Multiple sequence alignment - TraesCS6A01G216700

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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 TraesCS6A01G216700 chr6A 100.000 4787 0 0 1 4787 398637487 398642273 0.000000e+00 8841.0
1 TraesCS6A01G216700 chr6A 98.701 77 1 0 4711 4787 155638588 155638664 2.320000e-28 137.0
2 TraesCS6A01G216700 chr6A 96.923 65 1 1 4709 4773 81249364 81249301 1.820000e-19 108.0
3 TraesCS6A01G216700 chr6A 78.431 153 25 7 2169 2317 7401202 7401054 5.100000e-15 93.5
4 TraesCS6A01G216700 chr6B 93.994 4695 153 40 47 4681 438917338 438912713 0.000000e+00 6988.0
5 TraesCS6A01G216700 chr6D 93.486 2579 96 25 47 2606 277023742 277021217 0.000000e+00 3766.0
6 TraesCS6A01G216700 chr6D 93.283 2114 84 20 2609 4679 277021131 277019033 0.000000e+00 3064.0
7 TraesCS6A01G216700 chr5B 83.425 181 24 6 2170 2349 10544677 10544502 3.830000e-36 163.0
8 TraesCS6A01G216700 chr5B 82.759 174 24 5 2168 2337 60893973 60894144 2.980000e-32 150.0
9 TraesCS6A01G216700 chr5B 84.932 73 7 4 3147 3216 11043577 11043506 2.390000e-08 71.3
10 TraesCS6A01G216700 chr2A 78.423 241 48 4 2170 2408 765170440 765170202 2.310000e-33 154.0
11 TraesCS6A01G216700 chr2D 98.701 77 1 0 4711 4787 264792858 264792934 2.320000e-28 137.0
12 TraesCS6A01G216700 chr5D 81.395 172 27 5 2170 2339 57395071 57394903 8.360000e-28 135.0
13 TraesCS6A01G216700 chr5D 97.403 77 2 0 4711 4787 456042254 456042330 1.080000e-26 132.0
14 TraesCS6A01G216700 chr5D 94.805 77 3 1 4711 4787 522836169 522836094 8.420000e-23 119.0
15 TraesCS6A01G216700 chr7D 98.667 75 1 0 4711 4785 463253955 463253881 3.010000e-27 134.0
16 TraesCS6A01G216700 chr7B 97.403 77 2 0 4711 4787 1131038 1131114 1.080000e-26 132.0
17 TraesCS6A01G216700 chr3A 81.098 164 27 4 2170 2331 671322187 671322348 1.400000e-25 128.0
18 TraesCS6A01G216700 chr5A 96.000 75 3 0 4711 4785 451003079 451003153 6.510000e-24 122.0
19 TraesCS6A01G216700 chr4B 81.818 154 16 8 2170 2317 651512888 651513035 8.420000e-23 119.0
20 TraesCS6A01G216700 chr1A 96.923 65 1 1 4709 4773 553058878 553058941 1.820000e-19 108.0


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 TraesCS6A01G216700 chr6A 398637487 398642273 4786 False 8841 8841 100.0000 1 4787 1 chr6A.!!$F2 4786
1 TraesCS6A01G216700 chr6B 438912713 438917338 4625 True 6988 6988 93.9940 47 4681 1 chr6B.!!$R1 4634
2 TraesCS6A01G216700 chr6D 277019033 277023742 4709 True 3415 3766 93.3845 47 4679 2 chr6D.!!$R1 4632

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
560 562 0.038526 TCTGGTTCGCGTCTTCTTCC 60.039 55.0 5.77 0.23 0.00 3.46 F
562 564 0.391597 TGGTTCGCGTCTTCTTCCTT 59.608 50.0 5.77 0.00 0.00 3.36 F
1164 1196 0.992431 AGAGGGCTGATGGGCTCAAT 60.992 55.0 0.00 0.00 40.65 2.57 F
3042 3174 0.523072 GCCATTGCCATACCATAGCG 59.477 55.0 0.00 0.00 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1516 1548 2.014128 ACATATTGAAAAGGTCCGCCG 58.986 47.619 0.00 0.00 40.50 6.46 R
2155 2189 2.375174 AGGGAGTACATCTTTGTTGCCA 59.625 45.455 0.00 0.00 37.28 4.92 R
3140 3273 0.036164 TGCACGTCTTGGCCAAGTAT 59.964 50.000 37.97 24.38 39.38 2.12 R
3926 4077 0.037605 ACGCTGAAACCCGGTAGAAG 60.038 55.000 0.00 0.00 0.00 2.85 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
19 20 1.897560 GCTCCCGATTAGGATTTGGG 58.102 55.000 0.00 0.00 45.00 4.12
20 21 1.897560 CTCCCGATTAGGATTTGGGC 58.102 55.000 0.00 0.00 45.00 5.36
21 22 1.421646 CTCCCGATTAGGATTTGGGCT 59.578 52.381 0.00 0.00 45.00 5.19
22 23 2.637872 CTCCCGATTAGGATTTGGGCTA 59.362 50.000 0.00 0.00 45.00 3.93
23 24 3.256704 TCCCGATTAGGATTTGGGCTAT 58.743 45.455 0.00 0.00 45.00 2.97
24 25 3.263425 TCCCGATTAGGATTTGGGCTATC 59.737 47.826 0.00 0.00 45.00 2.08
25 26 3.610911 CCGATTAGGATTTGGGCTATCC 58.389 50.000 0.00 0.00 45.00 2.59
26 27 3.262420 CGATTAGGATTTGGGCTATCCG 58.738 50.000 0.00 0.00 45.09 4.18
27 28 3.306780 CGATTAGGATTTGGGCTATCCGT 60.307 47.826 0.00 0.00 45.09 4.69
28 29 3.764237 TTAGGATTTGGGCTATCCGTC 57.236 47.619 0.00 0.00 45.09 4.79
29 30 1.807814 AGGATTTGGGCTATCCGTCT 58.192 50.000 0.00 0.00 45.09 4.18
30 31 1.694696 AGGATTTGGGCTATCCGTCTC 59.305 52.381 0.00 0.00 45.09 3.36
31 32 1.605712 GGATTTGGGCTATCCGTCTCG 60.606 57.143 0.00 0.00 38.76 4.04
