Multiple sequence alignment - TraesCS2D01G524200

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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 TraesCS2D01G524200 chr2D 100.000 2324 0 0 1 2324 612983802 612981479 0.000000e+00 4292.0
1 TraesCS2D01G524200 chr2D 86.098 820 64 18 890 1662 612697221 612696405 0.000000e+00 837.0
2 TraesCS2D01G524200 chr2D 87.761 719 54 9 861 1547 609639088 609639804 0.000000e+00 809.0
3 TraesCS2D01G524200 chr2D 86.225 755 69 14 939 1662 612760006 612759256 0.000000e+00 785.0
4 TraesCS2D01G524200 chr2D 82.500 840 94 22 837 1628 612935634 612934800 0.000000e+00 688.0
5 TraesCS2D01G524200 chr2D 82.190 685 103 14 1657 2324 605631829 605631147 2.590000e-159 571.0
6 TraesCS2D01G524200 chr2D 81.491 751 75 21 837 1545 612455564 612454836 2.020000e-155 558.0
7 TraesCS2D01G524200 chr2D 85.256 312 18 10 601 887 612697640 612697332 1.750000e-76 296.0
8 TraesCS2D01G524200 chr2D 81.961 255 22 11 321 575 612699519 612699289 6.550000e-46 195.0
9 TraesCS2D01G524200 chr2D 94.309 123 7 0 303 425 612961904 612961782 3.050000e-44 189.0
10 TraesCS2D01G524200 chr2D 78.146 302 31 24 10 298 533090504 533090225 2.390000e-35 159.0
11 TraesCS2D01G524200 chr2D 92.381 105 8 0 837 941 612794597 612794493 1.440000e-32 150.0
12 TraesCS2D01G524200 chr2D 77.866 253 44 7 1653 1895 617111245 617110995 1.860000e-31 147.0
13 TraesCS2D01G524200 chr2D 77.215 237 41 7 1659 1884 529648011 529648245 2.420000e-25 126.0
14 TraesCS2D01G524200 chr2D 76.344 186 31 5 1657 1830 5468822 5469006 1.140000e-13 87.9
15 TraesCS2D01G524200 chr2A 90.762 1299 72 19 295 1547 744636327 744635031 0.000000e+00 1690.0
16 TraesCS2D01G524200 chr2A 87.658 713 49 8 873 1547 742306527 742305816 0.000000e+00 793.0
17 TraesCS2D01G524200 chr2A 80.046 877 84 32 837 1655 744616384 744615541 1.210000e-157 566.0
18 TraesCS2D01G524200 chr2A 81.773 203 26 8 1348 1545 744624979 744624783 2.390000e-35 159.0
19 TraesCS2D01G524200 chr2B 92.461 703 33 4 744 1430 747855489 747854791 0.000000e+00 987.0
20 TraesCS2D01G524200 chr2B 84.480 741 75 18 838 1553 747821671 747820946 0.000000e+00 695.0
21 TraesCS2D01G524200 chr2B 84.225 748 78 13 837 1547 747786587 747785843 0.000000e+00 691.0
22 TraesCS2D01G524200 chr2B 83.088 680 98 10 1659 2324 799455943 799455267 9.190000e-169 603.0
23 TraesCS2D01G524200 chr2B 81.938 681 108 7 1657 2324 682182615 682183293 1.560000e-156 562.0
24 TraesCS2D01G524200 chr2B 87.549 257 20 7 1417 1661 747854773 747854517 1.050000e-73 287.0
25 TraesCS2D01G524200 chr2B 83.636 275 21 11 321 595 747856967 747856717 1.070000e-58 237.0
26 TraesCS2D01G524200 chr5A 82.596 678 94 14 1655 2312 588357134 588357807 5.570000e-161 577.0
27 TraesCS2D01G524200 chr7D 82.164 684 98 16 1657 2321 12787179 12786501 1.210000e-157 566.0
28 TraesCS2D01G524200 chr7D 89.000 300 25 5 1 294 71109503 71109206 4.720000e-97 364.0
29 TraesCS2D01G524200 chr7D 90.870 230 18 3 74 300 510582940 510583169 2.900000e-79 305.0
30 TraesCS2D01G524200 chr3D 84.790 572 69 14 1760 2324 518740516 518739956 2.020000e-155 558.0
31 TraesCS2D01G524200 chr3D 82.848 309 29 11 3 296 13966810 13966511 2.960000e-64 255.0
32 TraesCS2D01G524200 chr4D 81.378 682 106 14 1656 2324 495131058 495131731 9.450000e-149 536.0
33 TraesCS2D01G524200 chr4D 78.661 239 33 15 1656 1882 115400879 115401111 2.410000e-30 143.0
34 TraesCS2D01G524200 chr4B 81.399 672 108 12 1661 2324 65959875 65959213 1.220000e-147 532.0
35 TraesCS2D01G524200 chr5B 81.029 680 108 14 1660 2324 605628056 605628729 2.650000e-144 521.0
36 TraesCS2D01G524200 chr5B 82.014 556 92 7 1658 2210 353035754 353035204 1.260000e-127 466.0
37 TraesCS2D01G524200 chr5B 76.977 430 71 19 1659 2072 221909555 221909972 1.080000e-53 220.0
38 TraesCS2D01G524200 chrUn 88.599 307 21 7 2 296 69201600 69201296 6.100000e-96 361.0
39 TraesCS2D01G524200 chr5D 87.500 312 19 13 5 302 493275824 493275519 2.210000e-90 342.0
40 TraesCS2D01G524200 chr5D 87.162 296 31 5 1 291 457021953 457021660 1.720000e-86 329.0
41 TraesCS2D01G524200 chr1D 85.762 302 32 7 1 296 342165188 342165484 2.240000e-80 309.0
