Multiple sequence alignment - TraesCS2A01G455200

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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 TraesCS2A01G455200 chr2A 100.000 5553 0 0 1 5553 703876557 703882109 0.000000e+00 10255.0
1 TraesCS2A01G455200 chr2A 87.500 240 23 4 2588 2825 41138587 41138821 2.550000e-68 270.0
2 TraesCS2A01G455200 chr2B 95.583 3441 105 19 12 3424 674037183 674040604 0.000000e+00 5469.0
3 TraesCS2A01G455200 chr2B 94.554 1469 65 7 3417 4883 674040777 674042232 0.000000e+00 2255.0
4 TraesCS2A01G455200 chr2B 93.989 183 10 1 5157 5338 674060943 674061125 5.480000e-70 276.0
5 TraesCS2A01G455200 chr2B 90.000 100 10 0 4114 4213 393185627 393185528 4.510000e-26 130.0
6 TraesCS2A01G455200 chr2D 96.443 3121 95 11 306 3419 563794711 563797822 0.000000e+00 5134.0
7 TraesCS2A01G455200 chr2D 93.920 1694 47 16 3417 5073 563798002 563799676 0.000000e+00 2507.0
8 TraesCS2A01G455200 chr2D 94.796 269 14 0 12 280 563794378 563794646 2.390000e-113 420.0
9 TraesCS2A01G455200 chr2D 88.550 262 15 6 5157 5409 563801164 563801419 2.510000e-78 303.0
10 TraesCS2A01G455200 chr7D 89.270 233 21 3 2593 2825 426562446 426562218 7.040000e-74 289.0
11 TraesCS2A01G455200 chr1B 83.908 87 8 5 3125 3208 54974606 54974689 1.660000e-10 78.7
12 TraesCS2A01G455200 chr1B 83.908 87 8 5 3125 3208 55013135 55013218 1.660000e-10 78.7


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 TraesCS2A01G455200 chr2A 703876557 703882109 5552 False 10255 10255 100.00000 1 5553 1 chr2A.!!$F2 5552
1 TraesCS2A01G455200 chr2B 674037183 674042232 5049 False 3862 5469 95.06850 12 4883 2 chr2B.!!$F2 4871
2 TraesCS2A01G455200 chr2D 563794378 563801419 7041 False 2091 5134 93.42725 12 5409 4 chr2D.!!$F1 5397

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
84 85 1.618837 TGAGGACCGGAGAGTTTTCTG 59.381 52.381 9.46 0.0 32.53 3.02 F
1574 1631 1.285023 GGCTGCTGTTGCTGACTTG 59.715 57.895 0.00 0.0 42.07 3.16 F
2102 2159 0.744414 TCCTTGCTTATGCGCTGGAC 60.744 55.000 9.73 0.0 43.34 4.02 F
2630 2687 1.335324 GCTGCAGCCAACTTGTTACAG 60.335 52.381 28.76 0.0 34.31 2.74 F
2886 2943 1.550065 CTCAGCCATACGTTGAGTCG 58.450 55.000 6.11 0.0 43.02 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1588 1645 0.536006 AGCTGTCACTTGCTTCCACC 60.536 55.0 0.00 0.00 35.86 4.61 R
3132 3189 0.455464 CACACTCGTGCGTATTCCGA 60.455 55.0 0.00 0.00 36.06 4.55 R
3964 4209 0.101759 CTGCGAATTTGGGATGCAGG 59.898 55.0 4.67 0.00 46.97 4.85 R
4288 4541 0.617413 CACAGATGAGGAACAGCCCT 59.383 55.0 0.00 0.00 39.77 5.19 R
4783 5038 1.525596 CTATATCAGCGCGACGTAGC 58.474 55.0 12.10 10.95 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
43 44 1.946768 CCAGTTCGTTCCTCTTGCAAA 59.053 47.619 0.00 0.00 0.00 3.68
84 85 1.618837 TGAGGACCGGAGAGTTTTCTG 59.381 52.381 9.46 0.00 32.53 3.02
184 185 2.185350 CGTTGGCATCTCGGCTCT 59.815 61.111 0.00 0.00 41.89 4.09
186 187 1.817099 GTTGGCATCTCGGCTCTGG 60.817 63.158 0.00 0.00 41.89 3.86
208 209 4.142138 GGGGCGATATCTGGACATAACTAG 60.142 50.000 0.34 0.00 0.00 2.57
298 320 2.665185 ACCTCTTGTTCGCACGGC 60.665 61.111 0.00 0.00 0.00 5.68
336 376 3.462483 TTAGAAGCAACTGACGACCAA 57.538 42.857 0.00 0.00 0.00 3.67
381 421 3.829601 AGAGTCACTTCGTCTGGATTCTT 59.170 43.478 0.00 0.00 0.00 2.52
382 422 5.010933 AGAGTCACTTCGTCTGGATTCTTA 58.989 41.667 0.00 0.00 0.00 2.10
459 500 2.477863 GCATGTACCACGCTTTTGGATC 60.478 50.000 3.08 0.00 39.24 3.36
576 618 1.950098 GAGTTCGTCGCAGCAGCTTC 61.950 60.000 0.00 0.00 39.10 3.86
794 840 5.367937 TGATTTATCCTCCTCTCTTTCCCTG 59.632 44.000 0.00 0.00 0.00 4.45
805 851 1.778383 TTTCCCTGGGCCTTCACCT 60.778 57.895 8.22 0.00 0.00 4.00
863 909 7.615582 TTTTCAATTCATAGCTCCACTACTG 57.384 36.000 0.00 0.00 32.32 2.74
971 1017 1.737838 CTGAAGCATGGACGCCTAAA 58.262 50.000 0.00 0.00 0.00 1.85
1053 1099 5.468540 TCTGTTGTCTGTATGCACTAAGT 57.531 39.130 0.00 0.00 0.00 2.24
1169 1215 3.425892 GCTGCTGTCAATGAGATCAACAC 60.426 47.826 0.00 0.00 0.00 3.32
1574 1631 1.285023 GGCTGCTGTTGCTGACTTG 59.715 57.895 0.00 0.00 42.07 3.16
1588 1645 3.489398 GCTGACTTGGTCGACTACTATGG 60.489 52.174 16.46 3.15 34.95 2.74
1616 1673 8.253810 TGGAAGCAAGTGACAGCTATATATATC 58.746 37.037 0.00 0.00 40.90 1.63
1643 1700 4.898829 TGATTATGGAAGAAACGGCATG 57.101 40.909 0.00 0.00 0.00 4.06
1738 1795 4.773323 AAAAGAGTGAAATGGCTAGTGC 57.227 40.909 0.00 0.00 38.76 4.40
1742 1799 1.207089 AGTGAAATGGCTAGTGCGCTA 59.793 47.619 9.73 6.84 40.82 4.26
1772 1829 3.200483 TGCATTGATGGAATCTCGAGTG 58.800 45.455 13.13 0.00 45.81 3.51
1776 1833 4.655762 TTGATGGAATCTCGAGTGGTAG 57.344 45.455 13.13 0.00 45.81 3.18
1817 1874 1.004560 TGGGCTTGCACTTCTCTCG 60.005 57.895 0.00 0.00 0.00 4.04
1818 1875 2.394563 GGGCTTGCACTTCTCTCGC 61.395 63.158 0.00 0.00 0.00 5.03
1841 1898 1.079197 ACGCAATCTCGGCATGACA 60.079 52.632 0.00 0.00 0.00 3.58
1880 1937 1.985473 TTGCAACAGATTGGCTCAGT 58.015 45.000 0.00 0.00 36.23 3.41
2018 2075 1.211703 TGGAGTGCACTGGTGAAGAAA 59.788 47.619 27.27 0.00 0.00 2.52
