Multiple sequence alignment - TraesCS6B01G063100

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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 TraesCS6B01G063100 chr6B 100.000 2264 0 0 1 2264 41978785 41976522 0.000000e+00 4181
1 TraesCS6B01G063100 chr6B 93.168 161 11 0 1 161 496226677 496226837 1.050000e-58 237
2 TraesCS6B01G063100 chr6D 90.052 1548 102 18 650 2189 25762640 25761137 0.000000e+00 1958
3 TraesCS6B01G063100 chr6D 92.366 262 8 7 377 629 25762890 25762632 1.650000e-96 363
4 TraesCS6B01G063100 chr6D 94.382 89 4 1 162 249 25762977 25762889 3.920000e-28 135
5 TraesCS6B01G063100 chr6D 93.750 80 4 1 2185 2263 25761057 25760978 3.950000e-23 119
6 TraesCS6B01G063100 chr6A 91.392 790 62 6 1402 2189 23879429 23878644 0.000000e+00 1077
7 TraesCS6B01G063100 chr6A 91.404 570 33 5 848 1411 23880269 23879710 0.000000e+00 767
8 TraesCS6B01G063100 chr6A 92.803 264 12 5 162 424 23880746 23880489 2.120000e-100 375
9 TraesCS6B01G063100 chr6A 90.062 161 16 0 1 161 17760927 17760767 2.280000e-50 209
10 TraesCS6B01G063100 chr1A 75.874 887 163 40 859 1726 308786652 308787506 2.710000e-109 405
11 TraesCS6B01G063100 chr1D 75.758 891 162 43 859 1729 236925843 236924987 1.260000e-107 399
12 TraesCS6B01G063100 chr1B 77.171 714 119 36 859 1556 342331512 342330827 2.120000e-100 375
13 TraesCS6B01G063100 chr3B 96.732 153 5 0 1 153 588861273 588861121 2.890000e-64 255
14 TraesCS6B01G063100 chr3B 88.439 173 17 2 1 171 214445629 214445800 2.950000e-49 206
15 TraesCS6B01G063100 chr2B 94.375 160 7 1 1 160 28628968 28629125 6.250000e-61 244
16 TraesCS6B01G063100 chr2D 90.123 162 14 2 2 162 446235316 446235476 2.280000e-50 209
17 TraesCS6B01G063100 chr2A 90.062 161 16 0 1 161 40836810 40836970 2.280000e-50 209
18 TraesCS6B01G063100 chr5D 90.000 160 16 0 1 160 534010099 534010258 8.200000e-50 207
19 TraesCS6B01G063100 chr3D 90.000 160 16 0 1 160 498891687 498891528 8.200000e-50 207


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 TraesCS6B01G063100 chr6B 41976522 41978785 2263 True 4181.000000 4181 100.000000 1 2264 1 chr6B.!!$R1 2263
1 TraesCS6B01G063100 chr6D 25760978 25762977 1999 True 643.750000 1958 92.637500 162 2263 4 chr6D.!!$R1 2101
2 TraesCS6B01G063100 chr6A 23878644 23880746 2102 True 739.666667 1077 91.866333 162 2189 3 chr6A.!!$R2 2027
3 TraesCS6B01G063100 chr1A 308786652 308787506 854 False 405.000000 405 75.874000 859 1726 1 chr1A.!!$F1 867
4 TraesCS6B01G063100 chr1D 236924987 236925843 856 True 399.000000 399 75.758000 859 1729 1 chr1D.!!$R1 870
5 TraesCS6B01G063100 chr1B 342330827 342331512 685 True 375.000000 375 77.171000 859 1556 1 chr1B.!!$R1 697

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
38 39 0.103937 CCGAGCATCCCTTGTCTCTC 59.896 60.0 0.0 0.0 0.0 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1675 2110 1.610624 GCACCCATTTTCTCTCCACGA 60.611 52.381 0.0 0.0 0.0 4.35 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
20 21 3.528597 GATGTATCCTCTATTCGGGCC 57.471 52.381 0.00 0.00 0.00 5.80
21 22 1.254026 TGTATCCTCTATTCGGGCCG 58.746 55.000 22.51 22.51 0.00 6.13
22 23 1.202964 TGTATCCTCTATTCGGGCCGA 60.203 52.381 27.46 27.46 0.00 5.54
23 24 1.473278 GTATCCTCTATTCGGGCCGAG 59.527 57.143 29.30 17.93 37.14 4.63
24 25 1.536943 ATCCTCTATTCGGGCCGAGC 61.537 60.000 29.30 0.00 37.14 5.03
25 26 2.498941 CCTCTATTCGGGCCGAGCA 61.499 63.158 29.30 16.41 37.14 4.26
26 27 1.668294 CTCTATTCGGGCCGAGCAT 59.332 57.895 29.30 22.35 37.14 3.79
27 28 0.389166 CTCTATTCGGGCCGAGCATC 60.389 60.000 29.30 0.00 37.14 3.91
28 29 1.374758 CTATTCGGGCCGAGCATCC 60.375 63.158 29.30 0.00 37.14 3.51
29 30 2.788191 CTATTCGGGCCGAGCATCCC 62.788 65.000 29.30 0.00 37.14 3.85
33 34 4.115199 GGGCCGAGCATCCCTTGT 62.115 66.667 0.00 0.00 39.46 3.16
34 35 2.514824 GGCCGAGCATCCCTTGTC 60.515 66.667 0.00 0.00 0.00 3.18
35 36 2.586792 GCCGAGCATCCCTTGTCT 59.413 61.111 0.00 0.00 0.00 3.41
36 37 1.522580 GCCGAGCATCCCTTGTCTC 60.523 63.158 0.00 0.00 0.00 3.36
