Multiple sequence alignment - TraesCS6B01G048500

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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 TraesCS6B01G048500 chr6B 100.000 2438 0 0 1 2438 28514399 28511962 0.000000e+00 4503
1 TraesCS6B01G048500 chr6B 85.853 1647 114 58 99 1671 28721557 28723158 0.000000e+00 1640
2 TraesCS6B01G048500 chr6B 87.654 1053 70 31 666 1671 28942206 28943245 0.000000e+00 1170
3 TraesCS6B01G048500 chr6B 88.288 888 80 14 685 1556 59298737 59299616 0.000000e+00 1042
4 TraesCS6B01G048500 chr6B 84.411 1052 92 42 736 1744 29044506 29045528 0.000000e+00 968
5 TraesCS6B01G048500 chr6B 90.076 262 21 4 2169 2425 29045832 29046093 3.880000e-88 335
6 TraesCS6B01G048500 chr6B 82.124 386 45 18 1922 2300 28943317 28943685 2.350000e-80 309
7 TraesCS6B01G048500 chr6B 81.865 386 44 19 1922 2300 28723230 28723596 3.940000e-78 302
8 TraesCS6B01G048500 chr6B 86.454 251 28 5 1880 2130 29045585 29045829 1.110000e-68 270
9 TraesCS6B01G048500 chr6B 79.535 215 29 4 302 501 28940735 28940949 3.270000e-29 139
10 TraesCS6B01G048500 chr6D 87.272 1642 131 42 746 2334 16386780 16385164 0.000000e+00 1803
11 TraesCS6B01G048500 chr6D 85.963 1090 84 31 715 1752 16514334 16515406 0.000000e+00 1101
12 TraesCS6B01G048500 chr6D 89.513 267 23 5 2176 2438 16515765 16516030 1.400000e-87 333
13 TraesCS6B01G048500 chr6A 88.458 1031 83 19 722 1723 16656002 16654979 0.000000e+00 1212
14 TraesCS6B01G048500 chr6A 84.022 1114 96 31 701 1754 16705057 16706148 0.000000e+00 996
15 TraesCS6B01G048500 chr6A 85.417 720 74 24 1730 2432 16654901 16654196 0.000000e+00 719
16 TraesCS6B01G048500 chr6A 85.657 251 30 5 1880 2130 16706247 16706491 2.400000e-65 259
17 TraesCS6B01G048500 chr6A 88.462 208 18 5 2169 2372 16706494 16706699 1.870000e-61 246
18 TraesCS6B01G048500 chr3A 86.386 999 78 36 710 1671 66253793 66254770 0.000000e+00 1038
19 TraesCS6B01G048500 chr3A 87.153 288 28 7 2157 2438 66254986 66255270 3.910000e-83 318
20 TraesCS6B01G048500 chr1B 83.779 1048 97 40 735 1752 587501545 587500541 0.000000e+00 926
21 TraesCS6B01G048500 chrUn 92.073 328 21 4 1488 1812 163376400 163376725 7.950000e-125 457


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 TraesCS6B01G048500 chr6B 28511962 28514399 2437 True 4503.000000 4503 100.000000 1 2438 1 chr6B.!!$R1 2437
1 TraesCS6B01G048500 chr6B 59298737 59299616 879 False 1042.000000 1042 88.288000 685 1556 1 chr6B.!!$F1 871
2 TraesCS6B01G048500 chr6B 28721557 28723596 2039 False 971.000000 1640 83.859000 99 2300 2 chr6B.!!$F2 2201
3 TraesCS6B01G048500 chr6B 28940735 28943685 2950 False 539.333333 1170 83.104333 302 2300 3 chr6B.!!$F3 1998
4 TraesCS6B01G048500 chr6B 29044506 29046093 1587 False 524.333333 968 86.980333 736 2425 3 chr6B.!!$F4 1689
5 TraesCS6B01G048500 chr6D 16385164 16386780 1616 True 1803.000000 1803 87.272000 746 2334 1 chr6D.!!$R1 1588
6 TraesCS6B01G048500 chr6D 16514334 16516030 1696 False 717.000000 1101 87.738000 715 2438 2 chr6D.!!$F1 1723
7 TraesCS6B01G048500 chr6A 16654196 16656002 1806 True 965.500000 1212 86.937500 722 2432 2 chr6A.!!$R1 1710
8 TraesCS6B01G048500 chr6A 16705057 16706699 1642 False 500.333333 996 86.047000 701 2372 3 chr6A.!!$F1 1671
9 TraesCS6B01G048500 chr3A 66253793 66255270 1477 False 678.000000 1038 86.769500 710 2438 2 chr3A.!!$F1 1728
10 TraesCS6B01G048500 chr1B 587500541 587501545 1004 True 926.000000 926 83.779000 735 1752 1 chr1B.!!$R1 1017

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
963 2164 0.044702 TCCCACCTCACATCCCATCT 59.955 55.0 0.0 0.0 0.0 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2387 3907 0.322456 CAAATGAGGAACCGCTCCCA 60.322 55.0 0.0 0.0 46.81 4.37 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
26 27 2.772739 AGCGCAGATGGCTTGTTAG 58.227 52.632 11.47 0.00 37.50 2.34
27 28 0.745845 AGCGCAGATGGCTTGTTAGG 60.746 55.000 11.47 0.00 37.50 2.69
