Multiple sequence alignment - TraesCS3B01G517000

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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 TraesCS3B01G517000 chr3B 100.000 6369 0 0 1 6369 760056821 760050453 0.000000e+00 11762
1 TraesCS3B01G517000 chr7A 91.085 4969 388 28 912 5847 698762264 698767210 0.000000e+00 6671
2 TraesCS3B01G517000 chr7A 90.441 4331 355 25 1548 5847 698849935 698854237 0.000000e+00 5650
3 TraesCS3B01G517000 chr7A 91.176 3411 275 16 2445 5847 699020797 699024189 0.000000e+00 4608
4 TraesCS3B01G517000 chr7A 91.209 1547 122 5 912 2449 699018998 699020539 0.000000e+00 2091
5 TraesCS3B01G517000 chr7A 92.500 560 28 5 1 548 699016254 699016811 0.000000e+00 789
6 TraesCS3B01G517000 chr7A 93.666 521 30 3 1 520 698759504 698760022 0.000000e+00 776
7 TraesCS3B01G517000 chr7A 91.786 560 32 5 1 548 698846243 698846800 0.000000e+00 767
8 TraesCS3B01G517000 chr7A 93.333 195 8 4 546 738 699018609 699018800 3.760000e-72 283
9 TraesCS3B01G517000 chr7A 92.821 195 9 4 546 738 698761874 698762065 1.750000e-70 278
10 TraesCS3B01G517000 chr7A 92.308 195 10 5 546 738 698848604 698848795 8.140000e-69 272
11 TraesCS3B01G517000 chrUn 92.975 4527 281 17 1676 6184 33119428 33123935 0.000000e+00 6564
12 TraesCS3B01G517000 chrUn 90.801 4055 329 21 1832 5856 92707977 92703937 0.000000e+00 5382
13 TraesCS3B01G517000 chrUn 92.971 1949 104 16 1 1936 33117531 33119459 0.000000e+00 2809
14 TraesCS3B01G517000 chrUn 85.437 927 66 32 300 1177 92708958 92708052 0.000000e+00 900
15 TraesCS3B01G517000 chrUn 92.553 188 9 5 6182 6369 33125510 33125692 1.360000e-66 265
16 TraesCS3B01G517000 chr7D 90.385 4420 349 28 1459 5847 606700348 606704722 0.000000e+00 5738
17 TraesCS3B01G517000 chr7D 91.018 1414 70 26 47 1418 606698953 606700351 0.000000e+00 1855
18 TraesCS3B01G517000 chr7D 90.706 1119 89 10 822 1940 607505549 607504446 0.000000e+00 1476
19 TraesCS3B01G517000 chr3A 92.982 3947 254 12 1676 5605 704694760 704690820 0.000000e+00 5733
20 TraesCS3B01G517000 chr3A 92.855 3947 259 11 1676 5605 704780524 704776584 0.000000e+00 5705
21 TraesCS3B01G517000 chr3A 92.535 3898 273 11 2480 6369 704578363 704582250 0.000000e+00 5570
22 TraesCS3B01G517000 chr3A 91.998 3949 268 19 1676 5605 704840580 704836661 0.000000e+00 5498
23 TraesCS3B01G517000 chr3A 92.451 1934 113 19 1 1910 704570311 704572235 0.000000e+00 2732
24 TraesCS3B01G517000 chr3A 91.126 1972 119 17 1 1951 704696651 704694715 0.000000e+00 2621
25 TraesCS3B01G517000 chr3A 91.002 1956 117 18 1 1933 704842472 704840553 0.000000e+00 2582
26 TraesCS3B01G517000 chr3A 90.844 1955 117 20 1 1933 704782524 704780610 0.000000e+00 2562
27 TraesCS3B01G517000 chr3A 90.972 720 43 9 5596 6312 704773861 704773161 0.000000e+00 950
28 TraesCS3B01G517000 chr7B 90.322 4102 339 23 1793 5847 691022486 691026576 0.000000e+00 5323
29 TraesCS3B01G517000 chr7B 89.545 1406 96 21 512 1888 690915271 690916654 0.000000e+00 1735
30 TraesCS3B01G517000 chr7B 89.653 1295 103 13 518 1797 691021325 691022603 0.000000e+00 1620
31 TraesCS3B01G517000 chr7B 87.723 505 54 6 5868 6369 690975154 690975653 3.310000e-162 582
32 TraesCS3B01G517000 chr7B 89.686 223 12 4 518 738 690948745 690948958 2.260000e-69 274
33 TraesCS3B01G517000 chr7B 88.362 232 21 4 1 230 691018461 691018688 2.260000e-69 274


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 TraesCS3B01G517000 chr3B 760050453 760056821 6368 True 11762.000000 11762 100.000000 1 6369 1 chr3B.!!$R1 6368
1 TraesCS3B01G517000 chr7A 698759504 698767210 7706 False 2575.000000 6671 92.524000 1 5847 3 chr7A.!!$F1 5846
2 TraesCS3B01G517000 chr7A 698846243 698854237 7994 False 2229.666667 5650 91.511667 1 5847 3 chr7A.!!$F2 5846
3 TraesCS3B01G517000 chr7A 699016254 699024189 7935 False 1942.750000 4608 92.054500 1 5847 4 chr7A.!!$F3 5846
4 TraesCS3B01G517000 chrUn 33117531 33125692 8161 False 3212.666667 6564 92.833000 1 6369 3 chrUn.!!$F1 6368
5 TraesCS3B01G517000 chrUn 92703937 92708958 5021 True 3141.000000 5382 88.119000 300 5856 2 chrUn.!!$R1 5556
