Multiple sequence alignment - TraesCS4B01G091400

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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 TraesCS4B01G091400 chr4B 100.000 7261 0 0 1 7261 94214541 94207281 0.000000e+00 13409.0
1 TraesCS4B01G091400 chr4B 75.200 625 122 27 2970 3576 489089049 489088440 1.550000e-66 265.0
2 TraesCS4B01G091400 chr4B 78.317 309 57 10 5843 6146 489088135 489087832 2.670000e-44 191.0
3 TraesCS4B01G091400 chr4A 93.178 4119 180 51 98 4168 532791158 532795223 0.000000e+00 5956.0
4 TraesCS4B01G091400 chr4A 91.550 2580 118 46 4722 7234 532795719 532798265 0.000000e+00 3465.0
5 TraesCS4B01G091400 chr4A 85.596 361 13 11 4286 4622 532795342 532795687 6.980000e-90 342.0
6 TraesCS4B01G091400 chr4A 76.090 619 119 25 2974 3576 54108094 54107489 5.510000e-76 296.0
7 TraesCS4B01G091400 chr4D 95.229 3773 128 17 273 4024 63590976 63587235 0.000000e+00 5923.0
8 TraesCS4B01G091400 chr4D 91.006 3269 172 53 4066 7261 63587235 63584016 0.000000e+00 4296.0
9 TraesCS4B01G091400 chr4D 76.252 619 118 25 2974 3576 397095220 397094615 1.180000e-77 302.0
10 TraesCS4B01G091400 chr4D 79.016 305 52 9 5843 6141 397094311 397094013 1.600000e-46 198.0
11 TraesCS4B01G091400 chr1B 95.460 2577 102 7 1101 3674 222207250 222209814 0.000000e+00 4096.0
12 TraesCS4B01G091400 chr1B 72.119 2152 457 116 1612 3675 687280316 687278220 1.080000e-142 518.0
13 TraesCS4B01G091400 chr1B 85.492 193 14 7 3764 3952 222209845 222210027 9.620000e-44 189.0
14 TraesCS4B01G091400 chr1B 87.255 102 9 4 5840 5939 687276777 687276678 5.950000e-21 113.0
15 TraesCS4B01G091400 chrUn 97.396 384 10 0 2117 2500 480914301 480914684 0.000000e+00 654.0
16 TraesCS4B01G091400 chr1D 72.263 2156 439 115 1612 3674 494013599 494011510 8.350000e-144 521.0
17 TraesCS4B01G091400 chr1D 87.255 102 9 4 5840 5939 494010418 494010319 5.950000e-21 113.0
18 TraesCS4B01G091400 chr7B 77.612 469 63 27 3211 3669 713041710 713042146 5.630000e-61 246.0
19 TraesCS4B01G091400 chr7A 77.186 469 63 28 3211 3668 712180027 712180462 4.380000e-57 233.0
20 TraesCS4B01G091400 chr7A 83.942 137 22 0 5838 5974 712180951 712181087 1.640000e-26 132.0
21 TraesCS4B01G091400 chr7D 83.088 136 23 0 5839 5974 618489476 618489611 2.750000e-24 124.0
22 TraesCS4B01G091400 chr1A 87.255 102 9 4 5840 5939 592529384 592529285 5.950000e-21 113.0
23 TraesCS4B01G091400 chr5A 100.000 28 0 0 4937 4964 575325477 575325504 1.300000e-02 52.8


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 TraesCS4B01G091400 chr4B 94207281 94214541 7260 True 13409.000000 13409 100.0000 1 7261 1 chr4B.!!$R1 7260
1 TraesCS4B01G091400 chr4B 489087832 489089049 1217 True 228.000000 265 76.7585 2970 6146 2 chr4B.!!$R2 3176
2 TraesCS4B01G091400 chr4A 532791158 532798265 7107 False 3254.333333 5956 90.1080 98 7234 3 chr4A.!!$F1 7136
3 TraesCS4B01G091400 chr4A 54107489 54108094 605 True 296.000000 296 76.0900 2974 3576 1 chr4A.!!$R1 602
4 TraesCS4B01G091400 chr4D 63584016 63590976 6960 True 5109.500000 5923 93.1175 273 7261 2 chr4D.!!$R1 6988
5 TraesCS4B01G091400 chr4D 397094013 397095220 1207 True 250.000000 302 77.6340 2974 6141 2 chr4D.!!$R2 3167
6 TraesCS4B01G091400 chr1B 222207250 222210027 2777 False 2142.500000 4096 90.4760 1101 3952 2 chr1B.!!$F1 2851
7 TraesCS4B01G091400 chr1B 687276678 687280316 3638 True 315.500000 518 79.6870 1612 5939 2 chr1B.!!$R1 4327
8 TraesCS4B01G091400 chr1D 494010319 494013599 3280 True 317.000000 521 79.7590 1612 5939 2 chr1D.!!$R1 4327

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
22 23 0.471591 TATGATGGGGCCCATTTGCC 60.472 55.000 37.54 24.94 45.26 4.52 F
668 689 0.689623 AGAGACACCCAAAGCAGAGG 59.310 55.000 0.00 0.00 0.00 3.69 F
1623 1650 0.250553 CCCTCAACGGCAACAACCTA 60.251 55.000 0.00 0.00 0.00 3.08 F
