Multiple sequence alignment - TraesCS3A01G230100

Loading Multiple Alignment...

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 TraesCS3A01G230100 chr3A 100.000 4838 0 0 1 4838 430520805 430525642 0.000000e+00 8935.0
1 TraesCS3A01G230100 chr3D 93.055 2275 117 18 1707 3968 304033951 304031705 0.000000e+00 3288.0
2 TraesCS3A01G230100 chr3D 91.667 1008 38 15 731 1705 304035070 304034076 0.000000e+00 1354.0
3 TraesCS3A01G230100 chr3D 84.161 644 48 19 3997 4599 304031571 304030941 4.200000e-160 575.0
4 TraesCS3A01G230100 chr3D 89.831 59 1 1 4780 4838 304030573 304030520 2.420000e-08 71.3
5 TraesCS3A01G230100 chr3B 92.051 2365 93 26 721 3046 417367833 417370141 0.000000e+00 3238.0
6 TraesCS3A01G230100 chr3B 91.094 932 64 9 3044 3968 417370222 417371141 0.000000e+00 1243.0
7 TraesCS3A01G230100 chr3B 87.879 330 14 11 3997 4301 417371273 417371601 9.900000e-97 364.0
8 TraesCS3A01G230100 chr3B 95.946 222 9 0 4375 4596 417373202 417373423 1.280000e-95 361.0
9 TraesCS3A01G230100 chr3B 93.023 86 5 1 4595 4679 417374185 417374270 1.830000e-24 124.0
10 TraesCS3A01G230100 chr3B 100.000 35 0 0 4317 4351 417373134 417373168 1.120000e-06 65.8
11 TraesCS3A01G230100 chr7B 98.354 729 12 0 1 729 684156355 684157083 0.000000e+00 1280.0
12 TraesCS3A01G230100 chr7B 95.850 747 27 3 1 745 680539432 680538688 0.000000e+00 1205.0
13 TraesCS3A01G230100 chr1A 98.611 720 10 0 1 720 441795102 441794383 0.000000e+00 1275.0
14 TraesCS3A01G230100 chr2A 98.340 723 12 0 1 723 90579503 90580225 0.000000e+00 1269.0
15 TraesCS3A01G230100 chr6A 98.197 721 13 0 1 721 8989320 8990040 0.000000e+00 1260.0
16 TraesCS3A01G230100 chr5A 98.194 720 13 0 1 720 696885591 696884872 0.000000e+00 1258.0
17 TraesCS3A01G230100 chr5A 97.753 712 16 0 1 712 696846477 696845766 0.000000e+00 1227.0
18 TraesCS3A01G230100 chr4B 98.056 720 14 0 1 720 53862384 53863103 0.000000e+00 1253.0
19 TraesCS3A01G230100 chr6B 96.489 712 25 0 1 712 716564631 716565342 0.000000e+00 1177.0
20 TraesCS3A01G230100 chr7A 83.333 72 12 0 3104 3175 649151438 649151367 3.130000e-07 67.6


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 TraesCS3A01G230100 chr3A 430520805 430525642 4837 False 8935.000 8935 100.000000 1 4838 1 chr3A.!!$F1 4837
1 TraesCS3A01G230100 chr3D 304030520 304035070 4550 True 1322.075 3288 89.678500 731 4838 4 chr3D.!!$R1 4107
2 TraesCS3A01G230100 chr3B 417367833 417374270 6437 False 899.300 3238 93.332167 721 4679 6 chr3B.!!$F1 3958
3 TraesCS3A01G230100 chr7B 684156355 684157083 728 False 1280.000 1280 98.354000 1 729 1 chr7B.!!$F1 728
4 TraesCS3A01G230100 chr7B 680538688 680539432 744 True 1205.000 1205 95.850000 1 745 1 chr7B.!!$R1 744
5 TraesCS3A01G230100 chr1A 441794383 441795102 719 True 1275.000 1275 98.611000 1 720 1 chr1A.!!$R1 719
6 TraesCS3A01G230100 chr2A 90579503 90580225 722 False 1269.000 1269 98.340000 1 723 1 chr2A.!!$F1 722
7 TraesCS3A01G230100 chr6A 8989320 8990040 720 False 1260.000 1260 98.197000 1 721 1 chr6A.!!$F1 720
8 TraesCS3A01G230100 chr5A 696884872 696885591 719 True 1258.000 1258 98.194000 1 720 1 chr5A.!!$R2 719
9 TraesCS3A01G230100 chr5A 696845766 696846477 711 True 1227.000 1227 97.753000 1 712 1 chr5A.!!$R1 711
10 TraesCS3A01G230100 chr4B 53862384 53863103 719 False 1253.000 1253 98.056000 1 720 1 chr4B.!!$F1 719
11 TraesCS3A01G230100 chr6B 716564631 716565342 711 False 1177.000 1177 96.489000 1 712 1 chr6B.!!$F1 711

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
712 714 2.234613 CACACGTGTGGCAGTTAGG 58.765 57.895 35.65 11.35 42.10 2.69 F
1552 1590 1.271054 GCCACTGAGTGTTGTCTCCAT 60.271 52.381 12.15 0.00 33.93 3.41 F
1681 1719 0.179000 CTAGCCTTCCAGAATGCGGT 59.821 55.000 2.61 0.00 37.10 5.68 F
3288 3543 0.328450 ATGGGCAAGGATGGACCCTA 60.328 55.000 0.00 0.00 34.52 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1677 1715 0.460311 AGCTCCATGTACACTACCGC 59.540 55.000 0.0 0.0 0.00 5.68 R
3268 3523 1.152673 GGGTCCATCCTTGCCCATC 60.153 63.158 0.0 0.0 40.76 3.51 R
3667 3925 0.029035 CAGAAATGCCAGATGAGCGC 59.971 55.000 0.0 0.0 0.00 5.92 R