223 225 1.546476 ACAAGGCAAAACACGGACAAA 59.454 42.857 0.00 0.00 0.00 2.83
299 301 3.827898 CCTCTCGCGTCCTGACCC 61.828 72.222 5.77 0.00 0.00 4.46
314 316 2.103941 CTGACCCAGGCTCTAAATCTCC 59.896 54.545 0.00 0.00 0.00 3.71
319 321 3.525862 CCAGGCTCTAAATCTCCCCTAT 58.474 50.000 0.00 0.00 0.00 2.57
320 322 4.512942 CCCAGGCTCTAAATCTCCCCTATA 60.513 50.000 0.00 0.00 0.00 1.31
321 323 4.468153 CCAGGCTCTAAATCTCCCCTATAC 59.532 50.000 0.00 0.00 0.00 1.47
323 325 4.361674 AGGCTCTAAATCTCCCCTATACCT 59.638 45.833 0.00 0.00 0.00 3.08
324 326 4.712829 GGCTCTAAATCTCCCCTATACCTC 59.287 50.000 0.00 0.00 0.00 3.85
325 327 4.712829 GCTCTAAATCTCCCCTATACCTCC 59.287 50.000 0.00 0.00 0.00 4.30
326 328 4.931914 TCTAAATCTCCCCTATACCTCCG 58.068 47.826 0.00 0.00 0.00 4.63
327 329 1.939980 AATCTCCCCTATACCTCCGC 58.060 55.000 0.00 0.00 0.00 5.54
328 330 0.041386 ATCTCCCCTATACCTCCGCC 59.959 60.000 0.00 0.00 0.00 6.13
329 331 1.977544 CTCCCCTATACCTCCGCCG 60.978 68.421 0.00 0.00 0.00 6.46
330 332 3.692406 CCCCTATACCTCCGCCGC 61.692 72.222 0.00 0.00 0.00 6.53
331 333 3.692406 CCCTATACCTCCGCCGCC 61.692 72.222 0.00 0.00 0.00 6.13
332 334 4.052229 CCTATACCTCCGCCGCCG 62.052 72.222 0.00 0.00 0.00 6.46
333 335 4.719369 CTATACCTCCGCCGCCGC 62.719 72.222 0.00 0.00 0.00 6.53
375 377 3.045492 TTCGCGTTCTTTCCCCGC 61.045 61.111 5.77 0.00 43.74 6.13
405 407 3.706373 TTCCTGCTGTCTCCGCCC 61.706 66.667 0.00 0.00 0.00 6.13
480 482 2.625314 TCTCATCCAGCGATTACTGAGG 59.375 50.000 4.02 0.00 40.25 3.86
485 487 0.249073 CAGCGATTACTGAGGTCCCG 60.249 60.000 0.00 0.00 40.25 5.14
488 490 1.672854 CGATTACTGAGGTCCCGCCA 61.673 60.000 0.00 0.00 40.61 5.69
553 555 1.154205 CCATCCATCTGGTTCGCGTC 61.154 60.000 5.77 0.09 36.34 5.19
560 562 0.038526 TCTGGTTCGCGTCTTCTTCC 60.039 55.000 5.77 0.23 0.00 3.46
562 564 0.391597 TGGTTCGCGTCTTCTTCCTT 59.608 50.000 5.77 0.00 0.00 3.36
572 580 2.226674 GTCTTCTTCCTTTTCTTGGGCG 59.773 50.000 0.00 0.00 0.00 6.13
594 602 1.523095 GGTTATGAGCATCGACGCTTC 59.477 52.381 7.70 1.50 44.01 3.86
648 656 3.000815 TGGTCTTTCTGAACACGCC 57.999 52.632 0.00 0.00 37.49 5.68
714 723 3.157087 GAGATCTGGGTTTGCCTTTTCA 58.843 45.455 0.00 0.00 34.45 2.69
724 733 4.626172 GGTTTGCCTTTTCAAAACAACGTA 59.374 37.500 0.00 0.00 41.83 3.57
738 758 8.613482 TCAAAACAACGTATTCTGATGTGTAAA 58.387 29.630 0.00 0.00 0.00 2.01
739 759 9.393249 CAAAACAACGTATTCTGATGTGTAAAT 57.607 29.630 0.00 0.00 0.00 1.40
740 760 9.607285 AAAACAACGTATTCTGATGTGTAAATC 57.393 29.630 0.00 0.00 0.00 2.17
741 761 7.303634 ACAACGTATTCTGATGTGTAAATCC 57.696 36.000 0.00 0.00 0.00 3.01
742 762 7.103641 ACAACGTATTCTGATGTGTAAATCCT 58.896 34.615 0.00 0.00 0.00 3.24
743 763 7.064609 ACAACGTATTCTGATGTGTAAATCCTG 59.935 37.037 0.00 0.00 0.00 3.86
744 764 5.523916 ACGTATTCTGATGTGTAAATCCTGC 59.476 40.000 0.00 0.00 0.00 4.85
745 765 5.332581 CGTATTCTGATGTGTAAATCCTGCG 60.333 44.000 0.00 0.00 0.00 5.18
746 766 2.279741 TCTGATGTGTAAATCCTGCGC 58.720 47.619 0.00 0.00 0.00 6.09
747 767 2.009051 CTGATGTGTAAATCCTGCGCA 58.991 47.619 10.98 10.98 34.46 6.09
748 768 2.419673 CTGATGTGTAAATCCTGCGCAA 59.580 45.455 13.05 0.00 33.61 4.85
772 792 4.290155 CTGCAATTTCTACACCACACAAC 58.710 43.478 0.00 0.00 0.00 3.32
776 796 2.631160 TTCTACACCACACAACAGGG 57.369 50.000 0.00 0.00 0.00 4.45
835 855 5.127845 TCTTGGTTGCCTTCACAAAACAATA 59.872 36.000 0.00 0.00 32.02 1.90
836 856 4.942852 TGGTTGCCTTCACAAAACAATAG 58.057 39.130 0.00 0.00 0.00 1.73
837 857 3.740832 GGTTGCCTTCACAAAACAATAGC 59.259 43.478 0.00 0.00 0.00 2.97
838 858 4.367450 GTTGCCTTCACAAAACAATAGCA 58.633 39.130 0.00 0.00 0.00 3.49
840 860 5.212532 TGCCTTCACAAAACAATAGCATT 57.787 34.783 0.00 0.00 0.00 3.56
841 861 5.609423 TGCCTTCACAAAACAATAGCATTT 58.391 33.333 0.00 0.00 0.00 2.32
842 862 6.753180 TGCCTTCACAAAACAATAGCATTTA 58.247 32.000 0.00 0.00 0.00 1.40
843 863 7.385267 TGCCTTCACAAAACAATAGCATTTAT 58.615 30.769 0.00 0.00 0.00 1.40
845 865 8.720562 GCCTTCACAAAACAATAGCATTTATTT 58.279 29.630 0.00 0.00 0.00 1.40
892 924 8.739039 AGTTTATTTACAGCACAATAGCATTGA 58.261 29.630 13.53 0.00 36.85 2.57
936 968 4.253685 TGTCGTCTGATTGATTTCCCTTC 58.746 43.478 0.00 0.00 0.00 3.46
1116 1148 3.059120 GGAAGTTTCCTGTTGTAAGCGTC 60.059 47.826 3.63 0.00 44.11 5.19