2023 2080 4.319177 AGTGCACTGGTGAAGAAAGATAC 58.681 43.478 20.97 0.00 0.00 2.24
2073 2130 5.699001 TCGTATGGCTTTTATGCGTATGATT 59.301 36.000 0.00 0.00 35.57 2.57
2102 2159 0.744414 TCCTTGCTTATGCGCTGGAC 60.744 55.000 9.73 0.00 43.34 4.02
2630 2687 1.335324 GCTGCAGCCAACTTGTTACAG 60.335 52.381 28.76 0.00 34.31 2.74
2835 2892 5.419155 TGCTGTGGTAGGTGATATAGCTATC 59.581 44.000 10.16 0.00 41.10 2.08
2877 2934 3.664107 TGTTGACTTCACTCAGCCATAC 58.336 45.455 0.00 0.00 0.00 2.39
2886 2943 1.550065 CTCAGCCATACGTTGAGTCG 58.450 55.000 6.11 0.00 43.02 4.18
3007 3064 4.282449 TCTTTCTTGTCATAGGAACGGTGA 59.718 41.667 0.00 0.00 0.00 4.02
3039 3096 5.730847 GCTTGAGCACAGAATCAATGATGAG 60.731 44.000 0.00 0.00 38.97 2.90
3220 3277 3.069443 CCAAAGTGTTGCAAGTTACCCAT 59.931 43.478 0.00 0.00 33.01 4.00
3221 3278 4.442753 CCAAAGTGTTGCAAGTTACCCATT 60.443 41.667 0.00 0.00 33.01 3.16
3323 3381 3.375299 CCAATACAAAGTCTAGTGGCTGC 59.625 47.826 0.00 0.00 0.00 5.25
3405 3467 3.393278 CCGGGGATTAGACTTATTTCCCA 59.607 47.826 8.46 0.00 37.66 4.37
3440 3685 6.371809 TTTAGTTTCTTGAACGATGCAAGT 57.628 33.333 13.33 0.00 43.20 3.16
3447 3692 2.832563 TGAACGATGCAAGTGTCTTGA 58.167 42.857 12.77 0.31 0.00 3.02
3469 3714 6.563422 TGATTGCTTGAGGTTAATTACATGC 58.437 36.000 0.00 0.00 35.19 4.06
3473 3718 6.176896 TGCTTGAGGTTAATTACATGCTGTA 58.823 36.000 0.00 0.00 35.48 2.74
3476 3721 7.857885 GCTTGAGGTTAATTACATGCTGTATTC 59.142 37.037 0.00 0.00 32.20 1.75
3596 3841 3.612860 CCCAGTCGATTCACTAAAGTTCG 59.387 47.826 0.00 0.00 0.00 3.95
3772 4017 2.240500 CGATAGCTTGGTCGCCAGC 61.241 63.158 0.00 10.15 33.81 4.85
3924 4169 3.197790 CAATGGAGGCGTCGCTGG 61.198 66.667 18.11 0.00 0.00 4.85
3964 4209 5.055812 CCCTATGTTGAGATCTTCTTGCTC 58.944 45.833 0.00 0.00 0.00 4.26
4009 4254 1.594331 GCTCGGAGTTCACCAAAAGT 58.406 50.000 6.90 0.00 0.00 2.66
4027 4272 4.021925 GGCTGGGGCTTCGTGAGT 62.022 66.667 0.00 0.00 38.73 3.41
4028 4273 2.032681 GCTGGGGCTTCGTGAGTT 59.967 61.111 0.00 0.00 35.22 3.01
4053 4306 6.648879 TTATTTCTTTCCACCTGGTGAAAG 57.351 37.500 27.94 27.73 35.23 2.62
4057 4310 4.714632 TCTTTCCACCTGGTGAAAGTAAG 58.285 43.478 29.60 21.81 35.23 2.34
4067 4320 3.263261 GGTGAAAGTAAGAGCACCTAGC 58.737 50.000 0.00 0.00 45.58 3.42
4095 4348 6.314648 CAGTGAAGTTATGATGCAGAGCTAAA 59.685 38.462 0.00 0.00 0.00 1.85
4220 4473 1.891919 GACAAGTGGCTGGCGAACA 60.892 57.895 0.00 0.00 0.00 3.18
4288 4541 1.001293 CTGCAGGTGTACAGCTTCTCA 59.999 52.381 24.50 19.35 36.98 3.27
4306 4559 0.617413 CAGGGCTGTTCCTCATCTGT 59.383 55.000 0.00 0.00 34.31 3.41
4366 4619 3.307059 GCATCCTCTTCCACAAGTACTGT 60.307 47.826 0.00 0.00 39.56 3.55
4553 4806 2.265904 ACTGCCACGTCGTGCTAGA 61.266 57.895 24.64 8.30 31.34 2.43
4554 4807 1.515088 CTGCCACGTCGTGCTAGAG 60.515 63.158 20.01 7.01 31.34 2.43
4788 5043 3.188786 GTCCTGGCGCTTGCTACG 61.189 66.667 7.64 0.00 39.13 3.51
4790 5045 3.188786 CCTGGCGCTTGCTACGTC 61.189 66.667 7.64 0.00 39.13 4.34
4791 5046 3.545481 CTGGCGCTTGCTACGTCG 61.545 66.667 7.64 0.00 38.15 5.12
4835 5109 7.326063 GCTTTTGGTTTGTGTCTTGTATATGTC 59.674 37.037 0.00 0.00 0.00 3.06
4851 5125 7.200455 TGTATATGTCTGTATGTCAGTTTCCG 58.800 38.462 0.00 0.00 43.97 4.30
4884 5158 3.146066 TGAGGATTTTGTAAGCGTGCTT 58.854 40.909 12.30 12.30 39.83 3.91
4892 5166 2.006888 TGTAAGCGTGCTTATTCCAGC 58.993 47.619 16.57 4.51 40.18 4.85
4915 5189 4.663444 GCTGGCTAGCGATGTAGG 57.337 61.111 6.22 0.00 40.67 3.18
4916 5190 2.041976 GCTGGCTAGCGATGTAGGA 58.958 57.895 6.22 0.00 40.67 2.94
5105 6830 0.229753 GTGTCTGTTGTCTGTTCGCG 59.770 55.000 0.00 0.00 0.00 5.87
5123 6848 1.472276 CGCTATCCACGCGTTGAGTC 61.472 60.000 18.42 8.75 45.13 3.36
5134 6859 3.863424 ACGCGTTGAGTCGAATATGATTT 59.137 39.130 5.58 0.00 0.00 2.17
5135 6860 5.038683 ACGCGTTGAGTCGAATATGATTTA 58.961 37.500 5.58 0.00 0.00 1.40
5136 6861 5.690409 ACGCGTTGAGTCGAATATGATTTAT 59.310 36.000 5.58 0.00 0.00 1.40
5137 6862 6.200286 ACGCGTTGAGTCGAATATGATTTATT 59.800 34.615 5.58 0.00 0.00 1.40
5138 6863 7.063456 CGCGTTGAGTCGAATATGATTTATTT 58.937 34.615 0.00 0.00 0.00 1.40
5139 6864 8.211838 CGCGTTGAGTCGAATATGATTTATTTA 58.788 33.333 0.00 0.00 0.00 1.40
5140 6865 9.858247 GCGTTGAGTCGAATATGATTTATTTAA 57.142 29.630 0.00 0.00 0.00 1.52
5164 6889 3.610976 TGCGAGGGCAGTCGAATA 58.389 55.556 12.15 0.00 46.21 1.75
5165 6890 2.124293 TGCGAGGGCAGTCGAATAT 58.876 52.632 12.15 0.00 46.21 1.28
5166 6891 0.249447 TGCGAGGGCAGTCGAATATG 60.249 55.000 12.15 0.00 46.21 1.78
5167 6892 0.032130 GCGAGGGCAGTCGAATATGA 59.968 55.000 12.15 0.00 42.85 2.15
5168 6893 1.337260 GCGAGGGCAGTCGAATATGAT 60.337 52.381 12.15 0.00 42.85 2.45
5169 6894 2.868044 GCGAGGGCAGTCGAATATGATT 60.868 50.000 12.15 0.00 42.85 2.57
5175 6900 3.057019 GCAGTCGAATATGATTACGGCA 58.943 45.455 0.00 0.00 32.55 5.69
5186 6911 7.926674 ATATGATTACGGCATGAATGAATGA 57.073 32.000 0.00 0.00 0.00 2.57
5221 6946 0.674581 ATGGCGGCGATGATGGTATG 60.675 55.000 12.98 0.00 0.00 2.39
