Multiple sequence alignment - TraesCS7B01G206900

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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 TraesCS7B01G206900 chr7B 100.000 6998 0 0 1 6998 379409695 379416692 0.000000e+00 12923.0
1 TraesCS7B01G206900 chr7B 100.000 92 0 0 1 92 113207529 113207620 3.360000e-38 171.0
2 TraesCS7B01G206900 chr7B 100.000 53 0 0 1 53 429270536 429270484 1.610000e-16 99.0
3 TraesCS7B01G206900 chr7B 100.000 52 0 0 1 52 27600231 27600180 5.780000e-16 97.1
4 TraesCS7B01G206900 chr7B 100.000 52 0 0 1 52 133389797 133389746 5.780000e-16 97.1
5 TraesCS7B01G206900 chr7A 94.045 4030 159 30 642 4635 432971665 432975649 0.000000e+00 6037.0
6 TraesCS7B01G206900 chr7A 95.355 2368 79 15 4632 6998 432975729 432978066 0.000000e+00 3735.0
7 TraesCS7B01G206900 chr7A 89.635 521 23 14 71 565 432969604 432970119 9.900000e-178 634.0
8 TraesCS7B01G206900 chr7A 94.483 145 3 5 600 740 432971536 432971679 1.180000e-52 219.0
9 TraesCS7B01G206900 chr7D 92.914 3542 179 33 71 3581 384937383 384940883 0.000000e+00 5084.0
10 TraesCS7B01G206900 chr7D 94.489 3339 88 39 3566 6855 384942387 384945678 0.000000e+00 5059.0
11 TraesCS7B01G206900 chr7D 90.090 111 9 2 6882 6990 384945588 384945698 7.320000e-30 143.0
12 TraesCS7B01G206900 chr2B 100.000 94 0 0 1 94 695442622 695442529 2.590000e-39 174.0
13 TraesCS7B01G206900 chr2B 97.895 95 2 0 1 95 736387911 736387817 1.560000e-36 165.0
14 TraesCS7B01G206900 chr2B 100.000 53 0 0 1 53 55227827 55227775 1.610000e-16 99.0
15 TraesCS7B01G206900 chr5B 100.000 52 0 0 1 52 685091354 685091303 5.780000e-16 97.1
16 TraesCS7B01G206900 chr3B 98.214 56 0 1 1 55 640077635 640077690 5.780000e-16 97.1
17 TraesCS7B01G206900 chr2D 93.478 46 3 0 6909 6954 58665446 58665491 1.260000e-07 69.4
18 TraesCS7B01G206900 chr4B 83.333 72 9 3 6890 6958 651972131 651972060 5.860000e-06 63.9
19 TraesCS7B01G206900 chr4A 100.000 29 0 0 6923 6951 674607599 674607571 4.000000e-03 54.7


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 TraesCS7B01G206900 chr7B 379409695 379416692 6997 False 12923.000000 12923 100.000000 1 6998 1 chr7B.!!$F2 6997
1 TraesCS7B01G206900 chr7A 432969604 432978066 8462 False 2656.250000 6037 93.379500 71 6998 4 chr7A.!!$F1 6927
2 TraesCS7B01G206900 chr7D 384937383 384945698 8315 False 3428.666667 5084 92.497667 71 6990 3 chr7D.!!$F1 6919

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
994 2491 0.105709 GGGGAGGAGGGAGAGAGAAG 60.106 65.000 0.0 0.0 0.00 2.85 F
1344 2841 0.094730 GCCTTCATCGTTTCGTTCGG 59.905 55.000 0.0 0.0 0.00 4.30 F
2307 3835 0.110486 GGGCACACTCCCTCTTTTCA 59.890 55.000 0.0 0.0 43.13 2.69 F
2364 3892 1.851658 ACATTTCCGTTGTTTGCAGC 58.148 45.000 0.0 0.0 0.00 5.25 F
3646 6699 0.465705 CTTCTGCCCTTATCGCTCCA 59.534 55.000 0.0 0.0 0.00 3.86 F
4125 7179 4.875544 TCACTGAAAAAGGTTCGACAAG 57.124 40.909 0.0 0.0 0.00 3.16 F
5416 8554 0.555769 TCAACCCCTTCAGGTGCTTT 59.444 50.000 0.0 0.0 40.05 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2676 4206 0.249615 GCTGAGAGTCCGCATATGCA 60.250 55.000 26.52 6.05 42.21 3.96 R
3296 4826 0.179020 TCCCCATATTTGAGCGGCAG 60.179 55.000 1.45 0.00 0.00 4.85 R
3353 4883 0.311165 CCGCTACCACCAGATAGTCG 59.689 60.000 0.00 0.00 0.00 4.18 R
3804 6857 1.317613 ACTCTGCCGCAAATTCAACA 58.682 45.000 0.00 0.00 0.00 3.33 R
4768 7906 1.686587 TGGATACGGTAGCACTGGATG 59.313 52.381 5.71 0.00 42.51 3.51 R
5710 8848 0.328258 GCAGTTTGCTCCCCTCCTAA 59.672 55.000 0.00 0.00 40.96 2.69 R
6832 10020 0.911769 TCTGACTGCCAACCCCATAG 59.088 55.000 0.00 0.00 0.00 2.23 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
17 18 3.810896 GGCGGCGGCTAGGTTTTG 61.811 66.667 27.22 0.00 39.81 2.44
18 19 3.810896 GCGGCGGCTAGGTTTTGG 61.811 66.667 9.78 0.00 35.83 3.28
19 20 2.359478 CGGCGGCTAGGTTTTGGT 60.359 61.111 7.61 0.00 0.00 3.67
20 21 2.396157 CGGCGGCTAGGTTTTGGTC 61.396 63.158 7.61 0.00 0.00 4.02
