Multiple sequence alignment - TraesCS5B01G145800

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5B01G145800 chr5B 100.000 2976 0 0 1 2976 273140317 273143292 0.000000e+00 5496
1 TraesCS5B01G145800 chr5D 88.083 2316 190 39 713 2970 232137238 232134951 0.000000e+00 2669
2 TraesCS5B01G145800 chr5D 92.995 571 38 2 150 720 397030365 397029797 0.000000e+00 832
3 TraesCS5B01G145800 chr5D 79.954 868 126 22 2141 2970 499234979 499235836 1.970000e-166 595
4 TraesCS5B01G145800 chr5D 81.342 745 99 23 2140 2854 363323409 363324143 1.200000e-158 569
5 TraesCS5B01G145800 chr5A 92.007 1076 43 11 1096 2141 324075653 324076715 0.000000e+00 1471
6 TraesCS5B01G145800 chr5A 97.115 312 8 1 717 1028 324075329 324075639 2.630000e-145 525
7 TraesCS5B01G145800 chr1D 94.434 557 31 0 157 713 15568707 15568151 0.000000e+00 857
8 TraesCS5B01G145800 chr1D 94.265 558 32 0 156 713 250740830 250741387 0.000000e+00 854
9 TraesCS5B01G145800 chr1D 93.885 556 34 0 157 712 19874681 19875236 0.000000e+00 839
10 TraesCS5B01G145800 chr4D 93.115 581 39 1 141 720 108101810 108101230 0.000000e+00 850
11 TraesCS5B01G145800 chr6D 93.896 557 33 1 156 712 321123140 321122585 0.000000e+00 839
12 TraesCS5B01G145800 chr7D 93.716 557 34 1 157 713 136707592 136708147 0.000000e+00 833
13 TraesCS5B01G145800 chrUn 93.405 561 35 2 156 716 115110324 115109766 0.000000e+00 830
14 TraesCS5B01G145800 chrUn 78.049 861 146 26 2141 2968 24687229 24686379 1.230000e-138 503
15 TraesCS5B01G145800 chr2A 92.388 578 40 3 156 730 332040381 332039805 0.000000e+00 821
16 TraesCS5B01G145800 chr2A 76.095 845 149 35 2141 2956 82532504 82531684 2.780000e-105 392
17 TraesCS5B01G145800 chr2A 77.218 417 61 17 2275 2660 260672472 260672885 2.320000e-51 213
18 TraesCS5B01G145800 chr3B 78.984 866 136 22 2141 2970 793418255 793419110 1.560000e-152 549
19 TraesCS5B01G145800 chr3B 78.893 867 135 24 2141 2970 792408506 792407651 7.250000e-151 544
20 TraesCS5B01G145800 chr3B 78.563 863 134 23 2141 2970 92112431 92113275 3.400000e-144 521
21 TraesCS5B01G145800 chr6B 79.970 674 110 9 2324 2976 692242333 692241664 9.650000e-130 473
22 TraesCS5B01G145800 chr3D 82.443 524 85 6 2448 2968 614649593 614650112 4.520000e-123 451


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 TraesCS5B01G145800 chr5B 273140317 273143292 2975 False 5496 5496 100.000 1 2976 1 chr5B.!!$F1 2975
1 TraesCS5B01G145800 chr5D 232134951 232137238 2287 True 2669 2669 88.083 713 2970 1 chr5D.!!$R1 2257
2 TraesCS5B01G145800 chr5D 397029797 397030365 568 True 832 832 92.995 150 720 1 chr5D.!!$R2 570
3 TraesCS5B01G145800 chr5D 499234979 499235836 857 False 595 595 79.954 2141 2970 1 chr5D.!!$F2 829
4 TraesCS5B01G145800 chr5D 363323409 363324143 734 False 569 569 81.342 2140 2854 1 chr5D.!!$F1 714
5 TraesCS5B01G145800 chr5A 324075329 324076715 1386 False 998 1471 94.561 717 2141 2 chr5A.!!$F1 1424
6 TraesCS5B01G145800 chr1D 15568151 15568707 556 True 857 857 94.434 157 713 1 chr1D.!!$R1 556
7 TraesCS5B01G145800 chr1D 250740830 250741387 557 False 854 854 94.265 156 713 1 chr1D.!!$F2 557
8 TraesCS5B01G145800 chr1D 19874681 19875236 555 False 839 839 93.885 157 712 1 chr1D.!!$F1 555
9 TraesCS5B01G145800 chr4D 108101230 108101810 580 True 850 850 93.115 141 720 1 chr4D.!!$R1 579
10 TraesCS5B01G145800 chr6D 321122585 321123140 555 True 839 839 93.896 156 712 1 chr6D.!!$R1 556
11 TraesCS5B01G145800 chr7D 136707592 136708147 555 False 833 833 93.716 157 713 1 chr7D.!!$F1 556
12 TraesCS5B01G145800 chrUn 115109766 115110324 558 True 830 830 93.405 156 716 1 chrUn.!!$R2 560
13 TraesCS5B01G145800 chrUn 24686379 24687229 850 True 503 503 78.049 2141 2968 1 chrUn.!!$R1 827
14 TraesCS5B01G145800 chr2A 332039805 332040381 576 True 821 821 92.388 156 730 1 chr2A.!!$R2 574
15 TraesCS5B01G145800 chr2A 82531684 82532504 820 True 392 392 76.095 2141 2956 1 chr2A.!!$R1 815