6 TraesCS3B01G517000 chr7D 606698953 606704722 5769 False 3796.500000 5738 90.701500 47 5847 2 chr7D.!!$F1 5800
7 TraesCS3B01G517000 chr7D 607504446 607505549 1103 True 1476.000000 1476 90.706000 822 1940 1 chr7D.!!$R1 1118
8 TraesCS3B01G517000 chr3A 704578363 704582250 3887 False 5570.000000 5570 92.535000 2480 6369 1 chr3A.!!$F2 3889
9 TraesCS3B01G517000 chr3A 704690820 704696651 5831 True 4177.000000 5733 92.054000 1 5605 2 chr3A.!!$R1 5604
10 TraesCS3B01G517000 chr3A 704836661 704842472 5811 True 4040.000000 5498 91.500000 1 5605 2 chr3A.!!$R3 5604
11 TraesCS3B01G517000 chr3A 704773161 704782524 9363 True 3072.333333 5705 91.557000 1 6312 3 chr3A.!!$R2 6311
12 TraesCS3B01G517000 chr3A 704570311 704572235 1924 False 2732.000000 2732 92.451000 1 1910 1 chr3A.!!$F1 1909
13 TraesCS3B01G517000 chr7B 691018461 691026576 8115 False 2405.666667 5323 89.445667 1 5847 3 chr7B.!!$F4 5846
14 TraesCS3B01G517000 chr7B 690915271 690916654 1383 False 1735.000000 1735 89.545000 512 1888 1 chr7B.!!$F1 1376

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
299 2637 1.339097 GTGCATCCGGTACTCCCTAT 58.661 55.0 0.00 0.0 0.0 2.57 F
1592 6330 0.323302 ACATACACATCCACGGCACA 59.677 50.0 0.00 0.0 0.0 4.57 F
2204 7619 0.175073 GACCCCACTATCCACGTGTC 59.825 60.0 15.65 0.0 0.0 3.67 F
2758 8443 1.630126 AATCTCTGCCTCGCCCACAT 61.630 55.0 0.00 0.0 0.0 3.21 F
3730 9440 0.324943 ATATATCCGCCACCCACAGC 59.675 55.0 0.00 0.0 0.0 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1632 6370 0.108138 GTTCGGACTCAGTGGGGATG 60.108 60.000 0.00 0.0 0.00 3.51 R
3453 9163 1.135972 CAACCTTCTTGTCGCAATCGG 60.136 52.381 0.00 0.0 36.13 4.18 R
3629 9339 0.382158 CTCTTATCAGCAGTCGCCGA 59.618 55.000 0.00 0.0 39.83 5.54 R
4571 10294 1.076533 GAATCTTCTCGCGTCCGCAA 61.077 55.000 12.58 0.0 42.06 4.85 R
5372 11096 1.209504 TGGGCAGGCTAACATACAGAC 59.790 52.381 0.00 0.0 0.00 3.51 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
90 93 8.514136 TGAAAATAAAAATGGCAGAAACTACG 57.486 30.769 0.00 0.00 0.00 3.51
91 94 8.138712 TGAAAATAAAAATGGCAGAAACTACGT 58.861 29.630 0.00 0.00 0.00 3.57
104 107 1.395635 ACTACGTACATCCATCGCCA 58.604 50.000 0.00 0.00 0.00 5.69
127 131 3.323979 GGACCACAAGAACTCCACTCTTA 59.676 47.826 0.00 0.00 31.84 2.10
263 302 6.062646 CGAATTTGTGTGTTACTCACTTACG 58.937 40.000 16.72 11.59 46.27 3.18
299 2637 1.339097 GTGCATCCGGTACTCCCTAT 58.661 55.000 0.00 0.00 0.00 2.57
328 2666 7.228706 TGAAACACCCTTGAACTTATCTTCTTC 59.771 37.037 0.00 0.00 0.00 2.87
356 2699 8.424133 AGTGTTTTTCTTCAGATAAAAATGCCT 58.576 29.630 7.03 3.00 37.04 4.75
434 2782 3.517296 TTAGGCCTCCACATTTTCACA 57.483 42.857 9.68 0.00 0.00 3.58
488 2837 1.474478 TGAGACATGAACGCTCTCTCC 59.526 52.381 0.00 0.00 33.00 3.71
591 4807 7.832503 AACATTTGGTGAGAAAAGAACAAAG 57.167 32.000 0.00 0.00 32.24 2.77
644 4867 1.909302 TCCTCTCATGGAAGGAACCAC 59.091 52.381 12.87 0.00 43.03 4.16
741 4997 3.594603 AACTAGCGCATGTACACTCTT 57.405 42.857 11.47 0.00 0.00 2.85
829 5104 2.000803 TCCCTTCTCACCACTCCTCTA 58.999 52.381 0.00 0.00 0.00 2.43
865 5173 6.127281 TGTTCAGTAACTTCAGTTGTGTCCTA 60.127 38.462 2.26 0.00 38.90 2.94
886 5194 4.394439 AAGACGAGGAAGGAAGCTAATC 57.606 45.455 0.00 0.00 0.00 1.75
894 5202 4.019231 AGGAAGGAAGCTAATCGAGGTTTT 60.019 41.667 0.00 0.00 45.96 2.43
895 5203 4.095036 GGAAGGAAGCTAATCGAGGTTTTG 59.905 45.833 0.00 0.00 45.96 2.44
896 5204 3.610911 AGGAAGCTAATCGAGGTTTTGG 58.389 45.455 0.00 0.00 45.96 3.28
897 5205 2.683362 GGAAGCTAATCGAGGTTTTGGG 59.317 50.000 0.00 0.00 45.96 4.12
898 5206 3.344515 GAAGCTAATCGAGGTTTTGGGT 58.655 45.455 0.00 0.00 45.96 4.51
899 5207 3.434940 AGCTAATCGAGGTTTTGGGTT 57.565 42.857 0.00 0.00 29.01 4.11
900 5208 3.081804 AGCTAATCGAGGTTTTGGGTTG 58.918 45.455 0.00 0.00 29.01 3.77
901 5209 2.817844 GCTAATCGAGGTTTTGGGTTGT 59.182 45.455 0.00 0.00 0.00 3.32
902 5210 3.365969 GCTAATCGAGGTTTTGGGTTGTG 60.366 47.826 0.00 0.00 0.00 3.33
903 5211 2.358322 ATCGAGGTTTTGGGTTGTGT 57.642 45.000 0.00 0.00 0.00 3.72