2290 2317 1.303236 CTCAACGGCACCATTCCCA 60.303 57.895 0.00 0.00 0.00 4.37 F
4177 4360 0.031414 ATCCTTAGTAGGGGGTGCGT 60.031 55.000 0.00 0.00 42.26 5.24 F
4182 4365 0.106819 TAGTAGGGGGTGCGTCTCTC 60.107 60.000 0.00 0.00 0.00 3.20 F
4349 4563 0.468226 GTACAAGGCCATCCGATCCA 59.532 55.000 5.01 0.00 37.47 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1539 1566 0.254747 CCCCGGAGAAGTAATTGCCA 59.745 55.000 0.73 0.00 0.00 4.92 R
2172 2199 1.078214 CATGAGGATGGCGGTGTGT 60.078 57.895 0.00 0.00 0.00 3.72 R
2748 2778 2.186384 GTGAGGCTGCTCATCGCT 59.814 61.111 0.00 0.00 40.11 4.93 R
4234 4417 0.179000 CCCTCTCGTCTCCCCATTTG 59.821 60.000 0.00 0.00 0.00 2.32 R
5338 5648 0.625849 GCCAGGATCAAGAAGGGGAA 59.374 55.000 0.00 0.00 0.00 3.97 R
5836 6931 1.068125 TGTACGCGTACTCTGCAACAT 60.068 47.619 39.69 6.61 37.00 2.71 R
6301 7550 1.207791 AATTCGGCCCAGAGTCTGAT 58.792 50.000 22.09 2.78 32.44 2.90 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 3.967332 GAATATGATGGGGCCCATTTG 57.033 47.619 37.54 0.00 45.26 2.32
21 22 1.648116 ATATGATGGGGCCCATTTGC 58.352 50.000 37.54 25.30 45.26 3.68
22 23 0.471591 TATGATGGGGCCCATTTGCC 60.472 55.000 37.54 24.94 45.26 4.52
33 34 4.510038 GCCCATTTGCCATTGTCTATAG 57.490 45.455 0.00 0.00 0.00 1.31
34 35 4.144297 GCCCATTTGCCATTGTCTATAGA 58.856 43.478 0.00 0.00 0.00 1.98
35 36 4.584325 GCCCATTTGCCATTGTCTATAGAA 59.416 41.667 3.40 0.00 0.00 2.10
36 37 5.068987 GCCCATTTGCCATTGTCTATAGAAA 59.931 40.000 3.40 0.00 0.00 2.52
37 38 6.239402 GCCCATTTGCCATTGTCTATAGAAAT 60.239 38.462 3.40 4.45 0.00 2.17
38 39 7.687592 GCCCATTTGCCATTGTCTATAGAAATT 60.688 37.037 3.40 0.00 0.00 1.82
39 40 8.859090 CCCATTTGCCATTGTCTATAGAAATTA 58.141 33.333 3.40 0.00 0.00 1.40
66 67 9.487790 TTGAATCAAAATGGTTTAGATTTCACC 57.512 29.630 0.00 0.00 30.94 4.02
67 68 8.093927 TGAATCAAAATGGTTTAGATTTCACCC 58.906 33.333 0.00 0.00 30.94 4.61
68 69 7.797121 ATCAAAATGGTTTAGATTTCACCCT 57.203 32.000 0.00 0.00 0.00 4.34
69 70 7.227049 TCAAAATGGTTTAGATTTCACCCTC 57.773 36.000 0.00 0.00 0.00 4.30
70 71 6.780031 TCAAAATGGTTTAGATTTCACCCTCA 59.220 34.615 0.00 0.00 0.00 3.86
71 72 7.454380 TCAAAATGGTTTAGATTTCACCCTCAT 59.546 33.333 0.00 0.00 0.00 2.90
72 73 8.748412 CAAAATGGTTTAGATTTCACCCTCATA 58.252 33.333 0.00 0.00 0.00 2.15
73 74 8.893563 AAATGGTTTAGATTTCACCCTCATAA 57.106 30.769 0.00 0.00 0.00 1.90
74 75 9.492730 AAATGGTTTAGATTTCACCCTCATAAT 57.507 29.630 0.00 0.00 0.00 1.28
76 77 8.974060 TGGTTTAGATTTCACCCTCATAATAC 57.026 34.615 0.00 0.00 0.00 1.89
77 78 7.996644 TGGTTTAGATTTCACCCTCATAATACC 59.003 37.037 0.00 0.00 0.00 2.73
78 79 8.218488 GGTTTAGATTTCACCCTCATAATACCT 58.782 37.037 0.00 0.00 0.00 3.08
81 82 9.892444 TTAGATTTCACCCTCATAATACCTAGA 57.108 33.333 0.00 0.00 0.00 2.43
82 83 8.980832 AGATTTCACCCTCATAATACCTAGAT 57.019 34.615 0.00 0.00 0.00 1.98
83 84 9.398921 AGATTTCACCCTCATAATACCTAGATT 57.601 33.333 0.00 0.00 0.00 2.40
85 86 9.799106 ATTTCACCCTCATAATACCTAGATTTG 57.201 33.333 0.00 0.00 0.00 2.32
86 87 7.931015 TCACCCTCATAATACCTAGATTTGT 57.069 36.000 0.00 0.00 0.00 2.83
87 88 8.331931 TCACCCTCATAATACCTAGATTTGTT 57.668 34.615 0.00 0.00 0.00 2.83
88 89 8.778059 TCACCCTCATAATACCTAGATTTGTTT 58.222 33.333 0.00 0.00 0.00 2.83
89 90 9.408648 CACCCTCATAATACCTAGATTTGTTTT 57.591 33.333 0.00 0.00 0.00 2.43
90 91 9.990868 ACCCTCATAATACCTAGATTTGTTTTT 57.009 29.630 0.00 0.00 0.00 1.94
92 93 9.736023 CCTCATAATACCTAGATTTGTTTTTGC 57.264 33.333 0.00 0.00 0.00 3.68
93 94 9.438291 CTCATAATACCTAGATTTGTTTTTGCG 57.562 33.333 0.00 0.00 0.00 4.85
94 95 9.168451 TCATAATACCTAGATTTGTTTTTGCGA 57.832 29.630 0.00 0.00 0.00 5.10
95 96 9.438291 CATAATACCTAGATTTGTTTTTGCGAG 57.562 33.333 0.00 0.00 0.00 5.03
96 97 4.766404 ACCTAGATTTGTTTTTGCGAGG 57.234 40.909 0.00 0.00 0.00 4.63
131 132 4.094830 ACCTAGGGTTTTGTAGGTGTTG 57.905 45.455 14.81 0.00 46.10 3.33
