Multiple sequence alignment - TraesCS6A01G383900

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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 TraesCS6A01G383900 chr6A 100.000 4271 0 0 1 4271 602718682 602714412 0.000000e+00 7888.0
1 TraesCS6A01G383900 chr6A 96.436 505 18 0 1046 1550 602740569 602740065 0.000000e+00 833.0
2 TraesCS6A01G383900 chr6A 87.891 512 43 15 1046 1550 602727028 602726529 6.150000e-163 584.0
3 TraesCS6A01G383900 chr6A 88.438 320 27 6 3067 3383 602725542 602725230 1.120000e-100 377.0
4 TraesCS6A01G383900 chr6A 89.328 253 22 4 4019 4271 602724661 602724414 3.210000e-81 313.0
5 TraesCS6A01G383900 chr6A 83.750 320 44 5 3067 3383 596486128 596486442 3.230000e-76 296.0
6 TraesCS6A01G383900 chr6A 77.632 532 73 33 2090 2596 596485293 596485803 9.040000e-72 281.0
7 TraesCS6A01G383900 chr6A 84.099 283 45 0 2687 2969 602725910 602725628 1.510000e-69 274.0
8 TraesCS6A01G383900 chr6A 88.679 106 10 2 2582 2686 602716048 602715944 1.250000e-25 128.0
9 TraesCS6A01G383900 chr6A 88.679 106 10 2 2635 2739 602716101 602715997 1.250000e-25 128.0
10 TraesCS6A01G383900 chr6A 77.987 159 21 9 3824 3979 602725019 602724872 2.120000e-13 87.9
11 TraesCS6A01G383900 chr6D 87.176 1700 138 34 1 1668 455908754 455907103 0.000000e+00 1858.0
12 TraesCS6A01G383900 chr6D 91.496 1270 55 20 2714 3943 455906396 455905140 0.000000e+00 1698.0
13 TraesCS6A01G383900 chr6D 85.900 1078 89 33 2700 3718 455898184 455897111 0.000000e+00 1090.0
14 TraesCS6A01G383900 chr6D 87.793 811 71 18 1670 2475 455898981 455898194 0.000000e+00 924.0
15 TraesCS6A01G383900 chr6D 93.771 594 25 5 1670 2251 455906984 455906391 0.000000e+00 881.0
16 TraesCS6A01G383900 chr6D 88.643 678 52 17 1004 1668 455899765 455899100 0.000000e+00 802.0
17 TraesCS6A01G383900 chr6D 90.262 534 40 9 1028 1550 455970026 455969494 0.000000e+00 688.0
18 TraesCS6A01G383900 chr6D 88.258 511 41 10 1046 1550 455935638 455935141 1.020000e-165 593.0
19 TraesCS6A01G383900 chr6D 87.473 471 36 9 3721 4177 455897050 455896589 4.890000e-144 521.0
20 TraesCS6A01G383900 chr6D 80.472 635 103 13 2750 3383 455968995 455968381 2.330000e-127 466.0
21 TraesCS6A01G383900 chr6D 88.125 320 28 6 3067 3383 455934169 455933857 5.220000e-99 372.0
22 TraesCS6A01G383900 chr6D 86.420 243 33 0 2727 2969 455934497 455934255 2.530000e-67 267.0
23 TraesCS6A01G383900 chr6D 84.946 186 18 4 4086 4271 455933131 455932956 3.390000e-41 180.0
24 TraesCS6A01G383900 chr6D 90.805 87 6 2 3479 3564 455933821 455933736 9.700000e-22 115.0
25 TraesCS6A01G383900 chr6B 85.832 1701 127 37 1 1668 693303748 693302129 0.000000e+00 1701.0
26 TraesCS6A01G383900 chr6B 91.870 984 63 10 2706 3674 693300334 693299353 0.000000e+00 1358.0
27 TraesCS6A01G383900 chr6B 87.167 1052 101 19 2700 3718 693131633 693130583 0.000000e+00 1164.0
28 TraesCS6A01G383900 chr6B 87.653 737 56 18 959 1668 693133218 693132490 0.000000e+00 824.0
29 TraesCS6A01G383900 chr6B 89.961 508 42 9 1046 1550 693324353 693323852 0.000000e+00 647.0
30 TraesCS6A01G383900 chr6B 92.000 450 25 4 1670 2111 693300987 693300541 4.690000e-174 621.0
31 TraesCS6A01G383900 chr6B 81.890 508 49 27 3067 3564 693322792 693322318 5.180000e-104 388.0
32 TraesCS6A01G383900 chr6B 87.423 326 27 6 1944 2260 693132142 693131822 3.140000e-96 363.0
33 TraesCS6A01G383900 chr6B 87.109 256 19 9 4027 4271 693130224 693129972 1.170000e-70 278.0
34 TraesCS6A01G383900 chr6B 87.500 240 22 5 1670 1907 693132374 693132141 1.960000e-68 270.0
35 TraesCS6A01G383900 chr6B 96.875 160 5 0 2090 2249 693300491 693300332 7.040000e-68 268.0
36 TraesCS6A01G383900 chr6B 86.008 243 34 0 2727 2969 693323120 693322878 1.180000e-65 261.0
37 TraesCS6A01G383900 chr6B 84.549 233 18 13 3718 3943 693296787 693296566 9.300000e-52 215.0
38 TraesCS6A01G383900 chr6B 77.838 370 53 17 523 878 693133625 693133271 7.240000e-48 202.0
39 TraesCS6A01G383900 chr6B 81.203 266 25 20 4019 4271 693321883 693321630 1.570000e-44 191.0
40 TraesCS6A01G383900 chr6B 87.402 127 10 3 4051 4177 693317658 693317538 1.600000e-29 141.0
