Multiple sequence alignment - TraesCS4B01G068600

Loading Multiple Alignment...

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 TraesCS4B01G068600 chr4B 100.000 5025 0 0 1 5025 61309311 61314335 0.000000e+00 9280.0
1 TraesCS4B01G068600 chr4B 93.411 2474 95 26 2357 4797 140423712 140426150 0.000000e+00 3603.0
2 TraesCS4B01G068600 chr4B 93.197 1514 57 18 3289 4797 62041368 62042840 0.000000e+00 2183.0
3 TraesCS4B01G068600 chr4B 94.688 1412 55 11 3399 4797 140210985 140212389 0.000000e+00 2174.0
4 TraesCS4B01G068600 chr4B 93.823 939 36 7 2357 3275 140201812 140202748 0.000000e+00 1393.0
5 TraesCS4B01G068600 chr4B 93.201 809 32 10 3292 4100 61534293 61533508 0.000000e+00 1168.0
6 TraesCS4B01G068600 chr4B 90.920 837 46 17 3961 4797 61546607 61545801 0.000000e+00 1098.0
7 TraesCS4B01G068600 chr4B 90.920 837 46 17 3961 4797 62858626 62859432 0.000000e+00 1098.0
8 TraesCS4B01G068600 chr4B 95.731 609 22 3 4190 4797 140431935 140432540 0.000000e+00 977.0
9 TraesCS4B01G068600 chr4B 95.559 608 18 3 4190 4797 140218194 140218792 0.000000e+00 965.0
10 TraesCS4B01G068600 chr4B 92.580 593 32 6 4212 4797 62417196 62417783 0.000000e+00 841.0
11 TraesCS4B01G068600 chr4B 93.797 403 24 1 3552 3954 62109558 62109959 5.560000e-169 604.0
12 TraesCS4B01G068600 chr4B 94.545 385 18 3 3292 3676 61887846 61887465 4.330000e-165 592.0
13 TraesCS4B01G068600 chr4B 95.726 351 11 4 3539 3888 61490473 61490820 3.400000e-156 562.0
14 TraesCS4B01G068600 chr4B 89.390 377 16 7 3289 3665 62436964 62437316 2.130000e-123 453.0
15 TraesCS4B01G068600 chr4B 88.064 377 17 8 3289 3665 62435305 62435653 6.010000e-114 422.0
16 TraesCS4B01G068600 chr4B 94.776 268 12 1 3289 3556 62058347 62058612 2.800000e-112 416.0
17 TraesCS4B01G068600 chr4B 91.197 284 10 4 2237 2506 140201530 140201812 6.140000e-99 372.0
18 TraesCS4B01G068600 chr4B 90.493 284 12 4 2237 2506 140423430 140423712 1.330000e-95 361.0
19 TraesCS4B01G068600 chr4B 96.273 161 6 0 4790 4950 252010600 252010760 1.070000e-66 265.0
20 TraesCS4B01G068600 chr4B 97.419 155 4 0 4796 4950 649583382 649583228 1.070000e-66 265.0
21 TraesCS4B01G068600 chr4B 97.419 155 4 0 4796 4950 660752802 660752648 1.070000e-66 265.0
22 TraesCS4B01G068600 chr4B 100.000 61 0 0 4962 5022 62417780 62417840 4.110000e-21 113.0
23 TraesCS4B01G068600 chr4B 98.000 50 1 0 2198 2247 140407706 140407755 2.490000e-13 87.9
24 TraesCS4B01G068600 chr4B 88.333 60 7 0 4962 5021 61491712 61491771 6.980000e-09 73.1
25 TraesCS4B01G068600 chr4A 92.981 4673 191 47 1 4568 556826946 556822306 0.000000e+00 6685.0
26 TraesCS4B01G068600 chr4A 90.000 60 6 0 4962 5021 556821736 556821677 1.500000e-10 78.7
27 TraesCS4B01G068600 chr4D 93.019 4226 165 44 630 4797 43068568 43072721 0.000000e+00 6050.0
28 TraesCS4B01G068600 chr4D 93.929 560 28 4 1 559 43067629 43068183 0.000000e+00 841.0
29 TraesCS4B01G068600 chr4D 95.082 61 2 1 4962 5021 43072718 43072778 1.490000e-15 95.3
30 TraesCS4B01G068600 chr7B 98.065 155 3 0 4796 4950 129963636 129963790 2.310000e-68 270.0
31 TraesCS4B01G068600 chr5B 98.065 155 3 0 4796 4950 584167043 584166889 2.310000e-68 270.0
32 TraesCS4B01G068600 chr1B 98.065 155 3 0 4796 4950 526342749 526342903 2.310000e-68 270.0
33 TraesCS4B01G068600 chrUn 97.419 155 4 0 4796 4950 434935775 434935621 1.070000e-66 265.0
34 TraesCS4B01G068600 chr6B 94.706 170 9 0 4796 4965 561695920 561695751 1.070000e-66 265.0
35 TraesCS4B01G068600 chr3A 97.419 155 4 0 4796 4950 55256171 55256017 1.070000e-66 265.0


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 TraesCS4B01G068600 chr4B 61309311 61314335 5024 False 9280.000000 9280 100.0000 1 5025 1 chr4B.!!$F1 5024
1 TraesCS4B01G068600 chr4B 62041368 62042840 1472 False 2183.000000 2183 93.1970 3289 4797 1 chr4B.!!$F2 1508
2 TraesCS4B01G068600 chr4B 140210985 140212389 1404 False 2174.000000 2174 94.6880 3399 4797 1 chr4B.!!$F6 1398
3 TraesCS4B01G068600 chr4B 140423430 140426150 2720 False 1982.000000 3603 91.9520 2237 4797 2 chr4B.!!$F15 2560
4 TraesCS4B01G068600 chr4B 61533508 61534293 785 True 1168.000000 1168 93.2010 3292 4100 1 chr4B.!!$R1 808
5 TraesCS4B01G068600 chr4B 61545801 61546607 806 True 1098.000000 1098 90.9200 3961 4797 1 chr4B.!!$R2 836
