Multiple sequence alignment - TraesCS3A01G526000

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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 TraesCS3A01G526000 chr3A 100.000 3042 0 0 1 3042 739736037 739732996 0.000000e+00 5618.0
1 TraesCS3A01G526000 chr3A 88.307 898 75 15 712 1600 739322311 739323187 0.000000e+00 1050.0
2 TraesCS3A01G526000 chr3A 91.436 397 25 7 2480 2876 739325770 739326157 1.240000e-148 536.0
3 TraesCS3A01G526000 chr3A 81.006 716 82 26 1539 2233 739323189 739323871 1.250000e-143 520.0
4 TraesCS3A01G526000 chr3A 88.506 261 12 5 2228 2485 739325494 739325739 1.770000e-77 300.0
5 TraesCS3A01G526000 chr3A 92.810 153 10 1 1 153 694387419 694387268 1.420000e-53 220.0
6 TraesCS3A01G526000 chr3A 85.185 162 23 1 1998 2159 739325239 739325399 6.750000e-37 165.0
7 TraesCS3A01G526000 chr3A 97.059 68 1 1 2975 3042 739324424 739324490 2.480000e-21 113.0
8 TraesCS3A01G526000 chr3A 97.561 41 1 0 630 670 712185221 712185261 1.510000e-08 71.3
9 TraesCS3A01G526000 chr3A 100.000 36 0 0 2811 2846 739326224 739326259 1.960000e-07 67.6
10 TraesCS3A01G526000 chr3B 92.295 1778 95 18 445 2187 816692653 816690883 0.000000e+00 2486.0
11 TraesCS3A01G526000 chr3B 93.761 1106 61 3 946 2045 816264530 816265633 0.000000e+00 1653.0
12 TraesCS3A01G526000 chr3B 83.418 784 66 25 2272 3042 816690850 816690118 0.000000e+00 669.0
13 TraesCS3A01G526000 chr3B 85.311 354 27 11 2228 2566 816265727 816266070 2.900000e-90 342.0
14 TraesCS3A01G526000 chr3B 82.997 347 31 16 2701 3042 816271819 816272142 3.840000e-74 289.0
15 TraesCS3A01G526000 chr3B 93.151 146 8 2 2558 2703 816271565 816271708 2.380000e-51 213.0
16 TraesCS3A01G526000 chr3B 92.208 77 2 4 2969 3042 444683758 444683833 4.150000e-19 106.0
17 TraesCS3A01G526000 chr3D 93.912 1429 79 6 735 2159 607310709 607309285 0.000000e+00 2150.0
18 TraesCS3A01G526000 chr3D 90.167 1495 116 14 676 2159 606929723 606931197 0.000000e+00 1917.0
19 TraesCS3A01G526000 chr3D 88.792 687 49 8 21 705 607311371 607310711 0.000000e+00 817.0
20 TraesCS3A01G526000 chr3D 87.086 573 40 16 2480 3042 607308928 607308380 4.310000e-173 617.0
21 TraesCS3A01G526000 chr3D 88.123 261 17 5 2228 2485 606931292 606931541 6.380000e-77 298.0
22 TraesCS3A01G526000 chr3D 88.312 231 21 6 2257 2484 607309182 607308955 3.860000e-69 272.0
23 TraesCS3A01G526000 chr3D 85.161 155 11 3 2480 2634 606931567 606931709 6.800000e-32 148.0
24 TraesCS3A01G526000 chr3D 96.552 87 3 0 2705 2791 606931734 606931820 8.790000e-31 145.0
25 TraesCS3A01G526000 chr3D 84.921 126 11 8 2921 3042 606931887 606932008 1.480000e-23 121.0
26 TraesCS3A01G526000 chr3D 98.077 52 0 1 2825 2876 606931811 606931861 4.180000e-14 89.8
27 TraesCS3A01G526000 chr1B 84.305 1389 146 33 707 2065 327024607 327023261 0.000000e+00 1291.0
28 TraesCS3A01G526000 chr1B 86.477 880 91 16 707 1569 435194116 435194984 0.000000e+00 941.0
29 TraesCS3A01G526000 chr1B 82.469 405 42 12 1671 2065 435195411 435195796 8.130000e-86 327.0
30 TraesCS3A01G526000 chr1B 92.810 153 10 1 1 153 668824851 668824700 1.420000e-53 220.0
31 TraesCS3A01G526000 chr1A 84.060 1399 156 34 707 2065 406189481 406190852 0.000000e+00 1286.0
32 TraesCS3A01G526000 chr1D 87.471 862 86 17 707 1550 227130900 227130043 0.000000e+00 974.0
33 TraesCS3A01G526000 chr1D 87.271 872 87 13 707 1560 322285140 322286005 0.000000e+00 974.0
34 TraesCS3A01G526000 chr1D 82.816 419 45 10 1656 2065 227129630 227129230 1.740000e-92 350.0
35 TraesCS3A01G526000 chr5B 93.464 153 9 1 1 153 713104624 713104473 3.050000e-55 226.0
36 TraesCS3A01G526000 chrUn 92.810 153 10 1 1 153 466452110 466451959 1.420000e-53 220.0
37 TraesCS3A01G526000 chr6B 92.810 153 10 1 1 153 151239055 151238904 1.420000e-53 220.0
38 TraesCS3A01G526000 chr6B 96.875 64 1 1 2979 3042 216506017 216505955 4.150000e-19 106.0
39 TraesCS3A01G526000 chr6A 92.810 153 10 1 1 153 84427266 84427417 1.420000e-53 220.0
