Multiple sequence alignment - TraesCS5D01G342800

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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 TraesCS5D01G342800 chr5D 100.000 3320 0 0 1 3320 430984534 430987853 0.000000e+00 6131.0
1 TraesCS5D01G342800 chr5D 93.328 1334 83 4 993 2320 430968646 430969979 0.000000e+00 1965.0
2 TraesCS5D01G342800 chr5D 79.282 1337 226 38 1001 2316 407517493 407518799 0.000000e+00 887.0
3 TraesCS5D01G342800 chr5D 77.944 1333 243 45 1001 2315 430445545 430446844 0.000000e+00 785.0
4 TraesCS5D01G342800 chr5D 76.786 1344 260 41 1001 2326 430164063 430165372 0.000000e+00 706.0
5 TraesCS5D01G342800 chr5D 76.510 1341 269 35 1001 2326 430511648 430512957 0.000000e+00 689.0
6 TraesCS5D01G342800 chr5D 95.031 161 7 1 2435 2595 430991432 430991273 5.500000e-63 252.0
7 TraesCS5D01G342800 chr5B 90.809 1915 116 23 532 2430 520418936 520420806 0.000000e+00 2507.0
8 TraesCS5D01G342800 chr5B 92.606 1339 92 3 993 2324 520369585 520370923 0.000000e+00 1917.0
9 TraesCS5D01G342800 chr5B 78.801 1335 236 35 1001 2316 488561076 488562382 0.000000e+00 854.0
10 TraesCS5D01G342800 chr5B 76.883 1328 268 31 1001 2316 520046523 520047823 0.000000e+00 715.0
11 TraesCS5D01G342800 chr5B 76.820 1346 256 40 1001 2326 519661047 519662356 0.000000e+00 706.0
12 TraesCS5D01G342800 chr5B 76.669 1333 262 36 1001 2316 520036809 520038109 0.000000e+00 693.0
13 TraesCS5D01G342800 chr5B 85.000 360 37 11 78 433 520411658 520412004 1.900000e-92 350.0
14 TraesCS5D01G342800 chr5A 90.207 1787 124 21 692 2431 546360014 546361796 0.000000e+00 2283.0
15 TraesCS5D01G342800 chr5A 93.928 1334 75 1 993 2320 546344828 546346161 0.000000e+00 2010.0
16 TraesCS5D01G342800 chr5A 79.352 1327 234 27 1001 2316 512799376 512800673 0.000000e+00 896.0
17 TraesCS5D01G342800 chr5A 76.819 1333 260 39 1001 2316 546154217 546155517 0.000000e+00 704.0
18 TraesCS5D01G342800 chr5A 84.522 659 93 7 1672 2326 545985276 545985929 0.000000e+00 643.0
19 TraesCS5D01G342800 chr5A 87.850 428 28 5 290 716 546354411 546354815 6.440000e-132 481.0
20 TraesCS5D01G342800 chr5A 85.000 180 27 0 110 289 546354132 546354311 2.030000e-42 183.0
21 TraesCS5D01G342800 chr5A 88.125 160 11 3 344 503 546359342 546359493 2.030000e-42 183.0
22 TraesCS5D01G342800 chr5A 96.667 90 2 1 607 696 546359694 546359782 7.420000e-32 148.0
23 TraesCS5D01G342800 chr5A 97.917 48 1 0 543 590 546359648 546359695 2.120000e-12 84.2
24 TraesCS5D01G342800 chr6D 98.082 730 14 0 2591 3320 427863852 427863123 0.000000e+00 1271.0
25 TraesCS5D01G342800 chr6D 97.787 723 16 0 2591 3313 57836849 57836127 0.000000e+00 1247.0
26 TraesCS5D01G342800 chr6D 95.625 160 7 0 2436 2595 57832587 57832746 1.180000e-64 257.0
27 TraesCS5D01G342800 chr6D 93.143 175 10 2 2422 2595 427867419 427867246 4.250000e-64 255.0
28 TraesCS5D01G342800 chr2D 97.945 730 15 0 2591 3320 555174425 555175154 0.000000e+00 1266.0
29 TraesCS5D01G342800 chr2D 97.925 723 15 0 2591 3313 499314873 499314151 0.000000e+00 1253.0
30 TraesCS5D01G342800 chr2D 97.787 723 16 0 2591 3313 606642753 606642031 0.000000e+00 1247.0
31 TraesCS5D01G342800 chr2D 96.250 160 6 0 2436 2595 499318408 499318249 2.540000e-66 263.0
32 TraesCS5D01G342800 chr2D 95.625 160 7 0 2436 2595 555170869 555171028 1.180000e-64 257.0
33 TraesCS5D01G342800 chr1D 98.202 723 13 0 2591 3313 415409530 415408808 0.000000e+00 1264.0
34 TraesCS5D01G342800 chr1D 98.064 723 14 0 2591 3313 442322800 442322078 0.000000e+00 1258.0
35 TraesCS5D01G342800 chr1D 95.652 161 7 0 2435 2595 442326386 442326226 3.290000e-65 259.0
36 TraesCS5D01G342800 chr1D 95.652 161 7 0 2435 2595 479811443 479811603 3.290000e-65 259.0
37 TraesCS5D01G342800 chr1D 95.000 160 8 0 2436 2595 479819307 479819148 5.500000e-63 252.0
38 TraesCS5D01G342800 chr3D 98.066 724 13 1 2591 3313 550463967 550464690 0.000000e+00 1258.0
39 TraesCS5D01G342800 chr7D 97.925 723 15 0 2591 3313 530366562 530365840 0.000000e+00 1253.0