41 TraesCS6A01G383900 chr6B 86.777 121 6 5 3723 3839 693130415 693130301 4.480000e-25 126.0
42 TraesCS6A01G383900 chr6B 93.878 49 1 2 3670 3718 693296857 693296811 5.920000e-09 73.1
43 TraesCS6A01G383900 chr6B 76.023 171 22 11 3818 3979 693322258 693322098 2.130000e-08 71.3
44 TraesCS6A01G383900 chr2D 79.184 711 92 32 1678 2345 484126617 484127314 3.920000e-120 442.0
45 TraesCS6A01G383900 chr3D 80.705 539 66 20 2729 3261 457057229 457057735 6.700000e-103 385.0
46 TraesCS6A01G383900 chr3D 89.630 135 14 0 1402 1536 457047667 457047801 5.680000e-39 172.0
47 TraesCS6A01G383900 chr3B 94.393 107 4 2 4071 4176 821759278 821759383 3.420000e-36 163.0
48 TraesCS6A01G383900 chr3B 94.393 107 4 2 4071 4176 821764947 821765052 3.420000e-36 163.0
49 TraesCS6A01G383900 chr3B 94.393 107 3 3 4071 4176 821796318 821796422 1.230000e-35 161.0
50 TraesCS6A01G383900 chr3A 94.340 106 5 1 4072 4176 744389394 744389499 1.230000e-35 161.0


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 TraesCS6A01G383900 chr6A 602714412 602718682 4270 True 2714.666667 7888 92.452667 1 4271 3 chr6A.!!$R2 4270
1 TraesCS6A01G383900 chr6A 602740065 602740569 504 True 833.000000 833 96.436000 1046 1550 1 chr6A.!!$R1 504
2 TraesCS6A01G383900 chr6A 602724414 602727028 2614 True 327.180000 584 85.548600 1046 4271 5 chr6A.!!$R3 3225
3 TraesCS6A01G383900 chr6A 596485293 596486442 1149 False 288.500000 296 80.691000 2090 3383 2 chr6A.!!$F1 1293
4 TraesCS6A01G383900 chr6D 455905140 455908754 3614 True 1479.000000 1858 90.814333 1 3943 3 chr6D.!!$R2 3942
5 TraesCS6A01G383900 chr6D 455896589 455899765 3176 True 834.250000 1090 87.452250 1004 4177 4 chr6D.!!$R1 3173
6 TraesCS6A01G383900 chr6D 455968381 455970026 1645 True 577.000000 688 85.367000 1028 3383 2 chr6D.!!$R4 2355
7 TraesCS6A01G383900 chr6D 455932956 455935638 2682 True 305.400000 593 87.710800 1046 4271 5 chr6D.!!$R3 3225
8 TraesCS6A01G383900 chr6B 693296566 693303748 7182 True 706.016667 1701 90.834000 1 3943 6 chr6B.!!$R2 3942
9 TraesCS6A01G383900 chr6B 693129972 693133625 3653 True 461.000000 1164 85.923857 523 4271 7 chr6B.!!$R1 3748
10 TraesCS6A01G383900 chr6B 693317538 693324353 6815 True 283.216667 647 83.747833 1046 4271 6 chr6B.!!$R3 3225
11 TraesCS6A01G383900 chr2D 484126617 484127314 697 False 442.000000 442 79.184000 1678 2345 1 chr2D.!!$F1 667
12 TraesCS6A01G383900 chr3D 457057229 457057735 506 False 385.000000 385 80.705000 2729 3261 1 chr3D.!!$F2 532

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
977 1030 0.250338 AACCAGTCGCAACTTCCTCC 60.250 55.0 0.00 0.0 31.71 4.30 F
1602 1703 0.038599 ATGTTGCTGCCTGGTGATGA 59.961 50.0 0.00 0.0 0.00 2.92 F
2388 3841 0.248990 CAAAAGCAAAGCGCACTCCA 60.249 50.0 11.47 0.0 46.13 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1894 3214 0.321564 GTGTGGTCTATGTGCTGCCA 60.322 55.0 0.0 0.0 0.00 4.92 R
3082 4837 0.450583 AGCGCGACATTCTCTTCGTA 59.549 50.0 12.1 0.0 37.56 3.43 R
3853 8339 0.730840 GGCCGACGGAAAATACAAGG 59.269 55.0 20.5 0.0 0.00 3.61 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
94 95 3.190953 ACGAGTTAAACGAGCTAGCTCTT 59.809 43.478 35.36 27.31 40.69 2.85
95 96 3.787105 CGAGTTAAACGAGCTAGCTCTTC 59.213 47.826 35.36 18.45 40.69 2.87
101 102 4.364415 AACGAGCTAGCTCTTCAGTTAG 57.636 45.455 35.36 22.32 40.69 2.34
109 110 3.413327 AGCTCTTCAGTTAGACGAGTCA 58.587 45.455 5.99 0.00 42.82 3.41
126 127 2.750948 GTCAAGCCGAGTTTGACTGTA 58.249 47.619 19.04 0.00 45.60 2.74
140 141 7.627340 AGTTTGACTGTAAACTCGTTATGTTG 58.373 34.615 0.00 0.00 45.15 3.33
155 156 4.966005 TTGACGAGTCAAGCCGAG 57.034 55.556 13.96 0.00 43.90 4.63
169 170 1.226575 CCGAGCTGACGCGTTATCA 60.227 57.895 15.53 5.99 42.32 2.15
186 187 6.399039 GCGTTATCATAATGAGCTGTAACGAG 60.399 42.308 17.45 0.00 43.03 4.18
199 200 5.094134 GCTGTAACGAGTCGACTAGAATTT 58.906 41.667 29.13 16.60 0.00 1.82
212 213 2.514458 AGAATTTCACCCCTTCGCAT 57.486 45.000 0.00 0.00 0.00 4.73
236 237 1.227853 GACGGTTGGTTGGAGCTGT 60.228 57.895 0.00 0.00 0.00 4.40
264 265 7.062605 TGACAAATTTTATAACGACGGAGACTC 59.937 37.037 0.00 0.00 0.00 3.36
