Multiple sequence alignment - TraesCS7A01G546600

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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 TraesCS7A01G546600 chr7A 100.000 2894 0 0 1 2894 722018457 722021350 0.000000e+00 5345.0
1 TraesCS7A01G546600 chr7A 88.293 1025 90 9 998 1999 722128046 722129063 0.000000e+00 1201.0
2 TraesCS7A01G546600 chr7A 100.000 28 0 0 2254 2281 306497653 306497626 5.000000e-03 52.8
3 TraesCS7A01G546600 chr7B 89.157 1614 116 23 417 1999 726422972 726424557 0.000000e+00 1956.0
4 TraesCS7A01G546600 chr7B 86.296 1277 110 21 788 1999 726754348 726755624 0.000000e+00 1328.0
5 TraesCS7A01G546600 chr7B 87.695 1024 94 11 900 1911 726611827 726612830 0.000000e+00 1164.0
6 TraesCS7A01G546600 chr7B 86.599 1082 95 20 945 2009 726492109 726493157 0.000000e+00 1149.0
7 TraesCS7A01G546600 chr7B 85.525 1133 117 17 900 2009 726268067 726266959 0.000000e+00 1140.0
8 TraesCS7A01G546600 chr7B 86.893 1030 103 15 998 1996 726887722 726886694 0.000000e+00 1125.0
9 TraesCS7A01G546600 chr7B 87.889 900 76 14 2 887 726610203 726611083 0.000000e+00 1027.0
10 TraesCS7A01G546600 chr7B 86.676 683 72 6 1300 1973 726302263 726302935 0.000000e+00 739.0
11 TraesCS7A01G546600 chr7B 89.885 524 44 6 75 590 726297513 726298035 0.000000e+00 665.0
12 TraesCS7A01G546600 chr7B 90.521 422 37 3 1 420 726422357 726422777 3.260000e-154 555.0
13 TraesCS7A01G546600 chr7B 88.914 442 42 6 1 440 726941905 726941469 3.280000e-149 538.0
14 TraesCS7A01G546600 chr7B 89.298 299 21 7 587 883 726300718 726301007 5.890000e-97 364.0
15 TraesCS7A01G546600 chr7B 94.898 98 5 0 1910 2007 726612893 726612990 1.390000e-33 154.0
16 TraesCS7A01G546600 chr7B 95.918 49 2 0 691 739 726752438 726752486 2.390000e-11 80.5
17 TraesCS7A01G546600 chr7B 85.526 76 10 1 478 552 726457294 726457369 8.600000e-11 78.7
18 TraesCS7A01G546600 chr7B 97.297 37 1 0 2027 2063 726493121 726493157 2.410000e-06 63.9
19 TraesCS7A01G546600 chr7B 97.222 36 1 0 2028 2063 726266994 726266959 8.660000e-06 62.1
20 TraesCS7A01G546600 chr7D 87.032 1735 153 47 311 2005 626437722 626439424 0.000000e+00 1892.0
21 TraesCS7A01G546600 chr7D 87.894 983 101 7 945 1909 626456209 626457191 0.000000e+00 1140.0
22 TraesCS7A01G546600 chr7D 86.570 1035 103 9 1001 1999 626597991 626596957 0.000000e+00 1109.0
23 TraesCS7A01G546600 chr7D 88.660 582 45 8 1431 1999 626755637 626755064 0.000000e+00 689.0
24 TraesCS7A01G546600 chr7D 90.426 282 25 2 1 282 626437450 626437729 1.270000e-98 370.0
25 TraesCS7A01G546600 chr7D 91.304 253 21 1 2641 2892 198053251 198052999 7.680000e-91 344.0
26 TraesCS7A01G546600 chr7D 83.843 229 25 10 670 890 626756742 626756518 1.050000e-49 207.0
27 TraesCS7A01G546600 chr7D 75.943 212 31 14 2204 2401 637441168 637440963 1.100000e-14 91.6
28 TraesCS7A01G546600 chr7D 75.688 218 32 15 2198 2401 637509851 637509641 3.970000e-14 89.8
29 TraesCS7A01G546600 chr2D 84.258 559 64 18 2114 2653 25658927 25659480 9.190000e-145 523.0
30 TraesCS7A01G546600 chr2D 90.945 254 22 1 2642 2894 592049602 592049855 9.930000e-90 340.0
31 TraesCS7A01G546600 chr2A 83.088 544 70 11 2115 2653 35993858 35994384 2.610000e-130 475.0
32 TraesCS7A01G546600 chr2A 87.059 340 35 7 2318 2653 478383366 478383032 2.720000e-100 375.0
33 TraesCS7A01G546600 chr2A 90.945 254 22 1 2642 2894 478383094 478382841 9.930000e-90 340.0
34 TraesCS7A01G546600 chr5A 82.505 543 76 11 2116 2653 29162704 29163232 2.630000e-125 459.0
35 TraesCS7A01G546600 chr5A 90.945 254 21 2 2642 2894 306942282 306942534 9.930000e-90 340.0
36 TraesCS7A01G546600 chr5A 100.000 31 0 0 2113 2143 671548774 671548804 1.120000e-04 58.4
37 TraesCS7A01G546600 chr5A 100.000 28 0 0 2254 2281 106438197 106438224 5.000000e-03 52.8
38 TraesCS7A01G546600 chr6B 82.428 552 47 18 2109 2653 623353493 623354001 1.230000e-118 436.0