28 29 1.718757 GCGCAGATGGCTTGTTAGGG 61.719 60.000 0.30 0.00 41.67 3.53
29 30 1.097547 CGCAGATGGCTTGTTAGGGG 61.098 60.000 0.00 0.00 41.67 4.79
30 31 0.753111 GCAGATGGCTTGTTAGGGGG 60.753 60.000 0.00 0.00 40.25 5.40
45 46 3.400188 GGGGGTTGACCGAGTCAT 58.600 61.111 7.43 0.00 42.40 3.06
46 47 1.078426 GGGGGTTGACCGAGTCATG 60.078 63.158 7.43 0.00 42.40 3.07
47 48 1.078426 GGGGTTGACCGAGTCATGG 60.078 63.158 7.43 0.00 42.40 3.66
48 49 1.078426 GGGTTGACCGAGTCATGGG 60.078 63.158 7.43 0.00 42.40 4.00
49 50 1.078426 GGTTGACCGAGTCATGGGG 60.078 63.158 7.43 0.00 42.40 4.96
50 51 1.745489 GTTGACCGAGTCATGGGGC 60.745 63.158 7.43 0.00 42.40 5.80
51 52 2.966732 TTGACCGAGTCATGGGGCC 61.967 63.158 0.00 0.00 42.40 5.80
52 53 3.083997 GACCGAGTCATGGGGCCT 61.084 66.667 0.84 0.00 32.09 5.19
53 54 3.391665 GACCGAGTCATGGGGCCTG 62.392 68.421 0.84 0.00 32.09 4.85
54 55 4.181010 CCGAGTCATGGGGCCTGG 62.181 72.222 0.84 0.00 0.00 4.45
55 56 3.083349 CGAGTCATGGGGCCTGGA 61.083 66.667 0.84 0.00 0.00 3.86
56 57 2.914289 GAGTCATGGGGCCTGGAG 59.086 66.667 0.84 0.00 0.00 3.86
57 58 2.693864 AGTCATGGGGCCTGGAGG 60.694 66.667 0.84 0.00 38.53 4.30
58 59 3.813724 GTCATGGGGCCTGGAGGG 61.814 72.222 0.84 0.00 35.18 4.30
59 60 4.369591 TCATGGGGCCTGGAGGGT 62.370 66.667 0.84 0.00 37.43 4.34
60 61 4.133373 CATGGGGCCTGGAGGGTG 62.133 72.222 0.84 0.00 37.43 4.61
61 62 4.369591 ATGGGGCCTGGAGGGTGA 62.370 66.667 0.84 0.00 37.43 4.02
65 66 2.936032 GGCCTGGAGGGTGAGGTT 60.936 66.667 0.00 0.00 37.43 3.50
66 67 2.539081 GGCCTGGAGGGTGAGGTTT 61.539 63.158 0.00 0.00 37.43 3.27
67 68 1.460699 GCCTGGAGGGTGAGGTTTT 59.539 57.895 0.00 0.00 37.43 2.43
68 69 0.609406 GCCTGGAGGGTGAGGTTTTC 60.609 60.000 0.00 0.00 37.43 2.29
69 70 0.321653 CCTGGAGGGTGAGGTTTTCG 60.322 60.000 0.00 0.00 0.00 3.46
70 71 0.321653 CTGGAGGGTGAGGTTTTCGG 60.322 60.000 0.00 0.00 0.00 4.30
71 72 1.057851 TGGAGGGTGAGGTTTTCGGT 61.058 55.000 0.00 0.00 0.00 4.69
72 73 0.605589 GGAGGGTGAGGTTTTCGGTG 60.606 60.000 0.00 0.00 0.00 4.94
73 74 0.395312 GAGGGTGAGGTTTTCGGTGA 59.605 55.000 0.00 0.00 0.00 4.02
74 75 0.841289 AGGGTGAGGTTTTCGGTGAA 59.159 50.000 0.00 0.00 0.00 3.18
75 76 1.213430 AGGGTGAGGTTTTCGGTGAAA 59.787 47.619 0.00 0.00 0.00 2.69
76 77 1.607148 GGGTGAGGTTTTCGGTGAAAG 59.393 52.381 0.00 0.00 32.93 2.62
77 78 1.001706 GGTGAGGTTTTCGGTGAAAGC 60.002 52.381 0.00 0.00 37.30 3.51
85 86 3.423154 CGGTGAAAGCCGTGCTCC 61.423 66.667 0.00 0.00 46.11 4.70
86 87 3.423154 GGTGAAAGCCGTGCTCCG 61.423 66.667 0.00 0.00 38.25 4.63
87 88 2.357034 GTGAAAGCCGTGCTCCGA 60.357 61.111 0.00 0.00 38.25 4.55
88 89 2.357034 TGAAAGCCGTGCTCCGAC 60.357 61.111 0.00 0.00 38.25 4.79
89 90 3.479269 GAAAGCCGTGCTCCGACG 61.479 66.667 0.00 0.00 38.25 5.12
90 91 3.909258 GAAAGCCGTGCTCCGACGA 62.909 63.158 0.00 0.00 42.10 4.20
91 92 3.296709 AAAGCCGTGCTCCGACGAT 62.297 57.895 0.00 0.00 42.10 3.73
92 93 3.989698 AAGCCGTGCTCCGACGATG 62.990 63.158 0.00 0.00 42.10 3.84
94 95 4.129737 CCGTGCTCCGACGATGGT 62.130 66.667 0.00 0.00 42.10 3.55
95 96 2.880879 CGTGCTCCGACGATGGTG 60.881 66.667 0.00 0.00 42.10 4.17
96 97 3.188786 GTGCTCCGACGATGGTGC 61.189 66.667 14.71 14.71 46.22 5.01
97 98 4.451150 TGCTCCGACGATGGTGCC 62.451 66.667 17.47 5.35 45.62 5.01
100 101 1.519455 CTCCGACGATGGTGCCTTC 60.519 63.158 0.00 0.00 0.00 3.46
115 116 0.745845 CCTTCGAGGCATCAAGGTGG 60.746 60.000 16.54 1.36 33.00 4.61
123 124 1.134371 GGCATCAAGGTGGTAGTCCTC 60.134 57.143 0.00 0.00 33.76 3.71
129 130 3.323979 TCAAGGTGGTAGTCCTCACTTTC 59.676 47.826 0.00 0.00 32.16 2.62
135 136 2.537143 GTAGTCCTCACTTTCCCTCCA 58.463 52.381 0.00 0.00 33.62 3.86
137 138 0.615850 GTCCTCACTTTCCCTCCAGG 59.384 60.000 0.00 0.00 0.00 4.45
138 139 0.193574 TCCTCACTTTCCCTCCAGGT 59.806 55.000 0.00 0.00 36.75 4.00
147 148 0.333993 TCCCTCCAGGTAAGCTACGT 59.666 55.000 0.00 0.00 36.75 3.57
148 149 0.460311 CCCTCCAGGTAAGCTACGTG 59.540 60.000 0.00 0.00 42.48 4.49
154 155 2.618053 CAGGTAAGCTACGTGGGAAAG 58.382 52.381 0.00 0.00 40.00 2.62
