Multiple sequence alignment - TraesCS5A01G485000

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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 TraesCS5A01G485000 chr5A 100.000 3819 0 0 1 3819 656223658 656219840 0.000000e+00 7053.0
1 TraesCS5A01G485000 chr5A 90.404 1709 146 14 1061 2756 656494222 656495925 0.000000e+00 2231.0
2 TraesCS5A01G485000 chr5A 90.302 1722 138 10 1061 2756 656671078 656672796 0.000000e+00 2228.0
3 TraesCS5A01G485000 chr5B 89.948 3243 171 77 1 3185 665027477 665024332 0.000000e+00 4039.0
4 TraesCS5A01G485000 chr5B 90.200 1704 150 10 1061 2756 665173211 665171517 0.000000e+00 2206.0
5 TraesCS5A01G485000 chr5B 89.685 1716 151 13 1061 2756 665539740 665541449 0.000000e+00 2165.0
6 TraesCS5A01G485000 chr5B 87.452 518 57 5 3309 3819 495531554 495532070 1.180000e-164 590.0
7 TraesCS5A01G485000 chr5D 93.458 2308 86 29 779 3040 528296708 528294420 0.000000e+00 3365.0
8 TraesCS5A01G485000 chr5D 90.245 1712 141 18 1061 2756 528587207 528588908 0.000000e+00 2213.0
9 TraesCS5A01G485000 chr5D 90.093 1716 146 13 1061 2756 528415237 528416948 0.000000e+00 2206.0
10 TraesCS5A01G485000 chr5D 93.684 95 5 1 3122 3216 528294423 528294330 1.430000e-29 141.0
11 TraesCS5A01G485000 chr5D 86.667 135 7 5 579 708 528296835 528296707 5.140000e-29 139.0
12 TraesCS5A01G485000 chr7D 92.067 479 31 3 3346 3819 497964532 497964056 0.000000e+00 667.0
13 TraesCS5A01G485000 chr7D 89.729 516 45 5 3307 3816 22219718 22220231 0.000000e+00 652.0
14 TraesCS5A01G485000 chr7D 87.283 519 59 4 3307 3819 602828727 602828210 1.530000e-163 586.0
15 TraesCS5A01G485000 chr4A 89.443 521 49 3 3304 3819 636388289 636387770 0.000000e+00 652.0
16 TraesCS5A01G485000 chr6A 93.034 445 25 3 3307 3746 529642013 529641570 0.000000e+00 645.0
17 TraesCS5A01G485000 chr6A 88.031 518 51 6 3306 3816 122798645 122799158 1.520000e-168 603.0
18 TraesCS5A01G485000 chr3A 87.689 528 59 3 3298 3819 552474414 552473887 9.070000e-171 610.0
19 TraesCS5A01G485000 chr7B 87.311 528 61 3 3298 3819 399245821 399246348 1.960000e-167 599.0
20 TraesCS5A01G485000 chr7B 83.945 436 67 2 1612 2044 706991894 706991459 7.630000e-112 414.0
21 TraesCS5A01G485000 chr2B 91.878 197 15 1 2038 2234 118043648 118043453 1.350000e-69 274.0
22 TraesCS5A01G485000 chr3B 78.417 139 26 4 2407 2543 537434393 537434257 1.890000e-13 87.9


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 TraesCS5A01G485000 chr5A 656219840 656223658 3818 True 7053 7053 100.000000 1 3819 1 chr5A.!!$R1 3818
1 TraesCS5A01G485000 chr5A 656494222 656495925 1703 False 2231 2231 90.404000 1061 2756 1 chr5A.!!$F1 1695
2 TraesCS5A01G485000 chr5A 656671078 656672796 1718 False 2228 2228 90.302000 1061 2756 1 chr5A.!!$F2 1695
3 TraesCS5A01G485000 chr5B 665024332 665027477 3145 True 4039 4039 89.948000 1 3185 1 chr5B.!!$R1 3184
4 TraesCS5A01G485000 chr5B 665171517 665173211 1694 True 2206 2206 90.200000 1061 2756 1 chr5B.!!$R2 1695
5 TraesCS5A01G485000 chr5B 665539740 665541449 1709 False 2165 2165 89.685000 1061 2756 1 chr5B.!!$F2 1695
6 TraesCS5A01G485000 chr5B 495531554 495532070 516 False 590 590 87.452000 3309 3819 1 chr5B.!!$F1 510
7 TraesCS5A01G485000 chr5D 528587207 528588908 1701 False 2213 2213 90.245000 1061 2756 1 chr5D.!!$F2 1695
8 TraesCS5A01G485000 chr5D 528415237 528416948 1711 False 2206 2206 90.093000 1061 2756 1 chr5D.!!$F1 1695
9 TraesCS5A01G485000 chr5D 528294330 528296835 2505 True 1215 3365 91.269667 579 3216 3 chr5D.!!$R1 2637
10 TraesCS5A01G485000 chr7D 22219718 22220231 513 False 652 652 89.729000 3307 3816 1 chr7D.!!$F1 509
11 TraesCS5A01G485000 chr7D 602828210 602828727 517 True 586 586 87.283000 3307 3819 1 chr7D.!!$R2 512
12 TraesCS5A01G485000 chr4A 636387770 636388289 519 True 652 652 89.443000 3304 3819 1 chr4A.!!$R1 515
13 TraesCS5A01G485000 chr6A 122798645 122799158 513 False 603 603 88.031000 3306 3816 1 chr6A.!!$F1 510
14 TraesCS5A01G485000 chr3A 552473887 552474414 527 True 610 610 87.689000 3298 3819 1 chr3A.!!$R1 521
