Multiple sequence alignment - TraesCS3A01G125700

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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 TraesCS3A01G125700 chr3A 100.000 4512 0 0 1 4512 101103192 101098681 0.000000e+00 8333.0
1 TraesCS3A01G125700 chr3A 92.941 1105 71 2 927 2029 100959978 100958879 0.000000e+00 1602.0
2 TraesCS3A01G125700 chr3A 96.711 912 27 3 2029 2938 749286245 749287155 0.000000e+00 1515.0
3 TraesCS3A01G125700 chr3A 82.826 1019 160 11 1012 2026 101608029 101609036 0.000000e+00 898.0
4 TraesCS3A01G125700 chr3A 82.583 1022 164 9 1012 2029 101569160 101568149 0.000000e+00 889.0
5 TraesCS3A01G125700 chr3A 90.252 636 55 2 2938 3567 100958889 100958255 0.000000e+00 824.0
6 TraesCS3A01G125700 chr3A 84.867 489 74 0 2938 3426 101568159 101567671 1.130000e-135 494.0
7 TraesCS3A01G125700 chr3A 84.049 489 77 1 2938 3426 101609029 101609516 1.900000e-128 470.0
8 TraesCS3A01G125700 chr3A 96.954 197 6 0 3767 3963 106669808 106670004 9.360000e-87 331.0
9 TraesCS3A01G125700 chr3A 92.140 229 14 4 3767 3992 723595699 723595472 2.030000e-83 320.0
10 TraesCS3A01G125700 chr3A 92.754 69 1 3 3572 3636 100958159 100958091 3.720000e-16 97.1
11 TraesCS3A01G125700 chr3A 89.362 47 4 1 878 924 100960052 100960007 1.750000e-04 58.4
12 TraesCS3A01G125700 chr3B 92.786 1109 73 2 923 2029 132999369 133000472 0.000000e+00 1598.0
13 TraesCS3A01G125700 chr3B 90.665 707 56 5 2938 3636 133000462 133001166 0.000000e+00 931.0
14 TraesCS3A01G125700 chr3B 85.474 475 69 0 2938 3412 133385567 133386041 3.140000e-136 496.0
15 TraesCS3A01G125700 chr7A 96.382 912 31 2 2029 2938 150182909 150181998 0.000000e+00 1500.0
16 TraesCS3A01G125700 chr7A 84.078 1030 138 13 1001 2026 146908307 146909314 0.000000e+00 970.0
17 TraesCS3A01G125700 chr7A 84.388 474 72 2 2938 3410 146909307 146909779 8.840000e-127 464.0
18 TraesCS3A01G125700 chr7A 96.923 195 6 0 3769 3963 211721565 211721759 1.210000e-85 327.0
19 TraesCS3A01G125700 chr6B 96.162 912 29 5 2029 2937 51568654 51567746 0.000000e+00 1485.0
20 TraesCS3A01G125700 chr6B 91.763 862 69 1 1 862 171734437 171733578 0.000000e+00 1197.0
21 TraesCS3A01G125700 chr4A 95.609 911 38 2 2029 2937 607872981 607872071 0.000000e+00 1459.0
22 TraesCS3A01G125700 chr4A 95.175 912 38 5 2029 2937 647532694 647531786 0.000000e+00 1435.0
23 TraesCS3A01G125700 chr4A 94.110 798 44 3 1 798 157871727 157872521 0.000000e+00 1210.0
24 TraesCS3A01G125700 chr2D 93.318 868 53 3 1 867 15841758 15842621 0.000000e+00 1277.0
25 TraesCS3A01G125700 chr2D 94.251 487 27 1 3960 4445 344309442 344308956 0.000000e+00 743.0
26 TraesCS3A01G125700 chr2D 92.157 51 4 0 3681 3731 509751414 509751464 6.260000e-09 73.1
27 TraesCS3A01G125700 chr6D 93.279 863 54 3 1 862 362300750 362301609 0.000000e+00 1269.0
28 TraesCS3A01G125700 chr6D 93.048 863 58 1 1 863 426088640 426089500 0.000000e+00 1260.0
29 TraesCS3A01G125700 chr6D 94.398 482 27 0 3964 4445 87135885 87135404 0.000000e+00 741.0
30 TraesCS3A01G125700 chr6D 90.833 240 15 3 2546 2782 459043700 459043465 9.420000e-82 315.0
31 TraesCS3A01G125700 chr6D 91.304 115 5 4 2824 2936 459043465 459043354 7.820000e-33 152.0
32 TraesCS3A01G125700 chr6D 98.611 72 1 0 4441 4512 87530931 87530860 1.320000e-25 128.0
33 TraesCS3A01G125700 chr6A 92.223 913 43 16 2028 2937 10938164 10939051 0.000000e+00 1267.0
34 TraesCS3A01G125700 chr6A 95.010 481 23 1 3960 4439 24276703 24277183 0.000000e+00 754.0
35 TraesCS3A01G125700 chr6A 100.000 69 0 0 4441 4509 105733206 105733138 1.320000e-25 128.0
36 TraesCS3A01G125700 chr6A 100.000 69 0 0 4441 4509 134602548 134602616 1.320000e-25 128.0
37 TraesCS3A01G125700 chr7D 93.056 864 53 3 1 863 124837039 124837896 0.000000e+00 1256.0
38 TraesCS3A01G125700 chr7D 83.705 1031 140 15 1001 2026 146090727 146091734 0.000000e+00 948.0
39 TraesCS3A01G125700 chr7D 94.824 483 25 0 3963 4445 22757506 22757024 0.000000e+00 754.0
40 TraesCS3A01G125700 chr7D 94.824 483 25 0 3963 4445 22764953 22764471 0.000000e+00 754.0
41 TraesCS3A01G125700 chr7D 85.021 474 69 2 2938 3410 146091727 146092199 8.780000e-132 481.0
42 TraesCS3A01G125700 chr7D 96.447 197 7 0 3767 3963 135329091 135329287 4.350000e-85 326.0
