Multiple sequence alignment - TraesCS7D01G061600

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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 TraesCS7D01G061600 chr7D 100.000 8615 0 0 1 8615 33433207 33441821 0.000000e+00 15910.0
1 TraesCS7D01G061600 chr7A 98.046 5527 77 15 2287 7805 33887765 33893268 0.000000e+00 9579.0
2 TraesCS7D01G061600 chr7A 98.464 1693 15 4 613 2298 33885893 33887581 0.000000e+00 2972.0
3 TraesCS7D01G061600 chr7A 97.577 619 11 1 1 615 33885180 33885798 0.000000e+00 1057.0
4 TraesCS7D01G061600 chr7A 89.872 780 51 14 7838 8615 33893259 33894012 0.000000e+00 977.0
5 TraesCS7D01G061600 chr7A 100.000 48 0 0 2873 2920 112776922 112776969 1.190000e-13 89.8
6 TraesCS7D01G061600 chr7A 100.000 48 0 0 2873 2920 112786304 112786257 1.190000e-13 89.8
7 TraesCS7D01G061600 chr7A 100.000 48 0 0 2873 2920 112799803 112799850 1.190000e-13 89.8
8 TraesCS7D01G061600 chr3B 79.029 453 74 11 2287 2732 668074118 668074556 3.040000e-74 291.0
9 TraesCS7D01G061600 chr3B 80.235 425 49 18 1899 2289 668073393 668073816 3.940000e-73 287.0
10 TraesCS7D01G061600 chr3D 78.808 453 74 12 2287 2732 506176387 506176824 1.420000e-72 285.0
11 TraesCS7D01G061600 chr3D 87.500 72 3 3 2856 2921 361384532 361384603 2.580000e-10 78.7
12 TraesCS7D01G061600 chr6D 100.000 48 0 0 2873 2920 155253560 155253513 1.190000e-13 89.8
13 TraesCS7D01G061600 chr5B 100.000 48 0 0 2873 2920 567789522 567789569 1.190000e-13 89.8
14 TraesCS7D01G061600 chr2D 98.039 51 1 0 2870 2920 622916694 622916744 1.190000e-13 89.8
15 TraesCS7D01G061600 chr6B 90.476 63 5 1 2859 2920 45803959 45804021 1.990000e-11 82.4


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 TraesCS7D01G061600 chr7D 33433207 33441821 8614 False 15910.00 15910 100.00000 1 8615 1 chr7D.!!$F1 8614
1 TraesCS7D01G061600 chr7A 33885180 33894012 8832 False 3646.25 9579 95.98975 1 8615 4 chr7A.!!$F3 8614
2 TraesCS7D01G061600 chr3B 668073393 668074556 1163 False 289.00 291 79.63200 1899 2732 2 chr3B.!!$F1 833

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
588 593 1.064685 CCCCTTACCATGAACCTCACC 60.065 57.143 0.00 0.0 0.00 4.02 F
683 785 2.037772 ACTTTGGATCTTGCTCTGTCGT 59.962 45.455 0.00 0.0 0.00 4.34 F
831 934 4.035441 CCCAACAAATTTTCCAGTGCTTTG 59.965 41.667 0.00 0.0 33.98 2.77 F
1498 1601 1.303074 CTGGCCATGTCTGCAGTGT 60.303 57.895 14.67 0.0 0.00 3.55 F
2755 3199 2.305927 CCACCCCAACTGAATCACTACT 59.694 50.000 0.00 0.0 0.00 2.57 F
3372 3816 1.452108 CTCGGCCAGTGGATTTCCC 60.452 63.158 15.20 2.6 34.29 3.97 F
4048 4494 0.323451 GGAGACCGGAAAAGGGCAAT 60.323 55.000 9.46 0.0 43.43 3.56 F
4885 5332 0.892755 TCTGTTTCGGCGGTGAGTAT 59.107 50.000 7.21 0.0 0.00 2.12 F
5612 6059 1.777272 ACCAGACAAGGCTCTTTCCTT 59.223 47.619 0.00 0.0 46.86 3.36 F
6391 6842 0.247460 GCCATTTTCAGGGGAGTTGC 59.753 55.000 0.00 0.0 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1487 1590 0.104855 GAGACACCACACTGCAGACA 59.895 55.000 23.35 0.00 0.00 3.41 R
1498 1601 2.523168 TGACGGCCAGAGACACCA 60.523 61.111 2.24 0.00 0.00 4.17 R
2755 3199 1.217183 AGGGTCTAGCGGTGAGGAATA 59.783 52.381 0.00 0.00 0.00 1.75 R
3027 3471 5.178797 TCTAGCTCTTTTCAATACCAGTGC 58.821 41.667 0.00 0.00 0.00 4.40 R
4048 4494 0.397941 CTGTCAAGACCCTTCAGCCA 59.602 55.000 0.00 0.00 0.00 4.75 R
4404 4851 2.764314 CCGCTGGCAATTTCCCTCG 61.764 63.158 0.00 0.00 0.00 4.63 R
5994 6441 1.167851 TTGGCTATGCACTGCAGAAC 58.832 50.000 23.35 12.31 43.65 3.01 R
6391 6842 0.740868 CATGGTAGTGCGTGGGTCTG 60.741 60.000 0.00 0.00 0.00 3.51 R
7087 7538 1.406751 CCGTCACAGGTATCATTGGCA 60.407 52.381 0.00 0.00 0.00 4.92 R
7938 8389 0.534203 GCCGGTCAAGGAAGTTCACA 60.534 55.000 1.90 0.00 0.00 3.58 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
79 80 6.266558 GGGGTATGGCTATGACTATGATAGAG 59.733 46.154 6.45 0.00 0.00 2.43
80 81 6.836527 GGGTATGGCTATGACTATGATAGAGT 59.163 42.308 6.45 0.00 0.00 3.24
156 157 3.392882 CTCCAAGGGCAATGTTTTCAAC 58.607 45.455 0.00 0.00 0.00 3.18
157 158 2.103941 TCCAAGGGCAATGTTTTCAACC 59.896 45.455 0.00 0.00 0.00 3.77
180 181 5.293569 CCAAGTTTGGTCCGATAATAGACAC 59.706 44.000 2.66 0.00 43.43 3.67
524 529 8.304596 TCTTACTGTACTCATCTTTGTAACAGG 58.695 37.037 0.00 0.00 0.00 4.00