6 TraesCS4B01G068600 chr4B 62858626 62859432 806 False 1098.000000 1098 90.9200 3961 4797 1 chr4B.!!$F5 836
7 TraesCS4B01G068600 chr4B 140431935 140432540 605 False 977.000000 977 95.7310 4190 4797 1 chr4B.!!$F9 607
8 TraesCS4B01G068600 chr4B 140218194 140218792 598 False 965.000000 965 95.5590 4190 4797 1 chr4B.!!$F7 607
9 TraesCS4B01G068600 chr4B 140201530 140202748 1218 False 882.500000 1393 92.5100 2237 3275 2 chr4B.!!$F14 1038
10 TraesCS4B01G068600 chr4B 62417196 62417840 644 False 477.000000 841 96.2900 4212 5022 2 chr4B.!!$F12 810
11 TraesCS4B01G068600 chr4B 62435305 62437316 2011 False 437.500000 453 88.7270 3289 3665 2 chr4B.!!$F13 376
12 TraesCS4B01G068600 chr4B 61490473 61491771 1298 False 317.550000 562 92.0295 3539 5021 2 chr4B.!!$F11 1482
13 TraesCS4B01G068600 chr4A 556821677 556826946 5269 True 3381.850000 6685 91.4905 1 5021 2 chr4A.!!$R1 5020
14 TraesCS4B01G068600 chr4D 43067629 43072778 5149 False 2328.766667 6050 94.0100 1 5021 3 chr4D.!!$F1 5020

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
549 550 0.325296 ATCAGAACCCTAGCCGTCCA 60.325 55.000 0.00 0.0 0.00 4.02 F
564 566 1.130749 CGTCCACCAACAAACAAACGA 59.869 47.619 0.00 0.0 0.00 3.85 F
1632 2028 1.888512 TGAGTGGATTGCTTCCTTTGC 59.111 47.619 7.63 0.0 45.68 3.68 F
2545 3129 1.067516 CTTTGTGCCAGGACCTTGTTG 59.932 52.381 0.00 0.0 0.00 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1794 2195 0.459411 ACACCAAACGCAACAAAGCC 60.459 50.000 0.00 0.0 0.0 4.35 R
1897 2298 1.324736 GAAAGTGCAGCCGTTATCTCG 59.675 52.381 0.00 0.0 0.0 4.04 R
2787 3380 1.873591 GTCAAAAGCATCCACGACTGT 59.126 47.619 0.00 0.0 0.0 3.55 R
4348 6681 0.562177 TGCATTGAATGGGGGCCTAT 59.438 50.000 7.35 0.0 0.0 2.57 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
69 70 5.898174 ACTAAAACCAAACACTAAGCAACC 58.102 37.500 0.00 0.00 0.00 3.77
80 81 2.025887 ACTAAGCAACCCAGGGAATCAG 60.026 50.000 14.54 3.81 0.00 2.90
231 232 2.283173 CCCCTGCAGAACCCCAAC 60.283 66.667 17.39 0.00 0.00 3.77
265 266 5.759273 ACAAACAACATTTCACCAATCCATG 59.241 36.000 0.00 0.00 0.00 3.66
298 299 2.897780 GCATTGCCAAAAACAGCGA 58.102 47.368 0.00 0.00 0.00 4.93
416 417 1.759459 CTCCCCCTCCGGCTCATTAC 61.759 65.000 0.00 0.00 0.00 1.89
428 429 2.239907 GGCTCATTACTCCCCTTGTCTT 59.760 50.000 0.00 0.00 0.00 3.01
542 543 4.063689 GCATCACATCATCAGAACCCTAG 58.936 47.826 0.00 0.00 0.00 3.02
549 550 0.325296 ATCAGAACCCTAGCCGTCCA 60.325 55.000 0.00 0.00 0.00 4.02
552 554 2.203877 AACCCTAGCCGTCCACCA 60.204 61.111 0.00 0.00 0.00 4.17
563 565 1.540407 CGTCCACCAACAAACAAACG 58.460 50.000 0.00 0.00 0.00 3.60
564 566 1.130749 CGTCCACCAACAAACAAACGA 59.869 47.619 0.00 0.00 0.00 3.85
565 567 2.414293 CGTCCACCAACAAACAAACGAA 60.414 45.455 0.00 0.00 0.00 3.85
566 568 2.918600 GTCCACCAACAAACAAACGAAC 59.081 45.455 0.00 0.00 0.00 3.95
972 1309 1.963338 GCAAGCAGTCTGGTCGCTT 60.963 57.895 7.72 0.00 46.57 4.68
1099 1460 2.365370 AGGAGGGAGGCTCTGCTG 60.365 66.667 15.23 0.00 31.69 4.41
1492 1885 2.227865 TGAATGGCTGCCGTTTTTAGTC 59.772 45.455 25.78 13.42 32.23 2.59
1540 1936 5.499004 TTTTAACTGCAGACTCCTATGGT 57.501 39.130 23.35 0.00 0.00 3.55
1632 2028 1.888512 TGAGTGGATTGCTTCCTTTGC 59.111 47.619 7.63 0.00 45.68 3.68
1633 2029 1.888512 GAGTGGATTGCTTCCTTTGCA 59.111 47.619 7.63 0.00 45.68 4.08
1687 2088 6.365920 CAGCTTTGGTGAATGCAAATGTGC 62.366 45.833 0.00 0.00 41.41 4.57
1707 2108 2.653890 CTGTGTTGTTTTGCAGATCCG 58.346 47.619 0.00 0.00 0.00 4.18
1770 2171 4.742201 CTCTGGGACGCCACCACG 62.742 72.222 0.00 0.00 39.50 4.94
1794 2195 2.572104 AGAGGTAGGGTTGGTTGCTTAG 59.428 50.000 0.00 0.00 0.00 2.18
1897 2298 1.215655 GAGCATACGACGCCATGGAC 61.216 60.000 18.40 5.97 0.00 4.02
2013 2414 9.801714 CAAATAGAAAAATGCTGAAATTGTGAC 57.198 29.630 0.00 0.00 0.00 3.67
2018 2419 1.154225 GCTGAAATTGTGACGGCCG 60.154 57.895 26.86 26.86 0.00 6.13
2112 2514 5.770162 GGTATGTAGGCTTTTTGCTGGATAT 59.230 40.000 0.00 0.00 42.39 1.63
2228 2630 6.655930 AGTGAAAGTTCCACTGGTTTACTTA 58.344 36.000 0.00 0.00 42.68 2.24
2232 2634 7.712205 TGAAAGTTCCACTGGTTTACTTAGTAC 59.288 37.037 11.05 0.00 0.00 2.73
2234 2636 8.482852 AAGTTCCACTGGTTTACTTAGTACTA 57.517 34.615 0.00 0.00 0.00 1.82
2235 2637 7.890515 AGTTCCACTGGTTTACTTAGTACTAC 58.109 38.462 0.91 0.00 0.00 2.73
