Multiple sequence alignment - TraesCS4B01G281300

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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 TraesCS4B01G281300 chr4B 100.000 3370 0 0 1 3370 564381155 564384524 0.000000e+00 6224.0
1 TraesCS4B01G281300 chr4B 74.200 1062 193 53 1353 2378 567192543 567191527 5.310000e-98 368.0
2 TraesCS4B01G281300 chr4B 75.651 768 144 24 993 1756 567430197 567429469 3.220000e-90 342.0
3 TraesCS4B01G281300 chr4B 80.519 308 52 5 1017 1324 567192844 567192545 2.620000e-56 230.0
4 TraesCS4B01G281300 chr4B 98.214 56 1 0 218 273 564381303 564381358 7.700000e-17 99.0
5 TraesCS4B01G281300 chr4B 98.214 56 1 0 149 204 564381372 564381427 7.700000e-17 99.0
6 TraesCS4B01G281300 chr4D 88.778 2299 135 55 276 2522 451164673 451166900 0.000000e+00 2702.0
7 TraesCS4B01G281300 chr4D 84.260 845 59 33 2519 3337 451166940 451167736 0.000000e+00 756.0
8 TraesCS4B01G281300 chr4D 81.728 405 60 9 1353 1756 454439296 454438905 3.240000e-85 326.0
9 TraesCS4B01G281300 chr4D 91.480 223 13 2 1 218 451163958 451164179 5.460000e-78 302.0
10 TraesCS4B01G281300 chr4D 74.824 711 139 25 1052 1756 454835022 454834346 5.500000e-73 285.0
11 TraesCS4B01G281300 chr4D 73.745 777 155 22 990 1756 454809776 454809039 3.340000e-65 259.0
12 TraesCS4B01G281300 chr4D 81.169 308 50 5 1017 1324 454439597 454439298 1.210000e-59 241.0
13 TraesCS4B01G281300 chr4A 95.015 1003 33 6 960 1956 15784256 15783265 0.000000e+00 1559.0
14 TraesCS4B01G281300 chr4A 89.506 486 30 5 2039 2522 15783259 15782793 2.240000e-166 595.0
15 TraesCS4B01G281300 chr4A 92.248 258 17 3 2925 3181 15778315 15778060 2.470000e-96 363.0
16 TraesCS4B01G281300 chr4A 74.525 789 157 23 971 1756 13524945 13525692 1.520000e-78 303.0
17 TraesCS4B01G281300 chr4A 78.571 420 64 15 1346 1756 13585429 13585831 1.550000e-63 254.0
18 TraesCS4B01G281300 chr4A 89.865 148 8 5 3215 3356 15778061 15777915 2.070000e-42 183.0
19 TraesCS4B01G281300 chr4A 82.759 87 13 2 468 552 617874340 617874254 3.610000e-10 76.8
20 TraesCS4B01G281300 chr3D 82.545 1438 190 39 996 2410 435489218 435487819 0.000000e+00 1208.0
21 TraesCS4B01G281300 chr6A 83.333 78 11 2 471 546 57737016 57737093 1.680000e-08 71.3
22 TraesCS4B01G281300 chr2D 86.207 58 4 4 461 516 56820442 56820497 3.630000e-05 60.2


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 TraesCS4B01G281300 chr4B 564381155 564384524 3369 False 2140.666667 6224 98.809333 1 3370 3 chr4B.!!$F1 3369
1 TraesCS4B01G281300 chr4B 567429469 567430197 728 True 342.000000 342 75.651000 993 1756 1 chr4B.!!$R1 763
2 TraesCS4B01G281300 chr4B 567191527 567192844 1317 True 299.000000 368 77.359500 1017 2378 2 chr4B.!!$R2 1361
3 TraesCS4B01G281300 chr4D 451163958 451167736 3778 False 1253.333333 2702 88.172667 1 3337 3 chr4D.!!$F1 3336
4 TraesCS4B01G281300 chr4D 454834346 454835022 676 True 285.000000 285 74.824000 1052 1756 1 chr4D.!!$R2 704
5 TraesCS4B01G281300 chr4D 454438905 454439597 692 True 283.500000 326 81.448500 1017 1756 2 chr4D.!!$R3 739
6 TraesCS4B01G281300 chr4D 454809039 454809776 737 True 259.000000 259 73.745000 990 1756 1 chr4D.!!$R1 766
7 TraesCS4B01G281300 chr4A 15782793 15784256 1463 True 1077.000000 1559 92.260500 960 2522 2 chr4A.!!$R3 1562
8 TraesCS4B01G281300 chr4A 13524945 13525692 747 False 303.000000 303 74.525000 971 1756 1 chr4A.!!$F1 785
9 TraesCS4B01G281300 chr3D 435487819 435489218 1399 True 1208.000000 1208 82.545000 996 2410 1 chr3D.!!$R1 1414

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
176 177 0.032952 TTGCCGGTATATGCGGACTC 59.967 55.000 1.90 0.0 0.00 3.36 F
178 179 0.109226 GCCGGTATATGCGGACTCTC 60.109 60.000 1.90 0.0 0.00 3.20 F
179 180 0.526662 CCGGTATATGCGGACTCTCC 59.473 60.000 0.00 0.0 0.00 3.71 F
836 1386 1.066605 CCCGTACACGACTCCTATTGG 59.933 57.143 2.76 0.0 43.02 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1167 1740 0.548682 AGGCAGAAGGTGACCCTGAT 60.549 55.000 11.41 0.00 41.56 2.90 R
1488 2072 0.824759 AGCTCGGCGAGTAGGAATTT 59.175 50.000 34.41 10.33 31.39 1.82 R
2130 2756 1.268079 GGAAAGCAAGTTCCTCAGTGC 59.732 52.381 6.59 0.00 43.32 4.40 R
2642 3320 0.110056 GTTCCACATGTTCTGCTGCG 60.110 55.000 0.00 0.00 0.00 5.18 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
61 62 0.036010 ATCAGCCCGAACAGAACCAG 60.036 55.000 0.00 0.00 0.00 4.00
79 80 2.267642 CGAGGGAATTCGGTGGCA 59.732 61.111 0.00 0.00 36.95 4.92
81 82 1.644786 CGAGGGAATTCGGTGGCAAC 61.645 60.000 0.00 0.00 36.95 4.17