5244 6969 5.001874 GCATCAAGATGAGCTCCATTATGA 58.998 41.667 12.15 9.74 41.20 2.15
5251 6976 6.529220 AGATGAGCTCCATTATGAAGGTAAC 58.471 40.000 12.15 0.00 35.17 2.50
5255 6980 7.291182 ATGAGCTCCATTATGAAGGTAACTACT 59.709 37.037 12.15 0.00 38.12 2.57
5288 7013 8.517878 CAAAGGTAAAAGAAGTCATGATCACAT 58.482 33.333 0.00 0.00 37.19 3.21
5299 7024 3.687698 TCATGATCACATCACAAGTGCTG 59.312 43.478 0.00 2.76 43.01 4.41
5326 7051 1.234821 GCTCATCGAACCAACCAACA 58.765 50.000 0.00 0.00 0.00 3.33
5329 7054 0.596082 CATCGAACCAACCAACACCC 59.404 55.000 0.00 0.00 0.00 4.61
5330 7055 0.887387 ATCGAACCAACCAACACCCG 60.887 55.000 0.00 0.00 0.00 5.28
5331 7056 1.820481 CGAACCAACCAACACCCGT 60.820 57.895 0.00 0.00 0.00 5.28
5332 7057 1.378124 CGAACCAACCAACACCCGTT 61.378 55.000 0.00 0.00 35.01 4.44
5353 7087 1.983119 GCCACTACTGCCCAGCCATA 61.983 60.000 0.00 0.00 0.00 2.74
5358 7092 2.092914 ACTACTGCCCAGCCATAACTTC 60.093 50.000 0.00 0.00 0.00 3.01
5363 7097 2.224992 TGCCCAGCCATAACTTCTTGAA 60.225 45.455 0.00 0.00 0.00 2.69
5364 7098 2.164422 GCCCAGCCATAACTTCTTGAAC 59.836 50.000 0.00 0.00 0.00 3.18
5365 7099 3.690460 CCCAGCCATAACTTCTTGAACT 58.310 45.455 0.00 0.00 0.00 3.01
5366 7100 3.441572 CCCAGCCATAACTTCTTGAACTG 59.558 47.826 0.00 0.00 0.00 3.16
5367 7101 4.326826 CCAGCCATAACTTCTTGAACTGA 58.673 43.478 0.00 0.00 0.00 3.41
5368 7102 4.761739 CCAGCCATAACTTCTTGAACTGAA 59.238 41.667 0.00 0.00 0.00 3.02
5378 7112 6.863275 ACTTCTTGAACTGAAAAATCCGTTT 58.137 32.000 0.00 0.00 0.00 3.60
5383 7117 4.024387 TGAACTGAAAAATCCGTTTCCTCG 60.024 41.667 0.00 0.00 36.80 4.63
5387 7121 3.878103 TGAAAAATCCGTTTCCTCGTTCA 59.122 39.130 0.00 0.00 36.80 3.18
5413 7147 4.314440 GTGGCCGTGAGCTGTCCA 62.314 66.667 0.00 0.00 43.05 4.02
5414 7148 3.321648 TGGCCGTGAGCTGTCCAT 61.322 61.111 0.00 0.00 43.05 3.41
5415 7149 1.987306 TGGCCGTGAGCTGTCCATA 60.987 57.895 0.00 0.00 43.05 2.74
5416 7150 1.227380 GGCCGTGAGCTGTCCATAG 60.227 63.158 0.00 0.00 43.05 2.23
5417 7151 1.227380 GCCGTGAGCTGTCCATAGG 60.227 63.158 0.00 0.00 38.99 2.57
5418 7152 1.227380 CCGTGAGCTGTCCATAGGC 60.227 63.158 0.00 0.00 0.00 3.93
5419 7153 1.680522 CCGTGAGCTGTCCATAGGCT 61.681 60.000 0.00 0.00 39.16 4.58
5420 7154 1.032794 CGTGAGCTGTCCATAGGCTA 58.967 55.000 0.00 0.00 36.37 3.93
5421 7155 1.615883 CGTGAGCTGTCCATAGGCTAT 59.384 52.381 0.00 0.00 36.37 2.97
5422 7156 2.820197 CGTGAGCTGTCCATAGGCTATA 59.180 50.000 6.72 0.00 36.37 1.31
5423 7157 3.445450 CGTGAGCTGTCCATAGGCTATAT 59.555 47.826 6.72 0.00 36.37 0.86
5424 7158 4.640647 CGTGAGCTGTCCATAGGCTATATA 59.359 45.833 6.72 0.00 36.37 0.86
5425 7159 5.220951 CGTGAGCTGTCCATAGGCTATATAG 60.221 48.000 6.72 5.30 36.37 1.31
5426 7160 5.068460 GTGAGCTGTCCATAGGCTATATAGG 59.932 48.000 6.72 4.88 36.37 2.57
5439 7173 6.793505 GGCTATATAGGCTACAACAGGTAT 57.206 41.667 25.02 0.00 44.61 2.73
5440 7174 7.893124 GGCTATATAGGCTACAACAGGTATA 57.107 40.000 25.02 0.00 44.61 1.47
5441 7175 7.714703 GGCTATATAGGCTACAACAGGTATAC 58.285 42.308 25.02 0.00 44.61 1.47
5442 7176 7.341256 GGCTATATAGGCTACAACAGGTATACA 59.659 40.741 25.02 0.00 44.61 2.29
5443 7177 8.915036 GCTATATAGGCTACAACAGGTATACAT 58.085 37.037 11.72 0.00 0.00 2.29
5445 7179 6.996180 ATAGGCTACAACAGGTATACATGT 57.004 37.500 17.06 17.06 43.27 3.21
5446 7180 9.763837 ATATAGGCTACAACAGGTATACATGTA 57.236 33.333 22.32 8.27 40.26 2.29
5447 7181 6.158023 AGGCTACAACAGGTATACATGTAC 57.842 41.667 22.32 10.32 40.26 2.90
5448 7182 5.659525 AGGCTACAACAGGTATACATGTACA 59.340 40.000 22.32 10.28 40.26 2.90
5449 7183 5.983720 GGCTACAACAGGTATACATGTACAG 59.016 44.000 22.32 18.52 40.26 2.74
5450 7184 6.183360 GGCTACAACAGGTATACATGTACAGA 60.183 42.308 22.32 8.52 40.26 3.41
5451 7185 6.918569 GCTACAACAGGTATACATGTACAGAG 59.081 42.308 22.32 16.90 40.26 3.35
5452 7186 6.852420 ACAACAGGTATACATGTACAGAGT 57.148 37.500 22.32 13.20 40.26 3.24
5453 7187 7.949690 ACAACAGGTATACATGTACAGAGTA 57.050 36.000 22.32 11.87 40.26 2.59
5454 7188 7.769220 ACAACAGGTATACATGTACAGAGTAC 58.231 38.462 22.32 6.38 40.26 2.73
5455 7189 7.395206 ACAACAGGTATACATGTACAGAGTACA 59.605 37.037 22.32 11.88 40.26 2.90
5456 7190 7.330900 ACAGGTATACATGTACAGAGTACAC 57.669 40.000 20.89 10.76 39.28 2.90
5457 7191 6.320672 ACAGGTATACATGTACAGAGTACACC 59.679 42.308 20.89 22.03 39.28 4.16
5458 7192 6.320418 CAGGTATACATGTACAGAGTACACCA 59.680 42.308 27.18 7.10 37.68 4.17
5459 7193 7.014326 CAGGTATACATGTACAGAGTACACCAT 59.986 40.741 27.18 16.35 37.68 3.55
5460 7194 8.222637 AGGTATACATGTACAGAGTACACCATA 58.777 37.037 27.18 11.42 37.68 2.74
5461 7195 8.295288 GGTATACATGTACAGAGTACACCATAC 58.705 40.741 23.51 16.53 35.81 2.39
5462 7196 9.064706 GTATACATGTACAGAGTACACCATACT 57.935 37.037 7.96 0.00 0.00 2.12
5463 7197 6.852420 ACATGTACAGAGTACACCATACTT 57.148 37.500 11.74 0.00 0.00 2.24
5464 7198 7.949690 ACATGTACAGAGTACACCATACTTA 57.050 36.000 11.74 0.00 0.00 2.24
5465 7199 8.534954 ACATGTACAGAGTACACCATACTTAT 57.465 34.615 11.74 0.00 0.00 1.73
5466 7200 8.978472 ACATGTACAGAGTACACCATACTTATT 58.022 33.333 11.74 0.00 0.00 1.40
