Multiple sequence alignment - TraesCS7D01G493600

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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 TraesCS7D01G493600 chr7D 100.000 3705 0 0 1 3705 601701124 601697420 0.000000e+00 6842.0
1 TraesCS7D01G493600 chr7D 85.867 3552 319 77 5 3440 601788412 601784928 0.000000e+00 3609.0
2 TraesCS7D01G493600 chr7D 75.701 642 123 21 2185 2811 601582604 601581981 1.300000e-74 291.0
3 TraesCS7D01G493600 chr7D 83.624 287 28 6 3438 3705 601784879 601784593 6.140000e-63 252.0
4 TraesCS7D01G493600 chr7D 73.770 549 113 20 1346 1878 601430119 601429586 1.760000e-43 187.0
5 TraesCS7D01G493600 chr7D 81.765 170 26 4 1711 1878 601400719 601400553 1.790000e-28 137.0
6 TraesCS7D01G493600 chr7A 89.361 2284 193 23 1060 3316 693399253 693396993 0.000000e+00 2826.0
7 TraesCS7D01G493600 chr7A 81.034 464 64 12 2068 2525 725925784 725926229 7.620000e-92 348.0
8 TraesCS7D01G493600 chr7A 90.417 240 22 1 3466 3704 693396873 693396634 7.720000e-82 315.0
9 TraesCS7D01G493600 chr7A 84.279 229 29 6 404 630 693399874 693399651 2.240000e-52 217.0
10 TraesCS7D01G493600 chr7A 85.065 154 9 3 763 911 693399476 693399332 1.070000e-30 145.0
11 TraesCS7D01G493600 chr7A 79.375 160 20 6 331 479 107911607 107911450 2.350000e-17 100.0
12 TraesCS7D01G493600 chr7A 88.095 84 10 0 610 693 693399646 693399563 2.350000e-17 100.0
13 TraesCS7D01G493600 chr7A 81.416 113 16 2 331 439 107911494 107911383 1.830000e-13 87.9
14 TraesCS7D01G493600 chr7A 95.455 44 2 0 961 1004 693399325 693399282 1.850000e-08 71.3
15 TraesCS7D01G493600 chr7B 88.228 1648 154 22 961 2590 680854825 680853200 0.000000e+00 1932.0
16 TraesCS7D01G493600 chr7B 89.634 820 66 9 2636 3440 680853185 680852370 0.000000e+00 1026.0
17 TraesCS7D01G493600 chr7B 82.682 537 69 10 2051 2587 732712947 732712435 4.360000e-124 455.0
18 TraesCS7D01G493600 chr7B 75.894 755 155 20 2074 2811 680645064 680644320 9.780000e-96 361.0
19 TraesCS7D01G493600 chr7B 79.914 463 32 26 223 633 680658985 680658532 2.180000e-72 283.0
20 TraesCS7D01G493600 chr7B 76.640 381 39 23 570 910 680855203 680854833 8.230000e-37 165.0
21 TraesCS7D01G493600 chr7B 84.706 170 17 2 3536 3705 680852254 680852094 1.060000e-35 161.0
22 TraesCS7D01G493600 chr7B 82.645 121 14 3 324 439 61610377 61610259 2.350000e-17 100.0
23 TraesCS7D01G493600 chr7B 90.000 60 2 1 644 699 680658252 680658193 1.430000e-09 75.0
24 TraesCS7D01G493600 chr1D 79.348 1288 236 20 1301 2579 414568433 414567167 0.000000e+00 878.0
25 TraesCS7D01G493600 chr1B 79.106 1297 240 20 1301 2587 560020313 560019038 0.000000e+00 865.0
26 TraesCS7D01G493600 chr2D 77.090 1567 273 54 1307 2841 33544522 33546034 0.000000e+00 826.0
27 TraesCS7D01G493600 chr1A 83.268 508 79 5 2086 2587 511450299 511449792 2.610000e-126 462.0
28 TraesCS7D01G493600 chr5D 78.488 172 23 11 311 473 374319629 374319463 2.350000e-17 100.0
29 TraesCS7D01G493600 chr5B 80.882 136 15 7 331 461 66287217 66287346 3.050000e-16 97.1
30 TraesCS7D01G493600 chr6B 82.407 108 13 5 112 214 420780797 420780903 5.100000e-14 89.8
31 TraesCS7D01G493600 chr6B 77.358 159 24 8 332 479 715204934 715204777 2.370000e-12 84.2
32 TraesCS7D01G493600 chr3B 71.705 258 56 10 2426 2679 25665465 25665221 5.170000e-04 56.5
33 TraesCS7D01G493600 chr3B 71.538 260 55 12 2425 2679 15761757 15762002 7.000000e-03 52.8


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 TraesCS7D01G493600 chr7D 601697420 601701124 3704 True 6842.000000 6842 100.000000 1 3705 1 chr7D.!!$R4 3704
1 TraesCS7D01G493600 chr7D 601784593 601788412 3819 True 1930.500000 3609 84.745500 5 3705 2 chr7D.!!$R5 3700
2 TraesCS7D01G493600 chr7D 601581981 601582604 623 True 291.000000 291 75.701000 2185 2811 1 chr7D.!!$R3 626
