Multiple sequence alignment - TraesCS2D01G418900

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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 TraesCS2D01G418900 chr2D 100.000 4072 0 0 1 4072 533069433 533065362 0.000000e+00 7520
1 TraesCS2D01G418900 chr2A 89.917 3243 201 64 715 3915 677488166 677485008 0.000000e+00 4061
2 TraesCS2D01G418900 chr2A 89.648 454 42 5 1 451 677489467 677489016 1.270000e-159 573
3 TraesCS2D01G418900 chr2A 77.928 222 28 8 1 222 677490143 677489943 7.150000e-23 119
4 TraesCS2D01G418900 chr2B 91.576 2849 164 31 600 3430 632630165 632627375 0.000000e+00 3862
5 TraesCS2D01G418900 chr2B 92.874 435 19 5 3488 3920 632627374 632626950 4.470000e-174 621
6 TraesCS2D01G418900 chr2B 89.579 451 32 6 3 451 632630602 632630165 3.550000e-155 558
7 TraesCS2D01G418900 chr2B 92.810 153 7 4 447 597 49321581 49321431 6.850000e-53 219
8 TraesCS2D01G418900 chr2B 86.275 153 16 4 70 222 632631210 632631063 1.170000e-35 161
9 TraesCS2D01G418900 chr2B 81.818 209 7 9 3893 4072 632626905 632626699 3.280000e-31 147
10 TraesCS2D01G418900 chr4A 83.444 302 31 10 3493 3790 46419480 46419194 3.120000e-66 263
11 TraesCS2D01G418900 chr7A 96.689 151 5 0 447 597 120876928 120876778 6.760000e-63 252
12 TraesCS2D01G418900 chr7A 95.364 151 7 0 447 597 1838921 1838771 1.460000e-59 241
13 TraesCS2D01G418900 chr6D 96.689 151 5 0 447 597 458961420 458961270 6.760000e-63 252
14 TraesCS2D01G418900 chr7B 93.377 151 10 0 447 597 247417253 247417103 1.470000e-54 224
15 TraesCS2D01G418900 chr4D 92.053 151 12 0 447 597 285091791 285091641 3.190000e-51 213
16 TraesCS2D01G418900 chr3D 91.391 151 12 1 447 597 308581686 308581835 5.340000e-49 206
17 TraesCS2D01G418900 chr6B 97.196 107 3 0 447 553 526411944 526412050 8.990000e-42 182
18 TraesCS2D01G418900 chr3B 87.417 151 12 6 447 597 550329065 550328922 2.520000e-37 167


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 TraesCS2D01G418900 chr2D 533065362 533069433 4071 True 7520.000000 7520 100.0000 1 4072 1 chr2D.!!$R1 4071
1 TraesCS2D01G418900 chr2A 677485008 677490143 5135 True 1584.333333 4061 85.8310 1 3915 3 chr2A.!!$R1 3914
2 TraesCS2D01G418900 chr2B 632626699 632631210 4511 True 1069.800000 3862 88.4244 3 4072 5 chr2B.!!$R2 4069

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
551 1232 0.031616 ATCTCCTTCGGCCTCTTCCT 60.032 55.0 0.00 0.0 0.00 3.36 F
939 2364 0.108615 ATCTTGTGCTTCTCCGTCCG 60.109 55.0 0.00 0.0 0.00 4.79 F
1993 3433 0.541863 AGTAATGCGCCCTTGCTAGT 59.458 50.0 4.18 0.0 35.36 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2483 3928 0.035881 CAGGTGCAAGCTTCCTCAGA 59.964 55.0 0.0 0.0 46.63 3.27 R
2798 4243 0.038166 TGTCAGTTCCTGGGAATGGC 59.962 55.0 0.0 0.0 36.45 4.40 R
3348 4799 0.532862 AATATGGAGGGCGTCGCAAG 60.533 55.0 20.5 0.0 0.00 4.01 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
107 784 1.064824 GCCCTCCAGATCTCCCCATT 61.065 60.000 0.00 0.00 0.00 3.16
117 794 1.000359 CTCCCCATTGTGTTCCCCC 60.000 63.158 0.00 0.00 0.00 5.40
118 795 1.780488 TCCCCATTGTGTTCCCCCA 60.780 57.895 0.00 0.00 0.00 4.96
236 914 0.378257 CAACATGATAGCCGCACCAC 59.622 55.000 0.00 0.00 0.00 4.16
256 934 0.889186 CCCTTCCTCCAACAACACCG 60.889 60.000 0.00 0.00 0.00 4.94
362 1042 2.699846 TGATTTGCAAAAAGTCTGGCCT 59.300 40.909 17.19 0.00 0.00 5.19
372 1052 7.396055 TGCAAAAAGTCTGGCCTATTAATAGTT 59.604 33.333 18.91 4.53 0.00 2.24
415 1095 7.182761 AGTCGAGCAATTTTTGATTAATCTCG 58.817 34.615 16.24 12.78 41.28 4.04
416 1096 6.412072 GTCGAGCAATTTTTGATTAATCTCGG 59.588 38.462 16.24 1.37 40.60 4.63
444 1125 3.850122 GGAAAGTGTCCTATGGTTTGC 57.150 47.619 0.00 0.00 43.98 3.68
456 1137 2.629336 TGGTTTGCAAAACCAATCCC 57.371 45.000 23.95 14.29 46.44 3.85
457 1138 1.839994 TGGTTTGCAAAACCAATCCCA 59.160 42.857 23.95 16.65 46.44 4.37
458 1139 2.239654 TGGTTTGCAAAACCAATCCCAA 59.760 40.909 23.95 0.00 46.44 4.12
459 1140 2.877786 GGTTTGCAAAACCAATCCCAAG 59.122 45.455 16.66 0.00 40.03 3.61
460 1141 3.540617 GTTTGCAAAACCAATCCCAAGT 58.459 40.909 14.67 0.00 0.00 3.16
461 1142 3.467374 TTGCAAAACCAATCCCAAGTC 57.533 42.857 0.00 0.00 0.00 3.01
462 1143 1.691434 TGCAAAACCAATCCCAAGTCC 59.309 47.619 0.00 0.00 0.00 3.85
463 1144 1.001974 GCAAAACCAATCCCAAGTCCC 59.998 52.381 0.00 0.00 0.00 4.46