40 TraesCS5D01G342800 chr7D 93.452 168 11 0 2428 2595 151281180 151281347 1.980000e-62 250.0
41 TraesCS5D01G342800 chr3B 82.632 737 104 12 1248 1984 323317374 323316662 6.040000e-177 630.0
42 TraesCS5D01G342800 chr1B 81.831 699 100 13 1248 1942 256824311 256823636 2.240000e-156 562.0


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 TraesCS5D01G342800 chr5D 430984534 430987853 3319 False 6131.00 6131 100.0000 1 3320 1 chr5D.!!$F6 3319
1 TraesCS5D01G342800 chr5D 430968646 430969979 1333 False 1965.00 1965 93.3280 993 2320 1 chr5D.!!$F5 1327
2 TraesCS5D01G342800 chr5D 407517493 407518799 1306 False 887.00 887 79.2820 1001 2316 1 chr5D.!!$F1 1315
3 TraesCS5D01G342800 chr5D 430445545 430446844 1299 False 785.00 785 77.9440 1001 2315 1 chr5D.!!$F3 1314
4 TraesCS5D01G342800 chr5D 430164063 430165372 1309 False 706.00 706 76.7860 1001 2326 1 chr5D.!!$F2 1325
5 TraesCS5D01G342800 chr5D 430511648 430512957 1309 False 689.00 689 76.5100 1001 2326 1 chr5D.!!$F4 1325
6 TraesCS5D01G342800 chr5B 520418936 520420806 1870 False 2507.00 2507 90.8090 532 2430 1 chr5B.!!$F7 1898
7 TraesCS5D01G342800 chr5B 520369585 520370923 1338 False 1917.00 1917 92.6060 993 2324 1 chr5B.!!$F5 1331
8 TraesCS5D01G342800 chr5B 488561076 488562382 1306 False 854.00 854 78.8010 1001 2316 1 chr5B.!!$F1 1315
9 TraesCS5D01G342800 chr5B 520046523 520047823 1300 False 715.00 715 76.8830 1001 2316 1 chr5B.!!$F4 1315
10 TraesCS5D01G342800 chr5B 519661047 519662356 1309 False 706.00 706 76.8200 1001 2326 1 chr5B.!!$F2 1325
11 TraesCS5D01G342800 chr5B 520036809 520038109 1300 False 693.00 693 76.6690 1001 2316 1 chr5B.!!$F3 1315
12 TraesCS5D01G342800 chr5A 546344828 546346161 1333 False 2010.00 2010 93.9280 993 2320 1 chr5A.!!$F4 1327
13 TraesCS5D01G342800 chr5A 512799376 512800673 1297 False 896.00 896 79.3520 1001 2316 1 chr5A.!!$F1 1315
14 TraesCS5D01G342800 chr5A 546154217 546155517 1300 False 704.00 704 76.8190 1001 2316 1 chr5A.!!$F3 1315
15 TraesCS5D01G342800 chr5A 546359342 546361796 2454 False 674.55 2283 93.2290 344 2431 4 chr5A.!!$F6 2087
16 TraesCS5D01G342800 chr5A 545985276 545985929 653 False 643.00 643 84.5220 1672 2326 1 chr5A.!!$F2 654
17 TraesCS5D01G342800 chr5A 546354132 546354815 683 False 332.00 481 86.4250 110 716 2 chr5A.!!$F5 606
18 TraesCS5D01G342800 chr6D 57836127 57836849 722 True 1247.00 1247 97.7870 2591 3313 1 chr6D.!!$R1 722
19 TraesCS5D01G342800 chr6D 427863123 427867419 4296 True 763.00 1271 95.6125 2422 3320 2 chr6D.!!$R2 898
20 TraesCS5D01G342800 chr2D 606642031 606642753 722 True 1247.00 1247 97.7870 2591 3313 1 chr2D.!!$R1 722
21 TraesCS5D01G342800 chr2D 555170869 555175154 4285 False 761.50 1266 96.7850 2436 3320 2 chr2D.!!$F1 884
22 TraesCS5D01G342800 chr2D 499314151 499318408 4257 True 758.00 1253 97.0875 2436 3313 2 chr2D.!!$R2 877
23 TraesCS5D01G342800 chr1D 415408808 415409530 722 True 1264.00 1264 98.2020 2591 3313 1 chr1D.!!$R1 722
24 TraesCS5D01G342800 chr1D 442322078 442326386 4308 True 758.50 1258 96.8580 2435 3313 2 chr1D.!!$R3 878
25 TraesCS5D01G342800 chr3D 550463967 550464690 723 False 1258.00 1258 98.0660 2591 3313 1 chr3D.!!$F1 722
26 TraesCS5D01G342800 chr7D 530365840 530366562 722 True 1253.00 1253 97.9250 2591 3313 1 chr7D.!!$R1 722
27 TraesCS5D01G342800 chr3B 323316662 323317374 712 True 630.00 630 82.6320 1248 1984 1 chr3B.!!$R1 736
28 TraesCS5D01G342800 chr1B 256823636 256824311 675 True 562.00 562 81.8310 1248 1942 1 chr1B.!!$R1 694

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
591 817 0.109086 CACGACACTCTCCGATTGCT 60.109 55.0 0.0 0.0 0.0 3.91 F
607 833 0.515127 TGCTTAATTGCCGTGTCGTG 59.485 50.0 0.0 0.0 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1587 2093 0.093026 GGTGCTCAAAATCGACGACG 59.907 55.0 0.00 0.0 41.26 5.12 R
2392 2937 0.455972 GCATGCACGTACGCCAATTT 60.456 50.0 16.72 0.0 0.00 1.82 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