15 TraesCS5A01G485000 chr7B 399245821 399246348 527 False 599 599 87.311000 3298 3819 1 chr7B.!!$F1 521

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
686 715 0.031585 CGTCCGTGGTCTCACAAAGA 59.968 55.0 0.0 0.0 43.79 2.52 F
756 785 0.096976 GCACACAGACACACACACAC 59.903 55.0 0.0 0.0 0.00 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1519 1596 3.471244 GAGCGTCTCGTGGATCCGG 62.471 68.421 7.39 0.0 0.0 5.14 R
2829 2906 3.012047 TCTTCCCTGCCTAGTACCACTAA 59.988 47.826 0.00 0.0 29.0 2.24 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
53 55 6.172630 TGGAATACATATACGTACGCTCCTA 58.827 40.000 16.72 0.00 0.00 2.94
111 117 0.314935 CTGGCAAAGCATGTCCGTTT 59.685 50.000 0.00 0.00 30.45 3.60
124 130 2.158593 TGTCCGTTTCTTCCCCATTCAA 60.159 45.455 0.00 0.00 0.00 2.69
125 131 2.228103 GTCCGTTTCTTCCCCATTCAAC 59.772 50.000 0.00 0.00 0.00 3.18
131 137 1.165270 CTTCCCCATTCAACGGACAC 58.835 55.000 0.00 0.00 0.00 3.67
158 164 2.359230 GGTGCAGGGTCAGCTGTC 60.359 66.667 14.67 8.19 0.00 3.51
159 165 2.746359 GTGCAGGGTCAGCTGTCT 59.254 61.111 14.67 7.35 0.00 3.41
160 166 1.375268 GTGCAGGGTCAGCTGTCTC 60.375 63.158 14.67 8.39 0.00 3.36
161 167 2.125753 GCAGGGTCAGCTGTCTCG 60.126 66.667 14.67 6.00 0.00 4.04
162 168 2.575993 CAGGGTCAGCTGTCTCGG 59.424 66.667 14.67 4.93 0.00 4.63
163 169 1.979155 CAGGGTCAGCTGTCTCGGA 60.979 63.158 14.67 0.00 0.00 4.55
164 170 1.979693 AGGGTCAGCTGTCTCGGAC 60.980 63.158 14.67 2.76 0.00 4.79
165 171 2.179517 GGTCAGCTGTCTCGGACG 59.820 66.667 14.67 0.00 34.95 4.79
166 172 2.179517 GTCAGCTGTCTCGGACGG 59.820 66.667 14.67 8.11 41.44 4.79
167 173 3.062466 TCAGCTGTCTCGGACGGG 61.062 66.667 14.67 0.00 39.16 5.28
168 174 4.135153 CAGCTGTCTCGGACGGGG 62.135 72.222 5.25 2.63 39.16 5.73
169 175 4.361971 AGCTGTCTCGGACGGGGA 62.362 66.667 12.80 0.00 39.16 4.81
170 176 3.148279 GCTGTCTCGGACGGGGAT 61.148 66.667 12.80 0.00 39.16 3.85
171 177 3.121019 CTGTCTCGGACGGGGATC 58.879 66.667 5.28 0.00 35.49 3.36
172 178 2.441532 TGTCTCGGACGGGGATCC 60.442 66.667 1.92 1.92 34.95 3.36
183 189 3.225061 GGGATCCCTCGGACGGAC 61.225 72.222 24.69 0.00 32.98 4.79
247 266 1.148273 ACCTTCTGGAAAGCGCACA 59.852 52.632 11.47 1.59 37.04 4.57
262 281 6.843069 AAGCGCACAGTCAAAATTAATTTT 57.157 29.167 18.40 18.40 40.37 1.82
264 283 5.405269 AGCGCACAGTCAAAATTAATTTTCC 59.595 36.000 20.71 14.77 37.86 3.13
296 315 5.192927 TGCCGTCAGATTTATCCAGATTTT 58.807 37.500 0.00 0.00 0.00 1.82
322 341 4.965119 ATTTAGCGTGGGATTTCAGAAC 57.035 40.909 0.00 0.00 0.00 3.01
397 422 8.994429 ACTGCTATATCAATGTATTGCTACTC 57.006 34.615 0.00 0.00 37.68 2.59
398 423 8.037758 ACTGCTATATCAATGTATTGCTACTCC 58.962 37.037 0.00 0.00 37.68 3.85
399 424 8.138928 TGCTATATCAATGTATTGCTACTCCT 57.861 34.615 0.00 0.00 37.68 3.69
414 439 3.237268 ACTCCTAGGTGCATAGAGAGG 57.763 52.381 9.08 7.06 30.52 3.69
428 453 1.064166 AGAGAGGTTTGGCCATGATGG 60.064 52.381 6.09 7.21 41.55 3.51
448 473 1.605710 GATGAGATGGGTTTGCCATCG 59.394 52.381 0.00 0.00 45.95 3.84
464 489 0.456653 ATCGTGCATTTTCGCCTTGC 60.457 50.000 0.00 0.00 36.91 4.01
500 525 2.335316 ACAGGTCAAAGTAACGCCAA 57.665 45.000 0.00 0.00 0.00 4.52
549 574 1.940613 GGCCGGAGCATTTACTTACTG 59.059 52.381 5.05 0.00 42.56 2.74
561 586 6.473455 GCATTTACTTACTGCCTAATTTGCTG 59.527 38.462 5.40 5.40 0.00 4.41
572 597 4.438744 GCCTAATTTGCTGCGATTACACTT 60.439 41.667 0.00 0.00 0.00 3.16
581 606 3.444916 TGCGATTACACTTACTAGCTGC 58.555 45.455 0.00 0.00 0.00 5.25
596 621 2.111669 TGCCAGTGCAGGTGTGAG 59.888 61.111 0.00 0.00 44.23 3.51
611 636 4.284490 AGGTGTGAGACTTCTGCAAATAGA 59.716 41.667 0.00 0.00 0.00 1.98
620 645 4.881273 ACTTCTGCAAATAGACACACACAA 59.119 37.500 0.00 0.00 0.00 3.33
674 703 2.736682 GATTCGTTGGCCGTCCGTG 61.737 63.158 0.00 0.00 37.94 4.94
684 713 1.068417 CCGTCCGTGGTCTCACAAA 59.932 57.895 0.00 0.00 43.79 2.83
685 714 0.944311 CCGTCCGTGGTCTCACAAAG 60.944 60.000 0.00 0.00 43.79 2.77
686 715 0.031585 CGTCCGTGGTCTCACAAAGA 59.968 55.000 0.00 0.00 43.79 2.52