40 TraesCS3A01G526000 chr4B 92.810 153 10 1 1 153 495528908 495528757 1.420000e-53 220.0
41 TraesCS3A01G526000 chr2B 92.810 153 10 1 1 153 391208525 391208676 1.420000e-53 220.0
42 TraesCS3A01G526000 chr6D 92.157 153 11 1 1 153 458950566 458950717 6.610000e-52 215.0
43 TraesCS3A01G526000 chr6D 96.875 64 1 1 2979 3042 122738134 122738072 4.150000e-19 106.0
44 TraesCS3A01G526000 chr4A 96.923 65 0 2 2979 3042 656488774 656488711 1.150000e-19 108.0
45 TraesCS3A01G526000 chr4A 100.000 55 0 0 2988 3042 655471074 655471020 5.370000e-18 102.0


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 TraesCS3A01G526000 chr3A 739732996 739736037 3041 True 5618.000000 5618 100.000000 1 3042 1 chr3A.!!$R2 3041
1 TraesCS3A01G526000 chr3A 739322311 739326259 3948 False 393.085714 1050 90.214143 712 3042 7 chr3A.!!$F2 2330
2 TraesCS3A01G526000 chr3B 816690118 816692653 2535 True 1577.500000 2486 87.856500 445 3042 2 chr3B.!!$R1 2597
3 TraesCS3A01G526000 chr3B 816264530 816266070 1540 False 997.500000 1653 89.536000 946 2566 2 chr3B.!!$F2 1620
4 TraesCS3A01G526000 chr3B 816271565 816272142 577 False 251.000000 289 88.074000 2558 3042 2 chr3B.!!$F3 484
5 TraesCS3A01G526000 chr3D 607308380 607311371 2991 True 964.000000 2150 89.525500 21 3042 4 chr3D.!!$R1 3021
6 TraesCS3A01G526000 chr3D 606929723 606932008 2285 False 453.133333 1917 90.500167 676 3042 6 chr3D.!!$F1 2366
7 TraesCS3A01G526000 chr1B 327023261 327024607 1346 True 1291.000000 1291 84.305000 707 2065 1 chr1B.!!$R1 1358
8 TraesCS3A01G526000 chr1B 435194116 435195796 1680 False 634.000000 941 84.473000 707 2065 2 chr1B.!!$F1 1358
9 TraesCS3A01G526000 chr1A 406189481 406190852 1371 False 1286.000000 1286 84.060000 707 2065 1 chr1A.!!$F1 1358
10 TraesCS3A01G526000 chr1D 322285140 322286005 865 False 974.000000 974 87.271000 707 1560 1 chr1D.!!$F1 853
11 TraesCS3A01G526000 chr1D 227129230 227130900 1670 True 662.000000 974 85.143500 707 2065 2 chr1D.!!$R1 1358

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
64 65 0.104855 AGCCGCAGCAGATCGATAAA 59.895 50.0 0.0 0.0 43.56 1.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2053 4144 0.179094 AACGCCGACTGACAAGAACA 60.179 50.0 0.0 0.0 0.0 3.18 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 0.523072 TTGAAAAGCCGCAGCAGATC 59.477 50.000 0.00 0.00 43.56 2.75
64 65 0.104855 AGCCGCAGCAGATCGATAAA 59.895 50.000 0.00 0.00 43.56 1.40
68 69 5.757620 GCCGCAGCAGATCGATAAAATCG 62.758 52.174 0.00 2.95 46.09 3.34
92 93 5.183140 GCTAATTTAGCCAAGTCAACTCCAA 59.817 40.000 16.10 0.00 45.95 3.53
112 113 7.878621 TCCAATATGGAATCTAGTTCTCCAT 57.121 36.000 19.75 19.75 45.00 3.41
118 119 6.985653 TGGAATCTAGTTCTCCATAAGAGG 57.014 41.667 6.22 0.00 43.44 3.69
119 120 5.841237 TGGAATCTAGTTCTCCATAAGAGGG 59.159 44.000 6.22 0.00 43.44 4.30
120 121 5.841783 GGAATCTAGTTCTCCATAAGAGGGT 59.158 44.000 0.00 0.00 43.44 4.34
121 122 6.327887 GGAATCTAGTTCTCCATAAGAGGGTT 59.672 42.308 0.00 0.00 43.44 4.11
189 190 8.294577 ACTTACGTGGTTCTAAAAATCATTTCC 58.705 33.333 0.00 0.00 0.00 3.13
190 191 6.894339 ACGTGGTTCTAAAAATCATTTCCT 57.106 33.333 0.00 0.00 0.00 3.36
192 193 5.572896 CGTGGTTCTAAAAATCATTTCCTGC 59.427 40.000 0.00 0.00 0.00 4.85
202 203 2.229792 TCATTTCCTGCGCTTGAGTTT 58.770 42.857 9.73 0.00 0.00 2.66
203 204 2.030893 TCATTTCCTGCGCTTGAGTTTG 60.031 45.455 9.73 4.47 0.00 2.93
204 205 1.388547 TTTCCTGCGCTTGAGTTTGT 58.611 45.000 9.73 0.00 0.00 2.83
205 206 2.248280 TTCCTGCGCTTGAGTTTGTA 57.752 45.000 9.73 0.00 0.00 2.41
206 207 2.472695 TCCTGCGCTTGAGTTTGTAT 57.527 45.000 9.73 0.00 0.00 2.29
207 208 2.778299 TCCTGCGCTTGAGTTTGTATT 58.222 42.857 9.73 0.00 0.00 1.89
208 209 2.742053 TCCTGCGCTTGAGTTTGTATTC 59.258 45.455 9.73 0.00 0.00 1.75
209 210 2.744202 CCTGCGCTTGAGTTTGTATTCT 59.256 45.455 9.73 0.00 0.00 2.40
210 211 3.181516 CCTGCGCTTGAGTTTGTATTCTC 60.182 47.826 9.73 0.00 0.00 2.87