146 147 5.367945 AGGTGTTGAACTTTAAGAGTGGA 57.632 39.130 0.00 0.00 39.00 4.02
164 165 4.972568 AGTGGATTTTGGGGGTTAAGTTTT 59.027 37.500 0.00 0.00 0.00 2.43
171 172 2.370189 TGGGGGTTAAGTTTTGGCAATG 59.630 45.455 0.00 0.00 0.00 2.82
187 188 4.022935 TGGCAATGAGTTAAGAGTTGCTTG 60.023 41.667 8.10 0.00 43.36 4.01
201 202 2.682352 GTTGCTTGCCAAAAACCACATT 59.318 40.909 0.00 0.00 34.68 2.71
203 204 2.287769 GCTTGCCAAAAACCACATTGT 58.712 42.857 0.00 0.00 0.00 2.71
283 288 1.263356 CTCCTTGTACTCCGGAACCA 58.737 55.000 5.23 0.00 0.00 3.67
285 290 1.345415 TCCTTGTACTCCGGAACCAAC 59.655 52.381 5.23 1.73 0.00 3.77
312 317 5.833406 TGGCACAAATACACATATTGGAG 57.167 39.130 0.00 0.00 31.92 3.86
317 322 6.677920 GCACAAATACACATATTGGAGACACC 60.678 42.308 0.00 0.00 42.67 4.16
351 356 2.011947 TGCTCTCTTTCATCATTGCCG 58.988 47.619 0.00 0.00 0.00 5.69
368 373 1.094785 CCGAAATTCAATCACGGGCT 58.905 50.000 7.16 0.00 39.92 5.19
422 427 3.545124 TTTCTGTCGGGCGCCATGT 62.545 57.895 30.85 0.00 0.00 3.21
594 608 6.031833 CGAAAGATAAAGCAAAAAGAGAAGCG 59.968 38.462 0.00 0.00 0.00 4.68
601 615 3.006323 AGCAAAAAGAGAAGCGAGAGAGA 59.994 43.478 0.00 0.00 0.00 3.10
668 689 0.689623 AGAGACACCCAAAGCAGAGG 59.310 55.000 0.00 0.00 0.00 3.69
730 751 4.022503 AGCTCAAAAGACAAAGCCATTCTC 60.023 41.667 0.00 0.00 35.32 2.87
903 930 1.827681 TCCGTCTCTCCAAGTCTCTG 58.172 55.000 0.00 0.00 0.00 3.35
913 940 2.563179 TCCAAGTCTCTGTAAGCTCACC 59.437 50.000 0.00 0.00 0.00 4.02
1043 1070 3.128415 GCCTTGCTCTCCTTCTTGATTTC 59.872 47.826 0.00 0.00 0.00 2.17
1053 1080 7.835822 TCTCCTTCTTGATTTCTCTTCTACTG 58.164 38.462 0.00 0.00 0.00 2.74
1539 1566 1.831736 CTCCGATACCTTGACCTTGGT 59.168 52.381 0.00 0.00 40.12 3.67
1587 1614 3.454573 TCGTACGGCGGGATGCTT 61.455 61.111 16.52 0.00 45.43 3.91
1623 1650 0.250553 CCCTCAACGGCAACAACCTA 60.251 55.000 0.00 0.00 0.00 3.08
1782 1809 3.161450 GGCCTCACCGGGAGCATA 61.161 66.667 6.32 0.00 42.62 3.14
2013 2040 2.504244 GTCCCTGACTTCGTCGCG 60.504 66.667 0.00 0.00 34.95 5.87
2037 2064 3.826754 CCGCTGCTGGAGACGCTA 61.827 66.667 0.00 0.00 0.00 4.26
2290 2317 1.303236 CTCAACGGCACCATTCCCA 60.303 57.895 0.00 0.00 0.00 4.37
2466 2493 4.120331 GCCGCGCTTGCCAATCTT 62.120 61.111 5.56 0.00 34.11 2.40
2704 2734 2.644798 AGGGTGCTGAATTACCTCAACT 59.355 45.455 0.00 0.00 37.15 3.16
2808 2838 3.699894 CTGTCCGGTCAGCTGCCT 61.700 66.667 15.77 0.00 0.00 4.75
2844 2874 0.038892 GGTACTTGAACGAGACGGCA 60.039 55.000 0.00 0.00 0.00 5.69
3304 3411 2.742372 GGAACATCGTGCGGCTGT 60.742 61.111 0.00 0.00 0.00 4.40
3532 3648 1.982395 AACATCCTCCTCGGCGACA 60.982 57.895 4.99 0.00 0.00 4.35
3576 3692 2.677875 GGGCTGGCCAAGTTCCTG 60.678 66.667 16.34 0.00 37.98 3.86
3677 3793 4.860261 GCCAGGTACGTACGCCCG 62.860 72.222 16.72 11.35 0.00 6.13
3706 3823 2.624364 ACACTGATTGCAGCATTTCACA 59.376 40.909 0.00 0.00 46.26 3.58
3741 3863 6.095440 ACATGTGCTTGTTTTTGTCTCTAGTT 59.905 34.615 0.00 0.00 0.00 2.24
3835 3961 1.568612 CTTGTCGCCATCTTGCACGT 61.569 55.000 0.00 0.00 0.00 4.49
3836 3962 1.163420 TTGTCGCCATCTTGCACGTT 61.163 50.000 0.00 0.00 0.00 3.99
3837 3963 1.154413 GTCGCCATCTTGCACGTTG 60.154 57.895 0.00 0.00 0.00 4.10
3838 3964 2.176546 CGCCATCTTGCACGTTGG 59.823 61.111 14.40 14.40 0.00 3.77
3839 3965 2.568090 GCCATCTTGCACGTTGGG 59.432 61.111 18.86 7.56 0.00 4.12
3840 3966 2.568090 CCATCTTGCACGTTGGGC 59.432 61.111 11.55 0.00 0.00 5.36
3841 3967 2.267351 CCATCTTGCACGTTGGGCA 61.267 57.895 11.55 0.00 40.00 5.36
3842 3968 1.597797 CCATCTTGCACGTTGGGCAT 61.598 55.000 11.55 0.00 41.58 4.40
3843 3969 0.457166 CATCTTGCACGTTGGGCATG 60.457 55.000 0.00 3.21 41.58 4.06
3844 3970 1.597797 ATCTTGCACGTTGGGCATGG 61.598 55.000 10.89 3.89 41.58 3.66
3866 4002 3.615811 TGGCCCCTCTCTCTGGGT 61.616 66.667 0.00 0.00 44.20 4.51
3910 4046 6.696441 AGTCAATAGCCAGTAGTACTACAC 57.304 41.667 29.87 19.94 38.48 2.90
