Multiple sequence alignment - TraesCS2D01G188200

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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 TraesCS2D01G188200 chr2D 100.000 3560 0 0 1 3560 131452534 131456093 0.000000e+00 6575.0
1 TraesCS2D01G188200 chr2D 85.862 290 37 3 2276 2565 131463537 131463822 4.470000e-79 305.0
2 TraesCS2D01G188200 chr2D 91.038 212 13 3 1 206 387901189 387900978 7.520000e-72 281.0
3 TraesCS2D01G188200 chr2D 94.118 68 4 0 385 452 131452851 131452918 1.750000e-18 104.0
4 TraesCS2D01G188200 chr2D 94.118 68 4 0 318 385 131452918 131452985 1.750000e-18 104.0
5 TraesCS2D01G188200 chr2D 95.312 64 2 1 565 628 377261211 377261149 2.260000e-17 100.0
6 TraesCS2D01G188200 chr2D 95.312 64 2 1 565 628 578032376 578032438 2.260000e-17 100.0
7 TraesCS2D01G188200 chr2A 95.975 2733 85 14 848 3560 138162852 138165579 0.000000e+00 4414.0
8 TraesCS2D01G188200 chr2A 77.273 352 52 18 3017 3356 138165816 138166151 7.850000e-42 182.0
9 TraesCS2D01G188200 chr2A 93.548 62 3 1 565 626 2613499 2613439 1.360000e-14 91.6
10 TraesCS2D01G188200 chr2A 94.872 39 2 0 744 782 1597981 1597943 1.070000e-05 62.1
11 TraesCS2D01G188200 chr2A 94.872 39 2 0 744 782 1598828 1598790 1.070000e-05 62.1
12 TraesCS2D01G188200 chr2B 96.012 1956 66 3 927 2881 185797164 185799108 0.000000e+00 3169.0
13 TraesCS2D01G188200 chr2B 95.524 715 30 2 2846 3560 185799109 185799821 0.000000e+00 1142.0
14 TraesCS2D01G188200 chr2B 87.305 512 33 8 318 808 185795624 185796124 1.120000e-154 556.0
15 TraesCS2D01G188200 chr2B 92.157 255 16 3 202 455 185795377 185795628 1.220000e-94 357.0
16 TraesCS2D01G188200 chr2B 86.942 291 33 4 2276 2565 185804808 185805094 4.430000e-84 322.0
17 TraesCS2D01G188200 chr2B 96.403 139 4 1 318 455 185795557 185795695 9.940000e-56 228.0
18 TraesCS2D01G188200 chr2B 88.816 152 14 2 206 357 454852470 454852618 2.180000e-42 183.0
19 TraesCS2D01G188200 chr2B 94.068 118 6 1 801 917 185796285 185796402 1.020000e-40 178.0
20 TraesCS2D01G188200 chr2B 97.059 68 2 0 318 385 185795691 185795758 8.080000e-22 115.0
21 TraesCS2D01G188200 chr2B 92.405 79 4 2 848 926 185796478 185796554 1.040000e-20 111.0
22 TraesCS2D01G188200 chr1A 95.146 206 10 0 1 206 76488776 76488981 3.430000e-85 326.0
23 TraesCS2D01G188200 chr1A 89.806 206 21 0 1 206 302897599 302897804 7.580000e-67 265.0
24 TraesCS2D01G188200 chr7A 92.233 206 15 1 1 206 522500539 522500743 1.250000e-74 291.0
25 TraesCS2D01G188200 chr7A 87.324 71 7 1 740 808 317056820 317056750 2.950000e-11 80.5
26 TraesCS2D01G188200 chr3A 92.574 202 15 0 5 206 405987140 405987341 1.250000e-74 291.0
27 TraesCS2D01G188200 chr3A 90.141 213 14 1 1 206 594016881 594016669 1.630000e-68 270.0
28 TraesCS2D01G188200 chr1D 91.080 213 12 1 1 206 74398805 74399017 7.520000e-72 281.0
29 TraesCS2D01G188200 chr1D 95.000 60 3 0 749 808 468986299 468986240 1.050000e-15 95.3
30 TraesCS2D01G188200 chr3B 90.777 206 19 0 1 206 488539081 488538876 3.500000e-70 276.0
31 TraesCS2D01G188200 chr7D 88.182 220 12 1 1 206 401538878 401539097 2.120000e-62 250.0
32 TraesCS2D01G188200 chr7D 95.312 64 2 1 565 628 553413530 553413592 2.260000e-17 100.0
33 TraesCS2D01G188200 chr5B 95.385 65 3 0 744 808 28754641 28754577 1.750000e-18 104.0
34 TraesCS2D01G188200 chr5B 91.429 70 5 1 565 634 17599304 17599236 1.050000e-15 95.3
35 TraesCS2D01G188200 chr1B 92.537 67 5 0 2171 2237 30458459 30458393 2.930000e-16 97.1
36 TraesCS2D01G188200 chr3D 93.750 64 3 1 565 628 67055685 67055623 1.050000e-15 95.3
37 TraesCS2D01G188200 chr3D 92.000 50 1 3 742 788 216277990 216277941 2.290000e-07 67.6


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 TraesCS2D01G188200 chr2D 131452534 131456093 3559 False 2261 6575 96.078667 1 3560 3 chr2D.!!$F3 3559
1 TraesCS2D01G188200 chr2A 138162852 138166151 3299 False 2298 4414 86.624000 848 3560 2 chr2A.!!$F1 2712
2 TraesCS2D01G188200 chr2B 185795377 185799821 4444 False 732 3169 93.866625 202 3560 8 chr2B.!!$F3 3358