904 5212 2.131776 TCGAGGTTTTGGGTTGTGTT 57.868 45.000 0.00 0.00 0.00 3.32
905 5213 2.018515 TCGAGGTTTTGGGTTGTGTTC 58.981 47.619 0.00 0.00 0.00 3.18
906 5214 2.021457 CGAGGTTTTGGGTTGTGTTCT 58.979 47.619 0.00 0.00 0.00 3.01
907 5215 2.425668 CGAGGTTTTGGGTTGTGTTCTT 59.574 45.455 0.00 0.00 0.00 2.52
908 5216 3.628487 CGAGGTTTTGGGTTGTGTTCTTA 59.372 43.478 0.00 0.00 0.00 2.10
909 5217 4.261031 CGAGGTTTTGGGTTGTGTTCTTAG 60.261 45.833 0.00 0.00 0.00 2.18
910 5218 4.862371 AGGTTTTGGGTTGTGTTCTTAGA 58.138 39.130 0.00 0.00 0.00 2.10
938 5268 2.788786 GTGAGGTTTGCGTTGATTTGTG 59.211 45.455 0.00 0.00 0.00 3.33
949 5279 5.174761 TGCGTTGATTTGTGTTTTAATCAGC 59.825 36.000 0.00 0.00 40.65 4.26
961 5291 8.816144 TGTGTTTTAATCAGCATTTTTCTTGAC 58.184 29.630 0.00 0.00 0.00 3.18
1113 5443 3.114616 CGCGTCTGCCTCAAGGTG 61.115 66.667 0.00 0.00 38.08 4.00
1217 5547 5.185828 GGGCCTTGTGATCTATTTGTTTCTT 59.814 40.000 0.84 0.00 0.00 2.52
1231 5561 6.689178 TTTGTTTCTTTGCGAATAATGCTC 57.311 33.333 0.00 0.00 0.00 4.26
1267 5603 0.739813 CGACGGTGAGGGATGGAAAC 60.740 60.000 0.00 0.00 0.00 2.78
1310 5646 1.004440 GGGAAGCAGCAGTTCGACT 60.004 57.895 0.00 0.00 0.00 4.18
1320 5656 2.027745 AGCAGTTCGACTTGGTCATCAT 60.028 45.455 0.00 0.00 32.09 2.45
1372 5708 3.038280 CTCCTCGAGCTCATCCGG 58.962 66.667 15.40 7.82 0.00 5.14
1447 5878 5.296531 GTCCAATTTTTGTGTTTTGCATCCT 59.703 36.000 0.00 0.00 0.00 3.24
1450 5881 5.754543 ATTTTTGTGTTTTGCATCCTTGG 57.245 34.783 0.00 0.00 0.00 3.61
1532 5963 7.838696 TGAGAGGATATTAATTTCTTTGGGCAA 59.161 33.333 5.97 0.00 0.00 4.52
1540 5971 3.451141 TTTCTTTGGGCAACATGTGAC 57.549 42.857 0.00 0.00 39.74 3.67
1583 6321 8.181573 ACGATTTTATGAAACCACATACACATC 58.818 33.333 0.00 0.00 33.31 3.06
1592 6330 0.323302 ACATACACATCCACGGCACA 59.677 50.000 0.00 0.00 0.00 4.57
1593 6331 1.065491 ACATACACATCCACGGCACAT 60.065 47.619 0.00 0.00 0.00 3.21
1629 6367 8.437274 TCTAACCTGGAAGAGTTCTAAAGAAT 57.563 34.615 0.00 0.00 33.75 2.40
1632 6370 4.637977 CCTGGAAGAGTTCTAAAGAATGGC 59.362 45.833 0.00 0.00 33.75 4.40
1706 6460 1.760875 GGATGGCGAGTGGGGTAGA 60.761 63.158 0.00 0.00 0.00 2.59
1723 6477 2.604686 AAGAGCGGAGGTGGAGCA 60.605 61.111 0.00 0.00 39.88 4.26
1745 6613 3.786553 ACACATGAGTTAGTAGGGGACA 58.213 45.455 0.00 0.00 0.00 4.02
1800 6751 4.150359 ACTATCTAACCATCCGTCCGATT 58.850 43.478 0.00 0.00 0.00 3.34
1911 7316 5.104735 GGATCCTATCTAACCATCCATCCAC 60.105 48.000 3.84 0.00 34.27 4.02
1912 7317 5.093236 TCCTATCTAACCATCCATCCACT 57.907 43.478 0.00 0.00 0.00 4.00
1953 7358 3.617284 GAAGGGGAACAAACGTGGATAT 58.383 45.455 0.00 0.00 0.00 1.63
2018 7423 5.452077 GGTTGATAGTGTTCAGTAGGCTAGG 60.452 48.000 0.00 0.00 0.00 3.02
2031 7436 0.179000 GGCTAGGGACATGGTCACTG 59.821 60.000 11.24 3.16 46.64 3.66
2032 7437 0.179000 GCTAGGGACATGGTCACTGG 59.821 60.000 11.24 9.33 46.64 4.00
2064 7473 4.535425 GTGAGAGTCCGTGTCACG 57.465 61.111 18.54 18.54 39.48 4.35
2065 7474 1.947013 GTGAGAGTCCGTGTCACGA 59.053 57.895 26.53 9.94 46.05 4.35
2066 7475 0.385723 GTGAGAGTCCGTGTCACGAC 60.386 60.000 26.53 20.12 46.05 4.34
2108 7517 2.869503 ATCCACGTGTTCGATGGGCC 62.870 60.000 15.65 0.00 38.12 5.80
2132 7542 8.734386 GCCTATTTATGGACCATCTAGAATTTG 58.266 37.037 11.17 4.29 0.00 2.32
2161 7571 9.681062 TTTATAAATGAGTAGCTTGGCTTAGTT 57.319 29.630 0.00 0.00 40.44 2.24
2204 7619 0.175073 GACCCCACTATCCACGTGTC 59.825 60.000 15.65 0.00 0.00 3.67
2398 7822 6.867816 CACAAAGTATACAATTGCACCACATT 59.132 34.615 16.81 0.00 0.00 2.71
2599 8284 7.850935 AGTAGGTTAACCATGGGTAATACCTAA 59.149 37.037 30.04 17.77 40.91 2.69
2645 8330 7.561021 TTGAACAAGCACACTAATTTGTAGA 57.439 32.000 0.00 0.00 33.70 2.59
2690 8375 4.380023 GCAACCGCACATACTTATTTTCCA 60.380 41.667 0.00 0.00 38.36 3.53
2697 8382 7.128331 CGCACATACTTATTTTCCAGAATCTG 58.872 38.462 2.68 2.68 0.00 2.90
2719 8404 9.646522 ATCTGTACTATTAATGCCCAAAAATCT 57.353 29.630 0.00 0.00 0.00 2.40
2727 8412 2.247358 TGCCCAAAAATCTTCCCAGAC 58.753 47.619 0.00 0.00 0.00 3.51
2758 8443 1.630126 AATCTCTGCCTCGCCCACAT 61.630 55.000 0.00 0.00 0.00 3.21
2904 8602 4.956085 TGGACGGGAGTATCACATTAATG 58.044 43.478 14.01 14.01 39.81 1.90