39 TraesCS7A01G546600 chr5D 91.186 295 24 2 2361 2653 310018651 310018945 1.620000e-107 399.0
40 TraesCS7A01G546600 chr5D 90.945 254 22 1 2642 2894 476712165 476711912 9.930000e-90 340.0
41 TraesCS7A01G546600 chr5D 90.909 253 23 0 2642 2894 520436895 520436643 9.930000e-90 340.0
42 TraesCS7A01G546600 chr5B 88.323 334 36 3 2321 2653 467140267 467139936 5.810000e-107 398.0
43 TraesCS7A01G546600 chr4B 86.842 342 39 5 2315 2653 53013684 53013346 7.570000e-101 377.0
44 TraesCS7A01G546600 chr1D 83.756 394 54 9 2266 2653 440877407 440877796 5.890000e-97 364.0
45 TraesCS7A01G546600 chr6D 91.339 254 21 1 2642 2894 10899327 10899580 2.130000e-91 346.0
46 TraesCS7A01G546600 chr3D 91.373 255 19 3 2642 2894 81723168 81722915 2.130000e-91 346.0
47 TraesCS7A01G546600 chr3D 90.945 254 21 2 2642 2894 118244240 118244492 9.930000e-90 340.0
48 TraesCS7A01G546600 chr6A 100.000 28 0 0 2254 2281 452131263 452131290 5.000000e-03 52.8
49 TraesCS7A01G546600 chr1A 100.000 28 0 0 2254 2281 125248025 125247998 5.000000e-03 52.8
50 TraesCS7A01G546600 chr1A 100.000 28 0 0 2254 2281 263488958 263488931 5.000000e-03 52.8
51 TraesCS7A01G546600 chr1A 100.000 28 0 0 2254 2281 325993398 325993425 5.000000e-03 52.8


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 TraesCS7A01G546600 chr7A 722018457 722021350 2893 False 5345.000000 5345 100.000000 1 2894 1 chr7A.!!$F1 2893
1 TraesCS7A01G546600 chr7A 722128046 722129063 1017 False 1201.000000 1201 88.293000 998 1999 1 chr7A.!!$F2 1001
2 TraesCS7A01G546600 chr7B 726422357 726424557 2200 False 1255.500000 1956 89.839000 1 1999 2 chr7B.!!$F3 1998
3 TraesCS7A01G546600 chr7B 726886694 726887722 1028 True 1125.000000 1125 86.893000 998 1996 1 chr7B.!!$R1 998
4 TraesCS7A01G546600 chr7B 726610203 726612990 2787 False 781.666667 1164 90.160667 2 2007 3 chr7B.!!$F5 2005
5 TraesCS7A01G546600 chr7B 726752438 726755624 3186 False 704.250000 1328 91.107000 691 1999 2 chr7B.!!$F6 1308
6 TraesCS7A01G546600 chr7B 726492109 726493157 1048 False 606.450000 1149 91.948000 945 2063 2 chr7B.!!$F4 1118
7 TraesCS7A01G546600 chr7B 726266959 726268067 1108 True 601.050000 1140 91.373500 900 2063 2 chr7B.!!$R3 1163
8 TraesCS7A01G546600 chr7B 726297513 726302935 5422 False 589.333333 739 88.619667 75 1973 3 chr7B.!!$F2 1898
9 TraesCS7A01G546600 chr7D 626456209 626457191 982 False 1140.000000 1140 87.894000 945 1909 1 chr7D.!!$F1 964
10 TraesCS7A01G546600 chr7D 626437450 626439424 1974 False 1131.000000 1892 88.729000 1 2005 2 chr7D.!!$F2 2004
11 TraesCS7A01G546600 chr7D 626596957 626597991 1034 True 1109.000000 1109 86.570000 1001 1999 1 chr7D.!!$R2 998
12 TraesCS7A01G546600 chr7D 626755064 626756742 1678 True 448.000000 689 86.251500 670 1999 2 chr7D.!!$R5 1329
13 TraesCS7A01G546600 chr2D 25658927 25659480 553 False 523.000000 523 84.258000 2114 2653 1 chr2D.!!$F1 539
14 TraesCS7A01G546600 chr2A 35993858 35994384 526 False 475.000000 475 83.088000 2115 2653 1 chr2A.!!$F1 538
15 TraesCS7A01G546600 chr2A 478382841 478383366 525 True 357.500000 375 89.002000 2318 2894 2 chr2A.!!$R1 576
16 TraesCS7A01G546600 chr5A 29162704 29163232 528 False 459.000000 459 82.505000 2116 2653 1 chr5A.!!$F1 537
17 TraesCS7A01G546600 chr6B 623353493 623354001 508 False 436.000000 436 82.428000 2109 2653 1 chr6B.!!$F1 544

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
830 5573 0.032952 GCTGTACCTCGACCACACAA 59.967 55.0 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2595 8964 0.177373 GGAATCCGCCCTAAACTCGT 59.823 55.0 0.0 0.0 0.0 4.18 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
104 107 7.465353 TCTTTAATCACAATGCATTTCTCCA 57.535 32.000 9.83 0.00 0.00 3.86
120 123 9.113838 GCATTTCTCCATAAATCTAAGAGAACA 57.886 33.333 0.00 0.00 41.84 3.18
239 242 8.648693 ACTTGGTAGAGTGTGTTAAGAGTTTAT 58.351 33.333 0.00 0.00 0.00 1.40
265 268 8.208224 TGAGGAGTCTCAAATTTAGTTGTAACA 58.792 33.333 1.47 0.00 46.08 2.41
