Multiple sequence alignment - TraesCS6D01G307600

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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 TraesCS6D01G307600 chr6D 100.000 2375 0 0 1 2375 418731982 418734356 0.000000e+00 4386.0
1 TraesCS6D01G307600 chr6D 92.949 780 34 10 943 1712 418770023 418769255 0.000000e+00 1116.0
2 TraesCS6D01G307600 chr6D 84.310 580 46 28 202 749 418883778 418883212 2.090000e-145 525.0
3 TraesCS6D01G307600 chr6D 84.854 548 43 13 271 815 418770714 418770204 1.260000e-142 516.0
4 TraesCS6D01G307600 chr6D 88.957 163 17 1 12 174 452911242 452911403 1.440000e-47 200.0
5 TraesCS6D01G307600 chr6D 93.750 48 1 1 1746 1793 418769241 418769196 1.180000e-08 71.3
6 TraesCS6D01G307600 chr6B 92.198 910 32 16 815 1710 631193170 631194054 0.000000e+00 1251.0
7 TraesCS6D01G307600 chr6B 94.643 616 21 4 1750 2364 631194235 631194839 0.000000e+00 944.0
8 TraesCS6D01G307600 chr6B 89.118 680 37 14 943 1604 631246118 631245458 0.000000e+00 811.0
9 TraesCS6D01G307600 chr6B 86.037 709 46 24 830 1526 631741230 631740563 0.000000e+00 712.0
10 TraesCS6D01G307600 chr6B 87.072 642 51 12 175 815 631192520 631193130 0.000000e+00 697.0
11 TraesCS6D01G307600 chr6B 88.156 591 40 16 940 1528 631843969 631843407 0.000000e+00 676.0
12 TraesCS6D01G307600 chr6B 87.479 583 36 14 830 1404 631534986 631534433 2.570000e-179 638.0
13 TraesCS6D01G307600 chr6B 84.274 585 39 29 1602 2167 631245274 631244724 2.710000e-144 521.0
14 TraesCS6D01G307600 chr6B 86.214 486 39 20 280 748 631535623 631535149 3.520000e-138 501.0
15 TraesCS6D01G307600 chr6B 82.444 581 56 21 175 749 631741884 631741344 1.290000e-127 466.0
16 TraesCS6D01G307600 chr6B 91.228 57 1 3 1628 1681 630918911 630918856 9.100000e-10 75.0
17 TraesCS6D01G307600 chr6B 100.000 36 0 0 814 849 631246253 631246218 1.520000e-07 67.6
18 TraesCS6D01G307600 chr6A 89.858 917 46 25 830 1709 562400646 562399740 0.000000e+00 1134.0
19 TraesCS6D01G307600 chr6A 84.701 804 46 35 937 1681 562271928 562272713 0.000000e+00 732.0
20 TraesCS6D01G307600 chr6A 89.127 561 34 14 844 1404 562250747 562251280 0.000000e+00 673.0
21 TraesCS6D01G307600 chr6A 89.847 522 29 7 886 1404 562470580 562470080 0.000000e+00 649.0
22 TraesCS6D01G307600 chr6A 83.651 630 53 31 223 815 562471301 562470685 4.460000e-152 547.0
23 TraesCS6D01G307600 chr6A 87.990 408 32 7 175 574 562249589 562249987 1.290000e-127 466.0
24 TraesCS6D01G307600 chr6A 82.290 559 48 23 271 815 562271221 562271742 1.010000e-118 436.0
25 TraesCS6D01G307600 chr6A 91.045 268 23 1 483 749 562402220 562401953 6.240000e-96 361.0
26 TraesCS6D01G307600 chr6A 85.600 125 7 5 611 735 562250432 562250545 1.150000e-23 121.0
27 TraesCS6D01G307600 chr6A 80.952 126 14 6 1566 1681 291949382 291949257 9.040000e-15 91.6
28 TraesCS6D01G307600 chr6A 100.000 36 0 0 814 849 562271798 562271833 1.520000e-07 67.6
29 TraesCS6D01G307600 chr5D 91.716 169 13 1 1 169 489304186 489304353 1.420000e-57 233.0
30 TraesCS6D01G307600 chr5D 85.030 167 22 3 11 176 406476752 406476916 1.460000e-37 167.0
31 TraesCS6D01G307600 chr7D 87.209 172 21 1 1 172 26811007 26810837 6.700000e-46 195.0
32 TraesCS6D01G307600 chr2D 87.654 162 19 1 12 173 8972227 8972387 1.120000e-43 187.0
33 TraesCS6D01G307600 chr2D 85.549 173 23 2 1 173 191658954 191658784 1.880000e-41 180.0
34 TraesCS6D01G307600 chr2D 86.335 161 19 2 12 172 575685110 575684953 3.140000e-39 172.0
35 TraesCS6D01G307600 chr7B 86.391 169 20 3 5 172 691192451 691192285 5.210000e-42 182.0
36 TraesCS6D01G307600 chr5A 85.714 161 21 2 12 172 28419620 28419778 4.060000e-38 169.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G307600 chr6D 418731982 418734356 2374 False 4386.000000 4386 100.000000 1 2375 1 chr6D.!!$F1 2374
1 TraesCS6D01G307600 chr6D 418769196 418770714 1518 True 567.766667 1116 90.517667 271 1793 3 chr6D.!!$R2 1522