16 TraesCS5B01G145800 chr3B 793418255 793419110 855 False 549 549 78.984 2141 2970 1 chr3B.!!$F2 829
17 TraesCS5B01G145800 chr3B 792407651 792408506 855 True 544 544 78.893 2141 2970 1 chr3B.!!$R1 829
18 TraesCS5B01G145800 chr3B 92112431 92113275 844 False 521 521 78.563 2141 2970 1 chr3B.!!$F1 829
19 TraesCS5B01G145800 chr6B 692241664 692242333 669 True 473 473 79.970 2324 2976 1 chr6B.!!$R1 652
20 TraesCS5B01G145800 chr3D 614649593 614650112 519 False 451 451 82.443 2448 2968 1 chr3D.!!$F1 520

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
86 87 0.031716 TAGGAGGACCAGCTGAGCAT 60.032 55.0 17.39 3.65 38.94 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2065 2108 0.036306 AGTTGCCAAAGGACCGGTAG 59.964 55.0 7.34 0.0 0.0 3.18 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
24 25 7.451281 GTAAAAAGAGAAGAAAACAACAGCC 57.549 36.000 0.00 0.00 0.00 4.85
25 26 4.655762 AAAGAGAAGAAAACAACAGCCC 57.344 40.909 0.00 0.00 0.00 5.19
26 27 2.587522 AGAGAAGAAAACAACAGCCCC 58.412 47.619 0.00 0.00 0.00 5.80
27 28 1.613925 GAGAAGAAAACAACAGCCCCC 59.386 52.381 0.00 0.00 0.00 5.40
28 29 1.217942 AGAAGAAAACAACAGCCCCCT 59.782 47.619 0.00 0.00 0.00 4.79
29 30 1.613925 GAAGAAAACAACAGCCCCCTC 59.386 52.381 0.00 0.00 0.00 4.30
30 31 0.555769 AGAAAACAACAGCCCCCTCA 59.444 50.000 0.00 0.00 0.00 3.86
31 32 1.063266 AGAAAACAACAGCCCCCTCAA 60.063 47.619 0.00 0.00 0.00 3.02
32 33 1.760029 GAAAACAACAGCCCCCTCAAA 59.240 47.619 0.00 0.00 0.00 2.69
33 34 1.413118 AAACAACAGCCCCCTCAAAG 58.587 50.000 0.00 0.00 0.00 2.77
34 35 1.115326 AACAACAGCCCCCTCAAAGC 61.115 55.000 0.00 0.00 0.00 3.51
35 36 1.228675 CAACAGCCCCCTCAAAGCT 60.229 57.895 0.00 0.00 37.32 3.74
36 37 0.829182 CAACAGCCCCCTCAAAGCTT 60.829 55.000 0.00 0.00 33.70 3.74
37 38 0.540597 AACAGCCCCCTCAAAGCTTC 60.541 55.000 0.00 0.00 33.70 3.86
38 39 1.075482 CAGCCCCCTCAAAGCTTCA 59.925 57.895 0.00 0.00 33.70 3.02
39 40 0.324091 CAGCCCCCTCAAAGCTTCAT 60.324 55.000 0.00 0.00 33.70 2.57
40 41 0.033699 AGCCCCCTCAAAGCTTCATC 60.034 55.000 0.00 0.00 31.27 2.92
41 42 0.033699 GCCCCCTCAAAGCTTCATCT 60.034 55.000 0.00 0.00 0.00 2.90
42 43 1.212935 GCCCCCTCAAAGCTTCATCTA 59.787 52.381 0.00 0.00 0.00 1.98
43 44 2.357154 GCCCCCTCAAAGCTTCATCTAA 60.357 50.000 0.00 0.00 0.00 2.10
44 45 3.877735 GCCCCCTCAAAGCTTCATCTAAA 60.878 47.826 0.00 0.00 0.00 1.85
45 46 4.344104 CCCCCTCAAAGCTTCATCTAAAA 58.656 43.478 0.00 0.00 0.00 1.52
46 47 4.772100 CCCCCTCAAAGCTTCATCTAAAAA 59.228 41.667 0.00 0.00 0.00 1.94
70 71 9.665719 AAAAAGCTCTCTCTTCTTTCTATTAGG 57.334 33.333 0.00 0.00 30.52 2.69
71 72 8.602472 AAAGCTCTCTCTTCTTTCTATTAGGA 57.398 34.615 0.00 0.00 0.00 2.94
72 73 7.823745 AGCTCTCTCTTCTTTCTATTAGGAG 57.176 40.000 0.00 0.00 0.00 3.69
73 74 6.777580 AGCTCTCTCTTCTTTCTATTAGGAGG 59.222 42.308 0.00 0.00 0.00 4.30
74 75 6.775629 GCTCTCTCTTCTTTCTATTAGGAGGA 59.224 42.308 0.00 0.00 0.00 3.71
75 76 7.255486 GCTCTCTCTTCTTTCTATTAGGAGGAC 60.255 44.444 0.00 0.00 0.00 3.85
76 77 7.064229 TCTCTCTTCTTTCTATTAGGAGGACC 58.936 42.308 0.00 0.00 0.00 4.46
77 78 6.742756 TCTCTTCTTTCTATTAGGAGGACCA 58.257 40.000 0.00 0.00 38.94 4.02
78 79 6.836527 TCTCTTCTTTCTATTAGGAGGACCAG 59.163 42.308 0.00 0.00 38.94 4.00
79 80 5.364157 TCTTCTTTCTATTAGGAGGACCAGC 59.636 44.000 0.00 0.00 38.94 4.85
80 81 4.884961 TCTTTCTATTAGGAGGACCAGCT 58.115 43.478 0.00 0.00 38.94 4.24
81 82 4.651503 TCTTTCTATTAGGAGGACCAGCTG 59.348 45.833 6.78 6.78 38.94 4.24
82 83 3.973472 TCTATTAGGAGGACCAGCTGA 57.027 47.619 17.39 0.00 38.94 4.26
83 84 3.838565 TCTATTAGGAGGACCAGCTGAG 58.161 50.000 17.39 8.04 38.94 3.35
84 85 1.127343 ATTAGGAGGACCAGCTGAGC 58.873 55.000 17.39 6.24 38.94 4.26
85 86 0.252239 TTAGGAGGACCAGCTGAGCA 60.252 55.000 17.39 0.00 38.94 4.26
86 87 0.031716 TAGGAGGACCAGCTGAGCAT 60.032 55.000 17.39 3.65 38.94 3.79
87 88 0.913451 AGGAGGACCAGCTGAGCATT 60.913 55.000 17.39 0.00 38.94 3.56
88 89 0.463474 GGAGGACCAGCTGAGCATTC 60.463 60.000 17.39 6.00 35.97 2.67