464 1145 1.623311 CAAAACCAATCCCAAGTCCCC 59.377 52.381 0.00 0.00 0.00 4.81
465 1146 0.863956 AAACCAATCCCAAGTCCCCA 59.136 50.000 0.00 0.00 0.00 4.96
466 1147 0.114364 AACCAATCCCAAGTCCCCAC 59.886 55.000 0.00 0.00 0.00 4.61
467 1148 1.000359 CCAATCCCAAGTCCCCACC 60.000 63.158 0.00 0.00 0.00 4.61
468 1149 1.000359 CAATCCCAAGTCCCCACCC 60.000 63.158 0.00 0.00 0.00 4.61
469 1150 2.612493 AATCCCAAGTCCCCACCCG 61.612 63.158 0.00 0.00 0.00 5.28
472 1153 4.410400 CCAAGTCCCCACCCGCTC 62.410 72.222 0.00 0.00 0.00 5.03
473 1154 4.760047 CAAGTCCCCACCCGCTCG 62.760 72.222 0.00 0.00 0.00 5.03
487 1168 3.417224 CTCGCAGCGAGCAAAGCA 61.417 61.111 30.85 0.00 46.75 3.91
488 1169 2.958204 CTCGCAGCGAGCAAAGCAA 61.958 57.895 30.85 0.00 46.75 3.91
489 1170 2.501222 CGCAGCGAGCAAAGCAAG 60.501 61.111 9.98 0.00 46.13 4.01
490 1171 2.949106 GCAGCGAGCAAAGCAAGA 59.051 55.556 0.00 0.00 44.79 3.02
491 1172 1.505353 GCAGCGAGCAAAGCAAGAT 59.495 52.632 0.00 0.00 44.79 2.40
492 1173 0.797249 GCAGCGAGCAAAGCAAGATG 60.797 55.000 0.00 0.00 44.79 2.90
493 1174 0.800631 CAGCGAGCAAAGCAAGATGA 59.199 50.000 0.00 0.00 37.01 2.92
494 1175 1.400846 CAGCGAGCAAAGCAAGATGAT 59.599 47.619 0.00 0.00 37.01 2.45
495 1176 2.089980 AGCGAGCAAAGCAAGATGATT 58.910 42.857 0.00 0.00 37.01 2.57
496 1177 2.490903 AGCGAGCAAAGCAAGATGATTT 59.509 40.909 0.00 0.00 36.27 2.17
497 1178 2.850647 GCGAGCAAAGCAAGATGATTTC 59.149 45.455 0.00 0.00 33.20 2.17
498 1179 3.432782 CGAGCAAAGCAAGATGATTTCC 58.567 45.455 0.00 0.00 33.20 3.13
499 1180 3.733077 CGAGCAAAGCAAGATGATTTCCC 60.733 47.826 0.00 0.00 33.20 3.97
500 1181 2.498885 AGCAAAGCAAGATGATTTCCCC 59.501 45.455 0.00 0.00 33.20 4.81
501 1182 2.736400 GCAAAGCAAGATGATTTCCCCG 60.736 50.000 0.00 0.00 33.20 5.73
502 1183 1.767759 AAGCAAGATGATTTCCCCGG 58.232 50.000 0.00 0.00 0.00 5.73
503 1184 0.918983 AGCAAGATGATTTCCCCGGA 59.081 50.000 0.73 0.00 0.00 5.14
504 1185 1.025041 GCAAGATGATTTCCCCGGAC 58.975 55.000 0.73 0.00 0.00 4.79
505 1186 1.299541 CAAGATGATTTCCCCGGACG 58.700 55.000 0.73 0.00 0.00 4.79
506 1187 0.463833 AAGATGATTTCCCCGGACGC 60.464 55.000 0.73 0.00 0.00 5.19
507 1188 2.203015 ATGATTTCCCCGGACGCG 60.203 61.111 0.73 3.53 0.00 6.01
508 1189 3.750373 ATGATTTCCCCGGACGCGG 62.750 63.158 12.47 0.00 0.00 6.46
523 1204 4.459331 CGGCCCGCAACGTCATTG 62.459 66.667 0.00 0.00 41.69 2.82
524 1205 4.114997 GGCCCGCAACGTCATTGG 62.115 66.667 0.00 0.00 38.88 3.16
525 1206 4.776647 GCCCGCAACGTCATTGGC 62.777 66.667 3.77 3.77 38.88 4.52
526 1207 3.361158 CCCGCAACGTCATTGGCA 61.361 61.111 0.00 0.00 38.88 4.92
527 1208 2.642129 CCGCAACGTCATTGGCAA 59.358 55.556 0.68 0.68 38.88 4.52
528 1209 1.212490 CCGCAACGTCATTGGCAAT 59.788 52.632 6.96 6.96 38.88 3.56
529 1210 1.072116 CCGCAACGTCATTGGCAATG 61.072 55.000 29.82 29.82 38.88 2.82
530 1211 0.387112 CGCAACGTCATTGGCAATGT 60.387 50.000 32.66 16.38 39.87 2.71
531 1212 1.339711 GCAACGTCATTGGCAATGTC 58.660 50.000 32.66 27.35 39.87 3.06
532 1213 1.335780 GCAACGTCATTGGCAATGTCA 60.336 47.619 32.66 17.05 39.87 3.58
533 1214 2.671914 GCAACGTCATTGGCAATGTCAT 60.672 45.455 32.66 18.35 39.87 3.06
534 1215 3.173599 CAACGTCATTGGCAATGTCATC 58.826 45.455 32.66 21.53 39.87 2.92
535 1216 2.715046 ACGTCATTGGCAATGTCATCT 58.285 42.857 32.66 14.34 39.87 2.90
536 1217 2.679837 ACGTCATTGGCAATGTCATCTC 59.320 45.455 32.66 18.31 39.87 2.75
537 1218 2.032550 CGTCATTGGCAATGTCATCTCC 59.967 50.000 32.66 15.49 39.87 3.71
538 1219 3.285484 GTCATTGGCAATGTCATCTCCT 58.715 45.455 32.66 0.00 39.87 3.69
539 1220 3.698040 GTCATTGGCAATGTCATCTCCTT 59.302 43.478 32.66 0.00 39.87 3.36
540 1221 3.949754 TCATTGGCAATGTCATCTCCTTC 59.050 43.478 32.66 0.00 39.87 3.46
541 1222 2.028420 TGGCAATGTCATCTCCTTCG 57.972 50.000 0.00 0.00 0.00 3.79
542 1223 1.303309 GGCAATGTCATCTCCTTCGG 58.697 55.000 0.00 0.00 0.00 4.30
543 1224 0.659957 GCAATGTCATCTCCTTCGGC 59.340 55.000 0.00 0.00 0.00 5.54
544 1225 1.303309 CAATGTCATCTCCTTCGGCC 58.697 55.000 0.00 0.00 0.00 6.13
545 1226 1.134280 CAATGTCATCTCCTTCGGCCT 60.134 52.381 0.00 0.00 0.00 5.19
546 1227 0.755686 ATGTCATCTCCTTCGGCCTC 59.244 55.000 0.00 0.00 0.00 4.70
547 1228 0.324738 TGTCATCTCCTTCGGCCTCT 60.325 55.000 0.00 0.00 0.00 3.69
548 1229 0.827368 GTCATCTCCTTCGGCCTCTT 59.173 55.000 0.00 0.00 0.00 2.85