5469 7203 9.690913 TGTACAGAGTACACCATACTTATTACT 57.309 33.333 5.94 0.00 0.00 2.24
5474 7208 8.904834 AGAGTACACCATACTTATTACTCTGTG 58.095 37.037 8.02 0.00 42.56 3.66
5475 7209 8.818622 AGTACACCATACTTATTACTCTGTGA 57.181 34.615 0.00 0.00 0.00 3.58
5476 7210 9.422681 AGTACACCATACTTATTACTCTGTGAT 57.577 33.333 0.00 0.00 0.00 3.06
5479 7213 9.422681 ACACCATACTTATTACTCTGTGATACT 57.577 33.333 0.00 0.00 0.00 2.12
5480 7214 9.684448 CACCATACTTATTACTCTGTGATACTG 57.316 37.037 0.00 0.00 0.00 2.74
5481 7215 9.422681 ACCATACTTATTACTCTGTGATACTGT 57.577 33.333 0.00 0.00 0.00 3.55
5482 7216 9.900710 CCATACTTATTACTCTGTGATACTGTC 57.099 37.037 0.00 0.00 0.00 3.51
5483 7217 9.900710 CATACTTATTACTCTGTGATACTGTCC 57.099 37.037 0.00 0.00 0.00 4.02
5484 7218 7.349412 ACTTATTACTCTGTGATACTGTCCC 57.651 40.000 0.00 0.00 0.00 4.46
5485 7219 7.126733 ACTTATTACTCTGTGATACTGTCCCT 58.873 38.462 0.00 0.00 0.00 4.20
5486 7220 8.280084 ACTTATTACTCTGTGATACTGTCCCTA 58.720 37.037 0.00 0.00 0.00 3.53
5487 7221 8.693120 TTATTACTCTGTGATACTGTCCCTAG 57.307 38.462 0.00 0.00 0.00 3.02
5488 7222 3.292460 ACTCTGTGATACTGTCCCTAGC 58.708 50.000 0.00 0.00 0.00 3.42
5489 7223 3.053245 ACTCTGTGATACTGTCCCTAGCT 60.053 47.826 0.00 0.00 0.00 3.32
5490 7224 4.166337 ACTCTGTGATACTGTCCCTAGCTA 59.834 45.833 0.00 0.00 0.00 3.32
5491 7225 4.720046 TCTGTGATACTGTCCCTAGCTAG 58.280 47.826 14.20 14.20 0.00 3.42
5492 7226 3.223435 TGTGATACTGTCCCTAGCTAGC 58.777 50.000 15.74 6.62 0.00 3.42
5493 7227 3.117474 TGTGATACTGTCCCTAGCTAGCT 60.117 47.826 23.12 23.12 0.00 3.32
5494 7228 3.254657 GTGATACTGTCCCTAGCTAGCTG 59.745 52.174 27.68 16.13 0.00 4.24
5495 7229 3.117474 TGATACTGTCCCTAGCTAGCTGT 60.117 47.826 27.68 16.23 0.00 4.40
5496 7230 1.479709 ACTGTCCCTAGCTAGCTGTG 58.520 55.000 27.68 18.38 0.00 3.66
5497 7231 1.006043 ACTGTCCCTAGCTAGCTGTGA 59.994 52.381 27.68 16.74 0.00 3.58
5498 7232 2.315176 CTGTCCCTAGCTAGCTGTGAT 58.685 52.381 27.68 2.70 0.00 3.06
5499 7233 3.117474 ACTGTCCCTAGCTAGCTGTGATA 60.117 47.826 27.68 16.18 0.00 2.15
5500 7234 3.223435 TGTCCCTAGCTAGCTGTGATAC 58.777 50.000 27.68 17.41 0.00 2.24
5501 7235 3.117474 TGTCCCTAGCTAGCTGTGATACT 60.117 47.826 27.68 0.22 0.00 2.12
5502 7236 4.104261 TGTCCCTAGCTAGCTGTGATACTA 59.896 45.833 27.68 3.26 0.00 1.82
5503 7237 5.222151 TGTCCCTAGCTAGCTGTGATACTAT 60.222 44.000 27.68 0.00 0.00 2.12
5504 7238 5.712917 GTCCCTAGCTAGCTGTGATACTATT 59.287 44.000 27.68 0.00 0.00 1.73
5505 7239 5.712446 TCCCTAGCTAGCTGTGATACTATTG 59.288 44.000 27.68 4.73 0.00 1.90
5506 7240 5.478679 CCCTAGCTAGCTGTGATACTATTGT 59.521 44.000 27.68 0.00 0.00 2.71
5507 7241 6.015010 CCCTAGCTAGCTGTGATACTATTGTT 60.015 42.308 27.68 0.00 0.00 2.83
5508 7242 7.176865 CCCTAGCTAGCTGTGATACTATTGTTA 59.823 40.741 27.68 0.00 0.00 2.41
5509 7243 8.024285 CCTAGCTAGCTGTGATACTATTGTTAC 58.976 40.741 27.68 0.00 0.00 2.50
5510 7244 7.348080 AGCTAGCTGTGATACTATTGTTACA 57.652 36.000 18.57 0.00 0.00 2.41
5511 7245 7.203910 AGCTAGCTGTGATACTATTGTTACAC 58.796 38.462 18.57 8.61 34.34 2.90
5512 7246 7.068839 AGCTAGCTGTGATACTATTGTTACACT 59.931 37.037 18.57 0.00 34.61 3.55
5513 7247 8.350722 GCTAGCTGTGATACTATTGTTACACTA 58.649 37.037 7.70 0.00 34.61 2.74
5514 7248 9.885934 CTAGCTGTGATACTATTGTTACACTAG 57.114 37.037 7.98 7.98 34.61 2.57
5515 7249 8.521170 AGCTGTGATACTATTGTTACACTAGA 57.479 34.615 15.12 1.78 34.61 2.43
5516 7250 9.137459 AGCTGTGATACTATTGTTACACTAGAT 57.863 33.333 15.12 5.82 34.61 1.98
5523 7257 9.809395 ATACTATTGTTACACTAGATAGCTGGA 57.191 33.333 15.12 0.00 0.00 3.86
5524 7258 7.942990 ACTATTGTTACACTAGATAGCTGGAC 58.057 38.462 15.12 0.00 0.00 4.02
5525 7259 5.593679 TTGTTACACTAGATAGCTGGACC 57.406 43.478 0.00 0.00 0.00 4.46
5526 7260 4.606210 TGTTACACTAGATAGCTGGACCA 58.394 43.478 0.00 0.00 0.00 4.02
5527 7261 5.208890 TGTTACACTAGATAGCTGGACCAT 58.791 41.667 0.00 0.00 0.00 3.55
5528 7262 5.069119 TGTTACACTAGATAGCTGGACCATG 59.931 44.000 0.00 0.00 0.00 3.66
5529 7263 2.968574 ACACTAGATAGCTGGACCATGG 59.031 50.000 11.19 11.19 0.00 3.66
5530 7264 2.301296 CACTAGATAGCTGGACCATGGG 59.699 54.545 18.09 0.00 0.00 4.00
5531 7265 1.277557 CTAGATAGCTGGACCATGGGC 59.722 57.143 18.09 14.45 0.00 5.36
5532 7266 0.695462 AGATAGCTGGACCATGGGCA 60.695 55.000 22.13 4.58 0.00 5.36
5533 7267 0.250640 GATAGCTGGACCATGGGCAG 60.251 60.000 22.13 15.87 0.00 4.85
5534 7268 0.695462 ATAGCTGGACCATGGGCAGA 60.695 55.000 22.13 3.78 0.00 4.26
5535 7269 1.340399 TAGCTGGACCATGGGCAGAG 61.340 60.000 22.13 15.75 0.00 3.35
5536 7270 2.673200 GCTGGACCATGGGCAGAGA 61.673 63.158 22.13 0.00 0.00 3.10
5537 7271 1.993653 CTGGACCATGGGCAGAGAA 59.006 57.895 22.13 0.00 0.00 2.87
5538 7272 0.329261 CTGGACCATGGGCAGAGAAA 59.671 55.000 22.13 0.00 0.00 2.52
5539 7273 1.002069 TGGACCATGGGCAGAGAAAT 58.998 50.000 22.13 0.00 0.00 2.17
5540 7274 2.173356 CTGGACCATGGGCAGAGAAATA 59.827 50.000 22.13 0.00 0.00 1.40
5541 7275 2.092429 TGGACCATGGGCAGAGAAATAC 60.092 50.000 22.13 0.00 0.00 1.89
