Multiple sequence alignment - TraesCS6B01G431500

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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 TraesCS6B01G431500 chr6B 100.000 7505 0 0 1 7505 699199193 699206697 0.000000e+00 13860.0
1 TraesCS6B01G431500 chr6B 89.047 913 91 4 5440 6349 699606765 699607671 0.000000e+00 1123.0
2 TraesCS6B01G431500 chr6B 84.967 1051 129 22 2412 3457 699538741 699539767 0.000000e+00 1038.0
3 TraesCS6B01G431500 chr6B 83.875 769 86 19 5416 6183 699542110 699542841 0.000000e+00 699.0
4 TraesCS6B01G431500 chr6B 85.736 666 72 7 2788 3451 699604626 699605270 0.000000e+00 682.0
5 TraesCS6B01G431500 chr6B 85.864 573 60 12 4411 4975 699605672 699606231 2.330000e-164 590.0
6 TraesCS6B01G431500 chr6B 85.045 555 61 10 4411 4957 699540871 699541411 5.120000e-151 545.0
7 TraesCS6B01G431500 chr6B 97.368 266 6 1 123 388 714721766 714721502 1.150000e-122 451.0
8 TraesCS6B01G431500 chr6B 90.000 320 32 0 5065 5384 699541798 699542117 1.510000e-111 414.0
9 TraesCS6B01G431500 chr6B 97.500 240 5 1 371 609 714721480 714721241 7.010000e-110 409.0
10 TraesCS6B01G431500 chr6B 85.519 366 51 2 2412 2777 699603573 699603936 1.530000e-101 381.0
11 TraesCS6B01G431500 chr6B 87.460 311 32 4 4030 4337 699605373 699605679 1.200000e-92 351.0
12 TraesCS6B01G431500 chr6B 86.747 332 23 8 6345 6665 699609932 699610253 4.310000e-92 350.0
13 TraesCS6B01G431500 chr6B 83.682 239 28 6 3752 3982 699540339 699540574 1.640000e-51 215.0
14 TraesCS6B01G431500 chr6B 88.333 180 20 1 5061 5240 699606585 699606763 1.640000e-51 215.0
15 TraesCS6B01G431500 chr6B 92.806 139 6 2 6862 6999 699611175 699611310 1.650000e-46 198.0
16 TraesCS6B01G431500 chr6B 79.343 213 34 10 2033 2239 699537351 699537559 2.820000e-29 141.0
17 TraesCS6B01G431500 chr6B 98.667 75 1 0 35 109 714721980 714721906 4.720000e-27 134.0
18 TraesCS6B01G431500 chr6B 80.645 155 23 7 2089 2239 699592973 699593124 6.150000e-21 113.0
19 TraesCS6B01G431500 chr6B 76.331 169 36 4 2033 2198 699537674 699537841 3.730000e-13 87.9
20 TraesCS6B01G431500 chr6B 76.331 169 34 5 2033 2197 699593246 699593412 1.340000e-12 86.1
21 TraesCS6B01G431500 chr6D 94.356 5315 222 37 2225 7505 459837718 459842988 0.000000e+00 8082.0
22 TraesCS6B01G431500 chr6D 88.368 2261 107 59 1 2177 459835541 459837729 0.000000e+00 2575.0
23 TraesCS6B01G431500 chr6D 88.021 1152 128 7 5416 6562 459924514 459925660 0.000000e+00 1354.0
24 TraesCS6B01G431500 chr6D 83.679 1109 124 32 2412 3512 459921506 459922565 0.000000e+00 992.0
25 TraesCS6B01G431500 chr6D 84.178 986 108 30 4411 5384 459923572 459924521 0.000000e+00 913.0
26 TraesCS6B01G431500 chr6D 87.987 308 31 3 4030 4334 459923272 459923576 7.160000e-95 359.0
27 TraesCS6B01G431500 chr6D 82.249 338 40 12 6237 6571 460281549 460281229 2.670000e-69 274.0
28 TraesCS6B01G431500 chr6D 78.641 206 39 5 2037 2239 459920522 459920725 1.700000e-26 132.0
29 TraesCS6B01G431500 chr6A 93.106 4540 229 42 2225 6718 605560795 605565296 0.000000e+00 6573.0
30 TraesCS6B01G431500 chr6A 87.782 1154 126 9 5416 6562 605858741 605859886 0.000000e+00 1336.0
31 TraesCS6B01G431500 chr6A 82.699 1104 140 26 2412 3513 605850504 605851558 0.000000e+00 933.0
32 TraesCS6B01G431500 chr6A 79.491 1531 129 73 710 2177 605559398 605560806 0.000000e+00 917.0
33 TraesCS6B01G431500 chr6A 86.207 725 52 20 1 692 605558629 605559338 0.000000e+00 741.0
34 TraesCS6B01G431500 chr6A 84.151 713 79 19 6732 7416 605565285 605565991 0.000000e+00 660.0
35 TraesCS6B01G431500 chr6A 85.714 448 47 6 4411 4855 605852630 605853063 2.470000e-124 457.0
36 TraesCS6B01G431500 chr6A 89.408 321 32 2 5065 5384 605858429 605858748 3.260000e-108 403.0
37 TraesCS6B01G431500 chr6A 78.505 214 40 6 2037 2246 605849119 605849330 1.310000e-27 135.0
38 TraesCS6B01G431500 chr3B 80.679 383 44 16 1369 1746 42091318 42091675 3.450000e-68 270.0
39 TraesCS6B01G431500 chr3B 80.418 383 45 17 1369 1746 42064924 42065281 1.610000e-66 265.0
40 TraesCS6B01G431500 chr3B 92.308 91 6 1 7416 7505 620233198 620233108 2.200000e-25 128.0
41 TraesCS6B01G431500 chrUn 80.418 383 45 17 1369 1746 305871852 305872209 1.610000e-66 265.0
42 TraesCS6B01G431500 chr3D 89.130 92 6 4 7416 7505 483533263 483533174 2.210000e-20 111.0
43 TraesCS6B01G431500 chr3D 86.047 86 12 0 7420 7505 315975915 315975830 8.020000e-15 93.5
