Multiple sequence alignment - TraesCS4A01G078300

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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 TraesCS4A01G078300 chr4A 100.000 3012 0 0 1 3012 78182774 78179763 0.000000e+00 5563
1 TraesCS4A01G078300 chr4D 91.136 1681 75 18 455 2107 396673078 396671444 0.000000e+00 2211
2 TraesCS4A01G078300 chr4D 88.251 732 60 11 2189 2899 396671278 396670552 0.000000e+00 852
3 TraesCS4A01G078300 chr4D 91.828 465 25 5 1 456 396673576 396673116 1.180000e-178 636
4 TraesCS4A01G078300 chr4B 88.372 1720 84 33 482 2147 488680670 488679013 0.000000e+00 1962
5 TraesCS4A01G078300 chr4B 90.693 462 31 8 1 456 488681228 488680773 3.320000e-169 604
6 TraesCS4A01G078300 chr4B 89.969 319 28 2 2557 2872 488646281 488645964 2.800000e-110 409
7 TraesCS4A01G078300 chr4B 87.845 181 14 5 2189 2365 488678135 488677959 3.940000e-49 206


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 TraesCS4A01G078300 chr4A 78179763 78182774 3011 True 5563 5563 100.000 1 3012 1 chr4A.!!$R1 3011
1 TraesCS4A01G078300 chr4D 396670552 396673576 3024 True 1233 2211 90.405 1 2899 3 chr4D.!!$R1 2898
2 TraesCS4A01G078300 chr4B 488677959 488681228 3269 True 924 1962 88.970 1 2365 3 chr4B.!!$R2 2364

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
278 283 0.683504 GACGGAGGGAGAGGCAGTTA 60.684 60.0 0.0 0.0 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2067 2222 0.039437 GCGTCACGTCTGGAGAGAAA 60.039 55.0 0.0 0.0 0.0 2.52 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
110 115 2.517402 TTTTGGACGTTGGCGCCT 60.517 55.556 29.70 6.86 42.83 5.52
186 191 8.631695 CGAAAATGAGTTCGTATAATAGAGAGC 58.368 37.037 0.00 0.00 44.20 4.09
221 226 4.215908 TCCTCCACGCTCATATATATCCC 58.784 47.826 0.00 0.00 0.00 3.85
275 280 3.151022 GGACGGAGGGAGAGGCAG 61.151 72.222 0.00 0.00 0.00 4.85
278 283 0.683504 GACGGAGGGAGAGGCAGTTA 60.684 60.000 0.00 0.00 0.00 2.24
320 332 4.039366 GTGACCCTATCCTCTCCATGTAAC 59.961 50.000 0.00 0.00 0.00 2.50
332 344 5.441500 TCTCCATGTAACTCTACTCTGAGG 58.558 45.833 9.85 0.00 38.32 3.86
364 376 4.254492 GTGTTCTGGGAAATACAGAGGTC 58.746 47.826 0.00 0.00 44.91 3.85
376 388 7.201767 GGAAATACAGAGGTCTCATCATTTTGG 60.202 40.741 0.55 0.00 0.00 3.28
377 389 4.647564 ACAGAGGTCTCATCATTTTGGT 57.352 40.909 0.55 0.00 0.00 3.67
398 410 2.409870 GGCCAATCTGGTTGCGAGG 61.410 63.158 0.00 0.00 40.46 4.63
421 433 4.455877 GGTTGAGTTCGAACCTCAAATCAT 59.544 41.667 28.59 11.23 39.94 2.45
428 440 7.363431 AGTTCGAACCTCAAATCATTTTCTTC 58.637 34.615 24.22 0.00 0.00 2.87
444 456 9.305555 TCATTTTCTTCTTCTTTGATTCTCCAT 57.694 29.630 0.00 0.00 0.00 3.41
449 461 6.536582 TCTTCTTCTTTGATTCTCCATAAGCG 59.463 38.462 0.00 0.00 0.00 4.68
450 462 4.572389 TCTTCTTTGATTCTCCATAAGCGC 59.428 41.667 0.00 0.00 0.00 5.92
453 502 2.245159 TGATTCTCCATAAGCGCTGG 57.755 50.000 12.58 9.75 34.93 4.85
511 598 4.486090 TCGTCTTCTGTCTTGTTCTATGC 58.514 43.478 0.00 0.00 0.00 3.14
527 614 6.428159 TGTTCTATGCTCTTGTCTTCCTTTTC 59.572 38.462 0.00 0.00 0.00 2.29
528 615 6.365970 TCTATGCTCTTGTCTTCCTTTTCT 57.634 37.500 0.00 0.00 0.00 2.52
529 616 6.773638 TCTATGCTCTTGTCTTCCTTTTCTT 58.226 36.000 0.00 0.00 0.00 2.52
530 617 7.227156 TCTATGCTCTTGTCTTCCTTTTCTTT 58.773 34.615 0.00 0.00 0.00 2.52
531 618 5.757850 TGCTCTTGTCTTCCTTTTCTTTC 57.242 39.130 0.00 0.00 0.00 2.62
532 619 5.440610 TGCTCTTGTCTTCCTTTTCTTTCT 58.559 37.500 0.00 0.00 0.00 2.52
533 620 5.888161 TGCTCTTGTCTTCCTTTTCTTTCTT 59.112 36.000 0.00 0.00 0.00 2.52
600 687 4.670227 GCTCAACAGTAGTTTAGCCTTG 57.330 45.455 3.77 0.00 45.05 3.61
617 711 5.364778 AGCCTTGGTTTGTTATGGAAAAAC 58.635 37.500 0.00 0.00 33.90 2.43
621 715 5.189659 TGGTTTGTTATGGAAAAACGGAG 57.810 39.130 0.00 0.00 35.18 4.63
679 785 5.880887 GTCTGGGTTAAATTGAGGAACTAGG 59.119 44.000 0.00 0.00 41.55 3.02
711 817 5.576447 TGTGTTCCCTTTGAGAAGTTTTC 57.424 39.130 0.00 0.00 0.00 2.29
712 818 4.095782 TGTGTTCCCTTTGAGAAGTTTTCG 59.904 41.667 0.00 0.00 34.02 3.46
755 868 4.822026 AGTTCTTGGATGTTTACCTCTCG 58.178 43.478 0.00 0.00 0.00 4.04