3 TraesCS7D01G493600 chr7A 693396634 693399874 3240 True 612.383333 2826 88.778667 404 3704 6 chr7A.!!$R2 3300
4 TraesCS7D01G493600 chr7B 680852094 680855203 3109 True 821.000000 1932 84.802000 570 3705 4 chr7B.!!$R5 3135
5 TraesCS7D01G493600 chr7B 732712435 732712947 512 True 455.000000 455 82.682000 2051 2587 1 chr7B.!!$R3 536
6 TraesCS7D01G493600 chr7B 680644320 680645064 744 True 361.000000 361 75.894000 2074 2811 1 chr7B.!!$R2 737
7 TraesCS7D01G493600 chr1D 414567167 414568433 1266 True 878.000000 878 79.348000 1301 2579 1 chr1D.!!$R1 1278
8 TraesCS7D01G493600 chr1B 560019038 560020313 1275 True 865.000000 865 79.106000 1301 2587 1 chr1B.!!$R1 1286
9 TraesCS7D01G493600 chr2D 33544522 33546034 1512 False 826.000000 826 77.090000 1307 2841 1 chr2D.!!$F1 1534
10 TraesCS7D01G493600 chr1A 511449792 511450299 507 True 462.000000 462 83.268000 2086 2587 1 chr1A.!!$R1 501

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
154 164 0.036732 GTGGTCTTGCACATGGAGGA 59.963 55.0 0.00 0.0 0.00 3.71 F
1609 1747 0.033920 CAACAGCTTTGGCCTTTCCC 59.966 55.0 3.32 0.0 39.73 3.97 F
1986 2130 0.245539 CCGTTCATCACCCGTACACT 59.754 55.0 0.00 0.0 0.00 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1778 1916 0.107214 CAGTTGGATGGTGCCGGTAT 60.107 55.000 1.9 0.0 0.00 2.73 R
2476 2626 0.615331 AATGCTCTCTTTGAGGCGGA 59.385 50.000 0.0 0.0 42.87 5.54 R
2899 3077 1.136695 CTCAGAGAGCATGACCAGGAC 59.863 57.143 0.0 0.0 0.00 3.85 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 38 1.509703 CCATCATGCACGGATCTCAG 58.490 55.000 0.00 0.00 0.00 3.35
39 41 0.897621 TCATGCACGGATCTCAGTGT 59.102 50.000 11.24 0.00 42.66 3.55
41 43 2.099756 TCATGCACGGATCTCAGTGTAG 59.900 50.000 11.24 3.53 42.66 2.74
42 44 1.545841 TGCACGGATCTCAGTGTAGT 58.454 50.000 11.24 0.00 42.66 2.73
44 46 2.094700 TGCACGGATCTCAGTGTAGTTC 60.095 50.000 11.24 0.00 42.66 3.01
45 47 2.164624 GCACGGATCTCAGTGTAGTTCT 59.835 50.000 11.24 0.00 42.66 3.01
46 48 3.763902 CACGGATCTCAGTGTAGTTCTG 58.236 50.000 2.76 0.00 37.30 3.02
58 60 0.973632 TAGTTCTGGTGCCACGTCAT 59.026 50.000 0.00 0.00 0.00 3.06
60 62 1.555075 AGTTCTGGTGCCACGTCATAT 59.445 47.619 0.00 0.00 0.00 1.78
86 88 1.204941 ACTGGTTCGCTGTGAGGATAC 59.795 52.381 0.00 0.00 0.00 2.24
88 90 1.621317 TGGTTCGCTGTGAGGATACAA 59.379 47.619 0.00 0.00 41.41 2.41
89 91 2.037902 TGGTTCGCTGTGAGGATACAAA 59.962 45.455 0.00 0.00 41.41 2.83
93 95 2.037902 TCGCTGTGAGGATACAAACCAA 59.962 45.455 0.00 0.00 41.41 3.67
99 101 5.380900 TGTGAGGATACAAACCAATGAACA 58.619 37.500 0.00 0.00 41.41 3.18
100 102 5.830457 TGTGAGGATACAAACCAATGAACAA 59.170 36.000 0.00 0.00 41.41 2.83
102 104 6.808212 GTGAGGATACAAACCAATGAACAATG 59.192 38.462 0.00 0.00 41.41 2.82
111 113 5.867903 ACCAATGAACAATGTCTTTTCCA 57.132 34.783 0.00 0.00 0.00 3.53
112 114 5.600696 ACCAATGAACAATGTCTTTTCCAC 58.399 37.500 0.00 0.00 0.00 4.02
113 115 4.990426 CCAATGAACAATGTCTTTTCCACC 59.010 41.667 0.00 0.00 0.00 4.61
114 116 3.980646 TGAACAATGTCTTTTCCACCG 57.019 42.857 0.00 0.00 0.00 4.94
115 117 2.034053 TGAACAATGTCTTTTCCACCGC 59.966 45.455 0.00 0.00 0.00 5.68
116 118 0.958822 ACAATGTCTTTTCCACCGCC 59.041 50.000 0.00 0.00 0.00 6.13
117 119 0.958091 CAATGTCTTTTCCACCGCCA 59.042 50.000 0.00 0.00 0.00 5.69
139 149 3.706055 CACTTGCTAGTGGTGTGGT 57.294 52.632 19.06 0.00 46.52 4.16
140 150 1.512926 CACTTGCTAGTGGTGTGGTC 58.487 55.000 19.06 0.00 46.52 4.02
141 151 1.070758 CACTTGCTAGTGGTGTGGTCT 59.929 52.381 19.06 0.00 46.52 3.85
142 152 1.768870 ACTTGCTAGTGGTGTGGTCTT 59.231 47.619 0.00 0.00 31.99 3.01
143 153 2.146342 CTTGCTAGTGGTGTGGTCTTG 58.854 52.381 0.00 0.00 0.00 3.02
144 154 0.250295 TGCTAGTGGTGTGGTCTTGC 60.250 55.000 0.00 0.00 0.00 4.01
145 155 0.250295 GCTAGTGGTGTGGTCTTGCA 60.250 55.000 0.00 0.00 32.25 4.08
146 156 1.512926 CTAGTGGTGTGGTCTTGCAC 58.487 55.000 0.00 0.00 35.07 4.57