134 135 3.431766 GGCGAGATGAACCTAAAAGGCTA 60.432 47.826 0.00 0.00 39.63 3.93
135 136 4.189231 GCGAGATGAACCTAAAAGGCTAA 58.811 43.478 0.00 0.00 39.63 3.09
138 139 6.543736 CGAGATGAACCTAAAAGGCTAAAAC 58.456 40.000 0.00 0.00 39.63 2.43
169 170 3.915437 GGGAATTGTTGCCGGTATATG 57.085 47.619 1.90 0.00 0.00 1.78
170 171 2.030274 GGGAATTGTTGCCGGTATATGC 60.030 50.000 1.90 0.00 0.00 3.14
171 172 2.350388 GGAATTGTTGCCGGTATATGCG 60.350 50.000 1.90 0.00 0.00 4.73
172 173 1.234821 ATTGTTGCCGGTATATGCGG 58.765 50.000 1.90 0.00 0.00 5.69
173 174 0.178301 TTGTTGCCGGTATATGCGGA 59.822 50.000 1.90 0.00 0.00 5.54
174 175 0.531090 TGTTGCCGGTATATGCGGAC 60.531 55.000 1.90 0.00 0.00 4.79
175 176 0.249741 GTTGCCGGTATATGCGGACT 60.250 55.000 1.90 0.00 0.00 3.85
176 177 0.032952 TTGCCGGTATATGCGGACTC 59.967 55.000 1.90 0.00 0.00 3.36
177 178 0.826256 TGCCGGTATATGCGGACTCT 60.826 55.000 1.90 0.00 0.00 3.24
178 179 0.109226 GCCGGTATATGCGGACTCTC 60.109 60.000 1.90 0.00 0.00 3.20
179 180 0.526662 CCGGTATATGCGGACTCTCC 59.473 60.000 0.00 0.00 0.00 3.71
180 181 1.535833 CGGTATATGCGGACTCTCCT 58.464 55.000 0.00 0.00 33.30 3.69
181 182 2.617276 CCGGTATATGCGGACTCTCCTA 60.617 54.545 0.00 0.00 33.30 2.94
182 183 2.678836 CGGTATATGCGGACTCTCCTAG 59.321 54.545 0.00 0.00 33.30 3.02
183 184 3.619242 CGGTATATGCGGACTCTCCTAGA 60.619 52.174 0.00 0.00 33.30 2.43
184 185 4.333690 GGTATATGCGGACTCTCCTAGAA 58.666 47.826 0.00 0.00 33.30 2.10
185 186 4.951094 GGTATATGCGGACTCTCCTAGAAT 59.049 45.833 0.00 0.00 33.30 2.40
186 187 5.419471 GGTATATGCGGACTCTCCTAGAATT 59.581 44.000 0.00 0.00 33.30 2.17
187 188 6.071278 GGTATATGCGGACTCTCCTAGAATTT 60.071 42.308 0.00 0.00 33.30 1.82
188 189 7.122353 GGTATATGCGGACTCTCCTAGAATTTA 59.878 40.741 0.00 0.00 33.30 1.40
189 190 4.650754 TGCGGACTCTCCTAGAATTTAC 57.349 45.455 0.00 0.00 33.30 2.01
190 191 4.279145 TGCGGACTCTCCTAGAATTTACT 58.721 43.478 0.00 0.00 33.30 2.24
191 192 4.338682 TGCGGACTCTCCTAGAATTTACTC 59.661 45.833 0.00 0.00 33.30 2.59
192 193 4.581409 GCGGACTCTCCTAGAATTTACTCT 59.419 45.833 0.00 0.00 33.30 3.24
193 194 5.764192 GCGGACTCTCCTAGAATTTACTCTA 59.236 44.000 0.00 0.00 33.30 2.43
194 195 6.262720 GCGGACTCTCCTAGAATTTACTCTAA 59.737 42.308 0.00 0.00 33.30 2.10
195 196 7.641760 CGGACTCTCCTAGAATTTACTCTAAC 58.358 42.308 0.00 0.00 33.30 2.34
196 197 7.282675 CGGACTCTCCTAGAATTTACTCTAACA 59.717 40.741 0.00 0.00 33.30 2.41
197 198 8.968969 GGACTCTCCTAGAATTTACTCTAACAA 58.031 37.037 0.00 0.00 32.53 2.83
198 199 9.791820 GACTCTCCTAGAATTTACTCTAACAAC 57.208 37.037 0.00 0.00 0.00 3.32
199 200 9.536510 ACTCTCCTAGAATTTACTCTAACAACT 57.463 33.333 0.00 0.00 0.00 3.16
208 209 9.882856 GAATTTACTCTAACAACTTAACGATCG 57.117 33.333 14.88 14.88 0.00 3.69
209 210 7.801547 TTTACTCTAACAACTTAACGATCGG 57.198 36.000 20.98 3.61 0.00 4.18
210 211 4.171754 ACTCTAACAACTTAACGATCGGC 58.828 43.478 20.98 0.00 0.00 5.54
220 221 3.671411 CGATCGGCGTCCCTAGGG 61.671 72.222 23.22 23.22 34.64 3.53
221 222 2.203451 GATCGGCGTCCCTAGGGA 60.203 66.667 27.73 27.73 42.90 4.20
250 251 3.813240 GCCGGTATATGTGGACTCTCCTA 60.813 52.174 1.90 0.00 37.46 2.94
340 852 6.641176 AAGGTTCGTGACATTTTCAAAAAC 57.359 33.333 0.00 0.00 35.39 2.43
346 858 7.588143 TCGTGACATTTTCAAAAACAATGTT 57.412 28.000 0.00 0.00 40.46 2.71
410 933 9.651913 GGGTTTATCATTGTTTCAACATGTATT 57.348 29.630 0.00 0.00 38.95 1.89
428 951 9.393249 ACATGTATTTAGAAATTGTTTGACACG 57.607 29.630 0.00 0.00 0.00 4.49
431 954 9.866936 TGTATTTAGAAATTGTTTGACACGTAC 57.133 29.630 0.00 0.00 0.00 3.67
614 1138 7.595819 AGTGAAGATACCAAAACAATCCAAA 57.404 32.000 0.00 0.00 0.00 3.28
619 1143 9.103861 GAAGATACCAAAACAATCCAAAAACAA 57.896 29.630 0.00 0.00 0.00 2.83
654 1178 9.524106 AAACCAAAGTATAAAGAAGAAAAACCG 57.476 29.630 0.00 0.00 0.00 4.44
655 1179 8.454570 ACCAAAGTATAAAGAAGAAAAACCGA 57.545 30.769 0.00 0.00 0.00 4.69
656 1180 8.905850 ACCAAAGTATAAAGAAGAAAAACCGAA 58.094 29.630 0.00 0.00 0.00 4.30
657 1181 9.394477 CCAAAGTATAAAGAAGAAAAACCGAAG 57.606 33.333 0.00 0.00 0.00 3.79
664 1188 5.907866 AGAAGAAAAACCGAAGAAAACCA 57.092 34.783 0.00 0.00 0.00 3.67
675 1199 8.549338 AACCGAAGAAAACCATTAAAAACAAA 57.451 26.923 0.00 0.00 0.00 2.83
697 1222 7.483691 ACAAATAAAAATCGAAAGCATACCGAC 59.516 33.333 0.00 0.00 35.02 4.79
773 1299 2.028112 ACTGAACCGATAAAGCTCAGCA 60.028 45.455 0.00 0.00 37.60 4.41
802 1352 3.367907 AAACAACCAGTGGGCCGGT 62.368 57.895 15.21 2.71 37.90 5.28
832 1382 2.108514 CGCCCGTACACGACTCCTA 61.109 63.158 2.76 0.00 43.02 2.94
833 1383 1.442526 CGCCCGTACACGACTCCTAT 61.443 60.000 2.76 0.00 43.02 2.57
