Multiple sequence alignment - TraesCS6B01G312400

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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 TraesCS6B01G312400 chr6B 100.000 3236 0 0 1 3236 559511862 559515097 0.000000e+00 5976.0
1 TraesCS6B01G312400 chr6B 87.448 478 56 3 1 475 559062961 559063437 6.100000e-152 547.0
2 TraesCS6B01G312400 chr6D 92.540 1917 114 17 500 2407 372433210 372431314 0.000000e+00 2721.0
3 TraesCS6B01G312400 chr6A 93.471 1164 63 7 1137 2292 514357760 514356602 0.000000e+00 1716.0
4 TraesCS6B01G312400 chr6A 85.997 657 40 16 500 1142 514381007 514380389 0.000000e+00 656.0
5 TraesCS6B01G312400 chr6A 87.277 393 47 3 1 392 237361473 237361083 2.290000e-121 446.0
6 TraesCS6B01G312400 chr5A 95.884 826 33 1 2411 3236 146498922 146498098 0.000000e+00 1336.0
7 TraesCS6B01G312400 chr1A 95.521 826 33 2 2411 3236 111791639 111792460 0.000000e+00 1317.0
8 TraesCS6B01G312400 chr5D 94.559 827 42 3 2411 3236 32229829 32229005 0.000000e+00 1275.0
9 TraesCS6B01G312400 chr3B 94.438 827 40 5 2411 3236 68445837 68446658 0.000000e+00 1267.0
10 TraesCS6B01G312400 chr3B 84.043 94 12 3 380 472 663965803 663965894 1.600000e-13 87.9
11 TraesCS6B01G312400 chr4B 93.470 827 48 5 2411 3236 165036034 165036855 0.000000e+00 1223.0
12 TraesCS6B01G312400 chr4B 93.004 829 57 1 2402 3229 606840583 606839755 0.000000e+00 1208.0
13 TraesCS6B01G312400 chr3A 92.776 789 56 1 2448 3236 41403908 41404695 0.000000e+00 1140.0
14 TraesCS6B01G312400 chr2B 92.821 780 54 2 2411 3189 75912837 75913615 0.000000e+00 1129.0
15 TraesCS6B01G312400 chr4D 88.634 827 89 5 2411 3236 479992588 479993410 0.000000e+00 1002.0
16 TraesCS6B01G312400 chr1D 98.165 109 2 0 1 109 257005456 257005348 1.180000e-44 191.0


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 TraesCS6B01G312400 chr6B 559511862 559515097 3235 False 5976 5976 100.000 1 3236 1 chr6B.!!$F2 3235
1 TraesCS6B01G312400 chr6D 372431314 372433210 1896 True 2721 2721 92.540 500 2407 1 chr6D.!!$R1 1907
2 TraesCS6B01G312400 chr6A 514356602 514357760 1158 True 1716 1716 93.471 1137 2292 1 chr6A.!!$R2 1155
3 TraesCS6B01G312400 chr6A 514380389 514381007 618 True 656 656 85.997 500 1142 1 chr6A.!!$R3 642
4 TraesCS6B01G312400 chr5A 146498098 146498922 824 True 1336 1336 95.884 2411 3236 1 chr5A.!!$R1 825
5 TraesCS6B01G312400 chr1A 111791639 111792460 821 False 1317 1317 95.521 2411 3236 1 chr1A.!!$F1 825
6 TraesCS6B01G312400 chr5D 32229005 32229829 824 True 1275 1275 94.559 2411 3236 1 chr5D.!!$R1 825
7 TraesCS6B01G312400 chr3B 68445837 68446658 821 False 1267 1267 94.438 2411 3236 1 chr3B.!!$F1 825
8 TraesCS6B01G312400 chr4B 165036034 165036855 821 False 1223 1223 93.470 2411 3236 1 chr4B.!!$F1 825
9 TraesCS6B01G312400 chr4B 606839755 606840583 828 True 1208 1208 93.004 2402 3229 1 chr4B.!!$R1 827
10 TraesCS6B01G312400 chr3A 41403908 41404695 787 False 1140 1140 92.776 2448 3236 1 chr3A.!!$F1 788
11 TraesCS6B01G312400 chr2B 75912837 75913615 778 False 1129 1129 92.821 2411 3189 1 chr2B.!!$F1 778
12 TraesCS6B01G312400 chr4D 479992588 479993410 822 False 1002 1002 88.634 2411 3236 1 chr4D.!!$F1 825


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
510 511 0.096454 GCGGCGGATGTTTGTCTTAC 59.904 55.0 9.78 0.00 0.0 2.34 F
1412 1431 0.396435 ATGTTCTTCCTGGTGCACGA 59.604 50.0 11.45 5.97 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2154 2176 0.460109 CCGACAATGCCGATGTCTCA 60.460 55.0 10.63 0.0 43.93 3.27 R
2525 2550 0.545646 GCATCCCCTTCTCTCTGCTT 59.454 55.0 0.00 0.0 0.00 3.91 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
20 21 2.116125 GGGGGTTGCTGCAGTCTT 59.884 61.111 16.64 0.00 0.00 3.01
21 22 2.270986 GGGGGTTGCTGCAGTCTTG 61.271 63.158 16.64 0.00 0.00 3.02
22 23 1.228245 GGGGTTGCTGCAGTCTTGA 60.228 57.895 16.64 0.00 0.00 3.02
23 24 1.518903 GGGGTTGCTGCAGTCTTGAC 61.519 60.000 16.64 7.01 0.00 3.18
24 25 1.571460 GGTTGCTGCAGTCTTGACG 59.429 57.895 16.64 0.00 0.00 4.35
25 26 1.082496 GTTGCTGCAGTCTTGACGC 60.082 57.895 16.64 0.00 0.00 5.19
26 27 2.253758 TTGCTGCAGTCTTGACGCC 61.254 57.895 16.64 0.00 0.00 5.68
27 28 3.782244 GCTGCAGTCTTGACGCCG 61.782 66.667 16.64 8.77 0.00 6.46
28 29 3.114616 CTGCAGTCTTGACGCCGG 61.115 66.667 5.25 0.00 0.00 6.13
29 30 3.865929 CTGCAGTCTTGACGCCGGT 62.866 63.158 5.25 0.00 0.00 5.28