220 221 9.261180 CTTGAGTTTGTATTCTCTTGTCTAACA 57.739 33.333 0.00 0.00 0.00 2.41
245 246 7.583860 TTCCGGTTTGTTTAACAAGAAAAAG 57.416 32.000 10.51 0.60 39.53 2.27
246 247 6.921914 TCCGGTTTGTTTAACAAGAAAAAGA 58.078 32.000 10.51 2.75 39.53 2.52
249 250 7.276878 CCGGTTTGTTTAACAAGAAAAAGACAT 59.723 33.333 10.51 0.00 39.53 3.06
290 291 5.431765 ACCTATGTACTCCATCTGCAAAAG 58.568 41.667 0.00 0.00 34.86 2.27
297 298 4.147321 ACTCCATCTGCAAAAGTGAATGT 58.853 39.130 0.00 0.00 0.00 2.71
302 303 6.072508 TCCATCTGCAAAAGTGAATGTACTTC 60.073 38.462 0.00 0.00 39.86 3.01
306 307 5.129634 TGCAAAAGTGAATGTACTTCAGGA 58.870 37.500 7.68 0.00 44.44 3.86
320 321 4.775236 ACTTCAGGAGATTCTACCATTGC 58.225 43.478 0.00 0.00 0.00 3.56
341 342 3.674753 GCGTGGACCAAATCAAAAATCAG 59.325 43.478 0.00 0.00 0.00 2.90
348 349 8.700051 TGGACCAAATCAAAAATCAGAAAGTAA 58.300 29.630 0.00 0.00 0.00 2.24
407 409 6.381707 GGAGAACTAAGGTATGGAAGAGTCTT 59.618 42.308 4.68 4.68 0.00 3.01
431 433 9.979270 CTTGAATAAATGAGAAGTGTATGTGTC 57.021 33.333 0.00 0.00 0.00 3.67
487 489 9.716507 TGAAAACAAAACTCGATTCTTTAAGAG 57.283 29.630 0.00 0.00 36.83 2.85
545 549 6.685527 AGAACAAAGGAGAAGTGTCTTTTC 57.314 37.500 0.00 0.00 32.80 2.29
659 671 2.507407 ATATCCAACGGCCAACACTT 57.493 45.000 2.24 0.00 0.00 3.16
670 682 1.401539 GCCAACACTTCTCGGATTTGC 60.402 52.381 0.00 0.00 0.00 3.68
672 684 1.879380 CAACACTTCTCGGATTTGCCA 59.121 47.619 0.00 0.00 35.94 4.92
705 717 9.243637 TGCCGAAATGTTAAAATATCAATTAGC 57.756 29.630 0.00 0.00 0.00 3.09
710 727 9.762933 AAATGTTAAAATATCAATTAGCGGCAT 57.237 25.926 1.45 0.00 0.00 4.40
777 804 1.244816 CGACTGAGGGACTGTGTGTA 58.755 55.000 0.00 0.00 41.55 2.90
889 925 4.894784 AGTGGAATACGTCATGTTTCACT 58.105 39.130 9.68 9.68 0.00 3.41
912 958 7.274686 CACTAAACAAACCAAACAGTAAACCAG 59.725 37.037 0.00 0.00 0.00 4.00
1049 1097 3.946558 GAGTACTATGAGGAACCACGAGT 59.053 47.826 0.00 0.00 0.00 4.18
1050 1098 3.695060 AGTACTATGAGGAACCACGAGTG 59.305 47.826 0.00 0.00 0.00 3.51
1093 1147 1.795286 GTCTTGCACGAGAAAGGTCTG 59.205 52.381 0.33 0.00 32.80 3.51
1263 1317 2.364647 GGTTATACCTAAGCTCCGTGCT 59.635 50.000 0.00 0.00 44.61 4.40
1569 1651 5.589459 TCTGCTACAGTAGACACAGCATGT 61.589 45.833 12.15 0.00 40.26 3.21
1592 1686 0.608308 GTCTAAGTTGGTGGCCCCAC 60.608 60.000 12.07 8.95 45.19 4.61
1651 2132 9.042450 CCCCCTTTTATTTTATTTTAGTGGAGT 57.958 33.333 0.00 0.00 0.00 3.85
1810 2295 3.795688 AATTGAGAAGAGAAGGGCACA 57.204 42.857 0.00 0.00 0.00 4.57
1875 2360 3.252215 TGAAAATCAGTTGTGGCTAACCG 59.748 43.478 2.37 0.00 39.70 4.44
1887 2374 5.987098 TGTGGCTAACCGGTATGTTTAATA 58.013 37.500 8.00 0.00 39.70 0.98
1888 2375 5.816777 TGTGGCTAACCGGTATGTTTAATAC 59.183 40.000 8.00 0.00 39.70 1.89
1943 2448 3.813724 CACCTCCTGGGATGGGCC 61.814 72.222 0.00 0.00 38.76 5.80
1991 2496 1.601419 TACCTACACAGACAGGCGCC 61.601 60.000 21.89 21.89 35.14 6.53
2076 4167 1.148310 CTTGTCAGTCGGCGTTCATT 58.852 50.000 6.85 0.00 0.00 2.57
2081 4172 1.736645 AGTCGGCGTTCATTGTCGG 60.737 57.895 6.85 0.00 34.67 4.79
2128 4274 0.250727 GAAGCTTGTGGGTGCTGGTA 60.251 55.000 2.10 0.00 39.71 3.25
2151 4297 5.070685 ACCTTGTTCAGAAGATTGTAACCC 58.929 41.667 0.00 0.00 0.00 4.11
2159 4373 2.332063 AGATTGTAACCCTGGATGCG 57.668 50.000 0.00 0.00 0.00 4.73
2161 4375 0.034574 ATTGTAACCCTGGATGCGCA 60.035 50.000 14.96 14.96 0.00 6.09
2163 4377 0.034574 TGTAACCCTGGATGCGCATT 60.035 50.000 26.12 10.02 0.00 3.56
2169 4383 3.420214 CTGGATGCGCATTGGCCAC 62.420 63.158 26.12 10.28 36.38 5.01
2185 4399 2.825532 GGCCACTTTAGGAAGCAATTCA 59.174 45.455 0.00 0.00 36.29 2.57
2186 4400 3.448660 GGCCACTTTAGGAAGCAATTCAT 59.551 43.478 0.00 0.00 36.29 2.57
2187 4401 4.440663 GGCCACTTTAGGAAGCAATTCATC 60.441 45.833 0.00 0.00 36.29 2.92
2188 4402 4.158394 GCCACTTTAGGAAGCAATTCATCA 59.842 41.667 0.00 0.00 36.29 3.07
2189 4403 5.163478 GCCACTTTAGGAAGCAATTCATCAT 60.163 40.000 0.00 0.00 36.29 2.45
