Multiple sequence alignment - TraesCS1A01G044000

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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 TraesCS1A01G044000 chr1A 100.000 6818 0 0 1 6818 24765592 24772409 0.000000e+00 12591.0
1 TraesCS1A01G044000 chr1A 93.159 2222 97 25 930 3126 24570517 24568326 0.000000e+00 3210.0
2 TraesCS1A01G044000 chr1A 98.035 1323 23 3 1 1322 24691570 24692890 0.000000e+00 2296.0
3 TraesCS1A01G044000 chr1A 97.808 1323 27 2 1 1322 24672796 24674117 0.000000e+00 2281.0
4 TraesCS1A01G044000 chr1A 97.808 1323 24 3 1 1322 24590954 24592272 0.000000e+00 2278.0
5 TraesCS1A01G044000 chr1A 97.732 1323 29 1 1 1322 24621541 24622863 0.000000e+00 2276.0
6 TraesCS1A01G044000 chr1A 97.430 1323 30 3 1 1322 24610384 24611703 0.000000e+00 2252.0
7 TraesCS1A01G044000 chr1A 97.430 1323 30 4 1 1322 24654047 24655366 0.000000e+00 2252.0
8 TraesCS1A01G044000 chr1A 97.428 1322 29 4 1 1322 24598824 24600140 0.000000e+00 2248.0
9 TraesCS1A01G044000 chr1A 97.285 1326 31 4 1 1322 24647572 24648896 0.000000e+00 2244.0
10 TraesCS1A01G044000 chr1A 90.378 1642 107 25 957 2565 24938364 24939987 0.000000e+00 2109.0
11 TraesCS1A01G044000 chr1A 96.317 896 21 3 4666 5553 24563578 24562687 0.000000e+00 1461.0
12 TraesCS1A01G044000 chr1A 98.039 816 12 2 3158 3973 24568325 24567514 0.000000e+00 1415.0
13 TraesCS1A01G044000 chr1A 92.769 484 18 9 4178 4644 24567322 24566839 0.000000e+00 684.0
14 TraesCS1A01G044000 chr1A 95.611 319 12 1 6502 6818 24562698 24562380 1.700000e-140 510.0
15 TraesCS1A01G044000 chr1A 99.005 201 2 0 3968 4168 24567385 24567185 1.810000e-95 361.0
16 TraesCS1A01G044000 chr1A 79.198 524 69 19 2796 3298 24940168 24940672 1.830000e-85 327.0
17 TraesCS1A01G044000 chr1A 97.241 145 3 1 4178 4321 24769622 24769766 1.900000e-60 244.0
18 TraesCS1A01G044000 chr1A 97.241 145 3 1 4031 4175 24769769 24769912 1.900000e-60 244.0
19 TraesCS1A01G044000 chr1A 87.500 112 13 1 6502 6613 24941580 24941690 2.000000e-25 128.0
20 TraesCS1A01G044000 chr1D 94.492 3068 107 26 930 3969 23441282 23438249 0.000000e+00 4673.0
21 TraesCS1A01G044000 chr1D 93.271 2140 105 15 452 2565 24119223 24121349 0.000000e+00 3118.0
22 TraesCS1A01G044000 chr1D 95.929 1400 29 9 4178 5553 23438054 23436659 0.000000e+00 2244.0
23 TraesCS1A01G044000 chr1D 97.280 956 21 4 5547 6501 451282968 451283919 0.000000e+00 1616.0
24 TraesCS1A01G044000 chr1D 88.772 1140 91 16 1838 2962 23988929 23990046 0.000000e+00 1362.0
25 TraesCS1A01G044000 chr1D 89.466 712 39 19 4844 5553 23995772 23996449 0.000000e+00 867.0
26 TraesCS1A01G044000 chr1D 91.033 513 36 6 1334 1843 23978659 23979164 0.000000e+00 684.0
27 TraesCS1A01G044000 chr1D 90.562 445 13 4 2 423 24118787 24119225 4.620000e-156 562.0
28 TraesCS1A01G044000 chr1D 95.925 319 11 1 6502 6818 23436670 23436352 3.650000e-142 516.0
29 TraesCS1A01G044000 chr1D 90.979 388 24 7 4419 4802 23995390 23995770 4.720000e-141 512.0
30 TraesCS1A01G044000 chr1D 86.522 460 47 11 3599 4047 23994938 23995393 6.140000e-135 492.0
31 TraesCS1A01G044000 chr1D 91.176 306 23 4 1173 1478 22588266 22587965 4.920000e-111 412.0
32 TraesCS1A01G044000 chr1D 80.571 525 72 17 2796 3298 24121530 24122046 1.790000e-100 377.0
33 TraesCS1A01G044000 chr1D 98.507 201 2 1 3968 4168 23438117 23437918 3.020000e-93 353.0
34 TraesCS1A01G044000 chr1D 79.675 246 27 16 4191 4420 197208448 197208686 9.160000e-34 156.0
35 TraesCS1A01G044000 chr1D 80.392 204 20 8 6502 6686 24122953 24123155 3.320000e-28 137.0
36 TraesCS1A01G044000 chr1D 76.923 247 33 12 4191 4420 140667774 140667535 1.200000e-22 119.0
37 TraesCS1A01G044000 chr1D 83.200 125 13 7 4044 4168 197208448 197208564 2.600000e-19 108.0
38 TraesCS1A01G044000 chr1D 97.826 46 1 0 6499 6544 23996435 23996480 5.670000e-11 80.5
39 TraesCS1A01G044000 chr1B 89.684 1900 133 33 1395 3260 39585335 39583465 0.000000e+00 2364.0
40 TraesCS1A01G044000 chr1B 93.087 1244 60 10 678 1911 39651544 39652771 0.000000e+00 1797.0