302 303 4.818642 CGCTGGAGAGAATATCACATGAT 58.181 43.478 0.00 0.00 38.51 2.45
345 346 5.221422 ACCAATGAAAACCACGTGAAATGAT 60.221 36.000 19.30 0.00 0.00 2.45
422 426 9.665719 TTGAAAGTGTGATGTTCTATTAGCATA 57.334 29.630 0.00 0.00 0.00 3.14
535 539 4.797471 TCATGGCTGAATTTGTTCTTTCG 58.203 39.130 0.00 0.00 0.00 3.46
551 555 4.365723 TCTTTCGAAGCTCGTAAACAGTT 58.634 39.130 0.00 0.00 41.35 3.16
596 614 1.072266 TGGCAATAGAACACCACCCT 58.928 50.000 0.00 0.00 0.00 4.34
597 615 1.004277 TGGCAATAGAACACCACCCTC 59.996 52.381 0.00 0.00 0.00 4.30
598 616 1.369625 GCAATAGAACACCACCCTCG 58.630 55.000 0.00 0.00 0.00 4.63
599 617 1.338769 GCAATAGAACACCACCCTCGT 60.339 52.381 0.00 0.00 0.00 4.18
600 618 2.093869 GCAATAGAACACCACCCTCGTA 60.094 50.000 0.00 0.00 0.00 3.43
601 619 3.618019 GCAATAGAACACCACCCTCGTAA 60.618 47.826 0.00 0.00 0.00 3.18
602 620 4.181578 CAATAGAACACCACCCTCGTAAG 58.818 47.826 0.00 0.00 0.00 2.34
633 651 8.816640 ACATCACATATTGTTTTCAGGTTTTC 57.183 30.769 0.00 0.00 0.00 2.29
634 652 7.594758 ACATCACATATTGTTTTCAGGTTTTCG 59.405 33.333 0.00 0.00 0.00 3.46
640 658 6.641176 ATTGTTTTCAGGTTTTCGTCAAAC 57.359 33.333 4.88 4.88 43.78 2.93
659 677 5.578727 TCAAACCTTTCAAACATGGTTTTCG 59.421 36.000 0.00 0.00 46.72 3.46
717 740 5.758784 TGTGATATTCTCTCGTCTCGTGTAT 59.241 40.000 0.00 0.00 0.00 2.29
735 773 5.318349 GTGTATTACAAACCACACGTATGC 58.682 41.667 0.00 0.00 32.75 3.14
736 774 3.733024 ATTACAAACCACACGTATGCG 57.267 42.857 0.19 0.19 44.93 4.73
737 775 2.435533 TACAAACCACACGTATGCGA 57.564 45.000 11.07 0.00 42.00 5.10
738 776 1.584175 ACAAACCACACGTATGCGAA 58.416 45.000 11.07 0.00 42.00 4.70
739 777 1.529438 ACAAACCACACGTATGCGAAG 59.471 47.619 11.07 4.49 42.00 3.79
740 778 1.795872 CAAACCACACGTATGCGAAGA 59.204 47.619 11.07 0.00 42.00 2.87
741 779 1.710013 AACCACACGTATGCGAAGAG 58.290 50.000 11.07 0.67 42.00 2.85
742 780 0.885879 ACCACACGTATGCGAAGAGA 59.114 50.000 11.07 0.00 42.00 3.10
743 781 1.269166 CCACACGTATGCGAAGAGAC 58.731 55.000 11.07 0.00 42.00 3.36
744 782 1.135373 CCACACGTATGCGAAGAGACT 60.135 52.381 11.07 0.00 42.00 3.24
817 860 3.458579 CAACTGTCGTCCGCGTCG 61.459 66.667 4.92 10.10 39.49 5.12
819 862 3.868951 AACTGTCGTCCGCGTCGTC 62.869 63.158 17.50 13.66 39.49 4.20
868 911 6.930722 GCCCCAAAATATTAATCCACATTCAG 59.069 38.462 0.00 0.00 0.00 3.02
893 943 4.477975 CTCCGTCGTGCTCCGTCC 62.478 72.222 0.00 0.00 37.94 4.79
977 1030 0.250338 AACCAGTCGCAACTTCCTCC 60.250 55.000 0.00 0.00 31.71 4.30
1506 1580 2.282674 ACGCCCGAGTACTGGACA 60.283 61.111 6.44 0.00 0.00 4.02
1518 1592 1.673767 ACTGGACATGGATCCCACTT 58.326 50.000 9.90 0.00 38.06 3.16
1553 1632 1.546834 GTTCGTCGCACTCTCCATAC 58.453 55.000 0.00 0.00 0.00 2.39
1557 1636 0.179108 GTCGCACTCTCCATACCCAC 60.179 60.000 0.00 0.00 0.00 4.61
1562 1641 2.434336 GCACTCTCCATACCCACACATA 59.566 50.000 0.00 0.00 0.00 2.29
1602 1703 0.038599 ATGTTGCTGCCTGGTGATGA 59.961 50.000 0.00 0.00 0.00 2.92
1603 1704 0.038599 TGTTGCTGCCTGGTGATGAT 59.961 50.000 0.00 0.00 0.00 2.45
1644 1776 4.850859 TGCATTCGATTTTACTGTACCG 57.149 40.909 0.00 0.00 0.00 4.02
1649 1781 3.916761 TCGATTTTACTGTACCGTTGCT 58.083 40.909 0.00 0.00 0.00 3.91
1650 1782 4.309099 TCGATTTTACTGTACCGTTGCTT 58.691 39.130 0.00 0.00 0.00 3.91
1651 1783 4.386652 TCGATTTTACTGTACCGTTGCTTC 59.613 41.667 0.00 0.00 0.00 3.86
1652 1784 4.634991 GATTTTACTGTACCGTTGCTTCG 58.365 43.478 0.00 0.00 0.00 3.79
1653 1785 2.798976 TTACTGTACCGTTGCTTCGT 57.201 45.000 0.00 0.00 0.00 3.85
1654 1786 2.054687 TACTGTACCGTTGCTTCGTG 57.945 50.000 0.00 0.00 0.00 4.35
1655 1787 0.599204 ACTGTACCGTTGCTTCGTGG 60.599 55.000 0.00 0.00 0.00 4.94
1659 1791 4.072088 CCGTTGCTTCGTGGTCGC 62.072 66.667 0.00 0.00 36.96 5.19
1660 1792 4.409588 CGTTGCTTCGTGGTCGCG 62.410 66.667 0.00 0.00 36.96 5.87
1779 3095 3.943671 TTCATTTGGATACCGGACCAT 57.056 42.857 9.46 0.00 36.02 3.55
1873 3193 4.592778 TCAAAAGCTAAGGGCCTTTTCAAT 59.407 37.500 26.29 5.92 43.05 2.57
1930 3275 5.686753 ACCACACTTTGTGTAAAGGATGTA 58.313 37.500 11.10 0.00 45.65 2.29
1937 3289 6.710744 ACTTTGTGTAAAGGATGTAACTCCTG 59.289 38.462 4.96 0.00 45.15 3.86