21 22 2.396157 GGCGGCTAGGTTTTGGTCG 61.396 63.158 0.00 0.00 0.00 4.79
22 23 3.035576 GCGGCTAGGTTTTGGTCGC 62.036 63.158 0.00 0.00 46.05 5.19
23 24 1.375523 CGGCTAGGTTTTGGTCGCT 60.376 57.895 0.00 0.00 0.00 4.93
24 25 0.108520 CGGCTAGGTTTTGGTCGCTA 60.109 55.000 0.00 0.00 0.00 4.26
25 26 1.653151 GGCTAGGTTTTGGTCGCTAG 58.347 55.000 0.00 0.00 0.00 3.42
26 27 1.007580 GCTAGGTTTTGGTCGCTAGC 58.992 55.000 4.06 4.06 34.08 3.42
27 28 1.653151 CTAGGTTTTGGTCGCTAGCC 58.347 55.000 9.66 0.00 0.00 3.93
28 29 0.978151 TAGGTTTTGGTCGCTAGCCA 59.022 50.000 9.66 0.00 0.00 4.75
29 30 0.109723 AGGTTTTGGTCGCTAGCCAA 59.890 50.000 9.66 4.90 43.51 4.52
32 33 4.390048 TTGGTCGCTAGCCAAACC 57.610 55.556 17.53 17.53 42.39 3.27
33 34 1.302993 TTGGTCGCTAGCCAAACCC 60.303 57.895 20.18 9.89 42.39 4.11
34 35 2.818274 GGTCGCTAGCCAAACCCG 60.818 66.667 9.66 0.00 0.00 5.28
35 36 3.497031 GTCGCTAGCCAAACCCGC 61.497 66.667 9.66 0.00 0.00 6.13
36 37 4.770874 TCGCTAGCCAAACCCGCC 62.771 66.667 9.66 0.00 0.00 6.13
39 40 4.815108 CTAGCCAAACCCGCCCCC 62.815 72.222 0.00 0.00 0.00 5.40
55 56 1.935933 CCCCCACGAAAAGAGATACG 58.064 55.000 0.00 0.00 0.00 3.06
56 57 1.287425 CCCCACGAAAAGAGATACGC 58.713 55.000 0.00 0.00 0.00 4.42
57 58 1.134788 CCCCACGAAAAGAGATACGCT 60.135 52.381 0.00 0.00 0.00 5.07
58 59 2.100252 CCCCACGAAAAGAGATACGCTA 59.900 50.000 0.00 0.00 0.00 4.26
59 60 3.243771 CCCCACGAAAAGAGATACGCTAT 60.244 47.826 0.00 0.00 0.00 2.97
60 61 4.369182 CCCACGAAAAGAGATACGCTATT 58.631 43.478 0.00 0.00 0.00 1.73
61 62 4.809426 CCCACGAAAAGAGATACGCTATTT 59.191 41.667 0.00 0.00 39.59 1.40
62 63 5.050972 CCCACGAAAAGAGATACGCTATTTC 60.051 44.000 0.00 0.00 37.06 2.17
63 64 5.050972 CCACGAAAAGAGATACGCTATTTCC 60.051 44.000 0.00 0.00 37.06 3.13
64 65 4.738740 ACGAAAAGAGATACGCTATTTCCG 59.261 41.667 0.00 0.00 37.06 4.30
65 66 4.148348 CGAAAAGAGATACGCTATTTCCGG 59.852 45.833 0.00 0.00 37.06 5.14
66 67 4.667519 AAAGAGATACGCTATTTCCGGT 57.332 40.909 0.00 0.00 32.87 5.28
67 68 3.919223 AGAGATACGCTATTTCCGGTC 57.081 47.619 0.00 0.00 0.00 4.79
68 69 3.220110 AGAGATACGCTATTTCCGGTCA 58.780 45.455 0.00 0.00 0.00 4.02
69 70 3.004524 AGAGATACGCTATTTCCGGTCAC 59.995 47.826 0.00 0.00 0.00 3.67
125 126 2.927871 GCATCCCGTACGTTGTTGTACT 60.928 50.000 15.21 0.00 42.00 2.73
127 128 2.741612 TCCCGTACGTTGTTGTACTTG 58.258 47.619 15.21 0.00 42.00 3.16
128 129 2.100584 TCCCGTACGTTGTTGTACTTGT 59.899 45.455 15.21 0.00 42.00 3.16
129 130 3.316588 TCCCGTACGTTGTTGTACTTGTA 59.683 43.478 15.21 0.00 42.00 2.41
130 131 4.022416 TCCCGTACGTTGTTGTACTTGTAT 60.022 41.667 15.21 0.00 42.00 2.29
215 219 1.695239 ATGGATCCAGCCAGCCAGA 60.695 57.895 21.33 0.00 42.15 3.86
216 220 1.992519 ATGGATCCAGCCAGCCAGAC 61.993 60.000 21.33 0.00 42.15 3.51
217 221 2.673200 GGATCCAGCCAGCCAGACA 61.673 63.158 6.95 0.00 0.00 3.41
218 222 1.153208 GATCCAGCCAGCCAGACAG 60.153 63.158 0.00 0.00 0.00 3.51
222 226 4.079850 AGCCAGCCAGACAGCTCG 62.080 66.667 0.00 0.00 42.61 5.03
260 266 2.013807 CGTCTCTCTCTCTCCGCTG 58.986 63.158 0.00 0.00 0.00 5.18
320 334 3.025322 TCTAGAAAGAGAGGAGCCAGG 57.975 52.381 0.00 0.00 0.00 4.45
325 339 1.893919 AAGAGAGGAGCCAGGCGAAC 61.894 60.000 5.55 0.00 0.00 3.95
328 342 1.817099 GAGGAGCCAGGCGAACATG 60.817 63.158 5.55 0.00 0.00 3.21
494 521 5.606329 TGGGGAGAAATGAAAAATCCAAACT 59.394 36.000 0.00 0.00 0.00 2.66
670 2167 1.964933 GGTCCGATAGAAAGGGAGGAG 59.035 57.143 0.00 0.00 39.76 3.69
872 2369 1.151668 CCCGCAGCATATAAGCAGTC 58.848 55.000 2.37 0.00 36.85 3.51
913 2410 5.583932 AGGTGGCCATTTCTTTTCTTCTAT 58.416 37.500 9.72 0.00 0.00 1.98
914 2411 6.731467 AGGTGGCCATTTCTTTTCTTCTATA 58.269 36.000 9.72 0.00 0.00 1.31
976 2473 2.802057 CGGAGGAATACCAAAGCGTAGG 60.802 54.545 0.00 0.00 38.94 3.18
990 2487 1.354168 CGTAGGGGAGGAGGGAGAGA 61.354 65.000 0.00 0.00 0.00 3.10
993 2490 0.556380 AGGGGAGGAGGGAGAGAGAA 60.556 60.000 0.00 0.00 0.00 2.87