2278 2680 5.105392 GCATATGATTTCAGTTGGGGTTTGA 60.105 40.000 6.97 0.00 0.00 2.69
2308 2710 7.375280 CAGAGAAATGCGCTAATGTTGATTTAG 59.625 37.037 9.73 0.00 0.00 1.85
2545 3129 1.067516 CTTTGTGCCAGGACCTTGTTG 59.932 52.381 0.00 0.00 0.00 3.33
2556 3140 4.938226 CAGGACCTTGTTGTTCCTCTTATC 59.062 45.833 0.00 0.00 0.00 1.75
2597 3185 4.843728 TCGCATTAGAACTTTGGAAGGAT 58.156 39.130 0.00 0.00 0.00 3.24
2638 3226 6.493802 TCAGGATATAAATTGCGACTAGGACT 59.506 38.462 0.00 0.00 0.00 3.85
2690 3278 3.439476 GCACAGACTGAAAGATTCTGCAT 59.561 43.478 10.08 0.00 39.84 3.96
2913 3506 1.452108 AGCTGTTTATGCGGAGGGC 60.452 57.895 0.00 0.00 43.96 5.19
2971 3564 2.158638 GGGGGTGTTACACAGGTTTGTA 60.159 50.000 17.67 0.00 35.25 2.41
3123 3716 9.935682 TCGTATTTTCAATAATTGATCTCAAGC 57.064 29.630 0.00 0.00 39.84 4.01
3178 3771 2.134789 ACTGACCTGGCCATGATTTC 57.865 50.000 15.66 2.65 0.00 2.17
3290 3883 6.925165 ACTTCCAAAATTCAACATACTGCTTG 59.075 34.615 0.00 0.00 0.00 4.01
3308 3901 8.494016 ACTGCTTGGAATAAGTACAATTAGTC 57.506 34.615 0.00 0.00 0.00 2.59
3350 3943 9.178758 GTGGAATTGATAGGTTAATCTGTCTTT 57.821 33.333 13.00 7.31 0.00 2.52
3679 5954 6.868339 GCTGCTGGTATGTGTTTCTAAATTTT 59.132 34.615 0.00 0.00 0.00 1.82
3813 6090 3.327757 ACCTTCCTCTTGCTACAACATCA 59.672 43.478 0.00 0.00 0.00 3.07
4028 6334 5.833406 TTGCTCACAAGAATCTTGAAACA 57.167 34.783 27.63 16.48 0.00 2.83
4029 6335 5.833406 TGCTCACAAGAATCTTGAAACAA 57.167 34.783 27.63 8.77 0.00 2.83
4264 6594 7.399523 GTGAACCATGATAGTACGATTGTTTC 58.600 38.462 0.00 0.00 0.00 2.78
4269 6599 6.538742 CCATGATAGTACGATTGTTTCTTGGT 59.461 38.462 0.00 0.00 0.00 3.67
4316 6649 1.880027 GGCATGTACCGATGGGATTTC 59.120 52.381 0.00 0.00 36.97 2.17
4347 6680 6.478512 AAACACCTTGTATGTTGGTCAATT 57.521 33.333 0.00 0.00 40.16 2.32
4348 6681 7.589958 AAACACCTTGTATGTTGGTCAATTA 57.410 32.000 0.00 0.00 40.16 1.40
4606 7289 0.547471 TCTCAGCCCCAACTCCATGA 60.547 55.000 0.00 0.00 0.00 3.07
4632 7315 6.701400 ACAACTTGTAGAACAAAAATGGCATC 59.299 34.615 0.00 0.00 37.69 3.91
4785 7470 7.980662 GGACAGTAAGATAGAAAGTTCCCTAAC 59.019 40.741 0.00 0.00 35.72 2.34
4797 7482 2.426381 GTTCCCTAACGGTAGAGTCAGG 59.574 54.545 9.67 0.72 0.00 3.86
4798 7483 1.064166 TCCCTAACGGTAGAGTCAGGG 60.064 57.143 9.67 2.65 43.52 4.45
4799 7484 1.400737 CCTAACGGTAGAGTCAGGGG 58.599 60.000 9.67 0.00 0.00 4.79
4800 7485 1.400737 CTAACGGTAGAGTCAGGGGG 58.599 60.000 0.00 0.00 0.00 5.40
4801 7486 0.706433 TAACGGTAGAGTCAGGGGGT 59.294 55.000 0.00 0.00 0.00 4.95
4802 7487 0.903454 AACGGTAGAGTCAGGGGGTG 60.903 60.000 0.00 0.00 0.00 4.61
4803 7488 1.305046 CGGTAGAGTCAGGGGGTGT 60.305 63.158 0.00 0.00 0.00 4.16
4804 7489 0.903454 CGGTAGAGTCAGGGGGTGTT 60.903 60.000 0.00 0.00 0.00 3.32
4805 7490 1.359168 GGTAGAGTCAGGGGGTGTTT 58.641 55.000 0.00 0.00 0.00 2.83
4806 7491 1.003233 GGTAGAGTCAGGGGGTGTTTG 59.997 57.143 0.00 0.00 0.00 2.93
4807 7492 1.697982 GTAGAGTCAGGGGGTGTTTGT 59.302 52.381 0.00 0.00 0.00 2.83
4808 7493 1.222567 AGAGTCAGGGGGTGTTTGTT 58.777 50.000 0.00 0.00 0.00 2.83
4809 7494 1.569072 AGAGTCAGGGGGTGTTTGTTT 59.431 47.619 0.00 0.00 0.00 2.83
4810 7495 1.954382 GAGTCAGGGGGTGTTTGTTTC 59.046 52.381 0.00 0.00 0.00 2.78
4811 7496 1.037493 GTCAGGGGGTGTTTGTTTCC 58.963 55.000 0.00 0.00 0.00 3.13
4812 7497 0.631753 TCAGGGGGTGTTTGTTTCCA 59.368 50.000 0.00 0.00 0.00 3.53
4813 7498 1.039856 CAGGGGGTGTTTGTTTCCAG 58.960 55.000 0.00 0.00 0.00 3.86
4814 7499 0.105709 AGGGGGTGTTTGTTTCCAGG 60.106 55.000 0.00 0.00 0.00 4.45
4815 7500 1.118965 GGGGGTGTTTGTTTCCAGGG 61.119 60.000 0.00 0.00 0.00 4.45
4816 7501 0.105913 GGGGTGTTTGTTTCCAGGGA 60.106 55.000 0.00 0.00 0.00 4.20
4817 7502 1.037493 GGGTGTTTGTTTCCAGGGAC 58.963 55.000 0.00 0.00 0.00 4.46
4818 7503 1.411074 GGGTGTTTGTTTCCAGGGACT 60.411 52.381 0.00 0.00 43.88 3.85
4819 7504 2.384828 GGTGTTTGTTTCCAGGGACTT 58.615 47.619 0.00 0.00 34.60 3.01
4820 7505 2.764010 GGTGTTTGTTTCCAGGGACTTT 59.236 45.455 0.00 0.00 34.60 2.66
4821 7506 3.196901 GGTGTTTGTTTCCAGGGACTTTT 59.803 43.478 0.00 0.00 34.60 2.27
4822 7507 4.323180 GGTGTTTGTTTCCAGGGACTTTTT 60.323 41.667 0.00 0.00 34.60 1.94
4823 7508 4.629634 GTGTTTGTTTCCAGGGACTTTTTG 59.370 41.667 0.00 0.00 34.60 2.44
4824 7509 4.188462 GTTTGTTTCCAGGGACTTTTTGG 58.812 43.478 0.00 0.00 34.60 3.28
