Multiple sequence alignment - TraesCS5B01G514000

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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 TraesCS5B01G514000 chr5B 100.000 5660 0 0 1 5660 679129989 679135648 0.000000e+00 10453
1 TraesCS5B01G514000 chr5B 85.971 278 20 11 5392 5660 679220891 679221158 4.320000e-71 279
2 TraesCS5B01G514000 chr5B 90.909 110 10 0 129 238 679113828 679113937 1.270000e-31 148
3 TraesCS5B01G514000 chr5B 89.691 97 7 2 5370 5466 679134762 679134855 2.770000e-23 121
4 TraesCS5B01G514000 chr5B 89.691 97 7 2 4774 4867 679135358 679135454 2.770000e-23 121
5 TraesCS5B01G514000 chr5B 90.000 80 5 2 4791 4867 679220886 679220965 3.610000e-17 100
6 TraesCS5B01G514000 chr4A 94.297 3735 165 24 1709 5426 631645095 631641392 0.000000e+00 5674
7 TraesCS5B01G514000 chr4A 90.244 1148 52 11 608 1719 631646169 631645046 0.000000e+00 1445
8 TraesCS5B01G514000 chr4A 86.667 255 16 6 5424 5660 631639618 631639364 3.360000e-67 267
9 TraesCS5B01G514000 chr4A 86.070 201 26 2 5365 5564 631642034 631641835 1.240000e-51 215
10 TraesCS5B01G514000 chr5D 94.694 3298 134 7 1706 4981 538163494 538166772 0.000000e+00 5083
11 TraesCS5B01G514000 chr5D 90.185 1355 73 20 401 1716 538162210 538163543 0.000000e+00 1711
12 TraesCS5B01G514000 chr5D 88.809 697 46 12 4983 5660 538166857 538167540 0.000000e+00 826
13 TraesCS5B01G514000 chr5D 87.755 392 37 3 3 390 538161687 538162071 1.120000e-121 448
14 TraesCS5B01G514000 chr5D 85.075 201 28 2 5365 5564 538166548 538166747 2.670000e-48 204
15 TraesCS5B01G514000 chr5D 80.303 264 32 9 4774 5022 538167232 538167490 1.250000e-41 182
16 TraesCS5B01G514000 chr5A 89.437 426 44 1 2368 2792 517854506 517854081 2.320000e-148 536


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 TraesCS5B01G514000 chr5B 679129989 679135648 5659 False 3565.00 10453 93.127333 1 5660 3 chr5B.!!$F2 5659
1 TraesCS5B01G514000 chr4A 631639364 631646169 6805 True 1900.25 5674 89.319500 608 5660 4 chr4A.!!$R1 5052
2 TraesCS5B01G514000 chr5D 538161687 538167540 5853 False 1409.00 5083 87.803500 3 5660 6 chr5D.!!$F1 5657

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
415 548 0.308376 TTTTACGCGTGGCAACCTTC 59.692 50.0 24.59 0.0 0.00 3.46 F
1641 1823 0.322277 CTGGTGCTGAGGCTGTCAAT 60.322 55.0 0.00 0.0 39.59 2.57 F
2441 2623 0.106894 GATCCCATCCAACCGTCTCC 59.893 60.0 0.00 0.0 0.00 3.71 F
3357 3539 0.536006 ATGGCCTTATCTGGAAGCGC 60.536 55.0 3.32 0.0 0.00 5.92 F
4092 4274 0.523966 CGGAGTCCTCGATATCAGCC 59.476 60.0 7.77 0.0 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1658 1840 0.038166 ACCAGCGTCACCAATGGAAT 59.962 50.000 6.16 0.0 36.62 3.01 R
2784 2966 0.478507 CACTCTTTCCCACCCCTGTT 59.521 55.000 0.00 0.0 0.00 3.16 R
3995 4177 1.412079 TGCTTTGGCAACTTCATGGT 58.588 45.000 0.00 0.0 46.36 3.55 R
4480 4662 0.109723 TTTGAAGTCCTTCCCACGGG 59.890 55.000 4.67 0.0 38.77 5.28 R
5292 5580 1.229658 AGAGGGGTTGGAGGAGTGG 60.230 63.158 0.00 0.0 0.00 4.00 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 43 4.927049 ACACCTTCTCAATCACATGGAAT 58.073 39.130 0.00 0.00 0.00 3.01
107 111 3.006247 GCCAAGAAAGCTAGAGGTTCAG 58.994 50.000 0.00 0.00 34.26 3.02
109 113 4.249661 CCAAGAAAGCTAGAGGTTCAGAC 58.750 47.826 0.00 0.00 34.26 3.51
110 114 3.859411 AGAAAGCTAGAGGTTCAGACG 57.141 47.619 0.00 0.00 34.26 4.18
111 115 2.494073 AGAAAGCTAGAGGTTCAGACGG 59.506 50.000 0.00 0.00 34.26 4.79
115 119 1.956159 GCTAGAGGTTCAGACGGAGGT 60.956 57.143 0.00 0.00 0.00 3.85
122 126 2.527100 GTTCAGACGGAGGTATTGACG 58.473 52.381 0.00 0.00 0.00 4.35
129 133 1.749635 CGGAGGTATTGACGAGGGAGA 60.750 57.143 0.00 0.00 0.00 3.71
158 162 8.465999 TCCATTTAAAATATCAAGATTGTGCGT 58.534 29.630 0.00 0.00 0.00 5.24
227 231 8.697507 ATCACCTCATATTAAATCAAAGACCC 57.302 34.615 0.00 0.00 0.00 4.46
241 245 7.865706 ATCAAAGACCCAGTAAATGATGTAC 57.134 36.000 0.00 0.00 0.00 2.90
243 247 7.227873 TCAAAGACCCAGTAAATGATGTACAA 58.772 34.615 0.00 0.00 0.00 2.41
245 249 8.522830 CAAAGACCCAGTAAATGATGTACAATT 58.477 33.333 0.00 0.00 0.00 2.32