37 38 1.965754 GCCGAGCATCCCTTGTCTCT 61.966 60.000 0.00 0.00 0.00 3.10
38 39 0.103937 CCGAGCATCCCTTGTCTCTC 59.896 60.000 0.00 0.00 0.00 3.20
39 40 1.110442 CGAGCATCCCTTGTCTCTCT 58.890 55.000 0.00 0.00 0.00 3.10
40 41 1.202394 CGAGCATCCCTTGTCTCTCTG 60.202 57.143 0.00 0.00 0.00 3.35
41 42 0.540923 AGCATCCCTTGTCTCTCTGC 59.459 55.000 0.00 0.00 0.00 4.26
42 43 0.540923 GCATCCCTTGTCTCTCTGCT 59.459 55.000 0.00 0.00 0.00 4.24
43 44 1.473080 GCATCCCTTGTCTCTCTGCTC 60.473 57.143 0.00 0.00 0.00 4.26
44 45 1.138661 CATCCCTTGTCTCTCTGCTCC 59.861 57.143 0.00 0.00 0.00 4.70
45 46 0.967887 TCCCTTGTCTCTCTGCTCCG 60.968 60.000 0.00 0.00 0.00 4.63
46 47 1.515020 CCTTGTCTCTCTGCTCCGG 59.485 63.158 0.00 0.00 0.00 5.14
47 48 1.515020 CTTGTCTCTCTGCTCCGGG 59.485 63.158 0.00 0.00 0.00 5.73
48 49 2.570582 CTTGTCTCTCTGCTCCGGGC 62.571 65.000 0.00 4.52 42.22 6.13
63 64 2.672996 GGCACCATGTTCACGCCT 60.673 61.111 0.00 0.00 39.73 5.52
64 65 2.562912 GCACCATGTTCACGCCTG 59.437 61.111 0.00 0.00 0.00 4.85
65 66 2.562912 CACCATGTTCACGCCTGC 59.437 61.111 0.00 0.00 0.00 4.85
66 67 3.049674 ACCATGTTCACGCCTGCG 61.050 61.111 10.40 10.40 46.03 5.18
78 79 4.059459 CCTGCGTGCGTTCGTGTC 62.059 66.667 3.76 0.00 0.00 3.67
79 80 3.326981 CTGCGTGCGTTCGTGTCA 61.327 61.111 3.76 0.00 0.00 3.58
80 81 2.657757 CTGCGTGCGTTCGTGTCAT 61.658 57.895 3.76 0.00 0.00 3.06
81 82 2.202046 GCGTGCGTTCGTGTCATG 60.202 61.111 0.00 0.00 0.00 3.07
82 83 2.938823 GCGTGCGTTCGTGTCATGT 61.939 57.895 0.00 0.00 0.00 3.21
83 84 1.154854 CGTGCGTTCGTGTCATGTG 60.155 57.895 0.00 0.00 0.00 3.21
84 85 1.817217 CGTGCGTTCGTGTCATGTGT 61.817 55.000 0.00 0.00 0.00 3.72
85 86 0.303493 GTGCGTTCGTGTCATGTGTT 59.697 50.000 0.00 0.00 0.00 3.32
86 87 0.303191 TGCGTTCGTGTCATGTGTTG 59.697 50.000 0.00 0.00 0.00 3.33
87 88 0.303493 GCGTTCGTGTCATGTGTTGT 59.697 50.000 0.00 0.00 0.00 3.32
88 89 1.523515 GCGTTCGTGTCATGTGTTGTA 59.476 47.619 0.00 0.00 0.00 2.41
89 90 2.658224 GCGTTCGTGTCATGTGTTGTAC 60.658 50.000 0.00 0.00 0.00 2.90
90 91 2.097104 CGTTCGTGTCATGTGTTGTACC 60.097 50.000 0.00 0.00 0.00 3.34
91 92 2.867368 GTTCGTGTCATGTGTTGTACCA 59.133 45.455 0.00 0.00 0.00 3.25
92 93 3.394674 TCGTGTCATGTGTTGTACCAT 57.605 42.857 0.00 0.00 0.00 3.55
93 94 3.734463 TCGTGTCATGTGTTGTACCATT 58.266 40.909 0.00 0.00 0.00 3.16
94 95 3.743911 TCGTGTCATGTGTTGTACCATTC 59.256 43.478 0.00 0.00 0.00 2.67
95 96 3.745975 CGTGTCATGTGTTGTACCATTCT 59.254 43.478 0.00 0.00 0.00 2.40
96 97 4.213270 CGTGTCATGTGTTGTACCATTCTT 59.787 41.667 0.00 0.00 0.00 2.52
97 98 5.277779 CGTGTCATGTGTTGTACCATTCTTT 60.278 40.000 0.00 0.00 0.00 2.52
98 99 6.073494 CGTGTCATGTGTTGTACCATTCTTTA 60.073 38.462 0.00 0.00 0.00 1.85
99 100 7.360861 CGTGTCATGTGTTGTACCATTCTTTAT 60.361 37.037 0.00 0.00 0.00 1.40
100 101 8.941977 GTGTCATGTGTTGTACCATTCTTTATA 58.058 33.333 0.00 0.00 0.00 0.98
101 102 8.941977 TGTCATGTGTTGTACCATTCTTTATAC 58.058 33.333 0.00 0.00 0.00 1.47
102 103 9.162764 GTCATGTGTTGTACCATTCTTTATACT 57.837 33.333 0.00 0.00 0.00 2.12
103 104 9.378551 TCATGTGTTGTACCATTCTTTATACTC 57.621 33.333 0.00 0.00 0.00 2.59
104 105 9.161629 CATGTGTTGTACCATTCTTTATACTCA 57.838 33.333 0.00 0.00 0.00 3.41
105 106 8.542497 TGTGTTGTACCATTCTTTATACTCAC 57.458 34.615 0.00 0.00 0.00 3.51
106 107 8.372459 TGTGTTGTACCATTCTTTATACTCACT 58.628 33.333 0.00 0.00 31.31 3.41
107 108 8.870879 GTGTTGTACCATTCTTTATACTCACTC 58.129 37.037 0.00 0.00 0.00 3.51
108 109 8.812972 TGTTGTACCATTCTTTATACTCACTCT 58.187 33.333 0.00 0.00 0.00 3.24
114 115 9.440761 ACCATTCTTTATACTCACTCTATTCCT 57.559 33.333 0.00 0.00 0.00 3.36
115 116 9.921637 CCATTCTTTATACTCACTCTATTCCTC 57.078 37.037 0.00 0.00 0.00 3.71
116 117 9.921637 CATTCTTTATACTCACTCTATTCCTCC 57.078 37.037 0.00 0.00 0.00 4.30
117 118 9.890915 ATTCTTTATACTCACTCTATTCCTCCT 57.109 33.333 0.00 0.00 0.00 3.69
124 125 7.537596 ACTCACTCTATTCCTCCTATCAATG 57.462 40.000 0.00 0.00 0.00 2.82
125 126 6.014669 ACTCACTCTATTCCTCCTATCAATGC 60.015 42.308 0.00 0.00 0.00 3.56
