Multiple sequence alignment - TraesCS2B01G569400

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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 TraesCS2B01G569400 chr2B 100.000 3279 0 0 1 3279 760014462 760017740 0.000000e+00 6056
1 TraesCS2B01G569400 chr2B 89.911 783 74 5 1 780 799580225 799581005 0.000000e+00 1003
2 TraesCS2B01G569400 chr2B 89.668 784 74 7 1 780 799582885 799583665 0.000000e+00 992
3 TraesCS2B01G569400 chr2B 90.170 763 72 2 3 764 626105414 626106174 0.000000e+00 990
4 TraesCS2B01G569400 chr2B 89.400 783 78 5 1 780 799581555 799582335 0.000000e+00 981
5 TraesCS2B01G569400 chr2B 82.023 1285 96 61 840 2066 760118265 760119472 0.000000e+00 968
6 TraesCS2B01G569400 chr2B 81.444 1288 113 71 820 2070 760152781 760153979 0.000000e+00 939
7 TraesCS2B01G569400 chr2B 97.405 501 13 0 2779 3279 760040012 760040512 0.000000e+00 854
8 TraesCS2B01G569400 chr2B 96.016 502 19 1 2779 3279 84464194 84464695 0.000000e+00 815
9 TraesCS2B01G569400 chr2D 88.547 1170 77 21 928 2087 620223680 620224802 0.000000e+00 1365
10 TraesCS2B01G569400 chr2D 83.227 1097 90 41 1026 2073 620281162 620282213 0.000000e+00 920
11 TraesCS2B01G569400 chr2D 87.597 516 43 11 2195 2707 620224949 620225446 2.190000e-161 579
12 TraesCS2B01G569400 chr2D 89.602 452 32 13 1086 1523 620270045 620270495 7.950000e-156 560
13 TraesCS2B01G569400 chr2D 88.211 475 21 7 1604 2066 620270535 620270986 4.820000e-148 534
14 TraesCS2B01G569400 chr2D 84.153 183 12 8 820 998 620280995 620281164 9.420000e-36 161
15 TraesCS2B01G569400 chr2D 82.353 187 26 6 2450 2636 45090294 45090115 4.380000e-34 156
16 TraesCS2B01G569400 chr2A 85.221 1245 88 44 863 2066 751893770 751892581 0.000000e+00 1192
17 TraesCS2B01G569400 chr2A 87.524 1050 57 29 1092 2103 751844736 751845749 0.000000e+00 1146
18 TraesCS2B01G569400 chr2A 81.931 1295 120 73 822 2076 752030896 752032116 0.000000e+00 990
19 TraesCS2B01G569400 chr2A 88.165 583 36 15 1541 2103 751757314 751757883 0.000000e+00 664
20 TraesCS2B01G569400 chr2A 88.341 223 12 9 2105 2318 751845821 751846038 4.200000e-64 255
21 TraesCS2B01G569400 chr2A 90.968 155 9 3 2105 2255 751776250 751776403 1.540000e-48 204
22 TraesCS2B01G569400 chr2A 82.292 192 26 6 2448 2633 8371239 8371428 3.390000e-35 159
23 TraesCS2B01G569400 chr2A 92.308 104 4 3 1373 1476 751757280 751757181 9.480000e-31 145
24 TraesCS2B01G569400 chr7B 90.476 777 71 3 1 775 110879253 110880028 0.000000e+00 1022
25 TraesCS2B01G569400 chr7B 89.793 774 78 1 3 776 40185181 40184409 0.000000e+00 990
26 TraesCS2B01G569400 chr7B 77.612 134 22 5 2501 2633 141806084 141806210 1.260000e-09 75
27 TraesCS2B01G569400 chr5B 90.103 778 73 4 1 777 661842196 661842970 0.000000e+00 1007
28 TraesCS2B01G569400 chr4B 89.885 781 74 4 1 778 599823331 599822553 0.000000e+00 1000
29 TraesCS2B01G569400 chr4B 96.414 502 16 2 2779 3279 458055847 458055347 0.000000e+00 826
30 TraesCS2B01G569400 chr4B 95.418 502 22 1 2779 3279 634298798 634299299 0.000000e+00 798
31 TraesCS2B01G569400 chr4D 89.373 781 79 4 1 778 52749885 52750664 0.000000e+00 979
32 TraesCS2B01G569400 chr1B 95.635 504 21 1 2777 3279 51244137 51244640 0.000000e+00 808
33 TraesCS2B01G569400 chr1B 95.618 502 20 2 2779 3279 51266871 51267371 0.000000e+00 804
34 TraesCS2B01G569400 chr6B 95.618 502 21 1 2779 3279 670132934 670132433 0.000000e+00 804
35 TraesCS2B01G569400 chr4A 95.219 502 24 0 2778 3279 677084761 677084260 0.000000e+00 795
36 TraesCS2B01G569400 chr4A 95.210 501 24 0 2779 3279 677071823 677071323 0.000000e+00 793
37 TraesCS2B01G569400 chr7A 81.967 183 28 4 2455 2637 213796886 213796709 2.040000e-32 150
38 TraesCS2B01G569400 chr3B 82.609 138 21 3 2485 2622 697484041 697483907 5.750000e-23 119


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 TraesCS2B01G569400 chr2B 760014462 760017740 3278 False 6056.0 6056 100.000000 1 3279 1 chr2B.!!$F3 3278
1 TraesCS2B01G569400 chr2B 799580225 799583665 3440 False 992.0 1003 89.659667 1 780 3 chr2B.!!$F7 779
2 TraesCS2B01G569400 chr2B 626105414 626106174 760 False 990.0 990 90.170000 3 764 1 chr2B.!!$F2 761