1117 1149 3.470645 AGTTTCCTGTTGTAAGCGTCT 57.529 42.857 0.00 0.00 0.00 4.18
1118 1150 3.131396 AGTTTCCTGTTGTAAGCGTCTG 58.869 45.455 0.00 0.00 0.00 3.51
1119 1151 3.128349 GTTTCCTGTTGTAAGCGTCTGA 58.872 45.455 0.00 0.00 0.00 3.27
1120 1152 2.433868 TCCTGTTGTAAGCGTCTGAC 57.566 50.000 0.00 0.00 0.00 3.51
1121 1153 1.060713 CCTGTTGTAAGCGTCTGACG 58.939 55.000 24.78 24.78 45.88 4.35
1122 1154 1.602165 CCTGTTGTAAGCGTCTGACGT 60.602 52.381 28.38 14.36 44.73 4.34
1123 1155 2.351060 CCTGTTGTAAGCGTCTGACGTA 60.351 50.000 28.38 13.36 44.73 3.57
1124 1156 2.653890 TGTTGTAAGCGTCTGACGTAC 58.346 47.619 28.38 22.89 44.73 3.67
1125 1157 2.291465 TGTTGTAAGCGTCTGACGTACT 59.709 45.455 28.38 16.69 44.73 2.73
1126 1158 3.243168 TGTTGTAAGCGTCTGACGTACTT 60.243 43.478 28.38 24.19 44.73 2.24
1134 1166 2.031420 CGTCTGACGTACTTGTTCCTGA 60.031 50.000 21.30 0.00 36.74 3.86
1137 1169 3.056821 TCTGACGTACTTGTTCCTGATGG 60.057 47.826 0.00 0.00 0.00 3.51
1161 1193 1.153005 CAAGAGGGCTGATGGGCTC 60.153 63.158 0.00 0.00 40.65 4.70
1164 1196 0.992431 AGAGGGCTGATGGGCTCAAT 60.992 55.000 0.00 0.00 40.65 2.57
1209 1241 1.379576 GCCATCAGCAAGGAAGGCT 60.380 57.895 10.76 0.00 45.67 4.58
1278 1310 1.544917 AGGCCACCCCTTGAAGGAT 60.545 57.895 13.97 0.00 43.06 3.24
1302 1334 2.036387 TCCGTCCTGAAAGACAAGTCA 58.964 47.619 2.72 0.00 36.52 3.41
1516 1548 4.651994 CTTCATTTGCCTGTTCGTATGTC 58.348 43.478 0.00 0.00 0.00 3.06
1611 1643 4.906065 AATAACGTCAGCATTGCATGAT 57.094 36.364 11.91 0.72 0.00 2.45
1765 1797 7.477422 CACACGTAAACATTCTGTTAGTATTGC 59.523 37.037 0.00 0.00 40.14 3.56
1777 1809 6.014584 TCTGTTAGTATTGCTCTCTTGGTTCA 60.015 38.462 0.00 0.00 0.00 3.18
1781 1813 8.821894 GTTAGTATTGCTCTCTTGGTTCAATAG 58.178 37.037 0.00 0.00 32.36 1.73
1891 1923 8.725405 TTTCTTTCATAACCGAATGCACTATA 57.275 30.769 0.00 0.00 0.00 1.31
2211 2245 0.961019 AGGCGCACACACATTTCAAT 59.039 45.000 10.83 0.00 0.00 2.57
2228 2274 9.829507 ACATTTCAATAATCAACTTTGACCAAA 57.170 25.926 0.00 0.00 40.49 3.28
2237 2283 8.887036 AATCAACTTTGACCAAAAATTAGACC 57.113 30.769 0.00 0.00 40.49 3.85
2238 2284 7.411486 TCAACTTTGACCAAAAATTAGACCA 57.589 32.000 0.00 0.00 31.01 4.02
2239 2285 7.841956 TCAACTTTGACCAAAAATTAGACCAA 58.158 30.769 0.00 0.00 31.01 3.67
2247 2293 7.011857 TGACCAAAAATTAGACCAACAAAATGC 59.988 33.333 0.00 0.00 0.00 3.56
2473 2519 1.888436 TACTCCCCTTGCAGCACTCG 61.888 60.000 0.00 0.00 0.00 4.18
2700 2829 9.179909 TGTCTTGTCCTGTTTCAGTTTATTTAA 57.820 29.630 0.00 0.00 0.00 1.52
2829 2961 2.187958 ACTGTTGGAAGGGATGATCGA 58.812 47.619 0.00 0.00 0.00 3.59
2848 2980 3.130516 TCGAACAGAGAGGAAATATGCGT 59.869 43.478 0.00 0.00 0.00 5.24
2936 3068 7.633193 TTCTTTGGCTACAAACTAACTTGAA 57.367 32.000 0.00 0.00 41.42 2.69
3042 3174 0.523072 GCCATTGCCATACCATAGCG 59.477 55.000 0.00 0.00 0.00 4.26
3078 3210 1.346395 CCCTACATAGCCGCCACAATA 59.654 52.381 0.00 0.00 0.00 1.90
3097 3230 5.221925 ACAATAACCTTGACTGTGTCATCCT 60.222 40.000 1.05 0.00 42.40 3.24
3139 3272 5.768164 CCCTAGTTCTAAGGAAACAAAGCAA 59.232 40.000 0.00 0.00 36.08 3.91
3140 3273 6.264518 CCCTAGTTCTAAGGAAACAAAGCAAA 59.735 38.462 0.00 0.00 36.08 3.68
3179 3312 0.804364 CATGCACACGTTACATGGCT 59.196 50.000 12.30 0.00 37.99 4.75
3236 3370 9.367444 CTAAGGATTATAGGCTAACATAAACCG 57.633 37.037 0.00 0.00 35.69 4.44
3439 3573 7.905604 AATATCTGTTTGTTGACGATTCAGA 57.094 32.000 0.00 0.00 35.47 3.27
3454 3588 1.295792 TCAGACAGTTGCACCGTTTC 58.704 50.000 0.00 0.00 0.00 2.78
3542 3676 1.840737 TCAGGTCTCTTTCTCCTCGG 58.159 55.000 0.00 0.00 0.00 4.63
3628 3769 8.050778 TGTTTCAGTTTTCTCACATGTAACTT 57.949 30.769 7.99 0.00 0.00 2.66
3630 3771 6.060028 TCAGTTTTCTCACATGTAACTTGC 57.940 37.500 7.99 0.00 0.00 4.01
3633 3774 5.756347 AGTTTTCTCACATGTAACTTGCGTA 59.244 36.000 0.00 0.00 0.00 4.42
3651 3792 1.064060 GTACATTTGCATCCAGGCGAC 59.936 52.381 0.00 0.00 36.28 5.19
3696 3837 6.889301 TCTTTTGATGAAGTTGAGCTTGAT 57.111 33.333 0.00 0.00 37.59 2.57
3868 4014 2.560954 CTCAGGAGCAGTCGACTGA 58.439 57.895 42.03 23.06 46.59 3.41
3900 4046 3.005554 TGCTAGATGCTGCTGTTCTTTC 58.994 45.455 0.00 0.00 43.37 2.62
3926 4077 1.880027 GTCTGTTGTGATGGGTGAACC 59.120 52.381 0.00 0.00 40.81 3.62
3928 4079 2.174639 TCTGTTGTGATGGGTGAACCTT 59.825 45.455 0.00 0.00 41.11 3.50
