Multiple sequence alignment - TraesCS2B01G506400

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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 TraesCS2B01G506400 chr2B 100.000 2605 0 0 639 3243 702727823 702725219 0.000000e+00 4811.0
1 TraesCS2B01G506400 chr2B 100.000 1539 0 0 3478 5016 702724984 702723446 0.000000e+00 2843.0
2 TraesCS2B01G506400 chr2B 84.012 2408 302 45 855 3243 699830087 699827744 0.000000e+00 2237.0
3 TraesCS2B01G506400 chr2B 100.000 469 0 0 1 469 702728461 702727993 0.000000e+00 867.0
4 TraesCS2B01G506400 chr2B 80.317 945 156 17 2309 3243 515914086 515915010 0.000000e+00 688.0
5 TraesCS2B01G506400 chr2B 76.521 937 169 30 842 1766 515912669 515913566 9.840000e-127 464.0
6 TraesCS2B01G506400 chr2B 99.454 183 1 0 639 821 702728175 702727993 2.890000e-87 333.0
7 TraesCS2B01G506400 chr2B 97.561 82 1 1 822 902 699830479 699830398 6.770000e-29 139.0
8 TraesCS2B01G506400 chr2B 91.489 47 1 2 4476 4519 144650612 144650658 1.510000e-05 62.1
9 TraesCS2B01G506400 chr2A 89.954 2379 214 12 873 3241 687506686 687504323 0.000000e+00 3046.0
10 TraesCS2B01G506400 chr2A 80.326 1718 233 43 1579 3243 718379353 718377688 0.000000e+00 1203.0
11 TraesCS2B01G506400 chr2A 87.965 457 38 8 3524 3974 687504281 687503836 1.600000e-144 523.0
12 TraesCS2B01G506400 chr2A 98.919 185 2 0 639 823 188563328 188563144 1.040000e-86 331.0
13 TraesCS2B01G506400 chr2A 90.476 231 11 4 3784 4013 687503832 687503612 1.370000e-75 294.0
14 TraesCS2B01G506400 chr2A 87.692 195 9 7 3784 3974 687503927 687503744 3.930000e-51 213.0
15 TraesCS2B01G506400 chr2A 90.722 97 7 2 3880 3974 687504027 687503931 1.470000e-25 128.0
16 TraesCS2B01G506400 chr2A 100.000 37 0 0 3488 3524 687504296 687504260 9.010000e-08 69.4
17 TraesCS2B01G506400 chr2A 91.489 47 1 2 4476 4519 90759715 90759761 1.510000e-05 62.1
18 TraesCS2B01G506400 chr2D 89.604 2424 200 17 855 3241 545498581 545500989 0.000000e+00 3033.0
19 TraesCS2B01G506400 chr2D 84.018 2409 300 48 855 3243 581523528 581525871 0.000000e+00 2237.0
20 TraesCS2B01G506400 chr2D 93.760 1266 64 7 822 2075 583234043 583232781 0.000000e+00 1886.0
21 TraesCS2B01G506400 chr2D 97.527 1011 19 4 2238 3243 583232629 583231620 0.000000e+00 1724.0
22 TraesCS2B01G506400 chr2D 96.838 854 12 5 4175 5016 583230552 583229702 0.000000e+00 1413.0
23 TraesCS2B01G506400 chr2D 98.310 651 5 3 3524 4174 583231570 583230926 0.000000e+00 1136.0
24 TraesCS2B01G506400 chr2D 80.529 945 154 17 2309 3243 438248985 438249909 0.000000e+00 699.0
25 TraesCS2B01G506400 chr2D 88.596 456 37 6 3524 3974 545501031 545501476 1.590000e-149 540.0
26 TraesCS2B01G506400 chr2D 76.948 937 168 29 842 1766 438247565 438248465 1.620000e-134 490.0
27 TraesCS2B01G506400 chr2D 86.301 292 24 9 3784 4073 545501480 545501757 2.270000e-78 303.0
28 TraesCS2B01G506400 chr2D 88.718 195 7 5 3784 3974 545501385 545501568 1.820000e-54 224.0
29 TraesCS2B01G506400 chr2D 91.429 105 6 3 826 929 581523463 581523565 1.880000e-29 141.0
30 TraesCS2B01G506400 chr2D 92.784 97 5 2 3880 3974 545501285 545501381 6.770000e-29 139.0
31 TraesCS2B01G506400 chr2D 95.918 49 0 1 3478 3524 583231597 583231549 1.500000e-10 78.7
32 TraesCS2B01G506400 chr2D 100.000 37 0 0 3488 3524 545501016 545501052 9.010000e-08 69.4
33 TraesCS2B01G506400 chr2D 91.489 47 1 2 4476 4519 93082990 93083036 1.510000e-05 62.1
34 TraesCS2B01G506400 chr2D 97.143 35 1 0 3209 3243 438251315 438251281 5.420000e-05 60.2
35 TraesCS2B01G506400 chr1B 76.593 2166 389 70 975 3104 657283906 657281823 0.000000e+00 1083.0
36 TraesCS2B01G506400 chr1B 97.246 472 7 2 4 469 524162742 524162271 0.000000e+00 795.0
37 TraesCS2B01G506400 chr1B 98.925 186 2 0 639 824 524162453 524162268 2.890000e-87 333.0
38 TraesCS2B01G506400 chr1B 95.050 101 5 0 4074 4174 428416 428316 5.200000e-35 159.0
39 TraesCS2B01G506400 chr1B 95.050 101 5 0 4074 4174 435541 435441 5.200000e-35 159.0
40 TraesCS2B01G506400 chr4A 100.000 465 0 0 5 469 403172218 403171754 0.000000e+00 859.0