549 1230 1.115467 TCATCTCCTTCGGCCTCTTC 58.885 55.000 0.00 0.00 0.00 2.87
550 1231 0.105778 CATCTCCTTCGGCCTCTTCC 59.894 60.000 0.00 0.00 0.00 3.46
551 1232 0.031616 ATCTCCTTCGGCCTCTTCCT 60.032 55.000 0.00 0.00 0.00 3.36
552 1233 0.684805 TCTCCTTCGGCCTCTTCCTC 60.685 60.000 0.00 0.00 0.00 3.71
553 1234 0.686112 CTCCTTCGGCCTCTTCCTCT 60.686 60.000 0.00 0.00 0.00 3.69
554 1235 0.684805 TCCTTCGGCCTCTTCCTCTC 60.685 60.000 0.00 0.00 0.00 3.20
555 1236 1.681486 CCTTCGGCCTCTTCCTCTCC 61.681 65.000 0.00 0.00 0.00 3.71
556 1237 1.681486 CTTCGGCCTCTTCCTCTCCC 61.681 65.000 0.00 0.00 0.00 4.30
557 1238 3.157949 CGGCCTCTTCCTCTCCCC 61.158 72.222 0.00 0.00 0.00 4.81
558 1239 2.370633 GGCCTCTTCCTCTCCCCT 59.629 66.667 0.00 0.00 0.00 4.79
559 1240 2.069430 GGCCTCTTCCTCTCCCCTG 61.069 68.421 0.00 0.00 0.00 4.45
560 1241 1.306568 GCCTCTTCCTCTCCCCTGT 60.307 63.158 0.00 0.00 0.00 4.00
561 1242 1.621672 GCCTCTTCCTCTCCCCTGTG 61.622 65.000 0.00 0.00 0.00 3.66
562 1243 0.252467 CCTCTTCCTCTCCCCTGTGT 60.252 60.000 0.00 0.00 0.00 3.72
563 1244 1.007238 CCTCTTCCTCTCCCCTGTGTA 59.993 57.143 0.00 0.00 0.00 2.90
564 1245 2.559931 CCTCTTCCTCTCCCCTGTGTAA 60.560 54.545 0.00 0.00 0.00 2.41
565 1246 2.763448 CTCTTCCTCTCCCCTGTGTAAG 59.237 54.545 0.00 0.00 0.00 2.34
566 1247 1.208293 CTTCCTCTCCCCTGTGTAAGC 59.792 57.143 0.00 0.00 0.00 3.09
567 1248 0.617820 TCCTCTCCCCTGTGTAAGCC 60.618 60.000 0.00 0.00 0.00 4.35
568 1249 1.517832 CTCTCCCCTGTGTAAGCCG 59.482 63.158 0.00 0.00 0.00 5.52
569 1250 2.125106 CTCCCCTGTGTAAGCCGC 60.125 66.667 0.00 0.00 0.00 6.53
570 1251 4.077184 TCCCCTGTGTAAGCCGCG 62.077 66.667 0.00 0.00 0.00 6.46
593 1274 3.470888 CATCCCCCTCGTCCGCTT 61.471 66.667 0.00 0.00 0.00 4.68
594 1275 3.470888 ATCCCCCTCGTCCGCTTG 61.471 66.667 0.00 0.00 0.00 4.01
596 1277 4.452733 CCCCCTCGTCCGCTTGTC 62.453 72.222 0.00 0.00 0.00 3.18
597 1278 4.452733 CCCCTCGTCCGCTTGTCC 62.453 72.222 0.00 0.00 0.00 4.02
598 1279 3.691342 CCCTCGTCCGCTTGTCCA 61.691 66.667 0.00 0.00 0.00 4.02
623 1304 8.765219 CACTGGAGTACGAATGAATTATAAAGG 58.235 37.037 0.00 0.00 0.00 3.11
649 1330 9.841880 GAAAGTCTTCTATGGTTTAAATGTTCC 57.158 33.333 0.00 0.00 0.00 3.62
744 2159 3.507233 GTGAGCAGAAAATCCATGTCCAA 59.493 43.478 0.00 0.00 0.00 3.53
759 2174 3.395639 TGTCCAATGTGGTCGTAGTTTC 58.604 45.455 0.00 0.00 39.03 2.78
939 2364 0.108615 ATCTTGTGCTTCTCCGTCCG 60.109 55.000 0.00 0.00 0.00 4.79
989 2414 1.539124 AGGGGGAAGAAGAAGGCGT 60.539 57.895 0.00 0.00 0.00 5.68
1326 2754 4.022068 TGTCAGGTGGAAATGCTTTTGATC 60.022 41.667 1.76 0.00 0.00 2.92
1347 2775 7.792032 TGATCTTTCATCCGTTCCTTATTAGT 58.208 34.615 0.00 0.00 0.00 2.24
1386 2814 0.804989 AAGAAAGGAAATCGCTGCGG 59.195 50.000 23.03 3.55 0.00 5.69
1435 2864 9.830975 TTCTTATCTTGTTCATCGAATCCAATA 57.169 29.630 0.00 0.00 0.00 1.90
1495 2924 9.883142 AATTGTTGTTTAGGAAATGAAGTCAAA 57.117 25.926 0.00 0.00 0.00 2.69
1496 2925 8.696410 TTGTTGTTTAGGAAATGAAGTCAAAC 57.304 30.769 0.00 0.00 0.00 2.93
1499 2928 7.873719 TGTTTAGGAAATGAAGTCAAACTGA 57.126 32.000 0.00 0.00 0.00 3.41
1514 2943 7.441878 GTCAAACTGACTGTTTTCTCAAATG 57.558 36.000 7.65 0.00 45.69 2.32
1515 2944 7.250569 GTCAAACTGACTGTTTTCTCAAATGA 58.749 34.615 7.65 0.00 45.69 2.57
1516 2945 7.754924 GTCAAACTGACTGTTTTCTCAAATGAA 59.245 33.333 7.65 0.00 45.69 2.57
1517 2946 8.303156 TCAAACTGACTGTTTTCTCAAATGAAA 58.697 29.630 7.65 0.00 45.69 2.69
1518 2947 8.589629 CAAACTGACTGTTTTCTCAAATGAAAG 58.410 33.333 7.65 0.00 45.69 2.62
1519 2948 7.630242 ACTGACTGTTTTCTCAAATGAAAGA 57.370 32.000 0.00 0.00 37.27 2.52
1528 2957 6.551385 TTCTCAAATGAAAGAGAAGTGCTC 57.449 37.500 0.00 0.00 43.74 4.26
1647 3076 3.525800 ATGAACTAGCCCCTTGTGTTT 57.474 42.857 0.00 0.00 0.00 2.83
1649 3078 2.955660 TGAACTAGCCCCTTGTGTTTTG 59.044 45.455 0.00 0.00 0.00 2.44
1755 3184 1.449246 GGATGCAGCGAGAGTGCTT 60.449 57.895 0.00 0.00 44.46 3.91
1869 3298 0.744771 GATTCCGGACAGGTGCTTCC 60.745 60.000 1.83 0.00 41.99 3.46
1911 3340 4.415881 TTACCTGAGAGTTGCTGTTTGA 57.584 40.909 0.00 0.00 0.00 2.69
1993 3433 0.541863 AGTAATGCGCCCTTGCTAGT 59.458 50.000 4.18 0.00 35.36 2.57
1994 3434 1.065418 AGTAATGCGCCCTTGCTAGTT 60.065 47.619 4.18 0.00 35.36 2.24
1995 3435 1.743394 GTAATGCGCCCTTGCTAGTTT 59.257 47.619 4.18 0.00 35.36 2.66