835 1385 1.535437 GCCCGTACACGACTCCTATTG 60.535 57.143 2.76 0.00 43.02 1.90
836 1386 1.066605 CCCGTACACGACTCCTATTGG 59.933 57.143 2.76 0.00 43.02 3.16
837 1387 1.066605 CCGTACACGACTCCTATTGGG 59.933 57.143 2.76 0.00 43.02 4.12
838 1388 1.747355 CGTACACGACTCCTATTGGGT 59.253 52.381 0.00 0.00 43.02 4.51
839 1389 2.223433 CGTACACGACTCCTATTGGGTC 60.223 54.545 0.00 0.00 43.02 4.46
894 1454 9.102453 GGAATTGGTATATACTTCTACTTCCCT 57.898 37.037 12.54 0.00 0.00 4.20
908 1468 9.869757 CTTCTACTTCCCTTTTCAAAAGAAAAA 57.130 29.630 11.73 2.08 34.18 1.94
925 1492 3.515071 AAAAACAGCACGTCGTCATAC 57.485 42.857 0.00 0.00 0.00 2.39
942 1509 4.508128 CACCCCCGATCGACACCG 62.508 72.222 18.66 0.00 37.07 4.94
952 1519 2.595536 CGATCGACACCGTAAAATCGTT 59.404 45.455 10.26 0.00 35.48 3.85
954 1521 1.978097 TCGACACCGTAAAATCGTTCG 59.022 47.619 0.00 0.00 36.03 3.95
1026 1599 4.005978 TCCTCCTTCCCCGCCTCA 62.006 66.667 0.00 0.00 0.00 3.86
1145 1718 4.742201 CGTCGAGGCCACCACCAG 62.742 72.222 5.01 0.00 0.00 4.00
1191 1767 4.020617 TCACCTTCTGCCTGGCCG 62.021 66.667 17.53 10.43 0.00 6.13
1192 1768 4.020617 CACCTTCTGCCTGGCCGA 62.021 66.667 17.53 13.07 0.00 5.54
1193 1769 4.021925 ACCTTCTGCCTGGCCGAC 62.022 66.667 17.53 0.00 0.00 4.79
1474 2058 2.127496 GCTTGACGACGACGACGA 60.127 61.111 25.15 6.91 42.66 4.20
1475 2059 2.415997 GCTTGACGACGACGACGAC 61.416 63.158 25.15 19.21 42.66 4.34
1496 2080 1.142314 CGACGCCGGGAAATTCCTA 59.858 57.895 12.28 0.00 36.57 2.94
1606 2202 3.695606 GCTGCAGACACCTCCCGA 61.696 66.667 20.43 0.00 0.00 5.14
1856 2473 3.497262 ACCTCCGTTTCAAAAAGATCGTC 59.503 43.478 0.00 0.00 0.00 4.20
1858 2475 2.096614 TCCGTTTCAAAAAGATCGTCGC 60.097 45.455 0.00 0.00 0.00 5.19
1862 2479 3.788434 TTCAAAAAGATCGTCGCTGAC 57.212 42.857 0.00 0.00 0.00 3.51
2089 2715 3.660865 ACAACCCTGATCACTTTACGTC 58.339 45.455 0.00 0.00 0.00 4.34
2115 2741 2.345244 AGCTGTGGGACGCTGAAG 59.655 61.111 0.00 0.00 40.25 3.02
2116 2742 3.426568 GCTGTGGGACGCTGAAGC 61.427 66.667 0.00 0.00 40.25 3.86
2117 2743 2.345244 CTGTGGGACGCTGAAGCT 59.655 61.111 0.10 0.00 40.25 3.74
2397 3029 8.991243 TTATTTTCTTTGATCATCTTTGCCTG 57.009 30.769 0.00 0.00 0.00 4.85
2412 3044 1.294659 GCCTGAAGCTGTTCGGTGAG 61.295 60.000 0.00 0.00 37.36 3.51
2424 3056 1.739562 CGGTGAGCCTCTGAACAGC 60.740 63.158 0.00 0.00 0.00 4.40
2430 3062 1.736681 GAGCCTCTGAACAGCATGAAC 59.263 52.381 0.00 0.00 39.69 3.18
2503 3136 2.768527 ACCCGATGACATCTCACATCTT 59.231 45.455 13.45 0.00 40.18 2.40
2505 3138 2.543012 CCGATGACATCTCACATCTTGC 59.457 50.000 13.45 0.00 40.18 4.01
2522 3157 5.125100 TCTTGCTTGTTATTTGCTTCAGG 57.875 39.130 0.00 0.00 0.00 3.86
2523 3158 3.940209 TGCTTGTTATTTGCTTCAGGG 57.060 42.857 0.00 0.00 0.00 4.45
2524 3159 3.230134 TGCTTGTTATTTGCTTCAGGGT 58.770 40.909 0.00 0.00 0.00 4.34
2525 3160 3.640967 TGCTTGTTATTTGCTTCAGGGTT 59.359 39.130 0.00 0.00 0.00 4.11
2526 3161 4.830046 TGCTTGTTATTTGCTTCAGGGTTA 59.170 37.500 0.00 0.00 0.00 2.85
2527 3162 5.480073 TGCTTGTTATTTGCTTCAGGGTTAT 59.520 36.000 0.00 0.00 0.00 1.89
2528 3163 6.014669 TGCTTGTTATTTGCTTCAGGGTTATT 60.015 34.615 0.00 0.00 0.00 1.40
2533 3211 9.120538 TGTTATTTGCTTCAGGGTTATTATCTC 57.879 33.333 0.00 0.00 0.00 2.75
2568 3246 5.787380 TGTGGTATGCTATGATCATCTCAC 58.213 41.667 12.53 11.04 36.48 3.51
2577 3255 8.515695 TGCTATGATCATCTCACTTTTTGATT 57.484 30.769 12.53 0.00 36.48 2.57
2583 3261 8.241367 TGATCATCTCACTTTTTGATTGATGTG 58.759 33.333 0.00 0.00 37.80 3.21
2600 3278 2.202783 GCATGCGTCCATTTGCCC 60.203 61.111 0.00 0.00 0.00 5.36
2619 3297 4.098349 TGCCCATCTACATGCAGAAATTTC 59.902 41.667 10.33 10.33 0.00 2.17
2621 3299 5.735354 GCCCATCTACATGCAGAAATTTCAG 60.735 44.000 19.99 13.21 0.00 3.02
2630 3308 6.262944 ACATGCAGAAATTTCAGAACTGTACA 59.737 34.615 19.99 0.00 0.00 2.90
2649 3327 1.308069 ATTTACAGCCACCGCAGCAG 61.308 55.000 0.00 0.00 37.52 4.24
2692 3370 6.042322 TGTGTACTACTACAATGGGTGTTTCT 59.958 38.462 0.00 0.00 41.98 2.52
2693 3371 7.233144 TGTGTACTACTACAATGGGTGTTTCTA 59.767 37.037 0.00 0.00 41.98 2.10
2694 3372 8.255905 GTGTACTACTACAATGGGTGTTTCTAT 58.744 37.037 0.00 0.00 41.98 1.98
2695 3373 8.255206 TGTACTACTACAATGGGTGTTTCTATG 58.745 37.037 0.00 0.00 41.98 2.23
2696 3374 6.650120 ACTACTACAATGGGTGTTTCTATGG 58.350 40.000 0.00 0.00 41.98 2.74
2697 3375 5.772393 ACTACAATGGGTGTTTCTATGGA 57.228 39.130 0.00 0.00 41.98 3.41
2698 3376 6.327386 ACTACAATGGGTGTTTCTATGGAT 57.673 37.500 0.00 0.00 41.98 3.41
2710 3388 5.937540 TGTTTCTATGGATATGGTTATGGCG 59.062 40.000 0.00 0.00 0.00 5.69