20 21 3.139029 GACAGATGTCCCCGTGAAC 57.861 57.895 1.33 0.00 39.07 3.18
21 22 0.391263 GACAGATGTCCCCGTGAACC 60.391 60.000 1.33 0.00 39.07 3.62
22 23 1.125093 ACAGATGTCCCCGTGAACCA 61.125 55.000 0.00 0.00 0.00 3.67
23 24 0.253044 CAGATGTCCCCGTGAACCAT 59.747 55.000 0.00 0.00 0.00 3.55
24 25 0.991920 AGATGTCCCCGTGAACCATT 59.008 50.000 0.00 0.00 0.00 3.16
25 26 1.094785 GATGTCCCCGTGAACCATTG 58.905 55.000 0.00 0.00 0.00 2.82
26 27 0.323360 ATGTCCCCGTGAACCATTGG 60.323 55.000 0.00 0.00 0.00 3.16
27 28 1.074248 GTCCCCGTGAACCATTGGT 59.926 57.895 1.37 1.37 37.65 3.67
28 29 0.325602 GTCCCCGTGAACCATTGGTA 59.674 55.000 9.20 0.00 33.12 3.25
29 30 1.064979 GTCCCCGTGAACCATTGGTAT 60.065 52.381 9.20 0.00 33.12 2.73
30 31 1.636519 TCCCCGTGAACCATTGGTATT 59.363 47.619 9.20 0.00 33.12 1.89
31 32 2.041891 TCCCCGTGAACCATTGGTATTT 59.958 45.455 9.20 0.00 33.12 1.40
32 33 2.425668 CCCCGTGAACCATTGGTATTTC 59.574 50.000 9.20 3.85 33.12 2.17
33 34 2.425668 CCCGTGAACCATTGGTATTTCC 59.574 50.000 9.20 0.00 33.12 3.13
34 35 2.425668 CCGTGAACCATTGGTATTTCCC 59.574 50.000 9.20 0.00 33.12 3.97
35 36 2.096819 CGTGAACCATTGGTATTTCCCG 59.903 50.000 9.20 2.64 33.12 5.14
36 37 2.425668 GTGAACCATTGGTATTTCCCGG 59.574 50.000 9.20 0.00 33.12 5.73
37 38 1.407618 GAACCATTGGTATTTCCCGGC 59.592 52.381 9.20 0.00 33.12 6.13
38 39 0.629058 ACCATTGGTATTTCCCGGCT 59.371 50.000 6.54 0.00 32.11 5.52
39 40 1.006639 ACCATTGGTATTTCCCGGCTT 59.993 47.619 6.54 0.00 32.11 4.35
40 41 1.681264 CCATTGGTATTTCCCGGCTTC 59.319 52.381 0.00 0.00 34.77 3.86
41 42 2.654863 CATTGGTATTTCCCGGCTTCT 58.345 47.619 0.00 0.00 34.77 2.85
42 43 2.413310 TTGGTATTTCCCGGCTTCTC 57.587 50.000 0.00 0.00 34.77 2.87
43 44 0.544697 TGGTATTTCCCGGCTTCTCC 59.455 55.000 0.00 0.00 34.77 3.71
44 45 0.179026 GGTATTTCCCGGCTTCTCCC 60.179 60.000 0.00 0.00 0.00 4.30
45 46 0.837940 GTATTTCCCGGCTTCTCCCT 59.162 55.000 0.00 0.00 0.00 4.20
46 47 1.129058 TATTTCCCGGCTTCTCCCTC 58.871 55.000 0.00 0.00 0.00 4.30
47 48 1.636769 ATTTCCCGGCTTCTCCCTCC 61.637 60.000 0.00 0.00 0.00 4.30
48 49 3.556038 TTCCCGGCTTCTCCCTCCA 62.556 63.158 0.00 0.00 0.00 3.86
49 50 2.770048 CCCGGCTTCTCCCTCCAT 60.770 66.667 0.00 0.00 0.00 3.41
50 51 1.459539 CCCGGCTTCTCCCTCCATA 60.460 63.158 0.00 0.00 0.00 2.74
51 52 0.838122 CCCGGCTTCTCCCTCCATAT 60.838 60.000 0.00 0.00 0.00 1.78
52 53 1.552486 CCCGGCTTCTCCCTCCATATA 60.552 57.143 0.00 0.00 0.00 0.86
53 54 2.472029 CCGGCTTCTCCCTCCATATAT 58.528 52.381 0.00 0.00 0.00 0.86
54 55 3.630054 CCCGGCTTCTCCCTCCATATATA 60.630 52.174 0.00 0.00 0.00 0.86
55 56 4.227197 CCGGCTTCTCCCTCCATATATAT 58.773 47.826 0.00 0.00 0.00 0.86
56 57 4.039730 CCGGCTTCTCCCTCCATATATATG 59.960 50.000 14.78 14.78 0.00 1.78
68 69 4.703897 CCATATATATGGCTACCCCGTTG 58.296 47.826 25.33 1.63 45.92 4.10
69 70 2.781681 ATATATGGCTACCCCGTTGC 57.218 50.000 0.00 0.00 35.87 4.17
70 71 1.425694 TATATGGCTACCCCGTTGCA 58.574 50.000 0.97 0.00 36.13 4.08
71 72 0.179029 ATATGGCTACCCCGTTGCAC 60.179 55.000 0.00 0.00 36.13 4.57
72 73 2.260088 TATGGCTACCCCGTTGCACC 62.260 60.000 0.00 0.00 36.13 5.01
74 75 4.029809 GCTACCCCGTTGCACCCT 62.030 66.667 0.00 0.00 34.70 4.34
75 76 2.046314 CTACCCCGTTGCACCCTG 60.046 66.667 0.00 0.00 0.00 4.45
76 77 3.622060 CTACCCCGTTGCACCCTGG 62.622 68.421 0.00 0.00 0.00 4.45
78 79 4.278513 CCCCGTTGCACCCTGGAA 62.279 66.667 0.00 0.00 0.00 3.53
79 80 2.672996 CCCGTTGCACCCTGGAAG 60.673 66.667 0.00 0.00 0.00 3.46
90 91 2.124570 CTGGAAGGCGGGATGGTG 60.125 66.667 0.00 0.00 0.00 4.17
91 92 2.933287 TGGAAGGCGGGATGGTGT 60.933 61.111 0.00 0.00 0.00 4.16
92 93 1.613928 TGGAAGGCGGGATGGTGTA 60.614 57.895 0.00 0.00 0.00 2.90
93 94 1.202099 TGGAAGGCGGGATGGTGTAA 61.202 55.000 0.00 0.00 0.00 2.41
94 95 0.746923 GGAAGGCGGGATGGTGTAAC 60.747 60.000 0.00 0.00 0.00 2.50
95 96 0.252197 GAAGGCGGGATGGTGTAACT 59.748 55.000 0.00 0.00 36.74 2.24
96 97 0.696501 AAGGCGGGATGGTGTAACTT 59.303 50.000 0.00 0.00 36.74 2.66