3035 8735 4.965119 AAAAAGGCTATCGACAATGGTC 57.035 40.909 0.00 0.00 40.77 4.02
3156 8856 8.129211 GGTTGACTGCCAATAATATTACTTGAC 58.871 37.037 14.26 7.55 37.08 3.18
3229 8933 3.388024 ACATGTCGTGATATGGCTTAGGT 59.612 43.478 10.70 0.00 34.70 3.08
3278 8982 7.824779 AGCCATTATTTCCGTATCTTCCTATTC 59.175 37.037 0.00 0.00 0.00 1.75
3299 9003 6.917217 TTCAATGTGTGAAAAATTTCCCAC 57.083 33.333 12.64 12.64 43.43 4.61
3629 9339 4.285517 ACAGTGATGTCCAGAGAGTTCAAT 59.714 41.667 0.00 0.00 0.00 2.57
3631 9341 3.862267 GTGATGTCCAGAGAGTTCAATCG 59.138 47.826 0.00 0.00 0.00 3.34
3730 9440 0.324943 ATATATCCGCCACCCACAGC 59.675 55.000 0.00 0.00 0.00 4.40
3760 9470 3.609853 GGTGACATGGACAATTGAGCTA 58.390 45.455 13.59 1.96 0.00 3.32
3763 9473 4.002982 TGACATGGACAATTGAGCTACAC 58.997 43.478 13.59 0.00 0.00 2.90
3773 9483 6.630071 ACAATTGAGCTACACAACAAGTTTT 58.370 32.000 13.59 0.00 0.00 2.43
3846 9559 3.691118 CCTCATTCATCGACAATGTTGGT 59.309 43.478 15.28 0.00 36.68 3.67
3988 9701 7.608761 ACAGGTTTATTTTCGACCTTTATGCTA 59.391 33.333 0.00 0.00 41.72 3.49
4001 9714 9.651718 CGACCTTTATGCTAAATTTCTATGTTC 57.348 33.333 0.00 0.00 0.00 3.18
4179 9895 3.652055 TGCATGCCCCATATTTTTAGGT 58.348 40.909 16.68 0.00 0.00 3.08
4236 9953 7.966246 TTTGTACTCACATGTTTACCGTTAT 57.034 32.000 0.00 0.00 33.76 1.89
4279 10001 7.880160 TCCATCTCATACCTTGTTATTTTGG 57.120 36.000 0.00 0.00 0.00 3.28
4282 10004 6.757897 TCTCATACCTTGTTATTTTGGCTG 57.242 37.500 0.00 0.00 0.00 4.85
4283 10005 5.125417 TCTCATACCTTGTTATTTTGGCTGC 59.875 40.000 0.00 0.00 0.00 5.25
4337 10059 6.396829 AAAAAGAGTCAACTCAAATCCCTG 57.603 37.500 12.43 0.00 45.21 4.45
4341 10063 1.541588 GTCAACTCAAATCCCTGTGGC 59.458 52.381 0.00 0.00 0.00 5.01
4342 10064 1.144708 TCAACTCAAATCCCTGTGGCA 59.855 47.619 0.00 0.00 0.00 4.92
4468 10191 7.398829 TGCCTCTTGGAGTACAAACAATTATA 58.601 34.615 0.00 0.00 38.91 0.98
4491 10214 2.448582 AACGGGTCACTTGGCTCCA 61.449 57.895 0.00 0.00 0.00 3.86
4514 10237 4.240096 CCAATGAACATCCAAAGCAACTC 58.760 43.478 0.00 0.00 0.00 3.01
4578 10301 0.741915 TTGGGAAACAACTTGCGGAC 59.258 50.000 0.00 0.00 33.18 4.79
4743 10466 1.128200 AAGGCAAAACCCCTTCCAAC 58.872 50.000 0.00 0.00 38.25 3.77
4882 10605 3.731089 CCTCTGCAAAATGAAAAGGCAA 58.269 40.909 0.00 0.00 33.58 4.52
4962 10685 1.370900 GGCAAGCAACACAAGCTCG 60.371 57.895 0.00 0.00 42.53 5.03
5017 10740 5.929697 TGATGCAAGTAGAACTTCAACTG 57.070 39.130 0.00 0.00 36.03 3.16
5070 10793 2.417719 ACTTCGATGCTTCACAACCTC 58.582 47.619 0.00 0.00 0.00 3.85
5073 10796 1.071542 TCGATGCTTCACAACCTCCAA 59.928 47.619 0.08 0.00 0.00 3.53
5080 10803 3.367910 GCTTCACAACCTCCAAACAAACA 60.368 43.478 0.00 0.00 0.00 2.83
5092 10815 6.476706 CCTCCAAACAAACAATTTCTTCTCAC 59.523 38.462 0.00 0.00 0.00 3.51
5100 10823 7.121168 ACAAACAATTTCTTCTCACTGACTCAA 59.879 33.333 0.00 0.00 0.00 3.02
5102 10825 5.529060 ACAATTTCTTCTCACTGACTCAACC 59.471 40.000 0.00 0.00 0.00 3.77
5160 10883 2.294233 GCAAGAAGGCACACTTGATCAA 59.706 45.455 8.12 8.12 43.49 2.57
5180 10903 6.817765 TCAACAACCTCTTAATGATCAACC 57.182 37.500 0.00 0.00 0.00 3.77
5244 10967 2.163818 TGCACCTGGAAGTAAGAACG 57.836 50.000 0.00 0.00 0.00 3.95
5372 11096 3.459232 TCGTGGAAGAAGCATGATAGG 57.541 47.619 0.00 0.00 0.00 2.57
5395 11119 1.352687 TGTATGTTAGCCTGCCCAACA 59.647 47.619 8.72 8.72 36.66 3.33
5396 11120 2.224892 TGTATGTTAGCCTGCCCAACAA 60.225 45.455 9.95 0.58 35.91 2.83
5427 11151 5.055144 GCTTGATCAAGAGTATCATGCTCA 58.945 41.667 34.43 0.00 44.71 4.26
5462 11187 3.424703 AGGCAATAGTGTGCTTTGACAT 58.575 40.909 0.00 0.00 44.31 3.06
5532 11257 7.234782 TGGTTCTTTGAGATACACTTCCTCTTA 59.765 37.037 0.00 0.00 0.00 2.10
5562 11287 2.802247 TGAGAATTGACGTGTTCTGCAG 59.198 45.455 7.63 7.63 34.97 4.41
5661 12899 7.420800 GGTTAGCATCCTGATAATCAAAACAG 58.579 38.462 0.00 0.00 30.32 3.16
5687 14144 9.495572 GTAATGCTTCTTGAAGCCTATAGTAAT 57.504 33.333 26.29 12.02 44.89 1.89
5724 14181 9.575868 TTATAACTGGGATAAACTTGTTTGTCA 57.424 29.630 19.32 5.28 0.00 3.58
5725 14182 6.783708 AACTGGGATAAACTTGTTTGTCAA 57.216 33.333 19.32 9.79 34.61 3.18