2020 3460 2.938354 CAACTGTGCTAGGCTGCTT 58.062 52.632 0.00 0.00 0.00 3.91
2029 3469 1.137872 GCTAGGCTGCTTAGCTCAAGA 59.862 52.381 29.60 0.00 40.24 3.02
2033 3473 3.277715 AGGCTGCTTAGCTCAAGAAATC 58.722 45.455 5.60 0.00 36.22 2.17
2054 3495 5.929697 TCTTGTGCTGATAACTTGTCTTG 57.070 39.130 0.00 0.00 0.00 3.02
2209 3654 2.386391 AAAAAGGTGGGCCAGGGAGG 62.386 60.000 6.40 0.00 41.84 4.30
2361 3806 7.391554 TGATTGAAATAGGTCACTTTTCCTGAG 59.608 37.037 0.00 0.00 35.51 3.35
2363 3808 5.309543 TGAAATAGGTCACTTTTCCTGAGGA 59.690 40.000 0.00 0.00 35.51 3.71
2365 3810 7.182026 TGAAATAGGTCACTTTTCCTGAGGATA 59.818 37.037 0.04 0.00 35.51 2.59
2471 3916 1.773856 TTGCACCAGGACCAATCGGA 61.774 55.000 0.00 0.00 35.59 4.55
2560 4005 5.586155 TTATTTAAGTTGGGGGAGACACA 57.414 39.130 0.00 0.00 32.66 3.72
2600 4045 2.547642 GCTCTATCTTGCTTCCGATGCT 60.548 50.000 7.69 0.00 0.00 3.79
2792 4237 8.635765 AACTCAATGAATACTTTCTTGCCTTA 57.364 30.769 0.00 0.00 32.78 2.69
2799 4244 7.483307 TGAATACTTTCTTGCCTTATCATTGC 58.517 34.615 0.00 0.00 32.78 3.56
2861 4307 4.878439 TCTGCACAGTAATTCAGTAACGT 58.122 39.130 0.00 0.00 0.00 3.99
2865 4311 5.176774 TGCACAGTAATTCAGTAACGTCTTG 59.823 40.000 0.00 0.00 0.00 3.02
2872 4318 8.362639 AGTAATTCAGTAACGTCTTGTCCTTTA 58.637 33.333 0.00 0.00 0.00 1.85
2874 4320 8.617290 AATTCAGTAACGTCTTGTCCTTTATT 57.383 30.769 0.00 0.00 0.00 1.40
2876 4322 9.715121 ATTCAGTAACGTCTTGTCCTTTATTAA 57.285 29.630 0.00 0.00 0.00 1.40
2939 4385 5.763204 AGGCAAATATGTAAATGGGACTACG 59.237 40.000 0.00 0.00 0.00 3.51
3056 4502 1.192428 CCTCTGGTGTAGGTGTACCC 58.808 60.000 0.00 0.00 36.10 3.69
3170 4617 4.778904 CACCAACTTTATTGTGTACGTGG 58.221 43.478 0.00 0.00 0.00 4.94
3172 4619 5.180492 CACCAACTTTATTGTGTACGTGGAT 59.820 40.000 0.00 0.00 0.00 3.41
3188 4635 3.265791 GTGGATCTTGTAACCTGCTGAG 58.734 50.000 0.00 0.00 0.00 3.35
3189 4636 3.055819 GTGGATCTTGTAACCTGCTGAGA 60.056 47.826 0.00 0.00 0.00 3.27
3217 4664 4.935702 TGGTTTCAAATGAGCAACTTCAG 58.064 39.130 0.00 0.00 0.00 3.02
3250 4697 5.827797 TCTGTTGTTACTTTCAGATTTGGCT 59.172 36.000 0.00 0.00 32.95 4.75
3284 4733 9.688592 GAAATATTCTGATTGATTTGTGATCCC 57.311 33.333 0.00 0.00 0.00 3.85
3285 4734 5.762825 ATTCTGATTGATTTGTGATCCCG 57.237 39.130 0.00 0.00 0.00 5.14
3287 4736 3.054434 TCTGATTGATTTGTGATCCCGGT 60.054 43.478 0.00 0.00 0.00 5.28
3288 4737 3.016031 TGATTGATTTGTGATCCCGGTG 58.984 45.455 0.00 0.00 0.00 4.94
3295 4744 3.992943 TTGTGATCCCGGTGTAAAGAT 57.007 42.857 0.00 0.00 0.00 2.40
3307 4756 2.744202 GTGTAAAGATGTCCACTGCCAG 59.256 50.000 0.00 0.00 0.00 4.85
3310 4759 4.469586 TGTAAAGATGTCCACTGCCAGATA 59.530 41.667 0.00 0.00 0.00 1.98
3315 4766 0.398318 GTCCACTGCCAGATATCCCC 59.602 60.000 0.00 0.00 0.00 4.81
3338 4789 8.912988 CCCCATGATTTGTGTAAAATATACACT 58.087 33.333 16.89 0.70 45.77 3.55
3343 4794 9.619316 TGATTTGTGTAAAATATACACTTGTGC 57.381 29.630 16.89 6.38 45.77 4.57
3348 4799 7.858382 TGTGTAAAATATACACTTGTGCACAAC 59.142 33.333 27.96 14.52 45.77 3.32
3349 4800 8.073768 GTGTAAAATATACACTTGTGCACAACT 58.926 33.333 27.96 16.54 43.15 3.16
3361 4812 2.665185 ACAACTTGCGACGCCCTC 60.665 61.111 18.69 0.00 0.00 4.30
3385 4838 7.870826 TCCATATTGGCGATAAAAGTGTTATG 58.129 34.615 0.00 0.00 37.47 1.90
3399 4852 5.890424 AGTGTTATGTTTATTTGACCCCG 57.110 39.130 0.00 0.00 0.00 5.73
3407 4860 4.589374 TGTTTATTTGACCCCGGAACAAAT 59.411 37.500 24.68 24.68 43.48 2.32
3432 4890 0.109504 GGCAAAACTCGCGGCAAATA 60.110 50.000 6.13 0.00 0.00 1.40
3450 4908 2.121291 TATGTCGAAATGGGCAGCAA 57.879 45.000 0.00 0.00 0.00 3.91
3460 4918 0.106769 TGGGCAGCAAGAAGTTGTGA 60.107 50.000 0.00 0.00 35.92 3.58
3463 4921 0.040958 GCAGCAAGAAGTTGTGACCG 60.041 55.000 0.00 0.00 35.92 4.79
3469 4927 2.954753 GAAGTTGTGACCGCTGCCG 61.955 63.158 0.00 0.00 0.00 5.69
3615 5077 5.828328 ACTCCAAGAGAAACAAAAAGGGTAG 59.172 40.000 0.00 0.00 33.32 3.18
3744 5206 5.278315 GGAAGTACACAGTTTTTAGCAAGGG 60.278 44.000 0.00 0.00 0.00 3.95
3861 5325 6.821160 TCCCTTGGAACTTGAAAAATGAAAAC 59.179 34.615 0.00 0.00 0.00 2.43
3889 5354 9.410556 ACATTAAAATACACTGAAATGCTCAAC 57.589 29.630 0.00 0.00 32.17 3.18
3903 5368 3.133691 TGCTCAACATCAGTGTGAGAAC 58.866 45.455 11.57 0.00 38.92 3.01
3922 5458 7.754924 GTGAGAACATGAAAGTTTCTGTGAAAA 59.245 33.333 20.86 1.43 0.00 2.29