44 TraesCS6B01G431500 chr3D 90.244 41 4 0 2340 2380 8848440 8848400 4.000000e-03 54.7
45 TraesCS6B01G431500 chr3A 89.247 93 5 5 7416 7505 626081418 626081328 2.210000e-20 111.0
46 TraesCS6B01G431500 chr3A 94.737 38 1 1 6807 6844 378815097 378815133 2.920000e-04 58.4
47 TraesCS6B01G431500 chr2D 87.912 91 10 1 7416 7505 366137468 366137558 1.030000e-18 106.0
48 TraesCS6B01G431500 chr2D 96.970 33 0 1 6804 6836 38220595 38220626 4.000000e-03 54.7
49 TraesCS6B01G431500 chr4D 87.500 88 10 1 7417 7503 349399040 349398953 4.790000e-17 100.0
50 TraesCS6B01G431500 chr4D 82.796 93 9 7 7417 7505 301661213 301661302 8.080000e-10 76.8
51 TraesCS6B01G431500 chr4D 100.000 28 0 0 2362 2389 217822388 217822361 1.400000e-02 52.8
52 TraesCS6B01G431500 chr4D 96.875 32 0 1 2350 2380 481971042 481971011 1.400000e-02 52.8
53 TraesCS6B01G431500 chr7B 85.556 90 10 3 2332 2418 691179379 691179290 2.880000e-14 91.6
54 TraesCS6B01G431500 chr2B 90.476 63 5 1 7416 7477 317130150 317130088 1.740000e-11 82.4
55 TraesCS6B01G431500 chr2A 83.333 90 12 3 2332 2418 776416259 776416170 6.240000e-11 80.5
56 TraesCS6B01G431500 chr2A 83.333 90 12 3 2332 2418 776441664 776441575 6.240000e-11 80.5
57 TraesCS6B01G431500 chr2A 100.000 31 0 0 6807 6837 668239038 668239068 2.920000e-04 58.4
58 TraesCS6B01G431500 chr2A 100.000 29 0 0 6807 6835 764145516 764145544 4.000000e-03 54.7
59 TraesCS6B01G431500 chr2A 100.000 28 0 0 6807 6834 321157519 321157492 1.400000e-02 52.8
60 TraesCS6B01G431500 chr5A 96.970 33 0 1 2350 2381 660720985 660721017 4.000000e-03 54.7
61 TraesCS6B01G431500 chr4A 100.000 29 0 0 6810 6838 35352452 35352424 4.000000e-03 54.7
62 TraesCS6B01G431500 chr1D 96.875 32 1 0 6806 6837 372551762 372551731 4.000000e-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 TraesCS6B01G431500 chr6B 699199193 699206697 7504 False 13860.000000 13860 100.000000 1 7505 1 chr6B.!!$F1 7504
1 TraesCS6B01G431500 chr6B 699603573 699611310 7737 False 486.250000 1123 87.689000 2412 6999 8 chr6B.!!$F4 4587
2 TraesCS6B01G431500 chr6B 699537351 699542841 5490 False 448.557143 1038 83.320429 2033 6183 7 chr6B.!!$F2 4150
3 TraesCS6B01G431500 chr6B 714721241 714721980 739 True 331.333333 451 97.845000 35 609 3 chr6B.!!$R1 574
4 TraesCS6B01G431500 chr6D 459835541 459842988 7447 False 5328.500000 8082 91.362000 1 7505 2 chr6D.!!$F1 7504
5 TraesCS6B01G431500 chr6D 459920522 459925660 5138 False 750.000000 1354 84.501200 2037 6562 5 chr6D.!!$F2 4525
6 TraesCS6B01G431500 chr6A 605558629 605565991 7362 False 2222.750000 6573 85.738750 1 7416 4 chr6A.!!$F1 7415
7 TraesCS6B01G431500 chr6A 605858429 605859886 1457 False 869.500000 1336 88.595000 5065 6562 2 chr6A.!!$F3 1497
8 TraesCS6B01G431500 chr6A 605849119 605853063 3944 False 508.333333 933 82.306000 2037 4855 3 chr6A.!!$F2 2818

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
542 732 0.173708 GAACGGAGGGAGTAGCACAG 59.826 60.0 0.00 0.0 0.00 3.66 F
1215 1522 0.035739 GTGGCGTGGAAAAGGTAGGA 59.964 55.0 0.00 0.0 0.00 2.94 F
1922 2240 0.038310 GGAACCTCCCCCTGTTTCTG 59.962 60.0 0.00 0.0 0.00 3.02 F
2301 3840 0.107831 TGTGGGGCTGTTGTCTGTAC 59.892 55.0 0.00 0.0 0.00 2.90 F
2404 3943 0.324368 GGGGGTGGCCCTTCTTTTAG 60.324 60.0 0.00 0.0 44.66 1.85 F
3887 6572 0.401356 TGCAGATGCCAAAGGAGTCA 59.599 50.0 1.72 0.0 41.18 3.41 F
4361 7060 0.163146 GCCGTAACTTCAGAACGTGC 59.837 55.0 0.00 0.0 34.90 5.34 F
5396 8435 0.107312 GCATGTCTGCCCTGAGTCAT 60.107 55.0 0.00 0.0 42.88 3.06 F
5921 8963 0.391793 GAGGTTTCCCTGGAGCTTCG 60.392 60.0 0.00 0.0 42.86 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1593 1909 0.106149 GAGTACTAACCCCATGCCCG 59.894 60.000 0.00 0.0 0.00 6.13 R
2234 3773 1.139654 GGTGGAGCTATGTCTGCATCA 59.860 52.381 0.00 0.0 35.85 3.07 R
3606 6291 0.037232 GCACTAAGTTCTCGGCACCT 60.037 55.000 0.00 0.0 0.00 4.00 R
3645 6330 0.675083 TCGGCGAGTTCAACAACCTA 59.325 50.000 4.99 0.0 32.22 3.08 R
4045 6741 1.066430 GGACACCTTTAGCCATCACGA 60.066 52.381 0.00 0.0 0.00 4.35 R
4885 7588 0.107654 AAGCGGGTGAGGCATAGAAC 60.108 55.000 0.00 0.0 0.00 3.01 R
6086 9128 0.323999 TACTGGTCTCAGCGCCCTTA 60.324 55.000 2.29 0.0 44.59 2.69 R
6204 9249 0.464870 TTCTTGTCGTCGGGGAACAA 59.535 50.000 0.00 0.0 0.00 2.83 R
7058 13173 1.047002 CAAAGAACACCAATGGGGCA 58.953 50.000 0.00 0.0 42.05 5.36 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
121 122 7.807977 ATCCATATACCAAAGTGACATTGTC 57.192 36.000 9.93 9.93 0.00 3.18
