Multiple sequence alignment - TraesCS1B01G109600

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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 TraesCS1B01G109600 chr1B 100.000 4304 0 0 1 4304 121717044 121712741 0.000000e+00 7949.0
1 TraesCS1B01G109600 chr1B 98.661 896 10 1 3409 4304 121563893 121563000 0.000000e+00 1587.0
2 TraesCS1B01G109600 chr1B 99.572 467 1 1 471 936 121564358 121563892 0.000000e+00 850.0
3 TraesCS1B01G109600 chr1B 90.239 461 36 2 12 467 121565100 121564644 1.030000e-165 593.0
4 TraesCS1B01G109600 chr1D 95.321 2116 75 11 1269 3370 78067311 78065206 0.000000e+00 3338.0
5 TraesCS1B01G109600 chr1D 88.938 1130 69 30 1 1104 78068406 78067307 0.000000e+00 1343.0
6 TraesCS1B01G109600 chr1D 89.866 819 53 13 3362 4162 78058050 78057244 0.000000e+00 1026.0
7 TraesCS1B01G109600 chr1D 100.000 97 0 0 4158 4254 78035489 78035393 3.420000e-41 180.0
8 TraesCS1B01G109600 chr1A 92.964 2075 120 8 1269 3339 105302631 105304683 0.000000e+00 3000.0
9 TraesCS1B01G109600 chr1A 92.308 1469 102 4 1872 3339 109416571 109415113 0.000000e+00 2076.0
10 TraesCS1B01G109600 chr1A 92.654 422 18 7 689 1104 105302221 105302635 2.870000e-166 595.0
11 TraesCS1B01G109600 chr1A 92.965 398 21 4 709 1104 109420564 109420172 1.340000e-159 573.0
12 TraesCS1B01G109600 chr1A 93.313 329 16 5 364 690 105301659 105301983 8.370000e-132 481.0
13 TraesCS1B01G109600 chr1A 91.391 302 19 5 309 608 109422429 109422133 1.440000e-109 407.0
14 TraesCS1B01G109600 chr1A 92.653 245 16 2 1279 1523 109419882 109419640 6.850000e-93 351.0
15 TraesCS1B01G109600 chr1A 91.765 85 5 1 709 793 109421048 109420966 2.720000e-22 117.0
16 TraesCS1B01G109600 chr3B 90.000 1880 161 12 1622 3497 736311062 736312918 0.000000e+00 2405.0
17 TraesCS1B01G109600 chr3B 90.161 1799 155 11 1612 3409 736325052 736326829 0.000000e+00 2322.0
18 TraesCS1B01G109600 chr3B 76.712 730 83 51 407 1101 736324088 736324765 4.150000e-85 326.0
19 TraesCS1B01G109600 chr3B 83.478 115 8 5 478 582 736253607 736253720 3.540000e-16 97.1
20 TraesCS1B01G109600 chr3B 86.765 68 4 4 403 467 736253487 736253552 2.150000e-08 71.3
21 TraesCS1B01G109600 chr3B 100.000 38 0 0 1558 1595 736325052 736325089 2.150000e-08 71.3
22 TraesCS1B01G109600 chr3B 92.683 41 0 2 1558 1595 736311049 736311089 6.010000e-04 56.5
23 TraesCS1B01G109600 chr3D 89.894 1880 163 14 1622 3497 554216954 554218810 0.000000e+00 2394.0
24 TraesCS1B01G109600 chr3D 88.779 1925 173 21 1595 3497 554328805 554330708 0.000000e+00 2318.0
25 TraesCS1B01G109600 chr3D 78.886 682 87 23 3594 4248 184142213 184141562 4.010000e-110 409.0
26 TraesCS1B01G109600 chr3D 81.068 206 9 15 402 582 554177460 554177660 2.090000e-28 137.0
27 TraesCS1B01G109600 chr3D 81.068 206 9 15 402 582 554223666 554223866 2.090000e-28 137.0
28 TraesCS1B01G109600 chr3D 80.392 204 13 15 403 582 554169643 554169843 3.490000e-26 130.0
29 TraesCS1B01G109600 chr3D 100.000 37 0 0 1558 1594 554318363 554318399 7.720000e-08 69.4
30 TraesCS1B01G109600 chr3D 92.683 41 0 2 1558 1595 554216941 554216981 6.010000e-04 56.5
31 TraesCS1B01G109600 chr3A 89.628 1880 168 14 1622 3497 690785062 690786918 0.000000e+00 2366.0
32 TraesCS1B01G109600 chr3A 88.548 1921 182 20 1595 3497 690896653 690898553 0.000000e+00 2294.0
33 TraesCS1B01G109600 chr3A 88.689 1892 165 24 1612 3497 690857656 690859504 0.000000e+00 2263.0
34 TraesCS1B01G109600 chr3A 97.674 172 3 1 1103 1274 52454074 52454244 1.170000e-75 294.0
35 TraesCS1B01G109600 chr3A 90.152 132 13 0 4126 4257 700329722 700329591 5.720000e-39 172.0
36 TraesCS1B01G109600 chr3A 90.698 129 12 0 4126 4254 701248131 701248259 5.720000e-39 172.0
37 TraesCS1B01G109600 chr3A 98.246 57 1 0 593 649 690752394 690752450 2.740000e-17 100.0
38 TraesCS1B01G109600 chr3A 76.720 189 21 13 402 568 690884580 690884767 2.760000e-12 84.2
39 TraesCS1B01G109600 chr3A 86.567 67 5 2 1533 1595 690896645 690896711 2.150000e-08 71.3
40 TraesCS1B01G109600 chr3A 87.719 57 0 4 1546 1595 690785033 690785089 4.650000e-05 60.2
41 TraesCS1B01G109600 chrUn 80.054 737 106 23 3594 4304 212207600 212206879 3.840000e-140 508.0
42 TraesCS1B01G109600 chrUn 79.916 478 71 14 3594 4052 91045829 91046300 1.150000e-85 327.0
43 TraesCS1B01G109600 chrUn 79.916 478 71 14 3594 4052 91092475 91092946 1.150000e-85 327.0
