Multiple sequence alignment - TraesCS2B01G163300

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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 TraesCS2B01G163300 chr2B 100.000 8187 0 0 1 8187 135698878 135690692 0.000000e+00 15119.0
1 TraesCS2B01G163300 chr2B 81.020 1059 169 14 3038 4068 148250095 148249041 0.000000e+00 813.0
2 TraesCS2B01G163300 chr2B 89.791 382 27 5 934 1310 135694334 135693960 5.750000e-131 479.0
3 TraesCS2B01G163300 chr2B 89.791 382 27 5 4545 4919 135697945 135697569 5.750000e-131 479.0
4 TraesCS2B01G163300 chr2B 78.581 733 136 18 3458 4178 160907007 160907730 1.610000e-126 464.0
5 TraesCS2B01G163300 chr2B 80.307 391 74 2 3071 3458 100851664 100852054 8.040000e-75 292.0
6 TraesCS2B01G163300 chr2B 91.304 46 2 2 4269 4313 539367056 539367012 2.470000e-05 62.1
7 TraesCS2B01G163300 chr2B 90.909 44 1 3 4271 4313 22694159 22694118 1.000000e-03 56.5
8 TraesCS2B01G163300 chr2D 88.562 4179 312 77 3461 7567 83825878 83821794 0.000000e+00 4916.0
9 TraesCS2B01G163300 chr2D 90.975 831 44 11 1 830 83834982 83834182 0.000000e+00 1090.0
10 TraesCS2B01G163300 chr2D 86.020 980 99 15 1361 2316 83832959 83831994 0.000000e+00 1016.0
11 TraesCS2B01G163300 chr2D 87.393 698 68 11 2347 3029 83831994 83831302 0.000000e+00 784.0
12 TraesCS2B01G163300 chr2D 92.608 487 24 7 821 1305 83833752 83833276 0.000000e+00 689.0
13 TraesCS2B01G163300 chr2D 90.859 361 16 3 7565 7908 83821747 83821387 1.240000e-127 468.0
14 TraesCS2B01G163300 chr2D 89.488 371 32 6 4545 4913 83833640 83833275 5.790000e-126 462.0
15 TraesCS2B01G163300 chr2D 87.789 303 35 1 3094 3396 83826749 83826449 3.630000e-93 353.0
16 TraesCS2B01G163300 chr2D 100.000 51 0 0 1315 1365 83833289 83833239 2.430000e-15 95.3
17 TraesCS2B01G163300 chr2A 93.473 2436 122 17 4519 6933 84555192 84552773 0.000000e+00 3583.0
18 TraesCS2B01G163300 chr2A 88.319 839 90 6 2563 3397 84557284 84556450 0.000000e+00 1000.0
19 TraesCS2B01G163300 chr2A 82.823 1077 119 26 3403 4456 84556261 84555228 0.000000e+00 904.0
20 TraesCS2B01G163300 chr2A 91.736 605 32 5 6964 7567 84552720 84552133 0.000000e+00 824.0
21 TraesCS2B01G163300 chr2A 91.047 592 39 9 781 1365 84587028 84586444 0.000000e+00 787.0
22 TraesCS2B01G163300 chr2A 89.144 654 34 18 7565 8187 84552024 84551377 0.000000e+00 780.0
23 TraesCS2B01G163300 chr2A 84.771 742 89 16 1789 2514 84558339 84557606 0.000000e+00 723.0
24 TraesCS2B01G163300 chr2A 78.354 984 172 21 3081 4032 65680778 65681752 4.230000e-167 599.0
25 TraesCS2B01G163300 chr2A 89.791 382 27 7 4545 4919 84586877 84586501 5.750000e-131 479.0
26 TraesCS2B01G163300 chr2A 89.751 361 30 4 934 1293 84555166 84554812 9.690000e-124 455.0
27 TraesCS2B01G163300 chr2A 86.885 244 27 3 427 669 440944805 440944566 1.350000e-67 268.0
28 TraesCS2B01G163300 chr6D 85.101 2074 204 60 5238 7260 435306174 435308193 0.000000e+00 2021.0
29 TraesCS2B01G163300 chr6D 89.342 319 21 10 4596 4902 435300377 435300694 9.960000e-104 388.0
30 TraesCS2B01G163300 chr6D 89.241 316 23 5 985 1292 435300377 435300689 1.290000e-102 385.0
31 TraesCS2B01G163300 chr6D 86.800 250 27 4 422 668 13155569 13155323 2.910000e-69 274.0
32 TraesCS2B01G163300 chr6B 86.451 1882 180 44 5415 7260 658295883 658297725 0.000000e+00 1993.0
33 TraesCS2B01G163300 chr6B 89.728 331 26 6 963 1288 658275954 658276281 4.570000e-112 416.0
34 TraesCS2B01G163300 chr6B 89.189 333 23 11 4582 4903 658275962 658276292 3.560000e-108 403.0
35 TraesCS2B01G163300 chr6B 88.000 325 20 9 4604 4915 658291323 658291641 4.670000e-97 366.0
36 TraesCS2B01G163300 chr6B 89.139 267 19 4 1036 1292 658291354 658291620 2.850000e-84 324.0
37 TraesCS2B01G163300 chr6A 87.648 842 87 7 5385 6219 582252717 582253548 0.000000e+00 963.0
38 TraesCS2B01G163300 chr6A 84.135 1040 95 35 6258 7260 582253554 582254560 0.000000e+00 942.0
39 TraesCS2B01G163300 chr6A 88.272 324 18 11 4604 4915 582248688 582249003 3.610000e-98 370.0
40 TraesCS2B01G163300 chr6A 86.885 305 23 7 1017 1306 582248701 582249003 7.920000e-85 326.0
41 TraesCS2B01G163300 chr6A 81.569 255 41 3 3016 3265 585808047 585807794 1.080000e-48 206.0
42 TraesCS2B01G163300 chr6A 86.905 84 9 2 1595 1678 562469415 562469334 8.750000e-15 93.5
