Multiple sequence alignment - TraesCS6B01G323700

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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 TraesCS6B01G323700 chr6B 100.000 3250 0 0 1 3250 572501060 572504309 0.000000e+00 6002.0
1 TraesCS6B01G323700 chr6B 93.279 1592 74 13 869 2444 572493515 572495089 0.000000e+00 2316.0
2 TraesCS6B01G323700 chr6B 99.765 425 1 0 2826 3250 572541980 572542404 0.000000e+00 780.0
3 TraesCS6B01G323700 chr6B 91.856 528 28 6 362 875 639535248 639535774 0.000000e+00 723.0
4 TraesCS6B01G323700 chr6B 84.743 544 28 10 362 874 643565980 643565461 8.100000e-136 494.0
5 TraesCS6B01G323700 chr6B 95.652 276 10 2 363 638 506705557 506705284 2.980000e-120 442.0
6 TraesCS6B01G323700 chr6B 91.696 289 20 4 586 871 3572154 3571867 6.530000e-107 398.0
7 TraesCS6B01G323700 chr6B 82.432 222 16 6 165 364 572493298 572493518 4.310000e-39 172.0
8 TraesCS6B01G323700 chr6D 94.333 2400 113 9 869 3248 382723967 382726363 0.000000e+00 3657.0
9 TraesCS6B01G323700 chr6A 93.637 1933 98 9 1326 3248 524832371 524834288 0.000000e+00 2865.0
10 TraesCS6B01G323700 chr6A 93.878 392 15 1 875 1257 524831412 524831803 1.680000e-162 582.0
11 TraesCS6B01G323700 chr6A 82.323 198 10 9 152 324 524831158 524831355 7.260000e-32 148.0
12 TraesCS6B01G323700 chrUn 88.806 536 33 7 364 873 31729788 31729254 1.650000e-177 632.0
13 TraesCS6B01G323700 chrUn 88.806 536 33 7 364 873 278206775 278206241 1.650000e-177 632.0
14 TraesCS6B01G323700 chr2B 90.119 506 21 11 361 837 703576386 703576891 5.920000e-177 630.0
15 TraesCS6B01G323700 chr2B 95.918 49 2 0 2467 2515 729528013 729527965 2.690000e-11 80.5
16 TraesCS6B01G323700 chr2B 87.500 72 3 4 2456 2525 408191254 408191321 9.670000e-11 78.7
17 TraesCS6B01G323700 chr5B 90.929 463 35 7 409 867 461543547 461544006 1.660000e-172 616.0
18 TraesCS6B01G323700 chr5B 90.064 312 22 5 561 870 687987358 687987054 2.350000e-106 396.0
19 TraesCS6B01G323700 chr1B 87.041 517 45 18 361 870 279500320 279500821 6.090000e-157 564.0
20 TraesCS6B01G323700 chr1B 92.491 293 11 1 363 644 566984679 566984971 3.020000e-110 409.0
21 TraesCS6B01G323700 chr1B 92.727 55 1 3 2480 2533 579608076 579608128 3.480000e-10 76.8
22 TraesCS6B01G323700 chr3A 86.255 502 62 7 1048 1549 80433399 80432905 3.690000e-149 538.0
23 TraesCS6B01G323700 chr3A 79.070 129 22 5 2000 2127 80432423 80432299 2.080000e-12 84.2
24 TraesCS6B01G323700 chr3A 94.118 51 1 2 2480 2530 505237287 505237239 3.480000e-10 76.8
25 TraesCS6B01G323700 chr7B 83.721 516 63 12 1048 1548 4514953 4514444 4.910000e-128 468.0
26 TraesCS6B01G323700 chr7B 89.241 316 28 6 561 873 667413903 667414215 1.090000e-104 390.0
27 TraesCS6B01G323700 chr7B 89.189 74 8 0 1834 1907 4513939 4513866 3.450000e-15 93.5
28 TraesCS6B01G323700 chr2A 92.388 289 20 2 586 872 379035264 379034976 8.390000e-111 411.0
29 TraesCS6B01G323700 chr3B 93.165 278 18 1 361 638 107773212 107773488 1.090000e-109 407.0
30 TraesCS6B01G323700 chr5A 86.010 193 25 1 1958 2150 639638224 639638034 4.250000e-49 206.0
31 TraesCS6B01G323700 chr5A 85.492 193 26 1 1958 2150 639566178 639565988 1.980000e-47 200.0
32 TraesCS6B01G323700 chr5A 81.526 249 35 4 1958 2203 639491143 639490903 9.200000e-46 195.0
33 TraesCS6B01G323700 chr5D 78.231 294 52 6 1958 2248 511452186 511451902 9.270000e-41 178.0
34 TraesCS6B01G323700 chr5D 92.857 56 4 0 2471 2526 62131275 62131330 7.470000e-12 82.4
35 TraesCS6B01G323700 chr7A 74.138 348 57 24 1599 1926 66881271 66880937 2.650000e-21 113.0
36 TraesCS6B01G323700 chr7A 92.424 66 5 0 1834 1899 66742769 66742704 9.600000e-16 95.3
37 TraesCS6B01G323700 chr2D 93.103 58 3 1 3192 3249 288967366 288967422 2.080000e-12 84.2
38 TraesCS6B01G323700 chr2D 94.444 54 2 1 2480 2533 61804670 61804618 7.470000e-12 82.4