4351 6299 0.034896 GGTGGACTTTCTTCAGGCGA 59.965 55.000 0.0 0.0 0.00 5.54 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
455 457 3.391296 ACCGGATAACTACATCTGCCAAT 59.609 43.478 9.46 0.00 31.05 3.16
712 714 2.234613 CACACGTGTGGCAGTTAGG 58.765 57.895 35.65 11.35 42.10 2.69
715 717 2.347490 CGTGTGGCAGTTAGGGCT 59.653 61.111 0.00 0.00 0.00 5.19
768 770 2.991250 ACCCGTTCAAATCTGATGGAG 58.009 47.619 0.00 0.00 31.91 3.86
769 771 2.571653 ACCCGTTCAAATCTGATGGAGA 59.428 45.455 0.00 0.00 31.91 3.71
873 880 4.957759 AGGGTTTTAATTCCATCGTTCG 57.042 40.909 0.00 0.00 0.00 3.95
1377 1404 7.259882 TCAATATGGATTTGTGCTGAATTGAC 58.740 34.615 0.00 0.00 0.00 3.18
1402 1429 3.253230 GTTATTCTGTGGTGGCAATTGC 58.747 45.455 22.47 22.47 41.14 3.56
1442 1469 4.214545 TCCGAAGCTTTTTGAATCGCTTAA 59.785 37.500 0.00 0.00 42.25 1.85
1449 1476 6.151817 AGCTTTTTGAATCGCTTAAGAAGGAT 59.848 34.615 6.67 2.59 0.00 3.24
1454 1481 5.734720 TGAATCGCTTAAGAAGGATCAGTT 58.265 37.500 6.67 0.00 0.00 3.16
1484 1511 3.939740 ATGTGCCATCTGGTTGATACT 57.060 42.857 0.00 0.00 37.57 2.12
1493 1520 6.072838 GCCATCTGGTTGATACTTGATACATG 60.073 42.308 0.00 0.00 37.57 3.21
1511 1538 9.955208 TGATACATGCATGAATGATAGAAAAAC 57.045 29.630 32.75 7.29 0.00 2.43
1512 1539 9.955208 GATACATGCATGAATGATAGAAAAACA 57.045 29.630 32.75 0.00 0.00 2.83
1552 1590 1.271054 GCCACTGAGTGTTGTCTCCAT 60.271 52.381 12.15 0.00 33.93 3.41
1646 1684 6.631016 TCGTGAGATATGTTAATATCCCAGC 58.369 40.000 2.79 0.00 44.00 4.85
1670 1708 1.751563 CCTGCCTAGGCTAGCCTTC 59.248 63.158 40.02 27.34 45.70 3.46
1677 1715 2.038295 CCTAGGCTAGCCTTCCAGAATG 59.962 54.545 40.02 15.08 45.70 2.67
1681 1719 0.179000 CTAGCCTTCCAGAATGCGGT 59.821 55.000 2.61 0.00 37.10 5.68
1754 1916 7.773690 ACATAGGCTACGAAGGACAATTATTTT 59.226 33.333 0.00 0.00 0.00 1.82
1789 1951 8.947055 AAAACACTGTAGCAATTTCTCATTTT 57.053 26.923 0.00 0.00 0.00 1.82
1918 2080 1.207329 ACTTACCGTCTCTGGGCAATC 59.793 52.381 0.00 0.00 0.00 2.67
1927 2089 1.065102 CTCTGGGCAATCGAGCAATTG 59.935 52.381 0.00 0.00 39.22 2.32
2063 2225 1.557832 TCTCCAACAATAACCCTCGGG 59.442 52.381 0.00 0.00 42.03 5.14
2129 2291 3.589735 TGGTTCCTGCCTATCAAAAGGTA 59.410 43.478 0.00 0.00 39.02 3.08
2130 2292 4.043561 TGGTTCCTGCCTATCAAAAGGTAA 59.956 41.667 0.00 0.00 39.02 2.85
2131 2293 5.014202 GGTTCCTGCCTATCAAAAGGTAAA 58.986 41.667 0.00 0.00 39.02 2.01
2132 2294 5.479027 GGTTCCTGCCTATCAAAAGGTAAAA 59.521 40.000 0.00 0.00 39.02 1.52
2133 2295 6.014925 GGTTCCTGCCTATCAAAAGGTAAAAA 60.015 38.462 0.00 0.00 39.02 1.94
2293 2455 1.434555 CATCGAGTTTGCCGTGGTTA 58.565 50.000 0.00 0.00 0.00 2.85
2336 2498 9.768215 TTCCTTCTGGTTTTTAATATCCTTGAT 57.232 29.630 0.00 0.00 34.23 2.57
2388 2550 5.451908 ACAACTGTCTCATACAATTTTGCG 58.548 37.500 0.00 0.00 37.74 4.85
2393 2555 6.128282 ACTGTCTCATACAATTTTGCGGTTAG 60.128 38.462 0.00 0.00 37.74 2.34
2605 2772 6.531948 GGTATATGTATGCTCCTCTTTAAGCG 59.468 42.308 0.00 0.00 41.51 4.68
2722 2889 4.252073 GTGAAAGTGATGTGCTCAGAGAT 58.748 43.478 0.00 0.00 33.51 2.75
3173 3426 4.027437 GGGAACTACTCTCACTGAAGGAT 58.973 47.826 0.00 0.00 0.00 3.24
3186 3439 2.239654 CTGAAGGATGAAGGGCCTAACA 59.760 50.000 6.41 11.41 33.20 2.41
3188 3441 0.541863 AGGATGAAGGGCCTAACACG 59.458 55.000 6.41 0.00 31.31 4.49
3203 3456 6.591448 GGCCTAACACGTAGTAAGTAAATGTT 59.409 38.462 0.00 0.00 41.61 2.71
3205 3458 7.953710 GCCTAACACGTAGTAAGTAAATGTTTG 59.046 37.037 0.00 0.00 41.61 2.93
3268 3523 4.893524 GGGGTCCAAATAAGGAATTACTGG 59.106 45.833 0.00 0.00 39.92 4.00
3282 3537 0.846015 TACTGGATGGGCAAGGATGG 59.154 55.000 0.00 0.00 0.00 3.51
3284 3539 0.466922 CTGGATGGGCAAGGATGGAC 60.467 60.000 0.00 0.00 0.00 4.02
3285 3540 1.152673 GGATGGGCAAGGATGGACC 60.153 63.158 0.00 0.00 38.27 4.46
3286 3541 1.152673 GATGGGCAAGGATGGACCC 60.153 63.158 0.00 0.00 34.52 4.46
3288 3543 0.328450 ATGGGCAAGGATGGACCCTA 60.328 55.000 0.00 0.00 34.52 3.53
3289 3544 0.328450 TGGGCAAGGATGGACCCTAT 60.328 55.000 0.00 0.00 34.52 2.57
3290 3545 0.402121 GGGCAAGGATGGACCCTATC 59.598 60.000 0.00 0.00 39.42 2.08
3305 3562 5.162958 GGACCCTATCCTATCCTATCCTACC 60.163 52.000 0.00 0.00 45.22 3.18