994 2491 0.105709 GGGGAGGAGGGAGAGAGAAG 60.106 65.000 0.00 0.00 0.00 2.85
1154 2651 3.130160 CTCCCTCTTTGCGCTGGC 61.130 66.667 9.73 0.00 40.52 4.85
1344 2841 0.094730 GCCTTCATCGTTTCGTTCGG 59.905 55.000 0.00 0.00 0.00 4.30
1408 2909 1.807573 CTCTGAGCCGCCGAAACTC 60.808 63.158 0.00 0.00 0.00 3.01
1413 2914 1.627550 GAGCCGCCGAAACTCTTGTC 61.628 60.000 0.00 0.00 0.00 3.18
1423 2924 4.230657 CGAAACTCTTGTCTCAGTTCGAT 58.769 43.478 0.00 0.00 31.38 3.59
1431 2932 2.688446 TGTCTCAGTTCGATATCGCCTT 59.312 45.455 20.34 4.86 39.60 4.35
1538 3039 4.474651 TCAGAATGCTAGAAAATGAGGGGA 59.525 41.667 0.00 0.00 34.76 4.81
1539 3040 5.044919 TCAGAATGCTAGAAAATGAGGGGAA 60.045 40.000 0.00 0.00 34.76 3.97
1643 3166 4.640789 TTCCAGCTACTTCTCGAATCTC 57.359 45.455 0.00 0.00 0.00 2.75
1691 3214 4.562347 CCTCGTATGCCTGCTGAATATTCT 60.562 45.833 16.24 0.00 0.00 2.40
1745 3268 2.859165 TGCCCTTGATTTCTTCGTCT 57.141 45.000 0.00 0.00 0.00 4.18
1880 3403 5.693104 GTGCTGATTGCCATTTTATATGTGG 59.307 40.000 0.00 0.00 42.00 4.17
1910 3433 2.026356 TGCTAGGCAAATGCTGGACTTA 60.026 45.455 5.25 0.00 41.70 2.24
1911 3434 3.217626 GCTAGGCAAATGCTGGACTTAT 58.782 45.455 5.25 0.00 41.70 1.73
2048 3575 9.846248 ATGCTAATTTTGAGTGTATGAAAGAAC 57.154 29.630 0.00 0.00 0.00 3.01
2049 3576 9.066892 TGCTAATTTTGAGTGTATGAAAGAACT 57.933 29.630 0.00 0.00 0.00 3.01
2083 3610 4.081586 GGTCCCTTGTCTAAGTAGTCTTGG 60.082 50.000 0.00 0.00 35.36 3.61
2096 3623 2.996631 AGTCTTGGGCTGTGATTGATC 58.003 47.619 0.00 0.00 0.00 2.92
2103 3630 1.068127 GGCTGTGATTGATCCAATGCC 59.932 52.381 0.00 0.73 33.90 4.40
2114 3641 4.760878 TGATCCAATGCCATCACAAAATG 58.239 39.130 0.00 0.00 0.00 2.32
2116 3643 1.661617 CCAATGCCATCACAAAATGCG 59.338 47.619 0.00 0.00 0.00 4.73
2147 3675 0.541296 AAGCTGCAAGGCATGGACTT 60.541 50.000 1.02 0.00 38.13 3.01
2157 3685 1.419387 GGCATGGACTTCTCCTGCTAT 59.581 52.381 0.00 0.00 39.15 2.97
2158 3686 2.492012 GCATGGACTTCTCCTGCTATG 58.508 52.381 0.00 0.00 37.56 2.23
2168 3696 5.772672 ACTTCTCCTGCTATGAGGTATACAG 59.227 44.000 5.01 0.00 34.36 2.74
2174 3702 5.201713 TGCTATGAGGTATACAGAAGTGC 57.798 43.478 5.01 3.08 0.00 4.40
2197 3725 6.155827 GCAGCTGTTAAAAATGACATTGGTA 58.844 36.000 16.64 0.00 0.00 3.25
2198 3726 6.308766 GCAGCTGTTAAAAATGACATTGGTAG 59.691 38.462 16.64 0.00 0.00 3.18
2204 3732 8.584157 TGTTAAAAATGACATTGGTAGCTTCAT 58.416 29.630 0.34 0.00 0.00 2.57
2216 3744 4.045783 GGTAGCTTCATAGAAGAAGACGC 58.954 47.826 10.72 0.00 46.18 5.19
2277 3805 7.512130 TGAGCATATATGATTGTCCTTGTCTT 58.488 34.615 17.10 0.00 0.00 3.01
2280 3808 7.776969 AGCATATATGATTGTCCTTGTCTTTGT 59.223 33.333 17.10 0.00 0.00 2.83
2288 3816 3.005472 TGTCCTTGTCTTTGTAGAGACCG 59.995 47.826 2.89 0.00 44.29 4.79
2307 3835 0.110486 GGGCACACTCCCTCTTTTCA 59.890 55.000 0.00 0.00 43.13 2.69
2312 3840 3.820557 CACACTCCCTCTTTTCAGGAAA 58.179 45.455 0.00 0.00 35.20 3.13
2315 3843 5.302823 CACACTCCCTCTTTTCAGGAAAAAT 59.697 40.000 8.39 0.00 39.49 1.82
2316 3844 5.302823 ACACTCCCTCTTTTCAGGAAAAATG 59.697 40.000 8.39 4.65 39.49 2.32
2317 3845 4.835056 ACTCCCTCTTTTCAGGAAAAATGG 59.165 41.667 8.39 11.58 39.49 3.16
2347 3875 7.831753 TGTCCTTGTCTTGTTCAATTTTAACA 58.168 30.769 0.04 0.04 35.12 2.41
2353 3881 8.346476 TGTCTTGTTCAATTTTAACATTTCCG 57.654 30.769 4.41 0.00 36.75 4.30
2356 3884 8.812329 TCTTGTTCAATTTTAACATTTCCGTTG 58.188 29.630 4.41 0.00 36.75 4.10
2361 3889 7.402640 TCAATTTTAACATTTCCGTTGTTTGC 58.597 30.769 0.00 0.00 38.26 3.68
2364 3892 1.851658 ACATTTCCGTTGTTTGCAGC 58.148 45.000 0.00 0.00 0.00 5.25
2376 3904 4.495911 TGTTTGCAGCGATGTAATTCAA 57.504 36.364 4.72 0.00 0.00 2.69
2379 3907 4.961435 TTGCAGCGATGTAATTCAATCA 57.039 36.364 0.00 0.00 0.00 2.57
2410 3938 9.834628 TTAAAGAATATTTTTCAGTAAGCGGTG 57.165 29.630 0.00 0.00 0.00 4.94
2411 3939 5.880341 AGAATATTTTTCAGTAAGCGGTGC 58.120 37.500 0.00 0.00 0.00 5.01
2430 3958 3.250040 GTGCCTTCGATGTAAAACACACT 59.750 43.478 0.00 0.00 40.86 3.55
