTGCATGCGC 61.285 66.667 14.09 0.00 39.24 6.09
3097 3217 2.027377 GTCTATCCTCCCATCCTGCATG 60.027 54.545 0.00 0.00 0.00 4.06
3321 3446 3.089284 CCAACCCTACAGGAATTGAACC 58.911 50.000 11.68 0.00 39.89 3.62
3481 3617 4.590647 TCCATTTGAATTTGCCACCACTTA 59.409 37.500 0.00 0.00 0.00 2.24
3612 3759 1.999048 AAATTGGATGTGTGCATGCG 58.001 45.000 14.09 0.00 44.96 4.73
3668 3818 8.318167 GTCTTAAACACATTGCACAACTTTTAC 58.682 33.333 0.00 0.00 0.00 2.01
3674 3824 4.204168 CACGTCTTAAACACATTGCACAAC 59.796 41.667 0.00 0.00 0.00 3.32
3677 3827 3.723764 CACACGTCTTAAACACATTGCAC 59.276 43.478 0.00 0.00 0.00 4.57
3705 3855 2.577700 TGGTGGAAACGCATTGTAGTT 58.422 42.857 0.00 0.00 44.70 2.24
3714 3864 1.135402 GGATCACAATGGTGGAAACGC 60.135 52.381 0.00 0.00 45.32 4.84
3715 3865 2.420022 GAGGATCACAATGGTGGAAACG 59.580 50.000 0.00 0.00 45.32 3.60
3747 3897 3.993920 ACATTTGGATGTGGCTTTGAAC 58.006 40.909 0.00 0.00 44.64 3.18
3756 3906 2.504868 CAACGCGTACATTTGGATGTG 58.495 47.619 14.46 0.00 45.80 3.21
3758 3913 1.135831 TGCAACGCGTACATTTGGATG 60.136 47.619 14.46 4.53 39.25 3.51
3790 3945 4.764679 AATCACAATAAGTTGCTTCGCA 57.235 36.364 0.00 0.00 38.96 5.10
3791 3946 7.561237 TTTTAATCACAATAAGTTGCTTCGC 57.439 32.000 0.00 0.00 38.96 4.70
3831 3986 4.037565 GGGTTGTGAGAGAAAAACGGATTT 59.962 41.667 0.00 0.00 0.00 2.17
3852 4007 6.432783 TCAATCAACTGGTTAAACATACAGGG 59.567 38.462 0.00 0.00 35.34 4.45
3855 4010 8.402798 ACATCAATCAACTGGTTAAACATACA 57.597 30.769 0.00 0.00 0.00 2.29
3857 4012 9.689976 CAAACATCAATCAACTGGTTAAACATA 57.310 29.630 0.00 0.00 0.00 2.29
3858 4013 8.203485 ACAAACATCAATCAACTGGTTAAACAT 58.797 29.630 0.00 0.00 0.00 2.71
3859 4014 7.551585 ACAAACATCAATCAACTGGTTAAACA 58.448 30.769 0.00 0.00 0.00 2.83
3860 4015 8.419076 AACAAACATCAATCAACTGGTTAAAC 57.581 30.769 0.00 0.00 0.00 2.01
3968 4125 3.653539 AAAAGAATACCGGTGCAAACC 57.346 42.857 19.93 0.00 0.00 3.27
3989 4146 8.395633 GCTCTTTGTCACACTAGTTTTCTTAAA 58.604 33.333 0.00 0.00 0.00 1.52
3990 4147 7.551262 TGCTCTTTGTCACACTAGTTTTCTTAA 59.449 33.333 0.00 0.00 0.00 1.85
3991 4148 7.045416 TGCTCTTTGTCACACTAGTTTTCTTA 58.955 34.615 0.00 0.00 0.00 2.10
4083 4240 9.790389 CGATGGACCTTACTTAATCATATAGTC 57.210 37.037 0.00 0.00 0.00 2.59
4094 4251 5.625197 GCCTGTTTACGATGGACCTTACTTA 60.625 44.000 0.00 0.00 0.00 2.24
4104 4261 1.366111 CCACCGCCTGTTTACGATGG 61.366 60.000 0.00 0.00 0.00 3.51
4118 4275 2.099141 ATTCATCATATCCGCCACCG 57.901 50.000 0.00 0.00 0.00 4.94
4140 4297 8.620416 CATAAGTCATCAAAATCAATTCGGGTA 58.380 33.333 0.00 0.00 0.00 3.69
4161 4319 8.669243 GGTCCTCTCAAATAGTTTTGTCATAAG 58.331 37.037 0.00 0.00 42.37 1.73
4171 4329 3.307762 GCCACTGGTCCTCTCAAATAGTT 60.308 47.826 0.00 0.00 0.00 2.24
4172 4330 2.237392 GCCACTGGTCCTCTCAAATAGT 59.763 50.000 0.00 0.00 0.00 2.12


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

AutoCloner maintained by Alex Coulton.