3948 5500 0.471617 ACAAGCAGTGTGAGCCTTCT 59.528 50.000 0.00 0.00 39.72 2.85
3963 5515 3.261390 AGCCTTCTGATCATCTGCTATCC 59.739 47.826 0.00 0.00 0.00 2.59
3967 5519 6.297582 CCTTCTGATCATCTGCTATCCTTTT 58.702 40.000 0.00 0.00 0.00 2.27
3968 5520 7.448420 CCTTCTGATCATCTGCTATCCTTTTA 58.552 38.462 0.00 0.00 0.00 1.52
3969 5521 7.935755 CCTTCTGATCATCTGCTATCCTTTTAA 59.064 37.037 0.00 0.00 0.00 1.52
3970 5522 8.668510 TTCTGATCATCTGCTATCCTTTTAAC 57.331 34.615 0.00 0.00 0.00 2.01
3971 5523 7.795047 TCTGATCATCTGCTATCCTTTTAACA 58.205 34.615 0.00 0.00 0.00 2.41
3972 5524 7.712639 TCTGATCATCTGCTATCCTTTTAACAC 59.287 37.037 0.00 0.00 0.00 3.32
3973 5525 7.568349 TGATCATCTGCTATCCTTTTAACACT 58.432 34.615 0.00 0.00 0.00 3.55
3974 5526 7.712639 TGATCATCTGCTATCCTTTTAACACTC 59.287 37.037 0.00 0.00 0.00 3.51
3975 5527 6.349300 TCATCTGCTATCCTTTTAACACTCC 58.651 40.000 0.00 0.00 0.00 3.85
3976 5528 5.755409 TCTGCTATCCTTTTAACACTCCA 57.245 39.130 0.00 0.00 0.00 3.86
3977 5529 6.313519 TCTGCTATCCTTTTAACACTCCAT 57.686 37.500 0.00 0.00 0.00 3.41
3992 5553 1.419012 CTCCATAGCAATGCTCCAGGA 59.581 52.381 12.53 16.13 40.44 3.86
4028 5592 3.952931 TGGAGTAGTAGTCACTGTCTCC 58.047 50.000 16.70 16.70 46.24 3.71
4038 5602 1.416401 TCACTGTCTCCCTGAAACACC 59.584 52.381 0.00 0.00 0.00 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
107 784 1.059584 TTCAGCTCTGGGGGAACACA 61.060 55.000 0.00 0.00 45.84 3.72
117 794 2.548904 GCTCCATATTGCTTCAGCTCTG 59.451 50.000 0.00 0.00 42.66 3.35
118 795 2.486907 GGCTCCATATTGCTTCAGCTCT 60.487 50.000 0.00 0.00 42.66 4.09
197 875 1.075536 GTTGGAGGAAAGGGTGGTGAT 59.924 52.381 0.00 0.00 0.00 3.06
198 876 0.476771 GTTGGAGGAAAGGGTGGTGA 59.523 55.000 0.00 0.00 0.00 4.02
236 914 0.539669 GGTGTTGTTGGAGGAAGGGG 60.540 60.000 0.00 0.00 0.00 4.79
256 934 1.396653 CAAGGAATGGCATCAGGTCC 58.603 55.000 0.00 3.88 33.49 4.46
372 1052 8.726068 TGCTCGACTAATTGATTTTATTTGTCA 58.274 29.630 0.00 0.00 37.50 3.58
391 1071 6.412072 CCGAGATTAATCAAAAATTGCTCGAC 59.588 38.462 17.56 0.00 43.65 4.20
396 1076 4.507756 GGCCCGAGATTAATCAAAAATTGC 59.492 41.667 17.56 9.68 0.00 3.56
410 1090 1.059913 CTTTCCTATGGGCCCGAGAT 58.940 55.000 22.36 11.40 0.00 2.75
415 1095 0.106669 GGACACTTTCCTATGGGCCC 60.107 60.000 17.59 17.59 41.95 5.80
416 1096 3.496675 GGACACTTTCCTATGGGCC 57.503 57.895 0.00 0.00 41.95 5.80
444 1125 1.623311 GGGGACTTGGGATTGGTTTTG 59.377 52.381 0.00 0.00 0.00 2.44
451 1132 2.612493 CGGGTGGGGACTTGGGATT 61.612 63.158 0.00 0.00 0.00 3.01
452 1133 3.015145 CGGGTGGGGACTTGGGAT 61.015 66.667 0.00 0.00 0.00 3.85
455 1136 4.410400 GAGCGGGTGGGGACTTGG 62.410 72.222 0.00 0.00 0.00 3.61
456 1137 4.760047 CGAGCGGGTGGGGACTTG 62.760 72.222 0.00 0.00 0.00 3.16
471 1152 2.958204 CTTGCTTTGCTCGCTGCGA 61.958 57.895 24.43 24.43 46.63 5.10
472 1153 2.249557 ATCTTGCTTTGCTCGCTGCG 62.250 55.000 17.25 17.25 46.63 5.18
473 1154 0.797249 CATCTTGCTTTGCTCGCTGC 60.797 55.000 0.00 0.00 43.25 5.25
474 1155 0.800631 TCATCTTGCTTTGCTCGCTG 59.199 50.000 0.00 0.00 0.00 5.18
475 1156 1.747709 ATCATCTTGCTTTGCTCGCT 58.252 45.000 0.00 0.00 0.00 4.93
476 1157 2.556534 AATCATCTTGCTTTGCTCGC 57.443 45.000 0.00 0.00 0.00 5.03
477 1158 3.432782 GGAAATCATCTTGCTTTGCTCG 58.567 45.455 0.00 0.00 0.00 5.03
478 1159 3.429960 GGGGAAATCATCTTGCTTTGCTC 60.430 47.826 0.00 0.00 0.00 4.26
479 1160 2.498885 GGGGAAATCATCTTGCTTTGCT 59.501 45.455 0.00 0.00 0.00 3.91
480 1161 2.736400 CGGGGAAATCATCTTGCTTTGC 60.736 50.000 0.00 0.00 0.00 3.68
481 1162 2.159198 CCGGGGAAATCATCTTGCTTTG 60.159 50.000 0.00 0.00 0.00 2.77
482 1163 2.102578 CCGGGGAAATCATCTTGCTTT 58.897 47.619 0.00 0.00 0.00 3.51
483 1164 1.284785 TCCGGGGAAATCATCTTGCTT 59.715 47.619 0.00 0.00 0.00 3.91
484 1165 0.918983 TCCGGGGAAATCATCTTGCT 59.081 50.000 0.00 0.00 0.00 3.91
485 1166 1.025041 GTCCGGGGAAATCATCTTGC 58.975 55.000 0.00 0.00 0.00 4.01
486 1167 1.299541 CGTCCGGGGAAATCATCTTG 58.700 55.000 0.00 0.00 0.00 3.02
487 1168 0.463833 GCGTCCGGGGAAATCATCTT 60.464 55.000 0.00 0.00 0.00 2.40
488 1169 1.146263 GCGTCCGGGGAAATCATCT 59.854 57.895 0.00 0.00 0.00 2.90
489 1170 2.244651 CGCGTCCGGGGAAATCATC 61.245 63.158 0.00 0.00 0.00 2.92
490 1171 2.203015 CGCGTCCGGGGAAATCAT 60.203 61.111 0.00 0.00 0.00 2.45