89 90 0.463474 GAGGACCAGCTGAGCATTCC 60.463 60.000 17.39 12.14 0.00 3.01
90 91 0.913451 AGGACCAGCTGAGCATTCCT 60.913 55.000 17.39 14.17 31.49 3.36
91 92 0.463474 GGACCAGCTGAGCATTCCTC 60.463 60.000 17.39 0.00 41.15 3.71
92 93 0.809241 GACCAGCTGAGCATTCCTCG 60.809 60.000 17.39 0.00 43.82 4.63
93 94 1.220206 CCAGCTGAGCATTCCTCGT 59.780 57.895 17.39 0.00 43.82 4.18
94 95 1.088340 CCAGCTGAGCATTCCTCGTG 61.088 60.000 17.39 0.00 43.82 4.35
95 96 0.390866 CAGCTGAGCATTCCTCGTGT 60.391 55.000 8.42 0.00 43.82 4.49
96 97 0.322975 AGCTGAGCATTCCTCGTGTT 59.677 50.000 7.39 0.00 43.82 3.32
97 98 1.160137 GCTGAGCATTCCTCGTGTTT 58.840 50.000 0.00 0.00 43.82 2.83
98 99 1.129437 GCTGAGCATTCCTCGTGTTTC 59.871 52.381 0.00 0.00 43.82 2.78
99 100 2.693069 CTGAGCATTCCTCGTGTTTCT 58.307 47.619 0.00 0.00 43.82 2.52
100 101 2.414481 CTGAGCATTCCTCGTGTTTCTG 59.586 50.000 0.00 0.00 43.82 3.02
101 102 1.734465 GAGCATTCCTCGTGTTTCTGG 59.266 52.381 0.00 0.00 0.00 3.86
102 103 0.804989 GCATTCCTCGTGTTTCTGGG 59.195 55.000 0.00 0.00 0.00 4.45
103 104 1.610624 GCATTCCTCGTGTTTCTGGGA 60.611 52.381 0.00 0.00 0.00 4.37
104 105 2.350522 CATTCCTCGTGTTTCTGGGAG 58.649 52.381 0.00 0.00 0.00 4.30
105 106 0.685097 TTCCTCGTGTTTCTGGGAGG 59.315 55.000 0.00 0.00 45.93 4.30
106 107 0.471211 TCCTCGTGTTTCTGGGAGGT 60.471 55.000 5.89 0.00 45.04 3.85
107 108 0.396811 CCTCGTGTTTCTGGGAGGTT 59.603 55.000 0.00 0.00 40.91 3.50
108 109 1.621814 CCTCGTGTTTCTGGGAGGTTA 59.378 52.381 0.00 0.00 40.91 2.85
109 110 2.038033 CCTCGTGTTTCTGGGAGGTTAA 59.962 50.000 0.00 0.00 40.91 2.01
110 111 3.495453 CCTCGTGTTTCTGGGAGGTTAAA 60.495 47.826 0.00 0.00 40.91 1.52
111 112 4.131596 CTCGTGTTTCTGGGAGGTTAAAA 58.868 43.478 0.00 0.00 0.00 1.52
112 113 4.721132 TCGTGTTTCTGGGAGGTTAAAAT 58.279 39.130 0.00 0.00 0.00 1.82
113 114 5.867330 TCGTGTTTCTGGGAGGTTAAAATA 58.133 37.500 0.00 0.00 0.00 1.40
114 115 5.702209 TCGTGTTTCTGGGAGGTTAAAATAC 59.298 40.000 0.00 0.00 0.00 1.89
115 116 5.106436 CGTGTTTCTGGGAGGTTAAAATACC 60.106 44.000 0.00 0.00 38.53 2.73
116 117 5.771165 GTGTTTCTGGGAGGTTAAAATACCA 59.229 40.000 0.00 0.00 40.82 3.25
117 118 6.265876 GTGTTTCTGGGAGGTTAAAATACCAA 59.734 38.462 0.00 0.00 40.82 3.67
118 119 6.492087 TGTTTCTGGGAGGTTAAAATACCAAG 59.508 38.462 0.00 0.00 40.82 3.61
119 120 5.187621 TCTGGGAGGTTAAAATACCAAGG 57.812 43.478 0.00 0.00 40.82 3.61
120 121 4.017867 TCTGGGAGGTTAAAATACCAAGGG 60.018 45.833 0.00 0.00 40.82 3.95
121 122 3.028850 GGGAGGTTAAAATACCAAGGGC 58.971 50.000 0.00 0.00 40.82 5.19
122 123 3.564790 GGGAGGTTAAAATACCAAGGGCA 60.565 47.826 0.00 0.00 40.82 5.36
123 124 4.286707 GGAGGTTAAAATACCAAGGGCAT 58.713 43.478 0.00 0.00 40.82 4.40
124 125 4.714802 GGAGGTTAAAATACCAAGGGCATT 59.285 41.667 0.00 0.00 40.82 3.56
125 126 5.188948 GGAGGTTAAAATACCAAGGGCATTT 59.811 40.000 0.00 0.00 40.82 2.32
126 127 6.381707 GGAGGTTAAAATACCAAGGGCATTTA 59.618 38.462 0.00 0.00 40.82 1.40
127 128 7.177832 AGGTTAAAATACCAAGGGCATTTAC 57.822 36.000 0.00 0.00 40.82 2.01
128 129 6.037726 GGTTAAAATACCAAGGGCATTTACG 58.962 40.000 0.00 0.00 38.12 3.18
129 130 3.793797 AAATACCAAGGGCATTTACGC 57.206 42.857 0.00 0.00 0.00 4.42
130 131 1.305201 ATACCAAGGGCATTTACGCG 58.695 50.000 3.53 3.53 0.00 6.01
131 132 0.249676 TACCAAGGGCATTTACGCGA 59.750 50.000 15.93 0.00 0.00 5.87
132 133 0.606944 ACCAAGGGCATTTACGCGAA 60.607 50.000 15.93 0.00 0.00 4.70
133 134 0.523966 CCAAGGGCATTTACGCGAAA 59.476 50.000 15.93 9.79 0.00 3.46
134 135 1.467374 CCAAGGGCATTTACGCGAAAG 60.467 52.381 15.93 0.00 0.00 2.62
135 136 1.466950 CAAGGGCATTTACGCGAAAGA 59.533 47.619 15.93 0.00 0.00 2.52
136 137 1.816074 AGGGCATTTACGCGAAAGAA 58.184 45.000 15.93 1.46 0.00 2.52
137 138 2.156098 AGGGCATTTACGCGAAAGAAA 58.844 42.857 15.93 7.92 0.00 2.52
138 139 2.554893 AGGGCATTTACGCGAAAGAAAA 59.445 40.909 15.93 5.46 0.00 2.29
139 140 3.004944 AGGGCATTTACGCGAAAGAAAAA 59.995 39.130 15.93 3.58 0.00 1.94
