Multiple sequence alignment - TraesCS2A01G303200

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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 TraesCS2A01G303200 chr2A 100.000 3237 0 0 444 3680 520307625 520304389 0.000000e+00 5978.0
1 TraesCS2A01G303200 chr2A 100.000 2288 0 0 4033 6320 520304036 520301749 0.000000e+00 4226.0
2 TraesCS2A01G303200 chr2A 91.381 2042 133 9 1671 3676 47758519 47760553 0.000000e+00 2756.0
3 TraesCS2A01G303200 chr2A 100.000 158 0 0 1 158 520308068 520307911 6.200000e-75 292.0
4 TraesCS2A01G303200 chr6D 91.367 2305 123 20 1409 3680 3492111 3494372 0.000000e+00 3085.0
5 TraesCS2A01G303200 chr6D 87.147 319 15 3 4033 4330 3494392 3494705 7.850000e-89 339.0
6 TraesCS2A01G303200 chr6D 83.280 311 38 6 4035 4332 436718863 436718554 2.240000e-69 274.0
7 TraesCS2A01G303200 chr6D 92.045 176 13 1 4154 4328 6002131 6002306 4.890000e-61 246.0
8 TraesCS2A01G303200 chr6D 91.954 174 13 1 4154 4327 162110711 162110539 6.330000e-60 243.0
9 TraesCS2A01G303200 chr6D 90.960 177 16 0 4154 4330 23079387 23079563 8.190000e-59 239.0
10 TraesCS2A01G303200 chr6D 89.888 178 18 0 4154 4331 346275582 346275759 4.930000e-56 230.0
11 TraesCS2A01G303200 chr6D 90.173 173 17 0 4156 4328 177831402 177831574 6.380000e-55 226.0
12 TraesCS2A01G303200 chr6D 89.385 179 19 0 4154 4332 263987754 263987576 6.380000e-55 226.0
13 TraesCS2A01G303200 chr6D 89.714 175 18 0 4154 4328 314084293 314084467 2.290000e-54 224.0
14 TraesCS2A01G303200 chr6D 87.283 173 22 0 4160 4332 116854481 116854653 1.390000e-46 198.0
15 TraesCS2A01G303200 chr6D 85.965 171 23 1 4160 4330 357779283 357779114 1.400000e-41 182.0
16 TraesCS2A01G303200 chr6D 85.465 172 23 2 4160 4331 140088413 140088244 1.810000e-40 178.0
17 TraesCS2A01G303200 chr6D 100.000 32 0 0 4121 4152 23079333 23079364 6.840000e-05 60.2
18 TraesCS2A01G303200 chr1D 90.745 2323 154 20 1409 3680 469534302 469536614 0.000000e+00 3042.0
19 TraesCS2A01G303200 chr1D 89.933 2076 160 17 1632 3680 305050449 305048396 0.000000e+00 2630.0
20 TraesCS2A01G303200 chr1D 90.556 180 17 0 4154 4333 439138513 439138334 8.190000e-59 239.0
21 TraesCS2A01G303200 chr1D 81.388 317 30 13 4042 4330 471011041 471010726 1.370000e-56 231.0
22 TraesCS2A01G303200 chr1D 90.286 175 17 0 4154 4328 19037702 19037876 4.930000e-56 230.0
23 TraesCS2A01G303200 chr1D 80.556 324 33 13 4033 4328 454452602 454452923 8.250000e-54 222.0
24 TraesCS2A01G303200 chr7A 90.355 2312 169 23 1410 3680 652918477 652920775 0.000000e+00 2985.0
25 TraesCS2A01G303200 chr1B 91.242 2078 149 10 1632 3680 624963704 624961631 0.000000e+00 2798.0
26 TraesCS2A01G303200 chr1B 88.458 2322 208 21 1409 3680 679038029 679040340 0.000000e+00 2748.0
27 TraesCS2A01G303200 chr2D 90.486 2018 117 28 4342 6320 385165022 385163041 0.000000e+00 2593.0
28 TraesCS2A01G303200 chr2D 92.707 905 33 10 444 1342 385166080 385165203 0.000000e+00 1275.0
29 TraesCS2A01G303200 chr2D 83.438 320 21 15 4039 4330 576298676 576298361 1.040000e-67 268.0
30 TraesCS2A01G303200 chr2D 82.748 313 39 13 4035 4335 511440579 511440270 1.350000e-66 265.0
31 TraesCS2A01G303200 chr2D 92.697 178 13 0 4154 4331 540194423 540194600 2.260000e-64 257.0
32 TraesCS2A01G303200 chr2D 92.697 178 11 2 4154 4331 88777355 88777530 8.130000e-64 255.0
33 TraesCS2A01G303200 chr2D 92.571 175 13 0 4154 4328 480755766 480755940 1.050000e-62 252.0
34 TraesCS2A01G303200 chr2D 91.617 167 5 1 1 158 385166282 385166116 8.250000e-54 222.0
35 TraesCS2A01G303200 chr2D 92.958 71 2 1 1343 1410 385165150 385165080 4.030000e-17 100.0
36 TraesCS2A01G303200 chr4D 94.348 1610 75 2 2086 3680 386214899 386213291 0.000000e+00 2455.0
37 TraesCS2A01G303200 chr4D 90.816 1764 152 7 1918 3680 362724060 362725814 0.000000e+00 2351.0
38 TraesCS2A01G303200 chr4D 85.050 301 29 9 4035 4321 428115265 428115563 6.200000e-75 292.0
39 TraesCS2A01G303200 chr4D 82.012 328 30 5 4033 4332 50774940 50775266 1.050000e-62 252.0