248 252 8.739972 AGACCCAGTAAATGATGTACAATTTTC 58.260 33.333 10.07 6.28 0.00 2.29
272 276 9.782900 TTCAAATCTTAAGGGGAAGGATAAAAT 57.217 29.630 1.85 0.00 0.00 1.82
296 300 3.769739 ACCAGTTTGAGACACATGCTA 57.230 42.857 0.00 0.00 0.00 3.49
297 301 4.292186 ACCAGTTTGAGACACATGCTAT 57.708 40.909 0.00 0.00 0.00 2.97
299 303 5.994250 ACCAGTTTGAGACACATGCTATAT 58.006 37.500 0.00 0.00 0.00 0.86
331 336 5.582550 CAAAAAGGGAGTTCAAAGACAGTC 58.417 41.667 0.00 0.00 0.00 3.51
332 337 4.503714 AAAGGGAGTTCAAAGACAGTCA 57.496 40.909 2.66 0.00 0.00 3.41
390 395 9.223099 CATCATGTGATGTAATCTGCCTTATTA 57.777 33.333 13.53 0.00 45.81 0.98
391 396 8.607441 TCATGTGATGTAATCTGCCTTATTAC 57.393 34.615 0.00 0.00 45.81 1.89
392 397 7.384932 TCATGTGATGTAATCTGCCTTATTACG 59.615 37.037 0.00 0.00 45.81 3.18
395 400 8.364894 TGTGATGTAATCTGCCTTATTACGTAT 58.635 33.333 0.00 0.00 45.81 3.06
396 401 9.204570 GTGATGTAATCTGCCTTATTACGTATT 57.795 33.333 0.00 0.00 45.81 1.89
397 402 9.772973 TGATGTAATCTGCCTTATTACGTATTT 57.227 29.630 0.00 0.00 45.81 1.40
415 548 0.308376 TTTTACGCGTGGCAACCTTC 59.692 50.000 24.59 0.00 0.00 3.46
450 585 8.715191 TGTCAAACTTCTTTGCATGTATTTTT 57.285 26.923 0.00 0.00 37.31 1.94
458 593 3.763097 TGCATGTATTTTTCTGCCTCG 57.237 42.857 0.00 0.00 33.70 4.63
459 594 3.081061 TGCATGTATTTTTCTGCCTCGT 58.919 40.909 0.00 0.00 33.70 4.18
463 598 6.127758 TGCATGTATTTTTCTGCCTCGTATTT 60.128 34.615 0.00 0.00 33.70 1.40
466 601 9.781834 CATGTATTTTTCTGCCTCGTATTTTTA 57.218 29.630 0.00 0.00 0.00 1.52
554 689 3.569194 TGTTGTACATGTCCACCACTT 57.431 42.857 0.00 0.00 0.00 3.16
556 691 3.118223 TGTTGTACATGTCCACCACTTCA 60.118 43.478 0.00 0.00 0.00 3.02
557 692 3.120321 TGTACATGTCCACCACTTCAC 57.880 47.619 0.00 0.00 0.00 3.18
567 705 2.374184 CACCACTTCACCACCAAGAAA 58.626 47.619 0.00 0.00 0.00 2.52
570 708 4.766891 CACCACTTCACCACCAAGAAATAT 59.233 41.667 0.00 0.00 0.00 1.28
599 737 2.232941 CTCCAATGCAAGGCAACAAGAT 59.767 45.455 3.76 0.00 43.62 2.40
601 739 2.028839 CCAATGCAAGGCAACAAGATGA 60.029 45.455 0.00 0.00 43.62 2.92
603 741 2.275134 TGCAAGGCAACAAGATGAGA 57.725 45.000 0.00 0.00 34.76 3.27
649 788 4.707448 ACTAAAATCACCACACACCACAAA 59.293 37.500 0.00 0.00 0.00 2.83
694 836 1.455849 CAACACAAGGAGGGAGCCA 59.544 57.895 0.00 0.00 0.00 4.75
712 857 6.750501 GGGAGCCAAAGAAACGATAATAAAAC 59.249 38.462 0.00 0.00 0.00 2.43
728 873 6.755542 AATAAAACCCCCAAATTTCACTCA 57.244 33.333 0.00 0.00 0.00 3.41
744 889 6.773976 TTCACTCAAACAAGAGTCCAATTT 57.226 33.333 0.00 0.00 45.35 1.82
748 893 8.912988 TCACTCAAACAAGAGTCCAATTTTTAT 58.087 29.630 0.00 0.00 45.35 1.40
782 927 1.062962 CCAAACCCTAGCCCATCCAAT 60.063 52.381 0.00 0.00 0.00 3.16
783 928 2.310538 CAAACCCTAGCCCATCCAATC 58.689 52.381 0.00 0.00 0.00 2.67
784 929 0.853530 AACCCTAGCCCATCCAATCC 59.146 55.000 0.00 0.00 0.00 3.01
785 930 0.328450 ACCCTAGCCCATCCAATCCA 60.328 55.000 0.00 0.00 0.00 3.41
786 931 0.852842 CCCTAGCCCATCCAATCCAA 59.147 55.000 0.00 0.00 0.00 3.53
787 932 1.479389 CCCTAGCCCATCCAATCCAAC 60.479 57.143 0.00 0.00 0.00 3.77
788 933 1.479389 CCTAGCCCATCCAATCCAACC 60.479 57.143 0.00 0.00 0.00 3.77
790 935 1.001503 GCCCATCCAATCCAACCCA 59.998 57.895 0.00 0.00 0.00 4.51
791 936 0.398948 GCCCATCCAATCCAACCCAT 60.399 55.000 0.00 0.00 0.00 4.00
792 937 1.708341 CCCATCCAATCCAACCCATC 58.292 55.000 0.00 0.00 0.00 3.51
793 938 1.708341 CCATCCAATCCAACCCATCC 58.292 55.000 0.00 0.00 0.00 3.51
794 939 1.063038 CCATCCAATCCAACCCATCCA 60.063 52.381 0.00 0.00 0.00 3.41
891 1036 2.722201 GCCACCACTACTCCCGGAG 61.722 68.421 13.31 13.31 35.52 4.63
906 1051 3.036959 GAGGGAGGGAGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
907 1052 3.039526 AGGGAGGGAGGGAGGGAG 61.040 72.222 0.00 0.00 0.00 4.30
908 1053 3.036959 GGGAGGGAGGGAGGGAGA 61.037 72.222 0.00 0.00 0.00 3.71
909 1054 2.284151 GGAGGGAGGGAGGGAGAC 59.716 72.222 0.00 0.00 0.00 3.36
1068 1223 2.493501 GAAGACGAGGGGTACGCC 59.506 66.667 20.94 20.94 44.92 5.68
1641 1823 0.322277 CTGGTGCTGAGGCTGTCAAT 60.322 55.000 0.00 0.00 39.59 2.57