126 127 5.840693 TCACTCTATTCCTCCTATCAATGCA 59.159 40.000 0.00 0.00 0.00 3.96
127 128 6.327365 TCACTCTATTCCTCCTATCAATGCAA 59.673 38.462 0.00 0.00 0.00 4.08
128 129 7.016957 TCACTCTATTCCTCCTATCAATGCAAT 59.983 37.037 0.00 0.00 0.00 3.56
129 130 7.119407 CACTCTATTCCTCCTATCAATGCAATG 59.881 40.741 0.00 0.00 0.00 2.82
130 131 7.016957 ACTCTATTCCTCCTATCAATGCAATGA 59.983 37.037 6.97 6.97 0.00 2.57
131 132 7.925622 TCTATTCCTCCTATCAATGCAATGAT 58.074 34.615 20.55 20.55 42.52 2.45
132 133 9.050154 TCTATTCCTCCTATCAATGCAATGATA 57.950 33.333 20.58 20.58 40.44 2.15
133 134 7.934855 ATTCCTCCTATCAATGCAATGATAC 57.065 36.000 18.52 0.00 40.44 2.24
134 135 5.482006 TCCTCCTATCAATGCAATGATACG 58.518 41.667 18.52 15.02 40.44 3.06
135 136 4.093998 CCTCCTATCAATGCAATGATACGC 59.906 45.833 18.52 0.00 40.44 4.42
136 137 4.640364 TCCTATCAATGCAATGATACGCA 58.360 39.130 18.52 2.96 40.44 5.24
137 138 5.062528 TCCTATCAATGCAATGATACGCAA 58.937 37.500 18.52 2.61 42.37 4.85
138 139 5.179929 TCCTATCAATGCAATGATACGCAAG 59.820 40.000 18.52 11.36 42.37 4.01
139 140 3.069074 TCAATGCAATGATACGCAAGC 57.931 42.857 0.00 0.00 42.37 4.01
140 141 2.684374 TCAATGCAATGATACGCAAGCT 59.316 40.909 0.00 0.00 42.37 3.74
141 142 3.129113 TCAATGCAATGATACGCAAGCTT 59.871 39.130 0.00 0.00 42.37 3.74
142 143 3.788333 ATGCAATGATACGCAAGCTTT 57.212 38.095 0.00 0.00 42.37 3.51
143 144 2.866198 TGCAATGATACGCAAGCTTTG 58.134 42.857 0.00 0.00 45.62 2.77
144 145 2.228582 TGCAATGATACGCAAGCTTTGT 59.771 40.909 0.00 0.58 45.62 2.83
145 146 2.595536 GCAATGATACGCAAGCTTTGTG 59.404 45.455 10.62 9.02 46.24 3.33
152 153 1.250476 CGCAAGCTTTGTGTATTCGC 58.750 50.000 0.00 0.00 36.45 4.70
153 154 1.399599 CGCAAGCTTTGTGTATTCGCA 60.400 47.619 0.00 0.00 36.45 5.10
154 155 2.660490 GCAAGCTTTGTGTATTCGCAA 58.340 42.857 0.00 0.00 41.45 4.85
197 198 7.190920 AGTACAAACTGCATGAAACTAACTC 57.809 36.000 0.00 0.00 33.57 3.01
225 226 6.894339 AACGAACTTTGTATGGAAGGAAAT 57.106 33.333 0.00 0.00 0.00 2.17
231 232 7.703058 ACTTTGTATGGAAGGAAATGTAAGG 57.297 36.000 0.00 0.00 0.00 2.69
247 248 1.261480 AAGGCACCACACAAACAACA 58.739 45.000 0.00 0.00 0.00 3.33
248 249 1.261480 AGGCACCACACAAACAACAA 58.739 45.000 0.00 0.00 0.00 2.83
277 278 5.652994 ACAACTTTACCAAGCAAAACTGA 57.347 34.783 0.00 0.00 32.57 3.41
333 334 2.965831 ACAGTGCTTACCTCTTGACTGA 59.034 45.455 0.00 0.00 35.76 3.41
354 355 7.814642 ACTGAGCTCATGTTCAATTTTTAGAG 58.185 34.615 18.63 1.33 33.15 2.43
358 359 5.309323 TCATGTTCAATTTTTAGAGGCCG 57.691 39.130 0.00 0.00 0.00 6.13
367 368 7.327214 TCAATTTTTAGAGGCCGCATTAATTT 58.673 30.769 9.88 0.00 0.00 1.82
372 373 1.926510 GAGGCCGCATTAATTTTGTGC 59.073 47.619 0.00 0.00 35.59 4.57
377 378 3.431572 GCCGCATTAATTTTGTGCAGAAA 59.568 39.130 4.66 4.66 38.75 2.52
378 379 4.434593 GCCGCATTAATTTTGTGCAGAAAG 60.435 41.667 9.17 0.00 38.75 2.62
380 381 5.177327 CCGCATTAATTTTGTGCAGAAAGTT 59.823 36.000 18.71 18.71 38.75 2.66
388 389 7.608308 ATTTTGTGCAGAAAGTTAAAAGCAA 57.392 28.000 9.17 0.00 33.37 3.91
389 390 7.608308 TTTTGTGCAGAAAGTTAAAAGCAAT 57.392 28.000 9.17 0.00 33.37 3.56
448 557 1.202687 TCAGCAGAATCATAAGCCCCG 60.203 52.381 0.00 0.00 0.00 5.73
507 616 4.103153 GGAGAGTTGGGTCATGGATATGAA 59.897 45.833 0.00 0.00 44.49 2.57
555 673 9.134734 CAAAGGCGTTATTAAACATACAACAAT 57.865 29.630 0.00 0.00 35.16 2.71
566 684 5.571784 ACATACAACAATCCTGAATGCAG 57.428 39.130 0.00 0.00 41.93 4.41
569 687 3.759581 ACAACAATCCTGAATGCAGAGT 58.240 40.909 0.74 0.00 45.17 3.24
577 695 4.973168 TCCTGAATGCAGAGTACAACTTT 58.027 39.130 0.74 0.00 45.17 2.66
604 722 6.071952 CCAACATGTAGTTATGGAAACAGCTT 60.072 38.462 7.62 0.00 41.11 3.74
618 736 5.938125 GGAAACAGCTTACATCTTAGGTTCA 59.062 40.000 0.00 0.00 0.00 3.18
619 737 6.599638 GGAAACAGCTTACATCTTAGGTTCAT 59.400 38.462 0.00 0.00 0.00 2.57
620 738 7.769044 GGAAACAGCTTACATCTTAGGTTCATA 59.231 37.037 0.00 0.00 0.00 2.15
621 739 8.494016 AAACAGCTTACATCTTAGGTTCATAC 57.506 34.615 0.00 0.00 0.00 2.39
622 740 6.273825 ACAGCTTACATCTTAGGTTCATACG 58.726 40.000 0.00 0.00 0.00 3.06