2431 3959 3.249799 TGCCTTCGATGTAAAACACACTG 59.750 43.478 0.00 0.00 40.86 3.66
2436 3964 6.092670 CCTTCGATGTAAAACACACTGATGAT 59.907 38.462 0.00 0.00 40.86 2.45
2441 3969 6.312399 TGTAAAACACACTGATGATGTTCC 57.688 37.500 0.00 0.00 35.54 3.62
2444 3972 5.443185 AAACACACTGATGATGTTCCTTG 57.557 39.130 0.00 0.00 35.54 3.61
2532 4062 4.443913 TTTAATTAAGGGCGGCTTCAAC 57.556 40.909 9.56 0.00 0.00 3.18
2585 4115 8.055181 AGATGGCTGAATAATTCCAAGAACTTA 58.945 33.333 0.00 0.00 31.66 2.24
2647 4177 1.891150 CCTGCTGATTTTTGGTCTGCT 59.109 47.619 6.56 0.00 40.09 4.24
2937 4467 8.537728 AGGTATGATTGCTTCCATAAATTTCA 57.462 30.769 0.00 0.00 0.00 2.69
2964 4494 7.139392 GGAACTTGTTGAACAATTCTAGAACC 58.861 38.462 11.58 5.17 37.48 3.62
3099 4629 6.778821 TCTTGAATCCCAATAGTGAAGTTCA 58.221 36.000 0.08 0.08 33.68 3.18
3296 4826 4.836125 TCCAGCAAACAAGAAGATTCAC 57.164 40.909 0.00 0.00 0.00 3.18
3353 4883 4.170292 TGGCGAGTTCTTAGTTGACTAC 57.830 45.455 0.00 0.00 0.00 2.73
3429 4959 3.565482 TGTGACAGAGAATTGCCACTTTC 59.435 43.478 0.00 0.00 33.29 2.62
3573 6626 8.635765 ACCATTCAGTTATGTTGTGTAAGATT 57.364 30.769 0.00 0.00 0.00 2.40
3646 6699 0.465705 CTTCTGCCCTTATCGCTCCA 59.534 55.000 0.00 0.00 0.00 3.86
3933 6986 5.423931 TCACATACTGACTATGTAAGGCCAA 59.576 40.000 5.01 0.00 43.21 4.52
4125 7179 4.875544 TCACTGAAAAAGGTTCGACAAG 57.124 40.909 0.00 0.00 0.00 3.16
4408 7462 5.531659 AGCTAGCCAATGAATCATTTCTCTG 59.468 40.000 12.13 0.00 31.05 3.35
4534 7588 5.348997 GCGGAGAGTAATGGTAAGCAATATC 59.651 44.000 0.00 0.00 0.00 1.63
5021 8159 4.751060 ACGTGAGATATCCGCAAGTAAAA 58.249 39.130 11.26 0.00 35.82 1.52
5110 8248 5.171476 CGAAAAGGAATCTGTAGAGCTGAA 58.829 41.667 0.00 0.00 0.00 3.02
5240 8378 3.525268 AAGTTCCAAAGCAACCACTTG 57.475 42.857 0.00 0.00 0.00 3.16
5320 8458 2.959516 CAAGGACAGTATCTTGCGACA 58.040 47.619 3.90 0.00 34.76 4.35
5348 8486 2.149578 ACAAGATGCAGACTGCTGAAC 58.850 47.619 26.94 15.11 45.31 3.18
5416 8554 0.555769 TCAACCCCTTCAGGTGCTTT 59.444 50.000 0.00 0.00 40.05 3.51
5430 8568 6.465948 TCAGGTGCTTTATTTTGCATCATTT 58.534 32.000 0.00 0.00 42.26 2.32
5453 8591 7.765695 TTGTCAGCTCATTTCTTTTCCTAAT 57.234 32.000 0.00 0.00 0.00 1.73
5459 8597 9.649167 CAGCTCATTTCTTTTCCTAATCATTTT 57.351 29.630 0.00 0.00 0.00 1.82
5477 8615 8.812513 ATCATTTTGGTATCTTCATTCTGACA 57.187 30.769 0.00 0.00 0.00 3.58
5501 8639 7.391554 ACAAGAATGCACTGTAGTTATTCATGT 59.608 33.333 16.04 16.04 36.83 3.21
5534 8672 6.973843 TGCTAGCAATGATTATGTTGAATCC 58.026 36.000 16.84 0.00 35.34 3.01
5598 8736 7.171678 GTCGATAACAGAATAATTTAGGCTGCT 59.828 37.037 0.00 1.09 0.00 4.24
5623 8761 1.089920 GTGCAACTGCTCATACCTGG 58.910 55.000 2.95 0.00 42.66 4.45
5710 8848 2.603075 TTTAGGCCAGTTTGCTCCAT 57.397 45.000 5.01 0.00 0.00 3.41
5727 8865 1.566231 CCATTAGGAGGGGAGCAAACT 59.434 52.381 0.00 0.00 36.89 2.66
5828 8966 6.136541 AGTGTCTGTTTCCTTTTTGATGAC 57.863 37.500 0.00 0.00 0.00 3.06
5857 8995 0.108138 AGACTGCGCAATCACCTACC 60.108 55.000 22.14 0.00 0.00 3.18
5870 9008 7.048512 GCAATCACCTACCTTTGTATCTAACT 58.951 38.462 0.00 0.00 0.00 2.24
5885 9023 8.611654 TGTATCTAACTTAACACTTGGTTTCC 57.388 34.615 0.00 0.00 40.96 3.13
5897 9035 1.541275 TGGTTTCCCCCTCCTCTTTT 58.459 50.000 0.00 0.00 0.00 2.27
5898 9036 2.720896 TGGTTTCCCCCTCCTCTTTTA 58.279 47.619 0.00 0.00 0.00 1.52
5979 9117 1.841450 GTCGCTTCATCTTCGGTAGG 58.159 55.000 0.00 0.00 0.00 3.18
6197 9340 1.827969 AGAGTTCTACTTCTGCGGCAT 59.172 47.619 1.75 0.00 0.00 4.40
6228 9375 4.638421 CCCGCAGATTAATTTTGTAGTCCA 59.362 41.667 0.00 0.00 0.00 4.02
6243 9390 7.447374 TTGTAGTCCATTTACCACAAAGATG 57.553 36.000 0.00 0.00 29.82 2.90
6372 9545 4.960329 TGTGAAACACTGTTTACGTGAAC 58.040 39.130 15.70 15.70 45.67 3.18
6383 9556 6.535865 ACTGTTTACGTGAACTATGTTTGTGA 59.464 34.615 21.88 0.00 0.00 3.58
6476 9649 2.876550 GGTGGTTTGTTGACTGGAGTAC 59.123 50.000 0.00 0.00 0.00 2.73
6518 9691 6.322491 AGTTAAAGAGTGTTGTTTTGCAGTC 58.678 36.000 0.00 0.00 35.81 3.51