764 877 5.010719 GGATGTTTACCTCTCGGTGATATGA 59.989 44.000 0.00 0.00 45.18 2.15
765 878 6.295349 GGATGTTTACCTCTCGGTGATATGAT 60.295 42.308 0.00 0.00 45.18 2.45
766 879 7.093902 GGATGTTTACCTCTCGGTGATATGATA 60.094 40.741 0.00 0.00 45.18 2.15
767 880 7.215719 TGTTTACCTCTCGGTGATATGATAG 57.784 40.000 0.00 0.00 45.18 2.08
768 881 7.002276 TGTTTACCTCTCGGTGATATGATAGA 58.998 38.462 0.00 0.00 45.18 1.98
769 882 7.670140 TGTTTACCTCTCGGTGATATGATAGAT 59.330 37.037 0.00 0.00 45.18 1.98
770 883 7.867305 TTACCTCTCGGTGATATGATAGATC 57.133 40.000 0.00 0.00 45.18 2.75
811 924 2.052782 ATCCCCTTGCACGGAATTAC 57.947 50.000 11.54 0.00 0.00 1.89
839 959 7.928706 AGTCTTGAGATGCACCAACTATATTAC 59.071 37.037 0.00 0.00 0.00 1.89
943 1081 1.166531 ACGCCCTGACTGCTCAAAAC 61.167 55.000 0.00 0.00 0.00 2.43
951 1089 2.158475 TGACTGCTCAAAACCCTCCATT 60.158 45.455 0.00 0.00 0.00 3.16
955 1093 4.280929 ACTGCTCAAAACCCTCCATTTAAC 59.719 41.667 0.00 0.00 0.00 2.01
958 1096 3.512496 TCAAAACCCTCCATTTAACCCC 58.488 45.455 0.00 0.00 0.00 4.95
959 1097 3.143168 TCAAAACCCTCCATTTAACCCCT 59.857 43.478 0.00 0.00 0.00 4.79
965 1103 3.120108 CCTCCATTTAACCCCTACCTCA 58.880 50.000 0.00 0.00 0.00 3.86
1107 1245 2.915659 AGGTGCGAGGTGGACGAA 60.916 61.111 0.00 0.00 40.35 3.85
1167 1305 2.675423 TCCGACACCGTCCTGGAG 60.675 66.667 0.00 0.00 42.00 3.86
1196 1334 3.058160 CAGGCCAAGAAGCACCGG 61.058 66.667 5.01 0.00 0.00 5.28
1206 1344 3.808218 AAGCACCGGCAACCACCAT 62.808 57.895 0.00 0.00 44.61 3.55
1659 1800 2.171237 CCAGAAGCATGATCCACAGGTA 59.829 50.000 0.00 0.00 32.48 3.08
1663 1804 1.134699 AGCATGATCCACAGGTACGTG 60.135 52.381 13.84 13.84 36.61 4.49
1678 1821 2.961522 ACGTGACGCCACAAATTTAG 57.038 45.000 4.25 0.00 43.34 1.85
1681 1824 3.223157 CGTGACGCCACAAATTTAGTTC 58.777 45.455 1.96 0.00 43.34 3.01
1682 1825 3.561503 GTGACGCCACAAATTTAGTTCC 58.438 45.455 0.00 0.00 42.72 3.62
1683 1826 2.224549 TGACGCCACAAATTTAGTTCCG 59.775 45.455 0.00 0.50 0.00 4.30
1685 1828 2.619646 ACGCCACAAATTTAGTTCCGTT 59.380 40.909 0.00 0.00 0.00 4.44
1686 1829 3.067040 ACGCCACAAATTTAGTTCCGTTT 59.933 39.130 0.00 0.00 0.00 3.60
1687 1830 3.666797 CGCCACAAATTTAGTTCCGTTTC 59.333 43.478 0.00 0.00 0.00 2.78
1688 1831 4.612943 GCCACAAATTTAGTTCCGTTTCA 58.387 39.130 0.00 0.00 0.00 2.69
1691 1834 5.567534 CCACAAATTTAGTTCCGTTTCATCG 59.432 40.000 0.00 0.00 0.00 3.84
1713 1856 4.202080 CGTCCTGGATTGATTGATTGCATT 60.202 41.667 0.00 0.00 0.00 3.56
1715 1858 3.807622 CCTGGATTGATTGATTGCATTGC 59.192 43.478 0.46 0.46 0.00 3.56
1727 1870 2.143008 TGCATTGCTGTTGCTGAAAG 57.857 45.000 10.49 0.00 40.77 2.62
1728 1871 1.682323 TGCATTGCTGTTGCTGAAAGA 59.318 42.857 10.49 0.00 40.77 2.52
1729 1872 2.056577 GCATTGCTGTTGCTGAAAGAC 58.943 47.619 0.16 0.00 40.48 3.01
1730 1873 2.288030 GCATTGCTGTTGCTGAAAGACT 60.288 45.455 0.16 0.00 40.48 3.24
1731 1874 3.305964 CATTGCTGTTGCTGAAAGACTG 58.694 45.455 0.00 0.00 40.48 3.51
1732 1875 2.330440 TGCTGTTGCTGAAAGACTGA 57.670 45.000 0.00 0.00 40.48 3.41
1733 1876 2.642427 TGCTGTTGCTGAAAGACTGAA 58.358 42.857 0.00 0.00 40.48 3.02
1734 1877 3.016031 TGCTGTTGCTGAAAGACTGAAA 58.984 40.909 0.00 0.00 40.48 2.69
1827 1970 2.745821 TCGACTACGACAGCTTGTACAT 59.254 45.455 0.00 0.00 43.81 2.29
1829 1972 3.179830 GACTACGACAGCTTGTACATGG 58.820 50.000 10.47 1.92 0.00 3.66
1840 1995 3.238497 TACATGGGATCGGCGGGG 61.238 66.667 7.21 0.00 0.00 5.73
1899 2054 3.991051 CGTCAGAGTGGGCGTGGT 61.991 66.667 0.00 0.00 0.00 4.16
2014 2169 1.754621 CTCCGGCCTGCTCTGACTA 60.755 63.158 0.00 0.00 0.00 2.59
2022 2177 1.565305 CTGCTCTGACTATGAACGGC 58.435 55.000 0.00 0.00 0.00 5.68
2023 2178 0.179137 TGCTCTGACTATGAACGGCG 60.179 55.000 4.80 4.80 0.00 6.46
2036 2191 2.591429 CGGCGGCATTCCAGCATA 60.591 61.111 10.53 0.00 34.88 3.14
2041 2196 0.514255 CGGCATTCCAGCATATCACG 59.486 55.000 0.00 0.00 35.83 4.35
2048 2203 0.602106 CCAGCATATCACGGAGCCAG 60.602 60.000 0.00 0.00 0.00 4.85
2049 2204 1.070445 AGCATATCACGGAGCCAGC 59.930 57.895 0.00 0.00 0.00 4.85
2050 2205 1.070445 GCATATCACGGAGCCAGCT 59.930 57.895 0.00 0.00 0.00 4.24