30 31 3.414700 GCAGTCTTGACGCCGGTG 61.415 66.667 14.93 14.93 0.00 4.94
31 32 2.738521 CAGTCTTGACGCCGGTGG 60.739 66.667 21.14 6.53 0.00 4.61
32 33 4.681978 AGTCTTGACGCCGGTGGC 62.682 66.667 21.14 18.75 46.75 5.01
43 44 4.148825 CGGTGGCCCTCCTCGAAG 62.149 72.222 0.00 0.00 33.77 3.79
44 45 4.475135 GGTGGCCCTCCTCGAAGC 62.475 72.222 0.00 0.00 0.00 3.86
45 46 3.706373 GTGGCCCTCCTCGAAGCA 61.706 66.667 0.00 0.00 0.00 3.91
46 47 3.706373 TGGCCCTCCTCGAAGCAC 61.706 66.667 0.00 0.00 0.00 4.40
47 48 4.475135 GGCCCTCCTCGAAGCACC 62.475 72.222 0.00 0.00 0.00 5.01
48 49 3.394836 GCCCTCCTCGAAGCACCT 61.395 66.667 0.00 0.00 0.00 4.00
49 50 2.581354 CCCTCCTCGAAGCACCTG 59.419 66.667 0.00 0.00 0.00 4.00
50 51 1.984570 CCCTCCTCGAAGCACCTGA 60.985 63.158 0.00 0.00 0.00 3.86
51 52 1.544825 CCCTCCTCGAAGCACCTGAA 61.545 60.000 0.00 0.00 0.00 3.02
52 53 0.108424 CCTCCTCGAAGCACCTGAAG 60.108 60.000 0.00 0.00 0.00 3.02
53 54 0.739112 CTCCTCGAAGCACCTGAAGC 60.739 60.000 0.00 0.00 0.00 3.86
54 55 1.004560 CCTCGAAGCACCTGAAGCA 60.005 57.895 0.00 0.00 0.00 3.91
55 56 0.392193 CCTCGAAGCACCTGAAGCAT 60.392 55.000 0.00 0.00 0.00 3.79
56 57 1.134699 CCTCGAAGCACCTGAAGCATA 60.135 52.381 0.00 0.00 0.00 3.14
57 58 2.200067 CTCGAAGCACCTGAAGCATAG 58.800 52.381 0.00 0.00 0.00 2.23
58 59 0.654683 CGAAGCACCTGAAGCATAGC 59.345 55.000 0.00 0.00 0.00 2.97
59 60 1.020437 GAAGCACCTGAAGCATAGCC 58.980 55.000 0.00 0.00 0.00 3.93
60 61 0.394899 AAGCACCTGAAGCATAGCCC 60.395 55.000 0.00 0.00 0.00 5.19
61 62 2.182842 GCACCTGAAGCATAGCCCG 61.183 63.158 0.00 0.00 0.00 6.13
62 63 1.221840 CACCTGAAGCATAGCCCGT 59.778 57.895 0.00 0.00 0.00 5.28
63 64 1.091771 CACCTGAAGCATAGCCCGTG 61.092 60.000 0.00 0.00 0.00 4.94
64 65 1.524621 CCTGAAGCATAGCCCGTGG 60.525 63.158 0.00 0.00 0.00 4.94
65 66 1.522092 CTGAAGCATAGCCCGTGGA 59.478 57.895 0.00 0.00 0.00 4.02
66 67 0.531532 CTGAAGCATAGCCCGTGGAG 60.532 60.000 0.00 0.00 0.00 3.86
67 68 1.227674 GAAGCATAGCCCGTGGAGG 60.228 63.158 0.00 0.00 40.63 4.30
68 69 1.972660 GAAGCATAGCCCGTGGAGGT 61.973 60.000 0.00 0.00 38.74 3.85
69 70 1.972660 AAGCATAGCCCGTGGAGGTC 61.973 60.000 0.00 0.00 38.74 3.85
70 71 2.822399 CATAGCCCGTGGAGGTCC 59.178 66.667 0.00 0.00 38.74 4.46
71 72 2.838225 ATAGCCCGTGGAGGTCCG 60.838 66.667 0.00 0.00 39.43 4.79
81 82 3.467226 GAGGTCCGGCGGGATGAA 61.467 66.667 27.98 2.30 46.14 2.57
82 83 3.735037 GAGGTCCGGCGGGATGAAC 62.735 68.421 27.98 16.31 46.14 3.18
83 84 4.851179 GGTCCGGCGGGATGAACC 62.851 72.222 27.98 21.71 46.14 3.62
84 85 4.090588 GTCCGGCGGGATGAACCA 62.091 66.667 27.98 0.00 46.14 3.67
85 86 4.090588 TCCGGCGGGATGAACCAC 62.091 66.667 27.98 0.00 37.43 4.16
86 87 4.402528 CCGGCGGGATGAACCACA 62.403 66.667 20.56 0.00 41.20 4.17
87 88 2.359354 CGGCGGGATGAACCACAA 60.359 61.111 0.00 0.00 41.20 3.33
88 89 2.686816 CGGCGGGATGAACCACAAC 61.687 63.158 0.00 0.00 41.20 3.32
89 90 1.303317 GGCGGGATGAACCACAACT 60.303 57.895 0.00 0.00 41.20 3.16
90 91 1.305930 GGCGGGATGAACCACAACTC 61.306 60.000 0.00 0.00 41.20 3.01
91 92 1.305930 GCGGGATGAACCACAACTCC 61.306 60.000 0.00 0.00 41.20 3.85
92 93 1.019278 CGGGATGAACCACAACTCCG 61.019 60.000 0.00 0.00 41.20 4.63
93 94 0.323629 GGGATGAACCACAACTCCGA 59.676 55.000 0.00 0.00 41.20 4.55
94 95 1.676014 GGGATGAACCACAACTCCGAG 60.676 57.143 0.00 0.00 41.20 4.63
95 96 1.676014 GGATGAACCACAACTCCGAGG 60.676 57.143 0.00 0.00 38.79 4.63
96 97 1.275291 GATGAACCACAACTCCGAGGA 59.725 52.381 0.00 0.00 0.00 3.71
97 98 0.391597 TGAACCACAACTCCGAGGAC 59.608 55.000 0.00 0.00 0.00 3.85
98 99 0.391597 GAACCACAACTCCGAGGACA 59.608 55.000 0.00 0.00 0.00 4.02
99 100 0.393077 AACCACAACTCCGAGGACAG 59.607 55.000 0.00 0.00 0.00 3.51
100 101 1.293498 CCACAACTCCGAGGACAGG 59.707 63.158 0.00 0.00 0.00 4.00
101 102 1.293498 CACAACTCCGAGGACAGGG 59.707 63.158 0.00 0.00 0.00 4.45
102 103 1.913762 ACAACTCCGAGGACAGGGG 60.914 63.158 0.00 0.00 34.75 4.79
103 104 3.003763 AACTCCGAGGACAGGGGC 61.004 66.667 0.00 0.00 30.64 5.80
119 120 4.819761 GCGACCCTGATCTGCGCA 62.820 66.667 10.98 10.98 46.19 6.09
120 121 2.584418 CGACCCTGATCTGCGCAG 60.584 66.667 31.53 31.53 0.00 5.18
121 122 2.895680 GACCCTGATCTGCGCAGA 59.104 61.111 39.63 39.63 42.37 4.26
122 123 1.227205 GACCCTGATCTGCGCAGAG 60.227 63.158 39.64 28.95 41.33 3.35