3 TraesCS2B01G569400 chr2B 760118265 760119472 1207 False 968.0 968 82.023000 840 2066 1 chr2B.!!$F5 1226
4 TraesCS2B01G569400 chr2B 760152781 760153979 1198 False 939.0 939 81.444000 820 2070 1 chr2B.!!$F6 1250
5 TraesCS2B01G569400 chr2B 760040012 760040512 500 False 854.0 854 97.405000 2779 3279 1 chr2B.!!$F4 500
6 TraesCS2B01G569400 chr2B 84464194 84464695 501 False 815.0 815 96.016000 2779 3279 1 chr2B.!!$F1 500
7 TraesCS2B01G569400 chr2D 620223680 620225446 1766 False 972.0 1365 88.072000 928 2707 2 chr2D.!!$F1 1779
8 TraesCS2B01G569400 chr2D 620270045 620270986 941 False 547.0 560 88.906500 1086 2066 2 chr2D.!!$F2 980
9 TraesCS2B01G569400 chr2D 620280995 620282213 1218 False 540.5 920 83.690000 820 2073 2 chr2D.!!$F3 1253
10 TraesCS2B01G569400 chr2A 751892581 751893770 1189 True 1192.0 1192 85.221000 863 2066 1 chr2A.!!$R2 1203
11 TraesCS2B01G569400 chr2A 752030896 752032116 1220 False 990.0 990 81.931000 822 2076 1 chr2A.!!$F4 1254
12 TraesCS2B01G569400 chr2A 751844736 751846038 1302 False 700.5 1146 87.932500 1092 2318 2 chr2A.!!$F5 1226
13 TraesCS2B01G569400 chr2A 751757314 751757883 569 False 664.0 664 88.165000 1541 2103 1 chr2A.!!$F2 562
14 TraesCS2B01G569400 chr7B 110879253 110880028 775 False 1022.0 1022 90.476000 1 775 1 chr7B.!!$F1 774
15 TraesCS2B01G569400 chr7B 40184409 40185181 772 True 990.0 990 89.793000 3 776 1 chr7B.!!$R1 773
16 TraesCS2B01G569400 chr5B 661842196 661842970 774 False 1007.0 1007 90.103000 1 777 1 chr5B.!!$F1 776
17 TraesCS2B01G569400 chr4B 599822553 599823331 778 True 1000.0 1000 89.885000 1 778 1 chr4B.!!$R2 777
18 TraesCS2B01G569400 chr4B 458055347 458055847 500 True 826.0 826 96.414000 2779 3279 1 chr4B.!!$R1 500
19 TraesCS2B01G569400 chr4B 634298798 634299299 501 False 798.0 798 95.418000 2779 3279 1 chr4B.!!$F1 500
20 TraesCS2B01G569400 chr4D 52749885 52750664 779 False 979.0 979 89.373000 1 778 1 chr4D.!!$F1 777
21 TraesCS2B01G569400 chr1B 51244137 51244640 503 False 808.0 808 95.635000 2777 3279 1 chr1B.!!$F1 502
22 TraesCS2B01G569400 chr1B 51266871 51267371 500 False 804.0 804 95.618000 2779 3279 1 chr1B.!!$F2 500
23 TraesCS2B01G569400 chr6B 670132433 670132934 501 True 804.0 804 95.618000 2779 3279 1 chr6B.!!$R1 500
24 TraesCS2B01G569400 chr4A 677084260 677084761 501 True 795.0 795 95.219000 2778 3279 1 chr4A.!!$R2 501
25 TraesCS2B01G569400 chr4A 677071323 677071823 500 True 793.0 793 95.210000 2779 3279 1 chr4A.!!$R1 500

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
199 202 0.240678 GATGGCATCGTGTGTTTGCA 59.759 50.0 12.4 0.0 38.12 4.08 F
1538 1997 0.246635 TCCTTCCGTCTTGCTGTAGC 59.753 55.0 0.0 0.0 42.50 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2076 4102 0.106719 CCAACCACCACTGTCCACTT 60.107 55.0 0.0 0.0 0.0 3.16 R
2749 4888 0.110486 GCCCCAACTTCTTCACAGGA 59.890 55.0 0.0 0.0 0.0 3.86 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
92 94 4.349871 GTCGTGGTGCGTCGTTGC 62.350 66.667 0.00 0.00 42.13 4.17
115 117 1.144057 GTGGGAGCGATGTTCGGAT 59.856 57.895 0.00 0.00 40.84 4.18
117 119 1.326951 TGGGAGCGATGTTCGGATGA 61.327 55.000 0.00 0.00 40.84 2.92
127 130 5.050091 GCGATGTTCGGATGAATAAATCTGT 60.050 40.000 0.00 0.00 40.84 3.41
199 202 0.240678 GATGGCATCGTGTGTTTGCA 59.759 50.000 12.40 0.00 38.12 4.08
211 214 3.565482 GTGTGTTTGCAGATCCTTCAGAA 59.435 43.478 0.00 0.00 0.00 3.02
336 339 2.273449 GTCATGGTGGAGCAGGGG 59.727 66.667 0.00 0.00 0.00 4.79
370 373 1.135315 GAGTACGCGCAGACGGTTA 59.865 57.895 5.73 0.00 40.57 2.85
434 437 2.136298 TTGTGGTTGAAGGCTGACAA 57.864 45.000 0.00 0.00 0.00 3.18
439 442 4.072131 GTGGTTGAAGGCTGACAATTCTA 58.928 43.478 9.85 0.00 0.00 2.10
455 458 0.335361 TCTAGTTTCCTCCTCCGGCT 59.665 55.000 0.00 0.00 0.00 5.52
536 541 3.557054 CCCTGGTCTGATTCTTTCAACGA 60.557 47.826 0.00 0.00 32.78 3.85
579 584 4.913784 AGCTATTTTGGAGGTCCGTAAAA 58.086 39.130 0.00 4.26 39.43 1.52
633 638 2.569404 GGGTGAAGAGGTGATCTGTCTT 59.431 50.000 4.94 4.94 38.67 3.01
636 641 4.381505 GGTGAAGAGGTGATCTGTCTTCTC 60.382 50.000 22.14 19.63 44.39 2.87
