Multiple sequence alignment - TraesCS7B01G485000

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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 TraesCS7B01G485000 chr7B 100.000 2906 0 0 1 2906 741720265 741717360 0.000000e+00 5367.0
1 TraesCS7B01G485000 chr7B 92.233 103 8 0 459 561 597250718 597250820 2.330000e-31 147.0
2 TraesCS7B01G485000 chr7D 90.929 1797 96 31 778 2535 634412383 634410615 0.000000e+00 2353.0
3 TraesCS7B01G485000 chr7D 84.804 408 30 15 2530 2906 634410443 634410037 5.880000e-102 381.0
4 TraesCS7B01G485000 chr7D 94.271 192 9 1 589 778 634412884 634412693 2.830000e-75 292.0
5 TraesCS7B01G485000 chr7D 91.346 104 9 0 459 562 478795312 478795415 3.020000e-30 143.0
6 TraesCS7B01G485000 chr7A 92.121 1523 82 11 623 2109 731962017 731963537 0.000000e+00 2113.0
7 TraesCS7B01G485000 chr7A 93.243 296 18 2 2530 2824 731964062 731964356 4.450000e-118 435.0
8 TraesCS7B01G485000 chr7A 83.732 418 33 10 588 973 731956723 731957137 2.130000e-96 363.0
9 TraesCS7B01G485000 chr7A 85.886 333 39 6 11 336 731954823 731955154 5.960000e-92 348.0
10 TraesCS7B01G485000 chr7A 89.130 46 3 2 2784 2828 126089686 126089730 4.050000e-04 56.5
11 TraesCS7B01G485000 chr5D 90.737 896 74 5 1006 1898 412352092 412352981 0.000000e+00 1186.0
12 TraesCS7B01G485000 chr5D 88.172 93 11 0 609 701 6249638 6249730 8.510000e-21 111.0
13 TraesCS7B01G485000 chr5A 90.301 897 79 7 1006 1898 524217500 524218392 0.000000e+00 1168.0
14 TraesCS7B01G485000 chr5B 85.101 1188 120 30 741 1898 496484854 496486014 0.000000e+00 1160.0
15 TraesCS7B01G485000 chr5B 92.500 40 3 0 2787 2826 267305391 267305352 1.120000e-04 58.4
16 TraesCS7B01G485000 chr1D 90.351 114 11 0 460 573 421026791 421026904 1.800000e-32 150.0
17 TraesCS7B01G485000 chr1D 89.247 93 10 0 609 701 51828333 51828425 1.830000e-22 117.0
18 TraesCS7B01G485000 chr1D 88.889 90 10 0 612 701 68403537 68403448 8.510000e-21 111.0
19 TraesCS7B01G485000 chr1D 88.889 90 10 0 612 701 68407784 68407695 8.510000e-21 111.0
20 TraesCS7B01G485000 chr1D 88.172 93 11 0 609 701 180382593 180382685 8.510000e-21 111.0
21 TraesCS7B01G485000 chr6B 93.878 98 6 0 465 562 408323998 408324095 6.490000e-32 148.0
22 TraesCS7B01G485000 chr6B 90.000 90 9 0 612 701 450074799 450074710 1.830000e-22 117.0
23 TraesCS7B01G485000 chr4B 93.878 98 6 0 464 561 21198650 21198747 6.490000e-32 148.0
24 TraesCS7B01G485000 chr4B 90.476 105 10 0 464 568 499586491 499586387 3.900000e-29 139.0
25 TraesCS7B01G485000 chr4B 88.136 118 11 3 457 573 541473601 541473716 1.400000e-28 137.0
26 TraesCS7B01G485000 chr3D 92.233 103 8 0 459 561 603574483 603574585 2.330000e-31 147.0
27 TraesCS7B01G485000 chr3B 91.429 105 9 0 464 568 629921474 629921370 8.390000e-31 145.0
28 TraesCS7B01G485000 chrUn 88.298 94 10 1 609 701 345935592 345935685 8.510000e-21 111.0
29 TraesCS7B01G485000 chr2D 73.361 244 47 17 1195 1427 605910250 605910014 1.120000e-09 75.0


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 TraesCS7B01G485000 chr7B 741717360 741720265 2905 True 5367.000000 5367 100.000000 1 2906 1 chr7B.!!$R1 2905
1 TraesCS7B01G485000 chr7D 634410037 634412884 2847 True 1008.666667 2353 90.001333 589 2906 3 chr7D.!!$R1 2317
2 TraesCS7B01G485000 chr7A 731962017 731964356 2339 False 1274.000000 2113 92.682000 623 2824 2 chr7A.!!$F3 2201
3 TraesCS7B01G485000 chr7A 731954823 731957137 2314 False 355.500000 363 84.809000 11 973 2 chr7A.!!$F2 962
4 TraesCS7B01G485000 chr5D 412352092 412352981 889 False 1186.000000 1186 90.737000 1006 1898 1 chr5D.!!$F2 892
5 TraesCS7B01G485000 chr5A 524217500 524218392 892 False 1168.000000 1168 90.301000 1006 1898 1 chr5A.!!$F1 892
6 TraesCS7B01G485000 chr5B 496484854 496486014 1160 False 1160.000000 1160 85.101000 741 1898 1 chr5B.!!$F1 1157

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