4825 7510 3.108847 TGTTTCCAGGGACTTTTTGGT 57.891 42.857 0.00 0.00 34.60 3.67
4826 7511 2.763448 TGTTTCCAGGGACTTTTTGGTG 59.237 45.455 0.00 0.00 34.60 4.17
4827 7512 2.764010 GTTTCCAGGGACTTTTTGGTGT 59.236 45.455 0.00 0.00 34.60 4.16
4828 7513 3.955524 TTCCAGGGACTTTTTGGTGTA 57.044 42.857 0.00 0.00 34.60 2.90
4829 7514 3.502123 TCCAGGGACTTTTTGGTGTAG 57.498 47.619 0.00 0.00 34.60 2.74
4830 7515 2.107552 TCCAGGGACTTTTTGGTGTAGG 59.892 50.000 0.00 0.00 34.60 3.18
4831 7516 2.514803 CAGGGACTTTTTGGTGTAGGG 58.485 52.381 0.00 0.00 34.60 3.53
4832 7517 2.107552 CAGGGACTTTTTGGTGTAGGGA 59.892 50.000 0.00 0.00 34.60 4.20
4833 7518 2.107726 AGGGACTTTTTGGTGTAGGGAC 59.892 50.000 0.00 0.00 27.25 4.46
4834 7519 2.107726 GGGACTTTTTGGTGTAGGGACT 59.892 50.000 0.00 0.00 46.37 3.85
4835 7520 3.328637 GGGACTTTTTGGTGTAGGGACTA 59.671 47.826 0.00 0.00 41.75 2.59
4836 7521 4.565028 GGGACTTTTTGGTGTAGGGACTAG 60.565 50.000 0.00 0.00 44.14 2.57
4837 7522 4.285260 GGACTTTTTGGTGTAGGGACTAGA 59.715 45.833 0.00 0.00 44.14 2.43
4838 7523 5.221783 GGACTTTTTGGTGTAGGGACTAGAA 60.222 44.000 0.00 0.00 44.14 2.10
4839 7524 6.256643 ACTTTTTGGTGTAGGGACTAGAAA 57.743 37.500 0.00 0.00 44.14 2.52
4840 7525 6.665695 ACTTTTTGGTGTAGGGACTAGAAAA 58.334 36.000 0.00 0.00 44.14 2.29
4841 7526 7.120716 ACTTTTTGGTGTAGGGACTAGAAAAA 58.879 34.615 0.00 0.00 44.14 1.94
4860 7545 5.622346 AAAAATCCCTAGCAAACCAAACA 57.378 34.783 0.00 0.00 0.00 2.83
4861 7546 4.871933 AAATCCCTAGCAAACCAAACAG 57.128 40.909 0.00 0.00 0.00 3.16
4862 7547 2.286365 TCCCTAGCAAACCAAACAGG 57.714 50.000 0.00 0.00 45.67 4.00
4863 7548 1.203001 TCCCTAGCAAACCAAACAGGG 60.203 52.381 0.00 0.00 43.52 4.45
4864 7549 1.480498 CCCTAGCAAACCAAACAGGGT 60.480 52.381 0.00 0.00 45.04 4.34
4865 7550 1.613437 CCTAGCAAACCAAACAGGGTG 59.387 52.381 0.00 0.00 41.32 4.61
4866 7551 1.613437 CTAGCAAACCAAACAGGGTGG 59.387 52.381 0.00 0.00 41.32 4.61
4867 7552 1.048160 AGCAAACCAAACAGGGTGGG 61.048 55.000 0.00 0.00 41.32 4.61
4868 7553 1.045911 GCAAACCAAACAGGGTGGGA 61.046 55.000 0.00 0.00 41.32 4.37
4869 7554 0.750249 CAAACCAAACAGGGTGGGAC 59.250 55.000 0.00 0.00 41.32 4.46
4870 7555 0.634465 AAACCAAACAGGGTGGGACT 59.366 50.000 0.00 0.00 41.32 3.85
4871 7556 0.634465 AACCAAACAGGGTGGGACTT 59.366 50.000 0.00 0.00 41.32 3.01
4872 7557 0.634465 ACCAAACAGGGTGGGACTTT 59.366 50.000 0.00 0.00 43.89 2.66
4873 7558 1.007842 ACCAAACAGGGTGGGACTTTT 59.992 47.619 0.00 0.00 43.89 2.27
4874 7559 2.115427 CCAAACAGGGTGGGACTTTTT 58.885 47.619 0.00 0.00 32.03 1.94
4904 7589 7.859613 CTTTTTGCTAAAAGTCCTTAGAAGC 57.140 36.000 20.79 0.00 43.34 3.86
4905 7590 6.952773 TTTTGCTAAAAGTCCTTAGAAGCA 57.047 33.333 6.73 6.73 31.59 3.91
4906 7591 5.941948 TTGCTAAAAGTCCTTAGAAGCAC 57.058 39.130 9.21 0.00 31.59 4.40
4907 7592 4.324267 TGCTAAAAGTCCTTAGAAGCACC 58.676 43.478 6.73 0.00 31.59 5.01
4908 7593 4.041691 TGCTAAAAGTCCTTAGAAGCACCT 59.958 41.667 6.73 0.00 31.59 4.00
4909 7594 4.632251 GCTAAAAGTCCTTAGAAGCACCTC 59.368 45.833 0.00 0.00 31.59 3.85
4910 7595 3.704800 AAAGTCCTTAGAAGCACCTCC 57.295 47.619 0.00 0.00 0.00 4.30
4911 7596 2.632763 AGTCCTTAGAAGCACCTCCT 57.367 50.000 0.00 0.00 0.00 3.69
4912 7597 2.909217 AGTCCTTAGAAGCACCTCCTT 58.091 47.619 0.00 0.00 0.00 3.36
4913 7598 2.569404 AGTCCTTAGAAGCACCTCCTTG 59.431 50.000 0.00 0.00 0.00 3.61
4914 7599 2.567615 GTCCTTAGAAGCACCTCCTTGA 59.432 50.000 0.00 0.00 0.00 3.02
4915 7600 2.834549 TCCTTAGAAGCACCTCCTTGAG 59.165 50.000 0.00 0.00 0.00 3.02
4916 7601 2.834549 CCTTAGAAGCACCTCCTTGAGA 59.165 50.000 0.00 0.00 0.00 3.27
4917 7602 3.118811 CCTTAGAAGCACCTCCTTGAGAG 60.119 52.174 0.00 0.00 42.83 3.20
4918 7603 2.022718 AGAAGCACCTCCTTGAGAGT 57.977 50.000 0.00 0.00 41.47 3.24
4919 7604 1.899142 AGAAGCACCTCCTTGAGAGTC 59.101 52.381 0.00 0.00 41.47 3.36
4920 7605 1.899142 GAAGCACCTCCTTGAGAGTCT 59.101 52.381 0.00 0.00 41.47 3.24
4921 7606 2.022718 AGCACCTCCTTGAGAGTCTT 57.977 50.000 0.00 0.00 41.47 3.01
4922 7607 2.334023 AGCACCTCCTTGAGAGTCTTT 58.666 47.619 0.00 0.00 41.47 2.52
4923 7608 2.708325 AGCACCTCCTTGAGAGTCTTTT 59.292 45.455 0.00 0.00 41.47 2.27
4924 7609 3.070748 GCACCTCCTTGAGAGTCTTTTC 58.929 50.000 0.00 0.00 41.47 2.29
4925 7610 3.669536 CACCTCCTTGAGAGTCTTTTCC 58.330 50.000 0.00 0.00 41.47 3.13