228 355 2.805353 GAGTGTGCGCATCGTCGT 60.805 61.111 15.91 0.00 0.00 4.34
229 356 2.355837 AGTGTGCGCATCGTCGTT 60.356 55.556 15.91 0.00 0.00 3.85
331 458 2.285083 TCGTTTTCTTCAGTGGTGTGG 58.715 47.619 0.00 0.00 0.00 4.17
333 460 2.223249 CGTTTTCTTCAGTGGTGTGGTG 60.223 50.000 0.00 0.00 0.00 4.17
542 732 0.173708 GAACGGAGGGAGTAGCACAG 59.826 60.000 0.00 0.00 0.00 3.66
700 929 3.121030 CAGCAAAGCCGTCCGGAG 61.121 66.667 3.06 0.00 37.50 4.63
786 1042 2.358193 AAAAACAAAGACGGGCGGGC 62.358 55.000 0.00 0.00 0.00 6.13
822 1079 0.832559 CCCGAATCTACCCCTCCTCC 60.833 65.000 0.00 0.00 0.00 4.30
831 1088 2.003548 CCCCTCCTCCCTGGAAAGG 61.004 68.421 8.38 8.38 45.63 3.11
897 1154 1.301677 GACCTCAGCCGCTGGAAAAG 61.302 60.000 20.23 9.89 31.51 2.27
898 1155 1.302832 CCTCAGCCGCTGGAAAAGT 60.303 57.895 20.23 0.00 31.51 2.66
899 1156 1.580845 CCTCAGCCGCTGGAAAAGTG 61.581 60.000 20.23 1.62 36.06 3.16
905 1162 2.563427 GCTGGAAAAGTGGCGAGC 59.437 61.111 0.00 0.00 0.00 5.03
906 1163 2.260869 GCTGGAAAAGTGGCGAGCA 61.261 57.895 0.00 0.00 36.13 4.26
907 1164 1.795170 GCTGGAAAAGTGGCGAGCAA 61.795 55.000 0.00 0.00 36.13 3.91
908 1165 0.883833 CTGGAAAAGTGGCGAGCAAT 59.116 50.000 0.00 0.00 0.00 3.56
909 1166 0.597568 TGGAAAAGTGGCGAGCAATG 59.402 50.000 0.00 0.00 0.00 2.82
983 1247 6.043854 AGACAAACAGCAAAAGGGTAAAAA 57.956 33.333 0.00 0.00 0.00 1.94
1092 1384 3.036959 TCCTCCCTCCCTCCCTCC 61.037 72.222 0.00 0.00 0.00 4.30
1093 1385 4.179599 CCTCCCTCCCTCCCTCCC 62.180 77.778 0.00 0.00 0.00 4.30
1094 1386 3.039526 CTCCCTCCCTCCCTCCCT 61.040 72.222 0.00 0.00 0.00 4.20
1095 1387 3.036959 TCCCTCCCTCCCTCCCTC 61.037 72.222 0.00 0.00 0.00 4.30
1185 1492 1.830847 GGTTTCGCCCACCCTGTTT 60.831 57.895 0.00 0.00 0.00 2.83
1211 1518 1.076632 TTGGTGGCGTGGAAAAGGT 60.077 52.632 0.00 0.00 0.00 3.50
1215 1522 0.035739 GTGGCGTGGAAAAGGTAGGA 59.964 55.000 0.00 0.00 0.00 2.94
1271 1578 0.183731 ATTTCGCTCCAGGGGAATCC 59.816 55.000 0.00 0.00 44.41 3.01
1298 1605 2.194201 ATGGGATTCGGTTCGTTTGT 57.806 45.000 0.00 0.00 0.00 2.83
1322 1629 3.654020 GGCGCCGATTCTGGATGC 61.654 66.667 12.58 2.59 0.00 3.91
1335 1642 1.029408 TGGATGCGGTTTCGGGATTG 61.029 55.000 0.00 0.00 36.79 2.67
1360 1667 3.822192 GCGCGGAATTGGGGTTCC 61.822 66.667 8.83 0.00 43.42 3.62
1374 1681 4.077184 TTCCGCGGATGGCTTCGT 62.077 61.111 31.56 0.00 40.44 3.85
1463 1771 4.022464 TGTGCGTTTCAGTTCGATTTTT 57.978 36.364 0.00 0.00 0.00 1.94
1478 1786 3.364964 CGATTTTTGTCCAGTGCTGTACC 60.365 47.826 0.00 0.00 0.00 3.34
1516 1825 3.089284 GTTCTGTTTAGGTGGGGGAATG 58.911 50.000 0.00 0.00 0.00 2.67
1522 1831 2.605825 TAGGTGGGGGAATGGATTCT 57.394 50.000 0.00 0.00 37.00 2.40
1539 1848 6.351711 TGGATTCTCTACTGTTTGATGGATG 58.648 40.000 0.00 0.00 0.00 3.51
1579 1888 4.636206 GGCTTTACTTGTTACTGATGGAGG 59.364 45.833 0.00 0.00 0.00 4.30
1580 1889 4.636206 GCTTTACTTGTTACTGATGGAGGG 59.364 45.833 0.00 0.00 0.00 4.30
1587 1903 0.623324 TACTGATGGAGGGTTGGGGG 60.623 60.000 0.00 0.00 0.00 5.40
1593 1909 2.461739 GGAGGGTTGGGGGATAGGC 61.462 68.421 0.00 0.00 0.00 3.93
1610 1926 1.525306 GCGGGCATGGGGTTAGTAC 60.525 63.158 0.00 0.00 0.00 2.73
1612 1928 0.106149 CGGGCATGGGGTTAGTACTC 59.894 60.000 0.00 0.00 0.00 2.59
1623 1939 4.162509 GGGGTTAGTACTCAGCATCTTCTT 59.837 45.833 0.00 0.00 0.00 2.52
1632 1948 5.568392 ACTCAGCATCTTCTTCTTCCAAAT 58.432 37.500 0.00 0.00 0.00 2.32
1724 2042 2.729028 ACCCCGGATTACATTTCCAG 57.271 50.000 0.73 0.00 32.45 3.86
1747 2065 5.104193 AGCAAGTCCAGGAGATTAATCACAT 60.104 40.000 17.56 6.23 0.00 3.21
1817 2135 0.886490 CTTGAGCAGAGGTTTGGCGT 60.886 55.000 0.00 0.00 0.00 5.68
1906 2224 4.467084 GATGGCGCCACTCGGGAA 62.467 66.667 35.50 6.20 40.01 3.97
1922 2240 0.038310 GGAACCTCCCCCTGTTTCTG 59.962 60.000 0.00 0.00 0.00 3.02
1992 2310 4.935205 TGATAAAGACCTGTTGAACGGATG 59.065 41.667 5.57 0.00 0.00 3.51
2005 2323 5.337578 TGAACGGATGTGATCATGTAAGA 57.662 39.130 0.00 0.00 34.06 2.10
2007 2325 5.812127 TGAACGGATGTGATCATGTAAGAAG 59.188 40.000 0.00 0.00 34.06 2.85
2032 2354 5.453903 CCTTGAGTTCTCTCTTTCCTGTTCA 60.454 44.000 1.53 0.00 40.98 3.18
2181 3720 3.857157 AACCGGTACAATATGAGCCAT 57.143 42.857 8.00 0.00 0.00 4.40
2190 3729 7.414651 CGGTACAATATGAGCCATGTGTTTTAA 60.415 37.037 0.00 0.00 30.19 1.52
2194 3733 4.708726 ATGAGCCATGTGTTTTAAGAGC 57.291 40.909 0.00 0.00 0.00 4.09
2202 3741 6.317391 GCCATGTGTTTTAAGAGCTCTTATCT 59.683 38.462 31.52 13.43 38.16 1.98