134 135 3.715097 GCAGAGCACCAGCCTCCT 61.715 66.667 0.00 0.00 43.56 3.69
135 136 2.268280 CAGAGCACCAGCCTCCTG 59.732 66.667 0.00 0.00 43.56 3.86
136 137 2.203907 AGAGCACCAGCCTCCTGT 60.204 61.111 0.00 0.00 43.56 4.00
137 138 1.845205 AGAGCACCAGCCTCCTGTT 60.845 57.895 0.00 0.00 43.56 3.16
138 139 1.673665 GAGCACCAGCCTCCTGTTG 60.674 63.158 0.00 0.00 43.56 3.33
139 140 2.674380 GCACCAGCCTCCTGTTGG 60.674 66.667 0.00 0.00 37.38 3.77
169 170 3.532792 CGACGACGACGCCACATG 61.533 66.667 7.30 0.00 43.96 3.21
170 171 3.179265 GACGACGACGCCACATGG 61.179 66.667 7.30 0.00 43.96 3.66
181 182 3.813143 CACATGGCCATGCGCGAA 61.813 61.111 39.74 0.00 42.39 4.70
182 183 3.511595 ACATGGCCATGCGCGAAG 61.512 61.111 39.74 19.24 42.39 3.79
183 184 4.260355 CATGGCCATGCGCGAAGG 62.260 66.667 31.95 9.19 38.94 3.46
184 185 4.488136 ATGGCCATGCGCGAAGGA 62.488 61.111 20.04 0.00 38.94 3.36
188 189 3.197790 CCATGCGCGAAGGACCAG 61.198 66.667 12.10 0.00 0.00 4.00
189 190 3.197790 CATGCGCGAAGGACCAGG 61.198 66.667 12.10 0.00 0.00 4.45
190 191 4.473520 ATGCGCGAAGGACCAGGG 62.474 66.667 12.10 0.00 0.00 4.45
213 214 4.962836 CCATCCCATGGCCGGCTC 62.963 72.222 28.56 17.27 44.70 4.70
214 215 4.962836 CATCCCATGGCCGGCTCC 62.963 72.222 28.56 11.61 0.00 4.70
277 278 4.754667 GACGAACCCGCCAGACCC 62.755 72.222 0.00 0.00 39.95 4.46
279 280 4.096003 CGAACCCGCCAGACCCAT 62.096 66.667 0.00 0.00 0.00 4.00
280 281 2.124695 GAACCCGCCAGACCCATC 60.125 66.667 0.00 0.00 0.00 3.51
281 282 4.096003 AACCCGCCAGACCCATCG 62.096 66.667 0.00 0.00 0.00 3.84
283 284 3.550431 CCCGCCAGACCCATCGAT 61.550 66.667 0.00 0.00 0.00 3.59
284 285 2.280389 CCGCCAGACCCATCGATG 60.280 66.667 18.76 18.76 0.00 3.84
285 286 2.969238 CGCCAGACCCATCGATGC 60.969 66.667 20.25 6.64 0.00 3.91
286 287 2.592861 GCCAGACCCATCGATGCC 60.593 66.667 20.25 10.71 0.00 4.40
287 288 2.280389 CCAGACCCATCGATGCCG 60.280 66.667 20.25 13.75 37.07 5.69
297 298 3.678921 TCGATGCCGAAATACCCAG 57.321 52.632 0.00 0.00 42.51 4.45
298 299 1.116308 TCGATGCCGAAATACCCAGA 58.884 50.000 0.00 0.00 42.51 3.86
299 300 1.202486 TCGATGCCGAAATACCCAGAC 60.202 52.381 0.00 0.00 42.51 3.51
300 301 1.594331 GATGCCGAAATACCCAGACC 58.406 55.000 0.00 0.00 0.00 3.85
301 302 0.179056 ATGCCGAAATACCCAGACCG 60.179 55.000 0.00 0.00 0.00 4.79
302 303 1.523032 GCCGAAATACCCAGACCGG 60.523 63.158 0.00 0.00 39.88 5.28
303 304 1.963464 GCCGAAATACCCAGACCGGA 61.963 60.000 9.46 0.00 39.31 5.14
304 305 0.179092 CCGAAATACCCAGACCGGAC 60.179 60.000 9.46 0.10 39.31 4.79
305 306 0.533491 CGAAATACCCAGACCGGACA 59.467 55.000 9.46 0.00 36.56 4.02
306 307 1.738030 CGAAATACCCAGACCGGACAC 60.738 57.143 9.46 0.00 36.56 3.67
307 308 0.616891 AAATACCCAGACCGGACACC 59.383 55.000 9.46 0.00 36.56 4.16
339 340 2.686602 GGGGATACGCCGAAGAAAC 58.313 57.895 0.00 0.00 45.38 2.78
340 341 0.812811 GGGGATACGCCGAAGAAACC 60.813 60.000 0.00 0.00 45.38 3.27
341 342 0.177373 GGGATACGCCGAAGAAACCT 59.823 55.000 0.00 0.00 37.63 3.50
342 343 1.410153 GGGATACGCCGAAGAAACCTA 59.590 52.381 0.00 0.00 37.63 3.08
343 344 2.159057 GGGATACGCCGAAGAAACCTAA 60.159 50.000 0.00 0.00 37.63 2.69
344 345 3.121544 GGATACGCCGAAGAAACCTAAG 58.878 50.000 0.00 0.00 0.00 2.18
345 346 2.660189 TACGCCGAAGAAACCTAAGG 57.340 50.000 0.00 0.00 0.00 2.69
346 347 0.971386 ACGCCGAAGAAACCTAAGGA 59.029 50.000 0.00 0.00 0.00 3.36
347 348 1.067071 ACGCCGAAGAAACCTAAGGAG 60.067 52.381 0.00 0.00 0.00 3.69
356 357 4.899239 CCTAAGGAGGGCTGCGCG 62.899 72.222 11.20 0.00 39.48 6.86
357 358 3.838271 CTAAGGAGGGCTGCGCGA 61.838 66.667 12.10 0.00 0.00 5.87
358 359 3.371097 CTAAGGAGGGCTGCGCGAA 62.371 63.158 12.10 0.00 0.00 4.70
359 360 3.659089 TAAGGAGGGCTGCGCGAAC 62.659 63.158 12.10 5.73 0.00 3.95
393 394 4.083862 GCGGGGAGAGGTGGACAC 62.084 72.222 0.00 0.00 0.00 3.67
423 424 4.222847 GGCTACCGGCGGGAGAAG 62.223 72.222 41.23 25.61 42.94 2.85
424 425 4.222847 GCTACCGGCGGGAGAAGG 62.223 72.222 41.23 17.18 36.97 3.46
425 426 2.758737 CTACCGGCGGGAGAAGGT 60.759 66.667 34.75 10.67 42.35 3.50
426 427 3.072468 TACCGGCGGGAGAAGGTG 61.072 66.667 31.78 1.05 40.47 4.00
485 486 2.413765 CGGAGCGGCTAGGAGAAC 59.586 66.667 0.60 0.00 0.00 3.01
486 487 2.415608 CGGAGCGGCTAGGAGAACA 61.416 63.158 0.60 0.00 0.00 3.18
487 488 1.142097 GGAGCGGCTAGGAGAACAC 59.858 63.158 0.60 0.00 0.00 3.32
