Multiple sequence alignment - TraesCS2D01G300600

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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 TraesCS2D01G300600 chr2D 100.000 3096 0 0 1 3096 382703069 382699974 0.000000e+00 5718.0
1 TraesCS2D01G300600 chr2D 97.113 2806 68 7 292 3096 182632456 182629663 0.000000e+00 4721.0
2 TraesCS2D01G300600 chr2D 95.236 2708 103 13 291 2994 547563444 547566129 0.000000e+00 4263.0
3 TraesCS2D01G300600 chr2D 96.811 2383 67 5 676 3053 605551640 605549262 0.000000e+00 3971.0
4 TraesCS2D01G300600 chr2D 95.683 1807 57 7 1188 2993 634823627 634821841 0.000000e+00 2885.0
5 TraesCS2D01G300600 chr2D 97.826 46 1 0 3051 3096 634821743 634821698 2.560000e-11 80.5
6 TraesCS2D01G300600 chr3D 97.902 2812 48 4 292 3096 359622499 359625306 0.000000e+00 4855.0
7 TraesCS2D01G300600 chr3D 95.464 2778 100 15 292 3053 85226134 85228901 0.000000e+00 4409.0
8 TraesCS2D01G300600 chr3D 97.945 292 5 1 1 291 387020543 387020252 3.560000e-139 505.0
9 TraesCS2D01G300600 chr3D 97.945 292 5 1 1 291 403867019 403867310 3.560000e-139 505.0
10 TraesCS2D01G300600 chr3D 95.510 245 10 1 291 535 11281125 11280882 1.040000e-104 390.0
11 TraesCS2D01G300600 chr3D 94.355 248 12 2 288 535 85233475 85233230 2.250000e-101 379.0
12 TraesCS2D01G300600 chr1D 96.831 2840 63 11 275 3096 420011154 420008324 0.000000e+00 4721.0
13 TraesCS2D01G300600 chr1D 95.965 2776 89 13 292 3053 475528296 475525530 0.000000e+00 4484.0
14 TraesCS2D01G300600 chr1D 94.286 245 13 1 291 535 12360082 12359839 1.050000e-99 374.0
15 TraesCS2D01G300600 chr1D 100.000 46 0 0 3051 3096 110901430 110901385 5.500000e-13 86.1
16 TraesCS2D01G300600 chr4D 96.779 2825 69 4 290 3096 502867331 502870151 0.000000e+00 4693.0
17 TraesCS2D01G300600 chr4D 95.283 2777 105 16 292 3053 507114494 507111729 0.000000e+00 4379.0
18 TraesCS2D01G300600 chr4D 95.188 2743 100 21 291 3013 428529858 428532588 0.000000e+00 4305.0
19 TraesCS2D01G300600 chr4D 97.945 292 5 1 1 291 225692029 225692320 3.560000e-139 505.0
20 TraesCS2D01G300600 chr4D 97.938 291 6 0 1 291 441546163 441545873 3.560000e-139 505.0
21 TraesCS2D01G300600 chr4D 97.945 292 5 1 1 291 501702054 501701763 3.560000e-139 505.0
22 TraesCS2D01G300600 chr4D 100.000 45 0 0 3052 3096 507111670 507111626 1.980000e-12 84.2
23 TraesCS2D01G300600 chr4D 97.826 46 1 0 3051 3096 428532651 428532696 2.560000e-11 80.5
24 TraesCS2D01G300600 chr2B 91.879 1650 96 19 1346 2975 729778229 729779860 0.000000e+00 2270.0
25 TraesCS2D01G300600 chr7D 97.938 291 6 0 1 291 506066992 506067282 3.560000e-139 505.0
26 TraesCS2D01G300600 chr7D 100.000 46 0 0 3051 3096 36172934 36172889 5.500000e-13 86.1
27 TraesCS2D01G300600 chr6B 97.945 292 5 1 1 291 597530059 597530350 3.560000e-139 505.0
28 TraesCS2D01G300600 chr5D 97.297 296 6 2 1 295 199937289 199937583 4.610000e-138 501.0
29 TraesCS2D01G300600 chr3A 97.288 295 7 1 1 295 239388803 239389096 1.660000e-137 499.0


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 TraesCS2D01G300600 chr2D 382699974 382703069 3095 True 5718.00 5718 100.0000 1 3096 1 chr2D.!!$R2 3095
1 TraesCS2D01G300600 chr2D 182629663 182632456 2793 True 4721.00 4721 97.1130 292 3096 1 chr2D.!!$R1 2804
2 TraesCS2D01G300600 chr2D 547563444 547566129 2685 False 4263.00 4263 95.2360 291 2994 1 chr2D.!!$F1 2703
3 TraesCS2D01G300600 chr2D 605549262 605551640 2378 True 3971.00 3971 96.8110 676 3053 1 chr2D.!!$R3 2377
4 TraesCS2D01G300600 chr2D 634821698 634823627 1929 True 1482.75 2885 96.7545 1188 3096 2 chr2D.!!$R4 1908
5 TraesCS2D01G300600 chr3D 359622499 359625306 2807 False 4855.00 4855 97.9020 292 3096 1 chr3D.!!$F2 2804
6 TraesCS2D01G300600 chr3D 85226134 85228901 2767 False 4409.00 4409 95.4640 292 3053 1 chr3D.!!$F1 2761
7 TraesCS2D01G300600 chr1D 420008324 420011154 2830 True 4721.00 4721 96.8310 275 3096 1 chr1D.!!$R3 2821
8 TraesCS2D01G300600 chr1D 475525530 475528296 2766 True 4484.00 4484 95.9650 292 3053 1 chr1D.!!$R4 2761
9 TraesCS2D01G300600 chr4D 502867331 502870151 2820 False 4693.00 4693 96.7790 290 3096 1 chr4D.!!$F2 2806
10 TraesCS2D01G300600 chr4D 507111626 507114494 2868 True 2231.60 4379 97.6415 292 3096 2 chr4D.!!$R3 2804
11 TraesCS2D01G300600 chr4D 428529858 428532696 2838 False 2192.75 4305 96.5070 291 3096 2 chr4D.!!$F3 2805
12 TraesCS2D01G300600 chr2B 729778229 729779860 1631 False 2270.00 2270 91.8790 1346 2975 1 chr2B.!!$F1 1629

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
220 221 0.035630 CTTTGTCTCCAGCTCCCCTG 60.036 60.0 0.0 0.0 41.41 4.45 F