6527 9700 2.479837 TGTTTTGCAGTCGACGAATCT 58.520 42.857 10.46 0.00 0.00 2.40
6635 9809 6.890268 GGAGGTTTAGGTGGTTCTCATTATTT 59.110 38.462 0.00 0.00 0.00 1.40
6636 9810 8.050930 GGAGGTTTAGGTGGTTCTCATTATTTA 58.949 37.037 0.00 0.00 0.00 1.40
6637 9811 9.628500 GAGGTTTAGGTGGTTCTCATTATTTAT 57.372 33.333 0.00 0.00 0.00 1.40
6638 9812 9.990868 AGGTTTAGGTGGTTCTCATTATTTATT 57.009 29.630 0.00 0.00 0.00 1.40
6643 9817 8.511604 AGGTGGTTCTCATTATTTATTCACTG 57.488 34.615 0.00 0.00 0.00 3.66
6644 9818 8.109634 AGGTGGTTCTCATTATTTATTCACTGT 58.890 33.333 0.00 0.00 0.00 3.55
6645 9819 8.739972 GGTGGTTCTCATTATTTATTCACTGTT 58.260 33.333 0.00 0.00 0.00 3.16
6646 9820 9.774742 GTGGTTCTCATTATTTATTCACTGTTC 57.225 33.333 0.00 0.00 0.00 3.18
6647 9821 9.739276 TGGTTCTCATTATTTATTCACTGTTCT 57.261 29.630 0.00 0.00 0.00 3.01
6804 9992 5.586155 TCACTGGGAAAGGTTGGTATTTA 57.414 39.130 0.00 0.00 0.00 1.40
6832 10020 7.330720 ACGTTTTAGATGACGAGTTTAGTTC 57.669 36.000 2.69 0.00 41.53 3.01
6857 10045 1.270550 GGGTTGGCAGTCAGAAACATG 59.729 52.381 0.00 0.00 0.00 3.21
6936 10124 9.881529 TTGGTATTTGTAAACGTTTTAGATGAC 57.118 29.630 20.19 10.49 0.00 3.06
6961 10149 2.799126 TAGTTGTATGGGGTTGGCAG 57.201 50.000 0.00 0.00 0.00 4.85
6970 10158 1.358759 GGGTTGGCAGTCACAAACG 59.641 57.895 0.00 0.00 36.41 3.60
6978 10166 2.287308 GGCAGTCACAAACGTATTGCAA 60.287 45.455 0.00 0.00 0.00 4.08
6985 10173 6.019156 AGTCACAAACGTATTGCAATTTTTGG 60.019 34.615 27.35 20.81 0.00 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.810896 CAAAACCTAGCCGCCGCC 61.811 66.667 0.00 0.00 34.57 6.13
1 2 3.810896 CCAAAACCTAGCCGCCGC 61.811 66.667 0.00 0.00 0.00 6.53
2 3 2.359478 ACCAAAACCTAGCCGCCG 60.359 61.111 0.00 0.00 0.00 6.46
3 4 2.396157 CGACCAAAACCTAGCCGCC 61.396 63.158 0.00 0.00 0.00 6.13
4 5 3.035576 GCGACCAAAACCTAGCCGC 62.036 63.158 0.00 0.00 0.00 6.53
5 6 0.108520 TAGCGACCAAAACCTAGCCG 60.109 55.000 0.00 0.00 0.00 5.52
6 7 1.653151 CTAGCGACCAAAACCTAGCC 58.347 55.000 0.00 0.00 0.00 3.93
7 8 1.007580 GCTAGCGACCAAAACCTAGC 58.992 55.000 0.00 3.16 43.89 3.42
8 9 1.066430 TGGCTAGCGACCAAAACCTAG 60.066 52.381 9.00 0.00 33.12 3.02
9 10 0.978151 TGGCTAGCGACCAAAACCTA 59.022 50.000 9.00 0.00 33.12 3.08
10 11 0.109723 TTGGCTAGCGACCAAAACCT 59.890 50.000 9.00 0.00 44.11 3.50
11 12 2.636299 TTGGCTAGCGACCAAAACC 58.364 52.632 9.00 0.00 44.11 3.27
15 16 1.302993 GGGTTTGGCTAGCGACCAA 60.303 57.895 25.47 15.49 45.37 3.67
16 17 2.349755 GGGTTTGGCTAGCGACCA 59.650 61.111 25.47 10.99 33.81 4.02
17 18 2.818274 CGGGTTTGGCTAGCGACC 60.818 66.667 19.63 19.63 0.00 4.79
18 19 3.497031 GCGGGTTTGGCTAGCGAC 61.497 66.667 9.00 7.27 0.00 5.19
19 20 4.770874 GGCGGGTTTGGCTAGCGA 62.771 66.667 9.00 0.68 0.00 4.93
22 23 4.815108 GGGGGCGGGTTTGGCTAG 62.815 72.222 0.00 0.00 34.31 3.42
36 37 1.935933 CGTATCTCTTTTCGTGGGGG 58.064 55.000 0.00 0.00 0.00 5.40
37 38 1.134788 AGCGTATCTCTTTTCGTGGGG 60.135 52.381 0.00 0.00 0.00 4.96
38 39 2.295253 AGCGTATCTCTTTTCGTGGG 57.705 50.000 0.00 0.00 0.00 4.61
39 40 5.050972 GGAAATAGCGTATCTCTTTTCGTGG 60.051 44.000 0.00 0.00 32.27 4.94
40 41 5.331607 CGGAAATAGCGTATCTCTTTTCGTG 60.332 44.000 0.00 0.00 36.01 4.35
41 42 4.738740 CGGAAATAGCGTATCTCTTTTCGT 59.261 41.667 0.00 0.00 36.01 3.85
42 43 4.148348 CCGGAAATAGCGTATCTCTTTTCG 59.852 45.833 0.00 0.00 38.72 3.46
43 44 5.048507 ACCGGAAATAGCGTATCTCTTTTC 58.951 41.667 9.46 0.00 0.00 2.29
44 45 5.019785 ACCGGAAATAGCGTATCTCTTTT 57.980 39.130 9.46 0.00 0.00 2.27
45 46 4.098960 TGACCGGAAATAGCGTATCTCTTT 59.901 41.667 9.46 0.00 0.00 2.52
46 47 3.635373 TGACCGGAAATAGCGTATCTCTT 59.365 43.478 9.46 0.00 0.00 2.85
47 48 3.004524 GTGACCGGAAATAGCGTATCTCT 59.995 47.826 9.46 0.00 0.00 3.10
48 49 3.306818 GTGACCGGAAATAGCGTATCTC 58.693 50.000 9.46 0.00 0.00 2.75
49 50 2.287427 CGTGACCGGAAATAGCGTATCT 60.287 50.000 9.46 0.00 0.00 1.98
50 51 2.049228 CGTGACCGGAAATAGCGTATC 58.951 52.381 9.46 0.00 0.00 2.24