191 199 0.106619 AGGTATTCGAGACCGCCTCT 60.107 55.0 11.68 0.0 42.21 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2137 3914 0.032217 CAACCATGGGTGCCCCTAAT 60.032 55.0 18.86 0.0 45.7 1.73 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
25 26 0.670162 AAAAAGAGCACGTGCAGCAT 59.330 45.000 39.21 21.39 45.16 3.79
27 28 0.886043 AAAGAGCACGTGCAGCATGA 60.886 50.000 39.21 0.00 45.16 3.07
31 32 1.008652 GCACGTGCAGCATGACAAA 60.009 52.632 34.52 0.00 39.69 2.83
52 53 1.675310 CTTGAGGGTTGGCATCGCA 60.675 57.895 14.09 1.09 0.00 5.10
69 70 5.121454 GCATCGCAAAATCTAAGATCTAGGG 59.879 44.000 0.00 0.00 0.00 3.53
75 76 7.001073 GCAAAATCTAAGATCTAGGGGTGATT 58.999 38.462 0.00 0.00 0.00 2.57
80 88 6.393897 TCTAAGATCTAGGGGTGATTGGATT 58.606 40.000 0.00 0.00 0.00 3.01
90 98 3.467803 GGTGATTGGATTAACGAGGGAG 58.532 50.000 0.00 0.00 0.00 4.30
97 105 6.591750 TTGGATTAACGAGGGAGATAGATC 57.408 41.667 0.00 0.00 0.00 2.75
99 107 7.029053 TGGATTAACGAGGGAGATAGATCTA 57.971 40.000 4.57 4.57 37.25 1.98
108 116 6.288096 AGGGAGATAGATCTAAGTGAGGTT 57.712 41.667 6.52 0.00 37.25 3.50
111 119 9.129870 AGGGAGATAGATCTAAGTGAGGTTATA 57.870 37.037 6.52 0.00 37.25 0.98
144 152 4.498323 GTCGGTTATAGCTACAAAGTCACG 59.502 45.833 0.00 0.00 0.00 4.35
156 164 6.021626 GCTACAAAGTCACGTCTAATACTTCG 60.022 42.308 0.00 0.00 31.15 3.79
167 175 5.757320 CGTCTAATACTTCGGAACTAGAGGA 59.243 44.000 0.00 0.00 0.00 3.71
180 188 5.241285 GGAACTAGAGGAGGTTAGGTATTCG 59.759 48.000 0.00 0.00 0.00 3.34
182 190 5.623169 ACTAGAGGAGGTTAGGTATTCGAG 58.377 45.833 0.00 0.00 0.00 4.04
186 194 2.292845 GGAGGTTAGGTATTCGAGACCG 59.707 54.545 11.68 0.00 42.21 4.79
191 199 0.106619 AGGTATTCGAGACCGCCTCT 60.107 55.000 11.68 0.00 42.21 3.69
196 204 4.135153 CGAGACCGCCTCTGTGGG 62.135 72.222 0.00 0.00 46.96 4.61
205 213 1.805120 CGCCTCTGTGGGTTATTACGG 60.805 57.143 0.00 0.00 36.00 4.02
207 215 2.104281 GCCTCTGTGGGTTATTACGGAT 59.896 50.000 0.00 0.00 36.00 4.18
223 231 2.560981 ACGGATGGTTTCATTTCCAACC 59.439 45.455 0.00 0.00 42.61 3.77
224 232 3.230743 GGATGGTTTCATTTCCAACCG 57.769 47.619 0.00 0.00 44.88 4.44
232 240 1.562008 TCATTTCCAACCGCCTCCATA 59.438 47.619 0.00 0.00 0.00 2.74
234 242 0.393808 TTTCCAACCGCCTCCATAGC 60.394 55.000 0.00 0.00 0.00 2.97
240 248 3.149196 CAACCGCCTCCATAGCAAATAT 58.851 45.455 0.00 0.00 0.00 1.28
244 252 3.689649 CCGCCTCCATAGCAAATATAACC 59.310 47.826 0.00 0.00 0.00 2.85
249 257 4.575885 TCCATAGCAAATATAACCGCCTC 58.424 43.478 0.00 0.00 0.00 4.70
251 259 4.759693 CCATAGCAAATATAACCGCCTCAA 59.240 41.667 0.00 0.00 0.00 3.02
252 260 5.240623 CCATAGCAAATATAACCGCCTCAAA 59.759 40.000 0.00 0.00 0.00 2.69
268 276 5.869753 CCTCAAATGGAATATTAGAGGCG 57.130 43.478 0.00 0.00 35.30 5.52
300 308 2.029964 GGTCACAACCGCTTCCGA 59.970 61.111 0.00 0.00 35.36 4.55
315 323 0.251916 TCCGAGGGCCAGTGTTAATG 59.748 55.000 6.18 0.00 0.00 1.90
318 326 1.134521 CGAGGGCCAGTGTTAATGCTA 60.135 52.381 6.18 0.00 0.00 3.49
340 359 9.555727 TGCTAGTTTTTCTACTAGTGAATGTTT 57.444 29.630 5.39 0.00 46.05 2.83
349 368 8.534333 TCTACTAGTGAATGTTTGACATCAAC 57.466 34.615 5.39 0.00 37.97 3.18
352 371 8.169977 ACTAGTGAATGTTTGACATCAACAAT 57.830 30.769 0.00 0.00 37.97 2.71
473 1891 9.643693 CAATAATGCCAATTAAATACTCCATCC 57.356 33.333 0.00 0.00 32.06 3.51
474 1892 5.964958 ATGCCAATTAAATACTCCATCCG 57.035 39.130 0.00 0.00 0.00 4.18
475 1893 4.787551 TGCCAATTAAATACTCCATCCGT 58.212 39.130 0.00 0.00 0.00 4.69
476 1894 4.819630 TGCCAATTAAATACTCCATCCGTC 59.180 41.667 0.00 0.00 0.00 4.79
477 1895 4.215613 GCCAATTAAATACTCCATCCGTCC 59.784 45.833 0.00 0.00 0.00 4.79
478 1896 4.760204 CCAATTAAATACTCCATCCGTCCC 59.240 45.833 0.00 0.00 0.00 4.46
479 1897 5.373222 CAATTAAATACTCCATCCGTCCCA 58.627 41.667 0.00 0.00 0.00 4.37
480 1898 5.640158 ATTAAATACTCCATCCGTCCCAA 57.360 39.130 0.00 0.00 0.00 4.12
481 1899 5.438698 TTAAATACTCCATCCGTCCCAAA 57.561 39.130 0.00 0.00 0.00 3.28
482 1900 4.310022 AAATACTCCATCCGTCCCAAAA 57.690 40.909 0.00 0.00 0.00 2.44