2089 2244 4.700365 CTCCAGACGTGACGCGCA 62.700 66.667 5.73 1.71 46.11 6.09
2092 2248 3.842126 CAGACGTGACGCGCATGG 61.842 66.667 21.11 12.64 46.11 3.66
2093 2249 4.050934 AGACGTGACGCGCATGGA 62.051 61.111 21.11 0.00 46.11 3.41
2094 2250 3.545481 GACGTGACGCGCATGGAG 61.545 66.667 21.11 0.00 46.11 3.86
2095 2251 3.964221 GACGTGACGCGCATGGAGA 62.964 63.158 21.11 0.00 46.11 3.71
2097 2253 2.167219 CGTGACGCGCATGGAGATT 61.167 57.895 5.73 0.00 0.00 2.40
2098 2254 0.869880 CGTGACGCGCATGGAGATTA 60.870 55.000 5.73 0.00 0.00 1.75
2099 2255 0.577269 GTGACGCGCATGGAGATTAC 59.423 55.000 5.73 0.00 0.00 1.89
2100 2256 0.459899 TGACGCGCATGGAGATTACT 59.540 50.000 5.73 0.00 0.00 2.24
2101 2257 1.132588 GACGCGCATGGAGATTACTC 58.867 55.000 5.73 0.00 41.94 2.59
2102 2258 0.747255 ACGCGCATGGAGATTACTCT 59.253 50.000 5.73 0.00 42.28 3.24
2103 2259 1.135046 CGCGCATGGAGATTACTCTG 58.865 55.000 8.75 0.00 42.28 3.35
2104 2260 1.536922 CGCGCATGGAGATTACTCTGT 60.537 52.381 8.75 0.00 42.28 3.41
2105 2261 2.555199 GCGCATGGAGATTACTCTGTT 58.445 47.619 0.30 0.00 42.28 3.16
2106 2262 2.286294 GCGCATGGAGATTACTCTGTTG 59.714 50.000 0.30 0.00 42.28 3.33
2121 2277 1.534163 CTGTTGTCTGCTGGATGTGTG 59.466 52.381 0.00 0.00 0.00 3.82
2126 2282 2.069273 GTCTGCTGGATGTGTGTGTAC 58.931 52.381 0.00 0.00 0.00 2.90
2143 2299 2.910319 TGTACACCCTTCTGCCTGTTAT 59.090 45.455 0.00 0.00 0.00 1.89
2144 2300 4.081309 GTGTACACCCTTCTGCCTGTTATA 60.081 45.833 15.42 0.00 0.00 0.98
2145 2301 4.719773 TGTACACCCTTCTGCCTGTTATAT 59.280 41.667 0.00 0.00 0.00 0.86
2146 2302 5.900699 TGTACACCCTTCTGCCTGTTATATA 59.099 40.000 0.00 0.00 0.00 0.86
2147 2303 5.552870 ACACCCTTCTGCCTGTTATATAG 57.447 43.478 0.00 0.00 0.00 1.31
2148 2304 5.216622 ACACCCTTCTGCCTGTTATATAGA 58.783 41.667 0.00 0.00 0.00 1.98
2149 2305 5.665812 ACACCCTTCTGCCTGTTATATAGAA 59.334 40.000 0.00 0.00 0.00 2.10
2151 2307 5.071923 ACCCTTCTGCCTGTTATATAGAACC 59.928 44.000 7.73 0.00 0.00 3.62
2154 2310 6.183361 CCTTCTGCCTGTTATATAGAACCACT 60.183 42.308 7.73 0.00 0.00 4.00
2155 2311 7.015292 CCTTCTGCCTGTTATATAGAACCACTA 59.985 40.741 7.73 0.00 35.42 2.74
2156 2312 7.907841 TCTGCCTGTTATATAGAACCACTAA 57.092 36.000 7.73 0.00 34.56 2.24
2157 2313 8.492415 TCTGCCTGTTATATAGAACCACTAAT 57.508 34.615 7.73 0.00 34.56 1.73
2158 2314 9.596308 TCTGCCTGTTATATAGAACCACTAATA 57.404 33.333 7.73 0.00 34.56 0.98
2181 3181 3.525537 TGCTACTAAGAATGCTGCAGTC 58.474 45.455 21.29 21.29 0.00 3.51
2182 3182 2.537625 GCTACTAAGAATGCTGCAGTCG 59.462 50.000 22.31 12.24 33.45 4.18
2183 3183 2.751166 ACTAAGAATGCTGCAGTCGT 57.249 45.000 22.31 21.52 33.45 4.34
2184 3184 2.341257 ACTAAGAATGCTGCAGTCGTG 58.659 47.619 24.48 19.01 33.45 4.35
2277 3277 3.241530 TCCTCAGTTGCCACGCCT 61.242 61.111 0.00 0.00 0.00 5.52
2295 3295 4.916870 CGCCTGCGTATACTGCTATATAA 58.083 43.478 16.71 0.44 34.35 0.98
2303 3307 7.065443 TGCGTATACTGCTATATAACACGAGAT 59.935 37.037 16.71 0.00 0.00 2.75
2344 3348 4.993584 AGAACAGATGCAATATCGTCCATC 59.006 41.667 0.00 0.00 35.49 3.51
2355 3359 2.522638 CGTCCATCGTTTAGCCCGC 61.523 63.158 0.00 0.00 34.52 6.13
2365 3369 2.017049 GTTTAGCCCGCTTCATCATGT 58.983 47.619 0.00 0.00 0.00 3.21
2366 3370 2.418368 TTAGCCCGCTTCATCATGTT 57.582 45.000 0.00 0.00 0.00 2.71
2439 3455 2.435234 TCGCCGTATGTGTTGGCC 60.435 61.111 0.00 0.00 46.12 5.36
2444 3460 2.435234 GTATGTGTTGGCCGCCGA 60.435 61.111 4.58 0.00 0.00 5.54
2477 3493 1.825281 GCCGGAGAGATGGAGATGGG 61.825 65.000 5.05 0.00 0.00 4.00
2550 3566 2.576317 GACGACAGCGGCGACTAC 60.576 66.667 12.98 4.56 43.17 2.73
2595 3611 0.809241 CTCAAGCGGTCAGGATGCTC 60.809 60.000 0.00 0.00 38.17 4.26
2608 3624 0.605589 GATGCTCTGGGGGATACTCG 59.394 60.000 0.00 0.00 38.88 4.18
2619 3635 1.585521 GATACTCGCCCGTGTCGTG 60.586 63.158 0.00 0.00 0.00 4.35
2633 3649 3.706373 CGTGTGGAGGTGGAGGGG 61.706 72.222 0.00 0.00 0.00 4.79
2637 3653 4.649705 TGGAGGTGGAGGGGCGAA 62.650 66.667 0.00 0.00 0.00 4.70
2639 3655 3.787001 GAGGTGGAGGGGCGAAGG 61.787 72.222 0.00 0.00 0.00 3.46
2701 3717 3.458163 GGAGGCGGTCGTCATGGA 61.458 66.667 0.00 0.00 0.00 3.41