3932 4083 3.695830 TGTGATGGGTGAACCTTCTAC 57.304 47.619 3.95 1.86 42.44 2.59
3943 4094 0.323957 ACCTTCTACCGGGTTTCAGC 59.676 55.000 4.31 0.00 30.80 4.26
4014 4165 6.414987 GCTTTTTCAGTCAGTGATGTGTAAAC 59.585 38.462 0.00 0.00 34.17 2.01
4084 4235 5.072055 TCTGATTTTTCAGCTTGGTCATCA 58.928 37.500 0.00 0.00 37.63 3.07
4145 4296 2.781681 ACACGGTTTTATGGAGAGGG 57.218 50.000 0.00 0.00 0.00 4.30
4211 4362 4.038522 TGCTAAGTGGATAGATGAGTCAGC 59.961 45.833 0.00 0.00 0.00 4.26
4225 4376 3.181451 TGAGTCAGCCAAAGTCACTTCAT 60.181 43.478 0.00 0.00 0.00 2.57
4281 4432 9.036671 GTAAAGAATCTGCCTGTTTAGATAGTC 57.963 37.037 0.00 0.00 33.49 2.59
4307 4458 4.473444 ACCAAGCTTCTCATTTCCTCAAA 58.527 39.130 0.00 0.00 0.00 2.69
4308 4459 5.082425 ACCAAGCTTCTCATTTCCTCAAAT 58.918 37.500 0.00 0.00 31.91 2.32
4327 4478 1.462731 TTGGAGCTTTGCCGTGCATT 61.463 50.000 0.00 0.00 38.76 3.56
4344 4507 5.186198 GTGCATTCACTAACCTTGTCCTAT 58.814 41.667 0.00 0.00 40.03 2.57
4353 4516 8.117956 TCACTAACCTTGTCCTATAACTCCTTA 58.882 37.037 0.00 0.00 0.00 2.69
4373 4536 7.939781 TCCTTAAACTTCCTCCCAAATCTTAT 58.060 34.615 0.00 0.00 0.00 1.73
4374 4537 8.398743 TCCTTAAACTTCCTCCCAAATCTTATT 58.601 33.333 0.00 0.00 0.00 1.40
4473 4636 6.645306 TGTGACGGATTATTCCATACTTCAA 58.355 36.000 4.60 0.00 42.74 2.69
4500 4663 9.666626 CACAAATATTTCAAACAATTGCACAAT 57.333 25.926 5.05 0.30 36.45 2.71
4622 4791 2.380064 AGCCACCAAATCCAACAAGA 57.620 45.000 0.00 0.00 0.00 3.02
4625 4794 2.415893 GCCACCAAATCCAACAAGATCG 60.416 50.000 0.00 0.00 0.00 3.69
4681 4853 2.297033 CCACCATCAAACTCCACCAAAG 59.703 50.000 0.00 0.00 0.00 2.77
4682 4854 3.221771 CACCATCAAACTCCACCAAAGA 58.778 45.455 0.00 0.00 0.00 2.52
4683 4855 3.828451 CACCATCAAACTCCACCAAAGAT 59.172 43.478 0.00 0.00 0.00 2.40
4684 4856 3.828451 ACCATCAAACTCCACCAAAGATG 59.172 43.478 0.00 0.00 33.15 2.90
4685 4857 4.081406 CCATCAAACTCCACCAAAGATGA 58.919 43.478 0.00 0.00 34.79 2.92
4686 4858 4.082571 CCATCAAACTCCACCAAAGATGAC 60.083 45.833 0.00 0.00 34.79 3.06
4687 4859 4.437682 TCAAACTCCACCAAAGATGACT 57.562 40.909 0.00 0.00 0.00 3.41
4688 4860 4.136796 TCAAACTCCACCAAAGATGACTG 58.863 43.478 0.00 0.00 0.00 3.51
4689 4861 2.191128 ACTCCACCAAAGATGACTGC 57.809 50.000 0.00 0.00 0.00 4.40
4690 4862 1.271597 ACTCCACCAAAGATGACTGCC 60.272 52.381 0.00 0.00 0.00 4.85
4691 4863 0.770499 TCCACCAAAGATGACTGCCA 59.230 50.000 0.00 0.00 0.00 4.92
4692 4864 1.144708 TCCACCAAAGATGACTGCCAA 59.855 47.619 0.00 0.00 0.00 4.52
4693 4865 1.962807 CCACCAAAGATGACTGCCAAA 59.037 47.619 0.00 0.00 0.00 3.28
4694 4866 2.029649 CCACCAAAGATGACTGCCAAAG 60.030 50.000 0.00 0.00 0.00 2.77
4695 4867 2.886523 CACCAAAGATGACTGCCAAAGA 59.113 45.455 0.00 0.00 0.00 2.52
4696 4868 3.057736 CACCAAAGATGACTGCCAAAGAG 60.058 47.826 0.00 0.00 0.00 2.85
4697 4869 3.181440 ACCAAAGATGACTGCCAAAGAGA 60.181 43.478 0.00 0.00 0.00 3.10
4698 4870 4.015084 CCAAAGATGACTGCCAAAGAGAT 58.985 43.478 0.00 0.00 0.00 2.75
4699 4871 4.461781 CCAAAGATGACTGCCAAAGAGATT 59.538 41.667 0.00 0.00 0.00 2.40
4700 4872 5.047519 CCAAAGATGACTGCCAAAGAGATTT 60.048 40.000 0.00 0.00 0.00 2.17
4701 4873 5.893897 AAGATGACTGCCAAAGAGATTTC 57.106 39.130 0.00 0.00 0.00 2.17
4702 4874 4.914983 AGATGACTGCCAAAGAGATTTCA 58.085 39.130 0.00 0.00 0.00 2.69
4703 4875 5.319453 AGATGACTGCCAAAGAGATTTCAA 58.681 37.500 0.00 0.00 0.00 2.69
4704 4876 5.950549 AGATGACTGCCAAAGAGATTTCAAT 59.049 36.000 0.00 0.00 0.00 2.57
4705 4877 5.381174 TGACTGCCAAAGAGATTTCAATG 57.619 39.130 0.00 0.00 0.00 2.82
4706 4878 4.828939 TGACTGCCAAAGAGATTTCAATGT 59.171 37.500 0.00 0.00 0.00 2.71
4707 4879 6.003326 TGACTGCCAAAGAGATTTCAATGTA 58.997 36.000 0.00 0.00 0.00 2.29
4708 4880 6.149973 TGACTGCCAAAGAGATTTCAATGTAG 59.850 38.462 0.00 0.00 0.00 2.74
4709 4881 5.105997 ACTGCCAAAGAGATTTCAATGTAGC 60.106 40.000 0.00 0.00 0.00 3.58
4710 4882 4.158394 TGCCAAAGAGATTTCAATGTAGCC 59.842 41.667 0.00 0.00 0.00 3.93
4711 4883 4.400567 GCCAAAGAGATTTCAATGTAGCCT 59.599 41.667 0.00 0.00 0.00 4.58
4712 4884 5.590259 GCCAAAGAGATTTCAATGTAGCCTA 59.410 40.000 0.00 0.00 0.00 3.93
4713 4885 6.264067 GCCAAAGAGATTTCAATGTAGCCTAT 59.736 38.462 0.00 0.00 0.00 2.57
4714 4886 7.201857 GCCAAAGAGATTTCAATGTAGCCTATT 60.202 37.037 0.00 0.00 0.00 1.73