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
21 22 0.028505 CAAATGCATCTTCGAGGGCG 59.971 55.0 0.00 0.00 39.35 6.13 F
146 147 0.031585 ACGCGCACTAGTTTCACTGA 59.968 50.0 5.73 0.00 0.00 3.41 F
504 639 0.037447 TGTGGCGTTCAATGGATCCA 59.963 50.0 18.88 18.88 0.00 3.41 F
749 905 0.680921 ATCAGTTTCCGTGGCCATGG 60.681 55.0 34.89 34.89 38.85 3.66 F
1986 3066 0.975556 TGTATGGGCTCTTGGCGAGA 60.976 55.0 3.99 3.99 42.62 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1731 2811 0.317854 CGATCTCTTCGTATGCCGCA 60.318 55.000 0.00 0.00 43.01 5.69 R
1986 3066 2.284699 CCTTCCCTCACCCTCCGT 60.285 66.667 0.00 0.00 0.00 4.69 R
2250 3330 4.316823 TCCAGTGTCCTCCCCGCT 62.317 66.667 0.00 0.00 0.00 5.52 R
2524 3604 3.384146 GCTTCTGACTCCTGAGATGATGA 59.616 47.826 0.22 0.00 0.00 2.92 R
3234 4352 2.795175 TGTCAGACTTCGAAGGTGTC 57.205 50.000 27.86 20.56 0.00 3.67 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 1.098050 ACAAATGCATCTTCGAGGGC 58.902 50.000 0.00 0.00 0.00 5.19
21 22 0.028505 CAAATGCATCTTCGAGGGCG 59.971 55.000 0.00 0.00 39.35 6.13
22 23 1.718757 AAATGCATCTTCGAGGGCGC 61.719 55.000 0.00 0.00 37.46 6.53
23 24 4.838152 TGCATCTTCGAGGGCGCC 62.838 66.667 21.18 21.18 37.46 6.53
24 25 4.537433 GCATCTTCGAGGGCGCCT 62.537 66.667 28.56 12.77 37.46 5.52
25 26 3.129300 CATCTTCGAGGGCGCCTA 58.871 61.111 28.56 6.83 37.46 3.93
26 27 1.006805 CATCTTCGAGGGCGCCTAG 60.007 63.158 28.56 17.71 37.46 3.02
36 37 4.858680 GCGCCTAGCCCCTGGTTC 62.859 72.222 0.00 0.00 40.81 3.62
37 38 3.399181 CGCCTAGCCCCTGGTTCA 61.399 66.667 0.00 0.00 0.00 3.18
38 39 2.592308 GCCTAGCCCCTGGTTCAG 59.408 66.667 0.00 0.00 0.00 3.02
46 47 2.352805 CCTGGTTCAGGTCCTGGC 59.647 66.667 19.11 11.75 45.82 4.85
47 48 2.352805 CTGGTTCAGGTCCTGGCC 59.647 66.667 19.11 19.70 31.51 5.36
48 49 2.121963 TGGTTCAGGTCCTGGCCT 60.122 61.111 24.35 4.13 39.99 5.19
49 50 2.190488 CTGGTTCAGGTCCTGGCCTC 62.190 65.000 24.35 12.49 36.58 4.70
50 51 2.266055 GTTCAGGTCCTGGCCTCG 59.734 66.667 19.11 0.00 36.58 4.63
51 52 2.119611 TTCAGGTCCTGGCCTCGA 59.880 61.111 19.11 0.00 36.58 4.04
52 53 1.306141 TTCAGGTCCTGGCCTCGAT 60.306 57.895 19.11 0.00 36.58 3.59
53 54 1.617018 TTCAGGTCCTGGCCTCGATG 61.617 60.000 19.11 0.00 36.58 3.84
54 55 2.060383 CAGGTCCTGGCCTCGATGA 61.060 63.158 11.46 0.00 36.58 2.92
55 56 1.074926 AGGTCCTGGCCTCGATGAT 60.075 57.895 3.32 0.00 32.39 2.45
56 57 1.118356 AGGTCCTGGCCTCGATGATC 61.118 60.000 3.32 0.00 32.39 2.92
57 58 1.402896 GGTCCTGGCCTCGATGATCA 61.403 60.000 3.32 0.00 0.00 2.92
58 59 0.465705 GTCCTGGCCTCGATGATCAA 59.534 55.000 3.32 0.00 0.00 2.57
59 60 1.134401 GTCCTGGCCTCGATGATCAAA 60.134 52.381 3.32 0.00 0.00 2.69
60 61 1.139654 TCCTGGCCTCGATGATCAAAG 59.860 52.381 3.32 0.00 0.00 2.77
61 62 1.139654 CCTGGCCTCGATGATCAAAGA 59.860 52.381 3.32 1.07 0.00 2.52
62 63 2.481854 CTGGCCTCGATGATCAAAGAG 58.518 52.381 18.53 18.53 0.00 2.85
68 69 3.129871 CTCGATGATCAAAGAGGAAGCC 58.870 50.000 17.99 0.00 0.00 4.35
69 70 1.863454 CGATGATCAAAGAGGAAGCCG 59.137 52.381 0.00 0.00 0.00 5.52
70 71 2.481969 CGATGATCAAAGAGGAAGCCGA 60.482 50.000 0.00 0.00 0.00 5.54
71 72 2.680312 TGATCAAAGAGGAAGCCGAG 57.320 50.000 0.00 0.00 0.00 4.63
72 73 1.902508 TGATCAAAGAGGAAGCCGAGT 59.097 47.619 0.00 0.00 0.00 4.18
73 74 3.096852 TGATCAAAGAGGAAGCCGAGTA 58.903 45.455 0.00 0.00 0.00 2.59
74 75 3.131223 TGATCAAAGAGGAAGCCGAGTAG 59.869 47.826 0.00 0.00 0.00 2.57
75 76 2.526432 TCAAAGAGGAAGCCGAGTAGT 58.474 47.619 0.00 0.00 0.00 2.73
76 77 2.231478 TCAAAGAGGAAGCCGAGTAGTG 59.769 50.000 0.00 0.00 0.00 2.74
77 78 1.187087 AAGAGGAAGCCGAGTAGTGG 58.813 55.000 0.00 0.00 0.00 4.00
78 79 0.684805 AGAGGAAGCCGAGTAGTGGG 60.685 60.000 0.00 0.00 0.00 4.61
83 84 2.978824 GCCGAGTAGTGGGCAAGA 59.021 61.111 17.94 0.00 46.62 3.02
84 85 1.153549 GCCGAGTAGTGGGCAAGAG 60.154 63.158 17.94 0.00 46.62 2.85
85 86 1.153549 CCGAGTAGTGGGCAAGAGC 60.154 63.158 0.00 0.00 41.10 4.09