623 741 6.127423 ACAGCTTACATCTTAGGTTCATACGT 60.127 38.462 0.00 0.00 0.00 3.57
624 742 6.418226 CAGCTTACATCTTAGGTTCATACGTC 59.582 42.308 0.00 0.00 0.00 4.34
625 743 6.321690 AGCTTACATCTTAGGTTCATACGTCT 59.678 38.462 0.00 0.00 0.00 4.18
626 744 7.501559 AGCTTACATCTTAGGTTCATACGTCTA 59.498 37.037 0.00 0.00 0.00 2.59
627 745 8.133627 GCTTACATCTTAGGTTCATACGTCTAA 58.866 37.037 0.00 0.00 0.00 2.10
628 746 9.448294 CTTACATCTTAGGTTCATACGTCTAAC 57.552 37.037 0.00 0.00 0.00 2.34
629 747 7.642082 ACATCTTAGGTTCATACGTCTAACT 57.358 36.000 0.00 0.00 0.00 2.24
630 748 8.743085 ACATCTTAGGTTCATACGTCTAACTA 57.257 34.615 0.00 0.00 0.00 2.24
631 749 8.619546 ACATCTTAGGTTCATACGTCTAACTAC 58.380 37.037 0.00 0.00 0.00 2.73
632 750 8.618677 CATCTTAGGTTCATACGTCTAACTACA 58.381 37.037 0.00 0.00 0.00 2.74
633 751 8.743085 TCTTAGGTTCATACGTCTAACTACAT 57.257 34.615 0.00 0.00 0.00 2.29
634 752 9.836864 TCTTAGGTTCATACGTCTAACTACATA 57.163 33.333 0.00 0.00 0.00 2.29
635 753 9.875675 CTTAGGTTCATACGTCTAACTACATAC 57.124 37.037 0.00 0.00 0.00 2.39
636 754 6.952743 AGGTTCATACGTCTAACTACATACG 58.047 40.000 0.00 0.00 40.99 3.06
645 763 8.425577 ACGTCTAACTACATACGTATTACACT 57.574 34.615 5.03 0.00 45.85 3.55
646 764 8.883731 ACGTCTAACTACATACGTATTACACTT 58.116 33.333 5.03 0.00 45.85 3.16
647 765 9.151752 CGTCTAACTACATACGTATTACACTTG 57.848 37.037 5.03 0.00 0.00 3.16
648 766 9.443283 GTCTAACTACATACGTATTACACTTGG 57.557 37.037 5.03 0.00 0.00 3.61
653 771 6.140303 ACATACGTATTACACTTGGATCGT 57.860 37.500 5.03 0.00 0.00 3.73
717 835 3.632145 ACATTGGACTGAAGGTTGTTGTC 59.368 43.478 0.00 0.00 0.00 3.18
730 848 4.469586 AGGTTGTTGTCCTTCATTGGTTTT 59.530 37.500 0.00 0.00 30.18 2.43
748 866 2.340210 TTGCTGAACCTGCTGTAACA 57.660 45.000 0.00 0.00 0.00 2.41
752 870 2.357637 GCTGAACCTGCTGTAACAAACA 59.642 45.455 0.00 0.00 36.42 2.83
754 872 4.787598 CTGAACCTGCTGTAACAAACATC 58.212 43.478 0.00 0.00 37.50 3.06
756 874 2.846193 ACCTGCTGTAACAAACATCGT 58.154 42.857 0.00 0.00 37.50 3.73
762 880 3.495377 GCTGTAACAAACATCGTGTACCA 59.505 43.478 0.00 0.00 37.50 3.25
778 896 5.803967 CGTGTACCATTTCCAGACTAGTAAC 59.196 44.000 0.00 0.00 0.00 2.50
784 902 2.154567 TCCAGACTAGTAACGGCCAT 57.845 50.000 2.24 0.00 0.00 4.40
818 936 0.601046 CTGCATGTGTCCACGTGTCT 60.601 55.000 15.65 0.00 46.99 3.41
820 938 1.617755 GCATGTGTCCACGTGTCTCG 61.618 60.000 15.65 0.00 46.99 4.04
855 973 2.481441 TGGGATGCATACAGTCTCCTT 58.519 47.619 11.97 0.00 0.00 3.36
872 990 0.179000 CTTCTTCCCTCCCGTCCATG 59.821 60.000 0.00 0.00 0.00 3.66
956 1074 0.919289 ACCGATCCAACCCCATTCCT 60.919 55.000 0.00 0.00 0.00 3.36
991 1109 4.471726 CGGTCTTCGTCGGACGGG 62.472 72.222 28.07 20.59 42.81 5.28
1012 1147 0.744414 AACATCCATGAACGGAGGCG 60.744 55.000 0.00 0.00 40.58 5.52
1013 1148 1.889105 CATCCATGAACGGAGGCGG 60.889 63.158 0.00 0.00 38.83 6.13
1228 1363 2.102252 CTCCCCGAGTACTACTACGACT 59.898 54.545 0.00 0.00 0.00 4.18
1233 1368 3.515630 CGAGTACTACTACGACTGGACA 58.484 50.000 0.00 0.00 0.00 4.02
1265 1400 0.317160 TCGTTCGCCAAGATGTGACT 59.683 50.000 0.00 0.00 0.00 3.41
1270 1405 1.067060 TCGCCAAGATGTGACTATCGG 59.933 52.381 0.00 0.00 32.33 4.18
1271 1406 1.067060 CGCCAAGATGTGACTATCGGA 59.933 52.381 0.00 0.00 32.33 4.55
1285 1420 3.946950 TCGGAGTCGATCATCTTGC 57.053 52.632 0.00 0.00 40.88 4.01
1325 1466 9.465985 TTTGTCCGTTTAATTTTTGATTAGGTC 57.534 29.630 0.00 0.00 0.00 3.85
1326 1467 8.398878 TGTCCGTTTAATTTTTGATTAGGTCT 57.601 30.769 0.00 0.00 0.00 3.85
1327 1468 8.852135 TGTCCGTTTAATTTTTGATTAGGTCTT 58.148 29.630 0.00 0.00 0.00 3.01
1358 1502 7.953158 TTTTGTGTTTTCTTGTGATTTGTCA 57.047 28.000 0.00 0.00 0.00 3.58
1393 1537 2.535012 TGTGTTATTCGTGTGAGGCA 57.465 45.000 0.00 0.00 0.00 4.75
1405 1549 3.725895 CGTGTGAGGCATTCAAGAAATCG 60.726 47.826 0.00 0.00 37.61 3.34
1435 1867 4.866921 CATTGTTCATGCATGATTCGGAT 58.133 39.130 29.13 18.06 36.56 4.18
1449 1881 6.358974 TGATTCGGATGGCAGATTAATCTA 57.641 37.500 17.53 3.28 34.85 1.98
1529 1964 5.151297 GGATCATGTCCCACATTTTTGTT 57.849 39.130 0.00 0.00 41.50 2.83
