Multiple sequence alignment - TraesCS7A01G274300

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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 TraesCS7A01G274300 chr7A 100.000 2714 0 0 1 2714 287520610 287523323 0.000000e+00 5012.0
1 TraesCS7A01G274300 chr7A 96.929 1042 29 2 897 1935 287484899 287485940 0.000000e+00 1744.0
2 TraesCS7A01G274300 chr7A 91.128 1037 86 3 938 1969 287494266 287495301 0.000000e+00 1400.0
3 TraesCS7A01G274300 chr7A 93.813 792 36 7 1923 2714 287487124 287487902 0.000000e+00 1179.0
4 TraesCS7A01G274300 chr7A 84.017 951 145 7 938 1883 287499677 287500625 0.000000e+00 907.0
5 TraesCS7A01G274300 chr7A 99.057 318 3 0 1 318 99846651 99846334 3.030000e-159 571.0
6 TraesCS7A01G274300 chr7A 99.057 318 3 0 1 318 255900409 255900092 3.030000e-159 571.0
7 TraesCS7A01G274300 chr7A 89.377 273 28 1 2443 2714 649807425 649807697 2.590000e-90 342.0
8 TraesCS7A01G274300 chr7A 82.741 394 46 10 390 773 287493834 287494215 5.600000e-87 331.0
9 TraesCS7A01G274300 chr7A 96.341 164 5 1 497 660 287484661 287484823 4.450000e-68 268.0
10 TraesCS7A01G274300 chr7A 93.333 135 9 0 769 903 409866075 409866209 1.650000e-47 200.0
11 TraesCS7A01G274300 chr7A 93.333 135 9 0 769 903 501074804 501074670 1.650000e-47 200.0
12 TraesCS7A01G274300 chr7A 92.199 141 11 0 761 901 596742895 596743035 1.650000e-47 200.0
13 TraesCS7A01G274300 chr7A 95.181 83 2 1 693 773 287484820 287484902 2.190000e-26 130.0
14 TraesCS7A01G274300 chr7D 94.515 1185 51 3 897 2079 264028874 264030046 0.000000e+00 1816.0
15 TraesCS7A01G274300 chr7D 88.965 1169 87 21 938 2079 264036652 264037805 0.000000e+00 1406.0
16 TraesCS7A01G274300 chr7D 85.223 988 125 14 914 1888 264026786 264027765 0.000000e+00 996.0
17 TraesCS7A01G274300 chr7D 85.777 907 121 6 897 1797 264054373 264055277 0.000000e+00 953.0
18 TraesCS7A01G274300 chr7D 95.405 457 15 3 319 773 264053924 264054376 0.000000e+00 723.0
19 TraesCS7A01G274300 chr7D 90.110 273 15 6 390 655 264028527 264028794 7.190000e-91 344.0
20 TraesCS7A01G274300 chr7D 85.196 331 33 6 2102 2417 264037790 264038119 2.610000e-85 326.0
21 TraesCS7A01G274300 chr7D 95.833 144 3 1 2274 2417 264032840 264032980 2.100000e-56 230.0
22 TraesCS7A01G274300 chr7D 84.615 104 10 5 400 502 264055999 264056097 6.180000e-17 99.0
23 TraesCS7A01G274300 chr7B 94.326 1128 62 2 938 2065 244406931 244408056 0.000000e+00 1727.0
24 TraesCS7A01G274300 chr7B 92.696 1109 72 4 971 2078 244396263 244397363 0.000000e+00 1591.0
25 TraesCS7A01G274300 chr7B 84.760 958 134 7 914 1863 244394036 244394989 0.000000e+00 950.0
26 TraesCS7A01G274300 chr7B 89.568 278 17 6 390 660 244395863 244396135 2.590000e-90 342.0
27 TraesCS7A01G274300 chr7B 89.157 83 7 1 693 773 244396132 244396214 4.780000e-18 102.0
28 TraesCS7A01G274300 chr6B 99.057 318 3 0 1 318 655301929 655302246 3.030000e-159 571.0
29 TraesCS7A01G274300 chr6B 99.057 318 3 0 1 318 676064410 676064093 3.030000e-159 571.0
30 TraesCS7A01G274300 chr6A 99.057 318 3 0 1 318 189579705 189580022 3.030000e-159 571.0
31 TraesCS7A01G274300 chr4B 98.165 327 5 1 1 327 647026538 647026863 1.090000e-158 569.0
32 TraesCS7A01G274300 chr4B 92.701 137 10 0 764 900 438337932 438338068 5.930000e-47 198.0
33 TraesCS7A01G274300 chr3B 97.872 329 7 0 1 329 581652773 581652445 1.090000e-158 569.0
34 TraesCS7A01G274300 chr3B 94.030 134 8 0 769 902 53574016 53573883 1.270000e-48 204.0
35 TraesCS7A01G274300 chr2A 98.452 323 4 1 1 323 761296735 761296414 3.920000e-158 568.0
36 TraesCS7A01G274300 chr1A 98.746 319 4 0 1 319 448916031 448916349 3.920000e-158 568.0
37 TraesCS7A01G274300 chr1A 90.476 147 12 2 767 912 14170195 14170050 2.760000e-45 193.0
38 TraesCS7A01G274300 chr2D 90.909 275 21 4 2443 2714 278370973 278371246 1.540000e-97 366.0
39 TraesCS7A01G274300 chr1D 89.591 269 26 2 2447 2714 19371297 19371564 9.310000e-90 340.0
40 TraesCS7A01G274300 chr2B 86.923 260 32 1 2453 2712 109924790 109924533 9.510000e-75 291.0
41 TraesCS7A01G274300 chr2B 88.608 158 13 5 759 914 627325237 627325083 1.280000e-43 187.0
42 TraesCS7A01G274300 chr5D 82.222 270 37 10 2452 2714 564300676 564300941 3.520000e-54 222.0
43 TraesCS7A01G274300 chr5D 81.041 269 37 13 2453 2714 167196497 167196236 4.580000e-48 202.0