86 87 1.517257 CGAGTAGTGGGCAAGAGCG 60.517 63.158 0.00 0.00 43.41 5.03
87 88 1.153549 GAGTAGTGGGCAAGAGCGG 60.154 63.158 0.00 0.00 43.41 5.52
88 89 2.125106 GTAGTGGGCAAGAGCGGG 60.125 66.667 0.00 0.00 43.41 6.13
89 90 4.096003 TAGTGGGCAAGAGCGGGC 62.096 66.667 0.00 0.00 43.41 6.13
112 113 2.104331 CGGCCTACGCGTCATTCT 59.896 61.111 18.63 0.00 35.02 2.40
113 114 2.230940 CGGCCTACGCGTCATTCTG 61.231 63.158 18.63 5.00 35.02 3.02
114 115 2.526120 GGCCTACGCGTCATTCTGC 61.526 63.158 18.63 10.50 35.02 4.26
115 116 2.526120 GCCTACGCGTCATTCTGCC 61.526 63.158 18.63 0.00 0.00 4.85
116 117 1.141881 CCTACGCGTCATTCTGCCT 59.858 57.895 18.63 0.00 0.00 4.75
117 118 0.872021 CCTACGCGTCATTCTGCCTC 60.872 60.000 18.63 0.00 0.00 4.70
118 119 0.872021 CTACGCGTCATTCTGCCTCC 60.872 60.000 18.63 0.00 0.00 4.30
119 120 2.292794 TACGCGTCATTCTGCCTCCC 62.293 60.000 18.63 0.00 0.00 4.30
120 121 2.268920 GCGTCATTCTGCCTCCCA 59.731 61.111 0.00 0.00 0.00 4.37
121 122 2.109126 GCGTCATTCTGCCTCCCAC 61.109 63.158 0.00 0.00 0.00 4.61
122 123 1.450312 CGTCATTCTGCCTCCCACC 60.450 63.158 0.00 0.00 0.00 4.61
123 124 1.903877 CGTCATTCTGCCTCCCACCT 61.904 60.000 0.00 0.00 0.00 4.00
124 125 0.393537 GTCATTCTGCCTCCCACCTG 60.394 60.000 0.00 0.00 0.00 4.00
125 126 1.077212 CATTCTGCCTCCCACCTGG 60.077 63.158 0.00 0.00 0.00 4.45
136 137 4.063967 CACCTGGGACGCGCACTA 62.064 66.667 5.73 0.00 0.00 2.74
137 138 3.760035 ACCTGGGACGCGCACTAG 61.760 66.667 5.73 6.52 0.00 2.57
138 139 3.760035 CCTGGGACGCGCACTAGT 61.760 66.667 5.73 0.00 0.00 2.57
139 140 2.261671 CTGGGACGCGCACTAGTT 59.738 61.111 5.73 0.00 0.00 2.24
140 141 1.374252 CTGGGACGCGCACTAGTTT 60.374 57.895 5.73 0.00 0.00 2.66
141 142 1.352156 CTGGGACGCGCACTAGTTTC 61.352 60.000 5.73 0.00 0.00 2.78
142 143 1.373748 GGGACGCGCACTAGTTTCA 60.374 57.895 5.73 0.00 0.00 2.69
143 144 1.623973 GGGACGCGCACTAGTTTCAC 61.624 60.000 5.73 0.00 0.00 3.18
144 145 0.666577 GGACGCGCACTAGTTTCACT 60.667 55.000 5.73 0.00 0.00 3.41
145 146 0.435008 GACGCGCACTAGTTTCACTG 59.565 55.000 5.73 0.00 0.00 3.66
146 147 0.031585 ACGCGCACTAGTTTCACTGA 59.968 50.000 5.73 0.00 0.00 3.41
147 148 0.435008 CGCGCACTAGTTTCACTGAC 59.565 55.000 8.75 0.00 0.00 3.51
148 149 0.790814 GCGCACTAGTTTCACTGACC 59.209 55.000 0.30 0.00 0.00 4.02
149 150 1.429463 CGCACTAGTTTCACTGACCC 58.571 55.000 0.00 0.00 0.00 4.46
150 151 1.000955 CGCACTAGTTTCACTGACCCT 59.999 52.381 0.00 0.00 0.00 4.34
151 152 2.689646 GCACTAGTTTCACTGACCCTC 58.310 52.381 0.00 0.00 0.00 4.30
152 153 2.037251 GCACTAGTTTCACTGACCCTCA 59.963 50.000 0.00 0.00 0.00 3.86
153 154 3.307059 GCACTAGTTTCACTGACCCTCAT 60.307 47.826 0.00 0.00 0.00 2.90
154 155 4.804261 GCACTAGTTTCACTGACCCTCATT 60.804 45.833 0.00 0.00 0.00 2.57
155 156 5.308825 CACTAGTTTCACTGACCCTCATTT 58.691 41.667 0.00 0.00 0.00 2.32
156 157 5.180117 CACTAGTTTCACTGACCCTCATTTG 59.820 44.000 0.00 0.00 0.00 2.32
157 158 4.170468 AGTTTCACTGACCCTCATTTGT 57.830 40.909 0.00 0.00 0.00 2.83
158 159 5.304686 AGTTTCACTGACCCTCATTTGTA 57.695 39.130 0.00 0.00 0.00 2.41
159 160 5.690865 AGTTTCACTGACCCTCATTTGTAA 58.309 37.500 0.00 0.00 0.00 2.41
160 161 6.306987 AGTTTCACTGACCCTCATTTGTAAT 58.693 36.000 0.00 0.00 0.00 1.89
161 162 6.777580 AGTTTCACTGACCCTCATTTGTAATT 59.222 34.615 0.00 0.00 0.00 1.40
162 163 6.573664 TTCACTGACCCTCATTTGTAATTG 57.426 37.500 0.00 0.00 0.00 2.32
163 164 5.875224 TCACTGACCCTCATTTGTAATTGA 58.125 37.500 0.00 0.00 0.00 2.57
164 165 5.705441 TCACTGACCCTCATTTGTAATTGAC 59.295 40.000 0.00 0.00 0.00 3.18
165 166 5.010282 ACTGACCCTCATTTGTAATTGACC 58.990 41.667 0.00 0.00 0.00 4.02
166 167 5.222130 ACTGACCCTCATTTGTAATTGACCT 60.222 40.000 0.00 0.00 0.00 3.85
167 168 5.253330 TGACCCTCATTTGTAATTGACCTC 58.747 41.667 0.00 0.00 0.00 3.85
168 169 4.600062 ACCCTCATTTGTAATTGACCTCC 58.400 43.478 0.00 0.00 0.00 4.30
169 170 4.292306 ACCCTCATTTGTAATTGACCTCCT 59.708 41.667 0.00 0.00 0.00 3.69
170 171 5.491078 ACCCTCATTTGTAATTGACCTCCTA 59.509 40.000 0.00 0.00 0.00 2.94
