Multiple sequence alignment - TraesCS3B01G534700

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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 TraesCS3B01G534700 chr3B 100.000 3065 0 0 1 3065 774124255 774127319 0.000000e+00 5661.0
1 TraesCS3B01G534700 chr3B 90.109 1557 134 8 955 2500 774057831 774059378 0.000000e+00 2004.0
2 TraesCS3B01G534700 chr3B 88.896 1612 144 13 895 2500 774153598 774155180 0.000000e+00 1953.0
3 TraesCS3B01G534700 chr3B 89.566 1361 111 15 984 2338 735131619 735130284 0.000000e+00 1698.0
4 TraesCS3B01G534700 chr3B 90.859 722 34 13 2368 3065 735130289 735129576 0.000000e+00 939.0
5 TraesCS3B01G534700 chr3B 86.614 381 51 0 971 1351 774158939 774159319 3.650000e-114 422.0
6 TraesCS3B01G534700 chr3B 84.565 460 30 13 2617 3065 774155201 774155630 4.730000e-113 418.0
7 TraesCS3B01G534700 chr3B 84.636 371 18 12 2617 2970 774059399 774059747 1.760000e-87 333.0
8 TraesCS3B01G534700 chr3B 94.483 145 8 0 2921 3065 774061281 774061425 1.110000e-54 224.0
9 TraesCS3B01G534700 chr3B 93.103 145 10 0 2921 3065 735128045 735127901 2.390000e-51 213.0
10 TraesCS3B01G534700 chr3B 86.264 182 21 3 2485 2662 734993833 734993652 8.670000e-46 195.0
11 TraesCS3B01G534700 chr3D 93.326 1798 95 11 714 2500 579614150 579615933 0.000000e+00 2632.0
12 TraesCS3B01G534700 chr3D 84.227 1883 212 41 955 2788 579598938 579600784 0.000000e+00 1753.0
13 TraesCS3B01G534700 chr3D 87.708 781 81 9 1469 2239 579658836 579659611 0.000000e+00 896.0
14 TraesCS3B01G534700 chr3D 92.063 378 27 3 251 625 579613754 579614131 2.090000e-146 529.0
15 TraesCS3B01G534700 chr3D 85.000 460 28 12 2617 3065 579615954 579616383 2.180000e-116 429.0
16 TraesCS3B01G534700 chr3D 92.417 211 16 0 1 211 579609229 579609439 4.970000e-78 302.0
17 TraesCS3B01G534700 chr3D 82.421 347 37 10 2540 2867 579659685 579660026 6.470000e-72 281.0
18 TraesCS3B01G534700 chr3D 94.286 140 8 0 2926 3065 579617868 579618007 6.660000e-52 215.0
19 TraesCS3B01G534700 chr3A 89.089 2108 168 21 955 3012 714727943 714730038 0.000000e+00 2562.0
20 TraesCS3B01G534700 chr3A 91.269 1340 109 5 831 2167 714758063 714759397 0.000000e+00 1820.0
21 TraesCS3B01G534700 chr3A 86.879 785 88 8 1469 2244 714768994 714769772 0.000000e+00 865.0
22 TraesCS3B01G534700 chr3A 89.035 456 43 5 767 1219 714737596 714738047 2.670000e-155 558.0
23 TraesCS3B01G534700 chr3A 89.841 315 15 6 353 660 714757406 714757710 3.710000e-104 388.0
24 TraesCS3B01G534700 chr3A 86.992 246 27 2 2541 2785 714769865 714770106 3.890000e-69 272.0
25 TraesCS3B01G534700 chr3A 94.118 68 3 1 773 839 714757976 714758043 5.410000e-18 102.0
26 TraesCS3B01G534700 chr3A 98.276 58 0 1 674 730 714757926 714757983 1.940000e-17 100.0
27 TraesCS3B01G534700 chr7B 88.312 462 36 13 205 663 6934359 6934805 3.480000e-149 538.0
28 TraesCS3B01G534700 chr7B 82.623 610 85 14 714 1312 6934804 6935403 1.260000e-143 520.0
29 TraesCS3B01G534700 chr7B 74.477 239 55 6 229 464 201227828 201228063 6.990000e-17 99.0
30 TraesCS3B01G534700 chr7B 96.226 53 2 0 159 211 6934237 6934289 1.510000e-13 87.9
31 TraesCS3B01G534700 chr5D 77.593 241 53 1 205 444 453783706 453783946 8.860000e-31 145.0
32 TraesCS3B01G534700 chr1B 75.564 266 60 5 205 467 329983904 329983641 3.210000e-25 126.0
33 TraesCS3B01G534700 chr1B 85.294 68 10 0 1370 1437 653487149 653487082 1.520000e-08 71.3
34 TraesCS3B01G534700 chr6D 77.273 220 37 10 232 446 32874949 32874738 1.930000e-22 117.0
35 TraesCS3B01G534700 chr1D 75.194 258 59 5 205 459 247814051 247814306 1.930000e-22 117.0
36 TraesCS3B01G534700 chr7A 76.684 193 35 10 279 467 724694887 724694701 6.990000e-17 99.0


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 TraesCS3B01G534700 chr3B 774124255 774127319 3064 False 5661.000000 5661 100.000000 1 3065 1 chr3B.!!$F1 3064
1 TraesCS3B01G534700 chr3B 735127901 735131619 3718 True 950.000000 1698 91.176000 984 3065 3 chr3B.!!$R2 2081
2 TraesCS3B01G534700 chr3B 774153598 774159319 5721 False 931.000000 1953 86.691667 895 3065 3 chr3B.!!$F3 2170
3 TraesCS3B01G534700 chr3B 774057831 774061425 3594 False 853.666667 2004 89.742667 955 3065 3 chr3B.!!$F2 2110
4 TraesCS3B01G534700 chr3D 579598938 579600784 1846 False 1753.000000 1753 84.227000 955 2788 1 chr3D.!!$F1 1833