1658 1840 1.782201 AATGGTGTGGAGCCTGAGCA 61.782 55.000 0.00 0.00 43.56 4.26
1706 1888 2.022195 CATTGTGGATGCTTCAGAGGG 58.978 52.381 1.64 0.00 0.00 4.30
1707 1889 0.329261 TTGTGGATGCTTCAGAGGGG 59.671 55.000 1.64 0.00 0.00 4.79
1708 1890 1.225704 GTGGATGCTTCAGAGGGGG 59.774 63.158 1.64 0.00 0.00 5.40
1709 1891 1.082766 TGGATGCTTCAGAGGGGGA 59.917 57.895 1.64 0.00 0.00 4.81
1710 1892 1.274703 TGGATGCTTCAGAGGGGGAC 61.275 60.000 1.64 0.00 0.00 4.46
1711 1893 1.144936 GATGCTTCAGAGGGGGACG 59.855 63.158 0.00 0.00 0.00 4.79
1712 1894 2.932130 GATGCTTCAGAGGGGGACGC 62.932 65.000 0.00 0.00 43.76 5.19
1723 1905 4.408821 GGGACGCTGGTGGCATGA 62.409 66.667 0.00 0.00 41.91 3.07
1807 1989 2.698855 GCCTCCTGCACTGAATTCTA 57.301 50.000 7.05 0.00 40.77 2.10
1836 2018 4.630644 AGAAGAAGATGCTGGTCTTGAA 57.369 40.909 4.67 0.00 38.51 2.69
1837 2019 4.577875 AGAAGAAGATGCTGGTCTTGAAG 58.422 43.478 4.67 0.00 38.51 3.02
1843 2025 2.550830 TGCTGGTCTTGAAGTTCTCC 57.449 50.000 4.17 2.79 0.00 3.71
1875 2057 3.758023 CTGATGCAAAAGATACCACACCA 59.242 43.478 0.00 0.00 0.00 4.17
1898 2080 0.609151 CATGGGGTTGCTGAATTGCA 59.391 50.000 0.00 0.00 41.65 4.08
1908 2090 2.094442 TGCTGAATTGCATCATGTGGTG 60.094 45.455 0.00 0.00 38.12 4.17
1928 2110 4.021894 GGTGAGTTCTACAGAAGCAGAAGA 60.022 45.833 0.00 0.00 34.27 2.87
1930 2112 5.576384 GTGAGTTCTACAGAAGCAGAAGATG 59.424 44.000 0.00 0.00 34.27 2.90
1946 2128 0.445436 GATGCTGGTGCTGAAGTTCG 59.555 55.000 0.00 0.00 40.48 3.95
1956 2138 1.727213 GCTGAAGTTCGCAATGCTGAC 60.727 52.381 2.94 1.54 0.00 3.51
1964 2146 1.066645 TCGCAATGCTGACTCTGATGT 60.067 47.619 2.94 0.00 0.00 3.06
1982 2164 1.338674 TGTGAAAGATACCACGCCCAG 60.339 52.381 0.00 0.00 36.15 4.45
2009 2191 3.480470 AGGTTGTCACACATTCTGAAGG 58.520 45.455 0.00 0.00 0.00 3.46
2016 2198 1.143684 ACACATTCTGAAGGTGCCAGT 59.856 47.619 28.78 11.65 46.37 4.00
2026 2208 1.656587 AGGTGCCAGTCCTGAACATA 58.343 50.000 0.00 0.00 33.62 2.29
2032 2214 1.942657 CCAGTCCTGAACATATTGCCG 59.057 52.381 0.00 0.00 0.00 5.69
2051 2233 3.658398 CAAGAGATGCCCCAGTTGT 57.342 52.632 0.00 0.00 0.00 3.32
2105 2287 0.110823 CAGTTTACTGTTGACGCGGC 60.111 55.000 12.47 8.67 39.09 6.53
2118 2300 1.153647 CGCGGCTCATCACAAGGTA 60.154 57.895 0.00 0.00 0.00 3.08
2136 2318 3.846588 AGGTAGATGGTGAAACTGATGGT 59.153 43.478 0.00 0.00 36.74 3.55
2154 2336 3.942829 TGGTGATCATGAACCTTCTGAC 58.057 45.455 15.90 0.20 37.36 3.51
2198 2380 1.605202 CGGGACAAACAATGCTTTGGG 60.605 52.381 15.92 7.98 37.15 4.12
2325 2507 0.321996 AGTTGAGCGGAAAGGAGACC 59.678 55.000 0.00 0.00 0.00 3.85
2439 2621 0.833287 CTGATCCCATCCAACCGTCT 59.167 55.000 0.00 0.00 0.00 4.18
2441 2623 0.106894 GATCCCATCCAACCGTCTCC 59.893 60.000 0.00 0.00 0.00 3.71
2449 2631 1.530013 CCAACCGTCTCCTACCGTGT 61.530 60.000 0.00 0.00 0.00 4.49
2650 2832 4.207955 AGTGTTATATCGGCTCAGTCTCA 58.792 43.478 0.00 0.00 0.00 3.27
2751 2933 3.906846 AGACAGAGGGAACAGATGACTTT 59.093 43.478 0.00 0.00 0.00 2.66
2781 2963 3.355378 CTGCAATGTATTGGTCCTTGGA 58.645 45.455 6.72 0.00 38.21 3.53
2784 2966 4.590647 TGCAATGTATTGGTCCTTGGAAAA 59.409 37.500 6.72 0.00 38.21 2.29
2820 3002 7.094377 GGAAAGAGTGCAACAATAAACTCCATA 60.094 37.037 0.00 0.00 41.43 2.74
2840 3022 5.124457 CCATATTTGGCGAGGATAAATCCAG 59.876 44.000 11.51 6.04 42.07 3.86
3357 3539 0.536006 ATGGCCTTATCTGGAAGCGC 60.536 55.000 3.32 0.00 0.00 5.92
3460 3642 2.100584 CTCTTTGATCTCCGTCTCCAGG 59.899 54.545 0.00 0.00 0.00 4.45
3577 3759 6.888088 AGATGTTGATCCTGATGAATTGTTGA 59.112 34.615 0.00 0.00 0.00 3.18
3747 3929 1.446907 AGGAACAGCGCAGAAGATTG 58.553 50.000 11.47 0.00 0.00 2.67
3760 3942 5.648572 GCAGAAGATTGAAGGAAATGAAGG 58.351 41.667 0.00 0.00 0.00 3.46
3784 3966 6.296087 GGAGAGTGAGGGCAATGATTATGATA 60.296 42.308 0.00 0.00 0.00 2.15
3788 3970 7.921304 AGTGAGGGCAATGATTATGATATACA 58.079 34.615 0.00 0.00 0.00 2.29
3876 4058 2.223044 GCCATCTTCGTTTGATTCCGAC 60.223 50.000 0.00 0.00 31.95 4.79
3995 4177 1.338674 CGGTGTGAGCCTCCAATACAA 60.339 52.381 0.00 0.00 0.00 2.41