44 TraesCS7A01G274300 chr5D 92.199 141 10 1 772 911 409358375 409358235 5.930000e-47 198.0
45 TraesCS7A01G274300 chr5D 80.435 184 30 5 2524 2703 341085053 341085234 4.710000e-28 135.0
46 TraesCS7A01G274300 chr5D 82.468 154 19 8 2453 2604 460227181 460227034 7.890000e-26 128.0
47 TraesCS7A01G274300 chr5D 81.818 154 20 8 2453 2604 543752865 543752718 3.670000e-24 122.0
48 TraesCS7A01G274300 chr4D 81.522 276 39 11 2446 2714 443177789 443177519 1.640000e-52 217.0
49 TraesCS7A01G274300 chr4D 81.413 269 39 10 2453 2714 417901295 417901559 2.740000e-50 209.0
50 TraesCS7A01G274300 chr4D 81.818 154 20 8 2453 2604 260694615 260694468 3.670000e-24 122.0
51 TraesCS7A01G274300 chr4D 81.481 108 13 7 2450 2555 56722998 56723100 6.230000e-12 82.4
52 TraesCS7A01G274300 chr4D 100.000 33 0 0 2453 2485 73231925 73231893 8.110000e-06 62.1
53 TraesCS7A01G274300 chr3A 95.349 129 6 0 770 898 741357305 741357177 3.540000e-49 206.0
54 TraesCS7A01G274300 chr3D 80.669 269 40 11 2453 2714 35676753 35676490 5.930000e-47 198.0
55 TraesCS7A01G274300 chr3D 80.000 270 41 12 2453 2714 520216303 520216567 1.280000e-43 187.0
56 TraesCS7A01G274300 chr1B 79.710 276 38 15 2453 2714 359445655 359445926 1.660000e-42 183.0
57 TraesCS7A01G274300 chr6D 79.528 254 40 11 2468 2714 17890203 17889955 1.290000e-38 171.0
58 TraesCS7A01G274300 chr6D 75.658 152 27 10 2453 2598 332958975 332958828 1.740000e-07 67.6
59 TraesCS7A01G274300 chrUn 97.222 36 0 1 2453 2487 95716709 95716744 2.920000e-05 60.2
60 TraesCS7A01G274300 chrUn 100.000 32 0 0 2453 2484 147948411 147948442 2.920000e-05 60.2


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 TraesCS7A01G274300 chr7A 287520610 287523323 2713 False 5012.000000 5012 100.000000 1 2714 1 chr7A.!!$F2 2713
1 TraesCS7A01G274300 chr7A 287499677 287500625 948 False 907.000000 907 84.017000 938 1883 1 chr7A.!!$F1 945
2 TraesCS7A01G274300 chr7A 287493834 287495301 1467 False 865.500000 1400 86.934500 390 1969 2 chr7A.!!$F7 1579
3 TraesCS7A01G274300 chr7A 287484661 287487902 3241 False 830.250000 1744 95.566000 497 2714 4 chr7A.!!$F6 2217
4 TraesCS7A01G274300 chr7D 264026786 264038119 11333 False 853.000000 1816 89.973667 390 2417 6 chr7D.!!$F1 2027
5 TraesCS7A01G274300 chr7D 264053924 264056097 2173 False 591.666667 953 88.599000 319 1797 3 chr7D.!!$F2 1478
6 TraesCS7A01G274300 chr7B 244406931 244408056 1125 False 1727.000000 1727 94.326000 938 2065 1 chr7B.!!$F1 1127
7 TraesCS7A01G274300 chr7B 244394036 244397363 3327 False 746.250000 1591 89.045250 390 2078 4 chr7B.!!$F2 1688

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
750 2238 0.671781 GGCTGCTCTGTTCATCGTGT 60.672 55.0 0.0 0.0 0.0 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2019 12486 0.827507 ATGTGTTGGGTGTTGCCTCC 60.828 55.0 0.0 0.0 37.43 4.3 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
24 25 7.851822 CGTGCTTAGCATTTTAAAAAGAGAA 57.148 32.000 11.03 0.00 41.91 2.87
26 27 8.751335 CGTGCTTAGCATTTTAAAAAGAGAAAA 58.249 29.630 11.03 0.00 41.91 2.29
53 54 8.417780 TGACAATGTTACAAGAAAAATGTTGG 57.582 30.769 0.00 0.00 32.27 3.77
54 55 8.037758 TGACAATGTTACAAGAAAAATGTTGGT 58.962 29.630 0.00 0.00 32.27 3.67
56 57 6.843069 ATGTTACAAGAAAAATGTTGGTGC 57.157 33.333 0.00 0.00 32.27 5.01
57 58 5.971763 TGTTACAAGAAAAATGTTGGTGCT 58.028 33.333 0.00 0.00 32.27 4.40
58 59 6.402222 TGTTACAAGAAAAATGTTGGTGCTT 58.598 32.000 0.00 0.00 32.27 3.91
60 61 7.704472 TGTTACAAGAAAAATGTTGGTGCTTAG 59.296 33.333 0.00 0.00 32.27 2.18
61 62 6.220726 ACAAGAAAAATGTTGGTGCTTAGT 57.779 33.333 0.00 0.00 0.00 2.24
62 63 7.341445 ACAAGAAAAATGTTGGTGCTTAGTA 57.659 32.000 0.00 0.00 0.00 1.82
63 64 7.425606 ACAAGAAAAATGTTGGTGCTTAGTAG 58.574 34.615 0.00 0.00 0.00 2.57
64 65 7.068226 ACAAGAAAAATGTTGGTGCTTAGTAGT 59.932 33.333 0.00 0.00 0.00 2.73
65 66 6.970484 AGAAAAATGTTGGTGCTTAGTAGTG 58.030 36.000 0.00 0.00 0.00 2.74
66 67 6.770785 AGAAAAATGTTGGTGCTTAGTAGTGA 59.229 34.615 0.00 0.00 0.00 3.41
68 69 7.524717 AAAATGTTGGTGCTTAGTAGTGAAT 57.475 32.000 0.00 0.00 0.00 2.57
69 70 7.524717 AAATGTTGGTGCTTAGTAGTGAATT 57.475 32.000 0.00 0.00 0.00 2.17
70 71 7.524717 AATGTTGGTGCTTAGTAGTGAATTT 57.475 32.000 0.00 0.00 0.00 1.82