266 269 8.379457 AGGAGTCTCAAATTTAGTTGTAACAC 57.621 34.615 1.47 0.00 0.00 3.32
321 327 6.013725 TGTGTAATGTGTCCATAAGTTCCTCT 60.014 38.462 0.00 0.00 0.00 3.69
392 399 2.031465 GAGGGTCGCCGAAAACCA 59.969 61.111 6.53 0.00 37.28 3.67
473 680 6.891306 TGAGCCCTGGTTGCTAATATATAT 57.109 37.500 0.00 0.00 39.69 0.86
532 739 6.758886 AGAGATTTCTCACATAATCGGTGAAC 59.241 38.462 10.07 0.00 44.04 3.18
542 750 6.742718 CACATAATCGGTGAACAAAGATGAAC 59.257 38.462 0.00 0.00 38.54 3.18
553 761 8.707839 GTGAACAAAGATGAACACAAAAGAAAA 58.292 29.630 0.00 0.00 36.73 2.29
555 763 9.906111 GAACAAAGATGAACACAAAAGAAAATC 57.094 29.630 0.00 0.00 0.00 2.17
663 3558 4.563337 TCAGAAAGCTGATTATGCATGC 57.437 40.909 11.82 11.82 45.88 4.06
746 3644 2.930040 AGAACGATCTTGGCATTACACG 59.070 45.455 0.00 0.00 29.15 4.49
793 5529 0.453793 CACAACCGCTGAAAACCACA 59.546 50.000 0.00 0.00 0.00 4.17
830 5573 0.032952 GCTGTACCTCGACCACACAA 59.967 55.000 0.00 0.00 0.00 3.33
887 5630 1.374758 CCCACGTCCAGCTCAACTC 60.375 63.158 0.00 0.00 0.00 3.01
922 6408 4.041444 AGCTCAGCTGGGATCTTTATAAGG 59.959 45.833 20.53 0.00 37.57 2.69
985 6495 2.006888 CAACCATCGTCAAAGCGGTAT 58.993 47.619 0.00 0.00 0.00 2.73
1722 7921 0.586802 GCCTGGTGACGAAGAACAAC 59.413 55.000 0.00 0.00 0.00 3.32
1759 7958 4.437587 GGTCGGGGTCGGAGGAGA 62.438 72.222 0.00 0.00 36.95 3.71
1760 7959 2.123812 GTCGGGGTCGGAGGAGAT 60.124 66.667 0.00 0.00 36.95 2.75
1761 7960 1.150081 GTCGGGGTCGGAGGAGATA 59.850 63.158 0.00 0.00 36.95 1.98
1909 8202 7.871973 ACATCTTCTAGCTTTGCTACTATCATG 59.128 37.037 0.00 0.00 40.44 3.07
1910 8203 7.353414 TCTTCTAGCTTTGCTACTATCATGT 57.647 36.000 0.00 0.00 40.44 3.21
1911 8204 7.205992 TCTTCTAGCTTTGCTACTATCATGTG 58.794 38.462 0.00 0.00 40.44 3.21
1941 8242 7.981789 TCCATCTTAGCTGTACTAGTGAAATTG 59.018 37.037 5.39 0.00 30.79 2.32
2029 8344 3.536158 GAGCATCTCTAGCAGACGTAG 57.464 52.381 0.00 0.00 32.26 3.51
2030 8345 3.135225 GAGCATCTCTAGCAGACGTAGA 58.865 50.000 0.00 0.00 32.26 2.59
2031 8346 3.750371 AGCATCTCTAGCAGACGTAGAT 58.250 45.455 0.00 0.00 32.26 1.98
2032 8347 3.751175 AGCATCTCTAGCAGACGTAGATC 59.249 47.826 0.00 0.00 32.26 2.75
2033 8348 3.500299 GCATCTCTAGCAGACGTAGATCA 59.500 47.826 0.00 0.00 32.26 2.92
2034 8349 4.155826 GCATCTCTAGCAGACGTAGATCAT 59.844 45.833 0.00 0.00 32.26 2.45
2035 8350 5.630061 CATCTCTAGCAGACGTAGATCATG 58.370 45.833 0.00 0.00 32.26 3.07
2036 8351 4.962155 TCTCTAGCAGACGTAGATCATGA 58.038 43.478 0.00 0.00 0.00 3.07
2037 8352 5.368989 TCTCTAGCAGACGTAGATCATGAA 58.631 41.667 0.00 0.00 0.00 2.57
2038 8353 6.000840 TCTCTAGCAGACGTAGATCATGAAT 58.999 40.000 0.00 0.00 0.00 2.57
2039 8354 7.162082 TCTCTAGCAGACGTAGATCATGAATA 58.838 38.462 0.00 0.00 0.00 1.75
2040 8355 7.333174 TCTCTAGCAGACGTAGATCATGAATAG 59.667 40.741 0.00 0.00 0.00 1.73
2041 8356 7.162082 TCTAGCAGACGTAGATCATGAATAGA 58.838 38.462 0.00 0.00 0.00 1.98
2042 8357 6.641169 AGCAGACGTAGATCATGAATAGAA 57.359 37.500 0.00 0.00 0.00 2.10
2043 8358 6.676950 AGCAGACGTAGATCATGAATAGAAG 58.323 40.000 0.00 0.00 0.00 2.85
2044 8359 6.488344 AGCAGACGTAGATCATGAATAGAAGA 59.512 38.462 0.00 0.00 0.00 2.87
2045 8360 7.013750 AGCAGACGTAGATCATGAATAGAAGAA 59.986 37.037 0.00 0.00 0.00 2.52
2046 8361 7.325821 GCAGACGTAGATCATGAATAGAAGAAG 59.674 40.741 0.00 0.00 0.00 2.85
2047 8362 7.807433 CAGACGTAGATCATGAATAGAAGAAGG 59.193 40.741 0.00 0.00 0.00 3.46
2048 8363 7.721842 AGACGTAGATCATGAATAGAAGAAGGA 59.278 37.037 0.00 0.00 0.00 3.36
2049 8364 8.239038 ACGTAGATCATGAATAGAAGAAGGAA 57.761 34.615 0.00 0.00 0.00 3.36
2050 8365 8.865090 ACGTAGATCATGAATAGAAGAAGGAAT 58.135 33.333 0.00 0.00 0.00 3.01
2051 8366 9.703892 CGTAGATCATGAATAGAAGAAGGAATT 57.296 33.333 0.00 0.00 0.00 2.17
2054 8369 9.917887 AGATCATGAATAGAAGAAGGAATTTGT 57.082 29.630 0.00 0.00 0.00 2.83
2066 8381 9.089601 GAAGAAGGAATTTGTAGTACTAAGAGC 57.910 37.037 3.61 0.00 0.00 4.09