5 TraesCS3B01G534700 chr3D 579613754 579618007 4253 False 951.250000 2632 91.168750 251 3065 4 chr3D.!!$F3 2814
6 TraesCS3B01G534700 chr3D 579658836 579660026 1190 False 588.500000 896 85.064500 1469 2867 2 chr3D.!!$F4 1398
7 TraesCS3B01G534700 chr3A 714727943 714730038 2095 False 2562.000000 2562 89.089000 955 3012 1 chr3A.!!$F1 2057
8 TraesCS3B01G534700 chr3A 714757406 714759397 1991 False 602.500000 1820 93.376000 353 2167 4 chr3A.!!$F3 1814
9 TraesCS3B01G534700 chr3A 714768994 714770106 1112 False 568.500000 865 86.935500 1469 2785 2 chr3A.!!$F4 1316
10 TraesCS3B01G534700 chr7B 6934237 6935403 1166 False 381.966667 538 89.053667 159 1312 3 chr7B.!!$F2 1153

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
26 27 0.179073 CCCACATCACCGTCATCCTC 60.179 60.0 0.00 0.0 0.0 3.71 F
1762 2109 0.109412 CGACTCCTTACCGGTGACAC 60.109 60.0 19.93 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1954 2307 0.181350 CTAAGATTTGCCGGGGAGCT 59.819 55.0 2.18 0.0 0.00 4.09 R
2843 3293 0.593128 AGAACAAACGCCTGATGCAC 59.407 50.0 0.00 0.0 41.33 4.57 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
18 19 1.596934 ACTAGCACCCACATCACCG 59.403 57.895 0.00 0.00 0.00 4.94
19 20 1.192146 ACTAGCACCCACATCACCGT 61.192 55.000 0.00 0.00 0.00 4.83
20 21 0.460284 CTAGCACCCACATCACCGTC 60.460 60.000 0.00 0.00 0.00 4.79
21 22 1.188871 TAGCACCCACATCACCGTCA 61.189 55.000 0.00 0.00 0.00 4.35
22 23 1.377202 GCACCCACATCACCGTCAT 60.377 57.895 0.00 0.00 0.00 3.06
23 24 1.369091 GCACCCACATCACCGTCATC 61.369 60.000 0.00 0.00 0.00 2.92
24 25 0.744414 CACCCACATCACCGTCATCC 60.744 60.000 0.00 0.00 0.00 3.51
25 26 0.909610 ACCCACATCACCGTCATCCT 60.910 55.000 0.00 0.00 0.00 3.24
26 27 0.179073 CCCACATCACCGTCATCCTC 60.179 60.000 0.00 0.00 0.00 3.71
27 28 0.826715 CCACATCACCGTCATCCTCT 59.173 55.000 0.00 0.00 0.00 3.69
28 29 1.202463 CCACATCACCGTCATCCTCTC 60.202 57.143 0.00 0.00 0.00 3.20
29 30 1.478105 CACATCACCGTCATCCTCTCA 59.522 52.381 0.00 0.00 0.00 3.27
30 31 2.094026 CACATCACCGTCATCCTCTCAA 60.094 50.000 0.00 0.00 0.00 3.02
31 32 2.567169 ACATCACCGTCATCCTCTCAAA 59.433 45.455 0.00 0.00 0.00 2.69
32 33 3.198635 ACATCACCGTCATCCTCTCAAAT 59.801 43.478 0.00 0.00 0.00 2.32
33 34 3.526931 TCACCGTCATCCTCTCAAATC 57.473 47.619 0.00 0.00 0.00 2.17
34 35 2.168521 TCACCGTCATCCTCTCAAATCC 59.831 50.000 0.00 0.00 0.00 3.01
35 36 2.169352 CACCGTCATCCTCTCAAATCCT 59.831 50.000 0.00 0.00 0.00 3.24
36 37 3.384789 CACCGTCATCCTCTCAAATCCTA 59.615 47.826 0.00 0.00 0.00 2.94
37 38 3.639094 ACCGTCATCCTCTCAAATCCTAG 59.361 47.826 0.00 0.00 0.00 3.02
38 39 3.891977 CCGTCATCCTCTCAAATCCTAGA 59.108 47.826 0.00 0.00 0.00 2.43
39 40 4.261825 CCGTCATCCTCTCAAATCCTAGAC 60.262 50.000 0.00 0.00 0.00 2.59
40 41 4.582656 CGTCATCCTCTCAAATCCTAGACT 59.417 45.833 0.00 0.00 0.00 3.24
41 42 5.068460 CGTCATCCTCTCAAATCCTAGACTT 59.932 44.000 0.00 0.00 0.00 3.01
42 43 6.512297 GTCATCCTCTCAAATCCTAGACTTC 58.488 44.000 0.00 0.00 0.00 3.01
43 44 6.097554 GTCATCCTCTCAAATCCTAGACTTCA 59.902 42.308 0.00 0.00 0.00 3.02
44 45 6.669591 TCATCCTCTCAAATCCTAGACTTCAA 59.330 38.462 0.00 0.00 0.00 2.69
45 46 7.346698 TCATCCTCTCAAATCCTAGACTTCAAT 59.653 37.037 0.00 0.00 0.00 2.57
46 47 7.118496 TCCTCTCAAATCCTAGACTTCAATC 57.882 40.000 0.00 0.00 0.00 2.67
47 48 6.098982 TCCTCTCAAATCCTAGACTTCAATCC 59.901 42.308 0.00 0.00 0.00 3.01
48 49 6.126940 CCTCTCAAATCCTAGACTTCAATCCA 60.127 42.308 0.00 0.00 0.00 3.41
49 50 7.419981 CCTCTCAAATCCTAGACTTCAATCCAT 60.420 40.741 0.00 0.00 0.00 3.41
50 51 7.278135 TCTCAAATCCTAGACTTCAATCCATG 58.722 38.462 0.00 0.00 0.00 3.66
51 52 7.126268 TCTCAAATCCTAGACTTCAATCCATGA 59.874 37.037 0.00 0.00 35.85 3.07
52 53 7.632861 TCAAATCCTAGACTTCAATCCATGAA 58.367 34.615 0.00 0.00 45.71 2.57
53 54 7.554118 TCAAATCCTAGACTTCAATCCATGAAC 59.446 37.037 0.00 0.00 43.08 3.18
54 55 6.821616 ATCCTAGACTTCAATCCATGAACT 57.178 37.500 0.00 0.00 43.08 3.01
55 56 7.921041 ATCCTAGACTTCAATCCATGAACTA 57.079 36.000 0.00 0.00 43.08 2.24
56 57 7.921041 TCCTAGACTTCAATCCATGAACTAT 57.079 36.000 0.00 0.00 43.08 2.12
57 58 8.324191 TCCTAGACTTCAATCCATGAACTATT 57.676 34.615 0.00 0.00 43.08 1.73
58 59 8.424918 TCCTAGACTTCAATCCATGAACTATTC 58.575 37.037 0.00 0.00 43.08 1.75