3912 4048 5.359009 GTCAATAGCCAGTAGTACTACACCA 59.641 44.000 29.87 12.16 38.48 4.17
3920 4060 5.942236 CCAGTAGTACTACACCAGACAAGTA 59.058 44.000 29.87 0.00 38.48 2.24
3927 4067 1.270147 ACACCAGACAAGTAAGCGTCC 60.270 52.381 0.00 0.00 32.33 4.79
3979 4120 2.346803 GTACGATTGACCACATGCACT 58.653 47.619 0.00 0.00 0.00 4.40
3985 4126 2.103537 TGACCACATGCACTCAGATG 57.896 50.000 0.00 0.00 0.00 2.90
4085 4248 4.903054 AGCTCACTGTTTCAGATCAATCA 58.097 39.130 3.70 0.00 35.18 2.57
4086 4249 5.311265 AGCTCACTGTTTCAGATCAATCAA 58.689 37.500 3.70 0.00 35.18 2.57
4105 4272 1.026584 AACGGAAACTTTTGGTCCCG 58.973 50.000 0.00 0.00 0.00 5.14
4134 4301 6.452611 CGTTTACACTTCGAGATTAAGCTGTC 60.453 42.308 0.00 0.00 0.00 3.51
4174 4357 4.855298 TTCAAATCCTTAGTAGGGGGTG 57.145 45.455 0.00 0.00 42.26 4.61
4176 4359 1.129058 AATCCTTAGTAGGGGGTGCG 58.871 55.000 0.00 0.00 42.26 5.34
4177 4360 0.031414 ATCCTTAGTAGGGGGTGCGT 60.031 55.000 0.00 0.00 42.26 5.24
4182 4365 0.106819 TAGTAGGGGGTGCGTCTCTC 60.107 60.000 0.00 0.00 0.00 3.20
4190 4373 1.734465 GGGTGCGTCTCTCTTTTCATG 59.266 52.381 0.00 0.00 0.00 3.07
4192 4375 2.413453 GGTGCGTCTCTCTTTTCATGTC 59.587 50.000 0.00 0.00 0.00 3.06
4193 4376 2.091277 GTGCGTCTCTCTTTTCATGTCG 59.909 50.000 0.00 0.00 0.00 4.35
4194 4377 2.030274 TGCGTCTCTCTTTTCATGTCGA 60.030 45.455 0.00 0.00 0.00 4.20
4225 4408 1.072331 TCAGGAGGAGAAACAAGGTGC 59.928 52.381 0.00 0.00 0.00 5.01
4226 4409 1.140312 AGGAGGAGAAACAAGGTGCA 58.860 50.000 0.00 0.00 0.00 4.57
4229 4412 3.330701 AGGAGGAGAAACAAGGTGCATAA 59.669 43.478 0.00 0.00 0.00 1.90
4234 4417 6.691508 AGGAGAAACAAGGTGCATAATTTTC 58.308 36.000 0.00 0.00 0.00 2.29
4266 4449 2.446036 GAGGGTATGGCCGAGGGT 60.446 66.667 0.00 0.00 38.44 4.34
4349 4563 0.468226 GTACAAGGCCATCCGATCCA 59.532 55.000 5.01 0.00 37.47 3.41
4371 4585 5.240891 CAGTCTGACTTTACACCACATCAT 58.759 41.667 7.77 0.00 0.00 2.45
4630 4867 3.598327 CAGTGCATGCATGAGCCA 58.402 55.556 30.64 15.69 41.13 4.75
4950 5242 2.359975 GGTACCAGCACCAGCACC 60.360 66.667 7.15 0.00 45.49 5.01
4951 5243 2.429930 GTACCAGCACCAGCACCA 59.570 61.111 0.00 0.00 45.49 4.17
4952 5244 1.672356 GTACCAGCACCAGCACCAG 60.672 63.158 0.00 0.00 45.49 4.00
4953 5245 3.551496 TACCAGCACCAGCACCAGC 62.551 63.158 0.00 0.00 45.49 4.85
4954 5246 4.960866 CCAGCACCAGCACCAGCA 62.961 66.667 0.00 0.00 45.49 4.41
4955 5247 3.667282 CAGCACCAGCACCAGCAC 61.667 66.667 0.00 0.00 45.49 4.40
4956 5248 4.962836 AGCACCAGCACCAGCACC 62.963 66.667 0.00 0.00 45.49 5.01
5073 5371 2.851071 GCCTCGTCATCCTCCTCCG 61.851 68.421 0.00 0.00 0.00 4.63
5147 5449 3.365265 AAAGCCAAAGCCGGAGCG 61.365 61.111 5.05 0.00 46.67 5.03
5237 5539 7.320443 ACGGTCACGAAGTTTGTAGTATATA 57.680 36.000 0.00 0.00 41.61 0.86
5239 5541 9.056005 ACGGTCACGAAGTTTGTAGTATATATA 57.944 33.333 0.00 0.00 41.61 0.86
5240 5542 9.322776 CGGTCACGAAGTTTGTAGTATATATAC 57.677 37.037 14.05 14.05 41.61 1.47
5261 5563 5.428184 ACAAGTTTTCCCCTCTCTCTATG 57.572 43.478 0.00 0.00 0.00 2.23
5263 5565 5.181748 CAAGTTTTCCCCTCTCTCTATGTG 58.818 45.833 0.00 0.00 0.00 3.21
5287 5597 1.269723 CCTTTTTGCTCTTCCGGGTTC 59.730 52.381 0.00 0.00 0.00 3.62
5305 5615 2.755103 GTTCGGGATTTGGCAAGATCTT 59.245 45.455 0.88 0.88 0.00 2.40
5338 5648 3.266772 TGGGCTGGATTAACTGACAGAAT 59.733 43.478 10.08 0.00 32.86 2.40
5342 5652 4.336713 GCTGGATTAACTGACAGAATTCCC 59.663 45.833 10.08 5.36 32.86 3.97
5354 5664 3.854994 ACAGAATTCCCCTTCTTGATCCT 59.145 43.478 0.65 0.00 33.18 3.24
5575 6222 2.363683 GCTCACTTTTCCTAGCATGCT 58.636 47.619 25.99 25.99 35.05 3.79
5651 6299 4.737765 CGCTTAGTTTGAGATCAGACTAGC 59.262 45.833 11.64 14.38 42.20 3.42
5706 6433 3.432378 TGAGAACACTCCTCCTAGGTTC 58.568 50.000 9.08 3.26 36.53 3.62
5716 6443 2.426381 CCTCCTAGGTTCACGTTCCTAC 59.574 54.545 9.08 0.00 35.51 3.18
5721 6453 4.463891 CCTAGGTTCACGTTCCTACCTTTA 59.536 45.833 11.52 0.00 41.16 1.85