2725 3403 4.268939 GCGCACAGCCAAGCAACA 62.269 61.111 0.30 0.00 40.81 3.33
2730 3408 0.239347 CACAGCCAAGCAACAGCTAC 59.761 55.000 0.00 0.00 37.72 3.58
2731 3409 0.109342 ACAGCCAAGCAACAGCTACT 59.891 50.000 0.00 0.00 37.72 2.57
2732 3410 1.347707 ACAGCCAAGCAACAGCTACTA 59.652 47.619 0.00 0.00 37.72 1.82
2733 3411 1.734465 CAGCCAAGCAACAGCTACTAC 59.266 52.381 0.00 0.00 37.72 2.73
2744 3422 2.417933 ACAGCTACTACGTCAACTACCG 59.582 50.000 0.00 0.00 0.00 4.02
2757 3435 4.155733 TACCGGCATCCACCTGCG 62.156 66.667 0.00 0.00 43.23 5.18
2762 3440 3.058160 GCATCCACCTGCGTGCTT 61.058 61.111 0.00 0.00 38.79 3.91
2818 3496 0.462789 CTCGTACGGGCCAGGTAAAT 59.537 55.000 16.52 0.00 0.00 1.40
2820 3498 1.682854 TCGTACGGGCCAGGTAAATAG 59.317 52.381 16.52 1.27 0.00 1.73
2838 3516 0.037605 AGCATTGGCAAAGCTTCTGC 60.038 50.000 22.99 17.27 44.61 4.26
2874 3552 4.250464 CCCAAGCATTACTCAACGAGTTA 58.750 43.478 1.36 0.00 40.28 2.24
2920 3621 5.906113 TGGTTTCAAAAGCTTGTCTTGTA 57.094 34.783 0.00 0.00 37.31 2.41
2921 3622 5.890334 TGGTTTCAAAAGCTTGTCTTGTAG 58.110 37.500 0.00 0.00 37.31 2.74
2922 3623 5.417580 TGGTTTCAAAAGCTTGTCTTGTAGT 59.582 36.000 0.00 0.00 37.31 2.73
2923 3624 6.600032 TGGTTTCAAAAGCTTGTCTTGTAGTA 59.400 34.615 0.00 0.00 37.31 1.82
2924 3625 7.121463 TGGTTTCAAAAGCTTGTCTTGTAGTAA 59.879 33.333 0.00 0.00 37.31 2.24
2925 3626 7.431376 GGTTTCAAAAGCTTGTCTTGTAGTAAC 59.569 37.037 0.00 5.58 34.67 2.50
2926 3627 7.859325 TTCAAAAGCTTGTCTTGTAGTAACT 57.141 32.000 0.00 0.00 34.67 2.24
2927 3628 7.478520 TCAAAAGCTTGTCTTGTAGTAACTC 57.521 36.000 0.00 0.00 34.67 3.01
2928 3629 7.272978 TCAAAAGCTTGTCTTGTAGTAACTCT 58.727 34.615 0.00 0.00 34.67 3.24
2933 3634 7.371936 AGCTTGTCTTGTAGTAACTCTTACTG 58.628 38.462 5.13 0.00 45.58 2.74
2943 3644 8.086522 TGTAGTAACTCTTACTGATGGTTTCAC 58.913 37.037 5.13 0.00 45.58 3.18
2984 3685 2.737376 GGTGAACGCCCAGTCGAC 60.737 66.667 7.70 7.70 0.00 4.20
2996 3697 2.106332 GTCGACATGCTACCCGGG 59.894 66.667 22.25 22.25 0.00 5.73
3003 3704 1.140252 ACATGCTACCCGGGATTGTAC 59.860 52.381 32.02 10.63 0.00 2.90
3013 3714 1.134401 CGGGATTGTACACTGATGCCT 60.134 52.381 12.93 0.00 0.00 4.75
3030 3731 1.596934 CTGTGGCCGACTATGGTGT 59.403 57.895 0.00 0.00 0.00 4.16
3077 3778 3.496675 CCCCCTCGATTTCCCTTTC 57.503 57.895 0.00 0.00 0.00 2.62
3078 3779 0.106669 CCCCCTCGATTTCCCTTTCC 60.107 60.000 0.00 0.00 0.00 3.13
3079 3780 0.106669 CCCCTCGATTTCCCTTTCCC 60.107 60.000 0.00 0.00 0.00 3.97
3080 3781 0.919710 CCCTCGATTTCCCTTTCCCT 59.080 55.000 0.00 0.00 0.00 4.20
3081 3782 1.408822 CCCTCGATTTCCCTTTCCCTG 60.409 57.143 0.00 0.00 0.00 4.45
3119 3820 4.278513 CAACCCGGGCCAACTCCA 62.279 66.667 24.08 0.00 0.00 3.86
3120 3821 4.280019 AACCCGGGCCAACTCCAC 62.280 66.667 24.08 0.00 0.00 4.02
3125 3826 4.678743 GGGCCAACTCCACCACCC 62.679 72.222 4.39 0.00 0.00 4.61
3126 3827 3.580319 GGCCAACTCCACCACCCT 61.580 66.667 0.00 0.00 0.00 4.34
3127 3828 2.282462 GCCAACTCCACCACCCTG 60.282 66.667 0.00 0.00 0.00 4.45
3128 3829 2.282462 CCAACTCCACCACCCTGC 60.282 66.667 0.00 0.00 0.00 4.85
3129 3830 2.282462 CAACTCCACCACCCTGCC 60.282 66.667 0.00 0.00 0.00 4.85
3130 3831 3.580319 AACTCCACCACCCTGCCC 61.580 66.667 0.00 0.00 0.00 5.36
3131 3832 4.599500 ACTCCACCACCCTGCCCT 62.599 66.667 0.00 0.00 0.00 5.19
3132 3833 3.260100 CTCCACCACCCTGCCCTT 61.260 66.667 0.00 0.00 0.00 3.95
3133 3834 2.780924 TCCACCACCCTGCCCTTT 60.781 61.111 0.00 0.00 0.00 3.11
3134 3835 2.601367 CCACCACCCTGCCCTTTG 60.601 66.667 0.00 0.00 0.00 2.77
3135 3836 3.305516 CACCACCCTGCCCTTTGC 61.306 66.667 0.00 0.00 41.77 3.68
3136 3837 4.621087 ACCACCCTGCCCTTTGCC 62.621 66.667 0.00 0.00 40.16 4.52
3137 3838 4.619320 CCACCCTGCCCTTTGCCA 62.619 66.667 0.00 0.00 40.16 4.92
3138 3839 2.523902 CACCCTGCCCTTTGCCAA 60.524 61.111 0.00 0.00 40.16 4.52
3139 3840 2.524148 ACCCTGCCCTTTGCCAAC 60.524 61.111 0.00 0.00 40.16 3.77
3140 3841 3.313524 CCCTGCCCTTTGCCAACC 61.314 66.667 0.00 0.00 40.16 3.77
3141 3842 2.203684 CCTGCCCTTTGCCAACCT 60.204 61.111 0.00 0.00 40.16 3.50
3142 3843 2.278330 CCTGCCCTTTGCCAACCTC 61.278 63.158 0.00 0.00 40.16 3.85
3143 3844 2.203625 TGCCCTTTGCCAACCTCC 60.204 61.111 0.00 0.00 40.16 4.30
3144 3845 2.997315 GCCCTTTGCCAACCTCCC 60.997 66.667 0.00 0.00 0.00 4.30
3174 3875 0.469070 ATCTGCCCTAGCTCTGCTTG 59.531 55.000 0.00 0.00 40.44 4.01
3182 3883 2.675348 CCTAGCTCTGCTTGTAACAAGC 59.325 50.000 17.75 17.75 40.44 4.01
3208 3909 0.517316 CGGCTTGTACTGTGAAAGGC 59.483 55.000 16.04 16.04 41.63 4.35
3213 3914 2.605837 TGTACTGTGAAAGGCGAACA 57.394 45.000 0.00 0.00 0.00 3.18