59 60 8.428063 CCTAGACTTCAATCCATGAACTATTCT 58.572 37.037 0.00 0.00 43.08 2.40
60 61 9.829507 CTAGACTTCAATCCATGAACTATTCTT 57.170 33.333 0.00 0.00 43.08 2.52
62 63 9.171877 AGACTTCAATCCATGAACTATTCTTTC 57.828 33.333 0.00 0.00 43.08 2.62
63 64 8.868522 ACTTCAATCCATGAACTATTCTTTCA 57.131 30.769 0.00 0.00 43.08 2.69
64 65 8.954350 ACTTCAATCCATGAACTATTCTTTCAG 58.046 33.333 0.00 0.00 43.08 3.02
65 66 9.170734 CTTCAATCCATGAACTATTCTTTCAGA 57.829 33.333 0.00 0.00 43.08 3.27
66 67 9.690913 TTCAATCCATGAACTATTCTTTCAGAT 57.309 29.630 0.00 0.00 43.08 2.90
67 68 9.690913 TCAATCCATGAACTATTCTTTCAGATT 57.309 29.630 0.00 0.00 36.44 2.40
86 87 8.948631 TCAGATTAGTTGTTATGATCACTTCC 57.051 34.615 0.00 0.00 0.00 3.46
87 88 8.762645 TCAGATTAGTTGTTATGATCACTTCCT 58.237 33.333 0.00 0.00 0.00 3.36
88 89 8.824781 CAGATTAGTTGTTATGATCACTTCCTG 58.175 37.037 0.00 0.00 0.00 3.86
89 90 6.985188 TTAGTTGTTATGATCACTTCCTGC 57.015 37.500 0.00 0.00 0.00 4.85
90 91 5.171339 AGTTGTTATGATCACTTCCTGCT 57.829 39.130 0.00 0.00 0.00 4.24
91 92 6.299805 AGTTGTTATGATCACTTCCTGCTA 57.700 37.500 0.00 0.00 0.00 3.49
92 93 6.893583 AGTTGTTATGATCACTTCCTGCTAT 58.106 36.000 0.00 0.00 0.00 2.97
93 94 7.341805 AGTTGTTATGATCACTTCCTGCTATT 58.658 34.615 0.00 0.00 0.00 1.73
94 95 8.486210 AGTTGTTATGATCACTTCCTGCTATTA 58.514 33.333 0.00 0.00 0.00 0.98
95 96 9.109393 GTTGTTATGATCACTTCCTGCTATTAA 57.891 33.333 0.00 0.00 0.00 1.40
96 97 9.851686 TTGTTATGATCACTTCCTGCTATTAAT 57.148 29.630 0.00 0.00 0.00 1.40
97 98 9.851686 TGTTATGATCACTTCCTGCTATTAATT 57.148 29.630 0.00 0.00 0.00 1.40
99 100 6.624352 TGATCACTTCCTGCTATTAATTGC 57.376 37.500 14.01 14.01 0.00 3.56
100 101 6.359804 TGATCACTTCCTGCTATTAATTGCT 58.640 36.000 20.06 0.00 0.00 3.91
101 102 6.830324 TGATCACTTCCTGCTATTAATTGCTT 59.170 34.615 20.06 0.00 0.00 3.91
102 103 6.683974 TCACTTCCTGCTATTAATTGCTTC 57.316 37.500 20.06 0.00 0.00 3.86
103 104 6.418101 TCACTTCCTGCTATTAATTGCTTCT 58.582 36.000 20.06 0.00 0.00 2.85
104 105 6.540189 TCACTTCCTGCTATTAATTGCTTCTC 59.460 38.462 20.06 0.00 0.00 2.87
105 106 6.317140 CACTTCCTGCTATTAATTGCTTCTCA 59.683 38.462 20.06 1.88 0.00 3.27
106 107 7.013083 CACTTCCTGCTATTAATTGCTTCTCAT 59.987 37.037 20.06 2.89 0.00 2.90
107 108 7.559170 ACTTCCTGCTATTAATTGCTTCTCATT 59.441 33.333 20.06 0.55 0.00 2.57
108 109 7.268199 TCCTGCTATTAATTGCTTCTCATTG 57.732 36.000 20.06 3.49 0.00 2.82
109 110 5.919141 CCTGCTATTAATTGCTTCTCATTGC 59.081 40.000 20.06 0.00 0.00 3.56
110 111 6.238953 CCTGCTATTAATTGCTTCTCATTGCT 60.239 38.462 20.06 0.00 0.00 3.91
111 112 7.104043 TGCTATTAATTGCTTCTCATTGCTT 57.896 32.000 20.06 0.00 0.00 3.91
112 113 6.976349 TGCTATTAATTGCTTCTCATTGCTTG 59.024 34.615 20.06 0.00 0.00 4.01
113 114 7.148035 TGCTATTAATTGCTTCTCATTGCTTGA 60.148 33.333 20.06 0.00 0.00 3.02
114 115 7.866393 GCTATTAATTGCTTCTCATTGCTTGAT 59.134 33.333 13.68 0.00 32.72 2.57
115 116 9.181805 CTATTAATTGCTTCTCATTGCTTGATG 57.818 33.333 0.00 0.00 32.72 3.07
116 117 5.401531 AATTGCTTCTCATTGCTTGATGT 57.598 34.783 0.00 0.00 32.72 3.06
117 118 4.859304 TTGCTTCTCATTGCTTGATGTT 57.141 36.364 0.00 0.00 32.72 2.71
118 119 4.859304 TGCTTCTCATTGCTTGATGTTT 57.141 36.364 0.00 0.00 32.72 2.83
119 120 5.963176 TGCTTCTCATTGCTTGATGTTTA 57.037 34.783 0.00 0.00 32.72 2.01
120 121 5.702865 TGCTTCTCATTGCTTGATGTTTAC 58.297 37.500 0.00 0.00 32.72 2.01
121 122 5.474532 TGCTTCTCATTGCTTGATGTTTACT 59.525 36.000 0.00 0.00 32.72 2.24
122 123 5.798934 GCTTCTCATTGCTTGATGTTTACTG 59.201 40.000 0.00 0.00 32.72 2.74
123 124 6.348786 GCTTCTCATTGCTTGATGTTTACTGA 60.349 38.462 0.00 0.00 32.72 3.41
124 125 7.627939 GCTTCTCATTGCTTGATGTTTACTGAT 60.628 37.037 0.00 0.00 32.72 2.90
125 126 7.692460 TCTCATTGCTTGATGTTTACTGATT 57.308 32.000 0.00 0.00 32.72 2.57
126 127 8.114331 TCTCATTGCTTGATGTTTACTGATTT 57.886 30.769 0.00 0.00 32.72 2.17
127 128 8.024865 TCTCATTGCTTGATGTTTACTGATTTG 58.975 33.333 0.00 0.00 32.72 2.32
128 129 6.587226 TCATTGCTTGATGTTTACTGATTTGC 59.413 34.615 0.00 0.00 0.00 3.68
129 130 5.710513 TGCTTGATGTTTACTGATTTGCT 57.289 34.783 0.00 0.00 0.00 3.91
130 131 5.463286 TGCTTGATGTTTACTGATTTGCTG 58.537 37.500 0.00 0.00 0.00 4.41
131 132 4.860907 GCTTGATGTTTACTGATTTGCTGG 59.139 41.667 0.00 0.00 0.00 4.85
