Multiple sequence alignment - TraesCS4A01G174100

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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 TraesCS4A01G174100 chr4A 100.000 2685 0 0 1 2685 444158667 444155983 0.000000e+00 4959.0
1 TraesCS4A01G174100 chr4D 94.161 1353 60 11 907 2246 126217020 126218366 0.000000e+00 2043.0
2 TraesCS4A01G174100 chr4D 92.255 439 18 6 2249 2685 126218514 126218938 2.290000e-170 608.0
3 TraesCS4A01G174100 chr4D 96.194 289 7 2 1 285 126216404 126216692 1.130000e-128 470.0
4 TraesCS4A01G174100 chr4D 88.796 357 29 7 300 650 126216677 126217028 6.870000e-116 427.0
5 TraesCS4A01G174100 chr4D 82.986 288 37 9 1932 2213 116786241 116785960 1.600000e-62 250.0
6 TraesCS4A01G174100 chr4D 86.709 158 13 6 2533 2685 371840216 371840370 4.600000e-38 169.0
7 TraesCS4A01G174100 chr4B 94.192 637 25 3 907 1532 190170405 190171040 0.000000e+00 961.0
8 TraesCS4A01G174100 chr4B 95.984 249 9 1 38 285 190166669 190166421 1.160000e-108 403.0
9 TraesCS4A01G174100 chr4B 80.444 450 70 16 1777 2222 190180712 190181147 7.170000e-86 327.0
10 TraesCS4A01G174100 chr4B 85.113 309 33 6 350 650 190170110 190170413 1.210000e-78 303.0
11 TraesCS4A01G174100 chr4B 88.793 232 22 4 2456 2685 190181715 190181944 5.660000e-72 281.0
12 TraesCS4A01G174100 chr4B 85.019 267 21 5 1528 1775 190173559 190173825 1.230000e-63 254.0
13 TraesCS4A01G174100 chr4B 94.156 154 9 0 2299 2452 190181496 190181649 4.470000e-58 235.0
14 TraesCS4A01G174100 chr4B 93.151 73 5 0 350 422 190168371 190168443 1.020000e-19 108.0
15 TraesCS4A01G174100 chr4B 100.000 50 0 0 300 349 190166436 190166387 2.850000e-15 93.5
16 TraesCS4A01G174100 chr4B 100.000 39 0 0 1 39 190168299 190168261 3.710000e-09 73.1
17 TraesCS4A01G174100 chr4B 100.000 39 0 0 1 39 190170038 190170000 3.710000e-09 73.1
18 TraesCS4A01G174100 chr5A 92.193 269 20 1 642 909 328942641 328942909 1.950000e-101 379.0
19 TraesCS4A01G174100 chr5A 83.708 178 21 7 2512 2684 244457899 244458073 7.690000e-36 161.0
20 TraesCS4A01G174100 chr1A 91.791 268 22 0 642 909 56885434 56885701 9.080000e-100 374.0
21 TraesCS4A01G174100 chr1A 80.386 311 45 14 1866 2165 21276008 21275703 3.480000e-54 222.0
22 TraesCS4A01G174100 chr7A 90.714 280 24 2 628 907 729573842 729574119 3.260000e-99 372.0
23 TraesCS4A01G174100 chr3D 91.481 270 23 0 642 911 109257675 109257944 3.260000e-99 372.0
24 TraesCS4A01G174100 chr3A 91.418 268 23 0 644 911 352501191 352500924 4.220000e-98 368.0
25 TraesCS4A01G174100 chr3B 90.441 272 25 1 639 909 735258446 735258175 9.140000e-95 357.0
26 TraesCS4A01G174100 chr3B 80.456 307 39 16 1866 2165 661995594 661995302 5.820000e-52 215.0
27 TraesCS4A01G174100 chr7D 90.637 267 25 0 641 907 133332956 133333222 3.290000e-94 355.0
28 TraesCS4A01G174100 chr7D 84.100 239 29 8 1935 2165 607049212 607048975 3.480000e-54 222.0
29 TraesCS4A01G174100 chr7B 90.299 268 25 1 642 909 388900447 388900181 1.530000e-92 350.0
30 TraesCS4A01G174100 chr7B 88.514 148 9 8 2543 2685 3186360 3186216 3.550000e-39 172.0
31 TraesCS4A01G174100 chr2B 89.744 273 28 0 639 911 26284044 26284316 1.530000e-92 350.0
32 TraesCS4A01G174100 chr1B 77.317 410 56 21 1857 2246 655310890 655311282 9.740000e-50 207.0
33 TraesCS4A01G174100 chr1B 87.097 155 18 2 2533 2685 640444511 640444665 9.880000e-40 174.0
34 TraesCS4A01G174100 chr2A 87.578 161 11 8 2530 2685 1861520 1861676 7.640000e-41 178.0
35 TraesCS4A01G174100 chr6B 81.333 225 32 8 1948 2165 49001386 49001607 9.880000e-40 174.0
36 TraesCS4A01G174100 chr6B 82.550 149 19 5 2021 2165 148067020 148066875 1.010000e-24 124.0
37 TraesCS4A01G174100 chr5B 81.735 219 28 11 1954 2165 411786820 411787033 3.550000e-39 172.0
38 TraesCS4A01G174100 chr2D 87.261 157 13 6 2532 2685 95777517 95777669 3.550000e-39 172.0
39 TraesCS4A01G174100 chr2D 86.709 158 13 6 2533 2685 551866142 551866296 4.600000e-38 169.0


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 TraesCS4A01G174100 chr4A 444155983 444158667 2684 True 4959.0 4959 100.000000 1 2685 1 chr4A.!!$R1 2684