644 649 5.420739 AGGTGATCTGTCTTCTCTTCCTTAC 59.579 44.000 0.00 0.00 0.00 2.34
662 667 3.746949 CTGGAGAGGGACATGCGCC 62.747 68.421 4.18 0.00 0.00 6.53
699 704 8.291032 CGTACGATTATCCTATCTTTTCAGTCT 58.709 37.037 10.44 0.00 0.00 3.24
713 718 8.689251 TCTTTTCAGTCTTGTAATGTCGATAG 57.311 34.615 0.00 0.00 0.00 2.08
739 744 6.237313 ACGTGGCTTGTAACTTAATCTTTC 57.763 37.500 0.00 0.00 0.00 2.62
792 797 1.006086 AAAAGCAAAGCAACCAACGC 58.994 45.000 0.00 0.00 0.00 4.84
793 798 0.809636 AAAGCAAAGCAACCAACGCC 60.810 50.000 0.00 0.00 0.00 5.68
794 799 1.675720 AAGCAAAGCAACCAACGCCT 61.676 50.000 0.00 0.00 0.00 5.52
795 800 1.950630 GCAAAGCAACCAACGCCTG 60.951 57.895 0.00 0.00 0.00 4.85
880 888 3.506844 GGTTATCCAACGGCCTTTGTTTA 59.493 43.478 19.62 8.72 35.34 2.01
899 911 1.519408 ATTCGGCATAATACACCGGC 58.481 50.000 0.00 0.00 46.87 6.13
901 914 1.330234 TCGGCATAATACACCGGCTA 58.670 50.000 0.00 0.00 46.87 3.93
905 918 3.000727 GGCATAATACACCGGCTATGAC 58.999 50.000 0.00 0.00 0.00 3.06
920 933 0.740868 ATGACACCACGCGATTCAGG 60.741 55.000 15.93 8.96 0.00 3.86
922 935 2.434884 CACCACGCGATTCAGGCT 60.435 61.111 15.93 0.00 0.00 4.58
969 983 3.373565 CTTCCTTGGCCCCAACGC 61.374 66.667 0.00 0.00 0.00 4.84
1057 1086 3.596214 CAGCCGTCTATAAAACCAGTGT 58.404 45.455 0.00 0.00 0.00 3.55
1061 1090 3.367703 CCGTCTATAAAACCAGTGTCCGT 60.368 47.826 0.00 0.00 0.00 4.69
1071 1102 0.611062 CAGTGTCCGTCCACTCCCTA 60.611 60.000 1.55 0.00 43.70 3.53
1143 1189 3.466791 AATCCATCGCCAGAGCCCG 62.467 63.158 0.00 0.00 34.57 6.13
1317 1718 1.279840 GTGGTTGCTTGCTGTCGAC 59.720 57.895 9.11 9.11 0.00 4.20
1353 1796 3.181455 GGTTCATTTGGTTCCCTTTTGCT 60.181 43.478 0.00 0.00 0.00 3.91
1363 1806 2.306847 TCCCTTTTGCTGTTCTTGGTC 58.693 47.619 0.00 0.00 0.00 4.02
1372 1818 0.601046 TGTTCTTGGTCGCTGCTCTG 60.601 55.000 0.00 0.00 0.00 3.35
1519 1978 2.644299 TCATGACACATCCCTGTTTCCT 59.356 45.455 0.00 0.00 32.21 3.36
1520 1979 2.859165 TGACACATCCCTGTTTCCTC 57.141 50.000 0.00 0.00 32.21 3.71
1521 1980 1.351017 TGACACATCCCTGTTTCCTCC 59.649 52.381 0.00 0.00 32.21 4.30
1534 1993 0.321671 TTCCTCCTTCCGTCTTGCTG 59.678 55.000 0.00 0.00 0.00 4.41
1538 1997 0.246635 TCCTTCCGTCTTGCTGTAGC 59.753 55.000 0.00 0.00 42.50 3.58
1614 2080 7.069578 CCAGAATCCTCATCCATCTTGAATTTT 59.930 37.037 0.00 0.00 0.00 1.82
1662 2131 1.208052 CGTGGACATGAAGGACCAGAT 59.792 52.381 0.00 0.00 32.89 2.90
2038 4060 2.010043 GCCCCATGTACATTTCGTCGT 61.010 52.381 5.37 0.00 0.00 4.34
2087 4116 2.941333 CGCTGCAAGTGGACAGTG 59.059 61.111 0.00 0.00 41.82 3.66
2103 4132 0.534203 AGTGGTGGTTGGTAGTTGCG 60.534 55.000 0.00 0.00 0.00 4.85
2126 4230 6.142139 CGATAATACGACCGTGTAATTACCA 58.858 40.000 13.01 0.00 35.09 3.25
2137 4241 4.092237 CGTGTAATTACCAGTTGCATCGAA 59.908 41.667 13.01 0.00 0.00 3.71
2145 4249 1.003116 CAGTTGCATCGAATAGCTGCC 60.003 52.381 5.55 0.00 41.00 4.85
2177 4281 2.686558 TTTTGCAAGATGTCGACTGC 57.313 45.000 17.92 17.85 0.00 4.40
2178 4282 0.874390 TTTGCAAGATGTCGACTGCC 59.126 50.000 20.70 9.10 0.00 4.85
2179 4283 1.291184 TTGCAAGATGTCGACTGCCG 61.291 55.000 20.70 6.62 40.25 5.69
2180 4284 2.456119 GCAAGATGTCGACTGCCGG 61.456 63.158 17.92 0.00 39.14 6.13
2181 4285 1.215382 CAAGATGTCGACTGCCGGA 59.785 57.895 17.92 0.00 39.14 5.14
2182 4286 0.389817 CAAGATGTCGACTGCCGGAA 60.390 55.000 17.92 0.00 39.14 4.30
2183 4287 0.108615 AAGATGTCGACTGCCGGAAG 60.109 55.000 17.92 8.33 39.14 3.46
2227 4362 3.242673 GCATCTGCTCATCAGTTTGTAGC 60.243 47.826 0.00 0.00 43.32 3.58
2250 4386 1.515304 GCACCGAGAGCGAGAAGAC 60.515 63.158 0.00 0.00 40.82 3.01
2252 4388 1.001887 ACCGAGAGCGAGAAGACCT 60.002 57.895 0.00 0.00 40.82 3.85
2253 4389 0.252479 ACCGAGAGCGAGAAGACCTA 59.748 55.000 0.00 0.00 40.82 3.08
2254 4390 0.658897 CCGAGAGCGAGAAGACCTAC 59.341 60.000 0.00 0.00 40.82 3.18
2255 4391 1.658994 CGAGAGCGAGAAGACCTACT 58.341 55.000 0.00 0.00 40.82 2.57
2334 4471 9.019764 CCAACTGAAAAGTACTTATGTTTGTTG 57.980 33.333 8.92 16.68 0.00 3.33
2337 4474 8.120465 ACTGAAAAGTACTTATGTTTGTTGTCG 58.880 33.333 8.92 0.00 0.00 4.35
2345 4482 5.179368 ACTTATGTTTGTTGTCGTGATGGAG 59.821 40.000 0.00 0.00 0.00 3.86