71 72 6.312399 TGTTGGTGCTTAGTAGTGAATTTG 57.688 37.500 0.00 0.00 0.00 2.32
72 73 6.058833 TGTTGGTGCTTAGTAGTGAATTTGA 58.941 36.000 0.00 0.00 0.00 2.69
73 74 6.017440 TGTTGGTGCTTAGTAGTGAATTTGAC 60.017 38.462 0.00 0.00 0.00 3.18
74 75 5.865085 TGGTGCTTAGTAGTGAATTTGACT 58.135 37.500 0.00 0.00 0.00 3.41
75 76 5.932303 TGGTGCTTAGTAGTGAATTTGACTC 59.068 40.000 0.00 0.00 0.00 3.36
76 77 5.932303 GGTGCTTAGTAGTGAATTTGACTCA 59.068 40.000 0.00 0.00 0.00 3.41
78 79 7.413438 GGTGCTTAGTAGTGAATTTGACTCATG 60.413 40.741 0.00 0.00 0.00 3.07
79 80 7.118390 GTGCTTAGTAGTGAATTTGACTCATGT 59.882 37.037 0.00 0.00 0.00 3.21
80 81 8.311109 TGCTTAGTAGTGAATTTGACTCATGTA 58.689 33.333 0.00 0.00 0.00 2.29
84 85 8.539770 AGTAGTGAATTTGACTCATGTACAAG 57.460 34.615 0.00 0.00 0.00 3.16
87 88 8.450578 AGTGAATTTGACTCATGTACAAGAAA 57.549 30.769 0.00 0.00 0.00 2.52
88 89 8.902806 AGTGAATTTGACTCATGTACAAGAAAA 58.097 29.630 0.00 0.00 0.00 2.29
89 90 9.515020 GTGAATTTGACTCATGTACAAGAAAAA 57.485 29.630 0.00 2.98 0.00 1.94
96 97 9.944663 TGACTCATGTACAAGAAAAATAACAAC 57.055 29.630 0.00 0.00 0.00 3.32
105 106 7.764331 ACAAGAAAAATAACAACTTGTACGGT 58.236 30.769 0.00 0.00 45.64 4.83
106 107 8.245491 ACAAGAAAAATAACAACTTGTACGGTT 58.755 29.630 0.00 0.00 45.64 4.44
115 116 5.018695 CAACTTGTACGGTTGTTCATCTC 57.981 43.478 17.78 0.00 39.14 2.75
116 117 4.330944 ACTTGTACGGTTGTTCATCTCA 57.669 40.909 0.00 0.00 0.00 3.27
117 118 4.699637 ACTTGTACGGTTGTTCATCTCAA 58.300 39.130 0.00 0.00 0.00 3.02
118 119 4.750098 ACTTGTACGGTTGTTCATCTCAAG 59.250 41.667 0.00 0.00 36.74 3.02
119 120 4.594123 TGTACGGTTGTTCATCTCAAGA 57.406 40.909 0.00 0.00 0.00 3.02
120 121 4.951254 TGTACGGTTGTTCATCTCAAGAA 58.049 39.130 0.00 0.00 0.00 2.52
121 122 5.361427 TGTACGGTTGTTCATCTCAAGAAA 58.639 37.500 0.00 0.00 0.00 2.52
122 123 5.995282 TGTACGGTTGTTCATCTCAAGAAAT 59.005 36.000 0.00 0.00 0.00 2.17
123 124 7.156000 TGTACGGTTGTTCATCTCAAGAAATA 58.844 34.615 0.00 0.00 0.00 1.40
124 125 7.822334 TGTACGGTTGTTCATCTCAAGAAATAT 59.178 33.333 0.00 0.00 0.00 1.28
125 126 9.309516 GTACGGTTGTTCATCTCAAGAAATATA 57.690 33.333 0.00 0.00 0.00 0.86
126 127 8.786826 ACGGTTGTTCATCTCAAGAAATATAA 57.213 30.769 0.00 0.00 0.00 0.98
127 128 9.226606 ACGGTTGTTCATCTCAAGAAATATAAA 57.773 29.630 0.00 0.00 0.00 1.40
154 155 8.776376 TTATCTTTTACTTCGGTTTATTCGGT 57.224 30.769 0.00 0.00 0.00 4.69
155 156 7.677454 ATCTTTTACTTCGGTTTATTCGGTT 57.323 32.000 0.00 0.00 0.00 4.44
157 158 8.600449 TCTTTTACTTCGGTTTATTCGGTTAA 57.400 30.769 0.00 0.00 0.00 2.01
159 160 6.720012 TTACTTCGGTTTATTCGGTTAACC 57.280 37.500 15.13 15.13 38.33 2.85
160 161 4.640364 ACTTCGGTTTATTCGGTTAACCA 58.360 39.130 24.14 6.28 41.06 3.67
161 162 5.247862 ACTTCGGTTTATTCGGTTAACCAT 58.752 37.500 24.14 13.32 41.06 3.55
162 163 5.706833 ACTTCGGTTTATTCGGTTAACCATT 59.293 36.000 24.14 10.36 41.06 3.16
163 164 5.799681 TCGGTTTATTCGGTTAACCATTC 57.200 39.130 24.14 6.87 41.06 2.67
164 165 4.329528 TCGGTTTATTCGGTTAACCATTCG 59.670 41.667 24.14 14.28 41.06 3.34
204 205 6.704050 ACCATAAAAACCAAAGTTCAAATCGG 59.296 34.615 0.00 0.00 34.19 4.18
207 208 9.418045 CATAAAAACCAAAGTTCAAATCGGTAT 57.582 29.630 0.00 0.00 34.19 2.73
210 211 6.642707 AACCAAAGTTCAAATCGGTATGAA 57.357 33.333 0.00 0.00 33.37 2.57
211 212 6.642707 ACCAAAGTTCAAATCGGTATGAAA 57.357 33.333 0.00 0.00 37.31 2.69
212 213 7.045126 ACCAAAGTTCAAATCGGTATGAAAA 57.955 32.000 0.00 0.00 37.31 2.29
214 215 7.145323 CCAAAGTTCAAATCGGTATGAAAAGT 58.855 34.615 0.00 0.00 37.31 2.66
215 216 7.651704 CCAAAGTTCAAATCGGTATGAAAAGTT 59.348 33.333 0.00 0.00 37.31 2.66
216 217 8.690840 CAAAGTTCAAATCGGTATGAAAAGTTC 58.309 33.333 0.00 0.00 37.31 3.01
217 218 7.504924 AGTTCAAATCGGTATGAAAAGTTCA 57.495 32.000 0.00 0.00 45.01 3.18
231 232 7.136289 TGAAAAGTTCATACCATACCGAAAC 57.864 36.000 0.00 0.00 34.08 2.78
232 233 6.149807 TGAAAAGTTCATACCATACCGAAACC 59.850 38.462 0.00 0.00 34.08 3.27
233 234 4.829872 AGTTCATACCATACCGAAACCA 57.170 40.909 0.00 0.00 0.00 3.67
234 235 4.766375 AGTTCATACCATACCGAAACCAG 58.234 43.478 0.00 0.00 0.00 4.00
236 237 5.046159 AGTTCATACCATACCGAAACCAGAA 60.046 40.000 0.00 0.00 0.00 3.02
239 240 2.786777 ACCATACCGAAACCAGAAACC 58.213 47.619 0.00 0.00 0.00 3.27