483 1901 4.519906 AATACTCCATCCGTCCCAAAAT 57.480 40.909 0.00 0.00 0.00 1.82
484 1902 5.640158 AATACTCCATCCGTCCCAAAATA 57.360 39.130 0.00 0.00 0.00 1.40
485 1903 5.640158 ATACTCCATCCGTCCCAAAATAA 57.360 39.130 0.00 0.00 0.00 1.40
486 1904 3.886123 ACTCCATCCGTCCCAAAATAAG 58.114 45.455 0.00 0.00 0.00 1.73
487 1905 3.265995 ACTCCATCCGTCCCAAAATAAGT 59.734 43.478 0.00 0.00 0.00 2.24
488 1906 3.616219 TCCATCCGTCCCAAAATAAGTG 58.384 45.455 0.00 0.00 0.00 3.16
489 1907 3.009695 TCCATCCGTCCCAAAATAAGTGT 59.990 43.478 0.00 0.00 0.00 3.55
490 1908 3.377172 CCATCCGTCCCAAAATAAGTGTC 59.623 47.826 0.00 0.00 0.00 3.67
491 1909 4.261801 CATCCGTCCCAAAATAAGTGTCT 58.738 43.478 0.00 0.00 0.00 3.41
492 1910 3.934068 TCCGTCCCAAAATAAGTGTCTC 58.066 45.455 0.00 0.00 0.00 3.36
493 1911 2.671396 CCGTCCCAAAATAAGTGTCTCG 59.329 50.000 0.00 0.00 0.00 4.04
494 1912 3.581755 CGTCCCAAAATAAGTGTCTCGA 58.418 45.455 0.00 0.00 0.00 4.04
495 1913 3.367025 CGTCCCAAAATAAGTGTCTCGAC 59.633 47.826 0.00 0.00 0.00 4.20
496 1914 3.683340 GTCCCAAAATAAGTGTCTCGACC 59.317 47.826 0.00 0.00 0.00 4.79
497 1915 3.581332 TCCCAAAATAAGTGTCTCGACCT 59.419 43.478 0.00 0.00 0.00 3.85
498 1916 4.041198 TCCCAAAATAAGTGTCTCGACCTT 59.959 41.667 0.00 1.29 0.00 3.50
499 1917 5.246656 TCCCAAAATAAGTGTCTCGACCTTA 59.753 40.000 9.08 9.08 32.63 2.69
500 1918 5.581085 CCCAAAATAAGTGTCTCGACCTTAG 59.419 44.000 11.12 0.00 32.07 2.18
501 1919 6.164176 CCAAAATAAGTGTCTCGACCTTAGT 58.836 40.000 11.12 7.66 32.07 2.24
502 1920 7.318141 CCAAAATAAGTGTCTCGACCTTAGTA 58.682 38.462 11.12 0.00 32.07 1.82
503 1921 7.275123 CCAAAATAAGTGTCTCGACCTTAGTAC 59.725 40.741 11.12 0.00 32.07 2.73
504 1922 7.458409 AAATAAGTGTCTCGACCTTAGTACA 57.542 36.000 0.00 0.00 32.07 2.90
505 1923 7.458409 AATAAGTGTCTCGACCTTAGTACAA 57.542 36.000 0.00 0.00 32.07 2.41
506 1924 4.762956 AGTGTCTCGACCTTAGTACAAC 57.237 45.455 0.00 0.00 0.00 3.32
507 1925 4.396522 AGTGTCTCGACCTTAGTACAACT 58.603 43.478 0.00 0.00 0.00 3.16
508 1926 4.826183 AGTGTCTCGACCTTAGTACAACTT 59.174 41.667 0.00 0.00 0.00 2.66
509 1927 5.301298 AGTGTCTCGACCTTAGTACAACTTT 59.699 40.000 0.00 0.00 0.00 2.66
510 1928 5.401674 GTGTCTCGACCTTAGTACAACTTTG 59.598 44.000 0.00 0.00 0.00 2.77
511 1929 5.068198 TGTCTCGACCTTAGTACAACTTTGT 59.932 40.000 0.00 0.00 44.86 2.83
512 1930 6.262944 TGTCTCGACCTTAGTACAACTTTGTA 59.737 38.462 0.00 0.00 42.35 2.41
520 1938 2.536761 TACAACTTTGTACTGGCGCT 57.463 45.000 7.64 0.00 42.35 5.92
521 1939 2.536761 ACAACTTTGTACTGGCGCTA 57.463 45.000 7.64 0.00 40.16 4.26
522 1940 2.413837 ACAACTTTGTACTGGCGCTAG 58.586 47.619 20.26 20.26 40.16 3.42
523 1941 2.224209 ACAACTTTGTACTGGCGCTAGT 60.224 45.455 29.68 29.68 40.16 2.57
524 1942 3.006110 ACAACTTTGTACTGGCGCTAGTA 59.994 43.478 27.41 27.41 40.16 1.82
531 1949 2.833631 ACTGGCGCTAGTACAAAGTT 57.166 45.000 26.13 0.00 0.00 2.66
532 1950 3.947910 ACTGGCGCTAGTACAAAGTTA 57.052 42.857 26.13 0.00 0.00 2.24
533 1951 4.261578 ACTGGCGCTAGTACAAAGTTAA 57.738 40.909 26.13 0.00 0.00 2.01
534 1952 4.243270 ACTGGCGCTAGTACAAAGTTAAG 58.757 43.478 26.13 0.00 0.00 1.85
535 1953 4.021719 ACTGGCGCTAGTACAAAGTTAAGA 60.022 41.667 26.13 0.00 0.00 2.10
536 1954 4.240096 TGGCGCTAGTACAAAGTTAAGAC 58.760 43.478 7.64 0.00 0.00 3.01
537 1955 4.240096 GGCGCTAGTACAAAGTTAAGACA 58.760 43.478 7.64 0.00 0.00 3.41
538 1956 4.091075 GGCGCTAGTACAAAGTTAAGACAC 59.909 45.833 7.64 0.00 0.00 3.67
539 1957 4.922103 GCGCTAGTACAAAGTTAAGACACT 59.078 41.667 0.00 0.00 0.00 3.55
540 1958 5.404667 GCGCTAGTACAAAGTTAAGACACTT 59.595 40.000 0.00 0.00 38.74 3.16
541 1959 6.583806 GCGCTAGTACAAAGTTAAGACACTTA 59.416 38.462 0.00 0.00 35.87 2.24
542 1960 7.275123 GCGCTAGTACAAAGTTAAGACACTTAT 59.725 37.037 0.00 0.00 35.87 1.73
543 1961 9.136952 CGCTAGTACAAAGTTAAGACACTTATT 57.863 33.333 0.00 0.00 35.87 1.40
551 1969 9.370126 CAAAGTTAAGACACTTATTTTGAGACG 57.630 33.333 15.60 0.00 35.87 4.18
552 1970 7.653767 AGTTAAGACACTTATTTTGAGACGG 57.346 36.000 0.00 0.00 0.00 4.79