39 TraesCS6B01G323700 chr3D 89.831 59 4 2 2471 2529 394769169 394769113 1.250000e-09 75.0


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 TraesCS6B01G323700 chr6B 572501060 572504309 3249 False 6002.000000 6002 100.0000 1 3250 1 chr6B.!!$F1 3249
1 TraesCS6B01G323700 chr6B 572493298 572495089 1791 False 1244.000000 2316 87.8555 165 2444 2 chr6B.!!$F4 2279
2 TraesCS6B01G323700 chr6B 639535248 639535774 526 False 723.000000 723 91.8560 362 875 1 chr6B.!!$F3 513
3 TraesCS6B01G323700 chr6B 643565461 643565980 519 True 494.000000 494 84.7430 362 874 1 chr6B.!!$R3 512
4 TraesCS6B01G323700 chr6D 382723967 382726363 2396 False 3657.000000 3657 94.3330 869 3248 1 chr6D.!!$F1 2379
5 TraesCS6B01G323700 chr6A 524831158 524834288 3130 False 1198.333333 2865 89.9460 152 3248 3 chr6A.!!$F1 3096
6 TraesCS6B01G323700 chrUn 31729254 31729788 534 True 632.000000 632 88.8060 364 873 1 chrUn.!!$R1 509
7 TraesCS6B01G323700 chrUn 278206241 278206775 534 True 632.000000 632 88.8060 364 873 1 chrUn.!!$R2 509
8 TraesCS6B01G323700 chr2B 703576386 703576891 505 False 630.000000 630 90.1190 361 837 1 chr2B.!!$F2 476
9 TraesCS6B01G323700 chr1B 279500320 279500821 501 False 564.000000 564 87.0410 361 870 1 chr1B.!!$F1 509
10 TraesCS6B01G323700 chr3A 80432299 80433399 1100 True 311.100000 538 82.6625 1048 2127 2 chr3A.!!$R2 1079
11 TraesCS6B01G323700 chr7B 4513866 4514953 1087 True 280.750000 468 86.4550 1048 1907 2 chr7B.!!$R1 859

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
61 62 0.033642 GGGCTAGATACAAGGCGTCC 59.966 60.0 0.00 0.0 40.28 4.79 F
66 67 0.108329 AGATACAAGGCGTCCGGTTG 60.108 55.0 0.00 0.0 0.00 3.77 F
67 68 0.108520 GATACAAGGCGTCCGGTTGA 60.109 55.0 8.59 0.0 0.00 3.18 F
75 76 0.109319 GCGTCCGGTTGAATTGCATT 60.109 50.0 0.00 0.0 0.00 3.56 F
113 114 0.118547 AGGGGGATATAAGGGGTCCG 59.881 60.0 0.00 0.0 32.71 4.79 F
115 116 0.178882 GGGGATATAAGGGGTCCGGT 60.179 60.0 0.00 0.0 32.71 5.28 F
1039 1178 0.179150 CTAGACGTGGAGCAGAGCAC 60.179 60.0 0.00 0.0 0.00 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1039 1178 0.394899 GGAGGCTTCCATCCCTGTTG 60.395 60.000 10.56 0.0 43.45 3.33 R
1785 2438 1.045407 AGCTGGTTGGTGTACGAGAA 58.955 50.000 0.00 0.0 0.00 2.87 R
2055 2807 2.736995 ACCGCCGTCATCGTTGTG 60.737 61.111 0.00 0.0 35.01 3.33 R
2138 2896 3.132925 GGCTTCGTAGTCGTAGATCTCT 58.867 50.000 0.00 0.0 40.67 3.10 R
2210 2968 2.038813 TCTGGATCTCGGTGGCCA 59.961 61.111 0.00 0.0 0.00 5.36 R
2248 3010 8.449625 GCTATCCCATATCCTAGTTCCTAGATA 58.550 40.741 0.00 0.0 36.26 1.98 R
3039 3808 0.963962 TCGCCTTAACCGACAACTCT 59.036 50.000 0.00 0.0 0.00 3.24 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 2.644151 GATATGGGTTGGATAGGGGGT 58.356 52.381 0.00 0.00 0.00 4.95
21 22 2.617207 TATGGGTTGGATAGGGGGTT 57.383 50.000 0.00 0.00 0.00 4.11
22 23 2.617207 ATGGGTTGGATAGGGGGTTA 57.383 50.000 0.00 0.00 0.00 2.85
23 24 2.617207 TGGGTTGGATAGGGGGTTAT 57.383 50.000 0.00 0.00 0.00 1.89
24 25 2.424793 TGGGTTGGATAGGGGGTTATC 58.575 52.381 0.00 0.00 0.00 1.75
25 26 1.350019 GGGTTGGATAGGGGGTTATCG 59.650 57.143 0.00 0.00 32.05 2.92
26 27 1.350019 GGTTGGATAGGGGGTTATCGG 59.650 57.143 0.00 0.00 32.05 4.18
27 28 2.052468 GTTGGATAGGGGGTTATCGGT 58.948 52.381 0.00 0.00 32.05 4.69
28 29 2.019807 TGGATAGGGGGTTATCGGTC 57.980 55.000 0.00 0.00 32.05 4.79
29 30 0.893447 GGATAGGGGGTTATCGGTCG 59.107 60.000 0.00 0.00 32.05 4.79
30 31 0.893447 GATAGGGGGTTATCGGTCGG 59.107 60.000 0.00 0.00 0.00 4.79
31 32 0.189327 ATAGGGGGTTATCGGTCGGT 59.811 55.000 0.00 0.00 0.00 4.69
32 33 0.468029 TAGGGGGTTATCGGTCGGTC 60.468 60.000 0.00 0.00 0.00 4.79
33 34 2.800541 GGGGGTTATCGGTCGGTCC 61.801 68.421 0.00 0.00 0.00 4.46
34 35 2.059786 GGGGTTATCGGTCGGTCCA 61.060 63.158 0.00 0.00 35.57 4.02
35 36 1.440476 GGGTTATCGGTCGGTCCAG 59.560 63.158 0.00 0.00 35.57 3.86