2067 8382 8.135382 AGAAGGAATTTGTAGTACTAAGAGCA 57.865 34.615 3.61 0.00 0.00 4.26
2068 8383 8.763601 AGAAGGAATTTGTAGTACTAAGAGCAT 58.236 33.333 3.61 0.00 0.00 3.79
2069 8384 8.950208 AAGGAATTTGTAGTACTAAGAGCATC 57.050 34.615 3.61 0.00 0.00 3.91
2085 8400 5.682943 GAGCATCTCTAACAGACGTAGAT 57.317 43.478 0.00 0.00 32.26 1.98
2086 8401 5.682943 AGCATCTCTAACAGACGTAGATC 57.317 43.478 0.00 0.00 32.26 2.75
2087 8402 5.126779 AGCATCTCTAACAGACGTAGATCA 58.873 41.667 0.00 0.00 32.26 2.92
2088 8403 5.767665 AGCATCTCTAACAGACGTAGATCAT 59.232 40.000 0.00 0.00 32.26 2.45
2089 8404 5.855925 GCATCTCTAACAGACGTAGATCATG 59.144 44.000 0.00 0.00 32.26 3.07
2090 8405 6.293680 GCATCTCTAACAGACGTAGATCATGA 60.294 42.308 0.00 0.00 32.26 3.07
2091 8406 7.643579 CATCTCTAACAGACGTAGATCATGAA 58.356 38.462 0.00 0.00 32.26 2.57
2092 8407 7.809546 TCTCTAACAGACGTAGATCATGAAT 57.190 36.000 0.00 0.00 0.00 2.57
2093 8408 8.904099 TCTCTAACAGACGTAGATCATGAATA 57.096 34.615 0.00 0.00 0.00 1.75
2094 8409 8.994170 TCTCTAACAGACGTAGATCATGAATAG 58.006 37.037 0.00 0.00 0.00 1.73
2095 8410 8.904099 TCTAACAGACGTAGATCATGAATAGA 57.096 34.615 0.00 0.00 0.00 1.98
2096 8411 9.338622 TCTAACAGACGTAGATCATGAATAGAA 57.661 33.333 0.00 0.00 0.00 2.10
2097 8412 9.605955 CTAACAGACGTAGATCATGAATAGAAG 57.394 37.037 0.00 0.00 0.00 2.85
2098 8413 7.809546 ACAGACGTAGATCATGAATAGAAGA 57.190 36.000 0.00 0.00 0.00 2.87
2099 8414 8.226819 ACAGACGTAGATCATGAATAGAAGAA 57.773 34.615 0.00 0.00 0.00 2.52
2100 8415 8.132362 ACAGACGTAGATCATGAATAGAAGAAC 58.868 37.037 0.00 0.00 0.00 3.01
2101 8416 7.322461 CAGACGTAGATCATGAATAGAAGAACG 59.678 40.741 0.00 4.54 0.00 3.95
2102 8417 7.226918 AGACGTAGATCATGAATAGAAGAACGA 59.773 37.037 0.00 0.00 0.00 3.85
2103 8418 7.704271 ACGTAGATCATGAATAGAAGAACGAA 58.296 34.615 0.00 0.00 0.00 3.85
2104 8419 8.353684 ACGTAGATCATGAATAGAAGAACGAAT 58.646 33.333 0.00 0.00 0.00 3.34
2105 8420 9.186323 CGTAGATCATGAATAGAAGAACGAATT 57.814 33.333 0.00 0.00 0.00 2.17
2170 8485 6.422400 GCAAATTGTAAAACTGAAATTCGGGA 59.578 34.615 6.77 0.00 0.00 5.14
2188 8507 9.883142 AATTCGGGATAAAAATGCATTTTAAGA 57.117 25.926 31.87 21.87 44.40 2.10
2208 8527 5.093849 AGAGTTTATTTTAGCTACGGCCA 57.906 39.130 2.24 0.00 39.73 5.36
2216 8535 0.108992 TAGCTACGGCCAAACAGACG 60.109 55.000 2.24 0.00 39.73 4.18
2217 8536 1.666872 GCTACGGCCAAACAGACGT 60.667 57.895 2.24 0.00 42.71 4.34
2224 8543 2.723209 GGCCAAACAGACGTTGTAAAC 58.277 47.619 0.00 0.00 45.31 2.01
2248 8567 6.837048 ACCAAACTGTAAAACTGGGATAAAGT 59.163 34.615 0.00 0.00 0.00 2.66
2253 8572 5.876357 TGTAAAACTGGGATAAAGTGCTCT 58.124 37.500 0.00 0.00 0.00 4.09
2337 8686 4.351054 GGCCACACCCAGTCCCTG 62.351 72.222 0.00 0.00 0.00 4.45
2338 8687 3.570212 GCCACACCCAGTCCCTGT 61.570 66.667 0.00 0.00 0.00 4.00
2339 8688 2.750350 CCACACCCAGTCCCTGTC 59.250 66.667 0.00 0.00 0.00 3.51
2340 8689 2.343758 CACACCCAGTCCCTGTCG 59.656 66.667 0.00 0.00 0.00 4.35
2341 8690 2.923035 ACACCCAGTCCCTGTCGG 60.923 66.667 0.00 0.00 0.00 4.79
2342 8691 4.394712 CACCCAGTCCCTGTCGGC 62.395 72.222 0.00 0.00 0.00 5.54
2343 8692 4.640690 ACCCAGTCCCTGTCGGCT 62.641 66.667 0.00 0.00 0.00 5.52
2344 8693 4.087892 CCCAGTCCCTGTCGGCTG 62.088 72.222 0.00 0.00 36.24 4.85
2345 8694 4.767255 CCAGTCCCTGTCGGCTGC 62.767 72.222 0.00 0.00 35.57 5.25
2357 8706 2.124983 GGCTGCGCCTCATCTTCA 60.125 61.111 4.18 0.00 46.69 3.02
2423 8792 2.434134 CGTCCGTGCGTTGCTCTAC 61.434 63.158 0.00 0.00 0.00 2.59
2426 8795 1.372997 CCGTGCGTTGCTCTACTGT 60.373 57.895 0.00 0.00 0.00 3.55
2432 8801 0.038251 CGTTGCTCTACTGTCAGCCA 60.038 55.000 0.00 0.00 34.47 4.75
2459 8828 4.660938 AGTCGTGCCCCTTTGCCC 62.661 66.667 0.00 0.00 0.00 5.36
2595 8964 2.004017 GTGTGCGGTGATAAATTCCGA 58.996 47.619 6.70 0.00 46.05 4.55
2627 8996 1.076332 GGATTCCGACAAACTCCACG 58.924 55.000 0.00 0.00 0.00 4.94
2628 8997 1.076332 GATTCCGACAAACTCCACGG 58.924 55.000 0.00 0.00 45.61 4.94