553 1971 7.439381 AGTTAAGACACTTATTTTGAGACGGA 58.561 34.615 0.00 0.00 0.00 4.69
554 1972 7.599245 AGTTAAGACACTTATTTTGAGACGGAG 59.401 37.037 0.00 0.00 0.00 4.63
555 1973 4.822026 AGACACTTATTTTGAGACGGAGG 58.178 43.478 0.00 0.00 0.00 4.30
556 1974 3.933332 GACACTTATTTTGAGACGGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
557 1975 3.581332 ACACTTATTTTGAGACGGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
558 1976 4.184629 CACTTATTTTGAGACGGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
559 1977 3.838903 ACTTATTTTGAGACGGAGGGAGT 59.161 43.478 0.00 0.00 0.00 3.85
560 1978 5.021458 ACTTATTTTGAGACGGAGGGAGTA 58.979 41.667 0.00 0.00 0.00 2.59
561 1979 3.889520 ATTTTGAGACGGAGGGAGTAC 57.110 47.619 0.00 0.00 0.00 2.73
562 1980 1.171308 TTTGAGACGGAGGGAGTACG 58.829 55.000 0.00 0.00 0.00 3.67
563 1981 0.325933 TTGAGACGGAGGGAGTACGA 59.674 55.000 0.00 0.00 0.00 3.43
564 1982 0.392193 TGAGACGGAGGGAGTACGAC 60.392 60.000 0.00 0.00 0.00 4.34
573 1991 5.114081 CGGAGGGAGTACGACATAAAAATT 58.886 41.667 0.00 0.00 0.00 1.82
576 1994 6.183360 GGAGGGAGTACGACATAAAAATTTGG 60.183 42.308 0.00 0.00 0.00 3.28
578 1996 6.150474 AGGGAGTACGACATAAAAATTTGGTG 59.850 38.462 0.00 0.00 0.00 4.17
579 1997 6.072342 GGGAGTACGACATAAAAATTTGGTGT 60.072 38.462 0.00 0.00 0.00 4.16
580 1998 7.364970 GGAGTACGACATAAAAATTTGGTGTT 58.635 34.615 0.00 0.00 0.00 3.32
581 1999 8.505625 GGAGTACGACATAAAAATTTGGTGTTA 58.494 33.333 0.00 0.00 0.00 2.41
732 2157 0.329931 ACACCACATTCGGCCCATTA 59.670 50.000 0.00 0.00 0.00 1.90
806 2539 2.041081 CTCCATCCACCCTACACCAAAA 59.959 50.000 0.00 0.00 0.00 2.44
810 2543 5.020132 CCATCCACCCTACACCAAAATTTA 58.980 41.667 0.00 0.00 0.00 1.40
819 2552 5.414765 CCTACACCAAAATTTACAGGTCTCC 59.585 44.000 6.85 0.00 30.44 3.71
889 2635 0.320374 AATCTTTCGACGCCACTCCA 59.680 50.000 0.00 0.00 0.00 3.86
988 2743 1.668151 GGCTTTCTTGGTCGCTCGT 60.668 57.895 0.00 0.00 0.00 4.18
1098 2853 2.439701 CTCCGCCTCCTCGTGGTA 60.440 66.667 2.99 0.00 34.83 3.25
1339 3112 3.044305 GCTCGCCGTGCAACTTCT 61.044 61.111 6.24 0.00 31.75 2.85
1500 3273 4.736896 GACACCCGCCTCACCGAC 62.737 72.222 0.00 0.00 0.00 4.79
1515 3288 2.951745 GACGCCGACGAGCTCATG 60.952 66.667 15.40 0.13 43.93 3.07
1516 3289 3.685214 GACGCCGACGAGCTCATGT 62.685 63.158 15.40 3.98 43.93 3.21
1638 3411 2.657237 GTGGAGTGGGACCTCGTG 59.343 66.667 0.00 0.00 31.98 4.35
1907 3680 3.244911 CCCTTCTGCCCTCTGAGTTAAAA 60.245 47.826 3.66 0.00 0.00 1.52
1908 3681 4.398319 CCTTCTGCCCTCTGAGTTAAAAA 58.602 43.478 3.66 0.00 0.00 1.94
1979 3755 2.005451 GCATACCTCAAGACACAGCAG 58.995 52.381 0.00 0.00 0.00 4.24
1980 3756 2.005451 CATACCTCAAGACACAGCAGC 58.995 52.381 0.00 0.00 0.00 5.25
1995 3771 3.118482 ACAGCAGCATATACACTGAAGCT 60.118 43.478 7.80 0.00 35.90 3.74
2046 3822 8.106462 TGGAGGTAATTATTTCACACTTGATCA 58.894 33.333 0.00 0.00 0.00 2.92
2054 3830 1.691976 TCACACTTGATCAGGTCCGTT 59.308 47.619 7.63 0.00 0.00 4.44
2142 3919 3.952535 GCGGATGCAACTGTTAATTAGG 58.047 45.455 4.58 0.00 42.15 2.69
2146 3923 3.162147 TGCAACTGTTAATTAGGGGCA 57.838 42.857 0.00 0.00 0.00 5.36
2161 3938 2.601367 GCACCCATGGTTGCTGGT 60.601 61.111 25.76 5.09 31.02 4.00
2162 3939 2.639327 GCACCCATGGTTGCTGGTC 61.639 63.158 25.76 0.00 31.02 4.02
2163 3940 2.034066 ACCCATGGTTGCTGGTCG 59.966 61.111 11.73 0.00 27.29 4.79
2164 3941 2.350895 CCCATGGTTGCTGGTCGA 59.649 61.111 11.73 0.00 31.44 4.20
2191 3968 7.504574 TCGTTGATCAAGAGTGGAACCTATATA 59.495 37.037 8.80 0.00 37.80 0.86
2192 3969 8.307483 CGTTGATCAAGAGTGGAACCTATATAT 58.693 37.037 8.80 0.00 37.80 0.86
2204 3981 7.553044 GTGGAACCTATATATATCAGGCAAACC 59.447 40.741 11.53 10.24 32.31 3.27
2223 4000 6.689669 GCAAACCATACGTTGTAATTATCCAC 59.310 38.462 0.00 0.00 33.93 4.02
2292 4071 7.516198 AAGTGGTTCATAATAATGGAGATGC 57.484 36.000 0.00 0.00 33.61 3.91
2295 4074 7.176165 AGTGGTTCATAATAATGGAGATGCATG 59.824 37.037 2.46 0.00 33.61 4.06