155 156 2.028385 CAGGTAAGCTACGTGGGAAAGT 60.028 50.000 0.00 0.00 40.00 2.66
185 187 0.542333 TTACCGAATTGGGCGATGGA 59.458 50.000 6.38 0.00 44.64 3.41
187 189 0.322997 ACCGAATTGGGCGATGGAAA 60.323 50.000 6.38 0.00 44.64 3.13
203 205 4.935352 TGGAAACATTGTTAGCTTTGCT 57.065 36.364 1.76 0.00 37.94 3.91
205 207 5.049167 TGGAAACATTGTTAGCTTTGCTTG 58.951 37.500 1.76 0.00 36.07 4.01
206 208 4.448732 GGAAACATTGTTAGCTTTGCTTGG 59.551 41.667 1.76 0.00 40.44 3.61
208 210 2.629617 ACATTGTTAGCTTTGCTTGGCT 59.370 40.909 0.00 0.00 40.44 4.75
210 212 3.817709 TTGTTAGCTTTGCTTGGCTTT 57.182 38.095 0.00 0.00 40.44 3.51
211 213 3.096489 TGTTAGCTTTGCTTGGCTTTG 57.904 42.857 0.00 0.00 40.44 2.77
212 214 1.794701 GTTAGCTTTGCTTGGCTTTGC 59.205 47.619 0.00 0.00 40.44 3.68
213 215 1.039068 TAGCTTTGCTTGGCTTTGCA 58.961 45.000 0.00 0.00 40.44 4.08
214 216 0.531311 AGCTTTGCTTGGCTTTGCAC 60.531 50.000 0.00 0.00 39.05 4.57
215 217 0.810823 GCTTTGCTTGGCTTTGCACA 60.811 50.000 0.00 0.00 39.05 4.57
216 218 0.932399 CTTTGCTTGGCTTTGCACAC 59.068 50.000 0.00 0.00 39.05 3.82
217 219 0.248565 TTTGCTTGGCTTTGCACACA 59.751 45.000 0.00 0.00 39.05 3.72
218 220 0.464870 TTGCTTGGCTTTGCACACAT 59.535 45.000 0.00 0.00 39.05 3.21
219 221 0.464870 TGCTTGGCTTTGCACACATT 59.535 45.000 0.00 0.00 33.94 2.71
220 222 1.142474 GCTTGGCTTTGCACACATTC 58.858 50.000 0.00 0.00 0.00 2.67
221 223 1.411394 CTTGGCTTTGCACACATTCG 58.589 50.000 0.00 0.00 0.00 3.34
222 224 0.743688 TTGGCTTTGCACACATTCGT 59.256 45.000 0.00 0.00 0.00 3.85
223 225 0.310543 TGGCTTTGCACACATTCGTC 59.689 50.000 0.00 0.00 0.00 4.20
229 231 1.511850 TGCACACATTCGTCCTTGAG 58.488 50.000 0.00 0.00 0.00 3.02
240 242 1.534729 GTCCTTGAGGGCATCGTTTT 58.465 50.000 0.00 0.00 40.23 2.43
242 244 0.527565 CCTTGAGGGCATCGTTTTGG 59.472 55.000 0.00 0.00 0.00 3.28
246 248 1.657751 GAGGGCATCGTTTTGGAGGC 61.658 60.000 0.00 0.00 42.62 4.70
273 281 4.021925 AGGGGACTCGTGGCTTGC 62.022 66.667 0.00 0.00 32.90 4.01
311 319 0.458025 CTAGAGTGGTTTCGCCCGTC 60.458 60.000 0.00 0.00 36.04 4.79
327 335 1.303317 GTCTGGCGAACATGGGGTT 60.303 57.895 0.00 0.00 44.10 4.11
328 336 1.303236 TCTGGCGAACATGGGGTTG 60.303 57.895 0.00 0.00 40.63 3.77
331 339 1.602323 GGCGAACATGGGGTTGACA 60.602 57.895 0.00 0.00 40.63 3.58
337 345 3.427909 CGAACATGGGGTTGACAATGATG 60.428 47.826 0.00 0.00 40.63 3.07
342 350 4.044946 TGGGGTTGACAATGATGATTCA 57.955 40.909 0.00 0.00 36.00 2.57
354 362 0.258484 ATGATTCATTGGCGGTGGGA 59.742 50.000 0.00 0.00 0.00 4.37
367 375 0.105039 GGTGGGAAGTAGGAGCATCG 59.895 60.000 0.00 0.00 34.37 3.84
378 386 1.276138 AGGAGCATCGTTCACATGTGA 59.724 47.619 24.56 24.56 34.67 3.58
380 388 2.341257 GAGCATCGTTCACATGTGAGT 58.659 47.619 26.48 12.76 41.13 3.41
389 399 0.943835 CACATGTGAGTTGCGTCGGA 60.944 55.000 21.64 0.00 0.00 4.55
391 401 1.203758 ACATGTGAGTTGCGTCGGATA 59.796 47.619 0.00 0.00 0.00 2.59
399 409 1.436195 TTGCGTCGGATAAGCCATGC 61.436 55.000 0.00 0.00 35.94 4.06
411 421 2.036098 CCATGCCAGCCAACCTCA 59.964 61.111 0.00 0.00 0.00 3.86
422 432 1.681780 GCCAACCTCATGGGATCGAAA 60.682 52.381 0.00 0.00 41.01 3.46
424 434 2.356125 CCAACCTCATGGGATCGAAACT 60.356 50.000 0.00 0.00 36.79 2.66
429 439 2.289820 CTCATGGGATCGAAACTGCATG 59.710 50.000 0.00 0.00 0.00 4.06
431 441 3.118445 TCATGGGATCGAAACTGCATGTA 60.118 43.478 0.00 0.00 0.00 2.29
442 453 6.533723 TCGAAACTGCATGTATTCGACTTATT 59.466 34.615 15.37 0.00 45.94 1.40
450 461 7.384932 TGCATGTATTCGACTTATTGGACATAG 59.615 37.037 0.00 0.00 0.00 2.23
451 462 7.385205 GCATGTATTCGACTTATTGGACATAGT 59.615 37.037 0.00 0.00 0.00 2.12
501 527 2.469516 CCCGGACTAATGCAACGGC 61.470 63.158 0.73 0.00 42.99 5.68
505 531 1.739067 GGACTAATGCAACGGCTCTT 58.261 50.000 0.00 0.00 41.91 2.85
610 1255 0.627451 TTGAGCATCCTCCAGCCAAT 59.373 50.000 0.00 0.00 37.29 3.16
612 1257 0.106819 GAGCATCCTCCAGCCAATGT 60.107 55.000 0.00 0.00 31.68 2.71
614 1259 1.779092 AGCATCCTCCAGCCAATGTAT 59.221 47.619 0.00 0.00 0.00 2.29