147 157 0.833949 TAGTGGTGTGGTCTTGCACA 59.166 50.000 0.00 0.00 37.35 4.57
148 158 0.183492 AGTGGTGTGGTCTTGCACAT 59.817 50.000 0.00 0.00 37.35 3.21
149 159 0.311790 GTGGTGTGGTCTTGCACATG 59.688 55.000 0.00 0.00 37.35 3.21
150 160 0.822944 TGGTGTGGTCTTGCACATGG 60.823 55.000 0.00 0.00 37.35 3.66
151 161 0.537143 GGTGTGGTCTTGCACATGGA 60.537 55.000 0.00 0.00 37.35 3.41
152 162 0.877071 GTGTGGTCTTGCACATGGAG 59.123 55.000 0.00 0.00 35.81 3.86
153 163 0.250858 TGTGGTCTTGCACATGGAGG 60.251 55.000 0.00 0.00 0.00 4.30
154 164 0.036732 GTGGTCTTGCACATGGAGGA 59.963 55.000 0.00 0.00 0.00 3.71
155 165 0.036732 TGGTCTTGCACATGGAGGAC 59.963 55.000 7.05 7.05 40.74 3.85
156 166 2.859992 GTCTTGCACATGGAGGACC 58.140 57.895 4.56 0.00 36.69 4.46
157 167 0.678048 GTCTTGCACATGGAGGACCC 60.678 60.000 4.56 0.00 36.69 4.46
173 183 2.559705 GGACCCTGGTTTGAATCCCAAT 60.560 50.000 0.00 0.00 34.23 3.16
175 185 4.546674 GACCCTGGTTTGAATCCCAATAT 58.453 43.478 0.00 0.00 34.23 1.28
176 186 4.959080 ACCCTGGTTTGAATCCCAATATT 58.041 39.130 0.00 0.00 34.23 1.28
319 333 8.126074 CACGTTAGTTTATAAATTAGCATGGCA 58.874 33.333 12.72 0.00 0.00 4.92
448 484 7.286215 AGATGGCATTTTTATGAAGAGATGG 57.714 36.000 0.00 0.00 0.00 3.51
449 485 6.837568 AGATGGCATTTTTATGAAGAGATGGT 59.162 34.615 0.00 0.00 0.00 3.55
533 587 8.785329 TTCAAAAATTAACAGAGCCAAAGTTT 57.215 26.923 0.00 0.00 0.00 2.66
535 589 8.663911 TCAAAAATTAACAGAGCCAAAGTTTTG 58.336 29.630 11.26 11.26 43.11 2.44
561 615 6.939730 TCTCTGTTTTTACTGACATGGCATTA 59.060 34.615 0.00 0.00 0.00 1.90
563 617 8.800370 TCTGTTTTTACTGACATGGCATTATA 57.200 30.769 0.00 0.00 0.00 0.98
580 635 9.911138 TGGCATTATATATGTATTTTTGCACAG 57.089 29.630 0.00 0.00 0.00 3.66
620 675 9.194271 GCAAAACAATATTTTCATGGCATTTTT 57.806 25.926 0.00 0.00 0.00 1.94
631 686 8.770438 TTTCATGGCATTTTTGTAAAGTATCC 57.230 30.769 0.00 0.00 0.00 2.59
632 687 7.716799 TCATGGCATTTTTGTAAAGTATCCT 57.283 32.000 0.00 0.00 0.00 3.24
633 688 7.546358 TCATGGCATTTTTGTAAAGTATCCTG 58.454 34.615 0.00 0.00 0.00 3.86
634 689 6.909550 TGGCATTTTTGTAAAGTATCCTGT 57.090 33.333 0.00 0.00 0.00 4.00
635 690 6.919721 TGGCATTTTTGTAAAGTATCCTGTC 58.080 36.000 0.00 0.00 0.00 3.51
636 691 6.491745 TGGCATTTTTGTAAAGTATCCTGTCA 59.508 34.615 0.00 0.00 0.00 3.58
704 787 0.475044 TAAAAGACCCAGCCACCGTT 59.525 50.000 0.00 0.00 0.00 4.44
705 788 0.822121 AAAAGACCCAGCCACCGTTC 60.822 55.000 0.00 0.00 0.00 3.95
707 790 2.358737 GACCCAGCCACCGTTCAG 60.359 66.667 0.00 0.00 0.00 3.02
709 792 2.391724 GACCCAGCCACCGTTCAGAA 62.392 60.000 0.00 0.00 0.00 3.02
712 795 0.817634 CCAGCCACCGTTCAGAAACA 60.818 55.000 0.00 0.00 34.93 2.83
713 796 1.021202 CAGCCACCGTTCAGAAACAA 58.979 50.000 0.00 0.00 34.93 2.83
714 797 1.403679 CAGCCACCGTTCAGAAACAAA 59.596 47.619 0.00 0.00 34.93 2.83
715 798 2.096248 AGCCACCGTTCAGAAACAAAA 58.904 42.857 0.00 0.00 34.93 2.44
716 799 2.494073 AGCCACCGTTCAGAAACAAAAA 59.506 40.909 0.00 0.00 34.93 1.94
717 800 2.857748 GCCACCGTTCAGAAACAAAAAG 59.142 45.455 0.00 0.00 34.93 2.27
718 801 3.428316 GCCACCGTTCAGAAACAAAAAGA 60.428 43.478 0.00 0.00 34.93 2.52
745 828 5.070001 CCGAGTCAATCTCTTCCTCTATCT 58.930 45.833 0.00 0.00 40.75 1.98
783 892 3.163594 CGCTGCAAGACCTAATTTTTCG 58.836 45.455 0.00 0.00 34.07 3.46
794 903 5.016831 ACCTAATTTTTCGCCATTCCTCTT 58.983 37.500 0.00 0.00 0.00 2.85
897 1011 1.162800 GCAATGGCCTCCAGATCGAC 61.163 60.000 3.32 0.00 36.75 4.20
898 1012 0.467384 CAATGGCCTCCAGATCGACT 59.533 55.000 3.32 0.00 36.75 4.18
958 1072 3.202706 GTTTGATCCGCCGCCCTC 61.203 66.667 0.00 0.00 0.00 4.30
959 1073 4.830765 TTTGATCCGCCGCCCTCG 62.831 66.667 0.00 0.00 0.00 4.63
999 1113 2.815647 CTCTTCCGCTTCACGCCC 60.816 66.667 0.00 0.00 41.76 6.13
1008 1122 1.680338 GCTTCACGCCCTAATTCCAT 58.320 50.000 0.00 0.00 0.00 3.41