1 TraesCS4A01G174100 chr4D 126216404 126218938 2534 False 887.0 2043 92.851500 1 2685 4 chr4D.!!$F2 2684
2 TraesCS4A01G174100 chr4B 190168371 190173825 5454 False 406.5 961 89.368750 350 1775 4 chr4B.!!$F1 1425
3 TraesCS4A01G174100 chr4B 190180712 190181944 1232 False 281.0 327 87.797667 1777 2685 3 chr4B.!!$F2 908

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
613 2022 0.185175 AAACCACCTTGACCCTGACC 59.815 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2219 6185 0.250209 GGCTCATCTGCATCCACGAT 60.25 55.0 0.0 0.0 34.04 3.73 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
40 41 3.554934 ACCACACGGTATAGGACGATAA 58.445 45.455 0.00 0.00 46.71 1.75
158 159 1.525197 TCAATGCAAGTCGTTCGTCAC 59.475 47.619 0.00 0.00 0.00 3.67
182 183 6.039159 ACTGGCGGTACTATACTAGTCTTTTC 59.961 42.308 0.00 0.00 40.14 2.29
183 184 6.125029 TGGCGGTACTATACTAGTCTTTTCT 58.875 40.000 0.00 0.00 40.14 2.52
186 187 7.013178 GGCGGTACTATACTAGTCTTTTCTTCT 59.987 40.741 0.00 0.00 40.14 2.85
187 188 7.856894 GCGGTACTATACTAGTCTTTTCTTCTG 59.143 40.741 0.00 0.00 40.14 3.02
188 189 7.856894 CGGTACTATACTAGTCTTTTCTTCTGC 59.143 40.741 0.00 0.00 40.14 4.26
189 190 8.684520 GGTACTATACTAGTCTTTTCTTCTGCA 58.315 37.037 0.00 0.00 40.14 4.41
192 193 4.965200 ACTAGTCTTTTCTTCTGCAGGT 57.035 40.909 15.13 0.00 0.00 4.00
194 195 5.785243 ACTAGTCTTTTCTTCTGCAGGTAC 58.215 41.667 15.13 1.19 0.00 3.34
195 196 4.965200 AGTCTTTTCTTCTGCAGGTACT 57.035 40.909 15.13 3.46 43.88 2.73
276 281 4.226168 AGCTATTCCTGGCTAGAAACAAGT 59.774 41.667 0.00 0.00 37.45 3.16
278 283 2.859165 TCCTGGCTAGAAACAAGTGG 57.141 50.000 0.00 0.00 0.00 4.00
279 284 2.334977 TCCTGGCTAGAAACAAGTGGA 58.665 47.619 0.00 0.00 0.00 4.02
280 285 2.303022 TCCTGGCTAGAAACAAGTGGAG 59.697 50.000 0.00 0.00 0.00 3.86
281 286 2.303022 CCTGGCTAGAAACAAGTGGAGA 59.697 50.000 0.00 0.00 0.00 3.71
282 287 3.244561 CCTGGCTAGAAACAAGTGGAGAA 60.245 47.826 0.00 0.00 0.00 2.87
283 288 4.566488 CCTGGCTAGAAACAAGTGGAGAAT 60.566 45.833 0.00 0.00 0.00 2.40
284 289 5.338381 CCTGGCTAGAAACAAGTGGAGAATA 60.338 44.000 0.00 0.00 0.00 1.75
285 290 6.121776 TGGCTAGAAACAAGTGGAGAATAA 57.878 37.500 0.00 0.00 0.00 1.40
286 291 6.721318 TGGCTAGAAACAAGTGGAGAATAAT 58.279 36.000 0.00 0.00 0.00 1.28
287 292 6.599244 TGGCTAGAAACAAGTGGAGAATAATG 59.401 38.462 0.00 0.00 0.00 1.90
290 295 3.764885 AACAAGTGGAGAATAATGCGC 57.235 42.857 0.00 0.00 0.00 6.09
291 296 2.710377 ACAAGTGGAGAATAATGCGCA 58.290 42.857 14.96 14.96 0.00 6.09
292 297 3.081061 ACAAGTGGAGAATAATGCGCAA 58.919 40.909 17.11 0.00 0.00 4.85
294 299 4.022416 ACAAGTGGAGAATAATGCGCAAAA 60.022 37.500 17.11 5.69 0.00 2.44
295 300 4.782019 AGTGGAGAATAATGCGCAAAAA 57.218 36.364 17.11 2.50 0.00 1.94
350 355 4.006989 ACGCTTAAGTGTTTCCATATGCA 58.993 39.130 15.91 0.00 34.75 3.96
351 356 4.094887 ACGCTTAAGTGTTTCCATATGCAG 59.905 41.667 15.91 0.00 34.75 4.41
353 358 5.335127 GCTTAAGTGTTTCCATATGCAGTG 58.665 41.667 4.02 0.00 0.00 3.66
354 359 5.677091 GCTTAAGTGTTTCCATATGCAGTGG 60.677 44.000 13.38 13.38 38.11 4.00
355 360 2.094675 AGTGTTTCCATATGCAGTGGC 58.905 47.619 14.47 3.76 36.66 5.01
393 1784 5.121768 AGCTTACCAACACGTCATTATTCAC 59.878 40.000 0.00 0.00 0.00 3.18
412 1803 0.635731 CACGTCGCTTCAAGATCGTC 59.364 55.000 0.00 0.00 0.00 4.20
480 1871 1.075542 CGTCGGATGCAAAGCACTTA 58.924 50.000 0.00 0.00 43.04 2.24
483 1874 1.804151 TCGGATGCAAAGCACTTACAC 59.196 47.619 0.00 0.00 43.04 2.90
485 1876 1.135689 GGATGCAAAGCACTTACACCG 60.136 52.381 0.00 0.00 43.04 4.94
495 1889 1.719246 CACTTACACCGATGTGACGTG 59.281 52.381 0.00 0.00 45.76 4.49
499 1893 1.300620 CACCGATGTGACGTGGTGT 60.301 57.895 11.32 0.00 45.76 4.16
505 1899 1.221466 ATGTGACGTGGTGTTCGCTG 61.221 55.000 0.00 0.00 0.00 5.18
506 1900 2.964925 TGACGTGGTGTTCGCTGC 60.965 61.111 0.00 0.00 0.00 5.25
507 1901 4.059459 GACGTGGTGTTCGCTGCG 62.059 66.667 17.25 17.25 0.00 5.18
509 1911 4.059459 CGTGGTGTTCGCTGCGTC 62.059 66.667 22.48 16.05 0.00 5.19
523 1925 2.016704 GCGTCACGAGCGGGATATG 61.017 63.158 0.00 0.00 0.00 1.78
528 1930 1.335810 TCACGAGCGGGATATGTACAC 59.664 52.381 0.00 0.00 0.00 2.90