36 37 1.440476 GGTTATCGGTCGGTCCAGG 59.560 63.158 0.00 0.00 35.57 4.45
37 38 1.227176 GTTATCGGTCGGTCCAGGC 60.227 63.158 0.00 0.00 35.57 4.85
38 39 1.683025 TTATCGGTCGGTCCAGGCA 60.683 57.895 0.00 0.00 35.57 4.75
39 40 1.952102 TTATCGGTCGGTCCAGGCAC 61.952 60.000 0.00 0.00 35.57 5.01
40 41 2.849096 TATCGGTCGGTCCAGGCACT 62.849 60.000 0.00 0.00 43.88 4.40
41 42 4.003788 CGGTCGGTCCAGGCACTT 62.004 66.667 0.00 0.00 34.60 3.16
42 43 2.358737 GGTCGGTCCAGGCACTTG 60.359 66.667 0.00 0.00 34.60 3.16
43 44 2.358737 GTCGGTCCAGGCACTTGG 60.359 66.667 0.00 0.00 34.60 3.61
44 45 3.636231 TCGGTCCAGGCACTTGGG 61.636 66.667 0.00 0.00 34.60 4.12
54 55 2.710096 GGCACTTGGGCTAGATACAA 57.290 50.000 0.00 0.00 39.42 2.41
55 56 2.565841 GGCACTTGGGCTAGATACAAG 58.434 52.381 15.58 15.58 45.27 3.16
56 57 2.565841 GCACTTGGGCTAGATACAAGG 58.434 52.381 19.14 12.27 44.35 3.61
57 58 2.565841 CACTTGGGCTAGATACAAGGC 58.434 52.381 19.14 0.00 44.35 4.35
58 59 1.139058 ACTTGGGCTAGATACAAGGCG 59.861 52.381 19.14 3.49 44.35 5.52
59 60 1.139058 CTTGGGCTAGATACAAGGCGT 59.861 52.381 11.47 0.00 40.28 5.68
60 61 0.750850 TGGGCTAGATACAAGGCGTC 59.249 55.000 0.00 0.00 40.28 5.19
61 62 0.033642 GGGCTAGATACAAGGCGTCC 59.966 60.000 0.00 0.00 40.28 4.79
62 63 0.318784 GGCTAGATACAAGGCGTCCG 60.319 60.000 0.00 0.00 0.00 4.79
63 64 0.318784 GCTAGATACAAGGCGTCCGG 60.319 60.000 0.00 0.00 0.00 5.14
64 65 1.030457 CTAGATACAAGGCGTCCGGT 58.970 55.000 0.00 0.00 0.00 5.28
65 66 1.407979 CTAGATACAAGGCGTCCGGTT 59.592 52.381 0.00 0.00 0.00 4.44
66 67 0.108329 AGATACAAGGCGTCCGGTTG 60.108 55.000 0.00 0.00 0.00 3.77
67 68 0.108520 GATACAAGGCGTCCGGTTGA 60.109 55.000 8.59 0.00 0.00 3.18
68 69 0.322322 ATACAAGGCGTCCGGTTGAA 59.678 50.000 8.59 0.00 0.00 2.69
69 70 0.322322 TACAAGGCGTCCGGTTGAAT 59.678 50.000 8.59 0.00 0.00 2.57
70 71 0.536460 ACAAGGCGTCCGGTTGAATT 60.536 50.000 8.59 0.00 0.00 2.17
71 72 0.109781 CAAGGCGTCCGGTTGAATTG 60.110 55.000 0.00 0.00 0.00 2.32
72 73 1.862602 AAGGCGTCCGGTTGAATTGC 61.863 55.000 0.00 0.00 0.00 3.56
73 74 2.622011 GGCGTCCGGTTGAATTGCA 61.622 57.895 0.00 0.00 0.00 4.08
74 75 1.506262 GCGTCCGGTTGAATTGCAT 59.494 52.632 0.00 0.00 0.00 3.96
75 76 0.109319 GCGTCCGGTTGAATTGCATT 60.109 50.000 0.00 0.00 0.00 3.56
76 77 1.668628 GCGTCCGGTTGAATTGCATTT 60.669 47.619 0.00 0.00 0.00 2.32
77 78 2.671596 CGTCCGGTTGAATTGCATTTT 58.328 42.857 0.00 0.00 0.00 1.82
78 79 3.056304 CGTCCGGTTGAATTGCATTTTT 58.944 40.909 0.00 0.00 0.00 1.94
100 101 4.475444 CCTGGGCGTCTAGGGGGA 62.475 72.222 12.35 0.00 37.92 4.81
101 102 2.122813 CTGGGCGTCTAGGGGGAT 60.123 66.667 0.00 0.00 0.00 3.85
102 103 1.155390 CTGGGCGTCTAGGGGGATA 59.845 63.158 0.00 0.00 0.00 2.59
103 104 0.252284 CTGGGCGTCTAGGGGGATAT 60.252 60.000 0.00 0.00 0.00 1.63
104 105 1.006758 CTGGGCGTCTAGGGGGATATA 59.993 57.143 0.00 0.00 0.00 0.86
105 106 1.433985 TGGGCGTCTAGGGGGATATAA 59.566 52.381 0.00 0.00 0.00 0.98
106 107 2.108970 GGGCGTCTAGGGGGATATAAG 58.891 57.143 0.00 0.00 0.00 1.73
107 108 2.108970 GGCGTCTAGGGGGATATAAGG 58.891 57.143 0.00 0.00 0.00 2.69
108 109 2.108970 GCGTCTAGGGGGATATAAGGG 58.891 57.143 0.00 0.00 0.00 3.95
109 110 2.748388 CGTCTAGGGGGATATAAGGGG 58.252 57.143 0.00 0.00 0.00 4.79
110 111 2.044077 CGTCTAGGGGGATATAAGGGGT 59.956 54.545 0.00 0.00 0.00 4.95
111 112 3.722172 GTCTAGGGGGATATAAGGGGTC 58.278 54.545 0.00 0.00 0.00 4.46
112 113 2.663675 TCTAGGGGGATATAAGGGGTCC 59.336 54.545 0.00 0.00 0.00 4.46
113 114 0.118547 AGGGGGATATAAGGGGTCCG 59.881 60.000 0.00 0.00 32.71 4.79
114 115 0.912968 GGGGGATATAAGGGGTCCGG 60.913 65.000 0.00 0.00 32.71 5.14
115 116 0.178882 GGGGATATAAGGGGTCCGGT 60.179 60.000 0.00 0.00 32.71 5.28
116 117 1.273759 GGGATATAAGGGGTCCGGTC 58.726 60.000 0.00 0.00 32.71 4.79
117 118 0.893447 GGATATAAGGGGTCCGGTCG 59.107 60.000 0.00 0.00 0.00 4.79
118 119 1.625511 GATATAAGGGGTCCGGTCGT 58.374 55.000 0.00 0.00 0.00 4.34
