Multiple sequence alignment - TraesCS4B01G361400

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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 TraesCS4B01G361400 chr4B 100.000 3107 0 0 1 3107 650863326 650866432 0.000000e+00 5738
1 TraesCS4B01G361400 chr5A 95.200 1854 60 7 234 2074 688928051 688929888 0.000000e+00 2904
2 TraesCS4B01G361400 chr5A 88.745 231 8 7 5 235 688927811 688928023 1.840000e-67 267
3 TraesCS4B01G361400 chr5A 78.947 418 66 12 2100 2511 659254568 659254167 6.610000e-67 265
4 TraesCS4B01G361400 chr5A 83.004 253 31 8 2707 2949 659254024 659253774 5.220000e-53 219
5 TraesCS4B01G361400 chr2B 86.924 1216 138 9 859 2074 799567970 799566776 0.000000e+00 1345
6 TraesCS4B01G361400 chr2B 87.467 758 91 1 874 1631 799537751 799536998 0.000000e+00 870
7 TraesCS4B01G361400 chr2B 84.729 406 54 8 2099 2503 799536309 799535911 1.740000e-107 399
8 TraesCS4B01G361400 chr2B 82.025 395 58 8 2109 2501 799547060 799546677 1.070000e-84 324
9 TraesCS4B01G361400 chr2B 81.020 353 58 6 2596 2948 799546336 799545993 3.950000e-69 272
10 TraesCS4B01G361400 chr2B 83.212 274 41 4 2676 2948 799565481 799565212 2.390000e-61 246
11 TraesCS4B01G361400 chr2B 81.356 236 36 8 2102 2333 1521573 1521804 5.290000e-43 185
12 TraesCS4B01G361400 chr2B 86.957 161 18 2 609 767 799568830 799568671 8.850000e-41 178
13 TraesCS4B01G361400 chr2B 83.051 177 14 8 62 235 799538425 799538262 2.500000e-31 147
14 TraesCS4B01G361400 chr2D 88.391 758 84 1 874 1631 642216350 642217103 0.000000e+00 909
15 TraesCS4B01G361400 chr2D 86.417 773 101 4 859 1629 642123946 642123176 0.000000e+00 843
16 TraesCS4B01G361400 chr2D 87.960 706 77 3 857 1559 642209049 642209749 0.000000e+00 826
17 TraesCS4B01G361400 chr2D 89.462 446 45 2 1630 2074 642217054 642217498 2.090000e-156 562
18 TraesCS4B01G361400 chr2D 88.539 445 51 0 1630 2074 642209772 642210216 9.800000e-150 540
19 TraesCS4B01G361400 chr2D 84.334 383 54 5 2107 2489 642217800 642218176 1.360000e-98 370
20 TraesCS4B01G361400 chr2D 82.116 397 53 9 2107 2503 642339033 642338655 1.070000e-84 324
21 TraesCS4B01G361400 chr2D 80.831 313 53 6 2646 2956 642337901 642337594 4.000000e-59 239
22 TraesCS4B01G361400 chr2D 79.076 368 41 18 408 772 642207883 642208217 1.450000e-53 220
23 TraesCS4B01G361400 chr2D 81.743 241 37 6 2718 2956 642108926 642108691 8.790000e-46 195
24 TraesCS4B01G361400 chr2D 81.720 186 18 12 54 235 642215666 642215839 1.160000e-29 141
25 TraesCS4B01G361400 chr2A 87.203 758 89 3 874 1629 767024507 767025258 0.000000e+00 856
26 TraesCS4B01G361400 chr2A 89.910 446 43 2 1630 2074 767025211 767025655 9.660000e-160 573
27 TraesCS4B01G361400 chr2A 88.367 447 48 4 1630 2074 767033641 767034085 4.560000e-148 534
28 TraesCS4B01G361400 chr2A 86.423 383 46 5 2107 2489 767025957 767026333 6.200000e-112 414
29 TraesCS4B01G361400 chr2A 82.065 184 15 12 56 235 767023744 767023913 1.160000e-29 141
30 TraesCS4B01G361400 chr2A 82.584 178 13 12 62 235 767144472 767144309 1.160000e-29 141
31 TraesCS4B01G361400 chr3B 86.675 758 94 6 870 1622 829251512 829252267 0.000000e+00 833
32 TraesCS4B01G361400 chr3B 91.461 445 38 0 1630 2074 829252227 829252671 2.050000e-171 612
33 TraesCS4B01G361400 chr3B 78.984 866 142 28 2100 2954 829252978 829253814 3.500000e-154 555
34 TraesCS4B01G361400 chr7B 86.526 757 99 3 875 1630 13245113 13244359 0.000000e+00 830
35 TraesCS4B01G361400 chr7B 88.813 438 49 0 1636 2073 13244401 13243964 3.530000e-149 538
36 TraesCS4B01G361400 chr7B 78.555 858 132 34 2109 2949 13243647 13242825 4.590000e-143 518
37 TraesCS4B01G361400 chr4D 88.034 702 83 1 2099 2800 504258276 504258976 0.000000e+00 830
38 TraesCS4B01G361400 chr4D 90.337 445 42 1 1630 2074 504256525 504256968 1.610000e-162 582
39 TraesCS4B01G361400 chr6B 83.200 250 39 2 2682 2931 27910371 27910125 3.120000e-55 226


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 TraesCS4B01G361400 chr4B 650863326 650866432 3106 False 5738.000000 5738 100.000000 1 3107 1 chr4B.!!$F1 3106