2712 3728 4.414956 TCATGGAGGCCGGACCCT 62.415 66.667 1.76 0.35 40.58 4.34
2755 3771 2.201436 CTGGTGCTAGCTGACGTCGT 62.201 60.000 17.23 0.00 0.00 4.34
2759 3775 1.124477 GTGCTAGCTGACGTCGTTTTC 59.876 52.381 17.23 0.00 0.00 2.29
2766 3782 3.001330 AGCTGACGTCGTTTTCTTCTTTG 59.999 43.478 11.62 0.00 0.00 2.77
2768 3784 4.026310 GCTGACGTCGTTTTCTTCTTTGTA 60.026 41.667 11.62 0.00 0.00 2.41
2775 3791 6.074005 GTCGTTTTCTTCTTTGTAGCTGATG 58.926 40.000 0.00 0.00 0.00 3.07
2789 3805 4.414337 AGCTGATGAAGGTATTGGAGAC 57.586 45.455 0.00 0.00 33.90 3.36
2794 3810 5.430886 TGATGAAGGTATTGGAGACACATG 58.569 41.667 0.00 0.00 42.67 3.21
2795 3811 4.220693 TGAAGGTATTGGAGACACATGG 57.779 45.455 0.00 0.00 42.67 3.66
2804 3820 1.133976 GGAGACACATGGGATTCAGGG 60.134 57.143 0.00 0.00 0.00 4.45
2830 3846 2.425312 TGTGTGCGTGGATTTTGAAGTT 59.575 40.909 0.00 0.00 0.00 2.66
2902 3921 6.808008 ATCTTGTTCAGTTGTTCTATGGTG 57.192 37.500 0.00 0.00 0.00 4.17
2903 3922 5.063204 TCTTGTTCAGTTGTTCTATGGTGG 58.937 41.667 0.00 0.00 0.00 4.61
2904 3923 3.750371 TGTTCAGTTGTTCTATGGTGGG 58.250 45.455 0.00 0.00 0.00 4.61
2905 3924 3.392947 TGTTCAGTTGTTCTATGGTGGGA 59.607 43.478 0.00 0.00 0.00 4.37
2906 3925 4.042809 TGTTCAGTTGTTCTATGGTGGGAT 59.957 41.667 0.00 0.00 0.00 3.85
2907 3926 4.487714 TCAGTTGTTCTATGGTGGGATC 57.512 45.455 0.00 0.00 0.00 3.36
2908 3927 3.199946 TCAGTTGTTCTATGGTGGGATCC 59.800 47.826 1.92 1.92 0.00 3.36
2909 3928 3.054434 CAGTTGTTCTATGGTGGGATCCA 60.054 47.826 15.23 0.00 42.01 3.41
2910 3929 3.200825 AGTTGTTCTATGGTGGGATCCAG 59.799 47.826 15.23 0.59 41.05 3.86
2916 3935 2.517919 GGTGGGATCCAGCCATCC 59.482 66.667 15.23 3.62 45.22 3.51
2917 3936 2.386100 GGTGGGATCCAGCCATCCA 61.386 63.158 15.23 0.00 45.22 3.41
2918 3937 1.150081 GTGGGATCCAGCCATCCAG 59.850 63.158 15.23 0.00 44.00 3.86
2919 3938 2.080536 TGGGATCCAGCCATCCAGG 61.081 63.158 15.23 0.00 44.00 4.45
2928 3947 3.177600 CCATCCAGGCGTTGTTCG 58.822 61.111 0.00 0.00 43.12 3.95
2929 3948 2.398554 CCATCCAGGCGTTGTTCGG 61.399 63.158 0.00 0.00 40.26 4.30
2930 3949 1.375396 CATCCAGGCGTTGTTCGGA 60.375 57.895 0.00 0.00 40.26 4.55
2931 3950 1.375523 ATCCAGGCGTTGTTCGGAC 60.376 57.895 0.00 0.00 40.26 4.79
2932 3951 2.107041 ATCCAGGCGTTGTTCGGACA 62.107 55.000 0.00 0.00 40.26 4.02
2933 3952 2.317609 CCAGGCGTTGTTCGGACAG 61.318 63.158 0.00 0.00 37.04 3.51
2934 3953 1.300620 CAGGCGTTGTTCGGACAGA 60.301 57.895 0.00 0.00 37.04 3.41
2935 3954 0.878523 CAGGCGTTGTTCGGACAGAA 60.879 55.000 0.00 0.00 37.04 3.02
2936 3955 0.179067 AGGCGTTGTTCGGACAGAAA 60.179 50.000 0.00 0.00 41.10 2.52
2937 3956 0.872388 GGCGTTGTTCGGACAGAAAT 59.128 50.000 0.00 0.00 41.10 2.17
2938 3957 2.070783 GGCGTTGTTCGGACAGAAATA 58.929 47.619 0.00 0.00 41.10 1.40
2939 3958 2.481185 GGCGTTGTTCGGACAGAAATAA 59.519 45.455 0.00 0.00 41.10 1.40
2940 3959 3.424433 GGCGTTGTTCGGACAGAAATAAG 60.424 47.826 0.00 0.00 41.10 1.73
2941 3960 3.430895 GCGTTGTTCGGACAGAAATAAGA 59.569 43.478 0.00 0.00 41.10 2.10
2942 3961 4.665897 GCGTTGTTCGGACAGAAATAAGAC 60.666 45.833 0.00 0.00 41.10 3.01
2943 3962 4.446385 CGTTGTTCGGACAGAAATAAGACA 59.554 41.667 0.00 0.00 41.10 3.41
2944 3963 5.611844 CGTTGTTCGGACAGAAATAAGACAC 60.612 44.000 0.00 0.00 41.10 3.67
2945 3964 5.209818 TGTTCGGACAGAAATAAGACACT 57.790 39.130 0.00 0.00 41.10 3.55
2946 3965 5.227908 TGTTCGGACAGAAATAAGACACTC 58.772 41.667 0.00 0.00 41.10 3.51
2947 3966 5.221362 TGTTCGGACAGAAATAAGACACTCA 60.221 40.000 0.00 0.00 41.10 3.41
2948 3967 5.462530 TCGGACAGAAATAAGACACTCAA 57.537 39.130 0.00 0.00 0.00 3.02
2949 3968 5.227908 TCGGACAGAAATAAGACACTCAAC 58.772 41.667 0.00 0.00 0.00 3.18
2950 3969 4.389077 CGGACAGAAATAAGACACTCAACC 59.611 45.833 0.00 0.00 0.00 3.77
2951 3970 4.389077 GGACAGAAATAAGACACTCAACCG 59.611 45.833 0.00 0.00 0.00 4.44
2952 3971 4.315803 ACAGAAATAAGACACTCAACCGG 58.684 43.478 0.00 0.00 0.00 5.28
2953 3972 3.125316 CAGAAATAAGACACTCAACCGGC 59.875 47.826 0.00 0.00 0.00 6.13
2954 3973 2.109425 AATAAGACACTCAACCGGCC 57.891 50.000 0.00 0.00 0.00 6.13