2204 3743 8.180267 CCATGTGTTTTAAGAGCTCTTATCTTG 58.820 37.037 31.52 23.16 38.16 3.02
2206 3745 9.944376 ATGTGTTTTAAGAGCTCTTATCTTGTA 57.056 29.630 31.52 16.31 38.16 2.41
2225 3764 9.874205 ATCTTGTATGTATTTGGAAATTTGTGG 57.126 29.630 0.00 0.00 0.00 4.17
2226 3765 8.865090 TCTTGTATGTATTTGGAAATTTGTGGT 58.135 29.630 0.00 0.00 0.00 4.16
2252 3791 5.012354 TCAATATGATGCAGACATAGCTCCA 59.988 40.000 17.20 1.53 36.35 3.86
2292 3831 4.275508 CAGTGGCTGTGGGGCTGT 62.276 66.667 0.00 0.00 41.48 4.40
2301 3840 0.107831 TGTGGGGCTGTTGTCTGTAC 59.892 55.000 0.00 0.00 0.00 2.90
2351 3890 6.923199 TTGGTAGTAGCTTGTAGTAGGTTT 57.077 37.500 0.00 0.00 0.00 3.27
2404 3943 0.324368 GGGGGTGGCCCTTCTTTTAG 60.324 60.000 0.00 0.00 44.66 1.85
2696 4242 4.033709 AGAGAAGAAGCACCTAAGCCATA 58.966 43.478 0.00 0.00 34.23 2.74
2771 4317 1.739049 GGATGGAGCGACCTGAGAG 59.261 63.158 4.77 0.00 39.86 3.20
2835 5069 8.876275 ATGATAAATTACAATGCACCAATGAC 57.124 30.769 0.00 0.00 0.00 3.06
2836 5070 7.834803 TGATAAATTACAATGCACCAATGACA 58.165 30.769 0.00 0.00 0.00 3.58
2973 5210 2.903135 AGGGCCAGAAGATACTATCAGC 59.097 50.000 6.18 0.00 0.00 4.26
3057 5294 2.489938 TTAATTTGGACGAGGCAGCT 57.510 45.000 0.00 0.00 0.00 4.24
3092 5329 3.426615 TGAATGATAACGGCAAAGGGTT 58.573 40.909 0.00 0.00 0.00 4.11
3100 5337 1.028905 CGGCAAAGGGTTCTCAACAA 58.971 50.000 0.00 0.00 0.00 2.83
3276 5513 8.193953 TCTTGACTCATATTCATGGTGCTATA 57.806 34.615 0.00 0.00 32.61 1.31
3364 5607 6.259608 AGGCGAATATTGAAGTTCAGATTGAG 59.740 38.462 15.92 11.84 0.00 3.02
3378 5621 9.136323 AGTTCAGATTGAGTGGAAAGTTAATTT 57.864 29.630 0.00 0.00 0.00 1.82
3385 5628 7.817418 TGAGTGGAAAGTTAATTTAGTTGCT 57.183 32.000 0.00 0.00 0.00 3.91
3465 5714 7.734924 TGAAGTATGATGTTATCAAGCCATC 57.265 36.000 0.00 0.00 43.50 3.51
3559 5972 4.039124 ACTTCACAATTTTTACCCAGCTGG 59.961 41.667 26.87 26.87 41.37 4.85
3590 6272 7.659652 AGAATAATGCGGCTATTAGTTTCTC 57.340 36.000 0.00 0.00 0.00 2.87
3638 6323 1.480137 CTTAGTGCTAGCTCAGTGGCT 59.520 52.381 17.23 10.40 45.29 4.75
3645 6330 1.277557 CTAGCTCAGTGGCTGGAGTTT 59.722 52.381 14.24 0.00 42.23 2.66
3658 6343 3.883489 GCTGGAGTTTAGGTTGTTGAACT 59.117 43.478 0.00 0.00 35.22 3.01
3663 6348 1.504359 TTAGGTTGTTGAACTCGCCG 58.496 50.000 0.00 0.00 32.15 6.46
3692 6377 2.997897 AGTCCTCACGGGGTCAGC 60.998 66.667 0.00 0.00 35.33 4.26
3758 6443 2.029844 GAACTCGTGCCACTGAGCC 61.030 63.158 13.92 5.67 35.61 4.70
3761 6446 3.947132 CTCGTGCCACTGAGCCAGG 62.947 68.421 7.06 0.00 35.51 4.45
3856 6541 4.337763 GCAAGAGATTTGCATCGTAACTG 58.662 43.478 6.98 0.00 44.34 3.16
3857 6542 4.337763 CAAGAGATTTGCATCGTAACTGC 58.662 43.478 0.00 0.00 40.10 4.40
3882 6567 1.471119 AGATGTGCAGATGCCAAAGG 58.529 50.000 0.00 0.00 41.18 3.11
3887 6572 0.401356 TGCAGATGCCAAAGGAGTCA 59.599 50.000 1.72 0.00 41.18 3.41
3888 6573 0.807496 GCAGATGCCAAAGGAGTCAC 59.193 55.000 0.00 0.00 34.31 3.67
3889 6574 1.883638 GCAGATGCCAAAGGAGTCACA 60.884 52.381 0.00 0.00 34.31 3.58
3926 6622 7.992754 AAGAGAATTTCATATATGCTCCACC 57.007 36.000 7.92 0.00 0.00 4.61
3942 6638 4.982916 GCTCCACCGTATACAAGTTGATAG 59.017 45.833 10.54 0.00 0.00 2.08
3984 6680 8.499162 GCTGTATATGGTAAAATCATCAGTGAC 58.501 37.037 0.00 0.00 37.14 3.67
3991 6687 7.397221 TGGTAAAATCATCAGTGACAGAGAAT 58.603 34.615 0.00 0.00 37.14 2.40
4072 6769 5.417580 TGATGGCTAAAGGTGTCCAAATTAC 59.582 40.000 0.00 0.00 31.66 1.89
4090 6787 7.912250 CCAAATTACAATGTAGCATTGACTCTC 59.088 37.037 23.42 0.00 33.51 3.20
4193 6892 5.959652 AAAGGTAACAAAATTGTGTTCGC 57.040 34.783 17.33 11.42 40.85 4.70
4216 6915 3.690475 AGTGCTGTGATCTGACATCAA 57.310 42.857 0.00 0.00 0.00 2.57
4291 6990 8.140628 TCTTTTGTAGTTCATGCATGCTAAAAA 58.859 29.630 22.25 19.88 0.00 1.94
4345 7044 4.701956 ATTGAAGATGTAAACCAAGCCG 57.298 40.909 0.00 0.00 0.00 5.52
4359 7058 2.132762 CAAGCCGTAACTTCAGAACGT 58.867 47.619 0.00 0.00 34.90 3.99
4361 7060 0.163146 GCCGTAACTTCAGAACGTGC 59.837 55.000 0.00 0.00 34.90 5.34
4389 7088 6.420913 ACACCAGTGTCAGAATTTACTAGT 57.579 37.500 0.00 0.00 40.24 2.57
4432 7131 0.895530 TGTAAGAGCGGAGGACTTGG 59.104 55.000 0.00 0.00 0.00 3.61
4646 7348 2.693069 GGTGATAATGATGAGAGGGCG 58.307 52.381 0.00 0.00 0.00 6.13
4688 7390 5.972107 ATTCAAAGGTTCCTGATCAAGTG 57.028 39.130 0.00 0.00 0.00 3.16
4690 7392 2.206576 AAGGTTCCTGATCAAGTGGC 57.793 50.000 0.00 0.00 0.00 5.01
4885 7588 2.119457 GTTTTGGCTTGCGTCAAGAAG 58.881 47.619 19.38 1.09 43.42 2.85