687 716 1.537348 CGTCCGTGGTCTCACAAAGAA 60.537 52.381 0.00 0.00 43.79 2.52
688 717 2.135933 GTCCGTGGTCTCACAAAGAAG 58.864 52.381 0.00 0.00 43.79 2.85
718 747 3.443925 GCAAGCCCTCCTTTCGCC 61.444 66.667 0.00 0.00 0.00 5.54
750 779 2.324477 GTGCGCACACAGACACAC 59.676 61.111 34.52 3.30 46.61 3.82
754 783 1.348250 CGCACACAGACACACACAC 59.652 57.895 0.00 0.00 0.00 3.82
755 784 1.357991 CGCACACAGACACACACACA 61.358 55.000 0.00 0.00 0.00 3.72
756 785 0.096976 GCACACAGACACACACACAC 59.903 55.000 0.00 0.00 0.00 3.82
757 786 1.437625 CACACAGACACACACACACA 58.562 50.000 0.00 0.00 0.00 3.72
758 787 1.394572 CACACAGACACACACACACAG 59.605 52.381 0.00 0.00 0.00 3.66
759 788 1.009078 CACAGACACACACACACAGG 58.991 55.000 0.00 0.00 0.00 4.00
760 789 0.744414 ACAGACACACACACACAGGC 60.744 55.000 0.00 0.00 0.00 4.85
761 790 1.521457 AGACACACACACACAGGCG 60.521 57.895 0.00 0.00 0.00 5.52
762 791 1.520564 GACACACACACACAGGCGA 60.521 57.895 0.00 0.00 0.00 5.54
763 792 0.880278 GACACACACACACAGGCGAT 60.880 55.000 0.00 0.00 0.00 4.58
764 793 1.159713 ACACACACACACAGGCGATG 61.160 55.000 0.00 0.00 0.00 3.84
765 794 1.597854 ACACACACACAGGCGATGG 60.598 57.895 0.00 0.00 0.00 3.51
766 795 2.669569 ACACACACAGGCGATGGC 60.670 61.111 0.00 0.00 38.90 4.40
767 796 3.792047 CACACACAGGCGATGGCG 61.792 66.667 0.00 0.00 41.24 5.69
768 797 4.002506 ACACACAGGCGATGGCGA 62.003 61.111 0.00 0.00 41.24 5.54
769 798 2.512286 CACACAGGCGATGGCGAT 60.512 61.111 0.00 0.00 41.24 4.58
770 799 2.512286 ACACAGGCGATGGCGATG 60.512 61.111 0.00 0.00 41.24 3.84
771 800 3.945434 CACAGGCGATGGCGATGC 61.945 66.667 3.89 0.00 41.24 3.91
772 801 4.166888 ACAGGCGATGGCGATGCT 62.167 61.111 3.89 0.00 41.24 3.79
773 802 3.344215 CAGGCGATGGCGATGCTC 61.344 66.667 0.00 0.00 41.24 4.26
774 803 4.615815 AGGCGATGGCGATGCTCC 62.616 66.667 0.00 0.00 41.24 4.70
776 805 4.615815 GCGATGGCGATGCTCCCT 62.616 66.667 0.00 0.00 40.82 4.20
777 806 2.356793 CGATGGCGATGCTCCCTC 60.357 66.667 0.00 0.00 40.82 4.30
789 818 2.682494 TCCCTCCCTTTCGTCCCG 60.682 66.667 0.00 0.00 0.00 5.14
858 887 0.321653 CTTCCTGTGCTACCCCACAC 60.322 60.000 0.00 0.00 40.55 3.82
859 888 2.047274 CCTGTGCTACCCCACACG 60.047 66.667 0.00 0.00 40.55 4.49
1153 1187 3.206150 GCCATGTTCATCATCCGTAAGT 58.794 45.455 0.00 0.00 34.09 2.24
1161 1203 4.023980 TCATCATCCGTAAGTTCCTCTGT 58.976 43.478 0.00 0.00 0.00 3.41
1210 1260 3.806380 TGTCCGTTTGCTACTTTGGTTA 58.194 40.909 0.00 0.00 0.00 2.85
1221 1275 4.379499 GCTACTTTGGTTAATGGCAGTGTC 60.379 45.833 0.00 0.00 0.00 3.67
1224 1278 5.570320 ACTTTGGTTAATGGCAGTGTCTAT 58.430 37.500 0.00 0.00 0.00 1.98
1225 1279 6.010219 ACTTTGGTTAATGGCAGTGTCTATT 58.990 36.000 0.00 0.00 0.00 1.73
1342 1419 4.415332 GTCGCCGCCGAGAACTCA 62.415 66.667 0.00 0.00 45.38 3.41
1400 1477 3.155167 GGGGATTCCTCGCCGACT 61.155 66.667 2.01 0.00 43.74 4.18
1453 1530 0.964358 CCACCGTCGTCTACCTCCTT 60.964 60.000 0.00 0.00 0.00 3.36
1631 1708 3.598715 AGTTCGACGACGGCCACA 61.599 61.111 2.24 0.00 40.21 4.17
2272 2349 2.743195 GCTCTACGACAAGGTGCTG 58.257 57.895 0.00 0.00 0.00 4.41
2326 2403 4.070552 GGGCTCAGCGTCCTTCGT 62.071 66.667 0.00 0.00 42.13 3.85
2512 2589 1.218316 CTTCTACGACCAGGTGCCC 59.782 63.158 0.00 0.00 0.00 5.36
2517 2594 4.742201 CGACCAGGTGCCCGACAG 62.742 72.222 0.00 0.00 0.00 3.51
2834 2911 4.083324 CCGCATAGGCATAACCAATTAGTG 60.083 45.833 0.00 0.00 43.14 2.74
2854 2931 3.200165 GTGGTACTAGGCAGGGAAGAATT 59.800 47.826 0.00 0.00 0.00 2.17
2868 2969 2.969443 AGAATTTCGTTCGTTGGCTG 57.031 45.000 0.00 0.00 41.84 4.85
2886 2987 6.090483 TGGCTGAAATCTAGTACTAGCATC 57.910 41.667 22.87 19.00 33.32 3.91
2910 3011 8.292444 TCAAGGGATTATTAGGATTTGTGTTG 57.708 34.615 0.00 0.00 0.00 3.33
2935 3036 4.143200 GCTTTGTGATCGATCGTTGTGTTA 60.143 41.667 20.03 0.00 0.00 2.41
2967 3068 1.178276 AGTCGATGTCTGGTCTGGTC 58.822 55.000 0.00 0.00 0.00 4.02
2969 3070 1.135257 GTCGATGTCTGGTCTGGTCTG 60.135 57.143 0.00 0.00 0.00 3.51
2971 3072 1.270907 GATGTCTGGTCTGGTCTGGT 58.729 55.000 0.00 0.00 0.00 4.00
2972 3073 0.979665 ATGTCTGGTCTGGTCTGGTG 59.020 55.000 0.00 0.00 0.00 4.17