240 241 2.106857 ACCATACCGAAACCAGAAACCA 59.893 45.455 0.00 0.00 0.00 3.67
241 242 3.245122 ACCATACCGAAACCAGAAACCAT 60.245 43.478 0.00 0.00 0.00 3.55
242 243 4.019141 ACCATACCGAAACCAGAAACCATA 60.019 41.667 0.00 0.00 0.00 2.74
244 245 5.416326 CCATACCGAAACCAGAAACCATAAA 59.584 40.000 0.00 0.00 0.00 1.40
246 247 5.855740 ACCGAAACCAGAAACCATAAAAA 57.144 34.783 0.00 0.00 0.00 1.94
248 249 5.127356 ACCGAAACCAGAAACCATAAAAACA 59.873 36.000 0.00 0.00 0.00 2.83
249 250 6.043411 CCGAAACCAGAAACCATAAAAACAA 58.957 36.000 0.00 0.00 0.00 2.83
250 251 6.535508 CCGAAACCAGAAACCATAAAAACAAA 59.464 34.615 0.00 0.00 0.00 2.83
252 253 8.443937 CGAAACCAGAAACCATAAAAACAAAAA 58.556 29.630 0.00 0.00 0.00 1.94
272 273 4.671406 CCGGTTCGGTTCGGTTTA 57.329 55.556 0.00 0.00 42.73 2.01
273 274 3.142124 CCGGTTCGGTTCGGTTTAT 57.858 52.632 0.00 0.00 42.73 1.40
274 275 1.441738 CCGGTTCGGTTCGGTTTATT 58.558 50.000 0.00 0.00 42.73 1.40
275 276 1.805943 CCGGTTCGGTTCGGTTTATTT 59.194 47.619 0.00 0.00 42.73 1.40
276 277 2.226200 CCGGTTCGGTTCGGTTTATTTT 59.774 45.455 0.00 0.00 42.73 1.82
278 279 3.481839 GGTTCGGTTCGGTTTATTTTCG 58.518 45.455 0.00 0.00 0.00 3.46
280 281 2.765122 TCGGTTCGGTTTATTTTCGGT 58.235 42.857 0.00 0.00 0.00 4.69
281 282 3.919216 TCGGTTCGGTTTATTTTCGGTA 58.081 40.909 0.00 0.00 0.00 4.02
282 283 4.502962 TCGGTTCGGTTTATTTTCGGTAT 58.497 39.130 0.00 0.00 0.00 2.73
283 284 4.329528 TCGGTTCGGTTTATTTTCGGTATG 59.670 41.667 0.00 0.00 0.00 2.39
285 286 4.395854 GGTTCGGTTTATTTTCGGTATGGT 59.604 41.667 0.00 0.00 0.00 3.55
286 287 5.106197 GGTTCGGTTTATTTTCGGTATGGTT 60.106 40.000 0.00 0.00 0.00 3.67
287 288 6.380995 GTTCGGTTTATTTTCGGTATGGTTT 58.619 36.000 0.00 0.00 0.00 3.27
288 289 6.572167 TCGGTTTATTTTCGGTATGGTTTT 57.428 33.333 0.00 0.00 0.00 2.43
291 292 6.032670 CGGTTTATTTTCGGTATGGTTTTTCG 59.967 38.462 0.00 0.00 0.00 3.46
292 293 6.308524 GGTTTATTTTCGGTATGGTTTTTCGG 59.691 38.462 0.00 0.00 0.00 4.30
294 295 4.915158 TTTTCGGTATGGTTTTTCGGTT 57.085 36.364 0.00 0.00 0.00 4.44
296 297 2.067766 TCGGTATGGTTTTTCGGTTCG 58.932 47.619 0.00 0.00 0.00 3.95
297 298 1.129064 CGGTATGGTTTTTCGGTTCGG 59.871 52.381 0.00 0.00 0.00 4.30
298 299 2.153645 GGTATGGTTTTTCGGTTCGGT 58.846 47.619 0.00 0.00 0.00 4.69
299 300 2.553602 GGTATGGTTTTTCGGTTCGGTT 59.446 45.455 0.00 0.00 0.00 4.44
300 301 3.004629 GGTATGGTTTTTCGGTTCGGTTT 59.995 43.478 0.00 0.00 0.00 3.27
301 302 3.804786 ATGGTTTTTCGGTTCGGTTTT 57.195 38.095 0.00 0.00 0.00 2.43
302 303 4.915158 ATGGTTTTTCGGTTCGGTTTTA 57.085 36.364 0.00 0.00 0.00 1.52
303 304 4.708726 TGGTTTTTCGGTTCGGTTTTAA 57.291 36.364 0.00 0.00 0.00 1.52
304 305 5.064441 TGGTTTTTCGGTTCGGTTTTAAA 57.936 34.783 0.00 0.00 0.00 1.52
305 306 5.473039 TGGTTTTTCGGTTCGGTTTTAAAA 58.527 33.333 0.00 0.00 0.00 1.52
306 307 6.104665 TGGTTTTTCGGTTCGGTTTTAAAAT 58.895 32.000 3.52 0.00 0.00 1.82
307 308 6.035758 TGGTTTTTCGGTTCGGTTTTAAAATG 59.964 34.615 3.52 0.58 0.00 2.32
308 309 5.638660 TTTTCGGTTCGGTTTTAAAATGC 57.361 34.783 3.52 0.00 0.00 3.56
309 310 3.984508 TCGGTTCGGTTTTAAAATGCA 57.015 38.095 3.52 0.00 0.00 3.96
310 311 3.630101 TCGGTTCGGTTTTAAAATGCAC 58.370 40.909 3.52 1.24 0.00 4.57
311 312 3.066342 TCGGTTCGGTTTTAAAATGCACA 59.934 39.130 3.52 0.00 0.00 4.57
312 313 3.423867 CGGTTCGGTTTTAAAATGCACAG 59.576 43.478 3.52 0.00 0.00 3.66
313 314 4.612943 GGTTCGGTTTTAAAATGCACAGA 58.387 39.130 3.52 0.00 0.00 3.41
315 316 5.278604 GTTCGGTTTTAAAATGCACAGAGT 58.721 37.500 3.52 0.00 0.00 3.24
316 317 4.854399 TCGGTTTTAAAATGCACAGAGTG 58.146 39.130 3.52 0.00 36.51 3.51
317 318 4.576873 TCGGTTTTAAAATGCACAGAGTGA 59.423 37.500 3.52 0.00 35.23 3.41
334 335 3.614092 AGTGACATGCATCCCAAGTAAG 58.386 45.455 0.00 0.00 0.00 2.34
369 370 4.022503 CGATAATCTCAGACAGCCAGATGA 60.023 45.833 0.00 0.00 0.00 2.92
417 1891 2.226437 GTGCACTTACATGGTTGTCCTG 59.774 50.000 10.32 0.00 37.28 3.86
418 1892 1.812571 GCACTTACATGGTTGTCCTGG 59.187 52.381 0.00 0.00 37.28 4.45
419 1893 2.814097 GCACTTACATGGTTGTCCTGGT 60.814 50.000 0.00 0.00 37.28 4.00
571 2051 6.408092 CCTTGGCCAGTACTACTTCATTATCA 60.408 42.308 5.11 0.00 0.00 2.15
750 2238 0.671781 GGCTGCTCTGTTCATCGTGT 60.672 55.000 0.00 0.00 0.00 4.49
767 2255 1.068748 GTGTCATTGCTGTTGCCTCTG 60.069 52.381 0.00 0.00 38.71 3.35