2349 4486 4.201871 TGTTTGTTGTCGTGATGGAGAAAC 60.202 41.667 0.00 0.00 0.00 2.78
2365 4502 9.167311 GATGGAGAAACAAGTGTAAATCAGTAT 57.833 33.333 0.00 0.00 0.00 2.12
2377 4514 8.889717 AGTGTAAATCAGTATTAAAACCATCGG 58.110 33.333 0.00 0.00 0.00 4.18
2378 4515 8.126700 GTGTAAATCAGTATTAAAACCATCGGG 58.873 37.037 0.00 0.00 41.29 5.14
2384 4521 7.287061 TCAGTATTAAAACCATCGGGATTCAT 58.713 34.615 0.00 0.00 38.05 2.57
2389 4526 3.582998 AACCATCGGGATTCATGTCAT 57.417 42.857 0.00 0.00 38.05 3.06
2391 4528 4.277515 ACCATCGGGATTCATGTCATAG 57.722 45.455 0.00 0.00 38.05 2.23
2400 4537 6.152831 CGGGATTCATGTCATAGGAGTATACA 59.847 42.308 5.50 0.00 0.00 2.29
2416 4553 5.238583 AGTATACATAAATTCGGCTCAGCC 58.761 41.667 5.22 5.22 46.75 4.85
2432 4569 0.889994 AGCCAAAGCATGCGAAATCA 59.110 45.000 13.01 0.00 43.56 2.57
2458 4595 2.571212 TGATTGTGAAACGGTCTTGCT 58.429 42.857 0.00 0.00 42.39 3.91
2496 4633 4.730657 GAGAATTAACGAAGTCTCGGTCA 58.269 43.478 0.00 0.00 42.92 4.02
2501 4638 1.000955 AACGAAGTCTCGGTCAATGCT 59.999 47.619 0.00 0.00 42.92 3.79
2509 4646 3.921021 GTCTCGGTCAATGCTTATATCCG 59.079 47.826 0.00 0.00 38.16 4.18
2510 4647 3.572682 TCTCGGTCAATGCTTATATCCGT 59.427 43.478 0.00 0.00 38.04 4.69
2529 4666 5.836347 TCCGTGAGATCTTACATTGAGATG 58.164 41.667 16.95 0.00 39.25 2.90
2531 4668 4.147826 CGTGAGATCTTACATTGAGATGCG 59.852 45.833 16.95 0.00 36.72 4.73
2536 4673 6.573434 AGATCTTACATTGAGATGCGTGTAA 58.427 36.000 0.00 0.00 36.72 2.41
2537 4674 7.041721 AGATCTTACATTGAGATGCGTGTAAA 58.958 34.615 0.00 0.00 36.82 2.01
2591 4728 9.591792 CTCTTGTATGTTATCTCACTTGATTGA 57.408 33.333 0.00 0.00 0.00 2.57
2610 4747 6.317140 TGATTGAGACATGGTTAAATCTCAGC 59.683 38.462 10.32 8.31 46.12 4.26
2612 4749 4.019411 TGAGACATGGTTAAATCTCAGCCA 60.019 41.667 7.22 0.00 41.99 4.75
2651 4788 1.269206 CCATTGCGAAACTGTTGTGCT 60.269 47.619 15.39 0.00 0.00 4.40
2669 4806 2.138320 GCTGCGATGTATACATGCACT 58.862 47.619 25.77 7.13 36.35 4.40
2689 4828 1.144298 TGGCTGCATGATGGCTAATCT 59.856 47.619 0.50 0.00 36.15 2.40
2707 4846 3.738830 TCTAACCGTATTTATGCGCCT 57.261 42.857 4.18 0.00 34.50 5.52
2708 4847 4.062677 TCTAACCGTATTTATGCGCCTT 57.937 40.909 4.18 0.00 34.50 4.35
2709 4848 5.199024 TCTAACCGTATTTATGCGCCTTA 57.801 39.130 4.18 0.00 34.50 2.69
2710 4849 5.786311 TCTAACCGTATTTATGCGCCTTAT 58.214 37.500 4.18 0.00 34.50 1.73
2711 4850 4.742438 AACCGTATTTATGCGCCTTATG 57.258 40.909 4.18 0.00 34.50 1.90
2712 4851 3.997762 ACCGTATTTATGCGCCTTATGA 58.002 40.909 4.18 0.00 34.50 2.15
2713 4852 4.575885 ACCGTATTTATGCGCCTTATGAT 58.424 39.130 4.18 0.00 34.50 2.45
2714 4853 5.726397 ACCGTATTTATGCGCCTTATGATA 58.274 37.500 4.18 0.00 34.50 2.15
2715 4854 6.346096 ACCGTATTTATGCGCCTTATGATAT 58.654 36.000 4.18 0.00 34.50 1.63
2716 4855 6.257849 ACCGTATTTATGCGCCTTATGATATG 59.742 38.462 4.18 1.75 34.50 1.78
2717 4856 6.129393 CGTATTTATGCGCCTTATGATATGC 58.871 40.000 4.18 0.00 0.00 3.14
2718 4857 6.238076 CGTATTTATGCGCCTTATGATATGCA 60.238 38.462 4.18 0.00 36.69 3.96
2719 4858 4.944962 TTATGCGCCTTATGATATGCAC 57.055 40.909 4.18 0.00 34.86 4.57
2720 4859 2.549064 TGCGCCTTATGATATGCACT 57.451 45.000 4.18 0.00 0.00 4.40
2721 4860 3.676291 TGCGCCTTATGATATGCACTA 57.324 42.857 4.18 0.00 0.00 2.74
2722 4861 3.588955 TGCGCCTTATGATATGCACTAG 58.411 45.455 4.18 0.00 0.00 2.57
2723 4862 3.006859 TGCGCCTTATGATATGCACTAGT 59.993 43.478 4.18 0.00 0.00 2.57
2724 4863 3.369147 GCGCCTTATGATATGCACTAGTG 59.631 47.826 18.93 18.93 0.00 2.74
2725 4864 3.928992 CGCCTTATGATATGCACTAGTGG 59.071 47.826 23.95 6.49 0.00 4.00
2726 4865 4.561530 CGCCTTATGATATGCACTAGTGGT 60.562 45.833 23.95 0.00 0.00 4.16
2727 4866 5.308825 GCCTTATGATATGCACTAGTGGTT 58.691 41.667 23.95 1.21 0.00 3.67
2728 4867 5.180117 GCCTTATGATATGCACTAGTGGTTG 59.820 44.000 23.95 0.00 0.00 3.77
2729 4868 5.702670 CCTTATGATATGCACTAGTGGTTGG 59.297 44.000 23.95 0.00 0.00 3.77
2730 4869 3.558931 TGATATGCACTAGTGGTTGGG 57.441 47.619 23.95 0.00 0.00 4.12
2731 4870 2.172505 TGATATGCACTAGTGGTTGGGG 59.827 50.000 23.95 0.00 0.00 4.96
2732 4871 0.254747 TATGCACTAGTGGTTGGGGC 59.745 55.000 23.95 8.50 0.00 5.80