488 489 1.142097 GAGCGGCTAGGAGAACACC 59.858 63.158 0.60 0.00 0.00 4.16
489 490 1.605058 GAGCGGCTAGGAGAACACCA 61.605 60.000 0.60 0.00 0.00 4.17
490 491 1.192146 AGCGGCTAGGAGAACACCAA 61.192 55.000 0.00 0.00 0.00 3.67
491 492 0.741221 GCGGCTAGGAGAACACCAAG 60.741 60.000 0.00 0.00 0.00 3.61
492 493 0.741221 CGGCTAGGAGAACACCAAGC 60.741 60.000 0.00 0.00 0.00 4.01
493 494 0.741221 GGCTAGGAGAACACCAAGCG 60.741 60.000 0.00 0.00 0.00 4.68
494 495 0.741221 GCTAGGAGAACACCAAGCGG 60.741 60.000 0.00 0.00 38.77 5.52
495 496 0.741221 CTAGGAGAACACCAAGCGGC 60.741 60.000 0.00 0.00 34.57 6.53
496 497 2.501223 TAGGAGAACACCAAGCGGCG 62.501 60.000 0.51 0.51 34.57 6.46
497 498 3.423154 GAGAACACCAAGCGGCGG 61.423 66.667 9.78 0.00 34.57 6.13
498 499 3.876589 GAGAACACCAAGCGGCGGA 62.877 63.158 9.78 0.00 34.57 5.54
502 503 3.055719 CACCAAGCGGCGGATGTT 61.056 61.111 9.78 0.00 34.57 2.71
510 511 0.096454 GCGGCGGATGTTTGTCTTAC 59.904 55.000 9.78 0.00 0.00 2.34
527 528 5.761234 TGTCTTACATGTTTTCGTAGGCTTT 59.239 36.000 2.30 0.00 0.00 3.51
528 529 6.930164 TGTCTTACATGTTTTCGTAGGCTTTA 59.070 34.615 2.30 0.00 0.00 1.85
618 621 3.939592 GACAGAAATGTAACTAGGCCACC 59.060 47.826 5.01 0.00 0.00 4.61
622 625 1.324740 ATGTAACTAGGCCACCGCGA 61.325 55.000 8.23 0.00 35.02 5.87
667 670 4.394712 GTGGAGCCGGTCACCTGG 62.395 72.222 1.90 0.00 0.00 4.45
668 671 4.631740 TGGAGCCGGTCACCTGGA 62.632 66.667 1.90 0.00 0.00 3.86
669 672 3.083997 GGAGCCGGTCACCTGGAT 61.084 66.667 1.90 2.04 0.00 3.41
686 689 1.674221 GGATCTGCGGGACTGATATGC 60.674 57.143 0.00 0.00 37.10 3.14
714 720 2.089600 TCCTAAGGAAGGGCTAGAGC 57.910 55.000 0.00 0.00 46.55 4.09
783 789 4.266070 GGAGCTACGCGCGGATCA 62.266 66.667 35.22 14.85 45.59 2.92
921 933 2.930950 AGAGGAGAGAGACCAATCGAG 58.069 52.381 0.00 0.00 0.00 4.04
959 971 0.471022 AACGCCCCTCCACCAAAATT 60.471 50.000 0.00 0.00 0.00 1.82
988 1000 1.130561 GCTCTTTCAATTTCCCGTCGG 59.869 52.381 3.60 3.60 0.00 4.79
1018 1030 0.813210 GATGGCAGCGCTTTCTAGCT 60.813 55.000 7.50 0.00 45.51 3.32
1066 1084 3.706373 GGCTCTGGTTCCGCCTCA 61.706 66.667 0.00 0.00 40.62 3.86
1097 1115 4.496336 GAAGGCAGGGATGGCGCT 62.496 66.667 7.64 0.00 39.53 5.92
1221 1240 3.642778 CTCCGACCGCGTCCACATT 62.643 63.158 4.92 0.00 35.23 2.71
1411 1430 0.518636 CATGTTCTTCCTGGTGCACG 59.481 55.000 11.45 0.00 0.00 5.34
1412 1431 0.396435 ATGTTCTTCCTGGTGCACGA 59.604 50.000 11.45 5.97 0.00 4.35
1493 1512 2.762459 TCTCCCGATCAACCCCGG 60.762 66.667 0.00 0.00 44.94 5.73
1671 1690 2.103538 CATGCCGCTGACATTGCC 59.896 61.111 0.00 0.00 0.00 4.52
1680 1699 1.171308 CTGACATTGCCACCTTCCAG 58.829 55.000 0.00 0.00 0.00 3.86
1710 1729 2.338984 GTCCTCACCGCAGAACGT 59.661 61.111 0.00 0.00 41.42 3.99
1746 1765 2.970639 CATGTCCTGGACGTCGGT 59.029 61.111 18.52 1.02 34.95 4.69
1764 1783 1.305297 TGACGAGGGCATCAGGTCT 60.305 57.895 0.00 0.00 0.00 3.85
1771 1790 0.678048 GGGCATCAGGTCTGTCCAAC 60.678 60.000 0.00 0.00 39.02 3.77
1777 1796 1.079819 AGGTCTGTCCAACGCATCG 60.080 57.895 0.00 0.00 39.02 3.84
1778 1797 2.100631 GGTCTGTCCAACGCATCGG 61.101 63.158 0.00 0.00 35.97 4.18
1797 1816 3.134127 GGCACGCCAAGGGATGAC 61.134 66.667 2.36 0.00 35.81 3.06
1800 1819 3.319198 ACGCCAAGGGATGACGGT 61.319 61.111 0.00 0.00 39.45 4.83
1960 1982 1.913262 TGGAGCAGGGTCGACACAT 60.913 57.895 22.01 5.09 0.00 3.21
2006 2028 4.810661 AAGCTGCTCTCGCTCGGC 62.811 66.667 1.00 0.00 36.56 5.54
2122 2144 0.601841 CCACTCCGGTGTGTACAACC 60.602 60.000 29.29 13.94 41.53 3.77
2205 2227 2.355115 GGCCCGTGGTCTCCAAAT 59.645 61.111 0.00 0.00 34.18 2.32
2234 2256 0.320946 CCCGCCCGAAGTTTGAGTTA 60.321 55.000 0.00 0.00 0.00 2.24
2297 2321 9.821662 GTTAAACATACACTAGTTCAAATCCAC 57.178 33.333 0.00 0.00 0.00 4.02
2322 2346 2.040178 GTATTGGGACGATGACCTCCT 58.960 52.381 0.00 0.00 0.00 3.69
2323 2347 1.123928 ATTGGGACGATGACCTCCTC 58.876 55.000 0.00 0.00 0.00 3.71
2325 2349 1.075896 GGGACGATGACCTCCTCCT 60.076 63.158 0.00 0.00 31.66 3.69
2333 2357 1.306568 GACCTCCTCCTCCCAGCTT 60.307 63.158 0.00 0.00 0.00 3.74
2342 2366 3.255888 CCTCCTCCCAGCTTTGTTTTAAC 59.744 47.826 0.00 0.00 0.00 2.01
2363 2387 6.438259 AACAGAAAGAGCAGATCATTGATG 57.562 37.500 3.32 0.00 0.00 3.07
2399 2424 5.047802 GTCAAATGCATTCCCTTCAAAGAGA 60.048 40.000 13.38 0.00 0.00 3.10
2458 2483 5.409826 GCGTATCTTTCCATTGATAGAAGGG 59.590 44.000 0.00 0.00 33.19 3.95