171 172 6.058183 CCCTCATTTGTAATTGACCTCCTAG 58.942 44.000 0.00 0.00 0.00 3.02
172 173 6.058183 CCTCATTTGTAATTGACCTCCTAGG 58.942 44.000 0.82 0.82 42.49 3.02
173 174 6.126768 CCTCATTTGTAATTGACCTCCTAGGA 60.127 42.308 11.98 11.98 37.67 2.94
174 175 6.889198 TCATTTGTAATTGACCTCCTAGGAG 58.111 40.000 29.27 29.27 37.67 3.69
189 190 7.130681 CTCCTAGGAGGAATGTATCAAAACT 57.869 40.000 28.68 0.00 45.28 2.66
190 191 7.125792 TCCTAGGAGGAATGTATCAAAACTC 57.874 40.000 7.62 0.00 42.51 3.01
191 192 6.099845 TCCTAGGAGGAATGTATCAAAACTCC 59.900 42.308 7.62 0.00 42.51 3.85
192 193 5.779241 AGGAGGAATGTATCAAAACTCCA 57.221 39.130 10.10 0.00 44.12 3.86
193 194 5.501156 AGGAGGAATGTATCAAAACTCCAC 58.499 41.667 10.10 0.00 44.12 4.02
194 195 4.640647 GGAGGAATGTATCAAAACTCCACC 59.359 45.833 0.00 0.00 41.93 4.61
195 196 5.501156 GAGGAATGTATCAAAACTCCACCT 58.499 41.667 0.00 0.00 0.00 4.00
196 197 5.892348 AGGAATGTATCAAAACTCCACCTT 58.108 37.500 0.00 0.00 0.00 3.50
197 198 6.314917 AGGAATGTATCAAAACTCCACCTTT 58.685 36.000 0.00 0.00 0.00 3.11
198 199 6.782494 AGGAATGTATCAAAACTCCACCTTTT 59.218 34.615 0.00 0.00 0.00 2.27
199 200 7.039714 AGGAATGTATCAAAACTCCACCTTTTC 60.040 37.037 0.00 0.00 0.00 2.29
200 201 7.255801 GGAATGTATCAAAACTCCACCTTTTCA 60.256 37.037 0.00 0.00 0.00 2.69
204 205 4.692228 TCAAAACTCCACCTTTTCAATGC 58.308 39.130 0.00 0.00 0.00 3.56
219 220 0.828762 AATGCACAAGCTGAAGGCCA 60.829 50.000 5.01 0.00 43.05 5.36
235 236 1.021390 GCCACCTTCATCACGACCTG 61.021 60.000 0.00 0.00 0.00 4.00
262 263 0.179084 ATGTACAAGGTCATCGCCGG 60.179 55.000 0.00 0.00 0.00 6.13
265 266 2.173758 TACAAGGTCATCGCCGGCAA 62.174 55.000 28.98 9.13 0.00 4.52
297 298 1.202830 AGGACCACCGCAACACATTTA 60.203 47.619 0.00 0.00 41.83 1.40
303 304 2.792116 CACCGCAACACATTTACAAACC 59.208 45.455 0.00 0.00 0.00 3.27
312 313 3.068024 CACATTTACAAACCTGGCACTGT 59.932 43.478 0.00 0.00 0.00 3.55
313 314 3.317993 ACATTTACAAACCTGGCACTGTC 59.682 43.478 0.00 0.00 0.00 3.51
314 315 1.588674 TTACAAACCTGGCACTGTCG 58.411 50.000 0.00 0.00 0.00 4.35
315 316 0.466543 TACAAACCTGGCACTGTCGT 59.533 50.000 0.00 0.00 0.00 4.34
361 496 1.439353 CGGCCCAAGGTCATGAATCG 61.439 60.000 0.00 0.00 0.00 3.34
386 521 2.208431 GTCATGTCTAGCACATCAGCC 58.792 52.381 5.23 0.00 44.60 4.85
398 533 1.490490 ACATCAGCCGTTATCCATGGT 59.510 47.619 12.58 1.59 33.34 3.55
469 604 1.126113 CAGTGTCCAACGAATGTACGC 59.874 52.381 0.00 0.00 36.70 4.42
498 633 5.177142 TGAAAAATTGATGTGGCGTTCAATG 59.823 36.000 9.27 0.00 40.70 2.82
504 639 0.037447 TGTGGCGTTCAATGGATCCA 59.963 50.000 18.88 18.88 0.00 3.41
542 677 2.884207 CGTTTAGGACCTCGGCGC 60.884 66.667 0.00 0.00 0.00 6.53
543 678 2.577593 GTTTAGGACCTCGGCGCT 59.422 61.111 7.64 0.00 0.00 5.92
545 680 1.980232 TTTAGGACCTCGGCGCTGA 60.980 57.895 19.73 19.73 0.00 4.26
548 683 4.070552 GGACCTCGGCGCTGACTT 62.071 66.667 16.69 4.43 0.00 3.01
558 693 1.142778 GCGCTGACTTCTCGATGACC 61.143 60.000 0.00 0.00 0.00 4.02
586 721 1.922570 CCTGGTTTCCGTCGATGTAG 58.077 55.000 3.52 0.00 0.00 2.74
650 785 1.794222 CGTTGGCGTTTCAGGGATC 59.206 57.895 0.00 0.00 0.00 3.36
652 787 1.376683 TTGGCGTTTCAGGGATCCG 60.377 57.895 5.45 0.00 0.00 4.18
683 818 4.309950 GGTGTGGTTCCCGTCGCT 62.310 66.667 0.00 0.00 0.00 4.93
738 873 0.790207 TTGCGTGCGAGATCAGTTTC 59.210 50.000 0.00 0.00 0.00 2.78
749 905 0.680921 ATCAGTTTCCGTGGCCATGG 60.681 55.000 34.89 34.89 38.85 3.66
758 914 1.019673 CGTGGCCATGGAAAGATCTG 58.980 55.000 18.40 0.00 0.00 2.90
837 1161 1.002069 TTGATGAGGGAGGCACCATT 58.998 50.000 2.69 0.00 41.20 3.16
839 1163 1.770658 TGATGAGGGAGGCACCATTAG 59.229 52.381 2.69 0.00 41.20 1.73
850 1174 3.119495 AGGCACCATTAGCGAATTTGTTC 60.119 43.478 0.00 0.00 0.00 3.18
963 2043 2.885861 CGCGCCCTCTTCAGTACT 59.114 61.111 0.00 0.00 0.00 2.73
965 2045 1.890894 GCGCCCTCTTCAGTACTCA 59.109 57.895 0.00 0.00 0.00 3.41
1503 2583 2.359967 CCTCACCCTCTTCCCCGAC 61.360 68.421 0.00 0.00 0.00 4.79
1554 2634 1.440850 CGACGTCGTTTGCTCCGTA 60.441 57.895 29.08 0.00 33.03 4.02