119 120 2.555227 GGATATAAGGGGTCCGGTCGTA 60.555 54.545 0.00 0.00 0.00 3.43
120 121 2.276732 TATAAGGGGTCCGGTCGTAG 57.723 55.000 0.00 0.00 0.00 3.51
121 122 0.552848 ATAAGGGGTCCGGTCGTAGA 59.447 55.000 0.00 0.00 0.00 2.59
122 123 0.552848 TAAGGGGTCCGGTCGTAGAT 59.447 55.000 0.00 0.00 40.67 1.98
123 124 1.041447 AAGGGGTCCGGTCGTAGATG 61.041 60.000 0.00 0.00 40.67 2.90
124 125 2.416260 GGGTCCGGTCGTAGATGC 59.584 66.667 0.00 0.00 40.67 3.91
125 126 2.125961 GGGTCCGGTCGTAGATGCT 61.126 63.158 0.00 0.00 40.67 3.79
126 127 1.359475 GGTCCGGTCGTAGATGCTC 59.641 63.158 0.00 0.00 40.67 4.26
127 128 1.102222 GGTCCGGTCGTAGATGCTCT 61.102 60.000 0.00 0.00 40.67 4.09
128 129 0.739561 GTCCGGTCGTAGATGCTCTT 59.260 55.000 0.00 0.00 40.67 2.85
129 130 1.945394 GTCCGGTCGTAGATGCTCTTA 59.055 52.381 0.00 0.00 40.67 2.10
130 131 2.357009 GTCCGGTCGTAGATGCTCTTAA 59.643 50.000 0.00 0.00 40.67 1.85
131 132 2.617308 TCCGGTCGTAGATGCTCTTAAG 59.383 50.000 0.00 0.00 40.67 1.85
132 133 2.358267 CCGGTCGTAGATGCTCTTAAGT 59.642 50.000 1.63 0.00 40.67 2.24
133 134 3.548415 CCGGTCGTAGATGCTCTTAAGTC 60.548 52.174 1.63 0.00 40.67 3.01
134 135 3.064958 CGGTCGTAGATGCTCTTAAGTCA 59.935 47.826 1.63 2.70 40.67 3.41
135 136 4.261238 CGGTCGTAGATGCTCTTAAGTCAT 60.261 45.833 1.63 7.44 40.67 3.06
136 137 5.593010 GGTCGTAGATGCTCTTAAGTCATT 58.407 41.667 1.63 2.72 40.67 2.57
137 138 5.688176 GGTCGTAGATGCTCTTAAGTCATTC 59.312 44.000 1.63 0.00 40.67 2.67
138 139 6.266323 GTCGTAGATGCTCTTAAGTCATTCA 58.734 40.000 1.63 0.00 40.67 2.57
139 140 6.416455 GTCGTAGATGCTCTTAAGTCATTCAG 59.584 42.308 1.63 0.00 40.67 3.02
140 141 6.318900 TCGTAGATGCTCTTAAGTCATTCAGA 59.681 38.462 1.63 4.41 0.00 3.27
141 142 6.636447 CGTAGATGCTCTTAAGTCATTCAGAG 59.364 42.308 1.63 0.00 39.03 3.35
142 143 5.916318 AGATGCTCTTAAGTCATTCAGAGG 58.084 41.667 1.63 0.00 37.29 3.69
143 144 5.660417 AGATGCTCTTAAGTCATTCAGAGGA 59.340 40.000 1.63 0.00 40.17 3.71
144 145 5.946942 TGCTCTTAAGTCATTCAGAGGAT 57.053 39.130 1.63 0.00 37.29 3.24
145 146 7.508636 AGATGCTCTTAAGTCATTCAGAGGATA 59.491 37.037 1.63 0.00 43.68 2.59
146 147 7.423844 TGCTCTTAAGTCATTCAGAGGATAA 57.576 36.000 1.63 0.00 37.29 1.75
147 148 7.268586 TGCTCTTAAGTCATTCAGAGGATAAC 58.731 38.462 1.63 0.00 37.29 1.89
148 149 7.093333 TGCTCTTAAGTCATTCAGAGGATAACA 60.093 37.037 1.63 0.00 37.29 2.41
149 150 7.223777 GCTCTTAAGTCATTCAGAGGATAACAC 59.776 40.741 1.63 0.00 37.29 3.32
150 151 7.258441 TCTTAAGTCATTCAGAGGATAACACG 58.742 38.462 1.63 0.00 0.00 4.49
151 152 5.407407 AAGTCATTCAGAGGATAACACGT 57.593 39.130 0.00 0.00 0.00 4.49
152 153 5.000012 AGTCATTCAGAGGATAACACGTC 58.000 43.478 0.00 0.00 0.00 4.34
153 154 4.707448 AGTCATTCAGAGGATAACACGTCT 59.293 41.667 0.00 0.00 35.78 4.18
154 155 5.038033 GTCATTCAGAGGATAACACGTCTC 58.962 45.833 0.00 0.00 33.61 3.36
155 156 4.950475 TCATTCAGAGGATAACACGTCTCT 59.050 41.667 0.00 0.00 37.09 3.10
156 157 5.419155 TCATTCAGAGGATAACACGTCTCTT 59.581 40.000 0.00 0.00 34.71 2.85
157 158 4.703645 TCAGAGGATAACACGTCTCTTG 57.296 45.455 0.00 0.00 34.71 3.02
158 159 4.079970 TCAGAGGATAACACGTCTCTTGT 58.920 43.478 0.00 0.00 34.71 3.16
159 160 4.082733 TCAGAGGATAACACGTCTCTTGTG 60.083 45.833 0.00 0.00 42.99 3.33
199 200 7.253917 CGATGATCGATAGTCCATTTGATAAGC 60.254 40.741 9.62 0.00 43.74 3.09
229 231 2.745968 AGGCTTTTCCTGTTGTCCAAA 58.254 42.857 0.00 0.00 45.54 3.28
230 232 3.103742 AGGCTTTTCCTGTTGTCCAAAA 58.896 40.909 0.00 0.00 45.54 2.44
231 233 3.132824 AGGCTTTTCCTGTTGTCCAAAAG 59.867 43.478 0.00 0.00 45.54 2.27
285 305 4.731773 GCGTTGGGCAGAGAAATAAGATTG 60.732 45.833 0.00 0.00 42.87 2.67
352 391 4.593157 GCACGTACACACTTTCAATCAAA 58.407 39.130 0.00 0.00 0.00 2.69
354 393 5.503357 GCACGTACACACTTTCAATCAAAGA 60.503 40.000 1.13 0.00 44.02 2.52
355 394 6.129393 CACGTACACACTTTCAATCAAAGAG 58.871 40.000 1.13 0.00 44.02 2.85