43 TraesCS3A01G125700 chr5D 92.923 862 59 1 1 862 449911441 449912300 0.000000e+00 1253.0
44 TraesCS3A01G125700 chr5D 94.813 482 25 0 3964 4445 493140672 493140191 0.000000e+00 752.0
45 TraesCS3A01G125700 chr5D 94.617 483 26 0 3963 4445 541673420 541672938 0.000000e+00 749.0
46 TraesCS3A01G125700 chr5D 96.000 200 8 0 3767 3966 493141427 493141228 4.350000e-85 326.0
47 TraesCS3A01G125700 chr5D 100.000 69 0 0 4441 4509 363020068 363020136 1.320000e-25 128.0
48 TraesCS3A01G125700 chr5D 100.000 69 0 0 4441 4509 478562357 478562425 1.320000e-25 128.0
49 TraesCS3A01G125700 chr4D 92.932 863 58 2 1 863 320213439 320214298 0.000000e+00 1253.0
50 TraesCS3A01G125700 chr4D 92.807 862 60 1 1 862 260687377 260686518 0.000000e+00 1247.0
51 TraesCS3A01G125700 chr4D 94.241 573 33 0 106 678 20396078 20396650 0.000000e+00 876.0
52 TraesCS3A01G125700 chr4D 96.000 200 8 0 3767 3966 435188772 435188573 4.350000e-85 326.0
53 TraesCS3A01G125700 chr1B 89.547 861 86 2 1 861 631622036 631621180 0.000000e+00 1088.0
54 TraesCS3A01G125700 chr4B 88.386 861 98 1 1 861 54332396 54331538 0.000000e+00 1035.0
55 TraesCS3A01G125700 chr4B 88.725 541 59 1 321 861 619331361 619331899 0.000000e+00 660.0
56 TraesCS3A01G125700 chr4B 98.611 72 1 0 4441 4512 188159100 188159171 1.320000e-25 128.0
57 TraesCS3A01G125700 chr5A 83.807 951 97 27 2031 2938 706601491 706600555 0.000000e+00 850.0
58 TraesCS3A01G125700 chr5A 98.611 72 1 0 4441 4512 410819413 410819342 1.320000e-25 128.0
59 TraesCS3A01G125700 chr1D 92.374 577 41 2 288 863 184000270 183999696 0.000000e+00 819.0
60 TraesCS3A01G125700 chr1D 95.031 483 24 0 3963 4445 481593404 481592922 0.000000e+00 760.0
61 TraesCS3A01G125700 chr1D 94.456 487 26 1 3960 4445 474829600 474830086 0.000000e+00 749.0
62 TraesCS3A01G125700 chr1D 96.020 201 8 0 3766 3966 466423890 466423690 1.210000e-85 327.0
63 TraesCS3A01G125700 chr7B 81.910 597 87 12 2938 3516 108250009 108250602 6.790000e-133 484.0
64 TraesCS3A01G125700 chr3D 85.649 439 63 0 2938 3376 84885178 84885616 3.180000e-126 462.0
65 TraesCS3A01G125700 chr3D 96.447 197 7 0 3767 3963 167799454 167799650 4.350000e-85 326.0
66 TraesCS3A01G125700 chr3D 100.000 69 0 0 4441 4509 167795618 167795686 1.320000e-25 128.0
67 TraesCS3A01G125700 chr2A 96.020 201 8 0 3766 3966 711519587 711519387 1.210000e-85 327.0
68 TraesCS3A01G125700 chr2A 96.203 79 1 1 4433 4509 25337958 25338036 1.320000e-25 128.0


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 TraesCS3A01G125700 chr3A 101098681 101103192 4511 True 8333.000 8333 100.00000 1 4512 1 chr3A.!!$R1 4511
1 TraesCS3A01G125700 chr3A 749286245 749287155 910 False 1515.000 1515 96.71100 2029 2938 1 chr3A.!!$F2 909
2 TraesCS3A01G125700 chr3A 101567671 101569160 1489 True 691.500 889 83.72500 1012 3426 2 chr3A.!!$R4 2414
3 TraesCS3A01G125700 chr3A 101608029 101609516 1487 False 684.000 898 83.43750 1012 3426 2 chr3A.!!$F3 2414
4 TraesCS3A01G125700 chr3A 100958091 100960052 1961 True 645.375 1602 91.32725 878 3636 4 chr3A.!!$R3 2758
5 TraesCS3A01G125700 chr3B 132999369 133001166 1797 False 1264.500 1598 91.72550 923 3636 2 chr3B.!!$F2 2713
6 TraesCS3A01G125700 chr7A 150181998 150182909 911 True 1500.000 1500 96.38200 2029 2938 1 chr7A.!!$R1 909
7 TraesCS3A01G125700 chr7A 146908307 146909779 1472 False 717.000 970 84.23300 1001 3410 2 chr7A.!!$F2 2409
8 TraesCS3A01G125700 chr6B 51567746 51568654 908 True 1485.000 1485 96.16200 2029 2937 1 chr6B.!!$R1 908
9 TraesCS3A01G125700 chr6B 171733578 171734437 859 True 1197.000 1197 91.76300 1 862 1 chr6B.!!$R2 861
10 TraesCS3A01G125700 chr4A 607872071 607872981 910 True 1459.000 1459 95.60900 2029 2937 1 chr4A.!!$R1 908
11 TraesCS3A01G125700 chr4A 647531786 647532694 908 True 1435.000 1435 95.17500 2029 2937 1 chr4A.!!$R2 908
12 TraesCS3A01G125700 chr4A 157871727 157872521 794 False 1210.000 1210 94.11000 1 798 1 chr4A.!!$F1 797
13 TraesCS3A01G125700 chr2D 15841758 15842621 863 False 1277.000 1277 93.31800 1 867 1 chr2D.!!$F1 866
14 TraesCS3A01G125700 chr6D 362300750 362301609 859 False 1269.000 1269 93.27900 1 862 1 chr6D.!!$F1 861