222 223 0.116342 TTGTCTCCAGCTCCCCTGTA 59.884 55.0 0.0 0.0 40.06 2.74 F
394 395 0.888619 TTTCTCGTCGGCTGTCTCAT 59.111 50.0 0.0 0.0 0.00 2.90 F
1620 1691 0.529378 CAGAATTGCTTGTCCAGGCC 59.471 55.0 0.0 0.0 31.78 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1060 1121 2.279842 GCATGATGCAGGTGGGTTT 58.720 52.632 13.36 0.00 44.26 3.27 R
1375 1440 4.154195 CCTGCTTGTACAAGTACATTCACC 59.846 45.833 30.90 15.01 44.54 4.02 R
1961 2036 4.227197 TCTCTCTTCTGTTCAACCTCCTT 58.773 43.478 0.00 0.00 0.00 3.36 R
2483 2575 2.204090 GGAGGAGGGTGGGTGGAA 60.204 66.667 0.00 0.00 0.00 3.53 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 3.254629 TTCCATCAGTGCTCCTTGC 57.745 52.632 0.00 0.00 43.25 4.01
19 20 0.694771 TTCCATCAGTGCTCCTTGCT 59.305 50.000 0.00 0.00 43.37 3.91
20 21 0.694771 TCCATCAGTGCTCCTTGCTT 59.305 50.000 0.00 0.00 43.37 3.91
21 22 0.809385 CCATCAGTGCTCCTTGCTTG 59.191 55.000 0.00 0.00 43.37 4.01
22 23 1.531423 CATCAGTGCTCCTTGCTTGT 58.469 50.000 0.00 0.00 43.37 3.16
23 24 1.884579 CATCAGTGCTCCTTGCTTGTT 59.115 47.619 0.00 0.00 43.37 2.83
24 25 2.928801 TCAGTGCTCCTTGCTTGTTA 57.071 45.000 0.00 0.00 43.37 2.41
25 26 2.494059 TCAGTGCTCCTTGCTTGTTAC 58.506 47.619 0.00 0.00 43.37 2.50
26 27 1.537202 CAGTGCTCCTTGCTTGTTACC 59.463 52.381 0.00 0.00 43.37 2.85
27 28 0.881796 GTGCTCCTTGCTTGTTACCC 59.118 55.000 0.00 0.00 43.37 3.69
28 29 0.476338 TGCTCCTTGCTTGTTACCCA 59.524 50.000 0.00 0.00 43.37 4.51
29 30 0.881796 GCTCCTTGCTTGTTACCCAC 59.118 55.000 0.00 0.00 38.95 4.61
30 31 1.817740 GCTCCTTGCTTGTTACCCACA 60.818 52.381 0.00 0.00 38.95 4.17
31 32 2.582052 CTCCTTGCTTGTTACCCACAA 58.418 47.619 0.00 0.00 43.55 3.33
32 33 2.955660 CTCCTTGCTTGTTACCCACAAA 59.044 45.455 0.00 0.00 45.11 2.83
33 34 2.955660 TCCTTGCTTGTTACCCACAAAG 59.044 45.455 0.00 0.00 45.11 2.77
34 35 2.955660 CCTTGCTTGTTACCCACAAAGA 59.044 45.455 0.00 0.00 45.11 2.52
35 36 3.573967 CCTTGCTTGTTACCCACAAAGAT 59.426 43.478 0.00 0.00 45.11 2.40
36 37 4.549458 CTTGCTTGTTACCCACAAAGATG 58.451 43.478 0.00 0.00 45.11 2.90
37 38 3.826524 TGCTTGTTACCCACAAAGATGA 58.173 40.909 0.00 0.00 45.11 2.92
38 39 4.406456 TGCTTGTTACCCACAAAGATGAT 58.594 39.130 0.00 0.00 45.11 2.45
39 40 5.565509 TGCTTGTTACCCACAAAGATGATA 58.434 37.500 0.00 0.00 45.11 2.15
40 41 6.186957 TGCTTGTTACCCACAAAGATGATAT 58.813 36.000 0.00 0.00 45.11 1.63
41 42 6.318648 TGCTTGTTACCCACAAAGATGATATC 59.681 38.462 0.00 0.00 45.11 1.63
42 43 6.238759 GCTTGTTACCCACAAAGATGATATCC 60.239 42.308 0.00 0.00 45.11 2.59
43 44 6.575244 TGTTACCCACAAAGATGATATCCT 57.425 37.500 0.00 0.00 29.87 3.24
44 45 6.969043 TGTTACCCACAAAGATGATATCCTT 58.031 36.000 0.00 0.00 29.87 3.36
45 46 7.054124 TGTTACCCACAAAGATGATATCCTTC 58.946 38.462 0.00 0.00 29.87 3.46
46 47 4.708177 ACCCACAAAGATGATATCCTTCG 58.292 43.478 0.00 0.00 0.00 3.79
47 48 4.164221 ACCCACAAAGATGATATCCTTCGT 59.836 41.667 0.00 0.00 0.00 3.85
48 49 4.752101 CCCACAAAGATGATATCCTTCGTC 59.248 45.833 0.00 0.00 32.78 4.20
49 50 5.359756 CCACAAAGATGATATCCTTCGTCA 58.640 41.667 0.00 0.00 34.66 4.35
50 51 5.464722 CCACAAAGATGATATCCTTCGTCAG 59.535 44.000 0.00 0.00 34.66 3.51
51 52 6.045318 CACAAAGATGATATCCTTCGTCAGT 58.955 40.000 0.00 0.00 34.66 3.41
52 53 6.536582 CACAAAGATGATATCCTTCGTCAGTT 59.463 38.462 0.00 0.00 34.66 3.16
53 54 6.758886 ACAAAGATGATATCCTTCGTCAGTTC 59.241 38.462 0.00 0.00 34.66 3.01
54 55 6.471233 AAGATGATATCCTTCGTCAGTTCA 57.529 37.500 0.00 0.00 34.66 3.18
55 56 5.837437 AGATGATATCCTTCGTCAGTTCAC 58.163 41.667 0.00 0.00 34.66 3.18
56 57 4.386867 TGATATCCTTCGTCAGTTCACC 57.613 45.455 0.00 0.00 0.00 4.02
57 58 4.023980 TGATATCCTTCGTCAGTTCACCT 58.976 43.478 0.00 0.00 0.00 4.00
58 59 4.466370 TGATATCCTTCGTCAGTTCACCTT 59.534 41.667 0.00 0.00 0.00 3.50
59 60 2.526304 TCCTTCGTCAGTTCACCTTG 57.474 50.000 0.00 0.00 0.00 3.61
60 61 1.070134 TCCTTCGTCAGTTCACCTTGG 59.930 52.381 0.00 0.00 0.00 3.61
61 62 1.202651 CCTTCGTCAGTTCACCTTGGT 60.203 52.381 0.00 0.00 0.00 3.67
62 63 2.561569 CTTCGTCAGTTCACCTTGGTT 58.438 47.619 0.00 0.00 0.00 3.67
63 64 1.948104 TCGTCAGTTCACCTTGGTTG 58.052 50.000 0.00 0.00 0.00 3.77
64 65 0.307760 CGTCAGTTCACCTTGGTTGC 59.692 55.000 0.00 0.00 0.00 4.17
65 66 1.388547 GTCAGTTCACCTTGGTTGCA 58.611 50.000 0.00 0.00 0.00 4.08
66 67 1.956477 GTCAGTTCACCTTGGTTGCAT 59.044 47.619 0.00 0.00 0.00 3.96
67 68 2.362077 GTCAGTTCACCTTGGTTGCATT 59.638 45.455 0.00 0.00 0.00 3.56
68 69 2.361757 TCAGTTCACCTTGGTTGCATTG 59.638 45.455 0.00 0.00 0.00 2.82
69 70 1.688197 AGTTCACCTTGGTTGCATTGG 59.312 47.619 0.00 0.00 0.00 3.16
70 71 1.047002 TTCACCTTGGTTGCATTGGG 58.953 50.000 0.00 0.00 0.00 4.12