40 TraesCS2A01G303200 chr4D 90.857 175 16 0 4154 4328 473985847 473986021 1.060000e-57 235.0
41 TraesCS2A01G303200 chr4D 83.019 265 25 9 4033 4280 51620520 51620781 8.250000e-54 222.0
42 TraesCS2A01G303200 chr4D 80.556 324 32 17 4039 4333 386213265 386212944 2.970000e-53 220.0
43 TraesCS2A01G303200 chr4D 84.388 237 16 11 4116 4331 501494484 501494720 4.960000e-51 213.0
44 TraesCS2A01G303200 chr4A 90.343 1719 160 4 1962 3680 73443643 73441931 0.000000e+00 2250.0
45 TraesCS2A01G303200 chr6B 85.026 2117 214 42 1410 3486 641448278 641450331 0.000000e+00 2058.0
46 TraesCS2A01G303200 chr6B 89.338 1435 129 13 1409 2825 671647013 671645585 0.000000e+00 1781.0
47 TraesCS2A01G303200 chr3A 88.889 1665 133 14 1409 3024 191830024 191828363 0.000000e+00 2002.0
48 TraesCS2A01G303200 chr7D 91.040 1384 99 6 1881 3258 412131623 412130259 0.000000e+00 1845.0
49 TraesCS2A01G303200 chr7D 91.789 889 62 2 2797 3680 111731740 111730858 0.000000e+00 1227.0
50 TraesCS2A01G303200 chr7D 81.905 315 40 9 4033 4332 38080327 38080015 3.780000e-62 250.0
51 TraesCS2A01G303200 chr7D 82.132 319 26 10 4039 4328 412114629 412114313 1.760000e-60 244.0
52 TraesCS2A01G303200 chr5D 92.438 1243 82 4 2441 3680 501489230 501490463 0.000000e+00 1764.0
53 TraesCS2A01G303200 chr5D 86.323 446 44 11 1409 1840 421369593 421370035 2.670000e-128 470.0
54 TraesCS2A01G303200 chr5D 85.252 278 24 9 4057 4328 468826143 468826409 2.900000e-68 270.0
55 TraesCS2A01G303200 chr5D 83.180 327 24 7 4033 4328 501490483 501490809 2.900000e-68 270.0
56 TraesCS2A01G303200 chr5D 92.000 175 14 0 4154 4328 557551090 557550916 4.890000e-61 246.0
57 TraesCS2A01G303200 chr5D 90.449 178 17 0 4154 4331 55620690 55620513 1.060000e-57 235.0
58 TraesCS2A01G303200 chr5D 86.620 142 10 4 4033 4165 100923561 100923702 1.420000e-31 148.0
59 TraesCS2A01G303200 chrUn 90.730 1014 60 8 1409 2391 153387998 153386988 0.000000e+00 1321.0
60 TraesCS2A01G303200 chrUn 82.209 326 28 14 4033 4330 19800470 19800793 2.920000e-63 254.0
61 TraesCS2A01G303200 chrUn 82.727 220 27 2 4121 4330 35183968 35183750 1.080000e-42 185.0
62 TraesCS2A01G303200 chrUn 82.727 220 27 2 4121 4330 35189689 35189471 1.080000e-42 185.0
63 TraesCS2A01G303200 chrUn 84.337 166 25 1 4165 4330 36298361 36298525 1.820000e-35 161.0
64 TraesCS2A01G303200 chrUn 77.316 313 45 17 4035 4328 157092191 157091886 1.820000e-35 161.0
65 TraesCS2A01G303200 chrUn 84.337 166 25 1 4165 4330 476357629 476357465 1.820000e-35 161.0
66 TraesCS2A01G303200 chrUn 82.840 169 29 0 4160 4328 314889421 314889589 1.100000e-32 152.0
67 TraesCS2A01G303200 chrUn 85.542 83 11 1 4246 4328 9974926 9974845 1.130000e-12 86.1
68 TraesCS2A01G303200 chr2B 95.070 791 30 3 4850 5639 456022120 456021338 0.000000e+00 1236.0
69 TraesCS2A01G303200 chr2B 91.611 906 36 8 444 1342 456023753 456022881 0.000000e+00 1216.0
70 TraesCS2A01G303200 chr2B 90.290 690 43 10 5636 6303 456021179 456020492 0.000000e+00 881.0
71 TraesCS2A01G303200 chr2B 86.287 773 65 18 1410 2148 453656335 453657100 0.000000e+00 802.0
72 TraesCS2A01G303200 chr2B 95.391 499 19 1 4342 4840 456022700 456022206 0.000000e+00 791.0
73 TraesCS2A01G303200 chr2B 87.049 471 54 6 1409 1875 566406439 566406906 5.610000e-145 525.0
74 TraesCS2A01G303200 chr2B 95.652 161 4 1 1 158 456023957 456023797 8.130000e-64 255.0
75 TraesCS2A01G303200 chr2B 82.508 303 37 9 4039 4328 30425606 30425307 1.050000e-62 252.0
76 TraesCS2A01G303200 chr3B 83.841 328 23 9 4033 4331 250570722 250571048 1.040000e-72 285.0
77 TraesCS2A01G303200 chr3B 82.675 329 27 7 4033 4332 347900023 347900350 1.350000e-66 265.0
78 TraesCS2A01G303200 chr7B 83.385 325 24 10 4033 4328 489834121 489834444 2.240000e-69 274.0
79 TraesCS2A01G303200 chr5B 82.822 326 25 11 4035 4332 272187473 272187151 4.860000e-66 263.0
80 TraesCS2A01G303200 chr1A 82.965 317 23 9 4042 4330 478565356 478565669 2.260000e-64 257.0
81 TraesCS2A01G303200 chr1A 91.525 177 15 0 4155 4331 513841710 513841534 1.760000e-60 244.0