2085 3452 4.388773 TGTTGCATTGTGATCTAACTCGAC 59.611 41.667 0.00 0.00 0.00 4.20
2293 3738 3.442977 GCAGCCAGTTTCAATCTGAGATT 59.557 43.478 0.97 0.97 35.20 2.40
2294 3739 4.674623 GCAGCCAGTTTCAATCTGAGATTG 60.675 45.833 25.30 25.30 35.20 2.67
2301 3746 6.035435 CAGTTTCAATCTGAGATTGGAGTACG 59.965 42.308 28.98 13.65 35.20 3.67
2302 3747 5.661056 TTCAATCTGAGATTGGAGTACGT 57.339 39.130 28.98 0.00 0.00 3.57
2303 3748 4.998788 TCAATCTGAGATTGGAGTACGTG 58.001 43.478 28.98 6.94 0.00 4.49
2304 3749 2.941453 TCTGAGATTGGAGTACGTGC 57.059 50.000 0.00 0.00 0.00 5.34
2305 3750 2.447443 TCTGAGATTGGAGTACGTGCT 58.553 47.619 5.62 5.62 0.00 4.40
2350 3795 4.178545 GCTTCACACATAAGCATTTGGT 57.821 40.909 3.07 0.00 46.85 3.67
2351 3796 4.559153 GCTTCACACATAAGCATTTGGTT 58.441 39.130 3.07 0.28 46.85 3.67
2352 3797 4.990426 GCTTCACACATAAGCATTTGGTTT 59.010 37.500 0.00 0.00 46.85 3.27
2354 3799 6.644592 GCTTCACACATAAGCATTTGGTTTTA 59.355 34.615 0.00 0.00 46.85 1.52
2355 3800 7.331687 GCTTCACACATAAGCATTTGGTTTTAT 59.668 33.333 0.00 0.00 46.85 1.40
2385 3838 2.292103 TTTCAAAAGCAAAGCGCACT 57.708 40.000 11.47 0.00 46.13 4.40
2388 3841 0.248990 CAAAAGCAAAGCGCACTCCA 60.249 50.000 11.47 0.00 46.13 3.86
2393 3846 2.094675 AGCAAAGCGCACTCCATTTAT 58.905 42.857 11.47 0.00 46.13 1.40
2394 3847 2.098117 AGCAAAGCGCACTCCATTTATC 59.902 45.455 11.47 0.00 46.13 1.75
2425 3902 8.296799 TCATAAATGACACTTTGCATGAAAAC 57.703 30.769 0.00 0.00 0.00 2.43
2438 3919 4.868171 TGCATGAAAACATACGACTCTACC 59.132 41.667 0.00 0.00 0.00 3.18
2440 3921 3.504863 TGAAAACATACGACTCTACCGC 58.495 45.455 0.00 0.00 0.00 5.68
2482 3964 7.630924 AGACTTCTTTTGAGTATTTTGTGTCG 58.369 34.615 0.00 0.00 0.00 4.35
2494 3976 9.698617 GAGTATTTTGTGTCGTTATTATTCACC 57.301 33.333 0.00 0.00 0.00 4.02
2495 3977 8.385111 AGTATTTTGTGTCGTTATTATTCACCG 58.615 33.333 0.00 0.00 0.00 4.94
2496 3978 6.782298 TTTTGTGTCGTTATTATTCACCGA 57.218 33.333 0.00 0.00 0.00 4.69
2497 3979 6.397831 TTTGTGTCGTTATTATTCACCGAG 57.602 37.500 0.00 0.00 0.00 4.63
2499 3981 5.898174 TGTGTCGTTATTATTCACCGAGAT 58.102 37.500 0.00 0.00 0.00 2.75
2501 3983 7.654568 TGTGTCGTTATTATTCACCGAGATAT 58.345 34.615 0.00 0.00 0.00 1.63
2505 3987 9.616634 GTCGTTATTATTCACCGAGATATGTAA 57.383 33.333 0.00 0.00 0.00 2.41
2530 4026 7.823745 AAAAGATAGTCATGAAAAGTGTGGT 57.176 32.000 0.00 0.00 0.00 4.16
2531 4027 8.918202 AAAAGATAGTCATGAAAAGTGTGGTA 57.082 30.769 0.00 0.00 0.00 3.25
2542 4039 8.783093 CATGAAAAGTGTGGTAGTTGATTCTAA 58.217 33.333 0.00 0.00 0.00 2.10
2543 4040 8.149973 TGAAAAGTGTGGTAGTTGATTCTAAC 57.850 34.615 0.00 0.00 0.00 2.34
2544 4041 7.990886 TGAAAAGTGTGGTAGTTGATTCTAACT 59.009 33.333 0.00 0.00 43.03 2.24
2545 4042 7.964604 AAAGTGTGGTAGTTGATTCTAACTC 57.035 36.000 0.00 0.00 41.01 3.01
2586 4084 5.898174 TGGAATTTTCTGCAATGCTAGATG 58.102 37.500 6.82 0.00 0.00 2.90
2618 4116 6.276611 CAACTCATGTTGTTGATTGGTTTG 57.723 37.500 21.12 1.25 46.08 2.93
2619 4117 4.947645 ACTCATGTTGTTGATTGGTTTGG 58.052 39.130 0.00 0.00 0.00 3.28
2620 4118 4.405358 ACTCATGTTGTTGATTGGTTTGGT 59.595 37.500 0.00 0.00 0.00 3.67
2621 4119 4.942852 TCATGTTGTTGATTGGTTTGGTC 58.057 39.130 0.00 0.00 0.00 4.02
2622 4120 4.648762 TCATGTTGTTGATTGGTTTGGTCT 59.351 37.500 0.00 0.00 0.00 3.85
2623 4121 5.128499 TCATGTTGTTGATTGGTTTGGTCTT 59.872 36.000 0.00 0.00 0.00 3.01
2624 4122 5.413309 TGTTGTTGATTGGTTTGGTCTTT 57.587 34.783 0.00 0.00 0.00 2.52
2625 4123 5.799213 TGTTGTTGATTGGTTTGGTCTTTT 58.201 33.333 0.00 0.00 0.00 2.27
2626 4124 6.234177 TGTTGTTGATTGGTTTGGTCTTTTT 58.766 32.000 0.00 0.00 0.00 1.94
2668 4166 3.799281 CAACTCATGTTGTTGGTTGGT 57.201 42.857 19.24 0.00 46.08 3.67
2669 4167 4.122143 CAACTCATGTTGTTGGTTGGTT 57.878 40.909 19.24 0.00 46.08 3.67
2670 4168 4.502962 CAACTCATGTTGTTGGTTGGTTT 58.497 39.130 19.24 0.00 46.08 3.27
2671 4169 4.817318 ACTCATGTTGTTGGTTGGTTTT 57.183 36.364 0.00 0.00 0.00 2.43
2672 4170 5.159273 ACTCATGTTGTTGGTTGGTTTTT 57.841 34.783 0.00 0.00 0.00 1.94
2673 4171 4.934602 ACTCATGTTGTTGGTTGGTTTTTG 59.065 37.500 0.00 0.00 0.00 2.44
2674 4172 4.899502 TCATGTTGTTGGTTGGTTTTTGT 58.100 34.783 0.00 0.00 0.00 2.83