4715 4887 9.342308 CCAAAGAGATTTCAATGTAGCCTATTA 57.658 33.333 0.00 0.00 0.00 0.98
4717 4889 8.910351 AAGAGATTTCAATGTAGCCTATTACC 57.090 34.615 0.00 0.00 0.00 2.85
4718 4890 8.268878 AGAGATTTCAATGTAGCCTATTACCT 57.731 34.615 0.00 0.00 0.00 3.08
4719 4891 8.718656 AGAGATTTCAATGTAGCCTATTACCTT 58.281 33.333 0.00 0.00 0.00 3.50
4720 4892 8.682936 AGATTTCAATGTAGCCTATTACCTTG 57.317 34.615 0.00 0.00 33.28 3.61
4721 4893 8.275040 AGATTTCAATGTAGCCTATTACCTTGT 58.725 33.333 0.00 0.00 33.55 3.16
4722 4894 7.624360 TTTCAATGTAGCCTATTACCTTGTG 57.376 36.000 0.00 0.00 33.55 3.33
4723 4895 6.308015 TCAATGTAGCCTATTACCTTGTGT 57.692 37.500 0.00 0.00 33.55 3.72
4724 4896 7.426606 TCAATGTAGCCTATTACCTTGTGTA 57.573 36.000 0.00 0.00 33.55 2.90
4725 4897 8.029782 TCAATGTAGCCTATTACCTTGTGTAT 57.970 34.615 0.00 0.00 33.55 2.29
4726 4898 7.931407 TCAATGTAGCCTATTACCTTGTGTATG 59.069 37.037 0.00 0.00 33.55 2.39
4727 4899 5.607477 TGTAGCCTATTACCTTGTGTATGC 58.393 41.667 0.00 0.00 0.00 3.14
4728 4900 5.365605 TGTAGCCTATTACCTTGTGTATGCT 59.634 40.000 0.00 0.00 0.00 3.79
4729 4901 6.551975 TGTAGCCTATTACCTTGTGTATGCTA 59.448 38.462 0.00 0.00 0.00 3.49
4730 4902 5.855045 AGCCTATTACCTTGTGTATGCTAC 58.145 41.667 0.00 0.00 0.00 3.58
4731 4903 5.365605 AGCCTATTACCTTGTGTATGCTACA 59.634 40.000 0.00 0.00 36.08 2.74
4732 4904 6.053005 GCCTATTACCTTGTGTATGCTACAA 58.947 40.000 0.00 0.00 40.93 2.41
4733 4905 6.710744 GCCTATTACCTTGTGTATGCTACAAT 59.289 38.462 0.00 0.00 40.93 2.71
4734 4906 7.228706 GCCTATTACCTTGTGTATGCTACAATT 59.771 37.037 0.00 0.00 40.93 2.32
4735 4907 9.120538 CCTATTACCTTGTGTATGCTACAATTT 57.879 33.333 0.00 0.00 40.93 1.82
4760 4932 9.550406 TTAAATATAAGGAATACACGTTGGAGG 57.450 33.333 0.00 0.00 0.00 4.30
4761 4933 6.742559 ATATAAGGAATACACGTTGGAGGT 57.257 37.500 0.00 0.00 0.00 3.85
4762 4934 7.844493 ATATAAGGAATACACGTTGGAGGTA 57.156 36.000 0.00 0.00 0.00 3.08
4763 4935 4.895668 AAGGAATACACGTTGGAGGTAA 57.104 40.909 0.00 0.00 0.00 2.85
4764 4936 5.431179 AAGGAATACACGTTGGAGGTAAT 57.569 39.130 0.00 0.00 0.00 1.89
4765 4937 5.019785 AGGAATACACGTTGGAGGTAATC 57.980 43.478 0.00 0.00 0.00 1.75
4766 4938 3.800506 GGAATACACGTTGGAGGTAATCG 59.199 47.826 0.00 0.00 0.00 3.34
4767 4939 4.427312 GAATACACGTTGGAGGTAATCGT 58.573 43.478 0.00 0.00 35.12 3.73
4768 4940 2.825861 ACACGTTGGAGGTAATCGTT 57.174 45.000 0.00 0.00 32.47 3.85
4769 4941 3.116079 ACACGTTGGAGGTAATCGTTT 57.884 42.857 0.00 0.00 32.47 3.60
4770 4942 2.803956 ACACGTTGGAGGTAATCGTTTG 59.196 45.455 0.00 0.00 32.47 2.93
4771 4943 2.803956 CACGTTGGAGGTAATCGTTTGT 59.196 45.455 0.00 0.00 32.47 2.83
4772 4944 3.062042 ACGTTGGAGGTAATCGTTTGTC 58.938 45.455 0.00 0.00 0.00 3.18
4773 4945 3.243975 ACGTTGGAGGTAATCGTTTGTCT 60.244 43.478 0.00 0.00 0.00 3.41
4774 4946 3.744426 CGTTGGAGGTAATCGTTTGTCTT 59.256 43.478 0.00 0.00 0.00 3.01
4775 4947 4.212636 CGTTGGAGGTAATCGTTTGTCTTT 59.787 41.667 0.00 0.00 0.00 2.52
4776 4948 5.277634 CGTTGGAGGTAATCGTTTGTCTTTT 60.278 40.000 0.00 0.00 0.00 2.27
4777 4949 5.682943 TGGAGGTAATCGTTTGTCTTTTG 57.317 39.130 0.00 0.00 0.00 2.44
4778 4950 5.369833 TGGAGGTAATCGTTTGTCTTTTGA 58.630 37.500 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.897560 CCCAAATCCTAATCGGGAGC 58.102 55.000 0.00 0.00 39.44 4.70
1 2 1.421646 AGCCCAAATCCTAATCGGGAG 59.578 52.381 0.00 0.00 39.44 4.30
2 3 1.518367 AGCCCAAATCCTAATCGGGA 58.482 50.000 0.00 0.00 39.44 5.14
3 4 3.610911 GATAGCCCAAATCCTAATCGGG 58.389 50.000 0.00 0.00 40.11 5.14
4 5 3.610911 GGATAGCCCAAATCCTAATCGG 58.389 50.000 0.00 0.00 39.93 4.18
5 6 3.262420 CGGATAGCCCAAATCCTAATCG 58.738 50.000 0.00 0.00 40.74 3.34
6 7 4.020128 AGACGGATAGCCCAAATCCTAATC 60.020 45.833 0.00 0.00 40.74 1.75
7 8 3.910627 AGACGGATAGCCCAAATCCTAAT 59.089 43.478 0.00 0.00 40.74 1.73
8 9 3.314693 AGACGGATAGCCCAAATCCTAA 58.685 45.455 0.00 0.00 40.74 2.69
9 10 2.897969 GAGACGGATAGCCCAAATCCTA 59.102 50.000 0.00 0.00 40.74 2.94
10 11 1.694696 GAGACGGATAGCCCAAATCCT 59.305 52.381 0.00 0.00 40.74 3.24
11 12 1.605712 CGAGACGGATAGCCCAAATCC 60.606 57.143 0.00 0.00 39.71 3.01
12 13 1.784525 CGAGACGGATAGCCCAAATC 58.215 55.000 0.00 0.00 34.14 2.17
13 14 3.989104 CGAGACGGATAGCCCAAAT 57.011 52.632 0.00 0.00 34.14 2.32