2190 4404 6.270815 CCACTTTAGGAAGCAATTCATCATG 58.729 40.000 0.00 0.00 36.29 3.07
2191 4405 6.270815 CACTTTAGGAAGCAATTCATCATGG 58.729 40.000 0.00 0.00 36.29 3.66
2192 4406 4.924305 TTAGGAAGCAATTCATCATGGC 57.076 40.909 0.00 0.00 30.65 4.40
2193 4407 3.028094 AGGAAGCAATTCATCATGGCT 57.972 42.857 0.00 0.00 45.20 4.75
2194 4408 2.693591 AGGAAGCAATTCATCATGGCTG 59.306 45.455 0.00 0.00 41.99 4.85
2195 4409 2.223971 GGAAGCAATTCATCATGGCTGG 60.224 50.000 0.00 0.00 41.99 4.85
2196 4410 0.750850 AGCAATTCATCATGGCTGGC 59.249 50.000 0.00 0.00 41.16 4.85
2197 4411 0.596600 GCAATTCATCATGGCTGGCG 60.597 55.000 0.00 0.00 0.00 5.69
2198 4412 0.742505 CAATTCATCATGGCTGGCGT 59.257 50.000 0.00 0.00 0.00 5.68
2199 4413 1.948834 CAATTCATCATGGCTGGCGTA 59.051 47.619 0.00 0.00 0.00 4.42
2200 4414 2.555325 CAATTCATCATGGCTGGCGTAT 59.445 45.455 0.00 0.00 0.00 3.06
2201 4415 2.346766 TTCATCATGGCTGGCGTATT 57.653 45.000 0.00 0.00 0.00 1.89
2202 4416 3.483808 TTCATCATGGCTGGCGTATTA 57.516 42.857 0.00 0.00 0.00 0.98
2203 4417 3.044235 TCATCATGGCTGGCGTATTAG 57.956 47.619 0.00 0.00 0.00 1.73
2204 4418 2.079158 CATCATGGCTGGCGTATTAGG 58.921 52.381 0.00 0.00 0.00 2.69
2205 4419 1.419381 TCATGGCTGGCGTATTAGGA 58.581 50.000 0.00 0.00 0.00 2.94
2206 4420 1.765904 TCATGGCTGGCGTATTAGGAA 59.234 47.619 0.00 0.00 0.00 3.36
2207 4421 2.171659 TCATGGCTGGCGTATTAGGAAA 59.828 45.455 0.00 0.00 0.00 3.13
2208 4422 2.791347 TGGCTGGCGTATTAGGAAAA 57.209 45.000 0.00 0.00 0.00 2.29
2209 4423 3.290948 TGGCTGGCGTATTAGGAAAAT 57.709 42.857 0.00 0.00 0.00 1.82
2210 4424 4.425180 TGGCTGGCGTATTAGGAAAATA 57.575 40.909 0.00 0.00 0.00 1.40
2211 4425 4.980573 TGGCTGGCGTATTAGGAAAATAT 58.019 39.130 0.00 0.00 0.00 1.28
2212 4426 6.116711 TGGCTGGCGTATTAGGAAAATATA 57.883 37.500 0.00 0.00 0.00 0.86
2213 4427 6.535540 TGGCTGGCGTATTAGGAAAATATAA 58.464 36.000 0.00 0.00 0.00 0.98
2214 4428 7.172342 TGGCTGGCGTATTAGGAAAATATAAT 58.828 34.615 0.00 0.00 0.00 1.28
2215 4429 7.120579 TGGCTGGCGTATTAGGAAAATATAATG 59.879 37.037 0.00 0.00 0.00 1.90
2216 4430 7.120726 GGCTGGCGTATTAGGAAAATATAATGT 59.879 37.037 0.00 0.00 0.00 2.71
2217 4431 9.158233 GCTGGCGTATTAGGAAAATATAATGTA 57.842 33.333 0.00 0.00 0.00 2.29
2247 4461 4.003648 AGATTGTACTTAACAGGCTGTGC 58.996 43.478 22.83 8.09 39.87 4.57
2265 4489 3.957497 TGTGCACCCTTTTGATACTGTTT 59.043 39.130 15.69 0.00 0.00 2.83
2266 4490 4.202101 TGTGCACCCTTTTGATACTGTTTG 60.202 41.667 15.69 0.00 0.00 2.93
2267 4491 4.037446 GTGCACCCTTTTGATACTGTTTGA 59.963 41.667 5.22 0.00 0.00 2.69
2268 4492 4.037446 TGCACCCTTTTGATACTGTTTGAC 59.963 41.667 0.00 0.00 0.00 3.18
2269 4493 4.278419 GCACCCTTTTGATACTGTTTGACT 59.722 41.667 0.00 0.00 0.00 3.41
2270 4494 5.562890 GCACCCTTTTGATACTGTTTGACTC 60.563 44.000 0.00 0.00 0.00 3.36
2271 4495 5.765182 CACCCTTTTGATACTGTTTGACTCT 59.235 40.000 0.00 0.00 0.00 3.24
2272 4496 5.765182 ACCCTTTTGATACTGTTTGACTCTG 59.235 40.000 0.00 0.00 0.00 3.35
2273 4497 5.765182 CCCTTTTGATACTGTTTGACTCTGT 59.235 40.000 0.00 0.00 0.00 3.41
2274 4498 6.263168 CCCTTTTGATACTGTTTGACTCTGTT 59.737 38.462 0.00 0.00 0.00 3.16
2282 4506 4.449068 ACTGTTTGACTCTGTTGCTAATCG 59.551 41.667 0.00 0.00 0.00 3.34
2316 4540 2.976589 ACATTATTGCCTGCCAAAAGC 58.023 42.857 0.00 0.00 44.14 3.51
2388 4615 6.483640 GGTGAATAAGGATAACAGCAACCTAG 59.516 42.308 0.00 0.00 32.06 3.02
2392 4620 4.473477 AGGATAACAGCAACCTAGTGTC 57.527 45.455 0.00 0.00 0.00 3.67
2405 4633 2.002586 CTAGTGTCTTGCATTCACCGG 58.997 52.381 0.00 0.00 33.21 5.28
2409 4637 1.202758 TGTCTTGCATTCACCGGTCTT 60.203 47.619 2.59 0.00 0.00 3.01
2412 4640 1.851021 TTGCATTCACCGGTCTTGCG 61.851 55.000 21.46 5.61 36.11 4.85
2413 4641 2.480555 CATTCACCGGTCTTGCGC 59.519 61.111 2.59 0.00 0.00 6.09
2425 4654 2.281498 GGTCTTGCGCTGTTTTTGTTTC 59.719 45.455 9.73 0.00 0.00 2.78
2426 4655 3.179048 GTCTTGCGCTGTTTTTGTTTCT 58.821 40.909 9.73 0.00 0.00 2.52
2575 4842 5.408604 AGTTAGGTTTGTTACTCTCAATGCG 59.591 40.000 0.00 0.00 0.00 4.73