2 TraesCS6D01G307600 chr6D 418883212 418883778 566 True 525.000000 525 84.310000 202 749 1 chr6D.!!$R1 547
3 TraesCS6D01G307600 chr6B 631192520 631194839 2319 False 964.000000 1251 91.304333 175 2364 3 chr6B.!!$F1 2189
4 TraesCS6D01G307600 chr6B 631843407 631843969 562 True 676.000000 676 88.156000 940 1528 1 chr6B.!!$R2 588
5 TraesCS6D01G307600 chr6B 631740563 631741884 1321 True 589.000000 712 84.240500 175 1526 2 chr6B.!!$R5 1351
6 TraesCS6D01G307600 chr6B 631534433 631535623 1190 True 569.500000 638 86.846500 280 1404 2 chr6B.!!$R4 1124
7 TraesCS6D01G307600 chr6B 631244724 631246253 1529 True 466.533333 811 91.130667 814 2167 3 chr6B.!!$R3 1353
8 TraesCS6D01G307600 chr6A 562399740 562402220 2480 True 747.500000 1134 90.451500 483 1709 2 chr6A.!!$R2 1226
9 TraesCS6D01G307600 chr6A 562470080 562471301 1221 True 598.000000 649 86.749000 223 1404 2 chr6A.!!$R3 1181
10 TraesCS6D01G307600 chr6A 562249589 562251280 1691 False 420.000000 673 87.572333 175 1404 3 chr6A.!!$F1 1229
11 TraesCS6D01G307600 chr6A 562271221 562272713 1492 False 411.866667 732 88.997000 271 1681 3 chr6A.!!$F2 1410

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
808 2444 0.652592 GCCATACGTACAAGCAGCAG 59.347 55.0 0.0 0.0 0.0 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1958 4148 0.794473 GGAAAGAAACGCGGTACCTG 59.206 55.0 12.47 4.83 0.0 4.0 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
21 22 3.855668 TCAACAAAAATGGGATCCACCT 58.144 40.909 15.23 0.00 35.80 4.00
22 23 3.577848 TCAACAAAAATGGGATCCACCTG 59.422 43.478 15.23 4.17 35.80 4.00
23 24 3.258722 ACAAAAATGGGATCCACCTGT 57.741 42.857 15.23 4.81 35.80 4.00
24 25 3.165071 ACAAAAATGGGATCCACCTGTC 58.835 45.455 15.23 0.00 35.80 3.51
25 26 3.164268 CAAAAATGGGATCCACCTGTCA 58.836 45.455 15.23 0.77 35.80 3.58
26 27 3.763557 AAAATGGGATCCACCTGTCAT 57.236 42.857 15.23 3.47 35.80 3.06
27 28 4.879295 AAAATGGGATCCACCTGTCATA 57.121 40.909 15.23 0.00 35.80 2.15
28 29 4.879295 AAATGGGATCCACCTGTCATAA 57.121 40.909 15.23 0.00 35.80 1.90
29 30 5.408079 AAATGGGATCCACCTGTCATAAT 57.592 39.130 15.23 0.00 35.80 1.28
30 31 4.647564 ATGGGATCCACCTGTCATAATC 57.352 45.455 15.23 0.00 35.80 1.75
31 32 3.392730 TGGGATCCACCTGTCATAATCA 58.607 45.455 15.23 0.00 38.98 2.57
32 33 3.392285 TGGGATCCACCTGTCATAATCAG 59.608 47.826 15.23 0.00 38.98 2.90
42 43 6.573664 CCTGTCATAATCAGGTTCAAAACA 57.426 37.500 4.06 0.00 45.09 2.83
43 44 6.980593 CCTGTCATAATCAGGTTCAAAACAA 58.019 36.000 4.06 0.00 45.09 2.83
44 45 6.863126 CCTGTCATAATCAGGTTCAAAACAAC 59.137 38.462 4.06 0.00 45.09 3.32
45 46 6.744112 TGTCATAATCAGGTTCAAAACAACC 58.256 36.000 0.00 0.00 45.66 3.77
53 54 4.600692 GGTTCAAAACAACCTAAGCCAT 57.399 40.909 0.00 0.00 42.46 4.40
54 55 4.556233 GGTTCAAAACAACCTAAGCCATC 58.444 43.478 0.00 0.00 42.46 3.51
55 56 4.556233 GTTCAAAACAACCTAAGCCATCC 58.444 43.478 0.00 0.00 0.00 3.51
56 57 3.838565 TCAAAACAACCTAAGCCATCCA 58.161 40.909 0.00 0.00 0.00 3.41
57 58 4.219115 TCAAAACAACCTAAGCCATCCAA 58.781 39.130 0.00 0.00 0.00 3.53
58 59 4.837860 TCAAAACAACCTAAGCCATCCAAT 59.162 37.500 0.00 0.00 0.00 3.16
59 60 6.013379 TCAAAACAACCTAAGCCATCCAATA 58.987 36.000 0.00 0.00 0.00 1.90
60 61 6.152661 TCAAAACAACCTAAGCCATCCAATAG 59.847 38.462 0.00 0.00 0.00 1.73
61 62 4.862641 ACAACCTAAGCCATCCAATAGT 57.137 40.909 0.00 0.00 0.00 2.12
62 63 4.526970 ACAACCTAAGCCATCCAATAGTG 58.473 43.478 0.00 0.00 0.00 2.74
63 64 4.018415 ACAACCTAAGCCATCCAATAGTGT 60.018 41.667 0.00 0.00 0.00 3.55
64 65 4.862641 ACCTAAGCCATCCAATAGTGTT 57.137 40.909 0.00 0.00 0.00 3.32
65 66 5.193099 ACCTAAGCCATCCAATAGTGTTT 57.807 39.130 0.00 0.00 0.00 2.83
66 67 5.580022 ACCTAAGCCATCCAATAGTGTTTT 58.420 37.500 0.00 0.00 0.00 2.43
67 68 5.652452 ACCTAAGCCATCCAATAGTGTTTTC 59.348 40.000 0.00 0.00 0.00 2.29
68 69 5.888161 CCTAAGCCATCCAATAGTGTTTTCT 59.112 40.000 0.00 0.00 0.00 2.52
69 70 6.378280 CCTAAGCCATCCAATAGTGTTTTCTT 59.622 38.462 0.00 0.00 0.00 2.52