33 34 0.246360 GGTTATTGTTGTGGCCCAGC 59.754 55.000 0.00 0.03 0.00 4.85
34 35 0.525761 CGGTTATTGTTGTGGCCCAG 59.474 55.000 0.00 0.00 0.00 4.45
35 36 0.896019 CCGGTTATTGTTGTGGCCCA 60.896 55.000 0.00 0.00 0.00 5.36
36 37 1.600511 CCCGGTTATTGTTGTGGCCC 61.601 60.000 0.00 0.00 0.00 5.80
37 38 1.887301 CCCGGTTATTGTTGTGGCC 59.113 57.895 0.00 0.00 0.00 5.36
38 39 1.214325 GCCCGGTTATTGTTGTGGC 59.786 57.895 0.00 0.00 0.00 5.01
39 40 1.238625 ACGCCCGGTTATTGTTGTGG 61.239 55.000 0.00 0.00 0.00 4.17
40 41 0.109964 CACGCCCGGTTATTGTTGTG 60.110 55.000 0.00 0.00 0.00 3.33
41 42 1.238625 CCACGCCCGGTTATTGTTGT 61.239 55.000 0.00 0.00 0.00 3.32
42 43 1.504446 CCACGCCCGGTTATTGTTG 59.496 57.895 0.00 0.00 0.00 3.33
43 44 2.337246 GCCACGCCCGGTTATTGTT 61.337 57.895 0.00 0.00 0.00 2.83
44 45 2.748647 GCCACGCCCGGTTATTGT 60.749 61.111 0.00 0.00 0.00 2.71
45 46 3.514362 GGCCACGCCCGGTTATTG 61.514 66.667 0.00 0.00 44.06 1.90
223 225 1.286553 TGGGGAGTTGTTGTTCTTGGT 59.713 47.619 0.00 0.00 0.00 3.67
299 301 4.468153 GGTATAGGGGAGATTTAGAGCCTG 59.532 50.000 0.00 0.00 0.00 4.85
314 316 3.692406 GGCGGCGGAGGTATAGGG 61.692 72.222 9.78 0.00 0.00 3.53
485 487 1.136774 GGAAATCGCGAAGGTTGGC 59.863 57.895 15.24 0.00 0.00 4.52
488 490 1.743995 CCCGGAAATCGCGAAGGTT 60.744 57.895 15.24 7.95 37.59 3.50
508 510 0.752658 CGGATCTAGATGGTGGTGCA 59.247 55.000 10.74 0.00 0.00 4.57
553 555 1.541588 CCGCCCAAGAAAAGGAAGAAG 59.458 52.381 0.00 0.00 0.00 2.85
560 562 1.476488 CATAACCCCGCCCAAGAAAAG 59.524 52.381 0.00 0.00 0.00 2.27
562 564 0.699399 TCATAACCCCGCCCAAGAAA 59.301 50.000 0.00 0.00 0.00 2.52
572 580 1.222115 GCGTCGATGCTCATAACCCC 61.222 60.000 22.31 0.00 0.00 4.95
594 602 5.994054 TCCAAGAAAACAGATCAGAAGACAG 59.006 40.000 0.00 0.00 0.00 3.51
648 656 2.016318 TCCCGCTGTGAAATATGCAAG 58.984 47.619 0.00 0.00 0.00 4.01
714 723 9.607285 GATTTACACATCAGAATACGTTGTTTT 57.393 29.630 0.00 0.00 0.00 2.43
724 733 3.313526 GCGCAGGATTTACACATCAGAAT 59.686 43.478 0.30 0.00 0.00 2.40
745 765 2.030007 TGGTGTAGAAATTGCAGCTTGC 60.030 45.455 0.00 1.70 45.29 4.01
746 766 3.004629 TGTGGTGTAGAAATTGCAGCTTG 59.995 43.478 0.00 0.00 40.11 4.01
747 767 3.004734 GTGTGGTGTAGAAATTGCAGCTT 59.995 43.478 0.00 0.00 40.11 3.74
748 768 2.554032 GTGTGGTGTAGAAATTGCAGCT 59.446 45.455 0.00 0.00 40.11 4.24
871 903 7.121759 AGTTCTCAATGCTATTGTGCTGTAAAT 59.878 33.333 8.19 0.00 0.00 1.40
892 924 4.449068 CAGAAGCAATACACAACGAGTTCT 59.551 41.667 0.00 0.00 0.00 3.01
936 968 0.858961 GAGTTAAATGCTGCTGCGCG 60.859 55.000 11.21 0.00 43.34 6.86
1116 1148 3.254060 CCATCAGGAACAAGTACGTCAG 58.746 50.000 0.00 0.00 36.89 3.51
1117 1149 2.028476 CCCATCAGGAACAAGTACGTCA 60.028 50.000 0.00 0.00 38.24 4.35
1118 1150 2.618053 CCCATCAGGAACAAGTACGTC 58.382 52.381 0.00 0.00 38.24 4.34
1119 1151 1.338769 GCCCATCAGGAACAAGTACGT 60.339 52.381 0.00 0.00 38.24 3.57
1120 1152 1.338674 TGCCCATCAGGAACAAGTACG 60.339 52.381 0.00 0.00 38.24 3.67
1121 1153 2.359900 CTGCCCATCAGGAACAAGTAC 58.640 52.381 0.00 0.00 39.15 2.73
1122 1154 2.787473 CTGCCCATCAGGAACAAGTA 57.213 50.000 0.00 0.00 39.15 2.24
1123 1155 3.658398 CTGCCCATCAGGAACAAGT 57.342 52.632 0.00 0.00 39.15 3.16
1134 1166 4.453892 GCCCTCTTGCCTGCCCAT 62.454 66.667 0.00 0.00 0.00 4.00
1137 1169 3.355957 ATCAGCCCTCTTGCCTGCC 62.356 63.158 0.00 0.00 0.00 4.85
1161 1193 0.037975 GTTTCAGTGGCCTGGCATTG 60.038 55.000 22.05 14.68 39.31 2.82
1164 1196 2.203480 GGTTTCAGTGGCCTGGCA 60.203 61.111 22.05 1.21 39.31 4.92
1167 1199 1.171308 CTGATGGTTTCAGTGGCCTG 58.829 55.000 3.32 0.00 45.79 4.85
1209 1241 1.003839 GTTGGACACATCCCGCAGA 60.004 57.895 0.00 0.00 45.59 4.26
1516 1548 2.014128 ACATATTGAAAAGGTCCGCCG 58.986 47.619 0.00 0.00 40.50 6.46
1611 1643 6.903516 AGGATCAAATATCACATCTGACCAA 58.096 36.000 0.00 0.00 0.00 3.67
1765 1797 5.083533 AGCAGTCTATTGAACCAAGAGAG 57.916 43.478 4.50 0.00 41.40 3.20
1777 1809 7.506114 TCCGGATGTAAATTTAGCAGTCTATT 58.494 34.615 0.00 0.00 0.00 1.73
1781 1813 6.619801 AATCCGGATGTAAATTTAGCAGTC 57.380 37.500 19.95 0.00 0.00 3.51
1862 1894 5.645929 TGCATTCGGTTATGAAAGAAAGCTA 59.354 36.000 5.98 0.00 37.93 3.32
1891 1923 4.656112 AGGCATAGCAAGTTCAGTAGGTAT 59.344 41.667 0.00 0.00 0.00 2.73
2155 2189 2.375174 AGGGAGTACATCTTTGTTGCCA 59.625 45.455 0.00 0.00 37.28 4.92