3280 3981 3.458189 AGTGAACTCTGACGGTGAAAAG 58.542 45.455 0.00 0.00 0.00 2.27
3283 3984 2.821991 ACTCTGACGGTGAAAAGGAG 57.178 50.000 0.00 0.00 0.00 3.69
3284 3985 2.317040 ACTCTGACGGTGAAAAGGAGA 58.683 47.619 0.00 0.00 0.00 3.71
3286 3987 3.060602 CTCTGACGGTGAAAAGGAGAAC 58.939 50.000 0.00 0.00 0.00 3.01
3287 3988 2.143925 CTGACGGTGAAAAGGAGAACC 58.856 52.381 0.00 0.00 0.00 3.62
3289 3990 2.143925 GACGGTGAAAAGGAGAACCAG 58.856 52.381 0.00 0.00 38.94 4.00
3307 4011 4.411013 ACCAGCTTCTAGCCATTTTCTTT 58.589 39.130 0.00 0.00 43.77 2.52
3337 4041 1.272258 GGTAAAGGTTGCTAGCCCCAA 60.272 52.381 19.45 2.84 0.00 4.12
3338 4042 2.521126 GTAAAGGTTGCTAGCCCCAAA 58.479 47.619 19.45 2.49 0.00 3.28
3339 4043 2.325661 AAAGGTTGCTAGCCCCAAAT 57.674 45.000 19.45 5.75 0.00 2.32
3340 4044 1.560505 AAGGTTGCTAGCCCCAAATG 58.439 50.000 19.45 0.00 0.00 2.32
3341 4045 0.324645 AGGTTGCTAGCCCCAAATGG 60.325 55.000 19.45 0.00 0.00 3.16
3356 4060 4.177783 CCAAATGGGTTACGTTTTATGCC 58.822 43.478 0.00 0.00 36.17 4.40
3357 4061 3.768468 AATGGGTTACGTTTTATGCCG 57.232 42.857 0.00 0.00 0.00 5.69
3358 4062 1.451067 TGGGTTACGTTTTATGCCGG 58.549 50.000 0.00 0.00 0.00 6.13
3359 4063 1.271271 TGGGTTACGTTTTATGCCGGT 60.271 47.619 1.90 0.00 0.00 5.28
3360 4064 2.027745 TGGGTTACGTTTTATGCCGGTA 60.028 45.455 1.90 0.00 0.00 4.02
3361 4065 2.609002 GGGTTACGTTTTATGCCGGTAG 59.391 50.000 1.90 0.00 0.00 3.18
3362 4066 3.520569 GGTTACGTTTTATGCCGGTAGA 58.479 45.455 1.90 0.00 0.00 2.59
3363 4067 3.553105 GGTTACGTTTTATGCCGGTAGAG 59.447 47.826 1.90 0.00 0.00 2.43
3364 4068 4.176271 GTTACGTTTTATGCCGGTAGAGT 58.824 43.478 1.90 0.00 0.00 3.24
3365 4069 3.323751 ACGTTTTATGCCGGTAGAGTT 57.676 42.857 1.90 0.00 0.00 3.01
3366 4070 2.997986 ACGTTTTATGCCGGTAGAGTTG 59.002 45.455 1.90 0.00 0.00 3.16
3367 4071 2.222953 CGTTTTATGCCGGTAGAGTTGC 60.223 50.000 1.90 0.00 0.00 4.17
3368 4072 3.007635 GTTTTATGCCGGTAGAGTTGCT 58.992 45.455 1.90 0.00 0.00 3.91
3369 4073 3.343941 TTTATGCCGGTAGAGTTGCTT 57.656 42.857 1.90 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 62 3.202706 GCCACCGAATTCCCTCGC 61.203 66.667 0.00 0.00 37.51 5.03
92 93 2.226912 CCGACTTGGGCGATGTTAAAAA 59.773 45.455 0.00 0.00 0.00 1.94
93 94 1.807742 CCGACTTGGGCGATGTTAAAA 59.192 47.619 0.00 0.00 0.00 1.52
159 160 0.109226 GAGAGTCCGCATATACCGGC 60.109 60.000 0.00 4.96 45.19 6.13
168 169 4.279145 AGTAAATTCTAGGAGAGTCCGCA 58.721 43.478 0.00 0.00 42.75 5.69
169 170 4.581409 AGAGTAAATTCTAGGAGAGTCCGC 59.419 45.833 0.00 0.00 42.75 5.54
170 171 7.282675 TGTTAGAGTAAATTCTAGGAGAGTCCG 59.717 40.741 0.00 0.00 42.75 4.79
171 172 8.522542 TGTTAGAGTAAATTCTAGGAGAGTCC 57.477 38.462 0.00 0.00 36.58 3.85
172 173 9.791820 GTTGTTAGAGTAAATTCTAGGAGAGTC 57.208 37.037 0.00 0.00 31.68 3.36
173 174 9.536510 AGTTGTTAGAGTAAATTCTAGGAGAGT 57.463 33.333 0.00 0.00 31.68 3.24
182 183 9.882856 CGATCGTTAAGTTGTTAGAGTAAATTC 57.117 33.333 7.03 0.00 0.00 2.17
183 184 8.866956 CCGATCGTTAAGTTGTTAGAGTAAATT 58.133 33.333 15.09 0.00 0.00 1.82
184 185 7.009907 GCCGATCGTTAAGTTGTTAGAGTAAAT 59.990 37.037 15.09 0.00 0.00 1.40
185 186 6.308766 GCCGATCGTTAAGTTGTTAGAGTAAA 59.691 38.462 15.09 0.00 0.00 2.01
186 187 5.801947 GCCGATCGTTAAGTTGTTAGAGTAA 59.198 40.000 15.09 0.00 0.00 2.24
187 188 5.335127 GCCGATCGTTAAGTTGTTAGAGTA 58.665 41.667 15.09 0.00 0.00 2.59
188 189 4.171754 GCCGATCGTTAAGTTGTTAGAGT 58.828 43.478 15.09 0.00 0.00 3.24
189 190 3.239941 CGCCGATCGTTAAGTTGTTAGAG 59.760 47.826 15.09 0.00 0.00 2.43
190 191 3.173599 CGCCGATCGTTAAGTTGTTAGA 58.826 45.455 15.09 0.00 0.00 2.10
191 192 3.548216 CGCCGATCGTTAAGTTGTTAG 57.452 47.619 15.09 0.00 0.00 2.34
203 204 3.671411 CCCTAGGGACGCCGATCG 61.671 72.222 24.99 8.51 45.38 3.69
204 205 1.186267 ATTCCCTAGGGACGCCGATC 61.186 60.000 31.18 0.00 45.11 3.69
205 206 0.763223 AATTCCCTAGGGACGCCGAT 60.763 55.000 31.18 17.80 45.11 4.18
206 207 1.382146 AATTCCCTAGGGACGCCGA 60.382 57.895 31.18 16.12 45.11 5.54
207 208 1.227556 CAATTCCCTAGGGACGCCG 60.228 63.158 31.18 15.02 45.11 6.46
208 209 0.255033 AACAATTCCCTAGGGACGCC 59.745 55.000 31.18 0.00 45.11 5.68
209 210 1.379527 CAACAATTCCCTAGGGACGC 58.620 55.000 31.18 0.00 45.11 5.19
210 211 1.379527 GCAACAATTCCCTAGGGACG 58.620 55.000 31.18 22.55 45.11 4.79
211 212 1.763968 GGCAACAATTCCCTAGGGAC 58.236 55.000 31.18 16.46 45.11 4.46
212 213 0.254747 CGGCAACAATTCCCTAGGGA 59.745 55.000 27.73 27.73 43.52 4.20
213 214 0.751643 CCGGCAACAATTCCCTAGGG 60.752 60.000 23.22 23.22 0.00 3.53