3311 3568 5.427857 TCCTATCCTATCCTACCCAAACA 57.572 43.478 0.00 0.00 0.00 2.83
3369 3626 8.740906 TCAGTATTAGTTTGTCCTCTCAGTAAG 58.259 37.037 0.00 0.00 0.00 2.34
3456 3713 0.401738 TGGAGGCCAAGAAGAAGGTG 59.598 55.000 5.01 0.00 0.00 4.00
3483 3740 4.112634 GAGAAAACAGGTTGTTGCCTTTC 58.887 43.478 0.00 0.00 40.14 2.62
3486 3743 1.981256 ACAGGTTGTTGCCTTTCGAT 58.019 45.000 0.00 0.00 36.58 3.59
3530 3787 7.272731 GGAAAAGGTACGATTGCTTAAAACATC 59.727 37.037 0.00 0.00 0.00 3.06
3576 3833 1.462731 GGCCAATTGTGCACCACTGA 61.463 55.000 15.69 0.00 35.11 3.41
3594 3851 5.450688 CCACTGATTTCCCTCTACTTACGAG 60.451 48.000 0.00 0.00 0.00 4.18
3656 3914 9.454859 AGTAGTTAACTAACGTTCCATAGTACT 57.545 33.333 16.82 6.82 40.96 2.73
3677 3935 6.007936 ACTAGTTAGATAAGCGCTCATCTG 57.992 41.667 29.73 16.56 33.58 2.90
3687 3945 1.660167 CGCTCATCTGGCATTTCTGA 58.340 50.000 0.00 0.00 0.00 3.27
3697 3955 3.758023 CTGGCATTTCTGAATGGTGTGTA 59.242 43.478 0.00 0.00 42.35 2.90
3714 3972 0.179045 GTATGCAGGAGGCCGTCAAT 60.179 55.000 0.00 0.00 43.89 2.57
3715 3973 0.179048 TATGCAGGAGGCCGTCAATG 60.179 55.000 0.00 0.10 43.89 2.82
3717 3975 2.401766 GCAGGAGGCCGTCAATGTG 61.402 63.158 0.00 0.00 36.11 3.21
3720 3978 2.100631 GGAGGCCGTCAATGTGTCG 61.101 63.158 0.00 0.00 0.00 4.35
3724 3982 1.154413 GCCGTCAATGTGTCGCTTG 60.154 57.895 0.00 0.00 0.00 4.01
3736 3994 3.629855 TGTGTCGCTTGGAAATTTGAAGA 59.370 39.130 0.00 0.00 0.00 2.87
3741 3999 4.693566 TCGCTTGGAAATTTGAAGACGTAT 59.306 37.500 0.00 0.00 0.00 3.06
3756 4014 2.486951 CGTATCCGTTCGTCAAGGAT 57.513 50.000 9.11 9.11 45.75 3.24
3760 4018 4.083431 CGTATCCGTTCGTCAAGGATAGAT 60.083 45.833 10.62 0.00 44.77 1.98
3764 4022 4.045104 CCGTTCGTCAAGGATAGATTGAG 58.955 47.826 0.00 0.00 37.35 3.02
3781 4039 0.524862 GAGCAAGGGCACACTGAATG 59.475 55.000 0.00 0.00 44.61 2.67
3804 4062 0.392461 TTGGTGCCCGCTATGACTTC 60.392 55.000 0.00 0.00 0.00 3.01
3883 4145 3.313526 AGCTAGCCAGTCGCAAATATTTG 59.686 43.478 21.54 21.54 41.38 2.32
3897 4159 5.408299 GCAAATATTTGGTCGAAAAAGGCTT 59.592 36.000 25.61 0.00 38.57 4.35
3900 4162 3.636282 TTTGGTCGAAAAAGGCTTAGC 57.364 42.857 0.00 0.00 0.00 3.09
3910 4172 0.744874 AAGGCTTAGCTGCATGCATG 59.255 50.000 22.97 22.70 45.94 4.06
3921 4183 1.589630 CATGCATGGCTGTTGCTGT 59.410 52.632 19.40 0.00 40.77 4.40
3923 4185 1.884075 ATGCATGGCTGTTGCTGTGG 61.884 55.000 0.00 0.00 40.77 4.17
3936 4198 1.795170 GCTGTGGTTGCATTCCGTGT 61.795 55.000 0.00 0.00 0.00 4.49
3937 4199 0.040157 CTGTGGTTGCATTCCGTGTG 60.040 55.000 0.00 0.00 0.00 3.82
3968 4230 5.990120 GGGTACCGCCTAGATAGATTTTA 57.010 43.478 5.65 0.00 40.86 1.52
3969 4231 5.963594 GGGTACCGCCTAGATAGATTTTAG 58.036 45.833 5.65 0.00 40.86 1.85
3971 4233 6.660949 GGGTACCGCCTAGATAGATTTTAGTA 59.339 42.308 5.65 0.00 40.86 1.82
3978 4354 8.781196 CGCCTAGATAGATTTTAGTACAGTACA 58.219 37.037 13.37 0.00 0.00 2.90
3987 4363 8.532819 AGATTTTAGTACAGTACAGAAGGAAGG 58.467 37.037 13.37 0.00 0.00 3.46
3988 4364 7.607615 TTTTAGTACAGTACAGAAGGAAGGT 57.392 36.000 13.37 0.00 0.00 3.50
3989 4365 8.710749 TTTTAGTACAGTACAGAAGGAAGGTA 57.289 34.615 13.37 0.00 0.00 3.08
3990 4366 8.710749 TTTAGTACAGTACAGAAGGAAGGTAA 57.289 34.615 13.37 0.00 0.00 2.85
3991 4367 6.837471 AGTACAGTACAGAAGGAAGGTAAG 57.163 41.667 13.37 0.00 0.00 2.34
3992 4368 5.715753 AGTACAGTACAGAAGGAAGGTAAGG 59.284 44.000 13.37 0.00 0.00 2.69
3993 4369 3.261137 ACAGTACAGAAGGAAGGTAAGGC 59.739 47.826 0.00 0.00 0.00 4.35
3994 4370 3.515901 CAGTACAGAAGGAAGGTAAGGCT 59.484 47.826 0.00 0.00 0.00 4.58
3995 4371 4.710375 CAGTACAGAAGGAAGGTAAGGCTA 59.290 45.833 0.00 0.00 0.00 3.93
4020 4396 1.152881 GATTTGGAGGATGGCGCCT 60.153 57.895 29.70 13.55 42.17 5.52
4041 4417 5.555017 CCTAAGGAGATAATGACCCATGTG 58.445 45.833 0.00 0.00 0.00 3.21
4051 4427 5.964958 AATGACCCATGTGTTTTCTAGTG 57.035 39.130 0.00 0.00 0.00 2.74
4098 4480 1.713937 ATGGCGTGTGTGTGTGTGTG 61.714 55.000 0.00 0.00 0.00 3.82
4101 4483 0.109964 GCGTGTGTGTGTGTGTGTTT 60.110 50.000 0.00 0.00 0.00 2.83
4102 4484 1.664588 GCGTGTGTGTGTGTGTGTTTT 60.665 47.619 0.00 0.00 0.00 2.43
4103 4485 1.975362 CGTGTGTGTGTGTGTGTTTTG 59.025 47.619 0.00 0.00 0.00 2.44