2733 4872 2.746277 GCACTAGTGGTTGGGGCG 60.746 66.667 23.95 0.00 0.00 6.13
2734 4873 2.746277 CACTAGTGGTTGGGGCGC 60.746 66.667 15.49 0.00 0.00 6.53
2735 4874 3.246112 ACTAGTGGTTGGGGCGCA 61.246 61.111 10.83 0.00 0.00 6.09
2736 4875 2.746277 CTAGTGGTTGGGGCGCAC 60.746 66.667 10.83 4.83 0.00 5.34
2737 4876 3.246112 TAGTGGTTGGGGCGCACT 61.246 61.111 10.74 4.31 0.00 4.40
2738 4877 3.248446 TAGTGGTTGGGGCGCACTC 62.248 63.158 10.74 0.00 0.00 3.51
2751 4890 4.767255 CACTCCTGGTGCGCCTCC 62.767 72.222 18.96 8.52 39.22 4.30
2753 4892 4.463879 CTCCTGGTGCGCCTCCTG 62.464 72.222 18.96 16.18 35.27 3.86
2756 4895 4.007644 CTGGTGCGCCTCCTGTGA 62.008 66.667 18.96 0.00 35.27 3.58
2757 4896 3.535629 CTGGTGCGCCTCCTGTGAA 62.536 63.158 18.96 0.00 35.27 3.18
2758 4897 2.743928 GGTGCGCCTCCTGTGAAG 60.744 66.667 9.68 0.00 0.00 3.02
2759 4898 2.343758 GTGCGCCTCCTGTGAAGA 59.656 61.111 4.18 0.00 0.00 2.87
2760 4899 1.301716 GTGCGCCTCCTGTGAAGAA 60.302 57.895 4.18 0.00 0.00 2.52
2761 4900 1.004560 TGCGCCTCCTGTGAAGAAG 60.005 57.895 4.18 0.00 0.00 2.85
2762 4901 1.004440 GCGCCTCCTGTGAAGAAGT 60.004 57.895 0.00 0.00 0.00 3.01
2763 4902 0.603975 GCGCCTCCTGTGAAGAAGTT 60.604 55.000 0.00 0.00 0.00 2.66
2764 4903 1.151668 CGCCTCCTGTGAAGAAGTTG 58.848 55.000 0.00 0.00 0.00 3.16
2765 4904 1.528129 GCCTCCTGTGAAGAAGTTGG 58.472 55.000 0.00 0.00 0.00 3.77
2766 4905 1.884067 GCCTCCTGTGAAGAAGTTGGG 60.884 57.143 0.00 0.00 0.00 4.12
2767 4906 1.271597 CCTCCTGTGAAGAAGTTGGGG 60.272 57.143 0.00 0.00 0.00 4.96
2768 4907 0.110486 TCCTGTGAAGAAGTTGGGGC 59.890 55.000 0.00 0.00 0.00 5.80
2769 4908 1.237285 CCTGTGAAGAAGTTGGGGCG 61.237 60.000 0.00 0.00 0.00 6.13
2770 4909 1.228124 TGTGAAGAAGTTGGGGCGG 60.228 57.895 0.00 0.00 0.00 6.13
2771 4910 1.228154 GTGAAGAAGTTGGGGCGGT 60.228 57.895 0.00 0.00 0.00 5.68
2772 4911 1.228124 TGAAGAAGTTGGGGCGGTG 60.228 57.895 0.00 0.00 0.00 4.94
2773 4912 2.597510 AAGAAGTTGGGGCGGTGC 60.598 61.111 0.00 0.00 0.00 5.01
2836 4975 2.904434 GTCCAAACTACCCTCTCCAAGA 59.096 50.000 0.00 0.00 0.00 3.02
2860 4999 6.538945 AGATCTCTAGAAGAAACCACCTTC 57.461 41.667 0.00 0.00 37.61 3.46
2930 5069 0.033504 GAAGCCAACCACTCGACAGA 59.966 55.000 0.00 0.00 0.00 3.41
3016 5155 6.317642 TCATAGCACTTTATTTGTGGCGTTAT 59.682 34.615 0.00 0.00 36.08 1.89
3048 5187 5.818857 GCCCGATCTTAATGTACCTTAAACA 59.181 40.000 5.10 0.00 0.00 2.83
3105 5246 3.933880 TCTATATAAGCCACCCCCTCCTA 59.066 47.826 0.00 0.00 0.00 2.94
3208 5349 3.474570 CCTCCGAGAAGGGCCTGG 61.475 72.222 6.92 3.49 41.52 4.45
3226 5367 1.065709 TGGACTCGTAAATCCCTTGCC 60.066 52.381 0.00 0.00 33.69 4.52
3234 5375 6.182507 TCGTAAATCCCTTGCCTATACAAT 57.817 37.500 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 0.393808 TACAAAGCGGAGGAATGGGC 60.394 55.000 0.00 0.00 0.00 5.36
39 40 3.773119 TCCTAACTACAAAGCGGAGGAAT 59.227 43.478 0.00 0.00 29.58 3.01
92 94 3.605749 AACATCGCTCCCACCACCG 62.606 63.158 0.00 0.00 0.00 4.94
115 117 7.604164 GGAGTGAAGTTGAGACAGATTTATTCA 59.396 37.037 0.00 0.00 0.00 2.57
117 119 6.881602 GGGAGTGAAGTTGAGACAGATTTATT 59.118 38.462 0.00 0.00 0.00 1.40
127 130 2.103094 CAGTGTGGGAGTGAAGTTGAGA 59.897 50.000 0.00 0.00 0.00 3.27
158 161 0.524392 CTCTGAGACGCCGTCATGAC 60.524 60.000 20.65 16.21 34.60 3.06
199 202 0.250513 GCCACCGTTCTGAAGGATCT 59.749 55.000 11.39 0.00 0.00 2.75
336 339 0.108019 ACTCCTGGACGACAAAACCC 59.892 55.000 0.00 0.00 0.00 4.11
370 373 1.546029 TCAGCTGTCACTTGCGTAGAT 59.454 47.619 14.67 0.00 0.00 1.98
406 409 1.688197 CTTCAACCACAAACCCAGCAT 59.312 47.619 0.00 0.00 0.00 3.79
455 458 0.611200 CACCCCCACACGACTATGAA 59.389 55.000 0.00 0.00 0.00 2.57
562 567 2.619646 GCAGTTTTACGGACCTCCAAAA 59.380 45.455 0.00 0.00 35.14 2.44
644 649 2.202987 GCGCATGTCCCTCTCCAG 60.203 66.667 0.30 0.00 0.00 3.86
674 679 9.968870 AAGACTGAAAAGATAGGATAATCGTAC 57.031 33.333 0.00 0.00 0.00 3.67
677 682 8.879342 ACAAGACTGAAAAGATAGGATAATCG 57.121 34.615 0.00 0.00 0.00 3.34
699 704 4.799949 GCCACGTAACTATCGACATTACAA 59.200 41.667 12.97 0.00 0.00 2.41
713 718 6.716898 AGATTAAGTTACAAGCCACGTAAC 57.283 37.500 10.97 10.97 45.88 2.50
777 782 1.950630 CAGGCGTTGGTTGCTTTGC 60.951 57.895 0.00 0.00 0.00 3.68