1986 3066 0.975556 TGTATGGGCTCTTGGCGAGA 60.976 55.000 3.99 3.99 42.62 4.04
2028 3108 3.766591 ACAGTGTTTTCCATGGTGTCAAA 59.233 39.130 12.58 1.54 0.00 2.69
2122 3202 4.431378 TGAGGTGTTTAGGGAGATGGTTA 58.569 43.478 0.00 0.00 0.00 2.85
2250 3330 2.030401 CGTCGGCGGATTGGTGAAA 61.030 57.895 7.21 0.00 0.00 2.69
2524 3604 8.834465 CAGCAGTTGAAGATTATAGTTGCTTAT 58.166 33.333 0.00 0.00 37.27 1.73
2579 3659 7.270579 CGTGTGATGTGTATTACGTATCATAGG 59.729 40.741 12.87 12.05 29.93 2.57
2682 3762 6.722590 TCTTTGGACTTCTGGTAGTATGTGTA 59.277 38.462 0.00 0.00 0.00 2.90
2774 3855 8.741101 TCTTAACCATTTCATTTGAACATTCG 57.259 30.769 0.00 0.00 33.13 3.34
2857 3938 5.862924 TTCCGACTTTTAGATGCTTCTTG 57.137 39.130 7.51 0.00 33.17 3.02
2874 3955 9.688592 ATGCTTCTTGAAAACAGAATCTTTTAG 57.311 29.630 0.00 0.00 29.78 1.85
3041 4158 4.202631 ACAACCATCCTAAAGGCCTAAACA 60.203 41.667 5.16 0.00 34.44 2.83
3152 4269 8.188139 ACGCCTTGATTTATGTTATTTTACTGG 58.812 33.333 0.00 0.00 0.00 4.00
3153 4270 7.167468 CGCCTTGATTTATGTTATTTTACTGGC 59.833 37.037 0.00 0.00 0.00 4.85
3174 4292 7.397192 ACTGGCATTCTTTATACTGATGGTTTT 59.603 33.333 0.00 0.00 0.00 2.43
3240 4358 0.387929 ACACACGATGAACGACACCT 59.612 50.000 0.00 0.00 45.77 4.00
3264 4382 3.372206 CGAAGTCTGACAATGTGAATCCC 59.628 47.826 10.88 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.474077 GCCCTCGAAGATGCATTTGTT 59.526 47.619 0.00 0.00 34.83 2.83
1 2 1.098050 GCCCTCGAAGATGCATTTGT 58.902 50.000 0.00 0.00 34.83 2.83
2 3 0.028505 CGCCCTCGAAGATGCATTTG 59.971 55.000 0.00 0.00 38.10 2.32
3 4 1.718757 GCGCCCTCGAAGATGCATTT 61.719 55.000 0.00 0.00 38.10 2.32
5 6 2.590007 GCGCCCTCGAAGATGCAT 60.590 61.111 0.00 0.00 38.10 3.96
7 8 3.151958 TAGGCGCCCTCGAAGATGC 62.152 63.158 26.15 0.00 38.10 3.91
8 9 1.006805 CTAGGCGCCCTCGAAGATG 60.007 63.158 26.15 0.00 38.10 2.90
9 10 2.862223 GCTAGGCGCCCTCGAAGAT 61.862 63.158 26.15 3.86 38.10 2.40
10 11 3.528370 GCTAGGCGCCCTCGAAGA 61.528 66.667 26.15 0.00 38.10 2.87
19 20 4.858680 GAACCAGGGGCTAGGCGC 62.859 72.222 23.85 23.85 40.84 6.53
20 21 3.391665 CTGAACCAGGGGCTAGGCG 62.392 68.421 10.58 0.00 0.00 5.52
21 22 2.592308 CTGAACCAGGGGCTAGGC 59.408 66.667 8.00 8.00 0.00 3.93
30 31 2.190488 GAGGCCAGGACCTGAACCAG 62.190 65.000 26.45 11.91 41.32 4.00
31 32 2.121963 AGGCCAGGACCTGAACCA 60.122 61.111 26.45 0.00 39.13 3.67
32 33 2.671682 GAGGCCAGGACCTGAACC 59.328 66.667 23.77 21.84 41.32 3.62
33 34 1.617947 ATCGAGGCCAGGACCTGAAC 61.618 60.000 23.77 14.47 41.32 3.18
34 35 1.306141 ATCGAGGCCAGGACCTGAA 60.306 57.895 23.77 1.43 41.32 3.02
35 36 2.060383 CATCGAGGCCAGGACCTGA 61.060 63.158 23.77 1.47 41.32 3.86
36 37 1.406065 ATCATCGAGGCCAGGACCTG 61.406 60.000 15.15 15.15 41.32 4.00
37 38 1.074926 ATCATCGAGGCCAGGACCT 60.075 57.895 5.01 2.25 45.04 3.85
38 39 1.369321 GATCATCGAGGCCAGGACC 59.631 63.158 5.01 0.00 0.00 4.46
39 40 0.465705 TTGATCATCGAGGCCAGGAC 59.534 55.000 5.01 0.00 0.00 3.85
40 41 1.139654 CTTTGATCATCGAGGCCAGGA 59.860 52.381 5.01 0.74 0.00 3.86
41 42 1.139654 TCTTTGATCATCGAGGCCAGG 59.860 52.381 5.01 0.00 0.00 4.45
42 43 2.481854 CTCTTTGATCATCGAGGCCAG 58.518 52.381 5.01 0.00 0.00 4.85
43 44 1.139654 CCTCTTTGATCATCGAGGCCA 59.860 52.381 21.18 0.00 36.91 5.36
44 45 1.414181 TCCTCTTTGATCATCGAGGCC 59.586 52.381 25.25 0.00 42.15 5.19
45 46 2.898729 TCCTCTTTGATCATCGAGGC 57.101 50.000 25.25 0.00 42.15 4.70
46 47 3.129871 GCTTCCTCTTTGATCATCGAGG 58.870 50.000 24.57 24.57 43.44 4.63
47 48 3.129871 GGCTTCCTCTTTGATCATCGAG 58.870 50.000 12.49 12.49 0.00 4.04
48 49 2.481969 CGGCTTCCTCTTTGATCATCGA 60.482 50.000 0.00 0.00 0.00 3.59
49 50 1.863454 CGGCTTCCTCTTTGATCATCG 59.137 52.381 0.00 0.00 0.00 3.84
50 51 3.129871 CTCGGCTTCCTCTTTGATCATC 58.870 50.000 0.00 0.00 0.00 2.92
51 52 2.503356 ACTCGGCTTCCTCTTTGATCAT 59.497 45.455 0.00 0.00 0.00 2.45
52 53 1.902508 ACTCGGCTTCCTCTTTGATCA 59.097 47.619 0.00 0.00 0.00 2.92
53 54 2.682155 ACTCGGCTTCCTCTTTGATC 57.318 50.000 0.00 0.00 0.00 2.92