70 71 6.670695 AAGCCATCCAATAGTGTTTTCTTT 57.329 33.333 0.00 0.00 0.00 2.52
71 72 7.775053 AAGCCATCCAATAGTGTTTTCTTTA 57.225 32.000 0.00 0.00 0.00 1.85
72 73 7.775053 AGCCATCCAATAGTGTTTTCTTTAA 57.225 32.000 0.00 0.00 0.00 1.52
73 74 8.189119 AGCCATCCAATAGTGTTTTCTTTAAA 57.811 30.769 0.00 0.00 0.00 1.52
74 75 8.646900 AGCCATCCAATAGTGTTTTCTTTAAAA 58.353 29.630 0.00 0.00 32.15 1.52
75 76 9.267084 GCCATCCAATAGTGTTTTCTTTAAAAA 57.733 29.630 0.00 0.00 36.37 1.94
97 98 7.881775 AAAAATTAGCCTCGGAATTAGTGAT 57.118 32.000 0.00 0.00 0.00 3.06
98 99 7.881775 AAAATTAGCCTCGGAATTAGTGATT 57.118 32.000 0.00 0.00 0.00 2.57
99 100 7.881775 AAATTAGCCTCGGAATTAGTGATTT 57.118 32.000 0.00 0.00 0.00 2.17
100 101 7.881775 AATTAGCCTCGGAATTAGTGATTTT 57.118 32.000 0.00 0.00 0.00 1.82
101 102 7.881775 ATTAGCCTCGGAATTAGTGATTTTT 57.118 32.000 0.00 0.00 0.00 1.94
102 103 5.567138 AGCCTCGGAATTAGTGATTTTTG 57.433 39.130 0.00 0.00 0.00 2.44
103 104 4.399303 AGCCTCGGAATTAGTGATTTTTGG 59.601 41.667 0.00 0.00 0.00 3.28
104 105 4.672409 CCTCGGAATTAGTGATTTTTGGC 58.328 43.478 0.00 0.00 0.00 4.52
105 106 4.157656 CCTCGGAATTAGTGATTTTTGGCA 59.842 41.667 0.00 0.00 0.00 4.92
106 107 5.054390 TCGGAATTAGTGATTTTTGGCAC 57.946 39.130 0.00 0.00 35.30 5.01
107 108 4.520874 TCGGAATTAGTGATTTTTGGCACA 59.479 37.500 0.00 0.00 37.48 4.57
131 132 7.649306 ACAAAACTGTAGAATTGTGATTTCTGC 59.351 33.333 6.36 0.00 34.88 4.26
132 133 6.882610 AACTGTAGAATTGTGATTTCTGCA 57.117 33.333 4.56 4.56 0.00 4.41
133 134 6.882610 ACTGTAGAATTGTGATTTCTGCAA 57.117 33.333 5.86 0.00 0.00 4.08
134 135 7.275888 ACTGTAGAATTGTGATTTCTGCAAA 57.724 32.000 5.86 0.00 0.00 3.68
135 136 7.141363 ACTGTAGAATTGTGATTTCTGCAAAC 58.859 34.615 5.86 0.00 0.00 2.93
136 137 6.446318 TGTAGAATTGTGATTTCTGCAAACC 58.554 36.000 2.39 0.00 0.00 3.27
137 138 5.796424 AGAATTGTGATTTCTGCAAACCT 57.204 34.783 0.00 0.00 0.00 3.50
138 139 6.899393 AGAATTGTGATTTCTGCAAACCTA 57.101 33.333 0.00 0.00 0.00 3.08
139 140 6.917533 AGAATTGTGATTTCTGCAAACCTAG 58.082 36.000 0.00 0.00 0.00 3.02
140 141 4.503741 TTGTGATTTCTGCAAACCTAGC 57.496 40.909 0.00 0.00 0.00 3.42
141 142 2.819608 TGTGATTTCTGCAAACCTAGCC 59.180 45.455 0.00 0.00 0.00 3.93
142 143 3.084786 GTGATTTCTGCAAACCTAGCCT 58.915 45.455 0.00 0.00 0.00 4.58
143 144 3.507622 GTGATTTCTGCAAACCTAGCCTT 59.492 43.478 0.00 0.00 0.00 4.35
144 145 4.021981 GTGATTTCTGCAAACCTAGCCTTT 60.022 41.667 0.00 0.00 0.00 3.11
145 146 5.183140 GTGATTTCTGCAAACCTAGCCTTTA 59.817 40.000 0.00 0.00 0.00 1.85
146 147 5.772672 TGATTTCTGCAAACCTAGCCTTTAA 59.227 36.000 0.00 0.00 0.00 1.52
147 148 6.437162 TGATTTCTGCAAACCTAGCCTTTAAT 59.563 34.615 0.00 0.00 0.00 1.40
148 149 7.613801 TGATTTCTGCAAACCTAGCCTTTAATA 59.386 33.333 0.00 0.00 0.00 0.98
149 150 7.954666 TTTCTGCAAACCTAGCCTTTAATAT 57.045 32.000 0.00 0.00 0.00 1.28
150 151 7.568199 TTCTGCAAACCTAGCCTTTAATATC 57.432 36.000 0.00 0.00 0.00 1.63
151 152 5.758296 TCTGCAAACCTAGCCTTTAATATCG 59.242 40.000 0.00 0.00 0.00 2.92
152 153 5.676552 TGCAAACCTAGCCTTTAATATCGA 58.323 37.500 0.00 0.00 0.00 3.59
153 154 6.296026 TGCAAACCTAGCCTTTAATATCGAT 58.704 36.000 2.16 2.16 0.00 3.59
154 155 6.204688 TGCAAACCTAGCCTTTAATATCGATG 59.795 38.462 8.54 0.00 0.00 3.84
155 156 6.426937 GCAAACCTAGCCTTTAATATCGATGA 59.573 38.462 8.54 0.00 0.00 2.92
156 157 7.119846 GCAAACCTAGCCTTTAATATCGATGAT 59.880 37.037 8.54 0.00 0.00 2.45
157 158 9.003658 CAAACCTAGCCTTTAATATCGATGATT 57.996 33.333 8.54 6.74 0.00 2.57
158 159 9.574516 AAACCTAGCCTTTAATATCGATGATTT 57.425 29.630 8.54 1.85 0.00 2.17
159 160 9.574516 AACCTAGCCTTTAATATCGATGATTTT 57.425 29.630 8.54 0.00 0.00 1.82
160 161 9.574516 ACCTAGCCTTTAATATCGATGATTTTT 57.425 29.630 8.54 0.00 0.00 1.94
161 162 9.831737 CCTAGCCTTTAATATCGATGATTTTTG 57.168 33.333 8.54 0.00 0.00 2.44
162 163 9.334693 CTAGCCTTTAATATCGATGATTTTTGC 57.665 33.333 8.54 3.76 0.00 3.68
163 164 7.715657 AGCCTTTAATATCGATGATTTTTGCA 58.284 30.769 8.54 0.00 0.00 4.08