768 2256 1.202794 TGTCATTGCTGTTGCCTCTGA 60.203 47.619 0.00 0.00 38.71 3.27
769 2257 2.089980 GTCATTGCTGTTGCCTCTGAT 58.910 47.619 0.00 0.00 38.71 2.90
771 2259 3.881688 GTCATTGCTGTTGCCTCTGATAT 59.118 43.478 0.00 0.00 38.71 1.63
772 2260 5.059161 GTCATTGCTGTTGCCTCTGATATA 58.941 41.667 0.00 0.00 38.71 0.86
773 2261 5.049818 GTCATTGCTGTTGCCTCTGATATAC 60.050 44.000 0.00 0.00 38.71 1.47
774 2262 4.760530 TTGCTGTTGCCTCTGATATACT 57.239 40.909 0.00 0.00 38.71 2.12
775 2263 4.760530 TGCTGTTGCCTCTGATATACTT 57.239 40.909 0.00 0.00 38.71 2.24
776 2264 4.697514 TGCTGTTGCCTCTGATATACTTC 58.302 43.478 0.00 0.00 38.71 3.01
777 2265 4.061596 GCTGTTGCCTCTGATATACTTCC 58.938 47.826 0.00 0.00 0.00 3.46
778 2266 4.202305 GCTGTTGCCTCTGATATACTTCCT 60.202 45.833 0.00 0.00 0.00 3.36
779 2267 5.537188 CTGTTGCCTCTGATATACTTCCTC 58.463 45.833 0.00 0.00 0.00 3.71
780 2268 4.345257 TGTTGCCTCTGATATACTTCCTCC 59.655 45.833 0.00 0.00 0.00 4.30
781 2269 3.157881 TGCCTCTGATATACTTCCTCCG 58.842 50.000 0.00 0.00 0.00 4.63
782 2270 3.158676 GCCTCTGATATACTTCCTCCGT 58.841 50.000 0.00 0.00 0.00 4.69
783 2271 3.574826 GCCTCTGATATACTTCCTCCGTT 59.425 47.826 0.00 0.00 0.00 4.44
784 2272 4.321378 GCCTCTGATATACTTCCTCCGTTC 60.321 50.000 0.00 0.00 0.00 3.95
785 2273 4.218852 CCTCTGATATACTTCCTCCGTTCC 59.781 50.000 0.00 0.00 0.00 3.62
786 2274 3.819337 TCTGATATACTTCCTCCGTTCCG 59.181 47.826 0.00 0.00 0.00 4.30
787 2275 3.819337 CTGATATACTTCCTCCGTTCCGA 59.181 47.826 0.00 0.00 0.00 4.55
788 2276 4.209538 TGATATACTTCCTCCGTTCCGAA 58.790 43.478 0.00 0.00 0.00 4.30
789 2277 4.831155 TGATATACTTCCTCCGTTCCGAAT 59.169 41.667 0.00 0.00 0.00 3.34
790 2278 5.303589 TGATATACTTCCTCCGTTCCGAATT 59.696 40.000 0.00 0.00 0.00 2.17
791 2279 6.491062 TGATATACTTCCTCCGTTCCGAATTA 59.509 38.462 0.00 0.00 0.00 1.40
792 2280 3.242549 ACTTCCTCCGTTCCGAATTAC 57.757 47.619 0.00 0.00 0.00 1.89
793 2281 2.830321 ACTTCCTCCGTTCCGAATTACT 59.170 45.455 0.00 0.00 0.00 2.24
794 2282 3.260128 ACTTCCTCCGTTCCGAATTACTT 59.740 43.478 0.00 0.00 0.00 2.24
795 2283 3.241067 TCCTCCGTTCCGAATTACTTG 57.759 47.619 0.00 0.00 0.00 3.16
796 2284 2.564062 TCCTCCGTTCCGAATTACTTGT 59.436 45.455 0.00 0.00 0.00 3.16
797 2285 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
798 2286 3.368116 CCTCCGTTCCGAATTACTTGTCT 60.368 47.826 0.00 0.00 0.00 3.41
799 2287 4.243270 CTCCGTTCCGAATTACTTGTCTT 58.757 43.478 0.00 0.00 0.00 3.01
800 2288 5.389859 TCCGTTCCGAATTACTTGTCTTA 57.610 39.130 0.00 0.00 0.00 2.10
801 2289 5.969423 TCCGTTCCGAATTACTTGTCTTAT 58.031 37.500 0.00 0.00 0.00 1.73
802 2290 7.099266 TCCGTTCCGAATTACTTGTCTTATA 57.901 36.000 0.00 0.00 0.00 0.98
803 2291 7.719483 TCCGTTCCGAATTACTTGTCTTATAT 58.281 34.615 0.00 0.00 0.00 0.86
804 2292 8.199449 TCCGTTCCGAATTACTTGTCTTATATT 58.801 33.333 0.00 0.00 0.00 1.28
805 2293 8.823818 CCGTTCCGAATTACTTGTCTTATATTT 58.176 33.333 0.00 0.00 0.00 1.40
806 2294 9.632969 CGTTCCGAATTACTTGTCTTATATTTG 57.367 33.333 0.00 0.00 0.00 2.32
852 2340 9.717942 AGCATTAAAATGAGTCTAGATACATCC 57.282 33.333 6.87 0.00 38.70 3.51
853 2341 8.651588 GCATTAAAATGAGTCTAGATACATCCG 58.348 37.037 6.87 0.00 38.70 4.18
854 2342 9.698309 CATTAAAATGAGTCTAGATACATCCGT 57.302 33.333 12.66 6.37 38.70 4.69
872 2360 8.651589 ACATCCGTATCTAGATAAATCCAAGA 57.348 34.615 14.09 4.52 0.00 3.02
873 2361 9.261035 ACATCCGTATCTAGATAAATCCAAGAT 57.739 33.333 14.09 6.36 35.48 2.40
1460 2963 0.320697 AAGAACGACTGTAGGGTGGC 59.679 55.000 0.00 0.00 0.00 5.01
1515 3018 1.815212 CGCTGCTCGAATCCACATCG 61.815 60.000 0.00 0.00 41.67 3.84
1524 3027 4.503910 TCGAATCCACATCGTCAATCTTT 58.496 39.130 0.00 0.00 40.99 2.52
1527 3030 5.163864 CGAATCCACATCGTCAATCTTTTCA 60.164 40.000 0.00 0.00 35.64 2.69
1561 3064 1.303643 CCCAAGTGGTCTCTTGCCC 60.304 63.158 7.12 0.00 42.16 5.36
1592 3095 3.042682 TCCAGAGGACCAAAGTTGTGTA 58.957 45.455 0.00 0.00 0.00 2.90
1735 10988 0.413832 ACCCTGAGCTCTAGTTCCCA 59.586 55.000 16.19 0.00 0.00 4.37
1926 12392 6.747414 TCACATGGTTAGGTAGCTTGATAT 57.253 37.500 0.00 0.00 34.51 1.63
2019 12486 6.501781 ACTTTCGAGTATAAGATTACGGGTG 58.498 40.000 1.68 0.00 0.00 4.61
2108 12575 6.292389 CGAGAGCCTTTTTCGATAAATGAT 57.708 37.500 7.58 1.70 36.49 2.45