4969 7675 3.362706 TCGTACATAGTTCTGCCCTTCT 58.637 45.455 0.00 0.00 0.00 2.85
4975 7681 5.006386 ACATAGTTCTGCCCTTCTTTTCAG 58.994 41.667 0.00 0.00 0.00 3.02
4978 7684 3.117888 AGTTCTGCCCTTCTTTTCAGACA 60.118 43.478 0.00 0.00 35.55 3.41
4987 7693 6.036470 CCCTTCTTTTCAGACAAGTTTGTTC 58.964 40.000 0.00 0.00 42.43 3.18
5061 8098 3.334583 TCTGAATTTACAAGCTCCGCT 57.665 42.857 0.00 0.00 42.56 5.52
5269 8308 1.339438 GGCTCTGTCATGGAAAGCTGA 60.339 52.381 0.00 0.00 33.50 4.26
5396 8435 0.107312 GCATGTCTGCCCTGAGTCAT 60.107 55.000 0.00 0.00 42.88 3.06
5568 8607 2.960384 TGGAATGCAATGCTTAGGGATG 59.040 45.455 6.82 0.00 0.00 3.51
5679 8718 7.333323 TCTTCAATCAATCAGAACATCTGCTA 58.667 34.615 2.48 0.00 43.95 3.49
5755 8794 0.694771 ACTGGATGCTCAAAGCCTCA 59.305 50.000 6.57 0.00 41.51 3.86
5771 8810 1.829222 CCTCAATTTCTTGCAGCCCAT 59.171 47.619 0.00 0.00 32.11 4.00
5796 8835 4.612412 TTTCCTTGGGCGACGCGT 62.612 61.111 13.85 13.85 0.00 6.01
5906 8948 3.307059 CGAGAAATTTGTCTCTGGGAGGT 60.307 47.826 12.94 0.00 41.69 3.85
5921 8963 0.391793 GAGGTTTCCCTGGAGCTTCG 60.392 60.000 0.00 0.00 42.86 3.79
6086 9128 0.615850 GCCTTCCTCAGTGGCTTACT 59.384 55.000 0.00 0.00 43.05 2.24
6095 9137 1.221021 GTGGCTTACTAAGGGCGCT 59.779 57.895 7.64 0.00 35.97 5.92
6143 9185 3.964221 GATGTGGTCGAGCGCGTCA 62.964 63.158 33.87 19.90 38.98 4.35
6305 9350 3.254411 GCAGTCTAGGCAAGAAGCTTTTT 59.746 43.478 0.00 0.00 44.79 1.94
6718 12070 2.838202 TCTAAGGCGATCTGGTCCTTTT 59.162 45.455 9.61 0.00 40.42 2.27
6719 12071 2.586648 AAGGCGATCTGGTCCTTTTT 57.413 45.000 0.00 0.00 36.89 1.94
6768 12120 4.813697 GGCAATGATGGAGAAAGTAGAGTC 59.186 45.833 0.00 0.00 0.00 3.36
6770 12122 6.183360 GGCAATGATGGAGAAAGTAGAGTCTA 60.183 42.308 0.00 0.00 0.00 2.59
6810 12897 7.776500 TGATATGATCATGGATGTGTGTCTTTT 59.224 33.333 18.72 0.00 33.59 2.27
6936 13051 4.280436 ACATTCGGGTAAACATGAGACA 57.720 40.909 0.00 0.00 0.00 3.41
7030 13145 3.970410 CCTGCTTGCCTCCACCCA 61.970 66.667 0.00 0.00 0.00 4.51
7035 13150 1.531365 CTTGCCTCCACCCAGCAAA 60.531 57.895 0.00 0.00 41.95 3.68
7036 13151 0.901580 CTTGCCTCCACCCAGCAAAT 60.902 55.000 0.00 0.00 41.95 2.32
7048 13163 2.228822 CCCAGCAAATTCGCTTAACACT 59.771 45.455 0.00 0.00 41.38 3.55
7058 13173 7.907214 AATTCGCTTAACACTTGAGTAGATT 57.093 32.000 0.00 0.00 0.00 2.40
7101 13216 7.022496 TGATGATCTACCCTATTGAATACCCA 58.978 38.462 0.00 0.00 0.00 4.51
7102 13217 7.684186 TGATGATCTACCCTATTGAATACCCAT 59.316 37.037 0.00 0.00 0.00 4.00
7258 13389 4.654262 AGTTGGTCCGAGATATTGTACCAT 59.346 41.667 0.00 0.00 36.90 3.55
7338 13478 4.876107 CCCTTATCTATTCTTGTTGTGCGT 59.124 41.667 0.00 0.00 0.00 5.24
7353 13493 2.617274 GCGTGGAAGGCCTGTCAAC 61.617 63.158 5.69 9.17 43.00 3.18
7389 13529 2.236395 TCGAAAGAGGAAGGGGCTTTAG 59.764 50.000 0.00 0.00 32.45 1.85
7434 13575 3.735240 TGCTTGAACGTTCATTTTGCATC 59.265 39.130 30.10 11.43 37.00 3.91
7437 13578 5.666913 GCTTGAACGTTCATTTTGCATCATG 60.667 40.000 30.10 9.50 37.00 3.07
7443 13584 6.648502 ACGTTCATTTTGCATCATGTTTTTC 58.351 32.000 5.72 0.00 0.00 2.29
7444 13585 6.072733 CGTTCATTTTGCATCATGTTTTTCC 58.927 36.000 5.72 0.00 0.00 3.13
7448 13589 7.440198 TCATTTTGCATCATGTTTTTCCACTA 58.560 30.769 5.72 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
121 122 2.033299 ACACAGACAGGCGAAAATGTTG 59.967 45.455 0.00 0.00 0.00 3.33
228 355 5.587289 AGCGACATTTGCTTTCAAACTTAA 58.413 33.333 0.00 0.00 44.11 1.85
229 356 5.181690 AGCGACATTTGCTTTCAAACTTA 57.818 34.783 0.00 0.00 44.11 2.24
507 681 6.259167 CCCTCCGTTCGAAAATAAATGACATA 59.741 38.462 0.00 0.00 0.00 2.29
542 732 6.066054 ACTTGCAGCTTTCTTCTTTAACTC 57.934 37.500 0.00 0.00 0.00 3.01
700 929 2.332654 AAATTCCACCCTCGCGTGC 61.333 57.895 5.77 0.00 32.10 5.34
710 939 2.171003 CCAGAGGGTTCCAAATTCCAC 58.829 52.381 0.00 0.00 0.00 4.02
711 940 1.549950 GCCAGAGGGTTCCAAATTCCA 60.550 52.381 0.00 0.00 36.17 3.53
712 941 1.186200 GCCAGAGGGTTCCAAATTCC 58.814 55.000 0.00 0.00 36.17 3.01
752 1008 3.560826 TTTTTCGCTTTCGGCCTTG 57.439 47.368 0.00 0.00 37.74 3.61
897 1154 2.857592 ATTCATTCATTGCTCGCCAC 57.142 45.000 0.00 0.00 0.00 5.01
898 1155 2.287644 CGTATTCATTCATTGCTCGCCA 59.712 45.455 0.00 0.00 0.00 5.69
899 1156 2.349817 CCGTATTCATTCATTGCTCGCC 60.350 50.000 0.00 0.00 0.00 5.54
901 1158 2.660094 CGCCGTATTCATTCATTGCTCG 60.660 50.000 0.00 0.00 0.00 5.03
902 1159 2.349817 CCGCCGTATTCATTCATTGCTC 60.350 50.000 0.00 0.00 0.00 4.26
