Multiple sequence alignment - TraesCS1B01G402300

Loading Multiple Alignment...

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 TraesCS1B01G402300 chr1B 100.000 2584 0 0 1 2584 632164694 632167277 0.000000e+00 4772.0
1 TraesCS1B01G402300 chr1B 75.439 399 68 18 19 412 494592625 494592252 1.590000e-37 167.0
2 TraesCS1B01G402300 chr1B 76.966 178 38 3 420 596 515520802 515520627 5.880000e-17 99.0
3 TraesCS1B01G402300 chr1D 88.489 1138 104 21 19 1146 460158167 460159287 0.000000e+00 1351.0
4 TraesCS1B01G402300 chr1D 95.127 472 17 2 1306 1774 460159286 460159754 0.000000e+00 739.0
5 TraesCS1B01G402300 chr1D 81.459 329 53 7 19 344 95871169 95870846 1.970000e-66 263.0
6 TraesCS1B01G402300 chr1D 93.333 165 11 0 1144 1308 311986775 311986611 7.140000e-61 244.0
7 TraesCS1B01G402300 chr1D 100.000 28 0 0 360 387 18918653 18918680 5.000000e-03 52.8
8 TraesCS1B01G402300 chr1A 83.707 1160 114 35 19 1146 551640467 551641583 0.000000e+00 1026.0
9 TraesCS1B01G402300 chr1A 85.697 811 93 12 1776 2580 551642240 551643033 0.000000e+00 833.0
10 TraesCS1B01G402300 chr1A 91.755 473 27 5 1306 1774 551641582 551642046 0.000000e+00 647.0
11 TraesCS1B01G402300 chr1A 78.072 529 94 20 21 533 473973440 473972918 5.370000e-82 315.0
12 TraesCS1B01G402300 chr2D 77.491 813 133 38 1784 2582 470062030 470061254 2.360000e-120 442.0
13 TraesCS1B01G402300 chr2D 76.934 724 141 25 1835 2542 572258433 572259146 3.120000e-104 388.0
14 TraesCS1B01G402300 chr2D 83.612 299 48 1 11 308 30445539 30445241 1.960000e-71 279.0
15 TraesCS1B01G402300 chr2D 92.941 170 12 0 1145 1314 8974692 8974523 5.520000e-62 248.0
16 TraesCS1B01G402300 chr3D 77.593 781 128 35 1780 2548 4008332 4009077 1.840000e-116 429.0
17 TraesCS1B01G402300 chr3D 77.405 686 129 20 1894 2569 231133666 231132997 4.030000e-103 385.0
18 TraesCS1B01G402300 chr3D 76.056 781 146 38 1779 2542 1650184 1649428 4.060000e-98 368.0
19 TraesCS1B01G402300 chr3D 93.865 163 10 0 1145 1307 486424787 486424949 1.990000e-61 246.0
20 TraesCS1B01G402300 chr3D 80.426 235 34 8 226 450 613071313 613071081 4.420000e-38 169.0
21 TraesCS1B01G402300 chr7D 82.952 481 62 13 1306 1773 91106822 91107295 1.430000e-112 416.0
22 TraesCS1B01G402300 chr7D 84.783 322 47 2 23 343 206699532 206699852 3.210000e-84 322.0
23 TraesCS1B01G402300 chr7D 90.323 186 16 2 1126 1311 567656408 567656225 2.570000e-60 243.0
24 TraesCS1B01G402300 chr7D 76.682 446 61 27 19 442 384987426 384987002 9.370000e-50 207.0
25 TraesCS1B01G402300 chr6D 78.618 608 106 20 1800 2397 420195866 420195273 5.220000e-102 381.0
26 TraesCS1B01G402300 chr6D 76.689 592 112 18 19 599 388217386 388216810 3.230000e-79 305.0
27 TraesCS1B01G402300 chr6D 91.860 172 14 0 1144 1315 454231874 454232045 9.240000e-60 241.0
28 TraesCS1B01G402300 chr6D 91.860 172 13 1 1137 1308 24998365 24998195 3.320000e-59 239.0
29 TraesCS1B01G402300 chr6A 77.712 673 111 27 1884 2542 2958279 2958926 2.430000e-100 375.0
30 TraesCS1B01G402300 chr2A 75.735 816 139 33 1787 2582 611335752 611334976 3.160000e-94 355.0
31 TraesCS1B01G402300 chr2A 75.210 835 145 46 1775 2581 102406733 102407533 3.190000e-89 339.0
32 TraesCS1B01G402300 chr5A 77.002 587 109 19 35 598 485865452 485866035 1.930000e-81 313.0
33 TraesCS1B01G402300 chr5A 84.691 307 44 3 35 339 485923721 485924026 1.160000e-78 303.0
34 TraesCS1B01G402300 chr5A 83.824 68 9 2 516 582 616437561 616437495 2.150000e-06 63.9
35 TraesCS1B01G402300 chr3A 84.244 311 48 1 30 339 112408494 112408184 4.180000e-78 302.0
36 TraesCS1B01G402300 chr7B 87.243 243 22 4 909 1146 43672564 43672802 4.240000e-68 268.0
37 TraesCS1B01G402300 chr7B 92.353 170 13 0 1138 1307 82692629 82692460 2.570000e-60 243.0
38 TraesCS1B01G402300 chr6B 93.293 164 11 0 1144 1307 322417201 322417038 2.570000e-60 243.0
39 TraesCS1B01G402300 chr2B 91.954 174 10 3 1134 1307 378581937 378582106 9.240000e-60 241.0
40 TraesCS1B01G402300 chr5D 76.031 509 93 20 30 536 472566928 472566447 1.200000e-58 237.0
41 TraesCS1B01G402300 chr5D 84.694 98 14 1 499 596 408569930 408570026 2.120000e-16 97.1