4926 7611 3.071602 CACCTCCTTGAGAGTCTTTTCCA 59.928 47.826 0.00 0.00 41.47 3.53
4927 7612 3.716872 ACCTCCTTGAGAGTCTTTTCCAA 59.283 43.478 0.00 0.00 41.47 3.53
4928 7613 4.166144 ACCTCCTTGAGAGTCTTTTCCAAA 59.834 41.667 0.00 0.00 41.47 3.28
4929 7614 5.133221 CCTCCTTGAGAGTCTTTTCCAAAA 58.867 41.667 0.00 0.00 41.47 2.44
4930 7615 5.594317 CCTCCTTGAGAGTCTTTTCCAAAAA 59.406 40.000 0.00 0.00 41.47 1.94
4931 7616 6.238869 CCTCCTTGAGAGTCTTTTCCAAAAAG 60.239 42.308 5.94 5.94 41.47 2.27
4932 7617 6.187682 TCCTTGAGAGTCTTTTCCAAAAAGT 58.812 36.000 10.91 0.00 0.00 2.66
4933 7618 6.318900 TCCTTGAGAGTCTTTTCCAAAAAGTC 59.681 38.462 10.91 6.67 0.00 3.01
4934 7619 6.451064 TTGAGAGTCTTTTCCAAAAAGTCC 57.549 37.500 10.91 4.92 0.00 3.85
4935 7620 4.887655 TGAGAGTCTTTTCCAAAAAGTCCC 59.112 41.667 10.91 0.00 0.00 4.46
4936 7621 4.867086 AGAGTCTTTTCCAAAAAGTCCCA 58.133 39.130 10.91 0.00 0.00 4.37
4937 7622 4.889995 AGAGTCTTTTCCAAAAAGTCCCAG 59.110 41.667 10.91 0.00 0.00 4.45
4938 7623 3.960755 AGTCTTTTCCAAAAAGTCCCAGG 59.039 43.478 10.91 0.00 0.00 4.45
4939 7624 3.069586 GTCTTTTCCAAAAAGTCCCAGGG 59.930 47.826 0.00 0.00 0.00 4.45
4940 7625 3.052490 TCTTTTCCAAAAAGTCCCAGGGA 60.052 43.478 3.01 3.01 0.00 4.20
4953 7638 4.799715 TCCCAGGGACTAGAAAAACAAA 57.200 40.909 3.01 0.00 36.02 2.83
4954 7639 4.466827 TCCCAGGGACTAGAAAAACAAAC 58.533 43.478 3.01 0.00 36.02 2.93
4955 7640 4.079672 TCCCAGGGACTAGAAAAACAAACA 60.080 41.667 3.01 0.00 36.02 2.83
4956 7641 4.037565 CCCAGGGACTAGAAAAACAAACAC 59.962 45.833 0.00 0.00 36.02 3.32
4957 7642 4.037565 CCAGGGACTAGAAAAACAAACACC 59.962 45.833 0.00 0.00 36.02 4.16
4958 7643 4.642885 CAGGGACTAGAAAAACAAACACCA 59.357 41.667 0.00 0.00 36.02 4.17
4959 7644 4.643334 AGGGACTAGAAAAACAAACACCAC 59.357 41.667 0.00 0.00 36.02 4.16
4960 7645 4.202080 GGGACTAGAAAAACAAACACCACC 60.202 45.833 0.00 0.00 0.00 4.61
4961 7646 4.643334 GGACTAGAAAAACAAACACCACCT 59.357 41.667 0.00 0.00 0.00 4.00
4962 7647 5.220989 GGACTAGAAAAACAAACACCACCTC 60.221 44.000 0.00 0.00 0.00 3.85
4963 7648 5.258051 ACTAGAAAAACAAACACCACCTCA 58.742 37.500 0.00 0.00 0.00 3.86
4964 7649 4.718940 AGAAAAACAAACACCACCTCAG 57.281 40.909 0.00 0.00 0.00 3.35
5023 7709 9.807649 ATAGTCAATAAAACAATGCAGAAATCC 57.192 29.630 0.00 0.00 0.00 3.01
5024 7710 7.669427 AGTCAATAAAACAATGCAGAAATCCA 58.331 30.769 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 5.643348 TGTGTATACTGAATTGCTGAACCTG 59.357 40.000 4.17 0.00 0.00 4.00
69 70 2.238144 TCTTTCTGCTCTGATTCCCTGG 59.762 50.000 0.00 0.00 0.00 4.45
80 81 7.840342 TGATCTACATTTTCTCTTTCTGCTC 57.160 36.000 0.00 0.00 0.00 4.26
133 134 1.919816 TGCATGGAGGAGTGGCTCA 60.920 57.895 0.00 0.00 31.08 4.26
231 232 2.254918 TGTTGTTTGTGACTTGCGTG 57.745 45.000 0.00 0.00 0.00 5.34
238 239 5.234116 GGATTGGTGAAATGTTGTTTGTGAC 59.766 40.000 0.00 0.00 0.00 3.67
265 266 1.203052 CAATGCCAGTGAATGTGGTCC 59.797 52.381 0.00 0.00 37.40 4.46
288 289 0.951040 CGCTCCCTCTCGCTGTTTTT 60.951 55.000 0.00 0.00 0.00 1.94
298 299 4.124943 TACCTCGCCGCTCCCTCT 62.125 66.667 0.00 0.00 0.00 3.69
314 315 2.768344 GGGCCAGGCTAGCACCTA 60.768 66.667 18.24 0.00 38.26 3.08
348 349 0.876342 GGATAAGCTGGAGAACGCCG 60.876 60.000 0.00 0.00 0.00 6.46
416 417 1.229984 AGGGGGAAGACAAGGGGAG 60.230 63.158 0.00 0.00 0.00 4.30
542 543 0.173708 TTTGTTTGTTGGTGGACGGC 59.826 50.000 0.00 0.00 0.00 5.68
549 550 5.986004 TTTTTGTTCGTTTGTTTGTTGGT 57.014 30.435 0.00 0.00 0.00 3.67
614 617 1.076995 TTCTCCGAGATCTCCCGCA 60.077 57.895 17.13 0.00 0.00 5.69
667 983 2.659016 CCAGCAAGACGAGCAGGA 59.341 61.111 0.00 0.00 40.72 3.86
954 1291 1.963338 AAGCGACCAGACTGCTTGC 60.963 57.895 2.15 2.15 46.46 4.01
972 1309 0.395036 CTCTCTCTCCTCTCCGGCAA 60.395 60.000 0.00 0.00 0.00 4.52
1043 1404 2.956964 CCGCATCCTCGAAGTCGC 60.957 66.667 0.00 0.00 39.60 5.19
1047 1408 4.207281 TCCGCCGCATCCTCGAAG 62.207 66.667 0.00 0.00 0.00 3.79
1076 1437 3.767044 GAGCCTCCCTCCTCCTCCC 62.767 73.684 0.00 0.00 34.35 4.30
1079 1440 2.695597 CAGAGCCTCCCTCCTCCT 59.304 66.667 0.00 0.00 41.74 3.69
1492 1885 5.232838 GCAAAACTCAAACACAGGAGAAATG 59.767 40.000 0.00 0.00 35.17 2.32
1540 1936 1.228245 GTTCACCTGGAGGCTTGCA 60.228 57.895 0.00 0.00 39.32 4.08
1632 2028 2.560861 CAACCCGCCGTGACATTG 59.439 61.111 0.00 0.00 0.00 2.82