97 98 0.696501 AGGCGGGATGGTGTAACTTT 59.303 50.000 0.00 0.00 36.74 2.66
98 99 1.074889 AGGCGGGATGGTGTAACTTTT 59.925 47.619 0.00 0.00 36.74 2.27
99 100 1.471287 GGCGGGATGGTGTAACTTTTC 59.529 52.381 0.00 0.00 36.74 2.29
100 101 1.129811 GCGGGATGGTGTAACTTTTCG 59.870 52.381 0.00 0.00 36.74 3.46
101 102 1.735571 CGGGATGGTGTAACTTTTCGG 59.264 52.381 0.00 0.00 36.74 4.30
102 103 2.786777 GGGATGGTGTAACTTTTCGGT 58.213 47.619 0.00 0.00 36.74 4.69
103 104 2.486592 GGGATGGTGTAACTTTTCGGTG 59.513 50.000 0.00 0.00 36.74 4.94
104 105 3.143728 GGATGGTGTAACTTTTCGGTGT 58.856 45.455 0.00 0.00 36.74 4.16
105 106 4.317488 GGATGGTGTAACTTTTCGGTGTA 58.683 43.478 0.00 0.00 36.74 2.90
106 107 4.390909 GGATGGTGTAACTTTTCGGTGTAG 59.609 45.833 0.00 0.00 36.74 2.74
107 108 4.405116 TGGTGTAACTTTTCGGTGTAGT 57.595 40.909 0.00 0.00 36.74 2.73
108 109 5.528043 TGGTGTAACTTTTCGGTGTAGTA 57.472 39.130 0.00 0.00 36.74 1.82
111 112 4.386954 GTGTAACTTTTCGGTGTAGTAGCC 59.613 45.833 0.00 0.00 0.00 3.93
116 117 3.594568 CGGTGTAGTAGCCGGTCA 58.405 61.111 1.90 0.00 43.85 4.02
132 133 3.000727 CGGTCAGGATGGTGTAACTTTC 58.999 50.000 0.00 0.00 36.74 2.62
139 140 6.042781 TCAGGATGGTGTAACTTTCTAGTGTT 59.957 38.462 0.00 0.00 36.74 3.32
197 198 2.354704 GGAAAACCCCTTAGCAAATGCC 60.355 50.000 0.94 0.00 43.38 4.40
203 204 1.963515 CCCTTAGCAAATGCCCCATAC 59.036 52.381 0.94 0.00 43.38 2.39
220 221 4.112634 CCATACGTCACACGATCAAGATT 58.887 43.478 2.48 0.00 46.05 2.40
221 222 4.566759 CCATACGTCACACGATCAAGATTT 59.433 41.667 2.48 0.00 46.05 2.17
223 224 3.649073 ACGTCACACGATCAAGATTTGA 58.351 40.909 2.48 0.00 46.05 2.69
226 227 3.673338 GTCACACGATCAAGATTTGACGA 59.327 43.478 15.37 0.00 43.48 4.20
234 235 7.482743 CACGATCAAGATTTGACGATGAAAAAT 59.517 33.333 15.37 0.00 43.48 1.82
235 236 8.023128 ACGATCAAGATTTGACGATGAAAAATT 58.977 29.630 15.37 0.00 43.48 1.82
237 238 7.872163 TCAAGATTTGACGATGAAAAATTGG 57.128 32.000 0.00 0.00 34.08 3.16
242 243 8.454106 AGATTTGACGATGAAAAATTGGACTAG 58.546 33.333 0.00 0.00 0.00 2.57
244 245 7.737972 TTGACGATGAAAAATTGGACTAGAA 57.262 32.000 0.00 0.00 0.00 2.10
283 284 0.250381 TGCAAAATGCCAGCCCAAAG 60.250 50.000 0.00 0.00 44.23 2.77
289 290 0.178953 ATGCCAGCCCAAAGACACTT 60.179 50.000 0.00 0.00 0.00 3.16
291 292 0.881796 GCCAGCCCAAAGACACTTAC 59.118 55.000 0.00 0.00 0.00 2.34
293 294 2.795329 CCAGCCCAAAGACACTTACAT 58.205 47.619 0.00 0.00 0.00 2.29
294 295 3.872240 GCCAGCCCAAAGACACTTACATA 60.872 47.826 0.00 0.00 0.00 2.29
295 296 4.526970 CCAGCCCAAAGACACTTACATAT 58.473 43.478 0.00 0.00 0.00 1.78
296 297 4.949856 CCAGCCCAAAGACACTTACATATT 59.050 41.667 0.00 0.00 0.00 1.28
297 298 6.119536 CCAGCCCAAAGACACTTACATATTA 58.880 40.000 0.00 0.00 0.00 0.98
298 299 6.772716 CCAGCCCAAAGACACTTACATATTAT 59.227 38.462 0.00 0.00 0.00 1.28
299 300 7.285401 CCAGCCCAAAGACACTTACATATTATT 59.715 37.037 0.00 0.00 0.00 1.40
365 466 6.715718 CCTAGAAGGACTCACGGATCTAAATA 59.284 42.308 0.00 0.00 37.67 1.40
503 604 5.399596 CAGCTGTACACTGCACGTAATATAG 59.600 44.000 5.25 0.00 42.33 1.31
529 755 2.810650 ACAGTGACAAAGTGAGACGAC 58.189 47.619 0.00 0.00 33.05 4.34
590 816 1.078759 CCACGACACTCTCCGATTGC 61.079 60.000 0.00 0.00 0.00 3.56
591 817 0.109086 CACGACACTCTCCGATTGCT 60.109 55.000 0.00 0.00 0.00 3.91
592 818 0.603569 ACGACACTCTCCGATTGCTT 59.396 50.000 0.00 0.00 0.00 3.91
593 819 1.816835 ACGACACTCTCCGATTGCTTA 59.183 47.619 0.00 0.00 0.00 3.09
594 820 2.230508 ACGACACTCTCCGATTGCTTAA 59.769 45.455 0.00 0.00 0.00 1.85
595 821 3.119101 ACGACACTCTCCGATTGCTTAAT 60.119 43.478 0.00 0.00 0.00 1.40
596 822 3.865745 CGACACTCTCCGATTGCTTAATT 59.134 43.478 0.00 0.00 0.00 1.40
597 823 4.259970 CGACACTCTCCGATTGCTTAATTG 60.260 45.833 0.00 0.00 0.00 2.32
598 824 3.375299 ACACTCTCCGATTGCTTAATTGC 59.625 43.478 0.00 0.00 0.00 3.56
599 825 2.945668 ACTCTCCGATTGCTTAATTGCC 59.054 45.455 0.00 0.00 0.00 4.52
600 826 1.939934 TCTCCGATTGCTTAATTGCCG 59.060 47.619 0.00 0.00 0.00 5.69