44 TraesCS1B01G109600 chrUn 90.698 129 12 0 4126 4254 342887945 342888073 5.720000e-39 172.0
45 TraesCS1B01G109600 chrUn 93.333 45 2 1 3594 3638 297327146 297327189 9.990000e-07 65.8
46 TraesCS1B01G109600 chr5B 77.566 682 94 27 3603 4258 661613372 661614020 1.470000e-94 357.0
47 TraesCS1B01G109600 chr5B 97.714 175 2 2 1101 1274 396856586 396856759 2.520000e-77 300.0
48 TraesCS1B01G109600 chr5B 83.448 145 24 0 4041 4185 507864071 507864215 7.510000e-28 135.0
49 TraesCS1B01G109600 chr5B 88.406 69 2 4 403 468 566695074 566695139 1.280000e-10 78.7
50 TraesCS1B01G109600 chr2D 87.413 286 29 4 1 281 38479635 38479918 5.370000e-84 322.0
51 TraesCS1B01G109600 chr2A 97.714 175 3 1 1106 1280 746687374 746687201 2.520000e-77 300.0
52 TraesCS1B01G109600 chr2A 97.674 172 4 0 1106 1277 326164055 326163884 3.250000e-76 296.0
53 TraesCS1B01G109600 chr6B 98.235 170 3 0 1102 1271 48412072 48412241 9.050000e-77 298.0
54 TraesCS1B01G109600 chr7B 83.792 327 31 13 1 311 489547469 489547149 1.510000e-74 291.0
55 TraesCS1B01G109600 chr7A 95.161 186 6 3 1094 1278 50348613 50348430 1.510000e-74 291.0
56 TraesCS1B01G109600 chr7A 79.181 293 37 10 4022 4304 89948384 89948106 9.510000e-42 182.0
57 TraesCS1B01G109600 chr4A 96.067 178 7 0 1095 1272 619191256 619191079 1.510000e-74 291.0
58 TraesCS1B01G109600 chr4A 96.703 91 3 0 4214 4304 31248993 31248903 7.450000e-33 152.0
59 TraesCS1B01G109600 chr4A 94.505 91 5 0 4214 4304 31346210 31346120 1.610000e-29 141.0
60 TraesCS1B01G109600 chr4A 93.478 46 2 1 3593 3638 231019376 231019332 2.780000e-07 67.6
61 TraesCS1B01G109600 chr4A 93.478 46 2 1 3593 3638 685756007 685755963 2.780000e-07 67.6
62 TraesCS1B01G109600 chr4A 93.333 45 2 1 3594 3638 599618884 599618841 9.990000e-07 65.8
63 TraesCS1B01G109600 chr4D 92.893 197 12 2 1091 1286 95133663 95133858 7.040000e-73 285.0
64 TraesCS1B01G109600 chr4D 82.407 324 40 13 1 312 480521057 480520739 2.550000e-67 267.0
65 TraesCS1B01G109600 chr6D 84.775 289 36 3 1 284 435965581 435965296 2.530000e-72 283.0
66 TraesCS1B01G109600 chr2B 93.299 194 9 4 1106 1297 779670304 779670495 2.530000e-72 283.0
67 TraesCS1B01G109600 chr7D 83.544 316 36 8 17 318 613792589 613792902 9.110000e-72 281.0
68 TraesCS1B01G109600 chr7D 83.737 289 37 7 1 284 557086727 557086444 9.180000e-67 265.0
69 TraesCS1B01G109600 chr7D 85.393 89 5 4 4139 4219 112055510 112055598 7.670000e-13 86.1
70 TraesCS1B01G109600 chr4B 84.300 293 36 5 1 287 559651173 559651461 1.180000e-70 278.0
71 TraesCS1B01G109600 chr6A 79.110 292 39 8 4022 4304 101997007 101996729 9.510000e-42 182.0


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 TraesCS1B01G109600 chr1B 121712741 121717044 4303 True 7949.000000 7949 100.000000 1 4304 1 chr1B.!!$R1 4303
1 TraesCS1B01G109600 chr1B 121563000 121565100 2100 True 1010.000000 1587 96.157333 12 4304 3 chr1B.!!$R2 4292
2 TraesCS1B01G109600 chr1D 78065206 78068406 3200 True 2340.500000 3338 92.129500 1 3370 2 chr1D.!!$R3 3369
3 TraesCS1B01G109600 chr1D 78057244 78058050 806 True 1026.000000 1026 89.866000 3362 4162 1 chr1D.!!$R2 800
4 TraesCS1B01G109600 chr1A 105301659 105304683 3024 False 1358.666667 3000 92.977000 364 3339 3 chr1A.!!$F1 2975
5 TraesCS1B01G109600 chr1A 109415113 109422429 7316 True 704.800000 2076 92.216400 309 3339 5 chr1A.!!$R1 3030
6 TraesCS1B01G109600 chr3B 736311049 736312918 1869 False 1230.750000 2405 91.341500 1558 3497 2 chr3B.!!$F2 1939
7 TraesCS1B01G109600 chr3B 736324088 736326829 2741 False 906.433333 2322 88.957667 407 3409 3 chr3B.!!$F3 3002
8 TraesCS1B01G109600 chr3D 554328805 554330708 1903 False 2318.000000 2318 88.779000 1595 3497 1 chr3D.!!$F5 1902
9 TraesCS1B01G109600 chr3D 554216941 554218810 1869 False 1225.250000 2394 91.288500 1558 3497 2 chr3D.!!$F6 1939
10 TraesCS1B01G109600 chr3D 184141562 184142213 651 True 409.000000 409 78.886000 3594 4248 1 chr3D.!!$R1 654
11 TraesCS1B01G109600 chr3A 690857656 690859504 1848 False 2263.000000 2263 88.689000 1612 3497 1 chr3A.!!$F3 1885
12 TraesCS1B01G109600 chr3A 690785033 690786918 1885 False 1213.100000 2366 88.673500 1546 3497 2 chr3A.!!$F6 1951
13 TraesCS1B01G109600 chr3A 690896645 690898553 1908 False 1182.650000 2294 87.557500 1533 3497 2 chr3A.!!$F7 1964
14 TraesCS1B01G109600 chrUn 212206879 212207600 721 True 508.000000 508 80.054000 3594 4304 1 chrUn.!!$R1 710