42 TraesCS1B01G402300 chr3B 81.765 170 22 6 269 430 825975070 825975238 1.610000e-27 134.0
43 TraesCS1B01G402300 chr7A 85.714 105 9 6 341 443 444963539 444963639 3.520000e-19 106.0
44 TraesCS1B01G402300 chr7A 88.889 54 6 0 359 412 176240344 176240291 1.660000e-07 67.6


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 TraesCS1B01G402300 chr1B 632164694 632167277 2583 False 4772.000000 4772 100.000 1 2584 1 chr1B.!!$F1 2583
1 TraesCS1B01G402300 chr1D 460158167 460159754 1587 False 1045.000000 1351 91.808 19 1774 2 chr1D.!!$F2 1755
2 TraesCS1B01G402300 chr1A 551640467 551643033 2566 False 835.333333 1026 87.053 19 2580 3 chr1A.!!$F1 2561
3 TraesCS1B01G402300 chr1A 473972918 473973440 522 True 315.000000 315 78.072 21 533 1 chr1A.!!$R1 512
4 TraesCS1B01G402300 chr2D 470061254 470062030 776 True 442.000000 442 77.491 1784 2582 1 chr2D.!!$R3 798
5 TraesCS1B01G402300 chr2D 572258433 572259146 713 False 388.000000 388 76.934 1835 2542 1 chr2D.!!$F1 707
6 TraesCS1B01G402300 chr3D 4008332 4009077 745 False 429.000000 429 77.593 1780 2548 1 chr3D.!!$F1 768
7 TraesCS1B01G402300 chr3D 231132997 231133666 669 True 385.000000 385 77.405 1894 2569 1 chr3D.!!$R2 675
8 TraesCS1B01G402300 chr3D 1649428 1650184 756 True 368.000000 368 76.056 1779 2542 1 chr3D.!!$R1 763
9 TraesCS1B01G402300 chr6D 420195273 420195866 593 True 381.000000 381 78.618 1800 2397 1 chr6D.!!$R3 597
10 TraesCS1B01G402300 chr6D 388216810 388217386 576 True 305.000000 305 76.689 19 599 1 chr6D.!!$R2 580
11 TraesCS1B01G402300 chr6A 2958279 2958926 647 False 375.000000 375 77.712 1884 2542 1 chr6A.!!$F1 658
12 TraesCS1B01G402300 chr2A 611334976 611335752 776 True 355.000000 355 75.735 1787 2582 1 chr2A.!!$R1 795
13 TraesCS1B01G402300 chr2A 102406733 102407533 800 False 339.000000 339 75.210 1775 2581 1 chr2A.!!$F1 806
14 TraesCS1B01G402300 chr5A 485865452 485866035 583 False 313.000000 313 77.002 35 598 1 chr5A.!!$F1 563

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
116 117 0.108424 CGCTCTGGTCTCAAGAAGGG 60.108 60.0 0.00 0.00 0.00 3.95 F
242 243 0.257328 TCTGGAGACGGAGCTGAGAT 59.743 55.0 0.00 0.00 42.04 2.75 F
512 573 0.397535 AATGATTGGATGGCGGCCTT 60.398 50.0 21.46 14.55 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1369 1467 0.032130 GTCAAGTGACGAGACCAGCA 59.968 55.0 0.00 0.0 35.12 4.41 R
1548 1646 0.607762 TTTGCAAGTATGGGCTGCGA 60.608 50.0 0.00 0.0 0.00 5.10 R
1807 2109 1.402787 AAATCGGGTCATGGCCATTC 58.597 50.0 17.92 12.3 0.00 2.67 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
77 78 0.173708 GCCGGTAGTGAGGAAGAGTG 59.826 60.000 1.90 0.00 0.00 3.51
86 87 0.321122 GAGGAAGAGTGGTGCACAGG 60.321 60.000 20.43 0.00 36.74 4.00
116 117 0.108424 CGCTCTGGTCTCAAGAAGGG 60.108 60.000 0.00 0.00 0.00 3.95
186 187 1.550524 TCAGCTGATTAGTCGCTTGGT 59.449 47.619 13.74 0.00 33.89 3.67
234 235 2.363018 CAGGGCTCTGGAGACGGA 60.363 66.667 5.38 0.00 45.64 4.69
240 241 4.328041 TCTGGAGACGGAGCTGAG 57.672 61.111 0.00 0.00 42.04 3.35
241 242 1.685820 TCTGGAGACGGAGCTGAGA 59.314 57.895 0.00 0.00 42.04 3.27
242 243 0.257328 TCTGGAGACGGAGCTGAGAT 59.743 55.000 0.00 0.00 42.04 2.75
243 244 0.667993 CTGGAGACGGAGCTGAGATC 59.332 60.000 0.00 0.00 39.98 2.75
244 245 1.098129 TGGAGACGGAGCTGAGATCG 61.098 60.000 0.00 0.00 0.00 3.69
245 246 1.008995 GAGACGGAGCTGAGATCGC 60.009 63.158 0.00 0.00 0.00 4.58
246 247 2.026879 GACGGAGCTGAGATCGCC 59.973 66.667 0.00 0.00 0.00 5.54
249 250 2.334653 GGAGCTGAGATCGCCGAG 59.665 66.667 0.00 0.00 0.00 4.63
265 287 1.595993 CGAGGCGGAACTGGAGAAGA 61.596 60.000 0.00 0.00 0.00 2.87
365 401 3.248266 GAACGAGCTCCGCTTTTAGTTA 58.752 45.455 8.47 0.00 39.88 2.24
375 411 7.553044 AGCTCCGCTTTTAGTTAAAATATGTCT 59.447 33.333 0.00 0.00 33.89 3.41
376 412 7.640240 GCTCCGCTTTTAGTTAAAATATGTCTG 59.360 37.037 0.00 0.00 34.95 3.51
457 517 4.799255 GCCCGGTTTGAATGAATTTTGTCT 60.799 41.667 0.00 0.00 0.00 3.41
474 534 4.804608 TGTCTGGTTTGTTCGTATTGTG 57.195 40.909 0.00 0.00 0.00 3.33