561 566 5.976458 TCCTTTTCAATCCCATACATTTGC 58.024 37.500 0.00 0.00 0.00 3.68
588 593 1.064685 CCCCTTACCATGAACCTCACC 60.065 57.143 0.00 0.00 0.00 4.02
632 734 7.328737 CCTTCTAGTATATTACCCATTTCCCG 58.671 42.308 0.00 0.00 0.00 5.14
682 784 2.414481 CACTTTGGATCTTGCTCTGTCG 59.586 50.000 0.00 0.00 0.00 4.35
683 785 2.037772 ACTTTGGATCTTGCTCTGTCGT 59.962 45.455 0.00 0.00 0.00 4.34
831 934 4.035441 CCCAACAAATTTTCCAGTGCTTTG 59.965 41.667 0.00 0.00 33.98 2.77
871 974 9.706691 CTTCATAATAGCCTATTCCTAAACGAA 57.293 33.333 0.00 0.00 0.00 3.85
894 997 7.905493 CGAACTAGGATTCAGTTTTCTATTTGC 59.095 37.037 0.00 0.00 36.38 3.68
1487 1590 7.673180 CAAATTGGAATATATTCACTGGCCAT 58.327 34.615 23.54 0.00 38.53 4.40
1498 1601 1.303074 CTGGCCATGTCTGCAGTGT 60.303 57.895 14.67 0.00 0.00 3.55
1559 1662 9.574516 AGGTAGAAATTTACTGAACTCAACATT 57.425 29.630 0.00 0.00 0.00 2.71
2212 2348 2.829720 ACATGATGGAAATTGCTGCACT 59.170 40.909 0.00 0.00 0.00 4.40
2625 3069 4.322274 GCGTGCATGAAATTAAAAGCGTAA 59.678 37.500 10.93 0.00 0.00 3.18
2626 3070 5.496969 GCGTGCATGAAATTAAAAGCGTAAG 60.497 40.000 10.93 0.00 43.44 2.34
2627 3071 5.003402 CGTGCATGAAATTAAAAGCGTAAGG 59.997 40.000 0.00 0.00 38.28 2.69
2629 3073 6.033513 GTGCATGAAATTAAAAGCGTAAGGAC 59.966 38.462 0.00 0.00 38.28 3.85
2753 3197 2.626785 TCCACCCCAACTGAATCACTA 58.373 47.619 0.00 0.00 0.00 2.74
2755 3199 2.305927 CCACCCCAACTGAATCACTACT 59.694 50.000 0.00 0.00 0.00 2.57
3027 3471 6.047231 TCTCAACTCTGAACATGCAGATATG 58.953 40.000 3.82 6.41 43.43 1.78
3070 3514 7.513968 GCTAGATAAGCGTCCAAATTAGATTG 58.486 38.462 0.00 0.00 42.53 2.67
3301 3745 8.939929 TGCTCTTATTGTTACTGAGATTTTCTG 58.060 33.333 0.00 0.00 0.00 3.02
3372 3816 1.452108 CTCGGCCAGTGGATTTCCC 60.452 63.158 15.20 2.60 34.29 3.97
3402 3846 5.541845 CTTTATGGATCTGTTCTATCCGCA 58.458 41.667 0.00 0.00 45.05 5.69
3423 3867 4.630069 GCACCTTTGGTATACACACACTAG 59.370 45.833 5.01 0.00 32.11 2.57
3566 4010 6.523201 GCTAACAAGGTGATGTCAAATTTACG 59.477 38.462 0.00 0.00 31.81 3.18
3652 4096 5.928839 CAGTGTCTTGGAGTGGCATATATAC 59.071 44.000 0.00 0.00 0.00 1.47
3867 4311 6.078456 TGGGATGGTATGTTCTTCTTTCAT 57.922 37.500 0.00 0.00 0.00 2.57
3916 4360 8.158132 TCCACAAAGTTTGGTACTATGATAACA 58.842 33.333 19.45 0.00 35.54 2.41
3917 4361 8.234546 CCACAAAGTTTGGTACTATGATAACAC 58.765 37.037 19.45 0.00 35.54 3.32
3919 4363 9.344772 ACAAAGTTTGGTACTATGATAACACAA 57.655 29.630 19.45 0.00 35.54 3.33
3920 4364 9.607285 CAAAGTTTGGTACTATGATAACACAAC 57.393 33.333 7.78 0.00 35.54 3.32
3921 4365 8.911918 AAGTTTGGTACTATGATAACACAACA 57.088 30.769 0.00 0.00 35.54 3.33
3922 4366 8.547967 AGTTTGGTACTATGATAACACAACAG 57.452 34.615 0.00 0.00 34.56 3.16
3923 4367 6.978343 TTGGTACTATGATAACACAACAGC 57.022 37.500 0.00 0.00 0.00 4.40
3984 4429 7.921786 TGCATGAACAGTTAGCTAGTAATTT 57.078 32.000 0.00 0.00 0.00 1.82
4031 4477 5.667539 TGTCACCAACAAAAAGAAATGGA 57.332 34.783 0.00 0.00 34.03 3.41
4048 4494 0.323451 GGAGACCGGAAAAGGGCAAT 60.323 55.000 9.46 0.00 43.43 3.56
4071 4517 2.746362 GCTGAAGGGTCTTGACAGATTG 59.254 50.000 0.00 0.00 0.00 2.67
4393 4840 9.892130 AGTCTCTTTTGAGTTATATTTCGGAAT 57.108 29.630 0.00 0.00 46.30 3.01
4410 4857 3.181479 CGGAATTATTCACTGACGAGGGA 60.181 47.826 7.29 0.00 0.00 4.20
4467 4914 2.229062 GCCAGAAGAAAAAGGGCACTAC 59.771 50.000 0.00 0.00 44.01 2.73
4498 4945 9.555727 TGTATATCACTATTGGTAAAAAGCTCC 57.444 33.333 0.00 0.00 0.00 4.70
4552 4999 8.378172 TGCTGCATATTTTTGTAGGTACTATC 57.622 34.615 0.00 0.00 45.60 2.08
4603 5050 7.095607 GGAATAGTATCTCAATGTTGCTTACCG 60.096 40.741 0.00 0.00 0.00 4.02
4722 5169 8.527810 TCACATGTCTGACTGTATGTTGTATTA 58.472 33.333 9.51 0.00 31.84 0.98
4885 5332 0.892755 TCTGTTTCGGCGGTGAGTAT 59.107 50.000 7.21 0.00 0.00 2.12
4904 5351 9.988350 GTGAGTATCTTAATGTTGGTTACAATG 57.012 33.333 0.00 0.00 36.66 2.82
5040 5487 2.328099 GGACTGGCCTGAAGTTGCG 61.328 63.158 17.64 0.00 0.00 4.85
5094 5541 6.437162 AGCCAAAGCAGGAGATTATAACAAAA 59.563 34.615 0.00 0.00 43.56 2.44
5171 5618 4.226427 AGTAAGGATGCTTTGATCTGCA 57.774 40.909 4.26 10.09 43.67 4.41
5203 5650 4.520179 TGTCCATTCTGAATCCTCACATG 58.480 43.478 0.00 0.00 0.00 3.21