4104 4486 2.349912 CGTGTGTGTGTGTGTGTTTTGA 60.350 45.455 0.00 0.00 0.00 2.69
4105 4487 3.669290 CGTGTGTGTGTGTGTGTTTTGAT 60.669 43.478 0.00 0.00 0.00 2.57
4109 4491 3.256879 TGTGTGTGTGTGTTTTGATGGTT 59.743 39.130 0.00 0.00 0.00 3.67
4140 4543 4.289672 TCAGGCTACCATTCTCTTTTTCCT 59.710 41.667 0.00 0.00 0.00 3.36
4152 4555 8.599774 CATTCTCTTTTTCCTCTCTCGATAAAC 58.400 37.037 0.00 0.00 0.00 2.01
4164 4567 7.043059 CCTCTCTCGATAAACTGCTTTAACATC 60.043 40.741 0.00 0.00 0.00 3.06
4166 4569 6.403049 TCTCGATAAACTGCTTTAACATCCA 58.597 36.000 0.00 0.00 0.00 3.41
4192 4595 2.218759 CAGTTTATACGCTGATGACGCC 59.781 50.000 0.00 0.00 34.87 5.68
4234 4637 1.348696 TGGTCTGCAAATGAGCTCAGA 59.651 47.619 22.96 9.76 33.64 3.27
4301 4732 3.828921 AGCGGTTCTTAAGGAGGTTTTT 58.171 40.909 1.85 0.00 0.00 1.94
4351 6299 0.801574 TCCCCCTTACCTACTTGGGT 59.198 55.000 0.00 0.00 42.86 4.51
4365 6331 0.472471 TTGGGTCGCCTGAAGAAAGT 59.528 50.000 0.00 0.00 0.00 2.66
4366 6332 0.034896 TGGGTCGCCTGAAGAAAGTC 59.965 55.000 0.00 0.00 0.00 3.01
4367 6333 0.673956 GGGTCGCCTGAAGAAAGTCC 60.674 60.000 0.00 0.00 0.00 3.85
4368 6334 0.034896 GGTCGCCTGAAGAAAGTCCA 59.965 55.000 0.00 0.00 0.00 4.02
4369 6335 1.149148 GTCGCCTGAAGAAAGTCCAC 58.851 55.000 0.00 0.00 0.00 4.02
4370 6336 0.034896 TCGCCTGAAGAAAGTCCACC 59.965 55.000 0.00 0.00 0.00 4.61
4371 6337 0.035458 CGCCTGAAGAAAGTCCACCT 59.965 55.000 0.00 0.00 0.00 4.00
4372 6338 1.814793 GCCTGAAGAAAGTCCACCTC 58.185 55.000 0.00 0.00 0.00 3.85
4373 6339 1.611936 GCCTGAAGAAAGTCCACCTCC 60.612 57.143 0.00 0.00 0.00 4.30
4477 6443 1.354040 GTTCTGTCCTCTGCACGATG 58.646 55.000 0.00 0.00 0.00 3.84
4576 6542 3.958860 GCACAGGAGGGCCACAGT 61.959 66.667 6.18 0.00 36.29 3.55
4606 7335 0.110192 GAAGTGCAAGGTTACGCTGC 60.110 55.000 0.00 1.09 36.60 5.25
4608 7337 2.112087 TGCAAGGTTACGCTGCCA 59.888 55.556 5.13 0.00 35.13 4.92
4631 7360 3.978723 CTGTCCTCGTCAGCGCCAG 62.979 68.421 2.29 0.00 38.14 4.85
4679 7409 3.006217 CCATGCGATCAGAAGGACAGATA 59.994 47.826 0.00 0.00 0.00 1.98
4680 7410 3.998099 TGCGATCAGAAGGACAGATAG 57.002 47.619 0.00 0.00 0.00 2.08
4681 7411 3.555966 TGCGATCAGAAGGACAGATAGA 58.444 45.455 0.00 0.00 0.00 1.98
4682 7412 3.567585 TGCGATCAGAAGGACAGATAGAG 59.432 47.826 0.00 0.00 0.00 2.43
4683 7413 3.818210 GCGATCAGAAGGACAGATAGAGA 59.182 47.826 0.00 0.00 0.00 3.10
4684 7414 4.320202 GCGATCAGAAGGACAGATAGAGAC 60.320 50.000 0.00 0.00 0.00 3.36
4685 7415 4.215399 CGATCAGAAGGACAGATAGAGACC 59.785 50.000 0.00 0.00 0.00 3.85
4686 7416 4.871871 TCAGAAGGACAGATAGAGACCT 57.128 45.455 0.00 0.00 0.00 3.85
4687 7417 5.977821 TCAGAAGGACAGATAGAGACCTA 57.022 43.478 0.00 0.00 0.00 3.08
4688 7418 6.523035 TCAGAAGGACAGATAGAGACCTAT 57.477 41.667 0.00 0.00 38.26 2.57
4692 7422 5.799827 AGGACAGATAGAGACCTATTTGC 57.200 43.478 0.00 0.00 39.68 3.68
4694 7424 4.551388 GACAGATAGAGACCTATTTGCCG 58.449 47.826 0.00 0.00 39.68 5.69
4699 7429 0.462759 GAGACCTATTTGCCGCTGCT 60.463 55.000 0.70 0.00 38.71 4.24
4702 7432 0.463833 ACCTATTTGCCGCTGCTACC 60.464 55.000 0.70 0.00 38.71 3.18
4705 7435 0.746563 TATTTGCCGCTGCTACCACC 60.747 55.000 0.70 0.00 38.71 4.61
4713 7443 1.375908 CTGCTACCACCGTGCACAT 60.376 57.895 18.64 0.34 32.91 3.21
4715 7445 2.452813 GCTACCACCGTGCACATCG 61.453 63.158 18.64 5.82 0.00 3.84
4733 7463 4.052519 GAAACGGCGTTTCTGGGA 57.947 55.556 42.13 0.00 45.65 4.37
4734 7464 1.866925 GAAACGGCGTTTCTGGGAG 59.133 57.895 42.13 2.78 45.65 4.30
4735 7465 0.883370 GAAACGGCGTTTCTGGGAGT 60.883 55.000 42.13 21.15 45.65 3.85
4736 7466 0.883370 AAACGGCGTTTCTGGGAGTC 60.883 55.000 30.41 0.00 28.86 3.36
4737 7467 2.434359 CGGCGTTTCTGGGAGTCC 60.434 66.667 0.00 0.00 0.00 3.85
4738 7468 2.747686 GGCGTTTCTGGGAGTCCA 59.252 61.111 12.30 0.00 41.58 4.02
4754 7484 2.978156 TCCAGCTGGATTTGGTTCTT 57.022 45.000 32.00 0.00 39.78 2.52
4755 7485 3.243359 TCCAGCTGGATTTGGTTCTTT 57.757 42.857 32.00 0.00 39.78 2.52
4756 7486 3.575805 TCCAGCTGGATTTGGTTCTTTT 58.424 40.909 32.00 0.00 39.78 2.27
4757 7487 3.321682 TCCAGCTGGATTTGGTTCTTTTG 59.678 43.478 32.00 0.00 39.78 2.44
4758 7488 3.555586 CCAGCTGGATTTGGTTCTTTTGG 60.556 47.826 29.88 0.00 37.39 3.28