484 544 4.728534 TGTTCGTATTGTGGCTAAAATGC 58.271 39.130 0.00 0.00 0.00 3.56
486 546 4.349663 TCGTATTGTGGCTAAAATGCAC 57.650 40.909 2.18 0.00 34.04 4.57
512 573 0.397535 AATGATTGGATGGCGGCCTT 60.398 50.000 21.46 14.55 0.00 4.35
547 608 1.846124 GGACTGGTCCCCCTTGTCA 60.846 63.158 8.48 0.00 43.94 3.58
550 612 2.449518 TGGTCCCCCTTGTCAGCA 60.450 61.111 0.00 0.00 0.00 4.41
562 624 1.293498 GTCAGCAGACGGATGTGGT 59.707 57.895 0.00 0.00 34.60 4.16
635 700 7.320499 GCAATAATGCGTATATTGTGGTTTC 57.680 36.000 15.82 2.94 43.83 2.78
636 701 7.138736 GCAATAATGCGTATATTGTGGTTTCT 58.861 34.615 15.82 0.00 43.83 2.52
642 707 8.677148 ATGCGTATATTGTGGTTTCTAATCTT 57.323 30.769 0.00 0.00 0.00 2.40
693 758 2.096248 TGTTGTTGTTGAGGGAACACC 58.904 47.619 0.00 0.00 44.53 4.16
723 788 9.569167 GCGTATACTATGATTACTAATCTTGCA 57.431 33.333 9.69 0.00 38.72 4.08
771 836 1.610363 CCTCGCAGATCCTAGCACTA 58.390 55.000 3.72 0.00 33.89 2.74
800 865 6.106673 GCATATTATGGCTACTAATCACCGT 58.893 40.000 5.84 0.00 0.00 4.83
801 866 6.594159 GCATATTATGGCTACTAATCACCGTT 59.406 38.462 5.84 0.00 0.00 4.44
803 868 8.999431 CATATTATGGCTACTAATCACCGTTTT 58.001 33.333 0.00 0.00 0.00 2.43
804 869 7.875327 ATTATGGCTACTAATCACCGTTTTT 57.125 32.000 0.00 0.00 0.00 1.94
805 870 8.967664 ATTATGGCTACTAATCACCGTTTTTA 57.032 30.769 0.00 0.00 0.00 1.52
807 872 6.671614 TGGCTACTAATCACCGTTTTTATG 57.328 37.500 0.00 0.00 0.00 1.90
810 875 5.963586 GCTACTAATCACCGTTTTTATGTGC 59.036 40.000 0.00 0.00 0.00 4.57
811 876 5.305139 ACTAATCACCGTTTTTATGTGCC 57.695 39.130 0.00 0.00 0.00 5.01
812 877 3.586100 AATCACCGTTTTTATGTGCCC 57.414 42.857 0.00 0.00 0.00 5.36
860 955 6.433522 GTGCCATGCTTCTGTATATGGAACA 61.434 44.000 8.07 0.00 44.99 3.18
889 984 5.940192 TCGACAATTAATCCATATGCCAC 57.060 39.130 0.00 0.00 0.00 5.01
895 990 9.630098 GACAATTAATCCATATGCCACAATTAG 57.370 33.333 0.00 0.28 0.00 1.73
1016 1111 0.839946 AATATGAAGGGGAGCGCTGT 59.160 50.000 18.48 0.00 0.00 4.40
1086 1181 7.979537 GGACAATGTAAGTACACATCACTATCA 59.020 37.037 0.00 0.00 38.19 2.15
1153 1251 8.653036 ACTGTATAATGTTATCTACTCCCTCC 57.347 38.462 0.00 0.00 0.00 4.30
1154 1252 7.393796 ACTGTATAATGTTATCTACTCCCTCCG 59.606 40.741 0.00 0.00 0.00 4.63
1155 1253 7.236529 TGTATAATGTTATCTACTCCCTCCGT 58.763 38.462 0.00 0.00 0.00 4.69
1156 1254 7.727186 TGTATAATGTTATCTACTCCCTCCGTT 59.273 37.037 0.00 0.00 0.00 4.44
1157 1255 5.532664 AATGTTATCTACTCCCTCCGTTC 57.467 43.478 0.00 0.00 0.00 3.95
1158 1256 3.294214 TGTTATCTACTCCCTCCGTTCC 58.706 50.000 0.00 0.00 0.00 3.62
1159 1257 3.053095 TGTTATCTACTCCCTCCGTTCCT 60.053 47.826 0.00 0.00 0.00 3.36
1160 1258 4.166725 TGTTATCTACTCCCTCCGTTCCTA 59.833 45.833 0.00 0.00 0.00 2.94
1161 1259 3.967467 ATCTACTCCCTCCGTTCCTAA 57.033 47.619 0.00 0.00 0.00 2.69
1162 1260 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
1163 1261 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
1164 1262 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
1165 1263 5.961897 TCTACTCCCTCCGTTCCTAAATAT 58.038 41.667 0.00 0.00 0.00 1.28
1166 1264 7.095183 TCTACTCCCTCCGTTCCTAAATATA 57.905 40.000 0.00 0.00 0.00 0.86
1167 1265 7.706674 TCTACTCCCTCCGTTCCTAAATATAT 58.293 38.462 0.00 0.00 0.00 0.86
1168 1266 6.607004 ACTCCCTCCGTTCCTAAATATATG 57.393 41.667 0.00 0.00 0.00 1.78
1169 1267 6.082707 ACTCCCTCCGTTCCTAAATATATGT 58.917 40.000 0.00 0.00 0.00 2.29
1170 1268 6.210984 ACTCCCTCCGTTCCTAAATATATGTC 59.789 42.308 0.00 0.00 0.00 3.06
1171 1269 6.320518 TCCCTCCGTTCCTAAATATATGTCT 58.679 40.000 0.00 0.00 0.00 3.41
1172 1270 6.785963 TCCCTCCGTTCCTAAATATATGTCTT 59.214 38.462 0.00 0.00 0.00 3.01
1173 1271 7.291651 TCCCTCCGTTCCTAAATATATGTCTTT 59.708 37.037 0.00 0.00 0.00 2.52
1174 1272 7.387948 CCCTCCGTTCCTAAATATATGTCTTTG 59.612 40.741 0.00 0.00 0.00 2.77
1175 1273 7.931948 CCTCCGTTCCTAAATATATGTCTTTGT 59.068 37.037 0.00 0.00 0.00 2.83
1176 1274 9.976511 CTCCGTTCCTAAATATATGTCTTTGTA 57.023 33.333 0.00 0.00 0.00 2.41
1177 1275 9.976511 TCCGTTCCTAAATATATGTCTTTGTAG 57.023 33.333 0.00 0.00 0.00 2.74
1178 1276 9.976511 CCGTTCCTAAATATATGTCTTTGTAGA 57.023 33.333 0.00 0.00 0.00 2.59