5612 6059 1.777272 ACCAGACAAGGCTCTTTCCTT 59.223 47.619 0.00 0.00 46.86 3.36
5687 6134 2.467880 GAATCCTCCCTGGTCAGTGTA 58.532 52.381 0.00 0.00 37.07 2.90
6109 6556 8.141298 TGTATTTATCTTCTACTGGTGACCAA 57.859 34.615 5.53 0.00 30.80 3.67
6134 6581 4.952957 TCATGTTCAACCTTCTTCAAACCA 59.047 37.500 0.00 0.00 0.00 3.67
6176 6623 6.352516 TGCCTTTTTAACCATTTGTGTTCAT 58.647 32.000 0.00 0.00 0.00 2.57
6283 6734 5.592688 TGATTTTTACCTAACTAGCCATGCC 59.407 40.000 0.00 0.00 0.00 4.40
6388 6839 2.629017 AATGCCATTTTCAGGGGAGT 57.371 45.000 0.00 0.00 0.00 3.85
6391 6842 0.247460 GCCATTTTCAGGGGAGTTGC 59.753 55.000 0.00 0.00 0.00 4.17
6427 6878 2.941064 CCATGTGCTGTTCGATGAGAAT 59.059 45.455 0.00 0.00 41.49 2.40
6960 7411 5.278758 CCGATTTGTGGGTTAACAATCTTGT 60.279 40.000 8.10 0.00 44.72 3.16
6961 7412 5.629020 CGATTTGTGGGTTAACAATCTTGTG 59.371 40.000 8.10 0.00 41.31 3.33
6962 7413 6.514212 CGATTTGTGGGTTAACAATCTTGTGA 60.514 38.462 8.10 0.00 41.31 3.58
6963 7414 5.766150 TTGTGGGTTAACAATCTTGTGAG 57.234 39.130 8.10 0.00 41.31 3.51
6964 7415 5.042463 TGTGGGTTAACAATCTTGTGAGA 57.958 39.130 8.10 0.00 41.31 3.27
6965 7416 5.441500 TGTGGGTTAACAATCTTGTGAGAA 58.558 37.500 8.10 0.00 41.31 2.87
6985 7436 8.184192 GTGAGAATATTTGTGGTATGTTTCCTG 58.816 37.037 0.00 0.00 0.00 3.86
7087 7538 3.658725 ACCAGACACCCTCTGCTAATAT 58.341 45.455 0.00 0.00 44.80 1.28
7106 7557 2.022764 TGCCAATGATACCTGTGACG 57.977 50.000 0.00 0.00 0.00 4.35
7111 7562 1.568504 ATGATACCTGTGACGGTGGT 58.431 50.000 8.90 4.97 37.93 4.16
7421 7872 4.924305 AACTTGAAAGCAGCTTCATTCA 57.076 36.364 8.48 5.99 35.31 2.57
7630 8081 1.002624 TGAATTCGAGGTGGTGGGC 60.003 57.895 0.04 0.00 0.00 5.36
7631 8082 1.299976 GAATTCGAGGTGGTGGGCT 59.700 57.895 0.00 0.00 0.00 5.19
7653 8104 5.751028 GCTGAACTATTATCGTCTTTGCTCT 59.249 40.000 0.00 0.00 0.00 4.09
7666 8117 0.827507 TTGCTCTGAAACTTGGCCCC 60.828 55.000 0.00 0.00 0.00 5.80
7668 8119 1.770324 CTCTGAAACTTGGCCCCCT 59.230 57.895 0.00 0.00 0.00 4.79
7669 8120 0.610232 CTCTGAAACTTGGCCCCCTG 60.610 60.000 0.00 0.00 0.00 4.45
7683 8134 0.827507 CCCCTGGGTCACCTTTTGTG 60.828 60.000 12.71 0.00 46.88 3.33
7694 8145 5.531287 GGTCACCTTTTGTGTATTCAGAGTT 59.469 40.000 0.00 0.00 45.61 3.01
7696 8147 6.038271 GTCACCTTTTGTGTATTCAGAGTTGT 59.962 38.462 0.00 0.00 45.61 3.32
7709 8160 1.765314 AGAGTTGTGACTTGTGAGGCT 59.235 47.619 0.00 0.00 35.88 4.58
7714 8165 3.599730 TGTGACTTGTGAGGCTGATAG 57.400 47.619 0.00 0.00 0.00 2.08
7745 8196 3.636282 AAATTTCGCTAACGTTGGCTT 57.364 38.095 30.08 17.12 41.18 4.35
7773 8224 7.545362 AGTTTTGGATACGAAGATTCAGATG 57.455 36.000 0.00 0.00 42.18 2.90
7798 8249 1.875996 CGGTTGTGCATGTACCTGTCA 60.876 52.381 11.66 0.00 0.00 3.58
7799 8250 1.806542 GGTTGTGCATGTACCTGTCAG 59.193 52.381 11.66 0.00 0.00 3.51
7800 8251 2.549992 GGTTGTGCATGTACCTGTCAGA 60.550 50.000 11.66 0.00 0.00 3.27
7801 8252 3.338249 GTTGTGCATGTACCTGTCAGAT 58.662 45.455 11.66 0.00 0.00 2.90
7802 8253 4.503910 GTTGTGCATGTACCTGTCAGATA 58.496 43.478 11.66 0.00 0.00 1.98
7803 8254 5.118990 GTTGTGCATGTACCTGTCAGATAT 58.881 41.667 11.66 0.00 0.00 1.63
7804 8255 4.948847 TGTGCATGTACCTGTCAGATATC 58.051 43.478 11.66 0.00 0.00 1.63
7805 8256 4.405358 TGTGCATGTACCTGTCAGATATCA 59.595 41.667 11.66 0.00 0.00 2.15
7806 8257 5.070847 TGTGCATGTACCTGTCAGATATCAT 59.929 40.000 11.66 0.00 0.00 2.45
7807 8258 5.407691 GTGCATGTACCTGTCAGATATCATG 59.592 44.000 5.32 10.99 35.85 3.07
7808 8259 4.934001 GCATGTACCTGTCAGATATCATGG 59.066 45.833 18.88 2.19 34.13 3.66
7809 8260 5.279657 GCATGTACCTGTCAGATATCATGGA 60.280 44.000 18.88 0.00 34.13 3.41
7810 8261 6.575847 GCATGTACCTGTCAGATATCATGGAT 60.576 42.308 18.88 0.00 34.13 3.41
7811 8262 7.364144 GCATGTACCTGTCAGATATCATGGATA 60.364 40.741 18.88 0.00 34.13 2.59
7812 8263 8.702819 CATGTACCTGTCAGATATCATGGATAT 58.297 37.037 5.32 0.00 37.87 1.63
7813 8264 8.071177 TGTACCTGTCAGATATCATGGATATG 57.929 38.462 5.32 0.00 35.64 1.78
7814 8265 7.675619 TGTACCTGTCAGATATCATGGATATGT 59.324 37.037 5.32 4.29 35.64 2.29
7815 8266 9.190317 GTACCTGTCAGATATCATGGATATGTA 57.810 37.037 5.32 3.46 35.64 2.29
7816 8267 8.851106 ACCTGTCAGATATCATGGATATGTAT 57.149 34.615 5.32 0.00 35.64 2.29