15 TraesCS1B01G109600 chr5B 661613372 661614020 648 False 357.000000 357 77.566000 3603 4258 1 chr5B.!!$F4 655

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
362 378 0.461135 GCCCATTCATGAACGCCAAT 59.539 50.000 11.07 0.0 0.0 3.16 F
1887 7037 1.000506 ACATGTACCGCTTCAACGTCT 59.999 47.619 0.00 0.0 0.0 4.18 F
2845 8026 0.039256 GTACAACTACACCGACCGCA 60.039 55.000 0.00 0.0 0.0 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2011 7191 1.000843 CACTCGCCGATAATGATGGGA 59.999 52.381 0.0 0.0 32.76 4.37 R
2883 8064 2.355481 GTCGCCTTGAACGTCGGT 60.355 61.111 0.0 0.0 0.00 4.69 R
3677 8894 5.077369 AGAAACTAGGTAGGGGATAGACC 57.923 47.826 0.0 0.0 38.08 3.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 97 5.476091 TTGTGGTTTTTCTTTGGTCTTGT 57.524 34.783 0.00 0.00 0.00 3.16
99 105 7.147966 GGTTTTTCTTTGGTCTTGTCCTTCTAA 60.148 37.037 0.00 0.00 0.00 2.10
176 183 4.512571 GCAAAGAAATGTGTTTCAATGGCT 59.487 37.500 4.01 0.00 44.92 4.75
199 206 8.452534 GGCTGAAATTGAAATGCAAATGAATTA 58.547 29.630 0.00 0.00 40.48 1.40
250 257 3.557686 GGCTAGGTCCGGTCAAAACTTAA 60.558 47.826 0.00 0.00 0.00 1.85
255 262 3.822167 GGTCCGGTCAAAACTTAATGGAA 59.178 43.478 0.00 0.00 0.00 3.53
318 334 5.449725 GGTTAGAGTTGCCCTAAGTACTACG 60.450 48.000 0.00 0.00 0.00 3.51
327 343 0.726827 TAAGTACTACGGTGCCGACG 59.273 55.000 18.16 9.61 42.83 5.12
360 376 0.683828 ATGCCCATTCATGAACGCCA 60.684 50.000 11.07 6.35 0.00 5.69
362 378 0.461135 GCCCATTCATGAACGCCAAT 59.539 50.000 11.07 0.00 0.00 3.16
377 393 7.526608 TGAACGCCAATTTAGATTACTGAAAG 58.473 34.615 0.00 0.00 42.29 2.62
467 483 1.744456 CGGCTAGAGGAAGTCTCGTCT 60.744 57.143 0.00 3.19 46.82 4.18
1039 3098 3.055719 CCGTTGTCCTTGCGGCAT 61.056 61.111 2.28 0.00 38.99 4.40
1104 3166 7.009265 CACACCTTTGTCGTGAGTACAATATAG 59.991 40.741 0.00 0.00 36.75 1.31
1105 3167 7.033791 CACCTTTGTCGTGAGTACAATATAGT 58.966 38.462 0.00 0.00 36.75 2.12
1106 3168 8.186163 CACCTTTGTCGTGAGTACAATATAGTA 58.814 37.037 0.00 0.00 36.75 1.82
1107 3169 8.186821 ACCTTTGTCGTGAGTACAATATAGTAC 58.813 37.037 0.00 0.00 43.61 2.73
1117 3179 6.890979 GTACAATATAGTACTCCCTCCGTT 57.109 41.667 0.00 0.00 40.85 4.44
1118 3180 6.907741 GTACAATATAGTACTCCCTCCGTTC 58.092 44.000 0.00 0.00 40.85 3.95
1119 3181 4.831710 ACAATATAGTACTCCCTCCGTTCC 59.168 45.833 0.00 0.00 0.00 3.62
1120 3182 5.078256 CAATATAGTACTCCCTCCGTTCCT 58.922 45.833 0.00 0.00 0.00 3.36
1121 3183 6.183361 ACAATATAGTACTCCCTCCGTTCCTA 60.183 42.308 0.00 0.00 0.00 2.94
1122 3184 4.803329 ATAGTACTCCCTCCGTTCCTAA 57.197 45.455 0.00 0.00 0.00 2.69
1123 3185 3.463048 AGTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
1124 3186 3.991683 AGTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
1125 3187 5.134725 AGTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
1126 3188 4.892345 AGTACTCCCTCCGTTCCTAAATAC 59.108 45.833 0.00 0.00 0.00 1.89
1127 3189 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
1128 3190 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
1129 3191 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
1130 3192 4.098894 TCCCTCCGTTCCTAAATACTTGT 58.901 43.478 0.00 0.00 0.00 3.16
1131 3193 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
1132 3194 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
1133 3195 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
1134 3196 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
1135 3197 6.313164 CCTCCGTTCCTAAATACTTGTCTTTC 59.687 42.308 0.00 0.00 0.00 2.62
1136 3198 7.001099 TCCGTTCCTAAATACTTGTCTTTCT 57.999 36.000 0.00 0.00 0.00 2.52
1137 3199 8.125978 TCCGTTCCTAAATACTTGTCTTTCTA 57.874 34.615 0.00 0.00 0.00 2.10
1138 3200 8.248945 TCCGTTCCTAAATACTTGTCTTTCTAG 58.751 37.037 0.00 0.00 0.00 2.43
1139 3201 7.491696 CCGTTCCTAAATACTTGTCTTTCTAGG 59.508 40.741 0.00 0.00 0.00 3.02
1140 3202 7.010275 CGTTCCTAAATACTTGTCTTTCTAGGC 59.990 40.741 0.00 0.00 0.00 3.93
1141 3203 7.490657 TCCTAAATACTTGTCTTTCTAGGCA 57.509 36.000 0.00 0.00 33.22 4.75
1142 3204 8.090788 TCCTAAATACTTGTCTTTCTAGGCAT 57.909 34.615 0.00 0.00 35.56 4.40
1143 3205 8.548877 TCCTAAATACTTGTCTTTCTAGGCATT 58.451 33.333 0.00 0.00 35.56 3.56
1144 3206 9.178758 CCTAAATACTTGTCTTTCTAGGCATTT 57.821 33.333 0.00 0.00 35.56 2.32
1146 3208 8.635765 AAATACTTGTCTTTCTAGGCATTTCA 57.364 30.769 0.00 0.00 35.56 2.69