1566 2001 1.757118 GCTGTGGAGCAGGAGTACATA 59.243 52.381 0.00 0.00 45.46 2.29
1583 2018 6.234920 AGTACATATTATTTGGGCGTATGCA 58.765 36.000 9.59 0.00 45.35 3.96
1660 2095 7.229907 GGTTTTAGGTCATGTTTCTACAAGGAA 59.770 37.037 0.00 0.00 37.91 3.36
1675 2110 8.391075 TCTACAAGGAAACTGAATTTCGAATT 57.609 30.769 0.00 0.00 46.72 2.17
1693 2128 3.721087 ATTCGTGGAGAGAAAATGGGT 57.279 42.857 0.00 0.00 0.00 4.51
1739 2174 1.539827 GTTCATTTCCACCCTGGTTCG 59.460 52.381 0.00 0.00 39.03 3.95
1742 2177 2.075355 ATTTCCACCCTGGTTCGGCA 62.075 55.000 0.00 0.00 39.03 5.69
1760 2195 4.398044 TCGGCAACATCTTTTCCTTATTCC 59.602 41.667 0.00 0.00 0.00 3.01
1795 2231 6.151312 ACAGTACGAGAATAGTTCACAGACAT 59.849 38.462 0.00 0.00 0.00 3.06
1831 2267 4.067972 TGTTTCGAGTAAGCCAACTTCT 57.932 40.909 0.00 0.00 37.33 2.85
1839 2275 6.546403 TCGAGTAAGCCAACTTCTAGATGTAT 59.454 38.462 11.37 0.79 37.33 2.29
1875 2311 5.449177 GCATATGTTGTCCTTAAAGGTCAGC 60.449 44.000 4.29 0.00 35.00 4.26
1944 2381 5.885912 TGGGAACATAAGAGGCTTTCAATAC 59.114 40.000 0.00 0.00 33.40 1.89
2002 2439 7.164122 TCCTCATTTGCCTGTATATCTTCATC 58.836 38.462 0.00 0.00 0.00 2.92
2164 2602 3.091633 ACACTTCCCCTCATCCAATTG 57.908 47.619 0.00 0.00 0.00 2.32
2197 2720 4.760047 CACCGTTCCAGAGCCGGG 62.760 72.222 2.18 0.00 45.85 5.73
2208 2731 0.611896 AGAGCCGGGTTTCCAAATGG 60.612 55.000 8.00 0.00 0.00 3.16
2216 2739 3.181487 CGGGTTTCCAAATGGAGCATAAG 60.181 47.826 1.86 0.00 46.36 1.73
2232 2755 3.545703 CATAAGAAAGCTTCCGGACCAT 58.454 45.455 1.83 0.00 35.56 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.159226 CGGCCCGAATAGAGGATACATC 60.159 54.545 0.00 0.00 41.41 3.06
1 2 1.825474 CGGCCCGAATAGAGGATACAT 59.175 52.381 0.00 0.00 41.41 2.29
2 3 1.202964 TCGGCCCGAATAGAGGATACA 60.203 52.381 1.70 0.00 32.64 2.29
3 4 1.473278 CTCGGCCCGAATAGAGGATAC 59.527 57.143 7.50 0.00 34.74 2.24
4 5 1.835494 CTCGGCCCGAATAGAGGATA 58.165 55.000 7.50 0.00 34.74 2.59
6 7 2.201022 GCTCGGCCCGAATAGAGGA 61.201 63.158 7.50 0.00 34.74 3.71
7 8 1.821061 ATGCTCGGCCCGAATAGAGG 61.821 60.000 7.50 0.00 34.74 3.69
8 9 0.389166 GATGCTCGGCCCGAATAGAG 60.389 60.000 7.50 0.00 34.74 2.43
9 10 1.666011 GATGCTCGGCCCGAATAGA 59.334 57.895 7.50 0.00 34.74 1.98
10 11 1.374758 GGATGCTCGGCCCGAATAG 60.375 63.158 7.50 0.00 34.74 1.73
11 12 2.741092 GGATGCTCGGCCCGAATA 59.259 61.111 7.50 0.00 34.74 1.75
12 13 4.256180 GGGATGCTCGGCCCGAAT 62.256 66.667 7.50 0.00 34.74 3.34
16 17 4.115199 ACAAGGGATGCTCGGCCC 62.115 66.667 0.00 0.00 45.04 5.80
17 18 2.514824 GACAAGGGATGCTCGGCC 60.515 66.667 0.00 0.00 0.00 6.13
18 19 1.522580 GAGACAAGGGATGCTCGGC 60.523 63.158 0.00 0.00 0.00 5.54
19 20 0.103937 GAGAGACAAGGGATGCTCGG 59.896 60.000 0.00 0.00 37.31 4.63
20 21 1.110442 AGAGAGACAAGGGATGCTCG 58.890 55.000 0.00 0.00 37.31 5.03
21 22 1.473080 GCAGAGAGACAAGGGATGCTC 60.473 57.143 0.00 0.00 34.42 4.26
22 23 0.540923 GCAGAGAGACAAGGGATGCT 59.459 55.000 0.00 0.00 0.00 3.79
23 24 0.540923 AGCAGAGAGACAAGGGATGC 59.459 55.000 0.00 0.00 0.00 3.91
24 25 1.138661 GGAGCAGAGAGACAAGGGATG 59.861 57.143 0.00 0.00 0.00 3.51
25 26 1.494960 GGAGCAGAGAGACAAGGGAT 58.505 55.000 0.00 0.00 0.00 3.85
26 27 0.967887 CGGAGCAGAGAGACAAGGGA 60.968 60.000 0.00 0.00 0.00 4.20
27 28 1.515020 CGGAGCAGAGAGACAAGGG 59.485 63.158 0.00 0.00 0.00 3.95
28 29 1.515020 CCGGAGCAGAGAGACAAGG 59.485 63.158 0.00 0.00 0.00 3.61
29 30 1.515020 CCCGGAGCAGAGAGACAAG 59.485 63.158 0.73 0.00 0.00 3.16
30 31 2.650116 GCCCGGAGCAGAGAGACAA 61.650 63.158 0.73 0.00 42.97 3.18
31 32 3.071206 GCCCGGAGCAGAGAGACA 61.071 66.667 0.73 0.00 42.97 3.41
40 41 3.134127 GAACATGGTGCCCGGAGC 61.134 66.667 0.73 5.29 44.14 4.70
41 42 2.040544 GTGAACATGGTGCCCGGAG 61.041 63.158 0.73 0.00 0.00 4.63
42 43 2.033448 GTGAACATGGTGCCCGGA 59.967 61.111 0.73 0.00 0.00 5.14
43 44 3.430862 CGTGAACATGGTGCCCGG 61.431 66.667 0.00 0.00 0.00 5.73
44 45 4.101790 GCGTGAACATGGTGCCCG 62.102 66.667 0.00 0.00 0.00 6.13
45 46 3.747976 GGCGTGAACATGGTGCCC 61.748 66.667 0.00 0.00 39.83 5.36