506 1187 4.459331 CAATGACGTTGCGGGCCG 62.459 66.667 24.35 24.35 0.00 6.13
507 1188 4.114997 CCAATGACGTTGCGGGCC 62.115 66.667 0.00 0.00 36.46 5.80
508 1189 4.776647 GCCAATGACGTTGCGGGC 62.777 66.667 1.56 6.51 36.46 6.13
509 1190 2.211619 ATTGCCAATGACGTTGCGGG 62.212 55.000 1.56 0.00 36.46 6.13
510 1191 1.072116 CATTGCCAATGACGTTGCGG 61.072 55.000 12.09 0.00 41.46 5.69
511 1192 0.387112 ACATTGCCAATGACGTTGCG 60.387 50.000 23.56 0.00 41.46 4.85
512 1193 1.335780 TGACATTGCCAATGACGTTGC 60.336 47.619 23.56 6.38 41.46 4.17
513 1194 2.702898 TGACATTGCCAATGACGTTG 57.297 45.000 23.56 0.00 41.46 4.10
514 1195 3.084039 AGATGACATTGCCAATGACGTT 58.916 40.909 23.56 9.26 41.46 3.99
515 1196 2.679837 GAGATGACATTGCCAATGACGT 59.320 45.455 23.56 18.07 41.46 4.34
516 1197 2.032550 GGAGATGACATTGCCAATGACG 59.967 50.000 23.56 0.00 41.46 4.35
517 1198 3.285484 AGGAGATGACATTGCCAATGAC 58.715 45.455 23.56 17.52 41.46 3.06
518 1199 3.657398 AGGAGATGACATTGCCAATGA 57.343 42.857 23.56 2.76 41.46 2.57
519 1200 3.242969 CGAAGGAGATGACATTGCCAATG 60.243 47.826 15.71 15.71 44.48 2.82
520 1201 2.947652 CGAAGGAGATGACATTGCCAAT 59.052 45.455 9.40 0.00 0.00 3.16
521 1202 2.358957 CGAAGGAGATGACATTGCCAA 58.641 47.619 9.40 0.00 0.00 4.52
522 1203 2.028420 CGAAGGAGATGACATTGCCA 57.972 50.000 9.40 0.00 0.00 4.92
537 1218 1.681486 GGGAGAGGAAGAGGCCGAAG 61.681 65.000 0.00 0.00 0.00 3.79
538 1219 1.686110 GGGAGAGGAAGAGGCCGAA 60.686 63.158 0.00 0.00 0.00 4.30
539 1220 2.042843 GGGAGAGGAAGAGGCCGA 60.043 66.667 0.00 0.00 0.00 5.54
540 1221 3.157949 GGGGAGAGGAAGAGGCCG 61.158 72.222 0.00 0.00 0.00 6.13
541 1222 2.069430 CAGGGGAGAGGAAGAGGCC 61.069 68.421 0.00 0.00 0.00 5.19
542 1223 1.306568 ACAGGGGAGAGGAAGAGGC 60.307 63.158 0.00 0.00 0.00 4.70
543 1224 0.252467 ACACAGGGGAGAGGAAGAGG 60.252 60.000 0.00 0.00 0.00 3.69
544 1225 2.534042 TACACAGGGGAGAGGAAGAG 57.466 55.000 0.00 0.00 0.00 2.85
545 1226 2.821437 CTTACACAGGGGAGAGGAAGA 58.179 52.381 0.00 0.00 0.00 2.87
546 1227 1.208293 GCTTACACAGGGGAGAGGAAG 59.792 57.143 0.00 0.00 0.00 3.46
547 1228 1.276622 GCTTACACAGGGGAGAGGAA 58.723 55.000 0.00 0.00 0.00 3.36
548 1229 0.617820 GGCTTACACAGGGGAGAGGA 60.618 60.000 0.00 0.00 0.00 3.71
549 1230 1.908483 GGCTTACACAGGGGAGAGG 59.092 63.158 0.00 0.00 0.00 3.69
550 1231 1.517832 CGGCTTACACAGGGGAGAG 59.482 63.158 0.00 0.00 0.00 3.20
551 1232 2.656069 GCGGCTTACACAGGGGAGA 61.656 63.158 0.00 0.00 0.00 3.71
552 1233 2.125106 GCGGCTTACACAGGGGAG 60.125 66.667 0.00 0.00 0.00 4.30
553 1234 4.077184 CGCGGCTTACACAGGGGA 62.077 66.667 0.00 0.00 0.00 4.81
576 1257 3.470888 AAGCGGACGAGGGGGATG 61.471 66.667 0.00 0.00 0.00 3.51
577 1258 3.470888 CAAGCGGACGAGGGGGAT 61.471 66.667 0.00 0.00 0.00 3.85
579 1260 4.452733 GACAAGCGGACGAGGGGG 62.453 72.222 0.00 0.00 0.00 5.40
580 1261 4.452733 GGACAAGCGGACGAGGGG 62.453 72.222 0.00 0.00 0.00 4.79
581 1262 3.691342 TGGACAAGCGGACGAGGG 61.691 66.667 0.00 0.00 0.00 4.30
582 1263 2.432628 GTGGACAAGCGGACGAGG 60.433 66.667 0.00 0.00 0.00 4.63
583 1264 1.734477 CAGTGGACAAGCGGACGAG 60.734 63.158 0.00 0.00 0.00 4.18
584 1265 2.338620 CAGTGGACAAGCGGACGA 59.661 61.111 0.00 0.00 0.00 4.20
585 1266 2.738521 CCAGTGGACAAGCGGACG 60.739 66.667 1.68 0.00 0.00 4.79
586 1267 1.374758 CTCCAGTGGACAAGCGGAC 60.375 63.158 8.12 0.00 0.00 4.79
587 1268 0.541063 TACTCCAGTGGACAAGCGGA 60.541 55.000 8.12 0.00 0.00 5.54
588 1269 0.389948 GTACTCCAGTGGACAAGCGG 60.390 60.000 8.12 0.00 0.00 5.52
589 1270 0.732880 CGTACTCCAGTGGACAAGCG 60.733 60.000 8.12 7.00 0.00 4.68
590 1271 0.601558 TCGTACTCCAGTGGACAAGC 59.398 55.000 8.12 0.00 0.00 4.01
591 1272 3.056821 TCATTCGTACTCCAGTGGACAAG 60.057 47.826 8.12 0.91 0.00 3.16
592 1273 2.894765 TCATTCGTACTCCAGTGGACAA 59.105 45.455 8.12 0.00 0.00 3.18
593 1274 2.521126 TCATTCGTACTCCAGTGGACA 58.479 47.619 8.12 0.00 0.00 4.02
594 1275 3.587797 TTCATTCGTACTCCAGTGGAC 57.412 47.619 8.12 0.00 0.00 4.02
595 1276 4.819105 AATTCATTCGTACTCCAGTGGA 57.181 40.909 12.40 12.40 0.00 4.02
596 1277 8.657074 TTTATAATTCATTCGTACTCCAGTGG 57.343 34.615 1.40 1.40 0.00 4.00
597 1278 8.765219 CCTTTATAATTCATTCGTACTCCAGTG 58.235 37.037 0.00 0.00 0.00 3.66
598 1279 8.701895 TCCTTTATAATTCATTCGTACTCCAGT 58.298 33.333 0.00 0.00 0.00 4.00