41 TraesCS1A01G044000 chr1B 90.909 627 44 8 1950 2565 39652770 39653394 0.000000e+00 830.0
42 TraesCS1A01G044000 chr1B 87.631 477 42 8 5077 5553 39583364 39582905 7.780000e-149 538.0
43 TraesCS1A01G044000 chr1B 80.418 526 71 19 2796 3298 39653575 39654091 8.350000e-99 372.0
44 TraesCS1A01G044000 chr1B 91.129 124 10 1 1355 1478 38632176 38632054 4.230000e-37 167.0
45 TraesCS1A01G044000 chr1B 78.715 249 27 12 4188 4420 15904685 15904923 7.130000e-30 143.0
46 TraesCS1A01G044000 chr1B 80.392 204 20 8 6502 6686 39654999 39655201 3.320000e-28 137.0
47 TraesCS1A01G044000 chr7D 97.382 955 21 3 5548 6501 262346886 262347837 0.000000e+00 1622.0
48 TraesCS1A01G044000 chr7D 97.275 954 21 4 5549 6501 391211172 391210223 0.000000e+00 1613.0
49 TraesCS1A01G044000 chr7D 79.060 234 20 18 4191 4405 344632788 344633011 4.290000e-27 134.0
50 TraesCS1A01G044000 chr5D 97.379 954 21 3 5549 6501 450112836 450111886 0.000000e+00 1620.0
51 TraesCS1A01G044000 chr5D 97.167 953 23 3 5550 6501 549580760 549579811 0.000000e+00 1607.0
52 TraesCS1A01G044000 chr5D 82.031 256 21 13 4191 4430 7947091 7946845 1.940000e-45 195.0
53 TraesCS1A01G044000 chr5D 82.278 237 25 8 4191 4420 433333216 433333442 9.030000e-44 189.0
54 TraesCS1A01G044000 chr5D 88.800 125 7 1 4044 4168 433333216 433333333 5.510000e-31 147.0
55 TraesCS1A01G044000 chr5D 88.889 126 5 6 4043 4168 542684429 542684313 5.510000e-31 147.0
56 TraesCS1A01G044000 chr5D 77.637 237 28 12 4191 4410 276915282 276915054 3.340000e-23 121.0
57 TraesCS1A01G044000 chr3D 97.377 953 20 4 5550 6501 573040513 573041461 0.000000e+00 1616.0
58 TraesCS1A01G044000 chr3D 76.271 236 42 9 4191 4420 508584621 508584848 5.590000e-21 113.0
59 TraesCS1A01G044000 chrUn 97.272 953 22 3 5550 6501 19190874 19189925 0.000000e+00 1613.0
60 TraesCS1A01G044000 chrUn 95.238 42 2 0 5356 5397 74494104 74494063 4.410000e-07 67.6
61 TraesCS1A01G044000 chrUn 97.436 39 1 0 5356 5394 469918213 469918251 4.410000e-07 67.6
62 TraesCS1A01G044000 chr2D 97.170 954 22 4 5549 6501 147425042 147425991 0.000000e+00 1607.0
63 TraesCS1A01G044000 chr2D 80.237 253 25 9 4191 4428 105501791 105501549 4.230000e-37 167.0
64 TraesCS1A01G044000 chr2D 80.488 246 24 11 4191 4420 153181919 153182156 4.230000e-37 167.0
65 TraesCS1A01G044000 chr2D 86.508 126 10 4 4043 4168 507458533 507458415 1.540000e-26 132.0
66 TraesCS1A01G044000 chr2D 85.185 81 11 1 4260 4340 280991665 280991586 1.580000e-11 82.4
67 TraesCS1A01G044000 chr6D 96.960 954 25 3 5549 6501 449270148 449271098 0.000000e+00 1598.0
68 TraesCS1A01G044000 chr6D 95.238 42 2 0 5356 5397 400719693 400719652 4.410000e-07 67.6
69 TraesCS1A01G044000 chr4D 82.927 246 20 7 4193 4423 284102382 284102144 1.160000e-47 202.0
70 TraesCS1A01G044000 chr4D 88.000 125 8 2 4044 4168 40168472 40168355 2.560000e-29 141.0
71 TraesCS1A01G044000 chr5A 82.258 248 22 8 4191 4423 6147582 6147342 1.940000e-45 195.0
72 TraesCS1A01G044000 chr5A 80.400 250 25 7 4191 4424 40840147 40840388 1.180000e-37 169.0
73 TraesCS1A01G044000 chr5A 84.348 115 9 5 4190 4304 651989222 651989117 3.360000e-18 104.0
74 TraesCS1A01G044000 chr2B 82.186 247 20 10 4190 4420 423908135 423908373 2.510000e-44 191.0
75 TraesCS1A01G044000 chr2B 80.081 246 26 8 4191 4420 424114805 424115043 1.970000e-35 161.0
76 TraesCS1A01G044000 chr2B 79.352 247 25 10 4190 4420 232735667 232735431 4.260000e-32 150.0
77 TraesCS1A01G044000 chr4B 81.633 245 23 7 4191 4420 77590171 77589934 4.200000e-42 183.0
78 TraesCS1A01G044000 chr4B 91.270 126 4 3 4043 4168 328107603 328107721 1.520000e-36 165.0
79 TraesCS1A01G044000 chr7B 80.816 245 24 11 4191 4419 504718796 504718559 3.270000e-38 171.0
80 TraesCS1A01G044000 chr5B 79.528 254 26 12 4188 4424 21545488 21545732 2.550000e-34 158.0
81 TraesCS1A01G044000 chr5B 95.833 48 2 0 4247 4294 276957650 276957603 2.040000e-10 78.7
82 TraesCS1A01G044000 chr3B 81.529 157 19 6 4186 4340 681856724 681856576 3.340000e-23 121.0