1 TraesCS4B01G361400 chr5A 688927811 688929888 2077 False 1585.500000 2904 91.972500 5 2074 2 chr5A.!!$F1 2069
2 TraesCS4B01G361400 chr5A 659253774 659254568 794 True 242.000000 265 80.975500 2100 2949 2 chr5A.!!$R1 849
3 TraesCS4B01G361400 chr2B 799565212 799568830 3618 True 589.666667 1345 85.697667 609 2948 3 chr2B.!!$R3 2339
4 TraesCS4B01G361400 chr2B 799535911 799538425 2514 True 472.000000 870 85.082333 62 2503 3 chr2B.!!$R1 2441
5 TraesCS4B01G361400 chr2B 799545993 799547060 1067 True 298.000000 324 81.522500 2109 2948 2 chr2B.!!$R2 839
6 TraesCS4B01G361400 chr2D 642123176 642123946 770 True 843.000000 843 86.417000 859 1629 1 chr2D.!!$R2 770
7 TraesCS4B01G361400 chr2D 642207883 642210216 2333 False 528.666667 826 85.191667 408 2074 3 chr2D.!!$F1 1666
8 TraesCS4B01G361400 chr2D 642215666 642218176 2510 False 495.500000 909 85.976750 54 2489 4 chr2D.!!$F2 2435
9 TraesCS4B01G361400 chr2D 642337594 642339033 1439 True 281.500000 324 81.473500 2107 2956 2 chr2D.!!$R3 849
10 TraesCS4B01G361400 chr2A 767023744 767026333 2589 False 496.000000 856 86.400250 56 2489 4 chr2A.!!$F2 2433
11 TraesCS4B01G361400 chr3B 829251512 829253814 2302 False 666.666667 833 85.706667 870 2954 3 chr3B.!!$F1 2084
12 TraesCS4B01G361400 chr7B 13242825 13245113 2288 True 628.666667 830 84.631333 875 2949 3 chr7B.!!$R1 2074
13 TraesCS4B01G361400 chr4D 504256525 504258976 2451 False 706.000000 830 89.185500 1630 2800 2 chr4D.!!$F1 1170

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
117 118 1.066002 TGCTGCTCTTCTGCAACAAAC 59.934 47.619 0.00 0.00 44.91 2.93 F
1421 2726 0.460987 AAGTATGTCGCTGGCAGCTC 60.461 55.000 34.17 26.08 39.60 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2074 3410 1.135603 CATGTCCATGTTGTGAAGCCG 60.136 52.381 0.0 0.0 34.23 5.52 R
2936 6650 0.033504 GGTGGCGTGAAGAACTCTGA 59.966 55.000 0.0 0.0 0.00 3.27 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
23 24 4.580167 GCTTGCTCATCAACCATAATACCA 59.420 41.667 0.00 0.00 0.00 3.25
24 25 5.067674 GCTTGCTCATCAACCATAATACCAA 59.932 40.000 0.00 0.00 0.00 3.67
25 26 6.449635 TTGCTCATCAACCATAATACCAAC 57.550 37.500 0.00 0.00 0.00 3.77
26 27 4.887071 TGCTCATCAACCATAATACCAACC 59.113 41.667 0.00 0.00 0.00 3.77
27 28 4.024048 GCTCATCAACCATAATACCAACCG 60.024 45.833 0.00 0.00 0.00 4.44
53 54 4.893608 TCAACTAGTGCTGCATCTTTGTA 58.106 39.130 5.27 0.00 0.00 2.41
54 55 5.304778 TCAACTAGTGCTGCATCTTTGTAA 58.695 37.500 5.27 0.00 0.00 2.41
55 56 5.939883 TCAACTAGTGCTGCATCTTTGTAAT 59.060 36.000 5.27 0.00 0.00 1.89
56 57 5.808042 ACTAGTGCTGCATCTTTGTAATG 57.192 39.130 5.27 0.00 0.00 1.90
57 58 5.248640 ACTAGTGCTGCATCTTTGTAATGT 58.751 37.500 5.27 0.00 0.00 2.71
58 59 4.691860 AGTGCTGCATCTTTGTAATGTC 57.308 40.909 5.27 0.00 0.00 3.06
59 60 3.441572 AGTGCTGCATCTTTGTAATGTCC 59.558 43.478 5.27 0.00 0.00 4.02
60 61 3.441572 GTGCTGCATCTTTGTAATGTCCT 59.558 43.478 5.27 0.00 0.00 3.85
117 118 1.066002 TGCTGCTCTTCTGCAACAAAC 59.934 47.619 0.00 0.00 44.91 2.93
118 119 1.601412 GCTGCTCTTCTGCAACAAACC 60.601 52.381 0.00 0.00 42.83 3.27
119 120 1.952296 CTGCTCTTCTGCAACAAACCT 59.048 47.619 0.00 0.00 42.83 3.50
120 121 1.949525 TGCTCTTCTGCAACAAACCTC 59.050 47.619 0.00 0.00 40.29 3.85
139 140 3.465403 CTCCCTCCCTCGTGCCTG 61.465 72.222 0.00 0.00 0.00 4.85
267 301 2.607187 AGTACCGTTTTCTCTGCATCG 58.393 47.619 0.00 0.00 0.00 3.84
268 302 2.230508 AGTACCGTTTTCTCTGCATCGA 59.769 45.455 0.00 0.00 0.00 3.59
269 303 2.386661 ACCGTTTTCTCTGCATCGAT 57.613 45.000 0.00 0.00 0.00 3.59
270 304 2.271800 ACCGTTTTCTCTGCATCGATC 58.728 47.619 0.00 0.00 0.00 3.69
280 314 2.870411 TCTGCATCGATCTCTGCAAATG 59.130 45.455 16.71 8.40 46.87 2.32
345 457 9.807921 ATTTCGTCTTGGGGAAATGTATTATAT 57.192 29.630 0.00 0.00 40.37 0.86
346 458 9.635404 TTTCGTCTTGGGGAAATGTATTATATT 57.365 29.630 0.00 0.00 0.00 1.28
347 459 9.635404 TTCGTCTTGGGGAAATGTATTATATTT 57.365 29.630 0.00 0.00 0.00 1.40
348 460 9.635404 TCGTCTTGGGGAAATGTATTATATTTT 57.365 29.630 0.68 0.00 0.00 1.82
400 623 1.270625 TGGTTCAAGCGTTGTAGGAGG 60.271 52.381 0.00 0.00 0.00 4.30