7817 8268 8.702819 ACCTGTCAGATATCATGGATATGTATG 58.297 37.037 5.32 1.43 35.64 2.39
7818 8269 8.148999 CCTGTCAGATATCATGGATATGTATGG 58.851 40.741 5.32 0.00 35.64 2.74
7819 8270 8.613922 TGTCAGATATCATGGATATGTATGGT 57.386 34.615 5.32 0.00 35.64 3.55
7820 8271 8.480501 TGTCAGATATCATGGATATGTATGGTG 58.519 37.037 5.32 0.00 35.64 4.17
7821 8272 7.440556 GTCAGATATCATGGATATGTATGGTGC 59.559 40.741 5.32 0.00 35.64 5.01
7822 8273 7.346436 TCAGATATCATGGATATGTATGGTGCT 59.654 37.037 5.32 0.00 35.64 4.40
7823 8274 7.991460 CAGATATCATGGATATGTATGGTGCTT 59.009 37.037 5.32 0.00 35.64 3.91
7824 8275 9.217336 AGATATCATGGATATGTATGGTGCTTA 57.783 33.333 5.32 0.00 35.64 3.09
7825 8276 9.486497 GATATCATGGATATGTATGGTGCTTAG 57.514 37.037 3.60 0.00 35.64 2.18
7826 8277 5.491070 TCATGGATATGTATGGTGCTTAGC 58.509 41.667 0.00 0.00 35.73 3.09
7827 8278 4.972751 TGGATATGTATGGTGCTTAGCA 57.027 40.909 1.39 1.39 35.60 3.49
7828 8279 5.503634 TGGATATGTATGGTGCTTAGCAT 57.496 39.130 11.03 0.00 41.91 3.79
7829 8280 5.879763 TGGATATGTATGGTGCTTAGCATT 58.120 37.500 11.03 1.24 41.91 3.56
7830 8281 5.939883 TGGATATGTATGGTGCTTAGCATTC 59.060 40.000 11.03 6.87 41.91 2.67
7831 8282 5.939883 GGATATGTATGGTGCTTAGCATTCA 59.060 40.000 11.03 12.59 41.91 2.57
7832 8283 6.093219 GGATATGTATGGTGCTTAGCATTCAG 59.907 42.308 11.03 0.00 41.91 3.02
7833 8284 4.220693 TGTATGGTGCTTAGCATTCAGT 57.779 40.909 11.03 5.67 41.91 3.41
7834 8285 4.588899 TGTATGGTGCTTAGCATTCAGTT 58.411 39.130 11.03 1.50 41.91 3.16
7835 8286 5.009631 TGTATGGTGCTTAGCATTCAGTTT 58.990 37.500 11.03 0.82 41.91 2.66
7836 8287 5.476599 TGTATGGTGCTTAGCATTCAGTTTT 59.523 36.000 11.03 0.48 41.91 2.43
7837 8288 4.935352 TGGTGCTTAGCATTCAGTTTTT 57.065 36.364 11.03 0.00 41.91 1.94
7838 8289 4.619973 TGGTGCTTAGCATTCAGTTTTTG 58.380 39.130 11.03 0.00 41.91 2.44
7839 8290 4.099266 TGGTGCTTAGCATTCAGTTTTTGT 59.901 37.500 11.03 0.00 41.91 2.83
7840 8291 4.445385 GGTGCTTAGCATTCAGTTTTTGTG 59.555 41.667 11.03 0.00 41.91 3.33
7844 8295 5.050837 GCTTAGCATTCAGTTTTTGTGGTTG 60.051 40.000 0.00 0.00 0.00 3.77
7856 8307 3.386768 TTGTGGTTGTCTCTAGAGTGC 57.613 47.619 19.21 13.51 0.00 4.40
7879 8330 8.349983 GTGCTTTGTTCTTCTAAATGGAACTAA 58.650 33.333 0.00 0.00 39.73 2.24
7939 8390 4.956085 TCCATATTGGAGGATTACACGTG 58.044 43.478 15.48 15.48 42.67 4.49
7944 8395 3.034721 TGGAGGATTACACGTGTGAAC 57.965 47.619 30.83 20.81 0.00 3.18
7955 8406 0.859232 CGTGTGAACTTCCTTGACCG 59.141 55.000 0.00 0.00 0.00 4.79
7978 8429 4.178540 GCGGCAACTAACATGTACTCTTA 58.821 43.478 0.00 0.00 0.00 2.10
7979 8430 4.032558 GCGGCAACTAACATGTACTCTTAC 59.967 45.833 0.00 0.00 0.00 2.34
7980 8431 5.165676 CGGCAACTAACATGTACTCTTACA 58.834 41.667 0.00 0.00 42.53 2.41
7982 8433 6.312918 CGGCAACTAACATGTACTCTTACAAT 59.687 38.462 0.00 0.00 41.64 2.71
7984 8435 7.962918 GGCAACTAACATGTACTCTTACAATTG 59.037 37.037 3.24 3.24 41.64 2.32
7985 8436 8.504005 GCAACTAACATGTACTCTTACAATTGT 58.496 33.333 16.68 16.68 41.64 2.71
8032 8484 5.343307 AAGCTTTGGTTGTTCTCATGTTT 57.657 34.783 0.00 0.00 0.00 2.83
8033 8485 4.685924 AGCTTTGGTTGTTCTCATGTTTG 58.314 39.130 0.00 0.00 0.00 2.93
8034 8486 4.402155 AGCTTTGGTTGTTCTCATGTTTGA 59.598 37.500 0.00 0.00 0.00 2.69
8035 8487 5.069516 AGCTTTGGTTGTTCTCATGTTTGAT 59.930 36.000 0.00 0.00 0.00 2.57
8036 8488 5.176223 GCTTTGGTTGTTCTCATGTTTGATG 59.824 40.000 0.00 0.00 0.00 3.07
8037 8489 6.462552 TTTGGTTGTTCTCATGTTTGATGA 57.537 33.333 0.00 0.00 0.00 2.92
8039 8491 5.132502 TGGTTGTTCTCATGTTTGATGACT 58.867 37.500 0.00 0.00 0.00 3.41
8040 8492 5.008911 TGGTTGTTCTCATGTTTGATGACTG 59.991 40.000 0.00 0.00 0.00 3.51
8042 8494 6.072286 GGTTGTTCTCATGTTTGATGACTGAT 60.072 38.462 0.00 0.00 0.00 2.90
8086 8538 4.104086 TGGTGGAATCTGTCATAGGACTT 58.896 43.478 9.22 0.00 44.61 3.01
8087 8539 4.080919 TGGTGGAATCTGTCATAGGACTTG 60.081 45.833 9.22 2.22 44.61 3.16
8088 8540 4.162320 GGTGGAATCTGTCATAGGACTTGA 59.838 45.833 9.22 7.56 44.61 3.02
8089 8541 5.163258 GGTGGAATCTGTCATAGGACTTGAT 60.163 44.000 9.22 9.43 44.61 2.57
8093 8545 3.106827 TCTGTCATAGGACTTGATGGCA 58.893 45.455 9.22 0.00 44.61 4.92
8128 8580 3.288092 ACAACCAAGGTGAAAGGACTTC 58.712 45.455 0.00 0.00 34.31 3.01
8140 8592 2.717639 AGGACTTCTGTTGTTGCACT 57.282 45.000 0.00 0.00 0.00 4.40