2113 12580 5.007724 AGCCTTTTTCGATAAATGATCCGAC 59.992 40.000 7.58 0.00 0.00 4.79
2479 13069 4.135153 CCCTCCTCTGGCGACACG 62.135 72.222 0.00 0.00 35.60 4.49
2480 13070 4.135153 CCTCCTCTGGCGACACGG 62.135 72.222 0.00 0.00 35.60 4.94
2520 13110 1.988015 CCGCCAGTTCCTTTCCCTA 59.012 57.895 0.00 0.00 0.00 3.53
2529 13119 2.648304 GTTCCTTTCCCTACCCCTTCTT 59.352 50.000 0.00 0.00 0.00 2.52
2635 13225 0.048117 ACCCCTCTCCTCCTCTCCTA 59.952 60.000 0.00 0.00 0.00 2.94
2645 13235 1.686110 CCTCTCCTAGTTGGGGCGT 60.686 63.158 0.00 0.00 35.85 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 8.037758 ACCAACATTTTTCTTGTAACATTGTCA 58.962 29.630 0.00 0.00 0.00 3.58
29 30 8.327429 CACCAACATTTTTCTTGTAACATTGTC 58.673 33.333 0.00 0.00 0.00 3.18
30 31 7.201600 GCACCAACATTTTTCTTGTAACATTGT 60.202 33.333 0.00 0.00 0.00 2.71
32 33 7.047271 AGCACCAACATTTTTCTTGTAACATT 58.953 30.769 0.00 0.00 0.00 2.71
33 34 6.581712 AGCACCAACATTTTTCTTGTAACAT 58.418 32.000 0.00 0.00 0.00 2.71
35 36 6.902224 AAGCACCAACATTTTTCTTGTAAC 57.098 33.333 0.00 0.00 0.00 2.50
36 37 7.777095 ACTAAGCACCAACATTTTTCTTGTAA 58.223 30.769 0.00 0.00 0.00 2.41
37 38 7.341445 ACTAAGCACCAACATTTTTCTTGTA 57.659 32.000 0.00 0.00 0.00 2.41
39 40 7.379529 CACTACTAAGCACCAACATTTTTCTTG 59.620 37.037 0.00 0.00 0.00 3.02
40 41 7.284489 TCACTACTAAGCACCAACATTTTTCTT 59.716 33.333 0.00 0.00 0.00 2.52
42 43 6.966021 TCACTACTAAGCACCAACATTTTTC 58.034 36.000 0.00 0.00 0.00 2.29
43 44 6.952773 TCACTACTAAGCACCAACATTTTT 57.047 33.333 0.00 0.00 0.00 1.94
45 46 7.524717 AATTCACTACTAAGCACCAACATTT 57.475 32.000 0.00 0.00 0.00 2.32
46 47 7.230510 TCAAATTCACTACTAAGCACCAACATT 59.769 33.333 0.00 0.00 0.00 2.71
49 50 6.204882 AGTCAAATTCACTACTAAGCACCAAC 59.795 38.462 0.00 0.00 0.00 3.77
50 51 6.296026 AGTCAAATTCACTACTAAGCACCAA 58.704 36.000 0.00 0.00 0.00 3.67
51 52 5.865085 AGTCAAATTCACTACTAAGCACCA 58.135 37.500 0.00 0.00 0.00 4.17
52 53 5.932303 TGAGTCAAATTCACTACTAAGCACC 59.068 40.000 0.00 0.00 0.00 5.01
53 54 7.118390 ACATGAGTCAAATTCACTACTAAGCAC 59.882 37.037 0.00 0.00 0.00 4.40
54 55 7.161404 ACATGAGTCAAATTCACTACTAAGCA 58.839 34.615 0.00 0.00 0.00 3.91
56 57 9.639601 TGTACATGAGTCAAATTCACTACTAAG 57.360 33.333 0.00 0.00 0.00 2.18
57 58 9.990360 TTGTACATGAGTCAAATTCACTACTAA 57.010 29.630 0.00 0.00 0.00 2.24
58 59 9.639601 CTTGTACATGAGTCAAATTCACTACTA 57.360 33.333 0.00 0.00 0.00 1.82
60 61 8.534333 TCTTGTACATGAGTCAAATTCACTAC 57.466 34.615 7.33 0.00 0.00 2.73
61 62 9.554395 TTTCTTGTACATGAGTCAAATTCACTA 57.446 29.630 10.92 0.00 0.00 2.74
62 63 8.450578 TTTCTTGTACATGAGTCAAATTCACT 57.549 30.769 10.92 0.00 0.00 3.41
63 64 9.515020 TTTTTCTTGTACATGAGTCAAATTCAC 57.485 29.630 10.92 0.00 0.00 3.18
70 71 9.944663 GTTGTTATTTTTCTTGTACATGAGTCA 57.055 29.630 10.92 0.00 0.00 3.41
79 80 8.891720 ACCGTACAAGTTGTTATTTTTCTTGTA 58.108 29.630 14.90 10.61 44.11 2.41
80 81 7.764331 ACCGTACAAGTTGTTATTTTTCTTGT 58.236 30.769 14.90 12.26 46.39 3.16
94 95 4.699637 TGAGATGAACAACCGTACAAGTT 58.300 39.130 0.00 0.00 0.00 2.66
95 96 4.330944 TGAGATGAACAACCGTACAAGT 57.669 40.909 0.00 0.00 0.00 3.16
96 97 4.988540 TCTTGAGATGAACAACCGTACAAG 59.011 41.667 0.00 0.00 35.19 3.16
98 99 4.594123 TCTTGAGATGAACAACCGTACA 57.406 40.909 0.00 0.00 0.00 2.90
99 100 5.917541 TTTCTTGAGATGAACAACCGTAC 57.082 39.130 0.00 0.00 0.00 3.67
100 101 9.878667 TTATATTTCTTGAGATGAACAACCGTA 57.121 29.630 0.00 0.00 0.00 4.02
101 102 8.786826 TTATATTTCTTGAGATGAACAACCGT 57.213 30.769 0.00 0.00 0.00 4.83
128 129 9.218440 ACCGAATAAACCGAAGTAAAAGATAAA 57.782 29.630 0.00 0.00 0.00 1.40
129 130 8.776376 ACCGAATAAACCGAAGTAAAAGATAA 57.224 30.769 0.00 0.00 0.00 1.75
130 131 8.776376 AACCGAATAAACCGAAGTAAAAGATA 57.224 30.769 0.00 0.00 0.00 1.98
131 132 7.677454 AACCGAATAAACCGAAGTAAAAGAT 57.323 32.000 0.00 0.00 0.00 2.40
132 133 8.495148 GTTAACCGAATAAACCGAAGTAAAAGA 58.505 33.333 0.00 0.00 0.00 2.52
134 135 7.227512 TGGTTAACCGAATAAACCGAAGTAAAA 59.772 33.333 19.65 0.00 44.62 1.52
135 136 6.708054 TGGTTAACCGAATAAACCGAAGTAAA 59.292 34.615 19.65 0.00 44.62 2.01
136 137 6.226787 TGGTTAACCGAATAAACCGAAGTAA 58.773 36.000 19.65 0.00 44.62 2.24
137 138 5.788450 TGGTTAACCGAATAAACCGAAGTA 58.212 37.500 19.65 0.00 44.62 2.24
140 141 5.163874 CGAATGGTTAACCGAATAAACCGAA 60.164 40.000 19.65 0.00 44.62 4.30