41 TraesCS2B01G506400 chr4A 99.143 467 4 0 3 469 304782565 304782099 0.000000e+00 841.0
42 TraesCS2B01G506400 chr4A 97.917 192 4 0 639 830 304782281 304782090 2.890000e-87 333.0
43 TraesCS2B01G506400 chr4A 99.454 183 1 0 639 821 403171936 403171754 2.890000e-87 333.0
44 TraesCS2B01G506400 chr3A 100.000 465 0 0 5 469 219342475 219342939 0.000000e+00 859.0
45 TraesCS2B01G506400 chr3A 100.000 465 0 0 5 469 334784496 334784960 0.000000e+00 859.0
46 TraesCS2B01G506400 chr3A 99.454 183 1 0 639 821 219342757 219342939 2.890000e-87 333.0
47 TraesCS2B01G506400 chr3A 99.454 183 1 0 639 821 334784778 334784960 2.890000e-87 333.0
48 TraesCS2B01G506400 chr1A 98.927 466 4 1 5 469 472948406 472948871 0.000000e+00 832.0
49 TraesCS2B01G506400 chr1A 98.501 467 4 2 5 469 492809961 492810426 0.000000e+00 821.0
50 TraesCS2B01G506400 chr1A 82.162 925 141 17 2329 3243 566586541 566585631 0.000000e+00 773.0
51 TraesCS2B01G506400 chr1A 77.178 1148 214 34 975 2093 566587854 566586726 4.260000e-175 625.0
52 TraesCS2B01G506400 chr1A 96.040 101 4 0 4074 4174 466137115 466137215 1.120000e-36 165.0
53 TraesCS2B01G506400 chr1A 94.118 102 5 1 4074 4174 59492189 59492290 2.420000e-33 154.0
54 TraesCS2B01G506400 chr6A 98.710 465 4 2 5 469 580322222 580321760 0.000000e+00 824.0
55 TraesCS2B01G506400 chr6A 97.849 465 6 1 5 469 404633504 404633044 0.000000e+00 800.0
56 TraesCS2B01G506400 chr6A 93.069 101 7 0 4074 4174 360522370 360522270 1.130000e-31 148.0
57 TraesCS2B01G506400 chrUn 90.439 387 37 0 1004 1390 479739906 479739520 1.250000e-140 510.0
58 TraesCS2B01G506400 chr5A 98.936 188 2 0 639 826 525451188 525451001 2.240000e-88 337.0
59 TraesCS2B01G506400 chr5A 95.050 101 5 0 4074 4174 677159365 677159265 5.200000e-35 159.0
60 TraesCS2B01G506400 chr5A 89.623 106 10 1 4823 4928 564651195 564651091 3.150000e-27 134.0
61 TraesCS2B01G506400 chr4B 98.936 188 1 1 639 825 455976616 455976803 8.050000e-88 335.0
62 TraesCS2B01G506400 chr7D 93.939 99 6 0 4076 4174 403269313 403269411 3.130000e-32 150.0
63 TraesCS2B01G506400 chr6D 94.000 100 5 1 4586 4685 449134496 449134398 3.130000e-32 150.0
64 TraesCS2B01G506400 chr6D 95.652 69 2 1 4860 4928 272763681 272763614 5.310000e-20 110.0
65 TraesCS2B01G506400 chr6D 92.857 42 2 1 4587 4628 449232470 449232430 5.420000e-05 60.2
66 TraesCS2B01G506400 chr6B 96.970 66 2 0 4863 4928 83250353 83250288 1.480000e-20 111.0
67 TraesCS2B01G506400 chr1D 95.652 69 2 1 4860 4928 200758298 200758231 5.310000e-20 110.0
68 TraesCS2B01G506400 chr7B 92.754 69 5 0 4106 4174 474739692 474739624 3.200000e-17 100.0


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 TraesCS2B01G506400 chr2B 702723446 702728461 5015 True 2213.500000 4811 99.863500 1 5016 4 chr2B.!!$R2 5015
1 TraesCS2B01G506400 chr2B 699827744 699830479 2735 True 1188.000000 2237 90.786500 822 3243 2 chr2B.!!$R1 2421
2 TraesCS2B01G506400 chr2B 515912669 515915010 2341 False 576.000000 688 78.419000 842 3243 2 chr2B.!!$F2 2401
3 TraesCS2B01G506400 chr2A 718377688 718379353 1665 True 1203.000000 1203 80.326000 1579 3243 1 chr2A.!!$R2 1664
4 TraesCS2B01G506400 chr2A 687503612 687506686 3074 True 712.233333 3046 91.134833 873 4013 6 chr2A.!!$R3 3140
5 TraesCS2B01G506400 chr2D 583229702 583234043 4341 True 1247.540000 1886 96.470600 822 5016 5 chr2D.!!$R2 4194
6 TraesCS2B01G506400 chr2D 581523463 581525871 2408 False 1189.000000 2237 87.723500 826 3243 2 chr2D.!!$F4 2417
7 TraesCS2B01G506400 chr2D 545498581 545501757 3176 False 718.066667 3033 91.000500 855 4073 6 chr2D.!!$F3 3218
8 TraesCS2B01G506400 chr2D 438247565 438249909 2344 False 594.500000 699 78.738500 842 3243 2 chr2D.!!$F2 2401
9 TraesCS2B01G506400 chr1B 657281823 657283906 2083 True 1083.000000 1083 76.593000 975 3104 1 chr1B.!!$R3 2129
10 TraesCS2B01G506400 chr1A 566585631 566587854 2223 True 699.000000 773 79.670000 975 3243 2 chr1A.!!$R1 2268

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