46 47 2.672996 AGGCGTGAACATGGTGCC 60.673 61.111 2.33 2.33 46.07 5.01
47 48 2.562912 CAGGCGTGAACATGGTGC 59.437 61.111 0.00 0.00 0.00 5.01
48 49 2.562912 GCAGGCGTGAACATGGTG 59.437 61.111 11.29 0.00 0.00 4.17
49 50 3.049674 CGCAGGCGTGAACATGGT 61.050 61.111 11.29 0.00 34.35 3.55
61 62 4.059459 GACACGAACGCACGCAGG 62.059 66.667 0.00 0.00 36.70 4.85
62 63 2.657757 ATGACACGAACGCACGCAG 61.658 57.895 0.00 0.00 36.70 5.18
63 64 2.660224 ATGACACGAACGCACGCA 60.660 55.556 0.00 0.00 36.70 5.24
64 65 2.202046 CATGACACGAACGCACGC 60.202 61.111 0.00 0.00 36.70 5.34
65 66 1.154854 CACATGACACGAACGCACG 60.155 57.895 0.00 0.48 39.31 5.34
66 67 0.303493 AACACATGACACGAACGCAC 59.697 50.000 0.00 0.00 0.00 5.34
67 68 0.303191 CAACACATGACACGAACGCA 59.697 50.000 0.00 0.00 0.00 5.24
68 69 0.303493 ACAACACATGACACGAACGC 59.697 50.000 0.00 0.00 0.00 4.84
69 70 2.097104 GGTACAACACATGACACGAACG 60.097 50.000 0.00 0.00 0.00 3.95
70 71 2.867368 TGGTACAACACATGACACGAAC 59.133 45.455 0.00 0.00 31.92 3.95
71 72 3.180891 TGGTACAACACATGACACGAA 57.819 42.857 0.00 0.00 31.92 3.85
72 73 2.892784 TGGTACAACACATGACACGA 57.107 45.000 0.00 0.00 31.92 4.35
88 89 9.440761 AGGAATAGAGTGAGTATAAAGAATGGT 57.559 33.333 0.00 0.00 0.00 3.55
89 90 9.921637 GAGGAATAGAGTGAGTATAAAGAATGG 57.078 37.037 0.00 0.00 0.00 3.16
90 91 9.921637 GGAGGAATAGAGTGAGTATAAAGAATG 57.078 37.037 0.00 0.00 0.00 2.67
91 92 9.890915 AGGAGGAATAGAGTGAGTATAAAGAAT 57.109 33.333 0.00 0.00 0.00 2.40
98 99 9.253832 CATTGATAGGAGGAATAGAGTGAGTAT 57.746 37.037 0.00 0.00 0.00 2.12
99 100 7.177568 GCATTGATAGGAGGAATAGAGTGAGTA 59.822 40.741 0.00 0.00 0.00 2.59
100 101 6.014669 GCATTGATAGGAGGAATAGAGTGAGT 60.015 42.308 0.00 0.00 0.00 3.41
101 102 6.014755 TGCATTGATAGGAGGAATAGAGTGAG 60.015 42.308 0.00 0.00 0.00 3.51
102 103 5.840693 TGCATTGATAGGAGGAATAGAGTGA 59.159 40.000 0.00 0.00 0.00 3.41
103 104 6.106648 TGCATTGATAGGAGGAATAGAGTG 57.893 41.667 0.00 0.00 0.00 3.51
104 105 6.753913 TTGCATTGATAGGAGGAATAGAGT 57.246 37.500 0.00 0.00 0.00 3.24
105 106 7.392418 TCATTGCATTGATAGGAGGAATAGAG 58.608 38.462 7.19 0.00 0.00 2.43
106 107 7.320384 TCATTGCATTGATAGGAGGAATAGA 57.680 36.000 7.19 0.00 0.00 1.98
107 108 9.107177 GTATCATTGCATTGATAGGAGGAATAG 57.893 37.037 24.60 0.00 38.83 1.73
108 109 7.765819 CGTATCATTGCATTGATAGGAGGAATA 59.234 37.037 29.80 11.17 42.75 1.75
109 110 6.596888 CGTATCATTGCATTGATAGGAGGAAT 59.403 38.462 29.80 11.18 42.75 3.01
110 111 5.934043 CGTATCATTGCATTGATAGGAGGAA 59.066 40.000 29.80 12.27 42.75 3.36
111 112 5.482006 CGTATCATTGCATTGATAGGAGGA 58.518 41.667 29.80 12.81 42.75 3.71
112 113 4.093998 GCGTATCATTGCATTGATAGGAGG 59.906 45.833 33.85 21.70 42.75 4.30
113 114 4.692155 TGCGTATCATTGCATTGATAGGAG 59.308 41.667 33.85 25.05 42.75 3.69
114 115 4.640364 TGCGTATCATTGCATTGATAGGA 58.360 39.130 33.85 23.57 42.75 2.94
115 116 5.361135 TTGCGTATCATTGCATTGATAGG 57.639 39.130 29.51 29.51 42.88 2.57
116 117 4.849926 GCTTGCGTATCATTGCATTGATAG 59.150 41.667 24.60 19.64 41.42 2.08
117 118 4.516321 AGCTTGCGTATCATTGCATTGATA 59.484 37.500 21.66 21.66 41.42 2.15
118 119 3.317149 AGCTTGCGTATCATTGCATTGAT 59.683 39.130 23.42 23.42 41.42 2.57
119 120 2.684374 AGCTTGCGTATCATTGCATTGA 59.316 40.909 13.30 13.30 41.42 2.57
120 121 3.074504 AGCTTGCGTATCATTGCATTG 57.925 42.857 2.08 2.08 41.42 2.82
121 122 3.788333 AAGCTTGCGTATCATTGCATT 57.212 38.095 0.00 0.00 41.42 3.56
122 123 3.119388 ACAAAGCTTGCGTATCATTGCAT 60.119 39.130 0.00 0.00 41.42 3.96
123 124 2.228582 ACAAAGCTTGCGTATCATTGCA 59.771 40.909 0.00 0.00 39.81 4.08
124 125 2.595536 CACAAAGCTTGCGTATCATTGC 59.404 45.455 0.00 0.00 0.00 3.56
125 126 3.825308 ACACAAAGCTTGCGTATCATTG 58.175 40.909 0.00 0.00 0.00 2.82
126 127 5.818136 ATACACAAAGCTTGCGTATCATT 57.182 34.783 0.00 0.00 34.73 2.57
127 128 5.502382 CGAATACACAAAGCTTGCGTATCAT 60.502 40.000 0.00 0.00 37.78 2.45
128 129 4.201676 CGAATACACAAAGCTTGCGTATCA 60.202 41.667 0.00 0.00 37.78 2.15