1192 1290 9.823647 ATGTCTTTGTAGATATTTCACTAGGTG 57.176 33.333 0.00 0.00 28.84 4.00
1193 1291 8.258007 TGTCTTTGTAGATATTTCACTAGGTGG 58.742 37.037 0.00 0.00 31.47 4.61
1194 1292 8.475639 GTCTTTGTAGATATTTCACTAGGTGGA 58.524 37.037 0.00 0.00 31.47 4.02
1195 1293 8.475639 TCTTTGTAGATATTTCACTAGGTGGAC 58.524 37.037 0.00 0.00 33.87 4.02
1196 1294 7.973048 TTGTAGATATTTCACTAGGTGGACT 57.027 36.000 0.00 0.00 33.87 3.85
1197 1295 9.483489 TTTGTAGATATTTCACTAGGTGGACTA 57.517 33.333 0.00 0.00 33.87 2.59
1198 1296 8.461249 TGTAGATATTTCACTAGGTGGACTAC 57.539 38.462 0.00 0.00 33.87 2.73
1199 1297 8.057011 TGTAGATATTTCACTAGGTGGACTACA 58.943 37.037 0.00 0.00 34.91 2.74
1200 1298 9.080097 GTAGATATTTCACTAGGTGGACTACAT 57.920 37.037 0.00 0.00 33.87 2.29
1202 1300 9.080097 AGATATTTCACTAGGTGGACTACATAC 57.920 37.037 0.00 0.00 33.87 2.39
1203 1301 8.777578 ATATTTCACTAGGTGGACTACATACA 57.222 34.615 0.00 0.00 33.87 2.29
1204 1302 6.921486 TTTCACTAGGTGGACTACATACAA 57.079 37.500 0.00 0.00 33.87 2.41
1205 1303 6.921486 TTCACTAGGTGGACTACATACAAA 57.079 37.500 0.00 0.00 33.87 2.83
1206 1304 6.525578 TCACTAGGTGGACTACATACAAAG 57.474 41.667 0.00 0.00 33.87 2.77
1207 1305 5.105473 TCACTAGGTGGACTACATACAAAGC 60.105 44.000 0.00 0.00 33.87 3.51
1208 1306 4.775780 ACTAGGTGGACTACATACAAAGCA 59.224 41.667 0.00 0.00 0.00 3.91
1209 1307 4.634012 AGGTGGACTACATACAAAGCAA 57.366 40.909 0.00 0.00 0.00 3.91
1210 1308 4.980573 AGGTGGACTACATACAAAGCAAA 58.019 39.130 0.00 0.00 0.00 3.68
1211 1309 5.381757 AGGTGGACTACATACAAAGCAAAA 58.618 37.500 0.00 0.00 0.00 2.44
1212 1310 6.010219 AGGTGGACTACATACAAAGCAAAAT 58.990 36.000 0.00 0.00 0.00 1.82
1213 1311 7.172342 AGGTGGACTACATACAAAGCAAAATA 58.828 34.615 0.00 0.00 0.00 1.40
1214 1312 7.668052 AGGTGGACTACATACAAAGCAAAATAA 59.332 33.333 0.00 0.00 0.00 1.40
1215 1313 8.301002 GGTGGACTACATACAAAGCAAAATAAA 58.699 33.333 0.00 0.00 0.00 1.40
1216 1314 9.855021 GTGGACTACATACAAAGCAAAATAAAT 57.145 29.630 0.00 0.00 0.00 1.40
1217 1315 9.853555 TGGACTACATACAAAGCAAAATAAATG 57.146 29.630 0.00 0.00 0.00 2.32
1249 1347 9.204570 ACACTTAAAATGCATCTATATACGTCC 57.795 33.333 0.00 0.00 0.00 4.79
1250 1348 8.373256 CACTTAAAATGCATCTATATACGTCCG 58.627 37.037 0.00 0.00 0.00 4.79
1251 1349 8.086522 ACTTAAAATGCATCTATATACGTCCGT 58.913 33.333 0.00 0.00 0.00 4.69
1252 1350 9.563898 CTTAAAATGCATCTATATACGTCCGTA 57.436 33.333 0.00 1.60 34.87 4.02
1265 1363 4.913335 ACGTCCGTATATGATTCACAGT 57.087 40.909 0.00 0.00 0.00 3.55
1266 1364 4.607955 ACGTCCGTATATGATTCACAGTG 58.392 43.478 0.00 0.00 0.00 3.66
1267 1365 4.337274 ACGTCCGTATATGATTCACAGTGA 59.663 41.667 0.00 0.00 0.00 3.41
1268 1366 5.163591 ACGTCCGTATATGATTCACAGTGAA 60.164 40.000 18.42 18.42 41.09 3.18
1269 1367 5.746721 CGTCCGTATATGATTCACAGTGAAA 59.253 40.000 19.92 5.09 40.12 2.69
1270 1368 6.420903 CGTCCGTATATGATTCACAGTGAAAT 59.579 38.462 19.92 12.15 40.12 2.17
1271 1369 7.358435 CGTCCGTATATGATTCACAGTGAAATC 60.358 40.741 19.92 16.44 40.12 2.17
1272 1370 7.653713 GTCCGTATATGATTCACAGTGAAATCT 59.346 37.037 19.92 3.74 40.12 2.40
1273 1371 7.867909 TCCGTATATGATTCACAGTGAAATCTC 59.132 37.037 19.92 13.28 40.12 2.75
1274 1372 7.869937 CCGTATATGATTCACAGTGAAATCTCT 59.130 37.037 19.92 2.96 40.12 3.10
1275 1373 9.899226 CGTATATGATTCACAGTGAAATCTCTA 57.101 33.333 19.92 12.62 40.12 2.43
1279 1377 8.853077 ATGATTCACAGTGAAATCTCTACAAA 57.147 30.769 19.92 0.00 40.12 2.83
1280 1378 8.315391 TGATTCACAGTGAAATCTCTACAAAG 57.685 34.615 19.92 0.00 40.12 2.77
1281 1379 8.150296 TGATTCACAGTGAAATCTCTACAAAGA 58.850 33.333 19.92 0.00 40.12 2.52
1282 1380 7.715265 TTCACAGTGAAATCTCTACAAAGAC 57.285 36.000 13.90 0.00 32.71 3.01
1283 1381 7.055667 TCACAGTGAAATCTCTACAAAGACT 57.944 36.000 0.00 0.00 0.00 3.24
1284 1382 7.500992 TCACAGTGAAATCTCTACAAAGACTT 58.499 34.615 0.00 0.00 0.00 3.01
1285 1383 8.638873 TCACAGTGAAATCTCTACAAAGACTTA 58.361 33.333 0.00 0.00 0.00 2.24
1286 1384 8.704234 CACAGTGAAATCTCTACAAAGACTTAC 58.296 37.037 0.00 0.00 0.00 2.34
1287 1385 8.421784 ACAGTGAAATCTCTACAAAGACTTACA 58.578 33.333 0.00 0.00 0.00 2.41