82 TraesCS2A01G303200 chr3D 92.000 175 14 0 4154 4328 541180234 541180060 4.890000e-61 246.0
83 TraesCS2A01G303200 chr3D 91.011 178 16 0 4154 4331 283323973 283324150 2.280000e-59 241.0
84 TraesCS2A01G303200 chr3D 80.412 291 31 5 4065 4332 173480104 173479817 1.390000e-46 198.0


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 TraesCS2A01G303200 chr2A 520301749 520308068 6319 True 3498.666667 5978 100.0000 1 6320 3 chr2A.!!$R1 6319
1 TraesCS2A01G303200 chr2A 47758519 47760553 2034 False 2756.000000 2756 91.3810 1671 3676 1 chr2A.!!$F1 2005
2 TraesCS2A01G303200 chr6D 3492111 3494705 2594 False 1712.000000 3085 89.2570 1409 4330 2 chr6D.!!$F6 2921
3 TraesCS2A01G303200 chr1D 469534302 469536614 2312 False 3042.000000 3042 90.7450 1409 3680 1 chr1D.!!$F3 2271
4 TraesCS2A01G303200 chr1D 305048396 305050449 2053 True 2630.000000 2630 89.9330 1632 3680 1 chr1D.!!$R1 2048
5 TraesCS2A01G303200 chr7A 652918477 652920775 2298 False 2985.000000 2985 90.3550 1410 3680 1 chr7A.!!$F1 2270
6 TraesCS2A01G303200 chr1B 624961631 624963704 2073 True 2798.000000 2798 91.2420 1632 3680 1 chr1B.!!$R1 2048
7 TraesCS2A01G303200 chr1B 679038029 679040340 2311 False 2748.000000 2748 88.4580 1409 3680 1 chr1B.!!$F1 2271
8 TraesCS2A01G303200 chr2D 385163041 385166282 3241 True 1047.500000 2593 91.9420 1 6320 4 chr2D.!!$R3 6319
9 TraesCS2A01G303200 chr4D 362724060 362725814 1754 False 2351.000000 2351 90.8160 1918 3680 1 chr4D.!!$F3 1762
10 TraesCS2A01G303200 chr4D 386212944 386214899 1955 True 1337.500000 2455 87.4520 2086 4333 2 chr4D.!!$R1 2247
11 TraesCS2A01G303200 chr4A 73441931 73443643 1712 True 2250.000000 2250 90.3430 1962 3680 1 chr4A.!!$R1 1718
12 TraesCS2A01G303200 chr6B 641448278 641450331 2053 False 2058.000000 2058 85.0260 1410 3486 1 chr6B.!!$F1 2076
13 TraesCS2A01G303200 chr6B 671645585 671647013 1428 True 1781.000000 1781 89.3380 1409 2825 1 chr6B.!!$R1 1416
14 TraesCS2A01G303200 chr3A 191828363 191830024 1661 True 2002.000000 2002 88.8890 1409 3024 1 chr3A.!!$R1 1615
15 TraesCS2A01G303200 chr7D 412130259 412131623 1364 True 1845.000000 1845 91.0400 1881 3258 1 chr7D.!!$R4 1377
16 TraesCS2A01G303200 chr7D 111730858 111731740 882 True 1227.000000 1227 91.7890 2797 3680 1 chr7D.!!$R2 883
17 TraesCS2A01G303200 chr5D 501489230 501490809 1579 False 1017.000000 1764 87.8090 2441 4328 2 chr5D.!!$F4 1887
18 TraesCS2A01G303200 chrUn 153386988 153387998 1010 True 1321.000000 1321 90.7300 1409 2391 1 chrUn.!!$R4 982
19 TraesCS2A01G303200 chr2B 456020492 456023957 3465 True 875.800000 1236 93.6028 1 6303 5 chr2B.!!$R2 6302
20 TraesCS2A01G303200 chr2B 453656335 453657100 765 False 802.000000 802 86.2870 1410 2148 1 chr2B.!!$F1 738

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
780 791 1.564818 ACGGTAGGTGGATGAGAGAGA 59.435 52.381 0.00 0.00 0.00 3.10 F
1478 1561 0.030195 TGTCTGGGCATCCTGGGATA 60.030 55.000 1.42 0.00 32.93 2.59 F
1517 1600 0.108585 ACACAGACGCATCCTTTGGT 59.891 50.000 0.00 0.00 0.00 3.67 F
1586 1674 0.608640 CCCTAGTTTCAGACCAGCGT 59.391 55.000 0.00 0.00 0.00 5.07 F
1840 1979 1.135257 CGTCGAACATCTCCTTCTGCT 60.135 52.381 0.00 0.00 0.00 4.24 F
2698 2862 1.326951 ACAAGGCCCTTTTGTTGCGT 61.327 50.000 0.00 0.00 35.32 5.24 F
4338 4588 0.107165 AGTTGGCCTTAGATTCGGGC 60.107 55.000 3.32 8.97 45.34 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1694 1821 0.106708 TGGAGACTGACTGTGTTGCC 59.893 55.000 0.00 0.0 0.00 4.52 R
2496 2658 0.320771 GTGAGTGGTCTCGGCATTGT 60.321 55.000 0.00 0.0 43.09 2.71 R
2524 2686 0.581529 CGCACTTGAGAGCGTTGAAA 59.418 50.000 13.43 0.0 46.99 2.69 R
3459 3655 0.677414 GAGGTCGACGAGAAGGAGGT 60.677 60.000 9.92 0.0 0.00 3.85 R
3554 3750 1.613630 GAGGAGGAACCAGAGGGCA 60.614 63.158 0.00 0.0 42.04 5.36 R
4375 4625 0.257039 AGCGAGGAATTGGGATTGCT 59.743 50.000 0.00 0.0 45.30 3.91 R
6181 6715 0.398318 GGTTCCACTCAAGCCACTCT 59.602 55.000 0.00 0.0 0.00 3.24 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