2629 8998 0.953960 ATTCCGACAAACTCCACGGC 60.954 55.000 0.00 0.00 44.19 5.68
2630 8999 3.411351 CCGACAAACTCCACGGCG 61.411 66.667 4.80 4.80 38.98 6.46
2631 9000 3.411351 CGACAAACTCCACGGCGG 61.411 66.667 13.24 0.00 0.00 6.13
2632 9001 3.723348 GACAAACTCCACGGCGGC 61.723 66.667 13.24 0.00 33.14 6.53
2633 9002 4.555709 ACAAACTCCACGGCGGCA 62.556 61.111 13.24 0.00 33.14 5.69
2634 9003 3.055719 CAAACTCCACGGCGGCAT 61.056 61.111 13.24 0.00 33.14 4.40
2635 9004 3.055719 AAACTCCACGGCGGCATG 61.056 61.111 13.24 3.11 33.14 4.06
2636 9005 3.842925 AAACTCCACGGCGGCATGT 62.843 57.895 13.24 1.58 33.14 3.21
2637 9006 3.842925 AACTCCACGGCGGCATGTT 62.843 57.895 13.24 8.28 33.14 2.71
2638 9007 3.055719 CTCCACGGCGGCATGTTT 61.056 61.111 13.24 0.00 33.14 2.83
2639 9008 3.326889 CTCCACGGCGGCATGTTTG 62.327 63.158 13.24 0.00 33.14 2.93
2648 9017 3.561429 GCATGTTTGCTCCGACGA 58.439 55.556 0.00 0.00 45.77 4.20
2649 9018 1.421485 GCATGTTTGCTCCGACGAG 59.579 57.895 0.00 0.00 45.77 4.18
2650 9019 1.291877 GCATGTTTGCTCCGACGAGT 61.292 55.000 0.00 0.00 45.77 4.18
2651 9020 1.148310 CATGTTTGCTCCGACGAGTT 58.852 50.000 0.00 0.00 38.49 3.01
2652 9021 1.531149 CATGTTTGCTCCGACGAGTTT 59.469 47.619 0.00 0.00 38.49 2.66
2653 9022 2.512485 TGTTTGCTCCGACGAGTTTA 57.488 45.000 0.00 0.00 38.49 2.01
2654 9023 2.400399 TGTTTGCTCCGACGAGTTTAG 58.600 47.619 0.00 0.00 38.49 1.85
2655 9024 1.725164 GTTTGCTCCGACGAGTTTAGG 59.275 52.381 0.00 0.00 38.49 2.69
2656 9025 0.245539 TTGCTCCGACGAGTTTAGGG 59.754 55.000 0.00 0.00 38.49 3.53
2657 9026 1.518792 GCTCCGACGAGTTTAGGGC 60.519 63.158 0.00 0.00 38.49 5.19
2658 9027 1.226603 CTCCGACGAGTTTAGGGCG 60.227 63.158 0.00 0.00 0.00 6.13
2659 9028 2.202703 CCGACGAGTTTAGGGCGG 60.203 66.667 0.00 0.00 0.00 6.13
2660 9029 2.703798 CCGACGAGTTTAGGGCGGA 61.704 63.158 0.00 0.00 41.11 5.54
2661 9030 1.436336 CGACGAGTTTAGGGCGGAT 59.564 57.895 0.00 0.00 0.00 4.18
2662 9031 0.179119 CGACGAGTTTAGGGCGGATT 60.179 55.000 0.00 0.00 0.00 3.01
2663 9032 1.568606 GACGAGTTTAGGGCGGATTC 58.431 55.000 0.00 0.00 0.00 2.52
2664 9033 0.177373 ACGAGTTTAGGGCGGATTCC 59.823 55.000 0.00 0.00 0.00 3.01
2748 9118 1.675641 CGGCCTCCAACCTCCAAAG 60.676 63.158 0.00 0.00 0.00 2.77
2750 9120 0.609406 GGCCTCCAACCTCCAAAGAC 60.609 60.000 0.00 0.00 0.00 3.01
2761 9131 1.880027 CTCCAAAGACAAGGGTTTCGG 59.120 52.381 0.00 0.00 0.00 4.30
2812 9182 1.971481 ACGGGTTGGACCACTTTTAC 58.029 50.000 0.00 0.00 41.02 2.01
2814 9184 2.299521 CGGGTTGGACCACTTTTACAA 58.700 47.619 0.00 0.00 41.02 2.41
2815 9185 2.888414 CGGGTTGGACCACTTTTACAAT 59.112 45.455 0.00 0.00 41.02 2.71
2820 9190 6.265876 GGGTTGGACCACTTTTACAATTTCTA 59.734 38.462 0.00 0.00 41.02 2.10
2875 9245 7.668525 AAACACAAAATTTTTACGGGTTTGA 57.331 28.000 15.47 0.00 31.85 2.69
2886 9256 2.963432 ACGGGTTTGACCACTTATACG 58.037 47.619 0.00 0.00 41.02 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 88 8.701895 AGATTTATGGAGAAATGCATTGTGATT 58.298 29.630 13.82 0.00 0.00 2.57
239 242 8.208224 TGTTACAACTAAATTTGAGACTCCTCA 58.792 33.333 0.00 0.00 46.95 3.86
392 399 0.818296 AAGCGAGAGTAAGCCGACAT 59.182 50.000 0.00 0.00 0.00 3.06
426 631 0.642710 CCTCTCCCCCTTCCTCCTAA 59.357 60.000 0.00 0.00 0.00 2.69
473 680 9.020731 TGATACAAGTATCTTACAGTTGAGTCA 57.979 33.333 18.12 0.00 41.80 3.41
520 727 6.429692 TGTGTTCATCTTTGTTCACCGATTAT 59.570 34.615 0.00 0.00 31.69 1.28
532 739 8.652810 AGGATTTTCTTTTGTGTTCATCTTTG 57.347 30.769 0.00 0.00 0.00 2.77
660 3555 0.035036 CAGATCGATCTGCCCAGCAT 59.965 55.000 35.45 7.30 46.63 3.79
661 3556 1.444672 CAGATCGATCTGCCCAGCA 59.555 57.895 35.45 0.00 46.63 4.41
662 3557 4.357699 CAGATCGATCTGCCCAGC 57.642 61.111 35.45 5.45 46.63 4.85
793 5529 2.982130 GCGTGGTGAGGGAGTGAT 59.018 61.111 0.00 0.00 0.00 3.06
887 5630 2.031769 CAGCTGAGCTCTCTCGAGTATG 60.032 54.545 16.19 4.50 42.26 2.39
985 6495 2.125552 CATGGCTTGCGGTCGAGA 60.126 61.111 0.00 0.00 0.00 4.04