83 TraesCS1A01G044000 chr4A 81.579 114 11 8 4191 4304 707243873 707243770 1.220000e-12 86.1
84 TraesCS1A01G044000 chr6B 90.698 43 3 1 5356 5397 599809693 599809651 1.000000e-03 56.5
85 TraesCS1A01G044000 chr6B 94.286 35 2 0 3718 3752 715324067 715324101 3.000000e-03 54.7


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 TraesCS1A01G044000 chr1A 24765592 24772409 6817 False 4359.666667 12591 98.160667 1 6818 3 chr1A.!!$F9 6817
1 TraesCS1A01G044000 chr1A 24691570 24692890 1320 False 2296.000000 2296 98.035000 1 1322 1 chr1A.!!$F8 1321
2 TraesCS1A01G044000 chr1A 24672796 24674117 1321 False 2281.000000 2281 97.808000 1 1322 1 chr1A.!!$F7 1321
3 TraesCS1A01G044000 chr1A 24590954 24592272 1318 False 2278.000000 2278 97.808000 1 1322 1 chr1A.!!$F1 1321
4 TraesCS1A01G044000 chr1A 24621541 24622863 1322 False 2276.000000 2276 97.732000 1 1322 1 chr1A.!!$F4 1321
5 TraesCS1A01G044000 chr1A 24610384 24611703 1319 False 2252.000000 2252 97.430000 1 1322 1 chr1A.!!$F3 1321
6 TraesCS1A01G044000 chr1A 24654047 24655366 1319 False 2252.000000 2252 97.430000 1 1322 1 chr1A.!!$F6 1321
7 TraesCS1A01G044000 chr1A 24598824 24600140 1316 False 2248.000000 2248 97.428000 1 1322 1 chr1A.!!$F2 1321
8 TraesCS1A01G044000 chr1A 24647572 24648896 1324 False 2244.000000 2244 97.285000 1 1322 1 chr1A.!!$F5 1321
9 TraesCS1A01G044000 chr1A 24562380 24570517 8137 True 1273.500000 3210 95.816667 930 6818 6 chr1A.!!$R1 5888
10 TraesCS1A01G044000 chr1A 24938364 24941690 3326 False 854.666667 2109 85.692000 957 6613 3 chr1A.!!$F10 5656
11 TraesCS1A01G044000 chr1D 23436352 23441282 4930 True 1946.500000 4673 96.213250 930 6818 4 chr1D.!!$R3 5888
12 TraesCS1A01G044000 chr1D 451282968 451283919 951 False 1616.000000 1616 97.280000 5547 6501 1 chr1D.!!$F3 954
13 TraesCS1A01G044000 chr1D 23988929 23990046 1117 False 1362.000000 1362 88.772000 1838 2962 1 chr1D.!!$F2 1124
14 TraesCS1A01G044000 chr1D 24118787 24123155 4368 False 1048.500000 3118 86.199000 2 6686 4 chr1D.!!$F5 6684
15 TraesCS1A01G044000 chr1D 23978659 23979164 505 False 684.000000 684 91.033000 1334 1843 1 chr1D.!!$F1 509
16 TraesCS1A01G044000 chr1D 23994938 23996480 1542 False 487.875000 867 91.198250 3599 6544 4 chr1D.!!$F4 2945
17 TraesCS1A01G044000 chr1B 39582905 39585335 2430 True 1451.000000 2364 88.657500 1395 5553 2 chr1B.!!$R2 4158
18 TraesCS1A01G044000 chr1B 39651544 39655201 3657 False 784.000000 1797 86.201500 678 6686 4 chr1B.!!$F2 6008
19 TraesCS1A01G044000 chr7D 262346886 262347837 951 False 1622.000000 1622 97.382000 5548 6501 1 chr7D.!!$F1 953
20 TraesCS1A01G044000 chr7D 391210223 391211172 949 True 1613.000000 1613 97.275000 5549 6501 1 chr7D.!!$R1 952
21 TraesCS1A01G044000 chr5D 450111886 450112836 950 True 1620.000000 1620 97.379000 5549 6501 1 chr5D.!!$R3 952
22 TraesCS1A01G044000 chr5D 549579811 549580760 949 True 1607.000000 1607 97.167000 5550 6501 1 chr5D.!!$R5 951
23 TraesCS1A01G044000 chr3D 573040513 573041461 948 False 1616.000000 1616 97.377000 5550 6501 1 chr3D.!!$F2 951
24 TraesCS1A01G044000 chrUn 19189925 19190874 949 True 1613.000000 1613 97.272000 5550 6501 1 chrUn.!!$R1 951
25 TraesCS1A01G044000 chr2D 147425042 147425991 949 False 1607.000000 1607 97.170000 5549 6501 1 chr2D.!!$F1 952
26 TraesCS1A01G044000 chr6D 449270148 449271098 950 False 1598.000000 1598 96.960000 5549 6501 1 chr6D.!!$F1 952

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
240 264 1.015109 GAGTCTCCGCGTACAGATCA 58.985 55.000 4.92 0.0 0.00 2.92 F
939 980 1.932511 GTTGTTGTTGTTGGCATGTGG 59.067 47.619 0.00 0.0 0.00 4.17 F
1502 1579 0.099968 CAGTTCGGCAGCAATGGATG 59.900 55.000 0.00 0.0 0.00 3.51 F
2490 2596 1.670811 CCACGAGCATTGGGATTACAC 59.329 52.381 0.00 0.0 0.00 2.90 F
3952 4170 0.511221 AATCAGCGTCACGTTTTCCG 59.489 50.000 0.00 0.0 44.03 4.30 F
4249 4600 0.031178 GTGCCAACTGCCAGAGTTTG 59.969 55.000 0.00 0.0 42.70 2.93 F