15 TraesCS3A01G125700 chr6D 426088640 426089500 860 False 1260.000 1260 93.04800 1 863 1 chr6D.!!$F2 862
16 TraesCS3A01G125700 chr6A 10938164 10939051 887 False 1267.000 1267 92.22300 2028 2937 1 chr6A.!!$F1 909
17 TraesCS3A01G125700 chr7D 124837039 124837896 857 False 1256.000 1256 93.05600 1 863 1 chr7D.!!$F1 862
18 TraesCS3A01G125700 chr7D 146090727 146092199 1472 False 714.500 948 84.36300 1001 3410 2 chr7D.!!$F3 2409
19 TraesCS3A01G125700 chr5D 449911441 449912300 859 False 1253.000 1253 92.92300 1 862 1 chr5D.!!$F2 861
20 TraesCS3A01G125700 chr5D 493140191 493141427 1236 True 539.000 752 95.40650 3767 4445 2 chr5D.!!$R2 678
21 TraesCS3A01G125700 chr4D 320213439 320214298 859 False 1253.000 1253 92.93200 1 863 1 chr4D.!!$F2 862
22 TraesCS3A01G125700 chr4D 260686518 260687377 859 True 1247.000 1247 92.80700 1 862 1 chr4D.!!$R1 861
23 TraesCS3A01G125700 chr4D 20396078 20396650 572 False 876.000 876 94.24100 106 678 1 chr4D.!!$F1 572
24 TraesCS3A01G125700 chr1B 631621180 631622036 856 True 1088.000 1088 89.54700 1 861 1 chr1B.!!$R1 860
25 TraesCS3A01G125700 chr4B 54331538 54332396 858 True 1035.000 1035 88.38600 1 861 1 chr4B.!!$R1 860
26 TraesCS3A01G125700 chr4B 619331361 619331899 538 False 660.000 660 88.72500 321 861 1 chr4B.!!$F2 540
27 TraesCS3A01G125700 chr5A 706600555 706601491 936 True 850.000 850 83.80700 2031 2938 1 chr5A.!!$R2 907
28 TraesCS3A01G125700 chr1D 183999696 184000270 574 True 819.000 819 92.37400 288 863 1 chr1D.!!$R1 575
29 TraesCS3A01G125700 chr7B 108250009 108250602 593 False 484.000 484 81.91000 2938 3516 1 chr7B.!!$F1 578
30 TraesCS3A01G125700 chr3D 167795618 167799650 4032 False 227.000 326 98.22350 3767 4509 2 chr3D.!!$F2 742

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
889 890 0.099082 CTCAGGTCTTAGTCGGCGTC 59.901 60.0 6.85 0.00 0.00 5.19 F
1074 1101 0.345146 TCATCCCCATGGTGGACCTA 59.655 55.0 20.45 9.13 40.96 3.08 F
2456 2508 0.251634 GAGAGAACTTGGGGCTGAGG 59.748 60.0 0.00 0.00 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1760 1793 0.321564 CGTCCTTGTCCAAGATGCCA 60.322 55.0 8.59 0.0 40.79 4.92 R
2875 2963 0.687920 TTGGCCATCCGTCACTGTTA 59.312 50.0 6.09 0.0 34.14 2.41 R
4334 5095 0.037326 TCCTAGTCTGCCAACGCTTG 60.037 55.0 0.00 0.0 35.36 4.01 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
176 177 2.631160 CCCTTCGGGCATGTATACAA 57.369 50.000 10.14 0.00 35.35 2.41
214 215 2.038387 AACTTAATCAGGGCGCGATT 57.962 45.000 12.10 18.97 36.97 3.34
317 318 1.407437 GGCTTTGGACATCCGACAGAT 60.407 52.381 0.00 0.00 39.43 2.90
412 413 3.636300 ACATTGTGGTGCAGTGTGTTTAT 59.364 39.130 0.00 0.00 44.71 1.40
467 468 5.015178 TCCCTACAAATCAATGTCCTTCCTT 59.985 40.000 0.00 0.00 34.75 3.36
507 508 1.159905 TGGAGTGGTGGCTTAGGGA 59.840 57.895 0.00 0.00 0.00 4.20
549 550 1.871039 GCACAAGCGAGGTTTTGACTA 59.129 47.619 5.50 0.00 0.00 2.59
621 622 1.129437 GTTCAATCGACCAGAGCAAGC 59.871 52.381 0.00 0.00 0.00 4.01
631 632 4.177783 GACCAGAGCAAGCTAAAGACTAC 58.822 47.826 0.00 0.00 0.00 2.73
674 675 1.218316 GAGGAAATCCGCGAGTGGT 59.782 57.895 8.23 0.00 42.08 4.16
675 676 0.458669 GAGGAAATCCGCGAGTGGTA 59.541 55.000 8.23 0.00 42.08 3.25
706 707 1.226262 GTGGGTGCGGGTGGATTAT 59.774 57.895 0.00 0.00 0.00 1.28
744 745 7.329471 CGAGATCACACTTGATTTTCTTGTAGA 59.671 37.037 0.00 0.00 42.95 2.59
765 766 2.734591 GTGTGAGTGGGTGCTCGA 59.265 61.111 0.00 0.00 38.28 4.04
812 813 6.199393 GCACGAATCTTGTAAACTGTCTTTT 58.801 36.000 0.00 0.00 0.00 2.27
878 879 2.568623 AAAACATTCGGCTCAGGTCT 57.431 45.000 0.00 0.00 0.00 3.85
879 880 2.568623 AAACATTCGGCTCAGGTCTT 57.431 45.000 0.00 0.00 0.00 3.01
880 881 3.695830 AAACATTCGGCTCAGGTCTTA 57.304 42.857 0.00 0.00 0.00 2.10
882 883 2.180276 ACATTCGGCTCAGGTCTTAGT 58.820 47.619 0.00 0.00 0.00 2.24
886 887 1.142097 GGCTCAGGTCTTAGTCGGC 59.858 63.158 0.00 0.00 0.00 5.54
889 890 0.099082 CTCAGGTCTTAGTCGGCGTC 59.901 60.000 6.85 0.00 0.00 5.19
918 919 4.336280 GAGGCAACCCAAAGAATTCTAGT 58.664 43.478 8.75 1.59 37.17 2.57
919 920 4.082125 AGGCAACCCAAAGAATTCTAGTG 58.918 43.478 8.75 9.96 37.17 2.74
950 977 2.483714 GCTCGATGGATAAGCCTGAACA 60.484 50.000 0.00 0.00 37.63 3.18