1288 1386 9.429359 CAGTGAAATCTCTACAAAGACTTACAT 57.571 33.333 0.00 0.00 0.00 2.29
1296 1394 9.924650 TCTCTACAAAGACTTACATTTAGGAAC 57.075 33.333 0.00 0.00 0.00 3.62
1297 1395 8.752766 TCTACAAAGACTTACATTTAGGAACG 57.247 34.615 0.00 0.00 0.00 3.95
1298 1396 6.796705 ACAAAGACTTACATTTAGGAACGG 57.203 37.500 0.00 0.00 0.00 4.44
1299 1397 6.527423 ACAAAGACTTACATTTAGGAACGGA 58.473 36.000 0.00 0.00 0.00 4.69
1300 1398 6.649557 ACAAAGACTTACATTTAGGAACGGAG 59.350 38.462 0.00 0.00 0.00 4.63
1301 1399 5.340439 AGACTTACATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
1302 1400 4.161754 AGACTTACATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
1303 1401 4.098894 ACTTACATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
1304 1402 4.161754 ACTTACATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
1341 1439 1.755008 GAGCCCGAGAGCACCTACT 60.755 63.158 0.00 0.00 34.23 2.57
1342 1440 0.465824 GAGCCCGAGAGCACCTACTA 60.466 60.000 0.00 0.00 34.23 1.82
1343 1441 0.752376 AGCCCGAGAGCACCTACTAC 60.752 60.000 0.00 0.00 34.23 2.73
1351 1449 4.688021 GAGAGCACCTACTACAAAGATGG 58.312 47.826 0.00 0.00 0.00 3.51
1369 1467 2.342650 GCCATGCCAACACGACCAT 61.343 57.895 0.00 0.00 0.00 3.55
1384 1482 1.593787 CCATGCTGGTCTCGTCACT 59.406 57.895 0.00 0.00 31.35 3.41
1418 1516 8.040727 AGCAAACTTACCTTGAAATTTTGTCTT 58.959 29.630 0.00 0.00 32.27 3.01
1497 1595 2.340078 GCGTCACTCTGCCAGACA 59.660 61.111 0.00 0.00 32.68 3.41
1548 1646 7.834181 AGTGTCAAAATAAGTGCCCAAGTATAT 59.166 33.333 0.00 0.00 0.00 0.86
1619 1720 9.197694 CTACTATAAGATAGTGTGTTGATTGGC 57.802 37.037 9.00 0.00 0.00 4.52
1621 1722 8.046708 ACTATAAGATAGTGTGTTGATTGGCAA 58.953 33.333 0.68 0.68 0.00 4.52
1627 1728 3.758554 AGTGTGTTGATTGGCAATACCTC 59.241 43.478 13.65 1.82 44.98 3.85
1640 1748 6.721318 TGGCAATACCTCTTTCTGAGTTTAT 58.279 36.000 0.00 0.00 41.11 1.40
1641 1749 7.857456 TGGCAATACCTCTTTCTGAGTTTATA 58.143 34.615 0.00 0.00 41.11 0.98
1642 1750 8.494433 TGGCAATACCTCTTTCTGAGTTTATAT 58.506 33.333 0.00 0.00 41.11 0.86
1643 1751 8.778358 GGCAATACCTCTTTCTGAGTTTATATG 58.222 37.037 0.00 0.00 41.11 1.78
1690 1798 3.513225 CCGATGCGGCCAATCTTT 58.487 55.556 2.24 0.00 41.17 2.52
1703 1811 6.858478 GCGGCCAATCTTTTCTTATTCTTATC 59.142 38.462 2.24 0.00 0.00 1.75
1821 2123 1.526917 CCTCGAATGGCCATGACCC 60.527 63.158 21.63 8.25 0.00 4.46
1822 2124 1.889105 CTCGAATGGCCATGACCCG 60.889 63.158 21.63 19.48 0.00 5.28
1864 2169 7.706607 TGAGATACATTACTCTCATTTTCGTGG 59.293 37.037 0.00 0.00 42.17 4.94
1866 2171 7.923344 AGATACATTACTCTCATTTTCGTGGAG 59.077 37.037 0.00 0.00 0.00 3.86
1885 2193 6.697019 CGTGGAGTTGAGAACAATTTTTGAAT 59.303 34.615 0.00 0.00 38.32 2.57
2074 2418 9.712305 TTTGTAAAACATTTTTCTTGAACAGGA 57.288 25.926 0.00 0.00 0.00 3.86
2077 2421 9.750125 GTAAAACATTTTTCTTGAACAGGAGAT 57.250 29.630 0.00 0.00 0.00 2.75
2084 2428 6.486253 TTTCTTGAACAGGAGATCATTTCG 57.514 37.500 0.00 0.00 0.00 3.46
2138 2485 5.006649 GCAGGAACAACTTTTGAAATTCACC 59.993 40.000 0.00 0.00 0.00 4.02
2201 2548 6.255215 TGATCATTTTCTAAATTCGCGAACC 58.745 36.000 26.00 0.00 0.00 3.62
2240 2588 6.422776 AAATATTTTGTCACTCGCGAAGAT 57.577 33.333 11.33 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 3.886001 GTTATGGCGGGGGAGGGG 61.886 72.222 0.00 0.00 0.00 4.79
14 15 3.886001 GGTTATGGCGGGGGAGGG 61.886 72.222 0.00 0.00 0.00 4.30
15 16 2.460853 ATGGTTATGGCGGGGGAGG 61.461 63.158 0.00 0.00 0.00 4.30
16 17 1.228245 CATGGTTATGGCGGGGGAG 60.228 63.158 0.00 0.00 0.00 4.30
17 18 1.282653 TTCATGGTTATGGCGGGGGA 61.283 55.000 0.00 0.00 34.97 4.81
18 19 0.823356 CTTCATGGTTATGGCGGGGG 60.823 60.000 0.00 0.00 34.97 5.40
19 20 1.455383 GCTTCATGGTTATGGCGGGG 61.455 60.000 0.00 0.00 34.97 5.73
28 29 3.055719 CGTGCCGGCTTCATGGTT 61.056 61.111 29.70 0.00 0.00 3.67
116 117 3.791586 GGAGGGGAGGAGCAGTGC 61.792 72.222 7.13 7.13 0.00 4.40
230 231 3.893763 CGGCGATCTCAGCTCCGT 61.894 66.667 0.00 0.00 35.75 4.69
231 232 3.534970 CTCGGCGATCTCAGCTCCG 62.535 68.421 11.27 1.51 41.30 4.63
232 233 2.334653 CTCGGCGATCTCAGCTCC 59.665 66.667 11.27 0.00 34.52 4.70