167 168 9.268268 CTAGTATAATAGGACGGCAAATTTGAA 57.732 33.333 22.31 0.00 0.00 2.69
196 197 5.941733 TGACCTGTGAATGAAATCAAATCG 58.058 37.500 0.00 0.00 0.00 3.34
248 249 2.223711 GCGGTTGACCTTTTTGTGTGAT 60.224 45.455 0.00 0.00 0.00 3.06
352 353 6.490040 AGACTGCCTAAAAATTGCTAAGTCAA 59.510 34.615 0.00 0.00 33.10 3.18
457 458 2.862541 TGAAGCAACCACTAGTGCAAT 58.137 42.857 17.86 1.99 0.00 3.56
471 472 2.768527 AGTGCAATGCCTAGAAGCTAGA 59.231 45.455 1.53 0.00 0.00 2.43
556 557 4.758251 CATGGGTGCGACGCTGGA 62.758 66.667 22.08 0.00 31.67 3.86
612 614 1.213537 GTAGTGTGGCGCCTTCGTA 59.786 57.895 29.70 11.44 38.14 3.43
615 617 1.447140 GTGTGGCGCCTTCGTATCA 60.447 57.895 29.70 11.87 38.14 2.15
632 634 2.031258 TCAGGCGTCACACAAAAAGA 57.969 45.000 0.00 0.00 0.00 2.52
636 638 2.948979 AGGCGTCACACAAAAAGATCAA 59.051 40.909 0.00 0.00 0.00 2.57
648 650 3.915437 AAAGATCAACCGCGTGAAATT 57.085 38.095 4.92 0.00 0.00 1.82
700 702 8.568676 TTGATTTCGTCCATAGGTCAAATTTA 57.431 30.769 0.00 0.00 0.00 1.40
1063 1077 6.534934 TGTTTCAAACAAATTTTAACACGCC 58.465 32.000 0.00 0.00 38.72 5.68
1064 1078 5.720261 TTCAAACAAATTTTAACACGCCC 57.280 34.783 0.00 0.00 0.00 6.13
1066 1080 4.806247 TCAAACAAATTTTAACACGCCCAG 59.194 37.500 0.00 0.00 0.00 4.45
1086 1100 4.261952 CCAGGTCAGCTAGTATCATGAGTG 60.262 50.000 0.09 0.00 0.00 3.51
1105 1119 4.421058 AGTGGCAAACGAGAAAAAGAAAC 58.579 39.130 0.00 0.00 0.00 2.78
1125 1139 2.005451 CCAGAGTCAGCTTTTGATCGG 58.995 52.381 0.00 0.00 38.29 4.18
1137 1151 4.722194 CTTTTGATCGGATTTCGCTTGAA 58.278 39.130 0.00 0.00 39.05 2.69
1138 1152 4.757799 TTTGATCGGATTTCGCTTGAAA 57.242 36.364 0.00 0.00 45.14 2.69
1262 1276 4.349503 TCGGCCATGGCAAGCACT 62.350 61.111 36.56 0.00 44.11 4.40
1269 1283 2.928334 CCATGGCAAGCACTAGAATCT 58.072 47.619 0.00 0.00 0.00 2.40
1270 1284 2.877168 CCATGGCAAGCACTAGAATCTC 59.123 50.000 0.00 0.00 0.00 2.75
1278 1292 5.718146 CAAGCACTAGAATCTCTGACTGAA 58.282 41.667 0.00 0.00 0.00 3.02
1283 1298 6.571344 GCACTAGAATCTCTGACTGAAGAACA 60.571 42.308 0.00 0.00 0.00 3.18
1294 1309 2.855660 TGAAGAACAGACACGAACGA 57.144 45.000 0.14 0.00 0.00 3.85
1349 1367 3.268603 CAACGTGCAGGCGTCACA 61.269 61.111 6.26 0.00 45.00 3.58
1364 1382 3.790091 CGTCACAGACATTGAGATCCAT 58.210 45.455 0.00 0.00 32.09 3.41
1527 1545 3.515502 GGATGGATGATAATCGACCTCCA 59.484 47.826 0.00 0.00 35.87 3.86
1538 1556 1.557443 CGACCTCCAACAAGTGACGC 61.557 60.000 0.00 0.00 0.00 5.19
1754 1772 4.040584 ACTTCTTCCAGTCCAAGTACTTCC 59.959 45.833 4.77 0.00 0.00 3.46
1964 1982 0.672091 TAGTTTCGCGGCAATGCTCA 60.672 50.000 6.13 0.00 0.00 4.26
2093 2136 1.885887 CCTTTGGCAACTCGATCCAAA 59.114 47.619 0.00 15.65 44.75 3.28
2106 2155 3.749088 TCGATCCAAACGCTGTACAAATT 59.251 39.130 0.00 0.00 0.00 1.82
2164 2223 6.795144 TTAAATATTACACCCGGTCTCTGA 57.205 37.500 0.00 0.00 0.00 3.27
2182 2241 7.340699 GTCTCTGAATAATTAAGATGCACACG 58.659 38.462 0.00 0.00 0.00 4.49
2189 2248 1.832883 TAAGATGCACACGGCCAAAT 58.167 45.000 2.24 0.00 43.89 2.32
2195 2254 1.069823 TGCACACGGCCAAATCAAATT 59.930 42.857 2.24 0.00 43.89 1.82
2209 2272 7.522725 GCCAAATCAAATTCAGTCTCAGAAAGA 60.523 37.037 0.00 0.00 0.00 2.52
2210 2273 8.021973 CCAAATCAAATTCAGTCTCAGAAAGAG 58.978 37.037 0.00 0.00 46.14 2.85
2269 2334 1.673626 GGATGACGCCTAAACCGTTGA 60.674 52.381 0.00 0.00 39.30 3.18
2284 2354 2.654863 CGTTGAAGGGCCAATCCTAAT 58.345 47.619 6.18 0.00 35.80 1.73
2293 2363 4.790246 AGGGCCAATCCTAATATCATGCTA 59.210 41.667 6.18 0.00 34.92 3.49
2310 2380 1.072331 GCTACCATCCATGTGGGGTAG 59.928 57.143 21.10 21.10 45.34 3.18
2319 2400 4.172807 TCCATGTGGGGTAGAAGTAGTTT 58.827 43.478 0.00 0.00 37.22 2.66
2336 2417 6.453092 AGTAGTTTTCTAAGCGTGTACACAT 58.547 36.000 24.98 13.01 33.87 3.21
2340 2421 7.321153 AGTTTTCTAAGCGTGTACACATATCT 58.679 34.615 24.98 12.82 0.00 1.98
2350 2431 6.309494 GCGTGTACACATATCTGTAAACAAGA 59.691 38.462 24.98 0.00 35.36 3.02
2360 2441 9.307121 CATATCTGTAAACAAGACTCGATTCTT 57.693 33.333 11.90 11.90 36.18 2.52