2525 2550 2.407268 GCATGAACATGATGCCCGA 58.593 52.632 17.40 0.00 40.37 5.14
2555 2580 4.256180 GGGATGCTCGGCCCGAAT 62.256 66.667 7.50 0.00 34.74 3.34
2881 2906 1.093159 CTGAAGCTGAGCAATCCCAC 58.907 55.000 7.39 0.00 0.00 4.61
2915 2940 2.293122 CGGAATTGAAGTTGTGGAAGCA 59.707 45.455 0.00 0.00 0.00 3.91
3068 3096 2.870435 GCTGGAGACGAAGCAAAACCTA 60.870 50.000 0.00 0.00 39.31 3.08
3125 3154 2.053618 CGAGCTAGGATTGGAGGGG 58.946 63.158 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.116125 AAGACTGCAGCAACCCCC 59.884 61.111 15.27 0.00 0.00 5.40
4 5 1.228245 TCAAGACTGCAGCAACCCC 60.228 57.895 15.27 0.00 0.00 4.95
5 6 1.845809 CGTCAAGACTGCAGCAACCC 61.846 60.000 15.27 0.00 0.00 4.11
6 7 1.571460 CGTCAAGACTGCAGCAACC 59.429 57.895 15.27 0.38 0.00 3.77
7 8 1.082496 GCGTCAAGACTGCAGCAAC 60.082 57.895 15.27 5.81 33.40 4.17
8 9 2.253758 GGCGTCAAGACTGCAGCAA 61.254 57.895 15.27 0.00 34.32 3.91
9 10 2.666190 GGCGTCAAGACTGCAGCA 60.666 61.111 15.27 0.00 34.32 4.41
10 11 3.782244 CGGCGTCAAGACTGCAGC 61.782 66.667 15.27 6.85 34.32 5.25
11 12 3.114616 CCGGCGTCAAGACTGCAG 61.115 66.667 13.48 13.48 34.32 4.41
12 13 3.923864 ACCGGCGTCAAGACTGCA 61.924 61.111 6.01 0.00 34.32 4.41
13 14 3.414700 CACCGGCGTCAAGACTGC 61.415 66.667 6.01 7.99 0.00 4.40
14 15 2.738521 CCACCGGCGTCAAGACTG 60.739 66.667 6.01 0.00 0.00 3.51
15 16 4.681978 GCCACCGGCGTCAAGACT 62.682 66.667 6.01 0.00 39.62 3.24
26 27 4.148825 CTTCGAGGAGGGCCACCG 62.149 72.222 14.68 7.40 43.47 4.94
27 28 4.475135 GCTTCGAGGAGGGCCACC 62.475 72.222 12.67 12.67 36.29 4.61
28 29 3.706373 TGCTTCGAGGAGGGCCAC 61.706 66.667 6.18 0.00 36.29 5.01
29 30 3.706373 GTGCTTCGAGGAGGGCCA 61.706 66.667 6.18 0.00 36.29 5.36
30 31 4.475135 GGTGCTTCGAGGAGGGCC 62.475 72.222 0.00 0.00 0.00 5.80
31 32 3.394836 AGGTGCTTCGAGGAGGGC 61.395 66.667 0.00 0.00 0.00 5.19
32 33 1.544825 TTCAGGTGCTTCGAGGAGGG 61.545 60.000 0.00 0.00 0.00 4.30
33 34 0.108424 CTTCAGGTGCTTCGAGGAGG 60.108 60.000 0.00 0.00 0.00 4.30
34 35 0.739112 GCTTCAGGTGCTTCGAGGAG 60.739 60.000 0.00 0.00 0.00 3.69
35 36 1.293498 GCTTCAGGTGCTTCGAGGA 59.707 57.895 0.00 0.00 0.00 3.71
36 37 0.392193 ATGCTTCAGGTGCTTCGAGG 60.392 55.000 0.00 0.00 0.00 4.63
37 38 2.200067 CTATGCTTCAGGTGCTTCGAG 58.800 52.381 0.00 0.00 0.00 4.04
38 39 1.740380 GCTATGCTTCAGGTGCTTCGA 60.740 52.381 0.00 0.00 0.00 3.71
39 40 0.654683 GCTATGCTTCAGGTGCTTCG 59.345 55.000 0.00 0.00 0.00 3.79
40 41 1.020437 GGCTATGCTTCAGGTGCTTC 58.980 55.000 0.00 0.00 0.00 3.86
41 42 0.394899 GGGCTATGCTTCAGGTGCTT 60.395 55.000 0.00 0.00 0.00 3.91
42 43 1.225704 GGGCTATGCTTCAGGTGCT 59.774 57.895 0.00 0.00 0.00 4.40
43 44 2.182842 CGGGCTATGCTTCAGGTGC 61.183 63.158 0.00 0.00 0.00 5.01
44 45 1.091771 CACGGGCTATGCTTCAGGTG 61.092 60.000 0.00 0.00 0.00 4.00
45 46 1.221840 CACGGGCTATGCTTCAGGT 59.778 57.895 0.00 0.00 0.00 4.00
46 47 1.524621 CCACGGGCTATGCTTCAGG 60.525 63.158 0.00 0.00 0.00 3.86
47 48 0.531532 CTCCACGGGCTATGCTTCAG 60.532 60.000 0.00 0.00 0.00 3.02
48 49 1.522092 CTCCACGGGCTATGCTTCA 59.478 57.895 0.00 0.00 0.00 3.02
49 50 1.227674 CCTCCACGGGCTATGCTTC 60.228 63.158 0.00 0.00 0.00 3.86
50 51 1.972660 GACCTCCACGGGCTATGCTT 61.973 60.000 0.00 0.00 38.04 3.91
51 52 2.365635 ACCTCCACGGGCTATGCT 60.366 61.111 0.00 0.00 36.97 3.79
52 53 2.109181 GACCTCCACGGGCTATGC 59.891 66.667 0.00 0.00 38.04 3.14
53 54 2.822399 GGACCTCCACGGGCTATG 59.178 66.667 0.00 0.00 42.26 2.23
54 55 2.838225 CGGACCTCCACGGGCTAT 60.838 66.667 0.00 0.00 42.26 2.97
64 65 3.467226 TTCATCCCGCCGGACCTC 61.467 66.667 5.05 0.00 42.48 3.85
65 66 3.782443 GTTCATCCCGCCGGACCT 61.782 66.667 5.05 0.00 42.48 3.85
66 67 4.851179 GGTTCATCCCGCCGGACC 62.851 72.222 5.05 0.00 42.48 4.46
67 68 4.090588 TGGTTCATCCCGCCGGAC 62.091 66.667 5.05 0.00 42.48 4.79
68 69 4.090588 GTGGTTCATCCCGCCGGA 62.091 66.667 5.05 0.00 44.33 5.14
69 70 3.910914 TTGTGGTTCATCCCGCCGG 62.911 63.158 0.00 0.00 33.93 6.13
70 71 2.359354 TTGTGGTTCATCCCGCCG 60.359 61.111 0.00 0.00 33.93 6.46
71 72 1.303317 AGTTGTGGTTCATCCCGCC 60.303 57.895 0.00 0.00 33.93 6.13
72 73 1.305930 GGAGTTGTGGTTCATCCCGC 61.306 60.000 0.00 0.00 34.77 6.13
73 74 1.019278 CGGAGTTGTGGTTCATCCCG 61.019 60.000 0.00 0.00 34.77 5.14
74 75 0.323629 TCGGAGTTGTGGTTCATCCC 59.676 55.000 0.00 0.00 34.77 3.85
75 76 1.676014 CCTCGGAGTTGTGGTTCATCC 60.676 57.143 4.02 0.00 0.00 3.51