214 215 0.034477 ACCGGCAACAATTCCCTAGG 60.034 55.000 0.00 0.06 0.00 3.02
215 216 2.702592 TACCGGCAACAATTCCCTAG 57.297 50.000 0.00 0.00 0.00 3.02
216 217 4.103469 ACATATACCGGCAACAATTCCCTA 59.897 41.667 0.00 0.00 0.00 3.53
217 218 3.117663 ACATATACCGGCAACAATTCCCT 60.118 43.478 0.00 0.00 0.00 4.20
218 219 3.004315 CACATATACCGGCAACAATTCCC 59.996 47.826 0.00 0.00 0.00 3.97
219 220 3.004315 CCACATATACCGGCAACAATTCC 59.996 47.826 0.00 0.00 0.00 3.01
220 221 3.880490 TCCACATATACCGGCAACAATTC 59.120 43.478 0.00 0.00 0.00 2.17
221 222 3.630312 GTCCACATATACCGGCAACAATT 59.370 43.478 0.00 0.00 0.00 2.32
222 223 3.118038 AGTCCACATATACCGGCAACAAT 60.118 43.478 0.00 0.00 0.00 2.71
223 224 2.237643 AGTCCACATATACCGGCAACAA 59.762 45.455 0.00 0.00 0.00 2.83
224 225 1.834896 AGTCCACATATACCGGCAACA 59.165 47.619 0.00 0.00 0.00 3.33
225 226 2.102588 AGAGTCCACATATACCGGCAAC 59.897 50.000 0.00 0.00 0.00 4.17
226 227 2.364324 GAGAGTCCACATATACCGGCAA 59.636 50.000 0.00 0.00 0.00 4.52
227 228 1.961394 GAGAGTCCACATATACCGGCA 59.039 52.381 0.00 0.00 0.00 5.69
228 229 1.272769 GGAGAGTCCACATATACCGGC 59.727 57.143 0.00 0.00 36.28 6.13
229 230 2.877866 AGGAGAGTCCACATATACCGG 58.122 52.381 0.00 0.00 39.61 5.28
230 231 4.907809 TCTAGGAGAGTCCACATATACCG 58.092 47.826 0.00 0.00 39.61 4.02
231 232 7.784470 AATTCTAGGAGAGTCCACATATACC 57.216 40.000 0.00 0.00 39.61 2.73
234 235 9.084533 GAGTAAATTCTAGGAGAGTCCACATAT 57.915 37.037 0.00 0.00 39.61 1.78
235 236 8.282982 AGAGTAAATTCTAGGAGAGTCCACATA 58.717 37.037 0.00 0.00 39.61 2.29
236 237 7.129425 AGAGTAAATTCTAGGAGAGTCCACAT 58.871 38.462 0.00 0.00 39.61 3.21
302 814 5.926542 CACGAACCTTTGAGACTTATGAGAA 59.073 40.000 0.00 0.00 0.00 2.87
303 815 5.243060 TCACGAACCTTTGAGACTTATGAGA 59.757 40.000 0.00 0.00 0.00 3.27
304 816 5.346281 GTCACGAACCTTTGAGACTTATGAG 59.654 44.000 0.00 0.00 31.82 2.90
308 820 4.659111 TGTCACGAACCTTTGAGACTTA 57.341 40.909 0.00 0.00 34.50 2.24
319 831 6.396459 TTGTTTTTGAAAATGTCACGAACC 57.604 33.333 0.00 0.00 35.39 3.62
383 898 6.463360 ACATGTTGAAACAATGATAAACCCC 58.537 36.000 0.00 0.00 43.03 4.95
384 899 9.651913 AATACATGTTGAAACAATGATAAACCC 57.348 29.630 2.30 0.00 43.03 4.11
410 933 8.199176 TCAAGTACGTGTCAAACAATTTCTAA 57.801 30.769 8.68 0.00 0.00 2.10
411 934 7.773864 TCAAGTACGTGTCAAACAATTTCTA 57.226 32.000 8.68 0.00 0.00 2.10
450 973 9.520204 AATACATATTCTTTTACACAAGCATGC 57.480 29.630 10.51 10.51 0.00 4.06
591 1115 8.547894 GTTTTTGGATTGTTTTGGTATCTTCAC 58.452 33.333 0.00 0.00 0.00 3.18
651 1175 8.725405 ATTTGTTTTTAATGGTTTTCTTCGGT 57.275 26.923 0.00 0.00 0.00 4.69
675 1199 6.671614 TGTCGGTATGCTTTCGATTTTTAT 57.328 33.333 0.00 0.00 35.35 1.40
734 1259 4.900664 TCAGTCCGTTTTCTTTCGTTTTC 58.099 39.130 0.00 0.00 0.00 2.29
763 1289 1.961277 CGTCGGGTTGCTGAGCTTT 60.961 57.895 5.83 0.00 0.00 3.51
773 1299 0.392729 TGGTTGTTTCACGTCGGGTT 60.393 50.000 0.00 0.00 0.00 4.11
819 1369 2.223433 CGACCCAATAGGAGTCGTGTAC 60.223 54.545 13.64 0.00 45.45 2.90
873 1433 9.496710 TGAAAAGGGAAGTAGAAGTATATACCA 57.503 33.333 9.32 0.00 0.00 3.25
880 1440 9.689501 TTTCTTTTGAAAAGGGAAGTAGAAGTA 57.310 29.630 16.79 0.00 44.51 2.24
881 1441 8.589701 TTTCTTTTGAAAAGGGAAGTAGAAGT 57.410 30.769 16.79 0.00 44.51 3.01
908 1468 1.415374 GTGTATGACGACGTGCTGTT 58.585 50.000 4.58 0.00 0.00 3.16
909 1469 0.388134 GGTGTATGACGACGTGCTGT 60.388 55.000 4.58 0.00 0.00 4.40
910 1470 1.076533 GGGTGTATGACGACGTGCTG 61.077 60.000 4.58 0.00 0.00 4.41
917 1477 1.449726 CGATCGGGGGTGTATGACGA 61.450 60.000 7.38 0.00 38.00 4.20
919 1479 0.031721 GTCGATCGGGGGTGTATGAC 59.968 60.000 16.41 0.00 0.00 3.06
925 1492 4.508128 CGGTGTCGATCGGGGGTG 62.508 72.222 16.41 0.00 39.00 4.61
942 1509 4.736793 TCGGAAGATAGCGAACGATTTTAC 59.263 41.667 0.00 0.00 33.31 2.01
952 1519 1.647629 GCTCGTCGGAAGATAGCGA 59.352 57.895 0.00 0.00 45.19 4.93
954 1521 2.011881 GCGCTCGTCGGAAGATAGC 61.012 63.158 0.00 0.09 45.19 2.97
1167 1740 0.548682 AGGCAGAAGGTGACCCTGAT 60.549 55.000 11.41 0.00 41.56 2.90
1474 2058 3.578515 AATTTCCCGGCGTCGTCGT 62.579 57.895 18.95 0.00 39.49 4.34
1475 2059 2.795389 GAATTTCCCGGCGTCGTCG 61.795 63.158 13.24 13.24 40.37 5.12
1478 2062 1.142314 TAGGAATTTCCCGGCGTCG 59.858 57.895 11.92 0.29 37.19 5.12
1488 2072 0.824759 AGCTCGGCGAGTAGGAATTT 59.175 50.000 34.41 10.33 31.39 1.82
1606 2202 4.115270 GGTCCTCGTTCCTGACCT 57.885 61.111 0.00 0.00 44.17 3.85
1811 2428 2.414481 CAGGTCGACAAGCTTGATGAAG 59.586 50.000 32.50 16.87 31.91 3.02
1856 2473 1.732259 GTCTTGTGGTTATGGTCAGCG 59.268 52.381 0.00 0.00 0.00 5.18