2955 3974 0.108329 ATAAGACACTCAACCGGCCG 60.108 55.000 21.04 21.04 0.00 6.13
2956 3975 2.775032 TAAGACACTCAACCGGCCGC 62.775 60.000 22.85 1.85 0.00 6.53
2957 3976 4.681978 GACACTCAACCGGCCGCT 62.682 66.667 22.85 2.01 0.00 5.52
2958 3977 4.681978 ACACTCAACCGGCCGCTC 62.682 66.667 22.85 0.00 0.00 5.03
2961 3980 4.697756 CTCAACCGGCCGCTCCAA 62.698 66.667 22.85 2.11 34.01 3.53
2962 3981 4.257654 TCAACCGGCCGCTCCAAA 62.258 61.111 22.85 0.00 34.01 3.28
2963 3982 4.038080 CAACCGGCCGCTCCAAAC 62.038 66.667 22.85 0.00 34.01 2.93
2969 3988 4.090057 GCCGCTCCAAACGCACTC 62.090 66.667 0.00 0.00 0.00 3.51
2970 3989 3.423154 CCGCTCCAAACGCACTCC 61.423 66.667 0.00 0.00 0.00 3.85
2971 3990 2.664851 CGCTCCAAACGCACTCCA 60.665 61.111 0.00 0.00 0.00 3.86
2972 3991 2.250939 CGCTCCAAACGCACTCCAA 61.251 57.895 0.00 0.00 0.00 3.53
2973 3992 1.781025 CGCTCCAAACGCACTCCAAA 61.781 55.000 0.00 0.00 0.00 3.28
2974 3993 0.317854 GCTCCAAACGCACTCCAAAC 60.318 55.000 0.00 0.00 0.00 2.93
2975 3994 0.041312 CTCCAAACGCACTCCAAACG 60.041 55.000 0.00 0.00 0.00 3.60
2976 3995 0.745128 TCCAAACGCACTCCAAACGT 60.745 50.000 0.00 0.00 42.81 3.99
2979 3998 3.615099 AACGCACTCCAAACGTTTG 57.385 47.368 29.80 29.80 46.96 2.93
3004 4023 5.446143 CTAACTAGCACCTCCATACTCAG 57.554 47.826 0.00 0.00 0.00 3.35
3005 4024 2.035632 ACTAGCACCTCCATACTCAGC 58.964 52.381 0.00 0.00 0.00 4.26
3006 4025 1.342819 CTAGCACCTCCATACTCAGCC 59.657 57.143 0.00 0.00 0.00 4.85
3007 4026 1.147153 GCACCTCCATACTCAGCCC 59.853 63.158 0.00 0.00 0.00 5.19
3008 4027 1.626356 GCACCTCCATACTCAGCCCA 61.626 60.000 0.00 0.00 0.00 5.36
3009 4028 1.135094 CACCTCCATACTCAGCCCAT 58.865 55.000 0.00 0.00 0.00 4.00
3010 4029 2.329267 CACCTCCATACTCAGCCCATA 58.671 52.381 0.00 0.00 0.00 2.74
3011 4030 2.909006 CACCTCCATACTCAGCCCATAT 59.091 50.000 0.00 0.00 0.00 1.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
110 115 3.389656 TCCAACTGACACCTCACACAATA 59.610 43.478 0.00 0.00 0.00 1.90
275 280 2.674796 ACCAGATTCAGCGACCTAAC 57.325 50.000 0.00 0.00 0.00 2.34
278 283 2.093973 CACTTACCAGATTCAGCGACCT 60.094 50.000 0.00 0.00 0.00 3.85
320 332 3.563808 CCATCGAAGACCTCAGAGTAGAG 59.436 52.174 0.00 0.00 42.51 2.43
332 344 1.275291 TCCCAGAACACCATCGAAGAC 59.725 52.381 0.00 0.00 42.51 3.01
376 388 0.381801 CGCAACCAGATTGGCCATAC 59.618 55.000 6.09 3.53 42.67 2.39
377 389 0.254462 TCGCAACCAGATTGGCCATA 59.746 50.000 6.09 0.00 42.67 2.74
384 396 0.400213 TCAACCCTCGCAACCAGATT 59.600 50.000 0.00 0.00 0.00 2.40
385 397 0.036010 CTCAACCCTCGCAACCAGAT 60.036 55.000 0.00 0.00 0.00 2.90
386 398 1.371183 CTCAACCCTCGCAACCAGA 59.629 57.895 0.00 0.00 0.00 3.86
387 399 0.535102 AACTCAACCCTCGCAACCAG 60.535 55.000 0.00 0.00 0.00 4.00
388 400 0.534203 GAACTCAACCCTCGCAACCA 60.534 55.000 0.00 0.00 0.00 3.67
389 401 1.566018 CGAACTCAACCCTCGCAACC 61.566 60.000 0.00 0.00 0.00 3.77
390 402 0.599204 TCGAACTCAACCCTCGCAAC 60.599 55.000 0.00 0.00 32.66 4.17
428 440 4.574013 AGCGCTTATGGAGAATCAAAGAAG 59.426 41.667 2.64 0.00 36.25 2.85
444 456 0.032952 ACTCAAACGACCAGCGCTTA 59.967 50.000 7.50 0.00 46.04 3.09
449 461 0.606604 TCCCTACTCAAACGACCAGC 59.393 55.000 0.00 0.00 0.00 4.85
450 462 1.893801 ACTCCCTACTCAAACGACCAG 59.106 52.381 0.00 0.00 0.00 4.00
453 502 3.350833 TCCTACTCCCTACTCAAACGAC 58.649 50.000 0.00 0.00 0.00 4.34
533 620 7.757624 ACATAAAGCACGACTTCTTTTGAAAAA 59.242 29.630 0.00 0.00 37.75 1.94
600 687 5.190992 ACTCCGTTTTTCCATAACAAACC 57.809 39.130 0.00 0.00 0.00 3.27
617 711 4.628074 TCTACAGGTTTCTTTGAACTCCG 58.372 43.478 0.00 0.00 0.00 4.63
621 715 3.364068 GCGCTCTACAGGTTTCTTTGAAC 60.364 47.826 0.00 0.00 0.00 3.18
679 785 6.264518 TCTCAAAGGGAACACATAAAACTTCC 59.735 38.462 0.00 0.00 32.75 3.46
711 817 2.021039 CAAACGCATGCCCCAAACG 61.021 57.895 13.15 0.00 0.00 3.60
712 818 0.667184 CTCAAACGCATGCCCCAAAC 60.667 55.000 13.15 0.00 0.00 2.93
764 877 8.619683 TGGATGGATGAACATCTATGATCTAT 57.380 34.615 16.09 0.00 45.11 1.98
765 878 8.619683 ATGGATGGATGAACATCTATGATCTA 57.380 34.615 16.09 10.03 44.26 1.98
766 879 6.947376 TGGATGGATGAACATCTATGATCT 57.053 37.500 16.09 0.00 45.11 2.75