2581 4848 2.128035 GTTACTCTCAATGCGATCCGG 58.872 52.381 0.00 0.00 0.00 5.14
2624 4891 7.789349 TGTATGCATCTATATGGATAAGCCCTA 59.211 37.037 0.19 0.00 44.85 3.53
2808 5277 5.342866 ACCTTTGTTCTAGGACACTAGGAT 58.657 41.667 27.37 14.91 45.50 3.24
2890 5370 4.401022 TGAGTCAAGTTCGTACCTTCCTA 58.599 43.478 0.00 0.00 0.00 2.94
2892 5372 5.105877 TGAGTCAAGTTCGTACCTTCCTATG 60.106 44.000 0.00 0.00 0.00 2.23
2893 5373 4.771054 AGTCAAGTTCGTACCTTCCTATGT 59.229 41.667 0.00 0.00 0.00 2.29
2894 5374 5.100943 GTCAAGTTCGTACCTTCCTATGTC 58.899 45.833 0.00 0.00 0.00 3.06
2895 5375 5.014858 TCAAGTTCGTACCTTCCTATGTCT 58.985 41.667 0.00 0.00 0.00 3.41
2896 5376 5.125097 TCAAGTTCGTACCTTCCTATGTCTC 59.875 44.000 0.00 0.00 0.00 3.36
2897 5377 4.597004 AGTTCGTACCTTCCTATGTCTCA 58.403 43.478 0.00 0.00 0.00 3.27
2898 5378 5.202004 AGTTCGTACCTTCCTATGTCTCAT 58.798 41.667 0.00 0.00 0.00 2.90
2899 5379 6.363065 AGTTCGTACCTTCCTATGTCTCATA 58.637 40.000 0.00 0.00 0.00 2.15
2900 5380 7.005296 AGTTCGTACCTTCCTATGTCTCATAT 58.995 38.462 0.00 0.00 0.00 1.78
2901 5381 7.506261 AGTTCGTACCTTCCTATGTCTCATATT 59.494 37.037 0.00 0.00 0.00 1.28
2902 5382 7.215719 TCGTACCTTCCTATGTCTCATATTG 57.784 40.000 0.00 0.00 0.00 1.90
2903 5383 6.776116 TCGTACCTTCCTATGTCTCATATTGT 59.224 38.462 0.00 0.00 0.00 2.71
2904 5384 7.940688 TCGTACCTTCCTATGTCTCATATTGTA 59.059 37.037 0.00 0.00 0.00 2.41
2905 5385 8.573885 CGTACCTTCCTATGTCTCATATTGTAA 58.426 37.037 0.00 0.00 0.00 2.41
2908 5388 7.880195 ACCTTCCTATGTCTCATATTGTAATGC 59.120 37.037 0.00 0.00 0.00 3.56
2909 5389 8.099537 CCTTCCTATGTCTCATATTGTAATGCT 58.900 37.037 0.00 0.00 0.00 3.79
2910 5390 9.149225 CTTCCTATGTCTCATATTGTAATGCTC 57.851 37.037 0.00 0.00 0.00 4.26
2911 5391 8.193953 TCCTATGTCTCATATTGTAATGCTCA 57.806 34.615 0.00 0.00 0.00 4.26
2912 5392 8.650490 TCCTATGTCTCATATTGTAATGCTCAA 58.350 33.333 0.00 0.00 0.00 3.02
2913 5393 9.276590 CCTATGTCTCATATTGTAATGCTCAAA 57.723 33.333 0.00 0.00 0.00 2.69
2943 5423 7.502120 AATGTCTCATATTGTATTGCTCACC 57.498 36.000 0.00 0.00 0.00 4.02
2944 5424 6.239217 TGTCTCATATTGTATTGCTCACCT 57.761 37.500 0.00 0.00 0.00 4.00
2945 5425 6.051074 TGTCTCATATTGTATTGCTCACCTG 58.949 40.000 0.00 0.00 0.00 4.00
2947 5427 6.763135 GTCTCATATTGTATTGCTCACCTGAA 59.237 38.462 0.00 0.00 0.00 3.02
2950 5430 7.112122 TCATATTGTATTGCTCACCTGAAACT 58.888 34.615 0.00 0.00 0.00 2.66
2951 5431 8.264347 TCATATTGTATTGCTCACCTGAAACTA 58.736 33.333 0.00 0.00 0.00 2.24
2955 5435 7.843490 TGTATTGCTCACCTGAAACTATAAC 57.157 36.000 0.00 0.00 0.00 1.89
2958 5438 6.801539 TTGCTCACCTGAAACTATAACAAG 57.198 37.500 0.00 0.00 0.00 3.16
2959 5439 5.865085 TGCTCACCTGAAACTATAACAAGT 58.135 37.500 0.00 0.00 0.00 3.16
2965 5449 8.480501 TCACCTGAAACTATAACAAGTATACCC 58.519 37.037 0.00 0.00 0.00 3.69
2969 5453 9.886132 CTGAAACTATAACAAGTATACCCTGTT 57.114 33.333 19.38 19.38 0.00 3.16
2973 5457 7.498443 ACTATAACAAGTATACCCTGTTCAGC 58.502 38.462 19.13 0.00 0.00 4.26
2975 5459 4.634012 ACAAGTATACCCTGTTCAGCAA 57.366 40.909 0.00 0.00 0.00 3.91
2981 5465 1.972872 ACCCTGTTCAGCAAAGACAG 58.027 50.000 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.540492 CGATCTATGTTAATTATGGAATACCGC 58.460 37.037 0.00 0.00 39.42 5.68
1 2 9.031360 CCGATCTATGTTAATTATGGAATACCG 57.969 37.037 0.00 0.00 39.42 4.02
11 12 9.358406 TCCACTCTAACCGATCTATGTTAATTA 57.642 33.333 0.00 0.00 0.00 1.40
12 13 8.246430 TCCACTCTAACCGATCTATGTTAATT 57.754 34.615 0.00 0.00 0.00 1.40
13 14 7.834881 TCCACTCTAACCGATCTATGTTAAT 57.165 36.000 0.00 0.00 0.00 1.40
14 15 7.834881 ATCCACTCTAACCGATCTATGTTAA 57.165 36.000 0.00 0.00 0.00 2.01
15 16 7.834881 AATCCACTCTAACCGATCTATGTTA 57.165 36.000 0.00 0.00 0.00 2.41
16 17 6.732896 AATCCACTCTAACCGATCTATGTT 57.267 37.500 0.00 0.00 0.00 2.71
17 18 6.323996 TCAAATCCACTCTAACCGATCTATGT 59.676 38.462 0.00 0.00 0.00 2.29
18 19 6.749139 TCAAATCCACTCTAACCGATCTATG 58.251 40.000 0.00 0.00 0.00 2.23