2296 4075 6.071784 TGGTTCATAATAATGGAGATGCATGC 60.072 38.462 11.82 11.82 33.61 4.06
2297 4076 6.071784 GGTTCATAATAATGGAGATGCATGCA 60.072 38.462 25.04 25.04 33.61 3.96
2299 4078 7.095695 TCATAATAATGGAGATGCATGCATG 57.904 36.000 36.73 22.70 33.68 4.06
2302 4081 1.328279 ATGGAGATGCATGCATGTGG 58.672 50.000 36.73 3.17 36.70 4.17
2303 4082 0.256464 TGGAGATGCATGCATGTGGA 59.744 50.000 36.73 18.20 36.70 4.02
2304 4083 0.952280 GGAGATGCATGCATGTGGAG 59.048 55.000 36.73 2.38 36.70 3.86
2305 4084 1.676746 GAGATGCATGCATGTGGAGT 58.323 50.000 36.73 13.12 36.70 3.85
2317 4096 4.080413 TGCATGTGGAGTGAGGATAATGAA 60.080 41.667 0.00 0.00 0.00 2.57
2412 4198 7.837202 TTATACAAGTTCGTAATCTGTTGGG 57.163 36.000 0.00 0.00 0.00 4.12
2435 4221 1.819928 TGCAGGATAATTGCACGTGT 58.180 45.000 18.38 0.00 45.89 4.49
2438 4224 2.095263 GCAGGATAATTGCACGTGTGTT 60.095 45.455 18.38 11.78 41.17 3.32
2443 4229 6.468956 CAGGATAATTGCACGTGTGTTTAATC 59.531 38.462 18.38 12.65 0.00 1.75
2445 4231 6.468956 GGATAATTGCACGTGTGTTTAATCTG 59.531 38.462 18.38 0.00 0.00 2.90
2549 4580 4.202070 ACTCGGTAAGATCTTTCTGCTAGC 60.202 45.833 14.36 8.10 30.72 3.42
2607 4638 2.020926 CGTGGTGCATGTGTTCACA 58.979 52.632 8.09 8.09 35.04 3.58
2699 4739 2.282745 GCAGCAGCAAGGGAGGTT 60.283 61.111 0.00 0.00 41.58 3.50
2711 4751 1.371558 GGAGGTTGAGCTTCGTGGT 59.628 57.895 0.00 0.00 0.00 4.16
2757 4797 2.983136 GACGCGATCTCACATGGATTAG 59.017 50.000 15.93 0.00 0.00 1.73
2775 4815 2.423446 CGTGAGCTAGCCATCCCC 59.577 66.667 12.13 0.00 0.00 4.81
2782 4822 2.106511 GAGCTAGCCATCCCCATGTTAA 59.893 50.000 12.13 0.00 0.00 2.01
2783 4823 2.718609 AGCTAGCCATCCCCATGTTAAT 59.281 45.455 12.13 0.00 0.00 1.40
2784 4824 3.916349 AGCTAGCCATCCCCATGTTAATA 59.084 43.478 12.13 0.00 0.00 0.98
2786 4826 5.015603 AGCTAGCCATCCCCATGTTAATATT 59.984 40.000 12.13 0.00 0.00 1.28
2787 4827 6.217487 AGCTAGCCATCCCCATGTTAATATTA 59.783 38.462 12.13 0.00 0.00 0.98
2788 4828 6.318900 GCTAGCCATCCCCATGTTAATATTAC 59.681 42.308 2.29 0.00 0.00 1.89
2814 4859 9.230122 CTCTCTCAGTCTCATAATATAAGAGCA 57.770 37.037 0.00 0.00 0.00 4.26
2831 4876 4.537015 AGAGCATTTTTCGCACTAAACAC 58.463 39.130 0.00 0.00 0.00 3.32
2833 4878 4.932146 AGCATTTTTCGCACTAAACACTT 58.068 34.783 0.00 0.00 0.00 3.16
2834 4879 4.976116 AGCATTTTTCGCACTAAACACTTC 59.024 37.500 0.00 0.00 0.00 3.01
2892 4954 4.015084 GGCTGTGAACAGTAGTCTAGGTA 58.985 47.826 11.87 0.00 45.45 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.304705 CACGTGCTCTTTTTCGTGCT 59.695 50.000 0.82 0.00 44.71 4.40
1 2 2.770818 CACGTGCTCTTTTTCGTGC 58.229 52.632 0.82 0.00 44.71 5.34
3 4 0.304705 CTGCACGTGCTCTTTTTCGT 59.695 50.000 37.59 0.00 42.66 3.85
4 5 0.993746 GCTGCACGTGCTCTTTTTCG 60.994 55.000 37.59 17.46 42.66 3.46
5 6 0.029300 TGCTGCACGTGCTCTTTTTC 59.971 50.000 37.59 19.35 42.66 2.29
6 7 0.670162 ATGCTGCACGTGCTCTTTTT 59.330 45.000 37.59 17.00 42.66 1.94
7 8 0.039798 CATGCTGCACGTGCTCTTTT 60.040 50.000 37.59 18.02 42.66 2.27
8 9 0.886043 TCATGCTGCACGTGCTCTTT 60.886 50.000 37.59 19.38 42.66 2.52
9 10 1.301953 TCATGCTGCACGTGCTCTT 60.302 52.632 37.59 23.99 42.66 2.85
25 26 1.962807 CCAACCCTCAAGCATTTGTCA 59.037 47.619 0.00 0.00 35.73 3.58
27 28 0.681175 GCCAACCCTCAAGCATTTGT 59.319 50.000 0.00 0.00 35.73 2.83
36 37 0.825425 TTTTGCGATGCCAACCCTCA 60.825 50.000 0.00 0.00 0.00 3.86
52 53 7.350921 TCCAATCACCCCTAGATCTTAGATTTT 59.649 37.037 0.00 0.00 0.00 1.82
69 70 3.134081 TCTCCCTCGTTAATCCAATCACC 59.866 47.826 0.00 0.00 0.00 4.02
75 76 5.893500 AGATCTATCTCCCTCGTTAATCCA 58.106 41.667 0.00 0.00 29.30 3.41
80 88 7.075851 TCACTTAGATCTATCTCCCTCGTTA 57.924 40.000 2.58 0.00 38.32 3.18
97 105 6.260493 ACTGCGTAGTCTATAACCTCACTTAG 59.740 42.308 0.00 0.00 28.79 2.18
99 107 4.948621 ACTGCGTAGTCTATAACCTCACTT 59.051 41.667 0.00 0.00 28.79 3.16
113 121 2.295885 AGCTATAACCGACTGCGTAGT 58.704 47.619 5.62 5.62 40.66 2.73
117 125 2.768833 TGTAGCTATAACCGACTGCG 57.231 50.000 0.00 0.00 37.24 5.18