76 77 1.275291 TCCTCGGAGTTGTGGTTCATC 59.725 52.381 4.02 0.00 0.00 2.92
77 78 1.002087 GTCCTCGGAGTTGTGGTTCAT 59.998 52.381 4.02 0.00 0.00 2.57
78 79 0.391597 GTCCTCGGAGTTGTGGTTCA 59.608 55.000 4.02 0.00 0.00 3.18
79 80 0.391597 TGTCCTCGGAGTTGTGGTTC 59.608 55.000 4.02 0.00 0.00 3.62
80 81 0.393077 CTGTCCTCGGAGTTGTGGTT 59.607 55.000 4.02 0.00 0.00 3.67
81 82 1.472662 CCTGTCCTCGGAGTTGTGGT 61.473 60.000 4.02 0.00 0.00 4.16
82 83 1.293498 CCTGTCCTCGGAGTTGTGG 59.707 63.158 4.02 0.00 0.00 4.17
83 84 1.293498 CCCTGTCCTCGGAGTTGTG 59.707 63.158 4.02 0.00 0.00 3.33
84 85 1.913762 CCCCTGTCCTCGGAGTTGT 60.914 63.158 4.02 0.00 0.00 3.32
85 86 2.982130 CCCCTGTCCTCGGAGTTG 59.018 66.667 4.02 0.00 0.00 3.16
86 87 3.003763 GCCCCTGTCCTCGGAGTT 61.004 66.667 4.02 0.00 0.00 3.01
100 101 4.899239 CGCAGATCAGGGTCGCCC 62.899 72.222 6.80 6.80 45.90 6.13
102 103 4.819761 TGCGCAGATCAGGGTCGC 62.820 66.667 5.66 7.00 45.23 5.19
103 104 2.584418 CTGCGCAGATCAGGGTCG 60.584 66.667 33.66 0.65 0.00 4.79
104 105 1.227205 CTCTGCGCAGATCAGGGTC 60.227 63.158 38.11 0.00 36.76 4.46
105 106 2.898738 CTCTGCGCAGATCAGGGT 59.101 61.111 38.11 0.00 36.76 4.34
106 107 2.588314 GCTCTGCGCAGATCAGGG 60.588 66.667 38.11 26.71 36.76 4.45
107 108 2.186125 TGCTCTGCGCAGATCAGG 59.814 61.111 38.11 27.07 45.47 3.86
117 118 3.715097 AGGAGGCTGGTGCTCTGC 61.715 66.667 0.00 0.00 39.59 4.26
118 119 2.121992 AACAGGAGGCTGGTGCTCTG 62.122 60.000 0.00 0.00 39.59 3.35
119 120 1.845205 AACAGGAGGCTGGTGCTCT 60.845 57.895 0.00 0.00 39.59 4.09
120 121 1.673665 CAACAGGAGGCTGGTGCTC 60.674 63.158 0.00 0.00 35.10 4.26
121 122 2.433446 CAACAGGAGGCTGGTGCT 59.567 61.111 0.00 0.00 35.10 4.40
122 123 2.674380 CCAACAGGAGGCTGGTGC 60.674 66.667 0.00 0.00 40.49 5.01
152 153 3.532792 CATGTGGCGTCGTCGTCG 61.533 66.667 7.53 7.53 45.30 5.12
153 154 3.179265 CCATGTGGCGTCGTCGTC 61.179 66.667 0.00 0.00 42.45 4.20
165 166 3.511595 CTTCGCGCATGGCCATGT 61.512 61.111 39.08 10.66 40.80 3.21
166 167 4.260355 CCTTCGCGCATGGCCATG 62.260 66.667 36.80 36.80 41.60 3.66
167 168 4.488136 TCCTTCGCGCATGGCCAT 62.488 61.111 14.09 14.09 38.94 4.40
171 172 3.197790 CTGGTCCTTCGCGCATGG 61.198 66.667 8.75 6.05 0.00 3.66
172 173 3.197790 CCTGGTCCTTCGCGCATG 61.198 66.667 8.75 0.00 0.00 4.06
173 174 4.473520 CCCTGGTCCTTCGCGCAT 62.474 66.667 8.75 0.00 0.00 4.73
197 198 4.962836 GGAGCCGGCCATGGGATG 62.963 72.222 26.15 0.00 0.00 3.51
260 261 4.754667 GGGTCTGGCGGGTTCGTC 62.755 72.222 0.00 0.00 42.06 4.20
262 263 4.096003 ATGGGTCTGGCGGGTTCG 62.096 66.667 0.00 0.00 39.81 3.95
263 264 2.124695 GATGGGTCTGGCGGGTTC 60.125 66.667 0.00 0.00 0.00 3.62
264 265 4.096003 CGATGGGTCTGGCGGGTT 62.096 66.667 0.00 0.00 0.00 4.11
266 267 3.550431 ATCGATGGGTCTGGCGGG 61.550 66.667 0.00 0.00 0.00 6.13
267 268 2.280389 CATCGATGGGTCTGGCGG 60.280 66.667 17.96 0.00 0.00 6.13
268 269 2.969238 GCATCGATGGGTCTGGCG 60.969 66.667 26.00 0.00 0.00 5.69
269 270 2.592861 GGCATCGATGGGTCTGGC 60.593 66.667 26.00 9.85 0.00 4.85
270 271 2.280389 CGGCATCGATGGGTCTGG 60.280 66.667 26.00 0.00 39.00 3.86
271 272 0.461870 TTTCGGCATCGATGGGTCTG 60.462 55.000 26.00 14.57 45.51 3.51
272 273 0.469917 ATTTCGGCATCGATGGGTCT 59.530 50.000 26.00 0.00 45.51 3.85
273 274 1.798813 GTATTTCGGCATCGATGGGTC 59.201 52.381 26.00 10.03 45.51 4.46
274 275 1.542547 GGTATTTCGGCATCGATGGGT 60.543 52.381 26.00 4.46 45.51 4.51
275 276 1.156736 GGTATTTCGGCATCGATGGG 58.843 55.000 26.00 2.75 45.51 4.00
276 277 1.156736 GGGTATTTCGGCATCGATGG 58.843 55.000 26.00 11.15 45.51 3.51
277 278 1.800586 CTGGGTATTTCGGCATCGATG 59.199 52.381 21.27 21.27 45.51 3.84
278 279 1.691976 TCTGGGTATTTCGGCATCGAT 59.308 47.619 0.00 0.00 45.51 3.59
279 280 1.116308 TCTGGGTATTTCGGCATCGA 58.884 50.000 0.00 0.00 44.44 3.59
280 281 1.217882 GTCTGGGTATTTCGGCATCG 58.782 55.000 0.00 0.00 37.82 3.84
281 282 1.594331 GGTCTGGGTATTTCGGCATC 58.406 55.000 0.00 0.00 0.00 3.91
282 283 0.179056 CGGTCTGGGTATTTCGGCAT 60.179 55.000 0.00 0.00 0.00 4.40
283 284 1.219664 CGGTCTGGGTATTTCGGCA 59.780 57.895 0.00 0.00 0.00 5.69
284 285 1.523032 CCGGTCTGGGTATTTCGGC 60.523 63.158 0.00 0.00 0.00 5.54
285 286 0.179092 GTCCGGTCTGGGTATTTCGG 60.179 60.000 0.00 0.00 38.76 4.30
286 287 0.533491 TGTCCGGTCTGGGTATTTCG 59.467 55.000 0.00 0.00 38.76 3.46