164 165 7.864379 AGCCTTTAATATCGATGATTTTTGCAG 59.136 33.333 8.54 0.00 0.00 4.41
165 166 7.649306 GCCTTTAATATCGATGATTTTTGCAGT 59.351 33.333 8.54 0.00 0.00 4.40
166 167 9.520204 CCTTTAATATCGATGATTTTTGCAGTT 57.480 29.630 8.54 0.00 0.00 3.16
169 170 7.975866 AATATCGATGATTTTTGCAGTTCAC 57.024 32.000 8.54 0.00 0.00 3.18
170 171 5.633830 ATCGATGATTTTTGCAGTTCACT 57.366 34.783 0.00 0.00 0.00 3.41
171 172 5.034554 TCGATGATTTTTGCAGTTCACTC 57.965 39.130 0.00 0.00 0.00 3.51
172 173 3.842428 CGATGATTTTTGCAGTTCACTCG 59.158 43.478 0.00 0.00 0.00 4.18
173 174 3.624326 TGATTTTTGCAGTTCACTCGG 57.376 42.857 0.00 0.00 0.00 4.63
219 220 2.087646 GAAACAGCTAGCAGAAAGGGG 58.912 52.381 18.83 0.00 0.00 4.79
238 239 2.169561 GGGCCCAACAAAGAAAGAAACA 59.830 45.455 19.95 0.00 0.00 2.83
263 264 4.291249 TGCCTAAACCTAGTTCCCAAATCT 59.709 41.667 0.00 0.00 0.00 2.40
284 285 6.627087 TCTGAACAGGAACTTAATCCAGAT 57.373 37.500 1.93 0.00 42.27 2.90
444 452 3.062763 CTCGCTCACACAACTCAAGAAT 58.937 45.455 0.00 0.00 0.00 2.40
457 465 6.431234 ACAACTCAAGAATACAATTCCACCTC 59.569 38.462 0.00 0.00 0.00 3.85
458 466 5.501156 ACTCAAGAATACAATTCCACCTCC 58.499 41.667 0.00 0.00 0.00 4.30
459 467 4.855340 TCAAGAATACAATTCCACCTCCC 58.145 43.478 0.00 0.00 0.00 4.30
460 468 4.290985 TCAAGAATACAATTCCACCTCCCA 59.709 41.667 0.00 0.00 0.00 4.37
461 469 4.236527 AGAATACAATTCCACCTCCCAC 57.763 45.455 0.00 0.00 0.00 4.61
462 470 2.710096 ATACAATTCCACCTCCCACG 57.290 50.000 0.00 0.00 0.00 4.94
514 522 2.027625 GCCACGACCAAAGGACGAG 61.028 63.158 14.23 6.64 42.79 4.18
642 1097 2.743928 CCCTCACCGCAACTGAGC 60.744 66.667 0.00 0.00 34.84 4.26
706 1161 2.604373 CGACGCCGTAACCCGATTATTA 60.604 50.000 0.00 0.00 39.56 0.98
782 2407 4.503314 GGACCGGGTTCCGTAGCG 62.503 72.222 6.32 0.00 46.80 4.26
807 2443 1.081556 CGCCATACGTACAAGCAGCA 61.082 55.000 0.00 0.00 36.87 4.41
808 2444 0.652592 GCCATACGTACAAGCAGCAG 59.347 55.000 0.00 0.00 0.00 4.24
850 2555 3.126343 CAGTCCTATAAAAACCACCGCAC 59.874 47.826 0.00 0.00 0.00 5.34
851 2556 2.421073 GTCCTATAAAAACCACCGCACC 59.579 50.000 0.00 0.00 0.00 5.01
852 2557 2.040012 TCCTATAAAAACCACCGCACCA 59.960 45.455 0.00 0.00 0.00 4.17
853 2558 2.162809 CCTATAAAAACCACCGCACCAC 59.837 50.000 0.00 0.00 0.00 4.16
854 2559 1.693627 ATAAAAACCACCGCACCACA 58.306 45.000 0.00 0.00 0.00 4.17
861 2584 2.045829 ACCGCACCACACACACAA 60.046 55.556 0.00 0.00 0.00 3.33
872 2595 1.268352 ACACACACAAACACACACACC 59.732 47.619 0.00 0.00 0.00 4.16
908 2633 2.203042 GGCTCTAGCTGCCTGCAG 60.203 66.667 14.70 14.70 46.38 4.41
1224 2963 4.477975 CCCTGCTCCGTCGACGAC 62.478 72.222 37.65 25.38 43.02 4.34
1470 3232 0.689080 GAGCAGGGAGGAGTCCATCA 60.689 60.000 12.86 0.00 46.07 3.07
1550 3340 2.692557 GAGATGCTTGAGAGGCAGTAGA 59.307 50.000 0.00 0.00 43.15 2.59
1563 3368 7.609918 TGAGAGGCAGTAGATGATTAGTCTATC 59.390 40.741 0.00 0.00 31.41 2.08
1617 3623 3.682696 TCTTCTGATTCTTGCACATGCT 58.317 40.909 5.31 0.00 42.66 3.79
1694 3716 1.005394 CGTCACAGCCCGGTTTACT 60.005 57.895 0.00 0.00 0.00 2.24
1695 3717 0.244450 CGTCACAGCCCGGTTTACTA 59.756 55.000 0.00 0.00 0.00 1.82
1696 3718 1.134907 CGTCACAGCCCGGTTTACTAT 60.135 52.381 0.00 0.00 0.00 2.12
1697 3719 2.547826 GTCACAGCCCGGTTTACTATC 58.452 52.381 0.00 0.00 0.00 2.08
1822 4001 1.200020 AGTTCGGCAGTGCTAAAATGC 59.800 47.619 16.11 0.00 39.25 3.56
1866 4056 5.923204 ACATCTCTTATCGCTTCAATCCTT 58.077 37.500 0.00 0.00 0.00 3.36
1924 4114 6.802608 ACATGAAAGCAATCACATATTCCAG 58.197 36.000 0.00 0.00 30.82 3.86
1958 4148 3.198853 GCATGGGGTCCTAGGAGAATATC 59.801 52.174 13.15 0.00 0.00 1.63
1989 4179 2.667473 TTCTTTCCGCTGGTAGCTAC 57.333 50.000 15.88 15.88 39.60 3.58
2065 4257 3.056179 GGAGGTGAAGAAAGAGGTGAGAG 60.056 52.174 0.00 0.00 0.00 3.20
2090 4282 2.435586 CACTCGCTTCAGGCCTGG 60.436 66.667 32.23 18.37 37.74 4.45
2092 4284 2.435586 CTCGCTTCAGGCCTGGTG 60.436 66.667 32.23 24.03 37.74 4.17
2094 4286 4.711949 CGCTTCAGGCCTGGTGCT 62.712 66.667 32.32 1.96 40.92 4.40