2973 3074 0.398522 TGTCTGGTCTGGTCTGGTGT 60.399 55.000 0.00 0.00 0.00 4.16
2974 3075 1.133294 TGTCTGGTCTGGTCTGGTGTA 60.133 52.381 0.00 0.00 0.00 2.90
2975 3076 1.546476 GTCTGGTCTGGTCTGGTGTAG 59.454 57.143 0.00 0.00 0.00 2.74
2976 3077 0.247736 CTGGTCTGGTCTGGTGTAGC 59.752 60.000 0.00 0.00 0.00 3.58
3012 3113 1.474077 CAACAATGCAGGGGCTTCTAC 59.526 52.381 0.00 0.00 41.91 2.59
3017 3118 0.902531 TGCAGGGGCTTCTACTGTAC 59.097 55.000 0.00 0.00 41.91 2.90
3068 3169 4.859400 TTTTTGCGGGACTGTCGA 57.141 50.000 1.07 0.00 0.00 4.20
3069 3170 3.082165 TTTTTGCGGGACTGTCGAA 57.918 47.368 1.07 0.00 0.00 3.71
3070 3171 0.658897 TTTTTGCGGGACTGTCGAAC 59.341 50.000 1.07 0.00 0.00 3.95
3077 3178 1.135112 CGGGACTGTCGAACATCATCA 60.135 52.381 1.07 0.00 0.00 3.07
3082 3193 3.790091 ACTGTCGAACATCATCATCCAG 58.210 45.455 0.00 0.00 0.00 3.86
3095 3206 4.040829 TCATCATCCAGGCGTAGAATGATT 59.959 41.667 7.30 0.00 0.00 2.57
3096 3207 3.995199 TCATCCAGGCGTAGAATGATTC 58.005 45.455 0.00 0.00 0.00 2.52
3097 3208 3.643320 TCATCCAGGCGTAGAATGATTCT 59.357 43.478 12.86 12.86 43.72 2.40
3098 3209 3.459232 TCCAGGCGTAGAATGATTCTG 57.541 47.619 17.50 3.20 40.94 3.02
3099 3210 2.766263 TCCAGGCGTAGAATGATTCTGT 59.234 45.455 17.50 0.00 40.94 3.41
3100 3211 3.197766 TCCAGGCGTAGAATGATTCTGTT 59.802 43.478 17.50 0.00 40.94 3.16
3101 3212 3.941483 CCAGGCGTAGAATGATTCTGTTT 59.059 43.478 17.50 0.00 40.94 2.83
3102 3213 4.201851 CCAGGCGTAGAATGATTCTGTTTG 60.202 45.833 17.50 8.46 40.94 2.93
3103 3214 3.375299 AGGCGTAGAATGATTCTGTTTGC 59.625 43.478 17.50 14.04 40.94 3.68
3104 3215 3.375299 GGCGTAGAATGATTCTGTTTGCT 59.625 43.478 17.50 0.00 40.94 3.91
3105 3216 4.494855 GGCGTAGAATGATTCTGTTTGCTC 60.495 45.833 17.50 6.69 40.94 4.26
3106 3217 4.780324 GCGTAGAATGATTCTGTTTGCTCG 60.780 45.833 17.50 10.71 40.94 5.03
3107 3218 4.327357 CGTAGAATGATTCTGTTTGCTCGT 59.673 41.667 17.50 0.00 40.94 4.18
3108 3219 5.515270 CGTAGAATGATTCTGTTTGCTCGTA 59.485 40.000 17.50 0.00 40.94 3.43
3109 3220 6.034577 CGTAGAATGATTCTGTTTGCTCGTAA 59.965 38.462 17.50 0.00 40.94 3.18
3110 3221 6.992063 AGAATGATTCTGTTTGCTCGTAAT 57.008 33.333 6.93 0.00 38.91 1.89
3111 3222 6.779117 AGAATGATTCTGTTTGCTCGTAATG 58.221 36.000 6.93 0.00 38.91 1.90
3112 3223 4.340894 TGATTCTGTTTGCTCGTAATGC 57.659 40.909 0.00 0.00 0.00 3.56
3113 3224 3.750652 TGATTCTGTTTGCTCGTAATGCA 59.249 39.130 0.00 0.00 38.80 3.96
3114 3225 3.536158 TTCTGTTTGCTCGTAATGCAC 57.464 42.857 0.00 0.00 40.40 4.57
3115 3226 1.804151 TCTGTTTGCTCGTAATGCACC 59.196 47.619 0.00 0.00 40.40 5.01
3116 3227 0.515127 TGTTTGCTCGTAATGCACCG 59.485 50.000 0.00 0.00 40.40 4.94
3117 3228 0.793104 GTTTGCTCGTAATGCACCGC 60.793 55.000 0.00 0.00 40.40 5.68
3118 3229 1.231296 TTTGCTCGTAATGCACCGCA 61.231 50.000 0.00 0.00 44.86 5.69
3119 3230 1.906994 TTGCTCGTAATGCACCGCAC 61.907 55.000 0.00 0.00 43.04 5.34
3120 3231 2.387445 GCTCGTAATGCACCGCACA 61.387 57.895 0.00 0.00 43.04 4.57
3121 3232 1.906994 GCTCGTAATGCACCGCACAA 61.907 55.000 0.00 0.00 43.04 3.33
3140 3251 5.391523 GCACAATCTCATGGCTTTAAACGTA 60.392 40.000 0.00 0.00 0.00 3.57
3185 3296 3.181451 TGAATGTGGATGGAGCCATACTC 60.181 47.826 12.73 9.66 45.45 2.59
3196 3307 3.672808 GAGCCATACTCCATGATTCCAG 58.327 50.000 0.00 0.00 39.75 3.86
3202 3313 2.194859 ACTCCATGATTCCAGCACTCT 58.805 47.619 0.00 0.00 0.00 3.24
3235 3346 5.855740 TTTCGGGAAAACATAGTTTTGGT 57.144 34.783 12.08 0.00 0.00 3.67
3236 3347 5.855740 TTCGGGAAAACATAGTTTTGGTT 57.144 34.783 12.08 0.00 0.00 3.67
3237 3348 5.855740 TCGGGAAAACATAGTTTTGGTTT 57.144 34.783 12.08 0.00 39.17 3.27
3238 3349 6.223351 TCGGGAAAACATAGTTTTGGTTTT 57.777 33.333 12.08 0.00 44.71 2.43
3239 3350 6.641474 TCGGGAAAACATAGTTTTGGTTTTT 58.359 32.000 12.08 0.00 42.79 1.94
3262 3373 8.773762 TTTTTAGCAACAACAACAAAGTTTTG 57.226 26.923 3.17 3.17 43.62 2.44
3263 3374 7.715265 TTTAGCAACAACAACAAAGTTTTGA 57.285 28.000 11.29 0.00 40.55 2.69
3264 3375 5.844301 AGCAACAACAACAAAGTTTTGAG 57.156 34.783 11.29 6.06 40.55 3.02