529 1931 0.309922 ACGAGCGGGATATGTACACG 59.690 55.000 0.00 0.00 37.22 4.49
530 1932 0.589708 CGAGCGGGATATGTACACGA 59.410 55.000 0.00 0.00 36.15 4.35
531 1933 1.199327 CGAGCGGGATATGTACACGAT 59.801 52.381 0.00 0.00 36.15 3.73
532 1934 2.351447 CGAGCGGGATATGTACACGATT 60.351 50.000 0.00 0.00 36.15 3.34
533 1935 3.243336 GAGCGGGATATGTACACGATTC 58.757 50.000 0.00 0.00 36.15 2.52
534 1936 2.029290 AGCGGGATATGTACACGATTCC 60.029 50.000 0.00 2.03 36.15 3.01
535 1937 2.929592 GCGGGATATGTACACGATTCCC 60.930 54.545 18.04 18.04 39.57 3.97
536 1938 2.353406 CGGGATATGTACACGATTCCCC 60.353 54.545 20.40 13.64 39.77 4.81
537 1939 2.353406 GGGATATGTACACGATTCCCCG 60.353 54.545 17.54 0.00 37.43 5.73
564 1966 1.800681 GAGCACGGAAATTTCGGGG 59.199 57.895 24.42 22.53 34.42 5.73
572 1974 1.531739 GAAATTTCGGGGCTGCCACA 61.532 55.000 22.72 5.28 0.00 4.17
576 1978 3.918253 TTCGGGGCTGCCACATGTC 62.918 63.158 22.72 1.34 0.00 3.06
589 1991 1.536766 CACATGTCCGAACACTTGCAT 59.463 47.619 0.00 0.00 38.48 3.96
608 2017 3.119137 GCATTCATAAACCACCTTGACCC 60.119 47.826 0.00 0.00 0.00 4.46
613 2022 0.185175 AAACCACCTTGACCCTGACC 59.815 55.000 0.00 0.00 0.00 4.02
637 2046 3.682377 TCGTCAACGTTATACTCGTGGTA 59.318 43.478 0.00 0.00 41.38 3.25
641 2050 6.510157 CGTCAACGTTATACTCGTGGTAGTAT 60.510 42.308 0.00 0.00 41.38 2.12
642 2051 7.189512 GTCAACGTTATACTCGTGGTAGTATT 58.810 38.462 0.00 0.00 41.71 1.89
643 2052 8.335356 GTCAACGTTATACTCGTGGTAGTATTA 58.665 37.037 0.00 0.00 41.71 0.98
644 2053 8.551205 TCAACGTTATACTCGTGGTAGTATTAG 58.449 37.037 0.00 0.00 41.71 1.73
645 2054 7.426929 ACGTTATACTCGTGGTAGTATTAGG 57.573 40.000 2.15 2.54 41.71 2.69
646 2055 6.992715 ACGTTATACTCGTGGTAGTATTAGGT 59.007 38.462 2.15 3.08 41.71 3.08
647 2056 7.499232 ACGTTATACTCGTGGTAGTATTAGGTT 59.501 37.037 2.15 0.00 41.71 3.50
648 2057 8.988934 CGTTATACTCGTGGTAGTATTAGGTTA 58.011 37.037 2.15 0.00 41.71 2.85
651 2060 6.934048 ACTCGTGGTAGTATTAGGTTAGTC 57.066 41.667 0.00 0.00 0.00 2.59
652 2061 6.418101 ACTCGTGGTAGTATTAGGTTAGTCA 58.582 40.000 0.00 0.00 0.00 3.41
653 2062 7.059156 ACTCGTGGTAGTATTAGGTTAGTCAT 58.941 38.462 0.00 0.00 0.00 3.06
654 2063 8.213679 ACTCGTGGTAGTATTAGGTTAGTCATA 58.786 37.037 0.00 0.00 0.00 2.15
655 2064 8.613060 TCGTGGTAGTATTAGGTTAGTCATAG 57.387 38.462 0.00 0.00 0.00 2.23
656 2065 8.213679 TCGTGGTAGTATTAGGTTAGTCATAGT 58.786 37.037 0.00 0.00 0.00 2.12
657 2066 8.288208 CGTGGTAGTATTAGGTTAGTCATAGTG 58.712 40.741 0.00 0.00 0.00 2.74
658 2067 8.574737 GTGGTAGTATTAGGTTAGTCATAGTGG 58.425 40.741 0.00 0.00 0.00 4.00
659 2068 8.505246 TGGTAGTATTAGGTTAGTCATAGTGGA 58.495 37.037 0.00 0.00 0.00 4.02
660 2069 9.359653 GGTAGTATTAGGTTAGTCATAGTGGAA 57.640 37.037 0.00 0.00 0.00 3.53
666 2075 8.890410 TTAGGTTAGTCATAGTGGAAGTAACT 57.110 34.615 0.00 0.00 0.00 2.24
667 2076 7.793948 AGGTTAGTCATAGTGGAAGTAACTT 57.206 36.000 0.00 0.00 0.00 2.66
668 2077 8.890410 AGGTTAGTCATAGTGGAAGTAACTTA 57.110 34.615 0.00 0.00 0.00 2.24
669 2078 8.968969 AGGTTAGTCATAGTGGAAGTAACTTAG 58.031 37.037 0.00 0.00 0.00 2.18
670 2079 7.705752 GGTTAGTCATAGTGGAAGTAACTTAGC 59.294 40.741 0.00 0.00 0.00 3.09
671 2080 6.852420 AGTCATAGTGGAAGTAACTTAGCA 57.148 37.500 0.00 0.00 0.00 3.49
672 2081 7.241042 AGTCATAGTGGAAGTAACTTAGCAA 57.759 36.000 0.00 0.00 0.00 3.91
673 2082 7.324178 AGTCATAGTGGAAGTAACTTAGCAAG 58.676 38.462 0.00 0.00 0.00 4.01
674 2083 7.038941 AGTCATAGTGGAAGTAACTTAGCAAGT 60.039 37.037 0.00 0.00 45.46 3.16
675 2084 8.248945 GTCATAGTGGAAGTAACTTAGCAAGTA 58.751 37.037 2.60 0.00 41.91 2.24
676 2085 8.809066 TCATAGTGGAAGTAACTTAGCAAGTAA 58.191 33.333 2.60 0.00 41.91 2.24
677 2086 8.870879 CATAGTGGAAGTAACTTAGCAAGTAAC 58.129 37.037 2.60 0.00 41.91 2.50
678 2087 6.823497 AGTGGAAGTAACTTAGCAAGTAACA 58.177 36.000 2.60 0.00 41.91 2.41
679 2088 7.450903 AGTGGAAGTAACTTAGCAAGTAACAT 58.549 34.615 2.60 0.00 41.91 2.71
680 2089 8.591072 AGTGGAAGTAACTTAGCAAGTAACATA 58.409 33.333 2.60 0.00 41.91 2.29
681 2090 8.870879 GTGGAAGTAACTTAGCAAGTAACATAG 58.129 37.037 2.60 0.00 41.91 2.23