1038 1065 1.067142 CACTTCTTGCTGGTACCGCTA 60.067 52.381 23.03 17.08 0.00 4.26
1074 1101 0.345146 TCATCCCCATGGTGGACCTA 59.655 55.000 20.45 9.13 40.96 3.08
1077 1104 1.694169 CCCCATGGTGGACCTAGCT 60.694 63.158 11.73 0.00 40.96 3.32
1153 1180 4.680237 CGCGGAACAGAGCCACCA 62.680 66.667 0.00 0.00 0.00 4.17
1161 1188 2.362503 AGAGCCACCATCGACGGA 60.363 61.111 3.60 0.00 0.00 4.69
1339 1372 2.654877 CGTTGCAGGGGTACGTCT 59.345 61.111 0.00 0.00 0.00 4.18
1480 1513 4.539083 TCGCCGTGCACAACCTGT 62.539 61.111 18.64 0.00 0.00 4.00
1481 1514 4.012895 CGCCGTGCACAACCTGTC 62.013 66.667 18.64 0.00 0.00 3.51
1482 1515 3.660111 GCCGTGCACAACCTGTCC 61.660 66.667 18.64 0.00 0.00 4.02
1483 1516 2.203139 CCGTGCACAACCTGTCCA 60.203 61.111 18.64 0.00 0.00 4.02
1484 1517 2.542907 CCGTGCACAACCTGTCCAC 61.543 63.158 18.64 0.00 0.00 4.02
1525 1558 2.050714 TGTCGGCGACAACGAGAC 60.051 61.111 37.53 12.19 39.78 3.36
1579 1612 4.752879 CGTCGGGAACACGGCCAT 62.753 66.667 2.24 0.00 34.43 4.40
1598 1631 1.303282 GTTCCGGGGCTTCTTCCAT 59.697 57.895 0.00 0.00 0.00 3.41
1676 1709 1.438651 GCCTGCTGATCAACACGTTA 58.561 50.000 0.00 0.00 0.00 3.18
1677 1710 1.394917 GCCTGCTGATCAACACGTTAG 59.605 52.381 0.00 0.00 0.00 2.34
1709 1742 1.535437 GGGATCTTTGTCGACGCGTAT 60.535 52.381 13.97 0.00 0.00 3.06
1738 1771 4.003788 CCGCAAGAGGACGTGGGT 62.004 66.667 0.00 0.00 43.02 4.51
1739 1772 2.030562 CGCAAGAGGACGTGGGTT 59.969 61.111 0.00 0.00 43.02 4.11
1740 1773 2.027625 CGCAAGAGGACGTGGGTTC 61.028 63.158 0.00 0.00 43.02 3.62
1746 1779 3.308705 GGACGTGGGTTCTCGGGT 61.309 66.667 0.00 0.00 34.59 5.28
1760 1793 3.681835 GGGTCGACGTGCACCTCT 61.682 66.667 12.15 0.00 32.69 3.69
2146 2181 6.899393 TCTTCAGGTTTTGCAGTTCATAAT 57.101 33.333 0.00 0.00 0.00 1.28
2182 2217 3.181440 ACAGGTTGTCCACTGTGATCAAT 60.181 43.478 9.86 0.00 45.54 2.57
2456 2508 0.251634 GAGAGAACTTGGGGCTGAGG 59.748 60.000 0.00 0.00 0.00 3.86
2608 2676 3.142174 GGTAAAAGAGAGCTTGTGCAGT 58.858 45.455 0.00 0.00 42.74 4.40
2671 2739 1.002773 TGAGCATGCATGTGACAGAGT 59.997 47.619 26.79 3.05 0.00 3.24
2850 2938 1.519408 GAGAGTTTAAGCGCCCACAA 58.481 50.000 2.29 0.00 0.00 3.33
2859 2947 1.600916 GCGCCCACAAGTTCTCCTT 60.601 57.895 0.00 0.00 0.00 3.36
2875 2963 1.827344 TCCTTGCATCTCGAGACACAT 59.173 47.619 19.30 0.00 0.00 3.21
2907 2995 1.228510 GGCCAAGATAGCAGGGCTT 59.771 57.895 11.90 0.00 45.68 4.35
3155 3243 3.716539 GACGTGCTCCGCATAGGCA 62.717 63.158 0.00 0.00 41.91 4.75
3198 3286 0.822121 GCCAAGAACGTCCCCAAAGT 60.822 55.000 0.00 0.00 0.00 2.66
3259 3347 1.610102 GCCATTGCCGAGCTGATAGAT 60.610 52.381 0.00 0.00 0.00 1.98
3286 3374 2.766400 CGAGAGGACGGTGAGGAGC 61.766 68.421 0.00 0.00 0.00 4.70
3308 3396 0.538057 CAGAGCCAAGGAAGTTGCCA 60.538 55.000 0.00 0.00 34.45 4.92
3309 3397 0.251077 AGAGCCAAGGAAGTTGCCAG 60.251 55.000 0.00 0.00 34.45 4.85
3381 3469 0.249489 GACATGATCCGCTACGCCTT 60.249 55.000 0.00 0.00 0.00 4.35
3432 3526 0.037326 GACACAAGCTCGATGACCCA 60.037 55.000 0.00 0.00 0.00 4.51
3526 3635 7.045126 ACAGTCCTAAGCTGTATAACTCATC 57.955 40.000 0.00 0.00 44.41 2.92
3536 3645 5.928839 GCTGTATAACTCATCATCGGATTGT 59.071 40.000 0.00 0.00 0.00 2.71
3636 3839 8.994429 TTTGGGCAACAAATGTATAAATGTAG 57.006 30.769 2.11 0.00 43.81 2.74
3638 3841 8.809468 TGGGCAACAAATGTATAAATGTAGTA 57.191 30.769 0.00 0.00 39.74 1.82
3639 3842 9.415008 TGGGCAACAAATGTATAAATGTAGTAT 57.585 29.630 0.00 0.00 39.74 2.12
3653 3856 7.624706 AAATGTAGTATAGAACGCGAATGAG 57.375 36.000 15.93 0.00 0.00 2.90
3654 3857 4.534168 TGTAGTATAGAACGCGAATGAGC 58.466 43.478 15.93 0.00 0.00 4.26
3655 3858 3.992260 AGTATAGAACGCGAATGAGCT 57.008 42.857 15.93 2.68 34.40 4.09
3656 3859 4.308899 AGTATAGAACGCGAATGAGCTT 57.691 40.909 15.93 0.00 34.40 3.74
3657 3860 4.683832 AGTATAGAACGCGAATGAGCTTT 58.316 39.130 15.93 0.00 34.40 3.51
3658 3861 5.109903 AGTATAGAACGCGAATGAGCTTTT 58.890 37.500 15.93 0.00 34.40 2.27
3659 3862 4.946784 ATAGAACGCGAATGAGCTTTTT 57.053 36.364 15.93 0.00 34.40 1.94
3707 3910 8.761575 AGTTGCCAAGTATAACAATTTTCATG 57.238 30.769 0.00 0.00 0.00 3.07
3708 3911 7.331687 AGTTGCCAAGTATAACAATTTTCATGC 59.668 33.333 0.00 0.00 0.00 4.06
3709 3912 6.934056 TGCCAAGTATAACAATTTTCATGCT 58.066 32.000 0.00 0.00 0.00 3.79