4759 7489 2.634453 AGCTGGATTTGGTTCTTTTGGG 59.366 45.455 0.00 0.00 0.00 4.12
4760 7490 2.368548 GCTGGATTTGGTTCTTTTGGGT 59.631 45.455 0.00 0.00 0.00 4.51
4762 7492 4.685848 GCTGGATTTGGTTCTTTTGGGTTT 60.686 41.667 0.00 0.00 0.00 3.27
4763 7493 5.436175 CTGGATTTGGTTCTTTTGGGTTTT 58.564 37.500 0.00 0.00 0.00 2.43
4764 7494 5.189180 TGGATTTGGTTCTTTTGGGTTTTG 58.811 37.500 0.00 0.00 0.00 2.44
4765 7495 4.578516 GGATTTGGTTCTTTTGGGTTTTGG 59.421 41.667 0.00 0.00 0.00 3.28
4766 7496 4.642466 TTTGGTTCTTTTGGGTTTTGGT 57.358 36.364 0.00 0.00 0.00 3.67
4767 7497 4.642466 TTGGTTCTTTTGGGTTTTGGTT 57.358 36.364 0.00 0.00 0.00 3.67
4768 7498 4.209307 TGGTTCTTTTGGGTTTTGGTTC 57.791 40.909 0.00 0.00 0.00 3.62
4769 7499 3.841255 TGGTTCTTTTGGGTTTTGGTTCT 59.159 39.130 0.00 0.00 0.00 3.01
4770 7500 4.287326 TGGTTCTTTTGGGTTTTGGTTCTT 59.713 37.500 0.00 0.00 0.00 2.52
4771 7501 5.221945 TGGTTCTTTTGGGTTTTGGTTCTTT 60.222 36.000 0.00 0.00 0.00 2.52
4772 7502 5.708230 GGTTCTTTTGGGTTTTGGTTCTTTT 59.292 36.000 0.00 0.00 0.00 2.27
4773 7503 6.348950 GGTTCTTTTGGGTTTTGGTTCTTTTG 60.349 38.462 0.00 0.00 0.00 2.44
4774 7504 4.697828 TCTTTTGGGTTTTGGTTCTTTTGC 59.302 37.500 0.00 0.00 0.00 3.68
4776 7506 1.134670 TGGGTTTTGGTTCTTTTGCCG 60.135 47.619 0.00 0.00 0.00 5.69
4777 7507 0.934496 GGTTTTGGTTCTTTTGCCGC 59.066 50.000 0.00 0.00 0.00 6.53
4778 7508 0.934496 GTTTTGGTTCTTTTGCCGCC 59.066 50.000 0.00 0.00 0.00 6.13
4785 7671 2.751837 CTTTTGCCGCCCCTCTCC 60.752 66.667 0.00 0.00 0.00 3.71
4814 7700 3.055891 GGGGAGCACATGTAAATTTTGCT 60.056 43.478 12.88 12.88 46.12 3.91
4815 7701 4.159506 GGGGAGCACATGTAAATTTTGCTA 59.840 41.667 12.97 0.00 43.53 3.49
4816 7702 5.343249 GGGAGCACATGTAAATTTTGCTAG 58.657 41.667 12.97 0.00 43.53 3.42
4817 7703 5.125417 GGGAGCACATGTAAATTTTGCTAGA 59.875 40.000 12.97 0.00 43.53 2.43
4818 7704 6.261118 GGAGCACATGTAAATTTTGCTAGAG 58.739 40.000 12.97 0.00 43.53 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
455 457 1.349688 ACGGTTTAGTTGCCATCCTGA 59.650 47.619 0.00 0.00 0.00 3.86
712 714 2.963101 AGACCAAACTTTTTGGGTAGCC 59.037 45.455 19.38 3.29 43.71 3.93
715 717 6.607004 TTTCAAGACCAAACTTTTTGGGTA 57.393 33.333 19.38 0.65 43.71 3.69
873 880 2.092838 CGGAAGAGTTCGACAGATTTGC 59.907 50.000 0.00 0.00 0.00 3.68
916 939 0.886490 AATTGATGGAGATCCGCCGC 60.886 55.000 0.00 0.00 39.43 6.53
1377 1404 4.582701 TTGCCACCACAGAATAACAAAG 57.417 40.909 0.00 0.00 0.00 2.77
1402 1429 1.318158 GGATTCTTGCTGCCAGGTGG 61.318 60.000 0.50 0.00 38.53 4.61
1403 1430 1.651240 CGGATTCTTGCTGCCAGGTG 61.651 60.000 0.50 0.00 0.00 4.00
1404 1431 1.377725 CGGATTCTTGCTGCCAGGT 60.378 57.895 0.50 0.00 0.00 4.00
1406 1433 0.731417 CTTCGGATTCTTGCTGCCAG 59.269 55.000 0.00 0.00 0.00 4.85
1449 1476 1.004277 GCACATACCTTGGGGAACTGA 59.996 52.381 0.00 0.00 36.25 3.41
1454 1481 4.259694 TGGCACATACCTTGGGGA 57.740 55.556 0.00 0.00 36.25 4.81
1511 1538 5.814705 TGGCCACTTTGAACAATAAAGTTTG 59.185 36.000 0.00 0.00 43.71 2.93
1512 1539 5.815222 GTGGCCACTTTGAACAATAAAGTTT 59.185 36.000 29.12 0.00 43.71 2.66
1519 1546 2.624838 CTCAGTGGCCACTTTGAACAAT 59.375 45.455 36.06 9.39 40.20 2.71
1552 1590 3.642901 GAGCTAACGGAATGCTCGA 57.357 52.632 0.00 0.00 42.70 4.04
1646 1684 2.772287 GCTAGCCTAGGCAGGTAATTG 58.228 52.381 34.70 15.09 44.68 2.32
1670 1708 2.665649 TGTACACTACCGCATTCTGG 57.334 50.000 0.00 0.00 0.00 3.86
1677 1715 0.460311 AGCTCCATGTACACTACCGC 59.540 55.000 0.00 0.00 0.00 5.68
1681 1719 9.976511 GTAATATGTTTAGCTCCATGTACACTA 57.023 33.333 0.00 0.00 0.00 2.74
1732 1894 7.336396 ACTAAAATAATTGTCCTTCGTAGCCT 58.664 34.615 0.00 0.00 0.00 4.58
1754 1916 5.849510 TGCTACAGTGTTTTCTAGCAACTA 58.150 37.500 13.90 0.00 37.58 2.24
1768 1930 8.077991 TCTTGAAAATGAGAAATTGCTACAGTG 58.922 33.333 0.00 0.00 0.00 3.66
1789 1951 0.968405 GGCCCAAACAGCAATCTTGA 59.032 50.000 0.00 0.00 0.00 3.02
1906 2068 0.543277 ATTGCTCGATTGCCCAGAGA 59.457 50.000 0.00 0.00 34.13 3.10
1927 2089 1.207593 CAGCTGCCGCAAGTGTAAC 59.792 57.895 0.00 0.00 39.10 2.50
1938 2100 0.675837 TCAGAAGCACATCAGCTGCC 60.676 55.000 9.47 0.00 45.89 4.85