218 219 0.245539 CACATTTTCAGCCTGCTGGG 59.754 55.000 18.38 1.66 43.75 4.45 F
229 230 0.890683 CCTGCTGGGCTGGTTTTTAG 59.109 55.000 0.71 0.00 41.68 1.85 F
1504 1911 0.107848 AAATTCGAGCCCTACCGTGG 60.108 55.000 0.00 0.00 0.00 4.94 F
2275 2805 0.250295 TCCTTGCAGGTCTTGTTCCG 60.250 55.000 0.00 0.00 36.53 4.30 F
3506 4165 2.754002 TCGCATTTCATGAAAGATGCCA 59.246 40.909 28.39 19.78 34.52 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1504 1911 0.398318 GTCAGGACCCCATATGCTCC 59.602 60.000 0.00 0.89 0.00 4.70 R
1868 2317 0.837691 AGACAGAGCACATGACCCCA 60.838 55.000 0.00 0.00 0.00 4.96 R
2377 2979 0.253044 TGTGGCTTCACATAGGGAGC 59.747 55.000 0.00 0.00 45.47 4.70 R
3632 4291 1.339151 ACCGGTTTCATGCTCTTCCTC 60.339 52.381 0.00 0.00 0.00 3.71 R
4500 5724 0.038159 CGCTTGGAGAAGTCGACCTT 60.038 55.000 13.01 5.94 33.32 3.50 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 3.421567 ACTTCAGACCTGGCCAAAC 57.578 52.632 7.01 0.54 0.00 2.93
19 20 0.535102 ACTTCAGACCTGGCCAAACG 60.535 55.000 7.01 0.00 0.00 3.60
20 21 1.228124 TTCAGACCTGGCCAAACGG 60.228 57.895 7.01 7.56 0.00 4.44
21 22 2.672996 CAGACCTGGCCAAACGGG 60.673 66.667 7.01 7.12 42.81 5.28
59 60 3.766691 ACGGCCCGTGCTAATCGT 61.767 61.111 8.62 0.00 39.18 3.73
60 61 3.261951 CGGCCCGTGCTAATCGTG 61.262 66.667 0.00 0.00 37.74 4.35
61 62 3.573491 GGCCCGTGCTAATCGTGC 61.573 66.667 0.00 0.00 37.74 5.34
62 63 3.573491 GCCCGTGCTAATCGTGCC 61.573 66.667 0.00 0.00 33.53 5.01
63 64 2.186903 CCCGTGCTAATCGTGCCT 59.813 61.111 0.00 0.00 0.00 4.75
64 65 2.173669 CCCGTGCTAATCGTGCCTG 61.174 63.158 0.00 0.00 0.00 4.85
65 66 2.173669 CCGTGCTAATCGTGCCTGG 61.174 63.158 0.00 0.00 0.00 4.45
66 67 2.813179 CGTGCTAATCGTGCCTGGC 61.813 63.158 12.87 12.87 0.00 4.85
67 68 2.124736 TGCTAATCGTGCCTGGCC 60.125 61.111 17.53 6.66 0.00 5.36
68 69 2.902343 GCTAATCGTGCCTGGCCC 60.902 66.667 17.53 2.94 0.00 5.80
69 70 2.588877 CTAATCGTGCCTGGCCCG 60.589 66.667 17.67 17.67 0.00 6.13
70 71 4.169696 TAATCGTGCCTGGCCCGG 62.170 66.667 22.84 9.24 0.00 5.73
93 94 2.748251 CCCGCCATGGCACGTTTA 60.748 61.111 34.93 0.00 42.06 2.01
94 95 2.336478 CCCGCCATGGCACGTTTAA 61.336 57.895 34.93 0.00 42.06 1.52
95 96 1.662438 CCCGCCATGGCACGTTTAAT 61.662 55.000 34.93 0.00 42.06 1.40
96 97 1.018148 CCGCCATGGCACGTTTAATA 58.982 50.000 34.93 0.00 42.06 0.98
97 98 1.002900 CCGCCATGGCACGTTTAATAG 60.003 52.381 34.93 15.02 42.06 1.73
98 99 1.596954 CGCCATGGCACGTTTAATAGC 60.597 52.381 34.93 4.60 42.06 2.97
102 103 2.019337 GGCACGTTTAATAGCCGGG 58.981 57.895 2.18 0.00 37.41 5.73
103 104 1.354155 GCACGTTTAATAGCCGGGC 59.646 57.895 12.11 12.11 44.35 6.13
104 105 2.019337 CACGTTTAATAGCCGGGCC 58.981 57.895 17.02 0.00 0.00 5.80
105 106 1.522130 ACGTTTAATAGCCGGGCCG 60.522 57.895 21.46 21.46 0.00 6.13
106 107 1.522130 CGTTTAATAGCCGGGCCGT 60.522 57.895 26.32 10.07 0.00 5.68
107 108 1.768112 CGTTTAATAGCCGGGCCGTG 61.768 60.000 26.32 17.25 0.00 4.94
108 109 1.820481 TTTAATAGCCGGGCCGTGC 60.820 57.895 26.32 25.86 0.00 5.34
160 161 3.772619 GGCACGGCCTGATTAGTAA 57.227 52.632 0.00 0.00 46.69 2.24
161 162 2.032680 GGCACGGCCTGATTAGTAAA 57.967 50.000 0.00 0.00 46.69 2.01
162 163 1.669265 GGCACGGCCTGATTAGTAAAC 59.331 52.381 0.00 0.00 46.69 2.01
163 164 1.326548 GCACGGCCTGATTAGTAAACG 59.673 52.381 0.00 0.00 0.00 3.60
164 165 1.931172 CACGGCCTGATTAGTAAACGG 59.069 52.381 0.00 0.00 0.00 4.44
165 166 1.134610 ACGGCCTGATTAGTAAACGGG 60.135 52.381 12.58 12.58 0.00 5.28
167 168 1.306148 GCCTGATTAGTAAACGGGCC 58.694 55.000 25.41 12.20 46.61 5.80
168 169 1.578583 CCTGATTAGTAAACGGGCCG 58.421 55.000 27.06 27.06 0.00 6.13
169 170 1.578583 CTGATTAGTAAACGGGCCGG 58.421 55.000 31.78 12.53 0.00 6.13
170 171 0.462403 TGATTAGTAAACGGGCCGGC 60.462 55.000 31.78 21.18 0.00 6.13
171 172 1.153107 ATTAGTAAACGGGCCGGCC 60.153 57.895 38.57 38.57 0.00 6.13
187 188 2.900337 CCCGATGGCCCGTTTAGC 60.900 66.667 0.00 0.00 0.00 3.09
188 189 2.124901 CCGATGGCCCGTTTAGCA 60.125 61.111 0.00 0.00 0.00 3.49