3265 3376 5.296748 AGCAACAACAACAAAGTTTTGAGT 58.703 33.333 11.29 6.62 40.55 3.41
3266 3377 5.757808 AGCAACAACAACAAAGTTTTGAGTT 59.242 32.000 11.29 11.39 40.55 3.01
3267 3378 6.259829 AGCAACAACAACAAAGTTTTGAGTTT 59.740 30.769 11.29 0.00 40.55 2.66
3268 3379 6.909895 GCAACAACAACAAAGTTTTGAGTTTT 59.090 30.769 11.29 6.20 40.55 2.43
3269 3380 7.430793 GCAACAACAACAAAGTTTTGAGTTTTT 59.569 29.630 11.29 10.68 40.55 1.94
3291 3402 7.674471 TTTTTAGGGAACAACAAAGTTTTGG 57.326 32.000 9.22 0.00 42.34 3.28
3292 3403 6.361768 TTTAGGGAACAACAAAGTTTTGGT 57.638 33.333 9.22 0.00 42.34 3.67
3293 3404 7.477945 TTTAGGGAACAACAAAGTTTTGGTA 57.522 32.000 9.22 0.00 42.34 3.25
3294 3405 5.592104 AGGGAACAACAAAGTTTTGGTAG 57.408 39.130 9.22 1.29 42.34 3.18
3295 3406 5.020795 AGGGAACAACAAAGTTTTGGTAGT 58.979 37.500 9.22 1.82 42.34 2.73
3296 3407 5.105513 AGGGAACAACAAAGTTTTGGTAGTG 60.106 40.000 9.22 4.57 42.34 2.74
3297 3408 4.565166 GGAACAACAAAGTTTTGGTAGTGC 59.435 41.667 9.22 3.09 42.34 4.40
3298 3409 5.400066 AACAACAAAGTTTTGGTAGTGCT 57.600 34.783 9.22 0.00 42.34 4.40
3299 3410 4.993905 ACAACAAAGTTTTGGTAGTGCTC 58.006 39.130 9.22 0.00 42.34 4.26
3300 3411 4.705023 ACAACAAAGTTTTGGTAGTGCTCT 59.295 37.500 9.22 0.00 42.34 4.09
3301 3412 4.900635 ACAAAGTTTTGGTAGTGCTCTG 57.099 40.909 9.22 0.00 42.34 3.35
3302 3413 4.270008 ACAAAGTTTTGGTAGTGCTCTGT 58.730 39.130 9.22 0.00 42.34 3.41
3332 3443 2.432206 TGAGACAATCTCGCGAAACA 57.568 45.000 11.33 0.00 46.25 2.83
3351 3463 7.676807 GCGAAACATTATTAACCCGTCACAATA 60.677 37.037 0.00 0.00 0.00 1.90
3380 3492 1.861575 GACGAAATGAAGATCTCCCGC 59.138 52.381 0.00 0.00 0.00 6.13
3455 3572 4.020751 TGTGAGCTTCATAGTTTGAGCTCT 60.021 41.667 22.48 0.00 45.68 4.09
3695 3812 3.310860 AAAACGATCGCCGAGGCCT 62.311 57.895 16.60 3.86 41.76 5.19
3714 3832 3.420893 CCTCCAGAAAAGTGCCATGTTA 58.579 45.455 0.00 0.00 0.00 2.41
3767 3885 3.320879 CTCCTCACGGCCACTGCAT 62.321 63.158 2.24 0.00 40.13 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 7.600065 AGCGTACGTATATGTATTCCAGAAAT 58.400 34.615 17.90 0.00 0.00 2.17
29 30 5.005740 AGGAGCGTACGTATATGTATTCCA 58.994 41.667 17.90 0.20 30.72 3.53
40 41 1.945387 CAGGAGTAGGAGCGTACGTA 58.055 55.000 17.90 0.00 0.00 3.57
41 42 1.375098 GCAGGAGTAGGAGCGTACGT 61.375 60.000 17.90 3.43 0.00 3.57
42 43 1.096386 AGCAGGAGTAGGAGCGTACG 61.096 60.000 11.84 11.84 0.00 3.67
43 44 0.382515 CAGCAGGAGTAGGAGCGTAC 59.617 60.000 0.00 0.00 0.00 3.67
44 45 0.034380 ACAGCAGGAGTAGGAGCGTA 60.034 55.000 0.00 0.00 0.00 4.42
45 46 1.304547 ACAGCAGGAGTAGGAGCGT 60.305 57.895 0.00 0.00 0.00 5.07
47 48 0.174617 GTGACAGCAGGAGTAGGAGC 59.825 60.000 0.00 0.00 0.00 4.70
53 55 0.109153 TTGCATGTGACAGCAGGAGT 59.891 50.000 9.07 0.00 42.39 3.85
88 94 1.318158 GGACATGCTTTGCCAGGAGG 61.318 60.000 0.00 0.00 38.23 4.30
91 97 1.526575 AACGGACATGCTTTGCCAGG 61.527 55.000 0.00 0.00 0.00 4.45
111 117 1.060729 TGTCCGTTGAATGGGGAAGA 58.939 50.000 3.18 0.00 0.00 2.87
131 137 4.742201 CCTGCACCAGTCGTCGGG 62.742 72.222 0.00 0.00 35.10 5.14
134 140 2.048127 GACCCTGCACCAGTCGTC 60.048 66.667 0.00 0.00 0.00 4.20
142 148 1.375268 GAGACAGCTGACCCTGCAC 60.375 63.158 23.35 0.00 36.29 4.57
165 171 4.534824 TCCGTCCGAGGGATCCCC 62.535 72.222 28.11 17.38 45.90 4.81
166 172 2.349100 TAGTCCGTCCGAGGGATCCC 62.349 65.000 24.59 24.59 34.33 3.85
167 173 0.890090 CTAGTCCGTCCGAGGGATCC 60.890 65.000 12.85 1.92 34.33 3.36
168 174 1.517210 GCTAGTCCGTCCGAGGGATC 61.517 65.000 12.85 7.22 34.33 3.36
169 175 1.528776 GCTAGTCCGTCCGAGGGAT 60.529 63.158 12.85 5.46 34.33 3.85
170 176 2.124403 GCTAGTCCGTCCGAGGGA 60.124 66.667 5.69 5.69 0.00 4.20
171 177 3.217743 GGCTAGTCCGTCCGAGGG 61.218 72.222 0.26 0.26 0.00 4.30
183 189 1.368969 CGTGTACGCTAGCGGCTAG 60.369 63.158 37.66 28.43 44.69 3.42
212 218 0.674895 GGTGTGATGCACTGGGACTC 60.675 60.000 0.00 0.00 46.86 3.36
236 255 2.422276 ATTTTGACTGTGCGCTTTCC 57.578 45.000 9.73 0.00 0.00 3.13
262 281 3.342377 TCTGACGGCATTAATGTTGGA 57.658 42.857 16.61 4.89 0.00 3.53
264 283 6.857964 GGATAAATCTGACGGCATTAATGTTG 59.142 38.462 16.61 11.51 0.00 3.33