4092 4274 0.523966 CGGAGTCCTCGATATCAGCC 59.476 60.000 7.77 0.00 0.00 4.85
4200 4382 3.891366 CCAAGTTCAGGAACACCAAGAAT 59.109 43.478 14.06 0.00 43.47 2.40
4327 4509 2.884997 AAACGCTGGTGCTGTGTCCA 62.885 55.000 0.00 0.00 36.97 4.02
4480 4662 2.492088 GCAAACTTGGATACCCAGTTCC 59.508 50.000 7.53 0.69 44.60 3.62
4587 4769 1.859703 GAGCATCTGACGATTGCTCTG 59.140 52.381 18.85 0.00 41.85 3.35
4615 4797 5.106948 GGTGTCTATTCGATGGCAATGTATG 60.107 44.000 0.00 0.00 0.00 2.39
4623 4805 3.128415 CGATGGCAATGTATGTGTGGAAA 59.872 43.478 0.00 0.00 0.00 3.13
4726 4918 3.202151 TGTCCCTCTTGTTTGAGTTTCCT 59.798 43.478 0.00 0.00 32.50 3.36
4754 4946 8.319143 TGTTCTATTAAACTACTGTTGAAGCC 57.681 34.615 0.00 0.00 36.39 4.35
4759 4951 3.305398 AACTACTGTTGAAGCCTCTCG 57.695 47.619 0.00 0.00 34.71 4.04
4762 4954 0.601311 ACTGTTGAAGCCTCTCGTGC 60.601 55.000 0.00 0.00 0.00 5.34
4768 4960 0.739112 GAAGCCTCTCGTGCTCCTTG 60.739 60.000 0.00 0.00 38.34 3.61
4771 4963 0.603975 GCCTCTCGTGCTCCTTGTTT 60.604 55.000 0.00 0.00 0.00 2.83
4880 5085 3.653344 TCATGCTGGCGATGTACTTATC 58.347 45.455 0.00 0.00 0.00 1.75
4888 5093 5.620206 TGGCGATGTACTTATCCATGAAAT 58.380 37.500 0.00 0.00 0.00 2.17
4889 5094 6.061441 TGGCGATGTACTTATCCATGAAATT 58.939 36.000 0.00 0.00 0.00 1.82
4924 5129 3.616219 TGTGCAACTGTCTACCTGTTTT 58.384 40.909 0.00 0.00 38.04 2.43
4925 5130 4.771903 TGTGCAACTGTCTACCTGTTTTA 58.228 39.130 0.00 0.00 38.04 1.52
4926 5131 5.373222 TGTGCAACTGTCTACCTGTTTTAT 58.627 37.500 0.00 0.00 38.04 1.40
4972 5177 2.644676 GTTCTTCCAGCCTTCCATACC 58.355 52.381 0.00 0.00 0.00 2.73
5012 5300 8.292448 CAGACAATAAATAGAAGTGTGCAAAGT 58.708 33.333 0.00 0.00 0.00 2.66
5022 5310 1.363807 GTGCAAAGTTGGCAGTCCC 59.636 57.895 4.79 0.00 42.85 4.46
5023 5311 1.076412 TGCAAAGTTGGCAGTCCCA 60.076 52.632 0.00 0.00 43.51 4.37
5077 5365 5.339008 TCACACTTTATGCTCGGAAGTAT 57.661 39.130 0.00 0.00 32.69 2.12
5090 5378 2.695666 CGGAAGTATGGAGTCCAGTCAT 59.304 50.000 18.69 5.94 36.75 3.06
5091 5379 3.243569 CGGAAGTATGGAGTCCAGTCATC 60.244 52.174 18.69 14.00 36.75 2.92
5098 5386 3.942829 TGGAGTCCAGTCATCATTTGTC 58.057 45.455 8.12 0.00 0.00 3.18
5147 5435 2.835156 AGAGAAGGTCAACCCTCTTAGC 59.165 50.000 1.91 0.00 45.47 3.09
5148 5436 2.835156 GAGAAGGTCAACCCTCTTAGCT 59.165 50.000 1.91 0.00 45.47 3.32
5149 5437 4.024670 GAGAAGGTCAACCCTCTTAGCTA 58.975 47.826 1.91 0.00 45.47 3.32
5150 5438 4.027437 AGAAGGTCAACCCTCTTAGCTAG 58.973 47.826 0.00 0.00 45.47 3.42
5151 5439 3.759815 AGGTCAACCCTCTTAGCTAGA 57.240 47.619 0.00 0.00 40.71 2.43
5152 5440 4.027437 AAGGTCAACCCTCTTAGCTAGAG 58.973 47.826 11.24 11.24 45.47 2.43
5202 5490 1.201855 GCGACTCTGAAATTGACTGCG 60.202 52.381 0.00 0.00 0.00 5.18
5215 5503 1.798223 TGACTGCGTTGACTATTGTGC 59.202 47.619 0.00 0.00 0.00 4.57
5269 5557 1.021968 GTTGTGGGTGCTTCGACTTT 58.978 50.000 0.00 0.00 0.00 2.66
5270 5558 1.021202 TTGTGGGTGCTTCGACTTTG 58.979 50.000 0.00 0.00 0.00 2.77
5272 5560 1.021968 GTGGGTGCTTCGACTTTGTT 58.978 50.000 0.00 0.00 0.00 2.83
5273 5561 1.021202 TGGGTGCTTCGACTTTGTTG 58.979 50.000 0.00 0.00 0.00 3.33
5274 5562 0.317854 GGGTGCTTCGACTTTGTTGC 60.318 55.000 0.00 0.00 0.00 4.17
5275 5563 0.380378 GGTGCTTCGACTTTGTTGCA 59.620 50.000 0.00 0.00 0.00 4.08
5276 5564 1.597937 GGTGCTTCGACTTTGTTGCAG 60.598 52.381 0.00 0.00 0.00 4.41
5277 5565 0.029300 TGCTTCGACTTTGTTGCAGC 59.971 50.000 0.00 0.00 36.88 5.25
5292 5580 4.450036 AGCCCCTTCCCCTACCCC 62.450 72.222 0.00 0.00 0.00 4.95
5349 5637 4.586618 CTCAACCAGGAGACAGCG 57.413 61.111 0.00 0.00 37.05 5.18
5374 5662 1.064240 TGGATCTGGCATTGCATGTCT 60.064 47.619 11.39 0.00 35.48 3.41
5377 5665 3.439476 GGATCTGGCATTGCATGTCTATC 59.561 47.826 11.39 4.43 35.48 2.08
5390 5678 6.585416 TGCATGTCTATCTGTGTTGACATAT 58.415 36.000 7.07 0.00 45.01 1.78
5442 7508 2.953466 TAACACCACCGAGTAGATGC 57.047 50.000 0.00 0.00 0.00 3.91
5451 7517 3.804325 CACCGAGTAGATGCCTATGTTTG 59.196 47.826 0.00 0.00 0.00 2.93
5457 7523 6.701841 CGAGTAGATGCCTATGTTTGTATTGT 59.298 38.462 0.00 0.00 0.00 2.71