3710 3913 7.385267 TGCCAAGTATAACAATTTTCATGCTT 58.615 30.769 0.00 0.00 0.00 3.91
3711 3914 7.877097 TGCCAAGTATAACAATTTTCATGCTTT 59.123 29.630 0.00 0.00 0.00 3.51
3712 3915 9.364989 GCCAAGTATAACAATTTTCATGCTTTA 57.635 29.630 0.00 0.00 0.00 1.85
3728 3931 9.809096 TTCATGCTTTAGTTTATTTTTGTCACA 57.191 25.926 0.00 0.00 0.00 3.58
3729 3932 9.809096 TCATGCTTTAGTTTATTTTTGTCACAA 57.191 25.926 0.00 0.00 0.00 3.33
3750 3953 4.787381 AAAAATTGCCGTGTTTGCTAAC 57.213 36.364 3.93 3.93 34.75 2.34
3751 3954 3.726291 AAATTGCCGTGTTTGCTAACT 57.274 38.095 12.20 0.00 35.24 2.24
3752 3955 4.839668 AAATTGCCGTGTTTGCTAACTA 57.160 36.364 12.20 0.00 35.24 2.24
3753 3956 4.839668 AATTGCCGTGTTTGCTAACTAA 57.160 36.364 12.20 1.40 35.24 2.24
3754 3957 5.385509 AATTGCCGTGTTTGCTAACTAAT 57.614 34.783 12.20 3.37 35.24 1.73
3755 3958 4.839668 TTGCCGTGTTTGCTAACTAATT 57.160 36.364 12.20 0.00 35.24 1.40
3756 3959 4.839668 TGCCGTGTTTGCTAACTAATTT 57.160 36.364 12.20 0.00 35.24 1.82
3757 3960 4.541779 TGCCGTGTTTGCTAACTAATTTG 58.458 39.130 12.20 0.00 35.24 2.32
3758 3961 4.036971 TGCCGTGTTTGCTAACTAATTTGT 59.963 37.500 12.20 0.00 35.24 2.83
3759 3962 4.615541 GCCGTGTTTGCTAACTAATTTGTC 59.384 41.667 12.20 0.00 35.24 3.18
3760 3963 5.753744 CCGTGTTTGCTAACTAATTTGTCA 58.246 37.500 12.20 0.00 35.24 3.58
3761 3964 6.378582 CCGTGTTTGCTAACTAATTTGTCAT 58.621 36.000 12.20 0.00 35.24 3.06
3762 3965 6.523201 CCGTGTTTGCTAACTAATTTGTCATC 59.477 38.462 12.20 0.00 35.24 2.92
3763 3966 7.298122 CGTGTTTGCTAACTAATTTGTCATCT 58.702 34.615 12.20 0.00 35.24 2.90
3764 3967 7.478667 CGTGTTTGCTAACTAATTTGTCATCTC 59.521 37.037 12.20 0.00 35.24 2.75
3765 3968 7.478667 GTGTTTGCTAACTAATTTGTCATCTCG 59.521 37.037 12.20 0.00 35.24 4.04
3812 4015 5.724854 GGCCCATATAAGACACTAATCCCTA 59.275 44.000 0.00 0.00 0.00 3.53
3852 4055 0.915872 ATGAGATGGCAGGTGGTGGA 60.916 55.000 0.00 0.00 0.00 4.02
3891 4094 4.348486 TGCTAGTTGAGGAGAGTTGAGAT 58.652 43.478 0.00 0.00 0.00 2.75
3933 4136 0.971386 CACTTGCCATTGGGAGCTTT 59.029 50.000 4.53 0.00 35.59 3.51
3977 4738 0.977627 TCCTCATCGACACCATGGCT 60.978 55.000 13.04 0.00 0.00 4.75
3982 4743 3.490759 CGACACCATGGCTGACGC 61.491 66.667 13.04 4.54 0.00 5.19
4001 4762 2.098233 CGCCGCCGCTAAGAAGAAA 61.098 57.895 0.00 0.00 0.00 2.52
4014 4775 0.599204 GAAGAAAGCCACGGACGACA 60.599 55.000 0.00 0.00 0.00 4.35
4029 4790 2.997315 ACACCGAGGCTGCTGCTA 60.997 61.111 15.64 0.00 39.59 3.49
4122 4883 3.006859 AGCCGTATATGTGCTGCTCATAA 59.993 43.478 23.26 12.83 33.23 1.90
4127 4888 5.466728 CGTATATGTGCTGCTCATAAAAGGT 59.533 40.000 23.26 12.26 32.62 3.50
4201 4962 6.029346 GCATACCTTTTATGCCATGCTTAT 57.971 37.500 5.14 0.00 43.18 1.73
4202 4963 6.095377 GCATACCTTTTATGCCATGCTTATC 58.905 40.000 5.14 0.00 43.18 1.75
4203 4964 6.294675 GCATACCTTTTATGCCATGCTTATCA 60.295 38.462 5.14 0.00 43.18 2.15
4310 5071 2.928801 TTGCTGCTACTCTGAAACCA 57.071 45.000 0.00 0.00 0.00 3.67
4379 5140 3.446161 CCTTGTGGCTCACATTGATGAAT 59.554 43.478 8.55 0.00 44.16 2.57
4393 5154 4.097551 TGATGAATGTGTTCTGGGTTGA 57.902 40.909 0.00 0.00 35.33 3.18
4419 5180 2.480419 GTGTCCCTCACAGAAACGATTG 59.520 50.000 0.00 0.00 45.51 2.67
4441 5202 3.129792 CTGAACAGGAGAAGGCGTC 57.870 57.895 0.00 0.00 0.00 5.19
4466 5227 2.712057 CCAATGTGGTGCAGAAGAAC 57.288 50.000 0.00 0.00 31.35 3.01
4467 5228 2.233271 CCAATGTGGTGCAGAAGAACT 58.767 47.619 0.00 0.00 31.35 3.01
4468 5229 2.624838 CCAATGTGGTGCAGAAGAACTT 59.375 45.455 0.00 0.00 31.35 2.66
4469 5230 3.304928 CCAATGTGGTGCAGAAGAACTTC 60.305 47.826 6.46 6.46 34.76 3.01
4470 5231 1.967319 TGTGGTGCAGAAGAACTTCC 58.033 50.000 10.41 0.00 40.33 3.46
4471 5232 1.211703 TGTGGTGCAGAAGAACTTCCA 59.788 47.619 10.41 0.29 40.33 3.53
4472 5233 1.604278 GTGGTGCAGAAGAACTTCCAC 59.396 52.381 10.41 11.47 40.33 4.02
4473 5234 1.211703 TGGTGCAGAAGAACTTCCACA 59.788 47.619 18.17 11.89 40.33 4.17
4474 5235 2.297701 GGTGCAGAAGAACTTCCACAA 58.702 47.619 18.17 1.67 40.33 3.33
4475 5236 2.291741 GGTGCAGAAGAACTTCCACAAG 59.708 50.000 18.17 5.73 40.33 3.16
4476 5237 2.945668 GTGCAGAAGAACTTCCACAAGT 59.054 45.455 10.41 0.00 45.43 3.16
4485 5246 3.662759 ACTTCCACAAGTTCAAGGGAA 57.337 42.857 0.00 0.00 40.16 3.97