8143 8595 2.423538 GGACTTCTGTTGTTGCACTTGT 59.576 45.455 0.00 0.00 0.00 3.16
8144 8596 3.429085 GACTTCTGTTGTTGCACTTGTG 58.571 45.455 0.00 0.00 0.00 3.33
8164 8616 6.377327 TGTGTGAAAAGGATTGAAAGAGAC 57.623 37.500 0.00 0.00 0.00 3.36
8167 8619 7.068593 TGTGTGAAAAGGATTGAAAGAGACAAT 59.931 33.333 0.00 0.00 40.08 2.71
8168 8620 7.922811 GTGTGAAAAGGATTGAAAGAGACAATT 59.077 33.333 0.00 0.00 37.96 2.32
8169 8621 8.477256 TGTGAAAAGGATTGAAAGAGACAATTT 58.523 29.630 0.00 0.00 37.96 1.82
8170 8622 9.317936 GTGAAAAGGATTGAAAGAGACAATTTT 57.682 29.630 0.00 0.00 37.96 1.82
8171 8623 9.316730 TGAAAAGGATTGAAAGAGACAATTTTG 57.683 29.630 0.00 0.00 37.96 2.44
8172 8624 9.533253 GAAAAGGATTGAAAGAGACAATTTTGA 57.467 29.630 0.00 0.00 37.96 2.69
8173 8625 9.889128 AAAAGGATTGAAAGAGACAATTTTGAA 57.111 25.926 0.00 0.00 37.96 2.69
8209 8661 8.545229 TCACAACACAAAAATCAAATGTTCTT 57.455 26.923 0.00 0.00 31.25 2.52
8271 8723 8.986477 AAATCCAGCACTTACAATTCAATTAC 57.014 30.769 0.00 0.00 0.00 1.89
8272 8724 7.701539 ATCCAGCACTTACAATTCAATTACA 57.298 32.000 0.00 0.00 0.00 2.41
8273 8725 7.701539 TCCAGCACTTACAATTCAATTACAT 57.298 32.000 0.00 0.00 0.00 2.29
8276 8728 9.206870 CCAGCACTTACAATTCAATTACATTTT 57.793 29.630 0.00 0.00 0.00 1.82
8349 8801 9.533253 CAACATTCAAAATTGAGGACTTAAACT 57.467 29.630 0.00 0.00 38.61 2.66
8363 8815 9.665264 GAGGACTTAAACTGTAATGTTTGAAAG 57.335 33.333 0.00 0.00 40.00 2.62
8381 8833 7.889873 TTGAAAGTAGGAATTTTGAGTTCCA 57.110 32.000 7.56 0.00 46.05 3.53
8390 8842 8.059798 AGGAATTTTGAGTTCCATGATGTTAG 57.940 34.615 7.56 0.00 46.05 2.34
8395 8847 4.922206 TGAGTTCCATGATGTTAGCCTTT 58.078 39.130 0.00 0.00 0.00 3.11
8404 8856 7.065324 TCCATGATGTTAGCCTTTTAGTTAACG 59.935 37.037 0.00 0.00 0.00 3.18
8428 8880 9.203421 ACGAATTTAAATTTAGCTTTTCCCTTG 57.797 29.630 14.45 0.00 0.00 3.61
8443 8895 6.552445 TTTCCCTTGTGAAATTTGGAGAAA 57.448 33.333 0.00 0.66 29.56 2.52
8546 8998 9.228949 TGTTGGCATATGCTAAAATTTCAAAAT 57.771 25.926 25.77 0.00 43.04 1.82
8582 9034 6.818644 AGATAACAGACACGCACTATTTCATT 59.181 34.615 0.00 0.00 0.00 2.57
8585 9037 2.420022 AGACACGCACTATTTCATTGGC 59.580 45.455 0.00 0.00 0.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
157 158 6.106673 AGTGTCTATTATCGGACCAAACTTG 58.893 40.000 0.00 0.00 0.00 3.16
169 170 6.570764 CGAGCCCCTCTTTAGTGTCTATTATC 60.571 46.154 0.00 0.00 0.00 1.75
180 181 0.827368 AAGCTCGAGCCCCTCTTTAG 59.173 55.000 32.94 0.00 43.38 1.85
524 529 7.928167 GGATTGAAAAGGATGGGATATTTGAAC 59.072 37.037 0.00 0.00 0.00 3.18
561 566 4.663592 AGGTTCATGGTAAGGGGTTATAGG 59.336 45.833 0.00 0.00 0.00 2.57
588 593 1.569493 GCAGGTGCAGTGTTACACG 59.431 57.895 10.00 6.43 39.64 4.49
632 734 1.542472 CAATGTTTCCCCCGGTACAAC 59.458 52.381 0.00 0.00 0.00 3.32
682 784 8.370940 TGTGATGATCCTAATAGAATGGAAGAC 58.629 37.037 0.00 0.00 33.20 3.01
683 785 8.496534 TGTGATGATCCTAATAGAATGGAAGA 57.503 34.615 0.00 0.00 33.20 2.87
871 974 8.635765 TTGCAAATAGAAAACTGAATCCTAGT 57.364 30.769 0.00 0.00 0.00 2.57
1321 1424 5.211174 AGGAAGTACGAGCTTGTTTTAGT 57.789 39.130 12.97 0.00 0.00 2.24
1487 1590 0.104855 GAGACACCACACTGCAGACA 59.895 55.000 23.35 0.00 0.00 3.41
1498 1601 2.523168 TGACGGCCAGAGACACCA 60.523 61.111 2.24 0.00 0.00 4.17
1559 1662 3.374988 CAGAAGCTAAATCGTCATGGCAA 59.625 43.478 0.00 0.00 0.00 4.52
1923 2026 9.688091 TTTGGGAAATATATGTACTTGTGCTAA 57.312 29.630 0.00 0.00 0.00 3.09
2172 2279 2.687935 TGTTCCCTTTCAGTGTTGCTTC 59.312 45.455 0.00 0.00 0.00 3.86
2212 2348 4.501229 GGCAAACATTGATGGACAAGTCAA 60.501 41.667 2.29 0.00 42.02 3.18
2424 2864 3.328382 TTCAAAGTGGACCATAGACGG 57.672 47.619 0.00 0.00 0.00 4.79
2625 3069 4.204012 CGATGAAGAGTCTCCTTAGTCCT 58.796 47.826 0.00 0.00 0.00 3.85
2626 3070 3.949113 ACGATGAAGAGTCTCCTTAGTCC 59.051 47.826 0.00 0.00 0.00 3.85
2627 3071 4.396790 ACACGATGAAGAGTCTCCTTAGTC 59.603 45.833 0.00 0.00 0.00 2.59
2629 3073 4.974368 ACACGATGAAGAGTCTCCTTAG 57.026 45.455 0.00 0.00 0.00 2.18
2753 3197 2.308690 GGTCTAGCGGTGAGGAATAGT 58.691 52.381 0.00 0.00 0.00 2.12
2755 3199 1.217183 AGGGTCTAGCGGTGAGGAATA 59.783 52.381 0.00 0.00 0.00 1.75
3027 3471 5.178797 TCTAGCTCTTTTCAATACCAGTGC 58.821 41.667 0.00 0.00 0.00 4.40