601 827 1.670811 CTCCGATTGCTTAATTGCCGT 59.329 47.619 0.00 0.00 0.00 5.68
602 828 1.400142 TCCGATTGCTTAATTGCCGTG 59.600 47.619 0.00 0.00 0.00 4.94
603 829 1.132262 CCGATTGCTTAATTGCCGTGT 59.868 47.619 0.00 0.00 0.00 4.49
604 830 2.440501 CGATTGCTTAATTGCCGTGTC 58.559 47.619 0.00 0.00 0.00 3.67
605 831 2.440501 GATTGCTTAATTGCCGTGTCG 58.559 47.619 0.00 0.00 0.00 4.35
606 832 1.231221 TTGCTTAATTGCCGTGTCGT 58.769 45.000 0.00 0.00 0.00 4.34
607 833 0.515127 TGCTTAATTGCCGTGTCGTG 59.485 50.000 0.00 0.00 0.00 4.35
736 1198 1.563924 TGTACAAGCCCACCGACTAT 58.436 50.000 0.00 0.00 0.00 2.12
752 1216 1.411246 ACTATGGCAACGATCGGCTAA 59.589 47.619 20.98 7.32 42.51 3.09
765 1236 1.555477 CGGCTAAACCACCTACCCCA 61.555 60.000 0.00 0.00 39.03 4.96
929 1402 3.434641 CGAGCACTCAAGACATCAACAAT 59.565 43.478 0.00 0.00 0.00 2.71
969 1450 6.330278 TCGATCATACAGTAAACAAGGAGTG 58.670 40.000 0.00 0.00 0.00 3.51
975 1456 8.304596 TCATACAGTAAACAAGGAGTGAACTAG 58.695 37.037 0.00 0.00 0.00 2.57
976 1457 6.481434 ACAGTAAACAAGGAGTGAACTAGT 57.519 37.500 0.00 0.00 0.00 2.57
977 1458 7.592885 ACAGTAAACAAGGAGTGAACTAGTA 57.407 36.000 0.00 0.00 0.00 1.82
978 1459 7.432059 ACAGTAAACAAGGAGTGAACTAGTAC 58.568 38.462 0.00 0.00 0.00 2.73
979 1460 6.867293 CAGTAAACAAGGAGTGAACTAGTACC 59.133 42.308 0.00 0.00 0.00 3.34
982 1463 6.496144 AACAAGGAGTGAACTAGTACCTTT 57.504 37.500 0.00 0.00 35.88 3.11
1040 1522 1.741401 CCAAGATCGTCAAGCCGCA 60.741 57.895 0.00 0.00 0.00 5.69
1329 1811 4.421479 CTGGTCGAGTTCGCGCCT 62.421 66.667 0.00 0.00 39.60 5.52
1626 2135 1.659644 GGGCGTCGAATACTACCGC 60.660 63.158 5.84 5.84 43.35 5.68
1728 2247 2.125106 GACTTCATCGCCGGGCTT 60.125 61.111 18.34 0.94 0.00 4.35
2218 2737 1.613630 ACGGAGGGGATGCTGTTCT 60.614 57.895 0.00 0.00 0.00 3.01
2226 2745 0.895100 GGATGCTGTTCTTGGTGCCA 60.895 55.000 0.00 0.00 0.00 4.92
2349 2894 2.092211 GCGTGCGGCTACATATGATTAC 59.908 50.000 10.38 0.00 39.11 1.89
2392 2937 4.871933 TGAGCTTAATCATATCGCCTGA 57.128 40.909 0.00 0.00 0.00 3.86
2464 3012 3.814625 TGCACAGAAGTACCACAATTGA 58.185 40.909 13.59 0.00 0.00 2.57
2465 3013 4.397420 TGCACAGAAGTACCACAATTGAT 58.603 39.130 13.59 0.00 0.00 2.57
2518 3066 5.572896 GCTAATTTTTGCATGTCAGTACCAC 59.427 40.000 0.00 0.00 0.00 4.16
2523 3071 3.878160 TGCATGTCAGTACCACGATTA 57.122 42.857 0.00 0.00 0.00 1.75
2587 3135 0.817654 TTGATGCTCGATCCGACAGT 59.182 50.000 0.00 0.00 0.00 3.55
2652 6634 1.318576 GCAAGTTACAAGTGGGCAGT 58.681 50.000 0.00 0.00 0.00 4.40
2696 6678 2.369860 ACTTGAGACTTGTGGATGCAGA 59.630 45.455 0.00 0.00 0.00 4.26
2812 6795 8.592105 TTCAAGAAAGATTTTTATGTTGCAGG 57.408 30.769 0.00 0.00 0.00 4.85
2863 6846 3.285484 GTGAGCATGATTGGACAAGGAT 58.715 45.455 0.00 0.00 0.00 3.24
3036 7019 7.120726 GGCATAGGTACACAAACTGTCTTAAAT 59.879 37.037 0.00 0.00 33.91 1.40
3234 7217 5.666462 TCTACTACAACAACAGCAAGACAA 58.334 37.500 0.00 0.00 0.00 3.18
3249 7232 2.180131 GACAACCAAGAGCTGCTGCG 62.180 60.000 7.01 0.00 45.42 5.18
3269 7252 0.546267 AGAGGAGCTGCCAGAGGAAA 60.546 55.000 0.00 0.00 40.02 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 0.391263 GGTTCACGGGGACATCTGTC 60.391 60.000 0.00 1.59 44.04 3.51
4 5 0.253044 ATGGTTCACGGGGACATCTG 59.747 55.000 0.00 0.00 0.00 2.90
6 7 1.094785 CAATGGTTCACGGGGACATC 58.905 55.000 0.00 0.00 0.00 3.06
7 8 0.323360 CCAATGGTTCACGGGGACAT 60.323 55.000 0.00 0.00 0.00 3.06
8 9 1.074072 CCAATGGTTCACGGGGACA 59.926 57.895 0.00 0.00 0.00 4.02
9 10 0.325602 TACCAATGGTTCACGGGGAC 59.674 55.000 11.41 0.00 37.09 4.46
10 11 1.291109 ATACCAATGGTTCACGGGGA 58.709 50.000 11.41 0.00 37.09 4.81
11 12 2.137810 AATACCAATGGTTCACGGGG 57.862 50.000 11.41 0.00 37.09 5.73
12 13 2.425668 GGAAATACCAATGGTTCACGGG 59.574 50.000 11.41 0.00 37.09 5.28
13 14 2.425668 GGGAAATACCAATGGTTCACGG 59.574 50.000 11.41 0.00 41.20 4.94
14 15 2.096819 CGGGAAATACCAATGGTTCACG 59.903 50.000 11.41 11.83 41.20 4.35
15 16 2.425668 CCGGGAAATACCAATGGTTCAC 59.574 50.000 11.41 1.93 41.20 3.18