2675 4173 4.932200 TCATGTTGTTGGTTGGTTTTTGTC 59.068 37.500 0.00 0.00 0.00 3.18
2676 4174 4.608948 TGTTGTTGGTTGGTTTTTGTCT 57.391 36.364 0.00 0.00 0.00 3.41
2677 4175 4.962155 TGTTGTTGGTTGGTTTTTGTCTT 58.038 34.783 0.00 0.00 0.00 3.01
2678 4176 4.991687 TGTTGTTGGTTGGTTTTTGTCTTC 59.008 37.500 0.00 0.00 0.00 2.87
2679 4177 5.221541 TGTTGTTGGTTGGTTTTTGTCTTCT 60.222 36.000 0.00 0.00 0.00 2.85
2680 4178 5.476091 TGTTGGTTGGTTTTTGTCTTCTT 57.524 34.783 0.00 0.00 0.00 2.52
2681 4179 5.859495 TGTTGGTTGGTTTTTGTCTTCTTT 58.141 33.333 0.00 0.00 0.00 2.52
2682 4180 6.994221 TGTTGGTTGGTTTTTGTCTTCTTTA 58.006 32.000 0.00 0.00 0.00 1.85
2683 4181 6.869388 TGTTGGTTGGTTTTTGTCTTCTTTAC 59.131 34.615 0.00 0.00 0.00 2.01
2684 4182 6.591750 TGGTTGGTTTTTGTCTTCTTTACA 57.408 33.333 0.00 0.00 0.00 2.41
2685 4183 6.994221 TGGTTGGTTTTTGTCTTCTTTACAA 58.006 32.000 0.00 0.00 35.12 2.41
2686 4184 6.869388 TGGTTGGTTTTTGTCTTCTTTACAAC 59.131 34.615 0.00 0.00 36.61 3.32
2687 4185 7.094631 GGTTGGTTTTTGTCTTCTTTACAACT 58.905 34.615 0.00 0.00 36.61 3.16
2688 4186 8.245491 GGTTGGTTTTTGTCTTCTTTACAACTA 58.755 33.333 0.00 0.00 36.61 2.24
2689 4187 9.285770 GTTGGTTTTTGTCTTCTTTACAACTAG 57.714 33.333 0.00 0.00 36.61 2.57
2690 4188 8.795842 TGGTTTTTGTCTTCTTTACAACTAGA 57.204 30.769 0.00 0.00 36.61 2.43
2691 4189 9.403583 TGGTTTTTGTCTTCTTTACAACTAGAT 57.596 29.630 0.00 0.00 36.61 1.98
2692 4190 9.665264 GGTTTTTGTCTTCTTTACAACTAGATG 57.335 33.333 0.00 0.00 36.61 2.90
2693 4191 9.665264 GTTTTTGTCTTCTTTACAACTAGATGG 57.335 33.333 4.89 0.00 36.61 3.51
2694 4192 8.974060 TTTTGTCTTCTTTACAACTAGATGGT 57.026 30.769 4.89 0.00 36.61 3.55
2695 4193 8.974060 TTTGTCTTCTTTACAACTAGATGGTT 57.026 30.769 4.89 0.00 36.61 3.67
2720 4218 8.620116 TGTCTTCAACTCATGTTATTCATTGA 57.380 30.769 0.00 0.00 34.09 2.57
2880 4515 2.885135 ACATGGTCTTCAAGATGGCA 57.115 45.000 0.00 0.00 0.00 4.92
2990 4667 2.490217 CGAGGCGGACGAGAACAT 59.510 61.111 0.00 0.00 0.00 2.71
3000 4677 3.123804 GGACGAGAACATGCATTACGAT 58.876 45.455 0.00 0.00 0.00 3.73
3042 4764 1.000612 GGAGGAGGAGGAGGACGTT 59.999 63.158 0.00 0.00 0.00 3.99
3082 4837 3.107661 CGAACCGGCGCGTAGTTT 61.108 61.111 8.43 0.00 0.00 2.66
3261 5016 4.922692 GGCATCGAGATCAGATGTAAGAAG 59.077 45.833 23.31 5.89 45.25 2.85
3305 5060 0.028110 GATTCATTCAACTCGCCCGC 59.972 55.000 0.00 0.00 0.00 6.13
3389 5152 3.156293 TCCTTTTGCTGCTAATTCTGCA 58.844 40.909 0.00 6.01 38.78 4.41
3445 5230 6.894828 ACAGACATTTGGTTTGTTATACGAC 58.105 36.000 0.00 0.00 41.68 4.34
3853 8339 0.654683 CTGGCTGCGAGCATTTAGTC 59.345 55.000 0.00 0.00 44.75 2.59
3866 8352 6.436843 AGCATTTAGTCCTTGTATTTTCCG 57.563 37.500 0.00 0.00 0.00 4.30
3885 8379 1.488527 GTCGGCCGACTGTGAATATC 58.511 55.000 43.32 19.15 41.57 1.63
3928 8422 7.645058 AACTGGATTTGAAAGAAGAACAAGA 57.355 32.000 0.00 0.00 0.00 3.02
3977 8521 1.149101 AGGGGAGTTTCTGCAGGAAA 58.851 50.000 9.61 8.05 41.11 3.13
3979 8523 1.613925 GGGGAGTTTCTGCAGGAAAAC 59.386 52.381 18.61 18.61 44.34 2.43
3997 8541 6.071560 AGGAAAACGGTTTCTTTTTCTTCTGT 60.072 34.615 24.23 0.00 42.45 3.41
3999 8543 6.510879 AAACGGTTTCTTTTTCTTCTGTCT 57.489 33.333 0.00 0.00 0.00 3.41
4014 8804 4.511617 TCTGTCTGACAGTGTGAAGATC 57.488 45.455 30.74 0.20 46.03 2.75
4069 8859 7.105241 AGTGAAGAAAAGAAAAGTTGCAGAT 57.895 32.000 0.00 0.00 0.00 2.90
4206 9006 5.812127 TGTACGATGAATGATTCAGTCCTTG 59.188 40.000 13.79 8.09 43.98 3.61
4242 9055 4.475016 CAGATAGGGAAGAAAAAGGGGAGA 59.525 45.833 0.00 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
63 64 3.108144 TCGTTTAACTCGTTATAGGCGC 58.892 45.455 0.00 0.00 0.00 6.53
94 95 1.199327 CGGCTTGACTCGTCTAACTGA 59.801 52.381 0.00 0.00 0.00 3.41
95 96 1.199327 TCGGCTTGACTCGTCTAACTG 59.801 52.381 0.00 0.00 0.00 3.16
101 102 0.784778 CAAACTCGGCTTGACTCGTC 59.215 55.000 0.00 0.00 0.00 4.20
109 110 3.805207 AGTTTACAGTCAAACTCGGCTT 58.195 40.909 0.00 0.00 43.59 4.35
140 141 1.803519 CAGCTCGGCTTGACTCGTC 60.804 63.158 0.00 0.00 36.40 4.20
148 149 2.558554 ATAACGCGTCAGCTCGGCTT 62.559 55.000 14.44 0.00 42.32 4.35
149 150 2.938539 GATAACGCGTCAGCTCGGCT 62.939 60.000 14.44 0.00 42.32 5.52