43 TraesCS2B01G163300 chr7D 80.078 1280 187 24 3018 4238 162198874 162200144 0.000000e+00 889.0
44 TraesCS2B01G163300 chr7D 80.000 1175 182 32 3104 4241 579967009 579965851 0.000000e+00 819.0
45 TraesCS2B01G163300 chr7D 78.447 1030 170 29 3015 4002 125911393 125910374 6.980000e-175 625.0
46 TraesCS2B01G163300 chr7D 76.857 1171 203 32 3119 4238 270161313 270162466 4.230000e-167 599.0
47 TraesCS2B01G163300 chr5B 80.338 1185 180 32 3094 4242 146905576 146906743 0.000000e+00 848.0
48 TraesCS2B01G163300 chr5B 80.277 289 34 13 1979 2259 659989608 659989881 6.480000e-46 196.0
49 TraesCS2B01G163300 chr5B 77.698 278 44 13 2012 2280 354728154 354728422 3.960000e-33 154.0
50 TraesCS2B01G163300 chr3B 79.009 1272 213 23 3004 4238 228738549 228737295 0.000000e+00 821.0
51 TraesCS2B01G163300 chr3B 88.571 245 23 3 426 668 353997184 353997425 8.040000e-75 292.0
52 TraesCS2B01G163300 chr3B 86.420 243 28 3 427 667 595539542 595539303 2.270000e-65 261.0
53 TraesCS2B01G163300 chr3B 91.304 46 1 3 4269 4313 592646780 592646737 8.870000e-05 60.2
54 TraesCS2B01G163300 chr1A 80.202 1091 171 16 3015 4070 393508872 393509952 0.000000e+00 776.0
55 TraesCS2B01G163300 chr1A 79.301 773 134 21 5411 6164 15345950 15345185 1.220000e-142 518.0
56 TraesCS2B01G163300 chr1A 81.019 648 105 14 3461 4096 45788911 45789552 4.410000e-137 499.0
57 TraesCS2B01G163300 chr1A 86.149 296 32 6 1013 1306 15348416 15348128 2.220000e-80 311.0
58 TraesCS2B01G163300 chr1A 73.205 571 120 26 1712 2262 529315272 529315829 8.440000e-40 176.0
59 TraesCS2B01G163300 chr1A 100.000 28 0 0 1379 1406 462035503 462035530 1.500000e-02 52.8
60 TraesCS2B01G163300 chr3A 79.313 1107 181 29 3107 4186 398887513 398888598 0.000000e+00 732.0
61 TraesCS2B01G163300 chr7B 78.245 1117 186 40 3068 4152 289195413 289194322 0.000000e+00 664.0
62 TraesCS2B01G163300 chr7B 76.683 832 139 31 3032 3817 465598468 465599290 2.130000e-110 411.0
63 TraesCS2B01G163300 chr7B 86.694 248 26 5 424 668 7711093 7711336 1.350000e-67 268.0
64 TraesCS2B01G163300 chr7B 94.444 36 2 0 2644 2679 164099382 164099417 1.000000e-03 56.5
65 TraesCS2B01G163300 chr1D 78.440 1141 151 38 3075 4185 449488104 449489179 0.000000e+00 656.0
66 TraesCS2B01G163300 chr1D 76.710 1082 191 36 3153 4185 487775562 487776631 5.590000e-151 545.0
67 TraesCS2B01G163300 chr1D 76.367 1024 188 27 3038 4026 305220177 305219173 1.230000e-137 501.0
68 TraesCS2B01G163300 chr4D 77.632 1064 185 27 3008 4026 504565858 504564803 1.520000e-166 597.0
69 TraesCS2B01G163300 chr4D 82.143 252 39 3 3094 3342 46189896 46189648 2.320000e-50 211.0
70 TraesCS2B01G163300 chr4D 72.996 474 94 25 1823 2280 445089036 445089491 1.430000e-27 135.0
71 TraesCS2B01G163300 chr7A 75.668 1122 196 42 3172 4238 299595536 299596635 9.550000e-134 488.0
72 TraesCS2B01G163300 chr7A 78.072 830 133 36 3016 3819 485494046 485493240 5.750000e-131 479.0
73 TraesCS2B01G163300 chr7A 88.889 63 6 1 4184 4245 50423426 50423488 8.810000e-10 76.8
74 TraesCS2B01G163300 chr4B 76.010 817 132 40 1741 2532 609480315 609479538 1.680000e-96 364.0
75 TraesCS2B01G163300 chr4B 80.751 213 37 3 3012 3220 656143808 656144020 6.570000e-36 163.0
76 TraesCS2B01G163300 chr5A 75.502 747 136 32 1712 2441 662354455 662355171 1.030000e-83 322.0
77 TraesCS2B01G163300 chr5A 86.066 244 28 4 427 668 69357495 69357256 2.930000e-64 257.0
78 TraesCS2B01G163300 chr5A 82.222 90 9 5 4353 4436 76727963 76727875 4.100000e-08 71.3
79 TraesCS2B01G163300 chr3D 88.980 245 22 3 426 668 236628801 236629042 1.730000e-76 298.0
80 TraesCS2B01G163300 chr3D 87.243 243 27 2 427 668 251409156 251409395 2.910000e-69 274.0
81 TraesCS2B01G163300 chr5D 72.968 566 122 22 1712 2261 315620859 315620309 1.410000e-37 169.0
82 TraesCS2B01G163300 chr5D 80.255 157 16 8 1518 1661 397322826 397322672 4.040000e-18 104.0


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 TraesCS2B01G163300 chr2B 135690692 135698878 8186 True 15119.000000 15119 100.000000 1 8187 1 chr2B.!!$R2 8186
1 TraesCS2B01G163300 chr2B 148249041 148250095 1054 True 813.000000 813 81.020000 3038 4068 1 chr2B.!!$R3 1030
2 TraesCS2B01G163300 chr2B 135693960 135697945 3985 True 479.000000 479 89.791000 934 4919 2 chr2B.!!$R5 3985