42 TraesCS2D01G524200 chr4A 85.294 306 35 7 1 298 341809338 341809035 8.070000e-80 307.0
43 TraesCS2D01G524200 chr7B 84.516 310 28 14 1 299 157213388 157213688 2.920000e-74 289.0
44 TraesCS2D01G524200 chr7A 84.211 304 40 5 1 299 3744422 3744722 2.920000e-74 289.0
45 TraesCS2D01G524200 chr7A 76.233 223 39 8 1682 1892 125480626 125480846 3.160000e-19 106.0
46 TraesCS2D01G524200 chr3A 77.076 301 46 14 1 298 428799977 428799697 4.000000e-33 152.0
47 TraesCS2D01G524200 chr3A 78.378 222 44 4 1656 1874 496030982 496031202 8.660000e-30 141.0
48 TraesCS2D01G524200 chr3A 75.424 236 42 9 1659 1882 550530449 550530218 1.470000e-17 100.0


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 TraesCS2D01G524200 chr2D 612981479 612983802 2323 True 4292.000000 4292 100.000000 1 2324 1 chr2D.!!$R8 2323
1 TraesCS2D01G524200 chr2D 609639088 609639804 716 False 809.000000 809 87.761000 861 1547 1 chr2D.!!$F3 686
2 TraesCS2D01G524200 chr2D 612759256 612760006 750 True 785.000000 785 86.225000 939 1662 1 chr2D.!!$R4 723
3 TraesCS2D01G524200 chr2D 612934800 612935634 834 True 688.000000 688 82.500000 837 1628 1 chr2D.!!$R6 791
4 TraesCS2D01G524200 chr2D 605631147 605631829 682 True 571.000000 571 82.190000 1657 2324 1 chr2D.!!$R2 667
5 TraesCS2D01G524200 chr2D 612454836 612455564 728 True 558.000000 558 81.491000 837 1545 1 chr2D.!!$R3 708
6 TraesCS2D01G524200 chr2D 612696405 612699519 3114 True 442.666667 837 84.438333 321 1662 3 chr2D.!!$R10 1341
7 TraesCS2D01G524200 chr2A 744635031 744636327 1296 True 1690.000000 1690 90.762000 295 1547 1 chr2A.!!$R4 1252
8 TraesCS2D01G524200 chr2A 742305816 742306527 711 True 793.000000 793 87.658000 873 1547 1 chr2A.!!$R1 674
9 TraesCS2D01G524200 chr2A 744615541 744616384 843 True 566.000000 566 80.046000 837 1655 1 chr2A.!!$R2 818
10 TraesCS2D01G524200 chr2B 747820946 747821671 725 True 695.000000 695 84.480000 838 1553 1 chr2B.!!$R2 715
11 TraesCS2D01G524200 chr2B 747785843 747786587 744 True 691.000000 691 84.225000 837 1547 1 chr2B.!!$R1 710
12 TraesCS2D01G524200 chr2B 799455267 799455943 676 True 603.000000 603 83.088000 1659 2324 1 chr2B.!!$R3 665
13 TraesCS2D01G524200 chr2B 682182615 682183293 678 False 562.000000 562 81.938000 1657 2324 1 chr2B.!!$F1 667
14 TraesCS2D01G524200 chr2B 747854517 747856967 2450 True 503.666667 987 87.882000 321 1661 3 chr2B.!!$R4 1340
15 TraesCS2D01G524200 chr5A 588357134 588357807 673 False 577.000000 577 82.596000 1655 2312 1 chr5A.!!$F1 657
16 TraesCS2D01G524200 chr7D 12786501 12787179 678 True 566.000000 566 82.164000 1657 2321 1 chr7D.!!$R1 664
17 TraesCS2D01G524200 chr3D 518739956 518740516 560 True 558.000000 558 84.790000 1760 2324 1 chr3D.!!$R2 564
18 TraesCS2D01G524200 chr4D 495131058 495131731 673 False 536.000000 536 81.378000 1656 2324 1 chr4D.!!$F2 668
19 TraesCS2D01G524200 chr4B 65959213 65959875 662 True 532.000000 532 81.399000 1661 2324 1 chr4B.!!$R1 663
20 TraesCS2D01G524200 chr5B 605628056 605628729 673 False 521.000000 521 81.029000 1660 2324 1 chr5B.!!$F2 664
21 TraesCS2D01G524200 chr5B 353035204 353035754 550 True 466.000000 466 82.014000 1658 2210 1 chr5B.!!$R1 552

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
274 275 0.032815 AAAATTGCCGTCCGTTTGGG 59.967 50.0 0.0 0.0 35.24 4.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1628 3920 0.039708 GCTCTGTTGTGCAAAGGCTC 60.04 55.0 0.0 0.0 41.91 4.7 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
40 41 2.431942 CGCCGCCTCGTAGTGTTT 60.432 61.111 0.00 0.00 0.00 2.83
41 42 1.153978 CGCCGCCTCGTAGTGTTTA 60.154 57.895 0.00 0.00 0.00 2.01
42 43 1.138047 CGCCGCCTCGTAGTGTTTAG 61.138 60.000 0.00 0.00 0.00 1.85
43 44 0.804933 GCCGCCTCGTAGTGTTTAGG 60.805 60.000 0.00 0.00 0.00 2.69
44 45 0.529378 CCGCCTCGTAGTGTTTAGGT 59.471 55.000 0.00 0.00 0.00 3.08
45 46 1.067354 CCGCCTCGTAGTGTTTAGGTT 60.067 52.381 0.00 0.00 0.00 3.50
46 47 2.611224 CCGCCTCGTAGTGTTTAGGTTT 60.611 50.000 0.00 0.00 0.00 3.27
47 48 3.062042 CGCCTCGTAGTGTTTAGGTTTT 58.938 45.455 0.00 0.00 0.00 2.43
48 49 3.495753 CGCCTCGTAGTGTTTAGGTTTTT 59.504 43.478 0.00 0.00 0.00 1.94