150 151 2.577785 GATAACGCGTCAGCTCGGC 61.578 63.158 14.44 0.00 42.32 5.54
151 152 0.595053 ATGATAACGCGTCAGCTCGG 60.595 55.000 14.44 0.00 42.32 4.63
152 153 2.032414 TATGATAACGCGTCAGCTCG 57.968 50.000 14.44 0.00 42.32 5.03
153 154 3.981416 TCATTATGATAACGCGTCAGCTC 59.019 43.478 14.44 7.79 42.32 4.09
154 155 3.977427 TCATTATGATAACGCGTCAGCT 58.023 40.909 14.44 0.00 42.32 4.24
155 156 3.422343 GCTCATTATGATAACGCGTCAGC 60.422 47.826 14.44 0.00 40.74 4.26
169 170 4.335874 AGTCGACTCGTTACAGCTCATTAT 59.664 41.667 13.58 0.00 0.00 1.28
186 187 3.889520 AGGGGTGAAATTCTAGTCGAC 57.110 47.619 7.70 7.70 0.00 4.20
199 200 1.672854 CGGTCTATGCGAAGGGGTGA 61.673 60.000 0.00 0.00 0.00 4.02
212 213 0.827089 TCCAACCAACCGTCGGTCTA 60.827 55.000 19.16 0.00 34.99 2.59
236 237 7.062605 GTCTCCGTCGTTATAAAATTTGTCAGA 59.937 37.037 0.00 0.00 0.00 3.27
283 284 7.616528 TGGTTATCATGTGATATTCTCTCCA 57.383 36.000 3.73 4.43 36.94 3.86
302 303 4.015084 TGGTTTCCGTCAAAACTTGGTTA 58.985 39.130 5.61 0.00 38.81 2.85
313 314 3.024547 TGGTTTTCATTGGTTTCCGTCA 58.975 40.909 0.00 0.00 0.00 4.35
388 390 5.749596 ACATCACACTTTCAACATTCGAA 57.250 34.783 0.00 0.00 0.00 3.71
390 392 5.751680 AGAACATCACACTTTCAACATTCG 58.248 37.500 0.00 0.00 0.00 3.34
393 395 8.454106 GCTAATAGAACATCACACTTTCAACAT 58.546 33.333 0.00 0.00 0.00 2.71
432 436 9.383519 TCCTTAGTGAAATATTGTTTAGAGCTG 57.616 33.333 0.00 0.00 0.00 4.24
535 539 5.840940 ACACATAACTGTTTACGAGCTTC 57.159 39.130 0.00 0.00 31.62 3.86
551 555 8.442632 TGCAAAATTCCAAATTCAAACACATA 57.557 26.923 0.00 0.00 0.00 2.29
596 614 9.647797 AACAATATGTGATGTTAAGACTTACGA 57.352 29.630 0.00 0.00 37.96 3.43
602 620 9.559958 CCTGAAAACAATATGTGATGTTAAGAC 57.440 33.333 0.00 0.00 38.75 3.01
633 651 4.040445 ACCATGTTTGAAAGGTTTGACG 57.960 40.909 0.00 0.00 0.00 4.35
640 658 8.980143 ATAATACGAAAACCATGTTTGAAAGG 57.020 30.769 0.00 0.00 0.00 3.11
690 710 4.023622 ACGAGACGAGAGAATATCACATGG 60.024 45.833 0.00 0.00 0.00 3.66
717 740 2.752121 TCGCATACGTGTGGTTTGTAA 58.248 42.857 14.49 0.00 41.18 2.41
741 779 8.041893 CACTACGTGGTGAAGACTCTCTAGTC 62.042 50.000 26.11 0.00 44.19 2.59
742 780 3.143211 ACGTGGTGAAGACTCTCTAGT 57.857 47.619 0.00 0.00 39.21 2.57
743 781 4.093703 CACTACGTGGTGAAGACTCTCTAG 59.906 50.000 26.11 0.00 39.34 2.43
744 782 4.001652 CACTACGTGGTGAAGACTCTCTA 58.998 47.826 26.11 0.00 39.34 2.43
820 863 4.643387 AACAGACGGCAGGTGGGC 62.643 66.667 0.00 0.00 39.06 5.36
972 1022 2.540910 AGGAGGGGAGTGGGAGGA 60.541 66.667 0.00 0.00 0.00 3.71
977 1030 2.760385 GTCGGAGGAGGGGAGTGG 60.760 72.222 0.00 0.00 0.00 4.00
1506 1580 2.507471 GGAGTCTTCAAGTGGGATCCAT 59.493 50.000 15.23 0.00 35.28 3.41
1518 1592 1.000607 CGAACGAACCTGGAGTCTTCA 60.001 52.381 0.00 0.00 0.00 3.02
1553 1632 5.929697 CACAAGCTATATGTATGTGTGGG 57.070 43.478 4.60 0.00 37.27 4.61
1557 1636 6.980397 TCAGACACACAAGCTATATGTATGTG 59.020 38.462 5.70 8.12 38.46 3.21
1562 1641 6.409704 ACATTCAGACACACAAGCTATATGT 58.590 36.000 0.00 0.00 0.00 2.29
1641 1748 2.660552 CGACCACGAAGCAACGGT 60.661 61.111 7.39 0.00 42.66 4.83
1644 1776 4.719616 GCGCGACCACGAAGCAAC 62.720 66.667 12.10 0.00 41.48 4.17
1654 1786 2.006772 CTACAGAAATGGCGCGACC 58.993 57.895 10.82 11.50 39.84 4.79
1655 1787 1.348594 GCTACAGAAATGGCGCGAC 59.651 57.895 12.10 8.22 0.00 5.19
1659 1791 3.559238 AAACTTGCTACAGAAATGGCG 57.441 42.857 0.00 0.00 0.00 5.69
1660 1792 6.254281 TCTAAAACTTGCTACAGAAATGGC 57.746 37.500 0.00 0.00 0.00 4.40
1664 1796 9.062524 TGCTTATTCTAAAACTTGCTACAGAAA 57.937 29.630 0.00 0.00 0.00 2.52
1665 1797 8.504005 GTGCTTATTCTAAAACTTGCTACAGAA 58.496 33.333 0.00 0.00 0.00 3.02
1667 1799 7.806690 TGTGCTTATTCTAAAACTTGCTACAG 58.193 34.615 0.00 0.00 0.00 2.74
1668 1800 7.737972 TGTGCTTATTCTAAAACTTGCTACA 57.262 32.000 0.00 0.00 0.00 2.74
1779 3095 3.820467 CAGGACTTTGGAATGTACAGCAA 59.180 43.478 0.33 0.00 0.00 3.91
1894 3214 0.321564 GTGTGGTCTATGTGCTGCCA 60.322 55.000 0.00 0.00 0.00 4.92
1937 3289 5.465724 ACAGAATACTCAAACAACTCGAACC 59.534 40.000 0.00 0.00 0.00 3.62
1947 3305 5.673337 TTCACAGCACAGAATACTCAAAC 57.327 39.130 0.00 0.00 0.00 2.93