2063 2225 1.148048 GGCCTCTCCTGGATTCAGC 59.852 63.158 0.00 0.00 39.61 4.26
2293 2455 2.646798 AGGAAGAAGCAACCTTGAGGAT 59.353 45.455 3.59 0.00 38.94 3.24
2388 2550 6.560711 CCACACTGGCATAAATAAACTAACC 58.439 40.000 0.00 0.00 0.00 2.85
2605 2772 3.623510 CCCGTGAAAAGAGAGCCTATTTC 59.376 47.826 0.00 0.00 33.48 2.17
3008 3177 7.547227 AGTTTATGTCAGTTTATTGATTGCCC 58.453 34.615 0.00 0.00 0.00 5.36
3173 3426 1.636148 ACTACGTGTTAGGCCCTTCA 58.364 50.000 0.00 0.00 31.13 3.02
3186 3439 8.767478 AGTATGCAAACATTTACTTACTACGT 57.233 30.769 0.00 0.00 37.74 3.57
3230 3483 5.818678 TGGACCCCTTGTGTATATATGAC 57.181 43.478 0.00 0.00 0.00 3.06
3231 3484 6.833346 TTTGGACCCCTTGTGTATATATGA 57.167 37.500 0.00 0.00 0.00 2.15
3232 3485 9.231297 CTTATTTGGACCCCTTGTGTATATATG 57.769 37.037 0.00 0.00 0.00 1.78
3234 3487 7.573238 TCCTTATTTGGACCCCTTGTGTATATA 59.427 37.037 0.00 0.00 0.00 0.86
3268 3523 1.152673 GGGTCCATCCTTGCCCATC 60.153 63.158 0.00 0.00 40.76 3.51
3282 3537 5.162958 GGGTAGGATAGGATAGGATAGGGTC 60.163 52.000 0.00 0.00 0.00 4.46
3284 3539 4.737611 TGGGTAGGATAGGATAGGATAGGG 59.262 50.000 0.00 0.00 0.00 3.53
3285 3540 6.357015 TTGGGTAGGATAGGATAGGATAGG 57.643 45.833 0.00 0.00 0.00 2.57
3286 3541 7.189794 TGTTTGGGTAGGATAGGATAGGATAG 58.810 42.308 0.00 0.00 0.00 2.08
3288 3543 5.989717 TGTTTGGGTAGGATAGGATAGGAT 58.010 41.667 0.00 0.00 0.00 3.24
3289 3544 5.427857 TGTTTGGGTAGGATAGGATAGGA 57.572 43.478 0.00 0.00 0.00 2.94
3290 3545 5.607171 ACTTGTTTGGGTAGGATAGGATAGG 59.393 44.000 0.00 0.00 0.00 2.57
3292 3547 6.449956 AGACTTGTTTGGGTAGGATAGGATA 58.550 40.000 0.00 0.00 0.00 2.59
3305 3562 5.611374 TCACTCCTCTTAAGACTTGTTTGG 58.389 41.667 0.00 0.00 0.00 3.28
3311 3568 8.483758 TGTTTTAGTTCACTCCTCTTAAGACTT 58.516 33.333 0.00 0.00 0.00 3.01
3369 3626 7.755582 AACAAACAGTGAGCTCAAATAAAAC 57.244 32.000 20.19 3.82 0.00 2.43
3456 3713 3.793465 GCAACAACCTGTTTTCTCTCTGC 60.793 47.826 0.00 0.00 38.77 4.26
3483 3740 1.425031 CACGGTGCATTGGTCATCG 59.575 57.895 0.00 0.00 43.13 3.84
3530 3787 6.822676 ACTATTCTGCTCAAGAGGAAATGAAG 59.177 38.462 0.00 0.00 35.91 3.02
3576 3833 5.477637 GGATAGCTCGTAAGTAGAGGGAAAT 59.522 44.000 0.00 0.00 36.31 2.17
3594 3851 0.033109 AAAGGTGCCCCAAGGATAGC 60.033 55.000 0.00 0.00 33.47 2.97
3655 3913 5.398169 CCAGATGAGCGCTTATCTAACTAG 58.602 45.833 35.58 24.96 34.65 2.57
3656 3914 4.321304 GCCAGATGAGCGCTTATCTAACTA 60.321 45.833 35.58 6.56 34.65 2.24
3657 3915 3.553922 GCCAGATGAGCGCTTATCTAACT 60.554 47.826 35.58 17.82 34.65 2.24
3660 3918 1.963515 TGCCAGATGAGCGCTTATCTA 59.036 47.619 35.58 22.49 34.65 1.98
3667 3925 0.029035 CAGAAATGCCAGATGAGCGC 59.971 55.000 0.00 0.00 0.00 5.92
3677 3935 4.675510 CATACACACCATTCAGAAATGCC 58.324 43.478 0.00 0.00 40.85 4.40
3687 3945 1.683011 GCCTCCTGCATACACACCATT 60.683 52.381 0.00 0.00 40.77 3.16
3697 3955 1.452651 CATTGACGGCCTCCTGCAT 60.453 57.895 0.00 0.00 43.89 3.96
3714 3972 3.629855 TCTTCAAATTTCCAAGCGACACA 59.370 39.130 0.00 0.00 0.00 3.72
3715 3973 3.975035 GTCTTCAAATTTCCAAGCGACAC 59.025 43.478 0.00 0.00 0.00 3.67
3717 3975 3.226347 CGTCTTCAAATTTCCAAGCGAC 58.774 45.455 12.79 0.00 0.00 5.19
3720 3978 5.332707 GGATACGTCTTCAAATTTCCAAGC 58.667 41.667 0.00 0.00 0.00 4.01
3741 3999 3.697542 TCAATCTATCCTTGACGAACGGA 59.302 43.478 0.00 0.00 0.00 4.69
3756 4014 1.630369 AGTGTGCCCTTGCTCAATCTA 59.370 47.619 0.00 0.00 42.14 1.98
3760 4018 0.106769 TTCAGTGTGCCCTTGCTCAA 60.107 50.000 0.00 0.00 42.14 3.02
3764 4022 2.344535 ACATTCAGTGTGCCCTTGC 58.655 52.632 0.00 0.00 40.28 4.01
3804 4062 1.837538 TTTCAAAGCTTCCGCGGACG 61.838 55.000 31.19 28.33 42.32 4.79
3819 4077 1.879380 CTTCAGGCATTCCACGTTTCA 59.121 47.619 0.00 0.00 33.74 2.69
3883 4145 1.135660 GCAGCTAAGCCTTTTTCGACC 60.136 52.381 0.00 0.00 0.00 4.79
3897 4159 0.681887 AACAGCCATGCATGCAGCTA 60.682 50.000 27.95 6.01 45.94 3.32
3900 4162 1.809619 GCAACAGCCATGCATGCAG 60.810 57.895 26.69 14.50 43.29 4.41
3910 4172 2.028043 GCAACCACAGCAACAGCC 59.972 61.111 0.00 0.00 0.00 4.85
3921 4183 0.179032 ACTCACACGGAATGCAACCA 60.179 50.000 12.59 0.00 0.00 3.67
3923 4185 0.517316 GGACTCACACGGAATGCAAC 59.483 55.000 0.00 0.00 0.00 4.17