3 TraesCS2B01G163300 chr2B 160907007 160907730 723 False 464.000000 464 78.581000 3458 4178 1 chr2B.!!$F2 720
4 TraesCS2B01G163300 chr2D 83821387 83826749 5362 True 1912.333333 4916 89.070000 3094 7908 3 chr2D.!!$R1 4814
5 TraesCS2B01G163300 chr2D 83831302 83834982 3680 True 689.383333 1090 91.080667 1 4913 6 chr2D.!!$R2 4912
6 TraesCS2B01G163300 chr2A 84551377 84558339 6962 True 1181.285714 3583 88.573857 934 8187 7 chr2A.!!$R2 7253
7 TraesCS2B01G163300 chr2A 84586444 84587028 584 True 633.000000 787 90.419000 781 4919 2 chr2A.!!$R3 4138
8 TraesCS2B01G163300 chr2A 65680778 65681752 974 False 599.000000 599 78.354000 3081 4032 1 chr2A.!!$F1 951
9 TraesCS2B01G163300 chr6D 435306174 435308193 2019 False 2021.000000 2021 85.101000 5238 7260 1 chr6D.!!$F1 2022
10 TraesCS2B01G163300 chr6B 658295883 658297725 1842 False 1993.000000 1993 86.451000 5415 7260 1 chr6B.!!$F1 1845
11 TraesCS2B01G163300 chr6A 582248688 582254560 5872 False 650.250000 963 86.735000 1017 7260 4 chr6A.!!$F1 6243
12 TraesCS2B01G163300 chr7D 162198874 162200144 1270 False 889.000000 889 80.078000 3018 4238 1 chr7D.!!$F1 1220
13 TraesCS2B01G163300 chr7D 579965851 579967009 1158 True 819.000000 819 80.000000 3104 4241 1 chr7D.!!$R2 1137
14 TraesCS2B01G163300 chr7D 125910374 125911393 1019 True 625.000000 625 78.447000 3015 4002 1 chr7D.!!$R1 987
15 TraesCS2B01G163300 chr7D 270161313 270162466 1153 False 599.000000 599 76.857000 3119 4238 1 chr7D.!!$F2 1119
16 TraesCS2B01G163300 chr5B 146905576 146906743 1167 False 848.000000 848 80.338000 3094 4242 1 chr5B.!!$F1 1148
17 TraesCS2B01G163300 chr3B 228737295 228738549 1254 True 821.000000 821 79.009000 3004 4238 1 chr3B.!!$R1 1234
18 TraesCS2B01G163300 chr1A 393508872 393509952 1080 False 776.000000 776 80.202000 3015 4070 1 chr1A.!!$F2 1055
19 TraesCS2B01G163300 chr1A 45788911 45789552 641 False 499.000000 499 81.019000 3461 4096 1 chr1A.!!$F1 635
20 TraesCS2B01G163300 chr1A 15345185 15348416 3231 True 414.500000 518 82.725000 1013 6164 2 chr1A.!!$R1 5151
21 TraesCS2B01G163300 chr3A 398887513 398888598 1085 False 732.000000 732 79.313000 3107 4186 1 chr3A.!!$F1 1079
22 TraesCS2B01G163300 chr7B 289194322 289195413 1091 True 664.000000 664 78.245000 3068 4152 1 chr7B.!!$R1 1084
23 TraesCS2B01G163300 chr7B 465598468 465599290 822 False 411.000000 411 76.683000 3032 3817 1 chr7B.!!$F3 785
24 TraesCS2B01G163300 chr1D 449488104 449489179 1075 False 656.000000 656 78.440000 3075 4185 1 chr1D.!!$F1 1110
25 TraesCS2B01G163300 chr1D 487775562 487776631 1069 False 545.000000 545 76.710000 3153 4185 1 chr1D.!!$F2 1032
26 TraesCS2B01G163300 chr1D 305219173 305220177 1004 True 501.000000 501 76.367000 3038 4026 1 chr1D.!!$R1 988
27 TraesCS2B01G163300 chr4D 504564803 504565858 1055 True 597.000000 597 77.632000 3008 4026 1 chr4D.!!$R2 1018
28 TraesCS2B01G163300 chr7A 299595536 299596635 1099 False 488.000000 488 75.668000 3172 4238 1 chr7A.!!$F2 1066
29 TraesCS2B01G163300 chr7A 485493240 485494046 806 True 479.000000 479 78.072000 3016 3819 1 chr7A.!!$R1 803
30 TraesCS2B01G163300 chr4B 609479538 609480315 777 True 364.000000 364 76.010000 1741 2532 1 chr4B.!!$R1 791
31 TraesCS2B01G163300 chr5A 662354455 662355171 716 False 322.000000 322 75.502000 1712 2441 1 chr5A.!!$F1 729


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
89 90 0.096628 CCACTAGAAGGACGACGACG 59.903 60.000 5.58 5.58 45.75 5.12 F
774 776 1.076332 CACCACTCGTCGGAAAATCC 58.924 55.000 0.00 0.00 0.00 3.01 F
827 832 3.430862 CCACCACCATGCGTTCCG 61.431 66.667 0.00 0.00 0.00 4.30 F
5149 8030 0.892814 AGCTGCCTGAAACTGAAGCC 60.893 55.000 0.00 0.00 0.00 4.35 F
5976 12035 0.964860 TCCGCCATCATGGTTTGGTG 60.965 55.000 5.31 13.60 40.46 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
5058 7455 3.633986 AGAGATGTATCGATCACACAGCA 59.366 43.478 15.28 1.08 31.16 4.41 R
5129 7532 0.240411 GCTTCAGTTTCAGGCAGCTG 59.760 55.000 10.11 10.11 0.00 4.24 R
5659 11718 1.130054 ACTGCAGGAAGGAGAAGGCA 61.130 55.000 19.93 0.00 38.04 4.75 R
6559 12699 0.035152 ATTCTGCCGCAATCACCTCA 60.035 50.000 0.00 0.00 0.00 3.86 R