16 17 2.729194 CCGGGAAATACCAATGGTTCA 58.271 47.619 11.41 0.00 41.20 3.18
17 18 1.407618 GCCGGGAAATACCAATGGTTC 59.592 52.381 11.41 1.50 41.20 3.62
18 19 1.006639 AGCCGGGAAATACCAATGGTT 59.993 47.619 11.41 0.00 41.20 3.67
19 20 0.629058 AGCCGGGAAATACCAATGGT 59.371 50.000 10.81 10.81 41.20 3.55
20 21 1.681264 GAAGCCGGGAAATACCAATGG 59.319 52.381 2.18 0.00 41.20 3.16
21 22 2.618709 GAGAAGCCGGGAAATACCAATG 59.381 50.000 2.18 0.00 41.20 2.82
22 23 2.422945 GGAGAAGCCGGGAAATACCAAT 60.423 50.000 2.18 0.00 41.20 3.16
23 24 1.064979 GGAGAAGCCGGGAAATACCAA 60.065 52.381 2.18 0.00 41.20 3.67
24 25 0.544697 GGAGAAGCCGGGAAATACCA 59.455 55.000 2.18 0.00 41.20 3.25
25 26 0.179026 GGGAGAAGCCGGGAAATACC 60.179 60.000 2.18 0.00 37.63 2.73
26 27 0.837940 AGGGAGAAGCCGGGAAATAC 59.162 55.000 2.18 0.00 37.63 1.89
27 28 1.129058 GAGGGAGAAGCCGGGAAATA 58.871 55.000 2.18 0.00 37.63 1.40
28 29 1.636769 GGAGGGAGAAGCCGGGAAAT 61.637 60.000 2.18 0.00 37.63 2.17
29 30 2.298661 GGAGGGAGAAGCCGGGAAA 61.299 63.158 2.18 0.00 37.63 3.13
30 31 2.687566 GGAGGGAGAAGCCGGGAA 60.688 66.667 2.18 0.00 37.63 3.97
31 32 1.956639 TATGGAGGGAGAAGCCGGGA 61.957 60.000 2.18 0.00 37.63 5.14
32 33 0.838122 ATATGGAGGGAGAAGCCGGG 60.838 60.000 2.18 0.00 37.63 5.73
33 34 1.938585 TATATGGAGGGAGAAGCCGG 58.061 55.000 0.00 0.00 37.63 6.13
34 35 5.207110 CATATATATGGAGGGAGAAGCCG 57.793 47.826 14.04 0.00 37.63 5.52
47 48 4.127171 GCAACGGGGTAGCCATATATATG 58.873 47.826 14.06 14.78 0.00 1.78
48 49 3.778075 TGCAACGGGGTAGCCATATATAT 59.222 43.478 14.06 0.00 0.00 0.86
49 50 3.055675 GTGCAACGGGGTAGCCATATATA 60.056 47.826 14.06 0.00 0.00 0.86
50 51 1.982226 TGCAACGGGGTAGCCATATAT 59.018 47.619 14.06 0.00 0.00 0.86
51 52 1.071071 GTGCAACGGGGTAGCCATATA 59.929 52.381 14.06 0.00 0.00 0.86
52 53 0.179029 GTGCAACGGGGTAGCCATAT 60.179 55.000 14.06 0.00 0.00 1.78
53 54 1.222387 GTGCAACGGGGTAGCCATA 59.778 57.895 14.06 0.00 0.00 2.74
54 55 2.045340 GTGCAACGGGGTAGCCAT 60.045 61.111 14.06 0.00 0.00 4.40
55 56 4.338710 GGTGCAACGGGGTAGCCA 62.339 66.667 14.06 0.00 38.12 4.75
57 58 4.029809 AGGGTGCAACGGGGTAGC 62.030 66.667 0.00 0.00 38.12 3.58
58 59 2.046314 CAGGGTGCAACGGGGTAG 60.046 66.667 0.00 0.00 38.12 3.18
59 60 3.642503 CCAGGGTGCAACGGGGTA 61.643 66.667 3.22 0.00 38.12 3.69
61 62 4.278513 TTCCAGGGTGCAACGGGG 62.279 66.667 10.80 7.55 38.12 5.73
62 63 2.672996 CTTCCAGGGTGCAACGGG 60.673 66.667 4.76 4.76 38.12 5.28
63 64 2.672996 CCTTCCAGGGTGCAACGG 60.673 66.667 0.00 0.00 38.12 4.44
64 65 3.365265 GCCTTCCAGGGTGCAACG 61.365 66.667 0.00 0.00 38.12 4.10
65 66 3.365265 CGCCTTCCAGGGTGCAAC 61.365 66.667 0.00 0.00 35.37 4.17
66 67 4.659172 CCGCCTTCCAGGGTGCAA 62.659 66.667 0.00 0.00 35.37 4.08
72 73 3.411517 ACCATCCCGCCTTCCAGG 61.412 66.667 0.00 0.00 38.80 4.45
73 74 1.622607 TACACCATCCCGCCTTCCAG 61.623 60.000 0.00 0.00 0.00 3.86
74 75 1.202099 TTACACCATCCCGCCTTCCA 61.202 55.000 0.00 0.00 0.00 3.53
75 76 0.746923 GTTACACCATCCCGCCTTCC 60.747 60.000 0.00 0.00 0.00 3.46
76 77 0.252197 AGTTACACCATCCCGCCTTC 59.748 55.000 0.00 0.00 0.00 3.46
77 78 0.696501 AAGTTACACCATCCCGCCTT 59.303 50.000 0.00 0.00 0.00 4.35
78 79 0.696501 AAAGTTACACCATCCCGCCT 59.303 50.000 0.00 0.00 0.00 5.52
79 80 1.471287 GAAAAGTTACACCATCCCGCC 59.529 52.381 0.00 0.00 0.00 6.13
80 81 1.129811 CGAAAAGTTACACCATCCCGC 59.870 52.381 0.00 0.00 0.00 6.13
81 82 1.735571 CCGAAAAGTTACACCATCCCG 59.264 52.381 0.00 0.00 0.00 5.14
82 83 2.486592 CACCGAAAAGTTACACCATCCC 59.513 50.000 0.00 0.00 0.00 3.85
83 84 3.143728 ACACCGAAAAGTTACACCATCC 58.856 45.455 0.00 0.00 0.00 3.51
84 85 4.992951 ACTACACCGAAAAGTTACACCATC 59.007 41.667 0.00 0.00 0.00 3.51
85 86 4.964593 ACTACACCGAAAAGTTACACCAT 58.035 39.130 0.00 0.00 0.00 3.55
86 87 4.405116 ACTACACCGAAAAGTTACACCA 57.595 40.909 0.00 0.00 0.00 4.17
87 88 4.386954 GCTACTACACCGAAAAGTTACACC 59.613 45.833 0.00 0.00 0.00 4.16
88 89 4.386954 GGCTACTACACCGAAAAGTTACAC 59.613 45.833 0.00 0.00 0.00 2.90