5747 14204 5.160607 ACCATCATGTTTTTACCTCGAGA 57.839 39.130 15.71 0.00 0.00 4.04
5752 14209 5.800296 TCATGTTTTTACCTCGAGATGGAA 58.200 37.500 15.71 0.00 0.00 3.53
5773 14230 2.450609 ACTAAGTGCCAGGTGTTACG 57.549 50.000 0.00 0.00 0.00 3.18
5889 14346 4.945543 CAGCTATCTGGCCATATTATTGCA 59.054 41.667 5.51 0.00 36.68 4.08
5895 14352 0.871722 GCCATATTATTGCACGCCGA 59.128 50.000 0.00 0.00 0.00 5.54
5924 14381 3.057596 GGACCAACAAAGCATCGAAATCA 60.058 43.478 0.00 0.00 0.00 2.57
5925 14382 4.380867 GGACCAACAAAGCATCGAAATCAT 60.381 41.667 0.00 0.00 0.00 2.45
5926 14383 4.487948 ACCAACAAAGCATCGAAATCATG 58.512 39.130 0.00 0.00 0.00 3.07
5927 14384 4.022068 ACCAACAAAGCATCGAAATCATGT 60.022 37.500 0.00 0.00 0.00 3.21
5928 14385 4.560035 CCAACAAAGCATCGAAATCATGTC 59.440 41.667 0.00 0.00 0.00 3.06
5929 14386 4.361451 ACAAAGCATCGAAATCATGTCC 57.639 40.909 0.00 0.00 0.00 4.02
5930 14387 3.758023 ACAAAGCATCGAAATCATGTCCA 59.242 39.130 0.00 0.00 0.00 4.02
5931 14388 4.218200 ACAAAGCATCGAAATCATGTCCAA 59.782 37.500 0.00 0.00 0.00 3.53
5932 14389 5.162794 CAAAGCATCGAAATCATGTCCAAA 58.837 37.500 0.00 0.00 0.00 3.28
5933 14390 5.587388 AAGCATCGAAATCATGTCCAAAT 57.413 34.783 0.00 0.00 0.00 2.32
5934 14391 5.587388 AGCATCGAAATCATGTCCAAATT 57.413 34.783 0.00 0.00 0.00 1.82
5981 14449 7.337938 ACACTTTGGTCAATGGAAAAGAAATT 58.662 30.769 1.93 0.00 34.47 1.82
6050 14523 1.065199 GCCCACATGATCTTCACCAGA 60.065 52.381 0.00 0.00 35.33 3.86
6062 14535 7.270779 TGATCTTCACCAGAATACATGAGAAG 58.729 38.462 0.00 0.00 34.16 2.85
6065 14538 7.099764 TCTTCACCAGAATACATGAGAAGAAC 58.900 38.462 0.00 0.00 36.54 3.01
6076 14549 9.857656 AATACATGAGAAGAACATATGGTCAAT 57.142 29.630 22.52 10.91 33.22 2.57
6091 14564 2.225017 GGTCAATGTTTTCTCCCTCCCA 60.225 50.000 0.00 0.00 0.00 4.37
6092 14565 3.084786 GTCAATGTTTTCTCCCTCCCAG 58.915 50.000 0.00 0.00 0.00 4.45
6093 14566 2.041620 TCAATGTTTTCTCCCTCCCAGG 59.958 50.000 0.00 0.00 34.30 4.45
6128 14603 3.495806 CCATTAGAAGGGCCATGTCTCTC 60.496 52.174 6.18 0.00 0.00 3.20
6136 14611 1.153489 CCATGTCTCTCAGCCACCG 60.153 63.158 0.00 0.00 0.00 4.94
6142 14617 1.039785 TCTCTCAGCCACCGGATCAG 61.040 60.000 9.46 0.00 0.00 2.90
6165 14640 3.805422 CAGTAAGCAACGTTACCAGACAA 59.195 43.478 0.00 0.00 33.98 3.18
6203 16254 8.603242 CACTTTAGTTTTAAGTGGAAGCTAGA 57.397 34.615 7.64 0.00 45.46 2.43
6204 16255 9.220767 CACTTTAGTTTTAAGTGGAAGCTAGAT 57.779 33.333 7.64 0.00 45.46 1.98
6224 16275 7.015682 GCTAGATATATATGCTAAGGGAGGCAA 59.984 40.741 0.00 0.00 41.90 4.52
6350 16401 1.557371 TCCCGCATATGGTTTCAGACA 59.443 47.619 4.56 0.00 0.00 3.41
6351 16402 1.942657 CCCGCATATGGTTTCAGACAG 59.057 52.381 4.56 0.00 0.00 3.51
6354 16405 3.002791 CGCATATGGTTTCAGACAGTGT 58.997 45.455 4.56 0.00 0.00 3.55
6355 16406 3.181517 CGCATATGGTTTCAGACAGTGTG 60.182 47.826 0.00 0.00 0.00 3.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
90 93 0.249911 GGTCCTGGCGATGGATGTAC 60.250 60.000 0.00 0.00 35.87 2.90
91 94 0.689412 TGGTCCTGGCGATGGATGTA 60.689 55.000 0.00 0.00 35.87 2.29
104 107 1.694696 GAGTGGAGTTCTTGTGGTCCT 59.305 52.381 0.00 0.00 0.00 3.85
127 131 9.445973 AGAAGAGAGAAAGAAATACAGGGATAT 57.554 33.333 0.00 0.00 0.00 1.63
299 2637 6.601332 AGATAAGTTCAAGGGTGTTTCAGAA 58.399 36.000 0.00 0.00 0.00 3.02
328 2666 9.853921 GCATTTTTATCTGAAGAAAAACACTTG 57.146 29.630 12.84 9.80 38.12 3.16
397 2740 3.339141 CCTAAACTCAAGGAGTGGAAGC 58.661 50.000 0.00 0.00 42.59 3.86
741 4997 0.033504 GAGTGGAAGTCTTGCGGTCA 59.966 55.000 0.00 0.00 32.13 4.02
829 5104 6.488683 TGAAGTTACTGAACAATCCGGATTTT 59.511 34.615 27.21 21.98 38.10 1.82
865 5173 3.181485 CGATTAGCTTCCTTCCTCGTCTT 60.181 47.826 0.00 0.00 0.00 3.01
877 5185 3.344515 ACCCAAAACCTCGATTAGCTTC 58.655 45.455 0.00 0.00 0.00 3.86
878 5186 3.434940 ACCCAAAACCTCGATTAGCTT 57.565 42.857 0.00 0.00 0.00 3.74
879 5187 3.081804 CAACCCAAAACCTCGATTAGCT 58.918 45.455 0.00 0.00 0.00 3.32
880 5188 2.817844 ACAACCCAAAACCTCGATTAGC 59.182 45.455 0.00 0.00 0.00 3.09
886 5194 2.021457 AGAACACAACCCAAAACCTCG 58.979 47.619 0.00 0.00 0.00 4.63