287 288 1.406477 GGTGTCCGGTCTGGGTATTTC 60.406 57.143 0.00 0.00 38.76 2.17
288 289 0.616891 GGTGTCCGGTCTGGGTATTT 59.383 55.000 0.00 0.00 38.76 1.40
289 290 1.610554 CGGTGTCCGGTCTGGGTATT 61.611 60.000 0.00 0.00 44.15 1.89
290 291 2.056223 CGGTGTCCGGTCTGGGTAT 61.056 63.158 0.00 0.00 44.15 2.73
291 292 2.677524 CGGTGTCCGGTCTGGGTA 60.678 66.667 0.00 0.00 44.15 3.69
314 315 4.256180 GGCGTATCCCCTGGGCAG 62.256 72.222 7.39 0.00 34.68 4.85
317 318 3.158648 TTCGGCGTATCCCCTGGG 61.159 66.667 5.50 5.50 0.00 4.45
318 319 1.682451 TTCTTCGGCGTATCCCCTGG 61.682 60.000 6.85 0.00 0.00 4.45
319 320 0.177141 TTTCTTCGGCGTATCCCCTG 59.823 55.000 6.85 0.00 0.00 4.45
320 321 0.177373 GTTTCTTCGGCGTATCCCCT 59.823 55.000 6.85 0.00 0.00 4.79
321 322 0.812811 GGTTTCTTCGGCGTATCCCC 60.813 60.000 6.85 0.00 0.00 4.81
322 323 0.177373 AGGTTTCTTCGGCGTATCCC 59.823 55.000 6.85 0.78 0.00 3.85
323 324 2.877043 TAGGTTTCTTCGGCGTATCC 57.123 50.000 6.85 2.66 0.00 2.59
324 325 3.121544 CCTTAGGTTTCTTCGGCGTATC 58.878 50.000 6.85 0.00 0.00 2.24
325 326 2.762327 TCCTTAGGTTTCTTCGGCGTAT 59.238 45.455 6.85 0.00 0.00 3.06
326 327 2.165030 CTCCTTAGGTTTCTTCGGCGTA 59.835 50.000 6.85 0.00 0.00 4.42
327 328 0.971386 TCCTTAGGTTTCTTCGGCGT 59.029 50.000 6.85 0.00 0.00 5.68
328 329 1.641577 CTCCTTAGGTTTCTTCGGCG 58.358 55.000 0.00 0.00 0.00 6.46
329 330 1.407025 CCCTCCTTAGGTTTCTTCGGC 60.407 57.143 0.00 0.00 41.89 5.54
330 331 1.407025 GCCCTCCTTAGGTTTCTTCGG 60.407 57.143 0.00 0.00 41.89 4.30
331 332 1.555533 AGCCCTCCTTAGGTTTCTTCG 59.444 52.381 0.00 0.00 41.89 3.79
332 333 2.941860 GCAGCCCTCCTTAGGTTTCTTC 60.942 54.545 0.00 0.00 41.89 2.87
333 334 1.004862 GCAGCCCTCCTTAGGTTTCTT 59.995 52.381 0.00 0.00 41.89 2.52
334 335 0.621082 GCAGCCCTCCTTAGGTTTCT 59.379 55.000 0.00 0.00 41.89 2.52
335 336 0.744771 CGCAGCCCTCCTTAGGTTTC 60.745 60.000 0.00 0.00 41.89 2.78
336 337 1.299976 CGCAGCCCTCCTTAGGTTT 59.700 57.895 0.00 0.00 41.89 3.27
337 338 2.990479 CGCAGCCCTCCTTAGGTT 59.010 61.111 0.00 0.00 41.89 3.50
376 377 4.083862 GTGTCCACCTCTCCCCGC 62.084 72.222 0.00 0.00 0.00 6.13
406 407 4.222847 CTTCTCCCGCCGGTAGCC 62.223 72.222 1.90 0.00 38.78 3.93
407 408 4.222847 CCTTCTCCCGCCGGTAGC 62.223 72.222 1.90 0.00 38.52 3.58
408 409 2.758737 ACCTTCTCCCGCCGGTAG 60.759 66.667 1.90 0.00 0.00 3.18
409 410 3.072468 CACCTTCTCCCGCCGGTA 61.072 66.667 1.90 0.00 0.00 4.02
465 466 3.972276 CTCCTAGCCGCTCCGCTC 61.972 72.222 0.00 0.00 40.39 5.03
466 467 4.507916 TCTCCTAGCCGCTCCGCT 62.508 66.667 0.00 0.00 43.09 5.52
467 468 3.528370 TTCTCCTAGCCGCTCCGC 61.528 66.667 0.00 0.00 0.00 5.54
468 469 2.413765 GTTCTCCTAGCCGCTCCG 59.586 66.667 0.00 0.00 0.00 4.63
469 470 1.142097 GTGTTCTCCTAGCCGCTCC 59.858 63.158 0.00 0.00 0.00 4.70
470 471 1.142097 GGTGTTCTCCTAGCCGCTC 59.858 63.158 0.00 0.00 0.00 5.03
471 472 1.192146 TTGGTGTTCTCCTAGCCGCT 61.192 55.000 0.00 0.00 0.00 5.52
472 473 0.741221 CTTGGTGTTCTCCTAGCCGC 60.741 60.000 0.00 0.00 0.00 6.53
473 474 0.741221 GCTTGGTGTTCTCCTAGCCG 60.741 60.000 13.35 0.00 45.58 5.52
474 475 3.160872 GCTTGGTGTTCTCCTAGCC 57.839 57.895 13.35 0.00 45.58 3.93
475 476 0.741221 CCGCTTGGTGTTCTCCTAGC 60.741 60.000 14.00 14.00 46.94 3.42
476 477 0.741221 GCCGCTTGGTGTTCTCCTAG 60.741 60.000 0.00 0.00 34.41 3.02
477 478 1.295423 GCCGCTTGGTGTTCTCCTA 59.705 57.895 0.00 0.00 34.16 2.94
478 479 2.032681 GCCGCTTGGTGTTCTCCT 59.967 61.111 0.00 0.00 34.16 3.69
479 480 3.423154 CGCCGCTTGGTGTTCTCC 61.423 66.667 0.00 0.00 38.51 3.71
480 481 3.423154 CCGCCGCTTGGTGTTCTC 61.423 66.667 0.00 0.00 41.94 2.87
481 482 3.254024 ATCCGCCGCTTGGTGTTCT 62.254 57.895 0.00 0.00 41.94 3.01
482 483 2.746277 ATCCGCCGCTTGGTGTTC 60.746 61.111 0.00 0.00 41.94 3.18
483 484 3.055719 CATCCGCCGCTTGGTGTT 61.056 61.111 0.00 0.00 41.94 3.32
484 485 3.842925 AACATCCGCCGCTTGGTGT 62.843 57.895 0.00 0.00 41.94 4.16
485 486 2.625823 AAACATCCGCCGCTTGGTG 61.626 57.895 0.00 0.00 43.20 4.17
486 487 2.282180 AAACATCCGCCGCTTGGT 60.282 55.556 0.00 0.00 34.16 3.67
487 488 2.179018 CAAACATCCGCCGCTTGG 59.821 61.111 0.00 0.00 0.00 3.61
488 489 1.154225 GACAAACATCCGCCGCTTG 60.154 57.895 0.00 0.00 0.00 4.01
489 490 0.889186 AAGACAAACATCCGCCGCTT 60.889 50.000 0.00 0.00 0.00 4.68
490 491 0.036765 TAAGACAAACATCCGCCGCT 60.037 50.000 0.00 0.00 0.00 5.52
491 492 0.096454 GTAAGACAAACATCCGCCGC 59.904 55.000 0.00 0.00 0.00 6.53