89 90 4.559153 GGCTACTACACCGAAAAGTTACA 58.441 43.478 0.00 0.00 0.00 2.41
100 101 0.682209 TCCTGACCGGCTACTACACC 60.682 60.000 0.00 0.00 0.00 4.16
101 102 1.067212 CATCCTGACCGGCTACTACAC 59.933 57.143 0.00 0.00 0.00 2.90
102 103 1.399714 CATCCTGACCGGCTACTACA 58.600 55.000 0.00 0.00 0.00 2.74
103 104 0.674534 CCATCCTGACCGGCTACTAC 59.325 60.000 0.00 0.00 0.00 2.73
104 105 0.260816 ACCATCCTGACCGGCTACTA 59.739 55.000 0.00 0.00 0.00 1.82
105 106 1.001760 ACCATCCTGACCGGCTACT 59.998 57.895 0.00 0.00 0.00 2.57
106 107 1.144057 CACCATCCTGACCGGCTAC 59.856 63.158 0.00 0.00 0.00 3.58
107 108 0.032912 TACACCATCCTGACCGGCTA 60.033 55.000 0.00 0.00 0.00 3.93
108 109 0.907704 TTACACCATCCTGACCGGCT 60.908 55.000 0.00 0.00 0.00 5.52
111 112 2.762535 AAGTTACACCATCCTGACCG 57.237 50.000 0.00 0.00 0.00 4.79
116 117 6.435292 AACACTAGAAAGTTACACCATCCT 57.565 37.500 0.00 0.00 31.97 3.24
139 140 8.673456 TGCCAGGTAACATTATGGAGTATATA 57.327 34.615 0.00 0.00 41.41 0.86
145 146 3.316308 GCTTGCCAGGTAACATTATGGAG 59.684 47.826 0.00 0.00 41.41 3.86
148 149 2.033299 CCGCTTGCCAGGTAACATTATG 59.967 50.000 0.00 0.00 41.41 1.90
176 177 2.354704 GGCATTTGCTAAGGGGTTTTCC 60.355 50.000 2.12 0.00 41.70 3.13
191 192 1.459450 GTGTGACGTATGGGGCATTT 58.541 50.000 0.00 0.00 0.00 2.32
194 195 1.609635 ATCGTGTGACGTATGGGGCA 61.610 55.000 0.00 0.00 43.14 5.36
195 196 0.874607 GATCGTGTGACGTATGGGGC 60.875 60.000 0.00 0.00 43.14 5.80
197 198 2.159296 TCTTGATCGTGTGACGTATGGG 60.159 50.000 0.00 0.00 43.14 4.00
203 204 3.978759 GTCAAATCTTGATCGTGTGACG 58.021 45.455 0.00 0.00 42.47 4.35
211 212 8.589629 CCAATTTTTCATCGTCAAATCTTGATC 58.410 33.333 0.00 0.00 42.47 2.92
220 221 7.737972 TTCTAGTCCAATTTTTCATCGTCAA 57.262 32.000 0.00 0.00 0.00 3.18
221 222 7.921786 ATTCTAGTCCAATTTTTCATCGTCA 57.078 32.000 0.00 0.00 0.00 4.35
234 235 5.064558 TGGCGTTTGTTTATTCTAGTCCAA 58.935 37.500 0.00 0.00 0.00 3.53
235 236 4.643463 TGGCGTTTGTTTATTCTAGTCCA 58.357 39.130 0.00 0.00 0.00 4.02
237 238 5.123344 ACCATGGCGTTTGTTTATTCTAGTC 59.877 40.000 13.04 0.00 0.00 2.59
242 243 5.674989 CAAAACCATGGCGTTTGTTTATTC 58.325 37.500 24.03 0.00 36.12 1.75
244 245 3.496507 GCAAAACCATGGCGTTTGTTTAT 59.503 39.130 28.85 4.05 36.12 1.40
249 250 1.293924 TTGCAAAACCATGGCGTTTG 58.706 45.000 26.41 26.41 36.12 2.93
253 254 1.399984 GCATTTTGCAAAACCATGGCG 60.400 47.619 26.05 10.09 44.26 5.69
254 255 2.334971 GCATTTTGCAAAACCATGGC 57.665 45.000 26.05 19.04 44.26 4.40
328 429 7.339976 GTGAGTCCTTCTAGGTAAGTACAAGAT 59.660 40.741 0.00 0.00 36.53 2.40
329 430 6.658391 GTGAGTCCTTCTAGGTAAGTACAAGA 59.342 42.308 0.00 0.00 36.53 3.02
330 431 6.403418 CGTGAGTCCTTCTAGGTAAGTACAAG 60.403 46.154 0.00 0.00 36.53 3.16
332 433 4.940046 CGTGAGTCCTTCTAGGTAAGTACA 59.060 45.833 0.00 0.00 36.53 2.90
333 434 4.335037 CCGTGAGTCCTTCTAGGTAAGTAC 59.665 50.000 0.00 0.00 36.53 2.73
342 443 7.942894 TGATATTTAGATCCGTGAGTCCTTCTA 59.057 37.037 0.00 0.00 0.00 2.10
365 466 5.516059 TCCTATAGGATCTACACGGTGAT 57.484 43.478 18.00 0.00 39.78 3.06
425 526 6.264067 GGACAACTTACTGGGAGTATATACGT 59.736 42.308 7.23 0.00 29.64 3.57
503 604 6.639686 TCGTCTCACTTTGTCACTGTATAAAC 59.360 38.462 0.00 0.00 0.00 2.01
510 736 1.781429 CGTCGTCTCACTTTGTCACTG 59.219 52.381 0.00 0.00 0.00 3.66
511 737 1.404391 ACGTCGTCTCACTTTGTCACT 59.596 47.619 0.00 0.00 0.00 3.41
529 755 2.731721 TCAGTTGCGCCGTGTACG 60.732 61.111 4.18 0.00 39.44 3.67
590 816 3.740044 AATCACGACACGGCAATTAAG 57.260 42.857 0.00 0.00 0.00 1.85
591 817 5.804692 ATTAATCACGACACGGCAATTAA 57.195 34.783 0.00 0.00 0.00 1.40
592 818 5.804692 AATTAATCACGACACGGCAATTA 57.195 34.783 0.00 0.00 0.00 1.40
593 819 4.695217 AATTAATCACGACACGGCAATT 57.305 36.364 0.00 0.00 0.00 2.32
594 820 4.034742 GGTAATTAATCACGACACGGCAAT 59.965 41.667 0.00 0.00 0.00 3.56
595 821 3.371591 GGTAATTAATCACGACACGGCAA 59.628 43.478 0.00 0.00 0.00 4.52
596 822 2.931325 GGTAATTAATCACGACACGGCA 59.069 45.455 0.00 0.00 0.00 5.69