123 131 4.418392 ACGTGACTTTGTAGCTATAACCG 58.582 43.478 1.92 3.79 0.00 4.44
144 152 6.205270 CCTCCTCTAGTTCCGAAGTATTAGAC 59.795 46.154 0.00 0.00 0.00 2.59
156 164 5.241285 CGAATACCTAACCTCCTCTAGTTCC 59.759 48.000 0.00 0.00 0.00 3.62
167 175 1.680207 GCGGTCTCGAATACCTAACCT 59.320 52.381 13.22 0.00 39.00 3.50
180 188 1.255667 TAACCCACAGAGGCGGTCTC 61.256 60.000 0.18 0.18 42.75 3.36
182 190 0.252197 AATAACCCACAGAGGCGGTC 59.748 55.000 0.00 0.00 35.39 4.79
186 194 1.483415 TCCGTAATAACCCACAGAGGC 59.517 52.381 0.00 0.00 35.39 4.70
191 199 4.263374 TGAAACCATCCGTAATAACCCACA 60.263 41.667 0.00 0.00 0.00 4.17
196 204 7.090953 TGGAAATGAAACCATCCGTAATAAC 57.909 36.000 0.00 0.00 34.60 1.89
205 213 2.606108 GCGGTTGGAAATGAAACCATC 58.394 47.619 5.51 0.00 45.13 3.51
207 215 0.676736 GGCGGTTGGAAATGAAACCA 59.323 50.000 5.51 0.00 45.13 3.67
223 231 3.370978 CGGTTATATTTGCTATGGAGGCG 59.629 47.826 0.00 0.00 0.00 5.52
224 232 3.127030 GCGGTTATATTTGCTATGGAGGC 59.873 47.826 0.00 0.00 0.00 4.70
232 240 4.037923 CCATTTGAGGCGGTTATATTTGCT 59.962 41.667 0.00 0.00 0.00 3.91
234 242 5.766150 TCCATTTGAGGCGGTTATATTTG 57.234 39.130 0.00 0.00 0.00 2.32
240 248 6.833041 TCTAATATTCCATTTGAGGCGGTTA 58.167 36.000 0.00 0.00 0.00 2.85
244 252 5.869753 CCTCTAATATTCCATTTGAGGCG 57.130 43.478 12.38 0.00 41.49 5.52
249 257 4.074970 AGCCGCCTCTAATATTCCATTTG 58.925 43.478 0.00 0.00 0.00 2.32
251 259 4.373156 AAGCCGCCTCTAATATTCCATT 57.627 40.909 0.00 0.00 0.00 3.16
252 260 4.074970 CAAAGCCGCCTCTAATATTCCAT 58.925 43.478 0.00 0.00 0.00 3.41
268 276 0.823356 TGACCAAGCAGGACAAAGCC 60.823 55.000 1.83 0.00 39.13 4.35
298 306 0.392998 AGCATTAACACTGGCCCTCG 60.393 55.000 0.00 0.00 0.00 4.63
300 308 1.916181 ACTAGCATTAACACTGGCCCT 59.084 47.619 0.00 0.00 0.00 5.19
318 326 9.391006 TGTCAAACATTCACTAGTAGAAAAACT 57.609 29.630 3.59 0.00 0.00 2.66
340 359 8.152309 TCGATATTGCATAATTGTTGATGTCA 57.848 30.769 0.00 0.00 0.00 3.58
450 1868 7.001674 ACGGATGGAGTATTTAATTGGCATTA 58.998 34.615 0.00 0.00 0.00 1.90
454 1872 4.215613 GGACGGATGGAGTATTTAATTGGC 59.784 45.833 0.00 0.00 0.00 4.52
461 1879 4.310022 TTTTGGGACGGATGGAGTATTT 57.690 40.909 0.00 0.00 0.00 1.40
467 1885 3.009695 ACACTTATTTTGGGACGGATGGA 59.990 43.478 0.00 0.00 0.00 3.41
468 1886 3.352648 ACACTTATTTTGGGACGGATGG 58.647 45.455 0.00 0.00 0.00 3.51
469 1887 4.261801 AGACACTTATTTTGGGACGGATG 58.738 43.478 0.00 0.00 0.00 3.51
470 1888 4.514401 GAGACACTTATTTTGGGACGGAT 58.486 43.478 0.00 0.00 0.00 4.18
471 1889 3.615592 CGAGACACTTATTTTGGGACGGA 60.616 47.826 0.00 0.00 0.00 4.69
472 1890 2.671396 CGAGACACTTATTTTGGGACGG 59.329 50.000 0.00 0.00 0.00 4.79
473 1891 3.367025 GTCGAGACACTTATTTTGGGACG 59.633 47.826 0.00 0.00 0.00 4.79
474 1892 3.683340 GGTCGAGACACTTATTTTGGGAC 59.317 47.826 5.55 0.00 0.00 4.46
475 1893 3.581332 AGGTCGAGACACTTATTTTGGGA 59.419 43.478 5.55 0.00 0.00 4.37
476 1894 3.939066 AGGTCGAGACACTTATTTTGGG 58.061 45.455 5.55 0.00 0.00 4.12
477 1895 6.164176 ACTAAGGTCGAGACACTTATTTTGG 58.836 40.000 5.55 2.44 0.00 3.28
478 1896 7.811236 TGTACTAAGGTCGAGACACTTATTTTG 59.189 37.037 5.55 2.72 0.00 2.44
479 1897 7.889469 TGTACTAAGGTCGAGACACTTATTTT 58.111 34.615 5.55 2.43 0.00 1.82
480 1898 7.458409 TGTACTAAGGTCGAGACACTTATTT 57.542 36.000 5.55 4.28 0.00 1.40
481 1899 7.176340 AGTTGTACTAAGGTCGAGACACTTATT 59.824 37.037 5.55 7.31 0.00 1.40
482 1900 6.658391 AGTTGTACTAAGGTCGAGACACTTAT 59.342 38.462 5.55 4.60 0.00 1.73
483 1901 6.000219 AGTTGTACTAAGGTCGAGACACTTA 59.000 40.000 5.55 9.03 0.00 2.24
484 1902 4.826183 AGTTGTACTAAGGTCGAGACACTT 59.174 41.667 5.55 8.43 0.00 3.16
485 1903 4.396522 AGTTGTACTAAGGTCGAGACACT 58.603 43.478 5.55 0.00 0.00 3.55
486 1904 4.762956 AGTTGTACTAAGGTCGAGACAC 57.237 45.455 5.55 0.00 0.00 3.67
487 1905 5.068198 ACAAAGTTGTACTAAGGTCGAGACA 59.932 40.000 5.55 0.00 40.16 3.41
488 1906 5.527033 ACAAAGTTGTACTAAGGTCGAGAC 58.473 41.667 0.00 0.00 40.16 3.36