4250 4601 0.106769 TGCCAACTGCCAGAGTTTGA 60.107 50.000 0.00 0.0 42.70 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1062 1107 0.877071 AAGCATCGTTCAAGCACTGG 59.123 50.000 0.00 0.0 0.00 4.00 R
2259 2364 1.076024 ACTGGTTCATGCAGTTGGGAT 59.924 47.619 0.00 0.0 0.00 3.85 R
3080 3234 2.773487 TGTTCCAAATACGGTCACAGG 58.227 47.619 0.00 0.0 0.00 4.00 R
4230 4581 0.031178 CAAACTCTGGCAGTTGGCAC 59.969 55.000 15.27 0.0 45.32 5.01 R
5185 8803 0.250510 TGAAATACGGCACCTGCACA 60.251 50.000 0.00 0.0 44.36 4.57 R
5545 9236 0.321564 CCCGTTGCCATCTTGAGTCA 60.322 55.000 0.00 0.0 0.00 3.41 R
5955 9646 4.324254 CCCTAGGACTTGGCACTTTGATTA 60.324 45.833 11.48 0.0 0.00 1.75 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
166 190 2.751837 CCCCGCCCTCAAGCTTTC 60.752 66.667 0.00 0.00 0.00 2.62
240 264 1.015109 GAGTCTCCGCGTACAGATCA 58.985 55.000 4.92 0.00 0.00 2.92
364 388 3.548745 TTGCCGTCTGATCATTCATCT 57.451 42.857 0.00 0.00 31.92 2.90
472 496 5.756195 TTGCTATTCCGAATTTCATCTGG 57.244 39.130 0.00 0.00 0.00 3.86
871 906 6.756074 CCTGACTTGTGAGATCTTATGAGTTC 59.244 42.308 0.00 0.00 0.00 3.01
909 944 4.584327 CAACTTGTTTGGGACTAAAGGG 57.416 45.455 0.00 0.00 0.00 3.95
939 980 1.932511 GTTGTTGTTGTTGGCATGTGG 59.067 47.619 0.00 0.00 0.00 4.17
1062 1107 5.687285 GGTTTGTCATCATTGTCTTCAACAC 59.313 40.000 0.00 0.00 37.70 3.32
1502 1579 0.099968 CAGTTCGGCAGCAATGGATG 59.900 55.000 0.00 0.00 0.00 3.51
1575 1661 2.103771 CTGATGGATCAAGGACGGATGT 59.896 50.000 0.00 0.00 36.18 3.06
1587 1673 3.695060 AGGACGGATGTATACGATCCATC 59.305 47.826 22.99 19.56 39.65 3.51
1668 1757 4.142315 CCGTTTAGTAGCTAAGGTGCAGTA 60.142 45.833 0.00 0.00 34.99 2.74
1669 1758 5.404946 CGTTTAGTAGCTAAGGTGCAGTAA 58.595 41.667 0.00 0.00 34.99 2.24
1670 1759 6.040878 CGTTTAGTAGCTAAGGTGCAGTAAT 58.959 40.000 0.00 0.00 34.99 1.89
1671 1760 6.534079 CGTTTAGTAGCTAAGGTGCAGTAATT 59.466 38.462 0.00 0.00 34.99 1.40
1992 2087 9.001542 TGCTTATTTCATTTTGCTTTGCTAATT 57.998 25.926 0.00 0.00 0.00 1.40
2490 2596 1.670811 CCACGAGCATTGGGATTACAC 59.329 52.381 0.00 0.00 0.00 2.90
2664 2809 8.226819 GGAACCTTAAATTCCTAAATCTCCAG 57.773 38.462 9.87 0.00 42.15 3.86
3080 3234 3.555966 AGCCAGATGGGTTTGCTATTAC 58.444 45.455 0.00 0.00 44.81 1.89
3228 3410 8.868522 AAGGTCTTGATTCATACATTCAGAAA 57.131 30.769 0.00 0.00 0.00 2.52
3522 3729 3.135895 TCCCTCCTTCACGAAAACTTCTT 59.864 43.478 0.00 0.00 0.00 2.52
3550 3757 6.899393 TGAGAATTGTGGTTCAAATTAGCT 57.101 33.333 0.00 0.00 39.62 3.32
3723 3939 1.001268 CAGTACAGACGCAGACACACT 60.001 52.381 0.00 0.00 0.00 3.55
3952 4170 0.511221 AATCAGCGTCACGTTTTCCG 59.489 50.000 0.00 0.00 44.03 4.30
4075 4426 4.324022 CGTCCTGGTTTATTAGTCCCCTTT 60.324 45.833 0.00 0.00 0.00 3.11
4182 4533 9.851686 TGAAAACTATGTCAGGATATAATTGCT 57.148 29.630 0.00 0.00 0.00 3.91
4184 4535 8.854614 AAACTATGTCAGGATATAATTGCTCC 57.145 34.615 0.00 0.00 0.00 4.70
4185 4536 7.805083 ACTATGTCAGGATATAATTGCTCCT 57.195 36.000 0.00 0.00 40.05 3.69
4199 4550 6.613153 AATTGCTCCTGATATACTACCTCC 57.387 41.667 0.00 0.00 0.00 4.30
4200 4551 3.687125 TGCTCCTGATATACTACCTCCG 58.313 50.000 0.00 0.00 0.00 4.63
4201 4552 3.074094 TGCTCCTGATATACTACCTCCGT 59.926 47.826 0.00 0.00 0.00 4.69
4202 4553 3.690628 GCTCCTGATATACTACCTCCGTC 59.309 52.174 0.00 0.00 0.00 4.79
4203 4554 4.263435 CTCCTGATATACTACCTCCGTCC 58.737 52.174 0.00 0.00 0.00 4.79
4204 4555 3.915073 TCCTGATATACTACCTCCGTCCT 59.085 47.826 0.00 0.00 0.00 3.85
4205 4556 4.011023 CCTGATATACTACCTCCGTCCTG 58.989 52.174 0.00 0.00 0.00 3.86
4206 4557 4.011023 CTGATATACTACCTCCGTCCTGG 58.989 52.174 0.00 0.00 40.09 4.45
4207 4558 3.396946 TGATATACTACCTCCGTCCTGGT 59.603 47.826 0.00 0.00 39.52 4.00
4208 4559 2.842645 ATACTACCTCCGTCCTGGTT 57.157 50.000 0.00 0.00 39.52 3.67
4209 4560 2.610438 TACTACCTCCGTCCTGGTTT 57.390 50.000 0.00 0.00 39.52 3.27
4210 4561 2.610438 ACTACCTCCGTCCTGGTTTA 57.390 50.000 0.00 0.00 39.52 2.01
4211 4562 3.111741 ACTACCTCCGTCCTGGTTTAT 57.888 47.619 0.00 0.00 39.52 1.40
4212 4563 3.447950 ACTACCTCCGTCCTGGTTTATT 58.552 45.455 0.00 0.00 39.52 1.40