132 133 5.565439 GCTTGATGTTTACTGATTTGCTGGT 60.565 40.000 0.00 0.00 0.00 4.00
133 134 6.349280 GCTTGATGTTTACTGATTTGCTGGTA 60.349 38.462 0.00 0.00 0.00 3.25
134 135 7.517614 TTGATGTTTACTGATTTGCTGGTAA 57.482 32.000 0.00 0.00 0.00 2.85
135 136 7.517614 TGATGTTTACTGATTTGCTGGTAAA 57.482 32.000 0.00 0.00 33.55 2.01
136 137 7.592938 TGATGTTTACTGATTTGCTGGTAAAG 58.407 34.615 0.00 0.00 35.66 1.85
137 138 7.446931 TGATGTTTACTGATTTGCTGGTAAAGA 59.553 33.333 0.00 0.00 35.66 2.52
138 139 7.759489 TGTTTACTGATTTGCTGGTAAAGAT 57.241 32.000 0.00 0.00 35.66 2.40
139 140 8.177119 TGTTTACTGATTTGCTGGTAAAGATT 57.823 30.769 0.00 0.00 35.66 2.40
140 141 8.637986 TGTTTACTGATTTGCTGGTAAAGATTT 58.362 29.630 0.00 0.00 35.66 2.17
141 142 8.915654 GTTTACTGATTTGCTGGTAAAGATTTG 58.084 33.333 0.00 0.00 35.66 2.32
142 143 6.655078 ACTGATTTGCTGGTAAAGATTTGT 57.345 33.333 0.00 0.00 0.00 2.83
143 144 7.054491 ACTGATTTGCTGGTAAAGATTTGTT 57.946 32.000 0.00 0.00 0.00 2.83
144 145 7.500141 ACTGATTTGCTGGTAAAGATTTGTTT 58.500 30.769 0.00 0.00 0.00 2.83
145 146 7.439056 ACTGATTTGCTGGTAAAGATTTGTTTG 59.561 33.333 0.00 0.00 0.00 2.93
146 147 7.271511 TGATTTGCTGGTAAAGATTTGTTTGT 58.728 30.769 0.00 0.00 0.00 2.83
147 148 7.768120 TGATTTGCTGGTAAAGATTTGTTTGTT 59.232 29.630 0.00 0.00 0.00 2.83
148 149 7.913674 TTTGCTGGTAAAGATTTGTTTGTTT 57.086 28.000 0.00 0.00 0.00 2.83
149 150 9.606631 ATTTGCTGGTAAAGATTTGTTTGTTTA 57.393 25.926 0.00 0.00 0.00 2.01
150 151 9.606631 TTTGCTGGTAAAGATTTGTTTGTTTAT 57.393 25.926 0.00 0.00 0.00 1.40
151 152 8.810652 TGCTGGTAAAGATTTGTTTGTTTATC 57.189 30.769 0.00 0.00 0.00 1.75
152 153 8.417106 TGCTGGTAAAGATTTGTTTGTTTATCA 58.583 29.630 0.00 0.00 0.00 2.15
153 154 9.423061 GCTGGTAAAGATTTGTTTGTTTATCAT 57.577 29.630 0.00 0.00 27.91 2.45
170 171 9.330063 TGTTTATCATATCCTTAGCAAACTGAG 57.670 33.333 0.00 0.00 0.00 3.35
208 285 8.642432 TGATGTCTCATAAGTAGTCCCTTTATG 58.358 37.037 0.00 0.00 36.56 1.90
216 293 9.661563 CATAAGTAGTCCCTTTATGTTGTGTTA 57.338 33.333 0.00 0.00 32.67 2.41
245 322 1.896220 AGTGGTGATGTGCGAACATT 58.104 45.000 11.20 0.00 0.00 2.71
246 323 1.536766 AGTGGTGATGTGCGAACATTG 59.463 47.619 11.20 0.00 0.00 2.82
248 325 1.535028 TGGTGATGTGCGAACATTGAC 59.465 47.619 11.20 10.47 0.00 3.18
271 348 8.977412 TGACTACATATTACTTCACCTTGATGA 58.023 33.333 0.00 0.00 0.00 2.92
304 381 6.382869 AGAGCATTATGTGATAAGTTTGCC 57.617 37.500 0.00 0.00 31.77 4.52
316 394 0.706433 AGTTTGCCTGGATGGATGGT 59.294 50.000 0.00 0.00 38.35 3.55
343 421 4.013728 GTGACAAATATTGTAGTGCCCCA 58.986 43.478 0.00 0.00 45.52 4.96
400 482 5.241728 GGACCCTTAAGTTCAATGATATGGC 59.758 44.000 0.97 0.00 0.00 4.40
447 533 5.772825 TGTATTTAGGGATGCTTGCATTC 57.227 39.130 9.59 7.44 0.00 2.67
485 571 7.667219 ACAAGGATCACATCACTTATCAAAAGT 59.333 33.333 0.00 0.00 0.00 2.66
525 611 4.497291 TGGAACTAGGTGAACACAACTT 57.503 40.909 7.25 0.00 33.36 2.66
599 685 1.136336 CGGTTTGTTCTTAGCTCACGC 60.136 52.381 0.00 0.00 0.00 5.34
663 749 5.476950 TTATATAGGCCTCGGATCCCTTA 57.523 43.478 9.68 0.00 0.00 2.69
665 751 1.938585 TAGGCCTCGGATCCCTTATG 58.061 55.000 9.68 0.00 0.00 1.90
666 752 1.003233 GGCCTCGGATCCCTTATGC 60.003 63.158 6.06 2.01 0.00 3.14
667 753 1.754745 GCCTCGGATCCCTTATGCA 59.245 57.895 6.06 0.00 0.00 3.96
668 754 0.321122 GCCTCGGATCCCTTATGCAG 60.321 60.000 6.06 0.00 0.00 4.41
669 755 1.342074 CCTCGGATCCCTTATGCAGA 58.658 55.000 6.06 0.00 0.00 4.26
672 758 0.321122 CGGATCCCTTATGCAGAGGC 60.321 60.000 6.06 1.13 41.68 4.70
835 1126 4.120589 AGTTGGACTGTCGTCTCTTTTTC 58.879 43.478 1.07 0.00 40.10 2.29
839 1156 4.099573 TGGACTGTCGTCTCTTTTTCTTCT 59.900 41.667 1.07 0.00 40.10 2.85
842 1159 6.292435 GGACTGTCGTCTCTTTTTCTTCTTTC 60.292 42.308 1.07 0.00 40.10 2.62
843 1160 6.342111 ACTGTCGTCTCTTTTTCTTCTTTCT 58.658 36.000 0.00 0.00 0.00 2.52
845 1162 7.005062 TGTCGTCTCTTTTTCTTCTTTCTTG 57.995 36.000 0.00 0.00 0.00 3.02
863 1180 4.138290 TCTTGGAAATAAAACCAGCGTCA 58.862 39.130 0.00 0.00 37.48 4.35
864 1181 4.764823 TCTTGGAAATAAAACCAGCGTCAT 59.235 37.500 0.00 0.00 37.48 3.06
865 1182 4.695217 TGGAAATAAAACCAGCGTCATC 57.305 40.909 0.00 0.00 0.00 2.92
876 1193 1.063649 GCGTCATCTCGCGTCCTTA 59.936 57.895 5.77 0.00 46.31 2.69
880 1197 2.395654 GTCATCTCGCGTCCTTATTCC 58.604 52.381 5.77 0.00 0.00 3.01