5722 6454 4.263018 AGGTTCACGTTCCTACCTTTAC 57.737 45.455 2.37 0.00 37.75 2.01
5740 6475 6.212589 ACCTTTACCCTTTACCCATTGATTTG 59.787 38.462 0.00 0.00 0.00 2.32
5799 6893 5.236282 TGGTTGAAATGTTGCCATTATGTG 58.764 37.500 0.00 0.00 40.42 3.21
5802 6896 6.594937 GGTTGAAATGTTGCCATTATGTGATT 59.405 34.615 0.00 0.00 40.42 2.57
5829 6924 1.334556 GGCATGCTAATTGTGATCGCA 59.665 47.619 18.92 4.45 34.83 5.10
5830 6925 2.030540 GGCATGCTAATTGTGATCGCAT 60.031 45.455 18.92 2.91 41.56 4.73
5831 6926 3.551454 GGCATGCTAATTGTGATCGCATT 60.551 43.478 18.92 3.61 39.10 3.56
5832 6927 4.046462 GCATGCTAATTGTGATCGCATTT 58.954 39.130 11.37 17.65 39.10 2.32
5833 6928 4.505191 GCATGCTAATTGTGATCGCATTTT 59.495 37.500 18.48 13.65 39.10 1.82
5834 6929 5.005971 GCATGCTAATTGTGATCGCATTTTT 59.994 36.000 18.48 11.60 39.10 1.94
5894 7143 0.314302 AGAGCGACGTGTACAGCTTT 59.686 50.000 8.56 0.98 40.39 3.51
5957 7206 2.353610 GGACTTCGGCGAAGGGGTA 61.354 63.158 41.87 14.98 43.25 3.69
6089 7338 2.029288 CGTGTCCATGCTCTGCGTT 61.029 57.895 0.00 0.00 0.00 4.84
6260 7509 0.970937 TCCCGGACCTGCTGAACTAG 60.971 60.000 0.73 0.00 0.00 2.57
6265 7514 3.475932 ACCTGCTGAACTAGGTCCA 57.524 52.632 5.05 0.00 43.69 4.02
6310 7562 2.820197 TGACGTTGCTACATCAGACTCT 59.180 45.455 0.00 0.00 0.00 3.24
6376 7632 2.753452 TCTTGGGTAGATCGACAGTGAC 59.247 50.000 8.30 0.00 0.00 3.67
6514 7781 3.494573 GCTACTACCATCTAGGGGTTTGC 60.495 52.174 11.52 5.08 43.89 3.68
6782 8060 7.173390 GGAAAATAGTAGCTTGACAGTCTTTGT 59.827 37.037 1.31 0.00 44.55 2.83
6791 8069 7.547227 AGCTTGACAGTCTTTGTAAACATTTT 58.453 30.769 1.31 0.00 41.05 1.82
6813 8091 6.849085 TTGATTCCCAAAGCTTAAAGCATA 57.151 33.333 0.00 0.00 45.56 3.14
6902 8180 7.124052 AGAATTTTCAAGATCATCATGGGTCT 58.876 34.615 0.00 0.00 0.00 3.85
7050 8328 3.193267 TCCAGATGTTAGCCAATTGTTGC 59.807 43.478 4.43 1.42 0.00 4.17
7061 8339 2.070783 CAATTGTTGCAGCACCAATCC 58.929 47.619 17.67 0.00 0.00 3.01
7176 8454 2.938838 AGTAGCAGTAGCAGTAGGAGG 58.061 52.381 0.00 0.00 45.49 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.027837 GCAAATGGGCCCCATCATATTC 60.028 50.000 22.27 0.00 44.40 1.75
1 2 1.980036 GCAAATGGGCCCCATCATATT 59.020 47.619 22.27 8.30 44.40 1.28
2 3 1.648116 GCAAATGGGCCCCATCATAT 58.352 50.000 22.27 0.58 44.40 1.78
3 4 3.146218 GCAAATGGGCCCCATCATA 57.854 52.632 22.27 0.00 44.40 2.15
4 5 3.975025 GCAAATGGGCCCCATCAT 58.025 55.556 22.27 5.35 44.40 2.45
12 13 4.144297 TCTATAGACAATGGCAAATGGGC 58.856 43.478 0.00 1.04 43.73 5.36
13 14 6.713762 TTTCTATAGACAATGGCAAATGGG 57.286 37.500 0.67 0.00 0.00 4.00
40 41 9.487790 GGTGAAATCTAAACCATTTTGATTCAA 57.512 29.630 10.11 0.00 37.67 2.69
41 42 8.093927 GGGTGAAATCTAAACCATTTTGATTCA 58.906 33.333 10.11 8.09 37.67 2.57
42 43 8.314021 AGGGTGAAATCTAAACCATTTTGATTC 58.686 33.333 10.11 6.35 37.67 2.52
43 44 8.206126 AGGGTGAAATCTAAACCATTTTGATT 57.794 30.769 5.51 5.51 37.67 2.57
44 45 7.454380 TGAGGGTGAAATCTAAACCATTTTGAT 59.546 33.333 0.00 0.00 36.84 2.57
45 46 6.780031 TGAGGGTGAAATCTAAACCATTTTGA 59.220 34.615 0.00 0.00 35.56 2.69
46 47 6.991938 TGAGGGTGAAATCTAAACCATTTTG 58.008 36.000 0.00 0.00 35.56 2.44
47 48 7.797121 ATGAGGGTGAAATCTAAACCATTTT 57.203 32.000 0.00 0.00 35.56 1.82
48 49 8.893563 TTATGAGGGTGAAATCTAAACCATTT 57.106 30.769 0.00 0.00 35.56 2.32
50 51 9.574516 GTATTATGAGGGTGAAATCTAAACCAT 57.425 33.333 0.00 0.00 35.56 3.55
51 52 7.996644 GGTATTATGAGGGTGAAATCTAAACCA 59.003 37.037 0.00 0.00 35.56 3.67
52 53 8.218488 AGGTATTATGAGGGTGAAATCTAAACC 58.782 37.037 0.00 0.00 0.00 3.27
55 56 9.892444 TCTAGGTATTATGAGGGTGAAATCTAA 57.108 33.333 0.00 0.00 0.00 2.10
57 58 8.980832 ATCTAGGTATTATGAGGGTGAAATCT 57.019 34.615 0.00 0.00 0.00 2.40
59 60 9.799106 CAAATCTAGGTATTATGAGGGTGAAAT 57.201 33.333 0.00 0.00 0.00 2.17