4486 5247 3.976015 ACTTCCACAAGTTCAAGGGAAA 58.024 40.909 0.00 0.00 40.16 3.13
4487 5248 3.954258 ACTTCCACAAGTTCAAGGGAAAG 59.046 43.478 0.00 0.00 40.16 2.62
4488 5249 3.943671 TCCACAAGTTCAAGGGAAAGA 57.056 42.857 0.00 0.00 34.13 2.52
4489 5250 4.243793 TCCACAAGTTCAAGGGAAAGAA 57.756 40.909 0.00 0.00 34.13 2.52
4490 5251 3.951680 TCCACAAGTTCAAGGGAAAGAAC 59.048 43.478 0.00 0.00 43.33 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
176 177 0.968901 TTGGCGTAGGTGGATCTCGT 60.969 55.000 0.00 0.00 0.00 4.18
214 215 1.410517 GCAGCAGCAGTAGGTGATCTA 59.589 52.381 0.00 0.00 45.95 1.98
317 318 2.358125 CAACCCATGTCGCGTCCA 60.358 61.111 5.77 4.64 0.00 4.02
467 468 0.973632 AGTGTGTCCGTGCTATTGGA 59.026 50.000 0.00 0.00 0.00 3.53
507 508 0.035056 CCCTTGGAAACCAGAGCGAT 60.035 55.000 0.00 0.00 33.81 4.58
621 622 8.160521 TCTAGCTAGCTCATTGTAGTCTTTAG 57.839 38.462 23.26 7.79 0.00 1.85
631 632 3.587923 GATGGCTCTAGCTAGCTCATTG 58.412 50.000 23.26 11.22 42.37 2.82
674 675 4.504165 CCGCACCCACACCTGAATTATATA 60.504 45.833 0.00 0.00 0.00 0.86
675 676 3.476552 CGCACCCACACCTGAATTATAT 58.523 45.455 0.00 0.00 0.00 0.86
715 716 4.756642 AGAAAATCAAGTGTGATCTCGCAA 59.243 37.500 10.68 0.00 44.02 4.85
718 719 6.233430 ACAAGAAAATCAAGTGTGATCTCG 57.767 37.500 0.00 0.00 44.02 4.04
744 745 2.129555 GAGCACCCACTCACACCCAT 62.130 60.000 0.00 0.00 36.65 4.00
812 813 8.480501 AGCGTACTGTATTTTTATAGAAGGGAA 58.519 33.333 0.00 0.00 0.00 3.97
867 868 1.433879 CCGACTAAGACCTGAGCCG 59.566 63.158 0.00 0.00 0.00 5.52
868 869 1.142097 GCCGACTAAGACCTGAGCC 59.858 63.158 0.00 0.00 0.00 4.70
869 870 1.226717 CGCCGACTAAGACCTGAGC 60.227 63.158 0.00 0.00 0.00 4.26
870 871 0.099082 GACGCCGACTAAGACCTGAG 59.901 60.000 0.00 0.00 0.00 3.35
872 873 0.179161 CAGACGCCGACTAAGACCTG 60.179 60.000 0.00 0.00 0.00 4.00
875 876 0.803740 AGTCAGACGCCGACTAAGAC 59.196 55.000 0.00 0.00 41.91 3.01
877 878 0.179161 CCAGTCAGACGCCGACTAAG 60.179 60.000 0.00 0.00 41.80 2.18
878 879 0.607217 TCCAGTCAGACGCCGACTAA 60.607 55.000 0.00 0.00 41.80 2.24
879 880 1.002990 TCCAGTCAGACGCCGACTA 60.003 57.895 0.00 0.00 41.80 2.59
880 881 2.282251 TCCAGTCAGACGCCGACT 60.282 61.111 0.00 0.00 44.55 4.18
882 883 3.062466 CCTCCAGTCAGACGCCGA 61.062 66.667 0.00 0.00 0.00 5.54
886 887 1.374758 GGTTGCCTCCAGTCAGACG 60.375 63.158 0.00 0.00 0.00 4.18
889 890 0.178992 TTTGGGTTGCCTCCAGTCAG 60.179 55.000 0.00 0.00 35.48 3.51
1146 1173 4.148825 GCTCCGTCGATGGTGGCT 62.149 66.667 22.88 0.00 0.00 4.75
1153 1180 2.835431 CCTCCTGGCTCCGTCGAT 60.835 66.667 0.00 0.00 0.00 3.59
1303 1336 1.522580 GCTCCGCCATCTTCCAGAC 60.523 63.158 0.00 0.00 0.00 3.51
1508 1541 2.050714 GTCTCGTTGTCGCCGACA 60.051 61.111 17.22 17.22 41.09 4.35
1579 1612 1.497309 ATGGAAGAAGCCCCGGAACA 61.497 55.000 0.73 0.00 0.00 3.18
1691 1724 1.072089 GCATACGCGTCGACAAAGATC 60.072 52.381 18.63 0.00 0.00 2.75
1738 1771 3.289062 TGCACGTCGACCCGAGAA 61.289 61.111 10.58 0.00 36.23 2.87
1739 1772 4.034258 GTGCACGTCGACCCGAGA 62.034 66.667 10.58 0.00 36.23 4.04
1746 1779 4.357947 GCCAGAGGTGCACGTCGA 62.358 66.667 28.28 0.00 36.02 4.20
1760 1793 0.321564 CGTCCTTGTCCAAGATGCCA 60.322 55.000 8.59 0.00 40.79 4.92
1959 1994 4.055178 GCCCTTTTGATGGCCCAT 57.945 55.556 0.00 0.00 41.97 4.00
2146 2181 3.069872 ACAACCTGTATACACCAACGTGA 59.930 43.478 0.08 0.00 43.14 4.35
2182 2217 3.675995 TGGCCTACCACTTCGTAGA 57.324 52.632 3.32 0.00 42.67 2.59
2320 2356 3.181493 CCAAATGCTAGCAAGGACATGAC 60.181 47.826 23.54 0.00 0.00 3.06
2420 2470 3.072915 TCTCTCTCATTCAAAGCCCACAA 59.927 43.478 0.00 0.00 0.00 3.33
2456 2508 3.963383 TTTCTCAAAGCGAGTTGTTCC 57.037 42.857 0.00 0.00 42.88 3.62
2477 2529 2.634940 CTCACAGGTTCTCTCCCTTCAA 59.365 50.000 0.00 0.00 0.00 2.69
2608 2676 9.527157 CTATCTCTTTTCTCACCCTCTCATATA 57.473 37.037 0.00 0.00 0.00 0.86
2671 2739 3.760151 CCATGCATGTCTCTCCTTCAAAA 59.240 43.478 24.58 0.00 0.00 2.44
2803 2883 4.227754 AGCAGGAGTAGTTCTGTAGGTCTA 59.772 45.833 7.71 0.00 33.81 2.59
2850 2938 2.165437 GTCTCGAGATGCAAGGAGAACT 59.835 50.000 19.90 0.00 37.29 3.01
2859 2947 3.193479 ACTGTTATGTGTCTCGAGATGCA 59.807 43.478 19.90 19.57 0.00 3.96
2875 2963 0.687920 TTGGCCATCCGTCACTGTTA 59.312 50.000 6.09 0.00 34.14 2.41