189 190 2.469516 CCGATGGCCCGTTTAGCAC 61.470 63.158 0.00 0.00 0.00 4.40
197 198 2.742372 CGTTTAGCACGCTGGGCT 60.742 61.111 10.07 10.07 43.37 5.19
198 199 2.870372 GTTTAGCACGCTGGGCTG 59.130 61.111 14.30 0.00 42.62 4.85
199 200 3.055719 TTTAGCACGCTGGGCTGC 61.056 61.111 14.30 9.91 42.62 5.25
200 201 3.841137 TTTAGCACGCTGGGCTGCA 62.841 57.895 14.30 0.00 42.62 4.41
204 205 3.367743 CACGCTGGGCTGCACATT 61.368 61.111 4.43 0.00 0.00 2.71
205 206 2.598394 ACGCTGGGCTGCACATTT 60.598 55.556 4.43 0.00 0.00 2.32
206 207 2.202395 ACGCTGGGCTGCACATTTT 61.202 52.632 4.43 0.00 0.00 1.82
207 208 1.444895 CGCTGGGCTGCACATTTTC 60.445 57.895 4.43 0.00 0.00 2.29
208 209 1.667151 GCTGGGCTGCACATTTTCA 59.333 52.632 4.43 0.00 0.00 2.69
209 210 0.389426 GCTGGGCTGCACATTTTCAG 60.389 55.000 4.43 0.00 0.00 3.02
214 215 3.117589 CTGCACATTTTCAGCCTGC 57.882 52.632 0.00 0.00 0.00 4.85
215 216 0.601558 CTGCACATTTTCAGCCTGCT 59.398 50.000 0.00 0.00 0.00 4.24
216 217 0.315886 TGCACATTTTCAGCCTGCTG 59.684 50.000 12.91 12.91 44.86 4.41
217 218 0.389426 GCACATTTTCAGCCTGCTGG 60.389 55.000 18.38 5.03 43.75 4.85
218 219 0.245539 CACATTTTCAGCCTGCTGGG 59.754 55.000 18.38 1.66 43.75 4.45
227 228 3.875390 CCTGCTGGGCTGGTTTTT 58.125 55.556 0.71 0.00 41.68 1.94
228 229 3.050089 CCTGCTGGGCTGGTTTTTA 57.950 52.632 0.71 0.00 41.68 1.52
229 230 0.890683 CCTGCTGGGCTGGTTTTTAG 59.109 55.000 0.71 0.00 41.68 1.85
230 231 0.890683 CTGCTGGGCTGGTTTTTAGG 59.109 55.000 0.00 0.00 0.00 2.69
231 232 1.184970 TGCTGGGCTGGTTTTTAGGC 61.185 55.000 0.00 0.00 39.76 3.93
237 238 3.801114 GGCTGGTTTTTAGGCCTATTG 57.199 47.619 14.74 0.49 41.20 1.90
238 239 2.430694 GGCTGGTTTTTAGGCCTATTGG 59.569 50.000 14.74 1.56 41.20 3.16
239 240 2.430694 GCTGGTTTTTAGGCCTATTGGG 59.569 50.000 14.74 2.10 38.36 4.12
307 308 1.785768 AAAAATTAAACGGGCCGTGC 58.214 45.000 34.87 0.00 39.99 5.34
395 396 3.784412 CGTTTAGCCCGTGCCGTG 61.784 66.667 0.00 0.00 38.69 4.94
396 397 4.097863 GTTTAGCCCGTGCCGTGC 62.098 66.667 0.00 0.00 38.69 5.34
455 456 4.404098 CTGTTTAGCCCGGCCCGT 62.404 66.667 5.55 0.00 0.00 5.28
456 457 3.912745 CTGTTTAGCCCGGCCCGTT 62.913 63.158 5.55 0.00 0.00 4.44
457 458 2.674033 GTTTAGCCCGGCCCGTTT 60.674 61.111 5.55 0.00 0.00 3.60
458 459 2.673687 TTTAGCCCGGCCCGTTTG 60.674 61.111 5.55 0.00 0.00 2.93
459 460 4.726304 TTAGCCCGGCCCGTTTGG 62.726 66.667 5.55 0.00 37.09 3.28
659 660 1.785768 AAAAATTAAACGGGCCGTGC 58.214 45.000 34.87 0.00 39.99 5.34
747 748 3.784412 CGTTTAGCCCGTGCCGTG 61.784 66.667 0.00 0.00 38.69 4.94
748 749 4.097863 GTTTAGCCCGTGCCGTGC 62.098 66.667 0.00 0.00 38.69 5.34
807 808 4.404098 CTGTTTAGCCCGGCCCGT 62.404 66.667 5.55 0.00 0.00 5.28
808 809 3.912745 CTGTTTAGCCCGGCCCGTT 62.913 63.158 5.55 0.00 0.00 4.44
809 810 2.674033 GTTTAGCCCGGCCCGTTT 60.674 61.111 5.55 0.00 0.00 3.60
810 811 2.673687 TTTAGCCCGGCCCGTTTG 60.674 61.111 5.55 0.00 0.00 2.93
811 812 4.726304 TTAGCCCGGCCCGTTTGG 62.726 66.667 5.55 0.00 37.09 3.28
981 1379 4.946772 TCATTGAGGTCAAATTCGGCAATA 59.053 37.500 0.00 0.00 39.55 1.90
989 1387 5.004345 GGTCAAATTCGGCAATAATTTCGTG 59.996 40.000 0.00 0.00 35.00 4.35
1075 1473 0.940519 CTACGCGTCCACCGTTTTCA 60.941 55.000 18.63 0.00 39.88 2.69
1125 1523 0.999228 GAGCGACGACGATATGCAGG 60.999 60.000 12.29 0.00 42.66 4.85
1287 1691 4.446413 AACCGCCGGCCGAAGTAG 62.446 66.667 30.73 10.90 40.02 2.57
1367 1771 4.250305 ATATGGGCCGTGTCCGCC 62.250 66.667 8.97 0.00 0.00 6.13
1380 1784 0.896226 GTCCGCCACCTACTCTTCTT 59.104 55.000 0.00 0.00 0.00 2.52
1390 1794 3.901844 ACCTACTCTTCTTGCACCAGTTA 59.098 43.478 0.00 0.00 0.00 2.24
1392 1796 4.021016 CCTACTCTTCTTGCACCAGTTACT 60.021 45.833 0.00 0.00 0.00 2.24
1503 1910 1.006832 CAAATTCGAGCCCTACCGTG 58.993 55.000 0.00 0.00 0.00 4.94
1504 1911 0.107848 AAATTCGAGCCCTACCGTGG 60.108 55.000 0.00 0.00 0.00 4.94
1629 2039 2.833794 TCACTTTCAACTGTTCCTCCG 58.166 47.619 0.00 0.00 0.00 4.63
2012 2464 1.298340 CCGCCAGGTGGACATGTTA 59.702 57.895 14.78 0.00 34.74 2.41