7483 13686 0.334335 TCCTGGTATTGGCATTGGCA 59.666 50.000 9.11 9.11 43.71 4.92 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
29 30 6.206438 TGCATAGCAGTTGACTCAATTTTACA 59.794 34.615 0.00 0.00 33.32 2.41
31 32 7.573843 GCATAGCAGTTGACTCAATTTTACAGT 60.574 37.037 0.00 0.00 0.00 3.55
36 37 7.324616 GCAGTTGACTCAATTTTACAGTGATTC 59.675 37.037 0.00 0.00 0.00 2.52
68 69 7.840716 TCCCAATGACAAAATAGGAGATTGATT 59.159 33.333 0.00 0.00 0.00 2.57
89 90 0.096628 CCACTAGAAGGACGACGACG 59.903 60.000 5.58 5.58 45.75 5.12
92 93 1.297664 CTAGAAGGACGACGACGGAT 58.702 55.000 12.58 0.00 44.46 4.18
127 128 2.093106 GGACATGTCTACGAGGTCACT 58.907 52.381 24.50 0.00 0.00 3.41
194 195 3.680937 CCAACTTGTTAAATAGCGTCCGA 59.319 43.478 0.00 0.00 0.00 4.55
198 199 5.864986 ACTTGTTAAATAGCGTCCGATTTG 58.135 37.500 0.00 0.00 30.48 2.32
244 245 6.470877 GCTTAAATTTTGTTCCGATTCGCATA 59.529 34.615 0.00 0.00 0.00 3.14
245 246 7.513041 GCTTAAATTTTGTTCCGATTCGCATAC 60.513 37.037 0.00 0.00 0.00 2.39
250 251 5.365403 TTGTTCCGATTCGCATACTTTTT 57.635 34.783 0.00 0.00 0.00 1.94
251 252 4.965062 TGTTCCGATTCGCATACTTTTTC 58.035 39.130 0.00 0.00 0.00 2.29
252 253 4.693566 TGTTCCGATTCGCATACTTTTTCT 59.306 37.500 0.00 0.00 0.00 2.52
253 254 5.180492 TGTTCCGATTCGCATACTTTTTCTT 59.820 36.000 0.00 0.00 0.00 2.52
254 255 5.464965 TCCGATTCGCATACTTTTTCTTC 57.535 39.130 0.00 0.00 0.00 2.87
255 256 5.175859 TCCGATTCGCATACTTTTTCTTCT 58.824 37.500 0.00 0.00 0.00 2.85
256 257 5.642063 TCCGATTCGCATACTTTTTCTTCTT 59.358 36.000 0.00 0.00 0.00 2.52
257 258 5.960105 CCGATTCGCATACTTTTTCTTCTTC 59.040 40.000 0.00 0.00 0.00 2.87
258 259 6.183360 CCGATTCGCATACTTTTTCTTCTTCT 60.183 38.462 0.00 0.00 0.00 2.85
259 260 7.237173 CGATTCGCATACTTTTTCTTCTTCTT 58.763 34.615 0.00 0.00 0.00 2.52
290 291 7.962918 CCCATTTATAATGTAGATTTAGTGCGC 59.037 37.037 0.00 0.00 0.00 6.09
370 371 9.748708 ATGAATTTTACGTATCCAATTTGATGG 57.251 29.630 0.00 0.00 42.12 3.51
377 378 2.357575 CCAATTTGATGGGCCGGCA 61.358 57.895 30.85 9.36 36.79 5.69
393 394 3.393472 GCACTGGAGATGCCCTAAG 57.607 57.895 0.00 0.00 37.08 2.18
431 432 6.827586 TTACCACCAAATGTTTGATACTCC 57.172 37.500 7.04 0.00 40.55 3.85
438 439 8.210946 CACCAAATGTTTGATACTCCCTCTATA 58.789 37.037 7.04 0.00 40.55 1.31
452 453 5.767670 TCCCTCTATACATCTATACAGGGC 58.232 45.833 4.15 0.00 39.47 5.19
474 476 5.700373 GGCCTAATGCATTTTTGAGACAAAA 59.300 36.000 18.75 5.70 43.89 2.44
490 492 7.424803 TGAGACAAAAATTGACCACATGTTAG 58.575 34.615 0.00 0.00 0.00 2.34
526 528 6.875948 TGACATGTAAGTTACACAAAGCAT 57.124 33.333 17.79 0.00 42.23 3.79
645 647 2.432444 CTCGAAAACACATTAGGCCCA 58.568 47.619 0.00 0.00 0.00 5.36
646 648 2.420022 CTCGAAAACACATTAGGCCCAG 59.580 50.000 0.00 0.00 0.00 4.45
659 661 6.678411 ACATTAGGCCCAGTATATATGGATGT 59.322 38.462 0.00 6.85 40.51 3.06
690 692 3.125146 TGACGTACTACTATTTCGCACGT 59.875 43.478 0.00 0.00 43.11 4.49
693 695 4.201851 ACGTACTACTATTTCGCACGTCAT 60.202 41.667 0.00 0.00 36.51 3.06
700 702 6.274001 ACTATTTCGCACGTCATGAATAAG 57.726 37.500 0.00 0.00 0.00 1.73
701 703 5.810587 ACTATTTCGCACGTCATGAATAAGT 59.189 36.000 0.00 0.00 0.00 2.24
702 704 5.545658 ATTTCGCACGTCATGAATAAGTT 57.454 34.783 0.00 0.00 0.00 2.66
703 705 4.577687 TTCGCACGTCATGAATAAGTTC 57.422 40.909 0.00 0.00 34.85 3.01
704 706 2.596862 TCGCACGTCATGAATAAGTTCG 59.403 45.455 0.00 2.45 37.15 3.95
705 707 2.285026 CGCACGTCATGAATAAGTTCGG 60.285 50.000 0.00 0.00 37.15 4.30
706 708 2.927477 GCACGTCATGAATAAGTTCGGA 59.073 45.455 0.00 0.00 37.15 4.55
707 709 3.555956 GCACGTCATGAATAAGTTCGGAT 59.444 43.478 0.00 0.00 37.15 4.18
708 710 4.034048 GCACGTCATGAATAAGTTCGGATT 59.966 41.667 0.00 0.00 37.15 3.01
709 711 5.447279 GCACGTCATGAATAAGTTCGGATTT 60.447 40.000 0.00 0.00 37.15 2.17
710 712 5.959527 CACGTCATGAATAAGTTCGGATTTG 59.040 40.000 0.00 0.00 37.15 2.32
711 713 5.642063 ACGTCATGAATAAGTTCGGATTTGT 59.358 36.000 0.00 0.00 37.15 2.83
712 714 6.814644 ACGTCATGAATAAGTTCGGATTTGTA 59.185 34.615 0.00 0.00 37.15 2.41
713 715 7.117454 CGTCATGAATAAGTTCGGATTTGTAC 58.883 38.462 0.00 0.00 37.15 2.90
714 716 7.010183 CGTCATGAATAAGTTCGGATTTGTACT 59.990 37.037 0.00 0.00 37.15 2.73
715 717 9.309516 GTCATGAATAAGTTCGGATTTGTACTA 57.690 33.333 0.00 0.00 37.15 1.82