1858 2475 3.254060 CGAGTCTTGTGGTTATGGTCAG 58.746 50.000 0.00 0.00 0.00 3.51
1862 2479 2.093306 TGCGAGTCTTGTGGTTATGG 57.907 50.000 0.00 0.00 0.00 2.74
2116 2742 4.767255 GTGCCGGTCTCCCAGCAG 62.767 72.222 1.90 0.00 35.56 4.24
2130 2756 1.268079 GGAAAGCAAGTTCCTCAGTGC 59.732 52.381 6.59 0.00 43.32 4.40
2389 3021 0.239347 CCGAACAGCTTCAGGCAAAG 59.761 55.000 0.00 0.00 44.79 2.77
2397 3029 1.004440 AGGCTCACCGAACAGCTTC 60.004 57.895 0.00 0.00 42.76 3.86
2412 3044 1.527034 TGTTCATGCTGTTCAGAGGC 58.473 50.000 3.84 0.00 0.00 4.70
2503 3136 3.230134 ACCCTGAAGCAAATAACAAGCA 58.770 40.909 0.00 0.00 0.00 3.91
2505 3138 9.736023 GATAATAACCCTGAAGCAAATAACAAG 57.264 33.333 0.00 0.00 0.00 3.16
2522 3157 8.986847 CACATTGTCTGATGAGAGATAATAACC 58.013 37.037 0.00 0.00 33.43 2.85
2523 3158 8.986847 CCACATTGTCTGATGAGAGATAATAAC 58.013 37.037 0.00 0.00 33.43 1.89
2524 3159 8.708378 ACCACATTGTCTGATGAGAGATAATAA 58.292 33.333 0.00 0.00 33.43 1.40
2525 3160 8.255111 ACCACATTGTCTGATGAGAGATAATA 57.745 34.615 0.00 0.00 33.43 0.98
2526 3161 7.134362 ACCACATTGTCTGATGAGAGATAAT 57.866 36.000 0.00 0.00 34.98 1.28
2527 3162 6.550938 ACCACATTGTCTGATGAGAGATAA 57.449 37.500 0.00 0.00 0.00 1.75
2528 3163 7.664758 CATACCACATTGTCTGATGAGAGATA 58.335 38.462 0.00 0.00 0.00 1.98
2533 3211 4.449131 AGCATACCACATTGTCTGATGAG 58.551 43.478 5.81 0.00 0.00 2.90
2568 3246 3.676172 ACGCATGCACATCAATCAAAAAG 59.324 39.130 19.57 0.00 0.00 2.27
2577 3255 1.135344 CAAATGGACGCATGCACATCA 60.135 47.619 19.57 10.26 0.00 3.07
2583 3261 2.202783 GGGCAAATGGACGCATGC 60.203 61.111 7.91 7.91 38.06 4.06
2600 3278 7.696872 CAGTTCTGAAATTTCTGCATGTAGATG 59.303 37.037 14.63 1.63 0.00 2.90
2630 3308 1.303236 TGCTGCGGTGGCTGTAAAT 60.303 52.632 0.00 0.00 39.98 1.40
2642 3320 0.110056 GTTCCACATGTTCTGCTGCG 60.110 55.000 0.00 0.00 0.00 5.18
2649 3327 4.681744 ACACATTGTTGTTCCACATGTTC 58.318 39.130 0.00 0.00 32.34 3.18
2669 3347 6.675413 AGAAACACCCATTGTAGTAGTACA 57.325 37.500 6.31 6.31 37.51 2.90
2671 3349 7.620491 TCCATAGAAACACCCATTGTAGTAGTA 59.380 37.037 0.00 0.00 37.51 1.82
2692 3370 3.008485 TGTGCGCCATAACCATATCCATA 59.992 43.478 4.18 0.00 0.00 2.74
2693 3371 2.224744 TGTGCGCCATAACCATATCCAT 60.225 45.455 4.18 0.00 0.00 3.41
2694 3372 1.141858 TGTGCGCCATAACCATATCCA 59.858 47.619 4.18 0.00 0.00 3.41
2695 3373 1.806542 CTGTGCGCCATAACCATATCC 59.193 52.381 4.18 0.00 0.00 2.59
2696 3374 1.197721 GCTGTGCGCCATAACCATATC 59.802 52.381 4.18 0.00 0.00 1.63
2697 3375 1.238439 GCTGTGCGCCATAACCATAT 58.762 50.000 4.18 0.00 0.00 1.78
2698 3376 2.701587 GCTGTGCGCCATAACCATA 58.298 52.632 4.18 0.00 0.00 2.74
2710 3388 2.355481 GCTGTTGCTTGGCTGTGC 60.355 61.111 0.00 0.00 36.03 4.57
2730 3408 1.535437 GGATGCCGGTAGTTGACGTAG 60.535 57.143 1.90 0.00 0.00 3.51
2731 3409 0.457035 GGATGCCGGTAGTTGACGTA 59.543 55.000 1.90 0.00 0.00 3.57
2732 3410 1.217244 GGATGCCGGTAGTTGACGT 59.783 57.895 1.90 0.00 0.00 4.34
2733 3411 1.082117 GTGGATGCCGGTAGTTGACG 61.082 60.000 1.90 0.00 0.00 4.35
2766 3444 0.606401 GCAGAGGCTGTGGCAAGTTA 60.606 55.000 14.04 0.00 40.87 2.24
2778 3456 1.603739 AAAACCGGGAAGCAGAGGC 60.604 57.895 6.32 0.00 41.61 4.70
2786 3464 0.603439 GTACGAGGCAAAACCGGGAA 60.603 55.000 6.32 0.00 46.52 3.97
2789 3467 2.385091 CCGTACGAGGCAAAACCGG 61.385 63.158 18.76 0.00 46.52 5.28
2791 3469 3.569902 CCCGTACGAGGCAAAACC 58.430 61.111 18.76 0.00 39.61 3.27
2810 3488 4.114794 GCTTTGCCAATGCTATTTACCTG 58.885 43.478 7.97 0.00 38.71 4.00
2818 3496 1.203052 GCAGAAGCTTTGCCAATGCTA 59.797 47.619 17.02 0.00 40.56 3.49
2820 3498 2.452767 GCAGAAGCTTTGCCAATGC 58.547 52.632 17.56 7.19 37.91 3.56
2838 3516 3.486383 TGCTTGGGGTAAAAGAAGACAG 58.514 45.455 0.00 0.00 0.00 3.51
2844 3522 5.249780 TGAGTAATGCTTGGGGTAAAAGA 57.750 39.130 0.00 0.00 0.00 2.52
2845 3523 5.619086 CGTTGAGTAATGCTTGGGGTAAAAG 60.619 44.000 0.00 0.00 0.00 2.27
2851 3529 2.009774 CTCGTTGAGTAATGCTTGGGG 58.990 52.381 0.00 0.00 0.00 4.96
2874 3552 9.108284 CCAACACTTGAGAAATATTTTTGGTTT 57.892 29.630 12.74 0.00 0.00 3.27
2888 3589 4.462483 AGCTTTTGAAACCAACACTTGAGA 59.538 37.500 0.00 0.00 0.00 3.27
2920 3621 7.304497 AGTGAAACCATCAGTAAGAGTTACT 57.696 36.000 0.00 0.00 42.41 2.24
2921 3622 7.571428 GCAAGTGAAACCATCAGTAAGAGTTAC 60.571 40.741 0.00 0.00 40.94 2.50
2922 3623 6.426937 GCAAGTGAAACCATCAGTAAGAGTTA 59.573 38.462 0.00 0.00 40.94 2.24
2923 3624 5.239525 GCAAGTGAAACCATCAGTAAGAGTT 59.760 40.000 0.00 0.00 40.94 3.01
2924 3625 4.757149 GCAAGTGAAACCATCAGTAAGAGT 59.243 41.667 0.00 0.00 40.94 3.24
2925 3626 4.999950 AGCAAGTGAAACCATCAGTAAGAG 59.000 41.667 0.00 0.00 40.94 2.85