451 677 5.854866 CACAAGTGACTTGCATGATTAGTTG 59.145 40.000 24.08 7.89 44.43 3.16
504 736 1.344763 AGGTTCTAGCGATATGGCACC 59.655 52.381 12.54 10.22 34.64 5.01
506 738 1.070134 GTTCTAGCGATATGGCACCCA 59.930 52.381 12.54 0.00 38.19 4.51
749 985 8.138712 AGTCTCTACTAATTAAAAGATGCTCCG 58.861 37.037 0.00 0.00 32.84 4.63
1014 2312 9.113838 GTTTGTAATATGATGATTCTCCTGTGT 57.886 33.333 0.00 0.00 0.00 3.72
1314 2619 0.537143 GTGGCCAGGACAACATCACA 60.537 55.000 5.11 0.00 0.00 3.58
1379 2684 4.730035 GCTCTCATTTGTTATGCAGACAGC 60.730 45.833 5.91 1.86 45.96 4.40
1388 2693 4.008933 GCAGACAGCGGGAGTGGT 62.009 66.667 0.00 0.00 0.00 4.16
1421 2726 0.460987 AAGTATGTCGCTGGCAGCTC 60.461 55.000 34.17 26.08 39.60 4.09
1470 2775 8.231692 TGATATTTGTCAGTGGTTTTCTCAAA 57.768 30.769 0.00 0.00 0.00 2.69
1564 2873 5.063880 AGTTGAGTGAGGCTAAACGAAAAT 58.936 37.500 0.00 0.00 42.27 1.82
1619 2955 1.898472 TCTTGAAGAGACTCTGCAGGG 59.102 52.381 19.75 13.44 32.66 4.45
1622 2958 0.823460 GAAGAGACTCTGCAGGGAGG 59.177 60.000 23.49 7.93 37.63 4.30
1747 3083 4.623932 TCTACATTGCAGAGTCAAACCT 57.376 40.909 0.00 0.00 0.00 3.50
1992 3328 0.984230 TAGTTGGGGCTGTCTTCCTG 59.016 55.000 0.00 0.00 0.00 3.86
2074 3410 3.134127 GATGGCACCGGCTTCACC 61.134 66.667 0.00 0.00 40.87 4.02
2084 3420 1.896660 GGCTTCACCGGCTTCACAA 60.897 57.895 0.00 0.00 0.00 3.33
2085 3421 1.282875 GCTTCACCGGCTTCACAAC 59.717 57.895 0.00 0.00 0.00 3.32
2086 3422 1.444119 GCTTCACCGGCTTCACAACA 61.444 55.000 0.00 0.00 0.00 3.33
2087 3423 1.238439 CTTCACCGGCTTCACAACAT 58.762 50.000 0.00 0.00 0.00 2.71
2088 3424 0.950836 TTCACCGGCTTCACAACATG 59.049 50.000 0.00 0.00 0.00 3.21
2089 3425 0.888736 TCACCGGCTTCACAACATGG 60.889 55.000 0.00 0.00 0.00 3.66
2090 3426 0.888736 CACCGGCTTCACAACATGGA 60.889 55.000 0.00 0.00 0.00 3.41
2092 3428 0.888736 CCGGCTTCACAACATGGACA 60.889 55.000 0.00 0.00 0.00 4.02
2093 3429 1.167851 CGGCTTCACAACATGGACAT 58.832 50.000 0.00 0.00 0.00 3.06
2094 3430 1.135603 CGGCTTCACAACATGGACATG 60.136 52.381 10.57 10.57 44.15 3.21
2188 4823 5.538053 TGCCACCAAAATGTTCTTCTCATTA 59.462 36.000 0.00 0.00 34.92 1.90
2218 4853 0.179081 GGGAGGAGTGCGGTTATGTC 60.179 60.000 0.00 0.00 0.00 3.06
2239 4874 1.452833 GGAGGCAATCAGGGCAGTC 60.453 63.158 0.00 0.00 35.46 3.51
2264 4899 9.661954 TCTCTAACTACATGATATTCCTCCTTT 57.338 33.333 0.00 0.00 0.00 3.11
2319 4954 3.434309 GGCCTGGATTGTATGCCAATAT 58.566 45.455 0.00 0.00 43.87 1.28
2335 4970 7.470935 TGCCAATATTGAAGCAGCATATATT 57.529 32.000 17.23 0.00 0.00 1.28
2354 4989 1.524849 GGGCGGCTTGATCTTCCTC 60.525 63.158 9.56 0.00 0.00 3.71
2363 4998 2.672961 TGATCTTCCTCGCGTGAAAT 57.327 45.000 10.21 8.58 0.00 2.17
2433 5068 0.681243 GACACAAGAAGGGATGGGGC 60.681 60.000 0.00 0.00 0.00 5.80
2447 5086 2.435693 GGGGCCGAGCTGTACAGAT 61.436 63.158 27.08 21.42 0.00 2.90
2449 5088 1.227380 GGCCGAGCTGTACAGATGG 60.227 63.158 27.08 20.95 0.00 3.51
2507 5603 2.237392 GACATAACAAGGGAGGAGCAGT 59.763 50.000 0.00 0.00 0.00 4.40
2513 5609 4.785453 GGGAGGAGCAGTTGGGCG 62.785 72.222 0.00 0.00 39.27 6.13
2528 5624 2.740055 GCGATAGATGGCTGGCCG 60.740 66.667 7.14 0.00 37.26 6.13
2552 5777 6.128035 CGATAGATGTAAGGATCTGGACAGAG 60.128 46.154 8.14 0.00 38.81 3.35
2603 5981 1.034292 GGCAAGGGAGAACATGGAGC 61.034 60.000 0.00 0.00 0.00 4.70
2611 5989 2.008329 GAGAACATGGAGCAGCTGAAG 58.992 52.381 20.43 1.88 0.00 3.02
2626 6004 5.759273 GCAGCTGAAGAGAATAATGACAGAT 59.241 40.000 20.43 0.00 0.00 2.90
2631 6009 6.950842 TGAAGAGAATAATGACAGATGTGGT 58.049 36.000 0.00 0.00 0.00 4.16
2633 6011 6.305272 AGAGAATAATGACAGATGTGGTGT 57.695 37.500 0.00 0.00 0.00 4.16
2635 6013 7.268586 AGAGAATAATGACAGATGTGGTGTAC 58.731 38.462 0.00 0.00 0.00 2.90
2668 6046 2.423446 GAGGAGCTGCGTATGGGG 59.577 66.667 0.00 0.00 0.00 4.96
2672 6050 4.181010 AGCTGCGTATGGGGCCTG 62.181 66.667 0.84 0.00 0.00 4.85
2732 6116 0.631753 TAGGCTGCTAGAGGTGGAGT 59.368 55.000 0.00 0.00 0.00 3.85
2851 6246 2.031012 CAGCTCAACAGTGGCGGA 59.969 61.111 0.00 0.00 0.00 5.54
2860 6255 0.247736 ACAGTGGCGGAGAGTTCATC 59.752 55.000 0.00 0.00 0.00 2.92