71 72 0.831288 TCACCTTGGTTGCATTGGGG 60.831 55.000 0.00 0.00 0.00 4.96
72 73 0.831288 CACCTTGGTTGCATTGGGGA 60.831 55.000 0.00 0.00 0.00 4.81
73 74 0.831711 ACCTTGGTTGCATTGGGGAC 60.832 55.000 0.00 0.00 0.00 4.46
74 75 1.586028 CTTGGTTGCATTGGGGACG 59.414 57.895 0.00 0.00 0.00 4.79
75 76 2.490993 CTTGGTTGCATTGGGGACGC 62.491 60.000 0.00 0.00 0.00 5.19
76 77 2.988684 GGTTGCATTGGGGACGCA 60.989 61.111 0.00 0.00 0.00 5.24
77 78 2.568090 GTTGCATTGGGGACGCAG 59.432 61.111 0.00 0.00 36.91 5.18
96 97 4.893241 CGTCTTTCACGTTGGTGC 57.107 55.556 0.00 0.00 44.07 5.01
97 98 2.010670 CGTCTTTCACGTTGGTGCA 58.989 52.632 0.00 0.00 44.07 4.57
98 99 0.375454 CGTCTTTCACGTTGGTGCAA 59.625 50.000 0.00 0.00 44.07 4.08
99 100 1.002900 CGTCTTTCACGTTGGTGCAAT 60.003 47.619 0.00 0.00 44.07 3.56
100 101 2.540769 CGTCTTTCACGTTGGTGCAATT 60.541 45.455 0.00 0.00 44.07 2.32
101 102 3.443976 GTCTTTCACGTTGGTGCAATTT 58.556 40.909 0.00 0.00 44.03 1.82
102 103 3.862845 GTCTTTCACGTTGGTGCAATTTT 59.137 39.130 0.00 0.00 44.03 1.82
103 104 5.038033 GTCTTTCACGTTGGTGCAATTTTA 58.962 37.500 0.00 0.00 44.03 1.52
104 105 5.689961 GTCTTTCACGTTGGTGCAATTTTAT 59.310 36.000 0.00 0.00 44.03 1.40
105 106 6.858993 GTCTTTCACGTTGGTGCAATTTTATA 59.141 34.615 0.00 0.00 44.03 0.98
106 107 7.380065 GTCTTTCACGTTGGTGCAATTTTATAA 59.620 33.333 0.00 0.00 44.03 0.98
107 108 6.994868 TTCACGTTGGTGCAATTTTATAAC 57.005 33.333 0.00 0.00 44.03 1.89
108 109 6.073327 TCACGTTGGTGCAATTTTATAACA 57.927 33.333 0.00 0.00 44.03 2.41
109 110 5.915758 TCACGTTGGTGCAATTTTATAACAC 59.084 36.000 0.00 0.00 44.03 3.32
110 111 5.687730 CACGTTGGTGCAATTTTATAACACA 59.312 36.000 0.00 0.00 37.35 3.72
111 112 6.199154 CACGTTGGTGCAATTTTATAACACAA 59.801 34.615 0.00 0.00 37.35 3.33
112 113 6.926272 ACGTTGGTGCAATTTTATAACACAAT 59.074 30.769 0.00 0.00 32.89 2.71
113 114 7.439655 ACGTTGGTGCAATTTTATAACACAATT 59.560 29.630 0.00 0.00 32.89 2.32
114 115 7.739477 CGTTGGTGCAATTTTATAACACAATTG 59.261 33.333 13.35 13.35 39.78 2.32
115 116 7.664082 TGGTGCAATTTTATAACACAATTGG 57.336 32.000 17.01 1.35 38.04 3.16
116 117 6.148480 TGGTGCAATTTTATAACACAATTGGC 59.852 34.615 17.01 12.05 38.04 4.52
117 118 6.371271 GGTGCAATTTTATAACACAATTGGCT 59.629 34.615 17.01 0.00 38.04 4.75
118 119 7.547370 GGTGCAATTTTATAACACAATTGGCTA 59.453 33.333 17.01 0.00 38.04 3.93
119 120 9.097257 GTGCAATTTTATAACACAATTGGCTAT 57.903 29.630 17.01 6.00 38.04 2.97
120 121 9.096160 TGCAATTTTATAACACAATTGGCTATG 57.904 29.630 17.01 1.13 38.04 2.23
121 122 9.311916 GCAATTTTATAACACAATTGGCTATGA 57.688 29.630 17.01 0.00 38.04 2.15
124 125 9.816354 ATTTTATAACACAATTGGCTATGAACC 57.184 29.630 10.83 0.00 0.00 3.62
125 126 7.946381 TTATAACACAATTGGCTATGAACCA 57.054 32.000 10.83 0.00 34.65 3.67
134 135 4.799564 TGGCTATGAACCAAATGTTTCC 57.200 40.909 0.00 0.00 37.29 3.13
135 136 4.415596 TGGCTATGAACCAAATGTTTCCT 58.584 39.130 0.00 0.00 37.29 3.36
136 137 4.462483 TGGCTATGAACCAAATGTTTCCTC 59.538 41.667 0.00 0.00 37.29 3.71
137 138 4.438744 GGCTATGAACCAAATGTTTCCTCG 60.439 45.833 0.00 0.00 37.29 4.63
138 139 4.394920 GCTATGAACCAAATGTTTCCTCGA 59.605 41.667 0.00 0.00 37.29 4.04
139 140 5.106317 GCTATGAACCAAATGTTTCCTCGAA 60.106 40.000 0.00 0.00 37.29 3.71
140 141 4.829064 TGAACCAAATGTTTCCTCGAAG 57.171 40.909 0.00 0.00 37.29 3.79
141 142 4.456535 TGAACCAAATGTTTCCTCGAAGA 58.543 39.130 0.00 0.00 37.29 2.87
142 143 4.884744 TGAACCAAATGTTTCCTCGAAGAA 59.115 37.500 0.00 0.00 37.29 2.52
143 144 5.008613 TGAACCAAATGTTTCCTCGAAGAAG 59.991 40.000 0.00 0.00 37.29 2.85
144 145 3.821033 ACCAAATGTTTCCTCGAAGAAGG 59.179 43.478 0.00 0.00 34.09 3.46
145 146 4.072131 CCAAATGTTTCCTCGAAGAAGGA 58.928 43.478 0.00 0.00 34.09 3.36
146 147 4.702131 CCAAATGTTTCCTCGAAGAAGGAT 59.298 41.667 0.00 0.00 34.73 3.24
147 148 5.163713 CCAAATGTTTCCTCGAAGAAGGATC 60.164 44.000 0.00 0.00 34.73 3.36
148 149 3.232213 TGTTTCCTCGAAGAAGGATCG 57.768 47.619 0.00 0.00 41.53 3.69
149 150 2.823747 TGTTTCCTCGAAGAAGGATCGA 59.176 45.455 0.00 0.00 46.18 3.59
150 151 3.180613 GTTTCCTCGAAGAAGGATCGAC 58.819 50.000 0.00 0.00 43.76 4.20
151 152 1.015109 TCCTCGAAGAAGGATCGACG 58.985 55.000 0.00 0.00 43.76 5.12
152 153 0.733729 CCTCGAAGAAGGATCGACGT 59.266 55.000 0.00 0.00 43.76 4.34
153 154 1.132643 CCTCGAAGAAGGATCGACGTT 59.867 52.381 0.00 0.00 43.76 3.99
154 155 2.177977 CTCGAAGAAGGATCGACGTTG 58.822 52.381 0.00 0.00 43.76 4.10
155 156 1.135489 TCGAAGAAGGATCGACGTTGG 60.135 52.381 2.20 0.00 43.76 3.77
156 157 1.402456 CGAAGAAGGATCGACGTTGGT 60.402 52.381 2.20 0.00 42.76 3.67
157 158 2.159476 CGAAGAAGGATCGACGTTGGTA 60.159 50.000 2.20 0.00 42.76 3.25