1015 1129 0.185901 GCCCTAATTCCATGGGAGCA 59.814 55.000 13.02 0.00 43.47 4.26
1017 1131 1.597742 CCTAATTCCATGGGAGCACG 58.402 55.000 13.02 0.00 31.21 5.34
1018 1132 0.947244 CTAATTCCATGGGAGCACGC 59.053 55.000 13.02 0.00 31.21 5.34
1020 1134 1.033746 AATTCCATGGGAGCACGCTG 61.034 55.000 13.02 0.00 31.21 5.18
1021 1135 2.898920 ATTCCATGGGAGCACGCTGG 62.899 60.000 13.02 9.22 31.21 4.85
1022 1136 4.100084 CCATGGGAGCACGCTGGA 62.100 66.667 2.85 0.00 33.07 3.86
1023 1137 2.513204 CATGGGAGCACGCTGGAG 60.513 66.667 0.00 0.00 0.00 3.86
1048 1162 1.535204 TCTGACGCAGGTGAGCATCA 61.535 55.000 6.95 0.00 33.94 3.07
1099 1214 1.003112 TCCATTACCGTTGGCGCTT 60.003 52.632 7.64 0.00 36.67 4.68
1122 1237 3.627395 ATCTTTCCTGTATTCGTGCCA 57.373 42.857 0.00 0.00 0.00 4.92
1123 1238 2.972625 TCTTTCCTGTATTCGTGCCAG 58.027 47.619 0.00 0.00 0.00 4.85
1128 1243 2.386661 CTGTATTCGTGCCAGGAAGT 57.613 50.000 5.99 0.00 0.00 3.01
1185 1304 2.731571 GCCGCTACTGGACCATCCA 61.732 63.158 0.00 0.00 45.98 3.41
1192 1311 4.807321 TGGACCATCCATCTCCGT 57.193 55.556 0.00 0.00 42.67 4.69
1214 1334 4.397348 CCCGTCTCCAAGGGTTTG 57.603 61.111 0.00 0.00 42.67 2.93
1218 1346 0.949105 CGTCTCCAAGGGTTTGACCG 60.949 60.000 0.00 0.00 39.83 4.79
1234 1362 1.218316 CCGCACCTCCTTCCTGTAC 59.782 63.158 0.00 0.00 0.00 2.90
1236 1364 0.108615 CGCACCTCCTTCCTGTACTG 60.109 60.000 0.00 0.00 0.00 2.74
1245 1373 3.258372 TCCTTCCTGTACTGTACTTGCTG 59.742 47.826 17.98 6.67 0.00 4.41
1352 1484 1.681666 CACCATGCCAGACAGGAGT 59.318 57.895 0.00 0.00 41.22 3.85
1368 1500 2.904866 GTGGCGCAACCCTGTTCA 60.905 61.111 10.83 0.00 37.83 3.18
1466 1598 0.250234 ACACATCATGGCGTAGTGCT 59.750 50.000 0.00 0.00 45.43 4.40
1491 1623 1.747355 CCACACCTGAATTCATGCTCC 59.253 52.381 8.96 0.00 0.00 4.70
1502 1634 2.034066 ATGCTCCAACACCACCGG 59.966 61.111 0.00 0.00 0.00 5.28
1609 1747 0.033920 CAACAGCTTTGGCCTTTCCC 59.966 55.000 3.32 0.00 39.73 3.97
1612 1750 0.833409 CAGCTTTGGCCTTTCCCCTT 60.833 55.000 3.32 0.00 39.73 3.95
1645 1783 1.404181 CCGTTTCGAGGATCAGCTCAA 60.404 52.381 0.00 0.00 33.17 3.02
1765 1903 1.063038 TGGGCAAGGCATCCACAATAT 60.063 47.619 0.00 0.00 0.00 1.28
1770 1908 3.570975 GCAAGGCATCCACAATATCATGA 59.429 43.478 0.00 0.00 0.00 3.07
1778 1916 6.149308 GCATCCACAATATCATGATCGGTTTA 59.851 38.462 12.53 0.00 0.00 2.01
1859 2003 5.918608 ACGTCTGAATCCAGCTTATATGTT 58.081 37.500 0.00 0.00 40.20 2.71
1875 2019 1.728323 TGTTCTCACAGTGGGATCCA 58.272 50.000 15.23 1.41 0.00 3.41
1900 2044 1.499056 CAAGGTGCATCAGCGTCAC 59.501 57.895 0.00 0.00 46.23 3.67
1968 2112 3.051081 AGTTGCACTCTTCATCTGACC 57.949 47.619 0.00 0.00 0.00 4.02
1986 2130 0.245539 CCGTTCATCACCCGTACACT 59.754 55.000 0.00 0.00 0.00 3.55
1989 2133 2.095110 CGTTCATCACCCGTACACTACA 60.095 50.000 0.00 0.00 0.00 2.74
2027 2171 4.517075 TGGCATTCTTATGACAAACGTGAA 59.483 37.500 0.00 0.00 46.78 3.18
2039 2183 4.457466 ACAAACGTGAAATTACAGGAGGT 58.543 39.130 0.00 0.00 0.00 3.85
2059 2203 6.042781 GGAGGTGGTGGAGATATTATTGTGTA 59.957 42.308 0.00 0.00 0.00 2.90
2222 2372 3.133901 TGCAGGATTACGAGGCTGAAATA 59.866 43.478 0.00 0.00 0.00 1.40
2247 2397 4.259356 GGCTTTTAAGTACCGGATTGACT 58.741 43.478 9.46 2.46 0.00 3.41
2391 2541 6.403866 TGCTGATCTGGTTTAACAACAAAT 57.596 33.333 1.46 0.00 34.15 2.32
2514 2664 3.464720 TTGTTCCAATTCCAGGCCATA 57.535 42.857 5.01 0.00 0.00 2.74
2525 2681 2.158711 TCCAGGCCATAAGATGCAAGAG 60.159 50.000 5.01 0.00 0.00 2.85
2591 2750 3.255642 TGATTCCTGGTTTGCTTTGCTAC 59.744 43.478 0.00 0.00 0.00 3.58
2596 2757 2.362077 CTGGTTTGCTTTGCTACCACTT 59.638 45.455 11.10 0.00 38.36 3.16
2604 2765 6.233905 TGCTTTGCTACCACTTAGATCATA 57.766 37.500 0.00 0.00 0.00 2.15
2813 2991 1.193462 CCCTGCCTCCCAAATTTGCA 61.193 55.000 12.92 6.33 0.00 4.08
2822 3000 5.792741 CCTCCCAAATTTGCATTAGTTTCA 58.207 37.500 12.92 0.00 0.00 2.69