356 395 5.140177 CGTACACACTTTCAATCAAAGAGC 58.860 41.667 1.13 0.00 44.02 4.09
358 397 5.841957 ACACACTTTCAATCAAAGAGCTT 57.158 34.783 1.13 0.00 44.02 3.74
359 398 5.585390 ACACACTTTCAATCAAAGAGCTTG 58.415 37.500 1.13 0.00 44.02 4.01
391 430 7.112779 CCTGTTTGTTTCATAAGTCCTAGGAT 58.887 38.462 16.27 1.82 0.00 3.24
569 637 2.733218 CGCTGCAACGAACCGAGA 60.733 61.111 2.68 0.00 34.06 4.04
739 859 4.363546 AGTCCCAATAAACTCCTCCCTA 57.636 45.455 0.00 0.00 0.00 3.53
821 941 6.956102 TTGGTTTAGGTGGGACTTATAGAA 57.044 37.500 0.00 0.00 0.00 2.10
894 1019 1.228533 TGTTAGTTCCCGCGTTTTCC 58.771 50.000 4.92 0.00 0.00 3.13
932 1057 5.339200 GGTGGAAAGTATGAAGGATCTCCAA 60.339 44.000 0.00 0.00 38.89 3.53
943 1068 1.896465 GGATCTCCAATCCGAGTAGGG 59.104 57.143 0.00 0.00 36.91 3.53
1039 1178 0.179150 CTAGACGTGGAGCAGAGCAC 60.179 60.000 0.00 0.00 0.00 4.40
1041 1180 1.300931 GACGTGGAGCAGAGCACAA 60.301 57.895 0.00 0.00 0.00 3.33
1073 1212 1.004918 CTCCAAGTTCGGCTTCGGT 60.005 57.895 0.00 0.00 34.69 4.69
1106 1245 1.301479 GGCGTTCAAGTTCGACCCT 60.301 57.895 0.00 0.00 0.00 4.34
1274 1416 2.820037 GCCTTCTTCTTCGGCCCG 60.820 66.667 0.00 0.00 37.86 6.13
1628 2269 1.783031 CGGGCACGAGCTACTACGAT 61.783 60.000 0.00 0.00 44.60 3.73
1637 2284 2.222886 AGCTACTACGATCACGATGCT 58.777 47.619 0.00 0.00 42.66 3.79
1980 2654 2.673523 GCCAGATCCACAGCCACT 59.326 61.111 0.00 0.00 0.00 4.00
2003 2755 2.036475 CCAATACTACGCTGGAGATGCT 59.964 50.000 0.00 0.00 31.38 3.79
2138 2896 2.285144 GGGGAGGAGAACCGGGAA 60.285 66.667 6.32 0.00 41.83 3.97
2224 2982 1.227674 GATGTGGCCACCGAGATCC 60.228 63.158 32.62 6.06 0.00 3.36
2236 2994 3.018149 ACCGAGATCCAGAGTGAACTAC 58.982 50.000 0.00 0.00 0.00 2.73
2238 3000 4.080469 ACCGAGATCCAGAGTGAACTACTA 60.080 45.833 0.00 0.00 40.53 1.82
2243 3005 6.126409 AGATCCAGAGTGAACTACTAGAAGG 58.874 44.000 0.00 0.00 40.53 3.46
2248 3010 8.282982 TCCAGAGTGAACTACTAGAAGGAATAT 58.717 37.037 0.00 0.00 40.53 1.28
2346 3110 1.741145 ACAATTACGCACCCGGATTTC 59.259 47.619 0.73 0.00 39.22 2.17
2349 3115 3.547054 ATTACGCACCCGGATTTCTTA 57.453 42.857 0.73 0.00 39.22 2.10
2392 3159 3.746492 ACATACGCAAAGTTGTCTTCCTC 59.254 43.478 0.00 0.00 32.90 3.71
2473 3240 2.108514 CGGTGGCTGGCATGTAGTG 61.109 63.158 7.33 0.00 0.00 2.74
2528 3295 3.705051 TCACTAACGGAGGGAGTACATT 58.295 45.455 0.00 0.00 30.24 2.71
2582 3349 2.219080 TCCTGAATGCAAATGGCTCA 57.781 45.000 0.00 0.00 45.15 4.26
2679 3447 0.317160 CAGTGGCAGTGACCGTTCTA 59.683 55.000 17.46 0.00 0.00 2.10
2784 3552 1.597027 CAGGAACGGTTCGGTGCTT 60.597 57.895 14.23 0.00 43.90 3.91
2813 3581 3.193691 AGAGTGAACAGAACGGGTGATAG 59.806 47.826 0.00 0.00 0.00 2.08
2826 3594 2.007608 GGTGATAGTTCCTGAAACGGC 58.992 52.381 0.00 0.00 43.02 5.68
2838 3606 5.064558 TCCTGAAACGGCAGTAACAATTTA 58.935 37.500 0.00 0.00 34.06 1.40
2848 3616 6.764560 CGGCAGTAACAATTTATTAGTACCCT 59.235 38.462 0.00 0.00 0.00 4.34
2874 3642 8.489676 AGTCAATATGAGTGAGAACCAGATAT 57.510 34.615 0.00 0.00 0.00 1.63
2891 3660 8.814038 ACCAGATATGAGCTTCAGTAAATTTT 57.186 30.769 0.00 0.00 0.00 1.82
2899 3668 4.997395 AGCTTCAGTAAATTTTGCTCGAGA 59.003 37.500 18.75 0.00 0.00 4.04
3022 3791 8.437575 AGGTACAGTAACTGATTAATATTGGGG 58.562 37.037 0.00 0.00 35.18 4.96
3039 3808 8.893563 ATATTGGGGAACTGAATTTTCTTACA 57.106 30.769 0.00 0.00 0.00 2.41
3060 3829 2.028385 AGAGTTGTCGGTTAAGGCGATT 60.028 45.455 0.00 0.00 0.00 3.34
3072 3841 1.452108 GGCGATTGTTCCTCCTGGG 60.452 63.158 0.00 0.00 0.00 4.45
3075 3844 1.452108 GATTGTTCCTCCTGGGCGG 60.452 63.158 0.00 0.00 34.39 6.13
3190 3959 2.147958 GTGGTGATTTGCGAGTTACCA 58.852 47.619 8.83 8.83 35.97 3.25
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.644151 ACCCCCTATCCAACCCATATC 58.356 52.381 0.00 0.00 0.00 1.63
1 2 2.856313 ACCCCCTATCCAACCCATAT 57.144 50.000 0.00 0.00 0.00 1.78