2907 2995 4.495679 GGATTTTTCACGCATATGCTTCGA 60.496 41.667 24.56 14.88 39.32 3.71
3022 3110 2.031012 CAGTGCGTGAGGAAGCCA 59.969 61.111 0.00 0.00 0.00 4.75
3043 3131 3.989698 CTCCAGCGTCGCGTTCCAT 62.990 63.158 12.30 0.00 0.00 3.41
3149 3237 2.872388 CGCCCGACCTGATGCCTAT 61.872 63.158 0.00 0.00 0.00 2.57
3155 3243 2.579201 CTTGACGCCCGACCTGAT 59.421 61.111 0.00 0.00 0.00 2.90
3286 3374 1.818642 CAACTTCCTTGGCTCTGGAG 58.181 55.000 0.00 0.00 33.46 3.86
3381 3469 0.320421 CCTTTTTCTCGACGGCTCCA 60.320 55.000 0.00 0.00 0.00 3.86
3387 3475 0.790814 GTGGCTCCTTTTTCTCGACG 59.209 55.000 0.00 0.00 0.00 5.12
3432 3526 3.842923 CTGCCGCCGTGAGAGGAT 61.843 66.667 0.00 0.00 0.00 3.24
3491 3594 4.081420 AGCTTAGGACTGTAGTGACAATGG 60.081 45.833 0.00 0.00 34.35 3.16
3633 3836 4.785417 AGCTCATTCGCGTTCTATACTAC 58.215 43.478 5.77 0.00 34.40 2.73
3635 3838 3.992260 AGCTCATTCGCGTTCTATACT 57.008 42.857 5.77 0.00 34.40 2.12
3636 3839 5.391060 AAAAGCTCATTCGCGTTCTATAC 57.609 39.130 5.77 0.00 31.34 1.47
3638 3841 4.946784 AAAAAGCTCATTCGCGTTCTAT 57.053 36.364 5.77 0.00 31.34 1.98
3681 3884 9.853555 CATGAAAATTGTTATACTTGGCAACTA 57.146 29.630 0.00 0.00 37.61 2.24
3682 3885 7.331687 GCATGAAAATTGTTATACTTGGCAACT 59.668 33.333 0.00 0.00 37.61 3.16
3683 3886 7.331687 AGCATGAAAATTGTTATACTTGGCAAC 59.668 33.333 0.00 0.00 0.00 4.17
3684 3887 7.385267 AGCATGAAAATTGTTATACTTGGCAA 58.615 30.769 0.00 0.00 0.00 4.52
3685 3888 6.934056 AGCATGAAAATTGTTATACTTGGCA 58.066 32.000 0.00 0.00 0.00 4.92
3686 3889 7.832503 AAGCATGAAAATTGTTATACTTGGC 57.167 32.000 0.00 0.00 0.00 4.52
3702 3905 9.809096 TGTGACAAAAATAAACTAAAGCATGAA 57.191 25.926 0.00 0.00 0.00 2.57
3703 3906 9.809096 TTGTGACAAAAATAAACTAAAGCATGA 57.191 25.926 0.00 0.00 0.00 3.07
3729 3932 4.438148 AGTTAGCAAACACGGCAATTTTT 58.562 34.783 0.00 0.00 38.12 1.94
3730 3933 4.053469 AGTTAGCAAACACGGCAATTTT 57.947 36.364 0.00 0.00 38.12 1.82
3731 3934 3.726291 AGTTAGCAAACACGGCAATTT 57.274 38.095 0.00 0.00 38.12 1.82
3732 3935 4.839668 TTAGTTAGCAAACACGGCAATT 57.160 36.364 0.00 0.00 38.12 2.32
3733 3936 5.385509 AATTAGTTAGCAAACACGGCAAT 57.614 34.783 0.00 0.00 38.12 3.56
3734 3937 4.839668 AATTAGTTAGCAAACACGGCAA 57.160 36.364 0.00 0.00 38.12 4.52
3735 3938 4.036971 ACAAATTAGTTAGCAAACACGGCA 59.963 37.500 0.00 0.00 38.12 5.69
3736 3939 4.542735 ACAAATTAGTTAGCAAACACGGC 58.457 39.130 0.00 0.00 38.12 5.68
3737 3940 5.753744 TGACAAATTAGTTAGCAAACACGG 58.246 37.500 0.00 0.00 38.12 4.94
3738 3941 7.298122 AGATGACAAATTAGTTAGCAAACACG 58.702 34.615 0.00 0.00 38.12 4.49
3739 3942 7.478667 CGAGATGACAAATTAGTTAGCAAACAC 59.521 37.037 0.00 0.00 38.12 3.32
3740 3943 7.172532 ACGAGATGACAAATTAGTTAGCAAACA 59.827 33.333 0.00 0.00 38.12 2.83
3741 3944 7.478667 CACGAGATGACAAATTAGTTAGCAAAC 59.521 37.037 0.00 0.00 35.72 2.93
3742 3945 7.172532 ACACGAGATGACAAATTAGTTAGCAAA 59.827 33.333 0.00 0.00 0.00 3.68
3743 3946 6.649141 ACACGAGATGACAAATTAGTTAGCAA 59.351 34.615 0.00 0.00 0.00 3.91
3744 3947 6.163476 ACACGAGATGACAAATTAGTTAGCA 58.837 36.000 0.00 0.00 0.00 3.49
3745 3948 6.648725 ACACGAGATGACAAATTAGTTAGC 57.351 37.500 0.00 0.00 0.00 3.09
3746 3949 7.330946 TCCAACACGAGATGACAAATTAGTTAG 59.669 37.037 0.00 0.00 0.00 2.34
3747 3950 7.156000 TCCAACACGAGATGACAAATTAGTTA 58.844 34.615 0.00 0.00 0.00 2.24
3748 3951 5.995282 TCCAACACGAGATGACAAATTAGTT 59.005 36.000 0.00 0.00 0.00 2.24
3749 3952 5.547465 TCCAACACGAGATGACAAATTAGT 58.453 37.500 0.00 0.00 0.00 2.24
3750 3953 6.668541 ATCCAACACGAGATGACAAATTAG 57.331 37.500 0.00 0.00 0.00 1.73
3751 3954 8.611757 CATAATCCAACACGAGATGACAAATTA 58.388 33.333 0.00 0.00 0.00 1.40
3752 3955 5.964958 AATCCAACACGAGATGACAAATT 57.035 34.783 0.00 0.00 0.00 1.82
3753 3956 6.038603 CCATAATCCAACACGAGATGACAAAT 59.961 38.462 0.00 0.00 0.00 2.32
3754 3957 5.353956 CCATAATCCAACACGAGATGACAAA 59.646 40.000 0.00 0.00 0.00 2.83
3755 3958 4.875536 CCATAATCCAACACGAGATGACAA 59.124 41.667 0.00 0.00 0.00 3.18
3756 3959 4.161377 TCCATAATCCAACACGAGATGACA 59.839 41.667 0.00 0.00 0.00 3.58
3757 3960 4.693283 TCCATAATCCAACACGAGATGAC 58.307 43.478 0.00 0.00 0.00 3.06
3758 3961 5.299949 CATCCATAATCCAACACGAGATGA 58.700 41.667 0.00 0.00 32.28 2.92