1147 3209 8.635765 AATACTTGTCTTTCTAGGCATTTCAA 57.364 30.769 0.00 0.00 35.56 2.69
1148 3210 6.319141 ACTTGTCTTTCTAGGCATTTCAAC 57.681 37.500 0.00 0.00 35.56 3.18
1149 3211 5.827797 ACTTGTCTTTCTAGGCATTTCAACA 59.172 36.000 0.00 0.00 35.56 3.33
1150 3212 6.321181 ACTTGTCTTTCTAGGCATTTCAACAA 59.679 34.615 0.00 0.00 35.56 2.83
1151 3213 6.707440 TGTCTTTCTAGGCATTTCAACAAA 57.293 33.333 0.00 0.00 29.10 2.83
1152 3214 7.288810 TGTCTTTCTAGGCATTTCAACAAAT 57.711 32.000 0.00 0.00 29.10 2.32
1165 3227 7.915293 ATTTCAACAAATGACTACATACGGA 57.085 32.000 0.00 0.00 37.92 4.69
1166 3228 6.961359 TTCAACAAATGACTACATACGGAG 57.039 37.500 0.00 0.00 37.92 4.63
1167 3229 4.868171 TCAACAAATGACTACATACGGAGC 59.132 41.667 0.00 0.00 35.50 4.70
1168 3230 4.465632 ACAAATGACTACATACGGAGCA 57.534 40.909 0.00 0.00 35.50 4.26
1169 3231 4.827692 ACAAATGACTACATACGGAGCAA 58.172 39.130 0.00 0.00 35.50 3.91
1170 3232 5.242434 ACAAATGACTACATACGGAGCAAA 58.758 37.500 0.00 0.00 35.50 3.68
1171 3233 5.703592 ACAAATGACTACATACGGAGCAAAA 59.296 36.000 0.00 0.00 35.50 2.44
1172 3234 6.374333 ACAAATGACTACATACGGAGCAAAAT 59.626 34.615 0.00 0.00 35.50 1.82
1173 3235 5.991328 ATGACTACATACGGAGCAAAATG 57.009 39.130 0.00 0.00 34.71 2.32
1174 3236 5.079689 TGACTACATACGGAGCAAAATGA 57.920 39.130 0.00 0.00 0.00 2.57
1175 3237 5.109210 TGACTACATACGGAGCAAAATGAG 58.891 41.667 0.00 0.00 0.00 2.90
1176 3238 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
1177 3239 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
1178 3240 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
1179 3241 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
1180 3242 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
1181 3243 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
1182 3244 2.416547 ACGGAGCAAAATGAGTGAATCG 59.583 45.455 0.00 0.00 0.00 3.34
1183 3245 2.672874 CGGAGCAAAATGAGTGAATCGA 59.327 45.455 0.00 0.00 0.00 3.59
1184 3246 3.484229 CGGAGCAAAATGAGTGAATCGAC 60.484 47.826 0.00 0.00 0.00 4.20
1185 3247 3.436704 GGAGCAAAATGAGTGAATCGACA 59.563 43.478 0.00 0.00 0.00 4.35
1186 3248 4.398247 GAGCAAAATGAGTGAATCGACAC 58.602 43.478 0.00 0.00 40.60 3.67
1199 3261 8.635877 AGTGAATCGACACTCTAAAATATGTC 57.364 34.615 2.98 0.00 46.36 3.06
1200 3262 8.470805 AGTGAATCGACACTCTAAAATATGTCT 58.529 33.333 2.98 0.00 46.36 3.41
1201 3263 9.731819 GTGAATCGACACTCTAAAATATGTCTA 57.268 33.333 0.00 0.00 39.45 2.59
1202 3264 9.731819 TGAATCGACACTCTAAAATATGTCTAC 57.268 33.333 0.00 0.00 39.45 2.59
1203 3265 9.731819 GAATCGACACTCTAAAATATGTCTACA 57.268 33.333 0.00 0.00 39.45 2.74
1207 3269 9.946165 CGACACTCTAAAATATGTCTACATACA 57.054 33.333 4.98 0.00 41.15 2.29
1229 3291 7.342769 ACATCCGTATGTAGTAGTCATTTGA 57.657 36.000 0.00 0.00 44.66 2.69
1230 3292 7.778083 ACATCCGTATGTAGTAGTCATTTGAA 58.222 34.615 0.00 0.00 44.66 2.69
1231 3293 8.255206 ACATCCGTATGTAGTAGTCATTTGAAA 58.745 33.333 0.00 0.00 44.66 2.69
1232 3294 9.261180 CATCCGTATGTAGTAGTCATTTGAAAT 57.739 33.333 0.00 0.00 0.00 2.17
1233 3295 8.642908 TCCGTATGTAGTAGTCATTTGAAATG 57.357 34.615 11.54 11.54 0.00 2.32
1234 3296 7.223971 TCCGTATGTAGTAGTCATTTGAAATGC 59.776 37.037 12.86 8.33 0.00 3.56
1235 3297 7.345192 CGTATGTAGTAGTCATTTGAAATGCC 58.655 38.462 12.86 1.61 0.00 4.40
1236 3298 7.224753 CGTATGTAGTAGTCATTTGAAATGCCT 59.775 37.037 12.86 9.73 0.00 4.75
1237 3299 9.542462 GTATGTAGTAGTCATTTGAAATGCCTA 57.458 33.333 12.86 8.70 0.00 3.93
1238 3300 8.668510 ATGTAGTAGTCATTTGAAATGCCTAG 57.331 34.615 12.86 0.00 0.00 3.02
1239 3301 7.847096 TGTAGTAGTCATTTGAAATGCCTAGA 58.153 34.615 12.86 6.34 0.00 2.43
1240 3302 8.318412 TGTAGTAGTCATTTGAAATGCCTAGAA 58.682 33.333 12.86 0.41 0.00 2.10
1241 3303 9.162764 GTAGTAGTCATTTGAAATGCCTAGAAA 57.837 33.333 12.86 0.00 0.00 2.52
1242 3304 8.273780 AGTAGTCATTTGAAATGCCTAGAAAG 57.726 34.615 12.86 0.00 0.00 2.62
1243 3305 8.103305 AGTAGTCATTTGAAATGCCTAGAAAGA 58.897 33.333 12.86 0.00 0.00 2.52
1244 3306 7.150783 AGTCATTTGAAATGCCTAGAAAGAC 57.849 36.000 12.86 3.23 0.00 3.01
1245 3307 6.716628 AGTCATTTGAAATGCCTAGAAAGACA 59.283 34.615 12.86 0.00 0.00 3.41
1246 3308 7.231317 AGTCATTTGAAATGCCTAGAAAGACAA 59.769 33.333 12.86 0.00 0.00 3.18
1247 3309 7.540055 GTCATTTGAAATGCCTAGAAAGACAAG 59.460 37.037 12.86 0.00 0.00 3.16
1248 3310 6.959639 TTTGAAATGCCTAGAAAGACAAGT 57.040 33.333 0.00 0.00 0.00 3.16