5484 7550 8.916062 TCATGCTGTTGATAAATATTCATGGTT 58.084 29.630 0.00 0.00 32.20 3.67
5522 7588 1.415289 TGCCATTTCATTGTGCAACCA 59.585 42.857 0.00 0.00 34.36 3.67
5545 7611 9.331466 ACCATCTACCTGTTCAGATATCATATT 57.669 33.333 5.32 0.00 30.32 1.28
5550 7616 9.212641 CTACCTGTTCAGATATCATATTTGTGG 57.787 37.037 5.32 0.51 0.00 4.17
5576 7659 3.901222 TCTGTGGTTCATTGTCTACCAGA 59.099 43.478 0.00 0.00 42.28 3.86
5582 7666 6.016276 GTGGTTCATTGTCTACCAGAAACAAT 60.016 38.462 0.00 0.00 42.28 2.71
5595 7679 6.628185 ACCAGAAACAATACTAGAAGTACGG 58.372 40.000 0.00 0.00 32.84 4.02
5625 7709 4.953579 GGCAATCCAGGAACACCTTTTATA 59.046 41.667 0.00 0.00 30.75 0.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 79 8.978874 TCTAGCTTTCTTGGCAAATATTATCA 57.021 30.769 0.00 0.00 0.00 2.15
76 80 8.510505 CCTCTAGCTTTCTTGGCAAATATTATC 58.489 37.037 0.00 0.00 0.00 1.75
95 99 0.741915 CCTCCGTCTGAACCTCTAGC 59.258 60.000 0.00 0.00 0.00 3.42
107 111 0.384669 CCCTCGTCAATACCTCCGTC 59.615 60.000 0.00 0.00 0.00 4.79
109 113 0.669077 CTCCCTCGTCAATACCTCCG 59.331 60.000 0.00 0.00 0.00 4.63
110 114 1.957877 CTCTCCCTCGTCAATACCTCC 59.042 57.143 0.00 0.00 0.00 4.30
111 115 2.657143 ACTCTCCCTCGTCAATACCTC 58.343 52.381 0.00 0.00 0.00 3.85
115 119 3.095912 TGGAACTCTCCCTCGTCAATA 57.904 47.619 0.00 0.00 41.64 1.90
122 126 8.980481 TGATATTTTAAATGGAACTCTCCCTC 57.020 34.615 0.00 0.00 41.64 4.30
181 185 8.141268 GGTGATTTTTCCTAGTCAATGTGAAAA 58.859 33.333 0.00 0.00 34.22 2.29
201 205 9.136323 GGGTCTTTGATTTAATATGAGGTGATT 57.864 33.333 0.00 0.00 0.00 2.57
202 206 8.281531 TGGGTCTTTGATTTAATATGAGGTGAT 58.718 33.333 0.00 0.00 0.00 3.06
225 229 9.703892 TTTGAAAATTGTACATCATTTACTGGG 57.296 29.630 6.05 0.00 0.00 4.45
238 242 9.639601 CTTCCCCTTAAGATTTGAAAATTGTAC 57.360 33.333 3.36 0.00 0.00 2.90
241 245 7.906327 TCCTTCCCCTTAAGATTTGAAAATTG 58.094 34.615 3.36 0.00 0.00 2.32
243 247 9.782900 TTATCCTTCCCCTTAAGATTTGAAAAT 57.217 29.630 3.36 0.00 0.00 1.82
245 249 9.608718 TTTTATCCTTCCCCTTAAGATTTGAAA 57.391 29.630 3.36 0.00 0.00 2.69
253 257 9.262240 TGGTTTTATTTTATCCTTCCCCTTAAG 57.738 33.333 0.00 0.00 0.00 1.85
260 264 9.639601 CTCAAACTGGTTTTATTTTATCCTTCC 57.360 33.333 0.00 0.00 0.00 3.46
272 276 4.887071 AGCATGTGTCTCAAACTGGTTTTA 59.113 37.500 0.00 0.00 0.00 1.52
276 280 2.645838 AGCATGTGTCTCAAACTGGT 57.354 45.000 0.00 0.00 0.00 4.00
277 281 8.437360 TTTATATAGCATGTGTCTCAAACTGG 57.563 34.615 0.00 0.00 0.00 4.00
324 329 5.012458 TCAAGTCCATTCAATCTGACTGTCT 59.988 40.000 9.51 0.00 38.07 3.41
331 336 9.063615 TCATCATAATCAAGTCCATTCAATCTG 57.936 33.333 0.00 0.00 0.00 2.90
332 337 9.809395 ATCATCATAATCAAGTCCATTCAATCT 57.191 29.630 0.00 0.00 0.00 2.40
390 395 1.146637 TGCCACGCGTAAAAATACGT 58.853 45.000 13.44 0.00 44.53 3.57
391 396 1.899971 GTTGCCACGCGTAAAAATACG 59.100 47.619 13.44 4.14 45.39 3.06
392 397 2.095617 AGGTTGCCACGCGTAAAAATAC 60.096 45.455 13.44 5.64 0.00 1.89
395 400 0.739561 AAGGTTGCCACGCGTAAAAA 59.260 45.000 13.44 3.12 0.00 1.94
396 401 0.308376 GAAGGTTGCCACGCGTAAAA 59.692 50.000 13.44 3.54 0.00 1.52
397 402 1.508808 GGAAGGTTGCCACGCGTAAA 61.509 55.000 13.44 3.97 0.00 2.01
398 403 1.962306 GGAAGGTTGCCACGCGTAA 60.962 57.895 13.44 0.00 0.00 3.18
399 404 2.357760 GGAAGGTTGCCACGCGTA 60.358 61.111 13.44 0.00 0.00 4.42
402 535 0.179097 TTTTTGGAAGGTTGCCACGC 60.179 50.000 0.00 0.00 34.56 5.34
423 558 8.891671 AAATACATGCAAAGAAGTTTGACATT 57.108 26.923 0.00 0.00 45.22 2.71
428 563 7.795272 GCAGAAAAATACATGCAAAGAAGTTTG 59.205 33.333 0.00 0.00 45.18 2.93
435 570 4.560035 CGAGGCAGAAAAATACATGCAAAG 59.440 41.667 0.00 0.00 40.46 2.77
439 574 3.764885 ACGAGGCAGAAAAATACATGC 57.235 42.857 0.00 0.00 37.95 4.06
440 575 8.687824 AAAAATACGAGGCAGAAAAATACATG 57.312 30.769 0.00 0.00 0.00 3.21
472 607 9.442047 TTGTTGTTTATTTTGTGTGGAAGAAAT 57.558 25.926 0.00 0.00 0.00 2.17
536 671 3.472652 GTGAAGTGGTGGACATGTACAA 58.527 45.455 13.68 0.00 0.00 2.41
543 678 1.275421 TGGTGGTGAAGTGGTGGACA 61.275 55.000 0.00 0.00 0.00 4.02
554 689 7.013834 AGGGTTTTAATATTTCTTGGTGGTGA 58.986 34.615 0.00 0.00 0.00 4.02