54 55 3.100671 ACTACTCGGCTTCCTCTTTGAT 58.899 45.455 0.00 0.00 0.00 2.57
55 56 2.231478 CACTACTCGGCTTCCTCTTTGA 59.769 50.000 0.00 0.00 0.00 2.69
56 57 2.611518 CACTACTCGGCTTCCTCTTTG 58.388 52.381 0.00 0.00 0.00 2.77
57 58 1.550976 CCACTACTCGGCTTCCTCTTT 59.449 52.381 0.00 0.00 0.00 2.52
58 59 1.187087 CCACTACTCGGCTTCCTCTT 58.813 55.000 0.00 0.00 0.00 2.85
59 60 0.684805 CCCACTACTCGGCTTCCTCT 60.685 60.000 0.00 0.00 0.00 3.69
60 61 1.817209 CCCACTACTCGGCTTCCTC 59.183 63.158 0.00 0.00 0.00 3.71
61 62 2.359967 GCCCACTACTCGGCTTCCT 61.360 63.158 0.00 0.00 42.21 3.36
62 63 2.180159 TTGCCCACTACTCGGCTTCC 62.180 60.000 0.00 0.00 45.90 3.46
63 64 0.741221 CTTGCCCACTACTCGGCTTC 60.741 60.000 0.00 0.00 45.90 3.86
64 65 1.192146 TCTTGCCCACTACTCGGCTT 61.192 55.000 0.00 0.00 45.90 4.35
65 66 1.608717 CTCTTGCCCACTACTCGGCT 61.609 60.000 0.00 0.00 45.90 5.52
66 67 1.153549 CTCTTGCCCACTACTCGGC 60.154 63.158 0.00 0.00 45.92 5.54
67 68 1.153549 GCTCTTGCCCACTACTCGG 60.154 63.158 0.00 0.00 0.00 4.63
68 69 1.517257 CGCTCTTGCCCACTACTCG 60.517 63.158 0.00 0.00 35.36 4.18
69 70 1.153549 CCGCTCTTGCCCACTACTC 60.154 63.158 0.00 0.00 35.36 2.59
70 71 2.660064 CCCGCTCTTGCCCACTACT 61.660 63.158 0.00 0.00 35.36 2.57
71 72 2.125106 CCCGCTCTTGCCCACTAC 60.125 66.667 0.00 0.00 35.36 2.73
72 73 4.096003 GCCCGCTCTTGCCCACTA 62.096 66.667 0.00 0.00 35.36 2.74
94 95 2.202703 GAATGACGCGTAGGCCGT 60.203 61.111 13.97 0.00 39.32 5.68
95 96 2.104331 AGAATGACGCGTAGGCCG 59.896 61.111 13.97 0.00 40.40 6.13
96 97 2.526120 GCAGAATGACGCGTAGGCC 61.526 63.158 13.97 0.00 39.69 5.19
97 98 2.526120 GGCAGAATGACGCGTAGGC 61.526 63.158 13.97 9.72 39.69 3.93
98 99 3.706140 GGCAGAATGACGCGTAGG 58.294 61.111 13.97 0.00 39.69 3.18
106 107 1.565390 CCAGGTGGGAGGCAGAATGA 61.565 60.000 0.00 0.00 37.17 2.57
107 108 1.077212 CCAGGTGGGAGGCAGAATG 60.077 63.158 0.00 0.00 40.01 2.67
108 109 3.419858 CCAGGTGGGAGGCAGAAT 58.580 61.111 0.00 0.00 40.01 2.40
119 120 3.989698 CTAGTGCGCGTCCCAGGTG 62.990 68.421 8.43 0.00 0.00 4.00
120 121 3.760035 CTAGTGCGCGTCCCAGGT 61.760 66.667 8.43 0.00 0.00 4.00
121 122 2.781595 AAACTAGTGCGCGTCCCAGG 62.782 60.000 8.43 0.00 0.00 4.45
122 123 1.352156 GAAACTAGTGCGCGTCCCAG 61.352 60.000 8.43 3.03 0.00 4.45
123 124 1.373748 GAAACTAGTGCGCGTCCCA 60.374 57.895 8.43 0.00 0.00 4.37
124 125 1.373748 TGAAACTAGTGCGCGTCCC 60.374 57.895 8.43 0.00 0.00 4.46
125 126 1.779683 GTGAAACTAGTGCGCGTCC 59.220 57.895 8.43 0.00 0.00 4.79
137 138 6.575162 ATTACAAATGAGGGTCAGTGAAAC 57.425 37.500 0.00 0.00 0.00 2.78
138 139 6.775142 TCAATTACAAATGAGGGTCAGTGAAA 59.225 34.615 0.00 0.00 0.00 2.69
139 140 6.206634 GTCAATTACAAATGAGGGTCAGTGAA 59.793 38.462 0.00 0.00 0.00 3.18
140 141 5.705441 GTCAATTACAAATGAGGGTCAGTGA 59.295 40.000 0.00 0.00 0.00 3.41
141 142 5.106157 GGTCAATTACAAATGAGGGTCAGTG 60.106 44.000 0.00 0.00 0.00 3.66
142 143 5.010282 GGTCAATTACAAATGAGGGTCAGT 58.990 41.667 0.00 0.00 0.00 3.41
143 144 5.256474 AGGTCAATTACAAATGAGGGTCAG 58.744 41.667 0.00 0.00 0.00 3.51
144 145 5.253330 GAGGTCAATTACAAATGAGGGTCA 58.747 41.667 0.00 0.00 0.00 4.02
145 146 4.640647 GGAGGTCAATTACAAATGAGGGTC 59.359 45.833 0.00 0.00 0.00 4.46
146 147 4.292306 AGGAGGTCAATTACAAATGAGGGT 59.708 41.667 0.00 0.00 0.00 4.34
147 148 4.860022 AGGAGGTCAATTACAAATGAGGG 58.140 43.478 0.00 0.00 0.00 4.30
148 149 6.058183 CCTAGGAGGTCAATTACAAATGAGG 58.942 44.000 1.05 0.00 0.00 3.86
149 150 6.889198 TCCTAGGAGGTCAATTACAAATGAG 58.111 40.000 7.62 0.00 36.53 2.90
150 151 6.884472 TCCTAGGAGGTCAATTACAAATGA 57.116 37.500 7.62 0.00 36.53 2.57
165 166 7.130681 AGTTTTGATACATTCCTCCTAGGAG 57.869 40.000 29.27 29.27 46.73 3.69
166 167 6.099845 GGAGTTTTGATACATTCCTCCTAGGA 59.900 42.308 11.98 11.98 44.10 2.94
167 168 6.126768 TGGAGTTTTGATACATTCCTCCTAGG 60.127 42.308 0.82 0.82 38.24 3.02
168 169 6.763610 GTGGAGTTTTGATACATTCCTCCTAG 59.236 42.308 0.00 0.00 38.24 3.02
169 170 6.352737 GGTGGAGTTTTGATACATTCCTCCTA 60.353 42.308 0.00 0.00 38.24 2.94