2899 3077 0.994995 CTGCAAGATGAGACGTTCGG 59.005 55.000 0.00 0.00 34.07 4.30
2915 3099 1.142748 CGGTCCTGGTCATGCTCTC 59.857 63.158 0.00 0.00 0.00 3.20
2970 3154 4.689612 TTCTGTATCACTTCCATAGCCC 57.310 45.455 0.00 0.00 0.00 5.19
3010 3194 3.262660 TGTCCATTATGCAATTTGGGCAA 59.737 39.130 14.78 2.29 45.60 4.52
3032 3224 5.957771 ATTCAGGAGGTTAACAGATGCTA 57.042 39.130 8.10 0.00 0.00 3.49
3091 3284 6.211584 TGTGTATTTTGGCCCTTAATTAGCAA 59.788 34.615 0.00 0.00 0.00 3.91
3145 3338 5.569355 TGATTGAAGAAATAGCCTTGGTGA 58.431 37.500 0.00 0.00 0.00 4.02
3178 3371 2.145397 TGGGAGTACTGCTAGTCCTG 57.855 55.000 14.52 0.00 41.02 3.86
3210 3403 6.756074 TGCTGTTTTCTGTTTCCATAGTTTTG 59.244 34.615 0.00 0.00 0.00 2.44
3226 3419 8.432359 CCATAGTTTTGCGTTTATTTTTCCTTC 58.568 33.333 0.00 0.00 0.00 3.46
3245 3438 4.323868 CCTTCGTTCATGTAGAAACGAGTC 59.676 45.833 16.49 0.00 39.27 3.36
3246 3439 4.492791 TCGTTCATGTAGAAACGAGTCA 57.507 40.909 14.07 0.00 38.13 3.41
3258 3456 0.247736 ACGAGTCAAGGATGTGCTCC 59.752 55.000 0.00 0.00 45.33 4.70
3261 3466 0.842030 AGTCAAGGATGTGCTCCCCA 60.842 55.000 0.00 0.00 46.27 4.96
3264 3469 1.229951 AAGGATGTGCTCCCCAGGA 60.230 57.895 0.00 0.00 46.27 3.86
3314 3520 3.066760 CAGCTTTCCCCGGATAAAACATC 59.933 47.826 0.73 0.00 0.00 3.06
3384 3590 7.914346 ACTAGTTTTAGAATTATGTCGTCTCGG 59.086 37.037 0.00 0.00 0.00 4.63
3387 3593 8.246180 AGTTTTAGAATTATGTCGTCTCGGTTA 58.754 33.333 0.00 0.00 0.00 2.85
3397 3603 2.288729 TCGTCTCGGTTACATGTATCCG 59.711 50.000 34.57 34.57 45.12 4.18
3420 3723 4.470462 CACAAAATGGAGCTCTTTTCTCG 58.530 43.478 14.64 4.85 0.00 4.04
3481 3852 5.481105 CGGGCCTAACGTTGGATTATATTA 58.519 41.667 13.86 0.00 0.00 0.98
3485 3856 7.148137 GGGCCTAACGTTGGATTATATTAATGG 60.148 40.741 13.86 0.00 0.00 3.16
3505 3876 4.127171 TGGGAAACAGAGTTTCTCTTTCG 58.873 43.478 19.66 0.00 38.99 3.46
3533 3904 0.035820 TACGGAATCACCTTGCCCAC 60.036 55.000 0.00 0.00 36.31 4.61
3534 3905 1.002134 CGGAATCACCTTGCCCACT 60.002 57.895 0.00 0.00 36.31 4.00
3539 3910 1.136329 ATCACCTTGCCCACTCACCT 61.136 55.000 0.00 0.00 0.00 4.00
3556 3927 5.701290 ACTCACCTGTTTAGCATTACTTGAC 59.299 40.000 0.00 0.00 0.00 3.18
3576 3947 9.403583 ACTTGACTTTGTCCAGTTTTTAAGATA 57.596 29.630 0.00 0.00 35.46 1.98
3581 3952 9.588096 ACTTTGTCCAGTTTTTAAGATATTCCT 57.412 29.630 0.00 0.00 0.00 3.36
3648 4038 2.366533 CAGAATGCAGCTCCAACTGAT 58.633 47.619 8.85 0.00 40.25 2.90
3701 4092 2.825532 AGCACGACCAAAGGCATTTTAT 59.174 40.909 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.105928 GCATGATGGGGAGGGGGT 61.106 66.667 0.00 0.00 0.00 4.95
36 38 0.249741 ACGTGGCACCAGAACTACAC 60.250 55.000 12.86 0.00 0.00 2.90
39 41 0.973632 ATGACGTGGCACCAGAACTA 59.026 50.000 12.86 0.00 0.00 2.24
41 43 2.024176 ATATGACGTGGCACCAGAAC 57.976 50.000 12.86 0.00 0.00 3.01
42 44 2.746904 CAAATATGACGTGGCACCAGAA 59.253 45.455 12.86 0.00 0.00 3.02
44 46 2.355197 TCAAATATGACGTGGCACCAG 58.645 47.619 12.86 0.98 0.00 4.00
45 47 2.481289 TCAAATATGACGTGGCACCA 57.519 45.000 12.86 5.47 0.00 4.17
46 48 3.190535 AGTTTCAAATATGACGTGGCACC 59.809 43.478 12.86 0.00 34.61 5.01
58 60 4.130857 TCACAGCGAACCAGTTTCAAATA 58.869 39.130 0.00 0.00 33.24 1.40
60 62 2.354510 CTCACAGCGAACCAGTTTCAAA 59.645 45.455 0.00 0.00 33.24 2.69
86 88 6.538021 TGGAAAAGACATTGTTCATTGGTTTG 59.462 34.615 0.00 0.00 0.00 2.93
88 90 6.048509 GTGGAAAAGACATTGTTCATTGGTT 58.951 36.000 0.00 0.00 0.00 3.67
89 91 5.453198 GGTGGAAAAGACATTGTTCATTGGT 60.453 40.000 0.00 0.00 0.00 3.67
93 95 3.305335 GCGGTGGAAAAGACATTGTTCAT 60.305 43.478 0.00 0.00 0.00 2.57
99 101 0.958822 GTGGCGGTGGAAAAGACATT 59.041 50.000 0.00 0.00 0.00 2.71
100 102 0.893727 GGTGGCGGTGGAAAAGACAT 60.894 55.000 0.00 0.00 0.00 3.06
102 104 2.265904 GGGTGGCGGTGGAAAAGAC 61.266 63.158 0.00 0.00 0.00 3.01
112 114 3.976701 CTAGCAAGTGGGGTGGCGG 62.977 68.421 0.00 0.00 0.00 6.13