778 783 1.300080 CCAGGCGTTGGTTGCTTTG 60.300 57.895 0.49 0.00 42.41 2.77
779 784 3.128375 CCAGGCGTTGGTTGCTTT 58.872 55.556 0.49 0.00 42.41 3.51
794 799 4.877619 TTTGGTGCGTTCCGGCCA 62.878 61.111 2.24 0.00 0.00 5.36
795 800 4.038080 CTTTGGTGCGTTCCGGCC 62.038 66.667 0.00 0.00 0.00 6.13
796 801 4.038080 CCTTTGGTGCGTTCCGGC 62.038 66.667 0.00 0.00 0.00 6.13
797 802 2.593436 ACCTTTGGTGCGTTCCGG 60.593 61.111 0.00 0.00 32.98 5.14
806 811 3.506067 GGATCGATTTTGACACCTTTGGT 59.494 43.478 0.00 0.00 35.62 3.67
807 812 3.758554 AGGATCGATTTTGACACCTTTGG 59.241 43.478 0.00 0.00 0.00 3.28
808 813 5.376854 AAGGATCGATTTTGACACCTTTG 57.623 39.130 0.00 0.00 35.73 2.77
809 814 6.884295 TCATAAGGATCGATTTTGACACCTTT 59.116 34.615 15.14 4.13 38.27 3.11
810 815 6.414732 TCATAAGGATCGATTTTGACACCTT 58.585 36.000 14.54 14.54 39.56 3.50
811 816 5.989477 TCATAAGGATCGATTTTGACACCT 58.011 37.500 0.00 0.00 31.97 4.00
812 817 6.867662 ATCATAAGGATCGATTTTGACACC 57.132 37.500 0.00 0.00 0.00 4.16
813 818 8.004344 CGTAATCATAAGGATCGATTTTGACAC 58.996 37.037 0.00 0.00 34.28 3.67
814 819 7.709182 ACGTAATCATAAGGATCGATTTTGACA 59.291 33.333 0.00 0.00 34.28 3.58
815 820 8.073355 ACGTAATCATAAGGATCGATTTTGAC 57.927 34.615 0.00 0.00 34.28 3.18
816 821 9.188588 GTACGTAATCATAAGGATCGATTTTGA 57.811 33.333 0.00 0.00 34.28 2.69
817 822 8.154038 CGTACGTAATCATAAGGATCGATTTTG 58.846 37.037 7.22 0.00 34.28 2.44
818 823 7.864379 ACGTACGTAATCATAAGGATCGATTTT 59.136 33.333 21.41 0.10 34.28 1.82
872 880 7.908193 GGTGTATTATGCCGAATAAACAAAG 57.092 36.000 9.20 0.00 32.98 2.77
899 911 1.854743 CTGAATCGCGTGGTGTCATAG 59.145 52.381 5.77 0.00 0.00 2.23
901 914 0.740868 CCTGAATCGCGTGGTGTCAT 60.741 55.000 5.77 0.00 0.00 3.06
905 918 2.434884 AGCCTGAATCGCGTGGTG 60.435 61.111 5.77 0.00 0.00 4.17
950 964 2.118294 GTTGGGGCCAAGGAAGCT 59.882 61.111 4.39 0.00 36.52 3.74
1033 1058 1.910671 TGGTTTTATAGACGGCTGGGT 59.089 47.619 0.00 0.00 0.00 4.51
1057 1086 1.760875 GGCATAGGGAGTGGACGGA 60.761 63.158 0.00 0.00 0.00 4.69
1061 1090 3.161450 GGCGGCATAGGGAGTGGA 61.161 66.667 3.07 0.00 0.00 4.02
1071 1102 1.055849 TATGTGTATCTGGGCGGCAT 58.944 50.000 12.47 0.00 0.00 4.40
1143 1189 1.615883 TGTTGTGCTCTGTCTCTCTCC 59.384 52.381 0.00 0.00 0.00 3.71
1210 1603 1.954146 GACGGCAACTCAGCAACGA 60.954 57.895 0.00 0.00 35.83 3.85
1253 1650 1.228124 CGGGGAGGTTGCTTCAACA 60.228 57.895 11.22 0.00 45.11 3.33
1317 1718 4.514577 AACCCGCAGCTCGATCGG 62.515 66.667 16.41 7.26 41.67 4.18
1353 1796 0.601046 CAGAGCAGCGACCAAGAACA 60.601 55.000 0.00 0.00 0.00 3.18
1363 1806 1.303799 ATCAGCAAACCAGAGCAGCG 61.304 55.000 0.00 0.00 0.00 5.18
1505 1957 1.636003 GGAAGGAGGAAACAGGGATGT 59.364 52.381 0.00 0.00 0.00 3.06
1519 1978 0.246635 GCTACAGCAAGACGGAAGGA 59.753 55.000 0.00 0.00 41.59 3.36
1520 1979 2.755929 GCTACAGCAAGACGGAAGG 58.244 57.895 0.00 0.00 41.59 3.46
1538 1997 2.860136 TGCGACGAATTAGAGCAAGATG 59.140 45.455 0.00 0.00 34.66 2.90
1549 2008 2.068837 TTACTTCCGTGCGACGAATT 57.931 45.000 0.00 0.00 46.05 2.17
1550 2009 2.288961 ATTACTTCCGTGCGACGAAT 57.711 45.000 0.00 0.21 46.05 3.34
1571 2033 2.710902 GGCCTTCAATTCCGCCCAC 61.711 63.158 0.00 0.00 35.23 4.61
1662 2131 1.078497 GTGCCCACGATGGTCATCA 60.078 57.895 11.00 0.00 37.69 3.07
1972 3448 0.249120 AGATGACGCACGAATTGGGA 59.751 50.000 0.00 0.00 40.70 4.37
2023 4045 2.997986 GGGACAACGACGAAATGTACAT 59.002 45.455 1.41 1.41 29.13 2.29
2038 4060 3.319198 GGAGGACAGGCGGGACAA 61.319 66.667 0.00 0.00 0.00 3.18
2076 4102 0.106719 CCAACCACCACTGTCCACTT 60.107 55.000 0.00 0.00 0.00 3.16
2085 4114 0.533308 TCGCAACTACCAACCACCAC 60.533 55.000 0.00 0.00 0.00 4.16
2086 4115 0.398696 ATCGCAACTACCAACCACCA 59.601 50.000 0.00 0.00 0.00 4.17
2087 4116 2.389962 TATCGCAACTACCAACCACC 57.610 50.000 0.00 0.00 0.00 4.61
2103 4132 7.141363 ACTGGTAATTACACGGTCGTATTATC 58.859 38.462 17.16 0.00 0.00 1.75
2170 4274 2.892640 CATCCTTCCGGCAGTCGA 59.107 61.111 0.00 0.00 42.43 4.20
2171 4275 2.892425 GCATCCTTCCGGCAGTCG 60.892 66.667 0.00 0.00 38.88 4.18
2172 4276 0.749454 ATTGCATCCTTCCGGCAGTC 60.749 55.000 0.00 0.00 38.97 3.51