2379 2460 5.048153 TCTTCACACATTGTAGAGACGAG 57.952 43.478 0.00 0.00 28.90 4.18
2434 2519 6.389906 CCTGCAAAAGGGAAGTACTTTTATG 58.610 40.000 10.02 5.23 43.98 1.90
2482 2582 1.686355 AACAACAAACGCTCCCATCA 58.314 45.000 0.00 0.00 0.00 3.07
2494 2594 3.881688 CGCTCCCATCATGAGAAGAATTT 59.118 43.478 0.09 0.00 31.26 1.82
2549 2649 9.931210 GTTGTCAAATATATTAGCAACACTACC 57.069 33.333 21.74 6.16 35.98 3.18
2678 2782 3.081061 TGCGTACTTTCATGCCAATTCT 58.919 40.909 0.00 0.00 0.00 2.40
2694 2798 8.871629 TGCCAATTCTTCTTAATAAGGTTGTA 57.128 30.769 0.00 5.34 0.00 2.41
2711 2818 6.838382 AGGTTGTACTTGGTAAGAATGACTT 58.162 36.000 0.00 0.00 42.04 3.01
2878 2988 1.672881 CACTGAAATTCATCGGCTCCC 59.327 52.381 0.00 0.00 0.00 4.30
2879 2989 1.281867 ACTGAAATTCATCGGCTCCCA 59.718 47.619 0.00 0.00 0.00 4.37
2882 2992 2.503765 TGAAATTCATCGGCTCCCAGTA 59.496 45.455 0.00 0.00 0.00 2.74
2888 2998 1.754803 CATCGGCTCCCAGTAACAGTA 59.245 52.381 0.00 0.00 0.00 2.74
2897 3007 2.821969 CCCAGTAACAGTAGTACCGTGT 59.178 50.000 0.00 0.00 0.00 4.49
2926 3036 7.009907 AGTCTTAGTAACAAAGTGTTTCACGAC 59.990 37.037 0.00 3.44 41.45 4.34
2946 3056 4.698575 GACTCAAGTCTAGGGCCAATTAG 58.301 47.826 6.18 3.27 41.65 1.73
2970 3080 7.392418 AGATCTCTTCTGAATGTCACATTTGA 58.608 34.615 4.04 3.91 31.79 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.475727 GGGCTGTTGTTTTCTTCTCTTTTTAC 59.524 38.462 0.00 0.00 0.00 2.01
4 5 3.384789 GGGGCTGTTGTTTTCTTCTCTTT 59.615 43.478 0.00 0.00 0.00 2.52
7 8 1.613925 GGGGGCTGTTGTTTTCTTCTC 59.386 52.381 0.00 0.00 0.00 2.87
8 9 1.217942 AGGGGGCTGTTGTTTTCTTCT 59.782 47.619 0.00 0.00 0.00 2.85
9 10 1.613925 GAGGGGGCTGTTGTTTTCTTC 59.386 52.381 0.00 0.00 0.00 2.87
10 11 1.063266 TGAGGGGGCTGTTGTTTTCTT 60.063 47.619 0.00 0.00 0.00 2.52
11 12 0.555769 TGAGGGGGCTGTTGTTTTCT 59.444 50.000 0.00 0.00 0.00 2.52
12 13 1.408969 TTGAGGGGGCTGTTGTTTTC 58.591 50.000 0.00 0.00 0.00 2.29
13 14 1.762370 CTTTGAGGGGGCTGTTGTTTT 59.238 47.619 0.00 0.00 0.00 2.43
14 15 1.413118 CTTTGAGGGGGCTGTTGTTT 58.587 50.000 0.00 0.00 0.00 2.83
16 17 1.531602 GCTTTGAGGGGGCTGTTGT 60.532 57.895 0.00 0.00 0.00 3.32
17 18 0.829182 AAGCTTTGAGGGGGCTGTTG 60.829 55.000 0.00 0.00 36.37 3.33
18 19 0.540597 GAAGCTTTGAGGGGGCTGTT 60.541 55.000 0.00 0.00 36.37 3.16
19 20 1.075659 GAAGCTTTGAGGGGGCTGT 59.924 57.895 0.00 0.00 36.37 4.40
20 21 0.324091 ATGAAGCTTTGAGGGGGCTG 60.324 55.000 0.00 0.00 36.37 4.85
21 22 0.033699 GATGAAGCTTTGAGGGGGCT 60.034 55.000 0.00 0.00 37.99 5.19
22 23 0.033699 AGATGAAGCTTTGAGGGGGC 60.034 55.000 0.00 0.00 0.00 5.80
23 24 3.652057 TTAGATGAAGCTTTGAGGGGG 57.348 47.619 0.00 0.00 0.00 5.40
24 25 5.982890 TTTTTAGATGAAGCTTTGAGGGG 57.017 39.130 0.00 0.00 0.00 4.79
44 45 9.665719 CCTAATAGAAAGAAGAGAGAGCTTTTT 57.334 33.333 0.00 0.00 32.45 1.94
45 46 9.041354 TCCTAATAGAAAGAAGAGAGAGCTTTT 57.959 33.333 0.00 0.00 32.45 2.27
46 47 8.602472 TCCTAATAGAAAGAAGAGAGAGCTTT 57.398 34.615 0.00 0.00 34.79 3.51
47 48 7.287696 CCTCCTAATAGAAAGAAGAGAGAGCTT 59.712 40.741 0.00 0.00 0.00 3.74
48 49 6.777580 CCTCCTAATAGAAAGAAGAGAGAGCT 59.222 42.308 0.00 0.00 0.00 4.09
49 50 6.775629 TCCTCCTAATAGAAAGAAGAGAGAGC 59.224 42.308 0.00 0.00 0.00 4.09
50 51 7.230712 GGTCCTCCTAATAGAAAGAAGAGAGAG 59.769 44.444 0.00 0.00 0.00 3.20
51 52 7.064229 GGTCCTCCTAATAGAAAGAAGAGAGA 58.936 42.308 0.00 0.00 0.00 3.10
52 53 6.836527 TGGTCCTCCTAATAGAAAGAAGAGAG 59.163 42.308 0.00 0.00 34.23 3.20
53 54 6.742756 TGGTCCTCCTAATAGAAAGAAGAGA 58.257 40.000 0.00 0.00 34.23 3.10
54 55 6.462347 GCTGGTCCTCCTAATAGAAAGAAGAG 60.462 46.154 0.00 0.00 34.23 2.85
55 56 5.364157 GCTGGTCCTCCTAATAGAAAGAAGA 59.636 44.000 0.00 0.00 34.23 2.87
56 57 5.365314 AGCTGGTCCTCCTAATAGAAAGAAG 59.635 44.000 0.00 0.00 34.23 2.85
57 58 5.129485 CAGCTGGTCCTCCTAATAGAAAGAA 59.871 44.000 5.57 0.00 34.23 2.52
58 59 4.651503 CAGCTGGTCCTCCTAATAGAAAGA 59.348 45.833 5.57 0.00 34.23 2.52