113 115 2.436646 CTAGCAAGTGGGGTGGCG 60.437 66.667 0.00 0.00 0.00 5.69
114 116 2.757077 ACTAGCAAGTGGGGTGGC 59.243 61.111 0.00 0.00 33.57 5.01
136 146 0.036732 GTCCTCCATGTGCAAGACCA 59.963 55.000 0.00 0.00 0.00 4.02
137 147 0.678048 GGTCCTCCATGTGCAAGACC 60.678 60.000 0.00 0.00 37.25 3.85
138 148 0.678048 GGGTCCTCCATGTGCAAGAC 60.678 60.000 0.00 0.00 35.00 3.01
139 149 0.842030 AGGGTCCTCCATGTGCAAGA 60.842 55.000 0.00 0.00 38.24 3.02
140 150 0.679002 CAGGGTCCTCCATGTGCAAG 60.679 60.000 0.00 0.00 40.22 4.01
141 151 1.379916 CAGGGTCCTCCATGTGCAA 59.620 57.895 0.00 0.00 40.22 4.08
142 152 2.605607 CCAGGGTCCTCCATGTGCA 61.606 63.158 0.00 0.00 43.13 4.57
143 153 2.142292 AACCAGGGTCCTCCATGTGC 62.142 60.000 0.00 0.00 43.13 4.57
144 154 0.405585 AAACCAGGGTCCTCCATGTG 59.594 55.000 0.00 0.00 43.13 3.21
145 155 0.405585 CAAACCAGGGTCCTCCATGT 59.594 55.000 0.00 0.00 43.13 3.21
146 156 0.698238 TCAAACCAGGGTCCTCCATG 59.302 55.000 0.00 0.00 44.12 3.66
147 157 1.455822 TTCAAACCAGGGTCCTCCAT 58.544 50.000 0.00 0.00 38.24 3.41
148 158 1.354368 GATTCAAACCAGGGTCCTCCA 59.646 52.381 0.00 0.00 38.24 3.86
149 159 1.341089 GGATTCAAACCAGGGTCCTCC 60.341 57.143 0.00 0.00 0.00 4.30
150 160 1.341089 GGGATTCAAACCAGGGTCCTC 60.341 57.143 0.00 0.00 0.00 3.71
151 161 0.704664 GGGATTCAAACCAGGGTCCT 59.295 55.000 0.00 0.00 0.00 3.85
152 162 0.407918 TGGGATTCAAACCAGGGTCC 59.592 55.000 0.00 0.00 31.92 4.46
153 163 2.302587 TTGGGATTCAAACCAGGGTC 57.697 50.000 0.00 0.00 38.16 4.46
154 164 4.625225 ATATTGGGATTCAAACCAGGGT 57.375 40.909 0.00 0.00 39.05 4.34
155 165 5.955961 AAATATTGGGATTCAAACCAGGG 57.044 39.130 0.00 0.00 39.05 4.45
191 205 6.127366 GGAAGAAAAATGCCATCATGGTTCTA 60.127 38.462 5.31 0.00 40.46 2.10
192 206 5.337813 GGAAGAAAAATGCCATCATGGTTCT 60.338 40.000 5.31 3.04 40.46 3.01
295 309 8.342634 ACTGCCATGCTAATTTATAAACTAACG 58.657 33.333 0.00 0.00 0.00 3.18
388 422 8.454570 AAAATGCCATCAAGAAAAGAAAATGT 57.545 26.923 0.00 0.00 0.00 2.71
423 459 8.000709 ACCATCTCTTCATAAAAATGCCATCTA 58.999 33.333 0.00 0.00 0.00 1.98
481 535 8.593492 AAAAATGCAATCTCTTAAAAGTGACC 57.407 30.769 0.00 0.00 32.09 4.02
507 561 8.785329 AACTTTGGCTCTGTTAATTTTTGAAA 57.215 26.923 0.00 0.00 0.00 2.69
508 562 8.785329 AAACTTTGGCTCTGTTAATTTTTGAA 57.215 26.923 0.00 0.00 0.00 2.69
509 563 8.663911 CAAAACTTTGGCTCTGTTAATTTTTGA 58.336 29.630 0.00 0.00 33.89 2.69
525 579 8.026607 TCAGTAAAAACAGAGACAAAACTTTGG 58.973 33.333 7.09 0.00 42.34 3.28
533 587 5.008613 GCCATGTCAGTAAAAACAGAGACAA 59.991 40.000 0.00 0.00 39.17 3.18
535 589 4.515191 TGCCATGTCAGTAAAAACAGAGAC 59.485 41.667 0.00 0.00 0.00 3.36
561 615 7.559533 TGGTCCACTGTGCAAAAATACATATAT 59.440 33.333 1.29 0.00 0.00 0.86
563 617 5.714333 TGGTCCACTGTGCAAAAATACATAT 59.286 36.000 1.29 0.00 0.00 1.78
567 621 4.202111 ACTTGGTCCACTGTGCAAAAATAC 60.202 41.667 1.29 0.00 0.00 1.89
568 622 3.957497 ACTTGGTCCACTGTGCAAAAATA 59.043 39.130 1.29 0.00 0.00 1.40
580 635 4.379339 TGTTTTGCTTTACTTGGTCCAC 57.621 40.909 0.00 0.00 0.00 4.02
648 731 1.248101 CCAAAGGCCCGGTTTACTGG 61.248 60.000 0.00 0.48 42.13 4.00
698 781 4.793216 CAGTCTTTTTGTTTCTGAACGGTG 59.207 41.667 0.00 0.00 38.65 4.94
704 787 3.275143 TCGGCAGTCTTTTTGTTTCTGA 58.725 40.909 0.00 0.00 0.00 3.27
705 788 3.065371 ACTCGGCAGTCTTTTTGTTTCTG 59.935 43.478 0.00 0.00 0.00 3.02
707 790 3.618698 GACTCGGCAGTCTTTTTGTTTC 58.381 45.455 9.05 0.00 45.20 2.78
759 842 2.770164 AATTAGGTCTTGCAGCGTCT 57.230 45.000 0.00 0.00 0.00 4.18
760 843 3.831715 AAAATTAGGTCTTGCAGCGTC 57.168 42.857 0.00 0.00 0.00 5.19
761 844 3.364964 CGAAAAATTAGGTCTTGCAGCGT 60.365 43.478 0.00 0.00 0.00 5.07
783 892 1.202627 AGCTCGATCAAGAGGAATGGC 60.203 52.381 0.00 0.00 38.63 4.40
824 933 1.265635 GATCGATCTGGAGTCCACGAG 59.734 57.143 22.90 9.52 34.12 4.18
897 1011 1.834822 CCGAGGCTAGGAGGGGAAG 60.835 68.421 8.08 0.00 0.00 3.46