2926 3627 4.973168 AGCAAGTGAAACCATCAGTAAGA 58.027 39.130 0.00 0.00 40.94 2.10
2927 3628 5.455392 CAAGCAAGTGAAACCATCAGTAAG 58.545 41.667 0.00 0.00 40.94 2.34
2928 3629 4.261572 GCAAGCAAGTGAAACCATCAGTAA 60.262 41.667 0.00 0.00 40.94 2.24
2933 3634 2.608752 CCTGCAAGCAAGTGAAACCATC 60.609 50.000 0.00 0.00 37.80 3.51
2943 3644 4.712425 GCGCACCCTGCAAGCAAG 62.712 66.667 0.30 0.00 45.36 4.01
2966 3667 4.351938 TCGACTGGGCGTTCACCG 62.352 66.667 0.00 0.00 40.40 4.94
2982 3683 0.180406 ACAATCCCGGGTAGCATGTC 59.820 55.000 22.86 0.00 0.00 3.06
2984 3685 1.140052 TGTACAATCCCGGGTAGCATG 59.860 52.381 22.86 15.27 0.00 4.06
2996 3697 2.679837 CCACAGGCATCAGTGTACAATC 59.320 50.000 0.00 0.00 33.99 2.67
3013 3714 1.295101 CACACCATAGTCGGCCACA 59.705 57.895 2.24 0.00 0.00 4.17
3060 3761 0.106669 GGGAAAGGGAAATCGAGGGG 60.107 60.000 0.00 0.00 0.00 4.79
3075 3776 1.607178 CTGCCATTGCACCAGGGAA 60.607 57.895 0.00 0.00 44.23 3.97
3076 3777 2.036098 CTGCCATTGCACCAGGGA 59.964 61.111 0.00 0.00 44.23 4.20
3077 3778 1.909781 AACTGCCATTGCACCAGGG 60.910 57.895 0.00 0.00 44.23 4.45
3078 3779 1.290955 CAACTGCCATTGCACCAGG 59.709 57.895 0.00 0.00 44.23 4.45
3079 3780 4.979204 CAACTGCCATTGCACCAG 57.021 55.556 0.00 0.00 44.23 4.00
3116 3817 2.780924 AAAGGGCAGGGTGGTGGA 60.781 61.111 0.00 0.00 0.00 4.02
3117 3818 2.601367 CAAAGGGCAGGGTGGTGG 60.601 66.667 0.00 0.00 0.00 4.61
3118 3819 3.305516 GCAAAGGGCAGGGTGGTG 61.306 66.667 0.00 0.00 43.97 4.17
3120 3821 4.619320 TGGCAAAGGGCAGGGTGG 62.619 66.667 0.00 0.00 45.76 4.61
3127 3828 2.997315 GGGAGGTTGGCAAAGGGC 60.997 66.667 0.00 0.00 43.74 5.19
3128 3829 2.283894 GGGGAGGTTGGCAAAGGG 60.284 66.667 0.00 0.00 0.00 3.95
3129 3830 2.283894 GGGGGAGGTTGGCAAAGG 60.284 66.667 0.00 0.00 0.00 3.11
3130 3831 1.304464 GAGGGGGAGGTTGGCAAAG 60.304 63.158 0.00 0.00 0.00 2.77
3131 3832 2.851045 GAGGGGGAGGTTGGCAAA 59.149 61.111 0.00 0.00 0.00 3.68
3132 3833 3.646715 CGAGGGGGAGGTTGGCAA 61.647 66.667 0.00 0.00 0.00 4.52
3135 3836 3.787001 GAGCGAGGGGGAGGTTGG 61.787 72.222 0.00 0.00 0.00 3.77
3136 3837 4.148825 CGAGCGAGGGGGAGGTTG 62.149 72.222 0.00 0.00 0.00 3.77
3137 3838 2.584873 ATACGAGCGAGGGGGAGGTT 62.585 60.000 0.00 0.00 0.00 3.50
3138 3839 2.980105 GATACGAGCGAGGGGGAGGT 62.980 65.000 0.00 0.00 0.00 3.85
3139 3840 2.203509 ATACGAGCGAGGGGGAGG 60.204 66.667 0.00 0.00 0.00 4.30
3140 3841 1.228306 AGATACGAGCGAGGGGGAG 60.228 63.158 0.00 0.00 0.00 4.30
3141 3842 1.528542 CAGATACGAGCGAGGGGGA 60.529 63.158 0.00 0.00 0.00 4.81
3142 3843 3.043419 CAGATACGAGCGAGGGGG 58.957 66.667 0.00 0.00 0.00 5.40
3143 3844 2.336809 GCAGATACGAGCGAGGGG 59.663 66.667 0.00 0.00 0.00 4.79
3144 3845 2.336809 GGCAGATACGAGCGAGGG 59.663 66.667 0.00 0.00 0.00 4.30
3182 3883 0.034896 ACAGTACAAGCCGGTGAAGG 59.965 55.000 1.90 0.00 0.00 3.46
3262 3963 3.060602 CTCCTTTTCACCGTCAGAGTTC 58.939 50.000 0.00 0.00 0.00 3.01
3280 3981 0.905357 TGGCTAGAAGCTGGTTCTCC 59.095 55.000 23.83 19.56 42.26 3.71
3283 3984 4.013050 AGAAAATGGCTAGAAGCTGGTTC 58.987 43.478 11.46 11.46 41.99 3.62
3284 3985 4.039603 AGAAAATGGCTAGAAGCTGGTT 57.960 40.909 0.00 0.00 41.99 3.67
3286 3987 4.741342 CAAAGAAAATGGCTAGAAGCTGG 58.259 43.478 0.00 0.00 41.99 4.85
3287 3988 4.171754 GCAAAGAAAATGGCTAGAAGCTG 58.828 43.478 0.00 0.00 41.99 4.24
3289 3990 4.171754 CTGCAAAGAAAATGGCTAGAAGC 58.828 43.478 0.00 0.00 41.46 3.86
3307 4011 2.295909 GCAACCTTTACCATTCACTGCA 59.704 45.455 0.00 0.00 0.00 4.41
3337 4041 2.424246 CCGGCATAAAACGTAACCCATT 59.576 45.455 0.00 0.00 0.00 3.16
3338 4042 2.018515 CCGGCATAAAACGTAACCCAT 58.981 47.619 0.00 0.00 0.00 4.00
3339 4043 1.271271 ACCGGCATAAAACGTAACCCA 60.271 47.619 0.00 0.00 0.00 4.51
3340 4044 1.452110 ACCGGCATAAAACGTAACCC 58.548 50.000 0.00 0.00 0.00 4.11
3341 4045 3.520569 TCTACCGGCATAAAACGTAACC 58.479 45.455 0.00 0.00 0.00 2.85
3342 4046 4.176271 ACTCTACCGGCATAAAACGTAAC 58.824 43.478 0.00 0.00 0.00 2.50
3343 4047 4.454728 ACTCTACCGGCATAAAACGTAA 57.545 40.909 0.00 0.00 0.00 3.18
3344 4048 4.175516 CAACTCTACCGGCATAAAACGTA 58.824 43.478 0.00 0.00 0.00 3.57
3345 4049 2.997986 CAACTCTACCGGCATAAAACGT 59.002 45.455 0.00 0.00 0.00 3.99
3346 4050 2.222953 GCAACTCTACCGGCATAAAACG 60.223 50.000 0.00 0.00 0.00 3.60
3347 4051 3.007635 AGCAACTCTACCGGCATAAAAC 58.992 45.455 0.00 0.00 0.00 2.43
3348 4052 3.343941 AGCAACTCTACCGGCATAAAA 57.656 42.857 0.00 0.00 0.00 1.52
3349 4053 3.343941 AAGCAACTCTACCGGCATAAA 57.656 42.857 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.