2173 4277 0.546122 TATTGCATCCTTCCGGCAGT 59.454 50.000 0.00 0.00 38.97 4.40
2174 4278 0.947244 GTATTGCATCCTTCCGGCAG 59.053 55.000 0.00 0.00 38.97 4.85
2175 4279 0.546122 AGTATTGCATCCTTCCGGCA 59.454 50.000 0.00 0.00 35.41 5.69
2176 4280 2.224305 ACTAGTATTGCATCCTTCCGGC 60.224 50.000 0.00 0.00 0.00 6.13
2177 4281 3.753294 ACTAGTATTGCATCCTTCCGG 57.247 47.619 0.00 0.00 0.00 5.14
2178 4282 5.455056 AGTACTAGTATTGCATCCTTCCG 57.545 43.478 5.75 0.00 0.00 4.30
2179 4283 6.016443 ACGTAGTACTAGTATTGCATCCTTCC 60.016 42.308 5.75 0.00 41.94 3.46
2180 4284 6.856938 CACGTAGTACTAGTATTGCATCCTTC 59.143 42.308 5.75 0.00 41.61 3.46
2181 4285 6.735145 GCACGTAGTACTAGTATTGCATCCTT 60.735 42.308 5.75 0.00 41.61 3.36
2182 4286 5.278364 GCACGTAGTACTAGTATTGCATCCT 60.278 44.000 5.75 0.00 41.61 3.24
2183 4287 4.916249 GCACGTAGTACTAGTATTGCATCC 59.084 45.833 5.75 0.00 41.61 3.51
2184 4288 5.516996 TGCACGTAGTACTAGTATTGCATC 58.483 41.667 17.47 0.00 41.61 3.91
2185 4289 5.509716 TGCACGTAGTACTAGTATTGCAT 57.490 39.130 17.47 0.00 41.61 3.96
2186 4290 4.968812 TGCACGTAGTACTAGTATTGCA 57.031 40.909 17.47 17.47 41.61 4.08
2187 4291 5.625721 CAGATGCACGTAGTACTAGTATTGC 59.374 44.000 5.75 9.88 41.61 3.56
2188 4292 5.625721 GCAGATGCACGTAGTACTAGTATTG 59.374 44.000 5.75 0.00 41.61 1.90
2189 4293 5.531659 AGCAGATGCACGTAGTACTAGTATT 59.468 40.000 5.75 4.37 41.61 1.89
2190 4294 5.064558 AGCAGATGCACGTAGTACTAGTAT 58.935 41.667 5.75 0.00 41.61 2.12
2191 4295 4.449131 AGCAGATGCACGTAGTACTAGTA 58.551 43.478 1.87 0.00 41.61 1.82
2192 4296 3.280295 AGCAGATGCACGTAGTACTAGT 58.720 45.455 1.87 0.00 41.61 2.57
2193 4297 3.312697 TGAGCAGATGCACGTAGTACTAG 59.687 47.826 1.87 0.53 41.61 2.57
2239 4375 7.727331 TTATAGTAAGTAGGTCTTCTCGCTC 57.273 40.000 0.00 0.00 37.56 5.03
2303 4440 7.742767 ACATAAGTACTTTTCAGTTGGGTAGT 58.257 34.615 14.49 0.00 34.06 2.73
2305 4442 8.842280 CAAACATAAGTACTTTTCAGTTGGGTA 58.158 33.333 14.49 0.00 34.06 3.69
2325 4462 3.738982 TCTCCATCACGACAACAAACAT 58.261 40.909 0.00 0.00 0.00 2.71
2334 4471 3.131396 ACACTTGTTTCTCCATCACGAC 58.869 45.455 0.00 0.00 0.00 4.34
2337 4474 7.041098 ACTGATTTACACTTGTTTCTCCATCAC 60.041 37.037 0.00 0.00 0.00 3.06
2365 4502 5.257262 TGACATGAATCCCGATGGTTTTAA 58.743 37.500 0.00 0.00 0.00 1.52
2384 4521 8.033038 GCCGAATTTATGTATACTCCTATGACA 58.967 37.037 4.17 0.00 0.00 3.58
2389 4526 7.577046 GCTGAGCCGAATTTATGTATACTCCTA 60.577 40.741 4.17 0.00 0.00 2.94
2391 4528 5.348997 GCTGAGCCGAATTTATGTATACTCC 59.651 44.000 4.17 0.00 0.00 3.85
2416 4553 2.937591 AGTGTGATTTCGCATGCTTTG 58.062 42.857 17.13 0.00 38.74 2.77
2417 4554 4.395854 TCATAGTGTGATTTCGCATGCTTT 59.604 37.500 17.13 0.00 38.74 3.51
2419 4556 3.534554 TCATAGTGTGATTTCGCATGCT 58.465 40.909 17.13 0.00 38.74 3.79
2420 4557 3.950087 TCATAGTGTGATTTCGCATGC 57.050 42.857 7.91 7.91 38.74 4.06
2432 4569 4.894784 AGACCGTTTCACAATCATAGTGT 58.105 39.130 0.00 0.00 38.16 3.55
2444 4581 3.069016 TGAGACTTAGCAAGACCGTTTCA 59.931 43.478 3.37 0.00 0.00 2.69
2476 4613 5.724223 GCATTGACCGAGACTTCGTTAATTC 60.724 44.000 0.00 0.00 45.28 2.17
2492 4629 4.883083 TCTCACGGATATAAGCATTGACC 58.117 43.478 0.00 0.00 0.00 4.02
2496 4633 7.896811 TGTAAGATCTCACGGATATAAGCATT 58.103 34.615 0.00 0.00 34.33 3.56
2501 4638 9.297037 TCTCAATGTAAGATCTCACGGATATAA 57.703 33.333 0.00 0.00 34.33 0.98
2509 4646 5.046529 ACGCATCTCAATGTAAGATCTCAC 58.953 41.667 0.00 0.00 35.18 3.51
2510 4647 5.045872 CACGCATCTCAATGTAAGATCTCA 58.954 41.667 0.00 0.00 35.18 3.27
2562 4699 8.581253 TCAAGTGAGATAACATACAAGAGAGA 57.419 34.615 0.00 0.00 0.00 3.10
2579 4716 7.439157 TTTAACCATGTCTCAATCAAGTGAG 57.561 36.000 1.13 1.13 45.44 3.51
2580 4717 7.884877 AGATTTAACCATGTCTCAATCAAGTGA 59.115 33.333 0.00 0.00 0.00 3.41
2591 4728 4.574674 TGGCTGAGATTTAACCATGTCT 57.425 40.909 0.00 0.00 0.00 3.41
2593 4730 4.460382 CAGTTGGCTGAGATTTAACCATGT 59.540 41.667 0.00 0.00 45.28 3.21
2619 4756 2.418083 GCAATGGGTGTGGCTAGGC 61.418 63.158 9.85 9.85 0.00 3.93
2651 4788 2.482864 CCAGTGCATGTATACATCGCA 58.517 47.619 25.77 25.77 37.73 5.10
2669 4806 1.144298 AGATTAGCCATCATGCAGCCA 59.856 47.619 0.00 0.00 33.75 4.75