2095 4287 2.749441 GCTTCAGGCCTGGTGCTC 60.749 66.667 32.23 13.37 40.92 4.26
2096 4288 2.752358 CTTCAGGCCTGGTGCTCA 59.248 61.111 32.23 9.40 40.92 4.26
2097 4289 1.376942 CTTCAGGCCTGGTGCTCAG 60.377 63.158 32.23 14.33 43.00 3.35
2098 4290 1.834856 CTTCAGGCCTGGTGCTCAGA 61.835 60.000 32.23 7.74 46.18 3.27
2099 4291 1.418097 TTCAGGCCTGGTGCTCAGAA 61.418 55.000 32.23 13.83 46.18 3.02
2100 4292 1.376942 CAGGCCTGGTGCTCAGAAG 60.377 63.158 26.14 0.00 46.18 2.85
2264 4462 0.804989 GGCACCTCCGTCATTTTCTG 59.195 55.000 0.00 0.00 0.00 3.02
2283 4481 1.961394 TGACGGAGAGCAGTACAGTTT 59.039 47.619 0.00 0.00 0.00 2.66
2341 4539 5.529060 CCAGAAATCAGCACCTAATTCTACC 59.471 44.000 0.00 0.00 0.00 3.18
2360 4558 1.209128 CTCACTTTCTTGTGCGACGT 58.791 50.000 0.00 0.00 37.81 4.34
2364 4562 4.548494 TCACTTTCTTGTGCGACGTATTA 58.452 39.130 0.00 0.00 37.81 0.98
2365 4563 4.383649 TCACTTTCTTGTGCGACGTATTAC 59.616 41.667 0.00 0.00 37.81 1.89
2366 4564 4.149221 CACTTTCTTGTGCGACGTATTACA 59.851 41.667 0.00 0.00 0.00 2.41
2367 4565 4.149396 ACTTTCTTGTGCGACGTATTACAC 59.851 41.667 0.00 0.00 0.00 2.90
2368 4566 3.564235 TCTTGTGCGACGTATTACACT 57.436 42.857 10.02 0.00 34.14 3.55
2369 4567 3.904571 TCTTGTGCGACGTATTACACTT 58.095 40.909 10.02 0.00 34.14 3.16
2370 4568 4.300803 TCTTGTGCGACGTATTACACTTT 58.699 39.130 10.02 0.00 34.14 2.66
2371 4569 4.746115 TCTTGTGCGACGTATTACACTTTT 59.254 37.500 10.02 0.00 34.14 2.27
2372 4570 5.919707 TCTTGTGCGACGTATTACACTTTTA 59.080 36.000 10.02 0.00 34.14 1.52
2373 4571 5.499268 TGTGCGACGTATTACACTTTTAC 57.501 39.130 10.02 0.00 34.14 2.01
2374 4572 5.221880 TGTGCGACGTATTACACTTTTACT 58.778 37.500 10.02 0.00 34.14 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.577848 CAGGTGGATCCCATTTTTGTTGA 59.422 43.478 9.90 0.00 35.28 3.18
1 2 3.324556 ACAGGTGGATCCCATTTTTGTTG 59.675 43.478 9.90 0.00 35.28 3.33
2 3 3.578282 GACAGGTGGATCCCATTTTTGTT 59.422 43.478 9.90 0.00 35.28 2.83
3 4 3.165071 GACAGGTGGATCCCATTTTTGT 58.835 45.455 9.90 5.28 35.28 2.83
4 5 3.164268 TGACAGGTGGATCCCATTTTTG 58.836 45.455 9.90 1.99 35.28 2.44
5 6 3.541242 TGACAGGTGGATCCCATTTTT 57.459 42.857 9.90 0.00 35.28 1.94
6 7 3.763557 ATGACAGGTGGATCCCATTTT 57.236 42.857 9.90 0.00 35.28 1.82
7 8 4.879295 TTATGACAGGTGGATCCCATTT 57.121 40.909 9.90 0.00 35.28 2.32
8 9 4.416513 TGATTATGACAGGTGGATCCCATT 59.583 41.667 9.90 0.00 35.28 3.16
9 10 3.982730 TGATTATGACAGGTGGATCCCAT 59.017 43.478 9.90 6.72 35.28 4.00
10 11 3.392285 CTGATTATGACAGGTGGATCCCA 59.608 47.826 9.90 0.00 36.75 4.37
11 12 3.244700 CCTGATTATGACAGGTGGATCCC 60.245 52.174 9.90 0.00 46.71 3.85
12 13 4.013267 CCTGATTATGACAGGTGGATCC 57.987 50.000 4.20 4.20 46.71 3.36
20 21 6.863126 GGTTGTTTTGAACCTGATTATGACAG 59.137 38.462 0.00 0.00 42.03 3.51
21 22 6.744112 GGTTGTTTTGAACCTGATTATGACA 58.256 36.000 0.00 0.00 42.03 3.58
32 33 4.556233 GATGGCTTAGGTTGTTTTGAACC 58.444 43.478 0.00 0.00 45.16 3.62
33 34 4.038642 TGGATGGCTTAGGTTGTTTTGAAC 59.961 41.667 0.00 0.00 0.00 3.18
34 35 4.219115 TGGATGGCTTAGGTTGTTTTGAA 58.781 39.130 0.00 0.00 0.00 2.69
35 36 3.838565 TGGATGGCTTAGGTTGTTTTGA 58.161 40.909 0.00 0.00 0.00 2.69
36 37 4.599047 TTGGATGGCTTAGGTTGTTTTG 57.401 40.909 0.00 0.00 0.00 2.44
37 38 6.016555 ACTATTGGATGGCTTAGGTTGTTTT 58.983 36.000 0.00 0.00 0.00 2.43
38 39 5.418840 CACTATTGGATGGCTTAGGTTGTTT 59.581 40.000 0.00 0.00 0.00 2.83
39 40 4.949856 CACTATTGGATGGCTTAGGTTGTT 59.050 41.667 0.00 0.00 0.00 2.83
40 41 4.018415 ACACTATTGGATGGCTTAGGTTGT 60.018 41.667 0.00 0.00 0.00 3.32
41 42 4.526970 ACACTATTGGATGGCTTAGGTTG 58.473 43.478 0.00 0.00 0.00 3.77
42 43 4.862641 ACACTATTGGATGGCTTAGGTT 57.137 40.909 0.00 0.00 0.00 3.50
43 44 4.862641 AACACTATTGGATGGCTTAGGT 57.137 40.909 0.00 0.00 0.00 3.08
44 45 5.888161 AGAAAACACTATTGGATGGCTTAGG 59.112 40.000 0.00 0.00 0.00 2.69
45 46 7.396540 AAGAAAACACTATTGGATGGCTTAG 57.603 36.000 0.00 0.00 0.00 2.18