767 880 9.848710 ATAATGGATGGATGAACATCTATGATC 57.151 33.333 16.09 11.01 44.90 2.92
768 881 9.848710 GATAATGGATGGATGAACATCTATGAT 57.151 33.333 16.09 4.42 44.90 2.45
769 882 8.270030 GGATAATGGATGGATGAACATCTATGA 58.730 37.037 16.09 5.51 44.90 2.15
770 883 7.501559 GGGATAATGGATGGATGAACATCTATG 59.498 40.741 16.09 0.00 44.90 2.23
811 924 1.808945 GTTGGTGCATCTCAAGACTGG 59.191 52.381 0.00 0.00 0.00 4.00
839 959 5.120053 GGAAAATTTGCATTTGGGTAGTTCG 59.880 40.000 0.00 0.00 32.57 3.95
884 1004 3.770625 TCTGCAAGAACACCGTCAA 57.229 47.368 0.00 0.00 42.31 3.18
926 1064 1.527433 GGGTTTTGAGCAGTCAGGGC 61.527 60.000 0.00 0.00 32.98 5.19
943 1081 2.442126 GAGGTAGGGGTTAAATGGAGGG 59.558 54.545 0.00 0.00 0.00 4.30
965 1103 2.100584 TGCACCGAAGTTGCTCAAATTT 59.899 40.909 0.00 0.00 0.00 1.82
1196 1334 4.054825 CGTGGCCATGGTGGTTGC 62.055 66.667 17.90 0.00 40.46 4.17
1458 1599 3.950794 GACCATCGGCGACTTGGCA 62.951 63.158 25.18 0.00 45.16 4.92
1508 1649 2.653953 CTTGGTGAACACGACCGGGT 62.654 60.000 6.32 0.00 36.12 5.28
1572 1713 1.152673 GGGGATGGGCTCCATGAAC 60.153 63.158 10.99 2.62 45.26 3.18
1633 1774 2.093288 GTGGATCATGCTTCTGGTCAGA 60.093 50.000 0.00 0.00 35.27 3.27
1659 1800 2.215196 ACTAAATTTGTGGCGTCACGT 58.785 42.857 16.50 1.92 46.42 4.49
1663 1804 2.224784 ACGGAACTAAATTTGTGGCGTC 59.775 45.455 0.00 0.00 0.00 5.19
1678 1821 1.076332 CCAGGACGATGAAACGGAAC 58.924 55.000 0.00 0.00 37.61 3.62
1681 1824 1.665679 CAATCCAGGACGATGAAACGG 59.334 52.381 0.00 0.00 37.61 4.44
1682 1825 2.616960 TCAATCCAGGACGATGAAACG 58.383 47.619 0.00 0.00 39.31 3.60
1683 1826 4.635765 TCAATCAATCCAGGACGATGAAAC 59.364 41.667 4.27 0.00 0.00 2.78
1685 1828 4.486125 TCAATCAATCCAGGACGATGAA 57.514 40.909 4.27 0.00 0.00 2.57
1686 1829 4.694760 ATCAATCAATCCAGGACGATGA 57.305 40.909 4.27 4.31 0.00 2.92
1687 1830 4.556104 GCAATCAATCAATCCAGGACGATG 60.556 45.833 4.27 0.00 0.00 3.84
1688 1831 3.567164 GCAATCAATCAATCCAGGACGAT 59.433 43.478 0.00 0.00 0.00 3.73
1691 1834 4.931661 ATGCAATCAATCAATCCAGGAC 57.068 40.909 0.00 0.00 0.00 3.85
1713 1856 2.330440 TCAGTCTTTCAGCAACAGCA 57.670 45.000 0.00 0.00 0.00 4.41
1715 1858 3.611517 CGTTTCAGTCTTTCAGCAACAG 58.388 45.455 0.00 0.00 0.00 3.16
1727 1870 1.955762 GCAGTTCATGCGTTTCAGTC 58.044 50.000 0.00 0.00 46.99 3.51
1794 1937 0.247974 GTAGTCGACGTCGTCCATGG 60.248 60.000 34.40 4.97 40.80 3.66
1840 1995 4.785453 CTGTCCCCGCCTTCCAGC 62.785 72.222 0.00 0.00 0.00 4.85
1899 2054 0.182061 GAAGATGCCCAGGCTGATGA 59.818 55.000 17.94 0.00 42.51 2.92
2014 2169 2.045438 TGGAATGCCGCCGTTCAT 60.045 55.556 0.33 0.00 38.47 2.57
2022 2177 0.514255 CGTGATATGCTGGAATGCCG 59.486 55.000 0.00 0.00 36.79 5.69
2023 2178 0.877071 CCGTGATATGCTGGAATGCC 59.123 55.000 0.00 0.00 0.00 4.40
2036 2191 3.790437 CCCAGCTGGCTCCGTGAT 61.790 66.667 28.39 0.00 0.00 3.06
2049 2204 3.664495 CAGAGTTGCTGTGCCCAG 58.336 61.111 0.00 0.00 39.85 4.45
2067 2222 0.039437 GCGTCACGTCTGGAGAGAAA 60.039 55.000 0.00 0.00 0.00 2.52
2073 2228 4.050934 ATGCGCGTCACGTCTGGA 62.051 61.111 8.43 0.00 46.11 3.86
2089 2244 4.469227 AGCAGACAACAGAGTAATCTCCAT 59.531 41.667 0.00 0.00 41.26 3.41
2092 2248 4.081972 TCCAGCAGACAACAGAGTAATCTC 60.082 45.833 0.00 0.00 40.70 2.75
2093 2249 3.834813 TCCAGCAGACAACAGAGTAATCT 59.165 43.478 0.00 0.00 0.00 2.40
2094 2250 4.193826 TCCAGCAGACAACAGAGTAATC 57.806 45.455 0.00 0.00 0.00 1.75
2095 2251 4.019860 ACATCCAGCAGACAACAGAGTAAT 60.020 41.667 0.00 0.00 0.00 1.89
2097 2253 2.899900 ACATCCAGCAGACAACAGAGTA 59.100 45.455 0.00 0.00 0.00 2.59
2098 2254 1.696336 ACATCCAGCAGACAACAGAGT 59.304 47.619 0.00 0.00 0.00 3.24
2099 2255 2.074576 CACATCCAGCAGACAACAGAG 58.925 52.381 0.00 0.00 0.00 3.35
2100 2256 1.417517 ACACATCCAGCAGACAACAGA 59.582 47.619 0.00 0.00 0.00 3.41
2101 2257 1.534163 CACACATCCAGCAGACAACAG 59.466 52.381 0.00 0.00 0.00 3.16
2102 2258 1.134128 ACACACATCCAGCAGACAACA 60.134 47.619 0.00 0.00 0.00 3.33
2103 2259 1.265095 CACACACATCCAGCAGACAAC 59.735 52.381 0.00 0.00 0.00 3.32
2104 2260 1.134128 ACACACACATCCAGCAGACAA 60.134 47.619 0.00 0.00 0.00 3.18