296 315 5.941058 TCTGAAATCCCACGCTAAATAAACA 59.059 36.000 0.00 0.00 0.00 2.83
303 322 3.695830 AGTTCTGAAATCCCACGCTAA 57.304 42.857 0.00 0.00 0.00 3.09
304 323 3.695830 AAGTTCTGAAATCCCACGCTA 57.304 42.857 0.00 0.00 0.00 4.26
322 341 2.247790 CCTGCAGGTTCGTGGAAAG 58.752 57.895 25.53 0.00 0.00 2.62
390 415 3.138468 TCTCTATGCACCTAGGAGTAGCA 59.862 47.826 17.98 18.93 39.79 3.49
393 418 3.722627 ACCTCTCTATGCACCTAGGAGTA 59.277 47.826 17.98 7.80 0.00 2.59
394 419 2.516277 ACCTCTCTATGCACCTAGGAGT 59.484 50.000 17.98 0.36 0.00 3.85
395 420 3.237268 ACCTCTCTATGCACCTAGGAG 57.763 52.381 17.98 9.24 0.00 3.69
396 421 3.689872 AACCTCTCTATGCACCTAGGA 57.310 47.619 17.98 0.00 0.00 2.94
397 422 3.181461 CCAAACCTCTCTATGCACCTAGG 60.181 52.174 7.41 7.41 0.00 3.02
398 423 3.742640 GCCAAACCTCTCTATGCACCTAG 60.743 52.174 0.00 0.00 0.00 3.02
399 424 2.170607 GCCAAACCTCTCTATGCACCTA 59.829 50.000 0.00 0.00 0.00 3.08
414 439 2.658285 TCTCATCCATCATGGCCAAAC 58.342 47.619 10.96 0.00 37.47 2.93
448 473 4.651585 TGCAAGGCGAAAATGCAC 57.348 50.000 0.00 0.00 44.52 4.57
464 489 5.583061 TGACCTGTTATTAATACGGCAGTTG 59.417 40.000 14.57 7.35 0.00 3.16
500 525 8.284693 GGAGTAATTTACACACGTTTTACACAT 58.715 33.333 9.15 0.00 0.00 3.21
536 561 6.473455 CAGCAAATTAGGCAGTAAGTAAATGC 59.527 38.462 5.01 0.00 39.25 3.56
549 574 3.065371 AGTGTAATCGCAGCAAATTAGGC 59.935 43.478 0.00 0.00 0.00 3.93
561 586 2.795470 GGCAGCTAGTAAGTGTAATCGC 59.205 50.000 0.00 0.00 0.00 4.58
581 606 0.107456 AAGTCTCACACCTGCACTGG 59.893 55.000 0.00 0.00 0.00 4.00
589 614 4.390297 GTCTATTTGCAGAAGTCTCACACC 59.610 45.833 0.00 0.00 0.00 4.16
595 620 4.752101 GTGTGTGTCTATTTGCAGAAGTCT 59.248 41.667 0.00 0.00 0.00 3.24
596 621 4.511454 TGTGTGTGTCTATTTGCAGAAGTC 59.489 41.667 0.00 0.00 0.00 3.01
620 645 5.902051 TTGTTTTTCGTTTCGTGGTTTTT 57.098 30.435 0.00 0.00 0.00 1.94
625 650 3.959943 AGGATTGTTTTTCGTTTCGTGG 58.040 40.909 0.00 0.00 0.00 4.94
626 651 3.972502 GGAGGATTGTTTTTCGTTTCGTG 59.027 43.478 0.00 0.00 0.00 4.35
628 653 4.464112 GAGGAGGATTGTTTTTCGTTTCG 58.536 43.478 0.00 0.00 0.00 3.46
629 654 4.277423 TGGAGGAGGATTGTTTTTCGTTTC 59.723 41.667 0.00 0.00 0.00 2.78
630 655 4.211920 TGGAGGAGGATTGTTTTTCGTTT 58.788 39.130 0.00 0.00 0.00 3.60
631 656 3.821033 CTGGAGGAGGATTGTTTTTCGTT 59.179 43.478 0.00 0.00 0.00 3.85
634 659 2.493675 GGCTGGAGGAGGATTGTTTTTC 59.506 50.000 0.00 0.00 0.00 2.29
674 703 5.360591 TCAAGTTCTCTTCTTTGTGAGACC 58.639 41.667 0.00 0.00 38.82 3.85
684 713 4.270245 CTTGCTCCTCAAGTTCTCTTCT 57.730 45.455 0.00 0.00 45.48 2.85
718 747 2.913478 CACGCGTGGATCGAATCG 59.087 61.111 31.15 0.81 42.86 3.34
745 774 1.146041 ATCGCCTGTGTGTGTGTGT 59.854 52.632 0.00 0.00 0.00 3.72
750 779 3.792047 CGCCATCGCCTGTGTGTG 61.792 66.667 0.00 0.00 0.00 3.82
754 783 3.945434 GCATCGCCATCGCCTGTG 61.945 66.667 0.00 0.00 35.26 3.66
755 784 4.166888 AGCATCGCCATCGCCTGT 62.167 61.111 0.00 0.00 35.26 4.00
756 785 3.344215 GAGCATCGCCATCGCCTG 61.344 66.667 0.00 0.00 35.26 4.85
757 786 4.615815 GGAGCATCGCCATCGCCT 62.616 66.667 0.00 0.00 34.37 5.52
766 795 1.227380 CGAAAGGGAGGGAGCATCG 60.227 63.158 0.00 0.00 34.37 3.84
767 796 0.179070 GACGAAAGGGAGGGAGCATC 60.179 60.000 0.00 0.00 0.00 3.91
768 797 1.627297 GGACGAAAGGGAGGGAGCAT 61.627 60.000 0.00 0.00 0.00 3.79
769 798 2.291043 GGACGAAAGGGAGGGAGCA 61.291 63.158 0.00 0.00 0.00 4.26
770 799 2.585153 GGACGAAAGGGAGGGAGC 59.415 66.667 0.00 0.00 0.00 4.70
771 800 3.310652 GGGACGAAAGGGAGGGAG 58.689 66.667 0.00 0.00 0.00 4.30
1153 1187 4.314522 ACAGAGAGATCTGACAGAGGAA 57.685 45.455 11.52 0.00 39.99 3.36
1161 1203 5.538053 ACAGAAACAGAACAGAGAGATCTGA 59.462 40.000 12.00 0.00 46.76 3.27
1173 1219 3.053455 CGGACAGAGACAGAAACAGAAC 58.947 50.000 0.00 0.00 0.00 3.01
1174 1220 2.693591 ACGGACAGAGACAGAAACAGAA 59.306 45.455 0.00 0.00 0.00 3.02
1175 1221 2.307768 ACGGACAGAGACAGAAACAGA 58.692 47.619 0.00 0.00 0.00 3.41
1176 1222 2.802787 ACGGACAGAGACAGAAACAG 57.197 50.000 0.00 0.00 0.00 3.16
1210 1260 4.561326 GCCAAAACAATAGACACTGCCATT 60.561 41.667 0.00 0.00 0.00 3.16