556 691 6.439375 GGAGGGTTTTAATATTTCTTGGTGGT 59.561 38.462 0.00 0.00 0.00 4.16
557 692 6.439058 TGGAGGGTTTTAATATTTCTTGGTGG 59.561 38.462 0.00 0.00 0.00 4.61
567 705 5.163311 GCCTTGCATTGGAGGGTTTTAATAT 60.163 40.000 8.12 0.00 33.52 1.28
570 708 2.301583 GCCTTGCATTGGAGGGTTTTAA 59.698 45.455 8.12 0.00 33.52 1.52
694 836 7.541916 TTGGGGGTTTTATTATCGTTTCTTT 57.458 32.000 0.00 0.00 0.00 2.52
712 857 4.100808 TCTTGTTTGAGTGAAATTTGGGGG 59.899 41.667 0.00 0.00 0.00 5.40
728 873 7.508687 AGGCAATAAAAATTGGACTCTTGTTT 58.491 30.769 0.72 0.00 32.43 2.83
744 889 5.105917 GGTTTGGATCTTTCGAGGCAATAAA 60.106 40.000 0.00 0.00 0.00 1.40
748 893 2.159382 GGTTTGGATCTTTCGAGGCAA 58.841 47.619 0.00 0.00 0.00 4.52
782 927 2.543797 GGGTGGTGGATGGGTTGGA 61.544 63.158 0.00 0.00 0.00 3.53
783 928 2.037208 GGGTGGTGGATGGGTTGG 59.963 66.667 0.00 0.00 0.00 3.77
784 929 1.304381 CAGGGTGGTGGATGGGTTG 60.304 63.158 0.00 0.00 0.00 3.77
785 930 3.180282 CAGGGTGGTGGATGGGTT 58.820 61.111 0.00 0.00 0.00 4.11
786 931 3.661648 GCAGGGTGGTGGATGGGT 61.662 66.667 0.00 0.00 0.00 4.51
787 932 4.802051 CGCAGGGTGGTGGATGGG 62.802 72.222 0.00 0.00 0.00 4.00
891 1036 3.036959 TCTCCCTCCCTCCCTCCC 61.037 72.222 0.00 0.00 0.00 4.30
896 1041 3.742248 CTCGGGTCTCCCTCCCTCC 62.742 73.684 3.25 0.00 42.67 4.30
897 1042 2.123640 CTCGGGTCTCCCTCCCTC 60.124 72.222 3.25 0.00 42.67 4.30
898 1043 2.617538 TCTCGGGTCTCCCTCCCT 60.618 66.667 3.25 0.00 42.67 4.20
899 1044 2.442458 GTCTCGGGTCTCCCTCCC 60.442 72.222 3.25 0.00 42.67 4.30
901 1046 2.442458 GGGTCTCGGGTCTCCCTC 60.442 72.222 3.25 0.00 42.67 4.30
902 1047 1.294426 TATGGGTCTCGGGTCTCCCT 61.294 60.000 12.45 3.63 42.67 4.20
906 1051 1.946984 TGTTTATGGGTCTCGGGTCT 58.053 50.000 0.00 0.00 0.00 3.85
907 1052 2.745821 GTTTGTTTATGGGTCTCGGGTC 59.254 50.000 0.00 0.00 0.00 4.46
908 1053 2.553685 GGTTTGTTTATGGGTCTCGGGT 60.554 50.000 0.00 0.00 0.00 5.28
909 1054 2.089201 GGTTTGTTTATGGGTCTCGGG 58.911 52.381 0.00 0.00 0.00 5.14
918 1063 1.153920 GCGGGCGGGTTTGTTTATG 60.154 57.895 0.00 0.00 0.00 1.90
1053 1208 2.439883 GAGGCGTACCCCTCGTCT 60.440 66.667 10.78 0.00 45.88 4.18
1551 1733 4.317367 GATTTACCAAATCAGCGAACGCG 61.317 47.826 3.53 3.53 45.18 6.01
1641 1823 1.782201 AATGCTCAGGCTCCACACCA 61.782 55.000 0.00 0.00 39.59 4.17
1658 1840 0.038166 ACCAGCGTCACCAATGGAAT 59.962 50.000 6.16 0.00 36.62 3.01
1686 1868 2.022195 CCCTCTGAAGCATCCACAATG 58.978 52.381 0.00 0.00 38.50 2.82
1687 1869 1.064166 CCCCTCTGAAGCATCCACAAT 60.064 52.381 0.00 0.00 0.00 2.71
1688 1870 0.329261 CCCCTCTGAAGCATCCACAA 59.671 55.000 0.00 0.00 0.00 3.33
1689 1871 1.565390 CCCCCTCTGAAGCATCCACA 61.565 60.000 0.00 0.00 0.00 4.17
1690 1872 1.225704 CCCCCTCTGAAGCATCCAC 59.774 63.158 0.00 0.00 0.00 4.02
1691 1873 1.082766 TCCCCCTCTGAAGCATCCA 59.917 57.895 0.00 0.00 0.00 3.41
1692 1874 1.529309 GTCCCCCTCTGAAGCATCC 59.471 63.158 0.00 0.00 0.00 3.51
1693 1875 1.144936 CGTCCCCCTCTGAAGCATC 59.855 63.158 0.00 0.00 0.00 3.91
1694 1876 3.036429 GCGTCCCCCTCTGAAGCAT 62.036 63.158 0.00 0.00 37.22 3.79
1695 1877 3.706373 GCGTCCCCCTCTGAAGCA 61.706 66.667 0.00 0.00 37.22 3.91
1696 1878 3.394836 AGCGTCCCCCTCTGAAGC 61.395 66.667 0.00 0.00 37.47 3.86
1697 1879 2.581354 CAGCGTCCCCCTCTGAAG 59.419 66.667 0.00 0.00 0.00 3.02
1698 1880 3.003173 CCAGCGTCCCCCTCTGAA 61.003 66.667 0.00 0.00 0.00 3.02
1699 1881 4.316823 ACCAGCGTCCCCCTCTGA 62.317 66.667 0.00 0.00 0.00 3.27
1700 1882 4.087892 CACCAGCGTCCCCCTCTG 62.088 72.222 0.00 0.00 0.00 3.35
1711 1893 1.141019 CAATGCTCATGCCACCAGC 59.859 57.895 0.00 0.00 44.14 4.85
1712 1894 0.172578 CACAATGCTCATGCCACCAG 59.827 55.000 0.00 0.00 38.71 4.00
1713 1895 1.252215 CCACAATGCTCATGCCACCA 61.252 55.000 0.00 0.00 38.71 4.17
1714 1896 0.966875 TCCACAATGCTCATGCCACC 60.967 55.000 0.00 0.00 38.71 4.61
1715 1897 1.108776 ATCCACAATGCTCATGCCAC 58.891 50.000 0.00 0.00 38.71 5.01
1716 1898 1.107945 CATCCACAATGCTCATGCCA 58.892 50.000 0.00 0.00 38.71 4.92
1717 1899 3.959478 CATCCACAATGCTCATGCC 57.041 52.632 0.00 0.00 38.71 4.40