170 171 5.501156 GTGGAGTTTTGATACATTCCTCCT 58.499 41.667 0.00 0.00 38.24 3.69
171 172 4.640647 GGTGGAGTTTTGATACATTCCTCC 59.359 45.833 0.00 0.00 37.97 4.30
172 173 5.501156 AGGTGGAGTTTTGATACATTCCTC 58.499 41.667 0.00 0.00 0.00 3.71
173 174 5.520748 AGGTGGAGTTTTGATACATTCCT 57.479 39.130 0.00 0.00 0.00 3.36
174 175 6.590234 AAAGGTGGAGTTTTGATACATTCC 57.410 37.500 0.00 0.00 0.00 3.01
175 176 7.657336 TGAAAAGGTGGAGTTTTGATACATTC 58.343 34.615 0.00 0.00 0.00 2.67
176 177 7.595819 TGAAAAGGTGGAGTTTTGATACATT 57.404 32.000 0.00 0.00 0.00 2.71
177 178 7.595819 TTGAAAAGGTGGAGTTTTGATACAT 57.404 32.000 0.00 0.00 0.00 2.29
178 179 7.432869 CATTGAAAAGGTGGAGTTTTGATACA 58.567 34.615 0.00 0.00 0.00 2.29
179 180 6.366061 GCATTGAAAAGGTGGAGTTTTGATAC 59.634 38.462 0.00 0.00 0.00 2.24
180 181 6.041409 TGCATTGAAAAGGTGGAGTTTTGATA 59.959 34.615 0.00 0.00 0.00 2.15
181 182 5.163322 TGCATTGAAAAGGTGGAGTTTTGAT 60.163 36.000 0.00 0.00 0.00 2.57
182 183 4.161189 TGCATTGAAAAGGTGGAGTTTTGA 59.839 37.500 0.00 0.00 0.00 2.69
183 184 4.270808 GTGCATTGAAAAGGTGGAGTTTTG 59.729 41.667 0.00 0.00 0.00 2.44
184 185 4.081198 TGTGCATTGAAAAGGTGGAGTTTT 60.081 37.500 0.00 0.00 0.00 2.43
185 186 3.450457 TGTGCATTGAAAAGGTGGAGTTT 59.550 39.130 0.00 0.00 0.00 2.66
186 187 3.030291 TGTGCATTGAAAAGGTGGAGTT 58.970 40.909 0.00 0.00 0.00 3.01
187 188 2.665165 TGTGCATTGAAAAGGTGGAGT 58.335 42.857 0.00 0.00 0.00 3.85
188 189 3.645884 CTTGTGCATTGAAAAGGTGGAG 58.354 45.455 0.00 0.00 0.00 3.86
189 190 2.224018 GCTTGTGCATTGAAAAGGTGGA 60.224 45.455 0.00 0.00 39.41 4.02
190 191 2.137523 GCTTGTGCATTGAAAAGGTGG 58.862 47.619 0.00 0.00 39.41 4.61
191 192 2.798283 CAGCTTGTGCATTGAAAAGGTG 59.202 45.455 11.24 11.24 40.48 4.00
192 193 2.694628 TCAGCTTGTGCATTGAAAAGGT 59.305 40.909 0.00 0.00 42.74 3.50
193 194 3.374220 TCAGCTTGTGCATTGAAAAGG 57.626 42.857 0.00 0.00 42.74 3.11
194 195 3.739300 CCTTCAGCTTGTGCATTGAAAAG 59.261 43.478 0.00 0.00 42.74 2.27
195 196 3.719924 CCTTCAGCTTGTGCATTGAAAA 58.280 40.909 0.00 0.00 42.74 2.29
196 197 2.546373 GCCTTCAGCTTGTGCATTGAAA 60.546 45.455 0.00 0.00 42.74 2.69
197 198 1.000060 GCCTTCAGCTTGTGCATTGAA 60.000 47.619 0.00 0.00 42.74 2.69
198 199 0.599558 GCCTTCAGCTTGTGCATTGA 59.400 50.000 0.00 0.00 42.74 2.57
199 200 0.389426 GGCCTTCAGCTTGTGCATTG 60.389 55.000 0.00 0.00 43.05 2.82
200 201 0.828762 TGGCCTTCAGCTTGTGCATT 60.829 50.000 3.32 0.00 43.05 3.56
204 205 3.359002 GGTGGCCTTCAGCTTGTG 58.641 61.111 3.32 0.00 43.05 3.33
219 220 1.002087 GGTTCAGGTCGTGATGAAGGT 59.998 52.381 0.00 0.00 36.16 3.50
226 227 0.038618 CATGTCGGTTCAGGTCGTGA 60.039 55.000 0.00 0.00 0.00 4.35
228 229 1.068055 GTACATGTCGGTTCAGGTCGT 60.068 52.381 0.00 0.00 34.27 4.34
235 236 3.034721 TGACCTTGTACATGTCGGTTC 57.965 47.619 0.00 1.33 0.00 3.62
262 263 2.811317 CCTCGACGAGGTGCTTGC 60.811 66.667 31.68 0.00 44.25 4.01
270 271 4.477975 GCGGTGGTCCTCGACGAG 62.478 72.222 18.08 18.08 32.65 4.18
282 283 2.792116 GGTTTGTAAATGTGTTGCGGTG 59.208 45.455 0.00 0.00 0.00 4.94
297 298 0.814010 GACGACAGTGCCAGGTTTGT 60.814 55.000 0.00 0.00 0.00 2.83
303 304 3.108289 CAGCGACGACAGTGCCAG 61.108 66.667 0.00 0.00 0.00 4.85
312 313 0.529773 GCCATGGATAACAGCGACGA 60.530 55.000 18.40 0.00 0.00 4.20
313 314 1.498865 GGCCATGGATAACAGCGACG 61.499 60.000 18.40 0.00 0.00 5.12
314 315 1.498865 CGGCCATGGATAACAGCGAC 61.499 60.000 18.40 0.00 0.00 5.19
315 316 1.227527 CGGCCATGGATAACAGCGA 60.228 57.895 18.40 0.00 0.00 4.93
361 496 2.099141 TGTGCTAGACATGACCTTGC 57.901 50.000 0.00 9.29 33.97 4.01
386 521 2.552743 TCTAGCTCGACCATGGATAACG 59.447 50.000 21.47 17.28 0.00 3.18
398 533 3.949885 TTGGGCCGGTCTAGCTCGA 62.950 63.158 5.77 0.00 31.45 4.04
460 595 2.953640 TTTTCACGGTGCGTACATTC 57.046 45.000 5.86 0.00 38.32 2.67
461 596 3.907894 ATTTTTCACGGTGCGTACATT 57.092 38.095 5.86 0.00 38.32 2.71
469 604 2.730928 GCCACATCAATTTTTCACGGTG 59.269 45.455 0.56 0.56 0.00 4.94
498 633 2.180204 CCGCCATCGTTGTGGATCC 61.180 63.158 4.20 4.20 42.02 3.36