2867 6262 3.742983 GGAGAGTTCATCACCGTCC 57.257 57.895 0.00 0.00 0.00 4.79
2876 6271 0.742281 CATCACCGTCCTCTGGCTTG 60.742 60.000 0.00 0.00 0.00 4.01
2936 6650 2.557452 CCCTGGTTTAAGAAGGGCATGT 60.557 50.000 6.33 0.00 44.17 3.21
2937 6651 2.755103 CCTGGTTTAAGAAGGGCATGTC 59.245 50.000 0.00 0.00 0.00 3.06
2938 6652 3.420893 CTGGTTTAAGAAGGGCATGTCA 58.579 45.455 0.00 0.00 0.00 3.58
2949 6663 2.079925 GGGCATGTCAGAGTTCTTCAC 58.920 52.381 0.00 0.00 0.00 3.18
2956 6670 1.006102 AGAGTTCTTCACGCCACCG 60.006 57.895 0.00 0.00 41.14 4.94
2958 6672 1.282930 GAGTTCTTCACGCCACCGTC 61.283 60.000 0.00 0.00 46.39 4.79
2959 6673 1.593209 GTTCTTCACGCCACCGTCA 60.593 57.895 0.00 0.00 46.39 4.35
2960 6674 1.144276 TTCTTCACGCCACCGTCAA 59.856 52.632 0.00 0.00 46.39 3.18
2961 6675 0.462225 TTCTTCACGCCACCGTCAAA 60.462 50.000 0.00 0.00 46.39 2.69
2962 6676 0.878523 TCTTCACGCCACCGTCAAAG 60.879 55.000 0.00 0.00 46.39 2.77
2963 6677 2.443957 CTTCACGCCACCGTCAAAGC 62.444 60.000 0.00 0.00 46.39 3.51
2968 6682 3.726517 CCACCGTCAAAGCGCCAG 61.727 66.667 2.29 0.00 0.00 4.85
2969 6683 4.389576 CACCGTCAAAGCGCCAGC 62.390 66.667 2.29 0.00 45.58 4.85
2985 6699 3.029735 GCGCCTGCGTTTTTGGTG 61.030 61.111 13.57 0.00 42.09 4.17
2986 6700 3.029735 CGCCTGCGTTTTTGGTGC 61.030 61.111 2.83 0.00 34.35 5.01
2987 6701 2.661537 GCCTGCGTTTTTGGTGCC 60.662 61.111 0.00 0.00 0.00 5.01
2988 6702 2.354539 CCTGCGTTTTTGGTGCCG 60.355 61.111 0.00 0.00 0.00 5.69
2989 6703 2.354539 CTGCGTTTTTGGTGCCGG 60.355 61.111 0.00 0.00 0.00 6.13
2990 6704 3.132481 CTGCGTTTTTGGTGCCGGT 62.132 57.895 1.90 0.00 0.00 5.28
2991 6705 1.787057 CTGCGTTTTTGGTGCCGGTA 61.787 55.000 1.90 0.00 0.00 4.02
2992 6706 1.370778 GCGTTTTTGGTGCCGGTAC 60.371 57.895 15.14 15.14 0.00 3.34
2993 6707 1.788067 GCGTTTTTGGTGCCGGTACT 61.788 55.000 22.50 0.00 0.00 2.73
2994 6708 0.664224 CGTTTTTGGTGCCGGTACTT 59.336 50.000 22.50 0.00 0.00 2.24
2995 6709 1.334329 CGTTTTTGGTGCCGGTACTTC 60.334 52.381 22.50 7.31 0.00 3.01
2996 6710 1.677052 GTTTTTGGTGCCGGTACTTCA 59.323 47.619 22.50 10.05 0.00 3.02
2997 6711 1.600023 TTTTGGTGCCGGTACTTCAG 58.400 50.000 22.50 0.00 0.00 3.02
2998 6712 0.759959 TTTGGTGCCGGTACTTCAGA 59.240 50.000 22.50 5.39 0.00 3.27
2999 6713 0.759959 TTGGTGCCGGTACTTCAGAA 59.240 50.000 22.50 5.27 0.00 3.02
3000 6714 0.759959 TGGTGCCGGTACTTCAGAAA 59.240 50.000 22.50 0.00 0.00 2.52
3001 6715 1.270625 TGGTGCCGGTACTTCAGAAAG 60.271 52.381 22.50 0.00 38.54 2.62
3002 6716 1.439679 GTGCCGGTACTTCAGAAAGG 58.560 55.000 16.23 0.00 36.78 3.11
3003 6717 1.053424 TGCCGGTACTTCAGAAAGGT 58.947 50.000 1.90 0.00 36.78 3.50
3004 6718 1.001633 TGCCGGTACTTCAGAAAGGTC 59.998 52.381 1.90 0.00 36.78 3.85
3005 6719 1.275573 GCCGGTACTTCAGAAAGGTCT 59.724 52.381 1.90 0.00 36.78 3.85
3006 6720 2.674462 GCCGGTACTTCAGAAAGGTCTC 60.674 54.545 1.90 0.00 36.78 3.36
3007 6721 2.094130 CCGGTACTTCAGAAAGGTCTCC 60.094 54.545 0.00 0.00 36.78 3.71
3008 6722 2.415625 CGGTACTTCAGAAAGGTCTCCG 60.416 54.545 0.00 0.00 36.78 4.63
3009 6723 2.824341 GGTACTTCAGAAAGGTCTCCGA 59.176 50.000 0.00 0.00 36.78 4.55
3010 6724 3.367190 GGTACTTCAGAAAGGTCTCCGAC 60.367 52.174 0.00 0.00 36.78 4.79
3011 6725 2.317040 ACTTCAGAAAGGTCTCCGACA 58.683 47.619 0.00 0.00 36.78 4.35
3012 6726 2.900546 ACTTCAGAAAGGTCTCCGACAT 59.099 45.455 0.00 0.00 36.78 3.06
3013 6727 4.087182 ACTTCAGAAAGGTCTCCGACATA 58.913 43.478 0.00 0.00 36.78 2.29
3014 6728 4.527038 ACTTCAGAAAGGTCTCCGACATAA 59.473 41.667 0.00 0.00 36.78 1.90
3015 6729 5.187967 ACTTCAGAAAGGTCTCCGACATAAT 59.812 40.000 0.00 0.00 36.78 1.28
3016 6730 5.677319 TCAGAAAGGTCTCCGACATAATT 57.323 39.130 0.00 0.00 33.68 1.40
3017 6731 5.661458 TCAGAAAGGTCTCCGACATAATTC 58.339 41.667 0.00 0.00 33.68 2.17
3018 6732 4.504461 CAGAAAGGTCTCCGACATAATTCG 59.496 45.833 0.00 0.00 33.68 3.34
3028 6742 4.516092 CGACATAATTCGGAGGTGTTTC 57.484 45.455 0.00 0.00 35.26 2.78
3029 6743 3.308866 CGACATAATTCGGAGGTGTTTCC 59.691 47.826 0.00 0.00 35.26 3.13
3060 6774 9.643735 TTCCTTATTAAAAGTAAAGGACCAACA 57.356 29.630 2.23 0.00 45.45 3.33
3061 6775 9.292195 TCCTTATTAAAAGTAAAGGACCAACAG 57.708 33.333 0.00 0.00 41.94 3.16