5542 7276 2.173569 GGACCATGGGCAGAGAAATACT 59.826 50.000 22.13 0.00 0.00 2.12
5543 7277 3.391296 GGACCATGGGCAGAGAAATACTA 59.609 47.826 22.13 0.00 0.00 1.82
5544 7278 4.381411 GACCATGGGCAGAGAAATACTAC 58.619 47.826 14.59 0.00 0.00 2.73
5545 7279 4.040755 ACCATGGGCAGAGAAATACTACT 58.959 43.478 18.09 0.00 0.00 2.57
5546 7280 5.216622 ACCATGGGCAGAGAAATACTACTA 58.783 41.667 18.09 0.00 0.00 1.82
5547 7281 5.305644 ACCATGGGCAGAGAAATACTACTAG 59.694 44.000 18.09 0.00 0.00 2.57
5548 7282 4.939052 TGGGCAGAGAAATACTACTAGC 57.061 45.455 0.00 0.00 0.00 3.42
5549 7283 4.286707 TGGGCAGAGAAATACTACTAGCA 58.713 43.478 0.00 0.00 0.00 3.49
5550 7284 4.342378 TGGGCAGAGAAATACTACTAGCAG 59.658 45.833 0.00 0.00 0.00 4.24
5551 7285 4.303282 GGCAGAGAAATACTACTAGCAGC 58.697 47.826 0.00 0.00 0.00 5.25
5552 7286 4.202161 GGCAGAGAAATACTACTAGCAGCA 60.202 45.833 0.00 0.00 0.00 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 3.007506 TGCAAGAGGAACGAACTGGAATA 59.992 43.478 0.00 0.00 0.00 1.75
31 32 2.306847 GGTTGGAGTTTGCAAGAGGAA 58.693 47.619 0.00 0.00 0.00 3.36
43 44 3.011566 TGTCAAACATGTGGTTGGAGT 57.988 42.857 10.61 0.00 40.12 3.85
84 85 6.997222 GCAACAAAATGCAATCTTATTCTCC 58.003 36.000 0.00 0.00 45.70 3.71
184 185 2.301870 GTTATGTCCAGATATCGCCCCA 59.698 50.000 0.00 0.00 0.00 4.96
186 187 3.963428 AGTTATGTCCAGATATCGCCC 57.037 47.619 0.00 0.00 0.00 6.13
208 209 2.508891 CGATTCACCGCAGCTCGAC 61.509 63.158 7.07 0.00 41.67 4.20
298 320 3.889538 TCTAATCAGATGACACCGGTAGG 59.110 47.826 6.87 0.00 45.13 3.18
336 376 1.303970 GCTGGGCCTGAAGAAGCTT 60.304 57.895 15.36 0.00 0.00 3.74
381 421 9.064602 TCTCTGTTTCCCCCTTTTCTTTATATA 57.935 33.333 0.00 0.00 0.00 0.86
382 422 7.939781 TCTCTGTTTCCCCCTTTTCTTTATAT 58.060 34.615 0.00 0.00 0.00 0.86
402 443 1.352083 TTGACCCCTCAACCTCTCTG 58.648 55.000 0.00 0.00 31.00 3.35
576 618 7.436933 AGAAGCATAAGAAAGGAAACAAAAGG 58.563 34.615 0.00 0.00 0.00 3.11
794 840 2.899900 AGAATCAAAAAGGTGAAGGCCC 59.100 45.455 0.00 0.00 0.00 5.80
805 851 7.315142 CAGTTGCATAAGCCTAGAATCAAAAA 58.685 34.615 0.00 0.00 41.13 1.94
842 888 5.939764 ACAGTAGTGGAGCTATGAATTGA 57.060 39.130 1.92 0.00 31.50 2.57
852 898 5.941948 ATAACACAAAACAGTAGTGGAGC 57.058 39.130 1.92 0.00 37.58 4.70
858 904 8.981724 TGACTAGCTATAACACAAAACAGTAG 57.018 34.615 0.00 0.00 0.00 2.57
971 1017 6.578163 GTCTAGAAGACTACTGAGGTGTTT 57.422 41.667 0.00 0.00 41.88 2.83
1053 1099 4.530553 TCGGGCCTTGCATAGATATTCTTA 59.469 41.667 0.84 0.00 0.00 2.10
1068 1114 1.522569 GCTCACTGTATCGGGCCTT 59.477 57.895 0.84 0.00 0.00 4.35
1169 1215 1.945394 CTGGAAGGATGCTTGAATCGG 59.055 52.381 3.35 0.00 0.00 4.18
1574 1631 2.062971 TCCACCCATAGTAGTCGACC 57.937 55.000 13.01 0.00 0.00 4.79
1588 1645 0.536006 AGCTGTCACTTGCTTCCACC 60.536 55.000 0.00 0.00 35.86 4.61
1616 1673 5.615544 GCCGTTTCTTCCATAATCATCATCG 60.616 44.000 0.00 0.00 0.00 3.84
1738 1795 0.729116 CAATGCAACCCTGACTAGCG 59.271 55.000 0.00 0.00 0.00 4.26
1742 1799 1.355381 TCCATCAATGCAACCCTGACT 59.645 47.619 0.00 0.00 0.00 3.41
1772 1829 3.019564 AGGATTTGCATGCAGAACTACC 58.980 45.455 21.50 17.10 0.00 3.18
1776 1833 2.490903 AGTCAGGATTTGCATGCAGAAC 59.509 45.455 21.50 15.14 0.00 3.01
1817 1874 3.869272 CCGAGATTGCGTGCCAGC 61.869 66.667 0.00 0.00 37.71 4.85
1818 1875 3.869272 GCCGAGATTGCGTGCCAG 61.869 66.667 0.00 0.00 0.00 4.85
1841 1898 0.908910 TCCACACATACCCGCTTGAT 59.091 50.000 0.00 0.00 0.00 2.57
1880 1937 2.092484 TGGCGATGAATCCAGGAATGAA 60.092 45.455 0.00 0.00 0.00 2.57
2018 2075 5.455056 AGAACTTGTCGTCAACAGTATCT 57.545 39.130 0.00 0.00 39.58 1.98
2023 2080 5.409643 AATCAAGAACTTGTCGTCAACAG 57.590 39.130 13.15 0.00 39.58 3.16
2073 2130 3.432749 GCATAAGCAAGGATCCAGACAGA 60.433 47.826 15.82 0.00 41.58 3.41
2102 2159 4.322080 TCCACCTCTACTGAAATATGCG 57.678 45.455 0.00 0.00 0.00 4.73
2630 2687 8.027189 GGAACAAACTTAAATGGAACTGGATAC 58.973 37.037 0.00 0.00 0.00 2.24
2835 2892 0.796312 CCCTTGTCCGATTTGTGACG 59.204 55.000 0.00 0.00 34.18 4.35
2877 2934 2.030562 ACAAGCCCCGACTCAACG 59.969 61.111 0.00 0.00 0.00 4.10
2886 2943 3.564262 GGTAAGTACCACAAGCCCC 57.436 57.895 2.47 0.00 45.73 5.80
2971 3028 3.152341 CAAGAAAGAACAGCCCTGTGAT 58.848 45.455 1.07 0.00 44.13 3.06
3056 3113 6.036083 CCAGAATACAGTGATAACCTGTTTCG 59.964 42.308 0.00 0.00 42.83 3.46
3132 3189 0.455464 CACACTCGTGCGTATTCCGA 60.455 55.000 0.00 0.00 36.06 4.55
3133 3190 1.988409 CACACTCGTGCGTATTCCG 59.012 57.895 0.00 0.00 36.06 4.30
3153 3210 9.491675 CACTCTCTCTTCTTTAATGCATGATAT 57.508 33.333 0.00 0.00 0.00 1.63
3323 3381 2.757868 AGAAGTCAGTAGCTACAGCCTG 59.242 50.000 25.28 14.60 43.38 4.85
3405 3467 9.783256 GTTCAAGAAACTAAATGTAAAGTGTGT 57.217 29.630 0.00 0.00 34.85 3.72
3440 3685 6.899393 AATTAACCTCAAGCAATCAAGACA 57.101 33.333 0.00 0.00 0.00 3.41
3447 3692 6.567050 CAGCATGTAATTAACCTCAAGCAAT 58.433 36.000 0.00 0.00 0.00 3.56
3551 3796 6.428159 GGGACATCTTCATCAATGGTATGTAC 59.572 42.308 0.00 0.00 30.59 2.90
3596 3841 6.823689 TCCTCTCCTAAGATAAAAATGCACAC 59.176 38.462 0.00 0.00 0.00 3.82