60 61 8.778059 ACAAATCTAGGTATTATGAGGGTGAAA 58.222 33.333 0.00 0.00 0.00 2.69
61 62 8.331931 ACAAATCTAGGTATTATGAGGGTGAA 57.668 34.615 0.00 0.00 0.00 3.18
62 63 7.931015 ACAAATCTAGGTATTATGAGGGTGA 57.069 36.000 0.00 0.00 0.00 4.02
63 64 8.980481 AAACAAATCTAGGTATTATGAGGGTG 57.020 34.615 0.00 0.00 0.00 4.61
64 65 9.990868 AAAAACAAATCTAGGTATTATGAGGGT 57.009 29.630 0.00 0.00 0.00 4.34
66 67 9.736023 GCAAAAACAAATCTAGGTATTATGAGG 57.264 33.333 0.00 0.00 0.00 3.86
67 68 9.438291 CGCAAAAACAAATCTAGGTATTATGAG 57.562 33.333 0.00 0.00 0.00 2.90
68 69 9.168451 TCGCAAAAACAAATCTAGGTATTATGA 57.832 29.630 0.00 0.00 0.00 2.15
69 70 9.438291 CTCGCAAAAACAAATCTAGGTATTATG 57.562 33.333 0.00 0.00 0.00 1.90
70 71 8.621286 CCTCGCAAAAACAAATCTAGGTATTAT 58.379 33.333 0.00 0.00 0.00 1.28
71 72 7.608761 ACCTCGCAAAAACAAATCTAGGTATTA 59.391 33.333 0.00 0.00 33.17 0.98
72 73 6.433093 ACCTCGCAAAAACAAATCTAGGTATT 59.567 34.615 0.00 0.00 33.17 1.89
73 74 5.944007 ACCTCGCAAAAACAAATCTAGGTAT 59.056 36.000 0.00 0.00 33.17 2.73
74 75 5.310451 ACCTCGCAAAAACAAATCTAGGTA 58.690 37.500 0.00 0.00 33.17 3.08
75 76 4.142038 ACCTCGCAAAAACAAATCTAGGT 58.858 39.130 0.00 0.00 0.00 3.08
76 77 4.215399 TGACCTCGCAAAAACAAATCTAGG 59.785 41.667 0.00 0.00 0.00 3.02
77 78 5.147162 GTGACCTCGCAAAAACAAATCTAG 58.853 41.667 0.00 0.00 0.00 2.43
78 79 4.023536 GGTGACCTCGCAAAAACAAATCTA 60.024 41.667 0.00 0.00 0.00 1.98
79 80 3.243401 GGTGACCTCGCAAAAACAAATCT 60.243 43.478 0.00 0.00 0.00 2.40
80 81 3.049912 GGTGACCTCGCAAAAACAAATC 58.950 45.455 0.00 0.00 0.00 2.17
81 82 3.092334 GGTGACCTCGCAAAAACAAAT 57.908 42.857 0.00 0.00 0.00 2.32
82 83 2.570442 GGTGACCTCGCAAAAACAAA 57.430 45.000 0.00 0.00 0.00 2.83
110 111 3.717913 TCAACACCTACAAAACCCTAGGT 59.282 43.478 8.29 0.00 43.08 3.08
131 132 5.047306 CCCCCAAAATCCACTCTTAAAGTTC 60.047 44.000 0.00 0.00 35.45 3.01
146 147 3.459969 TGCCAAAACTTAACCCCCAAAAT 59.540 39.130 0.00 0.00 0.00 1.82
164 165 3.754965 AGCAACTCTTAACTCATTGCCA 58.245 40.909 3.77 0.00 45.36 4.92
171 172 4.568152 TTTGGCAAGCAACTCTTAACTC 57.432 40.909 0.00 0.00 32.74 3.01
187 188 5.049398 TCGTATACAATGTGGTTTTTGGC 57.951 39.130 3.32 0.00 0.00 4.52
201 202 7.696992 TCCATGATAGCTTACATCGTATACA 57.303 36.000 3.32 0.00 0.00 2.29
203 204 8.575649 TCTTCCATGATAGCTTACATCGTATA 57.424 34.615 0.00 0.00 0.00 1.47
283 288 1.816224 GTGTATTTGTGCCATCCGGTT 59.184 47.619 0.00 0.00 33.28 4.44
285 290 1.458398 TGTGTATTTGTGCCATCCGG 58.542 50.000 0.00 0.00 0.00 5.14
312 317 2.415512 GCAATCAAACTACTCCGGTGTC 59.584 50.000 13.38 0.00 0.00 3.67
317 322 4.116747 AGAGAGCAATCAAACTACTCCG 57.883 45.455 0.00 0.00 0.00 4.63
351 356 2.749621 ACAGAGCCCGTGATTGAATTTC 59.250 45.455 0.00 0.00 0.00 2.17
368 373 0.392193 GGTCTCCGTCCGACTACAGA 60.392 60.000 0.00 0.00 0.00 3.41
422 427 2.435372 AAGGCTTCGGGCAATTATGA 57.565 45.000 0.00 0.00 44.01 2.15
497 511 1.272147 GGCAAGTGATGGGGAGTTTCT 60.272 52.381 0.00 0.00 0.00 2.52
594 608 2.158623 TGCATCCCTCTCTCTCTCTCTC 60.159 54.545 0.00 0.00 0.00 3.20
601 615 0.337773 TCCTGTGCATCCCTCTCTCT 59.662 55.000 0.00 0.00 0.00 3.10
668 689 3.127533 GGTGTCCAGTGCATCGGC 61.128 66.667 0.00 0.00 41.68 5.54
730 751 3.865745 GGGAATATGTTCTCTGTGTGTCG 59.134 47.826 1.99 0.00 31.83 4.35
903 930 1.461127 CTGCTGTTTCGGTGAGCTTAC 59.539 52.381 0.00 0.00 33.66 2.34
913 940 0.108992 ATGCCATTGCTGCTGTTTCG 60.109 50.000 0.00 0.00 38.71 3.46
1043 1070 5.067936 ACATTATCGGTGGACAGTAGAAGAG 59.932 44.000 0.00 0.00 0.00 2.85
1175 1202 2.047274 ACACGGAGGCGACATTGG 60.047 61.111 0.00 0.00 0.00 3.16
1449 1476 1.582968 GTAGGCGTCGAACACCTCA 59.417 57.895 5.47 0.00 32.08 3.86
1539 1566 0.254747 CCCCGGAGAAGTAATTGCCA 59.745 55.000 0.73 0.00 0.00 4.92
1587 1614 1.292223 GGACAGGTACTCAAGCGCA 59.708 57.895 11.47 0.00 34.60 6.09
1590 1617 1.267121 TGAGGGACAGGTACTCAAGC 58.733 55.000 4.42 0.00 38.22 4.01