615 1260 2.176364 AGCATCCTCCAGCCAATGTATT 59.824 45.455 0.00 0.00 0.00 1.89
616 1261 2.961062 GCATCCTCCAGCCAATGTATTT 59.039 45.455 0.00 0.00 0.00 1.40
623 1783 3.018856 CCAGCCAATGTATTTCTCTGCA 58.981 45.455 0.00 0.00 0.00 4.41
648 1808 0.108992 CGGTATGTACACGGTGCTGT 60.109 55.000 8.30 0.00 0.00 4.40
649 1809 1.355971 GGTATGTACACGGTGCTGTG 58.644 55.000 8.30 9.39 45.41 3.66
816 2001 0.739462 CAAGCATCACCGAACGGCTA 60.739 55.000 13.32 1.94 39.32 3.93
850 2035 1.455773 ATCGATCCGAGGCACCAGA 60.456 57.895 0.00 0.00 39.91 3.86
948 2149 2.124612 CACAGCATCCGCATCCCA 60.125 61.111 0.00 0.00 42.27 4.37
961 2162 0.848735 CATCCCACCTCACATCCCAT 59.151 55.000 0.00 0.00 0.00 4.00
963 2164 0.044702 TCCCACCTCACATCCCATCT 59.955 55.000 0.00 0.00 0.00 2.90
965 2166 0.471617 CCACCTCACATCCCATCTCC 59.528 60.000 0.00 0.00 0.00 3.71
985 2191 2.029073 ACACGCTCGAACCACCAG 59.971 61.111 0.00 0.00 0.00 4.00
988 2196 3.114616 CGCTCGAACCACCAGCAG 61.115 66.667 0.00 0.00 32.27 4.24
1479 2704 0.107066 TCATGAACTGATGGCGGCAT 60.107 50.000 26.11 26.11 0.00 4.40
1522 2769 2.806608 AAGAATTGTGCTGCTTGTGG 57.193 45.000 0.00 0.00 0.00 4.17
1594 2871 2.983803 GTGTCGCTTCAGACTCTTCTTC 59.016 50.000 0.00 0.00 41.47 2.87
1611 2888 2.227865 TCTTCCTGCCGTTTGTTTATGC 59.772 45.455 0.00 0.00 0.00 3.14
1615 2892 1.269448 CTGCCGTTTGTTTATGCCAGT 59.731 47.619 0.00 0.00 0.00 4.00
1636 2930 7.275999 GCCAGTAAGTTTCTACTGTGATAGTTC 59.724 40.741 9.30 0.00 44.93 3.01
1671 2968 5.581126 TTTGCTGCCATTTTATCTACTGG 57.419 39.130 0.00 0.00 0.00 4.00
1756 3213 9.346725 CTATTTGAAGTTTGAAATTCTGTAGGC 57.653 33.333 5.65 0.00 34.37 3.93
1758 3215 6.707440 TGAAGTTTGAAATTCTGTAGGCAA 57.293 33.333 5.65 0.00 34.37 4.52
1760 3217 7.725251 TGAAGTTTGAAATTCTGTAGGCAAAT 58.275 30.769 5.65 0.00 34.37 2.32
1765 3222 8.437742 GTTTGAAATTCTGTAGGCAAATTCATG 58.562 33.333 0.00 0.00 0.00 3.07
1766 3223 6.632909 TGAAATTCTGTAGGCAAATTCATGG 58.367 36.000 0.00 0.00 0.00 3.66
1767 3224 5.603170 AATTCTGTAGGCAAATTCATGGG 57.397 39.130 0.00 0.00 0.00 4.00
1771 3228 4.019174 CTGTAGGCAAATTCATGGGACTT 58.981 43.478 0.00 0.00 0.00 3.01
1772 3229 4.415596 TGTAGGCAAATTCATGGGACTTT 58.584 39.130 0.00 0.00 0.00 2.66
1773 3230 3.967332 AGGCAAATTCATGGGACTTTG 57.033 42.857 0.00 0.00 43.01 2.77
1777 3234 4.261578 CAAATTCATGGGACTTTGCAGT 57.738 40.909 0.00 0.00 37.03 4.40
1778 3235 4.634199 CAAATTCATGGGACTTTGCAGTT 58.366 39.130 0.00 0.00 37.03 3.16
1779 3236 3.947910 ATTCATGGGACTTTGCAGTTG 57.052 42.857 0.00 0.00 31.22 3.16
1780 3237 2.363306 TCATGGGACTTTGCAGTTGT 57.637 45.000 0.00 0.00 31.22 3.32
1781 3238 2.665165 TCATGGGACTTTGCAGTTGTT 58.335 42.857 0.00 0.00 31.22 2.83
1782 3239 3.030291 TCATGGGACTTTGCAGTTGTTT 58.970 40.909 0.00 0.00 31.22 2.83
1783 3240 4.211125 TCATGGGACTTTGCAGTTGTTTA 58.789 39.130 0.00 0.00 31.22 2.01
1784 3241 4.832266 TCATGGGACTTTGCAGTTGTTTAT 59.168 37.500 0.00 0.00 31.22 1.40
1785 3242 4.582701 TGGGACTTTGCAGTTGTTTATG 57.417 40.909 0.00 0.00 31.22 1.90
1786 3243 3.957497 TGGGACTTTGCAGTTGTTTATGT 59.043 39.130 0.00 0.00 31.22 2.29
1787 3244 4.202101 TGGGACTTTGCAGTTGTTTATGTG 60.202 41.667 0.00 0.00 31.22 3.21
1788 3245 4.202111 GGGACTTTGCAGTTGTTTATGTGT 60.202 41.667 0.00 0.00 31.22 3.72
1789 3246 5.348164 GGACTTTGCAGTTGTTTATGTGTT 58.652 37.500 0.00 0.00 31.22 3.32
1790 3247 5.231991 GGACTTTGCAGTTGTTTATGTGTTG 59.768 40.000 0.00 0.00 31.22 3.33
1791 3248 5.719173 ACTTTGCAGTTGTTTATGTGTTGT 58.281 33.333 0.00 0.00 0.00 3.32
1792 3249 6.162777 ACTTTGCAGTTGTTTATGTGTTGTT 58.837 32.000 0.00 0.00 0.00 2.83
1838 3298 8.262933 AGGTGCGTAAGTTTTCTTAACCTATAT 58.737 33.333 7.60 0.00 43.56 0.86
1839 3299 9.533253 GGTGCGTAAGTTTTCTTAACCTATATA 57.467 33.333 0.00 0.00 42.99 0.86
1860 3320 6.688637 ATAGTTTTTCTTAACCCATACGGC 57.311 37.500 0.00 0.00 33.26 5.68
1861 3321 4.400120 AGTTTTTCTTAACCCATACGGCA 58.600 39.130 0.00 0.00 33.26 5.69
1862 3322 4.828387 AGTTTTTCTTAACCCATACGGCAA 59.172 37.500 0.00 0.00 33.26 4.52