1249 3311 8.514594 CATTTGAAATGCCTAGAAAGACAAGTA 58.485 33.333 4.82 0.00 0.00 2.24
1250 3312 8.635765 TTTGAAATGCCTAGAAAGACAAGTAT 57.364 30.769 0.00 0.00 0.00 2.12
1251 3313 8.635765 TTGAAATGCCTAGAAAGACAAGTATT 57.364 30.769 0.00 0.00 0.00 1.89
1252 3314 8.635765 TGAAATGCCTAGAAAGACAAGTATTT 57.364 30.769 0.00 0.00 0.00 1.40
1253 3315 9.733556 TGAAATGCCTAGAAAGACAAGTATTTA 57.266 29.630 0.00 0.00 0.00 1.40
1255 3317 8.738645 AATGCCTAGAAAGACAAGTATTTAGG 57.261 34.615 5.26 5.26 0.00 2.69
1256 3318 7.490657 TGCCTAGAAAGACAAGTATTTAGGA 57.509 36.000 11.40 0.00 26.70 2.94
1257 3319 7.913789 TGCCTAGAAAGACAAGTATTTAGGAA 58.086 34.615 11.40 1.02 26.70 3.36
1258 3320 7.822822 TGCCTAGAAAGACAAGTATTTAGGAAC 59.177 37.037 11.40 0.00 26.70 3.62
1259 3321 7.010275 GCCTAGAAAGACAAGTATTTAGGAACG 59.990 40.741 11.40 0.00 26.70 3.95
1260 3322 7.491696 CCTAGAAAGACAAGTATTTAGGAACGG 59.508 40.741 4.01 0.00 26.70 4.44
1261 3323 7.001099 AGAAAGACAAGTATTTAGGAACGGA 57.999 36.000 0.00 0.00 0.00 4.69
1262 3324 7.097834 AGAAAGACAAGTATTTAGGAACGGAG 58.902 38.462 0.00 0.00 0.00 4.63
1263 3325 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
1264 3326 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
1265 3327 4.098894 ACAAGTATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
1266 3328 4.161754 ACAAGTATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
1267 3329 3.991683 AGTATTTAGGAACGGAGGGAGT 58.008 45.455 0.00 0.00 0.00 3.85
1268 3330 5.134725 AGTATTTAGGAACGGAGGGAGTA 57.865 43.478 0.00 0.00 0.00 2.59
1269 3331 5.713807 AGTATTTAGGAACGGAGGGAGTAT 58.286 41.667 0.00 0.00 0.00 2.12
1270 3332 6.856757 AGTATTTAGGAACGGAGGGAGTATA 58.143 40.000 0.00 0.00 0.00 1.47
1271 3333 7.477008 AGTATTTAGGAACGGAGGGAGTATAT 58.523 38.462 0.00 0.00 0.00 0.86
1272 3334 8.618385 AGTATTTAGGAACGGAGGGAGTATATA 58.382 37.037 0.00 0.00 0.00 0.86
1273 3335 9.418839 GTATTTAGGAACGGAGGGAGTATATAT 57.581 37.037 0.00 0.00 0.00 0.86
1274 3336 7.713734 TTTAGGAACGGAGGGAGTATATATG 57.286 40.000 0.00 0.00 0.00 1.78
1318 3664 3.184379 ACGACATGTTGTTGATCACTTCG 59.816 43.478 13.26 3.15 35.34 3.79
1331 3677 5.475719 TGATCACTTCGTGGTAGGTTTAAG 58.524 41.667 0.00 0.00 33.87 1.85
1389 3740 4.318546 CGTTTAACTTTGGAAGGTCGTGAG 60.319 45.833 0.00 0.00 0.00 3.51
1446 3801 7.504911 TCTTAGGCTTACTACGTTGGATAGAAT 59.495 37.037 0.00 0.00 0.00 2.40
1476 3833 6.626302 CACTATAGCTTTGCTACTCCTATCC 58.374 44.000 0.00 0.00 44.24 2.59
1494 3856 6.094881 TCCTATCCATAACTTTCTTTTTGCGG 59.905 38.462 0.00 0.00 0.00 5.69
1506 3903 6.677781 TTCTTTTTGCGGTTCCTATCTATG 57.322 37.500 0.00 0.00 0.00 2.23
1537 6619 9.195411 CTTGATTAGTTAAGAGATCTCATGAGC 57.805 37.037 24.39 10.69 0.00 4.26
1556 6638 4.937620 TGAGCTGACTAATGACCAATCAAC 59.062 41.667 0.00 0.00 38.69 3.18
1559 6641 6.893583 AGCTGACTAATGACCAATCAACTAT 58.106 36.000 0.00 0.00 38.69 2.12
1827 6977 4.783621 GCTGGTCTGATGGCGCCA 62.784 66.667 34.80 34.80 0.00 5.69
1835 6985 3.127533 GATGGCGCCAGCTTCGTT 61.128 61.111 36.23 17.53 44.37 3.85
1887 7037 1.000506 ACATGTACCGCTTCAACGTCT 59.999 47.619 0.00 0.00 0.00 4.18
2000 7180 1.683025 TACCCATTCTCGACGCCCA 60.683 57.895 0.00 0.00 0.00 5.36
2011 7191 1.890510 GACGCCCACCAAAGACGTT 60.891 57.895 0.00 0.00 37.05 3.99
2197 7377 2.198287 GCGCGGGGAGACATACCTA 61.198 63.158 8.83 0.00 0.00 3.08
2317 7497 1.048601 ACAAGACGGACATGGTGACT 58.951 50.000 0.00 0.00 0.00 3.41
2352 7532 1.884464 CCATCGACGTGCTCATGGG 60.884 63.158 0.00 0.00 33.37 4.00
2353 7533 2.202932 ATCGACGTGCTCATGGGC 60.203 61.111 11.75 11.75 0.00 5.36
2354 7534 2.725312 ATCGACGTGCTCATGGGCT 61.725 57.895 20.42 0.00 0.00 5.19
2355 7535 2.635229 ATCGACGTGCTCATGGGCTC 62.635 60.000 20.42 14.83 0.00 4.70
2356 7536 2.265739 GACGTGCTCATGGGCTCA 59.734 61.111 20.42 0.00 0.00 4.26
2357 7537 1.153289 GACGTGCTCATGGGCTCAT 60.153 57.895 20.42 2.71 0.00 2.90
2392 7572 1.365999 CCCGCGCACTACCATATGA 59.634 57.895 8.75 0.00 0.00 2.15
2504 7684 2.990967 CAATGGGTTGCCGGTGCT 60.991 61.111 1.90 0.00 38.71 4.40
2680 7860 2.126618 CGAAGACGTGCCAGCGTA 60.127 61.111 0.00 0.00 45.79 4.42
2724 7904 1.067635 GTGGCCACCATGAACAATGTC 60.068 52.381 26.31 0.00 35.28 3.06
2760 7941 1.605058 CCAACACGTCCCTCCTCGAT 61.605 60.000 0.00 0.00 0.00 3.59
2761 7942 0.246635 CAACACGTCCCTCCTCGATT 59.753 55.000 0.00 0.00 0.00 3.34