1593 1620 1.254026 CGTTGAGGGACAGGTACTCA 58.746 55.000 0.00 0.00 39.31 3.41
1641 1668 2.659610 GTCAGGTTGCCGAGCTCT 59.340 61.111 12.85 0.00 32.70 4.09
2037 2064 4.274459 GTGAAGTTGTTCATGAAGAGCTGT 59.726 41.667 20.21 11.67 44.58 4.40
2172 2199 1.078214 CATGAGGATGGCGGTGTGT 60.078 57.895 0.00 0.00 0.00 3.72
2290 2317 1.381463 GGAGGTAGAGGAAGCCGGT 60.381 63.158 1.90 0.00 0.00 5.28
2457 2484 2.359850 AGCGCGGAAAGATTGGCA 60.360 55.556 8.83 0.00 0.00 4.92
2463 2490 2.738521 GTCTGCAGCGCGGAAAGA 60.739 61.111 13.03 10.49 46.01 2.52
2739 2769 2.332869 CTCATCGCTCCGATCGCA 59.667 61.111 10.32 0.00 45.19 5.10
2748 2778 2.186384 GTGAGGCTGCTCATCGCT 59.814 61.111 0.00 0.00 40.11 4.93
2799 2829 4.007644 CCCGTGTCAGGCAGCTGA 62.008 66.667 20.43 0.00 0.00 4.26
2808 2838 4.007644 CTCAGCTGGCCCGTGTCA 62.008 66.667 15.13 0.00 0.00 3.58
3304 3411 2.192861 CGTTGGTGCAGAAGGCCAA 61.193 57.895 5.01 1.76 43.89 4.52
3677 3793 0.602638 TGCAATCAGTGTGGACGGAC 60.603 55.000 0.00 0.00 0.00 4.79
3706 3823 3.664107 ACAAGCACATGTGTAACGAGAT 58.336 40.909 26.01 2.69 42.39 2.75
3866 4002 2.993008 GAGCAGCAGGTCCCATGA 59.007 61.111 0.00 0.00 36.27 3.07
3910 4046 0.242825 TCGGACGCTTACTTGTCTGG 59.757 55.000 1.74 0.00 40.97 3.86
3912 4048 3.181489 CCTAATCGGACGCTTACTTGTCT 60.181 47.826 0.00 0.00 35.45 3.41
3920 4060 2.344025 GACAAACCTAATCGGACGCTT 58.656 47.619 0.00 0.00 36.31 4.68
3927 4067 1.625616 ACTCGCGACAAACCTAATCG 58.374 50.000 3.71 0.00 38.87 3.34
3979 4120 6.432581 AGTACTAACCACTATCACCATCTGA 58.567 40.000 0.00 0.00 0.00 3.27
3985 4126 8.688747 ACATAGTAGTACTAACCACTATCACC 57.311 38.462 13.92 0.00 38.13 4.02
4035 4183 4.600576 TGGTTCTGCGCGACTGCA 62.601 61.111 12.10 0.00 43.95 4.41
4036 4184 4.077188 GTGGTTCTGCGCGACTGC 62.077 66.667 12.10 0.00 37.91 4.40
4037 4185 2.661537 TGTGGTTCTGCGCGACTG 60.662 61.111 12.10 5.63 0.00 3.51
4038 4186 2.356313 CTGTGGTTCTGCGCGACT 60.356 61.111 12.10 0.00 0.00 4.18
4039 4187 2.661866 ACTGTGGTTCTGCGCGAC 60.662 61.111 12.10 0.88 0.00 5.19
4040 4188 2.661537 CACTGTGGTTCTGCGCGA 60.662 61.111 12.10 0.00 0.00 5.87
4041 4189 2.661537 TCACTGTGGTTCTGCGCG 60.662 61.111 8.11 0.00 0.00 6.86
4042 4190 1.595382 ACTCACTGTGGTTCTGCGC 60.595 57.895 8.11 0.00 0.00 6.09
4085 4248 1.406180 CGGGACCAAAAGTTTCCGTTT 59.594 47.619 4.88 0.00 39.35 3.60
4086 4249 1.026584 CGGGACCAAAAGTTTCCGTT 58.973 50.000 4.88 0.00 39.35 4.44
4105 4272 6.237411 GCTTAATCTCGAAGTGTAAACGTACC 60.237 42.308 0.00 0.00 0.00 3.34
4123 4290 8.950208 AAAACATCCTAGTAGACAGCTTAATC 57.050 34.615 0.00 0.00 0.00 1.75
4170 4338 1.734465 CATGAAAAGAGAGACGCACCC 59.266 52.381 0.00 0.00 0.00 4.61
4174 4357 2.596452 TCGACATGAAAAGAGAGACGC 58.404 47.619 0.00 0.00 0.00 5.19
4190 4373 2.466846 TCCTGACACGTTCTTTTCGAC 58.533 47.619 0.00 0.00 0.00 4.20
4192 4375 1.792949 CCTCCTGACACGTTCTTTTCG 59.207 52.381 0.00 0.00 0.00 3.46
4193 4376 3.060602 CTCCTCCTGACACGTTCTTTTC 58.939 50.000 0.00 0.00 0.00 2.29
4194 4377 2.698797 TCTCCTCCTGACACGTTCTTTT 59.301 45.455 0.00 0.00 0.00 2.27
4201 4384 2.408050 CTTGTTTCTCCTCCTGACACG 58.592 52.381 0.00 0.00 0.00 4.49
4202 4385 2.104963 ACCTTGTTTCTCCTCCTGACAC 59.895 50.000 0.00 0.00 0.00 3.67
4225 4408 6.318648 TCTCGTCTCCCCATTTGAAAATTATG 59.681 38.462 0.00 0.00 0.00 1.90
4226 4409 6.423182 TCTCGTCTCCCCATTTGAAAATTAT 58.577 36.000 0.00 0.00 0.00 1.28
4229 4412 4.265073 CTCTCGTCTCCCCATTTGAAAAT 58.735 43.478 0.00 0.00 0.00 1.82
4234 4417 0.179000 CCCTCTCGTCTCCCCATTTG 59.821 60.000 0.00 0.00 0.00 2.32
4349 4563 4.955811 TGATGTGGTGTAAAGTCAGACT 57.044 40.909 0.00 0.00 0.00 3.24
4596 4833 0.387622 CTGCATGGCACGGAGTTTTG 60.388 55.000 0.00 0.00 41.61 2.44
4666 4912 4.056125 CGGGAGAGTGCACGCAGA 62.056 66.667 22.91 0.00 0.00 4.26
4712 4958 1.573932 CGGTCCACACACGTACGTA 59.426 57.895 22.34 0.52 0.00 3.57
4752 4998 4.801624 TGCTGCTACTCTGGCGCG 62.802 66.667 0.00 0.00 34.13 6.86