3062 6776 8.027189 CCTTATTAAAAGTAAAGGACCAACAGC 58.973 37.037 0.00 0.00 40.85 4.40
3063 6777 8.700439 TTATTAAAAGTAAAGGACCAACAGCT 57.300 30.769 0.00 0.00 0.00 4.24
3064 6778 9.796180 TTATTAAAAGTAAAGGACCAACAGCTA 57.204 29.630 0.00 0.00 0.00 3.32
3065 6779 8.879427 ATTAAAAGTAAAGGACCAACAGCTAT 57.121 30.769 0.00 0.00 0.00 2.97
3066 6780 9.969001 ATTAAAAGTAAAGGACCAACAGCTATA 57.031 29.630 0.00 0.00 0.00 1.31
3067 6781 9.969001 TTAAAAGTAAAGGACCAACAGCTATAT 57.031 29.630 0.00 0.00 0.00 0.86
3068 6782 8.507524 AAAAGTAAAGGACCAACAGCTATATC 57.492 34.615 0.00 0.00 0.00 1.63
3069 6783 6.176014 AGTAAAGGACCAACAGCTATATCC 57.824 41.667 0.00 0.00 0.00 2.59
3070 6784 3.753294 AAGGACCAACAGCTATATCCG 57.247 47.619 0.00 0.00 0.00 4.18
3071 6785 2.679082 AGGACCAACAGCTATATCCGT 58.321 47.619 0.00 0.00 0.00 4.69
3072 6786 2.628657 AGGACCAACAGCTATATCCGTC 59.371 50.000 0.00 0.00 0.00 4.79
3073 6787 2.628657 GGACCAACAGCTATATCCGTCT 59.371 50.000 0.00 0.00 0.00 4.18
3074 6788 3.305471 GGACCAACAGCTATATCCGTCTC 60.305 52.174 0.00 0.00 0.00 3.36
3075 6789 3.567397 ACCAACAGCTATATCCGTCTCT 58.433 45.455 0.00 0.00 0.00 3.10
3076 6790 3.961408 ACCAACAGCTATATCCGTCTCTT 59.039 43.478 0.00 0.00 0.00 2.85
3077 6791 4.406003 ACCAACAGCTATATCCGTCTCTTT 59.594 41.667 0.00 0.00 0.00 2.52
3078 6792 5.597182 ACCAACAGCTATATCCGTCTCTTTA 59.403 40.000 0.00 0.00 0.00 1.85
3079 6793 5.921408 CCAACAGCTATATCCGTCTCTTTAC 59.079 44.000 0.00 0.00 0.00 2.01
3080 6794 5.708877 ACAGCTATATCCGTCTCTTTACC 57.291 43.478 0.00 0.00 0.00 2.85
3081 6795 4.215827 ACAGCTATATCCGTCTCTTTACCG 59.784 45.833 0.00 0.00 0.00 4.02
3082 6796 4.215827 CAGCTATATCCGTCTCTTTACCGT 59.784 45.833 0.00 0.00 0.00 4.83
3083 6797 5.410746 CAGCTATATCCGTCTCTTTACCGTA 59.589 44.000 0.00 0.00 0.00 4.02
3084 6798 5.642919 AGCTATATCCGTCTCTTTACCGTAG 59.357 44.000 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 6.460123 GGTTGGTATTATGGTTGATGAGCAAG 60.460 42.308 0.00 0.00 39.57 4.01
3 4 4.887071 GGTTGGTATTATGGTTGATGAGCA 59.113 41.667 0.00 0.00 40.58 4.26
7 8 6.443934 TTTCGGTTGGTATTATGGTTGATG 57.556 37.500 0.00 0.00 0.00 3.07
23 24 2.484264 GCAGCACTAGTTGATTTCGGTT 59.516 45.455 0.00 0.00 0.00 4.44
24 25 2.076863 GCAGCACTAGTTGATTTCGGT 58.923 47.619 0.00 0.00 0.00 4.69
25 26 2.076100 TGCAGCACTAGTTGATTTCGG 58.924 47.619 0.00 0.00 0.00 4.30
26 27 3.620374 AGATGCAGCACTAGTTGATTTCG 59.380 43.478 4.07 0.00 0.00 3.46
27 28 5.557891 AAGATGCAGCACTAGTTGATTTC 57.442 39.130 4.07 0.00 0.00 2.17
53 54 5.336849 GCTCGCTAAGTATCCATAGGACATT 60.337 44.000 0.00 0.00 32.98 2.71
54 55 4.158764 GCTCGCTAAGTATCCATAGGACAT 59.841 45.833 0.00 0.00 32.98 3.06
55 56 3.506455 GCTCGCTAAGTATCCATAGGACA 59.494 47.826 0.00 0.00 32.98 4.02
56 57 3.759618 AGCTCGCTAAGTATCCATAGGAC 59.240 47.826 0.00 0.00 32.98 3.85
57 58 4.035612 AGCTCGCTAAGTATCCATAGGA 57.964 45.455 0.00 0.00 35.55 2.94
58 59 5.899120 TTAGCTCGCTAAGTATCCATAGG 57.101 43.478 7.25 0.00 34.02 2.57
59 60 8.132362 CCTAATTAGCTCGCTAAGTATCCATAG 58.868 40.741 16.22 7.86 41.18 2.23
60 61 7.832685 TCCTAATTAGCTCGCTAAGTATCCATA 59.167 37.037 16.22 0.00 41.18 2.74
117 118 3.756783 ACGAGGGAGGGAGGGAGG 61.757 72.222 0.00 0.00 0.00 4.30
118 119 2.443016 CACGAGGGAGGGAGGGAG 60.443 72.222 0.00 0.00 0.00 4.30
119 120 4.779733 GCACGAGGGAGGGAGGGA 62.780 72.222 0.00 0.00 0.00 4.20
139 140 0.391661 TTCACCTCGATGGCAGAAGC 60.392 55.000 0.00 0.00 40.22 3.86
187 191 7.934457 AGAGCACCTAATATAATTTGCAGTTG 58.066 34.615 0.00 0.00 32.24 3.16
200 204 8.347035 GTTTGTTGTTTTGTAGAGCACCTAATA 58.653 33.333 0.00 0.00 0.00 0.98
201 205 6.952773 TTGTTGTTTTGTAGAGCACCTAAT 57.047 33.333 0.00 0.00 0.00 1.73
202 206 6.376018 AGTTTGTTGTTTTGTAGAGCACCTAA 59.624 34.615 0.00 0.00 0.00 2.69
203 207 5.883673 AGTTTGTTGTTTTGTAGAGCACCTA 59.116 36.000 0.00 0.00 0.00 3.08
204 208 4.705023 AGTTTGTTGTTTTGTAGAGCACCT 59.295 37.500 0.00 0.00 0.00 4.00
267 301 9.362539 ACAATTTTTGTATCATTTGCAGAGATC 57.637 29.630 1.53 0.00 43.27 2.75
269 303 9.844790 CTACAATTTTTGTATCATTTGCAGAGA 57.155 29.630 0.92 0.00 44.46 3.10