903 1220 2.038557 TCCCCTTCTTCCTCTTTTCACG 59.961 50.000 0.00 0.00 0.00 4.35
940 1257 4.589374 CCCTAAACCCTACCAGATCAGTAG 59.411 50.000 13.41 13.41 37.53 2.57
946 1263 4.215908 CCCTACCAGATCAGTAGCACTTA 58.784 47.826 14.47 0.00 36.65 2.24
950 1267 2.427453 CCAGATCAGTAGCACTTACGGT 59.573 50.000 0.00 0.00 37.35 4.83
952 1269 2.427453 AGATCAGTAGCACTTACGGTGG 59.573 50.000 0.00 0.00 45.44 4.61
982 1304 4.899239 GTCGCAGCTCCCCCATCG 62.899 72.222 0.00 0.00 0.00 3.84
1240 1562 3.175152 CTGTTCCTCGTTCTCGATGAAG 58.825 50.000 8.13 0.00 45.65 3.02
1314 1636 1.073923 ACGGACCAAGCTCCTTCATTT 59.926 47.619 0.00 0.00 0.00 2.32
1418 1740 2.283617 CGAAGCATCTCAAGGACGATTG 59.716 50.000 0.00 0.00 0.00 2.67
1527 1849 1.379916 CCCATCTGACCTGCACCAA 59.620 57.895 0.00 0.00 0.00 3.67
1633 1977 3.451556 CTCGCTGCCCGATCACCAT 62.452 63.158 0.00 0.00 46.31 3.55
1762 2109 0.109412 CGACTCCTTACCGGTGACAC 60.109 60.000 19.93 0.00 0.00 3.67
1763 2110 1.254954 GACTCCTTACCGGTGACACT 58.745 55.000 19.93 0.00 0.00 3.55
1783 2136 6.102663 ACACTAAAGGAAGATGAAGATGTCG 58.897 40.000 0.00 0.00 0.00 4.35
1788 2141 3.259374 AGGAAGATGAAGATGTCGTGTGT 59.741 43.478 0.00 0.00 0.00 3.72
1887 2240 1.598882 TCAACGCAGGCACAATAACA 58.401 45.000 0.00 0.00 0.00 2.41
1899 2252 4.022416 GGCACAATAACAAACATCCTGACA 60.022 41.667 0.00 0.00 0.00 3.58
1954 2307 7.524717 AAGAAGGCATGCTTAAGTTTTCTTA 57.475 32.000 18.92 0.00 40.91 2.10
2193 2552 6.095160 CCGCGGTTATCTTAGATTCCTAGTAT 59.905 42.308 19.50 0.00 0.00 2.12
2222 2581 7.613022 TCAGACTACCTATCCTAACTTTCGAAA 59.387 37.037 10.71 10.71 0.00 3.46
2268 2631 8.028354 TCTATTATGGCACTGTCATTTTGTTTG 58.972 33.333 0.43 0.00 0.00 2.93
2354 2721 7.389232 TCAGGTAGCAGTCCATGAATTATATG 58.611 38.462 0.00 0.00 0.00 1.78
2408 2776 6.189859 TGGGAAGCATCTATCAAAGAACATT 58.810 36.000 0.00 0.00 37.89 2.71
2654 3080 1.640428 TAGTGCGTTGCTATGTGCTC 58.360 50.000 0.00 0.00 43.37 4.26
2735 3167 2.758979 CAGGCTTGCAATTTCTCTGGAT 59.241 45.455 0.00 0.00 0.00 3.41
2757 3193 6.808704 GGATGCCTACTGTTTTTCTTTTCATC 59.191 38.462 0.00 0.00 0.00 2.92
2809 3259 5.524281 GGGTTTCGAATAAATCTCAGTCCTC 59.476 44.000 0.00 0.00 0.00 3.71
2843 3293 5.103000 CACCAAGGAGTATTCAGTTACTCG 58.897 45.833 5.75 0.00 45.96 4.18
2923 3394 8.783093 TCATGAATTTCCAGTTACTGTGTAAAG 58.217 33.333 11.68 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.192146 ACGGTGATGTGGGTGCTAGT 61.192 55.000 0.00 0.00 0.00 2.57
1 2 0.460284 GACGGTGATGTGGGTGCTAG 60.460 60.000 0.00 0.00 0.00 3.42
2 3 1.188871 TGACGGTGATGTGGGTGCTA 61.189 55.000 0.00 0.00 0.00 3.49
3 4 1.841302 ATGACGGTGATGTGGGTGCT 61.841 55.000 0.00 0.00 0.00 4.40
4 5 1.369091 GATGACGGTGATGTGGGTGC 61.369 60.000 0.00 0.00 0.00 5.01
5 6 0.744414 GGATGACGGTGATGTGGGTG 60.744 60.000 0.00 0.00 0.00 4.61
6 7 0.909610 AGGATGACGGTGATGTGGGT 60.910 55.000 0.00 0.00 0.00 4.51
7 8 0.179073 GAGGATGACGGTGATGTGGG 60.179 60.000 0.00 0.00 0.00 4.61
8 9 0.826715 AGAGGATGACGGTGATGTGG 59.173 55.000 0.00 0.00 0.00 4.17
9 10 1.478105 TGAGAGGATGACGGTGATGTG 59.522 52.381 0.00 0.00 0.00 3.21
10 11 1.852633 TGAGAGGATGACGGTGATGT 58.147 50.000 0.00 0.00 0.00 3.06
11 12 2.967599 TTGAGAGGATGACGGTGATG 57.032 50.000 0.00 0.00 0.00 3.07
12 13 3.181461 GGATTTGAGAGGATGACGGTGAT 60.181 47.826 0.00 0.00 0.00 3.06
13 14 2.168521 GGATTTGAGAGGATGACGGTGA 59.831 50.000 0.00 0.00 0.00 4.02
14 15 2.169352 AGGATTTGAGAGGATGACGGTG 59.831 50.000 0.00 0.00 0.00 4.94
15 16 2.472029 AGGATTTGAGAGGATGACGGT 58.528 47.619 0.00 0.00 0.00 4.83
16 17 3.891977 TCTAGGATTTGAGAGGATGACGG 59.108 47.826 0.00 0.00 0.00 4.79
17 18 4.582656 AGTCTAGGATTTGAGAGGATGACG 59.417 45.833 0.00 0.00 0.00 4.35
18 19 6.097554 TGAAGTCTAGGATTTGAGAGGATGAC 59.902 42.308 0.00 0.00 0.00 3.06
19 20 6.197903 TGAAGTCTAGGATTTGAGAGGATGA 58.802 40.000 0.00 0.00 0.00 2.92
20 21 6.477053 TGAAGTCTAGGATTTGAGAGGATG 57.523 41.667 0.00 0.00 0.00 3.51
21 22 7.202084 GGATTGAAGTCTAGGATTTGAGAGGAT 60.202 40.741 0.00 0.00 0.00 3.24
22 23 6.098982 GGATTGAAGTCTAGGATTTGAGAGGA 59.901 42.308 0.00 0.00 0.00 3.71
23 24 6.126940 TGGATTGAAGTCTAGGATTTGAGAGG 60.127 42.308 0.00 0.00 0.00 3.69
24 25 6.882656 TGGATTGAAGTCTAGGATTTGAGAG 58.117 40.000 0.00 0.00 0.00 3.20
25 26 6.874278 TGGATTGAAGTCTAGGATTTGAGA 57.126 37.500 0.00 0.00 0.00 3.27