716 718 9.309516 TCATGAATAAGTTCGGATTTGTACTAC 57.690 33.333 0.00 0.00 37.15 2.73
717 719 9.093970 CATGAATAAGTTCGGATTTGTACTACA 57.906 33.333 0.00 0.00 37.15 2.74
718 720 9.661563 ATGAATAAGTTCGGATTTGTACTACAA 57.338 29.630 0.00 0.00 37.15 2.41
765 767 4.154195 AGCATTAAATGTTCACCACTCGTC 59.846 41.667 0.00 0.00 0.00 4.20
773 775 2.074547 TCACCACTCGTCGGAAAATC 57.925 50.000 0.00 0.00 0.00 2.17
774 776 1.076332 CACCACTCGTCGGAAAATCC 58.924 55.000 0.00 0.00 0.00 3.01
827 832 3.430862 CCACCACCATGCGTTCCG 61.431 66.667 0.00 0.00 0.00 4.30
5058 7455 7.919385 ATTAATTAATTGCACCCCTTCAGAT 57.081 32.000 11.05 0.00 0.00 2.90
5129 7532 5.047802 TCTGCCAAAATTTTGAGATGGAGTC 60.048 40.000 28.44 9.43 40.55 3.36
5149 8030 0.892814 AGCTGCCTGAAACTGAAGCC 60.893 55.000 0.00 0.00 0.00 4.35
5272 11018 8.732746 AAACTAGAGTACAACACAATGAAAGT 57.267 30.769 0.00 0.00 0.00 2.66
5315 11069 4.913335 ATTCAGGCGACTTACGAATAGA 57.087 40.909 0.61 0.00 45.77 1.98
5316 11070 3.687572 TCAGGCGACTTACGAATAGAC 57.312 47.619 0.00 0.00 45.77 2.59
5317 11071 3.276857 TCAGGCGACTTACGAATAGACT 58.723 45.455 0.00 0.00 45.77 3.24
5328 11082 4.715527 ACGAATAGACTACTGTCCCAAC 57.284 45.455 0.00 0.00 43.91 3.77
5362 11146 4.492791 TGTTCTGCAGATGAACATTGTG 57.507 40.909 19.04 0.00 45.77 3.33
5370 11154 1.921887 GATGAACATTGTGGCATTGCG 59.078 47.619 1.91 0.00 0.00 4.85
5374 11162 1.177895 ACATTGTGGCATTGCGTCCA 61.178 50.000 1.91 0.00 0.00 4.02
5659 11718 2.677228 CAGATCCCCGGCCTGTTT 59.323 61.111 0.00 0.00 0.00 2.83
5740 11799 2.126424 GTCGTCTGCTCCGTGGTC 60.126 66.667 0.00 0.00 0.00 4.02
5750 11809 2.435938 CCGTGGTCCCATTCGTGG 60.436 66.667 0.00 0.00 0.00 4.94
5953 12012 1.446099 GACGATCAAGCTCGCCACA 60.446 57.895 0.00 0.00 42.35 4.17
5976 12035 0.964860 TCCGCCATCATGGTTTGGTG 60.965 55.000 5.31 13.60 40.46 4.17
6164 12260 3.141398 GTCATTGATCGCCATGTGGTAT 58.859 45.455 0.35 0.00 37.57 2.73
6170 12266 1.732941 TCGCCATGTGGTATGTTCAC 58.267 50.000 0.35 0.00 37.57 3.18
6262 12373 5.704978 TGATTCATGAACGAATGGACTTGAA 59.295 36.000 11.07 0.00 35.74 2.69
6263 12374 5.356882 TTCATGAACGAATGGACTTGAAC 57.643 39.130 3.38 0.00 0.00 3.18
6265 12376 5.063204 TCATGAACGAATGGACTTGAACTT 58.937 37.500 0.00 0.00 0.00 2.66
6266 12377 5.179368 TCATGAACGAATGGACTTGAACTTC 59.821 40.000 0.00 0.00 0.00 3.01
6267 12378 4.703897 TGAACGAATGGACTTGAACTTCT 58.296 39.130 0.00 0.00 0.00 2.85
6276 12387 3.181516 GGACTTGAACTTCTAATGCAGCG 60.182 47.826 0.00 0.00 0.00 5.18
6380 12510 1.860676 TGTTGTAAGCACGACCTGTC 58.139 50.000 0.00 0.00 38.17 3.51
6442 12582 1.227002 GATCGGAGCTGGGAACGTC 60.227 63.158 0.00 0.00 0.00 4.34
6505 12645 2.028385 GGTGTTCCTCGCTTTCTCCTTA 60.028 50.000 0.00 0.00 0.00 2.69
6653 12793 1.581934 CGTGCTGTCAGGTGAGAAAA 58.418 50.000 1.14 0.00 0.00 2.29
6654 12794 1.939934 CGTGCTGTCAGGTGAGAAAAA 59.060 47.619 1.14 0.00 0.00 1.94
6700 12843 6.727824 ACCAATCTTCAAGAATCACTTACG 57.272 37.500 0.00 0.00 37.03 3.18
6724 12867 5.970023 GTGCACTGAAGAGATAATTTCATGC 59.030 40.000 10.32 11.27 37.78 4.06
6733 12876 6.715280 AGAGATAATTTCATGCCACGGATAT 58.285 36.000 0.00 0.00 0.00 1.63
6746 12889 8.501580 CATGCCACGGATATGAAATCATATATC 58.498 37.037 14.28 6.73 46.36 1.63
6749 12892 6.646653 CCACGGATATGAAATCATATATCGGG 59.353 42.308 25.27 23.40 46.36 5.14
6795 12942 7.449934 AATTCCGCAAATTGACGAATAAATC 57.550 32.000 10.41 0.00 36.20 2.17
6934 13082 4.021368 GCTCAACTTCTACACCAAGGTAGA 60.021 45.833 0.00 0.00 45.94 2.59
6978 13149 1.379710 TCCATTGCGGAATGTGGGG 60.380 57.895 25.30 12.37 42.52 4.96
7013 13192 6.237861 GCTCGTACTCCATTCTGAAACATAAC 60.238 42.308 0.00 0.00 0.00 1.89
7044 13223 2.082231 GAGCACTGAACAGATGCACAT 58.918 47.619 21.28 9.15 37.67 3.21
7045 13224 2.486982 GAGCACTGAACAGATGCACATT 59.513 45.455 21.28 8.92 37.67 2.71
7046 13225 2.889045 AGCACTGAACAGATGCACATTT 59.111 40.909 21.28 6.98 37.67 2.32
7222 13406 4.753516 TGTGGCTAGCACTTGTATGTAT 57.246 40.909 18.24 0.00 0.00 2.29
7316 13500 3.907894 TTTGACCGTGTATTTCAAGGC 57.092 42.857 0.24 0.00 46.93 4.35
7317 13501 2.552599 TGACCGTGTATTTCAAGGCA 57.447 45.000 0.24 0.00 46.93 4.75
7329 13513 8.243426 GTGTATTTCAAGGCAATTTATGTCTCA 58.757 33.333 0.00 0.00 45.30 3.27
7338 13522 7.114754 AGGCAATTTATGTCTCAGAAAGATCA 58.885 34.615 0.00 0.00 41.07 2.92