270 304 9.079833 CCTACAATTTTTGTATCATTTGCAGAG 57.920 33.333 0.92 0.00 44.46 3.35
280 314 5.185056 AGCCACACCCTACAATTTTTGTATC 59.815 40.000 0.92 0.00 44.46 2.24
345 457 9.609346 GTACTGATAAGGGCTCAACTTATAAAA 57.391 33.333 0.00 0.00 40.28 1.52
346 458 7.924412 CGTACTGATAAGGGCTCAACTTATAAA 59.076 37.037 0.00 0.00 40.28 1.40
347 459 7.286087 TCGTACTGATAAGGGCTCAACTTATAA 59.714 37.037 0.00 0.00 40.28 0.98
348 460 6.774170 TCGTACTGATAAGGGCTCAACTTATA 59.226 38.462 0.00 0.00 40.28 0.98
349 461 5.597182 TCGTACTGATAAGGGCTCAACTTAT 59.403 40.000 0.00 0.00 42.23 1.73
350 462 4.951715 TCGTACTGATAAGGGCTCAACTTA 59.048 41.667 0.00 0.00 35.14 2.24
351 463 3.767673 TCGTACTGATAAGGGCTCAACTT 59.232 43.478 0.00 0.00 0.00 2.66
357 469 6.710744 CCAAATATTTCGTACTGATAAGGGCT 59.289 38.462 0.00 0.00 0.00 5.19
400 623 4.942852 ACTGATGTGCTGAGCTAGTAATC 58.057 43.478 5.83 2.57 0.00 1.75
477 703 5.879223 GCCATATCGCTAGAACCTACTACTA 59.121 44.000 0.00 0.00 0.00 1.82
478 704 4.701171 GCCATATCGCTAGAACCTACTACT 59.299 45.833 0.00 0.00 0.00 2.57
479 705 4.458295 TGCCATATCGCTAGAACCTACTAC 59.542 45.833 0.00 0.00 0.00 2.73
480 706 4.458295 GTGCCATATCGCTAGAACCTACTA 59.542 45.833 0.00 0.00 0.00 1.82
481 707 3.256136 GTGCCATATCGCTAGAACCTACT 59.744 47.826 0.00 0.00 0.00 2.57
484 710 1.344763 GGTGCCATATCGCTAGAACCT 59.655 52.381 0.00 0.00 0.00 3.50
486 712 1.070134 TGGGTGCCATATCGCTAGAAC 59.930 52.381 0.00 0.00 0.00 3.01
487 713 1.070134 GTGGGTGCCATATCGCTAGAA 59.930 52.381 0.00 0.00 35.28 2.10
489 715 0.320771 GGTGGGTGCCATATCGCTAG 60.321 60.000 0.00 0.00 35.28 3.42
490 716 1.752198 GGTGGGTGCCATATCGCTA 59.248 57.895 0.00 0.00 35.28 4.26
491 717 2.510906 GGTGGGTGCCATATCGCT 59.489 61.111 0.00 0.00 35.28 4.93
492 718 2.594592 GGGTGGGTGCCATATCGC 60.595 66.667 0.00 0.00 35.28 4.58
493 719 0.819259 CTTGGGTGGGTGCCATATCG 60.819 60.000 0.00 0.00 35.28 2.92
494 720 0.258774 ACTTGGGTGGGTGCCATATC 59.741 55.000 0.00 0.00 35.28 1.63
504 736 1.535462 GAAATGACGACACTTGGGTGG 59.465 52.381 0.00 0.00 46.85 4.61
506 738 1.142060 TGGAAATGACGACACTTGGGT 59.858 47.619 0.00 0.00 0.00 4.51
564 797 5.392380 CCTGCCAAACAAATGATCTAGACAC 60.392 44.000 0.00 0.00 0.00 3.67
749 985 6.487689 AAACTTCTTTATGTAGCTCACAGC 57.512 37.500 0.00 0.00 41.51 4.40
911 2209 5.423015 CACAGAGACAATATTACAGCCACT 58.577 41.667 0.00 0.00 0.00 4.00
1314 2619 4.353777 TGTTGTCTTCTATGGAGTAGGCT 58.646 43.478 0.00 0.00 0.00 4.58
1379 2684 2.359981 TAGGACATAGACCACTCCCG 57.640 55.000 0.00 0.00 0.00 5.14
1388 2693 6.940867 AGCGACATACTTGTATAGGACATAGA 59.059 38.462 0.00 0.00 38.07 1.98
1421 2726 2.263077 CCGAGACTTTGACCAAGATCG 58.737 52.381 9.87 9.87 41.19 3.69
1470 2775 2.839228 GCCCATACTCTCTCCCCATAT 58.161 52.381 0.00 0.00 0.00 1.78
1589 2925 2.573915 GTCTCTTCAAGATCCAACCCCT 59.426 50.000 0.00 0.00 36.11 4.79
1591 2927 3.517500 AGAGTCTCTTCAAGATCCAACCC 59.482 47.826 0.00 0.00 36.11 4.11
1593 2929 3.932089 GCAGAGTCTCTTCAAGATCCAAC 59.068 47.826 0.00 0.00 36.11 3.77
1597 2933 3.430651 CCCTGCAGAGTCTCTTCAAGATC 60.431 52.174 17.39 0.00 36.11 2.75
1622 2958 1.700186 ACTTCTCCCCTTGGTCAAGAC 59.300 52.381 11.87 0.00 40.79 3.01
1992 3328 5.850614 AGCTTCAATAATGCCATCATTTCC 58.149 37.500 0.00 0.00 42.51 3.13
2074 3410 1.135603 CATGTCCATGTTGTGAAGCCG 60.136 52.381 0.00 0.00 34.23 5.52
2085 3421 4.421058 CTCAAAGAATGCACATGTCCATG 58.579 43.478 2.23 5.74 44.15 3.66
2086 3422 3.446161 CCTCAAAGAATGCACATGTCCAT 59.554 43.478 0.00 0.00 0.00 3.41
2087 3423 2.821378 CCTCAAAGAATGCACATGTCCA 59.179 45.455 0.00 0.00 0.00 4.02
2088 3424 3.084039 TCCTCAAAGAATGCACATGTCC 58.916 45.455 0.00 0.00 0.00 4.02
2089 3425 4.201990 GGATCCTCAAAGAATGCACATGTC 60.202 45.833 3.84 0.00 0.00 3.06
2090 3426 3.698040 GGATCCTCAAAGAATGCACATGT 59.302 43.478 3.84 0.00 0.00 3.21
2092 3428 3.294214 GGGATCCTCAAAGAATGCACAT 58.706 45.455 12.58 0.00 0.00 3.21
2093 3429 2.041485 TGGGATCCTCAAAGAATGCACA 59.959 45.455 12.58 0.00 0.00 4.57
2094 3430 2.424956 GTGGGATCCTCAAAGAATGCAC 59.575 50.000 12.58 3.21 0.00 4.57
2095 3431 2.621407 GGTGGGATCCTCAAAGAATGCA 60.621 50.000 12.58 0.00 0.00 3.96