51 52 2.129823 CGTGACCGGAAATAGCGTAT 57.870 50.000 9.46 0.00 0.00 3.06
52 53 3.628005 CGTGACCGGAAATAGCGTA 57.372 52.632 9.46 0.00 0.00 4.42
53 54 4.489249 CGTGACCGGAAATAGCGT 57.511 55.556 9.46 0.00 0.00 5.07
105 106 2.950433 AGTACAACAACGTACGGGATG 58.050 47.619 21.06 17.26 45.25 3.51
125 126 4.810790 CACCGGCAAAATACCAAATACAA 58.189 39.130 0.00 0.00 0.00 2.41
127 128 3.183754 GCACCGGCAAAATACCAAATAC 58.816 45.455 0.00 0.00 40.72 1.89
128 129 2.166664 GGCACCGGCAAAATACCAAATA 59.833 45.455 0.00 0.00 43.71 1.40
129 130 1.066502 GGCACCGGCAAAATACCAAAT 60.067 47.619 0.00 0.00 43.71 2.32
130 131 0.318762 GGCACCGGCAAAATACCAAA 59.681 50.000 0.00 0.00 43.71 3.28
215 219 1.736032 GCGAATCCTACAACGAGCTGT 60.736 52.381 0.00 0.00 0.00 4.40
216 220 0.924090 GCGAATCCTACAACGAGCTG 59.076 55.000 0.00 0.00 0.00 4.24
217 221 0.179108 GGCGAATCCTACAACGAGCT 60.179 55.000 0.00 0.00 0.00 4.09
218 222 1.480219 CGGCGAATCCTACAACGAGC 61.480 60.000 0.00 0.00 0.00 5.03
222 226 1.153429 AGGCGGCGAATCCTACAAC 60.153 57.895 12.98 0.00 0.00 3.32
290 300 5.594725 TCCTCTCTTTCTAGAACGTGCATAT 59.405 40.000 4.18 0.00 0.00 1.78
320 334 5.164954 GGAGGAGTATATTCTCATGTTCGC 58.835 45.833 11.03 0.00 36.30 4.70
325 339 8.365060 AGAAGATGGAGGAGTATATTCTCATG 57.635 38.462 11.03 0.00 31.28 3.07
328 342 7.310361 CCCAAGAAGATGGAGGAGTATATTCTC 60.310 44.444 0.85 0.85 43.54 2.87
670 2167 3.471806 GCCCGTTCTCTCCCTCCC 61.472 72.222 0.00 0.00 0.00 4.30
963 2460 0.041535 TCCTCCCCTACGCTTTGGTA 59.958 55.000 0.00 0.00 0.00 3.25
965 2462 1.522569 CTCCTCCCCTACGCTTTGG 59.477 63.158 0.00 0.00 0.00 3.28
976 2473 0.105709 CCTTCTCTCTCCCTCCTCCC 60.106 65.000 0.00 0.00 0.00 4.30
990 2487 2.745968 GTCCACCTCATCTCTCCTTCT 58.254 52.381 0.00 0.00 0.00 2.85
993 2490 0.396417 CCGTCCACCTCATCTCTCCT 60.396 60.000 0.00 0.00 0.00 3.69
994 2491 2.022240 GCCGTCCACCTCATCTCTCC 62.022 65.000 0.00 0.00 0.00 3.71
1154 2651 1.498865 CCGATCGAAATCCCCAAGCG 61.499 60.000 18.66 0.00 0.00 4.68
1323 2820 1.393539 CGAACGAAACGATGAAGGCAT 59.606 47.619 0.00 0.00 37.47 4.40
1344 2841 5.290386 CGAATATTTCTATAGCGGGATCCC 58.710 45.833 22.12 22.12 0.00 3.85
1353 2854 6.347725 GCAGCAACCACCGAATATTTCTATAG 60.348 42.308 0.00 0.00 0.00 1.31
1354 2855 5.468746 GCAGCAACCACCGAATATTTCTATA 59.531 40.000 0.00 0.00 0.00 1.31
1399 2900 2.156343 ACTGAGACAAGAGTTTCGGC 57.844 50.000 0.00 0.00 38.47 5.54
1408 2909 3.046390 GGCGATATCGAACTGAGACAAG 58.954 50.000 28.63 0.00 43.02 3.16
1413 2914 2.398498 CCAAGGCGATATCGAACTGAG 58.602 52.381 28.63 18.35 43.02 3.35
1423 2924 2.037511 CCCGTTAATACCCAAGGCGATA 59.962 50.000 0.00 0.00 0.00 2.92
1431 2932 3.181458 GCTCTGAATCCCGTTAATACCCA 60.181 47.826 0.00 0.00 0.00 4.51
1588 3111 0.321653 CGAAACAGGTGGGGAGAAGG 60.322 60.000 0.00 0.00 0.00 3.46
1594 3117 2.358247 CGGTCGAAACAGGTGGGG 60.358 66.667 0.00 0.00 0.00 4.96
1643 3166 0.465705 AGCGATGTAGGGGACACATG 59.534 55.000 0.00 0.00 42.17 3.21
1691 3214 4.438255 CCACATGGACCATGGCAA 57.562 55.556 32.82 0.00 45.16 4.52
1880 3403 1.176527 TTTGCCTAGCAGTCCAATGC 58.823 50.000 0.00 0.00 46.88 3.56
1881 3404 2.480759 GCATTTGCCTAGCAGTCCAATG 60.481 50.000 7.15 7.15 40.61 2.82
1933 3456 6.253512 GCCGAATCATTAACCAAGAAAATCAC 59.746 38.462 0.00 0.00 0.00 3.06
2045 3572 7.883833 AGACAAGGGACCTCTTTAATTTAGTTC 59.116 37.037 0.00 0.00 0.00 3.01
2046 3573 7.756614 AGACAAGGGACCTCTTTAATTTAGTT 58.243 34.615 0.00 0.00 0.00 2.24
2048 3575 9.384764 CTTAGACAAGGGACCTCTTTAATTTAG 57.615 37.037 0.00 0.00 0.00 1.85
2049 3576 8.887393 ACTTAGACAAGGGACCTCTTTAATTTA 58.113 33.333 0.00 0.00 35.97 1.40
2050 3577 7.756614 ACTTAGACAAGGGACCTCTTTAATTT 58.243 34.615 0.00 0.00 35.97 1.82
2051 3578 7.331089 ACTTAGACAAGGGACCTCTTTAATT 57.669 36.000 0.00 0.00 35.97 1.40
2052 3579 6.954352 ACTTAGACAAGGGACCTCTTTAAT 57.046 37.500 0.00 0.00 35.97 1.40
2053 3580 7.015064 ACTACTTAGACAAGGGACCTCTTTAA 58.985 38.462 0.00 0.00 35.97 1.52