682 2091 7.548075 TGGAAGTAACTTAGCAAGTAACATAGC 59.452 37.037 2.60 0.00 41.91 2.97
683 2092 7.254017 GGAAGTAACTTAGCAAGTAACATAGCG 60.254 40.741 2.60 0.00 41.91 4.26
684 2093 4.859629 AACTTAGCAAGTAACATAGCGC 57.140 40.909 0.00 0.00 41.91 5.92
685 2094 3.857052 ACTTAGCAAGTAACATAGCGCA 58.143 40.909 11.47 0.00 40.69 6.09
686 2095 4.442706 ACTTAGCAAGTAACATAGCGCAT 58.557 39.130 11.47 0.00 40.69 4.73
687 2096 4.876107 ACTTAGCAAGTAACATAGCGCATT 59.124 37.500 11.47 0.20 40.69 3.56
688 2097 5.354234 ACTTAGCAAGTAACATAGCGCATTT 59.646 36.000 11.47 0.00 40.69 2.32
689 2098 4.278678 AGCAAGTAACATAGCGCATTTC 57.721 40.909 11.47 0.00 0.00 2.17
690 2099 3.029074 GCAAGTAACATAGCGCATTTCG 58.971 45.455 11.47 0.00 42.12 3.46
691 2100 3.242284 GCAAGTAACATAGCGCATTTCGA 60.242 43.478 11.47 0.00 41.67 3.71
692 2101 4.726591 GCAAGTAACATAGCGCATTTCGAA 60.727 41.667 11.47 0.00 41.67 3.71
693 2102 5.320723 CAAGTAACATAGCGCATTTCGAAA 58.679 37.500 13.91 13.91 41.67 3.46
694 2103 5.539582 AGTAACATAGCGCATTTCGAAAA 57.460 34.783 15.66 0.00 41.67 2.29
695 2104 5.933790 AGTAACATAGCGCATTTCGAAAAA 58.066 33.333 15.66 0.00 41.67 1.94
730 2139 8.783833 ATATGGCATGTAGCTAATAAGAAGTG 57.216 34.615 10.98 0.00 44.79 3.16
731 2140 5.368145 TGGCATGTAGCTAATAAGAAGTGG 58.632 41.667 0.00 0.00 44.79 4.00
732 2141 5.104527 TGGCATGTAGCTAATAAGAAGTGGT 60.105 40.000 0.00 0.00 44.79 4.16
733 2142 6.099125 TGGCATGTAGCTAATAAGAAGTGGTA 59.901 38.462 0.00 0.00 44.79 3.25
734 2143 6.990349 GGCATGTAGCTAATAAGAAGTGGTAA 59.010 38.462 0.00 0.00 44.79 2.85
735 2144 7.041984 GGCATGTAGCTAATAAGAAGTGGTAAC 60.042 40.741 0.00 0.00 44.79 2.50
736 2145 7.494625 GCATGTAGCTAATAAGAAGTGGTAACA 59.505 37.037 0.00 0.00 43.11 2.41
769 2178 9.787435 ATTACTGTAACATAGTGTTTTCCAAGA 57.213 29.630 1.73 0.00 41.45 3.02
770 2179 7.492352 ACTGTAACATAGTGTTTTCCAAGAC 57.508 36.000 0.20 0.00 41.45 3.01
771 2180 7.051623 ACTGTAACATAGTGTTTTCCAAGACA 58.948 34.615 0.20 0.00 41.45 3.41
772 2181 7.554835 ACTGTAACATAGTGTTTTCCAAGACAA 59.445 33.333 0.20 0.00 41.45 3.18
773 2182 7.925993 TGTAACATAGTGTTTTCCAAGACAAG 58.074 34.615 0.20 0.00 41.45 3.16
774 2183 7.771361 TGTAACATAGTGTTTTCCAAGACAAGA 59.229 33.333 0.20 0.00 41.45 3.02
775 2184 7.823745 AACATAGTGTTTTCCAAGACAAGAT 57.176 32.000 0.00 0.00 37.26 2.40
776 2185 7.206981 ACATAGTGTTTTCCAAGACAAGATG 57.793 36.000 4.83 4.83 0.00 2.90
777 2186 6.998074 ACATAGTGTTTTCCAAGACAAGATGA 59.002 34.615 10.19 0.00 30.53 2.92
778 2187 7.173907 ACATAGTGTTTTCCAAGACAAGATGAG 59.826 37.037 10.19 0.00 30.53 2.90
779 2188 5.440610 AGTGTTTTCCAAGACAAGATGAGT 58.559 37.500 0.00 0.00 0.00 3.41
780 2189 5.529060 AGTGTTTTCCAAGACAAGATGAGTC 59.471 40.000 0.00 0.00 36.26 3.36
782 2191 6.706270 GTGTTTTCCAAGACAAGATGAGTCTA 59.294 38.462 0.00 0.00 45.11 2.59
783 2192 6.706270 TGTTTTCCAAGACAAGATGAGTCTAC 59.294 38.462 0.00 0.00 45.11 2.59
784 2193 6.419484 TTTCCAAGACAAGATGAGTCTACA 57.581 37.500 0.00 0.00 45.11 2.74
785 2194 6.419484 TTCCAAGACAAGATGAGTCTACAA 57.581 37.500 0.00 0.00 45.11 2.41
786 2195 6.030548 TCCAAGACAAGATGAGTCTACAAG 57.969 41.667 0.00 0.00 45.11 3.16
787 2196 4.629200 CCAAGACAAGATGAGTCTACAAGC 59.371 45.833 0.00 0.00 45.11 4.01
788 2197 5.477510 CAAGACAAGATGAGTCTACAAGCT 58.522 41.667 0.00 0.00 45.11 3.74
789 2198 6.350528 CCAAGACAAGATGAGTCTACAAGCTA 60.351 42.308 0.00 0.00 45.11 3.32
790 2199 6.842437 AGACAAGATGAGTCTACAAGCTAA 57.158 37.500 0.00 0.00 44.10 3.09
791 2200 7.416964 AGACAAGATGAGTCTACAAGCTAAT 57.583 36.000 0.00 0.00 44.10 1.73
792 2201 7.846066 AGACAAGATGAGTCTACAAGCTAATT 58.154 34.615 0.00 0.00 44.10 1.40
793 2202 8.972127 AGACAAGATGAGTCTACAAGCTAATTA 58.028 33.333 0.00 0.00 44.10 1.40
794 2203 9.587772 GACAAGATGAGTCTACAAGCTAATTAA 57.412 33.333 0.00 0.00 33.30 1.40
823 2232 9.908747 AAGTCTTCTATGACACTACTACTATGT 57.091 33.333 0.00 0.00 39.27 2.29
824 2233 9.908747 AGTCTTCTATGACACTACTACTATGTT 57.091 33.333 0.00 0.00 39.27 2.71
831 2240 8.928270 ATGACACTACTACTATGTTACTTTGC 57.072 34.615 0.00 0.00 0.00 3.68
832 2241 7.888424 TGACACTACTACTATGTTACTTTGCA 58.112 34.615 0.00 0.00 0.00 4.08