489 1907 5.779529 ACAAAGTTGTACTAAGGTCGAGA 57.220 39.130 0.00 0.00 40.16 4.04
501 1919 2.536761 AGCGCCAGTACAAAGTTGTA 57.463 45.000 2.29 0.00 42.35 2.41
502 1920 2.224209 ACTAGCGCCAGTACAAAGTTGT 60.224 45.455 6.73 1.75 44.86 3.32
503 1921 2.413837 ACTAGCGCCAGTACAAAGTTG 58.586 47.619 6.73 0.00 0.00 3.16
504 1922 2.833631 ACTAGCGCCAGTACAAAGTT 57.166 45.000 6.73 0.00 0.00 2.66
505 1923 3.227810 GTACTAGCGCCAGTACAAAGT 57.772 47.619 32.26 13.98 46.72 2.66
511 1929 3.947910 AACTTTGTACTAGCGCCAGTA 57.052 42.857 11.83 11.83 0.00 2.74
512 1930 2.833631 AACTTTGTACTAGCGCCAGT 57.166 45.000 14.17 14.17 0.00 4.00
513 1931 4.326548 GTCTTAACTTTGTACTAGCGCCAG 59.673 45.833 2.29 0.94 0.00 4.85
514 1932 4.240096 GTCTTAACTTTGTACTAGCGCCA 58.760 43.478 2.29 0.00 0.00 5.69
515 1933 4.091075 GTGTCTTAACTTTGTACTAGCGCC 59.909 45.833 2.29 0.00 0.00 6.53
516 1934 4.922103 AGTGTCTTAACTTTGTACTAGCGC 59.078 41.667 0.00 0.00 0.00 5.92
517 1935 8.684973 ATAAGTGTCTTAACTTTGTACTAGCG 57.315 34.615 0.00 0.00 40.77 4.26
525 1943 9.370126 CGTCTCAAAATAAGTGTCTTAACTTTG 57.630 33.333 14.40 14.40 40.77 2.77
526 1944 8.557029 CCGTCTCAAAATAAGTGTCTTAACTTT 58.443 33.333 0.00 0.00 40.77 2.66
527 1945 7.929785 TCCGTCTCAAAATAAGTGTCTTAACTT 59.070 33.333 0.00 0.00 42.89 2.66
528 1946 7.439381 TCCGTCTCAAAATAAGTGTCTTAACT 58.561 34.615 0.00 0.00 0.00 2.24
529 1947 7.148623 CCTCCGTCTCAAAATAAGTGTCTTAAC 60.149 40.741 0.00 0.00 0.00 2.01
530 1948 6.872020 CCTCCGTCTCAAAATAAGTGTCTTAA 59.128 38.462 0.00 0.00 0.00 1.85
531 1949 6.395629 CCTCCGTCTCAAAATAAGTGTCTTA 58.604 40.000 0.00 0.00 0.00 2.10
532 1950 5.238583 CCTCCGTCTCAAAATAAGTGTCTT 58.761 41.667 0.00 0.00 0.00 3.01
533 1951 4.322801 CCCTCCGTCTCAAAATAAGTGTCT 60.323 45.833 0.00 0.00 0.00 3.41
534 1952 3.933332 CCCTCCGTCTCAAAATAAGTGTC 59.067 47.826 0.00 0.00 0.00 3.67
535 1953 3.581332 TCCCTCCGTCTCAAAATAAGTGT 59.419 43.478 0.00 0.00 0.00 3.55
536 1954 4.184629 CTCCCTCCGTCTCAAAATAAGTG 58.815 47.826 0.00 0.00 0.00 3.16
537 1955 3.838903 ACTCCCTCCGTCTCAAAATAAGT 59.161 43.478 0.00 0.00 0.00 2.24
538 1956 4.473477 ACTCCCTCCGTCTCAAAATAAG 57.527 45.455 0.00 0.00 0.00 1.73
539 1957 4.142315 CGTACTCCCTCCGTCTCAAAATAA 60.142 45.833 0.00 0.00 0.00 1.40
540 1958 3.379372 CGTACTCCCTCCGTCTCAAAATA 59.621 47.826 0.00 0.00 0.00 1.40
541 1959 2.165845 CGTACTCCCTCCGTCTCAAAAT 59.834 50.000 0.00 0.00 0.00 1.82
542 1960 1.542915 CGTACTCCCTCCGTCTCAAAA 59.457 52.381 0.00 0.00 0.00 2.44
543 1961 1.171308 CGTACTCCCTCCGTCTCAAA 58.829 55.000 0.00 0.00 0.00 2.69
544 1962 0.325933 TCGTACTCCCTCCGTCTCAA 59.674 55.000 0.00 0.00 0.00 3.02
545 1963 0.392193 GTCGTACTCCCTCCGTCTCA 60.392 60.000 0.00 0.00 0.00 3.27
546 1964 0.392193 TGTCGTACTCCCTCCGTCTC 60.392 60.000 0.00 0.00 0.00 3.36
547 1965 0.255318 ATGTCGTACTCCCTCCGTCT 59.745 55.000 0.00 0.00 0.00 4.18
548 1966 1.959042 TATGTCGTACTCCCTCCGTC 58.041 55.000 0.00 0.00 0.00 4.79
549 1967 2.425143 TTATGTCGTACTCCCTCCGT 57.575 50.000 0.00 0.00 0.00 4.69
550 1968 3.788333 TTTTATGTCGTACTCCCTCCG 57.212 47.619 0.00 0.00 0.00 4.63
551 1969 6.183360 CCAAATTTTTATGTCGTACTCCCTCC 60.183 42.308 0.00 0.00 0.00 4.30
552 1970 6.373495 ACCAAATTTTTATGTCGTACTCCCTC 59.627 38.462 0.00 0.00 0.00 4.30
553 1971 6.150474 CACCAAATTTTTATGTCGTACTCCCT 59.850 38.462 0.00 0.00 0.00 4.20
554 1972 6.072342 ACACCAAATTTTTATGTCGTACTCCC 60.072 38.462 0.00 0.00 0.00 4.30
555 1973 6.905578 ACACCAAATTTTTATGTCGTACTCC 58.094 36.000 0.00 0.00 0.00 3.85
628 2052 8.237949 GCTAGACCAAAACTTCTTTAGGAAATC 58.762 37.037 0.00 0.00 33.07 2.17
697 2122 2.163613 TGGTGTCTGCGTCTACAGTATG 59.836 50.000 0.00 0.00 46.00 2.39
732 2157 0.981183 TGTTTCGGTAGATGGCCTGT 59.019 50.000 3.32 0.00 0.00 4.00
783 2208 1.009552 TGGTGTAGGGTGGATGGAGAT 59.990 52.381 0.00 0.00 0.00 2.75
819 2552 1.614317 GGGGTTTGGTGATGAGGACAG 60.614 57.143 0.00 0.00 0.00 3.51
889 2635 1.531423 GGGCGATGATGATGCTTGAT 58.469 50.000 0.00 0.00 0.00 2.57