158 159 2.935481 AGAAGGATCGACGTTGGTAC 57.065 50.000 2.20 0.00 0.00 3.34
159 160 2.444421 AGAAGGATCGACGTTGGTACT 58.556 47.619 0.00 0.00 0.00 2.73
160 161 3.614092 AGAAGGATCGACGTTGGTACTA 58.386 45.455 0.00 0.00 0.00 1.82
161 162 4.012374 AGAAGGATCGACGTTGGTACTAA 58.988 43.478 0.00 0.00 0.00 2.24
162 163 4.096081 AGAAGGATCGACGTTGGTACTAAG 59.904 45.833 0.00 0.00 0.00 2.18
163 164 3.614092 AGGATCGACGTTGGTACTAAGA 58.386 45.455 0.00 0.00 0.00 2.10
164 165 3.626670 AGGATCGACGTTGGTACTAAGAG 59.373 47.826 0.00 0.00 0.00 2.85
165 166 2.907910 TCGACGTTGGTACTAAGAGC 57.092 50.000 2.20 0.00 0.00 4.09
166 167 2.153645 TCGACGTTGGTACTAAGAGCA 58.846 47.619 2.20 0.00 0.00 4.26
167 168 2.751259 TCGACGTTGGTACTAAGAGCAT 59.249 45.455 2.20 0.00 0.00 3.79
168 169 3.940852 TCGACGTTGGTACTAAGAGCATA 59.059 43.478 2.20 0.00 0.00 3.14
169 170 4.395854 TCGACGTTGGTACTAAGAGCATAA 59.604 41.667 2.20 0.00 0.00 1.90
170 171 4.733887 CGACGTTGGTACTAAGAGCATAAG 59.266 45.833 0.00 0.00 0.00 1.73
171 172 5.648572 GACGTTGGTACTAAGAGCATAAGT 58.351 41.667 0.00 0.00 0.00 2.24
172 173 6.034161 ACGTTGGTACTAAGAGCATAAGTT 57.966 37.500 0.00 0.00 0.00 2.66
173 174 6.461640 ACGTTGGTACTAAGAGCATAAGTTT 58.538 36.000 0.00 0.00 0.00 2.66
174 175 6.932960 ACGTTGGTACTAAGAGCATAAGTTTT 59.067 34.615 0.00 0.00 0.00 2.43
175 176 7.095355 ACGTTGGTACTAAGAGCATAAGTTTTG 60.095 37.037 0.00 0.00 0.00 2.44
176 177 7.095355 CGTTGGTACTAAGAGCATAAGTTTTGT 60.095 37.037 0.00 0.00 0.00 2.83
177 178 9.211485 GTTGGTACTAAGAGCATAAGTTTTGTA 57.789 33.333 0.00 0.00 0.00 2.41
178 179 9.953565 TTGGTACTAAGAGCATAAGTTTTGTAT 57.046 29.630 0.00 0.00 0.00 2.29
179 180 9.953565 TGGTACTAAGAGCATAAGTTTTGTATT 57.046 29.630 0.00 0.00 0.00 1.89
194 195 9.914131 AAGTTTTGTATTGATTTCTAAGCCTTC 57.086 29.630 0.00 0.00 0.00 3.46
195 196 9.301897 AGTTTTGTATTGATTTCTAAGCCTTCT 57.698 29.630 0.00 0.00 0.00 2.85
196 197 9.561270 GTTTTGTATTGATTTCTAAGCCTTCTC 57.439 33.333 0.00 0.00 0.00 2.87
197 198 8.862325 TTTGTATTGATTTCTAAGCCTTCTCA 57.138 30.769 0.00 0.00 0.00 3.27
198 199 7.849804 TGTATTGATTTCTAAGCCTTCTCAC 57.150 36.000 0.00 0.00 0.00 3.51
199 200 6.535150 TGTATTGATTTCTAAGCCTTCTCACG 59.465 38.462 0.00 0.00 0.00 4.35
200 201 4.801330 TGATTTCTAAGCCTTCTCACGA 57.199 40.909 0.00 0.00 0.00 4.35
201 202 4.495422 TGATTTCTAAGCCTTCTCACGAC 58.505 43.478 0.00 0.00 0.00 4.34
202 203 4.220821 TGATTTCTAAGCCTTCTCACGACT 59.779 41.667 0.00 0.00 0.00 4.18
203 204 4.602340 TTTCTAAGCCTTCTCACGACTT 57.398 40.909 0.00 0.00 0.00 3.01
204 205 4.602340 TTCTAAGCCTTCTCACGACTTT 57.398 40.909 0.00 0.00 0.00 2.66
205 206 3.914312 TCTAAGCCTTCTCACGACTTTG 58.086 45.455 0.00 0.00 0.00 2.77
206 207 2.622064 AAGCCTTCTCACGACTTTGT 57.378 45.000 0.00 0.00 0.00 2.83
207 208 2.156343 AGCCTTCTCACGACTTTGTC 57.844 50.000 0.00 0.00 0.00 3.18
208 209 1.689273 AGCCTTCTCACGACTTTGTCT 59.311 47.619 0.00 0.00 0.00 3.41
209 210 2.062519 GCCTTCTCACGACTTTGTCTC 58.937 52.381 0.00 0.00 0.00 3.36
210 211 2.678324 CCTTCTCACGACTTTGTCTCC 58.322 52.381 0.00 0.00 0.00 3.71
211 212 2.035961 CCTTCTCACGACTTTGTCTCCA 59.964 50.000 0.00 0.00 0.00 3.86
212 213 3.312828 CTTCTCACGACTTTGTCTCCAG 58.687 50.000 0.00 0.00 0.00 3.86
213 214 1.000163 TCTCACGACTTTGTCTCCAGC 60.000 52.381 0.00 0.00 0.00 4.85
214 215 1.000283 CTCACGACTTTGTCTCCAGCT 60.000 52.381 0.00 0.00 0.00 4.24
215 216 1.000163 TCACGACTTTGTCTCCAGCTC 60.000 52.381 0.00 0.00 0.00 4.09
216 217 0.318762 ACGACTTTGTCTCCAGCTCC 59.681 55.000 0.00 0.00 0.00 4.70
217 218 0.390472 CGACTTTGTCTCCAGCTCCC 60.390 60.000 0.00 0.00 0.00 4.30
218 219 0.035915 GACTTTGTCTCCAGCTCCCC 60.036 60.000 0.00 0.00 0.00 4.81
219 220 0.474660 ACTTTGTCTCCAGCTCCCCT 60.475 55.000 0.00 0.00 0.00 4.79
220 221 0.035630 CTTTGTCTCCAGCTCCCCTG 60.036 60.000 0.00 0.00 41.41 4.45
221 222 0.768221 TTTGTCTCCAGCTCCCCTGT 60.768 55.000 0.00 0.00 40.06 4.00
222 223 0.116342 TTGTCTCCAGCTCCCCTGTA 59.884 55.000 0.00 0.00 40.06 2.74
223 224 0.116342 TGTCTCCAGCTCCCCTGTAA 59.884 55.000 0.00 0.00 40.06 2.41
224 225 1.273838 TGTCTCCAGCTCCCCTGTAAT 60.274 52.381 0.00 0.00 40.06 1.89
225 226 1.840635 GTCTCCAGCTCCCCTGTAATT 59.159 52.381 0.00 0.00 40.06 1.40
226 227 2.239907 GTCTCCAGCTCCCCTGTAATTT 59.760 50.000 0.00 0.00 40.06 1.82
227 228 2.919602 TCTCCAGCTCCCCTGTAATTTT 59.080 45.455 0.00 0.00 40.06 1.82
228 229 4.080526 GTCTCCAGCTCCCCTGTAATTTTA 60.081 45.833 0.00 0.00 40.06 1.52
229 230 4.726825 TCTCCAGCTCCCCTGTAATTTTAT 59.273 41.667 0.00 0.00 40.06 1.40
230 231 5.193728 TCTCCAGCTCCCCTGTAATTTTATT 59.806 40.000 0.00 0.00 40.06 1.40