833 2242 8.528643 TGACACTACTACTATGTTACTTTGCAT 58.471 33.333 0.00 0.00 0.00 3.96
834 2243 9.367444 GACACTACTACTATGTTACTTTGCATT 57.633 33.333 0.00 0.00 0.00 3.56
842 2251 8.807948 ACTATGTTACTTTGCATTATGAAGGT 57.192 30.769 0.00 0.00 0.00 3.50
843 2252 9.899661 ACTATGTTACTTTGCATTATGAAGGTA 57.100 29.630 0.00 0.00 0.00 3.08
903 2312 9.756571 ATATAAGTTACTCCCTACTATGACCAG 57.243 37.037 0.00 0.00 0.00 4.00
904 2313 4.216708 AGTTACTCCCTACTATGACCAGC 58.783 47.826 0.00 0.00 0.00 4.85
905 2314 2.089600 ACTCCCTACTATGACCAGCC 57.910 55.000 0.00 0.00 0.00 4.85
955 2371 0.988832 ACCTTAAACCTCCGGCATGA 59.011 50.000 0.00 0.00 0.00 3.07
1029 2445 7.807977 ACATTCCACACTTATATTGTCCATC 57.192 36.000 0.00 0.00 0.00 3.51
1093 2513 5.120363 CACGTTGATCTAGCTCGCTAGTATA 59.880 44.000 21.54 6.98 44.59 1.47
1118 2538 2.032528 ACGTGGCCAGTGGTGATG 59.967 61.111 5.11 5.67 0.00 3.07
1171 2591 0.596600 TTAAGCTATCTTCGCCGGCG 60.597 55.000 42.13 42.13 41.35 6.46
1274 2694 2.280592 GGTTCGCCACGTTCCAGT 60.281 61.111 0.00 0.00 37.19 4.00
1513 2933 3.429141 TCGTCGACCTCGTGCCTC 61.429 66.667 10.58 0.00 40.80 4.70
1640 5599 1.257743 TGCTTTGCTCTACTCTCGGT 58.742 50.000 0.00 0.00 0.00 4.69
1818 5780 9.255304 GGAGATGTGCTTAATAACAAAACAAAA 57.745 29.630 0.00 0.00 0.00 2.44
1863 5825 3.376859 TGAATAGGTGCGCAATTTTCGAT 59.623 39.130 14.00 0.00 0.00 3.59
1864 5826 3.609103 ATAGGTGCGCAATTTTCGATC 57.391 42.857 14.00 0.00 0.00 3.69
1868 5830 2.111756 GTGCGCAATTTTCGATCATCC 58.888 47.619 14.00 0.00 0.00 3.51
1875 5837 6.429624 CGCAATTTTCGATCATCCATTTCTA 58.570 36.000 0.00 0.00 0.00 2.10
1880 5842 3.653344 TCGATCATCCATTTCTAAGCCG 58.347 45.455 0.00 0.00 0.00 5.52
1891 5853 5.010112 CCATTTCTAAGCCGAGACTCATCTA 59.990 44.000 2.82 0.00 34.34 1.98
1905 5867 7.808516 AGACTCATCTACACCTGCTCAAGGA 62.809 48.000 0.00 0.00 40.34 3.36
1994 5957 1.952990 TGAGGTGCGCTTCAAATTTCA 59.047 42.857 9.94 0.00 0.00 2.69
1995 5958 2.360483 TGAGGTGCGCTTCAAATTTCAA 59.640 40.909 9.94 0.00 0.00 2.69
2004 5967 5.396070 GCGCTTCAAATTTCAAAACATTTGG 59.604 36.000 0.00 0.00 39.76 3.28
2067 6031 8.770828 GCTCAGAACAGTACATAAACAGTAAAA 58.229 33.333 0.00 0.00 0.00 1.52
2134 6100 8.869897 CAGATGTCAAATGATCTGAAATTTTGG 58.130 33.333 7.85 0.00 45.80 3.28
2145 6111 3.295093 TGAAATTTTGGAGTGGCTCACA 58.705 40.909 7.86 0.00 36.74 3.58
2246 6212 2.513204 CAGATGAGCCAGGGCACG 60.513 66.667 13.63 0.00 44.88 5.34
2247 6213 4.479993 AGATGAGCCAGGGCACGC 62.480 66.667 13.63 2.88 44.88 5.34
2351 6675 1.811679 GCCAAGGCGTGTCTAGCTC 60.812 63.158 0.00 0.00 34.52 4.09
2456 6780 6.139048 ACTTTGCTACAAAACATTACCGTT 57.861 33.333 0.00 0.00 0.00 4.44
2559 6945 6.891388 TCCATATGTCCGGTAAAAAGTGTAT 58.109 36.000 0.00 0.00 0.00 2.29
2636 7023 4.343526 TGCAAGCCACCATCTTTCTTTTTA 59.656 37.500 0.00 0.00 0.00 1.52
2641 7028 9.305925 CAAGCCACCATCTTTCTTTTTATTATC 57.694 33.333 0.00 0.00 0.00 1.75
2681 7068 9.008965 TGAGCTAAGTGCATGTAAAAATTAAGA 57.991 29.630 0.00 0.00 45.94 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
182 183 3.728268 CGAACGACTAGTACCTGCAGAAG 60.728 52.174 17.39 1.02 0.00 2.85
183 184 2.161012 CGAACGACTAGTACCTGCAGAA 59.839 50.000 17.39 0.00 0.00 3.02
186 187 1.812235 TCGAACGACTAGTACCTGCA 58.188 50.000 0.00 0.00 0.00 4.41
187 188 4.465016 CATATCGAACGACTAGTACCTGC 58.535 47.826 0.00 0.00 0.00 4.85
188 189 4.024302 TGCATATCGAACGACTAGTACCTG 60.024 45.833 0.00 0.00 0.00 4.00
189 190 4.132336 TGCATATCGAACGACTAGTACCT 58.868 43.478 0.00 0.00 0.00 3.08
192 193 5.526479 AGACTTGCATATCGAACGACTAGTA 59.474 40.000 0.00 0.00 0.00 1.82
194 195 4.849883 AGACTTGCATATCGAACGACTAG 58.150 43.478 0.00 0.00 0.00 2.57
195 196 4.895224 AGACTTGCATATCGAACGACTA 57.105 40.909 0.00 0.00 0.00 2.59
297 302 7.639113 TCTTGTGTATTCTCCACTTGTTTTT 57.361 32.000 0.00 0.00 33.92 1.94
300 305 6.147821 CGAATCTTGTGTATTCTCCACTTGTT 59.852 38.462 0.00 0.00 33.92 2.83
301 306 5.639506 CGAATCTTGTGTATTCTCCACTTGT 59.360 40.000 0.00 0.00 33.92 3.16
302 307 5.869344 TCGAATCTTGTGTATTCTCCACTTG 59.131 40.000 0.00 0.00 33.92 3.16
303 308 5.869888 GTCGAATCTTGTGTATTCTCCACTT 59.130 40.000 0.00 0.00 33.92 3.16