898 1012 2.282446 CCGAGGCTAGGAGGGGAA 59.718 66.667 8.08 0.00 0.00 3.97
958 1072 0.105964 TTGGTTGAGTGAGGTGACCG 59.894 55.000 0.00 0.00 33.07 4.79
959 1073 1.884235 CTTGGTTGAGTGAGGTGACC 58.116 55.000 0.00 0.00 0.00 4.02
963 1077 1.071471 CGGCTTGGTTGAGTGAGGT 59.929 57.895 0.00 0.00 0.00 3.85
999 1113 0.947244 GCGTGCTCCCATGGAATTAG 59.053 55.000 15.22 6.17 0.00 1.73
1017 1131 2.806856 CGTCAGAATGCGCTCCAGC 61.807 63.158 9.73 0.00 34.76 4.85
1018 1132 3.392431 CGTCAGAATGCGCTCCAG 58.608 61.111 9.73 0.00 34.76 3.86
1025 1139 1.975363 GCTCACCTGCGTCAGAATGC 61.975 60.000 8.20 4.26 37.95 3.56
1026 1140 0.671472 TGCTCACCTGCGTCAGAATG 60.671 55.000 8.20 6.59 32.44 2.67
1027 1141 0.251354 ATGCTCACCTGCGTCAGAAT 59.749 50.000 8.20 0.00 32.44 2.40
1028 1142 0.390340 GATGCTCACCTGCGTCAGAA 60.390 55.000 8.20 0.00 45.42 3.02
1029 1143 1.216444 GATGCTCACCTGCGTCAGA 59.784 57.895 8.20 0.00 45.42 3.27
1099 1214 5.492895 TGGCACGAATACAGGAAAGATTTA 58.507 37.500 0.00 0.00 0.00 1.40
1122 1237 0.250338 GGCGTGTTCCTTCACTTCCT 60.250 55.000 0.00 0.00 36.33 3.36
1123 1238 1.235281 GGGCGTGTTCCTTCACTTCC 61.235 60.000 0.00 0.00 36.33 3.46
1127 1242 3.723348 GCGGGCGTGTTCCTTCAC 61.723 66.667 0.00 0.00 35.28 3.18
1181 1300 2.797278 GGGACGCACGGAGATGGAT 61.797 63.158 0.00 0.00 0.00 3.41
1206 1326 1.228154 GAGGTGCGGTCAAACCCTT 60.228 57.895 0.00 0.00 37.13 3.95
1212 1332 1.841556 AGGAAGGAGGTGCGGTCAA 60.842 57.895 0.00 0.00 0.00 3.18
1213 1333 2.203788 AGGAAGGAGGTGCGGTCA 60.204 61.111 0.00 0.00 0.00 4.02
1214 1334 1.255667 TACAGGAAGGAGGTGCGGTC 61.256 60.000 0.00 0.00 0.00 4.79
1218 1346 0.977395 ACAGTACAGGAAGGAGGTGC 59.023 55.000 0.00 0.00 0.00 5.01
1272 1400 2.896685 CTCCTTCAGAGTTCAGACCAGT 59.103 50.000 0.00 0.00 37.87 4.00
1299 1427 1.154654 GAACTGAAAAGACGCGGCG 60.155 57.895 22.36 22.36 0.00 6.46
1352 1484 2.124109 TTGAACAGGGTTGCGCCA 60.124 55.556 4.18 0.00 39.65 5.69
1368 1500 2.537714 ATCTCCTCGGGCAGGTCCTT 62.538 60.000 0.00 0.00 43.95 3.36
1466 1598 3.947196 GCATGAATTCAGGTGTGGATGTA 59.053 43.478 20.25 0.00 0.00 2.29
1534 1666 4.424711 GATTGGCAGGCCGTCCCA 62.425 66.667 12.85 10.39 39.42 4.37
1619 1757 0.369248 GATCCTCGAAACGGCGTTTC 59.631 55.000 40.81 40.81 45.65 2.78
1632 1770 0.107945 ACGCCTTTGAGCTGATCCTC 60.108 55.000 0.00 0.00 0.00 3.71
1635 1773 1.005340 CAGACGCCTTTGAGCTGATC 58.995 55.000 0.00 0.00 0.00 2.92
1645 1783 0.674895 GAAGCCATCACAGACGCCTT 60.675 55.000 0.00 0.00 0.00 4.35
1778 1916 0.107214 CAGTTGGATGGTGCCGGTAT 60.107 55.000 1.90 0.00 0.00 2.73
1859 2003 1.625315 CTGTTGGATCCCACTGTGAGA 59.375 52.381 16.43 0.90 30.78 3.27
1875 2019 0.896940 CTGATGCACCTTGGCCTGTT 60.897 55.000 3.32 0.00 0.00 3.16
1900 2044 3.945921 AGATGATGAGACTGTTGGCATTG 59.054 43.478 0.00 0.00 0.00 2.82
1950 2094 1.344438 ACGGTCAGATGAAGAGTGCAA 59.656 47.619 0.00 0.00 0.00 4.08
1954 2098 3.511540 TGATGAACGGTCAGATGAAGAGT 59.488 43.478 9.97 0.00 37.14 3.24
1968 2112 2.095110 TGTAGTGTACGGGTGATGAACG 60.095 50.000 0.00 0.00 0.00 3.95
1986 2130 0.961857 CAGTGCAGGCTGCCATTGTA 60.962 55.000 34.58 14.01 44.23 2.41
1989 2133 2.678934 CCAGTGCAGGCTGCCATT 60.679 61.111 34.58 18.18 44.23 3.16
2010 2154 7.658167 TCCTGTAATTTCACGTTTGTCATAAGA 59.342 33.333 0.00 0.00 0.00 2.10
2021 2165 2.370849 ACCACCTCCTGTAATTTCACGT 59.629 45.455 0.00 0.00 0.00 4.49
2022 2166 2.742053 CACCACCTCCTGTAATTTCACG 59.258 50.000 0.00 0.00 0.00 4.35
2027 2171 2.915869 TCTCCACCACCTCCTGTAATT 58.084 47.619 0.00 0.00 0.00 1.40
2039 2183 6.097129 TGTCGTACACAATAATATCTCCACCA 59.903 38.462 0.00 0.00 29.30 4.17
2059 2203 3.735237 ATGACTCTGTTTCTGTGTCGT 57.265 42.857 0.00 0.00 31.69 4.34
2222 2372 3.945640 ATCCGGTACTTAAAAGCCCAT 57.054 42.857 0.00 0.00 0.00 4.00
2247 2397 0.605319 GATGCCTCCACCGTTGACAA 60.605 55.000 0.00 0.00 0.00 3.18