2815 7996 1.689582 GAGGACCTCCCCGACCATT 60.690 63.158 10.74 0.00 36.42 3.16
2845 8026 0.039256 GTACAACTACACCGACCGCA 60.039 55.000 0.00 0.00 0.00 5.69
2883 8064 3.393970 CTGGAGGAGGCGCTGGAA 61.394 66.667 7.64 0.00 0.00 3.53
3327 8508 7.912719 AGAGCTAATTAATCTGGATAAGGACC 58.087 38.462 0.00 0.00 0.00 4.46
3355 8536 5.613329 ACGTACTTATGAAAGTTGGGTCAA 58.387 37.500 0.00 0.00 43.60 3.18
3553 8764 8.962679 TCTGTTTGTTAAGTGAAAAGTAATGGT 58.037 29.630 0.00 0.00 0.00 3.55
3677 8894 3.182967 GACAGCTAACACATCTTCTCCG 58.817 50.000 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
153 159 4.512571 AGCCATTGAAACACATTTCTTTGC 59.487 37.500 1.82 0.53 44.02 3.68
154 160 5.754406 TCAGCCATTGAAACACATTTCTTTG 59.246 36.000 1.82 0.25 44.02 2.77
207 214 4.755629 GCCGATCCCTTAAATTTAGAGGAC 59.244 45.833 19.65 13.18 32.11 3.85
212 219 5.866207 ACCTAGCCGATCCCTTAAATTTAG 58.134 41.667 0.00 0.00 0.00 1.85
250 257 9.507381 AGGCTTAGTGGTGTATATATATTCCAT 57.493 33.333 16.47 10.94 0.00 3.41
318 334 2.030958 ACGAAAATCCGTCGGCACC 61.031 57.895 6.34 0.00 42.82 5.01
327 343 0.101219 GGGCATCAGCACGAAAATCC 59.899 55.000 0.00 0.00 44.61 3.01
387 403 0.473117 AAAAGAGGGAGGGACGGACA 60.473 55.000 0.00 0.00 0.00 4.02
1104 3166 4.892345 AGTATTTAGGAACGGAGGGAGTAC 59.108 45.833 0.00 0.00 0.00 2.73
1105 3167 5.134725 AGTATTTAGGAACGGAGGGAGTA 57.865 43.478 0.00 0.00 0.00 2.59
1106 3168 3.991683 AGTATTTAGGAACGGAGGGAGT 58.008 45.455 0.00 0.00 0.00 3.85
1107 3169 4.161754 ACAAGTATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
1108 3170 4.098894 ACAAGTATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
1109 3171 4.161754 AGACAAGTATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
1110 3172 5.340439 AGACAAGTATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
1111 3173 7.097834 AGAAAGACAAGTATTTAGGAACGGAG 58.902 38.462 0.00 0.00 0.00 4.63
1112 3174 7.001099 AGAAAGACAAGTATTTAGGAACGGA 57.999 36.000 0.00 0.00 0.00 4.69
1113 3175 7.491696 CCTAGAAAGACAAGTATTTAGGAACGG 59.508 40.741 4.01 0.00 26.70 4.44
1114 3176 7.010275 GCCTAGAAAGACAAGTATTTAGGAACG 59.990 40.741 11.40 0.00 26.70 3.95
1115 3177 7.822822 TGCCTAGAAAGACAAGTATTTAGGAAC 59.177 37.037 11.40 0.00 26.70 3.62
1116 3178 7.913789 TGCCTAGAAAGACAAGTATTTAGGAA 58.086 34.615 11.40 1.02 26.70 3.36
1117 3179 7.490657 TGCCTAGAAAGACAAGTATTTAGGA 57.509 36.000 11.40 0.00 26.70 2.94
1118 3180 8.738645 AATGCCTAGAAAGACAAGTATTTAGG 57.261 34.615 5.26 5.26 0.00 2.69
1120 3182 9.733556 TGAAATGCCTAGAAAGACAAGTATTTA 57.266 29.630 0.00 0.00 0.00 1.40
1121 3183 8.635765 TGAAATGCCTAGAAAGACAAGTATTT 57.364 30.769 0.00 0.00 0.00 1.40
1122 3184 8.515414 GTTGAAATGCCTAGAAAGACAAGTATT 58.485 33.333 0.00 0.00 0.00 1.89
1123 3185 7.665559 TGTTGAAATGCCTAGAAAGACAAGTAT 59.334 33.333 0.00 0.00 0.00 2.12
1124 3186 6.995686 TGTTGAAATGCCTAGAAAGACAAGTA 59.004 34.615 0.00 0.00 0.00 2.24
1125 3187 5.827797 TGTTGAAATGCCTAGAAAGACAAGT 59.172 36.000 0.00 0.00 0.00 3.16
1126 3188 6.317789 TGTTGAAATGCCTAGAAAGACAAG 57.682 37.500 0.00 0.00 0.00 3.16
1127 3189 6.707440 TTGTTGAAATGCCTAGAAAGACAA 57.293 33.333 0.00 0.00 0.00 3.18
1128 3190 6.707440 TTTGTTGAAATGCCTAGAAAGACA 57.293 33.333 0.00 0.00 0.00 3.41
1129 3191 7.327032 GTCATTTGTTGAAATGCCTAGAAAGAC 59.673 37.037 0.00 0.00 45.61 3.01
1130 3192 7.231317 AGTCATTTGTTGAAATGCCTAGAAAGA 59.769 33.333 0.00 0.00 45.61 2.52
1131 3193 7.373493 AGTCATTTGTTGAAATGCCTAGAAAG 58.627 34.615 0.00 0.00 45.61 2.62
1132 3194 7.288810 AGTCATTTGTTGAAATGCCTAGAAA 57.711 32.000 0.00 0.00 45.61 2.52
1133 3195 6.899393 AGTCATTTGTTGAAATGCCTAGAA 57.101 33.333 0.00 0.00 45.61 2.10
1134 3196 6.939730 TGTAGTCATTTGTTGAAATGCCTAGA 59.060 34.615 0.00 0.00 45.61 2.43
1135 3197 7.144722 TGTAGTCATTTGTTGAAATGCCTAG 57.855 36.000 0.00 0.00 45.61 3.02
1136 3198 7.701539 ATGTAGTCATTTGTTGAAATGCCTA 57.298 32.000 0.00 0.00 45.61 3.93
1137 3199 6.594788 ATGTAGTCATTTGTTGAAATGCCT 57.405 33.333 0.00 0.00 45.61 4.75
1138 3200 6.468956 CGTATGTAGTCATTTGTTGAAATGCC 59.531 38.462 0.00 0.00 45.61 4.40
1139 3201 6.468956 CCGTATGTAGTCATTTGTTGAAATGC 59.531 38.462 0.00 0.00 45.61 3.56
1140 3202 7.747888 TCCGTATGTAGTCATTTGTTGAAATG 58.252 34.615 0.00 0.00 46.84 2.32
1141 3203 7.414098 GCTCCGTATGTAGTCATTTGTTGAAAT 60.414 37.037 0.00 0.00 35.70 2.17
1142 3204 6.128391 GCTCCGTATGTAGTCATTTGTTGAAA 60.128 38.462 0.00 0.00 35.70 2.69