4213 4564 4.613437 ACTACCTCCGTCCTGGTTTATTA 58.387 43.478 0.00 0.00 39.52 0.98
4214 4565 4.648307 ACTACCTCCGTCCTGGTTTATTAG 59.352 45.833 0.00 0.00 39.52 1.73
4215 4566 3.447950 ACCTCCGTCCTGGTTTATTAGT 58.552 45.455 0.00 0.00 39.52 2.24
4216 4567 3.450096 ACCTCCGTCCTGGTTTATTAGTC 59.550 47.826 0.00 0.00 39.52 2.59
4217 4568 3.181468 CCTCCGTCCTGGTTTATTAGTCC 60.181 52.174 0.00 0.00 39.52 3.85
4218 4569 2.767960 TCCGTCCTGGTTTATTAGTCCC 59.232 50.000 0.00 0.00 39.52 4.46
4219 4570 2.158856 CCGTCCTGGTTTATTAGTCCCC 60.159 54.545 0.00 0.00 0.00 4.81
4220 4571 2.770232 CGTCCTGGTTTATTAGTCCCCT 59.230 50.000 0.00 0.00 0.00 4.79
4221 4572 3.199289 CGTCCTGGTTTATTAGTCCCCTT 59.801 47.826 0.00 0.00 0.00 3.95
4222 4573 4.324022 CGTCCTGGTTTATTAGTCCCCTTT 60.324 45.833 0.00 0.00 0.00 3.11
4223 4574 4.948004 GTCCTGGTTTATTAGTCCCCTTTG 59.052 45.833 0.00 0.00 0.00 2.77
4224 4575 4.604490 TCCTGGTTTATTAGTCCCCTTTGT 59.396 41.667 0.00 0.00 0.00 2.83
4225 4576 5.791664 TCCTGGTTTATTAGTCCCCTTTGTA 59.208 40.000 0.00 0.00 0.00 2.41
4226 4577 6.449041 TCCTGGTTTATTAGTCCCCTTTGTAT 59.551 38.462 0.00 0.00 0.00 2.29
4227 4578 7.036425 TCCTGGTTTATTAGTCCCCTTTGTATT 60.036 37.037 0.00 0.00 0.00 1.89
4228 4579 7.068226 CCTGGTTTATTAGTCCCCTTTGTATTG 59.932 40.741 0.00 0.00 0.00 1.90
4229 4580 7.471890 TGGTTTATTAGTCCCCTTTGTATTGT 58.528 34.615 0.00 0.00 0.00 2.71
4230 4581 7.394923 TGGTTTATTAGTCCCCTTTGTATTGTG 59.605 37.037 0.00 0.00 0.00 3.33
4231 4582 7.395206 GGTTTATTAGTCCCCTTTGTATTGTGT 59.605 37.037 0.00 0.00 0.00 3.72
4232 4583 7.931578 TTATTAGTCCCCTTTGTATTGTGTG 57.068 36.000 0.00 0.00 0.00 3.82
4233 4584 2.514803 AGTCCCCTTTGTATTGTGTGC 58.485 47.619 0.00 0.00 0.00 4.57
4234 4585 1.544246 GTCCCCTTTGTATTGTGTGCC 59.456 52.381 0.00 0.00 0.00 5.01
4235 4586 1.145945 TCCCCTTTGTATTGTGTGCCA 59.854 47.619 0.00 0.00 0.00 4.92
4236 4587 1.967066 CCCCTTTGTATTGTGTGCCAA 59.033 47.619 0.00 0.00 37.49 4.52
4237 4588 2.288763 CCCCTTTGTATTGTGTGCCAAC 60.289 50.000 0.00 0.00 35.44 3.77
4238 4589 2.627699 CCCTTTGTATTGTGTGCCAACT 59.372 45.455 0.00 0.00 35.44 3.16
4239 4590 3.552684 CCCTTTGTATTGTGTGCCAACTG 60.553 47.826 0.00 0.00 35.44 3.16
4240 4591 2.791383 TTGTATTGTGTGCCAACTGC 57.209 45.000 0.00 0.00 35.44 4.40
4241 4592 0.958091 TGTATTGTGTGCCAACTGCC 59.042 50.000 0.00 0.00 40.16 4.85
4242 4593 0.958091 GTATTGTGTGCCAACTGCCA 59.042 50.000 0.00 0.00 40.16 4.92
4243 4594 1.068333 GTATTGTGTGCCAACTGCCAG 60.068 52.381 0.00 0.00 40.16 4.85
4244 4595 0.467844 ATTGTGTGCCAACTGCCAGA 60.468 50.000 0.00 0.00 40.16 3.86
4245 4596 1.102809 TTGTGTGCCAACTGCCAGAG 61.103 55.000 0.00 0.00 40.16 3.35
4246 4597 1.526917 GTGTGCCAACTGCCAGAGT 60.527 57.895 0.00 0.00 40.16 3.24
4247 4598 1.103398 GTGTGCCAACTGCCAGAGTT 61.103 55.000 0.00 0.00 46.52 3.01
4248 4599 0.395586 TGTGCCAACTGCCAGAGTTT 60.396 50.000 0.00 0.00 42.70 2.66
4249 4600 0.031178 GTGCCAACTGCCAGAGTTTG 59.969 55.000 0.00 0.00 42.70 2.93
4250 4601 0.106769 TGCCAACTGCCAGAGTTTGA 60.107 50.000 0.00 0.00 42.70 2.69
4251 4602 0.312102 GCCAACTGCCAGAGTTTGAC 59.688 55.000 0.00 0.00 42.70 3.18
4252 4603 0.954452 CCAACTGCCAGAGTTTGACC 59.046 55.000 0.00 0.00 42.70 4.02
4253 4604 1.477558 CCAACTGCCAGAGTTTGACCT 60.478 52.381 0.00 0.00 42.70 3.85
4254 4605 2.301346 CAACTGCCAGAGTTTGACCTT 58.699 47.619 0.00 0.00 42.70 3.50
4255 4606 3.476552 CAACTGCCAGAGTTTGACCTTA 58.523 45.455 0.00 0.00 42.70 2.69
4256 4607 3.857157 ACTGCCAGAGTTTGACCTTAA 57.143 42.857 0.00 0.00 0.00 1.85
4257 4608 4.164843 ACTGCCAGAGTTTGACCTTAAA 57.835 40.909 0.00 0.00 0.00 1.52
4258 4609 4.729868 ACTGCCAGAGTTTGACCTTAAAT 58.270 39.130 0.00 0.00 0.00 1.40
4259 4610 5.140454 ACTGCCAGAGTTTGACCTTAAATT 58.860 37.500 0.00 0.00 0.00 1.82
4260 4611 5.598417 ACTGCCAGAGTTTGACCTTAAATTT 59.402 36.000 0.00 0.00 0.00 1.82
4261 4612 6.098266 ACTGCCAGAGTTTGACCTTAAATTTT 59.902 34.615 0.00 0.00 0.00 1.82
4262 4613 7.286775 ACTGCCAGAGTTTGACCTTAAATTTTA 59.713 33.333 0.00 0.00 0.00 1.52