46 47 7.775053 AAAGAAAACACTATTGGATGGCTTA 57.225 32.000 0.00 0.00 0.00 3.09
47 48 6.670695 AAAGAAAACACTATTGGATGGCTT 57.329 33.333 0.00 0.00 0.00 4.35
48 49 7.775053 TTAAAGAAAACACTATTGGATGGCT 57.225 32.000 0.00 0.00 0.00 4.75
49 50 8.825667 TTTTAAAGAAAACACTATTGGATGGC 57.174 30.769 0.00 0.00 29.38 4.40
73 74 7.881775 ATCACTAATTCCGAGGCTAATTTTT 57.118 32.000 0.00 0.00 0.00 1.94
74 75 7.881775 AATCACTAATTCCGAGGCTAATTTT 57.118 32.000 0.00 0.00 0.00 1.82
75 76 7.881775 AAATCACTAATTCCGAGGCTAATTT 57.118 32.000 0.00 0.00 0.00 1.82
76 77 7.881775 AAAATCACTAATTCCGAGGCTAATT 57.118 32.000 0.00 0.00 0.00 1.40
77 78 7.201821 CCAAAAATCACTAATTCCGAGGCTAAT 60.202 37.037 0.00 0.00 0.00 1.73
78 79 6.094881 CCAAAAATCACTAATTCCGAGGCTAA 59.905 38.462 0.00 0.00 0.00 3.09
79 80 5.588648 CCAAAAATCACTAATTCCGAGGCTA 59.411 40.000 0.00 0.00 0.00 3.93
80 81 4.399303 CCAAAAATCACTAATTCCGAGGCT 59.601 41.667 0.00 0.00 0.00 4.58
81 82 4.672409 CCAAAAATCACTAATTCCGAGGC 58.328 43.478 0.00 0.00 0.00 4.70
82 83 4.157656 TGCCAAAAATCACTAATTCCGAGG 59.842 41.667 0.00 0.00 0.00 4.63
83 84 5.095490 GTGCCAAAAATCACTAATTCCGAG 58.905 41.667 0.00 0.00 0.00 4.63
84 85 4.520874 TGTGCCAAAAATCACTAATTCCGA 59.479 37.500 0.00 0.00 34.49 4.55
85 86 4.804108 TGTGCCAAAAATCACTAATTCCG 58.196 39.130 0.00 0.00 34.49 4.30
86 87 7.226523 AGTTTTGTGCCAAAAATCACTAATTCC 59.773 33.333 12.69 0.44 34.49 3.01
87 88 8.063630 CAGTTTTGTGCCAAAAATCACTAATTC 58.936 33.333 12.69 0.81 34.49 2.17
88 89 7.552330 ACAGTTTTGTGCCAAAAATCACTAATT 59.448 29.630 12.69 0.00 35.83 1.40
89 90 7.047271 ACAGTTTTGTGCCAAAAATCACTAAT 58.953 30.769 12.69 0.45 35.83 1.73
90 91 6.402222 ACAGTTTTGTGCCAAAAATCACTAA 58.598 32.000 12.69 0.00 35.83 2.24
91 92 5.971763 ACAGTTTTGTGCCAAAAATCACTA 58.028 33.333 12.69 0.00 35.83 2.74
92 93 4.831107 ACAGTTTTGTGCCAAAAATCACT 58.169 34.783 12.69 6.01 35.83 3.41
93 94 6.039616 TCTACAGTTTTGTGCCAAAAATCAC 58.960 36.000 12.69 4.25 38.23 3.06
94 95 6.214191 TCTACAGTTTTGTGCCAAAAATCA 57.786 33.333 12.69 4.20 38.23 2.57
95 96 7.713764 ATTCTACAGTTTTGTGCCAAAAATC 57.286 32.000 12.69 4.58 38.23 2.17
96 97 7.552330 ACAATTCTACAGTTTTGTGCCAAAAAT 59.448 29.630 12.69 9.99 38.23 1.82
97 98 6.876257 ACAATTCTACAGTTTTGTGCCAAAAA 59.124 30.769 12.69 2.78 38.23 1.94
98 99 6.312426 CACAATTCTACAGTTTTGTGCCAAAA 59.688 34.615 8.46 8.46 41.51 2.44
99 100 5.809562 CACAATTCTACAGTTTTGTGCCAAA 59.190 36.000 11.33 0.00 41.51 3.28
100 101 5.126222 TCACAATTCTACAGTTTTGTGCCAA 59.874 36.000 15.76 4.09 45.30 4.52
101 102 4.642437 TCACAATTCTACAGTTTTGTGCCA 59.358 37.500 15.76 4.55 45.30 4.92
102 103 5.181690 TCACAATTCTACAGTTTTGTGCC 57.818 39.130 15.76 0.00 45.30 5.01
103 104 7.649306 AGAAATCACAATTCTACAGTTTTGTGC 59.351 33.333 15.76 7.54 45.30 4.57
104 105 8.961092 CAGAAATCACAATTCTACAGTTTTGTG 58.039 33.333 15.00 15.00 46.43 3.33
105 106 7.649306 GCAGAAATCACAATTCTACAGTTTTGT 59.351 33.333 0.00 0.00 41.39 2.83
106 107 7.648908 TGCAGAAATCACAATTCTACAGTTTTG 59.351 33.333 0.00 0.00 35.43 2.44
107 108 7.715657 TGCAGAAATCACAATTCTACAGTTTT 58.284 30.769 0.00 0.00 35.43 2.43
108 109 7.275888 TGCAGAAATCACAATTCTACAGTTT 57.724 32.000 0.00 0.00 35.43 2.66
109 110 6.882610 TGCAGAAATCACAATTCTACAGTT 57.117 33.333 0.00 0.00 35.43 3.16
110 111 6.882610 TTGCAGAAATCACAATTCTACAGT 57.117 33.333 0.00 0.00 35.43 3.55
111 112 6.583806 GGTTTGCAGAAATCACAATTCTACAG 59.416 38.462 0.00 0.00 35.43 2.74
112 113 6.265196 AGGTTTGCAGAAATCACAATTCTACA 59.735 34.615 0.00 0.00 35.43 2.74
113 114 6.681777 AGGTTTGCAGAAATCACAATTCTAC 58.318 36.000 0.00 0.00 35.43 2.59
114 115 6.899393 AGGTTTGCAGAAATCACAATTCTA 57.101 33.333 0.00 0.00 35.43 2.10
115 116 5.796424 AGGTTTGCAGAAATCACAATTCT 57.204 34.783 0.00 0.00 37.62 2.40
116 117 5.574443 GCTAGGTTTGCAGAAATCACAATTC 59.426 40.000 0.00 0.00 0.00 2.17
117 118 5.473039 GCTAGGTTTGCAGAAATCACAATT 58.527 37.500 0.00 0.00 0.00 2.32
118 119 4.082026 GGCTAGGTTTGCAGAAATCACAAT 60.082 41.667 0.00 0.00 0.00 2.71