7342 13526 9.565213 CAATTTATGTCTCAGAAAGATCAAACC 57.435 33.333 0.00 0.00 36.11 3.27
7384 13568 5.703592 AGAGAGTATACAGGAGAAGCATACG 59.296 44.000 5.50 0.00 0.00 3.06
7392 13576 0.596859 GAGAAGCATACGTACCGGGC 60.597 60.000 6.32 0.00 0.00 6.13
7396 13580 2.026590 CATACGTACCGGGCCGTC 59.973 66.667 26.32 13.60 38.43 4.79
7424 13608 4.047125 CCTCCCAACCGCACCCAT 62.047 66.667 0.00 0.00 0.00 4.00
7425 13609 2.751436 CTCCCAACCGCACCCATG 60.751 66.667 0.00 0.00 0.00 3.66
7426 13610 4.358841 TCCCAACCGCACCCATGG 62.359 66.667 4.14 4.14 0.00 3.66
7562 13765 6.115448 AGCTCAACTTGTAGTTAATCCAGT 57.885 37.500 0.00 0.00 36.03 4.00
7584 13899 6.261826 CAGTAAAGGAGGAGGCAATAGAAATG 59.738 42.308 0.00 0.00 0.00 2.32
7642 13960 2.105134 TCCTTACAAAGCAGGGACGAAA 59.895 45.455 0.00 0.00 0.00 3.46
7775 14094 4.934001 TGCTTTGTGTTGAAATTGCTTTCA 59.066 33.333 0.00 0.00 46.92 2.69
7816 14152 1.632409 AGCCACAAGGACATGATGACT 59.368 47.619 0.00 0.00 36.89 3.41
7854 14190 1.727335 GTCTGCTTCGCTGTTAACTCC 59.273 52.381 7.22 0.00 0.00 3.85
7868 14204 6.260050 GCTGTTAACTCCGGAAATGATAATCA 59.740 38.462 5.23 1.13 0.00 2.57
7898 14234 5.698089 ACTATTGGTAATCATCGAGCATGTG 59.302 40.000 0.00 0.00 33.66 3.21
7951 14287 3.393426 AGAAGTCATTGGCCATGGAAT 57.607 42.857 18.40 3.34 33.07 3.01
7965 14301 8.579850 TGGCCATGGAATATGTTTCTAATATC 57.420 34.615 18.40 0.00 0.00 1.63
7985 14321 4.299586 TCATGTCTGTATTGGGCTTGAA 57.700 40.909 0.00 0.00 0.00 2.69
8011 14347 7.549134 AGCAACTCAACGATGTCTATGAATTAA 59.451 33.333 0.00 0.00 0.00 1.40
8092 14434 7.547370 TGTTCTGTTGGGTTACAAAGAAATTTG 59.453 33.333 0.00 0.00 41.58 2.32
8093 14435 7.411486 TCTGTTGGGTTACAAAGAAATTTGA 57.589 32.000 7.66 0.00 41.58 2.69
8094 14436 8.017418 TCTGTTGGGTTACAAAGAAATTTGAT 57.983 30.769 7.66 0.00 41.58 2.57
8136 14481 2.224209 CCGGAAAATATGCCTACTCGGT 60.224 50.000 0.00 0.00 34.25 4.69
8153 14498 6.510879 ACTCGGTTTCAAAGAAGAAAAACT 57.489 33.333 0.00 0.00 39.05 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 6.060028 TCACTGTAAAATTGAGTCAACTGC 57.940 37.500 7.96 0.44 0.00 4.40
11 12 7.805071 GGAATCACTGTAAAATTGAGTCAACTG 59.195 37.037 7.96 2.61 35.06 3.16
29 30 7.392766 TTGTCATTGGGATATAGGAATCACT 57.607 36.000 0.00 0.00 30.16 3.41
36 37 8.605947 TCTCCTATTTTGTCATTGGGATATAGG 58.394 37.037 0.00 0.00 0.00 2.57
43 44 7.592885 ATCAATCTCCTATTTTGTCATTGGG 57.407 36.000 0.00 0.00 0.00 4.12
57 58 4.141528 CCTTCTAGTGGCAATCAATCTCCT 60.142 45.833 0.00 0.00 0.00 3.69
63 64 2.565391 TCGTCCTTCTAGTGGCAATCAA 59.435 45.455 0.00 0.00 0.00 2.57
68 69 0.607217 TCGTCGTCCTTCTAGTGGCA 60.607 55.000 0.00 0.00 0.00 4.92
89 90 0.034616 CCTCTGAGGCAATCCGATCC 59.965 60.000 11.42 0.00 37.47 3.36
92 93 0.614697 TGTCCTCTGAGGCAATCCGA 60.615 55.000 19.08 0.00 34.61 4.55
127 128 5.948162 ACTAAACTAAGTGAGATACCGGACA 59.052 40.000 9.46 0.00 0.00 4.02
172 173 3.680937 TCGGACGCTATTTAACAAGTTGG 59.319 43.478 7.96 0.00 0.00 3.77
184 185 1.953559 ATGTGCAAATCGGACGCTAT 58.046 45.000 0.00 0.00 39.19 2.97
239 240 9.704098 GGTATTAAGAAGAAGAAAAAGTATGCG 57.296 33.333 0.00 0.00 0.00 4.73
264 265 7.962918 GCGCACTAAATCTACATTATAAATGGG 59.037 37.037 0.30 0.00 0.00 4.00
290 291 1.819632 GGGCAGCCACATAACTCGG 60.820 63.158 15.19 0.00 0.00 4.63
335 336 6.183360 GGATACGTAAAATTCATGAGCACACA 60.183 38.462 0.00 0.00 0.00 3.72
393 394 3.501062 GGTGGTAAAAGTGTAGAGTTGCC 59.499 47.826 0.00 0.00 0.00 4.52
431 432 5.772004 AGGCCCTGTATAGATGTATAGAGG 58.228 45.833 20.60 20.60 46.03 3.69
438 439 3.909995 TGCATTAGGCCCTGTATAGATGT 59.090 43.478 0.00 0.00 43.89 3.06
452 453 9.601971 CAATTTTTGTCTCAAAAATGCATTAGG 57.398 29.630 24.11 5.49 39.13 2.69
474 476 7.701539 TTATTGCTCTAACATGTGGTCAATT 57.298 32.000 0.00 0.00 0.00 2.32
513 515 9.124807 GGAATTTAACTGTATGCTTTGTGTAAC 57.875 33.333 0.00 0.00 37.35 2.50
524 526 7.896274 CGTTTCACGTAGGAATTTAACTGTATG 59.104 37.037 0.00 0.00 36.74 2.39
526 528 7.144661 TCGTTTCACGTAGGAATTTAACTGTA 58.855 34.615 0.00 0.00 43.14 2.74
620 622 3.500680 GCCTAATGTGTTTTCGAGGTTGA 59.499 43.478 0.00 0.00 0.00 3.18
645 647 9.869667 GTCATACTCCCTACATCCATATATACT 57.130 37.037 0.00 0.00 0.00 2.12
646 648 8.784994 CGTCATACTCCCTACATCCATATATAC 58.215 40.741 0.00 0.00 0.00 1.47
659 661 7.600375 CGAAATAGTAGTACGTCATACTCCCTA 59.400 40.741 14.03 7.13 43.47 3.53