3 4 2.617207 TAACCCCCTATCCAACCCAT 57.383 50.000 0.00 0.00 0.00 4.00
5 6 1.350019 CGATAACCCCCTATCCAACCC 59.650 57.143 0.00 0.00 0.00 4.11
7 8 2.038164 GACCGATAACCCCCTATCCAAC 59.962 54.545 0.00 0.00 0.00 3.77
9 10 1.824444 CGACCGATAACCCCCTATCCA 60.824 57.143 0.00 0.00 0.00 3.41
10 11 0.893447 CGACCGATAACCCCCTATCC 59.107 60.000 0.00 0.00 0.00 2.59
11 12 0.893447 CCGACCGATAACCCCCTATC 59.107 60.000 0.00 0.00 0.00 2.08
12 13 0.189327 ACCGACCGATAACCCCCTAT 59.811 55.000 0.00 0.00 0.00 2.57
14 15 1.759692 GACCGACCGATAACCCCCT 60.760 63.158 0.00 0.00 0.00 4.79
16 17 2.024590 CTGGACCGACCGATAACCCC 62.025 65.000 0.00 0.00 42.61 4.95
18 19 1.440476 CCTGGACCGACCGATAACC 59.560 63.158 0.00 0.00 42.61 2.85
19 20 1.227176 GCCTGGACCGACCGATAAC 60.227 63.158 0.00 0.00 42.61 1.89
20 21 1.683025 TGCCTGGACCGACCGATAA 60.683 57.895 0.00 0.00 42.61 1.75
21 22 2.043752 TGCCTGGACCGACCGATA 60.044 61.111 0.00 0.00 42.61 2.92
22 23 3.771160 GTGCCTGGACCGACCGAT 61.771 66.667 0.00 0.00 42.61 4.18
23 24 4.988716 AGTGCCTGGACCGACCGA 62.989 66.667 0.00 0.00 42.61 4.69
24 25 4.003788 AAGTGCCTGGACCGACCG 62.004 66.667 0.00 0.00 42.61 4.79
25 26 2.358737 CAAGTGCCTGGACCGACC 60.359 66.667 0.00 0.00 39.54 4.79
26 27 2.358737 CCAAGTGCCTGGACCGAC 60.359 66.667 0.00 0.00 38.96 4.79
27 28 3.636231 CCCAAGTGCCTGGACCGA 61.636 66.667 0.00 0.00 38.96 4.69
29 30 2.543067 CTAGCCCAAGTGCCTGGACC 62.543 65.000 0.00 0.00 38.96 4.46
30 31 1.078143 CTAGCCCAAGTGCCTGGAC 60.078 63.158 0.00 0.00 38.96 4.02
31 32 0.621571 ATCTAGCCCAAGTGCCTGGA 60.622 55.000 0.00 0.00 38.96 3.86
32 33 1.131638 TATCTAGCCCAAGTGCCTGG 58.868 55.000 0.00 0.00 36.10 4.45
33 34 1.486310 TGTATCTAGCCCAAGTGCCTG 59.514 52.381 0.00 0.00 0.00 4.85
34 35 1.879575 TGTATCTAGCCCAAGTGCCT 58.120 50.000 0.00 0.00 0.00 4.75
35 36 2.565841 CTTGTATCTAGCCCAAGTGCC 58.434 52.381 7.37 0.00 32.76 5.01
36 37 2.565841 CCTTGTATCTAGCCCAAGTGC 58.434 52.381 12.10 0.00 35.02 4.40
37 38 2.565841 GCCTTGTATCTAGCCCAAGTG 58.434 52.381 12.10 7.18 35.02 3.16
38 39 1.139058 CGCCTTGTATCTAGCCCAAGT 59.861 52.381 12.10 0.00 35.02 3.16
39 40 1.139058 ACGCCTTGTATCTAGCCCAAG 59.861 52.381 8.19 8.19 36.26 3.61
40 41 1.138266 GACGCCTTGTATCTAGCCCAA 59.862 52.381 0.00 0.00 0.00 4.12
41 42 0.750850 GACGCCTTGTATCTAGCCCA 59.249 55.000 0.00 0.00 0.00 5.36
42 43 0.033642 GGACGCCTTGTATCTAGCCC 59.966 60.000 0.00 0.00 0.00 5.19
43 44 0.318784 CGGACGCCTTGTATCTAGCC 60.319 60.000 0.00 0.00 0.00 3.93
44 45 0.318784 CCGGACGCCTTGTATCTAGC 60.319 60.000 0.00 0.00 0.00 3.42
45 46 1.030457 ACCGGACGCCTTGTATCTAG 58.970 55.000 9.46 0.00 0.00 2.43
46 47 1.135527 CAACCGGACGCCTTGTATCTA 59.864 52.381 9.46 0.00 0.00 1.98
47 48 0.108329 CAACCGGACGCCTTGTATCT 60.108 55.000 9.46 0.00 0.00 1.98
48 49 0.108520 TCAACCGGACGCCTTGTATC 60.109 55.000 9.46 0.00 0.00 2.24
49 50 0.322322 TTCAACCGGACGCCTTGTAT 59.678 50.000 9.46 0.00 0.00 2.29
50 51 0.322322 ATTCAACCGGACGCCTTGTA 59.678 50.000 9.46 0.00 0.00 2.41
51 52 0.536460 AATTCAACCGGACGCCTTGT 60.536 50.000 9.46 0.00 0.00 3.16
52 53 0.109781 CAATTCAACCGGACGCCTTG 60.110 55.000 9.46 0.90 0.00 3.61
53 54 1.862602 GCAATTCAACCGGACGCCTT 61.863 55.000 9.46 0.00 0.00 4.35
54 55 2.332654 GCAATTCAACCGGACGCCT 61.333 57.895 9.46 0.00 0.00 5.52
55 56 1.933115 ATGCAATTCAACCGGACGCC 61.933 55.000 9.46 0.00 0.00 5.68
56 57 0.109319 AATGCAATTCAACCGGACGC 60.109 50.000 9.46 0.00 0.00 5.19
57 58 2.346099 AAATGCAATTCAACCGGACG 57.654 45.000 9.46 0.00 33.67 4.79
83 84 2.382023 TATCCCCCTAGACGCCCAGG 62.382 65.000 0.00 0.00 0.00 4.45
84 85 0.252284 ATATCCCCCTAGACGCCCAG 60.252 60.000 0.00 0.00 0.00 4.45
85 86 1.086565 TATATCCCCCTAGACGCCCA 58.913 55.000 0.00 0.00 0.00 5.36
86 87 2.108970 CTTATATCCCCCTAGACGCCC 58.891 57.143 0.00 0.00 0.00 6.13
87 88 2.108970 CCTTATATCCCCCTAGACGCC 58.891 57.143 0.00 0.00 0.00 5.68