19 20 6.978674 TCAAATCCACTCTAACCGATCTAT 57.021 37.500 0.00 0.00 0.00 1.98
20 21 6.785337 TTCAAATCCACTCTAACCGATCTA 57.215 37.500 0.00 0.00 0.00 1.98
21 22 5.677319 TTCAAATCCACTCTAACCGATCT 57.323 39.130 0.00 0.00 0.00 2.75
22 23 6.675728 GCTTTTCAAATCCACTCTAACCGATC 60.676 42.308 0.00 0.00 0.00 3.69
23 24 5.123979 GCTTTTCAAATCCACTCTAACCGAT 59.876 40.000 0.00 0.00 0.00 4.18
100 101 6.156429 GGAAAACCCTCTTATGGAGAACTAGA 59.844 42.308 0.00 0.00 44.45 2.43
101 102 6.350103 GGAAAACCCTCTTATGGAGAACTAG 58.650 44.000 0.00 0.00 44.45 2.57
104 105 4.263771 TGGGAAAACCCTCTTATGGAGAAC 60.264 45.833 6.85 0.00 41.66 3.01
105 106 3.920197 TGGGAAAACCCTCTTATGGAGAA 59.080 43.478 6.85 0.00 41.66 2.87
106 107 3.537337 TGGGAAAACCCTCTTATGGAGA 58.463 45.455 6.85 0.00 41.66 3.71
107 108 4.316025 TTGGGAAAACCCTCTTATGGAG 57.684 45.455 6.85 0.00 41.51 3.86
108 109 4.293634 TCATTGGGAAAACCCTCTTATGGA 59.706 41.667 6.85 0.00 39.07 3.41
109 110 4.609301 TCATTGGGAAAACCCTCTTATGG 58.391 43.478 6.85 0.00 39.07 2.74
110 111 5.358160 GTCTCATTGGGAAAACCCTCTTATG 59.642 44.000 6.85 5.69 39.07 1.90
111 112 5.015178 TGTCTCATTGGGAAAACCCTCTTAT 59.985 40.000 6.85 0.00 39.07 1.73
112 113 4.352595 TGTCTCATTGGGAAAACCCTCTTA 59.647 41.667 6.85 0.00 39.07 2.10
113 114 3.140144 TGTCTCATTGGGAAAACCCTCTT 59.860 43.478 6.85 0.00 39.07 2.85
114 115 2.716424 TGTCTCATTGGGAAAACCCTCT 59.284 45.455 6.85 0.00 39.07 3.69
115 116 3.154827 TGTCTCATTGGGAAAACCCTC 57.845 47.619 6.85 0.00 39.07 4.30
116 117 3.117131 ACTTGTCTCATTGGGAAAACCCT 60.117 43.478 6.85 0.00 39.07 4.34
117 118 3.230976 ACTTGTCTCATTGGGAAAACCC 58.769 45.455 0.00 0.00 39.07 4.11
118 119 5.070685 ACTACTTGTCTCATTGGGAAAACC 58.929 41.667 0.00 0.00 40.81 3.27
119 120 6.635030 AACTACTTGTCTCATTGGGAAAAC 57.365 37.500 0.00 0.00 0.00 2.43
120 121 8.934023 ATAAACTACTTGTCTCATTGGGAAAA 57.066 30.769 0.00 0.00 0.00 2.29
121 122 7.333423 CGATAAACTACTTGTCTCATTGGGAAA 59.667 37.037 0.00 0.00 0.00 3.13
169 170 5.572896 CGCAGGAAATGATTTTTAGAACCAC 59.427 40.000 0.00 0.00 0.00 4.16
189 190 3.681897 AGAGAATACAAACTCAAGCGCAG 59.318 43.478 11.47 0.00 35.83 5.18
190 191 3.664107 AGAGAATACAAACTCAAGCGCA 58.336 40.909 11.47 0.00 35.83 6.09
192 193 5.406780 AGACAAGAGAATACAAACTCAAGCG 59.593 40.000 0.00 0.00 35.83 4.68
202 203 6.070995 ACCGGAATGTTAGACAAGAGAATACA 60.071 38.462 9.46 0.00 0.00 2.29
203 204 6.338937 ACCGGAATGTTAGACAAGAGAATAC 58.661 40.000 9.46 0.00 0.00 1.89
204 205 6.540438 ACCGGAATGTTAGACAAGAGAATA 57.460 37.500 9.46 0.00 0.00 1.75
205 206 5.422214 ACCGGAATGTTAGACAAGAGAAT 57.578 39.130 9.46 0.00 0.00 2.40
206 207 4.884668 ACCGGAATGTTAGACAAGAGAA 57.115 40.909 9.46 0.00 0.00 2.87
207 208 4.884668 AACCGGAATGTTAGACAAGAGA 57.115 40.909 9.46 0.00 0.00 3.10
208 209 4.755123 ACAAACCGGAATGTTAGACAAGAG 59.245 41.667 9.46 0.00 0.00 2.85
209 210 4.710324 ACAAACCGGAATGTTAGACAAGA 58.290 39.130 9.46 0.00 0.00 3.02
210 211 5.432885 AACAAACCGGAATGTTAGACAAG 57.567 39.130 22.15 0.00 37.96 3.16
220 221 8.035984 TCTTTTTCTTGTTAAACAAACCGGAAT 58.964 29.630 9.46 0.00 37.69 3.01
268 269 5.295292 CACTTTTGCAGATGGAGTACATAGG 59.705 44.000 0.00 0.00 40.72 2.57
290 291 6.981559 GGTAGAATCTCCTGAAGTACATTCAC 59.018 42.308 0.00 0.00 43.09 3.18
297 298 5.451937 CGCAATGGTAGAATCTCCTGAAGTA 60.452 44.000 0.00 0.00 0.00 2.24
302 303 2.868583 CACGCAATGGTAGAATCTCCTG 59.131 50.000 0.00 0.00 0.00 3.86
320 321 5.119931 TCTGATTTTTGATTTGGTCCACG 57.880 39.130 0.00 0.00 0.00 4.94
407 409 9.725019 AAGACACATACACTTCTCATTTATTCA 57.275 29.630 0.00 0.00 0.00 2.57
455 457 9.849166 AAGAATCGAGTTTTGTTTTCAGTTTAA 57.151 25.926 0.00 0.00 0.00 1.52
472 474 8.485976 ACATTTTCTCCTCTTAAAGAATCGAG 57.514 34.615 0.00 0.00 31.89 4.04
475 477 9.014297 TCCAACATTTTCTCCTCTTAAAGAATC 57.986 33.333 0.00 0.00 31.89 2.52
513 515 4.737855 TCTCCTTTGTTCTAGAATCCGG 57.262 45.455 8.75 7.47 0.00 5.14
514 516 5.578727 CACTTCTCCTTTGTTCTAGAATCCG 59.421 44.000 8.75 0.00 0.00 4.18