1867 3327 3.516300 TCTTAACCCATACGGCAAGAAGA 59.484 43.478 0.00 0.00 34.55 2.87
1868 3328 2.403252 AACCCATACGGCAAGAAGAG 57.597 50.000 0.00 0.00 33.26 2.85
1869 3329 1.568504 ACCCATACGGCAAGAAGAGA 58.431 50.000 0.00 0.00 33.26 3.10
1870 3330 1.906574 ACCCATACGGCAAGAAGAGAA 59.093 47.619 0.00 0.00 33.26 2.87
1873 3333 2.607187 CATACGGCAAGAAGAGAACGT 58.393 47.619 0.00 0.00 38.23 3.99
1874 3334 3.428452 CCATACGGCAAGAAGAGAACGTA 60.428 47.826 0.00 0.00 40.43 3.57
1875 3335 4.360563 CATACGGCAAGAAGAGAACGTAT 58.639 43.478 0.00 0.00 45.07 3.06
1876 3336 2.607187 ACGGCAAGAAGAGAACGTATG 58.393 47.619 0.00 0.00 32.30 2.39
1877 3337 2.029290 ACGGCAAGAAGAGAACGTATGT 60.029 45.455 0.00 0.00 32.30 2.29
1878 3338 2.345641 CGGCAAGAAGAGAACGTATGTG 59.654 50.000 0.00 0.00 0.00 3.21
1892 3352 8.149973 AGAACGTATGTGTTGTTATTTTCTGT 57.850 30.769 0.00 0.00 30.75 3.41
1967 3428 3.273919 CAAGAACAGCTTGCCAACTAC 57.726 47.619 0.00 0.00 46.67 2.73
2027 3488 6.991531 AGCTTCTTGAGATAAATTAGAGGCTG 59.008 38.462 7.68 0.00 43.73 4.85
2034 3495 6.543831 TGAGATAAATTAGAGGCTGCTTTTCC 59.456 38.462 0.00 0.00 0.00 3.13
2037 3502 2.496899 TTAGAGGCTGCTTTTCCCAG 57.503 50.000 0.00 0.00 0.00 4.45
2041 3506 1.963515 GAGGCTGCTTTTCCCAGAAAA 59.036 47.619 0.00 2.78 32.03 2.29
2179 3657 4.843728 TGAGTTGAGACACCTGAGTTTTT 58.156 39.130 0.00 0.00 0.00 1.94
2252 3763 6.721571 ACTACACTTGGTAATTTGTGATCG 57.278 37.500 0.00 0.00 34.81 3.69
2254 3765 3.818210 ACACTTGGTAATTTGTGATCGCA 59.182 39.130 4.45 4.45 34.81 5.10
2372 3892 1.270550 GGCAAGAACCATTCACCACTG 59.729 52.381 0.00 0.00 0.00 3.66
2376 3896 1.586154 GAACCATTCACCACTGGCCG 61.586 60.000 0.00 0.00 35.88 6.13
2387 3907 0.035439 CACTGGCCGTCTTTGGGTAT 60.035 55.000 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.915614 AACAAGCCATCTGCGCTTCG 61.916 55.000 9.73 0.00 44.65 3.79
6 7 1.063174 CTAACAAGCCATCTGCGCTTC 59.937 52.381 9.73 0.00 44.65 3.86
11 12 0.753111 CCCCCTAACAAGCCATCTGC 60.753 60.000 0.00 0.00 41.71 4.26
12 13 3.502164 CCCCCTAACAAGCCATCTG 57.498 57.895 0.00 0.00 0.00 2.90
28 29 1.078426 CATGACTCGGTCAACCCCC 60.078 63.158 10.17 0.00 45.96 5.40
29 30 1.078426 CCATGACTCGGTCAACCCC 60.078 63.158 10.17 0.00 45.96 4.95
30 31 1.078426 CCCATGACTCGGTCAACCC 60.078 63.158 10.17 0.00 45.96 4.11
31 32 1.078426 CCCCATGACTCGGTCAACC 60.078 63.158 10.17 0.00 45.96 3.77
32 33 1.745489 GCCCCATGACTCGGTCAAC 60.745 63.158 10.17 0.00 45.96 3.18
33 34 2.668632 GCCCCATGACTCGGTCAA 59.331 61.111 10.17 0.00 45.96 3.18
34 35 3.399181 GGCCCCATGACTCGGTCA 61.399 66.667 8.81 8.81 46.90 4.02
35 36 3.083997 AGGCCCCATGACTCGGTC 61.084 66.667 0.00 0.00 0.00 4.79
36 37 3.402681 CAGGCCCCATGACTCGGT 61.403 66.667 0.00 0.00 0.00 4.69
37 38 4.181010 CCAGGCCCCATGACTCGG 62.181 72.222 0.00 0.00 0.00 4.63
38 39 3.083349 TCCAGGCCCCATGACTCG 61.083 66.667 0.00 0.00 0.00 4.18
39 40 2.750657 CCTCCAGGCCCCATGACTC 61.751 68.421 0.00 0.00 0.00 3.36
40 41 2.693864 CCTCCAGGCCCCATGACT 60.694 66.667 0.00 0.00 0.00 3.41
41 42 3.813724 CCCTCCAGGCCCCATGAC 61.814 72.222 0.00 0.00 0.00 3.06
42 43 4.369591 ACCCTCCAGGCCCCATGA 62.370 66.667 0.00 0.00 40.58 3.07
43 44 4.133373 CACCCTCCAGGCCCCATG 62.133 72.222 0.00 0.00 40.58 3.66
44 45 4.369591 TCACCCTCCAGGCCCCAT 62.370 66.667 0.00 0.00 40.58 4.00
48 49 2.081585 AAAACCTCACCCTCCAGGCC 62.082 60.000 0.00 0.00 40.58 5.19
49 50 0.609406 GAAAACCTCACCCTCCAGGC 60.609 60.000 0.00 0.00 40.58 4.85
50 51 0.321653 CGAAAACCTCACCCTCCAGG 60.322 60.000 0.00 0.00 43.78 4.45
51 52 0.321653 CCGAAAACCTCACCCTCCAG 60.322 60.000 0.00 0.00 0.00 3.86
52 53 1.057851 ACCGAAAACCTCACCCTCCA 61.058 55.000 0.00 0.00 0.00 3.86
53 54 0.605589 CACCGAAAACCTCACCCTCC 60.606 60.000 0.00 0.00 0.00 4.30
54 55 0.395312 TCACCGAAAACCTCACCCTC 59.605 55.000 0.00 0.00 0.00 4.30
55 56 0.841289 TTCACCGAAAACCTCACCCT 59.159 50.000 0.00 0.00 0.00 4.34
56 57 1.607148 CTTTCACCGAAAACCTCACCC 59.393 52.381 0.00 0.00 30.84 4.61
57 58 1.001706 GCTTTCACCGAAAACCTCACC 60.002 52.381 0.00 0.00 30.84 4.02