3070 3514 8.379457 ACTTCTATTACCACTCAAAGTTGTTC 57.621 34.615 0.00 0.00 0.00 3.18
3372 3816 6.506500 AGAACAGATCCATAAAGCACTTTG 57.493 37.500 5.89 0.00 34.23 2.77
3402 3846 5.778750 AGTCTAGTGTGTGTATACCAAAGGT 59.221 40.000 0.00 0.00 40.16 3.50
3498 3942 8.741841 CCAATGGGCATAAAAATTTCTTCATTT 58.258 29.630 0.00 0.00 0.00 2.32
3867 4311 5.265191 AGGTAGACTAGCATGAGAAGTCAA 58.735 41.667 18.81 0.00 41.69 3.18
3916 4360 3.499918 GCATGAGTTGTCTAAGCTGTTGT 59.500 43.478 0.00 0.00 0.00 3.32
3917 4361 3.499537 TGCATGAGTTGTCTAAGCTGTTG 59.500 43.478 0.00 0.00 0.00 3.33
3919 4363 3.244353 ACTGCATGAGTTGTCTAAGCTGT 60.244 43.478 0.00 0.00 0.00 4.40
3920 4364 3.332919 ACTGCATGAGTTGTCTAAGCTG 58.667 45.455 0.00 0.00 0.00 4.24
3921 4365 3.692257 ACTGCATGAGTTGTCTAAGCT 57.308 42.857 0.00 0.00 0.00 3.74
3922 4366 5.171476 TCTTACTGCATGAGTTGTCTAAGC 58.829 41.667 0.00 0.00 35.96 3.09
3923 4367 7.840342 ATTCTTACTGCATGAGTTGTCTAAG 57.160 36.000 0.00 0.00 35.96 2.18
3984 4429 7.897575 ATAAATTGGCGCACTTCAATTTTTA 57.102 28.000 27.97 17.75 45.60 1.52
3989 4434 4.819769 ACAATAAATTGGCGCACTTCAAT 58.180 34.783 10.83 6.77 41.96 2.57
4031 4477 0.611896 CCATTGCCCTTTTCCGGTCT 60.612 55.000 0.00 0.00 0.00 3.85
4048 4494 0.397941 CTGTCAAGACCCTTCAGCCA 59.602 55.000 0.00 0.00 0.00 4.75
4071 4517 1.153549 CGTGAAGCTAGCCACTCCC 60.154 63.158 12.13 0.00 0.00 4.30
4238 4685 5.068234 TCTGTGATAACCAGGTCGTAAAG 57.932 43.478 0.00 0.00 0.00 1.85
4288 4735 6.045072 TCCTTCAAATACCTTAAGAGCGAA 57.955 37.500 3.36 0.00 0.00 4.70
4289 4736 5.670792 TCCTTCAAATACCTTAAGAGCGA 57.329 39.130 3.36 0.00 0.00 4.93
4393 4840 4.394920 GCAATTTCCCTCGTCAGTGAATAA 59.605 41.667 0.00 0.00 0.00 1.40
4404 4851 2.764314 CCGCTGGCAATTTCCCTCG 61.764 63.158 0.00 0.00 0.00 4.63
4498 4945 9.782028 CATCACAAGAAAAACAATTAAATCACG 57.218 29.630 0.00 0.00 0.00 4.35
4603 5050 9.463443 ACATTTACTTTTGCTTTCACATACTTC 57.537 29.630 0.00 0.00 0.00 3.01
4734 5181 5.122082 CGGCCTGTTGCAATGAATTTATTTT 59.878 36.000 0.59 0.00 43.89 1.82
4735 5182 4.630940 CGGCCTGTTGCAATGAATTTATTT 59.369 37.500 0.59 0.00 43.89 1.40
4736 5183 4.183101 CGGCCTGTTGCAATGAATTTATT 58.817 39.130 0.59 0.00 43.89 1.40
4737 5184 3.430651 CCGGCCTGTTGCAATGAATTTAT 60.431 43.478 0.59 0.00 43.89 1.40
4904 5351 6.584563 TGCAGTGACAGTAAAACAAAAAGAAC 59.415 34.615 0.00 0.00 0.00 3.01
4995 5442 5.618863 CGATGCAACAACCTACAAGCATTTA 60.619 40.000 0.00 0.00 42.18 1.40
5040 5487 5.087397 GCGGAGATTACACATCTATACGTC 58.913 45.833 0.00 0.00 0.00 4.34
5094 5541 9.793259 TTTGAATCTTGAGTAACCTGAAATAGT 57.207 29.630 0.00 0.00 0.00 2.12
5171 5618 7.234166 AGGATTCAGAATGGACAAATCAAAAGT 59.766 33.333 0.00 0.00 36.16 2.66
5203 5650 4.074970 ACACCTCAGTTTCCACATCAATC 58.925 43.478 0.00 0.00 0.00 2.67
5236 5683 7.775053 AATTCAACAAAAGCTCCCTACAATA 57.225 32.000 0.00 0.00 0.00 1.90
5612 6059 1.527380 GTTTCCTGGTGGTCGGCAA 60.527 57.895 0.00 0.00 34.23 4.52
5896 6343 4.231439 ACGTTGGCCGATTTTATTTTCAC 58.769 39.130 0.00 0.00 40.70 3.18
5994 6441 1.167851 TTGGCTATGCACTGCAGAAC 58.832 50.000 23.35 12.31 43.65 3.01
6109 6556 6.098124 TGGTTTGAAGAAGGTTGAACATGATT 59.902 34.615 0.00 0.00 0.00 2.57
6283 6734 6.320164 GGCACCAGATACTATATACCTCAGAG 59.680 46.154 0.00 0.00 0.00 3.35
6388 6839 1.301401 GTAGTGCGTGGGTCTGCAA 60.301 57.895 0.00 0.00 43.75 4.08
6391 6842 0.740868 CATGGTAGTGCGTGGGTCTG 60.741 60.000 0.00 0.00 0.00 3.51
6427 6878 2.740826 GCACCAGCGGTAAAGCGA 60.741 61.111 5.64 0.00 43.00 4.93
6710 7161 7.102346 CAGTTTTCCATTAAATTACATGCCCA 58.898 34.615 0.00 0.00 0.00 5.36
6770 7221 2.935201 GACCTGAGCAGCACTATGAAAG 59.065 50.000 0.00 0.00 0.00 2.62
6960 7411 7.888021 ACAGGAAACATACCACAAATATTCTCA 59.112 33.333 0.00 0.00 0.00 3.27
6961 7412 8.281212 ACAGGAAACATACCACAAATATTCTC 57.719 34.615 0.00 0.00 0.00 2.87
6962 7413 8.650143 AACAGGAAACATACCACAAATATTCT 57.350 30.769 0.00 0.00 0.00 2.40
6963 7414 9.353999 GAAACAGGAAACATACCACAAATATTC 57.646 33.333 0.00 0.00 0.00 1.75
6964 7415 8.311109 GGAAACAGGAAACATACCACAAATATT 58.689 33.333 0.00 0.00 0.00 1.28
6965 7416 7.453126 TGGAAACAGGAAACATACCACAAATAT 59.547 33.333 0.00 0.00 35.01 1.28
6985 7436 6.037500 AGGTCGTAACACTAAAAACTGGAAAC 59.962 38.462 0.00 0.00 0.00 2.78