4921 5213 3.192633 GTGCTGGTACCCAATAAAACCTG 59.807 47.826 10.07 0.00 30.80 4.00
4926 5218 2.882229 GCTGGTGCTGGTACCCAATAAA 60.882 50.000 10.07 0.00 40.09 1.40
4971 5263 1.612442 TGACCTAAAGGGCCGAGCT 60.612 57.895 0.00 0.00 44.80 4.09
4974 5267 0.326238 ATCCTGACCTAAAGGGCCGA 60.326 55.000 0.00 0.00 44.80 5.54
5204 5506 2.099592 ACTTCGTGACCGTAACAGTGAA 59.900 45.455 0.00 0.00 35.01 3.18
5237 5539 6.674419 ACATAGAGAGAGGGGAAAACTTGTAT 59.326 38.462 0.00 0.00 0.00 2.29
5239 5541 4.846940 ACATAGAGAGAGGGGAAAACTTGT 59.153 41.667 0.00 0.00 0.00 3.16
5240 5542 5.181748 CACATAGAGAGAGGGGAAAACTTG 58.818 45.833 0.00 0.00 0.00 3.16
5241 5543 4.846940 ACACATAGAGAGAGGGGAAAACTT 59.153 41.667 0.00 0.00 0.00 2.66
5258 5560 5.278266 CGGAAGAGCAAAAAGGAAACACATA 60.278 40.000 0.00 0.00 0.00 2.29
5259 5561 4.499696 CGGAAGAGCAAAAAGGAAACACAT 60.500 41.667 0.00 0.00 0.00 3.21
5261 5563 3.372060 CGGAAGAGCAAAAAGGAAACAC 58.628 45.455 0.00 0.00 0.00 3.32
5263 5565 2.288213 CCCGGAAGAGCAAAAAGGAAAC 60.288 50.000 0.73 0.00 0.00 2.78
5287 5597 2.880890 CCTAAGATCTTGCCAAATCCCG 59.119 50.000 18.47 0.00 0.00 5.14
5305 5615 3.812544 CAGCCCATGCCTGCCCTA 61.813 66.667 0.00 0.00 38.69 3.53
5338 5648 0.625849 GCCAGGATCAAGAAGGGGAA 59.374 55.000 0.00 0.00 0.00 3.97
5342 5652 1.208052 TCTTCGCCAGGATCAAGAAGG 59.792 52.381 0.00 0.00 38.89 3.46
5354 5664 2.870175 TCCAAGGAAAATTCTTCGCCA 58.130 42.857 0.00 0.00 0.00 5.69
5427 5761 1.496429 CCCTACCCTTTGCAGATCCAT 59.504 52.381 0.00 0.00 0.00 3.41
5706 6433 3.690475 AAGGGTAAAGGTAGGAACGTG 57.310 47.619 0.00 0.00 0.00 4.49
5716 6443 6.439058 TCAAATCAATGGGTAAAGGGTAAAGG 59.561 38.462 0.00 0.00 0.00 3.11
5721 6453 5.588845 TGATCAAATCAATGGGTAAAGGGT 58.411 37.500 0.00 0.00 36.11 4.34
5722 6454 6.736110 ATGATCAAATCAATGGGTAAAGGG 57.264 37.500 0.00 0.00 43.50 3.95
5740 6475 5.845985 TCTCGTCAAAGAACACAATGATC 57.154 39.130 0.00 0.00 0.00 2.92
5831 6926 3.495377 ACGCGTACTCTGCAACATAAAAA 59.505 39.130 11.67 0.00 0.00 1.94
5832 6927 3.061322 ACGCGTACTCTGCAACATAAAA 58.939 40.909 11.67 0.00 0.00 1.52
5833 6928 2.679450 ACGCGTACTCTGCAACATAAA 58.321 42.857 11.67 0.00 0.00 1.40
5834 6929 2.357327 ACGCGTACTCTGCAACATAA 57.643 45.000 11.67 0.00 0.00 1.90
5835 6930 2.162008 TGTACGCGTACTCTGCAACATA 59.838 45.455 39.69 19.87 37.00 2.29
5836 6931 1.068125 TGTACGCGTACTCTGCAACAT 60.068 47.619 39.69 6.61 37.00 2.71
5957 7206 2.046892 GCCCACTGCACGATGTCT 60.047 61.111 0.00 0.00 40.77 3.41
6089 7338 1.967535 CTCCACGCTGTTCTCCTGA 59.032 57.895 0.00 0.00 0.00 3.86
6260 7509 2.352127 GCTTGATTTGTTCTGCTGGACC 60.352 50.000 0.00 0.00 0.00 4.46
6265 7514 1.958579 TGCTGCTTGATTTGTTCTGCT 59.041 42.857 0.00 0.00 0.00 4.24
6301 7550 1.207791 AATTCGGCCCAGAGTCTGAT 58.792 50.000 22.09 2.78 32.44 2.90
6302 7551 1.480954 GTAATTCGGCCCAGAGTCTGA 59.519 52.381 22.09 0.11 32.44 3.27
6376 7632 3.797353 CCCCATCCCCTGTCACCG 61.797 72.222 0.00 0.00 0.00 4.94
6462 7722 5.505780 TCAAACCCTATACACCTTTGATGG 58.494 41.667 0.00 0.00 0.00 3.51
6514 7781 5.292765 AGATGACTATTACATTGGACAGCG 58.707 41.667 0.00 0.00 0.00 5.18
6782 8060 9.838339 TTTAAGCTTTGGGAATCAAAATGTTTA 57.162 25.926 3.20 0.00 43.88 2.01
6791 8069 5.714333 TGTATGCTTTAAGCTTTGGGAATCA 59.286 36.000 18.20 0.00 42.97 2.57
6813 8091 4.716784 TGTGCTATTCAAGTCCCTATCTGT 59.283 41.667 0.00 0.00 0.00 3.41
6855 8133 5.846714 TCTTTTTCCCCATATTTTTGACCCA 59.153 36.000 0.00 0.00 0.00 4.51
6902 8180 2.091720 AGCCCTGAAACCATGCATCATA 60.092 45.455 0.00 0.00 0.00 2.15
7050 8328 0.518636 CAAGACACGGATTGGTGCTG 59.481 55.000 0.00 0.00 41.65 4.41
7061 8339 4.153117 AGCTTTGCTATTTCTCAAGACACG 59.847 41.667 0.00 0.00 36.99 4.49
7219 8497 7.383687 CAGTAATTTCCAACAGGAGTGTACTA 58.616 38.462 0.00 0.00 35.08 1.82


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

AutoCloner maintained by Alex Coulton.