58 59 1.001706 GGCTTTCACCGAAAACCTCAC 60.002 52.381 2.37 0.00 35.59 3.51
59 60 1.314730 GGCTTTCACCGAAAACCTCA 58.685 50.000 2.37 0.00 35.59 3.86
69 70 3.423154 CGGAGCACGGCTTTCACC 61.423 66.667 0.00 0.00 39.88 4.02
70 71 2.357034 TCGGAGCACGGCTTTCAC 60.357 61.111 0.00 0.00 39.88 3.18
71 72 2.357034 GTCGGAGCACGGCTTTCA 60.357 61.111 0.00 0.00 45.50 2.69
77 78 4.129737 ACCATCGTCGGAGCACGG 62.130 66.667 0.96 0.00 44.45 4.94
78 79 2.880879 CACCATCGTCGGAGCACG 60.881 66.667 0.00 0.00 46.11 5.34
79 80 3.188786 GCACCATCGTCGGAGCAC 61.189 66.667 9.58 0.00 41.75 4.40
80 81 4.451150 GGCACCATCGTCGGAGCA 62.451 66.667 14.63 0.00 43.69 4.26
81 82 3.665675 AAGGCACCATCGTCGGAGC 62.666 63.158 6.72 6.72 41.44 4.70
82 83 1.519455 GAAGGCACCATCGTCGGAG 60.519 63.158 0.00 0.00 0.00 4.63
83 84 2.577059 GAAGGCACCATCGTCGGA 59.423 61.111 0.00 0.00 0.00 4.55
84 85 2.885644 CGAAGGCACCATCGTCGG 60.886 66.667 6.16 0.00 34.22 4.79
85 86 1.874019 CTCGAAGGCACCATCGTCG 60.874 63.158 13.37 5.24 38.91 5.12
86 87 1.519455 CCTCGAAGGCACCATCGTC 60.519 63.158 13.37 0.00 38.91 4.20
87 88 2.579201 CCTCGAAGGCACCATCGT 59.421 61.111 13.37 0.00 38.91 3.73
96 97 0.745845 CCACCTTGATGCCTCGAAGG 60.746 60.000 14.26 14.26 41.85 3.46
97 98 0.036010 ACCACCTTGATGCCTCGAAG 60.036 55.000 0.00 0.00 0.00 3.79
100 101 0.537188 ACTACCACCTTGATGCCTCG 59.463 55.000 0.00 0.00 0.00 4.63
105 106 2.834549 AGTGAGGACTACCACCTTGATG 59.165 50.000 0.00 0.00 37.93 3.07
106 107 3.191888 AGTGAGGACTACCACCTTGAT 57.808 47.619 0.00 0.00 37.93 2.57
115 116 2.498078 CTGGAGGGAAAGTGAGGACTAC 59.502 54.545 0.00 0.00 0.00 2.73
123 124 1.630878 AGCTTACCTGGAGGGAAAGTG 59.369 52.381 0.00 0.00 37.63 3.16
129 130 0.460311 CACGTAGCTTACCTGGAGGG 59.540 60.000 0.00 0.00 40.27 4.30
135 136 2.233186 GACTTTCCCACGTAGCTTACCT 59.767 50.000 0.00 0.00 0.00 3.08
137 138 3.589495 AGACTTTCCCACGTAGCTTAC 57.411 47.619 0.00 0.00 0.00 2.34
138 139 4.592942 TCTAGACTTTCCCACGTAGCTTA 58.407 43.478 0.00 0.00 0.00 3.09
147 148 2.544844 ACCGGATCTAGACTTTCCCA 57.455 50.000 9.46 0.00 0.00 4.37
148 149 3.069300 GGTAACCGGATCTAGACTTTCCC 59.931 52.174 9.46 0.00 0.00 3.97
154 155 4.296690 CAATTCGGTAACCGGATCTAGAC 58.703 47.826 9.46 0.00 45.57 2.59
155 156 3.319972 CCAATTCGGTAACCGGATCTAGA 59.680 47.826 9.46 0.00 45.57 2.43
176 178 2.479560 GCTAACAATGTTTCCATCGCCC 60.480 50.000 3.17 0.00 0.00 6.13
180 182 5.473039 AGCAAAGCTAACAATGTTTCCATC 58.527 37.500 3.17 0.00 36.99 3.51
185 187 3.809279 GCCAAGCAAAGCTAACAATGTTT 59.191 39.130 3.17 0.00 38.25 2.83
187 189 2.629617 AGCCAAGCAAAGCTAACAATGT 59.370 40.909 0.00 0.00 38.25 2.71
194 196 1.039068 TGCAAAGCCAAGCAAAGCTA 58.961 45.000 0.00 0.00 38.25 3.32
195 197 0.531311 GTGCAAAGCCAAGCAAAGCT 60.531 50.000 0.00 0.00 43.20 3.74
196 198 0.810823 TGTGCAAAGCCAAGCAAAGC 60.811 50.000 0.00 0.00 43.20 3.51
197 199 0.932399 GTGTGCAAAGCCAAGCAAAG 59.068 50.000 0.00 0.00 43.20 2.77
198 200 0.248565 TGTGTGCAAAGCCAAGCAAA 59.751 45.000 0.00 0.00 43.20 3.68
200 202 0.464870 AATGTGTGCAAAGCCAAGCA 59.535 45.000 0.00 0.00 38.65 3.91
203 205 0.743688 ACGAATGTGTGCAAAGCCAA 59.256 45.000 0.00 0.00 0.00 4.52
205 207 0.387239 GGACGAATGTGTGCAAAGCC 60.387 55.000 0.00 0.00 0.00 4.35
206 208 0.593128 AGGACGAATGTGTGCAAAGC 59.407 50.000 0.00 0.00 31.86 3.51
208 210 2.290367 CTCAAGGACGAATGTGTGCAAA 59.710 45.455 0.00 0.00 31.86 3.68
210 212 1.511850 CTCAAGGACGAATGTGTGCA 58.488 50.000 0.00 0.00 31.86 4.57
211 213 0.798776 CCTCAAGGACGAATGTGTGC 59.201 55.000 0.00 0.00 37.39 4.57
212 214 1.442769 CCCTCAAGGACGAATGTGTG 58.557 55.000 0.00 0.00 38.24 3.82
213 215 0.321653 GCCCTCAAGGACGAATGTGT 60.322 55.000 0.00 0.00 38.24 3.72
214 216 0.321564 TGCCCTCAAGGACGAATGTG 60.322 55.000 0.00 0.00 38.24 3.21
215 217 0.620556 ATGCCCTCAAGGACGAATGT 59.379 50.000 0.00 0.00 38.24 2.71
216 218 1.303309 GATGCCCTCAAGGACGAATG 58.697 55.000 0.00 0.00 38.24 2.67
217 219 0.179073 CGATGCCCTCAAGGACGAAT 60.179 55.000 0.00 0.00 38.24 3.34