2097 3433 3.659183 AGGTGGGATCCTCAAAGAATG 57.341 47.619 12.58 0.00 31.32 2.67
2203 4838 1.520787 CCCGACATAACCGCACTCC 60.521 63.158 0.00 0.00 0.00 3.85
2209 4844 2.108362 GCCTCCCCGACATAACCG 59.892 66.667 0.00 0.00 0.00 4.44
2218 4853 4.883354 GCCCTGATTGCCTCCCCG 62.883 72.222 0.00 0.00 0.00 5.73
2264 4899 2.161410 GCAGCATGTATGGACGTTCAAA 59.839 45.455 0.00 0.00 39.31 2.69
2319 4954 2.553602 CGCCCAATATATGCTGCTTCAA 59.446 45.455 0.00 0.00 0.00 2.69
2335 4970 2.257409 GAGGAAGATCAAGCCGCCCA 62.257 60.000 0.00 0.00 0.00 5.36
2354 4989 1.135108 TGCTGATGCATTTCACGCG 59.865 52.632 3.53 3.53 45.31 6.01
2433 5068 1.227380 GCCCATCTGTACAGCTCGG 60.227 63.158 18.45 16.22 0.00 4.63
2447 5086 4.278513 CAACTTCCCCCGTGCCCA 62.279 66.667 0.00 0.00 0.00 5.36
2449 5088 3.961414 TCCAACTTCCCCCGTGCC 61.961 66.667 0.00 0.00 0.00 5.01
2507 5603 1.451504 CCAGCCATCTATCGCCCAA 59.548 57.895 0.00 0.00 0.00 4.12
2513 5609 2.103373 TCTATCGGCCAGCCATCTATC 58.897 52.381 9.78 0.00 35.37 2.08
2528 5624 6.945435 TCTCTGTCCAGATCCTTACATCTATC 59.055 42.308 0.00 0.00 36.76 2.08
2552 5777 1.280457 TTCTCCAGCTCCTCCCTTTC 58.720 55.000 0.00 0.00 0.00 2.62
2603 5981 6.762187 ACATCTGTCATTATTCTCTTCAGCTG 59.238 38.462 7.63 7.63 0.00 4.24
2611 5989 6.480320 GGTACACCACATCTGTCATTATTCTC 59.520 42.308 0.00 0.00 35.64 2.87
2626 6004 5.607477 CTTCTTTTGTCTAGGTACACCACA 58.393 41.667 0.38 0.00 38.89 4.17
2631 6009 4.321750 CCTCGCTTCTTTTGTCTAGGTACA 60.322 45.833 0.00 0.00 0.00 2.90
2633 6011 4.084287 TCCTCGCTTCTTTTGTCTAGGTA 58.916 43.478 0.00 0.00 0.00 3.08
2635 6013 3.516615 CTCCTCGCTTCTTTTGTCTAGG 58.483 50.000 0.00 0.00 0.00 3.02
2668 6046 1.973812 GGCAGGTGAAGGAACAGGC 60.974 63.158 0.00 0.00 0.00 4.85
2672 6050 1.527433 GCCAAGGCAGGTGAAGGAAC 61.527 60.000 6.14 0.00 41.49 3.62
2701 6082 0.251634 GCAGCCTAAGAGCAAGGTCT 59.748 55.000 0.00 0.00 36.43 3.85
2851 6246 1.821753 CAGAGGACGGTGATGAACTCT 59.178 52.381 0.00 0.00 35.84 3.24
2860 6255 1.669115 CACAAGCCAGAGGACGGTG 60.669 63.158 0.00 0.00 0.00 4.94
2867 6262 1.233285 GCAGTGGACACAAGCCAGAG 61.233 60.000 5.14 0.00 35.77 3.35
2876 6271 1.317613 TTGAACATGGCAGTGGACAC 58.682 50.000 0.00 0.00 32.32 3.67
2933 6647 1.344438 TGGCGTGAAGAACTCTGACAT 59.656 47.619 0.00 0.00 0.00 3.06
2936 6650 0.033504 GGTGGCGTGAAGAACTCTGA 59.966 55.000 0.00 0.00 0.00 3.27
2937 6651 1.284982 CGGTGGCGTGAAGAACTCTG 61.285 60.000 0.00 0.00 0.00 3.35
2938 6652 1.006102 CGGTGGCGTGAAGAACTCT 60.006 57.895 0.00 0.00 0.00 3.24
2964 6678 4.645921 AAAAACGCAGGCGCTGGC 62.646 61.111 14.32 10.79 44.19 4.85
2965 6679 2.730604 CAAAAACGCAGGCGCTGG 60.731 61.111 14.32 0.00 44.19 4.85
2966 6680 2.730604 CCAAAAACGCAGGCGCTG 60.731 61.111 14.32 4.78 44.19 5.18
2967 6681 3.216292 ACCAAAAACGCAGGCGCT 61.216 55.556 14.32 0.00 44.19 5.92
2968 6682 3.029735 CACCAAAAACGCAGGCGC 61.030 61.111 14.32 0.00 44.19 6.53
2969 6683 3.029735 GCACCAAAAACGCAGGCG 61.030 61.111 12.71 12.71 46.03 5.52
2970 6684 2.661537 GGCACCAAAAACGCAGGC 60.662 61.111 0.00 0.00 0.00 4.85
2971 6685 2.354539 CGGCACCAAAAACGCAGG 60.355 61.111 0.00 0.00 0.00 4.85
2972 6686 1.787057 TACCGGCACCAAAAACGCAG 61.787 55.000 0.00 0.00 0.00 5.18
2973 6687 1.822613 TACCGGCACCAAAAACGCA 60.823 52.632 0.00 0.00 0.00 5.24
2974 6688 1.370778 GTACCGGCACCAAAAACGC 60.371 57.895 0.00 0.00 0.00 4.84
2975 6689 0.664224 AAGTACCGGCACCAAAAACG 59.336 50.000 0.00 0.00 0.00 3.60
2976 6690 1.677052 TGAAGTACCGGCACCAAAAAC 59.323 47.619 0.00 0.00 0.00 2.43
2977 6691 1.950909 CTGAAGTACCGGCACCAAAAA 59.049 47.619 0.00 0.00 0.00 1.94
2978 6692 1.141254 TCTGAAGTACCGGCACCAAAA 59.859 47.619 0.00 0.00 0.00 2.44
2979 6693 0.759959 TCTGAAGTACCGGCACCAAA 59.240 50.000 0.00 0.00 0.00 3.28
2980 6694 0.759959 TTCTGAAGTACCGGCACCAA 59.240 50.000 0.00 0.00 0.00 3.67
2981 6695 0.759959 TTTCTGAAGTACCGGCACCA 59.240 50.000 0.00 0.00 0.00 4.17
2982 6696 1.439679 CTTTCTGAAGTACCGGCACC 58.560 55.000 0.00 0.00 0.00 5.01
2983 6697 1.270678 ACCTTTCTGAAGTACCGGCAC 60.271 52.381 0.00 0.00 0.00 5.01
2984 6698 1.001633 GACCTTTCTGAAGTACCGGCA 59.998 52.381 0.00 0.00 0.00 5.69