894 5202 3.153919 GCCAATCTAAGAACACAACCCA 58.846 45.455 0.00 0.00 0.00 4.51
895 5203 3.191371 CAGCCAATCTAAGAACACAACCC 59.809 47.826 0.00 0.00 0.00 4.11
896 5204 3.821033 ACAGCCAATCTAAGAACACAACC 59.179 43.478 0.00 0.00 0.00 3.77
897 5205 4.515191 TCACAGCCAATCTAAGAACACAAC 59.485 41.667 0.00 0.00 0.00 3.32
898 5206 4.713553 TCACAGCCAATCTAAGAACACAA 58.286 39.130 0.00 0.00 0.00 3.33
899 5207 4.318332 CTCACAGCCAATCTAAGAACACA 58.682 43.478 0.00 0.00 0.00 3.72
900 5208 3.686726 CCTCACAGCCAATCTAAGAACAC 59.313 47.826 0.00 0.00 0.00 3.32
901 5209 3.327757 ACCTCACAGCCAATCTAAGAACA 59.672 43.478 0.00 0.00 0.00 3.18
902 5210 3.944087 ACCTCACAGCCAATCTAAGAAC 58.056 45.455 0.00 0.00 0.00 3.01
903 5211 4.640771 AACCTCACAGCCAATCTAAGAA 57.359 40.909 0.00 0.00 0.00 2.52
904 5212 4.326826 CAAACCTCACAGCCAATCTAAGA 58.673 43.478 0.00 0.00 0.00 2.10
905 5213 3.119708 GCAAACCTCACAGCCAATCTAAG 60.120 47.826 0.00 0.00 0.00 2.18
906 5214 2.819608 GCAAACCTCACAGCCAATCTAA 59.180 45.455 0.00 0.00 0.00 2.10
907 5215 2.436417 GCAAACCTCACAGCCAATCTA 58.564 47.619 0.00 0.00 0.00 1.98
908 5216 1.251251 GCAAACCTCACAGCCAATCT 58.749 50.000 0.00 0.00 0.00 2.40
909 5217 0.109597 CGCAAACCTCACAGCCAATC 60.110 55.000 0.00 0.00 0.00 2.67
910 5218 0.823356 ACGCAAACCTCACAGCCAAT 60.823 50.000 0.00 0.00 0.00 3.16
938 5268 7.501515 CCGTCAAGAAAAATGCTGATTAAAAC 58.498 34.615 0.00 0.00 0.00 2.43
949 5279 2.097444 GCAAACGCCGTCAAGAAAAATG 60.097 45.455 0.00 0.00 0.00 2.32
961 5291 1.371635 CCTGGAAAAGCAAACGCCG 60.372 57.895 0.00 0.00 0.00 6.46
1113 5443 2.873288 CGCAAGAGGGCTTCAAGC 59.127 61.111 0.00 0.00 39.72 4.01
1217 5547 0.657312 CGGCAGAGCATTATTCGCAA 59.343 50.000 0.00 0.00 0.00 4.85
1267 5603 4.827087 AGCATCCTCAGCGCCGTG 62.827 66.667 2.29 0.00 37.01 4.94
1310 5646 1.075979 CGCACGTCGATGATGACCAA 61.076 55.000 12.58 0.00 41.67 3.67
1372 5708 1.005156 GGGCAGATCCATCTCGAGC 60.005 63.158 7.81 0.00 34.22 5.03
1447 5878 7.050377 TCTTAAAAACAATTGTCAATGCCCAA 58.950 30.769 12.39 0.00 0.00 4.12
1450 5881 7.062848 CGTTCTTAAAAACAATTGTCAATGCC 58.937 34.615 12.39 0.00 0.00 4.40
1583 6321 0.462581 ATAGAGTGCATGTGCCGTGG 60.463 55.000 2.07 0.00 41.18 4.94
1592 6330 5.957771 TCCAGGTTAGAAATAGAGTGCAT 57.042 39.130 0.00 0.00 0.00 3.96
1593 6331 5.483937 TCTTCCAGGTTAGAAATAGAGTGCA 59.516 40.000 0.00 0.00 0.00 4.57
1629 6367 2.300967 GGACTCAGTGGGGATGCCA 61.301 63.158 5.30 0.00 0.00 4.92
1632 6370 0.108138 GTTCGGACTCAGTGGGGATG 60.108 60.000 0.00 0.00 0.00 3.51
1706 6460 2.217038 TTGCTCCACCTCCGCTCTT 61.217 57.895 0.00 0.00 0.00 2.85
1723 6477 4.164981 TGTCCCCTACTAACTCATGTGTT 58.835 43.478 16.63 16.63 0.00 3.32
1745 6613 4.497291 TTGGGCTAGAAACCGACAATAT 57.503 40.909 0.00 0.00 0.00 1.28
1778 6729 3.219176 TCGGACGGATGGTTAGATAGT 57.781 47.619 0.00 0.00 0.00 2.12
1911 7316 1.552337 CCCACCATCCATCCGATCTAG 59.448 57.143 0.00 0.00 0.00 2.43
1912 7317 1.644509 CCCACCATCCATCCGATCTA 58.355 55.000 0.00 0.00 0.00 1.98
1953 7358 5.551305 ATTGGGATCTCATAATCACGTGA 57.449 39.130 22.48 22.48 31.31 4.35
2007 7412 1.689273 GACCATGTCCCTAGCCTACTG 59.311 57.143 0.00 0.00 0.00 2.74
2018 7423 1.755179 CCATTCCAGTGACCATGTCC 58.245 55.000 0.00 0.00 0.00 4.02
2031 7436 3.567397 TCTCACTAGGACTAGCCATTCC 58.433 50.000 6.28 0.00 40.02 3.01
2032 7437 4.211920 ACTCTCACTAGGACTAGCCATTC 58.788 47.826 6.28 0.00 40.02 2.67
2064 7473 7.047891 TGTGGAATCTATGTTACATTGGAGTC 58.952 38.462 2.23 10.70 0.00 3.36
2065 7474 6.957631 TGTGGAATCTATGTTACATTGGAGT 58.042 36.000 2.23 2.10 0.00 3.85
2066 7475 7.173907 GGATGTGGAATCTATGTTACATTGGAG 59.826 40.741 2.23 0.00 0.00 3.86
2150 7560 7.284489 AGTGATAGAGACTCTAACTAAGCCAAG 59.716 40.741 16.04 0.00 31.96 3.61
2161 7571 7.934665 GTCTACATTGGAGTGATAGAGACTCTA 59.065 40.741 14.53 14.53 39.91 2.43
2204 7619 6.444633 AGATGTCCATAAATACTACGAACGG 58.555 40.000 0.00 0.00 0.00 4.44
2398 7822 2.591923 TCATGCAACCCTAGCAAACAA 58.408 42.857 0.00 0.00 46.27 2.83
2599 8284 9.979578 TTCAAAGTCAACAAATATGCAGTATTT 57.020 25.926 0.00 0.61 42.36 1.40