3931 4176 0.172578 CAACATAGGGACGCTCGTCA 59.827 55.000 21.71 4.31 46.20 4.35
3964 4209 0.101759 CTGCGAATTTGGGATGCAGG 59.898 55.000 4.67 0.00 46.97 4.85
4009 4254 4.020617 CTCACGAAGCCCCAGCCA 62.021 66.667 0.00 0.00 41.25 4.75
4027 4272 7.425224 TTCACCAGGTGGAAAGAAATAAAAA 57.575 32.000 20.14 0.00 38.94 1.94
4028 4273 7.125053 ACTTTCACCAGGTGGAAAGAAATAAAA 59.875 33.333 31.08 17.46 35.90 1.52
4067 4320 5.220624 GCTCTGCATCATAACTTCACTGAAG 60.221 44.000 16.01 16.01 44.37 3.02
4095 4348 2.497273 GCCTGACAATAAAATGCCCAGT 59.503 45.455 0.00 0.00 0.00 4.00
4220 4473 4.715523 CATGGACCCCGCCACGTT 62.716 66.667 0.00 0.00 41.56 3.99
4288 4541 0.617413 CACAGATGAGGAACAGCCCT 59.383 55.000 0.00 0.00 39.77 5.19
4626 4880 9.362911 CGCTAATTAAGTAGTACAGTACTTACG 57.637 37.037 18.56 10.77 42.55 3.18
4627 4881 9.163903 GCGCTAATTAAGTAGTACAGTACTTAC 57.836 37.037 18.56 13.49 42.55 2.34
4628 4882 9.113838 AGCGCTAATTAAGTAGTACAGTACTTA 57.886 33.333 18.56 7.75 42.19 2.24
4630 4884 7.066766 ACAGCGCTAATTAAGTAGTACAGTACT 59.933 37.037 17.51 17.51 42.68 2.73
4631 4885 7.165483 CACAGCGCTAATTAAGTAGTACAGTAC 59.835 40.741 10.99 2.05 0.00 2.73
4632 4886 7.191551 CACAGCGCTAATTAAGTAGTACAGTA 58.808 38.462 10.99 0.00 0.00 2.74
4633 4887 6.034591 CACAGCGCTAATTAAGTAGTACAGT 58.965 40.000 10.99 0.00 0.00 3.55
4634 4888 5.051641 GCACAGCGCTAATTAAGTAGTACAG 60.052 44.000 10.99 0.00 37.77 2.74
4635 4889 4.802039 GCACAGCGCTAATTAAGTAGTACA 59.198 41.667 10.99 0.00 37.77 2.90
4636 4890 5.312382 GCACAGCGCTAATTAAGTAGTAC 57.688 43.478 10.99 4.43 37.77 2.73
4663 4917 1.674221 GCAGCACGAGGAGAGAACATT 60.674 52.381 0.00 0.00 0.00 2.71
4783 5038 1.525596 CTATATCAGCGCGACGTAGC 58.474 55.000 12.10 10.95 0.00 3.58
4866 5140 5.034797 GGAATAAGCACGCTTACAAAATCC 58.965 41.667 13.44 11.81 40.76 3.01
4905 5179 1.948145 CCGAACTACTCCTACATCGCT 59.052 52.381 0.00 0.00 0.00 4.93
4911 5185 3.589495 AAGCAACCGAACTACTCCTAC 57.411 47.619 0.00 0.00 0.00 3.18
4912 5186 3.366679 CGAAAGCAACCGAACTACTCCTA 60.367 47.826 0.00 0.00 0.00 2.94
4913 5187 2.609737 CGAAAGCAACCGAACTACTCCT 60.610 50.000 0.00 0.00 0.00 3.69
4914 5188 1.725164 CGAAAGCAACCGAACTACTCC 59.275 52.381 0.00 0.00 0.00 3.85
4997 5282 4.072088 CGCAGCCGAAACCGTCAC 62.072 66.667 0.00 0.00 36.29 3.67
5105 6830 1.472276 CGACTCAACGCGTGGATAGC 61.472 60.000 18.36 8.52 0.00 2.97
5143 6868 0.816018 TTCGACTGCCCTCGCAAAAA 60.816 50.000 0.00 0.00 46.66 1.94
5144 6869 0.605319 ATTCGACTGCCCTCGCAAAA 60.605 50.000 0.00 0.00 46.66 2.44
5145 6870 0.248012 TATTCGACTGCCCTCGCAAA 59.752 50.000 0.00 0.00 46.66 3.68
5146 6871 0.464036 ATATTCGACTGCCCTCGCAA 59.536 50.000 0.00 0.00 46.66 4.85
5147 6872 0.249447 CATATTCGACTGCCCTCGCA 60.249 55.000 0.00 0.00 44.78 5.10
5148 6873 0.032130 TCATATTCGACTGCCCTCGC 59.968 55.000 0.00 0.00 33.47 5.03
5149 6874 2.732412 ATCATATTCGACTGCCCTCG 57.268 50.000 0.00 0.00 34.83 4.63
5150 6875 3.921021 CGTAATCATATTCGACTGCCCTC 59.079 47.826 0.00 0.00 0.00 4.30
5151 6876 3.306088 CCGTAATCATATTCGACTGCCCT 60.306 47.826 0.00 0.00 0.00 5.19
5152 6877 2.993899 CCGTAATCATATTCGACTGCCC 59.006 50.000 0.00 0.00 0.00 5.36
5153 6878 2.412089 GCCGTAATCATATTCGACTGCC 59.588 50.000 0.00 0.00 0.00 4.85
5154 6879 3.057019 TGCCGTAATCATATTCGACTGC 58.943 45.455 0.00 0.00 0.00 4.40
5155 6880 4.923281 TCATGCCGTAATCATATTCGACTG 59.077 41.667 0.00 0.00 0.00 3.51
5156 6881 5.134202 TCATGCCGTAATCATATTCGACT 57.866 39.130 0.00 0.00 0.00 4.18
5157 6882 5.839262 TTCATGCCGTAATCATATTCGAC 57.161 39.130 0.00 0.00 0.00 4.20
5158 6883 6.162777 TCATTCATGCCGTAATCATATTCGA 58.837 36.000 0.00 0.00 0.00 3.71
5159 6884 6.407475 TCATTCATGCCGTAATCATATTCG 57.593 37.500 0.00 0.00 0.00 3.34
5160 6885 8.453320 TCATTCATTCATGCCGTAATCATATTC 58.547 33.333 0.00 0.00 0.00 1.75
5161 6886 8.339344 TCATTCATTCATGCCGTAATCATATT 57.661 30.769 0.00 0.00 0.00 1.28
5162 6887 7.926674 TCATTCATTCATGCCGTAATCATAT 57.073 32.000 0.00 0.00 0.00 1.78
5163 6888 7.445096 AGTTCATTCATTCATGCCGTAATCATA 59.555 33.333 0.00 0.00 0.00 2.15
5164 6889 6.263842 AGTTCATTCATTCATGCCGTAATCAT 59.736 34.615 0.00 0.00 0.00 2.45
5165 6890 5.589855 AGTTCATTCATTCATGCCGTAATCA 59.410 36.000 0.00 0.00 0.00 2.57
5166 6891 6.064846 AGTTCATTCATTCATGCCGTAATC 57.935 37.500 0.00 0.00 0.00 1.75
5167 6892 5.589855 TGAGTTCATTCATTCATGCCGTAAT 59.410 36.000 0.00 0.00 0.00 1.89
5168 6893 4.940654 TGAGTTCATTCATTCATGCCGTAA 59.059 37.500 0.00 0.00 0.00 3.18
5169 6894 4.512484 TGAGTTCATTCATTCATGCCGTA 58.488 39.130 0.00 0.00 0.00 4.02
5175 6900 5.970317 TGCAGTTGAGTTCATTCATTCAT 57.030 34.783 0.00 0.00 0.00 2.57
5186 6911 2.352030 CGCCATGAAATGCAGTTGAGTT 60.352 45.455 3.09 0.00 44.97 3.01
5221 6946 5.001874 TCATAATGGAGCTCATCTTGATGC 58.998 41.667 17.19 0.00 34.44 3.91
5244 6969 5.011431 ACCTTTGCGAACTAGTAGTTACCTT 59.989 40.000 15.52 0.00 38.80 3.50
5251 6976 7.384387 ACTTCTTTTACCTTTGCGAACTAGTAG 59.616 37.037 0.00 0.00 0.00 2.57
5255 6980 6.050432 TGACTTCTTTTACCTTTGCGAACTA 58.950 36.000 0.00 0.00 0.00 2.24