4263 4614 7.430441 TGCCAGAGTTTGACCTTAAATTTTAC 58.570 34.615 0.00 0.00 0.00 2.01
4264 4615 7.286775 TGCCAGAGTTTGACCTTAAATTTTACT 59.713 33.333 0.00 0.00 0.00 2.24
4265 4616 8.789762 GCCAGAGTTTGACCTTAAATTTTACTA 58.210 33.333 0.00 0.00 0.00 1.82
4288 4639 9.709495 ACTAACAAAATGTTAATGCATGTCATT 57.291 25.926 16.14 16.14 41.70 2.57
4341 4692 9.923143 AGAATACGAATCCAACGATATAATTGA 57.077 29.630 0.00 0.00 34.70 2.57
4346 4697 8.889717 ACGAATCCAACGATATAATTGAAAACT 58.110 29.630 0.00 0.00 34.70 2.66
4413 4779 4.141551 GGGGACTTATAAACCAGAACGGAT 60.142 45.833 9.57 0.00 38.63 4.18
4493 4859 9.627123 CTCATCTTGGTATTTCATAGGGTTTTA 57.373 33.333 0.00 0.00 0.00 1.52
4857 8464 4.894784 CCTGTCTAGGCTGTTACTTTCAA 58.105 43.478 0.00 0.00 37.25 2.69
4914 8521 9.967245 CTCTTTTAAAAGCCAAAACTAAACAAC 57.033 29.630 20.93 0.00 35.99 3.32
4922 8529 3.492482 CCAAAACTAAACAACTGGGGCAG 60.492 47.826 0.00 0.00 37.52 4.85
4950 8557 6.159988 TGGGAAACTAAACAAAATAATGCCG 58.840 36.000 0.00 0.00 0.00 5.69
4951 8558 6.160684 GGGAAACTAAACAAAATAATGCCGT 58.839 36.000 0.00 0.00 0.00 5.68
5079 8686 1.039856 TCTTTGGCCTTTCCACTTGC 58.960 50.000 3.32 0.00 46.55 4.01
5544 9235 7.828508 TGATATGATGAAAATCAGGGGAAAG 57.171 36.000 0.00 0.00 33.59 2.62
5545 9236 7.356680 TGATATGATGAAAATCAGGGGAAAGT 58.643 34.615 0.00 0.00 33.59 2.66
5676 9367 0.772384 TTTCTGCCCGTCCCCTAAAA 59.228 50.000 0.00 0.00 0.00 1.52
5955 9646 4.404715 CCATCTTCAAATCTTCCAATGCCT 59.595 41.667 0.00 0.00 0.00 4.75
5999 9690 4.156739 GGGAAGATCAAAATTCGCTCAAGT 59.843 41.667 0.00 0.00 35.96 3.16
6190 9881 9.791820 TGAAACATTGCAACAAGATAATGATAG 57.208 29.630 0.00 0.00 35.21 2.08
6264 9955 4.520111 CCAATCTTGTGAACACATCAAGGA 59.480 41.667 8.46 3.83 40.50 3.36
6276 9967 7.939039 TGAACACATCAAGGACTCTAAGATTTT 59.061 33.333 0.00 0.00 34.30 1.82
6277 9968 8.697507 AACACATCAAGGACTCTAAGATTTTT 57.302 30.769 0.00 0.00 0.00 1.94
6395 10087 2.031191 CGAAATGTGCCGGGTTGTATAC 59.969 50.000 2.18 0.00 0.00 1.47
6503 10196 2.766345 GCCCATTGCCATCTTGAAAA 57.234 45.000 0.00 0.00 0.00 2.29
6550 10243 9.689976 CTAGAAATGGATTATCTACAGACAGTG 57.310 37.037 0.00 0.00 0.00 3.66
6715 10429 6.409704 TGCTTCTCTGTCATGCTAAAATACT 58.590 36.000 0.00 0.00 0.00 2.12
6734 10448 8.415950 AAATACTATTGGATTGGTGACACAAA 57.584 30.769 8.08 2.25 42.67 2.83
6744 10458 1.885887 GGTGACACAAAGCAGCCAATA 59.114 47.619 8.08 0.00 0.00 1.90
6798 10512 4.260702 GCAGCATACTCATTCAGAAGCTTC 60.261 45.833 19.11 19.11 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
166 190 3.441572 AGAAATTCTGAAGGTCAATGGCG 59.558 43.478 0.00 0.00 0.00 5.69
633 668 4.077108 TCAGTTAGGAACTACTCGCTTCA 58.923 43.478 0.00 0.00 42.67 3.02
871 906 0.996583 TTGGGGTAGGCTAAAGGTGG 59.003 55.000 0.00 0.00 0.00 4.61
909 944 5.201181 CCAACAACAACAACAACAACAAAC 58.799 37.500 0.00 0.00 0.00 2.93
939 980 6.051717 ACATGAAGATACCACATAAGTCAGC 58.948 40.000 0.00 0.00 0.00 4.26
1034 1079 2.884012 AGACAATGATGACAAACCGCAA 59.116 40.909 0.00 0.00 0.00 4.85
1062 1107 0.877071 AAGCATCGTTCAAGCACTGG 59.123 50.000 0.00 0.00 0.00 4.00
1390 1458 4.285807 TCACACCTTGTTTGATTCAACG 57.714 40.909 0.00 0.00 0.00 4.10
1502 1579 2.231964 TGATTGCCTCCTTGTGCATTTC 59.768 45.455 0.00 0.00 37.33 2.17
1575 1661 3.626217 CGGAGGATTCGATGGATCGTATA 59.374 47.826 8.78 0.00 42.19 1.47
1992 2087 6.012508 AGAGGTGAAAGGAAATCAGTTATCCA 60.013 38.462 0.00 0.00 35.62 3.41
2148 2253 1.696336 CCTCTGGGGTGATGATCGAAT 59.304 52.381 0.00 0.00 0.00 3.34
2259 2364 1.076024 ACTGGTTCATGCAGTTGGGAT 59.924 47.619 0.00 0.00 0.00 3.85
2664 2809 7.860872 ACAGAAAACAATTCCGACTATGAAAAC 59.139 33.333 0.00 0.00 0.00 2.43
3080 3234 2.773487 TGTTCCAAATACGGTCACAGG 58.227 47.619 0.00 0.00 0.00 4.00
3228 3410 6.613271 ACCAACAGAATGATACCTCTAGATGT 59.387 38.462 5.94 5.94 39.69 3.06
3522 3729 9.311916 CTAATTTGAACCACAATTCTCAAAACA 57.688 29.630 0.70 0.00 40.21 2.83
3550 3757 3.004629 CAGCTGCATCAACCACACTTAAA 59.995 43.478 0.00 0.00 0.00 1.52
3723 3939 2.481969 GCGTGCATTCATAGGAGTGAGA 60.482 50.000 3.87 0.00 32.88 3.27