903 1160 1.603802 CCGCCGTATTCATTCATTGCT 59.396 47.619 0.00 0.00 0.00 3.91
904 1161 1.334960 CCCGCCGTATTCATTCATTGC 60.335 52.381 0.00 0.00 0.00 3.56
905 1162 1.334960 GCCCGCCGTATTCATTCATTG 60.335 52.381 0.00 0.00 0.00 2.82
906 1163 0.951558 GCCCGCCGTATTCATTCATT 59.048 50.000 0.00 0.00 0.00 2.57
907 1164 1.227999 CGCCCGCCGTATTCATTCAT 61.228 55.000 0.00 0.00 0.00 2.57
908 1165 1.885388 CGCCCGCCGTATTCATTCA 60.885 57.895 0.00 0.00 0.00 2.57
909 1166 2.935955 CGCCCGCCGTATTCATTC 59.064 61.111 0.00 0.00 0.00 2.67
938 1195 2.416701 CCAATTCAATTCGGTTTCGGGG 60.417 50.000 0.00 0.00 36.95 5.73
942 1199 5.371115 TGTCTCCAATTCAATTCGGTTTC 57.629 39.130 0.32 0.00 0.00 2.78
943 1200 5.782893 TTGTCTCCAATTCAATTCGGTTT 57.217 34.783 0.32 0.00 0.00 3.27
1012 1279 1.077644 TCGGAGAGGGAGTTCTCGG 60.078 63.158 4.73 4.73 43.64 4.63
1181 1488 2.069273 CGCCACCAACAAACAAAAACA 58.931 42.857 0.00 0.00 0.00 2.83
1182 1489 2.070028 ACGCCACCAACAAACAAAAAC 58.930 42.857 0.00 0.00 0.00 2.43
1185 1492 0.108615 CCACGCCACCAACAAACAAA 60.109 50.000 0.00 0.00 0.00 2.83
1322 1629 3.051392 GCCAGCAATCCCGAAACCG 62.051 63.158 0.00 0.00 0.00 4.44
1363 1670 3.384927 CGAACGACGAAGCCATCC 58.615 61.111 0.00 0.00 45.77 3.51
1374 1681 2.351447 CCTACAGAAGCAACTCGAACGA 60.351 50.000 0.00 0.00 0.00 3.85
1386 1693 2.512515 GCAGGGCGCCTACAGAAG 60.513 66.667 28.56 9.46 29.64 2.85
1432 1739 2.200170 GAAACGCACATGGGACTGCC 62.200 60.000 0.00 0.00 0.00 4.85
1478 1786 0.606401 AACAGAGAACCCACCGCATG 60.606 55.000 0.00 0.00 0.00 4.06
1516 1825 5.762218 CCATCCATCAAACAGTAGAGAATCC 59.238 44.000 0.00 0.00 33.66 3.01
1522 1831 2.509548 CCCCCATCCATCAAACAGTAGA 59.490 50.000 0.00 0.00 0.00 2.59
1556 1865 4.636206 CCTCCATCAGTAACAAGTAAAGCC 59.364 45.833 0.00 0.00 0.00 4.35
1579 1888 3.886001 CCCGCCTATCCCCCAACC 61.886 72.222 0.00 0.00 0.00 3.77
1580 1889 4.581093 GCCCGCCTATCCCCCAAC 62.581 72.222 0.00 0.00 0.00 3.77
1587 1903 1.774894 TAACCCCATGCCCGCCTATC 61.775 60.000 0.00 0.00 0.00 2.08
1593 1909 0.106149 GAGTACTAACCCCATGCCCG 59.894 60.000 0.00 0.00 0.00 6.13
1610 1926 5.646793 TCATTTGGAAGAAGAAGATGCTGAG 59.353 40.000 0.00 0.00 0.00 3.35
1612 1928 5.892160 TCATTTGGAAGAAGAAGATGCTG 57.108 39.130 0.00 0.00 0.00 4.41
1623 1939 8.044574 TCCATACAGGAATATCATTTGGAAGA 57.955 34.615 0.00 0.00 45.65 2.87
1724 2042 4.517285 TGTGATTAATCTCCTGGACTTGC 58.483 43.478 16.24 0.00 0.00 4.01
1800 2118 1.597854 CACGCCAAACCTCTGCTCA 60.598 57.895 0.00 0.00 0.00 4.26
1817 2135 2.184322 GGCGCTCATCTCGAACCA 59.816 61.111 7.64 0.00 0.00 3.67
1906 2224 2.539081 GCCAGAAACAGGGGGAGGT 61.539 63.158 0.00 0.00 0.00 3.85
1912 2230 2.672996 CCACCGCCAGAAACAGGG 60.673 66.667 0.00 0.00 0.00 4.45
1992 2310 5.181748 ACTCAAGGCTTCTTACATGATCAC 58.818 41.667 0.00 0.00 0.00 3.06
2005 2323 3.650461 AGGAAAGAGAGAACTCAAGGCTT 59.350 43.478 0.00 0.00 44.79 4.35
2007 2325 3.244387 ACAGGAAAGAGAGAACTCAAGGC 60.244 47.826 4.64 0.00 44.79 4.35
2032 2354 9.770097 AATAGAGATAACATCAAACATCACGAT 57.230 29.630 0.00 0.00 0.00 3.73
2160 3699 4.101898 ACATGGCTCATATTGTACCGGTTA 59.898 41.667 15.04 0.00 0.00 2.85
2181 3720 9.944376 ATACAAGATAAGAGCTCTTAAAACACA 57.056 29.630 33.77 20.39 41.27 3.72
2190 3729 8.928448 TCCAAATACATACAAGATAAGAGCTCT 58.072 33.333 11.45 11.45 0.00 4.09
2219 3758 6.827762 TGTCTGCATCATATTGATACCACAAA 59.172 34.615 0.00 0.00 34.28 2.83
2220 3759 6.355747 TGTCTGCATCATATTGATACCACAA 58.644 36.000 0.00 0.00 34.28 3.33
2221 3760 5.927819 TGTCTGCATCATATTGATACCACA 58.072 37.500 0.00 0.00 34.28 4.17
2222 3761 7.201591 GCTATGTCTGCATCATATTGATACCAC 60.202 40.741 10.68 0.00 34.28 4.16
2223 3762 6.820152 GCTATGTCTGCATCATATTGATACCA 59.180 38.462 10.68 0.00 34.28 3.25
2224 3763 7.046652 AGCTATGTCTGCATCATATTGATACC 58.953 38.462 10.68 0.00 34.28 2.73
2225 3764 7.224362 GGAGCTATGTCTGCATCATATTGATAC 59.776 40.741 10.68 0.14 34.28 2.24
2226 3765 7.093201 TGGAGCTATGTCTGCATCATATTGATA 60.093 37.037 10.68 0.00 34.28 2.15
2227 3766 6.114089 GGAGCTATGTCTGCATCATATTGAT 58.886 40.000 10.68 2.18 37.65 2.57
2228 3767 5.012354 TGGAGCTATGTCTGCATCATATTGA 59.988 40.000 10.68 0.00 36.58 2.57
2229 3768 5.121925 GTGGAGCTATGTCTGCATCATATTG 59.878 44.000 10.68 4.16 36.80 1.90
2230 3769 5.243981 GTGGAGCTATGTCTGCATCATATT 58.756 41.667 10.68 4.87 36.80 1.28
2231 3770 4.323333 GGTGGAGCTATGTCTGCATCATAT 60.323 45.833 10.68 0.00 35.85 1.78
2232 3771 3.007290 GGTGGAGCTATGTCTGCATCATA 59.993 47.826 10.08 10.08 35.85 2.15