2673 8358 7.989826 ACAGATTCTGGAAAATAAGTATGTGC 58.010 34.615 17.66 0.00 35.51 4.57
2690 8375 9.474313 TTTTTGGGCATTAATAGTACAGATTCT 57.526 29.630 0.00 0.00 0.00 2.40
2697 8382 8.141909 GGGAAGATTTTTGGGCATTAATAGTAC 58.858 37.037 0.00 0.00 0.00 2.73
2904 8602 5.050499 CCAGTGCTCGATGATACTTTTCATC 60.050 44.000 4.70 4.70 45.59 2.92
3019 8719 2.622064 AAGGACCATTGTCGATAGCC 57.378 50.000 0.00 0.00 42.73 3.93
3025 8725 8.696175 GTTTTTAAATGTTAAGGACCATTGTCG 58.304 33.333 0.00 0.00 42.73 4.35
3156 8856 6.127054 TGTCTATCTATTGGTGAACCTGAAGG 60.127 42.308 0.37 0.00 42.17 3.46
3175 8879 6.666678 AGGGAAAACACATCATCATGTCTAT 58.333 36.000 0.00 0.00 41.69 1.98
3229 8933 8.235905 GGCTAAAACAATAACGGTAACACAATA 58.764 33.333 0.00 0.00 0.00 1.90
3291 8995 4.922206 TCAATGCAGACTAAGTGGGAAAT 58.078 39.130 0.00 0.00 0.00 2.17
3453 9163 1.135972 CAACCTTCTTGTCGCAATCGG 60.136 52.381 0.00 0.00 36.13 4.18
3629 9339 0.382158 CTCTTATCAGCAGTCGCCGA 59.618 55.000 0.00 0.00 39.83 5.54
3631 9341 3.181485 ACTTACTCTTATCAGCAGTCGCC 60.181 47.826 0.00 0.00 39.83 5.54
3643 9353 9.075678 CTCTTATTCCCCGATAACTTACTCTTA 57.924 37.037 0.00 0.00 0.00 2.10
3730 9440 1.679977 CCATGTCACCCTGGGCTTG 60.680 63.158 14.08 4.61 0.00 4.01
3760 9470 8.220755 TGATAGCTTCTAAAAACTTGTTGTGT 57.779 30.769 0.00 0.00 0.00 3.72
3763 9473 8.134895 TGGTTGATAGCTTCTAAAAACTTGTTG 58.865 33.333 0.00 0.00 0.00 3.33
3773 9483 5.126067 GCCAATCTGGTTGATAGCTTCTAA 58.874 41.667 1.35 0.00 40.46 2.10
4179 9895 6.849085 AGATGTTGCATGGGTAAAAATACA 57.151 33.333 0.00 0.00 0.00 2.29
4253 9975 8.571336 CCAAAATAACAAGGTATGAGATGGATC 58.429 37.037 0.00 0.00 0.00 3.36
4279 10001 8.893727 TCTATACTTCTGAAATAAAAAGGCAGC 58.106 33.333 0.00 0.00 0.00 5.25
4337 10059 4.038282 TCCATCTTTCATATGCATTGCCAC 59.962 41.667 3.54 0.00 0.00 5.01
4341 10063 7.034685 TGAGTTCCATCTTTCATATGCATTG 57.965 36.000 3.54 3.42 0.00 2.82
4342 10064 7.834881 ATGAGTTCCATCTTTCATATGCATT 57.165 32.000 3.54 0.00 0.00 3.56
4468 10191 1.525995 CCAAGTGACCCGTTGCACT 60.526 57.895 0.00 0.00 46.59 4.40
4491 10214 3.642848 AGTTGCTTTGGATGTTCATTGGT 59.357 39.130 0.00 0.00 0.00 3.67
4494 10217 4.154942 AGGAGTTGCTTTGGATGTTCATT 58.845 39.130 0.00 0.00 0.00 2.57
4514 10237 1.978580 GGAGGTATGACCCCATGTAGG 59.021 57.143 0.00 0.00 39.75 3.18
4571 10294 1.076533 GAATCTTCTCGCGTCCGCAA 61.077 55.000 12.58 0.00 42.06 4.85
4572 10295 1.516386 GAATCTTCTCGCGTCCGCA 60.516 57.895 12.58 0.00 42.06 5.69
4573 10296 1.516386 TGAATCTTCTCGCGTCCGC 60.516 57.895 5.77 0.68 37.85 5.54
4578 10301 1.714794 AACCTGTGAATCTTCTCGCG 58.285 50.000 0.00 0.00 0.00 5.87
4672 10395 9.935241 CATGAGGTCAGCATAGTAATTACTATT 57.065 33.333 28.07 16.52 44.75 1.73
4682 10405 2.093288 CCACACATGAGGTCAGCATAGT 60.093 50.000 0.00 0.00 0.00 2.12
4743 10466 5.689514 TGTATTTGCAAATGAACTTTGACGG 59.310 36.000 30.43 0.00 45.96 4.79
4882 10605 4.766373 TGATGTGGTGTTGCTTATGAATGT 59.234 37.500 0.00 0.00 0.00 2.71
4962 10685 5.239525 GCTACCATTCAACATCATTCCTACC 59.760 44.000 0.00 0.00 0.00 3.18
5017 10740 5.809562 CACTGTTGACCAGATGAGTATCTTC 59.190 44.000 0.00 0.00 44.49 2.87
5044 10767 3.585862 TGTGAAGCATCGAAGTAGTTCC 58.414 45.455 4.70 0.00 0.00 3.62
5070 10793 7.009540 GTCAGTGAGAAGAAATTGTTTGTTTGG 59.990 37.037 0.00 0.00 0.00 3.28
5073 10796 7.121168 TGAGTCAGTGAGAAGAAATTGTTTGTT 59.879 33.333 0.00 0.00 0.00 2.83
5080 10803 5.529060 GTGGTTGAGTCAGTGAGAAGAAATT 59.471 40.000 0.00 0.00 0.00 1.82
5102 10825 1.825191 CCATCCCCGCCATCAAGTG 60.825 63.158 0.00 0.00 0.00 3.16
5160 10883 5.160607 TCGGTTGATCATTAAGAGGTTGT 57.839 39.130 0.00 0.00 0.00 3.32
5180 10903 5.239359 TGAGAAGGCATTGATTTCATTCG 57.761 39.130 0.00 0.00 0.00 3.34
5244 10967 8.261908 GCGCATAAATTCATACAAATGAGAAAC 58.738 33.333 0.30 0.00 42.97 2.78
5372 11096 1.209504 TGGGCAGGCTAACATACAGAC 59.790 52.381 0.00 0.00 0.00 3.51
5395 11119 5.163281 ACTCTTGATCAAGCATCTCACTT 57.837 39.130 27.45 3.79 38.28 3.16
5396 11120 4.822685 ACTCTTGATCAAGCATCTCACT 57.177 40.909 27.45 3.55 38.28 3.41
5450 11175 2.955477 TGCAAACATGTCAAAGCACA 57.045 40.000 0.00 0.00 0.00 4.57