2211 2245 9.974980 GGTCTAATTTTTGGTCAAAGTTGATTA 57.025 29.630 0.00 1.88 39.73 1.75
2228 2274 9.723601 ATAACATGCATTTTGTTGGTCTAATTT 57.276 25.926 13.21 0.00 37.81 1.82
2231 2277 9.800433 CATATAACATGCATTTTGTTGGTCTAA 57.200 29.630 13.21 0.00 37.81 2.10
2232 2278 8.965819 ACATATAACATGCATTTTGTTGGTCTA 58.034 29.630 13.21 2.44 37.81 2.59
2233 2279 7.760794 CACATATAACATGCATTTTGTTGGTCT 59.239 33.333 13.21 0.62 37.81 3.85
2234 2280 7.758980 TCACATATAACATGCATTTTGTTGGTC 59.241 33.333 13.21 0.00 37.81 4.02
2235 2281 7.609960 TCACATATAACATGCATTTTGTTGGT 58.390 30.769 13.21 4.21 37.81 3.67
2236 2282 8.651391 ATCACATATAACATGCATTTTGTTGG 57.349 30.769 13.21 3.68 37.81 3.77
2473 2519 8.870879 CCACAAGTTTAACTATAGCTAGTTGTC 58.129 37.037 11.42 3.23 45.61 3.18
2829 2961 4.160439 TCTCACGCATATTTCCTCTCTGTT 59.840 41.667 0.00 0.00 0.00 3.16
2848 2980 3.872696 TGCACAAAACTTGTCTCTCTCA 58.127 40.909 0.00 0.00 43.23 3.27
2936 3068 1.890489 GGTCCAACGCCCATTTTTAGT 59.110 47.619 0.00 0.00 0.00 2.24
3042 3174 1.945580 AGGGGAGAGAAGGACAAGTC 58.054 55.000 0.00 0.00 0.00 3.01
3078 3210 3.306088 CGTAGGATGACACAGTCAAGGTT 60.306 47.826 3.74 0.00 45.96 3.50
3139 3272 1.165270 GCACGTCTTGGCCAAGTATT 58.835 50.000 37.97 23.14 39.38 1.89
3140 3273 0.036164 TGCACGTCTTGGCCAAGTAT 59.964 50.000 37.97 24.38 39.38 2.12
3236 3370 3.839293 AGACGACTAAGCAATGACTGTC 58.161 45.455 0.00 0.00 0.00 3.51
3454 3588 5.885230 TCCAGCACATTTACTTCTTCATG 57.115 39.130 0.00 0.00 0.00 3.07
3542 3676 5.782893 ACTAGAGTGAGCCTATGAATGTC 57.217 43.478 0.00 0.00 0.00 3.06
3628 3769 1.093972 CCTGGATGCAAATGTACGCA 58.906 50.000 0.00 0.00 43.45 5.24
3630 3771 0.027979 CGCCTGGATGCAAATGTACG 59.972 55.000 0.00 0.00 0.00 3.67
3633 3774 0.608856 TGTCGCCTGGATGCAAATGT 60.609 50.000 0.00 0.00 0.00 2.71
3651 3792 2.224606 TCTTCAGTCAGCTTTGCCTTG 58.775 47.619 0.00 0.00 0.00 3.61
3696 3837 3.973472 TCCTCCAGGAATGAGTAGCTA 57.027 47.619 0.00 0.00 42.18 3.32
3762 3903 1.188219 TCACTGACTCCAGGCTCCAC 61.188 60.000 0.00 0.00 44.60 4.02
3900 4046 0.391661 CCATCACAACAGACGGGAGG 60.392 60.000 0.00 0.00 0.00 4.30
3920 4066 2.224354 TGAAACCCGGTAGAAGGTTCAC 60.224 50.000 0.00 0.00 45.68 3.18
3926 4077 0.037605 ACGCTGAAACCCGGTAGAAG 60.038 55.000 0.00 0.00 0.00 2.85
3928 4079 0.320073 CAACGCTGAAACCCGGTAGA 60.320 55.000 0.00 0.00 0.00 2.59
3932 4083 3.254014 CTGCAACGCTGAAACCCGG 62.254 63.158 0.00 0.00 0.00 5.73
3943 4094 1.789078 AAGCTGCTTCCACTGCAACG 61.789 55.000 9.53 0.00 40.13 4.10
4014 4165 1.004277 GGAGCGATCTTATGCGACCG 61.004 60.000 0.00 0.00 35.87 4.79
4084 4235 7.327214 TCAATTTTGGCAAAAGACAGTTAACT 58.673 30.769 27.21 1.12 33.22 2.24
4145 4296 6.156748 ACCAAAGTTCTATTCCAAAACCAC 57.843 37.500 0.00 0.00 0.00 4.16
4225 4376 9.554724 CTAATGCGTTCTGCTTTTAATAAAGAA 57.445 29.630 0.00 0.00 46.63 2.52
4281 4432 4.015084 AGGAAATGAGAAGCTTGGTCATG 58.985 43.478 17.65 0.00 31.21 3.07
4307 4458 1.252904 ATGCACGGCAAAGCTCCAAT 61.253 50.000 2.68 0.00 43.62 3.16
4308 4459 1.462731 AATGCACGGCAAAGCTCCAA 61.463 50.000 2.68 0.00 43.62 3.53
4327 4478 6.500336 AGGAGTTATAGGACAAGGTTAGTGA 58.500 40.000 0.00 0.00 0.00 3.41
4344 4507 6.518516 TTTGGGAGGAAGTTTAAGGAGTTA 57.481 37.500 0.00 0.00 0.00 2.24
4353 4516 8.727100 AGAAAATAAGATTTGGGAGGAAGTTT 57.273 30.769 0.00 0.00 0.00 2.66
4473 4636 8.206325 TGTGCAATTGTTTGAAATATTTGTGT 57.794 26.923 5.17 0.00 34.60 3.72
4500 4663 7.386299 AGCGGTGCATTTCAATTGTTTAAATTA 59.614 29.630 5.13 0.00 0.00 1.40
4587 4756 4.000988 GGTGGCTTTTCGATGAACTAAGA 58.999 43.478 0.00 0.00 0.00 2.10
4681 4853 5.633830 TTGAAATCTCTTTGGCAGTCATC 57.366 39.130 0.00 0.00 0.00 2.92
4682 4854 5.479375 ACATTGAAATCTCTTTGGCAGTCAT 59.521 36.000 0.00 0.00 0.00 3.06
4683 4855 4.828939 ACATTGAAATCTCTTTGGCAGTCA 59.171 37.500 0.00 0.00 0.00 3.41
4684 4856 5.382618 ACATTGAAATCTCTTTGGCAGTC 57.617 39.130 0.00 0.00 0.00 3.51
4685 4857 5.105997 GCTACATTGAAATCTCTTTGGCAGT 60.106 40.000 0.00 0.00 0.00 4.40
4686 4858 5.338365 GCTACATTGAAATCTCTTTGGCAG 58.662 41.667 0.00 0.00 0.00 4.85
4687 4859 4.158394 GGCTACATTGAAATCTCTTTGGCA 59.842 41.667 0.00 0.00 0.00 4.92
4688 4860 4.400567 AGGCTACATTGAAATCTCTTTGGC 59.599 41.667 0.00 0.00 0.00 4.52