2065 2517 5.246429 TCTCCTTTCTCCAGTAAGTTTCTCC 59.754 44.000 0.00 0.00 0.00 3.71
2086 2538 3.945285 CCGTCCACTAAAGCCATGTATTT 59.055 43.478 0.00 0.00 0.00 1.40
2114 2566 9.602568 TTTTGACCATTAATCCATTCATTCATG 57.397 29.630 0.00 0.00 0.00 3.07
2195 2683 4.051922 GAGTATAAGGATGACAAGGTGCG 58.948 47.826 0.00 0.00 0.00 5.34
2196 2684 3.451178 AGTATAAGGATGACAAGGTGCGT 59.549 43.478 0.00 0.00 0.00 5.24
2198 2686 0.396435 AAGGATGACAAGGTGCGTCA 59.604 50.000 0.00 0.00 46.77 4.35
2214 2702 2.744202 GCGTCATCAAGTCCATGAAGTT 59.256 45.455 0.00 0.00 33.66 2.66
2275 2805 0.250295 TCCTTGCAGGTCTTGTTCCG 60.250 55.000 0.00 0.00 36.53 4.30
2548 3189 8.843262 CACATTACATTGTACATGGAGATGATT 58.157 33.333 10.68 0.00 33.36 2.57
2598 3242 3.990469 ACTCAAAACTACATGCTGTCTCG 59.010 43.478 0.00 0.00 0.00 4.04
3111 3767 7.423844 TGAAGATCATTGTGTGTACCTAGAT 57.576 36.000 0.00 0.00 0.00 1.98
3502 4161 5.668471 TCTCTCTCGCATTTCATGAAAGAT 58.332 37.500 24.17 7.69 33.32 2.40
3503 4162 5.522824 TCTCTCTCGCATTTCATGAAAGATG 59.477 40.000 24.17 19.13 33.32 2.90
3504 4163 4.034858 TCTCTCGCATTTCATGAAAGATGC 59.965 41.667 26.34 26.34 34.62 3.91
3505 4164 3.065786 TCTCGCATTTCATGAAAGATGCC 59.934 43.478 28.39 17.20 34.52 4.40
3506 4165 2.754002 TCGCATTTCATGAAAGATGCCA 59.246 40.909 28.39 19.78 34.52 4.92
3507 4166 3.382227 TCGCATTTCATGAAAGATGCCAT 59.618 39.130 28.39 10.64 34.52 4.40
3508 4167 3.734231 CGCATTTCATGAAAGATGCCATC 59.266 43.478 28.39 11.63 34.52 3.51
3509 4168 4.689071 GCATTTCATGAAAGATGCCATCA 58.311 39.130 26.04 4.01 32.86 3.07
3510 4169 4.506654 GCATTTCATGAAAGATGCCATCAC 59.493 41.667 26.04 7.09 32.86 3.06
3511 4170 4.724074 TTTCATGAAAGATGCCATCACC 57.276 40.909 16.91 0.00 0.00 4.02
3512 4171 3.657398 TCATGAAAGATGCCATCACCT 57.343 42.857 7.56 0.00 0.00 4.00
3513 4172 3.548770 TCATGAAAGATGCCATCACCTC 58.451 45.455 7.56 0.97 0.00 3.85
3514 4173 3.201487 TCATGAAAGATGCCATCACCTCT 59.799 43.478 7.56 0.00 0.00 3.69
3515 4174 4.409901 TCATGAAAGATGCCATCACCTCTA 59.590 41.667 7.56 0.00 0.00 2.43
3516 4175 4.842531 TGAAAGATGCCATCACCTCTAA 57.157 40.909 7.56 0.00 0.00 2.10
3517 4176 5.378230 TGAAAGATGCCATCACCTCTAAT 57.622 39.130 7.56 0.00 0.00 1.73
3518 4177 5.128205 TGAAAGATGCCATCACCTCTAATG 58.872 41.667 7.56 0.00 0.00 1.90
3519 4178 4.785346 AAGATGCCATCACCTCTAATGT 57.215 40.909 7.56 0.00 0.00 2.71
3520 4179 4.785346 AGATGCCATCACCTCTAATGTT 57.215 40.909 7.56 0.00 0.00 2.71
3521 4180 4.712476 AGATGCCATCACCTCTAATGTTC 58.288 43.478 7.56 0.00 0.00 3.18
3522 4181 4.411540 AGATGCCATCACCTCTAATGTTCT 59.588 41.667 7.56 0.00 0.00 3.01
3632 4291 2.544267 GGTTGAGACTGAGAAAACACCG 59.456 50.000 0.00 0.00 0.00 4.94
3653 4312 1.073923 AGGAAGAGCATGAAACCGGTT 59.926 47.619 15.86 15.86 0.00 4.44
3707 4366 6.038050 GTCTCATTGATCAAGAGGAAACCATC 59.962 42.308 23.26 5.48 0.00 3.51
3759 4418 2.278854 GTGCTCTCTCTTTCTGATGCC 58.721 52.381 0.00 0.00 0.00 4.40
3760 4419 1.134877 TGCTCTCTCTTTCTGATGCCG 60.135 52.381 0.00 0.00 0.00 5.69
3995 4837 1.885887 TGAACTTGTATGCACCTTGCC 59.114 47.619 0.00 0.00 44.23 4.52
4108 4950 2.122989 GGAGGCAGGGATACGGGA 60.123 66.667 0.00 0.00 37.60 5.14
4318 5533 0.417437 TCATTCTCCTCTCCCCCACA 59.583 55.000 0.00 0.00 0.00 4.17
4418 5633 1.156736 CTCCGTCAAGTGCCGATTTT 58.843 50.000 0.00 0.00 0.00 1.82
4467 5691 1.755008 GGAGCAGAGGGAGCGTACT 60.755 63.158 0.00 0.00 37.01 2.73
4662 5889 1.651240 CCCAGGTGAAGCTGCAATCG 61.651 60.000 0.00 0.00 0.00 3.34
4698 5925 4.766891 TCCAGAATCAATGAAAGGGACAAC 59.233 41.667 0.00 0.00 0.00 3.32
4724 5951 2.158475 TGGGATTGCAGGTTCAGTCTTT 60.158 45.455 0.00 0.00 0.00 2.52
4884 6111 7.123560 TCTCCCTGTATATACTTTCCCCATA 57.876 40.000 13.89 0.00 0.00 2.74
5013 6240 9.209175 GAAAGAAAGCAGTAGTGATCTTCTAAA 57.791 33.333 0.42 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.535102 CGTTTGGCCAGGTCTGAAGT 60.535 55.000 5.11 0.00 0.00 3.01
2 3 1.228124 CCGTTTGGCCAGGTCTGAA 60.228 57.895 5.11 0.00 0.00 3.02
3 4 2.429930 CCGTTTGGCCAGGTCTGA 59.570 61.111 5.11 0.00 0.00 3.27