502 513 4.255126 TTCGCGACGAAAAGGAGG 57.745 55.556 9.15 0.00 43.00 4.30
640 651 2.181021 GGGAGAGGTGCGTGTACG 59.819 66.667 0.00 0.00 43.27 3.67
755 766 4.552365 CACGCTCATGGGGCCGAT 62.552 66.667 0.00 0.00 0.00 4.18
779 790 1.950909 GACGGTAGGTGGATGAGAGAG 59.049 57.143 0.00 0.00 0.00 3.20
780 791 1.564818 ACGGTAGGTGGATGAGAGAGA 59.435 52.381 0.00 0.00 0.00 3.10
781 792 2.226330 CGGTAGGTGGATGAGAGAGAG 58.774 57.143 0.00 0.00 0.00 3.20
782 793 2.158740 CGGTAGGTGGATGAGAGAGAGA 60.159 54.545 0.00 0.00 0.00 3.10
783 794 3.685835 CGGTAGGTGGATGAGAGAGAGAA 60.686 52.174 0.00 0.00 0.00 2.87
784 795 4.282496 GGTAGGTGGATGAGAGAGAGAAA 58.718 47.826 0.00 0.00 0.00 2.52
785 796 4.098807 GGTAGGTGGATGAGAGAGAGAAAC 59.901 50.000 0.00 0.00 0.00 2.78
786 797 3.784178 AGGTGGATGAGAGAGAGAAACA 58.216 45.455 0.00 0.00 0.00 2.83
787 798 3.768757 AGGTGGATGAGAGAGAGAAACAG 59.231 47.826 0.00 0.00 0.00 3.16
788 799 3.766591 GGTGGATGAGAGAGAGAAACAGA 59.233 47.826 0.00 0.00 0.00 3.41
789 800 4.142182 GGTGGATGAGAGAGAGAAACAGAG 60.142 50.000 0.00 0.00 0.00 3.35
790 801 4.022603 TGGATGAGAGAGAGAAACAGAGG 58.977 47.826 0.00 0.00 0.00 3.69
892 910 3.181967 CCGCGAACTCAAGGCTCG 61.182 66.667 8.23 0.00 35.70 5.03
1209 1235 1.817209 CTACGGCTCCTCCTCCAAC 59.183 63.158 0.00 0.00 0.00 3.77
1210 1236 1.677637 CTACGGCTCCTCCTCCAACC 61.678 65.000 0.00 0.00 0.00 3.77
1211 1237 4.148825 CGGCTCCTCCTCCAACCG 62.149 72.222 0.00 0.00 0.00 4.44
1212 1238 4.475135 GGCTCCTCCTCCAACCGC 62.475 72.222 0.00 0.00 0.00 5.68
1213 1239 4.475135 GCTCCTCCTCCAACCGCC 62.475 72.222 0.00 0.00 0.00 6.13
1214 1240 4.148825 CTCCTCCTCCAACCGCCG 62.149 72.222 0.00 0.00 0.00 6.46
1217 1243 4.760047 CTCCTCCAACCGCCGGTG 62.760 72.222 10.80 8.42 35.34 4.94
1311 1337 2.765807 AGGGTGAGCTGCGCCTAT 60.766 61.111 4.18 0.00 46.68 2.57
1401 1482 8.903723 CGTTTCTCGTATGATTAATTAGTCCTC 58.096 37.037 5.61 0.00 34.52 3.71
1441 1522 1.200948 GCCTGGATTCTGTCTGTTTGC 59.799 52.381 0.00 0.00 0.00 3.68
1478 1561 0.030195 TGTCTGGGCATCCTGGGATA 60.030 55.000 1.42 0.00 32.93 2.59
1517 1600 0.108585 ACACAGACGCATCCTTTGGT 59.891 50.000 0.00 0.00 0.00 3.67
1573 1661 1.477553 TCGAAATACCACGCCCTAGT 58.522 50.000 0.00 0.00 0.00 2.57
1579 1667 1.927487 TACCACGCCCTAGTTTCAGA 58.073 50.000 0.00 0.00 0.00 3.27
1586 1674 0.608640 CCCTAGTTTCAGACCAGCGT 59.391 55.000 0.00 0.00 0.00 5.07
1722 1851 5.829924 ACACAGTCAGTCTCCAAAATGAATT 59.170 36.000 0.00 0.00 0.00 2.17
1840 1979 1.135257 CGTCGAACATCTCCTTCTGCT 60.135 52.381 0.00 0.00 0.00 4.24
1957 2117 4.120331 GCCTGGCCGTGACATTGC 62.120 66.667 7.66 0.00 0.00 3.56
2030 2190 2.190488 CTCTTCTTGGCCGCCTCCTT 62.190 60.000 11.61 0.00 0.00 3.36
2131 2291 4.945543 TCACATCCTTTTGAGACATCATGG 59.054 41.667 0.00 0.00 34.73 3.66
2281 2441 4.202503 TGCCTCTCTTCCTTTGAAGTTCAT 60.203 41.667 6.36 0.00 46.66 2.57
2424 2586 4.680567 TGATCAACAACAATTGAACATGCG 59.319 37.500 13.59 1.68 41.78 4.73
2496 2658 2.042464 GAGGAGAGCATACCATGTCCA 58.958 52.381 0.00 0.00 0.00 4.02
2698 2862 1.326951 ACAAGGCCCTTTTGTTGCGT 61.327 50.000 0.00 0.00 35.32 5.24
2900 3064 4.343814 TCACCATCACCTTCGCAATAGATA 59.656 41.667 0.00 0.00 0.00 1.98
2925 3089 1.354040 GTCTTCATGCCACGAGTCAG 58.646 55.000 0.00 0.00 0.00 3.51
3444 3640 2.439156 GCATGAGGAGGGTGTGCC 60.439 66.667 0.00 0.00 0.00 5.01
3459 3655 2.557924 GTGTGCCCTTTGTTGATGATGA 59.442 45.455 0.00 0.00 0.00 2.92
3486 3682 4.052229 CGTCGACCTCGGCCTTGT 62.052 66.667 10.58 0.00 41.58 3.16
4212 4462 2.189521 CGGGGATGGGTCGAAAGG 59.810 66.667 0.00 0.00 0.00 3.11
4218 4468 0.326927 GATGGGTCGAAAGGGGACAA 59.673 55.000 0.00 0.00 36.12 3.18
4330 4580 1.077429 GGGCTGGAGTTGGCCTTAG 60.077 63.158 3.32 0.00 46.80 2.18
4331 4581 1.562672 GGGCTGGAGTTGGCCTTAGA 61.563 60.000 3.32 0.00 46.80 2.10
4332 4582 0.548510 GGCTGGAGTTGGCCTTAGAT 59.451 55.000 3.32 0.00 44.48 1.98
4334 4584 2.293170 GCTGGAGTTGGCCTTAGATTC 58.707 52.381 3.32 0.00 0.00 2.52
4335 4585 2.555199 CTGGAGTTGGCCTTAGATTCG 58.445 52.381 3.32 0.00 0.00 3.34
4336 4586 1.209504 TGGAGTTGGCCTTAGATTCGG 59.790 52.381 3.32 0.00 0.00 4.30