3936 4198 1.675219 GCGGTACCCAAAGGACTCA 59.325 57.895 6.25 0.00 36.73 3.41
3937 4199 1.078637 GGCGGTACCCAAAGGACTC 60.079 63.158 6.25 0.00 36.73 3.36
3968 4230 5.715753 CCTTACCTTCCTTCTGTACTGTACT 59.284 44.000 17.98 0.00 0.00 2.73
3969 4231 5.624052 GCCTTACCTTCCTTCTGTACTGTAC 60.624 48.000 10.98 10.98 0.00 2.90
3971 4233 3.261137 GCCTTACCTTCCTTCTGTACTGT 59.739 47.826 0.00 0.00 0.00 3.55
3978 4354 5.367060 CCAATACTAGCCTTACCTTCCTTCT 59.633 44.000 0.00 0.00 0.00 2.85
3981 4357 4.892198 TCCAATACTAGCCTTACCTTCCT 58.108 43.478 0.00 0.00 0.00 3.36
3987 4363 5.998363 CCTCCAAATCCAATACTAGCCTTAC 59.002 44.000 0.00 0.00 0.00 2.34
3988 4364 5.908831 TCCTCCAAATCCAATACTAGCCTTA 59.091 40.000 0.00 0.00 0.00 2.69
3989 4365 4.726825 TCCTCCAAATCCAATACTAGCCTT 59.273 41.667 0.00 0.00 0.00 4.35
3990 4366 4.307259 TCCTCCAAATCCAATACTAGCCT 58.693 43.478 0.00 0.00 0.00 4.58
3991 4367 4.706842 TCCTCCAAATCCAATACTAGCC 57.293 45.455 0.00 0.00 0.00 3.93
3992 4368 5.006386 CCATCCTCCAAATCCAATACTAGC 58.994 45.833 0.00 0.00 0.00 3.42
3993 4369 5.006386 GCCATCCTCCAAATCCAATACTAG 58.994 45.833 0.00 0.00 0.00 2.57
3994 4370 4.504864 CGCCATCCTCCAAATCCAATACTA 60.505 45.833 0.00 0.00 0.00 1.82
3995 4371 3.748668 CGCCATCCTCCAAATCCAATACT 60.749 47.826 0.00 0.00 0.00 2.12
4020 4396 6.575244 AACACATGGGTCATTATCTCCTTA 57.425 37.500 0.00 0.00 0.00 2.69
4041 4417 2.861147 AGGGACAGGCACTAGAAAAC 57.139 50.000 0.00 0.00 36.02 2.43
4051 4427 4.576463 CACATTAAGATTGTAGGGACAGGC 59.424 45.833 0.00 0.00 36.76 4.85
4101 4483 8.664992 TGGTAGCCTGATTATATAAACCATCAA 58.335 33.333 8.29 0.00 29.85 2.57
4102 4484 8.213489 TGGTAGCCTGATTATATAAACCATCA 57.787 34.615 8.29 3.48 29.85 3.07
4103 4485 9.686683 AATGGTAGCCTGATTATATAAACCATC 57.313 33.333 19.12 6.55 42.74 3.51
4104 4486 9.686683 GAATGGTAGCCTGATTATATAAACCAT 57.313 33.333 15.44 15.44 44.82 3.55
4105 4487 8.890472 AGAATGGTAGCCTGATTATATAAACCA 58.110 33.333 12.92 12.92 38.72 3.67
4117 4520 4.289672 AGGAAAAAGAGAATGGTAGCCTGA 59.710 41.667 0.00 0.00 0.00 3.86
4118 4521 4.593956 AGGAAAAAGAGAATGGTAGCCTG 58.406 43.478 0.00 0.00 0.00 4.85
4152 4555 4.067896 ACTGACACTGGATGTTAAAGCAG 58.932 43.478 0.00 0.00 43.56 4.24
4164 4567 3.845178 TCAGCGTATAAACTGACACTGG 58.155 45.455 2.55 0.00 37.99 4.00
4166 4569 5.103000 GTCATCAGCGTATAAACTGACACT 58.897 41.667 7.85 0.00 45.19 3.55
4192 4595 1.548269 ACGCCCCACCAAACAATTATG 59.452 47.619 0.00 0.00 0.00 1.90
4234 4637 2.596346 TGGGTGCAACAGATGATTTGT 58.404 42.857 3.06 0.00 39.98 2.83
4301 4732 0.398696 TTGCCCGCAGACTCCTTAAA 59.601 50.000 0.00 0.00 0.00 1.52
4302 4733 0.398696 TTTGCCCGCAGACTCCTTAA 59.601 50.000 0.00 0.00 0.00 1.85
4303 4734 0.618458 ATTTGCCCGCAGACTCCTTA 59.382 50.000 0.00 0.00 0.00 2.69
4306 4737 1.017387 CTAATTTGCCCGCAGACTCC 58.983 55.000 0.00 0.00 0.00 3.85
4308 4739 2.420129 CCTACTAATTTGCCCGCAGACT 60.420 50.000 0.00 0.00 0.00 3.24
4310 4741 1.745827 GCCTACTAATTTGCCCGCAGA 60.746 52.381 0.00 0.00 0.00 4.26
4311 4742 0.663153 GCCTACTAATTTGCCCGCAG 59.337 55.000 0.00 0.00 0.00 5.18
4312 4743 0.254747 AGCCTACTAATTTGCCCGCA 59.745 50.000 0.00 0.00 0.00 5.69
4313 4744 1.333931 GAAGCCTACTAATTTGCCCGC 59.666 52.381 0.00 0.00 0.00 6.13
4314 4745 1.947456 GGAAGCCTACTAATTTGCCCG 59.053 52.381 0.00 0.00 0.00 6.13
4315 4746 2.307768 GGGAAGCCTACTAATTTGCCC 58.692 52.381 0.00 0.00 0.00 5.36
4351 6299 0.034896 GGTGGACTTTCTTCAGGCGA 59.965 55.000 0.00 0.00 0.00 5.54
4365 6331 0.834612 AAACACGAACTGGAGGTGGA 59.165 50.000 0.00 0.00 36.02 4.02
4366 6332 0.944386 CAAACACGAACTGGAGGTGG 59.056 55.000 0.00 0.00 36.02 4.61
4367 6333 1.948104 TCAAACACGAACTGGAGGTG 58.052 50.000 0.00 0.00 37.67 4.00
4368 6334 2.767505 GATCAAACACGAACTGGAGGT 58.232 47.619 0.00 0.00 0.00 3.85
4369 6335 1.726791 CGATCAAACACGAACTGGAGG 59.273 52.381 0.00 0.00 0.00 4.30
4370 6336 1.126846 GCGATCAAACACGAACTGGAG 59.873 52.381 0.00 0.00 0.00 3.86
4371 6337 1.144969 GCGATCAAACACGAACTGGA 58.855 50.000 0.00 0.00 0.00 3.86
4372 6338 0.865111 TGCGATCAAACACGAACTGG 59.135 50.000 0.00 0.00 0.00 4.00
4373 6339 2.157474 TGATGCGATCAAACACGAACTG 59.843 45.455 0.00 0.00 36.11 3.16