77 78 8.947055 AGTTTTCTTAAATGCAAATGTGACTT 57.053 26.923 0.00 0.00 0.00 3.01
78 79 9.382275 AGTTTTCTTAAATGCAAATGTGACTTT 57.618 25.926 0.00 0.00 0.00 2.66
79 80 9.636965 GTTTTCTTAAATGCAAATGTGACTTTC 57.363 29.630 0.00 0.00 0.00 2.62
80 81 7.621832 TTCTTAAATGCAAATGTGACTTTCG 57.378 32.000 0.00 0.00 0.00 3.46
81 82 5.629020 TCTTAAATGCAAATGTGACTTTCGC 59.371 36.000 0.00 0.00 0.00 4.70
82 83 2.352503 ATGCAAATGTGACTTTCGCC 57.647 45.000 0.00 0.00 0.00 5.54
83 84 0.040514 TGCAAATGTGACTTTCGCCG 60.041 50.000 0.00 0.00 0.00 6.46
84 85 0.729140 GCAAATGTGACTTTCGCCGG 60.729 55.000 0.00 0.00 0.00 6.13
85 86 0.729140 CAAATGTGACTTTCGCCGGC 60.729 55.000 19.07 19.07 0.00 6.13
86 87 1.862602 AAATGTGACTTTCGCCGGCC 61.863 55.000 23.46 5.93 0.00 6.13
87 88 2.748058 AATGTGACTTTCGCCGGCCT 62.748 55.000 23.46 0.00 0.00 5.19
88 89 2.668550 GTGACTTTCGCCGGCCTT 60.669 61.111 23.46 0.00 0.00 4.35
89 90 2.358247 TGACTTTCGCCGGCCTTC 60.358 61.111 23.46 10.55 0.00 3.46
90 91 3.488090 GACTTTCGCCGGCCTTCG 61.488 66.667 23.46 6.82 38.88 3.79
91 92 4.309950 ACTTTCGCCGGCCTTCGT 62.310 61.111 23.46 10.70 37.11 3.85
92 93 3.788766 CTTTCGCCGGCCTTCGTG 61.789 66.667 23.46 5.48 37.11 4.35
102 103 2.046700 CCTTCGTGGCCGGCTTTA 60.047 61.111 28.56 10.66 33.95 1.85
103 104 1.673009 CCTTCGTGGCCGGCTTTAA 60.673 57.895 28.56 14.43 33.95 1.52
104 105 1.029947 CCTTCGTGGCCGGCTTTAAT 61.030 55.000 28.56 0.00 33.95 1.40
105 106 0.098728 CTTCGTGGCCGGCTTTAATG 59.901 55.000 28.56 14.81 33.95 1.90
106 107 0.606944 TTCGTGGCCGGCTTTAATGT 60.607 50.000 28.56 0.00 33.95 2.71
107 108 0.606944 TCGTGGCCGGCTTTAATGTT 60.607 50.000 28.56 0.00 33.95 2.71
108 109 0.242555 CGTGGCCGGCTTTAATGTTT 59.757 50.000 28.56 0.00 0.00 2.83
109 110 1.469308 CGTGGCCGGCTTTAATGTTTA 59.531 47.619 28.56 0.00 0.00 2.01
110 111 2.095161 CGTGGCCGGCTTTAATGTTTAA 60.095 45.455 28.56 0.00 0.00 1.52
111 112 3.428316 CGTGGCCGGCTTTAATGTTTAAT 60.428 43.478 28.56 0.00 0.00 1.40
112 113 4.500127 GTGGCCGGCTTTAATGTTTAATT 58.500 39.130 28.56 0.00 0.00 1.40
113 114 5.652518 GTGGCCGGCTTTAATGTTTAATTA 58.347 37.500 28.56 0.00 0.00 1.40
114 115 6.100668 GTGGCCGGCTTTAATGTTTAATTAA 58.899 36.000 28.56 0.00 0.00 1.40
115 116 6.759356 GTGGCCGGCTTTAATGTTTAATTAAT 59.241 34.615 28.56 0.00 0.00 1.40
116 117 6.758886 TGGCCGGCTTTAATGTTTAATTAATG 59.241 34.615 28.56 0.00 0.00 1.90
117 118 6.759356 GGCCGGCTTTAATGTTTAATTAATGT 59.241 34.615 28.56 0.00 0.00 2.71
118 119 7.279090 GGCCGGCTTTAATGTTTAATTAATGTT 59.721 33.333 28.56 0.00 0.00 2.71
119 120 8.113675 GCCGGCTTTAATGTTTAATTAATGTTG 58.886 33.333 22.15 0.00 0.00 3.33
120 121 9.145865 CCGGCTTTAATGTTTAATTAATGTTGT 57.854 29.630 0.00 0.00 0.00 3.32
165 166 1.784525 TTTTGCGCCGTTAAAATGGG 58.215 45.000 4.18 0.00 35.56 4.00
166 167 0.674534 TTTGCGCCGTTAAAATGGGT 59.325 45.000 4.18 0.00 35.56 4.51
167 168 0.241481 TTGCGCCGTTAAAATGGGTC 59.759 50.000 4.18 0.00 35.56 4.46
168 169 1.226184 GCGCCGTTAAAATGGGTCG 60.226 57.895 0.00 0.74 35.56 4.79
169 170 1.426223 CGCCGTTAAAATGGGTCGG 59.574 57.895 3.22 0.00 43.37 4.79
170 171 1.804598 GCCGTTAAAATGGGTCGGG 59.195 57.895 3.22 0.00 41.24 5.14
171 172 0.961857 GCCGTTAAAATGGGTCGGGT 60.962 55.000 3.22 0.00 41.24 5.28
172 173 1.089112 CCGTTAAAATGGGTCGGGTC 58.911 55.000 0.00 0.00 37.92 4.46
173 174 1.611148 CCGTTAAAATGGGTCGGGTCA 60.611 52.381 0.00 0.00 37.92 4.02
174 175 1.735571 CGTTAAAATGGGTCGGGTCAG 59.264 52.381 0.00 0.00 0.00 3.51
175 176 1.471287 GTTAAAATGGGTCGGGTCAGC 59.529 52.381 0.00 0.00 0.00 4.26
176 177 0.391927 TAAAATGGGTCGGGTCAGCG 60.392 55.000 0.00 0.00 0.00 5.18
177 178 2.406002 AAAATGGGTCGGGTCAGCGT 62.406 55.000 0.00 0.00 0.00 5.07
178 179 2.406002 AAATGGGTCGGGTCAGCGTT 62.406 55.000 0.00 0.00 0.00 4.84
179 180 3.605749 ATGGGTCGGGTCAGCGTTG 62.606 63.158 0.00 0.00 0.00 4.10
203 204 4.459331 CGCGCCGACCCAAACATG 62.459 66.667 0.00 0.00 0.00 3.21
204 205 4.114997 GCGCCGACCCAAACATGG 62.115 66.667 0.00 0.00 0.00 3.66
205 206 2.359354 CGCCGACCCAAACATGGA 60.359 61.111 0.00 0.00 0.00 3.41
206 207 1.969064 CGCCGACCCAAACATGGAA 60.969 57.895 0.00 0.00 0.00 3.53
207 208 1.883021 GCCGACCCAAACATGGAAG 59.117 57.895 0.00 0.00 0.00 3.46