218 220 1.218047 CGATGCCCTCAAGGACGAA 59.782 57.895 0.00 0.00 38.24 3.85
219 221 1.541310 AACGATGCCCTCAAGGACGA 61.541 55.000 0.00 0.00 38.24 4.20
220 222 0.673644 AAACGATGCCCTCAAGGACG 60.674 55.000 0.00 1.20 38.24 4.79
221 223 1.200020 CAAAACGATGCCCTCAAGGAC 59.800 52.381 0.00 0.00 38.24 3.85
222 224 1.533625 CAAAACGATGCCCTCAAGGA 58.466 50.000 0.00 0.00 38.24 3.36
223 225 0.527565 CCAAAACGATGCCCTCAAGG 59.472 55.000 0.00 0.00 39.47 3.61
229 231 2.885113 GCCTCCAAAACGATGCCC 59.115 61.111 0.00 0.00 0.00 5.36
260 262 2.811317 CTCCGCAAGCCACGAGTC 60.811 66.667 0.00 0.00 0.00 3.36
261 263 3.165160 AACTCCGCAAGCCACGAGT 62.165 57.895 0.00 0.00 0.00 4.18
262 264 2.357517 AACTCCGCAAGCCACGAG 60.358 61.111 0.00 0.00 0.00 4.18
264 266 3.726517 CCAACTCCGCAAGCCACG 61.727 66.667 0.00 0.00 0.00 4.94
286 294 1.879646 CGAAACCACTCTAGTCGTCG 58.120 55.000 0.00 0.00 0.00 5.12
296 304 2.030562 CAGACGGGCGAAACCACT 59.969 61.111 0.00 0.00 42.05 4.00
311 319 1.303236 TCAACCCCATGTTCGCCAG 60.303 57.895 0.00 0.00 34.00 4.85
337 345 0.740737 CTTCCCACCGCCAATGAATC 59.259 55.000 0.00 0.00 0.00 2.52
342 350 0.912487 TCCTACTTCCCACCGCCAAT 60.912 55.000 0.00 0.00 0.00 3.16
344 352 1.987855 CTCCTACTTCCCACCGCCA 60.988 63.158 0.00 0.00 0.00 5.69
354 362 3.055819 ACATGTGAACGATGCTCCTACTT 60.056 43.478 0.00 0.00 0.00 2.24
367 375 1.397190 CGACGCAACTCACATGTGAAC 60.397 52.381 27.63 16.43 39.39 3.18
378 386 0.178068 ATGGCTTATCCGACGCAACT 59.822 50.000 0.00 0.00 37.80 3.16
380 388 1.436195 GCATGGCTTATCCGACGCAA 61.436 55.000 0.00 0.00 37.80 4.85
389 399 1.044790 GGTTGGCTGGCATGGCTTAT 61.045 55.000 21.08 0.00 0.00 1.73
391 401 2.999063 GGTTGGCTGGCATGGCTT 60.999 61.111 21.08 0.00 0.00 4.35
399 409 0.466922 GATCCCATGAGGTTGGCTGG 60.467 60.000 0.00 0.00 35.29 4.85
411 421 2.425143 ACATGCAGTTTCGATCCCAT 57.575 45.000 0.00 0.00 0.00 4.00
422 432 5.523916 GTCCAATAAGTCGAATACATGCAGT 59.476 40.000 0.00 0.00 0.00 4.40
424 434 5.423886 TGTCCAATAAGTCGAATACATGCA 58.576 37.500 0.00 0.00 0.00 3.96
437 448 5.175859 ACCACAACGACTATGTCCAATAAG 58.824 41.667 0.00 0.00 0.00 1.73
442 453 2.608506 CGAACCACAACGACTATGTCCA 60.609 50.000 0.00 0.00 0.00 4.02
450 461 2.659244 TCCGCGAACCACAACGAC 60.659 61.111 8.23 0.00 0.00 4.34
451 462 2.659244 GTCCGCGAACCACAACGA 60.659 61.111 8.23 0.00 0.00 3.85
455 481 0.250124 AAGATTGTCCGCGAACCACA 60.250 50.000 8.23 1.29 0.00 4.17
501 527 3.610911 AGCAACGGGATAAAGGAAAGAG 58.389 45.455 0.00 0.00 0.00 2.85
505 531 5.105567 TCATTAGCAACGGGATAAAGGAA 57.894 39.130 0.00 0.00 29.98 3.36
610 1255 1.459209 CGCACGTTGCAGAGAAATACA 59.541 47.619 9.95 0.00 45.36 2.29
612 1257 1.075542 CCGCACGTTGCAGAGAAATA 58.924 50.000 9.95 0.00 45.36 1.40
614 1259 0.249531 TACCGCACGTTGCAGAGAAA 60.250 50.000 9.95 0.00 45.36 2.52
615 1260 0.037697 ATACCGCACGTTGCAGAGAA 60.038 50.000 9.95 0.00 45.36 2.87
616 1261 0.735978 CATACCGCACGTTGCAGAGA 60.736 55.000 9.95 0.00 45.36 3.10
648 1808 3.434319 GGGACGACGTACGCTCCA 61.434 66.667 22.05 0.00 46.94 3.86
649 1809 3.434319 TGGGACGACGTACGCTCC 61.434 66.667 16.72 16.01 46.94 4.70
785 1970 0.109342 GATGCTTGGGATGGACGGAT 59.891 55.000 0.00 0.00 0.00 4.18
816 2001 1.826024 GATGCCGTGGAGTGGATCT 59.174 57.895 0.00 0.00 0.00 2.75
948 2149 0.695803 GGGGAGATGGGATGTGAGGT 60.696 60.000 0.00 0.00 0.00 3.85
961 2162 2.599281 TTCGAGCGTGTGGGGAGA 60.599 61.111 0.00 0.00 0.00 3.71
963 2164 3.998672 GGTTCGAGCGTGTGGGGA 61.999 66.667 0.00 0.00 0.00 4.81
965 2166 3.041940 GTGGTTCGAGCGTGTGGG 61.042 66.667 0.00 0.00 0.00 4.61
985 2191 4.129737 CATGGGTGCTGCTGCTGC 62.130 66.667 22.51 22.51 40.48 5.25
1479 2704 5.603596 ACAAAGGTTGTAACATCGTACTGA 58.396 37.500 0.00 0.00 43.27 3.41
1522 2769 7.649306 ACAGCAACATCACTATTTCTTCAAAAC 59.351 33.333 0.00 0.00 0.00 2.43
1594 2871 0.600557 TGGCATAAACAAACGGCAGG 59.399 50.000 0.00 0.00 0.00 4.85
1686 2983 6.667414 AGAGGTTTCTATCTGTCAGTCTGAAT 59.333 38.462 3.51 0.00 0.00 2.57
1691 2988 9.660180 AAAATTAGAGGTTTCTATCTGTCAGTC 57.340 33.333 0.00 0.00 35.88 3.51