304 309 5.047306 TGTCGAATCTTGTGTATTCTCCACT 60.047 40.000 0.00 0.00 33.92 4.00
305 310 5.062308 GTGTCGAATCTTGTGTATTCTCCAC 59.938 44.000 0.00 0.00 32.29 4.02
350 355 0.736636 TCGATCGAACGTATGCCACT 59.263 50.000 16.99 0.00 34.70 4.00
351 356 1.121240 CTCGATCGAACGTATGCCAC 58.879 55.000 19.92 0.00 34.70 5.01
353 358 0.317938 AGCTCGATCGAACGTATGCC 60.318 55.000 19.92 3.19 34.70 4.40
354 359 1.478137 AAGCTCGATCGAACGTATGC 58.522 50.000 19.92 17.02 34.70 3.14
355 360 2.971915 GGTAAGCTCGATCGAACGTATG 59.028 50.000 19.92 7.35 34.70 2.39
356 361 2.615447 TGGTAAGCTCGATCGAACGTAT 59.385 45.455 19.92 9.16 34.70 3.06
357 362 2.009051 TGGTAAGCTCGATCGAACGTA 58.991 47.619 19.92 14.27 34.70 3.57
358 363 0.806868 TGGTAAGCTCGATCGAACGT 59.193 50.000 19.92 15.34 34.70 3.99
359 364 1.582502 GTTGGTAAGCTCGATCGAACG 59.417 52.381 19.92 9.01 0.00 3.95
393 1784 0.635731 GACGATCTTGAAGCGACGTG 59.364 55.000 13.36 0.00 39.75 4.49
412 1803 0.890996 AAGTTTCAGGGAAGCTGCGG 60.891 55.000 0.00 0.00 33.62 5.69
480 1871 1.300620 CACCACGTCACATCGGTGT 60.301 57.895 11.32 0.00 45.45 4.16
483 1874 1.614227 CGAACACCACGTCACATCGG 61.614 60.000 0.00 0.00 34.94 4.18
485 1876 0.944311 AGCGAACACCACGTCACATC 60.944 55.000 0.00 0.00 0.00 3.06
495 1889 4.059459 CGTGACGCAGCGAACACC 62.059 66.667 28.74 18.29 35.75 4.16
505 1899 2.016704 CATATCCCGCTCGTGACGC 61.017 63.158 0.00 0.00 0.00 5.19
506 1900 0.589708 TACATATCCCGCTCGTGACG 59.410 55.000 0.00 0.00 0.00 4.35
507 1901 1.335810 TGTACATATCCCGCTCGTGAC 59.664 52.381 0.00 0.00 0.00 3.67
509 1911 1.767289 GTGTACATATCCCGCTCGTG 58.233 55.000 0.00 0.00 0.00 4.35
523 1925 3.259751 GCGCGGGGAATCGTGTAC 61.260 66.667 8.83 0.00 41.98 2.90
564 1966 1.965930 TGTTCGGACATGTGGCAGC 60.966 57.895 1.15 0.00 0.00 5.25
572 1974 2.503331 TGAATGCAAGTGTTCGGACAT 58.497 42.857 0.00 0.00 38.23 3.06
576 1978 4.165779 GGTTTATGAATGCAAGTGTTCGG 58.834 43.478 0.00 0.00 0.00 4.30
589 1991 3.396276 TCAGGGTCAAGGTGGTTTATGAA 59.604 43.478 0.00 0.00 0.00 2.57
613 2022 3.096461 CACGAGTATAACGTTGACGAGG 58.904 50.000 11.99 6.38 42.07 4.63
641 2050 8.890410 AGTTACTTCCACTATGACTAACCTAA 57.110 34.615 0.00 0.00 0.00 2.69
642 2051 8.890410 AAGTTACTTCCACTATGACTAACCTA 57.110 34.615 0.00 0.00 0.00 3.08
643 2052 7.793948 AAGTTACTTCCACTATGACTAACCT 57.206 36.000 0.00 0.00 0.00 3.50
644 2053 7.705752 GCTAAGTTACTTCCACTATGACTAACC 59.294 40.741 0.00 0.00 0.00 2.85
645 2054 8.248945 TGCTAAGTTACTTCCACTATGACTAAC 58.751 37.037 0.00 0.00 0.00 2.34
646 2055 8.357290 TGCTAAGTTACTTCCACTATGACTAA 57.643 34.615 0.00 0.00 0.00 2.24
647 2056 7.949690 TGCTAAGTTACTTCCACTATGACTA 57.050 36.000 0.00 0.00 0.00 2.59
648 2057 6.852420 TGCTAAGTTACTTCCACTATGACT 57.148 37.500 0.00 0.00 0.00 3.41
649 2058 7.097834 ACTTGCTAAGTTACTTCCACTATGAC 58.902 38.462 0.00 0.00 39.04 3.06
650 2059 7.241042 ACTTGCTAAGTTACTTCCACTATGA 57.759 36.000 0.00 0.00 39.04 2.15
651 2060 8.870879 GTTACTTGCTAAGTTACTTCCACTATG 58.129 37.037 0.00 0.00 42.81 2.23
652 2061 8.591072 TGTTACTTGCTAAGTTACTTCCACTAT 58.409 33.333 0.00 0.00 40.62 2.12
653 2062 7.954835 TGTTACTTGCTAAGTTACTTCCACTA 58.045 34.615 0.00 0.00 40.62 2.74
654 2063 6.823497 TGTTACTTGCTAAGTTACTTCCACT 58.177 36.000 0.00 0.00 40.62 4.00
655 2064 7.668525 ATGTTACTTGCTAAGTTACTTCCAC 57.331 36.000 0.00 0.00 40.62 4.02
656 2065 7.548075 GCTATGTTACTTGCTAAGTTACTTCCA 59.452 37.037 0.00 0.00 40.62 3.53
657 2066 7.254017 CGCTATGTTACTTGCTAAGTTACTTCC 60.254 40.741 0.00 0.00 40.62 3.46
658 2067 7.610509 CGCTATGTTACTTGCTAAGTTACTTC 58.389 38.462 0.00 0.00 40.62 3.01
659 2068 6.035758 GCGCTATGTTACTTGCTAAGTTACTT 59.964 38.462 0.00 2.32 40.62 2.24
660 2069 5.519206 GCGCTATGTTACTTGCTAAGTTACT 59.481 40.000 0.00 0.00 40.62 2.24
661 2070 5.290158 TGCGCTATGTTACTTGCTAAGTTAC 59.710 40.000 9.73 8.42 42.81 2.50
662 2071 5.412640 TGCGCTATGTTACTTGCTAAGTTA 58.587 37.500 9.73 0.00 42.81 2.24
663 2072 4.250464 TGCGCTATGTTACTTGCTAAGTT 58.750 39.130 9.73 0.00 42.81 2.66
664 2073 3.857052 TGCGCTATGTTACTTGCTAAGT 58.143 40.909 9.73 6.74 45.40 2.24
665 2074 5.409643 AATGCGCTATGTTACTTGCTAAG 57.590 39.130 9.73 0.00 0.00 2.18