208 209 0.893727 GCCGACCCAAACATGGAAGT 60.894 55.000 0.00 0.00 0.00 3.01
209 210 0.881118 CCGACCCAAACATGGAAGTG 59.119 55.000 0.00 0.00 0.00 3.16
210 211 1.544537 CCGACCCAAACATGGAAGTGA 60.545 52.381 0.00 0.00 0.00 3.41
211 212 2.226330 CGACCCAAACATGGAAGTGAA 58.774 47.619 0.00 0.00 0.00 3.18
212 213 2.031157 CGACCCAAACATGGAAGTGAAC 60.031 50.000 0.00 0.00 0.00 3.18
213 214 1.953686 ACCCAAACATGGAAGTGAACG 59.046 47.619 0.00 0.00 0.00 3.95
214 215 1.953686 CCCAAACATGGAAGTGAACGT 59.046 47.619 0.00 0.00 0.00 3.99
215 216 2.031157 CCCAAACATGGAAGTGAACGTC 60.031 50.000 0.00 0.00 0.00 4.34
216 217 2.031157 CCAAACATGGAAGTGAACGTCC 60.031 50.000 8.31 8.31 43.50 4.79
217 218 1.508632 AACATGGAAGTGAACGTCCG 58.491 50.000 10.26 0.96 45.68 4.79
218 219 0.391597 ACATGGAAGTGAACGTCCGT 59.608 50.000 10.26 7.50 45.68 4.69
219 220 3.210857 ATGGAAGTGAACGTCCGTG 57.789 52.632 9.03 0.00 45.68 4.94
220 221 0.391597 ATGGAAGTGAACGTCCGTGT 59.608 50.000 9.03 0.00 45.68 4.49
221 222 0.249155 TGGAAGTGAACGTCCGTGTC 60.249 55.000 10.26 0.00 45.68 3.67
222 223 0.942884 GGAAGTGAACGTCCGTGTCC 60.943 60.000 0.00 0.00 34.98 4.02
223 224 1.273455 GAAGTGAACGTCCGTGTCCG 61.273 60.000 0.00 0.00 0.00 4.79
224 225 3.400590 GTGAACGTCCGTGTCCGC 61.401 66.667 0.00 0.00 0.00 5.54
225 226 4.651008 TGAACGTCCGTGTCCGCC 62.651 66.667 0.00 0.00 0.00 6.13
226 227 4.353437 GAACGTCCGTGTCCGCCT 62.353 66.667 0.00 0.00 0.00 5.52
227 228 4.657824 AACGTCCGTGTCCGCCTG 62.658 66.667 0.00 0.00 0.00 4.85
249 250 2.113910 CGACCCAAACGGACAAAAAG 57.886 50.000 0.00 0.00 34.64 2.27
250 251 1.847818 GACCCAAACGGACAAAAAGC 58.152 50.000 0.00 0.00 34.64 3.51
251 252 1.135333 GACCCAAACGGACAAAAAGCA 59.865 47.619 0.00 0.00 34.64 3.91
252 253 1.136110 ACCCAAACGGACAAAAAGCAG 59.864 47.619 0.00 0.00 34.64 4.24
253 254 1.407258 CCCAAACGGACAAAAAGCAGA 59.593 47.619 0.00 0.00 0.00 4.26
254 255 2.459934 CCAAACGGACAAAAAGCAGAC 58.540 47.619 0.00 0.00 0.00 3.51
255 256 2.159310 CCAAACGGACAAAAAGCAGACA 60.159 45.455 0.00 0.00 0.00 3.41
256 257 3.506810 CAAACGGACAAAAAGCAGACAA 58.493 40.909 0.00 0.00 0.00 3.18
257 258 3.859411 AACGGACAAAAAGCAGACAAA 57.141 38.095 0.00 0.00 0.00 2.83
258 259 3.859411 ACGGACAAAAAGCAGACAAAA 57.141 38.095 0.00 0.00 0.00 2.44
259 260 4.385358 ACGGACAAAAAGCAGACAAAAT 57.615 36.364 0.00 0.00 0.00 1.82
260 261 4.754322 ACGGACAAAAAGCAGACAAAATT 58.246 34.783 0.00 0.00 0.00 1.82
261 262 4.566360 ACGGACAAAAAGCAGACAAAATTG 59.434 37.500 0.00 0.00 0.00 2.32
262 263 4.550639 CGGACAAAAAGCAGACAAAATTGC 60.551 41.667 0.00 0.00 40.57 3.56
263 264 4.260743 GGACAAAAAGCAGACAAAATTGCC 60.261 41.667 0.00 0.00 41.17 4.52
264 265 3.309410 ACAAAAAGCAGACAAAATTGCCG 59.691 39.130 0.00 0.00 41.17 5.69
265 266 2.888834 AAAGCAGACAAAATTGCCGT 57.111 40.000 0.00 0.00 41.17 5.68
266 267 2.422276 AAGCAGACAAAATTGCCGTC 57.578 45.000 0.00 0.00 41.17 4.79
267 268 0.598065 AGCAGACAAAATTGCCGTCC 59.402 50.000 0.00 0.00 41.17 4.79
268 269 0.729140 GCAGACAAAATTGCCGTCCG 60.729 55.000 0.00 0.00 34.28 4.79
269 270 0.591170 CAGACAAAATTGCCGTCCGT 59.409 50.000 0.00 0.00 0.00 4.69
270 271 1.001815 CAGACAAAATTGCCGTCCGTT 60.002 47.619 0.00 0.00 0.00 4.44
271 272 1.679153 AGACAAAATTGCCGTCCGTTT 59.321 42.857 0.00 0.00 0.00 3.60
272 273 1.784283 GACAAAATTGCCGTCCGTTTG 59.216 47.619 0.00 0.00 35.72 2.93
273 274 1.135867 CAAAATTGCCGTCCGTTTGG 58.864 50.000 0.00 0.00 0.00 3.28
274 275 0.032815 AAAATTGCCGTCCGTTTGGG 59.967 50.000 0.00 0.00 35.24 4.12
275 276 1.110518 AAATTGCCGTCCGTTTGGGT 61.111 50.000 0.00 0.00 37.00 4.51
276 277 1.520600 AATTGCCGTCCGTTTGGGTC 61.521 55.000 0.00 0.00 37.00 4.46
277 278 4.973055 TGCCGTCCGTTTGGGTCG 62.973 66.667 0.00 0.00 45.31 4.79
290 291 4.324991 GGTCGGCCCGTTGGAGTT 62.325 66.667 1.63 0.00 0.00 3.01
291 292 3.047877 GTCGGCCCGTTGGAGTTG 61.048 66.667 1.63 0.00 0.00 3.16
301 302 2.611518 CGTTGGAGTTGCTCTAAGGAG 58.388 52.381 8.55 0.00 38.48 3.69
307 308 3.131400 GGAGTTGCTCTAAGGAGTCGATT 59.869 47.826 0.00 0.00 41.38 3.34
399 400 6.120905 TCTAGCCGTGTCTAGATTTAGAACT 58.879 40.000 0.00 0.00 39.89 3.01
412 413 3.308438 TTAGAACTTGGTCGGTGTAGC 57.692 47.619 0.00 0.00 0.00 3.58