623 1304 9.841880 GGAACATTTAAACCATAGAAGACTTTC 57.158 33.333 0.00 0.00 0.00 2.62
669 1350 6.128007 TGCGAAGAAATTCAAGGATTCTAACC 60.128 38.462 0.00 0.00 33.26 2.85
768 2184 3.887716 ACCAACTACGACTCACACTAAGT 59.112 43.478 0.00 0.00 0.00 2.24
960 2385 1.550374 TTCCCCCTCCTCTCCTCCT 60.550 63.158 0.00 0.00 0.00 3.69
1326 2754 8.818057 CAACTACTAATAAGGAACGGATGAAAG 58.182 37.037 0.00 0.00 0.00 2.62
1347 2775 7.949903 TTCTTGTTTACTTATCACGCAACTA 57.050 32.000 0.00 0.00 0.00 2.24
1435 2864 2.548067 CCCCTATAAGAACGCGATTGCT 60.548 50.000 15.93 0.31 39.65 3.91
1495 2924 7.554118 TCTCTTTCATTTGAGAAAACAGTCAGT 59.446 33.333 0.00 0.00 37.09 3.41
1496 2925 7.923888 TCTCTTTCATTTGAGAAAACAGTCAG 58.076 34.615 0.00 0.00 37.09 3.51
1499 2928 8.186821 CACTTCTCTTTCATTTGAGAAAACAGT 58.813 33.333 6.83 0.00 45.16 3.55
1502 2931 7.199078 AGCACTTCTCTTTCATTTGAGAAAAC 58.801 34.615 6.83 0.99 45.16 2.43
1518 2947 5.203060 ACCCGATTAATAGAGCACTTCTC 57.797 43.478 0.00 0.00 42.21 2.87
1519 2948 5.360591 CAACCCGATTAATAGAGCACTTCT 58.639 41.667 0.00 0.00 40.06 2.85
1528 2957 2.286833 CACCGTGCAACCCGATTAATAG 59.713 50.000 0.00 0.00 0.00 1.73
1568 2997 3.789224 GGTTTCACAATTCAACGACACAC 59.211 43.478 0.00 0.00 0.00 3.82
1603 3032 2.512692 TCATGGTGGGGAACATCTTG 57.487 50.000 0.00 0.00 36.86 3.02
1647 3076 2.241176 CCAGCACTACTTTATCCCCCAA 59.759 50.000 0.00 0.00 0.00 4.12
1649 3078 1.844497 ACCAGCACTACTTTATCCCCC 59.156 52.381 0.00 0.00 0.00 5.40
1839 3268 1.378514 CCGGAATCCCTTGGGTGTG 60.379 63.158 0.00 0.00 0.00 3.82
1869 3298 7.666306 GGTAAACCAAAAGAACATGGCACAAG 61.666 42.308 0.00 0.00 40.51 3.16
1941 3370 3.220507 TGCAAGAAAATTCTCATGGCG 57.779 42.857 0.00 0.00 36.28 5.69
1943 3374 6.860080 ACAGTATGCAAGAAAATTCTCATGG 58.140 36.000 0.00 0.00 42.53 3.66
2029 3469 7.013655 ACAAGACAAGTTATCAGCACAAGATTT 59.986 33.333 0.00 0.00 0.00 2.17
2033 3473 5.679734 ACAAGACAAGTTATCAGCACAAG 57.320 39.130 0.00 0.00 0.00 3.16
2118 3563 5.187381 TCAATCTCAAGAACTGCAGAGAGAT 59.813 40.000 23.35 22.55 42.74 2.75
2170 3615 3.526931 TTCAGATACTTCAGGGCTTCG 57.473 47.619 0.00 0.00 0.00 3.79
2317 3762 7.764141 TCAATCATTTTCTGAAAGTGGATCA 57.236 32.000 20.83 6.53 37.44 2.92
2327 3772 8.868522 AGTGACCTATTTCAATCATTTTCTGA 57.131 30.769 0.00 0.00 38.53 3.27
2361 3806 3.406764 CTGCCTGTAGAAGCCAATATCC 58.593 50.000 0.00 0.00 0.00 2.59
2363 3808 2.780010 ACCTGCCTGTAGAAGCCAATAT 59.220 45.455 0.00 0.00 0.00 1.28
2365 3810 0.995024 ACCTGCCTGTAGAAGCCAAT 59.005 50.000 0.00 0.00 0.00 3.16
2471 3916 1.611851 CCTCAGACCTGGAGTGCCT 60.612 63.158 0.00 0.00 34.31 4.75
2483 3928 0.035881 CAGGTGCAAGCTTCCTCAGA 59.964 55.000 0.00 0.00 46.63 3.27
2560 4005 1.526917 GCGGCCATTGCTATGTCCT 60.527 57.895 2.24 0.00 37.74 3.85
2600 4045 2.288666 GCTGAAGAACACAACTGACCA 58.711 47.619 0.00 0.00 0.00 4.02
2740 4185 9.474313 AAAATAGCATACATTTTAGAACAGGGA 57.526 29.630 0.00 0.00 34.61 4.20
2774 4219 7.416664 GGCAATGATAAGGCAAGAAAGTATTCA 60.417 37.037 0.00 0.00 38.06 2.57
2792 4237 2.023695 AGTTCCTGGGAATGGCAATGAT 60.024 45.455 5.30 0.00 36.45 2.45
2798 4243 0.038166 TGTCAGTTCCTGGGAATGGC 59.962 55.000 0.00 0.00 36.45 4.40
2799 4244 1.073763 TGTGTCAGTTCCTGGGAATGG 59.926 52.381 2.04 1.79 36.45 3.16
2838 4284 5.479306 ACGTTACTGAATTACTGTGCAGAT 58.521 37.500 6.17 0.00 32.86 2.90
2839 4285 4.878439 ACGTTACTGAATTACTGTGCAGA 58.122 39.130 6.17 0.00 32.86 4.26
2840 4286 4.923871 AGACGTTACTGAATTACTGTGCAG 59.076 41.667 0.00 0.00 33.04 4.41
2841 4287 4.878439 AGACGTTACTGAATTACTGTGCA 58.122 39.130 0.00 0.00 33.04 4.57
2842 4288 5.176958 ACAAGACGTTACTGAATTACTGTGC 59.823 40.000 0.00 0.00 33.04 4.57
2843 4289 6.128902 GGACAAGACGTTACTGAATTACTGTG 60.129 42.308 0.00 0.00 33.04 3.66
2845 4291 6.157211 AGGACAAGACGTTACTGAATTACTG 58.843 40.000 0.00 0.00 0.00 2.74
2846 4292 6.342338 AGGACAAGACGTTACTGAATTACT 57.658 37.500 0.00 0.00 0.00 2.24
2847 4293 7.417496 AAAGGACAAGACGTTACTGAATTAC 57.583 36.000 0.00 0.00 0.00 1.89
2848 4294 9.715121 AATAAAGGACAAGACGTTACTGAATTA 57.285 29.630 0.00 0.00 0.00 1.40
2849 4295 8.617290 AATAAAGGACAAGACGTTACTGAATT 57.383 30.769 0.00 0.00 0.00 2.17
2850 4296 9.715121 TTAATAAAGGACAAGACGTTACTGAAT 57.285 29.630 0.00 0.00 0.00 2.57
2851 4297 9.545105 TTTAATAAAGGACAAGACGTTACTGAA 57.455 29.630 0.00 0.00 0.00 3.02