1758 3215 3.642848 ACAACTGCAAAGTCCCATGAATT 59.357 39.130 0.00 0.00 0.00 2.17
1760 3217 2.665165 ACAACTGCAAAGTCCCATGAA 58.335 42.857 0.00 0.00 0.00 2.57
1765 3222 4.202111 ACACATAAACAACTGCAAAGTCCC 60.202 41.667 0.00 0.00 0.00 4.46
1766 3223 4.932146 ACACATAAACAACTGCAAAGTCC 58.068 39.130 0.00 0.00 0.00 3.85
1767 3224 5.804979 ACAACACATAAACAACTGCAAAGTC 59.195 36.000 0.00 0.00 0.00 3.01
1771 3228 8.709386 AAATAACAACACATAAACAACTGCAA 57.291 26.923 0.00 0.00 0.00 4.08
1772 3229 8.709386 AAAATAACAACACATAAACAACTGCA 57.291 26.923 0.00 0.00 0.00 4.41
1812 3269 4.711399 AGGTTAAGAAAACTTACGCACCT 58.289 39.130 0.00 0.00 0.00 4.00
1838 3298 5.558818 TGCCGTATGGGTTAAGAAAAACTA 58.441 37.500 2.41 0.00 38.44 2.24
1839 3299 4.400120 TGCCGTATGGGTTAAGAAAAACT 58.600 39.130 2.41 0.00 38.44 2.66
1843 3303 4.289238 TCTTGCCGTATGGGTTAAGAAA 57.711 40.909 2.41 0.00 37.83 2.52
1844 3304 3.985019 TCTTGCCGTATGGGTTAAGAA 57.015 42.857 2.41 0.00 37.83 2.52
1847 3307 3.516300 TCTCTTCTTGCCGTATGGGTTAA 59.484 43.478 2.41 0.00 38.44 2.01
1848 3308 3.101437 TCTCTTCTTGCCGTATGGGTTA 58.899 45.455 2.41 0.00 38.44 2.85
1850 3310 1.568504 TCTCTTCTTGCCGTATGGGT 58.431 50.000 2.41 0.00 38.44 4.51
1851 3311 2.280628 GTTCTCTTCTTGCCGTATGGG 58.719 52.381 2.41 0.00 39.58 4.00
1852 3312 1.927174 CGTTCTCTTCTTGCCGTATGG 59.073 52.381 0.00 0.00 38.77 2.74
1855 3315 3.192001 ACATACGTTCTCTTCTTGCCGTA 59.808 43.478 0.00 0.00 35.57 4.02
1856 3316 2.029290 ACATACGTTCTCTTCTTGCCGT 60.029 45.455 0.00 0.00 0.00 5.68
1857 3317 2.345641 CACATACGTTCTCTTCTTGCCG 59.654 50.000 0.00 0.00 0.00 5.69
1858 3318 3.326747 ACACATACGTTCTCTTCTTGCC 58.673 45.455 0.00 0.00 0.00 4.52
1860 3320 5.907197 ACAACACATACGTTCTCTTCTTG 57.093 39.130 0.00 0.00 0.00 3.02
1861 3321 8.603242 AATAACAACACATACGTTCTCTTCTT 57.397 30.769 0.00 0.00 0.00 2.52
1862 3322 8.603242 AAATAACAACACATACGTTCTCTTCT 57.397 30.769 0.00 0.00 0.00 2.85
1867 3327 8.149973 ACAGAAAATAACAACACATACGTTCT 57.850 30.769 0.00 0.00 0.00 3.01
1868 3328 7.265495 CGACAGAAAATAACAACACATACGTTC 59.735 37.037 0.00 0.00 0.00 3.95
1869 3329 7.067116 CGACAGAAAATAACAACACATACGTT 58.933 34.615 0.00 0.00 0.00 3.99
1870 3330 6.347079 CCGACAGAAAATAACAACACATACGT 60.347 38.462 0.00 0.00 0.00 3.57
1873 3333 7.226918 TGTTCCGACAGAAAATAACAACACATA 59.773 33.333 0.00 0.00 35.85 2.29
1874 3334 6.038825 TGTTCCGACAGAAAATAACAACACAT 59.961 34.615 0.00 0.00 35.85 3.21
1875 3335 5.354513 TGTTCCGACAGAAAATAACAACACA 59.645 36.000 0.00 0.00 35.85 3.72
1876 3336 5.812652 TGTTCCGACAGAAAATAACAACAC 58.187 37.500 0.00 0.00 35.85 3.32
1877 3337 6.627395 ATGTTCCGACAGAAAATAACAACA 57.373 33.333 0.00 0.00 39.58 3.33
1878 3338 6.581166 GGAATGTTCCGACAGAAAATAACAAC 59.419 38.462 0.00 0.00 39.58 3.32
1920 3380 1.346395 TGCCGTATGGTTGACAAGTCT 59.654 47.619 2.17 0.00 37.67 3.24
1967 3428 8.456471 TCTAATGCATTCTGAATTTCTGAACAG 58.544 33.333 16.86 14.59 37.20 3.16
2041 3506 6.763610 CACCGCCTCTTATTTATCTCTTCTTT 59.236 38.462 0.00 0.00 0.00 2.52
2056 3522 3.650950 ATGGGTGCACCGCCTCTT 61.651 61.111 29.08 10.80 44.64 2.85
2197 3676 8.324163 ACAAAGGAAAATTAGCTAGTGTAGTG 57.676 34.615 0.00 0.00 0.00 2.74
2252 3763 2.559440 TCACAAAATTGGTGGCTTTGC 58.441 42.857 0.02 0.00 36.90 3.68
2254 3765 3.807553 CCTTCACAAAATTGGTGGCTTT 58.192 40.909 0.02 0.00 36.90 3.51
2341 3858 0.994263 GTTCTTGCCAATGCGAATGC 59.006 50.000 0.00 0.00 41.78 3.56
2342 3859 1.067706 TGGTTCTTGCCAATGCGAATG 60.068 47.619 0.00 0.00 41.78 2.67
2343 3860 1.255882 TGGTTCTTGCCAATGCGAAT 58.744 45.000 0.00 0.00 41.78 3.34
2346 3863 1.067706 TGAATGGTTCTTGCCAATGCG 60.068 47.619 0.00 0.00 42.48 4.73
2372 3892 1.453197 CCCATACCCAAAGACGGCC 60.453 63.158 0.00 0.00 0.00 6.13
2376 3896 0.463833 CCGCTCCCATACCCAAAGAC 60.464 60.000 0.00 0.00 0.00 3.01
2387 3907 0.322456 CAAATGAGGAACCGCTCCCA 60.322 55.000 0.00 0.00 46.81 4.37


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

AutoCloner maintained by Alex Coulton.