564 576 0.833949 TTGTAGTGTGTGACAGGGCA 59.166 50.000 0.00 0.00 0.00 5.36
608 2387 2.167693 CTGGTTAGCCGACCTTATGTGA 59.832 50.000 7.53 0.00 40.47 3.58
660 2439 3.971305 AGTTGGGTGGGATTGTATCGATA 59.029 43.478 0.00 0.00 0.00 2.92
809 2851 2.356125 GGATGATGGGCGTAATAGGCAT 60.356 50.000 7.28 0.00 38.57 4.40
882 2924 0.967380 CAGGACTCCAAATGCCCACC 60.967 60.000 0.00 0.00 0.00 4.61
996 3168 5.440610 TCAGCTATATCCTGCATCGATCTA 58.559 41.667 0.00 0.00 0.00 1.98
1003 3175 2.029560 TCCTGCATCGATCTAGTCATGC 60.030 50.000 0.00 0.00 39.60 4.06
1221 3404 5.190330 GGGTAAGGTCATTAAGGTTGGAGTA 59.810 44.000 0.00 0.00 0.00 2.59
1302 3506 1.683011 GCCCAGGATAATGTGCAGTGT 60.683 52.381 0.00 0.00 0.00 3.55
1401 3635 1.134694 GGTTTCAAGCGGTCGATGC 59.865 57.895 4.59 4.59 0.00 3.91
1421 3655 1.677966 CACCTGCTCCATGCTTGCT 60.678 57.895 0.00 0.00 43.37 3.91
1427 3665 3.248266 CTGCTCCATGCTTGCTTTTTAC 58.752 45.455 0.00 0.00 43.37 2.01
1434 3701 4.151157 CCATGCTTGCTTTTTACTTGCTTC 59.849 41.667 0.00 0.00 0.00 3.86
1509 3776 5.971792 GGTCAGTTGAGTCTTTTTAGTTTGC 59.028 40.000 0.00 0.00 0.00 3.68
1547 3817 5.628797 ATGTGGGTGGAATTTCTTGTTTT 57.371 34.783 0.00 0.00 0.00 2.43
1548 3818 5.017294 TGTGGGTGGAATTTCTTGTTTTC 57.983 39.130 0.00 0.00 0.00 2.29
1572 3854 9.866655 TTCTTGTATATTATTTCAAGCATCCCT 57.133 29.630 12.44 0.00 37.68 4.20
1616 3905 7.942908 GCAAACAGCAAATACAGAGTTAATTC 58.057 34.615 0.00 0.00 44.79 2.17
1628 3920 5.348724 ACAGAGTTAATTCGTACATGCACAG 59.651 40.000 0.00 0.00 0.00 3.66
1629 3921 5.576774 CAGAGTTAATTCGTACATGCACAGA 59.423 40.000 0.00 0.00 0.00 3.41
1641 3933 1.036481 TGCACAGAGCCTTTGCACAA 61.036 50.000 10.70 0.00 41.29 3.33
1675 3967 2.548067 CCTTAGAGCAACTCCAACACGT 60.548 50.000 0.00 0.00 0.00 4.49
1730 4026 1.214367 GCGCGGATAGAAAAATCGGA 58.786 50.000 8.83 0.00 0.00 4.55
1740 4036 1.127213 GAAAAATCGGACTAACGCGCA 59.873 47.619 5.73 0.00 0.00 6.09
1745 4041 2.260434 GGACTAACGCGCAGACCA 59.740 61.111 19.71 0.00 0.00 4.02
1751 4047 1.003331 CTAACGCGCAGACCAAAACAA 60.003 47.619 5.73 0.00 0.00 2.83
1755 4051 0.524604 GCGCAGACCAAAACAAACGT 60.525 50.000 0.30 0.00 0.00 3.99
1762 4058 0.179161 CCAAAACAAACGTGCGTCCA 60.179 50.000 0.00 0.00 0.00 4.02
1764 4060 0.179158 AAAACAAACGTGCGTCCACC 60.179 50.000 0.00 0.00 38.79 4.61
1789 4100 3.197927 ACCCATTTCTGGCCCAATTTA 57.802 42.857 0.00 0.00 41.64 1.40
1808 4119 1.447838 GAGCCTCATTTGCGTCGGA 60.448 57.895 0.00 0.00 0.00 4.55
1901 4214 2.112331 CCATCCATTCCCACCCCATATT 59.888 50.000 0.00 0.00 0.00 1.28
1936 4249 2.566529 CGCCTCTGCTGTGTCGTA 59.433 61.111 0.00 0.00 34.43 3.43
1999 4315 2.115266 CACCTTCCCCCAACGCTT 59.885 61.111 0.00 0.00 0.00 4.68
2004 4320 2.411765 CTTCCCCCAACGCTTCCACT 62.412 60.000 0.00 0.00 0.00 4.00
2012 4328 2.035237 AACGCTTCCACTTCCCACGA 62.035 55.000 0.00 0.00 0.00 4.35
2198 4519 1.377725 CATCTCTTTGCCGGCCAGT 60.378 57.895 26.77 0.90 0.00 4.00
2225 4546 3.660111 GACGCCCGCAAGCAGTTT 61.660 61.111 0.00 0.00 0.00 2.66
2259 4580 1.612199 GGTACAAAATGGACTCCGCCA 60.612 52.381 0.00 0.00 43.23 5.69
2305 4627 1.989966 GCGACTCCGACGATTCCTCA 61.990 60.000 0.00 0.00 38.22 3.86
2312 4634 1.401670 CCGACGATTCCTCATCCGATC 60.402 57.143 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 1.138047 CTAAACACTACGAGGCGGCG 61.138 60.000 0.51 0.51 37.29 6.46
24 25 0.804933 CCTAAACACTACGAGGCGGC 60.805 60.000 0.00 0.00 0.00 6.53
25 26 0.529378 ACCTAAACACTACGAGGCGG 59.471 55.000 0.00 0.00 31.81 6.13
26 27 2.358939 AACCTAAACACTACGAGGCG 57.641 50.000 0.00 0.00 31.81 5.52
52 53 8.947055 AAGTCACATTTGCATTTAAGAAAACT 57.053 26.923 0.00 0.00 0.00 2.66
53 54 9.636965 GAAAGTCACATTTGCATTTAAGAAAAC 57.363 29.630 0.00 0.00 0.00 2.43
54 55 8.538856 CGAAAGTCACATTTGCATTTAAGAAAA 58.461 29.630 0.00 0.00 0.00 2.29
55 56 7.306515 GCGAAAGTCACATTTGCATTTAAGAAA 60.307 33.333 0.00 0.00 0.00 2.52
56 57 6.143758 GCGAAAGTCACATTTGCATTTAAGAA 59.856 34.615 0.00 0.00 0.00 2.52
57 58 5.629020 GCGAAAGTCACATTTGCATTTAAGA 59.371 36.000 0.00 0.00 0.00 2.10
58 59 5.164061 GGCGAAAGTCACATTTGCATTTAAG 60.164 40.000 7.29 0.00 34.40 1.85
59 60 4.683781 GGCGAAAGTCACATTTGCATTTAA 59.316 37.500 7.29 0.00 34.40 1.52