492 493 1.434555 TGTAAGACAAACATCCGCCG 58.565 50.000 0.00 0.00 0.00 6.46
493 494 2.747446 ACATGTAAGACAAACATCCGCC 59.253 45.455 0.00 0.00 35.39 6.13
494 495 4.419522 AACATGTAAGACAAACATCCGC 57.580 40.909 0.00 0.00 35.39 5.54
495 496 5.563751 CGAAAACATGTAAGACAAACATCCG 59.436 40.000 0.00 0.00 35.39 4.18
496 497 6.435428 ACGAAAACATGTAAGACAAACATCC 58.565 36.000 0.00 0.00 35.39 3.51
497 498 7.744715 CCTACGAAAACATGTAAGACAAACATC 59.255 37.037 0.00 0.00 35.39 3.06
498 499 7.581476 CCTACGAAAACATGTAAGACAAACAT 58.419 34.615 0.00 0.00 38.08 2.71
502 503 5.302360 AGCCTACGAAAACATGTAAGACAA 58.698 37.500 0.00 0.00 0.00 3.18
634 637 2.113433 CACGACGTCTCCTCGGGAT 61.113 63.158 14.70 0.00 36.62 3.85
667 670 1.674221 GGCATATCAGTCCCGCAGATC 60.674 57.143 0.00 0.00 0.00 2.75
668 671 0.322975 GGCATATCAGTCCCGCAGAT 59.677 55.000 0.00 0.00 0.00 2.90
669 672 1.748403 GGCATATCAGTCCCGCAGA 59.252 57.895 0.00 0.00 0.00 4.26
714 720 3.541713 GCTCCACCGCCCTCTAGG 61.542 72.222 0.00 0.00 39.47 3.02
715 721 3.905678 CGCTCCACCGCCCTCTAG 61.906 72.222 0.00 0.00 0.00 2.43
750 756 2.892425 CCGACGCCATCTTGCTCC 60.892 66.667 0.00 0.00 0.00 4.70
806 812 4.493872 CGTAGCGTAACTGAGGAAGACTAC 60.494 50.000 0.00 0.00 0.00 2.73
883 895 4.884744 TCCTCTTCCTCGCATAGATATAGC 59.115 45.833 0.00 0.00 0.00 2.97
959 971 2.724977 ATTGAAAGAGCGAGACGTGA 57.275 45.000 0.00 0.00 0.00 4.35
1036 1048 4.021925 GAGCCACCGAAGCAGGGT 62.022 66.667 0.00 0.00 38.65 4.34
1066 1084 0.538287 GCCTTCTTGCTTGGTCCACT 60.538 55.000 0.00 0.00 0.00 4.00
1131 1149 0.313043 GCCATGGCGATTCCTTGATG 59.687 55.000 23.48 0.00 41.25 3.07
1133 1151 1.453745 GGCCATGGCGATTCCTTGA 60.454 57.895 29.90 0.00 41.25 3.02
1360 1379 2.873288 GCGGTAGGAGACGTCGTT 59.127 61.111 10.46 2.28 0.00 3.85
1411 1430 1.372087 CCTTCTTGATGGCCGTGCTC 61.372 60.000 0.00 0.00 0.00 4.26
1412 1431 1.377725 CCTTCTTGATGGCCGTGCT 60.378 57.895 0.00 0.00 0.00 4.40
1507 1526 2.167693 TGCGGATGTCTCGTAAATTCCT 59.832 45.455 0.00 0.00 0.00 3.36
1680 1699 1.204231 GTGAGGACGTAGAGTTTCCCC 59.796 57.143 0.00 0.00 0.00 4.81
1746 1765 1.305297 AGACCTGATGCCCTCGTCA 60.305 57.895 0.00 0.00 36.80 4.35
1797 1816 3.695060 AGTAGAACTGATACACCTCACCG 59.305 47.826 0.00 0.00 0.00 4.94
1800 1819 7.052873 GGTAGTAGTAGAACTGATACACCTCA 58.947 42.308 0.00 0.00 0.00 3.86
1842 1861 4.383861 CTCACCAGCAGCAGCCGA 62.384 66.667 0.00 0.00 43.56 5.54
1887 1906 4.617486 ACGTCGAAGCGCGTCACA 62.617 61.111 22.86 6.02 41.80 3.58
1888 1907 3.813688 GACGTCGAAGCGCGTCAC 61.814 66.667 22.86 17.23 46.45 3.67
1960 1982 0.627451 AAGAGAGCATGCCCCATCAA 59.373 50.000 15.66 0.00 0.00 2.57
2122 2144 1.155042 GCCACTGTCTGCTCTTTCAG 58.845 55.000 0.00 0.00 35.46 3.02
2153 2175 1.575244 CGACAATGCCGATGTCTCAT 58.425 50.000 10.63 0.00 43.93 2.90
2154 2176 0.460109 CCGACAATGCCGATGTCTCA 60.460 55.000 10.63 0.00 43.93 3.27
2234 2256 1.668047 GCAACTACCGACACGTAGCTT 60.668 52.381 0.00 0.00 39.53 3.74
2297 2321 2.943033 GGTCATCGTCCCAATACAAAGG 59.057 50.000 0.00 0.00 0.00 3.11
2322 2346 3.888930 CTGTTAAAACAAAGCTGGGAGGA 59.111 43.478 0.00 0.00 38.66 3.71
2323 2347 3.888930 TCTGTTAAAACAAAGCTGGGAGG 59.111 43.478 0.00 0.00 38.66 4.30
2325 2349 5.654650 TCTTTCTGTTAAAACAAAGCTGGGA 59.345 36.000 0.00 0.00 38.66 4.37
2333 2357 7.566760 TGATCTGCTCTTTCTGTTAAAACAA 57.433 32.000 0.00 0.00 38.66 2.83
2342 2366 6.679327 TTCATCAATGATCTGCTCTTTCTG 57.321 37.500 0.00 0.00 36.56 3.02
2363 2387 7.276438 GGGAATGCATTTGACTCACTTTATTTC 59.724 37.037 14.33 0.00 0.00 2.17
2458 2483 3.522343 ACCCCCTTTGTACTCATTCTACC 59.478 47.826 0.00 0.00 0.00 3.18
2525 2550 0.545646 GCATCCCCTTCTCTCTGCTT 59.454 55.000 0.00 0.00 0.00 3.91
2555 2580 4.649674 GGTCTAGTTGTGATGTATCCTCCA 59.350 45.833 0.00 0.00 0.00 3.86
2657 2682 0.806102 GGCGTTATCTTGCGAGCTCA 60.806 55.000 15.40 0.00 0.00 4.26
2881 2906 2.311688 AATTCCGGACTAGGCGGCTG 62.312 60.000 23.55 13.95 0.00 4.85
2915 2940 3.564053 TGGTAGTTCCGACCAACTTTT 57.436 42.857 0.00 0.00 44.08 2.27
3032 3060 1.056700 CCAGCCCTACCCTGTATGCT 61.057 60.000 0.00 0.00 0.00 3.79
3068 3096 3.859414 GCCCCAGATCTGCTCGCT 61.859 66.667 17.76 0.00 0.00 4.93
3117 3146 3.797353 GGATCTGCGCCCCTCCAA 61.797 66.667 4.18 0.00 0.00 3.53



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

AutoCloner maintained by Alex Coulton.