666 2075 5.501736 CGAAATGCGCTATGTTACTTGCTAA 60.502 40.000 9.73 0.00 0.00 3.09
667 2076 4.026062 CGAAATGCGCTATGTTACTTGCTA 60.026 41.667 9.73 0.00 0.00 3.49
668 2077 3.242413 CGAAATGCGCTATGTTACTTGCT 60.242 43.478 9.73 0.00 0.00 3.91
669 2078 3.029074 CGAAATGCGCTATGTTACTTGC 58.971 45.455 9.73 0.00 0.00 4.01
670 2079 4.514545 TCGAAATGCGCTATGTTACTTG 57.485 40.909 9.73 0.00 40.61 3.16
671 2080 5.539582 TTTCGAAATGCGCTATGTTACTT 57.460 34.783 9.73 0.00 40.61 2.24
672 2081 5.539582 TTTTCGAAATGCGCTATGTTACT 57.460 34.783 12.12 0.00 40.61 2.24
704 2113 9.875691 CACTTCTTATTAGCTACATGCCATATA 57.124 33.333 0.00 0.00 44.23 0.86
705 2114 7.826252 CCACTTCTTATTAGCTACATGCCATAT 59.174 37.037 0.00 0.00 44.23 1.78
706 2115 7.161404 CCACTTCTTATTAGCTACATGCCATA 58.839 38.462 0.00 0.00 44.23 2.74
707 2116 6.000219 CCACTTCTTATTAGCTACATGCCAT 59.000 40.000 0.00 0.00 44.23 4.40
708 2117 5.104527 ACCACTTCTTATTAGCTACATGCCA 60.105 40.000 0.00 0.00 44.23 4.92
709 2118 5.368989 ACCACTTCTTATTAGCTACATGCC 58.631 41.667 0.00 0.00 44.23 4.40
710 2119 7.494625 TGTTACCACTTCTTATTAGCTACATGC 59.505 37.037 0.00 0.00 43.29 4.06
711 2120 8.942338 TGTTACCACTTCTTATTAGCTACATG 57.058 34.615 0.00 0.00 0.00 3.21
743 2152 9.787435 TCTTGGAAAACACTATGTTACAGTAAT 57.213 29.630 0.00 0.00 40.14 1.89
744 2153 9.048446 GTCTTGGAAAACACTATGTTACAGTAA 57.952 33.333 0.00 0.00 40.14 2.24
745 2154 8.205512 TGTCTTGGAAAACACTATGTTACAGTA 58.794 33.333 0.00 0.00 40.14 2.74
746 2155 7.051623 TGTCTTGGAAAACACTATGTTACAGT 58.948 34.615 0.00 0.00 40.14 3.55
747 2156 7.490962 TGTCTTGGAAAACACTATGTTACAG 57.509 36.000 0.00 0.00 40.14 2.74
748 2157 7.771361 TCTTGTCTTGGAAAACACTATGTTACA 59.229 33.333 0.00 0.00 40.14 2.41
749 2158 8.149973 TCTTGTCTTGGAAAACACTATGTTAC 57.850 34.615 0.00 0.00 40.14 2.50
750 2159 8.783093 CATCTTGTCTTGGAAAACACTATGTTA 58.217 33.333 0.00 0.00 40.14 2.41
751 2160 7.502226 TCATCTTGTCTTGGAAAACACTATGTT 59.498 33.333 0.00 0.00 43.41 2.71
752 2161 6.998074 TCATCTTGTCTTGGAAAACACTATGT 59.002 34.615 0.00 0.00 0.00 2.29
753 2162 7.173907 ACTCATCTTGTCTTGGAAAACACTATG 59.826 37.037 0.00 0.00 0.00 2.23
754 2163 7.227156 ACTCATCTTGTCTTGGAAAACACTAT 58.773 34.615 0.00 0.00 0.00 2.12
755 2164 6.591935 ACTCATCTTGTCTTGGAAAACACTA 58.408 36.000 0.00 0.00 0.00 2.74
756 2165 5.440610 ACTCATCTTGTCTTGGAAAACACT 58.559 37.500 0.00 0.00 0.00 3.55
757 2166 5.529060 AGACTCATCTTGTCTTGGAAAACAC 59.471 40.000 0.00 0.00 41.45 3.32
758 2167 5.684704 AGACTCATCTTGTCTTGGAAAACA 58.315 37.500 0.00 0.00 41.45 2.83
759 2168 6.706270 TGTAGACTCATCTTGTCTTGGAAAAC 59.294 38.462 1.67 0.00 41.45 2.43
760 2169 6.826668 TGTAGACTCATCTTGTCTTGGAAAA 58.173 36.000 1.67 0.00 41.45 2.29
761 2170 6.419484 TGTAGACTCATCTTGTCTTGGAAA 57.581 37.500 1.67 0.00 41.45 3.13
762 2171 6.419484 TTGTAGACTCATCTTGTCTTGGAA 57.581 37.500 1.67 0.00 41.45 3.53
763 2172 5.567623 GCTTGTAGACTCATCTTGTCTTGGA 60.568 44.000 1.67 0.00 41.45 3.53
764 2173 4.629200 GCTTGTAGACTCATCTTGTCTTGG 59.371 45.833 1.67 0.00 41.45 3.61
765 2174 5.477510 AGCTTGTAGACTCATCTTGTCTTG 58.522 41.667 1.67 0.00 41.45 3.02
766 2175 5.736951 AGCTTGTAGACTCATCTTGTCTT 57.263 39.130 1.67 0.00 41.45 3.01
767 2176 6.842437 TTAGCTTGTAGACTCATCTTGTCT 57.158 37.500 0.00 0.00 45.48 3.41
768 2177 9.587772 TTAATTAGCTTGTAGACTCATCTTGTC 57.412 33.333 0.00 0.00 36.29 3.18
797 2206 9.908747 ACATAGTAGTAGTGTCATAGAAGACTT 57.091 33.333 0.00 0.00 39.27 3.01
798 2207 9.908747 AACATAGTAGTAGTGTCATAGAAGACT 57.091 33.333 0.00 0.00 39.27 3.24
806 2215 8.528643 TGCAAAGTAACATAGTAGTAGTGTCAT 58.471 33.333 0.00 0.00 0.00 3.06
807 2216 7.888424 TGCAAAGTAACATAGTAGTAGTGTCA 58.112 34.615 0.00 0.00 0.00 3.58
808 2217 8.928270 ATGCAAAGTAACATAGTAGTAGTGTC 57.072 34.615 0.00 0.00 0.00 3.67
816 2225 9.899661 ACCTTCATAATGCAAAGTAACATAGTA 57.100 29.630 0.00 0.00 0.00 1.82
817 2226 8.807948 ACCTTCATAATGCAAAGTAACATAGT 57.192 30.769 0.00 0.00 0.00 2.12
877 2286 9.756571 CTGGTCATAGTAGGGAGTAACTTATAT 57.243 37.037 0.00 0.00 0.00 0.86
878 2287 7.668886 GCTGGTCATAGTAGGGAGTAACTTATA 59.331 40.741 0.00 0.00 0.00 0.98