1017 6527 1.002274 AGGGAAGGAGATGGAGCGT 59.998 57.895 0.00 0.00 0.00 5.07
1120 6722 2.125512 GAGGTGCGCCAAGATCGT 60.126 61.111 20.59 0.00 37.19 3.73
1700 7899 1.300620 TTCTTCGTCACCAGGCACG 60.301 57.895 5.31 5.31 37.36 5.34
1754 7953 3.227276 CCGCCACGGCTATCTCCT 61.227 66.667 6.48 0.00 41.17 3.69
1909 8202 2.338577 ACAGCTAAGATGGATGGCAC 57.661 50.000 0.00 0.00 0.00 5.01
1910 8203 3.041211 AGTACAGCTAAGATGGATGGCA 58.959 45.455 0.00 0.00 0.00 4.92
1911 8204 3.760580 AGTACAGCTAAGATGGATGGC 57.239 47.619 0.00 0.00 0.00 4.40
1941 8242 0.392461 TACGCTGGATTTCTGCCACC 60.392 55.000 0.00 0.00 37.06 4.61
1999 8314 7.606456 GTCTGCTAGAGATGCTCTTAGTACTAT 59.394 40.741 2.79 0.00 41.50 2.12
2009 8324 3.135225 TCTACGTCTGCTAGAGATGCTC 58.865 50.000 0.00 0.00 40.97 4.26
2010 8325 3.201353 TCTACGTCTGCTAGAGATGCT 57.799 47.619 0.00 0.00 40.97 3.79
2011 8326 3.500299 TGATCTACGTCTGCTAGAGATGC 59.500 47.826 0.00 0.00 40.97 3.91
2012 8327 5.411053 TCATGATCTACGTCTGCTAGAGATG 59.589 44.000 0.00 2.03 42.73 2.90
2013 8328 5.555966 TCATGATCTACGTCTGCTAGAGAT 58.444 41.667 0.00 0.00 31.63 2.75
2014 8329 4.962155 TCATGATCTACGTCTGCTAGAGA 58.038 43.478 0.00 0.00 0.00 3.10
2015 8330 5.681337 TTCATGATCTACGTCTGCTAGAG 57.319 43.478 0.00 0.00 0.00 2.43
2016 8331 7.162082 TCTATTCATGATCTACGTCTGCTAGA 58.838 38.462 0.00 0.00 0.00 2.43
2017 8332 7.371126 TCTATTCATGATCTACGTCTGCTAG 57.629 40.000 0.00 0.00 0.00 3.42
2018 8333 7.661847 TCTTCTATTCATGATCTACGTCTGCTA 59.338 37.037 0.00 0.00 0.00 3.49
2019 8334 6.488344 TCTTCTATTCATGATCTACGTCTGCT 59.512 38.462 0.00 0.00 0.00 4.24
2020 8335 6.673106 TCTTCTATTCATGATCTACGTCTGC 58.327 40.000 0.00 0.00 0.00 4.26
2021 8336 7.807433 CCTTCTTCTATTCATGATCTACGTCTG 59.193 40.741 0.00 0.00 0.00 3.51
2022 8337 7.721842 TCCTTCTTCTATTCATGATCTACGTCT 59.278 37.037 0.00 0.00 0.00 4.18
2023 8338 7.877003 TCCTTCTTCTATTCATGATCTACGTC 58.123 38.462 0.00 0.00 0.00 4.34
2024 8339 7.825331 TCCTTCTTCTATTCATGATCTACGT 57.175 36.000 0.00 0.00 0.00 3.57
2025 8340 9.703892 AATTCCTTCTTCTATTCATGATCTACG 57.296 33.333 0.00 0.00 0.00 3.51
2028 8343 9.917887 ACAAATTCCTTCTTCTATTCATGATCT 57.082 29.630 0.00 0.00 0.00 2.75
2040 8355 9.089601 GCTCTTAGTACTACAAATTCCTTCTTC 57.910 37.037 0.91 0.00 0.00 2.87
2041 8356 8.594550 TGCTCTTAGTACTACAAATTCCTTCTT 58.405 33.333 0.91 0.00 0.00 2.52
2042 8357 8.135382 TGCTCTTAGTACTACAAATTCCTTCT 57.865 34.615 0.91 0.00 0.00 2.85
2043 8358 8.950208 ATGCTCTTAGTACTACAAATTCCTTC 57.050 34.615 0.91 0.00 0.00 3.46
2044 8359 8.763601 AGATGCTCTTAGTACTACAAATTCCTT 58.236 33.333 0.91 0.00 0.00 3.36
2045 8360 8.312669 AGATGCTCTTAGTACTACAAATTCCT 57.687 34.615 0.91 0.00 0.00 3.36
2046 8361 8.417884 AGAGATGCTCTTAGTACTACAAATTCC 58.582 37.037 0.91 0.00 37.60 3.01
2050 8365 9.239551 TGTTAGAGATGCTCTTAGTACTACAAA 57.760 33.333 0.91 0.00 41.50 2.83
2051 8366 8.803397 TGTTAGAGATGCTCTTAGTACTACAA 57.197 34.615 0.91 0.00 41.50 2.41
2052 8367 8.265764 TCTGTTAGAGATGCTCTTAGTACTACA 58.734 37.037 0.91 0.00 41.50 2.74
2053 8368 8.553696 GTCTGTTAGAGATGCTCTTAGTACTAC 58.446 40.741 0.91 0.00 41.50 2.73
2054 8369 7.438757 CGTCTGTTAGAGATGCTCTTAGTACTA 59.561 40.741 0.00 0.00 41.50 1.82
2055 8370 6.259167 CGTCTGTTAGAGATGCTCTTAGTACT 59.741 42.308 0.00 0.00 41.50 2.73
2056 8371 6.037391 ACGTCTGTTAGAGATGCTCTTAGTAC 59.963 42.308 1.88 0.00 41.50 2.73
2057 8372 6.114089 ACGTCTGTTAGAGATGCTCTTAGTA 58.886 40.000 1.88 0.00 41.50 1.82
2058 8373 4.944930 ACGTCTGTTAGAGATGCTCTTAGT 59.055 41.667 1.88 0.00 41.50 2.24
2059 8374 5.493133 ACGTCTGTTAGAGATGCTCTTAG 57.507 43.478 1.88 0.61 41.50 2.18
2060 8375 6.346896 TCTACGTCTGTTAGAGATGCTCTTA 58.653 40.000 1.88 0.00 41.50 2.10
2061 8376 5.186942 TCTACGTCTGTTAGAGATGCTCTT 58.813 41.667 1.88 0.00 41.50 2.85
2062 8377 4.771903 TCTACGTCTGTTAGAGATGCTCT 58.228 43.478 0.00 2.22 43.83 4.09
2063 8378 5.237561 TGATCTACGTCTGTTAGAGATGCTC 59.762 44.000 0.00 0.00 40.97 4.26