1143 3205 5.350365 GCTCCGTATGTAGTCATTTGTTGAA 59.650 40.000 0.00 0.00 35.70 2.69
1144 3206 4.868171 GCTCCGTATGTAGTCATTTGTTGA 59.132 41.667 0.00 0.00 35.70 3.18
1145 3207 4.629634 TGCTCCGTATGTAGTCATTTGTTG 59.370 41.667 0.00 0.00 35.70 3.33
1146 3208 4.827692 TGCTCCGTATGTAGTCATTTGTT 58.172 39.130 0.00 0.00 35.70 2.83
1147 3209 4.465632 TGCTCCGTATGTAGTCATTTGT 57.534 40.909 0.00 0.00 35.70 2.83
1148 3210 5.794687 TTTGCTCCGTATGTAGTCATTTG 57.205 39.130 0.00 0.00 35.70 2.32
1149 3211 6.597672 TCATTTTGCTCCGTATGTAGTCATTT 59.402 34.615 0.00 0.00 35.70 2.32
1150 3212 6.112734 TCATTTTGCTCCGTATGTAGTCATT 58.887 36.000 0.00 0.00 35.70 2.57
1151 3213 5.670485 TCATTTTGCTCCGTATGTAGTCAT 58.330 37.500 0.00 0.00 38.00 3.06
1152 3214 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
1153 3215 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
1154 3216 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
1155 3217 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
1156 3218 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
1157 3219 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
1158 3220 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
1159 3221 4.271049 CGATTCACTCATTTTGCTCCGTAT 59.729 41.667 0.00 0.00 0.00 3.06
1160 3222 3.616821 CGATTCACTCATTTTGCTCCGTA 59.383 43.478 0.00 0.00 0.00 4.02
1161 3223 2.416547 CGATTCACTCATTTTGCTCCGT 59.583 45.455 0.00 0.00 0.00 4.69
1162 3224 2.672874 TCGATTCACTCATTTTGCTCCG 59.327 45.455 0.00 0.00 0.00 4.63
1163 3225 3.436704 TGTCGATTCACTCATTTTGCTCC 59.563 43.478 0.00 0.00 0.00 4.70
1164 3226 4.153117 AGTGTCGATTCACTCATTTTGCTC 59.847 41.667 2.98 0.00 44.07 4.26
1165 3227 4.067896 AGTGTCGATTCACTCATTTTGCT 58.932 39.130 2.98 0.00 44.07 3.91
1166 3228 4.410492 AGTGTCGATTCACTCATTTTGC 57.590 40.909 2.98 0.00 44.07 3.68
1175 3237 8.635877 AGACATATTTTAGAGTGTCGATTCAC 57.364 34.615 0.00 0.00 44.20 3.18
1176 3238 9.731819 GTAGACATATTTTAGAGTGTCGATTCA 57.268 33.333 0.00 0.00 44.20 2.57
1177 3239 9.731819 TGTAGACATATTTTAGAGTGTCGATTC 57.268 33.333 0.00 0.00 44.20 2.52
1181 3243 9.946165 TGTATGTAGACATATTTTAGAGTGTCG 57.054 33.333 5.69 0.00 44.20 4.35
1203 3265 9.074576 TCAAATGACTACTACATACGGATGTAT 57.925 33.333 20.64 13.02 45.42 2.29
1204 3266 8.454570 TCAAATGACTACTACATACGGATGTA 57.545 34.615 19.32 19.32 44.77 2.29
1206 3268 8.642908 TTTCAAATGACTACTACATACGGATG 57.357 34.615 5.94 5.94 39.16 3.51
1207 3269 9.261180 CATTTCAAATGACTACTACATACGGAT 57.739 33.333 3.82 0.00 0.00 4.18
1208 3270 7.223971 GCATTTCAAATGACTACTACATACGGA 59.776 37.037 14.65 0.00 0.00 4.69
1209 3271 7.345192 GCATTTCAAATGACTACTACATACGG 58.655 38.462 14.65 0.00 0.00 4.02
1210 3272 7.224753 AGGCATTTCAAATGACTACTACATACG 59.775 37.037 17.52 0.00 35.20 3.06
1211 3273 8.438676 AGGCATTTCAAATGACTACTACATAC 57.561 34.615 17.52 0.00 35.20 2.39
1212 3274 9.764363 CTAGGCATTTCAAATGACTACTACATA 57.236 33.333 20.19 2.16 38.54 2.29
1213 3275 8.486210 TCTAGGCATTTCAAATGACTACTACAT 58.514 33.333 20.19 0.00 38.54 2.29
1214 3276 7.847096 TCTAGGCATTTCAAATGACTACTACA 58.153 34.615 20.19 3.57 38.54 2.74
1215 3277 8.718102 TTCTAGGCATTTCAAATGACTACTAC 57.282 34.615 20.19 0.00 38.54 2.73
1216 3278 9.383519 CTTTCTAGGCATTTCAAATGACTACTA 57.616 33.333 20.19 9.81 38.54 1.82
1217 3279 8.103305 TCTTTCTAGGCATTTCAAATGACTACT 58.897 33.333 20.19 10.82 38.54 2.57
1218 3280 8.178313 GTCTTTCTAGGCATTTCAAATGACTAC 58.822 37.037 20.19 9.68 38.54 2.73
1219 3281 7.882791 TGTCTTTCTAGGCATTTCAAATGACTA 59.117 33.333 22.19 22.19 38.54 2.59
1220 3282 6.716628 TGTCTTTCTAGGCATTTCAAATGACT 59.283 34.615 22.35 22.35 41.04 3.41
1221 3283 6.913170 TGTCTTTCTAGGCATTTCAAATGAC 58.087 36.000 14.65 11.48 29.10 3.06
1222 3284 7.231317 ACTTGTCTTTCTAGGCATTTCAAATGA 59.769 33.333 14.65 0.00 35.56 2.57
1223 3285 7.373493 ACTTGTCTTTCTAGGCATTTCAAATG 58.627 34.615 5.68 5.68 35.56 2.32
1224 3286 7.530426 ACTTGTCTTTCTAGGCATTTCAAAT 57.470 32.000 0.00 0.00 35.56 2.32
1225 3287 6.959639 ACTTGTCTTTCTAGGCATTTCAAA 57.040 33.333 0.00 0.00 35.56 2.69
1226 3288 8.635765 AATACTTGTCTTTCTAGGCATTTCAA 57.364 30.769 0.00 0.00 35.56 2.69
1227 3289 8.635765 AAATACTTGTCTTTCTAGGCATTTCA 57.364 30.769 0.00 0.00 35.56 2.69
1229 3291 9.178758 CCTAAATACTTGTCTTTCTAGGCATTT 57.821 33.333 0.00 0.00 35.56 2.32
1230 3292 8.548877 TCCTAAATACTTGTCTTTCTAGGCATT 58.451 33.333 0.00 0.00 35.56 3.56