141 142 4.329528 CGAATGGTTAACCGAATAAACCGA 59.670 41.667 19.65 0.00 44.62 4.69
142 143 4.494526 CCGAATGGTTAACCGAATAAACCG 60.495 45.833 19.65 12.75 44.62 4.44
143 144 4.912214 CCGAATGGTTAACCGAATAAACC 58.088 43.478 19.65 0.00 42.49 3.27
177 178 9.418045 CGATTTGAACTTTGGTTTTTATGGTAT 57.582 29.630 0.00 0.00 35.58 2.73
178 179 7.868415 CCGATTTGAACTTTGGTTTTTATGGTA 59.132 33.333 0.00 0.00 35.58 3.25
179 180 6.704050 CCGATTTGAACTTTGGTTTTTATGGT 59.296 34.615 0.00 0.00 35.58 3.55
180 181 6.704050 ACCGATTTGAACTTTGGTTTTTATGG 59.296 34.615 0.00 0.00 35.58 2.74
182 183 9.418045 CATACCGATTTGAACTTTGGTTTTTAT 57.582 29.630 0.00 0.00 35.58 1.40
183 184 8.630917 TCATACCGATTTGAACTTTGGTTTTTA 58.369 29.630 0.00 0.00 35.58 1.52
184 185 7.493367 TCATACCGATTTGAACTTTGGTTTTT 58.507 30.769 0.00 0.00 35.58 1.94
185 186 7.045126 TCATACCGATTTGAACTTTGGTTTT 57.955 32.000 0.00 0.00 35.58 2.43
186 187 6.642707 TCATACCGATTTGAACTTTGGTTT 57.357 33.333 0.00 0.00 35.58 3.27
187 188 6.642707 TTCATACCGATTTGAACTTTGGTT 57.357 33.333 0.00 0.00 38.52 3.67
188 189 6.642707 TTTCATACCGATTTGAACTTTGGT 57.357 33.333 0.00 0.00 31.87 3.67
191 192 8.410141 TGAACTTTTCATACCGATTTGAACTTT 58.590 29.630 0.00 0.00 34.08 2.66
192 193 7.936584 TGAACTTTTCATACCGATTTGAACTT 58.063 30.769 0.00 0.00 34.08 2.66
207 208 6.149807 GGTTTCGGTATGGTATGAACTTTTCA 59.850 38.462 0.00 0.00 45.01 2.69
210 211 5.562635 TGGTTTCGGTATGGTATGAACTTT 58.437 37.500 0.00 0.00 0.00 2.66
211 212 5.046159 TCTGGTTTCGGTATGGTATGAACTT 60.046 40.000 0.00 0.00 0.00 2.66
212 213 4.468510 TCTGGTTTCGGTATGGTATGAACT 59.531 41.667 0.00 0.00 0.00 3.01
214 215 5.423704 TTCTGGTTTCGGTATGGTATGAA 57.576 39.130 0.00 0.00 0.00 2.57
215 216 5.180271 GTTTCTGGTTTCGGTATGGTATGA 58.820 41.667 0.00 0.00 0.00 2.15
216 217 4.334481 GGTTTCTGGTTTCGGTATGGTATG 59.666 45.833 0.00 0.00 0.00 2.39
217 218 4.019141 TGGTTTCTGGTTTCGGTATGGTAT 60.019 41.667 0.00 0.00 0.00 2.73
218 219 3.327172 TGGTTTCTGGTTTCGGTATGGTA 59.673 43.478 0.00 0.00 0.00 3.25
219 220 2.106857 TGGTTTCTGGTTTCGGTATGGT 59.893 45.455 0.00 0.00 0.00 3.55
220 221 2.785562 TGGTTTCTGGTTTCGGTATGG 58.214 47.619 0.00 0.00 0.00 2.74
221 222 6.503589 TTTATGGTTTCTGGTTTCGGTATG 57.496 37.500 0.00 0.00 0.00 2.39
222 223 7.014422 TGTTTTTATGGTTTCTGGTTTCGGTAT 59.986 33.333 0.00 0.00 0.00 2.73
223 224 6.320672 TGTTTTTATGGTTTCTGGTTTCGGTA 59.679 34.615 0.00 0.00 0.00 4.02
225 226 5.593010 TGTTTTTATGGTTTCTGGTTTCGG 58.407 37.500 0.00 0.00 0.00 4.30
226 227 7.527084 TTTGTTTTTATGGTTTCTGGTTTCG 57.473 32.000 0.00 0.00 0.00 3.46
256 257 3.481839 GAAAATAAACCGAACCGAACCG 58.518 45.455 0.00 0.00 0.00 4.44
257 258 3.481839 CGAAAATAAACCGAACCGAACC 58.518 45.455 0.00 0.00 0.00 3.62
258 259 3.058983 ACCGAAAATAAACCGAACCGAAC 60.059 43.478 0.00 0.00 0.00 3.95
259 260 3.137533 ACCGAAAATAAACCGAACCGAA 58.862 40.909 0.00 0.00 0.00 4.30
260 261 2.765122 ACCGAAAATAAACCGAACCGA 58.235 42.857 0.00 0.00 0.00 4.69
261 262 4.494526 CCATACCGAAAATAAACCGAACCG 60.495 45.833 0.00 0.00 0.00 4.44
263 264 5.550232 ACCATACCGAAAATAAACCGAAC 57.450 39.130 0.00 0.00 0.00 3.95
265 266 6.572167 AAAACCATACCGAAAATAAACCGA 57.428 33.333 0.00 0.00 0.00 4.69
266 267 6.032670 CGAAAAACCATACCGAAAATAAACCG 59.967 38.462 0.00 0.00 0.00 4.44
268 269 6.862608 ACCGAAAAACCATACCGAAAATAAAC 59.137 34.615 0.00 0.00 0.00 2.01
269 270 6.979465 ACCGAAAAACCATACCGAAAATAAA 58.021 32.000 0.00 0.00 0.00 1.40
270 271 6.572167 ACCGAAAAACCATACCGAAAATAA 57.428 33.333 0.00 0.00 0.00 1.40
271 272 6.572167 AACCGAAAAACCATACCGAAAATA 57.428 33.333 0.00 0.00 0.00 1.40
272 273 5.456548 AACCGAAAAACCATACCGAAAAT 57.543 34.783 0.00 0.00 0.00 1.82
273 274 4.554330 CGAACCGAAAAACCATACCGAAAA 60.554 41.667 0.00 0.00 0.00 2.29
274 275 3.059051 CGAACCGAAAAACCATACCGAAA 60.059 43.478 0.00 0.00 0.00 3.46
275 276 2.479656 CGAACCGAAAAACCATACCGAA 59.520 45.455 0.00 0.00 0.00 4.30
276 277 2.067766 CGAACCGAAAAACCATACCGA 58.932 47.619 0.00 0.00 0.00 4.69
278 279 2.153645 ACCGAACCGAAAAACCATACC 58.846 47.619 0.00 0.00 0.00 2.73
280 281 4.915158 AAAACCGAACCGAAAAACCATA 57.085 36.364 0.00 0.00 0.00 2.74
281 282 3.804786 AAAACCGAACCGAAAAACCAT 57.195 38.095 0.00 0.00 0.00 3.55
282 283 4.708726 TTAAAACCGAACCGAAAAACCA 57.291 36.364 0.00 0.00 0.00 3.67