119 120 3.255642 GGCTAGGTTTGCAGAAATCACAA 59.744 43.478 0.00 0.00 0.00 3.33
120 121 2.819608 GGCTAGGTTTGCAGAAATCACA 59.180 45.455 0.00 0.00 0.00 3.58
121 122 3.084786 AGGCTAGGTTTGCAGAAATCAC 58.915 45.455 0.00 0.00 0.00 3.06
122 123 3.439857 AGGCTAGGTTTGCAGAAATCA 57.560 42.857 0.00 0.00 0.00 2.57
123 124 4.790765 AAAGGCTAGGTTTGCAGAAATC 57.209 40.909 0.00 0.00 0.00 2.17
124 125 6.857437 ATTAAAGGCTAGGTTTGCAGAAAT 57.143 33.333 0.00 0.00 0.00 2.17
125 126 7.201696 CGATATTAAAGGCTAGGTTTGCAGAAA 60.202 37.037 0.00 0.00 0.00 2.52
126 127 6.260050 CGATATTAAAGGCTAGGTTTGCAGAA 59.740 38.462 0.00 0.00 0.00 3.02
127 128 5.758296 CGATATTAAAGGCTAGGTTTGCAGA 59.242 40.000 0.00 0.00 0.00 4.26
128 129 5.758296 TCGATATTAAAGGCTAGGTTTGCAG 59.242 40.000 0.00 0.00 0.00 4.41
129 130 5.676552 TCGATATTAAAGGCTAGGTTTGCA 58.323 37.500 0.00 0.00 0.00 4.08
130 131 6.426937 TCATCGATATTAAAGGCTAGGTTTGC 59.573 38.462 0.00 0.00 0.00 3.68
131 132 7.962964 TCATCGATATTAAAGGCTAGGTTTG 57.037 36.000 0.00 0.00 0.00 2.93
132 133 9.574516 AAATCATCGATATTAAAGGCTAGGTTT 57.425 29.630 0.00 0.00 0.00 3.27
133 134 9.574516 AAAATCATCGATATTAAAGGCTAGGTT 57.425 29.630 0.00 0.00 0.00 3.50
134 135 9.574516 AAAAATCATCGATATTAAAGGCTAGGT 57.425 29.630 0.00 0.00 0.00 3.08
135 136 9.831737 CAAAAATCATCGATATTAAAGGCTAGG 57.168 33.333 0.00 0.00 0.00 3.02
136 137 9.334693 GCAAAAATCATCGATATTAAAGGCTAG 57.665 33.333 0.00 0.00 0.00 3.42
137 138 8.845227 TGCAAAAATCATCGATATTAAAGGCTA 58.155 29.630 0.00 0.00 0.00 3.93
138 139 7.715657 TGCAAAAATCATCGATATTAAAGGCT 58.284 30.769 0.00 0.00 0.00 4.58
139 140 7.649306 ACTGCAAAAATCATCGATATTAAAGGC 59.351 33.333 0.00 0.00 0.00 4.35
140 141 9.520204 AACTGCAAAAATCATCGATATTAAAGG 57.480 29.630 0.00 0.00 0.00 3.11
143 144 9.502145 GTGAACTGCAAAAATCATCGATATTAA 57.498 29.630 0.00 0.00 0.00 1.40
144 145 8.892723 AGTGAACTGCAAAAATCATCGATATTA 58.107 29.630 0.00 0.00 0.00 0.98
145 146 7.765307 AGTGAACTGCAAAAATCATCGATATT 58.235 30.769 0.00 0.00 0.00 1.28
146 147 7.325660 AGTGAACTGCAAAAATCATCGATAT 57.674 32.000 0.00 0.00 0.00 1.63
147 148 6.455513 CGAGTGAACTGCAAAAATCATCGATA 60.456 38.462 0.00 0.00 31.08 2.92
148 149 5.633830 AGTGAACTGCAAAAATCATCGAT 57.366 34.783 0.00 0.00 0.00 3.59
149 150 4.377328 CGAGTGAACTGCAAAAATCATCGA 60.377 41.667 0.00 0.00 31.08 3.59
150 151 3.842428 CGAGTGAACTGCAAAAATCATCG 59.158 43.478 0.00 0.00 0.00 3.84
151 152 4.161333 CCGAGTGAACTGCAAAAATCATC 58.839 43.478 0.00 0.00 0.00 2.92
152 153 3.569701 ACCGAGTGAACTGCAAAAATCAT 59.430 39.130 0.00 0.00 0.00 2.45
153 154 2.948979 ACCGAGTGAACTGCAAAAATCA 59.051 40.909 0.00 0.00 0.00 2.57
154 155 3.626028 ACCGAGTGAACTGCAAAAATC 57.374 42.857 0.00 0.00 0.00 2.17
155 156 5.278604 GTTTACCGAGTGAACTGCAAAAAT 58.721 37.500 0.00 0.00 30.90 1.82
156 157 4.439016 GGTTTACCGAGTGAACTGCAAAAA 60.439 41.667 10.09 0.00 33.48 1.94
157 158 3.065648 GGTTTACCGAGTGAACTGCAAAA 59.934 43.478 10.09 0.00 33.48 2.44
158 159 2.614983 GGTTTACCGAGTGAACTGCAAA 59.385 45.455 10.09 0.00 33.48 3.68
159 160 2.215196 GGTTTACCGAGTGAACTGCAA 58.785 47.619 10.09 0.00 33.48 4.08
160 161 1.541670 GGGTTTACCGAGTGAACTGCA 60.542 52.381 10.09 0.00 33.48 4.41
161 162 1.154197 GGGTTTACCGAGTGAACTGC 58.846 55.000 10.09 0.00 33.48 4.40
162 163 2.224209 ACAGGGTTTACCGAGTGAACTG 60.224 50.000 10.09 0.00 46.96 3.16
163 164 2.044758 ACAGGGTTTACCGAGTGAACT 58.955 47.619 10.09 0.00 46.96 3.01
164 165 2.538512 ACAGGGTTTACCGAGTGAAC 57.461 50.000 3.98 3.98 46.96 3.18
165 166 3.118334 TCAAACAGGGTTTACCGAGTGAA 60.118 43.478 0.00 0.00 46.96 3.18
166 167 2.435069 TCAAACAGGGTTTACCGAGTGA 59.565 45.455 0.00 0.00 46.96 3.41
167 168 2.806244 CTCAAACAGGGTTTACCGAGTG 59.194 50.000 0.00 0.00 46.96 3.51
168 169 2.701951 TCTCAAACAGGGTTTACCGAGT 59.298 45.455 0.00 0.00 46.96 4.18
169 170 3.064931 GTCTCAAACAGGGTTTACCGAG 58.935 50.000 0.00 0.00 46.96 4.63
170 171 2.224354 GGTCTCAAACAGGGTTTACCGA 60.224 50.000 0.00 0.00 46.96 4.69