2085 3452 4.448537 TTAACCCCGAAATGAATTGCAG 57.551 40.909 0.00 0.00 0.00 4.41
2181 3622 2.766263 AGTCAGGAGCCATGTCGAAATA 59.234 45.455 0.00 0.00 0.00 1.40
2269 3713 0.455633 CAGATTGAAACTGGCTGCGC 60.456 55.000 0.00 0.00 0.00 6.09
2275 3719 5.251764 ACTCCAATCTCAGATTGAAACTGG 58.748 41.667 26.42 11.31 36.22 4.00
2284 3729 3.027412 AGCACGTACTCCAATCTCAGAT 58.973 45.455 0.00 0.00 0.00 2.90
2286 3731 2.534298 CAGCACGTACTCCAATCTCAG 58.466 52.381 0.00 0.00 0.00 3.35
2293 3738 1.972752 TACGGCAGCACGTACTCCA 60.973 57.895 10.88 0.00 46.58 3.86
2294 3739 2.879907 TACGGCAGCACGTACTCC 59.120 61.111 10.88 0.00 46.58 3.85
2301 3746 2.540101 GACTTATCATGTACGGCAGCAC 59.460 50.000 0.00 0.00 0.00 4.40
2302 3747 2.483013 GGACTTATCATGTACGGCAGCA 60.483 50.000 0.00 0.00 0.00 4.41
2303 3748 2.135933 GGACTTATCATGTACGGCAGC 58.864 52.381 0.00 0.00 0.00 5.25
2304 3749 3.735237 AGGACTTATCATGTACGGCAG 57.265 47.619 0.00 0.00 0.00 4.85
2305 3750 3.196901 ACAAGGACTTATCATGTACGGCA 59.803 43.478 0.00 0.00 0.00 5.69
2354 3799 9.734620 GCTTTGCTTTTGAAAATAAGGAAAAAT 57.265 25.926 0.00 0.00 39.89 1.82
2355 3800 7.907563 CGCTTTGCTTTTGAAAATAAGGAAAAA 59.092 29.630 0.00 0.00 39.89 1.94
2365 3818 2.602660 GAGTGCGCTTTGCTTTTGAAAA 59.397 40.909 9.73 0.00 46.63 2.29
2420 3897 2.529090 CGCGGTAGAGTCGTATGTTTTC 59.471 50.000 0.00 0.00 0.00 2.29
2423 3900 1.089920 ACGCGGTAGAGTCGTATGTT 58.910 50.000 12.47 0.00 34.41 2.71
2425 3902 1.070309 GGTACGCGGTAGAGTCGTATG 60.070 57.143 12.47 0.00 40.21 2.39
2438 3919 1.983605 CTACAGTGAACAAGGTACGCG 59.016 52.381 3.53 3.53 0.00 6.01
2440 3921 4.500603 AGTCTACAGTGAACAAGGTACG 57.499 45.455 0.00 0.00 0.00 3.67
2505 3987 8.237811 ACCACACTTTTCATGACTATCTTTTT 57.762 30.769 0.00 0.00 0.00 1.94
2506 3988 7.823745 ACCACACTTTTCATGACTATCTTTT 57.176 32.000 0.00 0.00 0.00 2.27
2507 3989 8.157476 ACTACCACACTTTTCATGACTATCTTT 58.843 33.333 0.00 0.00 0.00 2.52
2510 3992 7.602644 TCAACTACCACACTTTTCATGACTATC 59.397 37.037 0.00 0.00 0.00 2.08
2511 3993 7.450074 TCAACTACCACACTTTTCATGACTAT 58.550 34.615 0.00 0.00 0.00 2.12
2525 4021 6.665992 AGTGAGTTAGAATCAACTACCACA 57.334 37.500 13.81 0.00 38.86 4.17
2529 4025 7.533426 TCCGTAAGTGAGTTAGAATCAACTAC 58.467 38.462 0.00 0.00 38.86 2.73
2530 4026 7.692460 TCCGTAAGTGAGTTAGAATCAACTA 57.308 36.000 0.00 0.00 38.86 2.24
2531 4027 6.585695 TCCGTAAGTGAGTTAGAATCAACT 57.414 37.500 0.00 0.00 41.44 3.16
2649 4147 4.817318 AAACCAACCAACAACATGAGTT 57.183 36.364 0.00 0.55 38.88 3.01
2650 4148 4.817318 AAAACCAACCAACAACATGAGT 57.183 36.364 0.00 0.00 0.00 3.41
2651 4149 4.934602 ACAAAAACCAACCAACAACATGAG 59.065 37.500 0.00 0.00 0.00 2.90
2652 4150 4.899502 ACAAAAACCAACCAACAACATGA 58.100 34.783 0.00 0.00 0.00 3.07
2653 4151 4.934602 AGACAAAAACCAACCAACAACATG 59.065 37.500 0.00 0.00 0.00 3.21
2654 4152 5.159273 AGACAAAAACCAACCAACAACAT 57.841 34.783 0.00 0.00 0.00 2.71
2655 4153 4.608948 AGACAAAAACCAACCAACAACA 57.391 36.364 0.00 0.00 0.00 3.33
2656 4154 5.234752 AGAAGACAAAAACCAACCAACAAC 58.765 37.500 0.00 0.00 0.00 3.32
2657 4155 5.476091 AGAAGACAAAAACCAACCAACAA 57.524 34.783 0.00 0.00 0.00 2.83
2658 4156 5.476091 AAGAAGACAAAAACCAACCAACA 57.524 34.783 0.00 0.00 0.00 3.33
2659 4157 6.869388 TGTAAAGAAGACAAAAACCAACCAAC 59.131 34.615 0.00 0.00 0.00 3.77
2660 4158 6.994221 TGTAAAGAAGACAAAAACCAACCAA 58.006 32.000 0.00 0.00 0.00 3.67
2661 4159 6.591750 TGTAAAGAAGACAAAAACCAACCA 57.408 33.333 0.00 0.00 0.00 3.67
2662 4160 7.094631 AGTTGTAAAGAAGACAAAAACCAACC 58.905 34.615 0.00 0.00 38.48 3.77
2663 4161 9.285770 CTAGTTGTAAAGAAGACAAAAACCAAC 57.714 33.333 0.00 0.00 38.48 3.77
2664 4162 9.233649 TCTAGTTGTAAAGAAGACAAAAACCAA 57.766 29.630 0.00 0.00 38.48 3.67
2665 4163 8.795842 TCTAGTTGTAAAGAAGACAAAAACCA 57.204 30.769 0.00 0.00 38.48 3.67
2666 4164 9.665264 CATCTAGTTGTAAAGAAGACAAAAACC 57.335 33.333 0.00 0.00 38.48 3.27
2667 4165 9.665264 CCATCTAGTTGTAAAGAAGACAAAAAC 57.335 33.333 0.30 0.00 38.48 2.43
2668 4166 9.403583 ACCATCTAGTTGTAAAGAAGACAAAAA 57.596 29.630 0.30 0.00 38.48 1.94
2669 4167 8.974060 ACCATCTAGTTGTAAAGAAGACAAAA 57.026 30.769 0.30 0.00 38.48 2.44