545 549 8.623903 ACAATACATAATATGCACAAACCTCAG 58.376 33.333 0.00 0.00 0.00 3.35
628 640 5.511545 GGCCGTTGGATATTCTCTTCACTAT 60.512 44.000 0.00 0.00 0.00 2.12
659 671 0.677731 CAAGCCTGGCAAATCCGAGA 60.678 55.000 22.65 0.00 37.80 4.04
682 694 8.417176 GCCGCTAATTGATATTTTAACATTTCG 58.583 33.333 0.00 0.00 0.00 3.46
710 727 3.630312 GGTTGTCAACTTGGCACTAAGAA 59.370 43.478 15.17 0.00 28.02 2.52
777 804 6.257630 GTGTGTTGCCATAAATGAAACAACTT 59.742 34.615 16.91 0.00 36.57 2.66
830 864 9.357652 CCAATGATTTCGTTTTCTGATGTTATT 57.642 29.630 0.00 0.00 0.00 1.40
846 880 7.065324 TCCACTACGTATTTGTCCAATGATTTC 59.935 37.037 0.00 0.00 0.00 2.17
851 887 6.677781 ATTCCACTACGTATTTGTCCAATG 57.322 37.500 0.00 0.00 0.00 2.82
889 925 6.100668 GCTGGTTTACTGTTTGGTTTGTTTA 58.899 36.000 0.00 0.00 0.00 2.01
901 944 4.072131 CACATAAGTGGCTGGTTTACTGT 58.928 43.478 0.00 0.00 42.13 3.55
1027 1075 3.946558 ACTCGTGGTTCCTCATAGTACTC 59.053 47.826 0.00 0.00 0.00 2.59
1049 1097 1.002624 GGAGGGCCATCACGAAACA 60.003 57.895 20.75 0.00 0.00 2.83
1050 1098 0.744771 GAGGAGGGCCATCACGAAAC 60.745 60.000 20.75 0.00 36.29 2.78
1093 1147 3.112709 GAAGCGCCGTGGTGAGAC 61.113 66.667 2.29 0.00 0.00 3.36
1263 1317 4.283467 TCCCTCGATTCAAGTTCTTTCTCA 59.717 41.667 0.00 0.00 0.00 3.27
1541 1599 5.468540 TGTGTCTACTGTAGCAGAAACAT 57.531 39.130 9.98 0.00 34.73 2.71
1569 1651 1.073284 GGGCCACCAACTTAGACTCAA 59.927 52.381 4.39 0.00 36.50 3.02
1651 2132 7.148641 GCAGTGATCTTAATAGTTAGCTGCTA 58.851 38.462 5.02 5.02 41.37 3.49
1654 2135 6.423302 CCTGCAGTGATCTTAATAGTTAGCTG 59.577 42.308 13.81 0.00 0.00 4.24
1887 2374 1.542547 CGCTGACCCCTAAAAGTGTGT 60.543 52.381 0.00 0.00 0.00 3.72
1888 2375 1.156736 CGCTGACCCCTAAAAGTGTG 58.843 55.000 0.00 0.00 0.00 3.82
1943 2448 0.723414 CTGTCGTACATGCCTTGCAG 59.277 55.000 0.00 0.00 43.65 4.41
2002 4093 4.129148 GGGTCCCATGGTCCAGCC 62.129 72.222 20.21 14.38 32.60 4.85
2053 4144 0.179094 AACGCCGACTGACAAGAACA 60.179 50.000 0.00 0.00 0.00 3.18
2076 4167 3.992943 ATCAGGTAATTTGTCCCGACA 57.007 42.857 0.00 0.00 39.98 4.35
2081 4172 6.831976 ACCAGAGATATCAGGTAATTTGTCC 58.168 40.000 2.06 0.00 31.32 4.02
2088 4179 6.265649 GCTTCAGTACCAGAGATATCAGGTAA 59.734 42.308 12.66 0.00 38.27 2.85
2090 4181 4.586841 GCTTCAGTACCAGAGATATCAGGT 59.413 45.833 9.55 9.55 38.14 4.00
2128 4274 5.070685 GGGTTACAATCTTCTGAACAAGGT 58.929 41.667 0.00 0.00 0.00 3.50
2151 4297 3.142162 TGGCCAATGCGCATCCAG 61.142 61.111 25.53 16.05 38.85 3.86
2159 4373 1.134995 GCTTCCTAAAGTGGCCAATGC 60.135 52.381 7.24 0.00 34.79 3.56
2161 4375 2.603075 TGCTTCCTAAAGTGGCCAAT 57.397 45.000 7.24 1.65 34.79 3.16
2163 4377 2.603075 ATTGCTTCCTAAAGTGGCCA 57.397 45.000 0.00 0.00 34.79 5.36
2169 4383 5.068723 AGCCATGATGAATTGCTTCCTAAAG 59.931 40.000 0.00 0.00 33.56 1.85
2185 4399 1.977854 TCCTAATACGCCAGCCATGAT 59.022 47.619 0.00 0.00 0.00 2.45
2186 4400 1.419381 TCCTAATACGCCAGCCATGA 58.581 50.000 0.00 0.00 0.00 3.07
2187 4401 2.254546 TTCCTAATACGCCAGCCATG 57.745 50.000 0.00 0.00 0.00 3.66
2188 4402 3.290948 TTTTCCTAATACGCCAGCCAT 57.709 42.857 0.00 0.00 0.00 4.40
2189 4403 2.791347 TTTTCCTAATACGCCAGCCA 57.209 45.000 0.00 0.00 0.00 4.75
2190 4404 7.120726 ACATTATATTTTCCTAATACGCCAGCC 59.879 37.037 0.00 0.00 0.00 4.85
2191 4405 8.040716 ACATTATATTTTCCTAATACGCCAGC 57.959 34.615 0.00 0.00 0.00 4.85
2216 4430 9.649167 GCCTGTTAAGTACAATCTTAGAGTTTA 57.351 33.333 0.00 0.00 36.02 2.01
2217 4431 8.376270 AGCCTGTTAAGTACAATCTTAGAGTTT 58.624 33.333 0.00 0.00 36.02 2.66
2218 4432 7.819900 CAGCCTGTTAAGTACAATCTTAGAGTT 59.180 37.037 0.00 0.00 36.02 3.01
2219 4433 7.038941 ACAGCCTGTTAAGTACAATCTTAGAGT 60.039 37.037 0.00 0.00 36.02 3.24
2220 4434 7.276658 CACAGCCTGTTAAGTACAATCTTAGAG 59.723 40.741 0.00 0.00 36.02 2.43
2221 4435 7.097192 CACAGCCTGTTAAGTACAATCTTAGA 58.903 38.462 0.00 0.00 36.02 2.10
2222 4436 6.183360 GCACAGCCTGTTAAGTACAATCTTAG 60.183 42.308 0.00 0.00 36.02 2.18