1764 1946 1.230635 CCACGACAACTTGCTCCTGG 61.231 60.000 0.00 0.00 0.00 4.45
1797 1979 8.865090 TCTTCTTCTTCTTGAGTAGAATTCAGT 58.135 33.333 8.44 0.00 41.89 3.41
1798 1980 9.874205 ATCTTCTTCTTCTTGAGTAGAATTCAG 57.126 33.333 8.44 0.00 41.89 3.02
1807 1989 4.041444 ACCAGCATCTTCTTCTTCTTGAGT 59.959 41.667 0.00 0.00 0.00 3.41
1836 2018 4.443175 GCATCAGAGTCATCATGGAGAACT 60.443 45.833 0.00 0.00 0.00 3.01
1837 2019 3.808726 GCATCAGAGTCATCATGGAGAAC 59.191 47.826 0.00 0.00 0.00 3.01
1843 2025 5.813080 TCTTTTGCATCAGAGTCATCATG 57.187 39.130 0.00 0.00 0.00 3.07
1898 2080 5.728471 CTTCTGTAGAACTCACCACATGAT 58.272 41.667 0.00 0.00 36.48 2.45
1928 2110 1.580845 GCGAACTTCAGCACCAGCAT 61.581 55.000 0.00 0.00 45.49 3.79
1930 2112 1.785041 TTGCGAACTTCAGCACCAGC 61.785 55.000 7.51 0.00 43.69 4.85
1936 2118 0.518636 TCAGCATTGCGAACTTCAGC 59.481 50.000 2.38 0.00 0.00 4.26
1946 2128 2.353323 TCACATCAGAGTCAGCATTGC 58.647 47.619 0.00 0.00 0.00 3.56
1956 2138 3.553511 GCGTGGTATCTTTCACATCAGAG 59.446 47.826 0.00 0.00 33.83 3.35
1964 2146 0.251916 CCTGGGCGTGGTATCTTTCA 59.748 55.000 0.00 0.00 0.00 2.69
1982 2164 1.538047 ATGTGTGACAACCTCATGCC 58.462 50.000 0.00 0.00 0.00 4.40
2009 2191 2.098117 GCAATATGTTCAGGACTGGCAC 59.902 50.000 0.00 0.00 0.00 5.01
2016 2198 2.016318 CTTGCGGCAATATGTTCAGGA 58.984 47.619 16.80 0.00 0.00 3.86
2105 2287 4.743057 TCACCATCTACCTTGTGATGAG 57.257 45.455 0.00 0.00 41.69 2.90
2118 2300 4.019051 TGATCACCATCAGTTTCACCATCT 60.019 41.667 0.00 0.00 33.80 2.90
2136 2318 4.245660 GTTCGTCAGAAGGTTCATGATCA 58.754 43.478 0.00 0.00 36.99 2.92
2172 2354 2.684881 AGCATTGTTTGTCCCGATGATC 59.315 45.455 0.00 0.00 0.00 2.92
2178 2360 1.605202 CCCAAAGCATTGTTTGTCCCG 60.605 52.381 0.43 0.00 35.93 5.14
2198 2380 4.886489 CCTCCATTTCTTTTCCAGGAGATC 59.114 45.833 7.80 0.00 44.12 2.75
2245 2427 1.080569 CATCCAAACCAAGGCGTGC 60.081 57.895 0.00 0.00 0.00 5.34
2249 2431 3.091545 TCTGAATCATCCAAACCAAGGC 58.908 45.455 0.00 0.00 0.00 4.35
2251 2433 5.067413 CCTCATCTGAATCATCCAAACCAAG 59.933 44.000 0.00 0.00 0.00 3.61
2287 2469 6.464222 TCAACTCCTCAACTTCATAATCGTT 58.536 36.000 0.00 0.00 0.00 3.85
2289 2471 5.006165 GCTCAACTCCTCAACTTCATAATCG 59.994 44.000 0.00 0.00 0.00 3.34
2325 2507 4.025015 AGCTGCATAATCAAAAAGCTCG 57.975 40.909 1.02 0.00 36.26 5.03
2361 2543 1.377202 TGATCTGTTTGCCGCCCTC 60.377 57.895 0.00 0.00 0.00 4.30
2425 2607 0.464452 GTAGGAGACGGTTGGATGGG 59.536 60.000 0.00 0.00 0.00 4.00
2471 2653 1.141881 ACCGCATGAGTAGAAGCCG 59.858 57.895 0.00 0.00 0.00 5.52
2650 2832 0.682209 ATGCGCCTGAAGCCTTCAAT 60.682 50.000 8.74 0.00 39.58 2.57
2751 2933 5.263599 ACCAATACATTGCAGGAGAATTCA 58.736 37.500 8.44 0.00 36.48 2.57
2781 2963 2.023404 ACTCTTTCCCACCCCTGTTTTT 60.023 45.455 0.00 0.00 0.00 1.94
2784 2966 0.478507 CACTCTTTCCCACCCCTGTT 59.521 55.000 0.00 0.00 0.00 3.16
2840 3022 4.870363 TGCTGGTAGAAAAGCATTTGTTC 58.130 39.130 0.00 0.00 44.26 3.18
2941 3123 5.047377 TGTTTGATTTTCCATCCCTAACTGC 60.047 40.000 0.00 0.00 0.00 4.40
3357 3539 3.028921 GCACAGGAGGAGGAGCAGG 62.029 68.421 0.00 0.00 0.00 4.85
3460 3642 2.303311 AGAAGTAAGGAAGTGGAGGCAC 59.697 50.000 0.00 0.00 0.00 5.01
3577 3759 5.128499 ACTCTTCATCCTCTTGATCGTCATT 59.872 40.000 0.00 0.00 0.00 2.57
3747 3929 4.512484 CCTCACTCTCCTTCATTTCCTTC 58.488 47.826 0.00 0.00 0.00 3.46
3760 3942 4.965814 TCATAATCATTGCCCTCACTCTC 58.034 43.478 0.00 0.00 0.00 3.20
3784 3966 6.271624 TCAGGATGATCATTCTCCACATGTAT 59.728 38.462 14.01 0.00 42.56 2.29
3864 4046 2.618053 ACTGGATCGTCGGAATCAAAC 58.382 47.619 0.00 0.00 0.00 2.93
3876 4058 3.320733 CGATAGCGGTATACTGGATCG 57.679 52.381 13.59 12.78 0.00 3.69
3995 4177 1.412079 TGCTTTGGCAACTTCATGGT 58.588 45.000 0.00 0.00 46.36 3.55
4012 4194 2.360165 CCCACATAGAAGCTGGAAATGC 59.640 50.000 0.00 0.00 0.00 3.56
4200 4382 2.766263 CAGACCTCCAGTAGTGGCATTA 59.234 50.000 12.14 0.00 44.60 1.90
4327 4509 2.401583 TGCGCAGTATCACCTTTCAT 57.598 45.000 5.66 0.00 0.00 2.57
4480 4662 0.109723 TTTGAAGTCCTTCCCACGGG 59.890 55.000 4.67 0.00 38.77 5.28