7026 7477 4.884668 TCTTGACTGGTAACACCTAAGG 57.115 45.455 0.00 0.00 46.17 2.69
7037 7488 3.895656 TGCAGTAGTAGTTCTTGACTGGT 59.104 43.478 0.00 0.00 39.48 4.00
7087 7538 1.406751 CCGTCACAGGTATCATTGGCA 60.407 52.381 0.00 0.00 0.00 4.92
7202 7653 5.645067 CCATCAGCTTCAATTAGAACACTCA 59.355 40.000 0.00 0.00 31.61 3.41
7324 7775 6.655003 CGTATATGCCATCCAGTCCTAAATTT 59.345 38.462 0.00 0.00 0.00 1.82
7630 8081 6.975197 TCAGAGCAAAGACGATAATAGTTCAG 59.025 38.462 0.00 0.00 0.00 3.02
7631 8082 6.863275 TCAGAGCAAAGACGATAATAGTTCA 58.137 36.000 0.00 0.00 0.00 3.18
7653 8104 2.525592 CCAGGGGGCCAAGTTTCA 59.474 61.111 4.39 0.00 0.00 2.69
7683 8134 5.406780 CCTCACAAGTCACAACTCTGAATAC 59.593 44.000 0.00 0.00 33.48 1.89
7694 8145 2.354103 GCTATCAGCCTCACAAGTCACA 60.354 50.000 0.00 0.00 34.48 3.58
7696 8147 1.901833 TGCTATCAGCCTCACAAGTCA 59.098 47.619 0.00 0.00 41.51 3.41
7714 8165 1.063031 GCGAAATTTTGAGCCAGTGC 58.937 50.000 9.75 0.00 37.95 4.40
7731 8182 3.531262 ACTTTTAAGCCAACGTTAGCG 57.469 42.857 12.98 0.00 44.93 4.26
7745 8196 9.496873 TCTGAATCTTCGTATCCAAAACTTTTA 57.503 29.630 0.00 0.00 0.00 1.52
7798 8249 7.687383 AGCACCATACATATCCATGATATCT 57.313 36.000 3.98 0.00 33.52 1.98
7799 8250 9.486497 CTAAGCACCATACATATCCATGATATC 57.514 37.037 0.00 0.00 33.52 1.63
7800 8251 7.935755 GCTAAGCACCATACATATCCATGATAT 59.064 37.037 0.00 0.00 35.86 1.63
7801 8252 7.092935 TGCTAAGCACCATACATATCCATGATA 60.093 37.037 0.00 0.00 32.84 2.15
7802 8253 6.118170 GCTAAGCACCATACATATCCATGAT 58.882 40.000 0.00 0.00 35.96 2.45
7803 8254 5.012975 TGCTAAGCACCATACATATCCATGA 59.987 40.000 0.00 0.00 32.84 3.07
7804 8255 5.247862 TGCTAAGCACCATACATATCCATG 58.752 41.667 0.00 0.00 34.02 3.66
7805 8256 5.503634 TGCTAAGCACCATACATATCCAT 57.496 39.130 0.00 0.00 31.71 3.41
7806 8257 4.972751 TGCTAAGCACCATACATATCCA 57.027 40.909 0.00 0.00 31.71 3.41
7807 8258 5.939883 TGAATGCTAAGCACCATACATATCC 59.060 40.000 0.00 0.00 43.04 2.59
7808 8259 6.652481 ACTGAATGCTAAGCACCATACATATC 59.348 38.462 0.00 0.00 43.04 1.63
7809 8260 6.537355 ACTGAATGCTAAGCACCATACATAT 58.463 36.000 0.00 0.00 43.04 1.78
7810 8261 5.928976 ACTGAATGCTAAGCACCATACATA 58.071 37.500 0.00 0.00 43.04 2.29
7811 8262 4.785301 ACTGAATGCTAAGCACCATACAT 58.215 39.130 0.00 0.00 43.04 2.29
7812 8263 4.220693 ACTGAATGCTAAGCACCATACA 57.779 40.909 0.00 0.00 43.04 2.29
7813 8264 5.567138 AAACTGAATGCTAAGCACCATAC 57.433 39.130 0.00 0.00 43.04 2.39
7814 8265 6.015519 ACAAAAACTGAATGCTAAGCACCATA 60.016 34.615 0.00 0.00 43.04 2.74
7815 8266 5.221501 ACAAAAACTGAATGCTAAGCACCAT 60.222 36.000 0.00 0.00 43.04 3.55
7816 8267 4.099266 ACAAAAACTGAATGCTAAGCACCA 59.901 37.500 0.00 0.00 43.04 4.17
7817 8268 4.445385 CACAAAAACTGAATGCTAAGCACC 59.555 41.667 0.00 0.00 43.04 5.01
7818 8269 4.445385 CCACAAAAACTGAATGCTAAGCAC 59.555 41.667 0.00 0.00 43.04 4.40
7819 8270 4.099266 ACCACAAAAACTGAATGCTAAGCA 59.901 37.500 0.00 0.00 44.86 3.91
7820 8271 4.620982 ACCACAAAAACTGAATGCTAAGC 58.379 39.130 0.00 0.00 0.00 3.09
7821 8272 6.042143 ACAACCACAAAAACTGAATGCTAAG 58.958 36.000 0.00 0.00 0.00 2.18
7822 8273 5.971763 ACAACCACAAAAACTGAATGCTAA 58.028 33.333 0.00 0.00 0.00 3.09
7823 8274 5.359576 AGACAACCACAAAAACTGAATGCTA 59.640 36.000 0.00 0.00 0.00 3.49
7824 8275 4.160252 AGACAACCACAAAAACTGAATGCT 59.840 37.500 0.00 0.00 0.00 3.79
7825 8276 4.432712 AGACAACCACAAAAACTGAATGC 58.567 39.130 0.00 0.00 0.00 3.56
7826 8277 5.894807 AGAGACAACCACAAAAACTGAATG 58.105 37.500 0.00 0.00 0.00 2.67
7827 8278 7.054124 TCTAGAGACAACCACAAAAACTGAAT 58.946 34.615 0.00 0.00 0.00 2.57
7828 8279 6.411376 TCTAGAGACAACCACAAAAACTGAA 58.589 36.000 0.00 0.00 0.00 3.02
7829 8280 5.984725 TCTAGAGACAACCACAAAAACTGA 58.015 37.500 0.00 0.00 0.00 3.41
7830 8281 5.817816 ACTCTAGAGACAACCACAAAAACTG 59.182 40.000 26.57 0.00 0.00 3.16
7831 8282 5.817816 CACTCTAGAGACAACCACAAAAACT 59.182 40.000 26.57 0.00 0.00 2.66
7832 8283 5.504173 GCACTCTAGAGACAACCACAAAAAC 60.504 44.000 26.57 0.00 0.00 2.43
7833 8284 4.574828 GCACTCTAGAGACAACCACAAAAA 59.425 41.667 26.57 0.00 0.00 1.94
7834 8285 4.127171 GCACTCTAGAGACAACCACAAAA 58.873 43.478 26.57 0.00 0.00 2.44
7835 8286 3.388024 AGCACTCTAGAGACAACCACAAA 59.612 43.478 26.57 0.00 0.00 2.83