4689 4861 7.814264 ATAGGCTACATTGAAATCTCTTTGG 57.186 36.000 0.00 0.00 0.00 3.28
4691 4863 9.343539 GGTAATAGGCTACATTGAAATCTCTTT 57.656 33.333 0.00 0.00 0.00 2.52
4692 4864 8.718656 AGGTAATAGGCTACATTGAAATCTCTT 58.281 33.333 0.00 0.00 0.00 2.85
4693 4865 8.268878 AGGTAATAGGCTACATTGAAATCTCT 57.731 34.615 0.00 0.00 0.00 3.10
4694 4866 8.778358 CAAGGTAATAGGCTACATTGAAATCTC 58.222 37.037 7.35 0.00 43.08 2.75
4695 4867 8.275040 ACAAGGTAATAGGCTACATTGAAATCT 58.725 33.333 17.29 0.00 43.08 2.40
4696 4868 8.345565 CACAAGGTAATAGGCTACATTGAAATC 58.654 37.037 17.29 0.00 43.08 2.17
4697 4869 7.834181 ACACAAGGTAATAGGCTACATTGAAAT 59.166 33.333 17.29 2.85 43.08 2.17
4698 4870 7.172342 ACACAAGGTAATAGGCTACATTGAAA 58.828 34.615 17.29 0.00 43.08 2.69
4699 4871 6.717289 ACACAAGGTAATAGGCTACATTGAA 58.283 36.000 17.29 0.00 43.08 2.69
4700 4872 6.308015 ACACAAGGTAATAGGCTACATTGA 57.692 37.500 17.29 0.00 43.08 2.57
4701 4873 7.307989 GCATACACAAGGTAATAGGCTACATTG 60.308 40.741 10.73 10.73 44.90 2.82
4702 4874 6.710744 GCATACACAAGGTAATAGGCTACATT 59.289 38.462 0.00 0.00 35.14 2.71
4703 4875 6.043243 AGCATACACAAGGTAATAGGCTACAT 59.957 38.462 0.00 0.00 35.14 2.29
4704 4876 5.365605 AGCATACACAAGGTAATAGGCTACA 59.634 40.000 0.00 0.00 35.14 2.74
4705 4877 5.855045 AGCATACACAAGGTAATAGGCTAC 58.145 41.667 0.00 0.00 35.14 3.58
4706 4878 6.551975 TGTAGCATACACAAGGTAATAGGCTA 59.448 38.462 0.00 0.00 46.14 3.93
4707 4879 5.365605 TGTAGCATACACAAGGTAATAGGCT 59.634 40.000 0.00 0.00 46.14 4.58
4708 4880 5.607477 TGTAGCATACACAAGGTAATAGGC 58.393 41.667 0.00 0.00 46.14 3.93
4734 4906 9.550406 CCTCCAACGTGTATTCCTTATATTTAA 57.450 33.333 0.00 0.00 0.00 1.52
4735 4907 8.707449 ACCTCCAACGTGTATTCCTTATATTTA 58.293 33.333 0.00 0.00 0.00 1.40
4736 4908 7.571025 ACCTCCAACGTGTATTCCTTATATTT 58.429 34.615 0.00 0.00 0.00 1.40
4737 4909 7.133133 ACCTCCAACGTGTATTCCTTATATT 57.867 36.000 0.00 0.00 0.00 1.28
4738 4910 6.742559 ACCTCCAACGTGTATTCCTTATAT 57.257 37.500 0.00 0.00 0.00 0.86
4739 4911 7.658525 TTACCTCCAACGTGTATTCCTTATA 57.341 36.000 0.00 0.00 0.00 0.98
4740 4912 6.549433 TTACCTCCAACGTGTATTCCTTAT 57.451 37.500 0.00 0.00 0.00 1.73
4741 4913 5.999205 TTACCTCCAACGTGTATTCCTTA 57.001 39.130 0.00 0.00 0.00 2.69
4742 4914 4.895668 TTACCTCCAACGTGTATTCCTT 57.104 40.909 0.00 0.00 0.00 3.36
4743 4915 4.441079 CGATTACCTCCAACGTGTATTCCT 60.441 45.833 0.00 0.00 0.00 3.36
4744 4916 3.800506 CGATTACCTCCAACGTGTATTCC 59.199 47.826 0.00 0.00 0.00 3.01
4745 4917 4.427312 ACGATTACCTCCAACGTGTATTC 58.573 43.478 0.00 0.00 35.91 1.75
4746 4918 4.460948 ACGATTACCTCCAACGTGTATT 57.539 40.909 0.00 0.00 35.91 1.89
4747 4919 4.460948 AACGATTACCTCCAACGTGTAT 57.539 40.909 0.00 0.00 37.28 2.29
4748 4920 3.940209 AACGATTACCTCCAACGTGTA 57.060 42.857 0.00 0.00 37.28 2.90
4749 4921 2.803956 CAAACGATTACCTCCAACGTGT 59.196 45.455 0.00 0.00 37.28 4.49
4750 4922 2.803956 ACAAACGATTACCTCCAACGTG 59.196 45.455 0.00 0.00 37.28 4.49
4751 4923 3.062042 GACAAACGATTACCTCCAACGT 58.938 45.455 0.00 0.00 38.81 3.99
4752 4924 3.323243 AGACAAACGATTACCTCCAACG 58.677 45.455 0.00 0.00 0.00 4.10
4753 4925 5.684550 AAAGACAAACGATTACCTCCAAC 57.315 39.130 0.00 0.00 0.00 3.77
4754 4926 5.823570 TCAAAAGACAAACGATTACCTCCAA 59.176 36.000 0.00 0.00 0.00 3.53
4755 4927 5.237779 GTCAAAAGACAAACGATTACCTCCA 59.762 40.000 0.00 0.00 0.00 3.86
4756 4928 5.614013 CGTCAAAAGACAAACGATTACCTCC 60.614 44.000 0.00 0.00 37.31 4.30
4757 4929 5.176223 TCGTCAAAAGACAAACGATTACCTC 59.824 40.000 0.00 0.00 39.04 3.85
4758 4930 5.051816 TCGTCAAAAGACAAACGATTACCT 58.948 37.500 0.00 0.00 39.04 3.08
4759 4931 5.333046 TCGTCAAAAGACAAACGATTACC 57.667 39.130 0.00 0.00 39.04 2.85
4760 4932 6.130153 CGTTTCGTCAAAAGACAAACGATTAC 60.130 38.462 24.45 11.59 43.46 1.89
4761 4933 5.897518 CGTTTCGTCAAAAGACAAACGATTA 59.102 36.000 24.45 4.12 43.46 1.75
4762 4934 4.726704 CGTTTCGTCAAAAGACAAACGATT 59.273 37.500 24.45 0.00 43.46 3.34
4763 4935 4.201744 ACGTTTCGTCAAAAGACAAACGAT 60.202 37.500 29.50 19.98 43.46 3.73
4764 4936 3.123284 ACGTTTCGTCAAAAGACAAACGA 59.877 39.130 29.50 14.28 43.46 3.85
4765 4937 3.409949 ACGTTTCGTCAAAAGACAAACG 58.590 40.909 25.60 25.60 44.61 3.60


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

AutoCloner maintained by Alex Coulton.