2223 4437 5.642063 GCACAGCCTGTTAAGTACAATCTTA 59.358 40.000 0.00 0.00 36.02 2.10
2224 4438 4.455877 GCACAGCCTGTTAAGTACAATCTT 59.544 41.667 0.00 0.00 36.02 2.40
2225 4439 4.003648 GCACAGCCTGTTAAGTACAATCT 58.996 43.478 0.00 0.00 36.02 2.40
2226 4440 3.751175 TGCACAGCCTGTTAAGTACAATC 59.249 43.478 0.00 0.00 36.02 2.67
2247 4461 5.765182 AGAGTCAAACAGTATCAAAAGGGTG 59.235 40.000 0.00 0.00 0.00 4.61
2265 4489 5.053811 TCAAAACGATTAGCAACAGAGTCA 58.946 37.500 0.00 0.00 0.00 3.41
2266 4490 5.591643 TCAAAACGATTAGCAACAGAGTC 57.408 39.130 0.00 0.00 0.00 3.36
2267 4491 6.373779 CAATCAAAACGATTAGCAACAGAGT 58.626 36.000 0.00 0.00 42.70 3.24
2268 4492 5.796935 CCAATCAAAACGATTAGCAACAGAG 59.203 40.000 0.00 0.00 42.70 3.35
2269 4493 5.240623 ACCAATCAAAACGATTAGCAACAGA 59.759 36.000 0.00 0.00 42.70 3.41
2270 4494 5.343058 CACCAATCAAAACGATTAGCAACAG 59.657 40.000 0.00 0.00 42.70 3.16
2271 4495 5.009110 TCACCAATCAAAACGATTAGCAACA 59.991 36.000 0.00 0.00 42.70 3.33
2272 4496 5.457140 TCACCAATCAAAACGATTAGCAAC 58.543 37.500 0.00 0.00 42.70 4.17
2273 4497 5.697473 TCACCAATCAAAACGATTAGCAA 57.303 34.783 0.00 0.00 42.70 3.91
2274 4498 5.009110 TGTTCACCAATCAAAACGATTAGCA 59.991 36.000 0.00 0.00 42.70 3.49
2282 4506 6.650390 AGGCAATAATGTTCACCAATCAAAAC 59.350 34.615 0.00 0.00 0.00 2.43
2348 4572 6.183360 CCTTATTCACCACCTTCAGCATTAAG 60.183 42.308 0.00 0.00 0.00 1.85
2351 4575 4.019174 CCTTATTCACCACCTTCAGCATT 58.981 43.478 0.00 0.00 0.00 3.56
2388 4615 0.517316 GACCGGTGAATGCAAGACAC 59.483 55.000 14.63 11.16 0.00 3.67
2392 4620 0.109597 GCAAGACCGGTGAATGCAAG 60.110 55.000 23.67 4.76 37.00 4.01
2405 4633 3.179048 AGAAACAAAAACAGCGCAAGAC 58.821 40.909 11.47 0.00 43.02 3.01
2409 4637 5.822278 TGTATAAGAAACAAAAACAGCGCA 58.178 33.333 11.47 0.00 0.00 6.09
2412 4640 9.777843 CGAATTTGTATAAGAAACAAAAACAGC 57.222 29.630 5.58 0.00 46.59 4.40
2455 4686 4.096382 CCAAGAAAACTTGTGCTGTGTACT 59.904 41.667 0.00 0.00 32.80 2.73
2575 4842 2.930682 GAGAAACTTGCACTACCGGATC 59.069 50.000 9.46 0.00 0.00 3.36
2581 4848 5.122239 TGCATACATGAGAAACTTGCACTAC 59.878 40.000 0.00 0.00 34.03 2.73
2624 4891 3.561725 GGCTTTAGTTGATAGCTCGCATT 59.438 43.478 0.00 0.00 35.30 3.56
2916 5396 9.793252 GTGAGCAATACAATATGAGACATTTTT 57.207 29.630 0.00 0.00 0.00 1.94
2917 5397 8.408601 GGTGAGCAATACAATATGAGACATTTT 58.591 33.333 0.00 0.00 0.00 1.82
2918 5398 7.776969 AGGTGAGCAATACAATATGAGACATTT 59.223 33.333 0.00 0.00 0.00 2.32
2919 5399 7.228108 CAGGTGAGCAATACAATATGAGACATT 59.772 37.037 0.00 0.00 0.00 2.71
2924 5404 7.281774 AGTTTCAGGTGAGCAATACAATATGAG 59.718 37.037 0.00 0.00 0.00 2.90
2943 5423 9.886132 AACAGGGTATACTTGTTATAGTTTCAG 57.114 33.333 18.41 0.00 0.00 3.02
2944 5424 9.880157 GAACAGGGTATACTTGTTATAGTTTCA 57.120 33.333 19.30 0.00 0.00 2.69
2945 5425 9.880157 TGAACAGGGTATACTTGTTATAGTTTC 57.120 33.333 19.30 10.57 0.00 2.78
2947 5427 7.985752 GCTGAACAGGGTATACTTGTTATAGTT 59.014 37.037 19.30 7.87 0.00 2.24
2950 5430 7.426606 TGCTGAACAGGGTATACTTGTTATA 57.573 36.000 19.30 13.41 0.00 0.98
2951 5431 6.308015 TGCTGAACAGGGTATACTTGTTAT 57.692 37.500 19.30 5.92 0.00 1.89
2954 5434 4.634012 TTGCTGAACAGGGTATACTTGT 57.366 40.909 2.25 5.40 0.00 3.16
2955 5435 5.122396 GTCTTTGCTGAACAGGGTATACTTG 59.878 44.000 2.25 4.78 0.00 3.16
2958 5438 4.575885 TGTCTTTGCTGAACAGGGTATAC 58.424 43.478 3.99 0.00 0.00 1.47
2959 5439 4.530553 TCTGTCTTTGCTGAACAGGGTATA 59.469 41.667 3.99 0.00 0.00 1.47
2965 5449 2.216046 TGCTCTGTCTTTGCTGAACAG 58.784 47.619 0.00 0.00 0.00 3.16
2969 5453 0.947660 CGCTGCTCTGTCTTTGCTGA 60.948 55.000 0.00 0.00 0.00 4.26
2973 5457 0.096628 GATGCGCTGCTCTGTCTTTG 59.903 55.000 9.73 0.00 0.00 2.77
2975 5459 0.740164 CAGATGCGCTGCTCTGTCTT 60.740 55.000 20.13 0.00 37.90 3.01
2981 5465 1.150567 CTACACCAGATGCGCTGCTC 61.151 60.000 9.73 2.74 43.50 4.26


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

AutoCloner maintained by Alex Coulton.