1633 2029 3.361977 GCAACCCGCCGTGACATT 61.362 61.111 0.00 0.00 32.94 2.71
1663 2064 1.868469 TTTGCATTCACCAAAGCTGC 58.132 45.000 0.00 0.00 0.00 5.25
1687 2088 2.605338 CCGGATCTGCAAAACAACACAG 60.605 50.000 0.00 0.00 0.00 3.66
1688 2089 1.336440 CCGGATCTGCAAAACAACACA 59.664 47.619 0.00 0.00 0.00 3.72
1707 2108 2.017049 CTAGCAAATACACAGGTGGCC 58.983 52.381 0.00 0.00 34.19 5.36
1770 2171 0.618981 CAACCAACCCTACCTCTCCC 59.381 60.000 0.00 0.00 0.00 4.30
1773 2174 1.446016 AAGCAACCAACCCTACCTCT 58.554 50.000 0.00 0.00 0.00 3.69
1781 2182 1.686587 ACAAAGCCTAAGCAACCAACC 59.313 47.619 0.00 0.00 43.56 3.77
1794 2195 0.459411 ACACCAAACGCAACAAAGCC 60.459 50.000 0.00 0.00 0.00 4.35
1897 2298 1.324736 GAAAGTGCAGCCGTTATCTCG 59.675 52.381 0.00 0.00 0.00 4.04
2059 2461 5.818136 TCCATGTTGAGTAAAGCATAAGC 57.182 39.130 0.00 0.00 42.56 3.09
2060 2462 8.509690 CCATATCCATGTTGAGTAAAGCATAAG 58.490 37.037 0.00 0.00 0.00 1.73
2061 2463 7.998383 ACCATATCCATGTTGAGTAAAGCATAA 59.002 33.333 0.00 0.00 0.00 1.90
2062 2464 7.445096 CACCATATCCATGTTGAGTAAAGCATA 59.555 37.037 0.00 0.00 26.15 3.14
2063 2465 6.263842 CACCATATCCATGTTGAGTAAAGCAT 59.736 38.462 0.00 0.00 26.15 3.79
2064 2466 5.589855 CACCATATCCATGTTGAGTAAAGCA 59.410 40.000 0.00 0.00 26.15 3.91
2112 2514 6.691754 TCAAACACTCTGATTGCTTTGTTA 57.308 33.333 15.42 3.76 31.29 2.41
2228 2630 8.577048 TGTCTTGAAGCATAGTAAGTAGTACT 57.423 34.615 0.00 0.00 45.42 2.73
2232 2634 6.333416 TGCTGTCTTGAAGCATAGTAAGTAG 58.667 40.000 0.00 0.00 45.50 2.57
2234 2636 5.152623 TGCTGTCTTGAAGCATAGTAAGT 57.847 39.130 0.00 0.00 45.50 2.24
2278 2680 5.376854 ACATTAGCGCATTTCTCTGTTTT 57.623 34.783 11.47 0.00 0.00 2.43
2308 2710 2.129607 CAACCAAAGTTGCATGCAGAC 58.870 47.619 21.50 20.07 46.43 3.51
2568 3156 5.763204 TCCAAAGTTCTAATGCGAAGTTCTT 59.237 36.000 0.56 0.00 35.96 2.52
2576 3164 5.567138 AATCCTTCCAAAGTTCTAATGCG 57.433 39.130 0.00 0.00 0.00 4.73
2618 3206 9.517868 ACTACTAGTCCTAGTCGCAATTTATAT 57.482 33.333 10.15 0.00 44.58 0.86
2661 3249 4.818534 TCTTTCAGTCTGTGCATGAAAC 57.181 40.909 8.06 0.00 37.86 2.78
2669 3257 4.694037 TCATGCAGAATCTTTCAGTCTGTG 59.306 41.667 0.00 0.00 40.76 3.66
2670 3258 4.903054 TCATGCAGAATCTTTCAGTCTGT 58.097 39.130 0.00 0.00 40.76 3.41
2716 3306 6.761242 GCCAAAACTTGAACTGATAAAAACCT 59.239 34.615 0.00 0.00 0.00 3.50
2785 3378 2.948979 TCAAAAGCATCCACGACTGTTT 59.051 40.909 0.00 0.00 0.00 2.83
2786 3379 2.290641 GTCAAAAGCATCCACGACTGTT 59.709 45.455 0.00 0.00 0.00 3.16
2787 3380 1.873591 GTCAAAAGCATCCACGACTGT 59.126 47.619 0.00 0.00 0.00 3.55
2796 3389 4.550422 GAAACAAGGAGGTCAAAAGCATC 58.450 43.478 0.00 0.00 0.00 3.91
2913 3506 6.889301 AGAACATATAATGGCTCCATGTTG 57.111 37.500 8.94 4.95 39.31 3.33
3123 3716 7.330454 CGTCCCAAGATATATGTGATGAAGAAG 59.670 40.741 0.00 0.00 0.00 2.85
3262 3855 8.637986 AGCAGTATGTTGAATTTTGGAAGTAAA 58.362 29.630 0.00 0.00 39.31 2.01
3268 3861 5.538053 TCCAAGCAGTATGTTGAATTTTGGA 59.462 36.000 0.00 0.00 39.21 3.53
3284 3877 8.607459 CAGACTAATTGTACTTATTCCAAGCAG 58.393 37.037 0.00 0.00 0.00 4.24
3290 3883 9.614792 ATCCAACAGACTAATTGTACTTATTCC 57.385 33.333 0.00 0.00 0.00 3.01
3308 3901 2.875296 TCCACTTCCCAAATCCAACAG 58.125 47.619 0.00 0.00 0.00 3.16
3731 6006 6.813293 TCAAGGAGATAAAGATCACATGGA 57.187 37.500 0.00 0.00 34.17 3.41
3813 6090 2.042162 ACCAAATCTTCTGTGCCCAGAT 59.958 45.455 0.00 0.00 46.80 2.90
3973 6279 1.279152 CAGAGCAGCAGTTCTCATCG 58.721 55.000 0.00 0.00 32.51 3.84
4027 6333 3.057315 CCACAGCTTAGGGTTTGATGTTG 60.057 47.826 0.00 0.00 0.00 3.33
4028 6334 3.157087 CCACAGCTTAGGGTTTGATGTT 58.843 45.455 0.00 0.00 0.00 2.71
4029 6335 2.375174 TCCACAGCTTAGGGTTTGATGT 59.625 45.455 1.53 0.00 0.00 3.06
4264 6594 0.620556 ACCAGCTCATACCCACCAAG 59.379 55.000 0.00 0.00 0.00 3.61
4347 6680 1.785824 TGCATTGAATGGGGGCCTATA 59.214 47.619 7.35 0.00 0.00 1.31
4348 6681 0.562177 TGCATTGAATGGGGGCCTAT 59.438 50.000 7.35 0.00 0.00 2.57
4606 7289 6.402222 TGCCATTTTTGTTCTACAAGTTGTT 58.598 32.000 14.90 0.00 39.53 2.83
4719 7402 7.411804 CGATTTTGCTAAATTTTAGTTGCCTGG 60.412 37.037 15.69 0.00 34.16 4.45
4785 7470 0.903454 AACACCCCCTGACTCTACCG 60.903 60.000 0.00 0.00 0.00 4.02
4797 7482 0.105913 TCCCTGGAAACAAACACCCC 60.106 55.000 0.00 0.00 42.06 4.95