233 234 2.334653 CCTCGGCGATCTCAGCTC 59.665 66.667 11.27 0.00 34.52 4.09
234 235 3.910490 GCCTCGGCGATCTCAGCT 61.910 66.667 11.27 0.00 34.52 4.24
246 247 1.153745 CTTCTCCAGTTCCGCCTCG 60.154 63.158 0.00 0.00 0.00 4.63
247 248 0.108567 GTCTTCTCCAGTTCCGCCTC 60.109 60.000 0.00 0.00 0.00 4.70
248 249 1.878656 CGTCTTCTCCAGTTCCGCCT 61.879 60.000 0.00 0.00 0.00 5.52
249 250 1.446272 CGTCTTCTCCAGTTCCGCC 60.446 63.158 0.00 0.00 0.00 6.13
265 287 1.270147 CCCCGAGAACTGAAACTTCGT 60.270 52.381 0.00 0.00 0.00 3.85
412 448 4.036262 GCGGATTTCATATAAACACAGCCA 59.964 41.667 0.00 0.00 0.00 4.75
416 452 3.562141 CGGGCGGATTTCATATAAACACA 59.438 43.478 0.00 0.00 0.00 3.72
457 517 2.577700 AGCCACAATACGAACAAACCA 58.422 42.857 0.00 0.00 0.00 3.67
474 534 2.102161 CCCGCGTGCATTTTAGCC 59.898 61.111 4.92 0.00 0.00 3.93
484 544 1.727511 ATCCAATCATTGCCCGCGTG 61.728 55.000 4.92 0.00 0.00 5.34
486 546 1.008194 CATCCAATCATTGCCCGCG 60.008 57.895 0.00 0.00 0.00 6.46
493 553 0.397535 AAGGCCGCCATCCAATCATT 60.398 50.000 13.15 0.00 0.00 2.57
547 608 1.557099 TTCTACCACATCCGTCTGCT 58.443 50.000 0.00 0.00 0.00 4.24
550 612 4.156008 GCAAATTTTCTACCACATCCGTCT 59.844 41.667 0.00 0.00 0.00 4.18
663 728 7.936584 TCCCTCAACAACAACAAAAAGTATAG 58.063 34.615 0.00 0.00 0.00 1.31
723 788 2.110627 GCATCAGCGCTGGGATCT 59.889 61.111 35.36 13.65 0.00 2.75
743 808 1.112113 GATCTGCGAGGGAGGTTACA 58.888 55.000 0.00 0.00 0.00 2.41
771 836 8.950210 GTGATTAGTAGCCATAATATGCACATT 58.050 33.333 0.00 0.00 0.00 2.71
777 842 8.547967 AAACGGTGATTAGTAGCCATAATATG 57.452 34.615 0.00 0.00 0.00 1.78
787 852 6.457799 GGGCACATAAAAACGGTGATTAGTAG 60.458 42.308 0.00 0.00 34.52 2.57
800 865 0.606944 ACGCTCCGGGCACATAAAAA 60.607 50.000 14.17 0.00 41.91 1.94
801 866 1.003112 ACGCTCCGGGCACATAAAA 60.003 52.632 14.17 0.00 41.91 1.52
803 868 2.185867 GACGCTCCGGGCACATAA 59.814 61.111 14.17 0.00 41.91 1.90
804 869 2.758327 AGACGCTCCGGGCACATA 60.758 61.111 14.17 0.00 41.91 2.29
805 870 4.148825 GAGACGCTCCGGGCACAT 62.149 66.667 14.17 0.40 41.91 3.21
810 875 4.778415 CGTGTGAGACGCTCCGGG 62.778 72.222 0.00 0.00 42.21 5.73
839 928 5.999600 TCATGTTCCATATACAGAAGCATGG 59.000 40.000 17.45 0.00 39.48 3.66
846 935 7.039784 TGTCGATGATCATGTTCCATATACAGA 60.040 37.037 14.30 0.00 0.00 3.41
860 955 8.618677 GCATATGGATTAATTGTCGATGATCAT 58.381 33.333 8.25 8.25 0.00 2.45
895 990 8.237949 CCTCAGTATATATATAGGCATACGCAC 58.762 40.741 2.53 0.00 41.24 5.34
899 994 8.563123 TCGCCTCAGTATATATATAGGCATAC 57.437 38.462 26.77 8.40 40.87 2.39
1051 1146 6.205853 GTGTACTTACATTGTCCAACCATCAA 59.794 38.462 0.00 0.00 38.63 2.57
1053 1148 5.703592 TGTGTACTTACATTGTCCAACCATC 59.296 40.000 0.00 0.00 38.63 3.51
1143 1241 7.396623 ACATATATTTAGGAACGGAGGGAGTAG 59.603 40.741 0.00 0.00 0.00 2.57
1145 1243 6.082707 ACATATATTTAGGAACGGAGGGAGT 58.917 40.000 0.00 0.00 0.00 3.85
1146 1244 6.437793 AGACATATATTTAGGAACGGAGGGAG 59.562 42.308 0.00 0.00 0.00 4.30
1147 1245 6.320518 AGACATATATTTAGGAACGGAGGGA 58.679 40.000 0.00 0.00 0.00 4.20
1148 1246 6.607004 AGACATATATTTAGGAACGGAGGG 57.393 41.667 0.00 0.00 0.00 4.30
1149 1247 7.931948 ACAAAGACATATATTTAGGAACGGAGG 59.068 37.037 0.00 0.00 0.00 4.30
1150 1248 8.888579 ACAAAGACATATATTTAGGAACGGAG 57.111 34.615 0.00 0.00 0.00 4.63
1151 1249 9.976511 CTACAAAGACATATATTTAGGAACGGA 57.023 33.333 0.00 0.00 0.00 4.69
1152 1250 9.976511 TCTACAAAGACATATATTTAGGAACGG 57.023 33.333 0.00 0.00 0.00 4.44
1166 1264 9.823647 CACCTAGTGAAATATCTACAAAGACAT 57.176 33.333 0.00 0.00 35.23 3.06
1167 1265 8.258007 CCACCTAGTGAAATATCTACAAAGACA 58.742 37.037 0.00 0.00 35.23 3.41
1168 1266 8.475639 TCCACCTAGTGAAATATCTACAAAGAC 58.524 37.037 0.00 0.00 35.23 3.01
1169 1267 8.475639 GTCCACCTAGTGAAATATCTACAAAGA 58.524 37.037 0.00 0.00 35.23 2.52
1170 1268 8.478877 AGTCCACCTAGTGAAATATCTACAAAG 58.521 37.037 0.00 0.00 35.23 2.77
1171 1269 8.375493 AGTCCACCTAGTGAAATATCTACAAA 57.625 34.615 0.00 0.00 35.23 2.83
1172 1270 7.973048 AGTCCACCTAGTGAAATATCTACAA 57.027 36.000 0.00 0.00 35.23 2.41