231 232 5.837829 TCCAGCTCCCCTGTAATTTTATTT 58.162 37.500 0.00 0.00 40.06 1.40
232 233 5.656416 TCCAGCTCCCCTGTAATTTTATTTG 59.344 40.000 0.00 0.00 40.06 2.32
233 234 5.422012 CCAGCTCCCCTGTAATTTTATTTGT 59.578 40.000 0.00 0.00 40.06 2.83
234 235 6.405842 CCAGCTCCCCTGTAATTTTATTTGTC 60.406 42.308 0.00 0.00 40.06 3.18
235 236 5.656859 AGCTCCCCTGTAATTTTATTTGTCC 59.343 40.000 0.00 0.00 0.00 4.02
236 237 5.420739 GCTCCCCTGTAATTTTATTTGTCCA 59.579 40.000 0.00 0.00 0.00 4.02
237 238 6.405842 GCTCCCCTGTAATTTTATTTGTCCAG 60.406 42.308 0.00 0.00 0.00 3.86
238 239 5.420739 TCCCCTGTAATTTTATTTGTCCAGC 59.579 40.000 0.00 0.00 0.00 4.85
239 240 5.422012 CCCCTGTAATTTTATTTGTCCAGCT 59.578 40.000 0.00 0.00 0.00 4.24
240 241 6.605594 CCCCTGTAATTTTATTTGTCCAGCTA 59.394 38.462 0.00 0.00 0.00 3.32
241 242 7.287696 CCCCTGTAATTTTATTTGTCCAGCTAT 59.712 37.037 0.00 0.00 0.00 2.97
242 243 8.695456 CCCTGTAATTTTATTTGTCCAGCTATT 58.305 33.333 0.00 0.00 0.00 1.73
283 284 2.089201 GTGGACTAAAAACCCGGATGG 58.911 52.381 0.73 0.00 41.37 3.51
284 285 1.986631 TGGACTAAAAACCCGGATGGA 59.013 47.619 0.73 0.00 37.49 3.41
285 286 2.290450 TGGACTAAAAACCCGGATGGAC 60.290 50.000 0.73 0.00 37.49 4.02
286 287 2.004733 GACTAAAAACCCGGATGGACG 58.995 52.381 0.73 0.00 37.49 4.79
287 288 1.348696 ACTAAAAACCCGGATGGACGT 59.651 47.619 0.73 0.00 37.49 4.34
288 289 2.566724 ACTAAAAACCCGGATGGACGTA 59.433 45.455 0.73 0.00 37.49 3.57
315 316 9.158233 GTGAGTAAATAGCATAAAACTACCACA 57.842 33.333 0.00 0.00 0.00 4.17
394 395 0.888619 TTTCTCGTCGGCTGTCTCAT 59.111 50.000 0.00 0.00 0.00 2.90
415 416 1.110518 AAACCCAAATCGCCCGTTGT 61.111 50.000 0.00 0.00 0.00 3.32
734 791 0.950555 TGAGTGCGACATCACAAGCC 60.951 55.000 0.00 0.00 39.35 4.35
769 826 6.292923 TCTTTGGGTAAGTTTTTCGATCTGA 58.707 36.000 0.00 0.00 35.28 3.27
1005 1066 2.955477 TTGTTGCTGTGTTCATGCAA 57.045 40.000 0.00 10.32 43.25 4.08
1074 1135 2.164422 GCTTTCTAAACCCACCTGCATC 59.836 50.000 0.00 0.00 0.00 3.91
1279 1344 3.960571 AGTTGCTCTTATGAACCTGCAT 58.039 40.909 0.00 0.00 0.00 3.96
1480 1551 6.692486 TCACCTTCAGTTTCTTAGTCTGATC 58.308 40.000 0.00 0.00 37.91 2.92
1513 1584 7.977789 TGTTATGAAATTGAGTGCACTTAGA 57.022 32.000 22.65 10.44 0.00 2.10
1620 1691 0.529378 CAGAATTGCTTGTCCAGGCC 59.471 55.000 0.00 0.00 31.78 5.19
1815 1886 0.984230 TACCAGAAGGCAGTTGAGGG 59.016 55.000 0.00 0.00 39.06 4.30
1837 1911 5.954752 GGGGGAAGAATTTGAGAAGAAGAAT 59.045 40.000 0.00 0.00 0.00 2.40
1840 1914 9.194972 GGGGAAGAATTTGAGAAGAAGAATAAT 57.805 33.333 0.00 0.00 0.00 1.28
1961 2036 5.144100 TCAAGAATACCAGGAAGGCAAAAA 58.856 37.500 0.00 0.00 43.14 1.94
2239 2317 7.524717 AATGCCAATGTTAAGAACTGTAGTT 57.475 32.000 0.00 0.00 41.64 2.24
2308 2388 6.839124 TGAATGTTCTGCCTGTATTTGAAT 57.161 33.333 0.00 0.00 0.00 2.57
2483 2575 5.046014 CCTCCACTGCTCATAAATAGCCTAT 60.046 44.000 0.00 0.00 39.30 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.254629 GCAAGGAGCACTGATGGAA 57.745 52.632 0.00 0.00 44.79 3.53
5 6 5.936791 GGGTAACAAGCAAGGAGCACTGA 62.937 52.174 0.00 0.00 43.34 3.41
6 7 3.708615 GGGTAACAAGCAAGGAGCACTG 61.709 54.545 0.00 0.00 43.34 3.66
7 8 1.545651 GGGTAACAAGCAAGGAGCACT 60.546 52.381 0.00 0.00 43.34 4.40
8 9 0.881796 GGGTAACAAGCAAGGAGCAC 59.118 55.000 0.00 0.00 43.34 4.40
9 10 0.476338 TGGGTAACAAGCAAGGAGCA 59.524 50.000 0.00 0.00 43.34 4.26
10 11 0.881796 GTGGGTAACAAGCAAGGAGC 59.118 55.000 0.00 0.00 41.44 4.70
11 12 2.270352 TGTGGGTAACAAGCAAGGAG 57.730 50.000 0.00 0.00 35.24 3.69
12 13 2.738587 TTGTGGGTAACAAGCAAGGA 57.261 45.000 0.00 0.00 43.96 3.36
20 21 6.575244 AGGATATCATCTTTGTGGGTAACA 57.425 37.500 4.83 0.00 36.85 2.41
21 22 6.202954 CGAAGGATATCATCTTTGTGGGTAAC 59.797 42.308 4.83 0.00 0.00 2.50
22 23 6.126883 ACGAAGGATATCATCTTTGTGGGTAA 60.127 38.462 11.67 0.00 36.55 2.85
23 24 5.365605 ACGAAGGATATCATCTTTGTGGGTA 59.634 40.000 11.67 0.00 36.55 3.69
24 25 4.164221 ACGAAGGATATCATCTTTGTGGGT 59.836 41.667 11.67 0.00 36.55 4.51
25 26 4.708177 ACGAAGGATATCATCTTTGTGGG 58.292 43.478 11.67 0.00 36.55 4.61
26 27 5.359756 TGACGAAGGATATCATCTTTGTGG 58.640 41.667 15.48 0.00 37.63 4.17
27 28 6.045318 ACTGACGAAGGATATCATCTTTGTG 58.955 40.000 15.48 7.92 37.63 3.33
28 29 6.227298 ACTGACGAAGGATATCATCTTTGT 57.773 37.500 12.09 12.09 39.53 2.83
29 30 6.758416 TGAACTGACGAAGGATATCATCTTTG 59.242 38.462 4.83 6.28 0.00 2.77
30 31 6.758886 GTGAACTGACGAAGGATATCATCTTT 59.241 38.462 4.83 0.00 0.00 2.52
31 32 6.276847 GTGAACTGACGAAGGATATCATCTT 58.723 40.000 4.83 0.00 0.00 2.40
32 33 5.221342 GGTGAACTGACGAAGGATATCATCT 60.221 44.000 4.83 0.00 0.00 2.90
33 34 4.985409 GGTGAACTGACGAAGGATATCATC 59.015 45.833 4.83 1.52 0.00 2.92