60 61 4.233789 GGCGAAAGTCACATTTGCATTTA 58.766 39.130 7.29 0.00 34.40 1.40
61 62 3.059166 GGCGAAAGTCACATTTGCATTT 58.941 40.909 7.29 0.00 34.40 2.32
62 63 2.676076 GGCGAAAGTCACATTTGCATT 58.324 42.857 7.29 0.00 34.40 3.56
63 64 1.401409 CGGCGAAAGTCACATTTGCAT 60.401 47.619 0.00 0.00 33.27 3.96
64 65 0.040514 CGGCGAAAGTCACATTTGCA 60.041 50.000 0.00 0.00 33.27 4.08
65 66 0.729140 CCGGCGAAAGTCACATTTGC 60.729 55.000 9.30 0.00 33.27 3.68
66 67 0.729140 GCCGGCGAAAGTCACATTTG 60.729 55.000 12.58 0.00 33.27 2.32
67 68 1.579429 GCCGGCGAAAGTCACATTT 59.421 52.632 12.58 0.00 33.27 2.32
68 69 2.332654 GGCCGGCGAAAGTCACATT 61.333 57.895 22.54 0.00 33.27 2.71
69 70 2.746277 GGCCGGCGAAAGTCACAT 60.746 61.111 22.54 0.00 33.27 3.21
70 71 3.469863 AAGGCCGGCGAAAGTCACA 62.470 57.895 22.54 0.00 33.27 3.58
71 72 2.668550 AAGGCCGGCGAAAGTCAC 60.669 61.111 22.54 3.21 33.27 3.67
72 73 2.358247 GAAGGCCGGCGAAAGTCA 60.358 61.111 22.54 0.00 33.27 3.41
73 74 3.488090 CGAAGGCCGGCGAAAGTC 61.488 66.667 22.54 11.59 33.91 3.01
74 75 4.309950 ACGAAGGCCGGCGAAAGT 62.310 61.111 22.54 15.26 43.93 2.66
75 76 3.788766 CACGAAGGCCGGCGAAAG 61.789 66.667 22.54 14.55 43.93 2.62
85 86 1.029947 ATTAAAGCCGGCCACGAAGG 61.030 55.000 26.15 0.00 44.60 3.46
86 87 0.098728 CATTAAAGCCGGCCACGAAG 59.901 55.000 26.15 5.89 44.60 3.79
87 88 0.606944 ACATTAAAGCCGGCCACGAA 60.607 50.000 26.15 13.16 44.60 3.85
88 89 0.606944 AACATTAAAGCCGGCCACGA 60.607 50.000 26.15 7.86 44.60 4.35
89 90 0.242555 AAACATTAAAGCCGGCCACG 59.757 50.000 26.15 8.66 40.55 4.94
90 91 3.579335 TTAAACATTAAAGCCGGCCAC 57.421 42.857 26.15 0.00 0.00 5.01
91 92 4.810191 AATTAAACATTAAAGCCGGCCA 57.190 36.364 26.15 5.71 0.00 5.36
92 93 6.759356 ACATTAATTAAACATTAAAGCCGGCC 59.241 34.615 26.15 5.07 0.00 6.13
93 94 7.764695 ACATTAATTAAACATTAAAGCCGGC 57.235 32.000 21.89 21.89 0.00 6.13
94 95 9.145865 ACAACATTAATTAAACATTAAAGCCGG 57.854 29.630 1.21 0.00 0.00 6.13
145 146 2.135933 CCCATTTTAACGGCGCAAAAA 58.864 42.857 19.48 18.89 0.00 1.94
146 147 1.068741 ACCCATTTTAACGGCGCAAAA 59.931 42.857 18.36 18.36 0.00 2.44
147 148 0.674534 ACCCATTTTAACGGCGCAAA 59.325 45.000 10.83 4.79 0.00 3.68
148 149 0.241481 GACCCATTTTAACGGCGCAA 59.759 50.000 10.83 0.00 0.00 4.85
149 150 1.877367 GACCCATTTTAACGGCGCA 59.123 52.632 10.83 0.00 0.00 6.09
150 151 1.226184 CGACCCATTTTAACGGCGC 60.226 57.895 6.90 0.00 0.00 6.53
151 152 1.426223 CCGACCCATTTTAACGGCG 59.574 57.895 4.80 4.80 37.32 6.46
152 153 0.961857 ACCCGACCCATTTTAACGGC 60.962 55.000 0.00 0.00 41.86 5.68
153 154 1.089112 GACCCGACCCATTTTAACGG 58.911 55.000 0.00 0.00 42.67 4.44
154 155 1.735571 CTGACCCGACCCATTTTAACG 59.264 52.381 0.00 0.00 0.00 3.18
155 156 1.471287 GCTGACCCGACCCATTTTAAC 59.529 52.381 0.00 0.00 0.00 2.01
156 157 1.828979 GCTGACCCGACCCATTTTAA 58.171 50.000 0.00 0.00 0.00 1.52
157 158 0.391927 CGCTGACCCGACCCATTTTA 60.392 55.000 0.00 0.00 0.00 1.52
158 159 1.674322 CGCTGACCCGACCCATTTT 60.674 57.895 0.00 0.00 0.00 1.82
159 160 2.046314 CGCTGACCCGACCCATTT 60.046 61.111 0.00 0.00 0.00 2.32
160 161 2.890766 AACGCTGACCCGACCCATT 61.891 57.895 0.00 0.00 0.00 3.16
161 162 3.319198 AACGCTGACCCGACCCAT 61.319 61.111 0.00 0.00 0.00 4.00
162 163 4.308458 CAACGCTGACCCGACCCA 62.308 66.667 0.00 0.00 0.00 4.51
186 187 4.459331 CATGTTTGGGTCGGCGCG 62.459 66.667 0.00 0.00 0.00 6.86
187 188 4.114997 CCATGTTTGGGTCGGCGC 62.115 66.667 0.00 0.00 39.56 6.53
188 189 1.922135 CTTCCATGTTTGGGTCGGCG 61.922 60.000 0.00 0.00 43.81 6.46
189 190 0.893727 ACTTCCATGTTTGGGTCGGC 60.894 55.000 0.00 0.00 43.81 5.54
190 191 0.881118 CACTTCCATGTTTGGGTCGG 59.119 55.000 0.00 0.00 43.81 4.79
191 192 1.890876 TCACTTCCATGTTTGGGTCG 58.109 50.000 0.00 0.00 43.81 4.79
192 193 2.031157 CGTTCACTTCCATGTTTGGGTC 60.031 50.000 0.00 0.00 43.81 4.46
193 194 1.953686 CGTTCACTTCCATGTTTGGGT 59.046 47.619 0.00 0.00 43.81 4.51
194 195 1.953686 ACGTTCACTTCCATGTTTGGG 59.046 47.619 0.00 0.00 43.81 4.12
195 196 2.031157 GGACGTTCACTTCCATGTTTGG 60.031 50.000 0.00 0.00 45.15 3.28
196 197 2.349438 CGGACGTTCACTTCCATGTTTG 60.349 50.000 0.00 0.00 34.26 2.93
197 198 1.871039 CGGACGTTCACTTCCATGTTT 59.129 47.619 0.00 0.00 34.26 2.83