3952 4170 7.736447 ATGCAAGATAACAATTAGCTCCTAC 57.264 36.000 0.00 0.00 29.07 3.18
4075 4426 1.752084 TGGCAGTTGGCACACAATACA 60.752 47.619 4.06 0.00 46.12 2.29
4156 4507 9.851686 AGCAATTATATCCTGACATAGTTTTCA 57.148 29.630 0.00 0.00 0.00 2.69
4158 4509 9.289782 GGAGCAATTATATCCTGACATAGTTTT 57.710 33.333 0.00 0.00 0.00 2.43
4159 4510 8.664079 AGGAGCAATTATATCCTGACATAGTTT 58.336 33.333 4.84 0.00 41.95 2.66
4160 4511 8.212259 AGGAGCAATTATATCCTGACATAGTT 57.788 34.615 4.84 0.00 41.95 2.24
4161 4512 7.805083 AGGAGCAATTATATCCTGACATAGT 57.195 36.000 4.84 0.00 41.95 2.12
4173 4524 9.422681 GGAGGTAGTATATCAGGAGCAATTATA 57.577 37.037 0.00 0.00 0.00 0.98
4174 4525 7.068839 CGGAGGTAGTATATCAGGAGCAATTAT 59.931 40.741 0.00 0.00 0.00 1.28
4175 4526 6.377429 CGGAGGTAGTATATCAGGAGCAATTA 59.623 42.308 0.00 0.00 0.00 1.40
4176 4527 5.186021 CGGAGGTAGTATATCAGGAGCAATT 59.814 44.000 0.00 0.00 0.00 2.32
4177 4528 4.707448 CGGAGGTAGTATATCAGGAGCAAT 59.293 45.833 0.00 0.00 0.00 3.56
4178 4529 4.079970 CGGAGGTAGTATATCAGGAGCAA 58.920 47.826 0.00 0.00 0.00 3.91
4179 4530 3.074094 ACGGAGGTAGTATATCAGGAGCA 59.926 47.826 0.00 0.00 0.00 4.26
4180 4531 3.688235 ACGGAGGTAGTATATCAGGAGC 58.312 50.000 0.00 0.00 0.00 4.70
4181 4532 4.019141 AGGACGGAGGTAGTATATCAGGAG 60.019 50.000 0.00 0.00 0.00 3.69
4182 4533 3.915073 AGGACGGAGGTAGTATATCAGGA 59.085 47.826 0.00 0.00 0.00 3.86
4183 4534 4.011023 CAGGACGGAGGTAGTATATCAGG 58.989 52.174 0.00 0.00 0.00 3.86
4184 4535 4.011023 CCAGGACGGAGGTAGTATATCAG 58.989 52.174 0.00 0.00 36.56 2.90
4185 4536 3.396946 ACCAGGACGGAGGTAGTATATCA 59.603 47.826 0.00 0.00 36.07 2.15
4186 4537 4.031636 ACCAGGACGGAGGTAGTATATC 57.968 50.000 0.00 0.00 36.07 1.63
4187 4538 4.466255 AACCAGGACGGAGGTAGTATAT 57.534 45.455 0.00 0.00 37.07 0.86
4188 4539 3.959495 AACCAGGACGGAGGTAGTATA 57.041 47.619 0.00 0.00 37.07 1.47
4189 4540 2.842645 AACCAGGACGGAGGTAGTAT 57.157 50.000 0.00 0.00 37.07 2.12
4190 4541 2.610438 AAACCAGGACGGAGGTAGTA 57.390 50.000 0.00 0.00 37.07 1.82
4191 4542 2.610438 TAAACCAGGACGGAGGTAGT 57.390 50.000 0.00 0.00 37.07 2.73
4192 4543 4.648307 ACTAATAAACCAGGACGGAGGTAG 59.352 45.833 0.00 0.00 37.07 3.18
4193 4544 4.613437 ACTAATAAACCAGGACGGAGGTA 58.387 43.478 0.00 0.00 37.07 3.08
4194 4545 3.447950 ACTAATAAACCAGGACGGAGGT 58.552 45.455 0.00 0.00 40.61 3.85
4195 4546 3.181468 GGACTAATAAACCAGGACGGAGG 60.181 52.174 0.00 0.00 38.63 4.30
4196 4547 3.181468 GGGACTAATAAACCAGGACGGAG 60.181 52.174 0.00 0.00 38.63 4.63
4197 4548 2.767960 GGGACTAATAAACCAGGACGGA 59.232 50.000 0.00 0.00 38.63 4.69
4198 4549 2.158856 GGGGACTAATAAACCAGGACGG 60.159 54.545 0.00 0.00 42.50 4.79
4199 4550 2.770232 AGGGGACTAATAAACCAGGACG 59.230 50.000 0.00 0.00 40.61 4.79
4200 4551 4.857130 AAGGGGACTAATAAACCAGGAC 57.143 45.455 0.00 0.00 42.68 3.85
4201 4552 4.604490 ACAAAGGGGACTAATAAACCAGGA 59.396 41.667 0.00 0.00 42.68 3.86
4202 4553 4.930696 ACAAAGGGGACTAATAAACCAGG 58.069 43.478 0.00 0.00 42.68 4.45
4203 4554 7.614192 ACAATACAAAGGGGACTAATAAACCAG 59.386 37.037 0.00 0.00 42.68 4.00
4204 4555 7.394923 CACAATACAAAGGGGACTAATAAACCA 59.605 37.037 0.00 0.00 42.68 3.67
4205 4556 7.395206 ACACAATACAAAGGGGACTAATAAACC 59.605 37.037 0.00 0.00 42.68 3.27
4206 4557 8.241367 CACACAATACAAAGGGGACTAATAAAC 58.759 37.037 0.00 0.00 42.68 2.01
4207 4558 7.094118 GCACACAATACAAAGGGGACTAATAAA 60.094 37.037 0.00 0.00 42.68 1.40
4208 4559 6.376018 GCACACAATACAAAGGGGACTAATAA 59.624 38.462 0.00 0.00 42.68 1.40
4209 4560 5.883673 GCACACAATACAAAGGGGACTAATA 59.116 40.000 0.00 0.00 42.68 0.98
4210 4561 4.705023 GCACACAATACAAAGGGGACTAAT 59.295 41.667 0.00 0.00 42.68 1.73
4211 4562 4.076394 GCACACAATACAAAGGGGACTAA 58.924 43.478 0.00 0.00 42.68 2.24
4212 4563 3.560453 GGCACACAATACAAAGGGGACTA 60.560 47.826 0.00 0.00 42.68 2.59
4213 4564 6.770998 TTGGCACACAATACAAAGGGGACT 62.771 45.833 0.00 0.00 41.13 3.85
4214 4565 1.544246 GGCACACAATACAAAGGGGAC 59.456 52.381 0.00 0.00 0.00 4.46
4215 4566 1.145945 TGGCACACAATACAAAGGGGA 59.854 47.619 0.00 0.00 0.00 4.81