5288 7013 1.451207 ACGGCAACAGCACTTGTGA 60.451 52.632 4.79 0.00 40.74 3.58
5299 7024 1.132640 GTTCGATGAGCACGGCAAC 59.867 57.895 0.00 0.00 0.00 4.17
5326 7051 2.747686 CAGTAGTGGCCAACGGGT 59.252 61.111 7.24 0.00 36.17 5.28
5336 7061 1.210478 AGTTATGGCTGGGCAGTAGTG 59.790 52.381 2.90 0.00 0.00 2.74
5337 7062 1.584724 AGTTATGGCTGGGCAGTAGT 58.415 50.000 2.90 0.00 0.00 2.73
5338 7063 2.171448 AGAAGTTATGGCTGGGCAGTAG 59.829 50.000 2.90 0.00 0.00 2.57
5353 7087 6.451064 ACGGATTTTTCAGTTCAAGAAGTT 57.549 33.333 0.00 0.00 0.00 2.66
5358 7092 5.831997 AGGAAACGGATTTTTCAGTTCAAG 58.168 37.500 0.00 0.00 37.24 3.02
5363 7097 3.473625 ACGAGGAAACGGATTTTTCAGT 58.526 40.909 0.00 0.00 37.24 3.41
5364 7098 4.024387 TGAACGAGGAAACGGATTTTTCAG 60.024 41.667 0.00 0.00 37.24 3.02
5365 7099 3.878103 TGAACGAGGAAACGGATTTTTCA 59.122 39.130 0.00 0.00 37.24 2.69
5366 7100 4.024302 ACTGAACGAGGAAACGGATTTTTC 60.024 41.667 0.00 0.00 37.61 2.29
5367 7101 3.881089 ACTGAACGAGGAAACGGATTTTT 59.119 39.130 0.00 0.00 37.61 1.94
5368 7102 3.473625 ACTGAACGAGGAAACGGATTTT 58.526 40.909 0.00 0.00 37.61 1.82
5378 7112 1.301401 CGGGCAAACTGAACGAGGA 60.301 57.895 0.00 0.00 0.00 3.71
5409 7143 6.380274 TGTTGTAGCCTATATAGCCTATGGAC 59.620 42.308 3.90 4.64 0.00 4.02
5410 7144 6.499436 TGTTGTAGCCTATATAGCCTATGGA 58.501 40.000 3.90 0.00 0.00 3.41
5411 7145 6.183360 CCTGTTGTAGCCTATATAGCCTATGG 60.183 46.154 3.90 0.16 0.00 2.74
5412 7146 6.381420 ACCTGTTGTAGCCTATATAGCCTATG 59.619 42.308 3.90 0.00 0.00 2.23
5413 7147 6.503944 ACCTGTTGTAGCCTATATAGCCTAT 58.496 40.000 3.90 0.00 0.00 2.57
5414 7148 5.900437 ACCTGTTGTAGCCTATATAGCCTA 58.100 41.667 4.04 0.00 0.00 3.93
5415 7149 4.753186 ACCTGTTGTAGCCTATATAGCCT 58.247 43.478 4.04 1.06 0.00 4.58
5416 7150 6.793505 ATACCTGTTGTAGCCTATATAGCC 57.206 41.667 4.04 0.00 31.61 3.93
5417 7151 8.289939 TGTATACCTGTTGTAGCCTATATAGC 57.710 38.462 4.04 0.60 31.61 2.97
5419 7153 9.763837 ACATGTATACCTGTTGTAGCCTATATA 57.236 33.333 7.87 0.00 31.61 0.86
5420 7154 8.666129 ACATGTATACCTGTTGTAGCCTATAT 57.334 34.615 7.87 0.00 31.61 0.86
5421 7155 9.017509 GTACATGTATACCTGTTGTAGCCTATA 57.982 37.037 17.38 0.00 31.61 1.31
5422 7156 6.996180 ACATGTATACCTGTTGTAGCCTAT 57.004 37.500 7.87 0.00 31.61 2.57
5423 7157 6.834969 TGTACATGTATACCTGTTGTAGCCTA 59.165 38.462 17.38 0.00 31.61 3.93
5424 7158 5.659525 TGTACATGTATACCTGTTGTAGCCT 59.340 40.000 17.38 0.00 31.61 4.58
5425 7159 5.909477 TGTACATGTATACCTGTTGTAGCC 58.091 41.667 17.38 3.72 31.61 3.93
5426 7160 6.802608 TCTGTACATGTATACCTGTTGTAGC 58.197 40.000 17.38 6.05 31.61 3.58
5427 7161 7.997482 ACTCTGTACATGTATACCTGTTGTAG 58.003 38.462 17.38 13.14 31.61 2.74
5428 7162 7.949690 ACTCTGTACATGTATACCTGTTGTA 57.050 36.000 17.38 9.26 0.00 2.41
5429 7163 6.852420 ACTCTGTACATGTATACCTGTTGT 57.148 37.500 17.38 10.10 0.00 3.32
5430 7164 7.701078 GTGTACTCTGTACATGTATACCTGTTG 59.299 40.741 17.38 9.61 0.00 3.33
5431 7165 7.147949 GGTGTACTCTGTACATGTATACCTGTT 60.148 40.741 27.97 3.28 41.82 3.16
5432 7166 6.320672 GGTGTACTCTGTACATGTATACCTGT 59.679 42.308 27.97 16.55 41.82 4.00
5433 7167 6.320418 TGGTGTACTCTGTACATGTATACCTG 59.680 42.308 31.05 6.61 43.86 4.00
5434 7168 6.429151 TGGTGTACTCTGTACATGTATACCT 58.571 40.000 31.05 7.63 43.86 3.08
5435 7169 6.704289 TGGTGTACTCTGTACATGTATACC 57.296 41.667 28.24 28.24 43.82 2.73
5436 7170 9.064706 AGTATGGTGTACTCTGTACATGTATAC 57.935 37.037 9.18 18.75 0.00 1.47
5437 7171 9.636789 AAGTATGGTGTACTCTGTACATGTATA 57.363 33.333 9.18 5.40 0.00 1.47
5438 7172 8.534954 AAGTATGGTGTACTCTGTACATGTAT 57.465 34.615 9.18 10.14 0.00 2.29
5439 7173 7.949690 AAGTATGGTGTACTCTGTACATGTA 57.050 36.000 12.74 0.08 0.00 2.29
5440 7174 6.852420 AAGTATGGTGTACTCTGTACATGT 57.148 37.500 12.74 2.69 0.00 3.21
5443 7177 9.690913 AGTAATAAGTATGGTGTACTCTGTACA 57.309 33.333 6.48 6.48 0.00 2.90
5448 7182 8.904834 CACAGAGTAATAAGTATGGTGTACTCT 58.095 37.037 5.54 5.54 45.34 3.24
5449 7183 8.900781 TCACAGAGTAATAAGTATGGTGTACTC 58.099 37.037 0.00 0.00 38.36 2.59
5450 7184 8.818622 TCACAGAGTAATAAGTATGGTGTACT 57.181 34.615 0.00 0.00 0.00 2.73
5453 7187 9.422681 AGTATCACAGAGTAATAAGTATGGTGT 57.577 33.333 0.00 0.00 0.00 4.16
5454 7188 9.684448 CAGTATCACAGAGTAATAAGTATGGTG 57.316 37.037 0.00 0.00 0.00 4.17
5455 7189 9.422681 ACAGTATCACAGAGTAATAAGTATGGT 57.577 33.333 0.00 0.00 0.00 3.55
5456 7190 9.900710 GACAGTATCACAGAGTAATAAGTATGG 57.099 37.037 0.00 0.00 0.00 2.74
5457 7191 9.900710 GGACAGTATCACAGAGTAATAAGTATG 57.099 37.037 0.00 0.00 0.00 2.39
5458 7192 9.080097 GGGACAGTATCACAGAGTAATAAGTAT 57.920 37.037 0.00 0.00 0.00 2.12
5459 7193 8.280084 AGGGACAGTATCACAGAGTAATAAGTA 58.720 37.037 0.00 0.00 30.38 2.24
5460 7194 7.126733 AGGGACAGTATCACAGAGTAATAAGT 58.873 38.462 0.00 0.00 30.38 2.24
5461 7195 7.589958 AGGGACAGTATCACAGAGTAATAAG 57.410 40.000 0.00 0.00 30.38 1.73
5462 7196 7.230913 GCTAGGGACAGTATCACAGAGTAATAA 59.769 40.741 0.00 0.00 30.38 1.40
5463 7197 6.715718 GCTAGGGACAGTATCACAGAGTAATA 59.284 42.308 0.00 0.00 30.38 0.98