129 130 4.263800 CGAATACACAAAGCTTGCGTATC 58.736 43.478 0.00 2.23 37.78 2.24
130 131 3.485216 GCGAATACACAAAGCTTGCGTAT 60.485 43.478 0.00 4.82 39.76 3.06
131 132 2.159761 GCGAATACACAAAGCTTGCGTA 60.160 45.455 0.00 2.37 33.27 4.42
132 133 1.399727 GCGAATACACAAAGCTTGCGT 60.400 47.619 0.00 0.00 0.00 5.24
133 134 1.250476 GCGAATACACAAAGCTTGCG 58.750 50.000 0.00 0.00 0.00 4.85
134 135 2.330231 TGCGAATACACAAAGCTTGC 57.670 45.000 0.00 0.00 0.00 4.01
135 136 5.633996 TTTTTGCGAATACACAAAGCTTG 57.366 34.783 0.00 0.00 37.11 4.01
157 158 9.248291 CAGTTTGTACTTGATATTGTGCTTTTT 57.752 29.630 0.00 0.00 30.26 1.94
158 159 7.382218 GCAGTTTGTACTTGATATTGTGCTTTT 59.618 33.333 0.00 0.00 30.26 2.27
159 160 6.863126 GCAGTTTGTACTTGATATTGTGCTTT 59.137 34.615 0.00 0.00 30.26 3.51
160 161 6.016360 TGCAGTTTGTACTTGATATTGTGCTT 60.016 34.615 0.00 0.00 30.26 3.91
161 162 5.473162 TGCAGTTTGTACTTGATATTGTGCT 59.527 36.000 0.00 0.00 30.26 4.40
162 163 5.698832 TGCAGTTTGTACTTGATATTGTGC 58.301 37.500 0.00 0.00 30.26 4.57
163 164 7.529158 TCATGCAGTTTGTACTTGATATTGTG 58.471 34.615 0.00 0.00 30.26 3.33
164 165 7.686438 TCATGCAGTTTGTACTTGATATTGT 57.314 32.000 0.00 0.00 30.26 2.71
165 166 8.853345 GTTTCATGCAGTTTGTACTTGATATTG 58.147 33.333 0.00 0.00 30.26 1.90
166 167 8.796475 AGTTTCATGCAGTTTGTACTTGATATT 58.204 29.630 0.00 0.00 30.26 1.28
225 226 2.130272 TGTTTGTGTGGTGCCTTACA 57.870 45.000 0.00 0.00 0.00 2.41
231 232 2.071688 TGTTGTTGTTTGTGTGGTGC 57.928 45.000 0.00 0.00 0.00 5.01
247 248 6.518208 TGCTTGGTAAAGTTGTTACTTGTT 57.482 33.333 0.00 0.00 43.74 2.83
248 249 6.518208 TTGCTTGGTAAAGTTGTTACTTGT 57.482 33.333 0.00 0.00 43.74 3.16
315 316 2.028567 AGCTCAGTCAAGAGGTAAGCAC 60.029 50.000 0.00 0.00 43.94 4.40
333 334 5.105595 GGCCTCTAAAAATTGAACATGAGCT 60.106 40.000 0.00 0.00 0.00 4.09
354 355 1.660104 CTGCACAAAATTAATGCGGCC 59.340 47.619 0.00 0.00 42.44 6.13
358 359 9.928236 TTTTAACTTTCTGCACAAAATTAATGC 57.072 25.926 2.66 2.38 39.88 3.56
367 368 7.608308 AAATTGCTTTTAACTTTCTGCACAA 57.392 28.000 0.00 0.00 0.00 3.33
377 378 9.810545 TGCACTTAACTTAAATTGCTTTTAACT 57.189 25.926 12.72 0.00 35.37 2.24
380 381 9.677567 CTCTGCACTTAACTTAAATTGCTTTTA 57.322 29.630 12.72 0.00 31.41 1.52
385 386 6.013842 ACCTCTGCACTTAACTTAAATTGC 57.986 37.500 7.45 7.45 0.00 3.56
388 389 9.740710 AGAATTACCTCTGCACTTAACTTAAAT 57.259 29.630 0.00 0.00 0.00 1.40
389 390 9.569122 AAGAATTACCTCTGCACTTAACTTAAA 57.431 29.630 0.00 0.00 0.00 1.52
448 557 4.006319 AGCATCTTCTGTTGTTTAGAGCC 58.994 43.478 0.00 0.00 0.00 4.70
527 636 8.516234 TGTTGTATGTTTAATAACGCCTTTGAT 58.484 29.630 0.00 0.00 37.06 2.57
528 637 7.872881 TGTTGTATGTTTAATAACGCCTTTGA 58.127 30.769 0.00 0.00 37.06 2.69
529 638 8.508800 TTGTTGTATGTTTAATAACGCCTTTG 57.491 30.769 0.00 0.00 37.06 2.77
531 640 7.971722 GGATTGTTGTATGTTTAATAACGCCTT 59.028 33.333 0.00 0.00 37.06 4.35
555 673 4.623932 AAGTTGTACTCTGCATTCAGGA 57.376 40.909 0.00 0.00 40.69 3.86
566 684 7.958053 ACTACATGTTGGTAAAGTTGTACTC 57.042 36.000 2.30 0.00 0.00 2.59
569 687 9.221933 CCATAACTACATGTTGGTAAAGTTGTA 57.778 33.333 16.24 2.03 39.55 2.41
577 695 6.373216 GCTGTTTCCATAACTACATGTTGGTA 59.627 38.462 2.30 5.40 39.55 3.25
604 722 8.743085 AGTTAGACGTATGAACCTAAGATGTA 57.257 34.615 0.00 0.00 0.00 2.29
621 739 9.151752 CAAGTGTAATACGTATGTAGTTAGACG 57.848 37.037 9.24 0.00 41.02 4.18
622 740 9.443283 CCAAGTGTAATACGTATGTAGTTAGAC 57.557 37.037 9.24 6.92 33.17 2.59
623 741 9.394767 TCCAAGTGTAATACGTATGTAGTTAGA 57.605 33.333 9.24 4.19 33.17 2.10
626 744 7.859377 CGATCCAAGTGTAATACGTATGTAGTT 59.141 37.037 9.24 5.21 33.17 2.24
627 745 7.012704 ACGATCCAAGTGTAATACGTATGTAGT 59.987 37.037 9.24 0.39 33.17 2.73
628 746 7.358066 ACGATCCAAGTGTAATACGTATGTAG 58.642 38.462 9.24 0.00 33.17 2.74
629 747 7.263100 ACGATCCAAGTGTAATACGTATGTA 57.737 36.000 9.24 0.00 34.45 2.29
630 748 6.140303 ACGATCCAAGTGTAATACGTATGT 57.860 37.500 9.24 2.41 0.00 2.29
631 749 8.474577 GTTAACGATCCAAGTGTAATACGTATG 58.525 37.037 9.24 0.00 32.66 2.39
632 750 8.190122 TGTTAACGATCCAAGTGTAATACGTAT 58.810 33.333 1.14 1.14 32.66 3.06