597 823 2.034339 CGGTAATTAATCACGACACGGC 60.034 50.000 0.00 0.00 0.00 5.68
598 824 3.000476 CACGGTAATTAATCACGACACGG 60.000 47.826 11.69 1.88 0.00 4.94
599 825 3.609373 ACACGGTAATTAATCACGACACG 59.391 43.478 11.69 0.00 0.00 4.49
600 826 4.622313 TGACACGGTAATTAATCACGACAC 59.378 41.667 11.69 4.90 0.00 3.67
601 827 4.807443 TGACACGGTAATTAATCACGACA 58.193 39.130 11.69 7.17 0.00 4.35
602 828 5.574055 TCTTGACACGGTAATTAATCACGAC 59.426 40.000 11.69 0.00 0.00 4.34
603 829 5.712004 TCTTGACACGGTAATTAATCACGA 58.288 37.500 11.69 0.00 0.00 4.35
604 830 6.292168 GGATCTTGACACGGTAATTAATCACG 60.292 42.308 0.00 0.00 0.00 4.35
605 831 6.018180 GGGATCTTGACACGGTAATTAATCAC 60.018 42.308 0.00 0.00 0.00 3.06
606 832 6.053005 GGGATCTTGACACGGTAATTAATCA 58.947 40.000 0.00 0.00 0.00 2.57
607 833 6.018180 GTGGGATCTTGACACGGTAATTAATC 60.018 42.308 0.00 0.00 0.00 1.75
697 1159 5.499004 ACATGTATGTAACCTCTTGGTGT 57.501 39.130 0.00 0.00 41.61 4.16
704 1166 4.814771 GGGCTTGTACATGTATGTAACCTC 59.185 45.833 9.18 0.00 44.11 3.85
718 1180 1.472728 CCATAGTCGGTGGGCTTGTAC 60.473 57.143 0.00 0.00 32.98 2.90
719 1181 0.828022 CCATAGTCGGTGGGCTTGTA 59.172 55.000 0.00 0.00 32.98 2.41
736 1198 1.022451 GGTTTAGCCGATCGTTGCCA 61.022 55.000 15.09 0.00 0.00 4.92
752 1216 1.568118 CGGGAATGGGGTAGGTGGTT 61.568 60.000 0.00 0.00 0.00 3.67
804 1276 1.446907 GCACTGCTCTGCTTACATGT 58.553 50.000 2.69 2.69 34.06 3.21
941 1414 6.756542 TCCTTGTTTACTGTATGATCGATGTG 59.243 38.462 0.54 0.00 0.00 3.21
954 1427 6.867293 GGTACTAGTTCACTCCTTGTTTACTG 59.133 42.308 0.00 0.00 0.00 2.74
961 1442 6.347859 AGAAAGGTACTAGTTCACTCCTTG 57.652 41.667 0.00 0.00 38.49 3.61
969 1450 5.277925 CGGCTAGCTAGAAAGGTACTAGTTC 60.278 48.000 25.15 0.00 38.49 3.01
975 1456 2.030371 ACCGGCTAGCTAGAAAGGTAC 58.970 52.381 25.15 4.36 34.60 3.34
976 1457 2.029623 CACCGGCTAGCTAGAAAGGTA 58.970 52.381 25.15 0.00 34.60 3.08
977 1458 0.824759 CACCGGCTAGCTAGAAAGGT 59.175 55.000 25.15 23.16 37.23 3.50
978 1459 1.112113 TCACCGGCTAGCTAGAAAGG 58.888 55.000 25.15 22.56 0.00 3.11
979 1460 2.362397 TGATCACCGGCTAGCTAGAAAG 59.638 50.000 25.15 13.09 0.00 2.62
982 1463 1.889170 CATGATCACCGGCTAGCTAGA 59.111 52.381 25.15 7.95 0.00 2.43
1251 1733 3.555324 TCGTTGAGCAGCACCCCA 61.555 61.111 0.00 0.00 0.00 4.96
1485 1967 4.367023 CCCCACGCGACGAGGAAA 62.367 66.667 15.93 0.00 39.84 3.13
1559 2062 4.388499 GCGGCCGGAAGAGGTCAA 62.388 66.667 29.38 0.00 35.10 3.18
1587 2093 0.093026 GGTGCTCAAAATCGACGACG 59.907 55.000 0.00 0.00 41.26 5.12
1596 2105 4.572571 ACGCCCCGGTGCTCAAAA 62.573 61.111 7.49 0.00 0.00 2.44
1633 2142 2.203538 CTGCTTGGGGTTGCTGGT 60.204 61.111 0.00 0.00 0.00 4.00
2218 2737 1.622607 CCGAGGTAGGATGGCACCAA 61.623 60.000 8.48 0.00 37.28 3.67
2226 2745 2.905880 CCGTCGCCGAGGTAGGAT 60.906 66.667 6.04 0.00 35.63 3.24
2349 2894 7.008440 TCAAATCGCTGATTTAATCACTCAG 57.992 36.000 3.20 0.00 39.82 3.35
2392 2937 0.455972 GCATGCACGTACGCCAATTT 60.456 50.000 16.72 0.00 0.00 1.82
2431 2979 6.426937 GGTACTTCTGTGCAATTAACTCTCAA 59.573 38.462 0.00 0.00 0.00 3.02
2433 2981 5.932303 TGGTACTTCTGTGCAATTAACTCTC 59.068 40.000 0.00 0.00 0.00 3.20
2572 3120 1.136774 CGAACTGTCGGATCGAGCA 59.863 57.895 1.84 0.00 43.81 4.26
2587 3135 1.679139 CTTGCAATATCTGGCCCGAA 58.321 50.000 0.00 0.00 0.00 4.30
2696 6678 1.145571 TGCCACTAAGGTCCCACTTT 58.854 50.000 0.00 0.00 40.61 2.66
2764 6747 8.267183 TGAAGAATTTGCTGACATAATCCTCTA 58.733 33.333 0.00 0.00 0.00 2.43
2812 6795 7.221452 GCACATGAAAGATCATTGGTTCATAAC 59.779 37.037 0.00 0.00 43.89 1.89
2833 6816 0.257905 ATCATGCTCACCAGGCACAT 59.742 50.000 0.00 0.00 42.69 3.21
2863 6846 2.467880 GTTCTATGTCTGGACCAGGGA 58.532 52.381 21.56 8.65 31.51 4.20
3234 7217 2.047465 CTCGCAGCAGCTCTTGGT 60.047 61.111 0.00 0.00 39.10 3.67
3249 7232 0.975040 TTCCTCTGGCAGCTCCTCTC 60.975 60.000 10.34 0.00 35.26 3.20
3269 7252 4.399934 GTGTAGTAGAAGTAGCAGCTCCTT 59.600 45.833 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.