5462 11187 9.838975 CTACACATATCACTATTTTTGCAAACA 57.161 29.630 12.39 5.81 0.00 2.83
5532 11257 6.801539 ACACGTCAATTCTCAATGTTATGT 57.198 33.333 0.00 0.00 0.00 2.29
5562 11287 2.890945 AGGGTGGTGTTTATGCTTGTTC 59.109 45.455 0.00 0.00 0.00 3.18
5593 11318 6.821665 ACCATAAGACTTGTATTACGCACAAT 59.178 34.615 0.00 0.00 35.46 2.71
5687 14144 5.765576 TCCCAGTTATAAAGTGTGCCTTA 57.234 39.130 0.00 0.00 31.48 2.69
5703 14160 5.068591 GGTTGACAAACAAGTTTATCCCAGT 59.931 40.000 0.00 0.00 39.30 4.00
5723 14180 5.411361 TCTCGAGGTAAAAACATGATGGTTG 59.589 40.000 13.56 0.00 0.00 3.77
5724 14181 5.556915 TCTCGAGGTAAAAACATGATGGTT 58.443 37.500 13.56 0.00 0.00 3.67
5725 14182 5.160607 TCTCGAGGTAAAAACATGATGGT 57.839 39.130 13.56 0.00 0.00 3.55
5747 14204 3.523564 ACACCTGGCACTTAGTATTCCAT 59.476 43.478 0.00 0.00 0.00 3.41
5752 14209 3.677976 GCGTAACACCTGGCACTTAGTAT 60.678 47.826 0.00 0.00 0.00 2.12
5773 14230 6.868864 TGAAGAATATACGGCTCTAATGAAGC 59.131 38.462 0.00 0.00 0.00 3.86
5889 14346 2.281276 GGTCCTTTTGGTCGGCGT 60.281 61.111 6.85 0.00 41.38 5.68
5895 14352 2.183679 TGCTTTGTTGGTCCTTTTGGT 58.816 42.857 0.00 0.00 41.38 3.67
5924 14381 8.618702 TTTGCATTGAAACATAATTTGGACAT 57.381 26.923 0.00 0.00 0.00 3.06
5925 14382 7.930325 TCTTTGCATTGAAACATAATTTGGACA 59.070 29.630 0.00 0.00 0.00 4.02
5926 14383 8.309163 TCTTTGCATTGAAACATAATTTGGAC 57.691 30.769 0.00 0.00 0.00 4.02
5927 14384 7.603404 CCTCTTTGCATTGAAACATAATTTGGA 59.397 33.333 0.00 0.00 0.00 3.53
5928 14385 7.148373 CCCTCTTTGCATTGAAACATAATTTGG 60.148 37.037 0.00 0.00 0.00 3.28
5929 14386 7.603404 TCCCTCTTTGCATTGAAACATAATTTG 59.397 33.333 0.00 0.00 0.00 2.32
5930 14387 7.678837 TCCCTCTTTGCATTGAAACATAATTT 58.321 30.769 0.00 0.00 0.00 1.82
5931 14388 7.243604 TCCCTCTTTGCATTGAAACATAATT 57.756 32.000 0.00 0.00 0.00 1.40
5932 14389 6.855763 TCCCTCTTTGCATTGAAACATAAT 57.144 33.333 0.00 0.00 0.00 1.28
5933 14390 6.041409 TGTTCCCTCTTTGCATTGAAACATAA 59.959 34.615 0.00 0.00 0.00 1.90
5934 14391 5.538053 TGTTCCCTCTTTGCATTGAAACATA 59.462 36.000 0.00 0.00 0.00 2.29
6050 14523 9.857656 ATTGACCATATGTTCTTCTCATGTATT 57.142 29.630 1.69 0.00 0.00 1.89
6062 14535 6.378280 AGGGAGAAAACATTGACCATATGTTC 59.622 38.462 1.24 0.00 43.44 3.18
6065 14538 5.300286 GGAGGGAGAAAACATTGACCATATG 59.700 44.000 0.00 0.00 0.00 1.78
6091 14564 0.779997 AATGGCTTGGTGTTCTCCCT 59.220 50.000 0.00 0.00 0.00 4.20
6092 14565 2.026262 TCTAATGGCTTGGTGTTCTCCC 60.026 50.000 0.00 0.00 0.00 4.30
6093 14566 3.350219 TCTAATGGCTTGGTGTTCTCC 57.650 47.619 0.00 0.00 0.00 3.71
6095 14568 3.562176 CCCTTCTAATGGCTTGGTGTTCT 60.562 47.826 0.00 0.00 0.00 3.01
6096 14569 2.755103 CCCTTCTAATGGCTTGGTGTTC 59.245 50.000 0.00 0.00 0.00 3.18
6097 14570 2.807676 CCCTTCTAATGGCTTGGTGTT 58.192 47.619 0.00 0.00 0.00 3.32
6099 14572 1.106285 GCCCTTCTAATGGCTTGGTG 58.894 55.000 2.14 0.00 44.46 4.17
6100 14573 3.596362 GCCCTTCTAATGGCTTGGT 57.404 52.632 2.14 0.00 44.46 3.67
6128 14603 1.960040 TACTGCTGATCCGGTGGCTG 61.960 60.000 0.00 8.46 0.00 4.85
6136 14611 1.726853 ACGTTGCTTACTGCTGATCC 58.273 50.000 0.00 0.00 43.37 3.36
6142 14617 2.157085 GTCTGGTAACGTTGCTTACTGC 59.843 50.000 16.07 0.00 40.86 4.40
6199 16250 8.484214 TTGCCTCCCTTAGCATATATATCTAG 57.516 38.462 0.00 0.00 39.11 2.43
6200 16251 8.854237 TTTGCCTCCCTTAGCATATATATCTA 57.146 34.615 0.00 0.00 39.11 1.98
6201 16252 7.755666 TTTGCCTCCCTTAGCATATATATCT 57.244 36.000 0.00 0.00 39.11 1.98
6203 16254 7.831193 CACTTTTGCCTCCCTTAGCATATATAT 59.169 37.037 0.00 0.00 39.11 0.86
6204 16255 7.168219 CACTTTTGCCTCCCTTAGCATATATA 58.832 38.462 0.00 0.00 39.11 0.86
6205 16256 6.006449 CACTTTTGCCTCCCTTAGCATATAT 58.994 40.000 0.00 0.00 39.11 0.86
6206 16257 5.376625 CACTTTTGCCTCCCTTAGCATATA 58.623 41.667 0.00 0.00 39.11 0.86
6224 16275 4.755266 ATGGTCGGTATTAGAGCACTTT 57.245 40.909 0.06 0.00 46.81 2.66
6350 16401 2.665000 CCCACGGATCAGCACACT 59.335 61.111 0.00 0.00 0.00 3.55
6351 16402 2.436646 CCCCACGGATCAGCACAC 60.437 66.667 0.00 0.00 0.00 3.82


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

AutoCloner maintained by Alex Coulton.