198 199 1.202604 ACGGACGTTCACTTCCATGTT 60.203 47.619 0.00 0.00 34.26 2.71
199 200 0.391597 ACGGACGTTCACTTCCATGT 59.608 50.000 0.00 0.00 34.26 3.21
200 201 0.790207 CACGGACGTTCACTTCCATG 59.210 55.000 0.00 0.00 34.26 3.66
201 202 0.391597 ACACGGACGTTCACTTCCAT 59.608 50.000 0.00 0.00 34.26 3.41
202 203 0.249155 GACACGGACGTTCACTTCCA 60.249 55.000 0.00 0.00 34.26 3.53
203 204 0.942884 GGACACGGACGTTCACTTCC 60.943 60.000 0.00 0.00 0.00 3.46
204 205 1.273455 CGGACACGGACGTTCACTTC 61.273 60.000 0.00 0.00 36.18 3.01
205 206 1.299620 CGGACACGGACGTTCACTT 60.300 57.895 0.00 0.00 36.18 3.16
206 207 2.333938 CGGACACGGACGTTCACT 59.666 61.111 0.00 0.00 36.18 3.41
207 208 3.400590 GCGGACACGGACGTTCAC 61.401 66.667 0.00 0.00 41.36 3.18
208 209 4.651008 GGCGGACACGGACGTTCA 62.651 66.667 0.00 0.00 41.36 3.18
209 210 4.353437 AGGCGGACACGGACGTTC 62.353 66.667 0.00 0.00 41.36 3.95
210 211 4.657824 CAGGCGGACACGGACGTT 62.658 66.667 0.00 0.00 41.36 3.99
225 226 4.323477 TCCGTTTGGGTCGGCCAG 62.323 66.667 9.07 0.00 46.49 4.85
226 227 4.629523 GTCCGTTTGGGTCGGCCA 62.630 66.667 9.07 0.00 46.49 5.36
227 228 4.629523 TGTCCGTTTGGGTCGGCC 62.630 66.667 0.00 0.00 46.49 6.13
228 229 1.726533 TTTTGTCCGTTTGGGTCGGC 61.727 55.000 0.00 0.00 46.49 5.54
230 231 1.862411 GCTTTTTGTCCGTTTGGGTCG 60.862 52.381 0.00 0.00 37.00 4.79
231 232 1.135333 TGCTTTTTGTCCGTTTGGGTC 59.865 47.619 0.00 0.00 37.00 4.46
232 233 1.136110 CTGCTTTTTGTCCGTTTGGGT 59.864 47.619 0.00 0.00 37.00 4.51
233 234 1.407258 TCTGCTTTTTGTCCGTTTGGG 59.593 47.619 0.00 0.00 35.24 4.12
234 235 2.159310 TGTCTGCTTTTTGTCCGTTTGG 60.159 45.455 0.00 0.00 0.00 3.28
235 236 3.143807 TGTCTGCTTTTTGTCCGTTTG 57.856 42.857 0.00 0.00 0.00 2.93
236 237 3.859411 TTGTCTGCTTTTTGTCCGTTT 57.141 38.095 0.00 0.00 0.00 3.60
237 238 3.859411 TTTGTCTGCTTTTTGTCCGTT 57.141 38.095 0.00 0.00 0.00 4.44
238 239 3.859411 TTTTGTCTGCTTTTTGTCCGT 57.141 38.095 0.00 0.00 0.00 4.69
239 240 4.550639 GCAATTTTGTCTGCTTTTTGTCCG 60.551 41.667 0.00 0.00 35.62 4.79
240 241 4.260743 GGCAATTTTGTCTGCTTTTTGTCC 60.261 41.667 0.00 0.00 38.65 4.02
241 242 4.550639 CGGCAATTTTGTCTGCTTTTTGTC 60.551 41.667 0.00 0.00 38.65 3.18
242 243 3.309410 CGGCAATTTTGTCTGCTTTTTGT 59.691 39.130 0.00 0.00 38.65 2.83
243 244 3.309410 ACGGCAATTTTGTCTGCTTTTTG 59.691 39.130 0.00 0.00 38.65 2.44
244 245 3.530535 ACGGCAATTTTGTCTGCTTTTT 58.469 36.364 0.00 0.00 38.65 1.94
245 246 3.123050 GACGGCAATTTTGTCTGCTTTT 58.877 40.909 0.00 0.00 38.65 2.27
246 247 2.545742 GGACGGCAATTTTGTCTGCTTT 60.546 45.455 0.00 0.00 38.65 3.51
247 248 1.000274 GGACGGCAATTTTGTCTGCTT 60.000 47.619 0.00 0.00 38.65 3.91
248 249 0.598065 GGACGGCAATTTTGTCTGCT 59.402 50.000 0.00 0.00 38.65 4.24
249 250 0.729140 CGGACGGCAATTTTGTCTGC 60.729 55.000 0.00 0.00 37.86 4.26
250 251 0.591170 ACGGACGGCAATTTTGTCTG 59.409 50.000 0.00 8.17 43.14 3.51
251 252 1.314730 AACGGACGGCAATTTTGTCT 58.685 45.000 0.00 0.00 33.21 3.41
252 253 1.784283 CAAACGGACGGCAATTTTGTC 59.216 47.619 0.00 0.00 0.00 3.18
253 254 1.537135 CCAAACGGACGGCAATTTTGT 60.537 47.619 7.46 0.00 0.00 2.83
254 255 1.135867 CCAAACGGACGGCAATTTTG 58.864 50.000 0.00 0.00 0.00 2.44
255 256 0.032815 CCCAAACGGACGGCAATTTT 59.967 50.000 0.00 0.00 0.00 1.82
256 257 1.110518 ACCCAAACGGACGGCAATTT 61.111 50.000 0.00 0.00 34.64 1.82
257 258 1.520600 GACCCAAACGGACGGCAATT 61.521 55.000 0.00 0.00 34.64 2.32
258 259 1.969589 GACCCAAACGGACGGCAAT 60.970 57.895 0.00 0.00 34.64 3.56
259 260 2.592287 GACCCAAACGGACGGCAA 60.592 61.111 0.00 0.00 34.64 4.52
260 261 4.973055 CGACCCAAACGGACGGCA 62.973 66.667 0.00 0.00 44.72 5.69
273 274 4.324991 AACTCCAACGGGCCGACC 62.325 66.667 35.78 0.00 0.00 4.79
274 275 3.047877 CAACTCCAACGGGCCGAC 61.048 66.667 35.78 0.00 0.00 4.79
277 278 2.180159 TAGAGCAACTCCAACGGGCC 62.180 60.000 0.00 0.00 0.00 5.80
278 279 0.321298 TTAGAGCAACTCCAACGGGC 60.321 55.000 0.00 0.00 0.00 6.13
279 280 1.676014 CCTTAGAGCAACTCCAACGGG 60.676 57.143 0.00 0.00 0.00 5.28
280 281 1.275291 TCCTTAGAGCAACTCCAACGG 59.725 52.381 0.00 0.00 0.00 4.44
281 282 2.028930 ACTCCTTAGAGCAACTCCAACG 60.029 50.000 0.00 0.00 44.65 4.10