7836 8287 2.965831 AGCACTCTAGAGACAACCACAA 59.034 45.455 26.57 0.00 0.00 3.33
7837 8288 2.598565 AGCACTCTAGAGACAACCACA 58.401 47.619 26.57 0.00 0.00 4.17
7838 8289 3.669251 AAGCACTCTAGAGACAACCAC 57.331 47.619 26.57 6.95 0.00 4.16
7839 8290 3.388024 ACAAAGCACTCTAGAGACAACCA 59.612 43.478 26.57 0.00 0.00 3.67
7840 8291 3.996480 ACAAAGCACTCTAGAGACAACC 58.004 45.455 26.57 8.85 0.00 3.77
7844 8295 5.778862 AGAAGAACAAAGCACTCTAGAGAC 58.221 41.667 26.57 16.69 0.00 3.36
7936 8387 0.859232 CGGTCAAGGAAGTTCACACG 59.141 55.000 5.01 0.00 0.00 4.49
7937 8388 1.226746 CCGGTCAAGGAAGTTCACAC 58.773 55.000 5.01 0.00 0.00 3.82
7938 8389 0.534203 GCCGGTCAAGGAAGTTCACA 60.534 55.000 1.90 0.00 0.00 3.58
7939 8390 1.566018 CGCCGGTCAAGGAAGTTCAC 61.566 60.000 1.90 0.00 0.00 3.18
7944 8395 4.697756 TGCCGCCGGTCAAGGAAG 62.698 66.667 4.45 0.00 0.00 3.46
7955 8406 1.664151 GAGTACATGTTAGTTGCCGCC 59.336 52.381 2.30 0.00 0.00 6.13
8032 8484 5.244626 TCACACTTGAAGAGATCAGTCATCA 59.755 40.000 0.00 0.00 39.77 3.07
8033 8485 5.718146 TCACACTTGAAGAGATCAGTCATC 58.282 41.667 0.00 0.00 39.77 2.92
8034 8486 5.245751 ACTCACACTTGAAGAGATCAGTCAT 59.754 40.000 0.00 0.00 39.77 3.06
8035 8487 4.586421 ACTCACACTTGAAGAGATCAGTCA 59.414 41.667 0.00 0.00 39.77 3.41
8036 8488 5.132897 ACTCACACTTGAAGAGATCAGTC 57.867 43.478 0.00 0.00 39.77 3.51
8037 8489 5.543507 AACTCACACTTGAAGAGATCAGT 57.456 39.130 0.00 0.00 39.77 3.41
8039 8491 5.928839 GCTAAACTCACACTTGAAGAGATCA 59.071 40.000 0.00 0.00 35.85 2.92
8040 8492 6.090628 CAGCTAAACTCACACTTGAAGAGATC 59.909 42.308 0.00 0.00 33.69 2.75
8042 8494 5.292765 CAGCTAAACTCACACTTGAAGAGA 58.707 41.667 0.00 0.00 33.69 3.10
8086 8538 6.641169 TGTTTAATGTAGTTGTTGCCATCA 57.359 33.333 0.00 0.00 0.00 3.07
8087 8539 6.364976 GGTTGTTTAATGTAGTTGTTGCCATC 59.635 38.462 0.00 0.00 0.00 3.51
8088 8540 6.183360 TGGTTGTTTAATGTAGTTGTTGCCAT 60.183 34.615 0.00 0.00 0.00 4.40
8089 8541 5.127194 TGGTTGTTTAATGTAGTTGTTGCCA 59.873 36.000 0.00 0.00 0.00 4.92
8093 8545 7.122948 TCACCTTGGTTGTTTAATGTAGTTGTT 59.877 33.333 0.00 0.00 0.00 2.83
8111 8563 3.214696 ACAGAAGTCCTTTCACCTTGG 57.785 47.619 0.00 0.00 38.31 3.61
8128 8580 2.917701 TCACACAAGTGCAACAACAG 57.082 45.000 0.00 0.00 45.49 3.16
8140 8592 6.376864 TGTCTCTTTCAATCCTTTTCACACAA 59.623 34.615 0.00 0.00 0.00 3.33
8143 8595 7.587037 ATTGTCTCTTTCAATCCTTTTCACA 57.413 32.000 0.00 0.00 30.95 3.58
8144 8596 8.877808 AAATTGTCTCTTTCAATCCTTTTCAC 57.122 30.769 0.00 0.00 34.92 3.18
8246 8698 8.584157 TGTAATTGAATTGTAAGTGCTGGATTT 58.416 29.630 0.00 0.00 0.00 2.17
8247 8699 8.121305 TGTAATTGAATTGTAAGTGCTGGATT 57.879 30.769 0.00 0.00 0.00 3.01
8248 8700 7.701539 TGTAATTGAATTGTAAGTGCTGGAT 57.298 32.000 0.00 0.00 0.00 3.41
8249 8701 7.701539 ATGTAATTGAATTGTAAGTGCTGGA 57.298 32.000 0.00 0.00 0.00 3.86
8250 8702 8.761575 AAATGTAATTGAATTGTAAGTGCTGG 57.238 30.769 0.00 0.00 36.10 4.85
8337 8789 9.665264 CTTTCAAACATTACAGTTTAAGTCCTC 57.335 33.333 0.00 0.00 39.55 3.71
8363 8815 7.396540 ACATCATGGAACTCAAAATTCCTAC 57.603 36.000 5.43 0.00 45.14 3.18
8381 8833 8.556213 TTCGTTAACTAAAAGGCTAACATCAT 57.444 30.769 3.71 0.00 0.00 2.45
8513 8965 7.650834 TTTTAGCATATGCCAACAGTTTTTC 57.349 32.000 23.96 0.00 43.38 2.29
8519 8971 7.830940 TTGAAATTTTAGCATATGCCAACAG 57.169 32.000 23.96 0.00 43.38 3.16
8547 8999 9.769093 GTGCGTGTCTGTTATCTTTATTTATTT 57.231 29.630 0.00 0.00 0.00 1.40
8548 9000 9.162764 AGTGCGTGTCTGTTATCTTTATTTATT 57.837 29.630 0.00 0.00 0.00 1.40
8549 9001 8.718102 AGTGCGTGTCTGTTATCTTTATTTAT 57.282 30.769 0.00 0.00 0.00 1.40
8550 9002 9.811995 ATAGTGCGTGTCTGTTATCTTTATTTA 57.188 29.630 0.00 0.00 0.00 1.40
8554 9006 7.815549 TGAAATAGTGCGTGTCTGTTATCTTTA 59.184 33.333 0.00 0.00 0.00 1.85
8563 9015 3.728864 GCCAATGAAATAGTGCGTGTCTG 60.729 47.826 0.00 0.00 0.00 3.51
8569 9021 2.734670 CATGGCCAATGAAATAGTGCG 58.265 47.619 10.96 0.00 38.72 5.34
8572 9024 4.713321 AGAAAGCATGGCCAATGAAATAGT 59.287 37.500 10.96 0.00 38.72 2.12
8582 9034 0.968405 GTGGAAAGAAAGCATGGCCA 59.032 50.000 8.56 8.56 0.00 5.36
8585 9037 3.731652 TTGTGTGGAAAGAAAGCATGG 57.268 42.857 0.00 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.