4337 4587 1.475213 GGAGTTGGCCTTAGATTCGGG 60.475 57.143 3.32 0.00 0.00 5.14
4338 4588 0.107165 AGTTGGCCTTAGATTCGGGC 60.107 55.000 3.32 8.97 45.34 6.13
4359 4609 4.321899 GGCCACTTGAATATGTTGCAAAGA 60.322 41.667 0.00 0.00 0.00 2.52
4365 4615 7.811236 CACTTGAATATGTTGCAAAGATGAACT 59.189 33.333 0.00 0.00 29.89 3.01
4368 4618 8.334263 TGAATATGTTGCAAAGATGAACTGTA 57.666 30.769 0.00 0.00 29.89 2.74
4371 4621 6.822667 ATGTTGCAAAGATGAACTGTATGA 57.177 33.333 0.00 0.00 0.00 2.15
4375 4625 7.443879 TGTTGCAAAGATGAACTGTATGACTTA 59.556 33.333 0.00 0.00 0.00 2.24
4417 4667 7.201232 CGCTGTAAAATTCAACTTTATGTTCGG 60.201 37.037 0.00 0.00 36.63 4.30
4484 4734 2.670414 CTCTGGAATGAAGCGTTCTCAC 59.330 50.000 0.00 0.00 30.86 3.51
4507 4757 3.317711 TGCTTAGATTGGTTGTTGGTGTG 59.682 43.478 0.00 0.00 0.00 3.82
4508 4758 3.317993 GCTTAGATTGGTTGTTGGTGTGT 59.682 43.478 0.00 0.00 0.00 3.72
4618 4868 7.844009 AGATTGCTTGTTCCATTGATAAACAT 58.156 30.769 0.00 0.00 33.28 2.71
4641 4891 9.765795 ACATAGTGGAAATTACTAGTAAGCATC 57.234 33.333 19.58 15.80 34.42 3.91
4645 4895 8.639761 AGTGGAAATTACTAGTAAGCATCGTAT 58.360 33.333 19.58 0.00 0.00 3.06
4658 4908 0.035881 ATCGTATGCCTGGCCTCATG 59.964 55.000 17.53 6.68 0.00 3.07
4743 4993 2.488153 TCATGGTACTGTCAGACTGTCG 59.512 50.000 15.82 2.86 32.45 4.35
4833 5083 7.678947 AGTTAATCTTTGTGATTCACCTCAG 57.321 36.000 14.05 7.35 43.69 3.35
4834 5084 7.227156 AGTTAATCTTTGTGATTCACCTCAGT 58.773 34.615 14.05 0.00 43.69 3.41
4835 5085 5.954296 AATCTTTGTGATTCACCTCAGTG 57.046 39.130 14.05 0.00 41.17 3.66
4853 5186 6.093495 CCTCAGTGAAGAGTGAAGACTAGTAG 59.907 46.154 0.00 0.00 33.75 2.57
4875 5208 3.673809 GCTACCTACACACTTCTTTCACG 59.326 47.826 0.00 0.00 0.00 4.35
4880 5213 4.331717 CCTACACACTTCTTTCACGTGTTT 59.668 41.667 16.51 0.00 39.66 2.83
4882 5215 3.119990 ACACACTTCTTTCACGTGTTTGG 60.120 43.478 16.51 4.96 39.66 3.28
4895 5228 3.128068 ACGTGTTTGGTTTTCTGAACTCC 59.872 43.478 0.00 0.00 0.00 3.85
4905 5238 8.398878 TGGTTTTCTGAACTCCGTTAATTAAT 57.601 30.769 0.31 0.00 0.00 1.40
5037 5370 4.280677 TGTTCCTGGAACCAAAATGTCATC 59.719 41.667 31.00 7.38 41.35 2.92
5049 5382 4.696899 AAATGTCATCTGCAGTGATGTG 57.303 40.909 14.67 6.55 43.03 3.21
5126 5459 1.421410 ATTGTCGACGAGATTGCGGC 61.421 55.000 11.90 0.00 35.51 6.53
5130 5463 2.508439 GACGAGATTGCGGCCGAA 60.508 61.111 33.48 19.06 31.76 4.30
5133 5466 0.033504 ACGAGATTGCGGCCGAATAT 59.966 50.000 33.48 21.81 35.12 1.28
5135 5468 1.795768 GAGATTGCGGCCGAATATGA 58.204 50.000 33.48 2.40 0.00 2.15
5142 5475 1.608025 GCGGCCGAATATGATGGAAGA 60.608 52.381 33.48 0.00 0.00 2.87
5148 5481 6.402550 CGGCCGAATATGATGGAAGAATAAAG 60.403 42.308 24.07 0.00 0.00 1.85
5189 5522 4.771577 TGATGATTACCCACAAACTGCAAT 59.228 37.500 0.00 0.00 0.00 3.56
5190 5523 5.245751 TGATGATTACCCACAAACTGCAATT 59.754 36.000 0.00 0.00 0.00 2.32
5202 5535 7.818930 CCACAAACTGCAATTTCCTACAATATT 59.181 33.333 0.00 0.00 0.00 1.28
5310 5643 5.831103 AGGGCCATTGAGAATTCTTTCTTA 58.169 37.500 9.87 0.00 42.34 2.10
5696 6211 5.885912 TCTTCTTTTGCACCCCTTATGTATC 59.114 40.000 0.00 0.00 0.00 2.24
5699 6214 5.417580 TCTTTTGCACCCCTTATGTATCAAC 59.582 40.000 0.00 0.00 0.00 3.18
5855 6370 0.837272 TCTGTGGGGCTGCTAATACC 59.163 55.000 0.00 0.00 0.00 2.73
5893 6408 4.798574 GGTAACTCTTCAAGGCATGTTTG 58.201 43.478 0.00 0.01 0.00 2.93
5975 6494 4.342092 GGCTAAACCTTGGTTATGATGCAT 59.658 41.667 0.00 0.00 34.51 3.96
6010 6529 4.579647 TTACCCTTTAGTTTGCCTAGGG 57.420 45.455 11.72 0.00 37.23 3.53
6017 6536 6.353255 CCCTTTAGTTTGCCTAGGGTGTAATA 60.353 42.308 11.72 0.00 29.99 0.98
6028 6547 6.622549 CCTAGGGTGTAATATTTAGCTCTCG 58.377 44.000 0.00 0.00 0.00 4.04
6064 6584 3.208747 AGACCCACACACAAGGTAAAG 57.791 47.619 0.00 0.00 32.81 1.85
6069 6589 1.608590 CACACACAAGGTAAAGGCTGG 59.391 52.381 0.00 0.00 0.00 4.85
6070 6590 0.598065 CACACAAGGTAAAGGCTGGC 59.402 55.000 0.00 0.00 0.00 4.85
6071 6591 0.889186 ACACAAGGTAAAGGCTGGCG 60.889 55.000 0.00 0.00 0.00 5.69