879 2288 6.494146 GCTGGTCATAGTAGGGAGTAACTTAT 59.506 42.308 0.00 0.00 0.00 1.73
880 2289 5.832060 GCTGGTCATAGTAGGGAGTAACTTA 59.168 44.000 0.00 0.00 0.00 2.24
881 2290 4.650131 GCTGGTCATAGTAGGGAGTAACTT 59.350 45.833 0.00 0.00 0.00 2.66
882 2291 4.216708 GCTGGTCATAGTAGGGAGTAACT 58.783 47.826 0.00 0.00 0.00 2.24
883 2292 3.321396 GGCTGGTCATAGTAGGGAGTAAC 59.679 52.174 0.00 0.00 0.00 2.50
884 2293 3.206866 AGGCTGGTCATAGTAGGGAGTAA 59.793 47.826 0.00 0.00 0.00 2.24
885 2294 2.789992 AGGCTGGTCATAGTAGGGAGTA 59.210 50.000 0.00 0.00 0.00 2.59
886 2295 1.576272 AGGCTGGTCATAGTAGGGAGT 59.424 52.381 0.00 0.00 0.00 3.85
887 2296 2.390225 AGGCTGGTCATAGTAGGGAG 57.610 55.000 0.00 0.00 0.00 4.30
888 2297 2.868964 AAGGCTGGTCATAGTAGGGA 57.131 50.000 0.00 0.00 0.00 4.20
889 2298 2.300437 GCTAAGGCTGGTCATAGTAGGG 59.700 54.545 0.00 0.00 35.22 3.53
890 2299 3.669251 GCTAAGGCTGGTCATAGTAGG 57.331 52.381 0.00 0.00 35.22 3.18
903 2312 3.492756 CGATTCTTCAGCTAAGCTAAGGC 59.507 47.826 0.00 0.00 36.40 4.35
904 2313 4.054671 CCGATTCTTCAGCTAAGCTAAGG 58.945 47.826 0.00 0.00 36.40 2.69
905 2314 4.938080 TCCGATTCTTCAGCTAAGCTAAG 58.062 43.478 0.00 0.00 36.40 2.18
946 2362 2.345617 TGAAGCGTTCATGCCGGA 59.654 55.556 5.05 0.00 34.08 5.14
1024 2440 5.357742 TTTGCTATTCTGCTAGTGATGGA 57.642 39.130 0.00 0.00 0.00 3.41
1029 2445 4.627467 AGACGTTTTGCTATTCTGCTAGTG 59.373 41.667 0.00 0.00 0.00 2.74
1075 2495 6.970043 CCATTGTTATACTAGCGAGCTAGATC 59.030 42.308 31.54 18.23 46.56 2.75
1093 2513 1.150536 ACTGGCCACGTCCATTGTT 59.849 52.632 0.00 0.00 35.22 2.83
1171 2591 1.068250 GATCACCCTGCTAGACGCC 59.932 63.158 0.00 0.00 38.05 5.68
1513 2933 1.274447 TCATGCTGACCAGACACAGAG 59.726 52.381 0.47 0.00 36.38 3.35
1640 5599 4.183865 GTGTAGTAGAGTGCATGCATTCA 58.816 43.478 35.51 22.62 35.50 2.57
1818 5780 5.585844 CACACAAAAAGGGAGAAAATGCTTT 59.414 36.000 0.00 0.00 0.00 3.51
1832 5794 2.979813 GCGCACCTATTCACACAAAAAG 59.020 45.455 0.30 0.00 0.00 2.27
1863 5825 3.706594 AGTCTCGGCTTAGAAATGGATGA 59.293 43.478 0.00 0.00 0.00 2.92
1864 5826 4.054671 GAGTCTCGGCTTAGAAATGGATG 58.945 47.826 0.00 0.00 0.00 3.51
1868 5830 4.942852 AGATGAGTCTCGGCTTAGAAATG 58.057 43.478 0.00 0.00 0.00 2.32
1875 5837 1.751924 GGTGTAGATGAGTCTCGGCTT 59.248 52.381 0.00 0.00 35.87 4.35
1880 5842 3.020274 TGAGCAGGTGTAGATGAGTCTC 58.980 50.000 0.00 0.00 35.87 3.36
1891 5853 6.670695 ATAAAAATTTCCTTGAGCAGGTGT 57.329 33.333 0.00 0.00 44.37 4.16
1957 5920 3.054655 ACCTCACGCACCAAATTACCTAT 60.055 43.478 0.00 0.00 0.00 2.57
1985 5948 8.759641 CATACGTCCAAATGTTTTGAAATTTGA 58.240 29.630 9.16 0.00 43.41 2.69
1994 5957 7.660208 AGAGTTACTCATACGTCCAAATGTTTT 59.340 33.333 15.23 0.00 32.06 2.43
1995 5958 7.159372 AGAGTTACTCATACGTCCAAATGTTT 58.841 34.615 15.23 0.00 32.06 2.83
2033 5996 4.469657 TGTACTGTTCTGAGCCCAATTTT 58.530 39.130 0.00 0.00 0.00 1.82
2067 6031 7.373617 AGACAGATTTGGGGTTTGTAATTTT 57.626 32.000 0.00 0.00 0.00 1.82
2132 6098 0.254462 TTTGTGTGTGAGCCACTCCA 59.746 50.000 6.83 1.95 44.81 3.86
2133 6099 1.388547 TTTTGTGTGTGAGCCACTCC 58.611 50.000 6.83 0.00 44.81 3.85
2134 6100 3.715628 AATTTTGTGTGTGAGCCACTC 57.284 42.857 6.83 4.24 44.81 3.51
2218 6184 0.866427 GCTCATCTGCATCCACGATG 59.134 55.000 6.56 6.56 42.37 3.84
2219 6185 0.250209 GGCTCATCTGCATCCACGAT 60.250 55.000 0.00 0.00 34.04 3.73
2221 6187 1.153309 TGGCTCATCTGCATCCACG 60.153 57.895 0.00 0.00 34.04 4.94
2222 6188 0.818445 CCTGGCTCATCTGCATCCAC 60.818 60.000 0.00 0.00 34.04 4.02
2348 6672 7.954788 ATTGTTTAGCAGTATTAGCTAGAGC 57.045 36.000 0.00 0.00 44.57 4.09
2351 6675 8.552034 GTGGAATTGTTTAGCAGTATTAGCTAG 58.448 37.037 0.00 0.00 44.57 3.42
2456 6780 9.613428 AAAACTGTATGAGTGCAAGCTATATTA 57.387 29.630 0.00 0.00 34.02 0.98
2565 6951 9.638239 TCACTGCATAATTTGTCCTAAAATTTC 57.362 29.630 0.00 0.00 39.73 2.17
2641 7028 2.322355 AGCTCATTGAGGGTTCGATG 57.678 50.000 15.28 0.00 43.75 3.84
2648 7035 2.408271 TGCACTTAGCTCATTGAGGG 57.592 50.000 15.28 0.00 45.94 4.30


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

AutoCloner maintained by Alex Coulton.