4 5 2.672996 CCCGTTTGGCCAGGTCTG 60.673 66.667 5.11 0.00 0.00 3.51
42 43 3.766691 ACGATTAGCACGGGCCGT 61.767 61.111 28.83 28.83 42.56 5.68
43 44 3.261951 CACGATTAGCACGGGCCG 61.262 66.667 27.06 27.06 42.56 6.13
46 47 2.173669 CAGGCACGATTAGCACGGG 61.174 63.158 0.00 0.00 37.22 5.28
47 48 2.173669 CCAGGCACGATTAGCACGG 61.174 63.158 0.00 0.00 34.93 4.94
48 49 2.813179 GCCAGGCACGATTAGCACG 61.813 63.158 6.55 0.00 0.00 5.34
49 50 2.472909 GGCCAGGCACGATTAGCAC 61.473 63.158 15.19 0.00 0.00 4.40
50 51 2.124736 GGCCAGGCACGATTAGCA 60.125 61.111 15.19 0.00 0.00 3.49
51 52 2.902343 GGGCCAGGCACGATTAGC 60.902 66.667 15.19 0.00 0.00 3.09
76 77 1.662438 ATTAAACGTGCCATGGCGGG 61.662 55.000 30.87 25.76 45.51 6.13
77 78 1.002900 CTATTAAACGTGCCATGGCGG 60.003 52.381 30.87 26.12 45.51 6.13
78 79 1.596954 GCTATTAAACGTGCCATGGCG 60.597 52.381 30.87 20.22 45.51 5.69
79 80 1.269051 GGCTATTAAACGTGCCATGGC 60.269 52.381 30.54 30.54 44.34 4.40
80 81 1.002900 CGGCTATTAAACGTGCCATGG 60.003 52.381 7.63 7.63 45.13 3.66
81 82 1.002900 CCGGCTATTAAACGTGCCATG 60.003 52.381 12.24 0.00 45.13 3.66
82 83 1.305201 CCGGCTATTAAACGTGCCAT 58.695 50.000 12.24 0.00 45.13 4.40
83 84 0.745128 CCCGGCTATTAAACGTGCCA 60.745 55.000 12.24 0.00 45.13 4.92
84 85 2.019337 CCCGGCTATTAAACGTGCC 58.981 57.895 0.00 2.35 41.76 5.01
85 86 1.354155 GCCCGGCTATTAAACGTGC 59.646 57.895 0.71 0.00 0.00 5.34
86 87 1.768112 CGGCCCGGCTATTAAACGTG 61.768 60.000 9.86 0.00 0.00 4.49
87 88 1.522130 CGGCCCGGCTATTAAACGT 60.522 57.895 9.86 0.00 0.00 3.99
88 89 1.522130 ACGGCCCGGCTATTAAACG 60.522 57.895 8.57 4.87 0.00 3.60
89 90 2.019337 CACGGCCCGGCTATTAAAC 58.981 57.895 8.57 0.00 0.00 2.01
90 91 1.820481 GCACGGCCCGGCTATTAAA 60.820 57.895 8.57 0.00 0.00 1.52
91 92 2.203098 GCACGGCCCGGCTATTAA 60.203 61.111 8.57 0.00 0.00 1.40
92 93 4.244463 GGCACGGCCCGGCTATTA 62.244 66.667 8.57 0.00 44.06 0.98
143 144 1.326548 CGTTTACTAATCAGGCCGTGC 59.673 52.381 0.00 0.00 0.00 5.34
144 145 1.931172 CCGTTTACTAATCAGGCCGTG 59.069 52.381 0.00 0.00 0.00 4.94
145 146 1.134610 CCCGTTTACTAATCAGGCCGT 60.135 52.381 0.00 0.00 0.00 5.68
146 147 1.578583 CCCGTTTACTAATCAGGCCG 58.421 55.000 0.00 0.00 0.00 6.13
147 148 1.306148 GCCCGTTTACTAATCAGGCC 58.694 55.000 0.00 0.00 32.68 5.19
148 149 1.306148 GGCCCGTTTACTAATCAGGC 58.694 55.000 0.00 0.00 38.21 4.85
149 150 1.578583 CGGCCCGTTTACTAATCAGG 58.421 55.000 0.00 0.00 0.00 3.86
150 151 1.578583 CCGGCCCGTTTACTAATCAG 58.421 55.000 0.85 0.00 0.00 2.90
151 152 0.462403 GCCGGCCCGTTTACTAATCA 60.462 55.000 18.11 0.00 0.00 2.57
152 153 1.162181 GGCCGGCCCGTTTACTAATC 61.162 60.000 36.64 4.14 0.00 1.75
153 154 1.153107 GGCCGGCCCGTTTACTAAT 60.153 57.895 36.64 0.00 0.00 1.73
154 155 2.268600 GGCCGGCCCGTTTACTAA 59.731 61.111 36.64 0.00 0.00 2.24
170 171 2.900337 GCTAAACGGGCCATCGGG 60.900 66.667 4.39 0.00 37.18 5.14
171 172 2.124901 TGCTAAACGGGCCATCGG 60.125 61.111 4.39 0.00 0.00 4.18
172 173 3.098555 GTGCTAAACGGGCCATCG 58.901 61.111 4.39 1.48 0.00 3.84
181 182 2.870372 CAGCCCAGCGTGCTAAAC 59.130 61.111 0.00 0.00 36.81 2.01
182 183 3.055719 GCAGCCCAGCGTGCTAAA 61.056 61.111 0.00 0.00 36.81 1.85
183 184 4.328025 TGCAGCCCAGCGTGCTAA 62.328 61.111 0.00 0.00 40.54 3.09
187 188 2.424705 AAAATGTGCAGCCCAGCGTG 62.425 55.000 0.00 0.00 37.31 5.34
188 189 2.146073 GAAAATGTGCAGCCCAGCGT 62.146 55.000 0.00 0.00 37.31 5.07
189 190 1.444895 GAAAATGTGCAGCCCAGCG 60.445 57.895 0.00 0.00 37.31 5.18
190 191 0.389426 CTGAAAATGTGCAGCCCAGC 60.389 55.000 0.00 0.00 0.00 4.85
191 192 3.806591 CTGAAAATGTGCAGCCCAG 57.193 52.632 0.00 0.00 0.00 4.45
196 197 0.601558 AGCAGGCTGAAAATGTGCAG 59.398 50.000 20.86 0.00 36.57 4.41
197 198 0.315886 CAGCAGGCTGAAAATGTGCA 59.684 50.000 20.86 0.00 46.30 4.57
198 199 0.389426 CCAGCAGGCTGAAAATGTGC 60.389 55.000 20.86 0.00 46.30 4.57
199 200 0.245539 CCCAGCAGGCTGAAAATGTG 59.754 55.000 20.86 4.69 46.30 3.21
200 201 2.662309 CCCAGCAGGCTGAAAATGT 58.338 52.632 20.86 0.00 46.30 2.71
210 211 0.890683 CTAAAAACCAGCCCAGCAGG 59.109 55.000 0.00 0.00 41.13 4.85