1242 3015 2.427905 GACGTCGCGTAGTGCACA 60.428 61.111 21.04 1.84 46.97 4.57
1287 3060 3.518998 AGCGACACCCCGATCTCG 61.519 66.667 0.00 0.00 39.44 4.04
1329 3102 1.268539 CCGAACACCAAGAAGTTGCAC 60.269 52.381 0.00 0.00 31.64 4.57
1339 3112 4.278513 CCCCAGCCCGAACACCAA 62.279 66.667 0.00 0.00 0.00 3.67
1500 3273 2.951745 GACATGAGCTCGTCGGCG 60.952 66.667 1.15 1.15 37.29 6.46
1907 3680 8.023021 TGCTAGTACACTGGATGATAATCTTT 57.977 34.615 0.00 0.00 0.00 2.52
1908 3681 7.256119 CCTGCTAGTACACTGGATGATAATCTT 60.256 40.741 0.00 0.00 0.00 2.40
1909 3682 6.210385 CCTGCTAGTACACTGGATGATAATCT 59.790 42.308 0.00 0.00 0.00 2.40
1910 3683 6.209589 TCCTGCTAGTACACTGGATGATAATC 59.790 42.308 0.00 0.00 0.00 1.75
2035 3811 1.800586 CAACGGACCTGATCAAGTGTG 59.199 52.381 0.55 0.00 0.00 3.82
2036 3812 1.270839 CCAACGGACCTGATCAAGTGT 60.271 52.381 0.55 0.00 0.00 3.55
2046 3822 1.067071 GTTTCTCGATCCAACGGACCT 60.067 52.381 0.00 0.00 32.98 3.85
2125 3902 3.447229 GTGCCCCTAATTAACAGTTGCAT 59.553 43.478 0.00 0.00 0.00 3.96
2134 3911 1.933765 ACCATGGGTGCCCCTAATTAA 59.066 47.619 18.09 0.00 45.70 1.40
2135 3912 1.614449 ACCATGGGTGCCCCTAATTA 58.386 50.000 18.09 0.00 45.70 1.40
2136 3913 0.715987 AACCATGGGTGCCCCTAATT 59.284 50.000 18.09 0.00 45.70 1.40
2137 3914 0.032217 CAACCATGGGTGCCCCTAAT 60.032 55.000 18.86 0.00 45.70 1.73
2142 3919 3.384532 CAGCAACCATGGGTGCCC 61.385 66.667 43.89 23.54 35.34 5.36
2146 3923 1.852157 ATCGACCAGCAACCATGGGT 61.852 55.000 18.09 6.57 42.48 4.51
2161 3938 2.752903 TCCACTCTTGATCAACGATCGA 59.247 45.455 24.34 0.00 41.51 3.59
2162 3939 3.150848 TCCACTCTTGATCAACGATCG 57.849 47.619 14.88 14.88 41.51 3.69
2163 3940 3.619038 GGTTCCACTCTTGATCAACGATC 59.381 47.826 3.38 0.00 39.31 3.69
2164 3941 3.261897 AGGTTCCACTCTTGATCAACGAT 59.738 43.478 3.38 0.00 0.00 3.73
2191 3968 4.523083 ACAACGTATGGTTTGCCTGATAT 58.477 39.130 0.00 0.00 36.49 1.63
2192 3969 3.945346 ACAACGTATGGTTTGCCTGATA 58.055 40.909 0.00 0.00 36.49 2.15
2193 3970 2.790433 ACAACGTATGGTTTGCCTGAT 58.210 42.857 0.00 0.00 36.49 2.90
2194 3971 2.264005 ACAACGTATGGTTTGCCTGA 57.736 45.000 0.00 0.00 36.49 3.86
2269 4048 6.604171 TGCATCTCCATTATTATGAACCACT 58.396 36.000 0.00 0.00 33.37 4.00
2270 4049 6.882610 TGCATCTCCATTATTATGAACCAC 57.117 37.500 0.00 0.00 33.37 4.16
2274 4053 7.177744 ACATGCATGCATCTCCATTATTATGAA 59.822 33.333 30.07 0.00 33.90 2.57
2288 4067 1.333931 CTCACTCCACATGCATGCATC 59.666 52.381 30.07 0.00 33.90 3.91
2291 4070 0.393402 TCCTCACTCCACATGCATGC 60.393 55.000 26.53 11.82 0.00 4.06
2292 4071 2.343484 ATCCTCACTCCACATGCATG 57.657 50.000 25.09 25.09 0.00 4.06
2295 4074 4.077300 TCATTATCCTCACTCCACATGC 57.923 45.455 0.00 0.00 0.00 4.06
2296 4075 7.578310 AATTTCATTATCCTCACTCCACATG 57.422 36.000 0.00 0.00 0.00 3.21
2297 4076 9.872684 ATAAATTTCATTATCCTCACTCCACAT 57.127 29.630 0.00 0.00 0.00 3.21
2338 4117 9.311916 GTATTCATATTCATCAGAGCTGGTATC 57.688 37.037 0.00 0.00 0.00 2.24
2387 4173 8.262227 TCCCAACAGATTACGAACTTGTATAAT 58.738 33.333 0.00 0.00 0.00 1.28
2399 4185 3.181497 CCTGCATTTCCCAACAGATTACG 60.181 47.826 0.00 0.00 31.67 3.18
2472 4258 3.762288 AGTAGTGTGCGATCTTAACCTCA 59.238 43.478 0.00 0.00 0.00 3.86
2699 4739 1.215382 CGGATCACCACGAAGCTCA 59.785 57.895 0.00 0.00 35.59 4.26
2740 4780 2.728318 CACGCTAATCCATGTGAGATCG 59.272 50.000 0.00 0.00 34.29 3.69
2757 4797 2.280457 GGGATGGCTAGCTCACGC 60.280 66.667 15.72 10.24 0.00 5.34
2787 4827 9.231297 GCTCTTATATTATGAGACTGAGAGAGT 57.769 37.037 0.00 0.00 37.76 3.24
2788 4828 9.230122 TGCTCTTATATTATGAGACTGAGAGAG 57.770 37.037 0.00 0.00 33.20 3.20
2812 4857 4.976116 AGAAGTGTTTAGTGCGAAAAATGC 59.024 37.500 0.00 0.00 0.00 3.56
2847 4909 9.839185 AGCCTATATTAATTACTACTTCCTCCA 57.161 33.333 0.00 0.00 0.00 3.86
2878 4940 3.447944 GCCAAAGCTACCTAGACTACTGT 59.552 47.826 0.00 0.00 35.50 3.55


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

AutoCloner maintained by Alex Coulton.