5464 7198 5.536916 GCTAGGGACAGTATCACAGAGTAAT 59.463 44.000 0.00 0.00 30.38 1.89
5465 7199 4.888239 GCTAGGGACAGTATCACAGAGTAA 59.112 45.833 0.00 0.00 30.38 2.24
5466 7200 4.166337 AGCTAGGGACAGTATCACAGAGTA 59.834 45.833 0.00 0.00 30.38 2.59
5467 7201 3.053245 AGCTAGGGACAGTATCACAGAGT 60.053 47.826 0.00 0.00 30.38 3.24
5468 7202 3.561143 AGCTAGGGACAGTATCACAGAG 58.439 50.000 0.00 0.00 30.38 3.35
5469 7203 3.671740 AGCTAGGGACAGTATCACAGA 57.328 47.619 0.00 0.00 30.38 3.41
5470 7204 3.254657 GCTAGCTAGGGACAGTATCACAG 59.745 52.174 22.10 0.00 30.38 3.66
5471 7205 3.117474 AGCTAGCTAGGGACAGTATCACA 60.117 47.826 17.69 0.00 30.38 3.58
5472 7206 3.254657 CAGCTAGCTAGGGACAGTATCAC 59.745 52.174 18.86 0.96 0.00 3.06
5473 7207 3.117474 ACAGCTAGCTAGGGACAGTATCA 60.117 47.826 18.86 0.00 0.00 2.15
5474 7208 3.254657 CACAGCTAGCTAGGGACAGTATC 59.745 52.174 18.86 2.20 0.00 2.24
5475 7209 3.117474 TCACAGCTAGCTAGGGACAGTAT 60.117 47.826 18.86 0.00 0.00 2.12
5476 7210 2.241430 TCACAGCTAGCTAGGGACAGTA 59.759 50.000 18.86 0.00 0.00 2.74
5477 7211 1.006043 TCACAGCTAGCTAGGGACAGT 59.994 52.381 18.86 6.34 0.00 3.55
5478 7212 1.769026 TCACAGCTAGCTAGGGACAG 58.231 55.000 18.86 5.62 0.00 3.51
5479 7213 2.461300 ATCACAGCTAGCTAGGGACA 57.539 50.000 18.86 0.00 0.00 4.02
5480 7214 3.492337 AGTATCACAGCTAGCTAGGGAC 58.508 50.000 18.86 11.84 0.00 4.46
5481 7215 3.885976 AGTATCACAGCTAGCTAGGGA 57.114 47.619 18.86 18.12 0.00 4.20
5482 7216 5.478679 ACAATAGTATCACAGCTAGCTAGGG 59.521 44.000 18.86 13.21 0.00 3.53
5483 7217 6.582677 ACAATAGTATCACAGCTAGCTAGG 57.417 41.667 18.86 12.64 0.00 3.02
5484 7218 8.568794 TGTAACAATAGTATCACAGCTAGCTAG 58.431 37.037 18.86 16.84 0.00 3.42
5485 7219 8.350722 GTGTAACAATAGTATCACAGCTAGCTA 58.649 37.037 18.86 1.73 36.32 3.32
5486 7220 7.068839 AGTGTAACAATAGTATCACAGCTAGCT 59.931 37.037 12.68 12.68 41.43 3.32
5487 7221 7.203910 AGTGTAACAATAGTATCACAGCTAGC 58.796 38.462 6.62 6.62 41.43 3.42
5488 7222 9.885934 CTAGTGTAACAATAGTATCACAGCTAG 57.114 37.037 0.00 0.00 41.43 3.42
5489 7223 9.623000 TCTAGTGTAACAATAGTATCACAGCTA 57.377 33.333 0.00 0.00 41.43 3.32
5490 7224 8.521170 TCTAGTGTAACAATAGTATCACAGCT 57.479 34.615 0.00 0.00 41.43 4.24
5497 7231 9.809395 TCCAGCTATCTAGTGTAACAATAGTAT 57.191 33.333 0.00 0.00 41.43 2.12
5498 7232 9.064706 GTCCAGCTATCTAGTGTAACAATAGTA 57.935 37.037 0.00 0.00 41.43 1.82
5499 7233 7.014422 GGTCCAGCTATCTAGTGTAACAATAGT 59.986 40.741 0.00 0.00 41.43 2.12
5500 7234 7.014326 TGGTCCAGCTATCTAGTGTAACAATAG 59.986 40.741 0.00 0.00 41.43 1.73
5501 7235 6.837048 TGGTCCAGCTATCTAGTGTAACAATA 59.163 38.462 0.00 0.00 41.43 1.90
5502 7236 5.661312 TGGTCCAGCTATCTAGTGTAACAAT 59.339 40.000 0.00 0.00 41.43 2.71
5503 7237 5.020795 TGGTCCAGCTATCTAGTGTAACAA 58.979 41.667 0.00 0.00 41.43 2.83
5504 7238 4.606210 TGGTCCAGCTATCTAGTGTAACA 58.394 43.478 0.00 0.00 41.43 2.41
5505 7239 5.509840 CCATGGTCCAGCTATCTAGTGTAAC 60.510 48.000 2.57 0.00 0.00 2.50
5506 7240 4.588951 CCATGGTCCAGCTATCTAGTGTAA 59.411 45.833 2.57 0.00 0.00 2.41
5507 7241 4.152647 CCATGGTCCAGCTATCTAGTGTA 58.847 47.826 2.57 0.00 0.00 2.90
5508 7242 2.968574 CCATGGTCCAGCTATCTAGTGT 59.031 50.000 2.57 0.00 0.00 3.55
5509 7243 2.301296 CCCATGGTCCAGCTATCTAGTG 59.699 54.545 11.73 0.00 0.00 2.74
5510 7244 2.614259 CCCATGGTCCAGCTATCTAGT 58.386 52.381 11.73 0.00 0.00 2.57
5511 7245 1.277557 GCCCATGGTCCAGCTATCTAG 59.722 57.143 11.73 0.00 0.00 2.43
5512 7246 1.352083 GCCCATGGTCCAGCTATCTA 58.648 55.000 11.73 0.00 0.00 1.98
5513 7247 0.695462 TGCCCATGGTCCAGCTATCT 60.695 55.000 11.73 0.00 0.00 1.98
5514 7248 0.250640 CTGCCCATGGTCCAGCTATC 60.251 60.000 11.73 0.00 0.00 2.08
5515 7249 0.695462 TCTGCCCATGGTCCAGCTAT 60.695 55.000 19.66 0.00 0.00 2.97
5516 7250 1.306911 TCTGCCCATGGTCCAGCTA 60.307 57.895 19.66 6.04 0.00 3.32
5517 7251 2.611800 TCTGCCCATGGTCCAGCT 60.612 61.111 19.66 0.00 0.00 4.24
5518 7252 2.124403 CTCTGCCCATGGTCCAGC 60.124 66.667 19.66 12.85 0.00 4.85
5519 7253 0.329261 TTTCTCTGCCCATGGTCCAG 59.671 55.000 18.80 18.80 0.00 3.86
5520 7254 1.002069 ATTTCTCTGCCCATGGTCCA 58.998 50.000 11.73 6.58 0.00 4.02
5521 7255 2.173569 AGTATTTCTCTGCCCATGGTCC 59.826 50.000 11.73 1.51 0.00 4.46
5522 7256 3.567478 AGTATTTCTCTGCCCATGGTC 57.433 47.619 11.73 0.00 0.00 4.02
5523 7257 4.040755 AGTAGTATTTCTCTGCCCATGGT 58.959 43.478 11.73 0.00 0.00 3.55
5524 7258 4.696479 AGTAGTATTTCTCTGCCCATGG 57.304 45.455 4.14 4.14 0.00 3.66
5525 7259 5.221521 TGCTAGTAGTATTTCTCTGCCCATG 60.222 44.000 0.00 0.00 0.00 3.66
5526 7260 4.901849 TGCTAGTAGTATTTCTCTGCCCAT 59.098 41.667 0.00 0.00 0.00 4.00
5527 7261 4.286707 TGCTAGTAGTATTTCTCTGCCCA 58.713 43.478 0.00 0.00 0.00 5.36
5528 7262 4.797933 GCTGCTAGTAGTATTTCTCTGCCC 60.798 50.000 9.73 0.00 0.00 5.36
5529 7263 4.202161 TGCTGCTAGTAGTATTTCTCTGCC 60.202 45.833 9.73 0.00 0.00 4.85
5530 7264 4.938080 TGCTGCTAGTAGTATTTCTCTGC 58.062 43.478 9.73 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.