26 27 7.278135 TCATGGATTGAAGTCTAGGATTTGAG 58.722 38.462 0.00 0.00 0.00 3.02
27 28 7.199167 TCATGGATTGAAGTCTAGGATTTGA 57.801 36.000 0.00 0.00 0.00 2.69
28 29 7.555554 AGTTCATGGATTGAAGTCTAGGATTTG 59.444 37.037 0.00 0.00 43.13 2.32
29 30 7.637511 AGTTCATGGATTGAAGTCTAGGATTT 58.362 34.615 0.00 0.00 43.13 2.17
30 31 7.205515 AGTTCATGGATTGAAGTCTAGGATT 57.794 36.000 0.00 0.00 43.13 3.01
31 32 6.821616 AGTTCATGGATTGAAGTCTAGGAT 57.178 37.500 0.00 0.00 43.13 3.24
32 33 7.921041 ATAGTTCATGGATTGAAGTCTAGGA 57.079 36.000 0.00 0.00 43.13 2.94
33 34 8.428063 AGAATAGTTCATGGATTGAAGTCTAGG 58.572 37.037 0.00 0.00 43.13 3.02
34 35 9.829507 AAGAATAGTTCATGGATTGAAGTCTAG 57.170 33.333 0.00 0.00 43.13 2.43
36 37 9.171877 GAAAGAATAGTTCATGGATTGAAGTCT 57.828 33.333 0.00 0.00 43.13 3.24
37 38 8.950210 TGAAAGAATAGTTCATGGATTGAAGTC 58.050 33.333 0.00 0.00 43.13 3.01
38 39 8.868522 TGAAAGAATAGTTCATGGATTGAAGT 57.131 30.769 0.00 1.72 44.89 3.01
39 40 9.170734 TCTGAAAGAATAGTTCATGGATTGAAG 57.829 33.333 0.00 0.00 42.31 3.02
60 61 9.383519 GGAAGTGATCATAACAACTAATCTGAA 57.616 33.333 0.00 0.00 0.00 3.02
61 62 8.762645 AGGAAGTGATCATAACAACTAATCTGA 58.237 33.333 0.00 0.00 0.00 3.27
62 63 8.824781 CAGGAAGTGATCATAACAACTAATCTG 58.175 37.037 0.00 0.00 0.00 2.90
63 64 7.497249 GCAGGAAGTGATCATAACAACTAATCT 59.503 37.037 0.00 0.00 0.00 2.40
64 65 7.497249 AGCAGGAAGTGATCATAACAACTAATC 59.503 37.037 0.00 0.00 0.00 1.75
65 66 7.341805 AGCAGGAAGTGATCATAACAACTAAT 58.658 34.615 0.00 0.00 0.00 1.73
66 67 6.711277 AGCAGGAAGTGATCATAACAACTAA 58.289 36.000 0.00 0.00 0.00 2.24
67 68 6.299805 AGCAGGAAGTGATCATAACAACTA 57.700 37.500 0.00 0.00 0.00 2.24
68 69 5.171339 AGCAGGAAGTGATCATAACAACT 57.829 39.130 0.00 0.00 0.00 3.16
69 70 7.559590 AATAGCAGGAAGTGATCATAACAAC 57.440 36.000 0.00 0.00 0.00 3.32
70 71 9.851686 ATTAATAGCAGGAAGTGATCATAACAA 57.148 29.630 0.00 0.00 0.00 2.83
71 72 9.851686 AATTAATAGCAGGAAGTGATCATAACA 57.148 29.630 0.00 0.00 0.00 2.41
73 74 8.786898 GCAATTAATAGCAGGAAGTGATCATAA 58.213 33.333 0.00 0.00 0.00 1.90
74 75 8.159447 AGCAATTAATAGCAGGAAGTGATCATA 58.841 33.333 0.00 0.00 0.00 2.15
75 76 7.002879 AGCAATTAATAGCAGGAAGTGATCAT 58.997 34.615 0.00 0.00 0.00 2.45
76 77 6.359804 AGCAATTAATAGCAGGAAGTGATCA 58.640 36.000 0.00 0.00 0.00 2.92
77 78 6.874288 AGCAATTAATAGCAGGAAGTGATC 57.126 37.500 0.00 0.00 0.00 2.92
78 79 7.059156 AGAAGCAATTAATAGCAGGAAGTGAT 58.941 34.615 0.00 0.00 0.00 3.06
79 80 6.418101 AGAAGCAATTAATAGCAGGAAGTGA 58.582 36.000 0.00 0.00 0.00 3.41
80 81 6.317140 TGAGAAGCAATTAATAGCAGGAAGTG 59.683 38.462 0.00 0.00 0.00 3.16
81 82 6.418101 TGAGAAGCAATTAATAGCAGGAAGT 58.582 36.000 0.00 0.00 0.00 3.01
82 83 6.932356 TGAGAAGCAATTAATAGCAGGAAG 57.068 37.500 0.00 0.00 0.00 3.46
83 84 7.682741 GCAATGAGAAGCAATTAATAGCAGGAA 60.683 37.037 0.00 0.00 0.00 3.36
84 85 6.238842 GCAATGAGAAGCAATTAATAGCAGGA 60.239 38.462 0.00 0.00 0.00 3.86
85 86 5.919141 GCAATGAGAAGCAATTAATAGCAGG 59.081 40.000 0.00 0.00 0.00 4.85
86 87 6.736123 AGCAATGAGAAGCAATTAATAGCAG 58.264 36.000 0.00 0.00 0.00 4.24
87 88 6.704289 AGCAATGAGAAGCAATTAATAGCA 57.296 33.333 0.00 0.00 0.00 3.49
88 89 7.198390 TCAAGCAATGAGAAGCAATTAATAGC 58.802 34.615 0.00 0.00 33.04 2.97
89 90 9.181805 CATCAAGCAATGAGAAGCAATTAATAG 57.818 33.333 0.00 0.00 42.53 1.73
90 91 8.689061 ACATCAAGCAATGAGAAGCAATTAATA 58.311 29.630 0.00 0.00 42.53 0.98
91 92 7.553334 ACATCAAGCAATGAGAAGCAATTAAT 58.447 30.769 1.32 0.00 42.53 1.40
92 93 6.927416 ACATCAAGCAATGAGAAGCAATTAA 58.073 32.000 1.32 0.00 42.53 1.40
93 94 6.519679 ACATCAAGCAATGAGAAGCAATTA 57.480 33.333 1.32 0.00 42.53 1.40
94 95 5.401531 ACATCAAGCAATGAGAAGCAATT 57.598 34.783 1.32 0.00 42.53 2.32
95 96 5.401531 AACATCAAGCAATGAGAAGCAAT 57.598 34.783 1.32 0.00 42.53 3.56
96 97 4.859304 AACATCAAGCAATGAGAAGCAA 57.141 36.364 1.32 0.00 42.53 3.91
97 98 4.859304 AAACATCAAGCAATGAGAAGCA 57.141 36.364 1.32 0.00 42.53 3.91
98 99 5.798934 CAGTAAACATCAAGCAATGAGAAGC 59.201 40.000 1.32 0.00 42.53 3.86
99 100 7.137490 TCAGTAAACATCAAGCAATGAGAAG 57.863 36.000 1.32 0.00 42.53 2.85
100 101 7.692460 ATCAGTAAACATCAAGCAATGAGAA 57.308 32.000 1.32 0.00 42.53 2.87
101 102 7.692460 AATCAGTAAACATCAAGCAATGAGA 57.308 32.000 1.32 0.00 42.53 3.27