2670 4168 8.836413 CAACCATCTAGTTGTAAAGAAGACAAA 58.164 33.333 0.30 0.00 41.80 2.83
2671 4169 8.378172 CAACCATCTAGTTGTAAAGAAGACAA 57.622 34.615 0.30 0.00 41.80 3.18
2672 4170 7.962964 CAACCATCTAGTTGTAAAGAAGACA 57.037 36.000 0.30 0.00 41.80 3.41
2691 4189 7.448161 ATGAATAACATGAGTTGAAGACAACCA 59.552 33.333 0.00 7.72 45.30 3.67
2692 4190 7.820648 ATGAATAACATGAGTTGAAGACAACC 58.179 34.615 0.00 3.10 45.30 3.77
2693 4191 9.121517 CAATGAATAACATGAGTTGAAGACAAC 57.878 33.333 0.00 0.00 45.50 3.32
2694 4192 9.065798 TCAATGAATAACATGAGTTGAAGACAA 57.934 29.630 0.00 0.00 39.39 3.18
2695 4193 8.620116 TCAATGAATAACATGAGTTGAAGACA 57.380 30.769 0.00 0.00 39.39 3.41
2696 4194 9.713740 GATCAATGAATAACATGAGTTGAAGAC 57.286 33.333 0.00 0.00 39.39 3.01
2697 4195 9.452287 TGATCAATGAATAACATGAGTTGAAGA 57.548 29.630 0.00 0.00 39.39 2.87
2700 4198 8.553696 CGATGATCAATGAATAACATGAGTTGA 58.446 33.333 0.00 0.00 39.39 3.18
2701 4199 8.340443 ACGATGATCAATGAATAACATGAGTTG 58.660 33.333 0.00 0.00 39.39 3.16
2702 4200 8.442632 ACGATGATCAATGAATAACATGAGTT 57.557 30.769 0.00 0.00 39.39 3.01
2703 4201 7.930325 AGACGATGATCAATGAATAACATGAGT 59.070 33.333 0.00 0.00 39.39 3.41
2704 4202 8.307921 AGACGATGATCAATGAATAACATGAG 57.692 34.615 0.00 0.00 39.39 2.90
2705 4203 8.667076 AAGACGATGATCAATGAATAACATGA 57.333 30.769 0.00 0.00 39.39 3.07
2706 4204 8.771766 AGAAGACGATGATCAATGAATAACATG 58.228 33.333 0.00 0.00 39.39 3.21
2707 4205 8.899427 AGAAGACGATGATCAATGAATAACAT 57.101 30.769 0.00 0.00 41.45 2.71
2708 4206 8.722480 AAGAAGACGATGATCAATGAATAACA 57.278 30.769 0.00 0.00 0.00 2.41
2711 4209 9.816354 TGTAAAGAAGACGATGATCAATGAATA 57.184 29.630 0.00 0.00 0.00 1.75
2712 4210 8.722480 TGTAAAGAAGACGATGATCAATGAAT 57.278 30.769 0.00 0.00 0.00 2.57
2880 4515 9.301897 GGAAAATTCAGCCCATAGTAATAATCT 57.698 33.333 0.00 0.00 0.00 2.40
2990 4667 0.529773 GTCGCCCTCATCGTAATGCA 60.530 55.000 0.00 0.00 32.58 3.96
3000 4677 2.748647 TCATCGTCGTCGCCCTCA 60.749 61.111 0.00 0.00 36.96 3.86
3042 4764 0.933097 GCGACCGATAGTACTCGTCA 59.067 55.000 0.00 0.00 36.93 4.35
3082 4837 0.450583 AGCGCGACATTCTCTTCGTA 59.549 50.000 12.10 0.00 37.56 3.43
3361 5124 0.957362 AGCAGCAAAAGGAGAAGTGC 59.043 50.000 0.00 0.00 37.26 4.40
3389 5152 5.918608 AGTCATCTGTACAAGAAGTTGTGT 58.081 37.500 0.00 0.00 46.75 3.72
3445 5230 3.825308 CCACCAACGTCTGAATCAATTG 58.175 45.455 0.00 0.00 0.00 2.32
3660 5481 1.760192 AAAGGCATCCAGATGTGAGC 58.240 50.000 9.29 0.00 40.80 4.26
3788 8274 7.827701 ACACGAGATTCTGTTACAAAGATCTA 58.172 34.615 0.00 0.00 0.00 1.98
3853 8339 0.730840 GGCCGACGGAAAATACAAGG 59.269 55.000 20.50 0.00 0.00 3.61
3866 8352 1.202371 TGATATTCACAGTCGGCCGAC 60.202 52.381 43.92 43.92 44.86 4.79
3885 8379 8.783833 TCCAGTTTTCATTCTATCTTCTTCTG 57.216 34.615 0.00 0.00 0.00 3.02
3902 8396 8.531146 TCTTGTTCTTCTTTCAAATCCAGTTTT 58.469 29.630 0.00 0.00 0.00 2.43
3906 8400 7.269477 AGTCTTGTTCTTCTTTCAAATCCAG 57.731 36.000 0.00 0.00 0.00 3.86
3945 8439 2.707554 ACTCCCCTTTCCTTGAAGTCT 58.292 47.619 0.00 0.00 0.00 3.24
3947 8441 3.463704 AGAAACTCCCCTTTCCTTGAAGT 59.536 43.478 0.00 0.00 31.44 3.01
3948 8442 3.823304 CAGAAACTCCCCTTTCCTTGAAG 59.177 47.826 0.00 0.00 31.44 3.02
3949 8443 3.832527 CAGAAACTCCCCTTTCCTTGAA 58.167 45.455 0.00 0.00 31.44 2.69
3977 8521 5.646360 TCAGACAGAAGAAAAAGAAACCGTT 59.354 36.000 0.00 0.00 0.00 4.44
3979 8523 5.064707 TGTCAGACAGAAGAAAAAGAAACCG 59.935 40.000 0.00 0.00 0.00 4.44
3997 8541 4.829492 TCTTCTGATCTTCACACTGTCAGA 59.171 41.667 6.91 0.00 42.39 3.27
3999 8543 5.163416 TGTTCTTCTGATCTTCACACTGTCA 60.163 40.000 0.00 0.00 0.00 3.58
4035 8825 7.687941 TTTCTTTTCTTCACTTCAGTTGAGT 57.312 32.000 0.00 0.00 0.00 3.41
4036 8826 8.239998 ACTTTTCTTTTCTTCACTTCAGTTGAG 58.760 33.333 0.00 0.00 0.00 3.02
4069 8859 6.551601 TCTCACCCCAACTTTTATTTTGCTTA 59.448 34.615 0.00 0.00 0.00 3.09
4178 8978 5.111989 ACTGAATCATTCATCGTACACCAG 58.888 41.667 0.00 0.00 39.30 4.00
4218 9031 3.527665 TCCCCTTTTTCTTCCCTATCTGG 59.472 47.826 0.00 0.00 0.00 3.86
4242 9055 2.562738 CGCCCCAATTCCTTTTCTTTCT 59.437 45.455 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.