2064 8379 5.126779 TGATCTACGTCTGTTAGAGATGCT 58.873 41.667 0.00 0.00 40.97 3.79
2065 8380 5.425577 TGATCTACGTCTGTTAGAGATGC 57.574 43.478 0.00 0.00 40.97 3.91
2066 8381 7.195839 TCATGATCTACGTCTGTTAGAGATG 57.804 40.000 0.00 0.00 42.73 2.90
2067 8382 7.809546 TTCATGATCTACGTCTGTTAGAGAT 57.190 36.000 0.00 0.00 31.63 2.75
2068 8383 7.809546 ATTCATGATCTACGTCTGTTAGAGA 57.190 36.000 0.00 0.00 0.00 3.10
2069 8384 8.994170 TCTATTCATGATCTACGTCTGTTAGAG 58.006 37.037 0.00 0.00 0.00 2.43
2070 8385 8.904099 TCTATTCATGATCTACGTCTGTTAGA 57.096 34.615 0.00 0.00 0.00 2.10
2071 8386 9.605955 CTTCTATTCATGATCTACGTCTGTTAG 57.394 37.037 0.00 0.00 0.00 2.34
2072 8387 9.338622 TCTTCTATTCATGATCTACGTCTGTTA 57.661 33.333 0.00 0.00 0.00 2.41
2073 8388 8.226819 TCTTCTATTCATGATCTACGTCTGTT 57.773 34.615 0.00 0.00 0.00 3.16
2074 8389 7.809546 TCTTCTATTCATGATCTACGTCTGT 57.190 36.000 0.00 0.00 0.00 3.41
2075 8390 7.322461 CGTTCTTCTATTCATGATCTACGTCTG 59.678 40.741 0.00 0.00 0.00 3.51
2076 8391 7.226918 TCGTTCTTCTATTCATGATCTACGTCT 59.773 37.037 0.00 0.00 0.00 4.18
2077 8392 7.353497 TCGTTCTTCTATTCATGATCTACGTC 58.647 38.462 0.00 0.00 0.00 4.34
2078 8393 7.260558 TCGTTCTTCTATTCATGATCTACGT 57.739 36.000 0.00 0.00 0.00 3.57
2079 8394 8.735303 ATTCGTTCTTCTATTCATGATCTACG 57.265 34.615 0.00 0.00 0.00 3.51
2082 8397 9.388506 ACAAATTCGTTCTTCTATTCATGATCT 57.611 29.630 0.00 0.00 0.00 2.75
2085 8400 9.653287 ACTACAAATTCGTTCTTCTATTCATGA 57.347 29.630 0.00 0.00 0.00 3.07
2093 8408 9.843334 CTCTTAGTACTACAAATTCGTTCTTCT 57.157 33.333 0.91 0.00 0.00 2.85
2094 8409 8.585436 GCTCTTAGTACTACAAATTCGTTCTTC 58.415 37.037 0.91 0.00 0.00 2.87
2095 8410 8.086522 TGCTCTTAGTACTACAAATTCGTTCTT 58.913 33.333 0.91 0.00 0.00 2.52
2096 8411 7.600065 TGCTCTTAGTACTACAAATTCGTTCT 58.400 34.615 0.91 0.00 0.00 3.01
2097 8412 7.807687 TGCTCTTAGTACTACAAATTCGTTC 57.192 36.000 0.91 0.00 0.00 3.95
2098 8413 8.251721 AGATGCTCTTAGTACTACAAATTCGTT 58.748 33.333 0.91 0.00 0.00 3.85
2099 8414 7.773149 AGATGCTCTTAGTACTACAAATTCGT 58.227 34.615 0.91 0.00 0.00 3.85
2100 8415 8.132362 AGAGATGCTCTTAGTACTACAAATTCG 58.868 37.037 0.91 0.00 37.60 3.34
2103 8418 8.573035 GCTAGAGATGCTCTTAGTACTACAAAT 58.427 37.037 0.91 0.00 41.50 2.32
2104 8419 7.556635 TGCTAGAGATGCTCTTAGTACTACAAA 59.443 37.037 0.91 0.00 41.50 2.83
2105 8420 7.054751 TGCTAGAGATGCTCTTAGTACTACAA 58.945 38.462 0.91 0.00 41.50 2.41
2106 8421 6.592870 TGCTAGAGATGCTCTTAGTACTACA 58.407 40.000 0.91 0.00 41.50 2.74
2107 8422 6.932400 TCTGCTAGAGATGCTCTTAGTACTAC 59.068 42.308 0.91 0.00 41.50 2.73
2110 8425 5.763204 AGTCTGCTAGAGATGCTCTTAGTAC 59.237 44.000 1.88 0.00 41.50 2.73
2165 8480 8.062065 ACTCTTAAAATGCATTTTTATCCCGA 57.938 30.769 35.18 20.78 39.05 5.14
2208 8527 5.048573 ACAGTTTGGTTTACAACGTCTGTTT 60.049 36.000 8.33 0.00 39.97 2.83
2216 8535 6.532302 CCCAGTTTTACAGTTTGGTTTACAAC 59.468 38.462 0.00 0.00 39.19 3.32
2217 8536 6.436532 TCCCAGTTTTACAGTTTGGTTTACAA 59.563 34.615 0.00 0.00 37.28 2.41
2224 8543 7.145323 CACTTTATCCCAGTTTTACAGTTTGG 58.855 38.462 0.00 0.00 0.00 3.28
2248 8567 1.544825 CCGGACTGGAGGAAAGAGCA 61.545 60.000 0.00 0.00 42.00 4.26
2253 8572 3.702048 CGGCCGGACTGGAGGAAA 61.702 66.667 20.10 0.00 42.00 3.13
2271 8590 3.567579 CTGGGGGAAGAAGCGGCAA 62.568 63.158 1.45 0.00 0.00 4.52
2342 8691 1.416813 GACGTGAAGATGAGGCGCAG 61.417 60.000 10.83 0.00 0.00 5.18
2343 8692 1.446099 GACGTGAAGATGAGGCGCA 60.446 57.895 10.83 0.00 0.00 6.09
2344 8693 2.508891 CGACGTGAAGATGAGGCGC 61.509 63.158 0.00 0.00 0.00 6.53
2345 8694 1.874019 CCGACGTGAAGATGAGGCG 60.874 63.158 0.00 0.00 0.00 5.52
2346 8695 2.167861 GCCGACGTGAAGATGAGGC 61.168 63.158 0.00 0.00 36.08 4.70
2347 8696 1.519455 GGCCGACGTGAAGATGAGG 60.519 63.158 0.00 0.00 0.00 3.86
2348 8697 1.874019 CGGCCGACGTGAAGATGAG 60.874 63.158 24.07 0.00 37.93 2.90
2349 8698 2.180769 CGGCCGACGTGAAGATGA 59.819 61.111 24.07 0.00 37.93 2.92