2233 3772 2.224475 GGTGGAGCTATGTCTGCATCAT 60.224 50.000 9.03 9.03 35.85 2.45
2234 3773 1.139654 GGTGGAGCTATGTCTGCATCA 59.860 52.381 0.00 0.00 35.85 3.07
2235 3774 1.415659 AGGTGGAGCTATGTCTGCATC 59.584 52.381 0.00 0.00 36.80 3.91
2236 3775 1.504912 AGGTGGAGCTATGTCTGCAT 58.495 50.000 0.00 0.00 36.80 3.96
2252 3791 1.578897 AACCAGCCAAACCAAAAGGT 58.421 45.000 0.00 0.00 0.00 3.50
2292 3831 8.464404 ACTACTAAGCATTTATCGTACAGACAA 58.536 33.333 0.00 0.00 0.00 3.18
2301 3840 6.412072 GCAAAGCAACTACTAAGCATTTATCG 59.588 38.462 0.00 0.00 0.00 2.92
2566 4108 6.707440 TGCAAAAGAAGGTAGACAATCAAA 57.293 33.333 0.00 0.00 0.00 2.69
2771 4317 2.484889 GGAGAGTGGTGACAGAACAAC 58.515 52.381 0.00 0.00 44.46 3.32
2835 5069 2.092212 AGCAGGGATGGGATTAACTGTG 60.092 50.000 0.00 0.00 0.00 3.66
2836 5070 2.173569 GAGCAGGGATGGGATTAACTGT 59.826 50.000 0.00 0.00 0.00 3.55
2973 5210 9.319143 CTAAATCTGTTCTTACATTGACTAGGG 57.681 37.037 0.00 0.00 32.86 3.53
3057 5294 9.448438 CCGTTATCATTCATATAATTTCCCTCA 57.552 33.333 0.00 0.00 0.00 3.86
3255 5492 8.839310 AAACTATAGCACCATGAATATGAGTC 57.161 34.615 0.00 0.00 36.36 3.36
3276 5513 8.428852 AGCAAATAACCATGTAAAAGGAAAACT 58.571 29.630 0.00 0.00 0.00 2.66
3364 5607 9.093970 ACAAAAGCAACTAAATTAACTTTCCAC 57.906 29.630 0.00 0.00 29.75 4.02
3378 5621 4.528920 ACAGTTGGGTACAAAAGCAACTA 58.471 39.130 0.00 0.00 38.54 2.24
3385 5628 6.657541 GGAGATCATTACAGTTGGGTACAAAA 59.342 38.462 0.00 0.00 38.54 2.44
3480 5730 9.080097 AGCATAAACGAGGTAGAGAATATTACT 57.920 33.333 0.00 0.00 0.00 2.24
3481 5731 9.130312 CAGCATAAACGAGGTAGAGAATATTAC 57.870 37.037 0.00 0.00 0.00 1.89
3482 5732 9.074576 TCAGCATAAACGAGGTAGAGAATATTA 57.925 33.333 0.00 0.00 0.00 0.98
3483 5733 7.952671 TCAGCATAAACGAGGTAGAGAATATT 58.047 34.615 0.00 0.00 0.00 1.28
3559 5972 2.879826 AGCCGCATTATTCTTGTTTGC 58.120 42.857 0.00 0.00 0.00 3.68
3605 6290 1.608283 GCACTAAGTTCTCGGCACCTT 60.608 52.381 0.00 0.00 0.00 3.50
3606 6291 0.037232 GCACTAAGTTCTCGGCACCT 60.037 55.000 0.00 0.00 0.00 4.00
3612 6297 3.127895 ACTGAGCTAGCACTAAGTTCTCG 59.872 47.826 18.83 2.43 25.30 4.04
3620 6305 0.820226 CAGCCACTGAGCTAGCACTA 59.180 55.000 18.83 1.21 42.61 2.74
3638 6323 4.124238 CGAGTTCAACAACCTAAACTCCA 58.876 43.478 8.14 0.00 42.88 3.86
3645 6330 0.675083 TCGGCGAGTTCAACAACCTA 59.325 50.000 4.99 0.00 32.22 3.08
3663 6348 1.357334 GAGGACTCGGACGCTGATC 59.643 63.158 0.00 0.00 0.00 2.92
3699 6384 2.510691 CGTTCGAATCCCCACGGG 60.511 66.667 0.00 0.00 46.11 5.28
3728 6413 2.146342 CACGAGTTCAGGCTGTTGAAT 58.854 47.619 15.27 1.11 39.13 2.57
3758 6443 5.242838 AGAAACTAGTCAGAACTGAGTCCTG 59.757 44.000 14.30 0.00 41.92 3.86
3761 6446 9.699703 AATAAAGAAACTAGTCAGAACTGAGTC 57.300 33.333 14.30 0.63 41.92 3.36
3856 6541 2.606725 GGCATCTGCACATCTATATCGC 59.393 50.000 4.33 0.00 44.36 4.58
3857 6542 3.853475 TGGCATCTGCACATCTATATCG 58.147 45.455 4.33 0.00 44.36 2.92
3860 6545 4.102996 TCCTTTGGCATCTGCACATCTATA 59.897 41.667 4.33 0.00 44.36 1.31
3882 6567 5.522456 TCTTTTGTTGATGCATTGTGACTC 58.478 37.500 0.00 0.00 0.00 3.36
3887 6572 7.711772 TGAAATTCTCTTTTGTTGATGCATTGT 59.288 29.630 0.00 0.00 0.00 2.71
3888 6573 8.078959 TGAAATTCTCTTTTGTTGATGCATTG 57.921 30.769 0.00 0.00 0.00 2.82
3889 6574 8.842358 ATGAAATTCTCTTTTGTTGATGCATT 57.158 26.923 0.00 0.00 0.00 3.56
3926 6622 4.945246 AGGGCACTATCAACTTGTATACG 58.055 43.478 0.00 0.00 0.00 3.06
3942 6638 3.113260 ACAGCGAGATAAATAGGGCAC 57.887 47.619 0.00 0.00 0.00 5.01
4012 6708 3.508845 ACTGGCACTGGTGAAGTATTT 57.491 42.857 4.79 0.00 36.83 1.40
4045 6741 1.066430 GGACACCTTTAGCCATCACGA 60.066 52.381 0.00 0.00 0.00 4.35
4072 6769 5.173664 TGTGAGAGAGTCAATGCTACATTG 58.826 41.667 12.95 12.95 36.74 2.82
4193 6892 4.752146 TGATGTCAGATCACAGCACTTAG 58.248 43.478 0.36 0.00 37.76 2.18
4216 6915 6.878317 TGTAAGTCTAGCAATAGCATCACTT 58.122 36.000 0.00 0.00 45.49 3.16
4224 6923 7.168302 CCTTCGAACATGTAAGTCTAGCAATAG 59.832 40.741 0.00 0.00 0.00 1.73
4291 6990 2.762535 ACCGTATGCTGCACTTTAGT 57.237 45.000 3.57 0.00 0.00 2.24
4345 7044 2.480845 ACCAGCACGTTCTGAAGTTAC 58.519 47.619 17.13 0.00 36.19 2.50
4374 7073 6.423905 TCACTTGCACACTAGTAAATTCTGAC 59.576 38.462 0.00 0.00 30.31 3.51
4389 7088 1.516161 GCTCACTGATCACTTGCACA 58.484 50.000 0.00 0.00 0.00 4.57
4432 7131 2.165319 ACACGACCTAGAGTTTTGCC 57.835 50.000 0.00 0.00 0.00 4.52
4646 7348 2.579410 TTTCCAGCAGTTTACCCCTC 57.421 50.000 0.00 0.00 0.00 4.30