4798 7483 1.037493 GTCCCTGGAAACAAACACCC 58.963 55.000 0.00 0.00 42.06 4.61
4799 7484 2.067365 AGTCCCTGGAAACAAACACC 57.933 50.000 0.00 0.00 42.06 4.16
4800 7485 4.465632 AAAAGTCCCTGGAAACAAACAC 57.534 40.909 0.00 0.00 42.06 3.32
4801 7486 4.323104 CCAAAAAGTCCCTGGAAACAAACA 60.323 41.667 0.00 0.00 42.06 2.83
4802 7487 4.188462 CCAAAAAGTCCCTGGAAACAAAC 58.812 43.478 0.00 0.00 42.06 2.93
4803 7488 3.841255 ACCAAAAAGTCCCTGGAAACAAA 59.159 39.130 0.00 0.00 42.06 2.83
4804 7489 3.196685 CACCAAAAAGTCCCTGGAAACAA 59.803 43.478 0.00 0.00 42.06 2.83
4805 7490 2.763448 CACCAAAAAGTCCCTGGAAACA 59.237 45.455 0.00 0.00 39.59 2.83
4806 7491 2.764010 ACACCAAAAAGTCCCTGGAAAC 59.236 45.455 0.00 0.00 34.16 2.78
4807 7492 3.108847 ACACCAAAAAGTCCCTGGAAA 57.891 42.857 0.00 0.00 34.16 3.13
4808 7493 2.838637 ACACCAAAAAGTCCCTGGAA 57.161 45.000 0.00 0.00 34.16 3.53
4809 7494 2.107552 CCTACACCAAAAAGTCCCTGGA 59.892 50.000 0.00 0.00 34.16 3.86
4810 7495 2.514803 CCTACACCAAAAAGTCCCTGG 58.485 52.381 0.00 0.00 36.24 4.45
4811 7496 2.107552 TCCCTACACCAAAAAGTCCCTG 59.892 50.000 0.00 0.00 0.00 4.45
4812 7497 2.107726 GTCCCTACACCAAAAAGTCCCT 59.892 50.000 0.00 0.00 0.00 4.20
4813 7498 2.107726 AGTCCCTACACCAAAAAGTCCC 59.892 50.000 0.00 0.00 0.00 4.46
4814 7499 3.503800 AGTCCCTACACCAAAAAGTCC 57.496 47.619 0.00 0.00 0.00 3.85
4815 7500 5.479124 TCTAGTCCCTACACCAAAAAGTC 57.521 43.478 0.00 0.00 0.00 3.01
4816 7501 5.899631 TTCTAGTCCCTACACCAAAAAGT 57.100 39.130 0.00 0.00 0.00 2.66
4817 7502 7.576861 TTTTTCTAGTCCCTACACCAAAAAG 57.423 36.000 0.00 0.00 0.00 2.27
4838 7523 5.454613 CCTGTTTGGTTTGCTAGGGATTTTT 60.455 40.000 0.00 0.00 0.00 1.94
4839 7524 4.040339 CCTGTTTGGTTTGCTAGGGATTTT 59.960 41.667 0.00 0.00 0.00 1.82
4840 7525 3.578282 CCTGTTTGGTTTGCTAGGGATTT 59.422 43.478 0.00 0.00 0.00 2.17
4841 7526 3.165071 CCTGTTTGGTTTGCTAGGGATT 58.835 45.455 0.00 0.00 0.00 3.01
4842 7527 2.557452 CCCTGTTTGGTTTGCTAGGGAT 60.557 50.000 0.00 0.00 46.19 3.85
4843 7528 1.203001 CCCTGTTTGGTTTGCTAGGGA 60.203 52.381 0.00 0.00 46.19 4.20
4844 7529 1.256812 CCCTGTTTGGTTTGCTAGGG 58.743 55.000 0.00 0.00 38.96 3.53
4845 7530 1.613437 CACCCTGTTTGGTTTGCTAGG 59.387 52.381 0.00 0.00 36.12 3.02
4846 7531 1.613437 CCACCCTGTTTGGTTTGCTAG 59.387 52.381 0.00 0.00 36.12 3.42
4847 7532 1.698506 CCACCCTGTTTGGTTTGCTA 58.301 50.000 0.00 0.00 36.12 3.49
4848 7533 1.048160 CCCACCCTGTTTGGTTTGCT 61.048 55.000 0.00 0.00 36.12 3.91
4849 7534 1.045911 TCCCACCCTGTTTGGTTTGC 61.046 55.000 0.00 0.00 36.12 3.68
4850 7535 0.750249 GTCCCACCCTGTTTGGTTTG 59.250 55.000 0.00 0.00 36.12 2.93
4851 7536 0.634465 AGTCCCACCCTGTTTGGTTT 59.366 50.000 0.00 0.00 36.12 3.27
4852 7537 0.634465 AAGTCCCACCCTGTTTGGTT 59.366 50.000 0.00 0.00 36.12 3.67
4853 7538 0.634465 AAAGTCCCACCCTGTTTGGT 59.366 50.000 0.00 0.00 39.96 3.67
4854 7539 1.788229 AAAAGTCCCACCCTGTTTGG 58.212 50.000 0.00 0.00 0.00 3.28
4881 7566 7.200455 GTGCTTCTAAGGACTTTTAGCAAAAA 58.800 34.615 7.07 0.00 43.15 1.94
4882 7567 6.238925 GGTGCTTCTAAGGACTTTTAGCAAAA 60.239 38.462 13.12 0.00 45.42 2.44
4883 7568 5.240844 GGTGCTTCTAAGGACTTTTAGCAAA 59.759 40.000 13.12 0.00 45.42 3.68
4884 7569 4.760204 GGTGCTTCTAAGGACTTTTAGCAA 59.240 41.667 13.12 1.75 45.42 3.91
4885 7570 4.041691 AGGTGCTTCTAAGGACTTTTAGCA 59.958 41.667 13.12 9.74 45.42 3.49
4886 7571 4.580868 AGGTGCTTCTAAGGACTTTTAGC 58.419 43.478 13.12 0.00 45.42 3.09
4887 7572 5.046231 AGGAGGTGCTTCTAAGGACTTTTAG 60.046 44.000 13.12 0.00 45.42 1.85
4888 7573 4.844655 AGGAGGTGCTTCTAAGGACTTTTA 59.155 41.667 13.12 0.00 45.42 1.52
4889 7574 3.653352 AGGAGGTGCTTCTAAGGACTTTT 59.347 43.478 13.12 1.47 45.42 2.27
4890 7575 3.252351 AGGAGGTGCTTCTAAGGACTTT 58.748 45.455 13.12 3.63 45.42 2.66
4891 7576 2.909217 AGGAGGTGCTTCTAAGGACTT 58.091 47.619 13.12 6.52 45.42 3.01
4892 7577 2.569404 CAAGGAGGTGCTTCTAAGGACT 59.431 50.000 13.12 1.24 45.42 3.85
4893 7578 2.567615 TCAAGGAGGTGCTTCTAAGGAC 59.432 50.000 5.86 5.86 45.39 3.85
4894 7579 2.834549 CTCAAGGAGGTGCTTCTAAGGA 59.165 50.000 0.00 0.00 0.00 3.36
4895 7580 2.834549 TCTCAAGGAGGTGCTTCTAAGG 59.165 50.000 0.00 0.00 0.00 2.69
4896 7581 3.513515 ACTCTCAAGGAGGTGCTTCTAAG 59.486 47.826 0.00 0.00 45.83 2.18
4897 7582 3.511477 ACTCTCAAGGAGGTGCTTCTAA 58.489 45.455 0.00 0.00 45.83 2.10