282 283 3.591023 GACTCCTTAGAGCAACTCCAAC 58.409 50.000 0.00 0.00 44.65 3.77
283 284 2.231478 CGACTCCTTAGAGCAACTCCAA 59.769 50.000 0.00 0.00 44.65 3.53
284 285 1.819288 CGACTCCTTAGAGCAACTCCA 59.181 52.381 0.00 0.00 44.65 3.86
285 286 2.093106 TCGACTCCTTAGAGCAACTCC 58.907 52.381 0.00 0.00 44.65 3.85
286 287 4.109050 CAATCGACTCCTTAGAGCAACTC 58.891 47.826 0.00 0.00 44.65 3.01
287 288 3.511934 ACAATCGACTCCTTAGAGCAACT 59.488 43.478 0.00 0.00 44.65 3.16
288 289 3.851098 ACAATCGACTCCTTAGAGCAAC 58.149 45.455 0.00 0.00 44.65 4.17
289 290 4.021456 TCAACAATCGACTCCTTAGAGCAA 60.021 41.667 0.00 0.00 44.65 3.91
290 291 3.509967 TCAACAATCGACTCCTTAGAGCA 59.490 43.478 0.00 0.00 44.65 4.26
291 292 3.860536 GTCAACAATCGACTCCTTAGAGC 59.139 47.826 0.00 0.00 44.65 4.09
292 293 4.099120 CGTCAACAATCGACTCCTTAGAG 58.901 47.826 0.00 0.00 46.36 2.43
293 294 3.754850 TCGTCAACAATCGACTCCTTAGA 59.245 43.478 0.00 0.00 0.00 2.10
301 302 3.050619 AGTGAGTTCGTCAACAATCGAC 58.949 45.455 0.00 0.00 36.74 4.20
307 308 2.159352 TCGACAAGTGAGTTCGTCAACA 60.159 45.455 0.00 0.00 36.74 3.33
399 400 2.356553 GCACGCTACACCGACCAA 60.357 61.111 0.00 0.00 0.00 3.67
564 576 3.380637 GCTCTTCAAATCATCCACTGCAT 59.619 43.478 0.00 0.00 0.00 3.96
608 2387 7.566569 ACAGAACAGATCAAATCAGATCAGAT 58.433 34.615 6.70 0.00 45.39 2.90
660 2439 2.102438 CACGTCGCACCATGCATCT 61.102 57.895 0.00 0.00 45.36 2.90
773 2814 2.539302 TCATCCATCATCCATCGGCTA 58.461 47.619 0.00 0.00 0.00 3.93
809 2851 1.002659 CCGAGTGGGTGGAATACAACA 59.997 52.381 0.00 0.00 39.06 3.33
830 2872 1.965930 GACAGCACGTGGCCAATGA 60.966 57.895 18.88 0.00 46.50 2.57
1003 3175 2.509336 CGGGAGCGTTGCTACAGG 60.509 66.667 3.06 0.00 42.18 4.00
1110 3291 1.139095 GACGTCCTGATCGACACCC 59.861 63.158 3.51 0.00 32.74 4.61
1302 3506 2.380064 AACATGCCTTTTCCCTGACA 57.620 45.000 0.00 0.00 0.00 3.58
1421 3655 6.318648 ACATGACAGACAGAAGCAAGTAAAAA 59.681 34.615 0.00 0.00 0.00 1.94
1427 3665 3.396560 TCACATGACAGACAGAAGCAAG 58.603 45.455 0.00 0.00 0.00 4.01
1434 3701 3.103447 ACACACTCACATGACAGACAG 57.897 47.619 0.00 0.00 0.00 3.51
1509 3776 6.101332 CACCCACATTTATTTCTGATTGGTG 58.899 40.000 0.00 0.00 33.25 4.17
1598 3887 7.373441 GCATGTACGAATTAACTCTGTATTTGC 59.627 37.037 0.00 8.57 0.00 3.68
1616 3905 1.129251 CAAAGGCTCTGTGCATGTACG 59.871 52.381 9.48 4.65 45.15 3.67
1628 3920 0.039708 GCTCTGTTGTGCAAAGGCTC 60.040 55.000 0.00 0.00 41.91 4.70
1629 3921 1.789078 CGCTCTGTTGTGCAAAGGCT 61.789 55.000 0.00 0.00 41.91 4.58
1638 3930 0.250467 AAGGATGTGCGCTCTGTTGT 60.250 50.000 9.73 0.00 0.00 3.32
1641 3933 1.135915 CTCTAAGGATGTGCGCTCTGT 59.864 52.381 9.73 0.00 0.00 3.41
1675 3967 2.030401 CGCGGACGAAATGGGTCAA 61.030 57.895 0.00 0.00 43.93 3.18
1696 3992 2.968156 CGCCGACCCAAACGAACA 60.968 61.111 0.00 0.00 0.00 3.18
1730 4026 0.584876 GTTTTGGTCTGCGCGTTAGT 59.415 50.000 8.43 0.00 0.00 2.24
1740 4036 0.806241 ACGCACGTTTGTTTTGGTCT 59.194 45.000 0.00 0.00 0.00 3.85
1745 4041 0.179158 GGTGGACGCACGTTTGTTTT 60.179 50.000 0.00 0.00 0.00 2.43
1762 4058 1.606313 CCAGAAATGGGTTGGCGGT 60.606 57.895 0.00 0.00 0.00 5.68
1764 4060 2.573340 GCCAGAAATGGGTTGGCG 59.427 61.111 0.00 0.00 46.82 5.69
1768 4077 2.043307 AATTGGGCCAGAAATGGGTT 57.957 45.000 6.23 0.00 0.00 4.11
1789 4100 1.448540 CCGACGCAAATGAGGCTCT 60.449 57.895 16.72 0.00 0.00 4.09
1808 4119 2.241880 CGTCCGTTTTGTGTCCGCT 61.242 57.895 0.00 0.00 0.00 5.52
1840 4151 3.164977 GCCAGGGGGAGGAGTAGC 61.165 72.222 0.00 0.00 35.59 3.58
1886 4198 2.424812 GCTGTCAATATGGGGTGGGAAT 60.425 50.000 0.00 0.00 0.00 3.01
1901 4214 2.281484 GGCGAGGGTTTGCTGTCA 60.281 61.111 0.00 0.00 33.93 3.58
1999 4315 3.998672 GGCGTCGTGGGAAGTGGA 61.999 66.667 0.00 0.00 0.00 4.02
2078 4398 2.124983 GATGCGGCTTCCTGCTCA 60.125 61.111 0.00 0.00 42.39 4.26
2102 4422 2.341101 GGACGAAGGAGCTGGACGA 61.341 63.158 0.00 0.00 0.00 4.20
2198 4519 4.409218 CGGGCGTCGACGAAGGAA 62.409 66.667 39.74 0.00 43.02 3.36
2225 4546 2.719531 TGTACCTTGGCAAACTGTCA 57.280 45.000 0.00 0.00 0.00 3.58
2305 4627 3.763931 CTCCTCCTCCTGATCGGAT 57.236 57.895 2.08 0.00 42.12 4.18


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

AutoCloner maintained by Alex Coulton.