4216 4567 1.626686 TGGCACACAATACAAAGGGG 58.373 50.000 0.00 0.00 0.00 4.79
4217 4568 2.627699 AGTTGGCACACAATACAAAGGG 59.372 45.455 0.00 0.00 41.95 3.95
4218 4569 3.641648 CAGTTGGCACACAATACAAAGG 58.358 45.455 0.00 0.00 41.95 3.11
4219 4570 3.052036 GCAGTTGGCACACAATACAAAG 58.948 45.455 0.00 0.00 41.95 2.77
4220 4571 3.090952 GCAGTTGGCACACAATACAAA 57.909 42.857 0.00 0.00 41.95 2.83
4221 4572 2.791383 GCAGTTGGCACACAATACAA 57.209 45.000 0.00 0.00 41.95 2.41
4222 4573 1.752084 TGGCAGTTGGCACACAATACA 60.752 47.619 4.06 0.00 46.12 2.29
4223 4574 0.958091 TGGCAGTTGGCACACAATAC 59.042 50.000 4.06 0.00 46.12 1.89
4224 4575 1.202867 TCTGGCAGTTGGCACACAATA 60.203 47.619 15.27 0.00 46.12 1.90
4225 4576 0.467844 TCTGGCAGTTGGCACACAAT 60.468 50.000 15.27 0.00 46.12 2.71
4226 4577 1.077140 TCTGGCAGTTGGCACACAA 60.077 52.632 15.27 0.00 46.12 3.33
4227 4578 1.526686 CTCTGGCAGTTGGCACACA 60.527 57.895 15.27 0.00 46.12 3.72
4228 4579 1.103398 AACTCTGGCAGTTGGCACAC 61.103 55.000 15.27 0.00 44.28 3.82
4229 4580 0.395586 AAACTCTGGCAGTTGGCACA 60.396 50.000 15.27 0.00 45.32 4.57
4230 4581 0.031178 CAAACTCTGGCAGTTGGCAC 59.969 55.000 15.27 0.00 45.32 5.01
4231 4582 0.106769 TCAAACTCTGGCAGTTGGCA 60.107 50.000 15.27 8.17 45.32 4.92
4232 4583 0.312102 GTCAAACTCTGGCAGTTGGC 59.688 55.000 15.27 9.72 45.32 4.52
4233 4584 0.954452 GGTCAAACTCTGGCAGTTGG 59.046 55.000 15.27 8.66 45.32 3.77
4234 4585 1.972872 AGGTCAAACTCTGGCAGTTG 58.027 50.000 15.27 11.90 45.32 3.16
4236 4587 3.857157 TTAAGGTCAAACTCTGGCAGT 57.143 42.857 15.27 0.00 36.64 4.40
4237 4588 5.712152 AATTTAAGGTCAAACTCTGGCAG 57.288 39.130 8.58 8.58 0.00 4.85
4238 4589 6.478512 AAAATTTAAGGTCAAACTCTGGCA 57.521 33.333 0.00 0.00 0.00 4.92
4239 4590 7.658261 AGTAAAATTTAAGGTCAAACTCTGGC 58.342 34.615 0.00 0.00 0.00 4.85
4262 4613 9.709495 AATGACATGCATTAACATTTTGTTAGT 57.291 25.926 11.95 0.00 45.16 2.24
4315 4666 9.923143 TCAATTATATCGTTGGATTCGTATTCT 57.077 29.630 1.51 0.00 34.00 2.40
4378 4744 7.762615 GGTTTATAAGTCCCCTTTGTATTTTGC 59.237 37.037 0.00 0.00 31.89 3.68
4407 4773 7.272978 AGCATCTACAAATTACTACATCCGTT 58.727 34.615 0.00 0.00 0.00 4.44
4413 4779 6.093495 GTGCCAAGCATCTACAAATTACTACA 59.907 38.462 0.00 0.00 41.91 2.74
4857 8464 5.227569 TCATATTGTCCACGCCATCTAAT 57.772 39.130 0.00 0.00 0.00 1.73
4914 8521 0.897621 GTTTCCCAAATCTGCCCCAG 59.102 55.000 0.00 0.00 0.00 4.45
5168 8786 8.085296 CACCTGCACAACCATTTTAACTTATTA 58.915 33.333 0.00 0.00 0.00 0.98
5169 8787 6.928492 CACCTGCACAACCATTTTAACTTATT 59.072 34.615 0.00 0.00 0.00 1.40
5185 8803 0.250510 TGAAATACGGCACCTGCACA 60.251 50.000 0.00 0.00 44.36 4.57
5544 9235 0.798776 CCGTTGCCATCTTGAGTCAC 59.201 55.000 0.00 0.00 0.00 3.67
5545 9236 0.321564 CCCGTTGCCATCTTGAGTCA 60.322 55.000 0.00 0.00 0.00 3.41
5955 9646 4.324254 CCCTAGGACTTGGCACTTTGATTA 60.324 45.833 11.48 0.00 0.00 1.75
6264 9955 7.569599 TCTTACCCCTGAAAAATCTTAGAGT 57.430 36.000 0.00 0.00 0.00 3.24
6276 9967 3.028850 CCGTAGTCATCTTACCCCTGAA 58.971 50.000 0.00 0.00 0.00 3.02
6277 9968 2.024655 ACCGTAGTCATCTTACCCCTGA 60.025 50.000 0.00 0.00 0.00 3.86
6379 10071 0.978151 ACAGTATACAACCCGGCACA 59.022 50.000 5.50 0.00 0.00 4.57
6383 10075 0.463116 GGGCACAGTATACAACCCGG 60.463 60.000 5.50 0.00 0.00 5.73
6395 10087 2.730094 GGCTGTTGTTGGGCACAG 59.270 61.111 0.00 0.00 36.48 3.66
6501 10194 2.427095 GCTTCCCTGTTTGTGTCACTTT 59.573 45.455 4.27 0.00 0.00 2.66
6502 10195 2.024414 GCTTCCCTGTTTGTGTCACTT 58.976 47.619 4.27 0.00 0.00 3.16
6503 10196 1.212935 AGCTTCCCTGTTTGTGTCACT 59.787 47.619 4.27 0.00 0.00 3.41
6700 10412 8.850156 ACCAATCCAATAGTATTTTAGCATGAC 58.150 33.333 0.00 0.00 0.00 3.06
6715 10429 4.148079 TGCTTTGTGTCACCAATCCAATA 58.852 39.130 0.00 0.00 0.00 1.90
6734 10448 6.042552 ACATCTACATTCTAGTATTGGCTGCT 59.957 38.462 0.00 0.00 0.00 4.24
6765 10479 6.320418 TGAATGAGTATGCTGCATGAGATTTT 59.680 34.615 24.59 10.96 0.00 1.82


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

AutoCloner maintained by Alex Coulton.