2105 2261 0.469494 ACACACACATCCAGCAGACA 59.531 50.000 0.00 0.00 0.00 3.41
2106 2262 2.069273 GTACACACACATCCAGCAGAC 58.931 52.381 0.00 0.00 0.00 3.51
2121 2277 0.396811 ACAGGCAGAAGGGTGTACAC 59.603 55.000 18.01 18.01 0.00 2.90
2126 2282 5.808366 TCTATATAACAGGCAGAAGGGTG 57.192 43.478 0.00 0.00 0.00 4.61
2128 2284 5.071788 TGGTTCTATATAACAGGCAGAAGGG 59.928 44.000 3.69 0.00 0.00 3.95
2132 2288 7.907841 TTAGTGGTTCTATATAACAGGCAGA 57.092 36.000 3.69 0.00 0.00 4.26
2148 2304 9.057089 GCATTCTTAGTAGCAATATTAGTGGTT 57.943 33.333 0.82 0.00 0.00 3.67
2149 2305 8.432805 AGCATTCTTAGTAGCAATATTAGTGGT 58.567 33.333 1.24 1.24 0.00 4.16
2151 2307 8.226448 GCAGCATTCTTAGTAGCAATATTAGTG 58.774 37.037 0.00 0.00 0.00 2.74
2154 2310 7.933577 ACTGCAGCATTCTTAGTAGCAATATTA 59.066 33.333 15.27 0.00 0.00 0.98
2155 2311 6.769822 ACTGCAGCATTCTTAGTAGCAATATT 59.230 34.615 15.27 0.00 0.00 1.28
2156 2312 6.294473 ACTGCAGCATTCTTAGTAGCAATAT 58.706 36.000 15.27 0.00 0.00 1.28
2157 2313 5.674525 ACTGCAGCATTCTTAGTAGCAATA 58.325 37.500 15.27 0.00 0.00 1.90
2158 2314 4.521146 ACTGCAGCATTCTTAGTAGCAAT 58.479 39.130 15.27 0.00 0.00 3.56
2166 3166 1.078709 GCACGACTGCAGCATTCTTA 58.921 50.000 15.27 0.00 43.62 2.10
2277 3277 6.369615 TCTCGTGTTATATAGCAGTATACGCA 59.630 38.462 17.70 7.81 0.00 5.24
2303 3307 4.994217 TGTTCTTAACAGCACAATCGATGA 59.006 37.500 0.00 0.00 36.25 2.92
2319 3323 5.912892 TGGACGATATTGCATCTGTTCTTA 58.087 37.500 0.00 0.00 0.00 2.10
2338 3342 0.743345 AAGCGGGCTAAACGATGGAC 60.743 55.000 0.00 0.00 0.00 4.02
2344 3348 1.003545 CATGATGAAGCGGGCTAAACG 60.004 52.381 0.00 0.00 0.00 3.60
2365 3369 1.078918 CCTCCTCAGCGTGCATCAA 60.079 57.895 0.00 0.00 0.00 2.57
2366 3370 1.953231 CTCCTCCTCAGCGTGCATCA 61.953 60.000 0.00 0.00 0.00 3.07
2375 3379 4.567385 GCGCGCTCTCCTCCTCAG 62.567 72.222 26.67 0.00 0.00 3.35
2461 3477 1.907936 CATCCCCATCTCCATCTCTCC 59.092 57.143 0.00 0.00 0.00 3.71
2463 3479 1.132462 AGCATCCCCATCTCCATCTCT 60.132 52.381 0.00 0.00 0.00 3.10
2577 3593 1.219124 GAGCATCCTGACCGCTTGA 59.781 57.895 0.00 0.00 35.75 3.02
2595 3611 3.616721 CGGGCGAGTATCCCCCAG 61.617 72.222 0.70 0.00 41.07 4.45
2633 3649 3.006706 CCGATTCTTCGCCTTCGC 58.993 61.111 0.00 0.00 44.12 4.70
2639 3655 3.929948 CTGGCGCCGATTCTTCGC 61.930 66.667 23.90 9.84 44.12 4.70
2671 3687 2.922234 CCTCCTCCCATTCCCAGC 59.078 66.667 0.00 0.00 0.00 4.85
2672 3688 2.922234 GCCTCCTCCCATTCCCAG 59.078 66.667 0.00 0.00 0.00 4.45
2673 3689 3.089874 CGCCTCCTCCCATTCCCA 61.090 66.667 0.00 0.00 0.00 4.37
2674 3690 3.878667 CCGCCTCCTCCCATTCCC 61.879 72.222 0.00 0.00 0.00 3.97
2681 3697 3.148279 ATGACGACCGCCTCCTCC 61.148 66.667 0.00 0.00 0.00 4.30
2697 3713 4.414956 TCAGGGTCCGGCCTCCAT 62.415 66.667 13.58 3.54 37.43 3.41
2755 3771 6.772716 ACCTTCATCAGCTACAAAGAAGAAAA 59.227 34.615 12.41 0.00 35.67 2.29
2759 3775 7.201679 CCAATACCTTCATCAGCTACAAAGAAG 60.202 40.741 0.00 0.00 33.96 2.85
2766 3782 5.163405 TGTCTCCAATACCTTCATCAGCTAC 60.163 44.000 0.00 0.00 0.00 3.58
2768 3784 3.776969 TGTCTCCAATACCTTCATCAGCT 59.223 43.478 0.00 0.00 0.00 4.24
2775 3791 3.199946 TCCCATGTGTCTCCAATACCTTC 59.800 47.826 0.00 0.00 0.00 3.46
2789 3805 3.216800 CACATACCCTGAATCCCATGTG 58.783 50.000 0.00 0.00 37.85 3.21
2794 3810 2.643551 CACACACATACCCTGAATCCC 58.356 52.381 0.00 0.00 0.00 3.85
2795 3811 2.017049 GCACACACATACCCTGAATCC 58.983 52.381 0.00 0.00 0.00 3.01
2804 3820 3.058570 TCAAAATCCACGCACACACATAC 60.059 43.478 0.00 0.00 0.00 2.39
2878 3897 6.878923 CCACCATAGAACAACTGAACAAGATA 59.121 38.462 0.00 0.00 0.00 1.98
2896 3915 1.067295 GATGGCTGGATCCCACCATA 58.933 55.000 27.35 8.65 41.70 2.74
2899 3918 2.349100 CTGGATGGCTGGATCCCACC 62.349 65.000 9.90 11.31 41.31 4.61
2900 3919 1.150081 CTGGATGGCTGGATCCCAC 59.850 63.158 9.90 0.20 41.31 4.61
2901 3920 2.080536 CCTGGATGGCTGGATCCCA 61.081 63.158 9.90 0.00 41.31 4.37
2902 3921 2.842058 CCTGGATGGCTGGATCCC 59.158 66.667 9.90 0.00 41.31 3.85
2911 3930 2.398554 CCGAACAACGCCTGGATGG 61.399 63.158 0.00 0.00 41.07 3.51