6080 6600 2.800881 AAAGGCTGGCGAAGAAAAAG 57.199 45.000 0.00 0.00 0.00 2.27
6082 6602 1.239347 AGGCTGGCGAAGAAAAAGAC 58.761 50.000 0.00 0.00 0.00 3.01
6084 6604 2.038557 AGGCTGGCGAAGAAAAAGACTA 59.961 45.455 0.00 0.00 0.00 2.59
6094 6628 6.907748 GCGAAGAAAAAGACTAGAATATTGGC 59.092 38.462 0.00 0.00 0.00 4.52
6122 6656 1.819632 GGCAGGCGGTATCAACAGG 60.820 63.158 0.00 0.00 0.00 4.00
6126 6660 1.078426 GGCGGTATCAACAGGCTGT 60.078 57.895 15.88 15.88 42.00 4.40
6143 6677 4.926860 GCTGTTGCCATGGATTTTTAAC 57.073 40.909 18.40 10.18 0.00 2.01
6176 6710 6.602009 TGCTGAAGACTAGTGCATAGTAAGTA 59.398 38.462 0.00 3.43 45.06 2.24
6178 6712 7.201750 GCTGAAGACTAGTGCATAGTAAGTAGT 60.202 40.741 0.00 0.00 45.06 2.73
6180 6714 8.459635 TGAAGACTAGTGCATAGTAAGTAGTTG 58.540 37.037 0.00 0.00 45.06 3.16
6181 6715 8.577048 AAGACTAGTGCATAGTAAGTAGTTGA 57.423 34.615 0.00 0.00 45.06 3.18
6189 6723 5.163499 GCATAGTAAGTAGTTGAGAGTGGCT 60.163 44.000 0.00 0.00 0.00 4.75
6224 6758 6.428159 CCAATGGTAGGATACAATAGACTTGC 59.572 42.308 0.00 0.00 45.43 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
497 508 0.998945 CTCCTCCTCCTCCTCCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
498 509 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
499 510 0.996762 TCCTCCTCCTCCTCCTCCTC 60.997 65.000 0.00 0.00 0.00 3.71
500 511 0.556380 TTCCTCCTCCTCCTCCTCCT 60.556 60.000 0.00 0.00 0.00 3.69
501 512 0.340208 TTTCCTCCTCCTCCTCCTCC 59.660 60.000 0.00 0.00 0.00 4.30
502 513 2.255770 TTTTCCTCCTCCTCCTCCTC 57.744 55.000 0.00 0.00 0.00 3.71
728 739 1.091771 CATGAGCGTGGCCAACCTAG 61.092 60.000 7.24 0.00 36.63 3.02
755 766 0.251877 TCATCCACCTACCGTCACCA 60.252 55.000 0.00 0.00 0.00 4.17
779 790 4.543590 TCAACATCTCCCTCTGTTTCTC 57.456 45.455 0.00 0.00 33.45 2.87
780 791 4.080638 GGATCAACATCTCCCTCTGTTTCT 60.081 45.833 0.00 0.00 33.45 2.52
781 792 4.195416 GGATCAACATCTCCCTCTGTTTC 58.805 47.826 0.00 0.00 33.45 2.78
782 793 3.054065 GGGATCAACATCTCCCTCTGTTT 60.054 47.826 0.24 0.00 46.55 2.83
783 794 2.507471 GGGATCAACATCTCCCTCTGTT 59.493 50.000 0.24 0.00 46.55 3.16
784 795 2.122768 GGGATCAACATCTCCCTCTGT 58.877 52.381 0.24 0.00 46.55 3.41
785 796 2.926778 GGGATCAACATCTCCCTCTG 57.073 55.000 0.24 0.00 46.55 3.35
790 801 2.131023 AGGGAAGGGATCAACATCTCC 58.869 52.381 0.00 0.00 27.95 3.71
892 910 1.154035 CACGCCATTTCCTTTCCGC 60.154 57.895 0.00 0.00 0.00 5.54
1042 1062 1.422402 ACGTGGTGGGTGGAAACTTAT 59.578 47.619 0.00 0.00 0.00 1.73
1311 1337 3.708544 CCCTTACCGCCGGTGGAA 61.709 66.667 40.02 25.76 36.19 3.53
1401 1482 1.157870 AAAACGGACGTCCTGCACTG 61.158 55.000 30.92 17.18 0.00 3.66
1441 1522 0.806102 CACGACCCCATTGCTCTACG 60.806 60.000 0.00 0.00 0.00 3.51
1517 1600 1.381327 GGAGACGGACAGGATGGGA 60.381 63.158 0.00 0.00 43.62 4.37
1573 1661 0.895530 CTAGGGACGCTGGTCTGAAA 59.104 55.000 1.57 0.00 42.97 2.69
1579 1667 1.874345 CGTGAACTAGGGACGCTGGT 61.874 60.000 2.46 2.46 0.00 4.00
1586 1674 3.766691 GCCGGCGTGAACTAGGGA 61.767 66.667 12.58 0.00 0.00 4.20
1690 1817 3.357079 CTGACTGTGTTGCCGGCC 61.357 66.667 26.77 10.34 0.00 6.13
1691 1818 2.591715 ACTGACTGTGTTGCCGGC 60.592 61.111 22.73 22.73 0.00 6.13
1692 1819 0.946221 GAGACTGACTGTGTTGCCGG 60.946 60.000 0.00 0.00 0.00 6.13
1693 1820 0.946221 GGAGACTGACTGTGTTGCCG 60.946 60.000 0.00 0.00 0.00 5.69
1694 1821 0.106708 TGGAGACTGACTGTGTTGCC 59.893 55.000 0.00 0.00 0.00 4.52
1695 1822 1.953559 TTGGAGACTGACTGTGTTGC 58.046 50.000 0.00 0.00 0.00 4.17
1696 1823 4.576053 TCATTTTGGAGACTGACTGTGTTG 59.424 41.667 0.00 0.00 0.00 3.33
1697 1824 4.780815 TCATTTTGGAGACTGACTGTGTT 58.219 39.130 0.00 0.00 0.00 3.32
1698 1825 4.422073 TCATTTTGGAGACTGACTGTGT 57.578 40.909 0.00 0.00 0.00 3.72
1699 1826 5.954296 ATTCATTTTGGAGACTGACTGTG 57.046 39.130 0.00 0.00 0.00 3.66
1700 1827 6.742109 CAAATTCATTTTGGAGACTGACTGT 58.258 36.000 0.00 0.00 40.90 3.55
1722 1851 2.203084 TGTGCCGGCGAGAAACAA 60.203 55.556 23.90 0.00 0.00 2.83
1840 1979 2.347490 GAGCTGGTTCGAGGCCAA 59.653 61.111 5.01 0.00 35.32 4.52