4576 6542 0.257328 TTGCACTTCCCACCTGTCAA 59.743 50.000 0.00 0.00 0.00 3.18
4606 7335 0.742281 CTGACGAGGACAGCCATTGG 60.742 60.000 0.00 0.00 36.29 3.16
4638 7367 5.337491 GCATGGAAGTTCATAACCAAACCAT 60.337 40.000 5.01 0.00 36.00 3.55
4639 7368 4.021544 GCATGGAAGTTCATAACCAAACCA 60.022 41.667 5.01 0.00 36.00 3.67
4640 7369 4.494484 GCATGGAAGTTCATAACCAAACC 58.506 43.478 5.01 0.00 36.00 3.27
4679 7409 0.462759 GCAGCGGCAAATAGGTCTCT 60.463 55.000 3.18 0.00 40.72 3.10
4680 7410 0.462759 AGCAGCGGCAAATAGGTCTC 60.463 55.000 12.44 0.00 44.61 3.36
4681 7411 0.830648 TAGCAGCGGCAAATAGGTCT 59.169 50.000 12.44 0.00 44.61 3.85
4682 7412 0.938008 GTAGCAGCGGCAAATAGGTC 59.062 55.000 12.44 0.00 44.61 3.85
4683 7413 0.463833 GGTAGCAGCGGCAAATAGGT 60.464 55.000 12.44 0.00 44.61 3.08
4684 7414 0.463654 TGGTAGCAGCGGCAAATAGG 60.464 55.000 12.44 0.00 44.61 2.57
4685 7415 0.657840 GTGGTAGCAGCGGCAAATAG 59.342 55.000 12.44 0.00 44.61 1.73
4686 7416 0.746563 GGTGGTAGCAGCGGCAAATA 60.747 55.000 12.44 0.00 44.61 1.40
4687 7417 2.046285 GGTGGTAGCAGCGGCAAAT 61.046 57.895 12.44 0.00 44.61 2.32
4688 7418 2.671619 GGTGGTAGCAGCGGCAAA 60.672 61.111 12.44 0.00 44.61 3.68
4694 7424 3.423154 GTGCACGGTGGTAGCAGC 61.423 66.667 13.98 13.98 39.21 5.25
4699 7429 2.263227 CCGATGTGCACGGTGGTA 59.737 61.111 13.13 0.00 44.57 3.25
4705 7435 2.474266 CCGTTTCCGATGTGCACG 59.526 61.111 13.13 0.00 35.63 5.34
4707 7437 3.418913 CGCCGTTTCCGATGTGCA 61.419 61.111 0.00 0.00 35.63 4.57
4710 7440 1.864176 GAAACGCCGTTTCCGATGT 59.136 52.632 27.66 0.00 44.04 3.06
4717 7447 0.883370 GACTCCCAGAAACGCCGTTT 60.883 55.000 16.07 16.07 38.54 3.60
4720 7450 2.434359 GGACTCCCAGAAACGCCG 60.434 66.667 0.00 0.00 0.00 6.46
4736 7466 3.555586 CCAAAAGAACCAAATCCAGCTGG 60.556 47.826 27.87 27.87 38.77 4.85
4737 7467 3.555586 CCCAAAAGAACCAAATCCAGCTG 60.556 47.826 6.78 6.78 0.00 4.24
4738 7468 2.634453 CCCAAAAGAACCAAATCCAGCT 59.366 45.455 0.00 0.00 0.00 4.24
4740 7470 4.687901 AACCCAAAAGAACCAAATCCAG 57.312 40.909 0.00 0.00 0.00 3.86
4742 7472 4.578516 CCAAAACCCAAAAGAACCAAATCC 59.421 41.667 0.00 0.00 0.00 3.01
4743 7473 5.189928 ACCAAAACCCAAAAGAACCAAATC 58.810 37.500 0.00 0.00 0.00 2.17
4744 7474 5.186256 ACCAAAACCCAAAAGAACCAAAT 57.814 34.783 0.00 0.00 0.00 2.32
4745 7475 4.642466 ACCAAAACCCAAAAGAACCAAA 57.358 36.364 0.00 0.00 0.00 3.28
4746 7476 4.287326 AGAACCAAAACCCAAAAGAACCAA 59.713 37.500 0.00 0.00 0.00 3.67
4748 7478 4.481368 AGAACCAAAACCCAAAAGAACC 57.519 40.909 0.00 0.00 0.00 3.62
4751 7481 4.697828 GCAAAAGAACCAAAACCCAAAAGA 59.302 37.500 0.00 0.00 0.00 2.52
4752 7482 4.142491 GGCAAAAGAACCAAAACCCAAAAG 60.142 41.667 0.00 0.00 0.00 2.27
4753 7483 3.759086 GGCAAAAGAACCAAAACCCAAAA 59.241 39.130 0.00 0.00 0.00 2.44
4754 7484 3.348119 GGCAAAAGAACCAAAACCCAAA 58.652 40.909 0.00 0.00 0.00 3.28
4755 7485 2.678190 CGGCAAAAGAACCAAAACCCAA 60.678 45.455 0.00 0.00 0.00 4.12
4756 7486 1.134670 CGGCAAAAGAACCAAAACCCA 60.135 47.619 0.00 0.00 0.00 4.51
4757 7487 1.577468 CGGCAAAAGAACCAAAACCC 58.423 50.000 0.00 0.00 0.00 4.11
4758 7488 0.934496 GCGGCAAAAGAACCAAAACC 59.066 50.000 0.00 0.00 0.00 3.27
4759 7489 0.934496 GGCGGCAAAAGAACCAAAAC 59.066 50.000 3.07 0.00 0.00 2.43
4760 7490 0.179070 GGGCGGCAAAAGAACCAAAA 60.179 50.000 12.47 0.00 0.00 2.44
4762 7492 2.503382 GGGGCGGCAAAAGAACCAA 61.503 57.895 12.47 0.00 0.00 3.67
4763 7493 2.915137 GGGGCGGCAAAAGAACCA 60.915 61.111 12.47 0.00 0.00 3.67
4764 7494 2.600470 AGGGGCGGCAAAAGAACC 60.600 61.111 12.47 0.00 0.00 3.62
4765 7495 1.587043 GAGAGGGGCGGCAAAAGAAC 61.587 60.000 12.47 0.00 0.00 3.01
4766 7496 1.303317 GAGAGGGGCGGCAAAAGAA 60.303 57.895 12.47 0.00 0.00 2.52
4767 7497 2.351276 GAGAGGGGCGGCAAAAGA 59.649 61.111 12.47 0.00 0.00 2.52
4768 7498 2.751837 GGAGAGGGGCGGCAAAAG 60.752 66.667 12.47 0.00 0.00 2.27
4769 7499 4.360405 GGGAGAGGGGCGGCAAAA 62.360 66.667 12.47 0.00 0.00 2.44
4814 7700 5.954757 CCTATCCTTGAAGGGAGTACTCTA 58.045 45.833 21.88 2.35 38.92 2.43
4815 7701 4.810345 CCTATCCTTGAAGGGAGTACTCT 58.190 47.826 21.88 2.62 38.92 3.24


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

AutoCloner maintained by Alex Coulton.