690 692 9.309516 GTAGTACAAATCCGAACTTATTCATGA 57.690 33.333 0.00 0.00 34.14 3.07
693 695 9.661563 ATTGTAGTACAAATCCGAACTTATTCA 57.338 29.630 19.19 0.00 41.96 2.57
700 702 5.731263 GCGAAATTGTAGTACAAATCCGAAC 59.269 40.000 25.03 12.93 41.96 3.95
701 703 5.408909 TGCGAAATTGTAGTACAAATCCGAA 59.591 36.000 25.03 17.90 41.96 4.30
702 704 4.930405 TGCGAAATTGTAGTACAAATCCGA 59.070 37.500 25.03 14.38 41.96 4.55
703 705 5.211266 TGCGAAATTGTAGTACAAATCCG 57.789 39.130 19.19 19.91 41.96 4.18
704 706 7.027161 ACAATGCGAAATTGTAGTACAAATCC 58.973 34.615 19.19 13.59 41.96 3.01
705 707 7.218204 GGACAATGCGAAATTGTAGTACAAATC 59.782 37.037 19.19 17.61 41.96 2.17
706 708 7.027161 GGACAATGCGAAATTGTAGTACAAAT 58.973 34.615 19.19 8.79 41.96 2.32
707 709 6.205853 AGGACAATGCGAAATTGTAGTACAAA 59.794 34.615 19.19 2.70 41.96 2.83
708 710 5.703592 AGGACAATGCGAAATTGTAGTACAA 59.296 36.000 17.74 17.74 41.76 2.41
709 711 5.242434 AGGACAATGCGAAATTGTAGTACA 58.758 37.500 14.60 0.00 41.76 2.90
710 712 5.796350 AGGACAATGCGAAATTGTAGTAC 57.204 39.130 14.60 0.00 41.76 2.73
711 713 7.388224 TGTTTAGGACAATGCGAAATTGTAGTA 59.612 33.333 14.60 8.26 41.76 1.82
712 714 6.205853 TGTTTAGGACAATGCGAAATTGTAGT 59.794 34.615 14.60 9.01 41.76 2.73
713 715 6.523201 GTGTTTAGGACAATGCGAAATTGTAG 59.477 38.462 14.60 0.00 41.76 2.74
714 716 6.205853 AGTGTTTAGGACAATGCGAAATTGTA 59.794 34.615 14.60 0.60 41.76 2.41
715 717 5.009610 AGTGTTTAGGACAATGCGAAATTGT 59.990 36.000 14.54 14.54 44.08 2.71
716 718 5.343058 CAGTGTTTAGGACAATGCGAAATTG 59.657 40.000 9.08 9.08 45.88 2.32
717 719 5.460646 CAGTGTTTAGGACAATGCGAAATT 58.539 37.500 0.00 0.00 45.88 1.82
718 720 5.046910 CAGTGTTTAGGACAATGCGAAAT 57.953 39.130 0.00 0.00 45.88 2.17
765 767 8.552865 TCGTACACATTTATATTGGATTTTCCG 58.447 33.333 0.00 0.00 40.17 4.30
773 775 4.084223 GGGCGTCGTACACATTTATATTGG 60.084 45.833 0.00 0.00 0.00 3.16
774 776 4.748102 AGGGCGTCGTACACATTTATATTG 59.252 41.667 0.00 0.00 0.00 1.90
883 1327 4.021544 GGGACTGGAGATTAGCAGATAGTG 60.022 50.000 0.00 0.00 0.00 2.74
5058 7455 3.633986 AGAGATGTATCGATCACACAGCA 59.366 43.478 15.28 1.08 31.16 4.41
5103 7503 6.013984 ACTCCATCTCAAAATTTTGGCAGAAT 60.014 34.615 26.45 12.59 38.66 2.40
5129 7532 0.240411 GCTTCAGTTTCAGGCAGCTG 59.760 55.000 10.11 10.11 0.00 4.24
5170 8051 2.813754 CACCTCGGAGCTTTTGAAATCA 59.186 45.455 0.00 0.00 0.00 2.57
5315 11069 2.404559 TGGACTTGTTGGGACAGTAGT 58.595 47.619 0.00 0.00 42.39 2.73
5316 11070 3.703001 ATGGACTTGTTGGGACAGTAG 57.297 47.619 0.00 0.00 42.39 2.57
5317 11071 4.595781 AGTTATGGACTTGTTGGGACAGTA 59.404 41.667 0.00 0.00 35.15 2.74
5362 11146 1.212751 GGAGTTTGGACGCAATGCC 59.787 57.895 0.00 0.00 0.00 4.40
5370 11154 4.079253 TGCTGGATTTTAGGAGTTTGGAC 58.921 43.478 0.00 0.00 0.00 4.02
5374 11162 7.505923 AGTTACTTTGCTGGATTTTAGGAGTTT 59.494 33.333 0.00 0.00 0.00 2.66
5547 11606 2.969238 GCCAGATGACGGCGATGG 60.969 66.667 16.62 14.07 40.35 3.51
5659 11718 1.130054 ACTGCAGGAAGGAGAAGGCA 61.130 55.000 19.93 0.00 38.04 4.75
5809 11868 2.507944 GTGGAGATGGCGGCAGAT 59.492 61.111 19.29 8.27 0.00 2.90
5909 11968 0.734942 ACATAGTTGAACGCGTCGGG 60.735 55.000 14.44 7.88 0.00 5.14
5953 12012 1.863155 AAACCATGATGGCGGAGGGT 61.863 55.000 12.25 0.00 42.67 4.34
6164 12260 3.613193 CGGACGGTATTGAAGAGTGAACA 60.613 47.826 0.00 0.00 0.00 3.18
6170 12266 2.545952 CCCATCGGACGGTATTGAAGAG 60.546 54.545 0.00 0.00 0.00 2.85
6262 12373 1.424493 GCTCGCGCTGCATTAGAAGT 61.424 55.000 16.72 0.00 0.00 3.01
6263 12374 1.275066 GCTCGCGCTGCATTAGAAG 59.725 57.895 16.72 0.00 0.00 2.85
6265 12376 2.167219 GTGCTCGCGCTGCATTAGA 61.167 57.895 24.38 3.67 42.69 2.10
6266 12377 2.322422 GTGCTCGCGCTGCATTAG 59.678 61.111 24.38 7.08 42.69 1.73
6267 12378 3.553765 CGTGCTCGCGCTGCATTA 61.554 61.111 24.38 4.51 42.69 1.90
6351 12469 5.741982 GTCGTGCTTACAACAACAAAGAAAT 59.258 36.000 0.00 0.00 0.00 2.17
6442 12582 1.011904 CGCATTCTTCGCCATGTCG 60.012 57.895 0.00 0.00 0.00 4.35
6505 12645 3.255397 AAGCCCAGCAGCAGGACT 61.255 61.111 5.14 0.00 34.23 3.85
6559 12699 0.035152 ATTCTGCCGCAATCACCTCA 60.035 50.000 0.00 0.00 0.00 3.86
6653 12793 7.419172 GGTTTAGGTAGTTAGCTGATGGATCTT 60.419 40.741 0.00 0.00 35.39 2.40