4898 7583 3.093057 GACTCTCAAGGAGGTGCTTCTA 58.907 50.000 0.00 0.00 45.83 2.10
4899 7584 1.899142 GACTCTCAAGGAGGTGCTTCT 59.101 52.381 0.00 0.00 45.83 2.85
4900 7585 1.899142 AGACTCTCAAGGAGGTGCTTC 59.101 52.381 0.00 0.00 45.83 3.86
4901 7586 2.022718 AGACTCTCAAGGAGGTGCTT 57.977 50.000 0.00 0.00 45.83 3.91
4902 7587 2.022718 AAGACTCTCAAGGAGGTGCT 57.977 50.000 0.00 0.00 45.83 4.40
4903 7588 2.849294 AAAGACTCTCAAGGAGGTGC 57.151 50.000 0.00 0.00 45.83 5.01
4904 7589 3.071602 TGGAAAAGACTCTCAAGGAGGTG 59.928 47.826 0.00 0.00 45.83 4.00
4905 7590 3.318313 TGGAAAAGACTCTCAAGGAGGT 58.682 45.455 0.00 0.00 45.83 3.85
4906 7591 4.357918 TTGGAAAAGACTCTCAAGGAGG 57.642 45.455 0.00 0.00 45.83 4.30
4907 7592 6.319911 ACTTTTTGGAAAAGACTCTCAAGGAG 59.680 38.462 17.31 0.00 46.87 3.69
4908 7593 6.187682 ACTTTTTGGAAAAGACTCTCAAGGA 58.812 36.000 17.31 0.00 0.00 3.36
4909 7594 6.456795 ACTTTTTGGAAAAGACTCTCAAGG 57.543 37.500 17.31 0.00 0.00 3.61
4910 7595 6.460261 GGGACTTTTTGGAAAAGACTCTCAAG 60.460 42.308 17.31 0.00 0.00 3.02
4911 7596 5.359860 GGGACTTTTTGGAAAAGACTCTCAA 59.640 40.000 17.31 0.00 0.00 3.02
4912 7597 4.887655 GGGACTTTTTGGAAAAGACTCTCA 59.112 41.667 17.31 0.00 0.00 3.27
4913 7598 4.887655 TGGGACTTTTTGGAAAAGACTCTC 59.112 41.667 17.31 7.97 0.00 3.20
4914 7599 4.867086 TGGGACTTTTTGGAAAAGACTCT 58.133 39.130 17.31 0.00 0.00 3.24
4915 7600 4.038042 CCTGGGACTTTTTGGAAAAGACTC 59.962 45.833 17.31 12.50 0.00 3.36
4916 7601 3.960755 CCTGGGACTTTTTGGAAAAGACT 59.039 43.478 17.31 0.00 0.00 3.24
4917 7602 3.069586 CCCTGGGACTTTTTGGAAAAGAC 59.930 47.826 7.01 11.96 0.00 3.01
4918 7603 3.052490 TCCCTGGGACTTTTTGGAAAAGA 60.052 43.478 12.53 0.00 0.00 2.52
4919 7604 3.304829 TCCCTGGGACTTTTTGGAAAAG 58.695 45.455 12.53 10.67 0.00 2.27
4920 7605 3.406512 TCCCTGGGACTTTTTGGAAAA 57.593 42.857 12.53 0.00 0.00 2.29
4932 7617 4.079672 TGTTTGTTTTTCTAGTCCCTGGGA 60.080 41.667 12.53 12.53 0.00 4.37
4933 7618 4.037565 GTGTTTGTTTTTCTAGTCCCTGGG 59.962 45.833 6.33 6.33 0.00 4.45
4934 7619 4.037565 GGTGTTTGTTTTTCTAGTCCCTGG 59.962 45.833 0.00 0.00 0.00 4.45
4935 7620 4.642885 TGGTGTTTGTTTTTCTAGTCCCTG 59.357 41.667 0.00 0.00 0.00 4.45
4936 7621 4.643334 GTGGTGTTTGTTTTTCTAGTCCCT 59.357 41.667 0.00 0.00 0.00 4.20
4937 7622 4.202080 GGTGGTGTTTGTTTTTCTAGTCCC 60.202 45.833 0.00 0.00 0.00 4.46
4938 7623 4.643334 AGGTGGTGTTTGTTTTTCTAGTCC 59.357 41.667 0.00 0.00 0.00 3.85
4939 7624 5.355910 TGAGGTGGTGTTTGTTTTTCTAGTC 59.644 40.000 0.00 0.00 0.00 2.59
4940 7625 5.258051 TGAGGTGGTGTTTGTTTTTCTAGT 58.742 37.500 0.00 0.00 0.00 2.57
4941 7626 5.357032 ACTGAGGTGGTGTTTGTTTTTCTAG 59.643 40.000 0.00 0.00 0.00 2.43
4942 7627 5.258051 ACTGAGGTGGTGTTTGTTTTTCTA 58.742 37.500 0.00 0.00 0.00 2.10
4943 7628 4.086457 ACTGAGGTGGTGTTTGTTTTTCT 58.914 39.130 0.00 0.00 0.00 2.52
4944 7629 4.082463 TGACTGAGGTGGTGTTTGTTTTTC 60.082 41.667 0.00 0.00 0.00 2.29
4945 7630 3.829601 TGACTGAGGTGGTGTTTGTTTTT 59.170 39.130 0.00 0.00 0.00 1.94
4946 7631 3.426615 TGACTGAGGTGGTGTTTGTTTT 58.573 40.909 0.00 0.00 0.00 2.43
4947 7632 3.080300 TGACTGAGGTGGTGTTTGTTT 57.920 42.857 0.00 0.00 0.00 2.83
4948 7633 2.799126 TGACTGAGGTGGTGTTTGTT 57.201 45.000 0.00 0.00 0.00 2.83
4949 7634 2.951642 CAATGACTGAGGTGGTGTTTGT 59.048 45.455 0.00 0.00 0.00 2.83
4950 7635 3.213506 TCAATGACTGAGGTGGTGTTTG 58.786 45.455 0.00 0.00 0.00 2.93
4951 7636 3.576078 TCAATGACTGAGGTGGTGTTT 57.424 42.857 0.00 0.00 0.00 2.83
4952 7637 3.576078 TTCAATGACTGAGGTGGTGTT 57.424 42.857 0.00 0.00 34.81 3.32
4953 7638 3.795688 ATTCAATGACTGAGGTGGTGT 57.204 42.857 0.00 0.00 34.81 4.16
4954 7639 5.224888 CAAAATTCAATGACTGAGGTGGTG 58.775 41.667 0.00 0.00 34.81 4.17
4955 7640 4.281688 CCAAAATTCAATGACTGAGGTGGT 59.718 41.667 0.00 0.00 34.81 4.16
4956 7641 4.523943 TCCAAAATTCAATGACTGAGGTGG 59.476 41.667 0.00 0.00 34.81 4.61
4957 7642 5.474532 TCTCCAAAATTCAATGACTGAGGTG 59.525 40.000 0.00 0.00 34.81 4.00
4958 7643 5.634118 TCTCCAAAATTCAATGACTGAGGT 58.366 37.500 0.00 0.00 34.81 3.85
4959 7644 6.602406 AGATCTCCAAAATTCAATGACTGAGG 59.398 38.462 0.00 0.00 34.81 3.86
4960 7645 7.627298 AGATCTCCAAAATTCAATGACTGAG 57.373 36.000 0.00 0.00 34.81 3.35
4961 7646 8.413309 AAAGATCTCCAAAATTCAATGACTGA 57.587 30.769 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.