2030 2190 5.233083 TCAAAGGAAGAAGCTTGAGATGA 57.767 39.130 2.10 0.00 0.00 2.92
2216 2376 2.512515 GTGGAGATGGTGAGGCGC 60.513 66.667 0.00 0.00 0.00 6.53
2281 2441 5.631481 GCCCTAAGTTCAAGGATCAATACCA 60.631 44.000 0.00 0.00 36.08 3.25
2424 2586 4.694339 AGACTTCGGCCTTGTATATGTTC 58.306 43.478 0.00 0.00 0.00 3.18
2496 2658 0.320771 GTGAGTGGTCTCGGCATTGT 60.321 55.000 0.00 0.00 43.09 2.71
2524 2686 0.581529 CGCACTTGAGAGCGTTGAAA 59.418 50.000 13.43 0.00 46.99 2.69
2698 2862 1.617018 CCAAGATCCGAGGACTGGCA 61.617 60.000 0.00 0.00 0.00 4.92
2900 3064 1.136891 TCGTGGCATGAAGACGATGAT 59.863 47.619 7.00 0.00 37.21 2.45
2925 3089 3.628646 AAGAGGCCCACGACCATGC 62.629 63.158 0.00 0.00 0.00 4.06
3191 3381 1.068472 GTCATCGACCTCAACGTCACT 60.068 52.381 0.00 0.00 32.74 3.41
3392 3585 2.281484 GCGGGTTTCTCTGGTGCA 60.281 61.111 0.00 0.00 0.00 4.57
3444 3640 3.960571 AGGAGGTCATCATCAACAAAGG 58.039 45.455 0.00 0.00 0.00 3.11
3459 3655 0.677414 GAGGTCGACGAGAAGGAGGT 60.677 60.000 9.92 0.00 0.00 3.85
3554 3750 1.613630 GAGGAGGAACCAGAGGGCA 60.614 63.158 0.00 0.00 42.04 5.36
4199 4449 0.326927 TTGTCCCCTTTCGACCCATC 59.673 55.000 0.00 0.00 0.00 3.51
4330 4580 3.214328 ACATATTCAAGTGGCCCGAATC 58.786 45.455 0.00 0.00 31.94 2.52
4331 4581 3.297134 ACATATTCAAGTGGCCCGAAT 57.703 42.857 0.00 6.17 33.98 3.34
4332 4582 2.752354 CAACATATTCAAGTGGCCCGAA 59.248 45.455 0.00 0.00 0.00 4.30
4334 4584 1.202290 GCAACATATTCAAGTGGCCCG 60.202 52.381 0.00 0.00 0.00 6.13
4335 4585 1.824230 TGCAACATATTCAAGTGGCCC 59.176 47.619 0.00 0.00 33.71 5.80
4336 4586 3.591196 TTGCAACATATTCAAGTGGCC 57.409 42.857 0.00 0.00 33.71 5.36
4337 4587 4.808558 TCTTTGCAACATATTCAAGTGGC 58.191 39.130 0.00 0.00 35.24 5.01
4338 4588 6.623486 TCATCTTTGCAACATATTCAAGTGG 58.377 36.000 0.00 0.00 0.00 4.00
4339 4589 7.811236 AGTTCATCTTTGCAACATATTCAAGTG 59.189 33.333 0.00 0.00 0.00 3.16
4340 4590 7.811236 CAGTTCATCTTTGCAACATATTCAAGT 59.189 33.333 0.00 0.00 0.00 3.16
4359 4609 6.058183 GGGATTGCTAAGTCATACAGTTCAT 58.942 40.000 0.00 0.00 0.00 2.57
4365 4615 5.827797 GGAATTGGGATTGCTAAGTCATACA 59.172 40.000 4.35 0.00 31.55 2.29
4368 4618 5.134725 AGGAATTGGGATTGCTAAGTCAT 57.865 39.130 4.35 0.00 41.48 3.06
4371 4621 3.545703 CGAGGAATTGGGATTGCTAAGT 58.454 45.455 0.00 0.00 43.06 2.24
4375 4625 0.257039 AGCGAGGAATTGGGATTGCT 59.743 50.000 0.00 0.00 45.30 3.91
4417 4667 2.898729 TCAGAATGAGAAGGCCGATC 57.101 50.000 0.00 0.00 42.56 3.69
4484 4734 3.569701 ACACCAACAACCAATCTAAGCAG 59.430 43.478 0.00 0.00 0.00 4.24
4507 4757 4.084537 CGATTAACTCACACAGGTTGACAC 60.085 45.833 0.00 0.00 0.00 3.67
4508 4758 4.055360 CGATTAACTCACACAGGTTGACA 58.945 43.478 0.00 0.00 0.00 3.58
4618 4868 8.004087 ACGATGCTTACTAGTAATTTCCACTA 57.996 34.615 15.57 0.00 0.00 2.74
4641 4891 1.598962 CCATGAGGCCAGGCATACG 60.599 63.158 15.19 0.00 0.00 3.06
4645 4895 1.496444 TAACACCATGAGGCCAGGCA 61.496 55.000 15.19 0.00 39.06 4.75
4658 4908 4.766404 AGTAGTGCAGCAAAATAACACC 57.234 40.909 0.00 0.00 31.58 4.16
4833 5083 5.890424 AGCTACTAGTCTTCACTCTTCAC 57.110 43.478 0.00 0.00 33.62 3.18
4834 5084 5.881443 GGTAGCTACTAGTCTTCACTCTTCA 59.119 44.000 22.74 0.00 33.62 3.02
4835 5085 6.117488 AGGTAGCTACTAGTCTTCACTCTTC 58.883 44.000 22.74 1.06 33.62 2.87
4836 5086 6.069705 AGGTAGCTACTAGTCTTCACTCTT 57.930 41.667 22.74 0.00 33.62 2.85
4837 5087 5.703730 AGGTAGCTACTAGTCTTCACTCT 57.296 43.478 22.74 4.61 33.62 3.24
4838 5088 6.258507 GTGTAGGTAGCTACTAGTCTTCACTC 59.741 46.154 27.42 5.72 33.62 3.51
4839 5089 6.114767 GTGTAGGTAGCTACTAGTCTTCACT 58.885 44.000 27.42 10.63 36.55 3.41
4853 5186 3.673809 CGTGAAAGAAGTGTGTAGGTAGC 59.326 47.826 0.00 0.00 0.00 3.58
4875 5208 3.128068 ACGGAGTTCAGAAAACCAAACAC 59.872 43.478 7.41 0.00 37.78 3.32
4905 5238 9.567848 GTCACAAAGAAGTAAAAACAGATGAAA 57.432 29.630 0.00 0.00 0.00 2.69
4920 5253 9.226345 GACTAAATTCACAAAGTCACAAAGAAG 57.774 33.333 0.00 0.00 38.56 2.85
4923 5256 7.166473 GCAGACTAAATTCACAAAGTCACAAAG 59.834 37.037 4.35 0.00 40.65 2.77
4924 5257 6.972328 GCAGACTAAATTCACAAAGTCACAAA 59.028 34.615 4.35 0.00 40.65 2.83