6654 12794 6.042208 GGTTTAGGTAGTTAGCTGATGGATCT 59.958 42.308 0.00 0.00 35.39 2.75
6700 12843 5.970023 GCATGAAATTATCTCTTCAGTGCAC 59.030 40.000 9.40 9.40 36.79 4.57
6724 12867 6.646653 CCCGATATATGATTTCATATCCGTGG 59.353 42.308 14.69 15.91 43.91 4.94
6795 12942 2.738521 CCCTGTCGTCACAAGCCG 60.739 66.667 0.00 0.00 29.82 5.52
6848 12996 1.886886 ACGCCACAAGGTTCGTTATT 58.113 45.000 0.00 0.00 37.19 1.40
6993 13164 5.810587 GCTCGTTATGTTTCAGAATGGAGTA 59.189 40.000 0.00 0.00 36.16 2.59
7222 13406 0.541764 GGCCATCTCACAAAACCCCA 60.542 55.000 0.00 0.00 0.00 4.96
7308 13492 7.523293 TTCTGAGACATAAATTGCCTTGAAA 57.477 32.000 0.00 0.00 0.00 2.69
7312 13496 7.613022 TGATCTTTCTGAGACATAAATTGCCTT 59.387 33.333 0.00 0.00 37.17 4.35
7316 13500 9.565213 GGTTTGATCTTTCTGAGACATAAATTG 57.435 33.333 0.00 0.00 37.17 2.32
7317 13501 9.525826 AGGTTTGATCTTTCTGAGACATAAATT 57.474 29.630 0.00 0.00 37.17 1.82
7329 13513 5.324409 TGCCATTACAGGTTTGATCTTTCT 58.676 37.500 0.00 0.00 0.00 2.52
7338 13522 5.777732 TCTGGTTAATTGCCATTACAGGTTT 59.222 36.000 4.38 0.00 35.19 3.27
7342 13526 5.882557 ACTCTCTGGTTAATTGCCATTACAG 59.117 40.000 4.38 3.14 35.19 2.74
7392 13576 3.432051 GAGGGTGGAGCATCGACGG 62.432 68.421 0.00 0.00 45.51 4.79
7396 13580 2.669133 TTGGGAGGGTGGAGCATCG 61.669 63.158 0.00 0.00 34.37 3.84
7401 13585 4.410400 GCGGTTGGGAGGGTGGAG 62.410 72.222 0.00 0.00 0.00 3.86
7422 13606 7.718525 TGAAAATATGAACATCCATGACCATG 58.281 34.615 0.00 3.11 38.51 3.66
7423 13607 7.901283 TGAAAATATGAACATCCATGACCAT 57.099 32.000 0.00 0.00 0.00 3.55
7424 13608 7.147863 CCTTGAAAATATGAACATCCATGACCA 60.148 37.037 0.00 0.00 0.00 4.02
7425 13609 7.068593 TCCTTGAAAATATGAACATCCATGACC 59.931 37.037 0.00 0.00 0.00 4.02
7426 13610 7.917505 GTCCTTGAAAATATGAACATCCATGAC 59.082 37.037 0.00 0.00 0.00 3.06
7483 13686 0.334335 TCCTGGTATTGGCATTGGCA 59.666 50.000 9.11 9.11 43.71 4.92
7484 13687 0.746659 GTCCTGGTATTGGCATTGGC 59.253 55.000 2.73 2.73 40.13 4.52
7485 13688 2.142356 TGTCCTGGTATTGGCATTGG 57.858 50.000 0.00 0.00 0.00 3.16
7486 13689 3.289836 TGATGTCCTGGTATTGGCATTG 58.710 45.455 0.00 0.00 0.00 2.82
7487 13690 3.668141 TGATGTCCTGGTATTGGCATT 57.332 42.857 0.00 0.00 0.00 3.56
7488 13691 3.138839 TGATGATGTCCTGGTATTGGCAT 59.861 43.478 0.00 0.00 0.00 4.40
7562 13765 6.327386 ACATTTCTATTGCCTCCTCCTTTA 57.673 37.500 0.00 0.00 0.00 1.85
7584 13899 2.427095 GTTAGCCACCATGGGAATGAAC 59.573 50.000 18.09 10.65 38.19 3.18
7613 13928 3.947834 CCTGCTTTGTAAGGAACCCATAG 59.052 47.826 0.00 0.00 35.40 2.23
7666 13985 3.825143 AATAATGAGGCAATTGGGCAC 57.175 42.857 7.72 0.24 46.44 5.01
7775 14094 6.043590 TGGCTCTGAAGTATTATGACCATCAT 59.956 38.462 0.00 0.00 40.72 2.45
7776 14095 5.366477 TGGCTCTGAAGTATTATGACCATCA 59.634 40.000 0.00 0.00 0.00 3.07
7777 14096 5.698545 GTGGCTCTGAAGTATTATGACCATC 59.301 44.000 0.00 0.00 0.00 3.51
7778 14097 5.130975 TGTGGCTCTGAAGTATTATGACCAT 59.869 40.000 0.00 0.00 0.00 3.55
7779 14098 4.469586 TGTGGCTCTGAAGTATTATGACCA 59.530 41.667 0.00 0.00 0.00 4.02
7780 14099 5.023533 TGTGGCTCTGAAGTATTATGACC 57.976 43.478 0.00 0.00 0.00 4.02
7782 14101 5.425217 TCCTTGTGGCTCTGAAGTATTATGA 59.575 40.000 0.00 0.00 0.00 2.15
7816 14152 7.759489 AGCAGACCTCATTGTAAATGTTTAA 57.241 32.000 0.26 0.00 0.00 1.52
7878 14214 2.613595 GCACATGCTCGATGATTACCAA 59.386 45.455 0.00 0.00 38.21 3.67
7918 14254 6.088824 CCAATGACTTCTTGTGTTATTGAGC 58.911 40.000 11.24 0.00 41.12 4.26
7965 14301 3.181493 GCTTCAAGCCCAATACAGACATG 60.181 47.826 0.00 0.00 34.48 3.21
7972 14308 2.819608 TGAGTTGCTTCAAGCCCAATAC 59.180 45.455 7.01 0.00 41.51 1.89
7978 14314 0.944386 TCGTTGAGTTGCTTCAAGCC 59.056 50.000 7.01 0.00 41.51 4.35
7985 14321 4.456280 TCATAGACATCGTTGAGTTGCT 57.544 40.909 0.00 0.00 0.00 3.91
8050 14386 9.377312 CCAACAGAACAAAAGAAGGATTTTAAA 57.623 29.630 0.00 0.00 31.29 1.52
8053 14389 6.070251 ACCCAACAGAACAAAAGAAGGATTTT 60.070 34.615 0.00 0.00 32.65 1.82
8054 14390 5.425217 ACCCAACAGAACAAAAGAAGGATTT 59.575 36.000 0.00 0.00 0.00 2.17
8068 14410 7.841956 TCAAATTTCTTTGTAACCCAACAGAA 58.158 30.769 0.00 0.00 42.02 3.02
8124 14469 3.695830 TCTTTGAAACCGAGTAGGCAT 57.304 42.857 0.00 0.00 46.52 4.40



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

AutoCloner maintained by Alex Coulton.