2312 2462 3.940852 ACAATTGCACTGCATATTCGAGA 59.059 39.130 4.10 0.00 38.76 4.04
2320 2470 7.439955 CCATATCATTAAACAATTGCACTGCAT 59.560 33.333 4.10 0.00 38.76 3.96
2391 2541 4.187694 TCAATATCACAGCGCAACACATA 58.812 39.130 11.47 0.00 0.00 2.29
2476 2626 0.615331 AATGCTCTCTTTGAGGCGGA 59.385 50.000 0.00 0.00 42.87 5.54
2514 2664 2.158784 GCTCCTCATCCTCTTGCATCTT 60.159 50.000 0.00 0.00 0.00 2.40
2525 2681 1.347378 GAGAATGGAGGCTCCTCATCC 59.653 57.143 32.28 17.03 45.56 3.51
2596 2757 9.806448 AGAGCTAAGAACAGAAGATATGATCTA 57.194 33.333 0.00 0.00 39.08 1.98
2604 2765 8.361169 AGTAAGAAGAGCTAAGAACAGAAGAT 57.639 34.615 0.00 0.00 0.00 2.40
2642 2810 2.616510 GGCATGTTCTACTGCTGGTCTT 60.617 50.000 0.00 0.00 38.45 3.01
2789 2967 1.284841 ATTTGGGAGGCAGGGAGGAG 61.285 60.000 0.00 0.00 0.00 3.69
2813 2991 5.277345 GCATCTTAACCGCGATGAAACTAAT 60.277 40.000 8.23 0.00 39.43 1.73
2822 3000 1.665679 CTTGTGCATCTTAACCGCGAT 59.334 47.619 8.23 0.00 0.00 4.58
2899 3077 1.136695 CTCAGAGAGCATGACCAGGAC 59.863 57.143 0.00 0.00 0.00 3.85
2915 3099 4.074970 ACACTAAAAATGCCTCCACTCAG 58.925 43.478 0.00 0.00 0.00 3.35
2970 3154 4.452114 TGGACAACAGAGATCAAATTGACG 59.548 41.667 0.00 0.00 0.00 4.35
3010 3194 4.851639 AGCATCTGTTAACCTCCTGAAT 57.148 40.909 2.48 0.00 0.00 2.57
3032 3224 8.402798 TCCTAATAAAACATGTTGACACACAT 57.597 30.769 12.82 0.00 37.93 3.21
3063 3255 6.865834 AATTAAGGGCCAAAATACACATGA 57.134 33.333 6.18 0.00 0.00 3.07
3074 3266 5.816955 AAACTTTGCTAATTAAGGGCCAA 57.183 34.783 6.18 0.00 0.00 4.52
3118 3311 7.284034 CACCAAGGCTATTTCTTCAATCATAGT 59.716 37.037 0.00 0.00 0.00 2.12
3134 3327 3.737559 ATGACCAAATCACCAAGGCTA 57.262 42.857 0.00 0.00 41.24 3.93
3145 3338 6.122277 CAGTACTCCCAACATATGACCAAAT 58.878 40.000 10.38 0.00 0.00 2.32
3178 3371 4.566759 GGAAACAGAAAACAGCAGGAAAAC 59.433 41.667 0.00 0.00 0.00 2.43
3210 3403 5.627780 ACATGAACGAAGGAAAAATAAACGC 59.372 36.000 0.00 0.00 0.00 4.84
3226 3419 4.090066 CCTTGACTCGTTTCTACATGAACG 59.910 45.833 10.27 10.27 33.88 3.95
3258 3456 3.760684 GGCATATTTATCTTGCTCCTGGG 59.239 47.826 0.00 0.00 36.62 4.45
3261 3466 5.839517 AGAGGCATATTTATCTTGCTCCT 57.160 39.130 0.00 0.00 36.62 3.69
3264 3469 6.489361 CCAAGAAGAGGCATATTTATCTTGCT 59.511 38.462 7.01 0.00 40.39 3.91
3365 3571 7.087409 TGTAACCGAGACGACATAATTCTAA 57.913 36.000 0.00 0.00 0.00 2.10
3368 3574 5.747197 ACATGTAACCGAGACGACATAATTC 59.253 40.000 0.00 0.00 31.41 2.17
3369 3575 5.657474 ACATGTAACCGAGACGACATAATT 58.343 37.500 0.00 0.00 31.41 1.40
3384 3590 5.034152 CCATTTTGTGCGGATACATGTAAC 58.966 41.667 10.14 7.16 0.00 2.50
3387 3593 3.351740 TCCATTTTGTGCGGATACATGT 58.648 40.909 2.69 2.69 0.00 3.21
3397 3603 4.233005 GAGAAAAGAGCTCCATTTTGTGC 58.767 43.478 16.02 4.89 0.00 4.57
3420 3723 1.817099 CCGGCATCTCAGTTGAGCC 60.817 63.158 4.25 2.92 41.80 4.70
3458 3812 2.249844 ATAATCCAACGTTAGGCCCG 57.750 50.000 0.00 0.00 0.00 6.13
3481 3852 6.641169 GAAAGAGAAACTCTGTTTCCCATT 57.359 37.500 16.51 7.09 45.54 3.16
3498 3869 6.365247 TGATTCCGTAAAGTTCTTCGAAAGAG 59.635 38.462 0.00 0.00 43.69 2.85
3505 3876 5.617087 GCAAGGTGATTCCGTAAAGTTCTTC 60.617 44.000 0.00 0.00 41.99 2.87
3533 3904 5.934625 AGTCAAGTAATGCTAAACAGGTGAG 59.065 40.000 0.00 0.00 0.00 3.51
3534 3905 5.865085 AGTCAAGTAATGCTAAACAGGTGA 58.135 37.500 0.00 0.00 0.00 4.02
3539 3910 6.544197 TGGACAAAGTCAAGTAATGCTAAACA 59.456 34.615 0.00 0.00 33.68 2.83
3576 3947 4.325344 CCTTGGGTCAACTGGATTAGGAAT 60.325 45.833 0.00 0.00 0.00 3.01
3578 3949 2.576191 CCTTGGGTCAACTGGATTAGGA 59.424 50.000 0.00 0.00 0.00 2.94
3581 3952 2.307686 GACCCTTGGGTCAACTGGATTA 59.692 50.000 28.49 0.00 38.62 1.75
3611 4001 5.063438 GCATTCTGCAATTACTACGACAGAA 59.937 40.000 5.79 5.79 45.22 3.02
3648 4038 3.576078 TCCAAGAAGCTTTTGACTCCA 57.424 42.857 17.53 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.