1231 3293 8.090788 TCCTAAATACTTGTCTTTCTAGGCAT 57.909 34.615 0.00 0.00 35.56 4.40
1232 3294 7.490657 TCCTAAATACTTGTCTTTCTAGGCA 57.509 36.000 0.00 0.00 33.22 4.75
1233 3295 7.010275 CGTTCCTAAATACTTGTCTTTCTAGGC 59.990 40.741 0.00 0.00 0.00 3.93
1234 3296 7.491696 CCGTTCCTAAATACTTGTCTTTCTAGG 59.508 40.741 0.00 0.00 0.00 3.02
1235 3297 8.248945 TCCGTTCCTAAATACTTGTCTTTCTAG 58.751 37.037 0.00 0.00 0.00 2.43
1236 3298 8.125978 TCCGTTCCTAAATACTTGTCTTTCTA 57.874 34.615 0.00 0.00 0.00 2.10
1237 3299 7.001099 TCCGTTCCTAAATACTTGTCTTTCT 57.999 36.000 0.00 0.00 0.00 2.52
1238 3300 6.313164 CCTCCGTTCCTAAATACTTGTCTTTC 59.687 42.308 0.00 0.00 0.00 2.62
1239 3301 6.171213 CCTCCGTTCCTAAATACTTGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
1240 3302 5.338137 CCCTCCGTTCCTAAATACTTGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
1241 3303 4.161754 CCCTCCGTTCCTAAATACTTGTCT 59.838 45.833 0.00 0.00 0.00 3.41
1242 3304 4.161001 TCCCTCCGTTCCTAAATACTTGTC 59.839 45.833 0.00 0.00 0.00 3.18
1243 3305 4.098894 TCCCTCCGTTCCTAAATACTTGT 58.901 43.478 0.00 0.00 0.00 3.16
1244 3306 4.161754 ACTCCCTCCGTTCCTAAATACTTG 59.838 45.833 0.00 0.00 0.00 3.16
1245 3307 4.359996 ACTCCCTCCGTTCCTAAATACTT 58.640 43.478 0.00 0.00 0.00 2.24
1246 3308 3.991683 ACTCCCTCCGTTCCTAAATACT 58.008 45.455 0.00 0.00 0.00 2.12
1247 3309 7.715266 ATATACTCCCTCCGTTCCTAAATAC 57.285 40.000 0.00 0.00 0.00 1.89
1248 3310 9.417561 CATATATACTCCCTCCGTTCCTAAATA 57.582 37.037 0.00 0.00 0.00 1.40
1249 3311 7.899709 ACATATATACTCCCTCCGTTCCTAAAT 59.100 37.037 0.00 0.00 0.00 1.40
1250 3312 7.243824 ACATATATACTCCCTCCGTTCCTAAA 58.756 38.462 0.00 0.00 0.00 1.85
1251 3313 6.797707 ACATATATACTCCCTCCGTTCCTAA 58.202 40.000 0.00 0.00 0.00 2.69
1252 3314 6.398655 ACATATATACTCCCTCCGTTCCTA 57.601 41.667 0.00 0.00 0.00 2.94
1253 3315 5.272405 ACATATATACTCCCTCCGTTCCT 57.728 43.478 0.00 0.00 0.00 3.36
1254 3316 7.061688 AGATACATATATACTCCCTCCGTTCC 58.938 42.308 0.00 0.00 0.00 3.62
1255 3317 9.796180 ATAGATACATATATACTCCCTCCGTTC 57.204 37.037 0.00 0.00 0.00 3.95
1256 3318 9.796180 GATAGATACATATATACTCCCTCCGTT 57.204 37.037 0.00 0.00 0.00 4.44
1257 3319 9.173231 AGATAGATACATATATACTCCCTCCGT 57.827 37.037 0.00 0.00 0.00 4.69
1297 3643 3.184379 ACGAAGTGATCAACAACATGTCG 59.816 43.478 0.00 0.00 42.51 4.35
1331 3677 6.484308 ACAACTACGGGCAATATATACCAAAC 59.516 38.462 6.95 0.00 0.00 2.93
1346 3697 2.794910 CGAATCATGCTACAACTACGGG 59.205 50.000 0.00 0.00 0.00 5.28
1389 3740 2.164422 GCCCAAAGCAAGATAACTGTCC 59.836 50.000 0.00 0.00 42.97 4.02
1446 3801 7.397476 AGGAGTAGCAAAGCTATAGTGCATATA 59.603 37.037 14.27 0.00 43.30 0.86
1476 3833 5.528870 AGGAACCGCAAAAAGAAAGTTATG 58.471 37.500 0.00 0.00 0.00 1.90
1494 3856 9.084533 ACTAATCAAGAGGTCATAGATAGGAAC 57.915 37.037 0.00 0.00 0.00 3.62
1523 6605 6.016024 GTCATTAGTCAGCTCATGAGATCTCT 60.016 42.308 27.04 20.18 39.07 3.10
1534 6616 5.181748 AGTTGATTGGTCATTAGTCAGCTC 58.818 41.667 0.00 0.00 33.56 4.09
1537 6619 9.166173 TCAAATAGTTGATTGGTCATTAGTCAG 57.834 33.333 0.56 0.00 38.88 3.51
1556 6638 8.407832 TGCACCTGAACATCATTAATCAAATAG 58.592 33.333 0.00 0.00 0.00 1.73
1559 6641 6.389091 GTGCACCTGAACATCATTAATCAAA 58.611 36.000 5.22 0.00 0.00 2.69
1835 6985 1.640917 GAGGGATAGGGCATTCGGTA 58.359 55.000 0.00 0.00 0.00 4.02
2000 7180 2.879103 ATGATGGGAACGTCTTTGGT 57.121 45.000 0.00 0.00 46.90 3.67
2011 7191 1.000843 CACTCGCCGATAATGATGGGA 59.999 52.381 0.00 0.00 32.76 4.37
2101 7281 1.995991 CTTACCGTTGATGGTCGCG 59.004 57.895 0.00 0.00 42.62 5.87
2197 7377 1.733041 CGTGTTCACGATCCGCAGT 60.733 57.895 18.64 0.00 34.64 4.40
2392 7572 3.490759 CTGGTTCGCGAGCGCAAT 61.491 61.111 16.91 0.00 42.06 3.56
2724 7904 4.452733 GTCGGGTGGCGGAAGGAG 62.453 72.222 0.00 0.00 0.00 3.69
2760 7941 2.699768 CCGGCCGTCGTAGTACCAA 61.700 63.158 26.12 0.00 37.11 3.67
2761 7942 3.133464 CCGGCCGTCGTAGTACCA 61.133 66.667 26.12 0.00 37.11 3.25
2883 8064 2.355481 GTCGCCTTGAACGTCGGT 60.355 61.111 0.00 0.00 0.00 4.69
3255 8436 3.146104 CACCTCTTGAATTCTGGTGGT 57.854 47.619 21.53 18.20 43.01 4.16
3327 8508 5.121768 CCCAACTTTCATAAGTACGTCCTTG 59.878 44.000 3.30 0.00 43.74 3.61
3677 8894 5.077369 AGAAACTAGGTAGGGGATAGACC 57.923 47.826 0.00 0.00 38.08 3.85


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

AutoCloner maintained by Alex Coulton.