211 212 0.890683 CCTAAAAACCAGCCCAGCAG 59.109 55.000 0.00 0.00 0.00 4.24
212 213 1.184970 GCCTAAAAACCAGCCCAGCA 61.185 55.000 0.00 0.00 0.00 4.41
213 214 1.591703 GCCTAAAAACCAGCCCAGC 59.408 57.895 0.00 0.00 0.00 4.85
214 215 2.276869 GGCCTAAAAACCAGCCCAG 58.723 57.895 0.00 0.00 39.60 4.45
215 216 4.531351 GGCCTAAAAACCAGCCCA 57.469 55.556 0.00 0.00 39.60 5.36
217 218 2.430694 CCAATAGGCCTAAAAACCAGCC 59.569 50.000 18.42 0.00 46.13 4.85
218 219 2.430694 CCCAATAGGCCTAAAAACCAGC 59.569 50.000 18.42 0.00 0.00 4.85
288 289 1.605968 GGCACGGCCCGTTTAATTTTT 60.606 47.619 5.76 0.00 44.06 1.94
289 290 0.038067 GGCACGGCCCGTTTAATTTT 60.038 50.000 5.76 0.00 44.06 1.82
290 291 1.587568 GGCACGGCCCGTTTAATTT 59.412 52.632 5.76 0.00 44.06 1.82
291 292 3.280211 GGCACGGCCCGTTTAATT 58.720 55.556 5.76 0.00 44.06 1.40
438 439 3.912745 AACGGGCCGGGCTAAACAG 62.913 63.158 31.78 14.11 0.00 3.16
439 440 3.494736 AAACGGGCCGGGCTAAACA 62.495 57.895 31.78 0.00 0.00 2.83
440 441 2.674033 AAACGGGCCGGGCTAAAC 60.674 61.111 31.78 10.12 0.00 2.01
441 442 2.673687 CAAACGGGCCGGGCTAAA 60.674 61.111 31.78 0.00 0.00 1.85
442 443 4.726304 CCAAACGGGCCGGGCTAA 62.726 66.667 31.78 0.00 0.00 3.09
640 641 1.605968 GGCACGGCCCGTTTAATTTTT 60.606 47.619 5.76 0.00 44.06 1.94
641 642 0.038067 GGCACGGCCCGTTTAATTTT 60.038 50.000 5.76 0.00 44.06 1.82
642 643 1.587568 GGCACGGCCCGTTTAATTT 59.412 52.632 5.76 0.00 44.06 1.82
643 644 3.280211 GGCACGGCCCGTTTAATT 58.720 55.556 5.76 0.00 44.06 1.40
790 791 3.912745 AACGGGCCGGGCTAAACAG 62.913 63.158 31.78 14.11 0.00 3.16
791 792 3.494736 AAACGGGCCGGGCTAAACA 62.495 57.895 31.78 0.00 0.00 2.83
792 793 2.674033 AAACGGGCCGGGCTAAAC 60.674 61.111 31.78 10.12 0.00 2.01
793 794 2.673687 CAAACGGGCCGGGCTAAA 60.674 61.111 31.78 0.00 0.00 1.85
794 795 4.726304 CCAAACGGGCCGGGCTAA 62.726 66.667 31.78 0.00 0.00 3.09
803 804 0.818040 GGTATAGCTGGCCAAACGGG 60.818 60.000 7.01 0.00 40.85 5.28
804 805 0.818040 GGGTATAGCTGGCCAAACGG 60.818 60.000 7.01 0.00 0.00 4.44
805 806 0.818040 GGGGTATAGCTGGCCAAACG 60.818 60.000 7.01 0.00 0.00 3.60
806 807 0.257616 TGGGGTATAGCTGGCCAAAC 59.742 55.000 7.01 1.16 0.00 2.93
807 808 0.257616 GTGGGGTATAGCTGGCCAAA 59.742 55.000 7.01 0.00 0.00 3.28
808 809 0.623324 AGTGGGGTATAGCTGGCCAA 60.623 55.000 7.01 0.00 0.00 4.52
809 810 0.623324 AAGTGGGGTATAGCTGGCCA 60.623 55.000 4.71 4.71 0.00 5.36
810 811 0.179018 CAAGTGGGGTATAGCTGGCC 60.179 60.000 0.00 0.00 0.00 5.36
811 812 0.546598 ACAAGTGGGGTATAGCTGGC 59.453 55.000 0.00 0.00 0.00 4.85
812 813 1.141053 GGACAAGTGGGGTATAGCTGG 59.859 57.143 0.00 0.00 0.00 4.85
813 814 1.141053 GGGACAAGTGGGGTATAGCTG 59.859 57.143 0.00 0.00 0.00 4.24
814 815 1.508256 GGGACAAGTGGGGTATAGCT 58.492 55.000 1.32 0.00 0.00 3.32
815 816 0.472898 GGGGACAAGTGGGGTATAGC 59.527 60.000 0.00 0.00 0.00 2.97
816 817 1.887797 TGGGGACAAGTGGGGTATAG 58.112 55.000 0.00 0.00 37.44 1.31
981 1379 2.041081 TGGAGGGAATGTCCACGAAATT 59.959 45.455 0.00 0.00 39.28 1.82
989 1387 1.749258 GGCGTTGGAGGGAATGTCC 60.749 63.158 0.00 0.00 35.23 4.02
1117 1515 2.604046 GTCGTGGAAGACCTGCATAT 57.396 50.000 0.00 0.00 35.22 1.78
1125 1523 2.678324 CTTCTTGAGGTCGTGGAAGAC 58.322 52.381 0.00 0.00 40.25 3.01
1367 1771 2.037772 ACTGGTGCAAGAAGAGTAGGTG 59.962 50.000 0.00 0.00 0.00 4.00
1390 1794 0.736325 GCGTTGTACTCGGATGCAGT 60.736 55.000 11.50 0.00 0.00 4.40
1392 1796 1.447140 GGCGTTGTACTCGGATGCA 60.447 57.895 11.50 0.00 0.00 3.96
1503 1910 0.768221 TCAGGACCCCATATGCTCCC 60.768 60.000 0.00 0.00 0.00 4.30
1504 1911 0.398318 GTCAGGACCCCATATGCTCC 59.602 60.000 0.00 0.89 0.00 4.70
1505 1912 1.428869 AGTCAGGACCCCATATGCTC 58.571 55.000 0.00 0.00 0.00 4.26
1629 2039 2.360475 GGTCCAGCCCAAGTCAGC 60.360 66.667 0.00 0.00 0.00 4.26
1868 2317 0.837691 AGACAGAGCACATGACCCCA 60.838 55.000 0.00 0.00 0.00 4.96
1916 2365 1.563924 TAATGGCGTGTAGGTGGTCT 58.436 50.000 0.00 0.00 0.00 3.85
2012 2464 6.862469 AATTCATTGATGTCTTTCATGGGT 57.138 33.333 0.00 0.00 36.83 4.51