2054 3581 6.559429 ACTACTTAGACAAGGGACCTCTTTA 58.441 40.000 0.00 0.00 35.97 1.85
2055 3582 5.404395 ACTACTTAGACAAGGGACCTCTTT 58.596 41.667 0.00 0.00 35.97 2.52
2056 3583 5.013258 ACTACTTAGACAAGGGACCTCTT 57.987 43.478 0.00 0.00 35.97 2.85
2057 3584 4.292836 AGACTACTTAGACAAGGGACCTCT 59.707 45.833 0.00 0.00 35.97 3.69
2058 3585 4.602107 AGACTACTTAGACAAGGGACCTC 58.398 47.826 0.00 0.00 35.97 3.85
2059 3586 4.678538 AGACTACTTAGACAAGGGACCT 57.321 45.455 0.00 0.00 35.97 3.85
2060 3587 4.081586 CCAAGACTACTTAGACAAGGGACC 60.082 50.000 0.00 0.00 35.97 4.46
2061 3588 4.081586 CCCAAGACTACTTAGACAAGGGAC 60.082 50.000 8.72 0.00 36.89 4.46
2062 3589 4.094476 CCCAAGACTACTTAGACAAGGGA 58.906 47.826 8.72 0.00 36.89 4.20
2063 3590 3.369576 GCCCAAGACTACTTAGACAAGGG 60.370 52.174 9.56 9.56 37.38 3.95
2083 3610 1.068127 GGCATTGGATCAATCACAGCC 59.932 52.381 0.00 0.00 34.02 4.85
2096 3623 1.661617 CGCATTTTGTGATGGCATTGG 59.338 47.619 0.00 0.00 0.00 3.16
2114 3641 1.124839 GCAGCTTTGCACAAAATACGC 59.875 47.619 0.00 0.00 34.41 4.42
2116 3643 3.184986 CCTTGCAGCTTTGCACAAAATAC 59.815 43.478 0.00 0.00 45.32 1.89
2138 3666 2.103771 TCATAGCAGGAGAAGTCCATGC 59.896 50.000 0.00 0.00 46.80 4.06
2147 3675 5.584551 TCTGTATACCTCATAGCAGGAGA 57.415 43.478 0.00 0.00 36.96 3.71
2157 3685 3.099905 AGCTGCACTTCTGTATACCTCA 58.900 45.455 1.02 0.00 0.00 3.86
2158 3686 3.118956 ACAGCTGCACTTCTGTATACCTC 60.119 47.826 15.27 0.00 41.32 3.85
2168 3696 5.280945 TGTCATTTTTAACAGCTGCACTTC 58.719 37.500 15.27 0.00 0.00 3.01
2174 3702 6.308766 GCTACCAATGTCATTTTTAACAGCTG 59.691 38.462 13.48 13.48 0.00 4.24
2197 3725 2.497675 TGGCGTCTTCTTCTATGAAGCT 59.502 45.455 2.71 0.00 42.15 3.74
2198 3726 2.893637 TGGCGTCTTCTTCTATGAAGC 58.106 47.619 2.71 0.00 42.15 3.86
2204 3732 4.021229 TCTACCATTGGCGTCTTCTTCTA 58.979 43.478 1.54 0.00 0.00 2.10
2216 3744 3.234234 AGCCCAATCATCTACCATTGG 57.766 47.619 0.00 0.00 46.10 3.16
2263 3791 5.639931 GGTCTCTACAAAGACAAGGACAATC 59.360 44.000 6.40 0.00 46.15 2.67
2277 3805 0.830444 AGTGTGCCCGGTCTCTACAA 60.830 55.000 0.00 0.00 0.00 2.41
2280 3808 1.681327 GGAGTGTGCCCGGTCTCTA 60.681 63.158 0.00 0.00 0.00 2.43
2317 3845 9.696917 AAAATTGAACAAGACAAGGACAATATC 57.303 29.630 0.00 0.00 0.00 1.63
2335 3863 7.905493 GCAAACAACGGAAATGTTAAAATTGAA 59.095 29.630 0.00 0.00 39.98 2.69
2338 3866 7.308782 TGCAAACAACGGAAATGTTAAAATT 57.691 28.000 0.00 0.00 39.98 1.82
2347 3875 0.665835 TCGCTGCAAACAACGGAAAT 59.334 45.000 0.00 0.00 36.07 2.17
2351 3879 0.515127 TACATCGCTGCAAACAACGG 59.485 50.000 0.00 0.00 36.07 4.44
2353 3881 4.225984 TGAATTACATCGCTGCAAACAAC 58.774 39.130 0.00 0.00 0.00 3.32
2356 3884 5.003778 GTGATTGAATTACATCGCTGCAAAC 59.996 40.000 0.00 0.00 0.00 2.93
2361 3889 5.872635 AGTTGTGATTGAATTACATCGCTG 58.127 37.500 3.54 0.00 0.00 5.18
2410 3938 3.496884 TCAGTGTGTTTTACATCGAAGGC 59.503 43.478 0.00 0.00 42.24 4.35
2411 3939 5.408299 TCATCAGTGTGTTTTACATCGAAGG 59.592 40.000 0.00 0.00 42.24 3.46
2430 3958 9.300681 AGTAATTCTTTTCAAGGAACATCATCA 57.699 29.630 0.00 0.00 0.00 3.07
2436 3964 8.519799 ACAGAAGTAATTCTTTTCAAGGAACA 57.480 30.769 1.94 0.00 36.40 3.18
2454 3982 9.185680 ACAAAACATTTAGGAGTTTACAGAAGT 57.814 29.630 0.00 0.00 36.98 3.01
2514 4044 0.808755 CGTTGAAGCCGCCCTTAATT 59.191 50.000 0.00 0.00 32.78 1.40
2523 4053 1.191647 GTGTGTTCTACGTTGAAGCCG 59.808 52.381 12.74 0.00 0.00 5.52
2532 4062 4.055360 TGACCTCATTTGTGTGTTCTACG 58.945 43.478 0.00 0.00 0.00 3.51
2647 4177 3.307691 CCTCCTCCACTACTGCAAATTCA 60.308 47.826 0.00 0.00 0.00 2.57
2676 4206 0.249615 GCTGAGAGTCCGCATATGCA 60.250 55.000 26.52 6.05 42.21 3.96
2868 4398 1.134220 TCAACAACGCTCCTTGGTTCT 60.134 47.619 0.00 0.00 0.00 3.01
2937 4467 6.601332 TCTAGAATTGTTCAACAAGTTCCCT 58.399 36.000 9.27 2.64 41.94 4.20
2964 4494 6.055588 TCAGGAGGTTGTGAAAGAAGTAAAG 58.944 40.000 0.00 0.00 0.00 1.85
3099 4629 8.047310 CCCTAACAGGTCAAACTTGTAGATAAT 58.953 37.037 0.00 0.00 37.44 1.28