1221 1275 4.393062 ACTCGATCACTGCCAAAACAATAG 59.607 41.667 0.00 0.00 0.00 1.73
1224 1278 2.571212 ACTCGATCACTGCCAAAACAA 58.429 42.857 0.00 0.00 0.00 2.83
1225 1279 2.254546 ACTCGATCACTGCCAAAACA 57.745 45.000 0.00 0.00 0.00 2.83
1342 1419 2.353803 GGTGACGCTCATCCAGTAGTTT 60.354 50.000 0.00 0.00 0.00 2.66
1387 1464 0.674534 GGTATGAGTCGGCGAGGAAT 59.325 55.000 11.20 6.60 0.00 3.01
1400 1477 2.792947 GGAAGCGGCCGAGGTATGA 61.793 63.158 33.48 0.00 0.00 2.15
1519 1596 3.471244 GAGCGTCTCGTGGATCCGG 62.471 68.421 7.39 0.00 0.00 5.14
2829 2906 3.012047 TCTTCCCTGCCTAGTACCACTAA 59.988 47.826 0.00 0.00 29.00 2.24
2834 2911 4.452825 GAAATTCTTCCCTGCCTAGTACC 58.547 47.826 0.00 0.00 0.00 3.34
2854 2931 2.489971 AGATTTCAGCCAACGAACGAA 58.510 42.857 0.14 0.00 0.00 3.85
2868 2969 7.291411 TCCCTTGATGCTAGTACTAGATTTC 57.709 40.000 30.09 21.43 35.21 2.17
2886 2987 7.975616 CACAACACAAATCCTAATAATCCCTTG 59.024 37.037 0.00 0.00 0.00 3.61
2910 3011 2.157668 ACAACGATCGATCACAAAGCAC 59.842 45.455 24.34 0.00 0.00 4.40
2935 3036 5.516696 CAGACATCGACTTGAATGAATACGT 59.483 40.000 0.00 0.00 0.00 3.57
2967 3068 1.070758 ACTCCACAACAGCTACACCAG 59.929 52.381 0.00 0.00 0.00 4.00
2969 3070 1.344763 AGACTCCACAACAGCTACACC 59.655 52.381 0.00 0.00 0.00 4.16
2971 3072 2.806745 GCAAGACTCCACAACAGCTACA 60.807 50.000 0.00 0.00 0.00 2.74
2972 3073 1.801178 GCAAGACTCCACAACAGCTAC 59.199 52.381 0.00 0.00 0.00 3.58
2973 3074 1.416030 TGCAAGACTCCACAACAGCTA 59.584 47.619 0.00 0.00 0.00 3.32
2974 3075 0.181114 TGCAAGACTCCACAACAGCT 59.819 50.000 0.00 0.00 0.00 4.24
2975 3076 1.024271 TTGCAAGACTCCACAACAGC 58.976 50.000 0.00 0.00 0.00 4.40
2976 3077 2.016318 TGTTGCAAGACTCCACAACAG 58.984 47.619 0.00 0.00 45.35 3.16
3012 3113 7.334844 TGATGATCAACAGGTACTAGTACAG 57.665 40.000 29.38 23.32 36.02 2.74
3017 3118 8.954950 AAAAGATGATGATCAACAGGTACTAG 57.045 34.615 11.58 0.00 36.02 2.57
3057 3158 1.135112 TGATGATGTTCGACAGTCCCG 60.135 52.381 0.00 0.00 0.00 5.14
3059 3160 3.126831 GGATGATGATGTTCGACAGTCC 58.873 50.000 0.00 0.00 0.00 3.85
3060 3161 3.785486 TGGATGATGATGTTCGACAGTC 58.215 45.455 0.00 0.00 0.00 3.51
3061 3162 3.431346 CCTGGATGATGATGTTCGACAGT 60.431 47.826 0.00 0.00 0.00 3.55
3063 3164 2.742856 GCCTGGATGATGATGTTCGACA 60.743 50.000 0.00 0.00 0.00 4.35
3064 3165 1.869767 GCCTGGATGATGATGTTCGAC 59.130 52.381 0.00 0.00 0.00 4.20
3067 3168 1.959042 ACGCCTGGATGATGATGTTC 58.041 50.000 0.00 0.00 0.00 3.18
3068 3169 2.700371 TCTACGCCTGGATGATGATGTT 59.300 45.455 0.00 0.00 0.00 2.71
3069 3170 2.319844 TCTACGCCTGGATGATGATGT 58.680 47.619 0.00 0.00 0.00 3.06
3070 3171 3.391506 TTCTACGCCTGGATGATGATG 57.608 47.619 0.00 0.00 0.00 3.07
3077 3178 3.389329 ACAGAATCATTCTACGCCTGGAT 59.611 43.478 0.00 0.00 38.11 3.41
3082 3193 3.375299 AGCAAACAGAATCATTCTACGCC 59.625 43.478 0.00 0.00 38.11 5.68
3095 3206 1.804151 GGTGCATTACGAGCAAACAGA 59.196 47.619 0.00 0.00 44.64 3.41
3096 3207 1.464023 CGGTGCATTACGAGCAAACAG 60.464 52.381 0.00 0.00 44.64 3.16
3097 3208 0.515127 CGGTGCATTACGAGCAAACA 59.485 50.000 0.00 0.00 44.64 2.83
3098 3209 0.793104 GCGGTGCATTACGAGCAAAC 60.793 55.000 11.74 0.00 44.64 2.93
3099 3210 1.231296 TGCGGTGCATTACGAGCAAA 61.231 50.000 11.74 0.00 44.64 3.68
3100 3211 1.669437 TGCGGTGCATTACGAGCAA 60.669 52.632 11.74 0.00 44.64 3.91
3101 3212 2.047750 TGCGGTGCATTACGAGCA 60.048 55.556 11.74 4.92 39.93 4.26
3102 3213 1.906994 TTGTGCGGTGCATTACGAGC 61.907 55.000 11.74 2.56 41.91 5.03
3103 3214 0.726827 ATTGTGCGGTGCATTACGAG 59.273 50.000 11.74 0.00 41.91 4.18
3104 3215 0.724549 GATTGTGCGGTGCATTACGA 59.275 50.000 11.74 0.00 41.91 3.43
3105 3216 0.726827 AGATTGTGCGGTGCATTACG 59.273 50.000 0.00 0.00 41.91 3.18
3106 3217 1.737236 TGAGATTGTGCGGTGCATTAC 59.263 47.619 0.00 0.00 41.91 1.89
3107 3218 2.106477 TGAGATTGTGCGGTGCATTA 57.894 45.000 0.00 0.00 41.91 1.90
3108 3219 1.133598 CATGAGATTGTGCGGTGCATT 59.866 47.619 0.00 0.00 41.91 3.56
3109 3220 0.736636 CATGAGATTGTGCGGTGCAT 59.263 50.000 0.00 0.00 41.91 3.96