4925 5258 6.094742 TGCAGACTAAATTCACAAAGTCACAA 59.905 34.615 4.35 0.00 40.65 3.33
4926 5259 5.588246 TGCAGACTAAATTCACAAAGTCACA 59.412 36.000 4.35 0.00 40.65 3.58
4927 5260 5.909610 GTGCAGACTAAATTCACAAAGTCAC 59.090 40.000 4.35 0.00 40.65 3.67
4928 5261 5.588246 TGTGCAGACTAAATTCACAAAGTCA 59.412 36.000 4.35 0.00 40.65 3.41
4929 5262 5.909610 GTGTGCAGACTAAATTCACAAAGTC 59.090 40.000 6.76 0.00 39.07 3.01
4930 5263 5.504010 CGTGTGCAGACTAAATTCACAAAGT 60.504 40.000 12.66 0.00 39.07 2.66
4985 5318 4.520111 TGATTGCTTCAGCTGTACAAATGT 59.480 37.500 14.67 2.46 42.66 2.71
5037 5370 1.873863 CACAGGCACATCACTGCAG 59.126 57.895 13.48 13.48 39.08 4.41
5049 5382 0.746659 AAAACTCCACAAGCACAGGC 59.253 50.000 0.00 0.00 41.61 4.85
5126 5459 7.173907 AGCACTTTATTCTTCCATCATATTCGG 59.826 37.037 0.00 0.00 0.00 4.30
5133 5466 8.213679 AGCTTATAGCACTTTATTCTTCCATCA 58.786 33.333 1.09 0.00 45.56 3.07
5135 5468 8.844244 CAAGCTTATAGCACTTTATTCTTCCAT 58.156 33.333 0.00 0.00 45.56 3.41
5142 5475 7.824289 TCAGTGTCAAGCTTATAGCACTTTATT 59.176 33.333 16.52 0.77 45.56 1.40
5148 5481 5.111989 TCATCAGTGTCAAGCTTATAGCAC 58.888 41.667 0.00 6.22 45.56 4.40
5189 5522 6.631766 CGGAACCCTCTCAATATTGTAGGAAA 60.632 42.308 27.28 6.63 35.70 3.13
5190 5523 5.163343 CGGAACCCTCTCAATATTGTAGGAA 60.163 44.000 27.28 7.21 35.70 3.36
5202 5535 1.420430 AAACAGTCGGAACCCTCTCA 58.580 50.000 0.00 0.00 0.00 3.27
5650 6151 5.888161 AGAAGAAAAACAGACAATGTGAGGT 59.112 36.000 0.00 0.00 43.00 3.85
5696 6211 7.617935 GCTCTGAAAAATAGCACGAAAATGTTG 60.618 37.037 0.00 0.00 36.26 3.33
5699 6214 6.088824 AGCTCTGAAAAATAGCACGAAAATG 58.911 36.000 0.00 0.00 38.75 2.32
5786 6301 9.244292 AGGGATAAACCTTTTCAGAAGATAAAC 57.756 33.333 0.00 0.00 37.69 2.01
5807 6322 3.719268 TTGCACTGACATAACAGGGAT 57.281 42.857 0.00 0.00 43.19 3.85
5810 6325 4.771590 ACAATTGCACTGACATAACAGG 57.228 40.909 5.05 0.00 41.59 4.00
5855 6370 3.118738 AGTTACCTGGGACAATTAGCTCG 60.119 47.826 0.00 0.00 38.70 5.03
5952 6471 3.699038 TGCATCATAACCAAGGTTTAGCC 59.301 43.478 10.13 0.00 39.31 3.93
5983 6502 9.197306 CCTAGGCAAACTAAAGGGTAATAAAAT 57.803 33.333 0.00 0.00 0.00 1.82
6000 6519 6.906848 AGCTAAATATTACACCCTAGGCAAA 58.093 36.000 2.05 0.00 0.00 3.68
6010 6529 5.050295 GCCCAACGAGAGCTAAATATTACAC 60.050 44.000 0.00 0.00 0.00 2.90
6017 6536 1.555075 TCAGCCCAACGAGAGCTAAAT 59.445 47.619 0.00 0.00 34.38 1.40
6028 6547 1.609072 GGTCTTCTTTGTCAGCCCAAC 59.391 52.381 0.00 0.00 0.00 3.77
6064 6584 1.239347 AGTCTTTTTCTTCGCCAGCC 58.761 50.000 0.00 0.00 0.00 4.85
6069 6589 6.907748 GCCAATATTCTAGTCTTTTTCTTCGC 59.092 38.462 0.00 0.00 0.00 4.70
6070 6590 7.974675 TGCCAATATTCTAGTCTTTTTCTTCG 58.025 34.615 0.00 0.00 0.00 3.79
6071 6591 9.780413 CTTGCCAATATTCTAGTCTTTTTCTTC 57.220 33.333 0.00 0.00 0.00 2.87
6080 6600 7.467403 GCCAAAGTACTTGCCAATATTCTAGTC 60.467 40.741 9.34 0.00 33.27 2.59
6082 6602 6.318648 TGCCAAAGTACTTGCCAATATTCTAG 59.681 38.462 9.34 0.00 33.27 2.43
6084 6604 5.016173 TGCCAAAGTACTTGCCAATATTCT 58.984 37.500 9.34 0.00 33.27 2.40
6094 6628 0.889186 ACCGCCTGCCAAAGTACTTG 60.889 55.000 9.34 3.62 34.52 3.16
6126 6660 5.072329 TGGAAAGGTTAAAAATCCATGGCAA 59.928 36.000 6.96 0.00 35.33 4.52
6143 6677 3.937706 CACTAGTCTTCAGCATGGAAAGG 59.062 47.826 0.00 0.00 36.16 3.11
6171 6705 4.833380 ACTCAAGCCACTCTCAACTACTTA 59.167 41.667 0.00 0.00 0.00 2.24
6176 6710 1.071385 CCACTCAAGCCACTCTCAACT 59.929 52.381 0.00 0.00 0.00 3.16
6178 6712 1.423584 TCCACTCAAGCCACTCTCAA 58.576 50.000 0.00 0.00 0.00 3.02
6180 6714 1.609320 GGTTCCACTCAAGCCACTCTC 60.609 57.143 0.00 0.00 0.00 3.20
6181 6715 0.398318 GGTTCCACTCAAGCCACTCT 59.602 55.000 0.00 0.00 0.00 3.24
6189 6723 2.983192 TCCTACCATTGGTTCCACTCAA 59.017 45.455 14.78 0.00 37.09 3.02
6224 6758 6.428385 AAGCAATTCAATCTCTAAGGAACG 57.572 37.500 0.00 0.00 0.00 3.95
6278 6812 7.308782 ACTGTCCACGAAAAATGAGATAATC 57.691 36.000 0.00 0.00 0.00 1.75


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

AutoCloner maintained by Alex Coulton.