59 60 4.651503 TCAGCTGGTCCTCCTAATAGAAAG 59.348 45.833 15.13 0.00 34.23 2.62
60 61 4.620723 TCAGCTGGTCCTCCTAATAGAAA 58.379 43.478 15.13 0.00 34.23 2.52
61 62 4.219115 CTCAGCTGGTCCTCCTAATAGAA 58.781 47.826 15.13 0.00 34.23 2.10
62 63 3.838565 CTCAGCTGGTCCTCCTAATAGA 58.161 50.000 15.13 0.00 34.23 1.98
63 64 2.298729 GCTCAGCTGGTCCTCCTAATAG 59.701 54.545 15.13 0.00 34.23 1.73
64 65 2.320781 GCTCAGCTGGTCCTCCTAATA 58.679 52.381 15.13 0.00 34.23 0.98
65 66 1.127343 GCTCAGCTGGTCCTCCTAAT 58.873 55.000 15.13 0.00 34.23 1.73
66 67 0.252239 TGCTCAGCTGGTCCTCCTAA 60.252 55.000 15.13 0.00 34.23 2.69
67 68 0.031716 ATGCTCAGCTGGTCCTCCTA 60.032 55.000 15.13 0.00 34.23 2.94
68 69 0.913451 AATGCTCAGCTGGTCCTCCT 60.913 55.000 15.13 0.00 34.23 3.69
69 70 0.463474 GAATGCTCAGCTGGTCCTCC 60.463 60.000 15.13 0.00 0.00 4.30
70 71 0.463474 GGAATGCTCAGCTGGTCCTC 60.463 60.000 15.13 4.65 0.00 3.71
71 72 0.913451 AGGAATGCTCAGCTGGTCCT 60.913 55.000 15.13 14.58 32.17 3.85
72 73 0.463474 GAGGAATGCTCAGCTGGTCC 60.463 60.000 15.13 12.63 0.00 4.46
73 74 0.809241 CGAGGAATGCTCAGCTGGTC 60.809 60.000 15.13 6.53 0.00 4.02
74 75 1.220206 CGAGGAATGCTCAGCTGGT 59.780 57.895 15.13 0.00 0.00 4.00
75 76 1.088340 CACGAGGAATGCTCAGCTGG 61.088 60.000 15.13 5.82 0.00 4.85
76 77 0.390866 ACACGAGGAATGCTCAGCTG 60.391 55.000 7.63 7.63 0.00 4.24
77 78 0.322975 AACACGAGGAATGCTCAGCT 59.677 50.000 0.00 0.00 0.00 4.24
78 79 1.129437 GAAACACGAGGAATGCTCAGC 59.871 52.381 2.09 0.00 0.00 4.26
79 80 2.414481 CAGAAACACGAGGAATGCTCAG 59.586 50.000 2.09 0.00 0.00 3.35
80 81 2.416747 CAGAAACACGAGGAATGCTCA 58.583 47.619 2.09 0.00 0.00 4.26
81 82 1.734465 CCAGAAACACGAGGAATGCTC 59.266 52.381 0.00 0.00 0.00 4.26
82 83 1.611673 CCCAGAAACACGAGGAATGCT 60.612 52.381 0.00 0.00 0.00 3.79
83 84 0.804989 CCCAGAAACACGAGGAATGC 59.195 55.000 0.00 0.00 0.00 3.56
84 85 2.350522 CTCCCAGAAACACGAGGAATG 58.649 52.381 0.00 0.00 0.00 2.67
85 86 1.279271 CCTCCCAGAAACACGAGGAAT 59.721 52.381 0.00 0.00 43.96 3.01
86 87 0.685097 CCTCCCAGAAACACGAGGAA 59.315 55.000 0.00 0.00 43.96 3.36
87 88 0.471211 ACCTCCCAGAAACACGAGGA 60.471 55.000 8.88 0.00 43.96 3.71
88 89 0.396811 AACCTCCCAGAAACACGAGG 59.603 55.000 0.00 0.00 46.18 4.63
89 90 3.396260 TTAACCTCCCAGAAACACGAG 57.604 47.619 0.00 0.00 0.00 4.18
90 91 3.842007 TTTAACCTCCCAGAAACACGA 57.158 42.857 0.00 0.00 0.00 4.35
91 92 5.106436 GGTATTTTAACCTCCCAGAAACACG 60.106 44.000 0.00 0.00 36.53 4.49
92 93 5.771165 TGGTATTTTAACCTCCCAGAAACAC 59.229 40.000 0.00 0.00 40.44 3.32
93 94 5.954757 TGGTATTTTAACCTCCCAGAAACA 58.045 37.500 0.00 0.00 40.44 2.83
94 95 6.071560 CCTTGGTATTTTAACCTCCCAGAAAC 60.072 42.308 0.00 0.00 40.44 2.78
95 96 6.014012 CCTTGGTATTTTAACCTCCCAGAAA 58.986 40.000 0.00 0.00 40.44 2.52
96 97 5.517655 CCCTTGGTATTTTAACCTCCCAGAA 60.518 44.000 0.00 0.00 40.44 3.02
97 98 4.017867 CCCTTGGTATTTTAACCTCCCAGA 60.018 45.833 0.00 0.00 40.44 3.86
98 99 4.278310 CCCTTGGTATTTTAACCTCCCAG 58.722 47.826 0.00 0.00 40.44 4.45
99 100 3.564790 GCCCTTGGTATTTTAACCTCCCA 60.565 47.826 0.00 0.00 40.44 4.37
100 101 3.028850 GCCCTTGGTATTTTAACCTCCC 58.971 50.000 0.00 0.00 40.44 4.30
101 102 3.703921 TGCCCTTGGTATTTTAACCTCC 58.296 45.455 0.00 0.00 40.44 4.30
102 103 5.932619 AATGCCCTTGGTATTTTAACCTC 57.067 39.130 0.00 0.00 34.47 3.85
103 104 6.127563 CGTAAATGCCCTTGGTATTTTAACCT 60.128 38.462 13.21 0.00 43.49 3.50
104 105 6.037726 CGTAAATGCCCTTGGTATTTTAACC 58.962 40.000 13.21 0.00 43.49 2.85
105 106 5.517411 GCGTAAATGCCCTTGGTATTTTAAC 59.483 40.000 13.21 6.91 43.49 2.01
106 107 5.652518 GCGTAAATGCCCTTGGTATTTTAA 58.347 37.500 13.21 0.00 43.49 1.52
107 108 4.201930 CGCGTAAATGCCCTTGGTATTTTA 60.202 41.667 13.21 0.09 43.49 1.52
108 109 3.428316 CGCGTAAATGCCCTTGGTATTTT 60.428 43.478 13.21 0.87 43.49 1.82
109 110 2.098443 CGCGTAAATGCCCTTGGTATTT 59.902 45.455 12.69 12.69 46.55 1.40
110 111 1.673920 CGCGTAAATGCCCTTGGTATT 59.326 47.619 0.00 0.00 39.59 1.89