3110 3221 1.307355 CCATGAGATTGTGCGGTGCA 61.307 55.000 0.00 0.00 35.60 4.57
3111 3222 1.430632 CCATGAGATTGTGCGGTGC 59.569 57.895 0.00 0.00 0.00 5.01
3112 3223 1.028330 AGCCATGAGATTGTGCGGTG 61.028 55.000 0.00 0.00 0.00 4.94
3113 3224 0.322816 AAGCCATGAGATTGTGCGGT 60.323 50.000 0.00 0.00 0.00 5.68
3114 3225 0.813184 AAAGCCATGAGATTGTGCGG 59.187 50.000 0.00 0.00 0.00 5.69
3115 3226 3.763097 TTAAAGCCATGAGATTGTGCG 57.237 42.857 0.00 0.00 0.00 5.34
3116 3227 3.853671 CGTTTAAAGCCATGAGATTGTGC 59.146 43.478 0.00 0.00 0.00 4.57
3117 3228 5.046910 ACGTTTAAAGCCATGAGATTGTG 57.953 39.130 0.00 0.00 0.00 3.33
3118 3229 6.622896 GCTTACGTTTAAAGCCATGAGATTGT 60.623 38.462 9.89 0.00 42.85 2.71
3119 3230 5.739161 GCTTACGTTTAAAGCCATGAGATTG 59.261 40.000 9.89 0.00 42.85 2.67
3120 3231 5.880341 GCTTACGTTTAAAGCCATGAGATT 58.120 37.500 9.89 0.00 42.85 2.40
3121 3232 5.485662 GCTTACGTTTAAAGCCATGAGAT 57.514 39.130 9.89 0.00 42.85 2.75
3140 3251 1.616994 GGGGTTTATGCTCCTGTGCTT 60.617 52.381 0.00 0.00 0.00 3.91
3147 3258 2.507407 TTCACAGGGGTTTATGCTCC 57.493 50.000 0.00 0.00 0.00 4.70
3185 3296 1.022735 GCAGAGTGCTGGAATCATGG 58.977 55.000 0.00 0.00 42.53 3.66
3216 3327 6.912203 AAAAACCAAAACTATGTTTTCCCG 57.088 33.333 5.57 0.77 40.29 5.14
3237 3348 8.612619 TCAAAACTTTGTTGTTGTTGCTAAAAA 58.387 25.926 2.30 0.00 39.18 1.94
3238 3349 8.142994 TCAAAACTTTGTTGTTGTTGCTAAAA 57.857 26.923 2.30 0.00 39.18 1.52
3239 3350 7.439655 ACTCAAAACTTTGTTGTTGTTGCTAAA 59.560 29.630 2.30 0.00 39.18 1.85
3240 3351 6.926272 ACTCAAAACTTTGTTGTTGTTGCTAA 59.074 30.769 2.30 0.00 39.18 3.09
3241 3352 6.451393 ACTCAAAACTTTGTTGTTGTTGCTA 58.549 32.000 2.30 0.00 39.18 3.49
3242 3353 5.296748 ACTCAAAACTTTGTTGTTGTTGCT 58.703 33.333 2.30 0.00 39.18 3.91
3243 3354 5.590104 ACTCAAAACTTTGTTGTTGTTGC 57.410 34.783 2.30 0.00 39.18 4.17
3244 3355 8.833976 AAAAACTCAAAACTTTGTTGTTGTTG 57.166 26.923 13.22 0.00 39.18 3.33
3267 3378 7.225011 ACCAAAACTTTGTTGTTCCCTAAAAA 58.775 30.769 1.76 0.00 36.45 1.94
3268 3379 6.770542 ACCAAAACTTTGTTGTTCCCTAAAA 58.229 32.000 1.76 0.00 36.45 1.52
3269 3380 6.361768 ACCAAAACTTTGTTGTTCCCTAAA 57.638 33.333 1.76 0.00 36.45 1.85
3270 3381 6.664384 ACTACCAAAACTTTGTTGTTCCCTAA 59.336 34.615 1.76 0.00 36.45 2.69
3271 3382 6.095720 CACTACCAAAACTTTGTTGTTCCCTA 59.904 38.462 1.76 0.00 36.45 3.53
3272 3383 5.020795 ACTACCAAAACTTTGTTGTTCCCT 58.979 37.500 1.76 0.00 36.45 4.20
3273 3384 5.106442 CACTACCAAAACTTTGTTGTTCCC 58.894 41.667 1.76 0.00 36.45 3.97
3274 3385 4.565166 GCACTACCAAAACTTTGTTGTTCC 59.435 41.667 1.76 0.00 36.45 3.62
3275 3386 5.407502 AGCACTACCAAAACTTTGTTGTTC 58.592 37.500 1.76 0.00 36.45 3.18
3276 3387 5.185056 AGAGCACTACCAAAACTTTGTTGTT 59.815 36.000 1.76 0.00 36.45 2.83
3277 3388 4.705023 AGAGCACTACCAAAACTTTGTTGT 59.295 37.500 1.76 0.00 36.45 3.32
3278 3389 5.036737 CAGAGCACTACCAAAACTTTGTTG 58.963 41.667 1.76 0.00 36.45 3.33
3279 3390 4.705023 ACAGAGCACTACCAAAACTTTGTT 59.295 37.500 1.76 0.00 36.45 2.83
3280 3391 4.270008 ACAGAGCACTACCAAAACTTTGT 58.730 39.130 1.76 0.00 36.45 2.83
3281 3392 4.900635 ACAGAGCACTACCAAAACTTTG 57.099 40.909 0.00 0.00 37.90 2.77
3282 3393 5.914898 AAACAGAGCACTACCAAAACTTT 57.085 34.783 0.00 0.00 0.00 2.66
3283 3394 5.914898 AAAACAGAGCACTACCAAAACTT 57.085 34.783 0.00 0.00 0.00 2.66
3284 3395 5.914898 AAAAACAGAGCACTACCAAAACT 57.085 34.783 0.00 0.00 0.00 2.66
3351 3463 6.653989 AGATCTTCATTTCGTCCCTGTAAAT 58.346 36.000 0.00 0.00 0.00 1.40
3494 3611 0.311165 CGTGAGATATCGGACCGCTT 59.689 55.000 9.66 1.29 0.00 4.68
3562 3679 0.604780 CCTCTGACTGCAAGGTGGTG 60.605 60.000 0.00 0.00 39.30 4.17
3612 3729 3.775661 GAGAAGCTCTCTCTTTAGCGT 57.224 47.619 14.82 0.00 46.32 5.07
3648 3765 1.618343 TCACAGATCCTCAAACGCTCA 59.382 47.619 0.00 0.00 0.00 4.26
3695 3812 4.072131 GACTAACATGGCACTTTTCTGGA 58.928 43.478 0.00 0.00 0.00 3.86
3767 3885 4.800784 TGTGTTAAGATCAATGTCGACGA 58.199 39.130 11.62 2.29 0.00 4.20


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

AutoCloner maintained by Alex Coulton.