171 172 2.148768 GGTCTCAAACAGGGTTTACCG 58.851 52.381 0.00 0.00 46.96 4.02
172 173 3.503800 AGGTCTCAAACAGGGTTTACC 57.496 47.619 4.77 4.77 40.67 2.85
173 174 4.457466 TCAAGGTCTCAAACAGGGTTTAC 58.543 43.478 0.00 0.00 0.00 2.01
219 220 4.260743 GCAATGTTTCTTTCTTTGTTGGGC 60.261 41.667 0.00 0.00 0.00 5.36
238 239 4.668138 TTGGGAACTAGGTTTAGGCAAT 57.332 40.909 0.00 0.00 0.00 3.56
263 264 5.014123 ACCATCTGGATTAAGTTCCTGTTCA 59.986 40.000 2.55 0.00 38.94 3.18
317 319 3.948473 TCTAGTCTAGCTTTGCTCATCGT 59.052 43.478 1.60 0.00 40.44 3.73
444 452 0.616371 CCGTGGGAGGTGGAATTGTA 59.384 55.000 0.00 0.00 0.00 2.41
514 522 0.730494 GTGCACAGGTCGTACGTACC 60.730 60.000 19.67 21.80 37.27 3.34
575 603 2.109181 GTGGAGGGATGGCTACGC 59.891 66.667 0.00 0.00 0.00 4.42
665 1120 3.755628 GTCGCTGGCCGTACTGGA 61.756 66.667 0.00 0.00 42.00 3.86
736 1192 2.202878 CGTGTCGGGCGATGGATT 60.203 61.111 0.00 0.00 0.00 3.01
792 2419 1.421410 GCGCTGCTGCTTGTACGTAT 61.421 55.000 14.03 0.00 36.97 3.06
850 2555 1.268079 TGTGTGTGTTTGTGTGTGTGG 59.732 47.619 0.00 0.00 0.00 4.17
851 2556 2.315011 GTGTGTGTGTTTGTGTGTGTG 58.685 47.619 0.00 0.00 0.00 3.82
852 2557 1.268352 GGTGTGTGTGTTTGTGTGTGT 59.732 47.619 0.00 0.00 0.00 3.72
853 2558 1.402194 GGGTGTGTGTGTTTGTGTGTG 60.402 52.381 0.00 0.00 0.00 3.82
854 2559 0.885196 GGGTGTGTGTGTTTGTGTGT 59.115 50.000 0.00 0.00 0.00 3.72
861 2584 0.986019 TCCAGAGGGGTGTGTGTGTT 60.986 55.000 0.00 0.00 38.11 3.32
908 2633 1.268845 GCTAAGAGGTCGCTGCTCTAC 60.269 57.143 0.00 0.00 0.00 2.59
917 2642 0.389948 GTGGTGGTGCTAAGAGGTCG 60.390 60.000 0.00 0.00 0.00 4.79
1100 2839 2.311688 GATGGGGATGACGAACCGCT 62.312 60.000 0.00 0.00 39.38 5.52
1316 3063 3.177194 TAACCGTGCTGCTGCTGGT 62.177 57.895 21.34 21.34 45.62 4.00
1317 3064 2.358615 TAACCGTGCTGCTGCTGG 60.359 61.111 20.29 20.29 40.48 4.85
1332 3079 2.975536 CACGGGGCGAAGGAGTAA 59.024 61.111 0.00 0.00 0.00 2.24
1455 3209 0.031616 GGACTGATGGACTCCTCCCT 60.032 60.000 0.00 0.00 35.34 4.20
1470 3232 3.054503 CGTCGTCTCCGGTGGACT 61.055 66.667 21.12 0.00 33.95 3.85
1515 3292 1.611006 GCATCTCCGTATCTCTCTGCA 59.389 52.381 0.00 0.00 0.00 4.41
1550 3340 9.000978 AGGCAATATGGATGATAGACTAATCAT 57.999 33.333 0.00 0.00 46.77 2.45
1563 3368 6.127810 CCGAAATCATAGGCAATATGGATG 57.872 41.667 7.97 0.00 41.51 3.51
1617 3623 9.577110 CGGTCTGTTAATTAATCTAGTACACAA 57.423 33.333 0.31 0.00 0.00 3.33
1696 3718 9.591792 CAGATCAAGACATCAAGTTGTAATAGA 57.408 33.333 2.11 0.00 0.00 1.98
1697 3719 8.333908 GCAGATCAAGACATCAAGTTGTAATAG 58.666 37.037 2.11 0.00 0.00 1.73
1822 4001 4.154015 TGTTCGTTCATCTGTTTGGCATAG 59.846 41.667 0.00 0.00 0.00 2.23
1866 4056 0.839277 ATGGGCATGATCGACAGGAA 59.161 50.000 0.00 0.00 31.40 3.36
1924 4114 3.256631 GGACCCCATGCATCATGATTAAC 59.743 47.826 5.16 0.00 43.81 2.01
1958 4148 0.794473 GGAAAGAAACGCGGTACCTG 59.206 55.000 12.47 4.83 0.00 4.00
1989 4179 2.092681 CCTGAACGACACGACATGAATG 59.907 50.000 0.00 0.00 0.00 2.67
2098 4290 5.454471 GGAGATAGACATGGAAGATGTGCTT 60.454 44.000 0.00 0.00 40.25 3.91
2099 4291 4.040217 GGAGATAGACATGGAAGATGTGCT 59.960 45.833 0.00 0.00 31.52 4.40
2100 4292 4.314121 GGAGATAGACATGGAAGATGTGC 58.686 47.826 0.00 0.00 31.52 4.57
2101 4293 4.262808 GGGGAGATAGACATGGAAGATGTG 60.263 50.000 0.00 0.00 31.52 3.21
2102 4294 3.906846 GGGGAGATAGACATGGAAGATGT 59.093 47.826 0.00 0.00 34.52 3.06
2103 4295 4.166539 AGGGGAGATAGACATGGAAGATG 58.833 47.826 0.00 0.00 0.00 2.90
2104 4296 4.500389 AGGGGAGATAGACATGGAAGAT 57.500 45.455 0.00 0.00 0.00 2.40
2113 4305 2.995301 AGGTAGGGTAGGGGAGATAGAC 59.005 54.545 0.00 0.00 0.00 2.59
2264 4462 2.030185 TGAAACTGTACTGCTCTCCGTC 60.030 50.000 0.00 0.00 0.00 4.79
2283 4481 1.276138 CCATGTACCACTGAGCACTGA 59.724 52.381 0.00 0.00 0.00 3.41
2341 4539 1.209128 ACGTCGCACAAGAAAGTGAG 58.791 50.000 0.00 0.00 42.05 3.51


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

AutoCloner maintained by Alex Coulton.