4587 4769 4.054780 TGCCATCGAATAGACACCTAAC 57.945 45.455 0.00 0.00 0.00 2.34
4615 4797 2.947448 GGATGCATCCTTTTCCACAC 57.053 50.000 34.20 7.44 43.73 3.82
4754 4946 4.499183 AGATAAAACAAGGAGCACGAGAG 58.501 43.478 0.00 0.00 0.00 3.20
4759 4951 7.965107 CACAAATAGAGATAAAACAAGGAGCAC 59.035 37.037 0.00 0.00 0.00 4.40
4762 4954 9.831737 CAACACAAATAGAGATAAAACAAGGAG 57.168 33.333 0.00 0.00 0.00 3.69
4771 4963 9.317936 CAGCTATGTCAACACAAATAGAGATAA 57.682 33.333 0.00 0.00 35.64 1.75
4880 5085 8.321716 CACAACAAAATTGCAAAAATTTCATGG 58.678 29.630 1.71 0.00 0.00 3.66
4900 5105 2.093181 ACAGGTAGACAGTTGCACAACA 60.093 45.455 15.40 0.00 43.47 3.33
4924 5129 8.806429 AAGGATAATCACACACATGAAACATA 57.194 30.769 0.00 0.00 30.82 2.29
4925 5130 7.707624 AAGGATAATCACACACATGAAACAT 57.292 32.000 0.00 0.00 30.82 2.71
4926 5131 7.369607 CAAAGGATAATCACACACATGAAACA 58.630 34.615 0.00 0.00 30.82 2.83
5050 5338 6.823689 ACTTCCGAGCATAAAGTGTGAAATAT 59.176 34.615 0.00 0.00 32.22 1.28
5059 5347 4.406003 ACTCCATACTTCCGAGCATAAAGT 59.594 41.667 0.00 0.00 37.10 2.66
5077 5365 3.307691 GGACAAATGATGACTGGACTCCA 60.308 47.826 0.00 0.00 0.00 3.86
5098 5386 6.700352 TGAAAGGGAGCTTTAATTCATTTGG 58.300 36.000 0.00 0.00 0.00 3.28
5147 5435 5.635700 GCTATTGGCCTAAAATCGTCTCTAG 59.364 44.000 3.32 0.00 34.27 2.43
5148 5436 5.539048 GCTATTGGCCTAAAATCGTCTCTA 58.461 41.667 3.32 0.00 34.27 2.43
5149 5437 4.381411 GCTATTGGCCTAAAATCGTCTCT 58.619 43.478 3.32 0.00 34.27 3.10
5150 5438 3.184581 CGCTATTGGCCTAAAATCGTCTC 59.815 47.826 3.32 0.00 37.74 3.36
5151 5439 3.131396 CGCTATTGGCCTAAAATCGTCT 58.869 45.455 3.32 0.00 37.74 4.18
5152 5440 2.349532 GCGCTATTGGCCTAAAATCGTC 60.350 50.000 3.32 0.00 37.74 4.20
5153 5441 1.602377 GCGCTATTGGCCTAAAATCGT 59.398 47.619 3.32 0.00 37.74 3.73
5181 5469 1.800586 GCAGTCAATTTCAGAGTCGCA 59.199 47.619 0.00 0.00 0.00 5.10
5183 5471 2.061773 ACGCAGTCAATTTCAGAGTCG 58.938 47.619 0.00 0.00 29.74 4.18
5185 5473 3.248602 GTCAACGCAGTCAATTTCAGAGT 59.751 43.478 0.00 0.00 45.00 3.24
5202 5490 4.702131 AGAAATCCTGGCACAATAGTCAAC 59.298 41.667 0.00 0.00 38.70 3.18
5215 5503 3.960102 AGAGTCAGCTAGAGAAATCCTGG 59.040 47.826 0.00 0.00 0.00 4.45
5269 5557 4.299796 GGGGAAGGGGCTGCAACA 62.300 66.667 0.50 0.00 0.00 3.33
5270 5558 2.612493 TAGGGGAAGGGGCTGCAAC 61.612 63.158 0.50 0.00 0.00 4.17
5272 5560 3.015145 GTAGGGGAAGGGGCTGCA 61.015 66.667 0.50 0.00 0.00 4.41
5273 5561 3.810188 GGTAGGGGAAGGGGCTGC 61.810 72.222 0.00 0.00 0.00 5.25
5274 5562 3.097162 GGGTAGGGGAAGGGGCTG 61.097 72.222 0.00 0.00 0.00 4.85
5275 5563 4.450036 GGGGTAGGGGAAGGGGCT 62.450 72.222 0.00 0.00 0.00 5.19
5277 5565 4.047196 TGGGGGTAGGGGAAGGGG 62.047 72.222 0.00 0.00 0.00 4.79
5292 5580 1.229658 AGAGGGGTTGGAGGAGTGG 60.230 63.158 0.00 0.00 0.00 4.00
5349 5637 2.020131 CAATGCCAGATCCAGCGTC 58.980 57.895 0.10 0.00 0.00 5.19
5377 5665 8.939201 AGATTCTACAAGATATGTCAACACAG 57.061 34.615 0.00 0.00 42.70 3.66
5390 5678 8.424133 ACATACATGTGCATAGATTCTACAAGA 58.576 33.333 9.11 0.00 40.03 3.02
5442 7508 6.855836 ACAGCATGAACAATACAAACATAGG 58.144 36.000 0.00 0.00 39.69 2.57
5457 7523 8.916062 ACCATGAATATTTATCAACAGCATGAA 58.084 29.630 0.00 0.00 39.69 2.57
5479 7545 7.603784 GGCAAAGTTTTCATGAATAAGAACCAT 59.396 33.333 9.40 0.58 0.00 3.55
5484 7550 9.206870 GAAATGGCAAAGTTTTCATGAATAAGA 57.793 29.630 9.40 0.00 31.29 2.10
5545 7611 5.136828 ACAATGAACCACAGATAACCACAA 58.863 37.500 0.00 0.00 0.00 3.33
5550 7616 6.170506 TGGTAGACAATGAACCACAGATAAC 58.829 40.000 3.51 0.00 38.36 1.89
5576 7659 9.367444 CATCTTTCCGTACTTCTAGTATTGTTT 57.633 33.333 0.00 0.00 32.65 2.83
5582 7666 4.951715 TGCCATCTTTCCGTACTTCTAGTA 59.048 41.667 0.00 0.00 0.00 1.82
5595 7679 3.091545 TGTTCCTGGATTGCCATCTTTC 58.908 45.455 0.00 0.00 44.91 2.62
5615 7699 6.954232 TCCCTAGTTCCAAGTATAAAAGGTG 58.046 40.000 0.00 0.00 0.00 4.00
5625 7709 3.882515 GCCTAGACTCCCTAGTTCCAAGT 60.883 52.174 0.00 0.00 42.63 3.16


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

AutoCloner maintained by Alex Coulton.