1173 1271 8.057011 TGTAGTCCACCTAGTGAAATATCTACA 58.943 37.037 0.00 0.00 35.23 2.74
1174 1272 8.461249 TGTAGTCCACCTAGTGAAATATCTAC 57.539 38.462 0.00 0.00 35.23 2.59
1176 1274 9.080097 GTATGTAGTCCACCTAGTGAAATATCT 57.920 37.037 0.00 0.00 35.23 1.98
1177 1275 8.857098 TGTATGTAGTCCACCTAGTGAAATATC 58.143 37.037 0.00 0.00 35.23 1.63
1178 1276 8.777578 TGTATGTAGTCCACCTAGTGAAATAT 57.222 34.615 0.00 0.00 35.23 1.28
1179 1277 8.598202 TTGTATGTAGTCCACCTAGTGAAATA 57.402 34.615 0.00 0.00 35.23 1.40
1180 1278 7.490657 TTGTATGTAGTCCACCTAGTGAAAT 57.509 36.000 0.00 0.00 35.23 2.17
1181 1279 6.921486 TTGTATGTAGTCCACCTAGTGAAA 57.079 37.500 0.00 0.00 35.23 2.69
1182 1280 6.573680 GCTTTGTATGTAGTCCACCTAGTGAA 60.574 42.308 0.00 0.00 35.23 3.18
1183 1281 5.105473 GCTTTGTATGTAGTCCACCTAGTGA 60.105 44.000 0.00 0.00 35.23 3.41
1184 1282 5.109903 GCTTTGTATGTAGTCCACCTAGTG 58.890 45.833 0.00 0.00 0.00 2.74
1185 1283 4.775780 TGCTTTGTATGTAGTCCACCTAGT 59.224 41.667 0.00 0.00 0.00 2.57
1186 1284 5.339008 TGCTTTGTATGTAGTCCACCTAG 57.661 43.478 0.00 0.00 0.00 3.02
1187 1285 5.748670 TTGCTTTGTATGTAGTCCACCTA 57.251 39.130 0.00 0.00 0.00 3.08
1188 1286 4.634012 TTGCTTTGTATGTAGTCCACCT 57.366 40.909 0.00 0.00 0.00 4.00
1189 1287 5.699097 TTTTGCTTTGTATGTAGTCCACC 57.301 39.130 0.00 0.00 0.00 4.61
1190 1288 9.855021 ATTTATTTTGCTTTGTATGTAGTCCAC 57.145 29.630 0.00 0.00 0.00 4.02
1191 1289 9.853555 CATTTATTTTGCTTTGTATGTAGTCCA 57.146 29.630 0.00 0.00 0.00 4.02
1223 1321 9.204570 GGACGTATATAGATGCATTTTAAGTGT 57.795 33.333 0.00 0.00 0.00 3.55
1224 1322 8.373256 CGGACGTATATAGATGCATTTTAAGTG 58.627 37.037 0.00 0.00 0.00 3.16
1225 1323 8.086522 ACGGACGTATATAGATGCATTTTAAGT 58.913 33.333 0.00 0.00 0.00 2.24
1226 1324 8.462143 ACGGACGTATATAGATGCATTTTAAG 57.538 34.615 0.00 0.00 0.00 1.85
1230 1328 9.678941 CATATACGGACGTATATAGATGCATTT 57.321 33.333 27.21 0.00 46.52 2.32
1231 1329 9.063615 TCATATACGGACGTATATAGATGCATT 57.936 33.333 27.21 9.13 46.52 3.56
1232 1330 8.617290 TCATATACGGACGTATATAGATGCAT 57.383 34.615 27.21 0.00 46.52 3.96
1233 1331 8.617290 ATCATATACGGACGTATATAGATGCA 57.383 34.615 27.21 13.90 46.52 3.96
1234 1332 9.544314 GAATCATATACGGACGTATATAGATGC 57.456 37.037 27.21 24.23 46.52 3.91
1237 1335 9.603921 TGTGAATCATATACGGACGTATATAGA 57.396 33.333 27.21 24.85 46.52 1.98
1238 1336 9.865484 CTGTGAATCATATACGGACGTATATAG 57.135 37.037 27.21 22.01 46.52 1.31
1239 1337 9.387257 ACTGTGAATCATATACGGACGTATATA 57.613 33.333 27.21 18.96 46.52 0.86
1241 1339 7.388500 TCACTGTGAATCATATACGGACGTATA 59.612 37.037 22.16 22.16 44.52 1.47
1242 1340 6.206048 TCACTGTGAATCATATACGGACGTAT 59.794 38.462 19.58 19.58 43.04 3.06
1243 1341 5.528320 TCACTGTGAATCATATACGGACGTA 59.472 40.000 8.27 7.05 34.87 3.57
1244 1342 4.337274 TCACTGTGAATCATATACGGACGT 59.663 41.667 8.27 1.98 0.00 4.34
1245 1343 4.855531 TCACTGTGAATCATATACGGACG 58.144 43.478 8.27 0.00 0.00 4.79
1246 1344 7.653713 AGATTTCACTGTGAATCATATACGGAC 59.346 37.037 22.60 3.08 36.11 4.79
1247 1345 7.726216 AGATTTCACTGTGAATCATATACGGA 58.274 34.615 22.60 5.49 36.11 4.69
1248 1346 7.869937 AGAGATTTCACTGTGAATCATATACGG 59.130 37.037 22.60 0.00 36.11 4.02
1249 1347 8.809159 AGAGATTTCACTGTGAATCATATACG 57.191 34.615 22.60 0.00 36.11 3.06
1253 1351 9.942850 TTTGTAGAGATTTCACTGTGAATCATA 57.057 29.630 22.60 9.35 36.11 2.15
1254 1352 8.853077 TTTGTAGAGATTTCACTGTGAATCAT 57.147 30.769 22.60 14.59 36.11 2.45
1255 1353 8.150296 TCTTTGTAGAGATTTCACTGTGAATCA 58.850 33.333 22.60 10.41 36.11 2.57
1256 1354 8.439286 GTCTTTGTAGAGATTTCACTGTGAATC 58.561 37.037 22.60 19.58 36.11 2.52
1257 1355 8.153550 AGTCTTTGTAGAGATTTCACTGTGAAT 58.846 33.333 22.60 13.20 36.11 2.57
1258 1356 7.500992 AGTCTTTGTAGAGATTTCACTGTGAA 58.499 34.615 18.69 18.69 34.03 3.18
1259 1357 7.055667 AGTCTTTGTAGAGATTTCACTGTGA 57.944 36.000 6.36 6.36 0.00 3.58
1260 1358 7.721286 AAGTCTTTGTAGAGATTTCACTGTG 57.279 36.000 0.17 0.17 0.00 3.66
1261 1359 8.421784 TGTAAGTCTTTGTAGAGATTTCACTGT 58.578 33.333 0.00 0.00 29.76 3.55
1262 1360 8.818141 TGTAAGTCTTTGTAGAGATTTCACTG 57.182 34.615 0.00 0.00 29.76 3.66