3296 4826 0.179020 TCCCCATATTTGAGCGGCAG 60.179 55.000 1.45 0.00 0.00 4.85
3353 4883 0.311165 CCGCTACCACCAGATAGTCG 59.689 60.000 0.00 0.00 0.00 4.18
3429 4959 4.504858 ACCATACGAAAGCTTACCTTCAG 58.495 43.478 0.00 0.00 31.99 3.02
3804 6857 1.317613 ACTCTGCCGCAAATTCAACA 58.682 45.000 0.00 0.00 0.00 3.33
3933 6986 3.644738 TCAAAAGTAAGAGAGGACCGGTT 59.355 43.478 9.42 0.00 0.00 4.44
3981 7034 1.463444 GTGGCAACCTAGTGTAAAGCG 59.537 52.381 0.00 0.00 0.00 4.68
4107 7161 5.734855 TTCTCTTGTCGAACCTTTTTCAG 57.265 39.130 0.00 0.00 0.00 3.02
4125 7179 5.003804 TCCTCAGCAAAGTTGGTAATTCTC 58.996 41.667 0.00 0.00 37.09 2.87
4408 7462 3.608506 CACGACGATTAGCCTGTATATGC 59.391 47.826 0.00 0.00 0.00 3.14
4534 7588 6.292811 GCACCAAAAGGAACACATAACAAATG 60.293 38.462 0.00 0.00 0.00 2.32
4768 7906 1.686587 TGGATACGGTAGCACTGGATG 59.313 52.381 5.71 0.00 42.51 3.51
5021 8159 5.583854 CAGTTGCTTGCTCTTCATGTATAGT 59.416 40.000 0.00 0.00 0.00 2.12
5110 8248 6.538263 AGAGCCTTCTTAAACTCTTCAATGT 58.462 36.000 0.00 0.00 36.05 2.71
5320 8458 4.380233 GCAGTCTGCATCTTGTTAAAGCAT 60.380 41.667 20.16 0.00 44.26 3.79
5416 8554 6.270156 TGAGCTGACAAATGATGCAAAATA 57.730 33.333 0.00 0.00 0.00 1.40
5430 8568 6.942005 TGATTAGGAAAAGAAATGAGCTGACA 59.058 34.615 0.00 0.00 0.00 3.58
5477 8615 7.607607 TCACATGAATAACTACAGTGCATTCTT 59.392 33.333 0.00 8.09 34.23 2.52
5501 8639 7.770433 ACATAATCATTGCTAGCAGTTACTTCA 59.230 33.333 18.45 0.02 0.00 3.02
5534 8672 6.255453 TCAATTTTCTTTTCAACTGCTTTCCG 59.745 34.615 0.00 0.00 0.00 4.30
5623 8761 7.203218 ACAGACAAGAAAGAAAATAAGGCAAC 58.797 34.615 0.00 0.00 0.00 4.17
5706 8844 1.564348 GTTTGCTCCCCTCCTAATGGA 59.436 52.381 0.00 0.00 40.69 3.41
5710 8848 0.328258 GCAGTTTGCTCCCCTCCTAA 59.672 55.000 0.00 0.00 40.96 2.69
5828 8966 0.664466 TGCGCAGTCTGACTTTCTCG 60.664 55.000 5.66 10.25 0.00 4.04
5884 9022 5.369699 TGAACTCATATAAAAGAGGAGGGGG 59.630 44.000 0.00 0.00 36.20 5.40
5885 9023 6.500589 TGAACTCATATAAAAGAGGAGGGG 57.499 41.667 0.00 0.00 36.20 4.79
5897 9035 9.177608 AGCTTATTTGTTTGCTGAACTCATATA 57.822 29.630 5.39 0.00 39.08 0.86
5898 9036 8.059798 AGCTTATTTGTTTGCTGAACTCATAT 57.940 30.769 5.39 0.00 39.08 1.78
5979 9117 0.882474 ACTATATGCCGCTCGAGTCC 59.118 55.000 15.13 3.30 0.00 3.85
6018 9156 3.944055 AGCCTCTGTATATACCGCAAG 57.056 47.619 10.38 1.41 0.00 4.01
6197 9340 1.237954 TTAATCTGCGGGTTTGCGCA 61.238 50.000 5.66 5.66 39.40 6.09
6206 9349 5.811399 TGGACTACAAAATTAATCTGCGG 57.189 39.130 0.00 0.00 0.00 5.69
6243 9390 1.069596 CCAAACTGGCCCTTTGCAC 59.930 57.895 14.81 0.00 43.89 4.57
6372 9545 7.865707 AGAAGTTTTGCTAGTCACAAACATAG 58.134 34.615 16.74 0.00 36.77 2.23
6383 9556 4.284746 AGAGCCAGTAGAAGTTTTGCTAGT 59.715 41.667 0.00 0.00 0.00 2.57
6498 9671 3.438781 TCGACTGCAAAACAACACTCTTT 59.561 39.130 0.00 0.00 0.00 2.52
6518 9691 1.630148 GGAACACTCCAGATTCGTCG 58.370 55.000 0.00 0.00 41.96 5.12
6638 9812 9.725019 ACAGTGAATAAATAATGAGAACAGTGA 57.275 29.630 0.00 0.00 32.70 3.41
6676 9850 2.222886 CGGTTGGTTGTGTTCCATGTA 58.777 47.619 0.00 0.00 34.75 2.29
6677 9851 1.028905 CGGTTGGTTGTGTTCCATGT 58.971 50.000 0.00 0.00 34.75 3.21
6678 9852 1.028905 ACGGTTGGTTGTGTTCCATG 58.971 50.000 0.00 0.00 34.75 3.66
6792 9980 8.449251 TCTAAAACGTTTGTAAATACCAACCT 57.551 30.769 15.46 0.00 30.57 3.50
6804 9992 5.978934 AACTCGTCATCTAAAACGTTTGT 57.021 34.783 15.46 7.55 39.78 2.83
6832 10020 0.911769 TCTGACTGCCAACCCCATAG 59.088 55.000 0.00 0.00 0.00 2.23
6857 10045 2.203625 TTTCTGGCTGCCAACCCC 60.204 61.111 23.51 0.00 30.80 4.95
6912 10100 9.881529 TTGTCATCTAAAACGTTTACAAATACC 57.118 29.630 15.03 0.48 0.00 2.73
6936 10124 4.321675 GCCAACCCCATACAACTAAACTTG 60.322 45.833 0.00 0.00 0.00 3.16
6961 10149 6.126079 CCAAAAATTGCAATACGTTTGTGAC 58.874 36.000 25.77 0.00 0.00 3.67
6970 10158 7.961325 TTTCTCTTCCCAAAAATTGCAATAC 57.039 32.000 13.39 0.00 0.00 1.89


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

AutoCloner maintained by Alex Coulton.