102 103 7.201410 GCAAATCAGTAAACATCAAGCAATGAG 60.201 37.037 1.32 0.00 42.53 2.90
103 104 6.587226 GCAAATCAGTAAACATCAAGCAATGA 59.413 34.615 1.32 0.00 43.67 2.57
104 105 6.588756 AGCAAATCAGTAAACATCAAGCAATG 59.411 34.615 0.00 0.00 0.00 2.82
105 106 6.588756 CAGCAAATCAGTAAACATCAAGCAAT 59.411 34.615 0.00 0.00 0.00 3.56
106 107 5.921976 CAGCAAATCAGTAAACATCAAGCAA 59.078 36.000 0.00 0.00 0.00 3.91
107 108 5.463286 CAGCAAATCAGTAAACATCAAGCA 58.537 37.500 0.00 0.00 0.00 3.91
108 109 4.860907 CCAGCAAATCAGTAAACATCAAGC 59.139 41.667 0.00 0.00 0.00 4.01
109 110 6.017400 ACCAGCAAATCAGTAAACATCAAG 57.983 37.500 0.00 0.00 0.00 3.02
110 111 7.517614 TTACCAGCAAATCAGTAAACATCAA 57.482 32.000 0.00 0.00 0.00 2.57
111 112 7.446931 TCTTTACCAGCAAATCAGTAAACATCA 59.553 33.333 0.00 0.00 32.73 3.07
112 113 7.816640 TCTTTACCAGCAAATCAGTAAACATC 58.183 34.615 0.00 0.00 32.73 3.06
113 114 7.759489 TCTTTACCAGCAAATCAGTAAACAT 57.241 32.000 0.00 0.00 32.73 2.71
114 115 7.759489 ATCTTTACCAGCAAATCAGTAAACA 57.241 32.000 0.00 0.00 32.73 2.83
115 116 8.915654 CAAATCTTTACCAGCAAATCAGTAAAC 58.084 33.333 0.00 0.00 32.73 2.01
116 117 8.637986 ACAAATCTTTACCAGCAAATCAGTAAA 58.362 29.630 0.00 0.00 34.47 2.01
117 118 8.177119 ACAAATCTTTACCAGCAAATCAGTAA 57.823 30.769 0.00 0.00 0.00 2.24
118 119 7.759489 ACAAATCTTTACCAGCAAATCAGTA 57.241 32.000 0.00 0.00 0.00 2.74
119 120 6.655078 ACAAATCTTTACCAGCAAATCAGT 57.345 33.333 0.00 0.00 0.00 3.41
120 121 7.439056 ACAAACAAATCTTTACCAGCAAATCAG 59.561 33.333 0.00 0.00 0.00 2.90
121 122 7.271511 ACAAACAAATCTTTACCAGCAAATCA 58.728 30.769 0.00 0.00 0.00 2.57
122 123 7.713764 ACAAACAAATCTTTACCAGCAAATC 57.286 32.000 0.00 0.00 0.00 2.17
123 124 8.504812 AAACAAACAAATCTTTACCAGCAAAT 57.495 26.923 0.00 0.00 0.00 2.32
124 125 7.913674 AAACAAACAAATCTTTACCAGCAAA 57.086 28.000 0.00 0.00 0.00 3.68
125 126 9.255304 GATAAACAAACAAATCTTTACCAGCAA 57.745 29.630 0.00 0.00 0.00 3.91
126 127 8.417106 TGATAAACAAACAAATCTTTACCAGCA 58.583 29.630 0.00 0.00 0.00 4.41
127 128 8.810652 TGATAAACAAACAAATCTTTACCAGC 57.189 30.769 0.00 0.00 0.00 4.85
143 144 9.679661 TCAGTTTGCTAAGGATATGATAAACAA 57.320 29.630 0.00 0.00 31.26 2.83
144 145 9.330063 CTCAGTTTGCTAAGGATATGATAAACA 57.670 33.333 0.00 0.00 31.26 2.83
145 146 8.286097 GCTCAGTTTGCTAAGGATATGATAAAC 58.714 37.037 0.00 0.00 0.00 2.01
146 147 7.992608 TGCTCAGTTTGCTAAGGATATGATAAA 59.007 33.333 0.00 0.00 0.00 1.40
147 148 7.508687 TGCTCAGTTTGCTAAGGATATGATAA 58.491 34.615 0.00 0.00 0.00 1.75
148 149 7.066307 TGCTCAGTTTGCTAAGGATATGATA 57.934 36.000 0.00 0.00 0.00 2.15
149 150 5.933617 TGCTCAGTTTGCTAAGGATATGAT 58.066 37.500 0.00 0.00 0.00 2.45
150 151 5.357742 TGCTCAGTTTGCTAAGGATATGA 57.642 39.130 0.00 0.00 0.00 2.15
151 152 5.761726 TCATGCTCAGTTTGCTAAGGATATG 59.238 40.000 0.00 0.00 0.00 1.78
152 153 5.933617 TCATGCTCAGTTTGCTAAGGATAT 58.066 37.500 0.00 0.00 0.00 1.63
153 154 5.357742 TCATGCTCAGTTTGCTAAGGATA 57.642 39.130 0.00 0.00 0.00 2.59
154 155 4.226427 TCATGCTCAGTTTGCTAAGGAT 57.774 40.909 0.00 0.00 0.00 3.24
155 156 3.701205 TCATGCTCAGTTTGCTAAGGA 57.299 42.857 0.00 0.00 0.00 3.36
156 157 4.197750 AGATCATGCTCAGTTTGCTAAGG 58.802 43.478 0.00 0.00 0.00 2.69
157 158 8.657729 CATATAGATCATGCTCAGTTTGCTAAG 58.342 37.037 0.00 0.00 0.00 2.18
208 285 8.997621 TCACCACTAGAGAATTATAACACAAC 57.002 34.615 0.00 0.00 0.00 3.32
216 293 5.069119 TCGCACATCACCACTAGAGAATTAT 59.931 40.000 0.00 0.00 0.00 1.28
227 304 1.535028 TCAATGTTCGCACATCACCAC 59.465 47.619 0.00 0.00 43.34 4.16
245 322 8.977412 TCATCAAGGTGAAGTAATATGTAGTCA 58.023 33.333 0.00 0.00 0.00 3.41
246 323 9.469807 CTCATCAAGGTGAAGTAATATGTAGTC 57.530 37.037 0.00 0.00 0.00 2.59
248 325 7.386299 GGCTCATCAAGGTGAAGTAATATGTAG 59.614 40.741 0.00 0.00 0.00 2.74
271 348 3.577848 CACATAATGCTCTCCTCTAGGCT 59.422 47.826 0.00 0.00 34.44 4.58
304 381 0.105593 CACTCCGACCATCCATCCAG 59.894 60.000 0.00 0.00 0.00 3.86
316 394 4.868171 GCACTACAATATTTGTCACTCCGA 59.132 41.667 0.00 0.00 44.12 4.55
447 533 5.928976 TGTGATCCTTGTGATTATACCCTG 58.071 41.667 0.00 0.00 32.41 4.45
485 571 8.385898 AGTTCCATTGACATTAAGTTTCGTTA 57.614 30.769 0.00 0.00 0.00 3.18
525 611 0.881118 GGACAGCAAGAATTTCGCCA 59.119 50.000 0.00 0.00 0.00 5.69