88 89 2.108970 CCCTTATATCCCCCTAGACGC 58.891 57.143 0.00 0.00 0.00 5.19
89 90 2.044077 ACCCCTTATATCCCCCTAGACG 59.956 54.545 0.00 0.00 0.00 4.18
90 91 3.568333 GGACCCCTTATATCCCCCTAGAC 60.568 56.522 0.00 0.00 0.00 2.59
91 92 2.663675 GGACCCCTTATATCCCCCTAGA 59.336 54.545 0.00 0.00 0.00 2.43
92 93 2.626149 CGGACCCCTTATATCCCCCTAG 60.626 59.091 0.00 0.00 0.00 3.02
93 94 1.363629 CGGACCCCTTATATCCCCCTA 59.636 57.143 0.00 0.00 0.00 3.53
94 95 0.118547 CGGACCCCTTATATCCCCCT 59.881 60.000 0.00 0.00 0.00 4.79
95 96 0.912968 CCGGACCCCTTATATCCCCC 60.913 65.000 0.00 0.00 0.00 5.40
96 97 0.178882 ACCGGACCCCTTATATCCCC 60.179 60.000 9.46 0.00 0.00 4.81
97 98 1.273759 GACCGGACCCCTTATATCCC 58.726 60.000 9.46 0.00 0.00 3.85
98 99 0.893447 CGACCGGACCCCTTATATCC 59.107 60.000 9.46 0.00 0.00 2.59
99 100 1.625511 ACGACCGGACCCCTTATATC 58.374 55.000 9.46 0.00 0.00 1.63
100 101 2.376518 TCTACGACCGGACCCCTTATAT 59.623 50.000 9.46 0.00 0.00 0.86
101 102 1.774254 TCTACGACCGGACCCCTTATA 59.226 52.381 9.46 0.00 0.00 0.98
102 103 0.552848 TCTACGACCGGACCCCTTAT 59.447 55.000 9.46 0.00 0.00 1.73
103 104 0.552848 ATCTACGACCGGACCCCTTA 59.447 55.000 9.46 0.00 0.00 2.69
104 105 1.041447 CATCTACGACCGGACCCCTT 61.041 60.000 9.46 0.00 0.00 3.95
105 106 1.455217 CATCTACGACCGGACCCCT 60.455 63.158 9.46 0.00 0.00 4.79
106 107 3.126528 CATCTACGACCGGACCCC 58.873 66.667 9.46 0.00 0.00 4.95
107 108 2.073037 GAGCATCTACGACCGGACCC 62.073 65.000 9.46 0.00 0.00 4.46
108 109 1.359475 GAGCATCTACGACCGGACC 59.641 63.158 9.46 0.00 0.00 4.46
120 121 5.911752 TCCTCTGAATGACTTAAGAGCATC 58.088 41.667 10.09 3.12 38.30 3.91
121 122 5.946942 TCCTCTGAATGACTTAAGAGCAT 57.053 39.130 10.09 9.38 38.30 3.79
122 123 5.946942 ATCCTCTGAATGACTTAAGAGCA 57.053 39.130 10.09 7.34 38.30 4.26
123 124 7.223777 GTGTTATCCTCTGAATGACTTAAGAGC 59.776 40.741 10.09 1.25 38.30 4.09
124 125 7.433719 CGTGTTATCCTCTGAATGACTTAAGAG 59.566 40.741 10.09 0.00 39.06 2.85
125 126 7.093902 ACGTGTTATCCTCTGAATGACTTAAGA 60.094 37.037 10.09 0.00 0.00 2.10
126 127 7.036220 ACGTGTTATCCTCTGAATGACTTAAG 58.964 38.462 0.00 0.00 0.00 1.85
127 128 6.931838 ACGTGTTATCCTCTGAATGACTTAA 58.068 36.000 0.00 0.00 0.00 1.85
128 129 6.377429 AGACGTGTTATCCTCTGAATGACTTA 59.623 38.462 0.00 0.00 0.00 2.24
129 130 5.186021 AGACGTGTTATCCTCTGAATGACTT 59.814 40.000 0.00 0.00 0.00 3.01
130 131 4.707448 AGACGTGTTATCCTCTGAATGACT 59.293 41.667 0.00 0.00 0.00 3.41
131 132 5.000012 AGACGTGTTATCCTCTGAATGAC 58.000 43.478 0.00 0.00 0.00 3.06
132 133 4.950475 AGAGACGTGTTATCCTCTGAATGA 59.050 41.667 0.00 0.00 34.96 2.57
133 134 5.255710 AGAGACGTGTTATCCTCTGAATG 57.744 43.478 0.00 0.00 34.96 2.67
134 135 5.186021 ACAAGAGACGTGTTATCCTCTGAAT 59.814 40.000 0.00 0.00 36.26 2.57
135 136 4.523173 ACAAGAGACGTGTTATCCTCTGAA 59.477 41.667 0.00 0.00 36.26 3.02
136 137 4.079970 ACAAGAGACGTGTTATCCTCTGA 58.920 43.478 0.00 0.00 36.26 3.27
137 138 4.169508 CACAAGAGACGTGTTATCCTCTG 58.830 47.826 0.00 0.00 36.26 3.35
138 139 3.827302 ACACAAGAGACGTGTTATCCTCT 59.173 43.478 0.00 0.00 45.12 3.69
139 140 4.175787 ACACAAGAGACGTGTTATCCTC 57.824 45.455 0.00 0.00 45.12 3.71
186 187 7.445402 GCCTCTACTTATTGCTTATCAAATGGA 59.555 37.037 0.00 0.00 38.34 3.41
199 200 6.431234 ACAACAGGAAAAGCCTCTACTTATTG 59.569 38.462 0.00 0.00 46.97 1.90
229 231 4.479158 TCAAATGGTCAAAAGGGCTACTT 58.521 39.130 0.00 0.00 42.52 2.24
230 232 4.112634 TCAAATGGTCAAAAGGGCTACT 57.887 40.909 0.00 0.00 0.00 2.57
231 233 5.405935 AATCAAATGGTCAAAAGGGCTAC 57.594 39.130 0.00 0.00 0.00 3.58
265 285 7.537596 TTTTCAATCTTATTTCTCTGCCCAA 57.462 32.000 0.00 0.00 0.00 4.12
325 352 2.535166 TGAAAGTGTGTACGTGCGTTAC 59.465 45.455 1.66 3.96 0.00 2.50
326 353 2.807044 TGAAAGTGTGTACGTGCGTTA 58.193 42.857 1.66 0.00 0.00 3.18
327 354 1.642728 TGAAAGTGTGTACGTGCGTT 58.357 45.000 1.66 0.00 0.00 4.84