4688 7390 1.344438 CTTTTGTTTTCCTCCTGGGCC 59.656 52.381 0.00 0.00 34.39 5.80
4690 7392 2.036346 CTGCTTTTGTTTTCCTCCTGGG 59.964 50.000 0.00 0.00 0.00 4.45
4730 7432 9.513906 TGACATAATTCAACAGAATTCAGGTTA 57.486 29.630 8.44 0.00 41.10 2.85
4885 7588 0.107654 AAGCGGGTGAGGCATAGAAC 60.108 55.000 0.00 0.00 0.00 3.01
4969 7675 8.977505 CAAGAAAAGAACAAACTTGTCTGAAAA 58.022 29.630 0.00 0.00 41.78 2.29
5269 8308 3.748989 GCTCTTTGGTTCCTTGGAACTCT 60.749 47.826 25.80 0.00 35.54 3.24
5396 8435 7.118723 ACTTGCCTCCATGAAATAACTTATCA 58.881 34.615 0.00 0.00 0.00 2.15
5540 8579 6.407299 CCCTAAGCATTGCATTCCAGTTATTT 60.407 38.462 11.91 0.00 0.00 1.40
5568 8607 1.352156 CTTGAGAACCGTAGCCGTGC 61.352 60.000 0.00 0.00 0.00 5.34
5755 8794 1.205417 CCGAATGGGCTGCAAGAAATT 59.795 47.619 0.50 0.00 34.07 1.82
5906 8948 0.836400 AGGACGAAGCTCCAGGGAAA 60.836 55.000 0.00 0.00 31.68 3.13
5921 8963 0.610687 CAGTTCTCCCCTGTGAGGAC 59.389 60.000 0.00 0.00 40.60 3.85
6086 9128 0.323999 TACTGGTCTCAGCGCCCTTA 60.324 55.000 2.29 0.00 44.59 2.69
6102 9144 1.882352 CGGGTTGAGCCAGCTTTTACT 60.882 52.381 0.00 0.00 39.65 2.24
6204 9249 0.464870 TTCTTGTCGTCGGGGAACAA 59.535 50.000 0.00 0.00 0.00 2.83
6305 9350 3.986006 GTGTCACCGCTGGTCCGA 61.986 66.667 0.00 0.00 31.02 4.55
6719 12071 8.754991 TCAAAGGACCAGATTGTTAGTAAAAA 57.245 30.769 0.00 0.00 0.00 1.94
6722 12074 6.472887 CCTCAAAGGACCAGATTGTTAGTAA 58.527 40.000 0.00 0.00 37.67 2.24
6723 12075 5.570844 GCCTCAAAGGACCAGATTGTTAGTA 60.571 44.000 0.00 0.00 37.67 1.82
6725 12077 3.691609 GCCTCAAAGGACCAGATTGTTAG 59.308 47.826 0.00 0.00 37.67 2.34
6726 12078 3.073798 TGCCTCAAAGGACCAGATTGTTA 59.926 43.478 0.00 0.00 37.67 2.41
6727 12079 2.158475 TGCCTCAAAGGACCAGATTGTT 60.158 45.455 0.00 0.00 37.67 2.83
6728 12080 1.425066 TGCCTCAAAGGACCAGATTGT 59.575 47.619 0.00 0.00 37.67 2.71
6729 12081 2.205022 TGCCTCAAAGGACCAGATTG 57.795 50.000 0.00 0.00 37.67 2.67
6730 12082 2.978156 TTGCCTCAAAGGACCAGATT 57.022 45.000 0.00 0.00 37.67 2.40
6731 12083 2.309755 TCATTGCCTCAAAGGACCAGAT 59.690 45.455 0.00 0.00 37.67 2.90
6732 12084 1.704628 TCATTGCCTCAAAGGACCAGA 59.295 47.619 0.00 0.00 37.67 3.86
6733 12085 2.205022 TCATTGCCTCAAAGGACCAG 57.795 50.000 0.00 0.00 37.67 4.00
6734 12086 2.449464 CATCATTGCCTCAAAGGACCA 58.551 47.619 0.00 0.00 37.67 4.02
6735 12087 1.753073 CCATCATTGCCTCAAAGGACC 59.247 52.381 0.00 0.00 37.67 4.46
6736 12088 2.686915 CTCCATCATTGCCTCAAAGGAC 59.313 50.000 0.00 0.00 37.67 3.85
6737 12089 2.577563 TCTCCATCATTGCCTCAAAGGA 59.422 45.455 0.00 0.00 37.67 3.36
6738 12090 3.008835 TCTCCATCATTGCCTCAAAGG 57.991 47.619 0.00 0.00 38.80 3.11
6739 12091 4.461781 ACTTTCTCCATCATTGCCTCAAAG 59.538 41.667 0.00 0.00 0.00 2.77
6768 12120 9.460019 TGATCATATCAATCCACTCTCTAGTAG 57.540 37.037 0.00 0.00 36.11 2.57
6770 12122 8.751242 CATGATCATATCAATCCACTCTCTAGT 58.249 37.037 8.15 0.00 43.50 2.57
6936 13051 2.036217 TCGGTGTTGGTGTAACGAGAAT 59.964 45.455 0.00 0.00 42.34 2.40
7035 13150 6.183360 GCAATCTACTCAAGTGTTAAGCGAAT 60.183 38.462 0.00 0.00 0.00 3.34
7036 13151 5.120208 GCAATCTACTCAAGTGTTAAGCGAA 59.880 40.000 0.00 0.00 0.00 4.70
7048 13163 2.311542 ACCAATGGGGCAATCTACTCAA 59.688 45.455 3.55 0.00 42.05 3.02
7058 13173 1.047002 CAAAGAACACCAATGGGGCA 58.953 50.000 0.00 0.00 42.05 5.36
7115 13230 2.211806 CGGTCACTTGGTCCGTTAAAA 58.788 47.619 0.00 0.00 39.51 1.52
7221 13352 2.297033 GACCAACTTGGCATCAATGTGT 59.703 45.455 7.81 0.00 42.67 3.72
7314 13454 4.260784 CGCACAACAAGAATAGATAAGGGC 60.261 45.833 0.00 0.00 0.00 5.19
7338 13478 1.133513 ACATTGTTGACAGGCCTTCCA 60.134 47.619 0.00 0.00 33.74 3.53
7353 13493 6.371548 TCCTCTTTCGACAAATAGGAACATTG 59.628 38.462 2.38 0.00 40.32 2.82
7389 13529 1.228245 TGCAAACTCTCACCCCAGC 60.228 57.895 0.00 0.00 0.00 4.85
7409 13549 3.181550 GCAAAATGAACGTTCAAGCATCG 60.182 43.478 32.69 19.62 41.13 3.84
7419 13559 6.292811 GGAAAAACATGATGCAAAATGAACGT 60.293 34.615 16.47 0.00 0.00 3.99
7420 13560 6.072733 GGAAAAACATGATGCAAAATGAACG 58.927 36.000 16.47 0.00 0.00 3.95
7421 13561 6.852345 GTGGAAAAACATGATGCAAAATGAAC 59.148 34.615 16.47 5.21 0.00 3.18
7422 13562 6.766944 AGTGGAAAAACATGATGCAAAATGAA 59.233 30.769 16.47 0.00 0.00 2.57
7466 13607 9.669353 ATTGCGTCATAAAGTGAAATATTGATC 57.331 29.630 0.00 0.00 38.90 2.92


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

AutoCloner maintained by Alex Coulton.