2912 3931 1.375396 TCCGAACAACGCCTGGATG 60.375 57.895 0.00 0.00 41.07 3.51
2913 3932 1.375523 GTCCGAACAACGCCTGGAT 60.376 57.895 0.00 0.00 41.07 3.41
2914 3933 2.029964 GTCCGAACAACGCCTGGA 59.970 61.111 0.00 0.00 41.07 3.86
2915 3934 2.280524 TGTCCGAACAACGCCTGG 60.281 61.111 0.00 0.00 41.07 4.45
2916 3935 0.878523 TTCTGTCCGAACAACGCCTG 60.879 55.000 0.00 0.00 41.07 4.85
2917 3936 0.179067 TTTCTGTCCGAACAACGCCT 60.179 50.000 0.00 0.00 41.07 5.52
2918 3937 0.872388 ATTTCTGTCCGAACAACGCC 59.128 50.000 0.00 0.00 41.07 5.68
2919 3938 3.430895 TCTTATTTCTGTCCGAACAACGC 59.569 43.478 0.00 0.00 41.07 4.84
2920 3939 4.446385 TGTCTTATTTCTGTCCGAACAACG 59.554 41.667 0.00 0.00 42.18 4.10
2921 3940 5.465724 AGTGTCTTATTTCTGTCCGAACAAC 59.534 40.000 0.00 0.00 34.24 3.32
2922 3941 5.607477 AGTGTCTTATTTCTGTCCGAACAA 58.393 37.500 0.00 0.00 34.24 2.83
2923 3942 5.209818 AGTGTCTTATTTCTGTCCGAACA 57.790 39.130 0.00 0.00 0.00 3.18
2924 3943 5.227908 TGAGTGTCTTATTTCTGTCCGAAC 58.772 41.667 0.00 0.00 0.00 3.95
2925 3944 5.462530 TGAGTGTCTTATTTCTGTCCGAA 57.537 39.130 0.00 0.00 0.00 4.30
2926 3945 5.227908 GTTGAGTGTCTTATTTCTGTCCGA 58.772 41.667 0.00 0.00 0.00 4.55
2927 3946 4.389077 GGTTGAGTGTCTTATTTCTGTCCG 59.611 45.833 0.00 0.00 0.00 4.79
2928 3947 4.389077 CGGTTGAGTGTCTTATTTCTGTCC 59.611 45.833 0.00 0.00 0.00 4.02
2929 3948 4.389077 CCGGTTGAGTGTCTTATTTCTGTC 59.611 45.833 0.00 0.00 0.00 3.51
2930 3949 4.315803 CCGGTTGAGTGTCTTATTTCTGT 58.684 43.478 0.00 0.00 0.00 3.41
2931 3950 3.125316 GCCGGTTGAGTGTCTTATTTCTG 59.875 47.826 1.90 0.00 0.00 3.02
2932 3951 3.335579 GCCGGTTGAGTGTCTTATTTCT 58.664 45.455 1.90 0.00 0.00 2.52
2933 3952 2.418976 GGCCGGTTGAGTGTCTTATTTC 59.581 50.000 1.90 0.00 0.00 2.17
2934 3953 2.433436 GGCCGGTTGAGTGTCTTATTT 58.567 47.619 1.90 0.00 0.00 1.40
2935 3954 1.674817 CGGCCGGTTGAGTGTCTTATT 60.675 52.381 20.10 0.00 0.00 1.40
2936 3955 0.108329 CGGCCGGTTGAGTGTCTTAT 60.108 55.000 20.10 0.00 0.00 1.73
2937 3956 1.290955 CGGCCGGTTGAGTGTCTTA 59.709 57.895 20.10 0.00 0.00 2.10
2938 3957 2.030562 CGGCCGGTTGAGTGTCTT 59.969 61.111 20.10 0.00 0.00 3.01
2939 3958 4.681978 GCGGCCGGTTGAGTGTCT 62.682 66.667 29.38 0.00 0.00 3.41
2940 3959 4.681978 AGCGGCCGGTTGAGTGTC 62.682 66.667 26.97 4.50 0.00 3.67
2941 3960 4.681978 GAGCGGCCGGTTGAGTGT 62.682 66.667 32.91 0.00 0.00 3.55
2944 3963 4.697756 TTGGAGCGGCCGGTTGAG 62.698 66.667 32.91 0.00 40.66 3.02
2945 3964 4.257654 TTTGGAGCGGCCGGTTGA 62.258 61.111 32.91 18.20 40.66 3.18
2946 3965 4.038080 GTTTGGAGCGGCCGGTTG 62.038 66.667 32.91 0.00 40.66 3.77
2952 3971 4.090057 GAGTGCGTTTGGAGCGGC 62.090 66.667 0.00 0.00 37.44 6.53
2953 3972 3.423154 GGAGTGCGTTTGGAGCGG 61.423 66.667 0.00 0.00 37.44 5.52
2954 3973 1.781025 TTTGGAGTGCGTTTGGAGCG 61.781 55.000 0.00 0.00 37.44 5.03
2955 3974 0.317854 GTTTGGAGTGCGTTTGGAGC 60.318 55.000 0.00 0.00 0.00 4.70
2956 3975 0.041312 CGTTTGGAGTGCGTTTGGAG 60.041 55.000 0.00 0.00 0.00 3.86
2957 3976 0.745128 ACGTTTGGAGTGCGTTTGGA 60.745 50.000 0.00 0.00 35.11 3.53
2958 3977 0.099791 AACGTTTGGAGTGCGTTTGG 59.900 50.000 0.00 0.00 44.89 3.28
2959 3978 3.615099 AACGTTTGGAGTGCGTTTG 57.385 47.368 0.00 0.00 44.89 2.93
2970 3989 3.197434 GCTAGTTAGCCCAAACGTTTG 57.803 47.619 29.80 29.80 43.39 2.93
2982 4001 4.261825 GCTGAGTATGGAGGTGCTAGTTAG 60.262 50.000 0.00 0.00 0.00 2.34
2983 4002 3.637229 GCTGAGTATGGAGGTGCTAGTTA 59.363 47.826 0.00 0.00 0.00 2.24
2984 4003 2.432510 GCTGAGTATGGAGGTGCTAGTT 59.567 50.000 0.00 0.00 0.00 2.24
2985 4004 2.035632 GCTGAGTATGGAGGTGCTAGT 58.964 52.381 0.00 0.00 0.00 2.57
2986 4005 1.342819 GGCTGAGTATGGAGGTGCTAG 59.657 57.143 0.00 0.00 0.00 3.42
2987 4006 1.414158 GGCTGAGTATGGAGGTGCTA 58.586 55.000 0.00 0.00 0.00 3.49
2988 4007 1.341156 GGGCTGAGTATGGAGGTGCT 61.341 60.000 0.00 0.00 0.00 4.40
2989 4008 1.147153 GGGCTGAGTATGGAGGTGC 59.853 63.158 0.00 0.00 0.00 5.01
2990 4009 1.135094 ATGGGCTGAGTATGGAGGTG 58.865 55.000 0.00 0.00 0.00 4.00
2991 4010 2.795291 TATGGGCTGAGTATGGAGGT 57.205 50.000 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.