2350 8699 3.554692 GCGGCCGACGTGAAGATG 61.555 66.667 33.48 0.00 46.52 2.90
2414 8783 1.433534 GTGGCTGACAGTAGAGCAAC 58.566 55.000 3.99 1.88 36.90 4.17
2440 8809 2.281484 GCAAAGGGGCACGACTCA 60.281 61.111 0.00 0.00 0.00 3.41
2557 8926 0.912486 ACCGGAAAAGGCTGCTAGAT 59.088 50.000 9.46 0.00 33.69 1.98
2595 8964 0.177373 GGAATCCGCCCTAAACTCGT 59.823 55.000 0.00 0.00 0.00 4.18
2617 8986 3.055719 ATGCCGCCGTGGAGTTTG 61.056 61.111 0.88 0.00 42.00 2.93
2618 8987 3.055719 CATGCCGCCGTGGAGTTT 61.056 61.111 0.88 0.00 42.00 2.66
2619 8988 3.842925 AACATGCCGCCGTGGAGTT 62.843 57.895 0.88 0.23 42.00 3.01
2620 8989 3.842925 AAACATGCCGCCGTGGAGT 62.843 57.895 0.88 0.00 42.00 3.85
2621 8990 3.055719 AAACATGCCGCCGTGGAG 61.056 61.111 0.88 0.00 42.00 3.86
2622 8991 3.361158 CAAACATGCCGCCGTGGA 61.361 61.111 0.88 0.00 42.00 4.02
2624 8993 3.951655 GAGCAAACATGCCGCCGTG 62.952 63.158 0.00 0.00 34.90 4.94
2625 8994 3.737172 GAGCAAACATGCCGCCGT 61.737 61.111 0.00 0.00 34.90 5.68
2626 8995 4.481112 GGAGCAAACATGCCGCCG 62.481 66.667 0.00 0.00 34.90 6.46
2627 8996 4.481112 CGGAGCAAACATGCCGCC 62.481 66.667 0.00 0.00 37.08 6.13
2628 8997 3.430862 TCGGAGCAAACATGCCGC 61.431 61.111 0.00 0.00 43.26 6.53
2629 8998 2.480555 GTCGGAGCAAACATGCCG 59.519 61.111 0.00 0.00 44.83 5.69
2630 8999 1.970917 CTCGTCGGAGCAAACATGCC 61.971 60.000 0.00 0.00 32.61 4.40
2631 9000 1.291877 ACTCGTCGGAGCAAACATGC 61.292 55.000 0.00 0.00 44.48 4.06
2632 9001 1.148310 AACTCGTCGGAGCAAACATG 58.852 50.000 0.00 0.00 44.48 3.21
2633 9002 1.878953 AAACTCGTCGGAGCAAACAT 58.121 45.000 0.00 0.00 44.48 2.71
2634 9003 2.400399 CTAAACTCGTCGGAGCAAACA 58.600 47.619 0.00 0.00 44.48 2.83
2635 9004 1.725164 CCTAAACTCGTCGGAGCAAAC 59.275 52.381 0.00 0.00 44.48 2.93
2636 9005 1.337447 CCCTAAACTCGTCGGAGCAAA 60.337 52.381 0.00 0.00 44.48 3.68
2637 9006 0.245539 CCCTAAACTCGTCGGAGCAA 59.754 55.000 0.00 0.00 44.48 3.91
2638 9007 1.888018 CCCTAAACTCGTCGGAGCA 59.112 57.895 0.00 0.00 44.48 4.26
2639 9008 1.518792 GCCCTAAACTCGTCGGAGC 60.519 63.158 0.00 0.00 44.48 4.70
2640 9009 1.226603 CGCCCTAAACTCGTCGGAG 60.227 63.158 0.00 0.00 46.13 4.63
2641 9010 2.703798 CCGCCCTAAACTCGTCGGA 61.704 63.158 0.00 0.00 39.23 4.55
2642 9011 2.012902 ATCCGCCCTAAACTCGTCGG 62.013 60.000 0.00 0.00 38.34 4.79
2643 9012 0.179119 AATCCGCCCTAAACTCGTCG 60.179 55.000 0.00 0.00 0.00 5.12
2644 9013 1.568606 GAATCCGCCCTAAACTCGTC 58.431 55.000 0.00 0.00 0.00 4.20
2645 9014 0.177373 GGAATCCGCCCTAAACTCGT 59.823 55.000 0.00 0.00 0.00 4.18
2646 9015 0.874607 CGGAATCCGCCCTAAACTCG 60.875 60.000 9.39 0.00 41.17 4.18
2647 9016 2.987752 CGGAATCCGCCCTAAACTC 58.012 57.895 9.39 0.00 41.17 3.01
2658 9027 1.693083 CGCGGAGTTTGTCGGAATCC 61.693 60.000 0.00 0.00 0.00 3.01
2659 9028 1.693083 CCGCGGAGTTTGTCGGAATC 61.693 60.000 24.07 0.00 44.23 2.52
2660 9029 1.740296 CCGCGGAGTTTGTCGGAAT 60.740 57.895 24.07 0.00 44.23 3.01
2661 9030 2.356553 CCGCGGAGTTTGTCGGAA 60.357 61.111 24.07 0.00 44.23 4.30
2716 9085 3.878358 GCCGAATCTAGAGGGCCT 58.122 61.111 5.25 5.25 39.67 5.19
2722 9091 1.120530 GGTTGGAGGCCGAATCTAGA 58.879 55.000 0.00 0.00 0.00 2.43
2748 9118 1.792118 GCACACCCGAAACCCTTGTC 61.792 60.000 0.00 0.00 0.00 3.18
2750 9120 1.178534 ATGCACACCCGAAACCCTTG 61.179 55.000 0.00 0.00 0.00 3.61
2761 9131 1.372872 GCCACCGAAAATGCACACC 60.373 57.895 0.00 0.00 0.00 4.16
2795 9165 4.948341 AATTGTAAAAGTGGTCCAACCC 57.052 40.909 0.00 0.00 37.50 4.11
2848 9218 9.989869 CAAACCCGTAAAAATTTTGTGTTTTAT 57.010 25.926 3.73 0.00 33.17 1.40
2861 9231 6.073331 CGTATAAGTGGTCAAACCCGTAAAAA 60.073 38.462 0.00 0.00 37.50 1.94
2864 9234 4.493547 CGTATAAGTGGTCAAACCCGTAA 58.506 43.478 0.00 0.00 37.50 3.18
2867 9237 2.273557 CCGTATAAGTGGTCAAACCCG 58.726 52.381 0.00 0.00 37.50 5.28


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

AutoCloner maintained by Alex Coulton.