3759 3962 4.453478 CCATCCATAATCCAACACGAGATG 59.547 45.833 0.00 0.00 0.00 2.90
3760 3963 4.505566 CCCATCCATAATCCAACACGAGAT 60.506 45.833 0.00 0.00 0.00 2.75
3761 3964 3.181455 CCCATCCATAATCCAACACGAGA 60.181 47.826 0.00 0.00 0.00 4.04
3762 3965 3.141398 CCCATCCATAATCCAACACGAG 58.859 50.000 0.00 0.00 0.00 4.18
3763 3966 2.748132 GCCCATCCATAATCCAACACGA 60.748 50.000 0.00 0.00 0.00 4.35
3764 3967 1.608590 GCCCATCCATAATCCAACACG 59.391 52.381 0.00 0.00 0.00 4.49
3765 3968 2.949447 AGCCCATCCATAATCCAACAC 58.051 47.619 0.00 0.00 0.00 3.32
3812 4015 5.132648 TCATACATGGGCCTGAAGATTAACT 59.867 40.000 4.53 0.00 0.00 2.24
3822 4025 1.885359 GCCATCTCATACATGGGCCTG 60.885 57.143 4.53 3.00 41.23 4.85
3852 4055 3.595190 AGCAAGGTGGGACTAAACTTT 57.405 42.857 0.00 0.00 0.00 2.66
3904 4107 2.756760 CAATGGCAAGTGGTAGAGCATT 59.243 45.455 0.00 0.00 0.00 3.56
3905 4108 2.372264 CAATGGCAAGTGGTAGAGCAT 58.628 47.619 0.00 0.00 0.00 3.79
3933 4136 1.254026 CGTGTACCACTCCTCTTCCA 58.746 55.000 0.00 0.00 31.34 3.53
3982 4743 4.508128 TCTTCTTAGCGGCGGCGG 62.508 66.667 33.02 16.22 46.35 6.13
4014 4775 3.775654 GGTAGCAGCAGCCTCGGT 61.776 66.667 0.00 0.00 43.56 4.69
4122 4883 8.411683 ACGTATAGAACATAGAATCGAACCTTT 58.588 33.333 0.00 0.00 0.00 3.11
4127 4888 6.967135 AGCACGTATAGAACATAGAATCGAA 58.033 36.000 0.00 0.00 0.00 3.71
4143 4904 6.183360 CGATACCTAAGCATACTAGCACGTAT 60.183 42.308 0.00 0.00 36.85 3.06
4201 4962 8.074370 CGATTAGACTTATCCACGAGTAAATGA 58.926 37.037 0.00 0.00 0.00 2.57
4202 4963 7.326305 CCGATTAGACTTATCCACGAGTAAATG 59.674 40.741 0.00 0.00 0.00 2.32
4203 4964 7.230108 TCCGATTAGACTTATCCACGAGTAAAT 59.770 37.037 0.00 0.00 0.00 1.40
4247 5008 7.875554 TGCCTAAAATAAGGTTTTTGGATTGTC 59.124 33.333 14.77 1.69 39.02 3.18
4310 5071 1.202675 TGCGTCCCGGTAAACTTTTCT 60.203 47.619 0.00 0.00 0.00 2.52
4334 5095 0.037326 TCCTAGTCTGCCAACGCTTG 60.037 55.000 0.00 0.00 35.36 4.01
4338 5099 0.389948 GTGGTCCTAGTCTGCCAACG 60.390 60.000 0.00 0.00 32.26 4.10
4369 5130 5.047872 TCAACCCAGAACACATTCATCAATG 60.048 40.000 0.00 0.00 44.57 2.82
4371 5132 4.468713 TCAACCCAGAACACATTCATCAA 58.531 39.130 0.00 0.00 37.29 2.57
4372 5133 4.097551 TCAACCCAGAACACATTCATCA 57.902 40.909 0.00 0.00 37.29 3.07
4379 5140 1.214175 ACACCATCAACCCAGAACACA 59.786 47.619 0.00 0.00 0.00 3.72
4447 5208 2.233271 AGTTCTTCTGCACCACATTGG 58.767 47.619 0.00 0.00 45.02 3.16
4448 5209 3.304928 GGAAGTTCTTCTGCACCACATTG 60.305 47.826 11.53 0.00 0.00 2.82
4449 5210 2.887152 GGAAGTTCTTCTGCACCACATT 59.113 45.455 11.53 0.00 0.00 2.71
4450 5211 2.158623 TGGAAGTTCTTCTGCACCACAT 60.159 45.455 11.53 0.00 0.00 3.21
4451 5212 1.211703 TGGAAGTTCTTCTGCACCACA 59.788 47.619 11.53 0.00 0.00 4.17
4452 5213 1.604278 GTGGAAGTTCTTCTGCACCAC 59.396 52.381 11.53 0.00 37.93 4.16
4453 5214 1.211703 TGTGGAAGTTCTTCTGCACCA 59.788 47.619 11.53 0.00 0.00 4.17
4454 5215 1.967319 TGTGGAAGTTCTTCTGCACC 58.033 50.000 11.53 0.00 0.00 5.01
4455 5216 2.945668 ACTTGTGGAAGTTCTTCTGCAC 59.054 45.455 11.53 11.76 39.56 4.57
4456 5217 3.281727 ACTTGTGGAAGTTCTTCTGCA 57.718 42.857 11.53 8.37 39.56 4.41
4465 5226 3.662759 TTCCCTTGAACTTGTGGAAGT 57.337 42.857 0.00 0.00 44.79 3.01
4466 5227 4.207165 TCTTTCCCTTGAACTTGTGGAAG 58.793 43.478 0.00 0.00 36.52 3.46
4467 5228 4.243793 TCTTTCCCTTGAACTTGTGGAA 57.756 40.909 0.00 0.00 33.44 3.53
4468 5229 3.943671 TCTTTCCCTTGAACTTGTGGA 57.056 42.857 0.00 0.00 0.00 4.02
4469 5230 4.307443 GTTCTTTCCCTTGAACTTGTGG 57.693 45.455 0.00 0.00 39.36 4.17
4475 5236 3.815962 GGACAGAGTTCTTTCCCTTGAAC 59.184 47.826 3.41 0.00 41.84 3.18
4476 5237 3.458118 TGGACAGAGTTCTTTCCCTTGAA 59.542 43.478 10.90 0.00 41.09 2.69
4477 5238 3.045634 TGGACAGAGTTCTTTCCCTTGA 58.954 45.455 10.90 0.00 41.09 3.02
4478 5239 3.406764 CTGGACAGAGTTCTTTCCCTTG 58.593 50.000 10.90 0.21 41.09 3.61
4479 5240 2.224646 GCTGGACAGAGTTCTTTCCCTT 60.225 50.000 10.90 0.00 41.09 3.95
4480 5241 1.349357 GCTGGACAGAGTTCTTTCCCT 59.651 52.381 10.90 0.00 41.09 4.20
4481 5242 1.072331 TGCTGGACAGAGTTCTTTCCC 59.928 52.381 10.90 0.00 41.09 3.97
4482 5243 2.550830 TGCTGGACAGAGTTCTTTCC 57.449 50.000 3.00 7.27 41.91 3.13


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

AutoCloner maintained by Alex Coulton.