34 35 4.651503 AGGTGAACTGACGAAGGATATCAT 59.348 41.667 4.83 0.00 0.00 2.45
35 36 4.023980 AGGTGAACTGACGAAGGATATCA 58.976 43.478 4.83 0.00 0.00 2.15
36 37 4.657436 AGGTGAACTGACGAAGGATATC 57.343 45.455 0.00 0.00 0.00 1.63
37 38 4.383118 CCAAGGTGAACTGACGAAGGATAT 60.383 45.833 0.00 0.00 0.00 1.63
38 39 3.056107 CCAAGGTGAACTGACGAAGGATA 60.056 47.826 0.00 0.00 0.00 2.59
39 40 2.289694 CCAAGGTGAACTGACGAAGGAT 60.290 50.000 0.00 0.00 0.00 3.24
40 41 1.070134 CCAAGGTGAACTGACGAAGGA 59.930 52.381 0.00 0.00 0.00 3.36
41 42 1.202651 ACCAAGGTGAACTGACGAAGG 60.203 52.381 0.00 0.00 0.00 3.46
42 43 2.240493 ACCAAGGTGAACTGACGAAG 57.760 50.000 0.00 0.00 0.00 3.79
43 44 2.285083 CAACCAAGGTGAACTGACGAA 58.715 47.619 0.00 0.00 0.00 3.85
44 45 1.948104 CAACCAAGGTGAACTGACGA 58.052 50.000 0.00 0.00 0.00 4.20
45 46 0.307760 GCAACCAAGGTGAACTGACG 59.692 55.000 0.00 0.00 0.00 4.35
46 47 1.388547 TGCAACCAAGGTGAACTGAC 58.611 50.000 0.00 0.00 0.00 3.51
47 48 2.361757 CAATGCAACCAAGGTGAACTGA 59.638 45.455 0.00 0.00 0.00 3.41
48 49 2.546373 CCAATGCAACCAAGGTGAACTG 60.546 50.000 0.00 0.00 0.00 3.16
49 50 1.688197 CCAATGCAACCAAGGTGAACT 59.312 47.619 0.00 0.00 0.00 3.01
50 51 1.270252 CCCAATGCAACCAAGGTGAAC 60.270 52.381 0.00 0.00 0.00 3.18
51 52 1.047002 CCCAATGCAACCAAGGTGAA 58.953 50.000 0.00 0.00 0.00 3.18
52 53 0.831288 CCCCAATGCAACCAAGGTGA 60.831 55.000 0.00 0.00 0.00 4.02
53 54 0.831288 TCCCCAATGCAACCAAGGTG 60.831 55.000 0.00 0.00 0.00 4.00
54 55 0.831711 GTCCCCAATGCAACCAAGGT 60.832 55.000 0.00 0.00 0.00 3.50
55 56 1.876497 CGTCCCCAATGCAACCAAGG 61.876 60.000 0.00 0.00 0.00 3.61
56 57 1.586028 CGTCCCCAATGCAACCAAG 59.414 57.895 0.00 0.00 0.00 3.61
57 58 2.569354 GCGTCCCCAATGCAACCAA 61.569 57.895 0.00 0.00 39.85 3.67
58 59 2.988684 GCGTCCCCAATGCAACCA 60.989 61.111 0.00 0.00 39.85 3.67
59 60 2.988684 TGCGTCCCCAATGCAACC 60.989 61.111 0.00 0.00 46.85 3.77
63 64 3.499737 CGACTGCGTCCCCAATGC 61.500 66.667 3.65 0.00 40.55 3.56
80 81 2.774439 ATTGCACCAACGTGAAAGAC 57.226 45.000 0.00 0.00 41.00 3.01
81 82 3.791973 AAATTGCACCAACGTGAAAGA 57.208 38.095 0.00 0.00 41.00 2.52
82 83 7.168302 TGTTATAAAATTGCACCAACGTGAAAG 59.832 33.333 0.00 0.00 41.00 2.62
83 84 6.978659 TGTTATAAAATTGCACCAACGTGAAA 59.021 30.769 0.00 0.00 41.94 2.69
84 85 6.418226 GTGTTATAAAATTGCACCAACGTGAA 59.582 34.615 0.00 0.00 43.14 3.18
85 86 5.915758 GTGTTATAAAATTGCACCAACGTGA 59.084 36.000 0.00 0.00 43.14 4.35
86 87 5.687730 TGTGTTATAAAATTGCACCAACGTG 59.312 36.000 0.00 0.00 43.35 4.49
87 88 5.833082 TGTGTTATAAAATTGCACCAACGT 58.167 33.333 0.00 0.00 0.00 3.99
88 89 6.755461 TTGTGTTATAAAATTGCACCAACG 57.245 33.333 0.00 0.00 0.00 4.10
89 90 8.014517 CCAATTGTGTTATAAAATTGCACCAAC 58.985 33.333 12.62 0.00 39.09 3.77
90 91 7.308229 GCCAATTGTGTTATAAAATTGCACCAA 60.308 33.333 12.62 0.00 39.09 3.67
91 92 6.148480 GCCAATTGTGTTATAAAATTGCACCA 59.852 34.615 12.62 0.00 39.09 4.17
92 93 6.371271 AGCCAATTGTGTTATAAAATTGCACC 59.629 34.615 12.62 6.27 39.09 5.01
93 94 7.363205 AGCCAATTGTGTTATAAAATTGCAC 57.637 32.000 12.62 6.08 39.09 4.57
94 95 9.096160 CATAGCCAATTGTGTTATAAAATTGCA 57.904 29.630 12.62 0.00 39.09 4.08
95 96 9.311916 TCATAGCCAATTGTGTTATAAAATTGC 57.688 29.630 12.62 9.59 39.09 3.56
98 99 9.816354 GGTTCATAGCCAATTGTGTTATAAAAT 57.184 29.630 4.43 0.00 0.00 1.82
99 100 8.807118 TGGTTCATAGCCAATTGTGTTATAAAA 58.193 29.630 4.43 0.97 32.29 1.52
100 101 8.354711 TGGTTCATAGCCAATTGTGTTATAAA 57.645 30.769 4.43 0.00 32.29 1.40
101 102 7.946381 TGGTTCATAGCCAATTGTGTTATAA 57.054 32.000 4.43 0.00 32.29 0.98
102 103 7.946381 TTGGTTCATAGCCAATTGTGTTATA 57.054 32.000 4.43 0.00 40.69 0.98
103 104 6.849085 TTGGTTCATAGCCAATTGTGTTAT 57.151 33.333 4.43 1.64 40.69 1.89
104 105 6.656632 TTTGGTTCATAGCCAATTGTGTTA 57.343 33.333 4.43 0.00 44.44 2.41
105 106 5.543507 TTTGGTTCATAGCCAATTGTGTT 57.456 34.783 4.43 0.00 44.44 3.32
106 107 5.481105 CATTTGGTTCATAGCCAATTGTGT 58.519 37.500 4.43 0.00 44.44 3.72
108 109 5.743636 ACATTTGGTTCATAGCCAATTGT 57.256 34.783 13.76 13.76 46.71 2.71
109 110 6.092533 GGAAACATTTGGTTCATAGCCAATTG 59.907 38.462 10.31 12.81 44.44 2.32
110 111 6.013466 AGGAAACATTTGGTTCATAGCCAATT 60.013 34.615 10.31 0.00 44.44 2.32
111 112 5.484998 AGGAAACATTTGGTTCATAGCCAAT 59.515 36.000 10.31 0.00 44.44 3.16
112 113 4.837860 AGGAAACATTTGGTTCATAGCCAA 59.162 37.500 10.31 0.00 43.30 4.52
113 114 4.415596 AGGAAACATTTGGTTCATAGCCA 58.584 39.130 10.31 0.00 43.30 4.75
114 115 4.438744 CGAGGAAACATTTGGTTCATAGCC 60.439 45.833 10.31 0.00 43.30 3.93
115 116 4.394920 TCGAGGAAACATTTGGTTCATAGC 59.605 41.667 10.31 0.00 43.30 2.97