1270 1368 9.924650 GTTCCTAAATGTAAGTCTTTGTAGAGA 57.075 33.333 0.00 0.00 0.00 3.10
1271 1369 8.861101 CGTTCCTAAATGTAAGTCTTTGTAGAG 58.139 37.037 0.00 0.00 0.00 2.43
1272 1370 7.816031 CCGTTCCTAAATGTAAGTCTTTGTAGA 59.184 37.037 0.00 0.00 0.00 2.59
1273 1371 7.816031 TCCGTTCCTAAATGTAAGTCTTTGTAG 59.184 37.037 0.00 0.00 0.00 2.74
1274 1372 7.669427 TCCGTTCCTAAATGTAAGTCTTTGTA 58.331 34.615 0.00 0.00 0.00 2.41
1275 1373 6.527423 TCCGTTCCTAAATGTAAGTCTTTGT 58.473 36.000 0.00 0.00 0.00 2.83
1276 1374 6.092259 CCTCCGTTCCTAAATGTAAGTCTTTG 59.908 42.308 0.00 0.00 0.00 2.77
1277 1375 6.171213 CCTCCGTTCCTAAATGTAAGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
1278 1376 5.338137 CCCTCCGTTCCTAAATGTAAGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
1279 1377 4.161754 CCCTCCGTTCCTAAATGTAAGTCT 59.838 45.833 0.00 0.00 0.00 3.24
1280 1378 4.161001 TCCCTCCGTTCCTAAATGTAAGTC 59.839 45.833 0.00 0.00 0.00 3.01
1281 1379 4.098894 TCCCTCCGTTCCTAAATGTAAGT 58.901 43.478 0.00 0.00 0.00 2.24
1282 1380 4.161754 ACTCCCTCCGTTCCTAAATGTAAG 59.838 45.833 0.00 0.00 0.00 2.34
1283 1381 4.098894 ACTCCCTCCGTTCCTAAATGTAA 58.901 43.478 0.00 0.00 0.00 2.41
1284 1382 3.716431 ACTCCCTCCGTTCCTAAATGTA 58.284 45.455 0.00 0.00 0.00 2.29
1285 1383 2.547990 ACTCCCTCCGTTCCTAAATGT 58.452 47.619 0.00 0.00 0.00 2.71
1286 1384 4.101119 ACATACTCCCTCCGTTCCTAAATG 59.899 45.833 0.00 0.00 0.00 2.32
1287 1385 4.296056 ACATACTCCCTCCGTTCCTAAAT 58.704 43.478 0.00 0.00 0.00 1.40
1288 1386 3.716431 ACATACTCCCTCCGTTCCTAAA 58.284 45.455 0.00 0.00 0.00 1.85
1289 1387 3.393426 ACATACTCCCTCCGTTCCTAA 57.607 47.619 0.00 0.00 0.00 2.69
1290 1388 4.524802 TTACATACTCCCTCCGTTCCTA 57.475 45.455 0.00 0.00 0.00 2.94
1291 1389 3.393426 TTACATACTCCCTCCGTTCCT 57.607 47.619 0.00 0.00 0.00 3.36
1292 1390 4.220163 CCTATTACATACTCCCTCCGTTCC 59.780 50.000 0.00 0.00 0.00 3.62
1293 1391 4.831710 ACCTATTACATACTCCCTCCGTTC 59.168 45.833 0.00 0.00 0.00 3.95
1294 1392 4.812653 ACCTATTACATACTCCCTCCGTT 58.187 43.478 0.00 0.00 0.00 4.44
1295 1393 4.405548 GACCTATTACATACTCCCTCCGT 58.594 47.826 0.00 0.00 0.00 4.69
1296 1394 3.439476 CGACCTATTACATACTCCCTCCG 59.561 52.174 0.00 0.00 0.00 4.63
1297 1395 4.405548 ACGACCTATTACATACTCCCTCC 58.594 47.826 0.00 0.00 0.00 4.30
1298 1396 4.153835 CGACGACCTATTACATACTCCCTC 59.846 50.000 0.00 0.00 0.00 4.30
1299 1397 4.070716 CGACGACCTATTACATACTCCCT 58.929 47.826 0.00 0.00 0.00 4.20
1300 1398 3.817647 ACGACGACCTATTACATACTCCC 59.182 47.826 0.00 0.00 0.00 4.30
1301 1399 4.512944 TCACGACGACCTATTACATACTCC 59.487 45.833 0.00 0.00 0.00 3.85
1302 1400 5.663795 TCACGACGACCTATTACATACTC 57.336 43.478 0.00 0.00 0.00 2.59
1303 1401 4.024218 GCTCACGACGACCTATTACATACT 60.024 45.833 0.00 0.00 0.00 2.12
1304 1402 4.217497 GCTCACGACGACCTATTACATAC 58.783 47.826 0.00 0.00 0.00 2.39
1351 1449 2.342650 ATGGTCGTGTTGGCATGGC 61.343 57.895 13.29 13.29 35.60 4.40
1369 1467 0.032130 GTCAAGTGACGAGACCAGCA 59.968 55.000 0.00 0.00 35.12 4.41
1384 1482 3.746045 AGGTAAGTTTGCTCTCGTCAA 57.254 42.857 0.00 0.00 0.00 3.18
1418 1516 7.180229 TCACCTTTGGTCTTACAATCTCTATCA 59.820 37.037 0.00 0.00 31.02 2.15
1497 1595 6.263842 TCTTCGTAGGAATCATAACACGGTAT 59.736 38.462 0.00 0.00 0.00 2.73
1548 1646 0.607762 TTTGCAAGTATGGGCTGCGA 60.608 50.000 0.00 0.00 0.00 5.10
1703 1811 4.634004 TGGTGGCACGAATTATTTCAGTAG 59.366 41.667 12.17 0.00 0.00 2.57
1706 1814 3.440173 ACTGGTGGCACGAATTATTTCAG 59.560 43.478 12.17 11.76 0.00 3.02
1756 1864 7.060633 CGTTGTAATGGTTGAGTTTGATTTAGC 59.939 37.037 0.00 0.00 0.00 3.09
1803 2105 1.526917 GGGTCATGGCCATTCGAGG 60.527 63.158 17.92 4.30 0.00 4.63
1807 2109 1.402787 AAATCGGGTCATGGCCATTC 58.597 50.000 17.92 12.30 0.00 2.67
1821 2123 2.417586 TCTCAGTGATGCAGCAAAATCG 59.582 45.455 6.05 0.00 0.00 3.34
1822 2124 4.634184 ATCTCAGTGATGCAGCAAAATC 57.366 40.909 6.05 0.00 33.43 2.17
2051 2395 9.750125 ATCTCCTGTTCAAGAAAAATGTTTTAC 57.250 29.630 0.00 0.00 0.00 2.01
2115 2461 6.105333 TGGTGAATTTCAAAAGTTGTTCCTG 58.895 36.000 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.