637 723 4.287552 GGATCCGAGGCCTATATAAAGGA 58.712 47.826 4.42 6.73 39.15 3.36
639 725 4.290942 AGGGATCCGAGGCCTATATAAAG 58.709 47.826 4.42 0.00 0.00 1.85
665 751 0.532417 ATTCGATGCTCTGCCTCTGC 60.532 55.000 0.00 0.00 38.26 4.26
666 752 1.218763 CATTCGATGCTCTGCCTCTG 58.781 55.000 0.00 0.00 0.00 3.35
667 753 0.829333 ACATTCGATGCTCTGCCTCT 59.171 50.000 0.00 0.00 0.00 3.69
668 754 2.515926 TACATTCGATGCTCTGCCTC 57.484 50.000 0.00 0.00 0.00 4.70
669 755 2.939103 GTTTACATTCGATGCTCTGCCT 59.061 45.455 0.00 0.00 0.00 4.75
672 758 3.367932 ACACGTTTACATTCGATGCTCTG 59.632 43.478 0.00 0.00 0.00 3.35
753 1042 2.993899 CAAAGTAGTACTGACGCCCAAG 59.006 50.000 5.39 0.00 0.00 3.61
835 1126 6.363357 CGCTGGTTTTATTTCCAAGAAAGAAG 59.637 38.462 0.00 0.00 33.06 2.85
839 1156 5.067936 TGACGCTGGTTTTATTTCCAAGAAA 59.932 36.000 0.00 0.00 33.06 2.52
842 1159 4.497473 TGACGCTGGTTTTATTTCCAAG 57.503 40.909 0.00 0.00 33.06 3.61
843 1160 4.764823 AGATGACGCTGGTTTTATTTCCAA 59.235 37.500 0.00 0.00 33.06 3.53
845 1162 4.494199 CGAGATGACGCTGGTTTTATTTCC 60.494 45.833 0.00 0.00 0.00 3.13
863 1180 2.036089 GGAAGGAATAAGGACGCGAGAT 59.964 50.000 15.93 0.00 0.00 2.75
864 1181 1.407979 GGAAGGAATAAGGACGCGAGA 59.592 52.381 15.93 0.00 0.00 4.04
865 1182 1.538419 GGGAAGGAATAAGGACGCGAG 60.538 57.143 15.93 0.00 0.00 5.03
870 1187 4.385421 GGAAGAAGGGGAAGGAATAAGGAC 60.385 50.000 0.00 0.00 0.00 3.85
876 1193 3.228589 AGAGGAAGAAGGGGAAGGAAT 57.771 47.619 0.00 0.00 0.00 3.01
880 1197 4.075682 GTGAAAAGAGGAAGAAGGGGAAG 58.924 47.826 0.00 0.00 0.00 3.46
903 1220 1.917336 TTAGGGGACAATGCGGGGAC 61.917 60.000 0.00 0.00 0.00 4.46
950 1267 3.071206 GACTCTCCTCTGCCGCCA 61.071 66.667 0.00 0.00 0.00 5.69
952 1269 4.863925 GCGACTCTCCTCTGCCGC 62.864 72.222 0.00 0.00 35.91 6.53
982 1304 3.851128 GGTAGACCTGCTCCGGGC 61.851 72.222 0.00 4.52 42.22 6.13
1108 1430 0.327576 ATCCTTTCTCCGGTGGGGAT 60.328 55.000 15.56 15.56 46.04 3.85
1240 1562 0.602638 TTCACTGCCGTGGTGACATC 60.603 55.000 8.50 0.00 46.14 3.06
1314 1636 3.325870 GTTGTGTACTGCTACTGATGCA 58.674 45.455 0.00 0.00 38.81 3.96
1399 1721 3.340814 ACAATCGTCCTTGAGATGCTT 57.659 42.857 2.94 0.00 0.00 3.91
1633 1977 3.136763 CAAAGAGCTCAGCACTGAAGAA 58.863 45.455 17.77 0.00 39.39 2.52
1762 2109 6.035435 CACACGACATCTTCATCTTCCTTTAG 59.965 42.308 0.00 0.00 0.00 1.85
1763 2110 5.869344 CACACGACATCTTCATCTTCCTTTA 59.131 40.000 0.00 0.00 0.00 1.85
1887 2240 3.944015 GCTCAGCTAATGTCAGGATGTTT 59.056 43.478 0.00 0.00 37.40 2.83
1954 2307 0.181350 CTAAGATTTGCCGGGGAGCT 59.819 55.000 2.18 0.00 0.00 4.09
2018 2371 9.401058 CAATCAGATTCTTAATAACAGAAGGGT 57.599 33.333 0.00 0.00 33.74 4.34
2193 2552 9.064706 CGAAAGTTAGGATAGGTAGTCTGATAA 57.935 37.037 0.00 0.00 0.00 1.75
2244 2607 7.598118 CACAAACAAAATGACAGTGCCATAATA 59.402 33.333 0.00 0.00 0.00 0.98
2245 2608 6.424509 CACAAACAAAATGACAGTGCCATAAT 59.575 34.615 0.00 0.00 0.00 1.28
2246 2609 5.752472 CACAAACAAAATGACAGTGCCATAA 59.248 36.000 0.00 0.00 0.00 1.90
2247 2610 5.163468 ACACAAACAAAATGACAGTGCCATA 60.163 36.000 0.00 0.00 0.00 2.74
2248 2611 4.121317 CACAAACAAAATGACAGTGCCAT 58.879 39.130 0.00 0.00 0.00 4.40
2249 2612 3.056250 ACACAAACAAAATGACAGTGCCA 60.056 39.130 0.00 0.00 0.00 4.92
2250 2613 3.520569 ACACAAACAAAATGACAGTGCC 58.479 40.909 0.00 0.00 0.00 5.01
2268 2631 2.966050 TGCAAGGAAACACCAAAACAC 58.034 42.857 0.00 0.00 42.04 3.32
2354 2721 6.334102 AGATAACTACCGAATCACAGATCC 57.666 41.667 0.00 0.00 0.00 3.36
2387 2754 8.618677 TGATCAATGTTCTTTGATAGATGCTTC 58.381 33.333 11.88 0.00 44.35 3.86
2735 3167 5.529430 TCGATGAAAAGAAAAACAGTAGGCA 59.471 36.000 0.00 0.00 0.00 4.75
2757 3193 2.032550 CAGTAGGCATCCAAAGCATTCG 59.967 50.000 0.00 0.00 0.00 3.34
2785 3221 5.429130 AGGACTGAGATTTATTCGAAACCC 58.571 41.667 0.00 0.00 0.00 4.11
2809 3259 2.289694 ACTCCTTGGTGGATTTGAGTCG 60.290 50.000 0.00 0.00 45.16 4.18
2843 3293 0.593128 AGAACAAACGCCTGATGCAC 59.407 50.000 0.00 0.00 41.33 4.57
2859 3310 7.079451 AGAATACAGGAAAGAAGGTTCAGAA 57.921 36.000 0.00 0.00 0.00 3.02
2902 3373 7.994334 TGTACCTTTACACAGTAACTGGAAATT 59.006 33.333 12.23 0.00 35.51 1.82
2923 3394 1.065345 GGAAAGAGGGAAGCCTGTACC 60.065 57.143 0.00 0.00 0.00 3.34


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

AutoCloner maintained by Alex Coulton.