329 356 2.219903 TGATTGAAAGTGTGTACGTGCG 59.780 45.455 0.00 0.00 0.00 5.34
336 375 5.126061 ACAAGCTCTTTGATTGAAAGTGTGT 59.874 36.000 0.61 0.00 44.11 3.72
352 391 1.068121 AACAGGGCCTAACAAGCTCT 58.932 50.000 5.28 0.00 43.59 4.09
354 393 1.133482 ACAAACAGGGCCTAACAAGCT 60.133 47.619 5.28 0.00 0.00 3.74
355 394 1.328279 ACAAACAGGGCCTAACAAGC 58.672 50.000 5.28 0.00 0.00 4.01
356 395 3.383185 TGAAACAAACAGGGCCTAACAAG 59.617 43.478 5.28 0.00 0.00 3.16
358 397 3.019799 TGAAACAAACAGGGCCTAACA 57.980 42.857 5.28 0.00 0.00 2.41
359 398 5.243060 ACTTATGAAACAAACAGGGCCTAAC 59.757 40.000 5.28 0.00 0.00 2.34
428 467 8.434392 ACTTATAAGTCCCTGTAAACAAACAGA 58.566 33.333 12.50 0.00 41.40 3.41
489 528 1.210155 GCGGTGCAACATGGACTTC 59.790 57.895 0.98 0.00 38.83 3.01
569 637 1.597027 CCGCCTCGGTTTGTTCTGT 60.597 57.895 0.00 0.00 42.73 3.41
636 756 4.204891 GTTCAATCGCCGTCGCCG 62.205 66.667 0.00 0.00 35.26 6.46
637 757 3.861263 GGTTCAATCGCCGTCGCC 61.861 66.667 0.00 0.00 35.26 5.54
638 758 4.204891 CGGTTCAATCGCCGTCGC 62.205 66.667 0.00 0.00 42.73 5.19
729 849 6.503944 TCAAATAAGACTCTTAGGGAGGAGT 58.496 40.000 4.82 0.00 45.83 3.85
739 859 9.981460 ATTTGGGACTTATCAAATAAGACTCTT 57.019 29.630 12.43 0.00 43.85 2.85
790 910 3.053544 TCCCACCTAAACCAAACACAAGA 60.054 43.478 0.00 0.00 0.00 3.02
851 972 7.093509 ACAAAACTAAGAGGGTGTTTGTTTCAT 60.094 33.333 0.00 0.00 33.57 2.57
894 1019 1.763968 TCCACCTACAGATCGGACTG 58.236 55.000 0.00 7.90 42.78 3.51
932 1057 0.468400 GACTCCTGCCCTACTCGGAT 60.468 60.000 0.00 0.00 33.16 4.18
1039 1178 0.394899 GGAGGCTTCCATCCCTGTTG 60.395 60.000 10.56 0.00 43.45 3.33
1041 1180 3.746957 GGAGGCTTCCATCCCTGT 58.253 61.111 10.56 0.00 43.45 4.00
1785 2438 1.045407 AGCTGGTTGGTGTACGAGAA 58.955 50.000 0.00 0.00 0.00 2.87
1817 2485 4.003788 CCCTGGCCGTGACTCGTT 62.004 66.667 0.00 0.00 37.94 3.85
1980 2654 3.005472 GCATCTCCAGCGTAGTATTGGTA 59.995 47.826 0.00 0.00 33.65 3.25
2003 2755 4.758251 CCGGAGCACATCACGGCA 62.758 66.667 0.00 0.00 35.76 5.69
2055 2807 2.736995 ACCGCCGTCATCGTTGTG 60.737 61.111 0.00 0.00 35.01 3.33
2138 2896 3.132925 GGCTTCGTAGTCGTAGATCTCT 58.867 50.000 0.00 0.00 40.67 3.10
2210 2968 2.038813 TCTGGATCTCGGTGGCCA 59.961 61.111 0.00 0.00 0.00 5.36
2248 3010 8.449625 GCTATCCCATATCCTAGTTCCTAGATA 58.550 40.741 0.00 0.00 36.26 1.98
2464 3231 4.201724 CTTTACGGAAGAAGCACTACATGC 60.202 45.833 0.00 0.00 45.74 4.06
2476 3243 7.486647 ACGCTCTTATATTTCTTTACGGAAGA 58.513 34.615 0.00 0.00 42.56 2.87
2478 3245 8.483307 AAACGCTCTTATATTTCTTTACGGAA 57.517 30.769 0.00 0.00 0.00 4.30
2528 3295 5.048782 CCTGCAACTTAACTACAGAAATGCA 60.049 40.000 0.00 0.00 38.78 3.96
2582 3349 6.598064 ACAGTCACAAAAGCTTAGTAACTTGT 59.402 34.615 0.00 2.40 0.00 3.16
2679 3447 2.976490 GCTGACAGACCCCAGGCAT 61.976 63.158 6.65 0.00 0.00 4.40
2729 3497 3.160047 ATCTGGAGGAGGCGCTGG 61.160 66.667 7.64 0.00 0.00 4.85
2784 3552 4.058124 CCGTTCTGTTCACTCTGATGAAA 58.942 43.478 4.76 0.00 40.22 2.69
2813 3581 2.963498 GTTACTGCCGTTTCAGGAAC 57.037 50.000 8.33 8.33 46.81 3.62
2838 3606 9.303116 CTCACTCATATTGACTAGGGTACTAAT 57.697 37.037 0.00 0.00 0.00 1.73
2848 3616 7.904558 ATCTGGTTCTCACTCATATTGACTA 57.095 36.000 0.00 0.00 0.00 2.59
2856 3624 4.900652 AGCTCATATCTGGTTCTCACTCAT 59.099 41.667 0.00 0.00 0.00 2.90
2874 3642 4.754618 TCGAGCAAAATTTACTGAAGCTCA 59.245 37.500 17.64 0.00 45.26 4.26
2891 3660 2.145397 ACTCCAGGTAATCTCGAGCA 57.855 50.000 7.81 0.00 34.62 4.26
2899 3668 7.309805 GCCAAAATCAAAAGTACTCCAGGTAAT 60.310 37.037 0.00 0.00 31.56 1.89
3022 3791 7.794349 CGACAACTCTGTAAGAAAATTCAGTTC 59.206 37.037 0.00 0.00 46.34 3.01
3039 3808 0.963962 TCGCCTTAACCGACAACTCT 59.036 50.000 0.00 0.00 0.00 3.24
3072 3841 2.197577 GAAGCATTCAGACTACTCCGC 58.802 52.381 0.00 0.00 46.62 5.54
3228 3997 1.186200 GGGGGAAATCAAAGTCAGCC 58.814 55.000 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.