519 654 1.888736 GAGGTCCTAAACGAGGCGT 59.111 57.895 0.00 0.00 46.25 5.68
526 661 1.810030 CAGCGCCGAGGTCCTAAAC 60.810 63.158 2.29 0.00 0.00 2.01
538 673 1.139734 TCATCGAGAAGTCAGCGCC 59.860 57.895 2.29 0.00 0.00 6.53
542 677 1.407258 GAGGGGTCATCGAGAAGTCAG 59.593 57.143 0.00 0.00 0.00 3.51
543 678 1.475403 GAGGGGTCATCGAGAAGTCA 58.525 55.000 0.00 0.00 0.00 3.41
545 680 1.038130 CCGAGGGGTCATCGAGAAGT 61.038 60.000 3.51 0.00 42.76 3.01
548 683 2.833582 GCCGAGGGGTCATCGAGA 60.834 66.667 3.51 0.00 42.76 4.04
576 711 3.084988 CGATCTATTCGCTACATCGACG 58.915 50.000 0.00 0.00 41.69 5.12
586 721 3.470567 CGCCGCCGATCTATTCGC 61.471 66.667 0.00 0.00 46.71 4.70
602 737 0.852777 CATCGCGGATACCTGAAACG 59.147 55.000 6.13 0.00 0.00 3.60
628 763 2.718731 CTGAAACGCCAACGCCAA 59.281 55.556 0.00 0.00 45.53 4.52
629 764 3.283684 CCTGAAACGCCAACGCCA 61.284 61.111 0.00 0.00 45.53 5.69
630 765 4.038080 CCCTGAAACGCCAACGCC 62.038 66.667 0.00 0.00 45.53 5.68
631 766 2.253414 GATCCCTGAAACGCCAACGC 62.253 60.000 0.00 0.00 45.53 4.84
633 768 1.644786 CGGATCCCTGAAACGCCAAC 61.645 60.000 6.06 0.00 0.00 3.77
634 769 1.376683 CGGATCCCTGAAACGCCAA 60.377 57.895 6.06 0.00 0.00 4.52
635 770 2.267642 CGGATCCCTGAAACGCCA 59.732 61.111 6.06 0.00 0.00 5.69
636 771 2.106683 CACGGATCCCTGAAACGCC 61.107 63.158 6.06 0.00 0.00 5.68
711 846 2.834574 TCTCGCACGCAAAAAGAAAA 57.165 40.000 0.00 0.00 0.00 2.29
712 847 2.289274 TGATCTCGCACGCAAAAAGAAA 59.711 40.909 0.00 0.00 0.00 2.52
713 848 1.870402 TGATCTCGCACGCAAAAAGAA 59.130 42.857 0.00 0.00 0.00 2.52
714 849 1.460743 CTGATCTCGCACGCAAAAAGA 59.539 47.619 0.00 0.00 0.00 2.52
715 850 1.195448 ACTGATCTCGCACGCAAAAAG 59.805 47.619 0.00 0.00 0.00 2.27
724 859 0.389817 CCACGGAAACTGATCTCGCA 60.390 55.000 0.00 0.00 0.00 5.10
738 873 0.107017 AGATCTTTCCATGGCCACGG 60.107 55.000 12.95 12.95 0.00 4.94
795 951 8.861086 TCAAACATCTCTACTCCTAATGTATCC 58.139 37.037 0.00 0.00 30.71 2.59
963 2043 0.823356 GTGGTGGCTGAAAAGGCTGA 60.823 55.000 0.00 0.00 35.21 4.26
965 2045 1.898574 CGTGGTGGCTGAAAAGGCT 60.899 57.895 0.82 0.00 35.21 4.58
1402 2482 2.045143 GTCGGAGAGGAGGACGGT 60.045 66.667 0.00 0.00 36.95 4.83
1531 2611 1.917151 GAGCAAACGACGTCGACGAC 61.917 60.000 41.52 33.70 43.02 4.34
1690 2770 1.003118 CTTCTCCATCCCGTTCCACAA 59.997 52.381 0.00 0.00 0.00 3.33
1731 2811 0.317854 CGATCTCTTCGTATGCCGCA 60.318 55.000 0.00 0.00 43.01 5.69
1986 3066 2.284699 CCTTCCCTCACCCTCCGT 60.285 66.667 0.00 0.00 0.00 4.69
2028 3108 4.716784 TGGTACAGTGCAATATCCTTCTCT 59.283 41.667 0.00 0.00 0.00 3.10
2250 3330 4.316823 TCCAGTGTCCTCCCCGCT 62.317 66.667 0.00 0.00 0.00 5.52
2524 3604 3.384146 GCTTCTGACTCCTGAGATGATGA 59.616 47.826 0.22 0.00 0.00 2.92
2579 3659 8.138365 TCAAAACTGTACTGTATTTGACACTC 57.862 34.615 23.22 0.00 35.67 3.51
2774 3855 3.485947 TTGAACTTACATGCGCCATTC 57.514 42.857 4.18 0.00 0.00 2.67
2779 3860 4.083581 AGTCATTTGAACTTACATGCGC 57.916 40.909 0.00 0.00 0.00 6.09
2815 3896 9.139174 GTCGGAATCAAATAACATCACAAAAAT 57.861 29.630 0.00 0.00 0.00 1.82
2826 3907 8.398665 AGCATCTAAAAGTCGGAATCAAATAAC 58.601 33.333 0.00 0.00 0.00 1.89
2833 3914 6.313905 TCAAGAAGCATCTAAAAGTCGGAATC 59.686 38.462 0.00 0.00 33.77 2.52
2857 3938 7.643579 ACTGCTCACTAAAAGATTCTGTTTTC 58.356 34.615 0.00 0.00 0.00 2.29
2874 3955 7.426929 TCTTATTTCAAGAAAGACTGCTCAC 57.573 36.000 1.48 0.00 33.32 3.51
3025 4142 9.990360 CTAAAATTTTTGTTTAGGCCTTTAGGA 57.010 29.630 12.58 0.00 35.70 2.94
3128 4245 7.978975 TGCCAGTAAAATAACATAAATCAAGGC 59.021 33.333 0.00 0.00 0.00 4.35
3147 4264 7.136822 ACCATCAGTATAAAGAATGCCAGTA 57.863 36.000 0.00 0.00 0.00 2.74
3234 4352 2.795175 TGTCAGACTTCGAAGGTGTC 57.205 50.000 27.86 20.56 0.00 3.67
3240 4358 4.690748 GGATTCACATTGTCAGACTTCGAA 59.309 41.667 1.31 0.00 0.00 3.71
3264 4382 3.853355 AGGAGCCTTTCAGGATATGTG 57.147 47.619 0.00 0.00 37.67 3.21


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

AutoCloner maintained by Alex Coulton.