633 751 7.534282 TGTTAACGATCCAAGTGTAATACGTA 58.466 34.615 0.00 0.00 32.66 3.57
634 752 6.389091 TGTTAACGATCCAAGTGTAATACGT 58.611 36.000 0.26 0.00 0.00 3.57
635 753 6.874297 TGTTAACGATCCAAGTGTAATACG 57.126 37.500 0.26 0.00 0.00 3.06
636 754 9.881529 TTTTTGTTAACGATCCAAGTGTAATAC 57.118 29.630 0.26 0.00 0.00 1.89
717 835 3.392882 GGTTCAGCAAAACCAATGAAGG 58.607 45.455 13.68 0.00 46.62 3.46
730 848 2.340210 TTGTTACAGCAGGTTCAGCA 57.660 45.000 0.00 0.00 0.00 4.41
762 880 2.835764 TGGCCGTTACTAGTCTGGAAAT 59.164 45.455 0.00 0.00 0.00 2.17
784 902 2.429930 CAGAGGTGCCCGTTTCCA 59.570 61.111 0.00 0.00 0.00 3.53
800 918 0.599991 GAGACACGTGGACACATGCA 60.600 55.000 21.57 0.00 37.10 3.96
818 936 3.687102 AACGGGGCATCGACACGA 61.687 61.111 0.00 0.00 41.13 4.35
820 938 3.124921 CCAACGGGGCATCGACAC 61.125 66.667 6.49 0.00 0.00 3.67
840 958 2.501723 GGGAAGAAGGAGACTGTATGCA 59.498 50.000 0.00 0.00 42.68 3.96
843 961 3.631346 GGGAGGGAAGAAGGAGACTGTAT 60.631 52.174 0.00 0.00 42.68 2.29
844 962 2.292323 GGGAGGGAAGAAGGAGACTGTA 60.292 54.545 0.00 0.00 42.68 2.74
846 964 1.199615 GGGAGGGAAGAAGGAGACTG 58.800 60.000 0.00 0.00 42.68 3.51
855 973 2.367202 GCATGGACGGGAGGGAAGA 61.367 63.158 0.00 0.00 0.00 2.87
872 990 3.658757 TGGTTGTCTGCCAAAATTAGC 57.341 42.857 0.00 0.00 34.07 3.09
956 1074 1.204146 CGGAAGGAAGGGAAGATGGA 58.796 55.000 0.00 0.00 0.00 3.41
991 1109 0.734889 CCTCCGTTCATGGATGTTGC 59.265 55.000 0.00 0.00 37.41 4.17
1032 1167 1.967066 CCCTCCAGCTTCTCATACGAT 59.033 52.381 0.00 0.00 0.00 3.73
1233 1368 4.698625 AACGAGGCGGAGGACCCT 62.699 66.667 0.00 0.00 0.00 4.34
1270 1405 4.907188 GATCATGCAAGATGATCGACTC 57.093 45.455 9.56 0.00 43.13 3.36
1301 1442 8.398878 AGACCTAATCAAAAATTAAACGGACA 57.601 30.769 0.00 0.00 0.00 4.02
1347 1491 5.737860 AGATCATAGCACTGACAAATCACA 58.262 37.500 0.00 0.00 0.00 3.58
1358 1502 8.982685 CGAATAACACAATTAGATCATAGCACT 58.017 33.333 0.00 0.00 0.00 4.40
1393 1537 2.019984 GCAGGGCTCGATTTCTTGAAT 58.980 47.619 0.00 0.00 0.00 2.57
1529 1964 3.371898 CACAGCTTCGAAGATACAATGCA 59.628 43.478 28.95 0.00 35.04 3.96
1556 1991 5.562298 ACGCCCAAATAATATGTACTCCT 57.438 39.130 0.00 0.00 0.00 3.69
1557 1992 6.183360 GCATACGCCCAAATAATATGTACTCC 60.183 42.308 0.00 0.00 0.00 3.85
1583 2018 3.380004 ACAACAATCAAACATGGTGACGT 59.620 39.130 3.69 0.00 36.33 4.34
1660 2095 4.994852 TCTCCACGAATTCGAAATTCAGTT 59.005 37.500 33.05 5.40 43.02 3.16
1662 2097 4.864806 TCTCTCCACGAATTCGAAATTCAG 59.135 41.667 33.05 19.27 43.02 3.02
1675 2110 1.610624 GCACCCATTTTCTCTCCACGA 60.611 52.381 0.00 0.00 0.00 4.35
1693 2128 3.054655 GGATAGGGAAACAACTACCAGCA 60.055 47.826 0.00 0.00 0.00 4.41
1739 2174 4.711846 AGGGAATAAGGAAAAGATGTTGCC 59.288 41.667 0.00 0.00 0.00 4.52
1742 2177 9.244292 GAACTAAGGGAATAAGGAAAAGATGTT 57.756 33.333 0.00 0.00 0.00 2.71
1760 2195 8.436046 ACTATTCTCGTACTGTAGAACTAAGG 57.564 38.462 4.82 0.00 34.70 2.69
1819 2255 7.898014 TCTGATACATCTAGAAGTTGGCTTA 57.102 36.000 5.85 0.00 34.61 3.09
1820 2256 6.798427 TCTGATACATCTAGAAGTTGGCTT 57.202 37.500 5.85 0.00 37.71 4.35
1839 2275 7.455891 AGGACAACATATGCATTATCATCTGA 58.544 34.615 3.54 0.00 0.00 3.27
1875 2311 1.725641 TGTAGGCAAGCATCGAACAG 58.274 50.000 0.00 0.00 0.00 3.16
1944 2381 9.139174 GGATCCTTTTTATGTGTACACAATTTG 57.861 33.333 31.01 18.01 45.41 2.32
1979 2416 8.618702 AAGATGAAGATATACAGGCAAATGAG 57.381 34.615 0.00 0.00 0.00 2.90
2119 2557 8.550376 GTTGTGTTGAGTAATTGCATTTTCAAT 58.450 29.630 10.17 0.00 38.23 2.57
2164 2602 1.676014 CGGTGGATCCAGAAACCTCAC 60.676 57.143 16.81 0.00 35.57 3.51
2197 2720 5.578336 GCTTTCTTATGCTCCATTTGGAAAC 59.422 40.000 0.18 0.00 44.91 2.78
2208 2731 2.609916 GTCCGGAAGCTTTCTTATGCTC 59.390 50.000 5.23 0.00 38.75 4.26
2216 2739 2.396590 TGTATGGTCCGGAAGCTTTC 57.603 50.000 5.23 0.00 0.00 2.62
2232 2755 9.505995 GAAAACTTCGGTAAAACTGAAATTGTA 57.494 29.630 3.15 0.00 42.37 2.41


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

AutoCloner maintained by Alex Coulton.