116 117 6.371548 TCTTCGAGGAAACATTTGGTTCATAG 59.628 38.462 10.31 4.01 43.30 2.23
117 118 6.234920 TCTTCGAGGAAACATTTGGTTCATA 58.765 36.000 10.31 0.00 43.30 2.15
118 119 5.070001 TCTTCGAGGAAACATTTGGTTCAT 58.930 37.500 10.31 2.88 43.30 2.57
119 120 4.456535 TCTTCGAGGAAACATTTGGTTCA 58.543 39.130 10.31 0.00 43.30 3.18
120 121 5.432885 TTCTTCGAGGAAACATTTGGTTC 57.567 39.130 7.61 0.00 39.29 3.62
121 122 4.278419 CCTTCTTCGAGGAAACATTTGGTT 59.722 41.667 11.41 0.00 42.98 3.67
122 123 3.821033 CCTTCTTCGAGGAAACATTTGGT 59.179 43.478 11.41 0.00 39.25 3.67
123 124 4.072131 TCCTTCTTCGAGGAAACATTTGG 58.928 43.478 11.41 7.88 42.75 3.28
133 134 3.535691 CGTCGATCCTTCTTCGAGG 57.464 57.895 0.00 0.00 45.41 4.63
134 135 2.177977 CAACGTCGATCCTTCTTCGAG 58.822 52.381 0.00 0.00 45.41 4.04
135 136 1.135489 CCAACGTCGATCCTTCTTCGA 60.135 52.381 0.00 0.00 42.87 3.71
136 137 1.269166 CCAACGTCGATCCTTCTTCG 58.731 55.000 0.00 0.00 37.94 3.79
137 138 2.365408 ACCAACGTCGATCCTTCTTC 57.635 50.000 0.00 0.00 0.00 2.87
138 139 2.824341 AGTACCAACGTCGATCCTTCTT 59.176 45.455 0.00 0.00 0.00 2.52
139 140 2.444421 AGTACCAACGTCGATCCTTCT 58.556 47.619 0.00 0.00 0.00 2.85
140 141 2.935481 AGTACCAACGTCGATCCTTC 57.065 50.000 0.00 0.00 0.00 3.46
141 142 4.012374 TCTTAGTACCAACGTCGATCCTT 58.988 43.478 0.00 0.00 0.00 3.36
142 143 3.614092 TCTTAGTACCAACGTCGATCCT 58.386 45.455 0.00 0.00 0.00 3.24
143 144 3.791455 GCTCTTAGTACCAACGTCGATCC 60.791 52.174 0.00 0.00 0.00 3.36
144 145 3.181503 TGCTCTTAGTACCAACGTCGATC 60.182 47.826 0.00 0.00 0.00 3.69
145 146 2.751259 TGCTCTTAGTACCAACGTCGAT 59.249 45.455 0.00 0.00 0.00 3.59
146 147 2.153645 TGCTCTTAGTACCAACGTCGA 58.846 47.619 0.00 0.00 0.00 4.20
147 148 2.624316 TGCTCTTAGTACCAACGTCG 57.376 50.000 0.00 0.00 0.00 5.12
148 149 5.648572 ACTTATGCTCTTAGTACCAACGTC 58.351 41.667 0.00 0.00 0.00 4.34
149 150 5.656213 ACTTATGCTCTTAGTACCAACGT 57.344 39.130 0.00 0.00 0.00 3.99
150 151 6.963049 AAACTTATGCTCTTAGTACCAACG 57.037 37.500 0.00 0.00 0.00 4.10
151 152 8.095937 ACAAAACTTATGCTCTTAGTACCAAC 57.904 34.615 0.00 0.00 0.00 3.77
152 153 9.953565 ATACAAAACTTATGCTCTTAGTACCAA 57.046 29.630 0.00 0.00 0.00 3.67
153 154 9.953565 AATACAAAACTTATGCTCTTAGTACCA 57.046 29.630 0.00 0.00 0.00 3.25
168 169 9.914131 GAAGGCTTAGAAATCAATACAAAACTT 57.086 29.630 0.00 0.00 0.00 2.66
169 170 9.301897 AGAAGGCTTAGAAATCAATACAAAACT 57.698 29.630 0.00 0.00 0.00 2.66
170 171 9.561270 GAGAAGGCTTAGAAATCAATACAAAAC 57.439 33.333 0.00 0.00 0.00 2.43
171 172 9.295825 TGAGAAGGCTTAGAAATCAATACAAAA 57.704 29.630 0.00 0.00 0.00 2.44
172 173 8.730680 GTGAGAAGGCTTAGAAATCAATACAAA 58.269 33.333 0.00 0.00 0.00 2.83
173 174 7.064609 CGTGAGAAGGCTTAGAAATCAATACAA 59.935 37.037 0.00 0.00 0.00 2.41
174 175 6.535150 CGTGAGAAGGCTTAGAAATCAATACA 59.465 38.462 0.00 0.00 0.00 2.29
175 176 6.757010 TCGTGAGAAGGCTTAGAAATCAATAC 59.243 38.462 0.00 0.00 37.03 1.89
176 177 6.757010 GTCGTGAGAAGGCTTAGAAATCAATA 59.243 38.462 0.00 0.00 45.01 1.90
177 178 5.582665 GTCGTGAGAAGGCTTAGAAATCAAT 59.417 40.000 0.00 0.00 45.01 2.57
178 179 4.929808 GTCGTGAGAAGGCTTAGAAATCAA 59.070 41.667 0.00 0.00 45.01 2.57
179 180 4.220821 AGTCGTGAGAAGGCTTAGAAATCA 59.779 41.667 0.00 0.00 45.01 2.57
180 181 4.749976 AGTCGTGAGAAGGCTTAGAAATC 58.250 43.478 0.00 0.00 45.01 2.17
181 182 4.810191 AGTCGTGAGAAGGCTTAGAAAT 57.190 40.909 0.00 0.00 45.01 2.17
182 183 4.602340 AAGTCGTGAGAAGGCTTAGAAA 57.398 40.909 0.00 0.00 45.01 2.52
183 184 4.202223 ACAAAGTCGTGAGAAGGCTTAGAA 60.202 41.667 0.00 0.00 45.01 2.10
184 185 3.321111 ACAAAGTCGTGAGAAGGCTTAGA 59.679 43.478 0.00 0.00 45.01 2.10
185 186 3.654414 ACAAAGTCGTGAGAAGGCTTAG 58.346 45.455 0.00 0.00 45.01 2.18
186 187 3.321111 AGACAAAGTCGTGAGAAGGCTTA 59.679 43.478 0.00 0.00 45.01 3.09
187 188 2.103263 AGACAAAGTCGTGAGAAGGCTT 59.897 45.455 0.00 0.00 45.01 4.35
188 189 1.689273 AGACAAAGTCGTGAGAAGGCT 59.311 47.619 0.00 0.00 45.01 4.58
189 190 2.062519 GAGACAAAGTCGTGAGAAGGC 58.937 52.381 0.00 0.00 45.01 4.35
190 191 2.035961 TGGAGACAAAGTCGTGAGAAGG 59.964 50.000 0.00 0.00 39.15 3.46
191 192 3.312828 CTGGAGACAAAGTCGTGAGAAG 58.687 50.000 0.00 0.00 41.28 2.85
192 193 2.545952 GCTGGAGACAAAGTCGTGAGAA 60.546 50.000 0.00 0.00 41.28 2.87
193 194 1.000163 GCTGGAGACAAAGTCGTGAGA 60.000 52.381 0.00 0.00 42.06 3.27
194 195 1.000283 AGCTGGAGACAAAGTCGTGAG 60.000 52.381 0.00 0.00 42.06 3.51
195 196 1.000163 GAGCTGGAGACAAAGTCGTGA 60.000 52.381 0.00 0.00 42.06 4.35
196 197 1.423395 GAGCTGGAGACAAAGTCGTG 58.577 55.000 0.00 0.00 42.06 4.35
197 198 0.318762 GGAGCTGGAGACAAAGTCGT 59.681 55.000 0.00 0.00 42.06 4.34