2852 4298 9.199982 CTTTAATAAAGGACAAGACGTTACTGA 57.800 33.333 4.89 0.00 34.85 3.41
2853 4299 9.199982 TCTTTAATAAAGGACAAGACGTTACTG 57.800 33.333 12.29 0.00 39.01 2.74
2859 4305 8.381387 GCTAACTCTTTAATAAAGGACAAGACG 58.619 37.037 12.29 0.00 39.01 4.18
2861 4307 8.380099 TGGCTAACTCTTTAATAAAGGACAAGA 58.620 33.333 12.29 0.00 39.01 3.02
2865 4311 9.788960 CAAATGGCTAACTCTTTAATAAAGGAC 57.211 33.333 12.29 0.00 39.01 3.85
2939 4385 1.379044 CCCTCCATCAACCACCAGC 60.379 63.158 0.00 0.00 0.00 4.85
3056 4502 4.439700 GGATGTCATCACAATTTGCTGGAG 60.440 45.833 14.72 0.00 35.64 3.86
3170 4617 4.569943 TGTTCTCAGCAGGTTACAAGATC 58.430 43.478 0.00 0.00 0.00 2.75
3172 4619 4.415881 TTGTTCTCAGCAGGTTACAAGA 57.584 40.909 0.00 0.00 0.00 3.02
3188 4635 6.258507 AGTTGCTCATTTGAAACCAATTGTTC 59.741 34.615 4.43 3.38 35.67 3.18
3189 4636 6.114767 AGTTGCTCATTTGAAACCAATTGTT 58.885 32.000 4.43 0.00 39.43 2.83
3217 4664 9.485206 TCTGAAAGTAACAACAGAGGTAAATAC 57.515 33.333 0.00 0.00 35.01 1.89
3284 4733 1.732259 GCAGTGGACATCTTTACACCG 59.268 52.381 0.00 0.00 34.50 4.94
3285 4734 2.084546 GGCAGTGGACATCTTTACACC 58.915 52.381 0.00 0.00 34.50 4.16
3287 4736 2.637382 TCTGGCAGTGGACATCTTTACA 59.363 45.455 15.27 0.00 0.00 2.41
3288 4737 3.334583 TCTGGCAGTGGACATCTTTAC 57.665 47.619 15.27 0.00 0.00 2.01
3295 4744 1.131638 GGGATATCTGGCAGTGGACA 58.868 55.000 15.27 0.00 0.00 4.02
3310 4759 9.653516 TGTATATTTTACACAAATCATGGGGAT 57.346 29.630 0.00 0.00 36.45 3.85
3343 4794 2.954753 GAGGGCGTCGCAAGTTGTG 61.955 63.158 20.50 10.25 39.48 3.33
3348 4799 0.532862 AATATGGAGGGCGTCGCAAG 60.533 55.000 20.50 0.00 0.00 4.01
3349 4800 0.813610 CAATATGGAGGGCGTCGCAA 60.814 55.000 20.50 0.00 0.00 4.85
3352 4803 1.961277 GCCAATATGGAGGGCGTCG 60.961 63.158 0.00 0.00 40.96 5.12
3356 4807 2.489938 TTATCGCCAATATGGAGGGC 57.510 50.000 0.00 0.00 40.96 5.19
3357 4808 4.216257 CACTTTTATCGCCAATATGGAGGG 59.784 45.833 0.00 0.00 40.96 4.30
3361 4812 7.648142 ACATAACACTTTTATCGCCAATATGG 58.352 34.615 0.00 0.00 41.55 2.74
3385 4838 4.587584 TTTGTTCCGGGGTCAAATAAAC 57.412 40.909 0.00 0.00 0.00 2.01
3399 4852 5.176774 CGAGTTTTGCCCTAAAATTTGTTCC 59.823 40.000 0.00 0.00 40.17 3.62
3407 4860 0.594110 CCGCGAGTTTTGCCCTAAAA 59.406 50.000 8.23 0.00 35.96 1.52
3432 4890 0.813184 CTTGCTGCCCATTTCGACAT 59.187 50.000 0.00 0.00 0.00 3.06
3440 4898 0.963962 CACAACTTCTTGCTGCCCAT 59.036 50.000 0.00 0.00 0.00 4.00
3450 4908 1.598130 GGCAGCGGTCACAACTTCT 60.598 57.895 0.00 0.00 0.00 2.85
3463 4921 3.672295 CTTCCCTGGACTCGGCAGC 62.672 68.421 0.00 0.00 0.00 5.25
3469 4927 1.599576 GGCTCACTTCCCTGGACTC 59.400 63.158 0.00 0.00 0.00 3.36
3500 4962 6.042093 ACATACAGGTTCTCTCTCAAGACAAA 59.958 38.462 0.00 0.00 0.00 2.83
3615 5077 0.995024 ACATCCCTATGGCTATGGGC 59.005 55.000 6.97 0.00 40.69 5.36
3665 5127 3.867493 GCAAGGCAAAGAAATTATGCTCC 59.133 43.478 0.00 0.00 39.94 4.70
3744 5206 3.995705 GAGCATGATGGCAGAAGAGATAC 59.004 47.826 0.00 0.00 35.83 2.24
3861 5325 8.028354 TGAGCATTTCAGTGTATTTTAATGTGG 58.972 33.333 0.00 0.00 0.00 4.17
3889 5354 5.936686 ACTTTCATGTTCTCACACTGATG 57.063 39.130 0.00 0.00 35.03 3.07
3948 5500 7.568349 AGTGTTAAAAGGATAGCAGATGATCA 58.432 34.615 0.00 0.00 0.00 2.92
3963 5515 6.199937 AGCATTGCTATGGAGTGTTAAAAG 57.800 37.500 10.00 0.00 36.99 2.27
3967 5519 3.199727 TGGAGCATTGCTATGGAGTGTTA 59.800 43.478 11.96 0.00 39.88 2.41
3968 5520 2.025981 TGGAGCATTGCTATGGAGTGTT 60.026 45.455 11.96 0.00 39.88 3.32
3969 5521 1.561076 TGGAGCATTGCTATGGAGTGT 59.439 47.619 11.96 0.00 39.88 3.55
3970 5522 2.219458 CTGGAGCATTGCTATGGAGTG 58.781 52.381 11.96 0.00 39.88 3.51
3971 5523 1.142465 CCTGGAGCATTGCTATGGAGT 59.858 52.381 11.96 0.00 39.88 3.85
3972 5524 1.419012 TCCTGGAGCATTGCTATGGAG 59.581 52.381 11.96 5.09 39.88 3.86
3973 5525 1.510492 TCCTGGAGCATTGCTATGGA 58.490 50.000 11.96 15.45 39.88 3.41
3974 5526 2.353357 TTCCTGGAGCATTGCTATGG 57.647 50.000 11.96 13.45 39.88 2.74
3975 5527 3.066342 CACTTTCCTGGAGCATTGCTATG 59.934 47.826 11.96 3.56 39.88 2.23
3976 5528 3.285484 CACTTTCCTGGAGCATTGCTAT 58.715 45.455 11.96 0.00 39.88 2.97
3977 5529 2.715046 CACTTTCCTGGAGCATTGCTA 58.285 47.619 11.96 0.00 39.88 3.49
4028 5592 2.551459 CTCTCTGCAAAGGTGTTTCAGG 59.449 50.000 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.