111 112 1.134340 TCGCGTAAATGCCCTTGGTAT 60.134 47.619 5.77 0.00 0.00 2.73
112 113 0.249676 TCGCGTAAATGCCCTTGGTA 59.750 50.000 5.77 0.00 0.00 3.25
113 114 0.606944 TTCGCGTAAATGCCCTTGGT 60.607 50.000 5.77 0.00 0.00 3.67
114 115 0.523966 TTTCGCGTAAATGCCCTTGG 59.476 50.000 5.77 0.00 0.00 3.61
115 116 1.466950 TCTTTCGCGTAAATGCCCTTG 59.533 47.619 5.77 0.00 0.00 3.61
116 117 1.816074 TCTTTCGCGTAAATGCCCTT 58.184 45.000 5.77 0.00 0.00 3.95
117 118 1.816074 TTCTTTCGCGTAAATGCCCT 58.184 45.000 5.77 0.00 0.00 5.19
118 119 2.622546 TTTCTTTCGCGTAAATGCCC 57.377 45.000 5.77 0.00 0.00 5.36
136 137 9.623000 ATTTGCCGTCCTATTATACTAGTTTTT 57.377 29.630 0.00 0.00 0.00 1.94
137 138 9.623000 AATTTGCCGTCCTATTATACTAGTTTT 57.377 29.630 0.00 0.00 0.00 2.43
138 139 9.623000 AAATTTGCCGTCCTATTATACTAGTTT 57.377 29.630 0.00 0.00 0.00 2.66
139 140 9.052759 CAAATTTGCCGTCCTATTATACTAGTT 57.947 33.333 5.01 0.00 0.00 2.24
140 141 8.426489 TCAAATTTGCCGTCCTATTATACTAGT 58.574 33.333 13.54 0.00 0.00 2.57
141 142 8.827177 TCAAATTTGCCGTCCTATTATACTAG 57.173 34.615 13.54 0.00 0.00 2.57
142 143 9.616156 TTTCAAATTTGCCGTCCTATTATACTA 57.384 29.630 13.54 0.00 0.00 1.82
143 144 8.514330 TTTCAAATTTGCCGTCCTATTATACT 57.486 30.769 13.54 0.00 0.00 2.12
144 145 9.575783 TTTTTCAAATTTGCCGTCCTATTATAC 57.424 29.630 13.54 0.00 0.00 1.47
146 147 9.665719 AATTTTTCAAATTTGCCGTCCTATTAT 57.334 25.926 13.54 0.00 0.00 1.28
147 148 9.495572 AAATTTTTCAAATTTGCCGTCCTATTA 57.504 25.926 13.54 0.00 0.00 0.98
148 149 7.977789 AATTTTTCAAATTTGCCGTCCTATT 57.022 28.000 13.54 4.17 0.00 1.73
149 150 7.659390 TCAAATTTTTCAAATTTGCCGTCCTAT 59.341 29.630 21.91 0.00 43.60 2.57
150 151 6.986817 TCAAATTTTTCAAATTTGCCGTCCTA 59.013 30.769 21.91 7.46 43.60 2.94
151 152 5.819901 TCAAATTTTTCAAATTTGCCGTCCT 59.180 32.000 21.91 0.00 43.60 3.85
152 153 5.906838 GTCAAATTTTTCAAATTTGCCGTCC 59.093 36.000 21.91 9.36 43.60 4.79
153 154 5.906838 GGTCAAATTTTTCAAATTTGCCGTC 59.093 36.000 21.91 14.46 43.60 4.79
154 155 5.588246 AGGTCAAATTTTTCAAATTTGCCGT 59.412 32.000 21.91 14.03 43.60 5.68
167 168 8.961294 TTGATTTCATTCACAGGTCAAATTTT 57.039 26.923 0.00 0.00 0.00 1.82
196 197 0.313672 TCACGGGCAGTTCATTTTGC 59.686 50.000 0.00 0.00 39.56 3.68
266 267 1.493772 GCGTTGCACAGTGTAGTGTA 58.506 50.000 1.61 0.00 41.52 2.90
352 353 1.202330 AGCTCTTAGGCTCTGCACAT 58.798 50.000 0.00 0.00 38.24 3.21
392 393 3.922640 CCTGAGAGCTAGGCGCCC 61.923 72.222 26.15 8.19 40.39 6.13
612 614 2.571212 TCTTTTTGTGTGACGCCTGAT 58.429 42.857 0.00 0.00 0.00 2.90
615 617 2.571212 TGATCTTTTTGTGTGACGCCT 58.429 42.857 0.00 0.00 0.00 5.52
632 634 3.243234 TGAAACAATTTCACGCGGTTGAT 60.243 39.130 12.47 0.00 44.21 2.57
648 650 5.408299 CACAGAATGAACTATCCGTGAAACA 59.592 40.000 0.00 0.00 39.69 2.83
700 702 4.415596 TGGTCCTGTTAGGCAAAATTGAT 58.584 39.130 0.00 0.00 34.61 2.57
1063 1077 3.894427 ACTCATGATACTAGCTGACCTGG 59.106 47.826 0.00 0.00 0.00 4.45
1064 1078 4.261952 CCACTCATGATACTAGCTGACCTG 60.262 50.000 0.00 0.00 0.00 4.00
1066 1080 3.553922 GCCACTCATGATACTAGCTGACC 60.554 52.174 0.00 0.00 0.00 4.02
1086 1100 3.776340 TGGTTTCTTTTTCTCGTTTGCC 58.224 40.909 0.00 0.00 0.00 4.52
1105 1119 2.005451 CCGATCAAAAGCTGACTCTGG 58.995 52.381 0.00 0.00 36.69 3.86
1137 1151 2.238646 TCCGATCCCACTGCAGTTAATT 59.761 45.455 18.94 2.37 0.00 1.40
1138 1152 1.837439 TCCGATCCCACTGCAGTTAAT 59.163 47.619 18.94 10.86 0.00 1.40
1139 1153 1.207089 CTCCGATCCCACTGCAGTTAA 59.793 52.381 18.94 5.78 0.00 2.01
1140 1154 0.824109 CTCCGATCCCACTGCAGTTA 59.176 55.000 18.94 6.17 0.00 2.24
1262 1276 6.717084 TGTCTGTTCTTCAGTCAGAGATTCTA 59.283 38.462 0.00 0.00 43.97 2.10
1269 1283 2.949644 TCGTGTCTGTTCTTCAGTCAGA 59.050 45.455 0.00 0.00 41.28 3.27
1270 1284 3.355626 TCGTGTCTGTTCTTCAGTCAG 57.644 47.619 0.00 0.00 41.28 3.51
1278 1292 3.364889 TGATTCGTTCGTGTCTGTTCT 57.635 42.857 0.00 0.00 0.00 3.01
1309 1327 6.918626 TGAAGTTGAACTTGATTGTGTCAAA 58.081 32.000 16.25 0.00 45.74 2.69