2044 2496 4.246458 CGGAGAAACTTACTGGAGAAAGG 58.754 47.826 0.00 0.00 0.00 3.11
2065 2517 6.861065 ATAAATACATGGCTTTAGTGGACG 57.139 37.500 0.00 0.00 0.00 4.79
2106 2558 4.338012 AGCAAGATGACCAACATGAATGA 58.662 39.130 0.00 0.00 39.56 2.57
2114 2566 8.986477 ATTAATTTGTAAGCAAGATGACCAAC 57.014 30.769 0.00 0.00 35.82 3.77
2149 2613 5.245531 TCTAAGTGATTGATTGGTGGACAC 58.754 41.667 0.00 0.00 0.00 3.67
2214 2702 2.190538 TGGACTTCCTCTGCATCATGA 58.809 47.619 0.00 0.00 36.82 3.07
2300 2830 7.648908 TGTCATGCACAAGAAACTTGAAATAAG 59.351 33.333 16.65 0.00 29.30 1.73
2377 2979 0.253044 TGTGGCTTCACATAGGGAGC 59.747 55.000 0.00 0.00 45.47 4.70
2548 3189 3.430473 AAAAATGCCTCGGACCACA 57.570 47.368 0.00 0.00 0.00 4.17
2598 3242 4.646492 ACATCCATGCCATCTTTTAGGAAC 59.354 41.667 0.00 0.00 0.00 3.62
3111 3767 6.430864 TGAGAGTGGCAAAAATATTGGGATA 58.569 36.000 0.00 0.00 0.00 2.59
3141 3797 6.607198 TCCTTTCAGTCTTCCAATTTTCACTT 59.393 34.615 0.00 0.00 0.00 3.16
3485 4144 2.754002 TGGCATCTTTCATGAAATGCGA 59.246 40.909 27.84 24.44 46.21 5.10
3486 4145 3.153676 TGGCATCTTTCATGAAATGCG 57.846 42.857 27.84 17.94 46.21 4.73
3502 4161 4.264253 CAAGAACATTAGAGGTGATGGCA 58.736 43.478 0.00 0.00 0.00 4.92
3503 4162 3.065925 GCAAGAACATTAGAGGTGATGGC 59.934 47.826 0.00 0.00 0.00 4.40
3504 4163 3.629398 GGCAAGAACATTAGAGGTGATGG 59.371 47.826 0.00 0.00 0.00 3.51
3505 4164 4.264253 TGGCAAGAACATTAGAGGTGATG 58.736 43.478 0.00 0.00 0.00 3.07
3506 4165 4.574674 TGGCAAGAACATTAGAGGTGAT 57.425 40.909 0.00 0.00 0.00 3.06
3507 4166 4.019411 TGATGGCAAGAACATTAGAGGTGA 60.019 41.667 0.00 0.00 0.00 4.02
3508 4167 4.095483 GTGATGGCAAGAACATTAGAGGTG 59.905 45.833 0.00 0.00 0.00 4.00
3509 4168 4.265073 GTGATGGCAAGAACATTAGAGGT 58.735 43.478 0.00 0.00 0.00 3.85
3510 4169 3.629398 GGTGATGGCAAGAACATTAGAGG 59.371 47.826 0.00 0.00 0.00 3.69
3511 4170 4.521146 AGGTGATGGCAAGAACATTAGAG 58.479 43.478 0.00 0.00 0.00 2.43
3512 4171 4.225942 AGAGGTGATGGCAAGAACATTAGA 59.774 41.667 0.00 0.00 0.00 2.10
3513 4172 4.521146 AGAGGTGATGGCAAGAACATTAG 58.479 43.478 0.00 0.00 0.00 1.73
3514 4173 4.574674 AGAGGTGATGGCAAGAACATTA 57.425 40.909 0.00 0.00 0.00 1.90
3515 4174 3.446442 AGAGGTGATGGCAAGAACATT 57.554 42.857 0.00 0.00 0.00 2.71
3516 4175 4.574674 TTAGAGGTGATGGCAAGAACAT 57.425 40.909 0.00 0.00 0.00 2.71
3517 4176 4.263462 ACATTAGAGGTGATGGCAAGAACA 60.263 41.667 0.00 0.00 0.00 3.18
3518 4177 4.265073 ACATTAGAGGTGATGGCAAGAAC 58.735 43.478 0.00 0.00 0.00 3.01
3519 4178 4.574674 ACATTAGAGGTGATGGCAAGAA 57.425 40.909 0.00 0.00 0.00 2.52
3520 4179 4.225942 AGAACATTAGAGGTGATGGCAAGA 59.774 41.667 0.00 0.00 0.00 3.02
3521 4180 4.521146 AGAACATTAGAGGTGATGGCAAG 58.479 43.478 0.00 0.00 0.00 4.01
3522 4181 4.574674 AGAACATTAGAGGTGATGGCAA 57.425 40.909 0.00 0.00 0.00 4.52
3632 4291 1.339151 ACCGGTTTCATGCTCTTCCTC 60.339 52.381 0.00 0.00 0.00 3.71
3653 4312 4.443457 GCAGAGACTACATGCCTAATTCCA 60.443 45.833 0.00 0.00 33.81 3.53
3707 4366 6.816640 TGGTACTGATTACTTCCTTTTGATCG 59.183 38.462 0.00 0.00 0.00 3.69
3995 4837 8.076178 CACCTACTTTAAATTCACAGTTCCAAG 58.924 37.037 0.00 0.00 0.00 3.61
4181 5396 9.396022 TCTTTTATAAATGTGGACTCAAGATCC 57.604 33.333 10.04 0.00 36.70 3.36
4199 5414 7.665690 TGATGTTGCTTTTGGCTTCTTTTATA 58.334 30.769 0.00 0.00 42.39 0.98
4200 5415 6.523840 TGATGTTGCTTTTGGCTTCTTTTAT 58.476 32.000 0.00 0.00 42.39 1.40
4418 5633 3.683587 CTCGCCGCAGATCGACACA 62.684 63.158 0.00 0.00 41.67 3.72
4500 5724 0.038159 CGCTTGGAGAAGTCGACCTT 60.038 55.000 13.01 5.94 33.32 3.50
4507 5734 3.311110 TCCCGCGCTTGGAGAAGT 61.311 61.111 11.09 0.00 0.00 3.01
4539 5766 1.670015 CTCTGCTCTGCCTGTCACA 59.330 57.895 0.00 0.00 0.00 3.58
4698 5925 3.007182 ACTGAACCTGCAATCCCAAAATG 59.993 43.478 0.00 0.00 0.00 2.32
4724 5951 7.994425 AATGAACATGTTACAGTAATGGACA 57.006 32.000 11.95 0.75 0.00 4.02
4884 6111 3.101437 TGATGATTTGCTTGGCCATCTT 58.899 40.909 6.09 0.00 35.80 2.40


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

AutoCloner maintained by Alex Coulton.