198 199 0.390472 GGGAGCTGGAGACAAAGTCG 60.390 60.000 0.00 0.00 42.06 4.18
199 200 0.035915 GGGGAGCTGGAGACAAAGTC 60.036 60.000 0.00 0.00 42.06 3.01
200 201 0.474660 AGGGGAGCTGGAGACAAAGT 60.475 55.000 0.00 0.00 42.06 2.66
201 202 0.035630 CAGGGGAGCTGGAGACAAAG 60.036 60.000 0.00 0.00 42.06 2.77
202 203 0.768221 ACAGGGGAGCTGGAGACAAA 60.768 55.000 0.00 0.00 42.06 2.83
203 204 0.116342 TACAGGGGAGCTGGAGACAA 59.884 55.000 0.00 0.00 42.06 3.18
204 205 0.116342 TTACAGGGGAGCTGGAGACA 59.884 55.000 0.00 0.00 39.59 3.41
205 206 1.501582 ATTACAGGGGAGCTGGAGAC 58.498 55.000 0.00 0.00 0.00 3.36
206 207 2.270434 AATTACAGGGGAGCTGGAGA 57.730 50.000 0.00 0.00 0.00 3.71
207 208 3.372440 AAAATTACAGGGGAGCTGGAG 57.628 47.619 0.00 0.00 0.00 3.86
208 209 5.466127 AATAAAATTACAGGGGAGCTGGA 57.534 39.130 0.00 0.00 0.00 3.86
209 210 5.422012 ACAAATAAAATTACAGGGGAGCTGG 59.578 40.000 0.00 0.00 0.00 4.85
210 211 6.405842 GGACAAATAAAATTACAGGGGAGCTG 60.406 42.308 0.00 0.00 0.00 4.24
211 212 5.656859 GGACAAATAAAATTACAGGGGAGCT 59.343 40.000 0.00 0.00 0.00 4.09
212 213 5.420739 TGGACAAATAAAATTACAGGGGAGC 59.579 40.000 0.00 0.00 0.00 4.70
213 214 6.405842 GCTGGACAAATAAAATTACAGGGGAG 60.406 42.308 0.00 0.00 0.00 4.30
214 215 5.420739 GCTGGACAAATAAAATTACAGGGGA 59.579 40.000 0.00 0.00 0.00 4.81
215 216 5.422012 AGCTGGACAAATAAAATTACAGGGG 59.578 40.000 0.00 0.00 0.00 4.79
216 217 6.530019 AGCTGGACAAATAAAATTACAGGG 57.470 37.500 0.00 0.00 0.00 4.45
254 255 5.676552 GGGTTTTTAGTCCACACCATTTTT 58.323 37.500 0.00 0.00 0.00 1.94
255 256 4.202172 CGGGTTTTTAGTCCACACCATTTT 60.202 41.667 0.00 0.00 0.00 1.82
256 257 3.319689 CGGGTTTTTAGTCCACACCATTT 59.680 43.478 0.00 0.00 0.00 2.32
257 258 2.888414 CGGGTTTTTAGTCCACACCATT 59.112 45.455 0.00 0.00 0.00 3.16
258 259 2.510613 CGGGTTTTTAGTCCACACCAT 58.489 47.619 0.00 0.00 0.00 3.55
259 260 1.477195 CCGGGTTTTTAGTCCACACCA 60.477 52.381 0.00 0.00 0.00 4.17
260 261 1.202794 TCCGGGTTTTTAGTCCACACC 60.203 52.381 0.00 0.00 0.00 4.16
261 262 2.259266 TCCGGGTTTTTAGTCCACAC 57.741 50.000 0.00 0.00 0.00 3.82
262 263 2.553466 CCATCCGGGTTTTTAGTCCACA 60.553 50.000 0.00 0.00 0.00 4.17
263 264 2.089201 CCATCCGGGTTTTTAGTCCAC 58.911 52.381 0.00 0.00 0.00 4.02
264 265 1.986631 TCCATCCGGGTTTTTAGTCCA 59.013 47.619 0.00 0.00 38.11 4.02
265 266 2.362736 GTCCATCCGGGTTTTTAGTCC 58.637 52.381 0.00 0.00 38.11 3.85
266 267 2.004733 CGTCCATCCGGGTTTTTAGTC 58.995 52.381 0.00 0.00 38.11 2.59
267 268 1.348696 ACGTCCATCCGGGTTTTTAGT 59.651 47.619 0.00 0.00 38.11 2.24
268 269 2.103537 ACGTCCATCCGGGTTTTTAG 57.896 50.000 0.00 0.00 38.11 1.85
269 270 2.566724 ACTACGTCCATCCGGGTTTTTA 59.433 45.455 0.00 0.00 38.11 1.52
270 271 1.348696 ACTACGTCCATCCGGGTTTTT 59.651 47.619 0.00 0.00 38.11 1.94
271 272 0.978907 ACTACGTCCATCCGGGTTTT 59.021 50.000 0.00 0.00 38.11 2.43
272 273 0.248289 CACTACGTCCATCCGGGTTT 59.752 55.000 0.00 0.00 38.11 3.27
273 274 0.612732 TCACTACGTCCATCCGGGTT 60.613 55.000 0.00 0.00 38.11 4.11
283 284 9.298774 AGTTTTATGCTATTTACTCACTACGTC 57.701 33.333 0.00 0.00 0.00 4.34
288 289 9.379791 GTGGTAGTTTTATGCTATTTACTCACT 57.620 33.333 0.00 0.00 0.00 3.41
394 395 1.269998 CAACGGGCGATTTGGGTTTTA 59.730 47.619 0.00 0.00 0.00 1.52
415 416 5.964751 GTCAGAAAACGGTTAAAAACGCTAA 59.035 36.000 0.00 0.00 0.00 3.09
454 455 2.357517 CACTGACGTGGCCTGACC 60.358 66.667 3.32 0.00 37.50 4.02
734 791 0.038744 ACCCAAAGAGCCATGTCCAG 59.961 55.000 0.00 0.00 0.00 3.86
769 826 4.561752 AGATGAACCTAACCCTAGCTCAT 58.438 43.478 0.00 0.00 32.74 2.90
907 966 3.729108 AGAACCCTAACCCTAACCCTAC 58.271 50.000 0.00 0.00 0.00 3.18
1005 1066 1.536662 GGTGGTGTCAGGGGTCTCT 60.537 63.158 0.00 0.00 0.00 3.10
1060 1121 2.279842 GCATGATGCAGGTGGGTTT 58.720 52.632 13.36 0.00 44.26 3.27
1375 1440 4.154195 CCTGCTTGTACAAGTACATTCACC 59.846 45.833 30.90 15.01 44.54 4.02
1480 1551 8.430063 GCACTCAATTTCATAACAACAAATCAG 58.570 33.333 0.00 0.00 0.00 2.90
1837 1911 9.344772 CTAGCACTCTCTTCTACCTCTTTATTA 57.655 37.037 0.00 0.00 0.00 0.98
1840 1914 6.123651 CCTAGCACTCTCTTCTACCTCTTTA 58.876 44.000 0.00 0.00 0.00 1.85
1961 2036 4.227197 TCTCTCTTCTGTTCAACCTCCTT 58.773 43.478 0.00 0.00 0.00 3.36
2123 2201 4.827284 CCACATACTTATAAAGGCCTTGGG 59.173 45.833 21.33 4.41 0.00 4.12
2214 2292 7.524717 ACTACAGTTCTTAACATTGGCATTT 57.475 32.000 0.00 0.00 0.00 2.32
2215 2293 7.524717 AACTACAGTTCTTAACATTGGCATT 57.475 32.000 0.00 0.00 31.64 3.56
2308 2388 7.507277 ACTGACTCCATAACATAGCATAAGAGA 59.493 37.037 0.00 0.00 0.00 3.10
2483 2575 2.204090 GGAGGAGGGTGGGTGGAA 60.204 66.667 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.