1310 1328 6.507958 TGAAGTTGAACTTGATTGTGTCAA 57.492 33.333 16.25 0.00 44.36 3.18
1311 1329 6.321717 GTTGAAGTTGAACTTGATTGTGTCA 58.678 36.000 16.25 1.52 38.80 3.58
1312 1330 5.452302 CGTTGAAGTTGAACTTGATTGTGTC 59.548 40.000 16.25 0.00 38.80 3.67
1314 1332 5.227805 CACGTTGAAGTTGAACTTGATTGTG 59.772 40.000 16.25 13.86 38.80 3.33
1315 1333 5.331902 CACGTTGAAGTTGAACTTGATTGT 58.668 37.500 16.25 5.87 38.80 2.71
1316 1334 4.204978 GCACGTTGAAGTTGAACTTGATTG 59.795 41.667 16.25 5.24 38.80 2.67
1319 1337 2.744741 TGCACGTTGAAGTTGAACTTGA 59.255 40.909 16.25 3.80 38.80 3.02
1320 1338 3.100817 CTGCACGTTGAAGTTGAACTTG 58.899 45.455 16.25 7.23 38.80 3.16
1321 1339 2.097466 CCTGCACGTTGAAGTTGAACTT 59.903 45.455 10.82 10.82 41.95 2.66
1322 1340 1.670811 CCTGCACGTTGAAGTTGAACT 59.329 47.619 3.69 0.00 0.00 3.01
1323 1341 1.859998 GCCTGCACGTTGAAGTTGAAC 60.860 52.381 0.00 0.00 0.00 3.18
1324 1342 0.380378 GCCTGCACGTTGAAGTTGAA 59.620 50.000 0.00 0.00 0.00 2.69
1325 1343 1.771073 CGCCTGCACGTTGAAGTTGA 61.771 55.000 0.00 0.00 0.00 3.18
1326 1344 1.369209 CGCCTGCACGTTGAAGTTG 60.369 57.895 0.00 0.00 0.00 3.16
1327 1345 1.817941 ACGCCTGCACGTTGAAGTT 60.818 52.632 0.00 0.00 45.75 2.66
1328 1346 2.203015 ACGCCTGCACGTTGAAGT 60.203 55.556 0.00 0.00 45.75 3.01
1349 1367 6.069789 TCTGAAGGAAATGGATCTCAATGTCT 60.070 38.462 0.00 0.00 0.00 3.41
1364 1382 4.024048 GCGTTGAACTTGATCTGAAGGAAA 60.024 41.667 0.00 0.00 0.00 3.13
1538 1556 4.494484 TCGTGTCAGAAACATATGACCAG 58.506 43.478 10.38 0.00 44.19 4.00
1681 1699 0.179145 CGTCCTCGTATTTGTCCGCT 60.179 55.000 0.00 0.00 0.00 5.52
1825 1843 2.273776 GCCTCCTCCTTGCCTTCC 59.726 66.667 0.00 0.00 0.00 3.46
2065 2108 0.036306 AGTTGCCAAAGGACCGGTAG 59.964 55.000 7.34 0.00 0.00 3.18
2145 2204 6.989155 TTATTCAGAGACCGGGTGTAATAT 57.011 37.500 3.30 0.00 0.00 1.28
2164 2223 3.951037 TGGCCGTGTGCATCTTAATTATT 59.049 39.130 0.00 0.00 43.89 1.40
2182 2241 4.460382 TCTGAGACTGAATTTGATTTGGCC 59.540 41.667 0.00 0.00 0.00 5.36
2231 2294 5.988561 GTCATCCAGTCTCTTCATGAATACC 59.011 44.000 8.96 0.00 0.00 2.73
2269 2334 4.045079 AGCATGATATTAGGATTGGCCCTT 59.955 41.667 0.00 0.00 37.74 3.95
2284 2354 3.009363 CCCACATGGATGGTAGCATGATA 59.991 47.826 13.10 0.00 38.16 2.15
2293 2363 1.846439 CTTCTACCCCACATGGATGGT 59.154 52.381 0.00 1.72 38.16 3.55
2310 2380 6.418819 TGTGTACACGCTTAGAAAACTACTTC 59.581 38.462 20.61 0.00 0.00 3.01
2319 2400 6.203808 ACAGATATGTGTACACGCTTAGAA 57.796 37.500 20.61 1.91 0.00 2.10
2336 2417 8.520351 TGAAGAATCGAGTCTTGTTTACAGATA 58.480 33.333 30.68 0.00 37.98 1.98
2340 2421 6.200286 GTGTGAAGAATCGAGTCTTGTTTACA 59.800 38.462 30.68 23.55 37.98 2.41
2350 2431 6.025749 TCTACAATGTGTGAAGAATCGAGT 57.974 37.500 0.00 0.00 0.00 4.18
2360 2441 2.556622 TGCTCGTCTCTACAATGTGTGA 59.443 45.455 0.00 0.00 0.00 3.58
2379 2460 3.253677 AGATGTACCAGTACGCTCTATGC 59.746 47.826 9.76 0.00 38.85 3.14
2434 2519 3.191791 TCGCTTTGGCAAGGTATTTAACC 59.808 43.478 11.21 0.00 43.16 2.85
2494 2594 9.452287 GTTACATGGGATAAAGTACAGGTTTAA 57.548 33.333 0.00 0.00 0.00 1.52
2549 2649 4.583871 AGTTTCTGGCTTGTATCCTTCAG 58.416 43.478 0.00 0.00 0.00 3.02
2694 2798 5.471257 GTCGAGAAGTCATTCTTACCAAGT 58.529 41.667 0.00 0.00 45.98 3.16
2711 2818 0.376152 GCGTGGTATCTTCGTCGAGA 59.624 55.000 0.00 0.00 0.00 4.04
2779 2889 4.005650 AGTCACATGTGCCAGTTGATAAG 58.994 43.478 21.38 0.00 0.00 1.73
2878 2988 7.493971 AGACTATACACGGTACTACTGTTACTG 59.506 40.741 0.00 0.00 35.04 2.74
2879 2989 7.560368 AGACTATACACGGTACTACTGTTACT 58.440 38.462 0.00 0.00 35.04 2.24
2882 2992 8.043710 ACTAAGACTATACACGGTACTACTGTT 58.956 37.037 0.00 0.00 35.04 3.16
2888 2998 8.792830 TTGTTACTAAGACTATACACGGTACT 57.207 34.615 0.00 0.00 0.00 2.73
2926 3036 5.306678 AGATCTAATTGGCCCTAGACTTGAG 59.693 44.000 0.00 0.00 0.00 3.02
2946 3056 7.606858 TCAAATGTGACATTCAGAAGAGATC 57.393 36.000 11.70 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.