2689 4828 5.539979 TCATAAGGCGCATAAATACGGTTA 58.460 37.500 10.83 0.00 0.00 2.85
2707 4846 5.456042 CCCCAACCACTAGTGCATATCATAA 60.456 44.000 17.86 0.00 0.00 1.90
2708 4847 4.041567 CCCCAACCACTAGTGCATATCATA 59.958 45.833 17.86 0.00 0.00 2.15
2709 4848 3.181440 CCCCAACCACTAGTGCATATCAT 60.181 47.826 17.86 0.00 0.00 2.45
2710 4849 2.172505 CCCCAACCACTAGTGCATATCA 59.827 50.000 17.86 0.00 0.00 2.15
2711 4850 2.851195 CCCCAACCACTAGTGCATATC 58.149 52.381 17.86 0.00 0.00 1.63
2712 4851 1.133792 GCCCCAACCACTAGTGCATAT 60.134 52.381 17.86 0.00 0.00 1.78
2713 4852 0.254747 GCCCCAACCACTAGTGCATA 59.745 55.000 17.86 0.00 0.00 3.14
2714 4853 1.000896 GCCCCAACCACTAGTGCAT 60.001 57.895 17.86 4.67 0.00 3.96
2715 4854 2.434331 GCCCCAACCACTAGTGCA 59.566 61.111 17.86 0.00 0.00 4.57
2716 4855 2.746277 CGCCCCAACCACTAGTGC 60.746 66.667 17.86 3.13 0.00 4.40
2717 4856 2.746277 GCGCCCCAACCACTAGTG 60.746 66.667 16.34 16.34 0.00 2.74
2718 4857 3.246112 TGCGCCCCAACCACTAGT 61.246 61.111 4.18 0.00 0.00 2.57
2719 4858 2.746277 GTGCGCCCCAACCACTAG 60.746 66.667 4.18 0.00 0.00 2.57
2720 4859 3.246112 AGTGCGCCCCAACCACTA 61.246 61.111 4.18 0.00 38.00 2.74
2721 4860 4.643387 GAGTGCGCCCCAACCACT 62.643 66.667 4.18 0.00 42.10 4.00
2736 4875 4.463879 CAGGAGGCGCACCAGGAG 62.464 72.222 21.48 7.61 39.06 3.69
2739 4878 3.535629 TTCACAGGAGGCGCACCAG 62.536 63.158 21.48 16.83 39.06 4.00
2740 4879 3.535629 CTTCACAGGAGGCGCACCA 62.536 63.158 21.48 1.83 39.06 4.17
2741 4880 2.731691 TTCTTCACAGGAGGCGCACC 62.732 60.000 10.83 12.61 0.00 5.01
2742 4881 1.294659 CTTCTTCACAGGAGGCGCAC 61.295 60.000 10.83 1.82 0.00 5.34
2743 4882 1.004560 CTTCTTCACAGGAGGCGCA 60.005 57.895 10.83 0.00 0.00 6.09
2744 4883 0.603975 AACTTCTTCACAGGAGGCGC 60.604 55.000 0.00 0.00 27.92 6.53
2745 4884 1.151668 CAACTTCTTCACAGGAGGCG 58.848 55.000 0.00 0.00 27.92 5.52
2746 4885 1.528129 CCAACTTCTTCACAGGAGGC 58.472 55.000 0.00 0.00 27.92 4.70
2747 4886 1.271597 CCCCAACTTCTTCACAGGAGG 60.272 57.143 0.00 0.00 27.92 4.30
2748 4887 1.884067 GCCCCAACTTCTTCACAGGAG 60.884 57.143 0.00 0.00 0.00 3.69
2749 4888 0.110486 GCCCCAACTTCTTCACAGGA 59.890 55.000 0.00 0.00 0.00 3.86
2750 4889 1.237285 CGCCCCAACTTCTTCACAGG 61.237 60.000 0.00 0.00 0.00 4.00
2751 4890 1.237285 CCGCCCCAACTTCTTCACAG 61.237 60.000 0.00 0.00 0.00 3.66
2752 4891 1.228124 CCGCCCCAACTTCTTCACA 60.228 57.895 0.00 0.00 0.00 3.58
2753 4892 1.228154 ACCGCCCCAACTTCTTCAC 60.228 57.895 0.00 0.00 0.00 3.18
2754 4893 1.228124 CACCGCCCCAACTTCTTCA 60.228 57.895 0.00 0.00 0.00 3.02
2755 4894 2.626780 GCACCGCCCCAACTTCTTC 61.627 63.158 0.00 0.00 0.00 2.87
2756 4895 2.597510 GCACCGCCCCAACTTCTT 60.598 61.111 0.00 0.00 0.00 2.52
2757 4896 4.660938 GGCACCGCCCCAACTTCT 62.661 66.667 0.00 0.00 44.06 2.85
2767 4906 2.359850 TTCATCACCTGGCACCGC 60.360 61.111 0.00 0.00 0.00 5.68
2768 4907 2.401766 GCTTCATCACCTGGCACCG 61.402 63.158 0.00 0.00 0.00 4.94
2769 4908 0.253044 TAGCTTCATCACCTGGCACC 59.747 55.000 0.00 0.00 0.00 5.01
2770 4909 1.945394 CATAGCTTCATCACCTGGCAC 59.055 52.381 0.00 0.00 0.00 5.01
2771 4910 1.561076 ACATAGCTTCATCACCTGGCA 59.439 47.619 0.00 0.00 0.00 4.92
2772 4911 2.338577 ACATAGCTTCATCACCTGGC 57.661 50.000 0.00 0.00 0.00 4.85
2773 4912 3.389329 AGGTACATAGCTTCATCACCTGG 59.611 47.826 0.00 0.00 33.73 4.45
2774 4913 4.679373 AGGTACATAGCTTCATCACCTG 57.321 45.455 0.00 0.00 33.73 4.00
2775 4914 4.835615 CCTAGGTACATAGCTTCATCACCT 59.164 45.833 9.07 1.47 38.44 4.00
2836 4975 6.070481 GGAAGGTGGTTTCTTCTAGAGATCTT 60.070 42.308 0.00 0.00 40.17 2.40
2930 5069 4.159506 GCAGAGTGACTTTAGATCTCCTGT 59.840 45.833 0.00 0.00 0.00 4.00
3016 5155 3.131577 ACATTAAGATCGGGCGTTACTGA 59.868 43.478 0.00 0.00 0.00 3.41
3048 5187 2.121645 CGGCCCTCGGTTATGTAGT 58.878 57.895 0.00 0.00 34.75 2.73
3105 5246 1.601166 GGTGCGAACCCTTTACACTT 58.399 50.000 0.00 0.00 0.00 3.16
3208 5349 2.693267 AGGCAAGGGATTTACGAGTC 57.307 50.000 0.00 0.00 0.00 3.36
3234 5375 4.528596 GGCAAGATCCTAGCTATGGAGTAA 59.471 45.833 14.62 0.00 36.99 2.24


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

AutoCloner maintained by Alex Coulton.