2985 6699 1.275573 AGACCTTTCTGAAGTACCGGC 59.724 52.381 0.00 0.00 0.00 6.13
2986 6700 2.094130 GGAGACCTTTCTGAAGTACCGG 60.094 54.545 0.00 0.00 29.47 5.28
2987 6701 2.415625 CGGAGACCTTTCTGAAGTACCG 60.416 54.545 10.75 10.75 29.47 4.02
2988 6702 2.824341 TCGGAGACCTTTCTGAAGTACC 59.176 50.000 0.00 0.00 29.47 3.34
3007 6721 3.308866 GGAAACACCTCCGAATTATGTCG 59.691 47.826 0.00 0.00 36.91 4.35
3008 6722 4.877323 GGAAACACCTCCGAATTATGTC 57.123 45.455 0.00 0.00 35.41 3.06
3034 6748 9.643735 TGTTGGTCCTTTACTTTTAATAAGGAA 57.356 29.630 0.00 0.00 45.55 3.36
3035 6749 9.292195 CTGTTGGTCCTTTACTTTTAATAAGGA 57.708 33.333 0.00 0.00 42.81 3.36
3036 6750 8.027189 GCTGTTGGTCCTTTACTTTTAATAAGG 58.973 37.037 0.00 0.00 38.78 2.69
3037 6751 8.793592 AGCTGTTGGTCCTTTACTTTTAATAAG 58.206 33.333 0.00 0.00 0.00 1.73
3038 6752 8.700439 AGCTGTTGGTCCTTTACTTTTAATAA 57.300 30.769 0.00 0.00 0.00 1.40
3039 6753 9.969001 ATAGCTGTTGGTCCTTTACTTTTAATA 57.031 29.630 0.00 0.00 0.00 0.98
3040 6754 8.879427 ATAGCTGTTGGTCCTTTACTTTTAAT 57.121 30.769 0.00 0.00 0.00 1.40
3041 6755 9.969001 ATATAGCTGTTGGTCCTTTACTTTTAA 57.031 29.630 0.00 0.00 0.00 1.52
3042 6756 9.609346 GATATAGCTGTTGGTCCTTTACTTTTA 57.391 33.333 0.00 0.00 0.00 1.52
3043 6757 7.556635 GGATATAGCTGTTGGTCCTTTACTTTT 59.443 37.037 0.00 0.00 0.00 2.27
3044 6758 7.054751 GGATATAGCTGTTGGTCCTTTACTTT 58.945 38.462 0.00 0.00 0.00 2.66
3045 6759 6.592870 GGATATAGCTGTTGGTCCTTTACTT 58.407 40.000 0.00 0.00 0.00 2.24
3046 6760 5.221461 CGGATATAGCTGTTGGTCCTTTACT 60.221 44.000 0.00 0.00 0.00 2.24
3047 6761 4.989168 CGGATATAGCTGTTGGTCCTTTAC 59.011 45.833 0.00 0.00 0.00 2.01
3048 6762 4.652421 ACGGATATAGCTGTTGGTCCTTTA 59.348 41.667 0.00 0.00 0.00 1.85
3049 6763 3.454812 ACGGATATAGCTGTTGGTCCTTT 59.545 43.478 0.00 0.00 0.00 3.11
3050 6764 3.039011 ACGGATATAGCTGTTGGTCCTT 58.961 45.455 0.00 0.00 0.00 3.36
3051 6765 2.628657 GACGGATATAGCTGTTGGTCCT 59.371 50.000 3.54 0.00 0.00 3.85
3052 6766 2.628657 AGACGGATATAGCTGTTGGTCC 59.371 50.000 3.54 0.00 0.00 4.46
3053 6767 3.570550 AGAGACGGATATAGCTGTTGGTC 59.429 47.826 3.54 2.35 0.00 4.02
3054 6768 3.567397 AGAGACGGATATAGCTGTTGGT 58.433 45.455 3.54 0.00 0.00 3.67
3055 6769 4.592485 AAGAGACGGATATAGCTGTTGG 57.408 45.455 3.54 0.00 0.00 3.77
3056 6770 5.921408 GGTAAAGAGACGGATATAGCTGTTG 59.079 44.000 3.54 0.00 0.00 3.33
3057 6771 5.278364 CGGTAAAGAGACGGATATAGCTGTT 60.278 44.000 3.54 0.00 0.00 3.16
3058 6772 4.215827 CGGTAAAGAGACGGATATAGCTGT 59.784 45.833 1.12 1.12 0.00 4.40
3059 6773 4.215827 ACGGTAAAGAGACGGATATAGCTG 59.784 45.833 0.00 0.00 0.00 4.24
3060 6774 4.396522 ACGGTAAAGAGACGGATATAGCT 58.603 43.478 0.00 0.00 0.00 3.32
3061 6775 4.762956 ACGGTAAAGAGACGGATATAGC 57.237 45.455 0.00 0.00 0.00 2.97
3062 6776 5.936956 ACCTACGGTAAAGAGACGGATATAG 59.063 44.000 0.00 0.00 32.11 1.31
3063 6777 5.702670 CACCTACGGTAAAGAGACGGATATA 59.297 44.000 0.00 0.00 32.11 0.86
3064 6778 4.518211 CACCTACGGTAAAGAGACGGATAT 59.482 45.833 0.00 0.00 32.11 1.63
3065 6779 3.879295 CACCTACGGTAAAGAGACGGATA 59.121 47.826 0.00 0.00 32.11 2.59
3066 6780 2.686915 CACCTACGGTAAAGAGACGGAT 59.313 50.000 0.00 0.00 32.11 4.18
3067 6781 2.086869 CACCTACGGTAAAGAGACGGA 58.913 52.381 0.00 0.00 32.11 4.69
3068 6782 2.086869 TCACCTACGGTAAAGAGACGG 58.913 52.381 0.00 0.00 32.11 4.79
3069 6783 4.367386 AATCACCTACGGTAAAGAGACG 57.633 45.455 0.00 0.00 32.11 4.18
3070 6784 5.963594 AGAAATCACCTACGGTAAAGAGAC 58.036 41.667 0.00 0.00 32.11 3.36
3071 6785 6.436532 AGAAGAAATCACCTACGGTAAAGAGA 59.563 38.462 0.00 0.00 32.11 3.10
3072 6786 6.631962 AGAAGAAATCACCTACGGTAAAGAG 58.368 40.000 0.00 0.00 32.11 2.85
3073 6787 6.600882 AGAAGAAATCACCTACGGTAAAGA 57.399 37.500 0.00 0.00 32.11 2.52
3074 6788 8.767478 TTAAGAAGAAATCACCTACGGTAAAG 57.233 34.615 0.00 0.00 32.11 1.85
3075 6789 9.558396 TTTTAAGAAGAAATCACCTACGGTAAA 57.442 29.630 0.00 0.00 32.11 2.01
3076 6790 9.558396 TTTTTAAGAAGAAATCACCTACGGTAA 57.442 29.630 0.00 0.00 32.11 2.85


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

AutoCloner maintained by Alex Coulton.