283 284 6.412460 CATTTTAAAACCGAACCGAAAAACC 58.588 36.000 1.97 0.00 0.00 3.27
285 286 5.579511 TGCATTTTAAAACCGAACCGAAAAA 59.420 32.000 1.97 0.00 0.00 1.94
286 287 5.005490 GTGCATTTTAAAACCGAACCGAAAA 59.995 36.000 1.97 0.00 0.00 2.29
287 288 4.503370 GTGCATTTTAAAACCGAACCGAAA 59.497 37.500 1.97 0.00 0.00 3.46
288 289 4.043073 GTGCATTTTAAAACCGAACCGAA 58.957 39.130 1.97 0.00 0.00 4.30
291 292 4.612943 TCTGTGCATTTTAAAACCGAACC 58.387 39.130 1.97 0.00 0.00 3.62
292 293 5.173131 CACTCTGTGCATTTTAAAACCGAAC 59.827 40.000 1.97 3.28 0.00 3.95
294 295 4.576873 TCACTCTGTGCATTTTAAAACCGA 59.423 37.500 1.97 0.00 32.98 4.69
296 297 5.587289 TGTCACTCTGTGCATTTTAAAACC 58.413 37.500 1.97 0.00 32.98 3.27
297 298 6.346040 GCATGTCACTCTGTGCATTTTAAAAC 60.346 38.462 1.97 0.00 37.52 2.43
298 299 5.691305 GCATGTCACTCTGTGCATTTTAAAA 59.309 36.000 2.51 2.51 37.52 1.52
299 300 5.221204 TGCATGTCACTCTGTGCATTTTAAA 60.221 36.000 0.00 0.00 42.13 1.52
300 301 4.277921 TGCATGTCACTCTGTGCATTTTAA 59.722 37.500 0.00 0.00 42.13 1.52
301 302 3.819902 TGCATGTCACTCTGTGCATTTTA 59.180 39.130 0.00 0.00 42.13 1.52
302 303 2.624364 TGCATGTCACTCTGTGCATTTT 59.376 40.909 0.00 0.00 42.13 1.82
303 304 2.232399 TGCATGTCACTCTGTGCATTT 58.768 42.857 0.00 0.00 42.13 2.32
304 305 1.900245 TGCATGTCACTCTGTGCATT 58.100 45.000 0.00 0.00 42.13 3.56
305 306 3.637184 TGCATGTCACTCTGTGCAT 57.363 47.368 0.00 0.00 42.13 3.96
307 308 0.731417 GGATGCATGTCACTCTGTGC 59.269 55.000 2.46 0.00 38.05 4.57
308 309 1.339342 TGGGATGCATGTCACTCTGTG 60.339 52.381 2.46 0.00 34.45 3.66
309 310 0.986527 TGGGATGCATGTCACTCTGT 59.013 50.000 2.46 0.00 0.00 3.41
310 311 2.014857 CTTGGGATGCATGTCACTCTG 58.985 52.381 2.46 0.00 0.00 3.35
311 312 1.632409 ACTTGGGATGCATGTCACTCT 59.368 47.619 2.46 0.00 0.00 3.24
312 313 2.119801 ACTTGGGATGCATGTCACTC 57.880 50.000 2.46 0.00 0.00 3.51
313 314 3.009473 ACTTACTTGGGATGCATGTCACT 59.991 43.478 2.46 0.00 0.00 3.41
315 316 3.719268 ACTTACTTGGGATGCATGTCA 57.281 42.857 2.46 0.00 0.00 3.58
316 317 4.458989 TGAAACTTACTTGGGATGCATGTC 59.541 41.667 2.46 0.00 0.00 3.06
317 318 4.218417 GTGAAACTTACTTGGGATGCATGT 59.782 41.667 2.46 0.00 0.00 3.21
334 335 6.034044 GTCTGAGATTATCGTGTGAGTGAAAC 59.966 42.308 0.00 0.00 0.00 2.78
382 383 2.936202 AGTGCACACTGATTGTCCTTT 58.064 42.857 21.04 0.00 40.75 3.11
417 1891 2.953466 TCAGCTATCCACGTACAACC 57.047 50.000 0.00 0.00 0.00 3.77
418 1892 3.991773 TGTTTCAGCTATCCACGTACAAC 59.008 43.478 0.00 0.00 0.00 3.32
419 1893 3.991773 GTGTTTCAGCTATCCACGTACAA 59.008 43.478 0.00 0.00 0.00 2.41
571 2051 6.365247 CGTTTGATTTCGGATCTCGGTATATT 59.635 38.462 0.00 0.00 39.77 1.28
655 2135 2.422597 CGTGGCAAACCTCAATGAGTA 58.577 47.619 9.63 0.00 36.63 2.59
665 2145 0.386113 TTTGGTTAGCGTGGCAAACC 59.614 50.000 11.11 11.11 0.00 3.27
750 2238 2.502142 ATCAGAGGCAACAGCAATGA 57.498 45.000 0.00 0.00 41.41 2.57
826 2314 9.717942 GGATGTATCTAGACTCATTTTAATGCT 57.282 33.333 11.25 0.00 36.36 3.79
827 2315 8.651588 CGGATGTATCTAGACTCATTTTAATGC 58.348 37.037 11.25 0.00 36.36 3.56
828 2316 9.698309 ACGGATGTATCTAGACTCATTTTAATG 57.302 33.333 11.25 0.00 37.75 1.90
846 2334 9.749340 TCTTGGATTTATCTAGATACGGATGTA 57.251 33.333 12.12 0.00 34.45 2.29
847 2335 8.651589 TCTTGGATTTATCTAGATACGGATGT 57.348 34.615 12.12 0.00 0.00 3.06
862 2350 9.037737 CGTTCCGAATTACTTATCTTGGATTTA 57.962 33.333 0.00 0.00 0.00 1.40
863 2351 7.012044 CCGTTCCGAATTACTTATCTTGGATTT 59.988 37.037 0.00 0.00 0.00 2.17
864 2352 6.482308 CCGTTCCGAATTACTTATCTTGGATT 59.518 38.462 0.00 0.00 0.00 3.01
865 2353 5.989777 CCGTTCCGAATTACTTATCTTGGAT 59.010 40.000 0.00 0.00 0.00 3.41
866 2354 5.127519 TCCGTTCCGAATTACTTATCTTGGA 59.872 40.000 0.00 0.00 0.00 3.53
867 2355 5.353938 TCCGTTCCGAATTACTTATCTTGG 58.646 41.667 0.00 0.00 0.00 3.61
868 2356 5.462398 CCTCCGTTCCGAATTACTTATCTTG 59.538 44.000 0.00 0.00 0.00 3.02
869 2357 5.452917 CCCTCCGTTCCGAATTACTTATCTT 60.453 44.000 0.00 0.00 0.00 2.40
870 2358 4.038883 CCCTCCGTTCCGAATTACTTATCT 59.961 45.833 0.00 0.00 0.00 1.98
871 2359 4.038402 TCCCTCCGTTCCGAATTACTTATC 59.962 45.833 0.00 0.00 0.00 1.75
872 2360 3.962718 TCCCTCCGTTCCGAATTACTTAT 59.037 43.478 0.00 0.00 0.00 1.73
873 2361 3.364549 TCCCTCCGTTCCGAATTACTTA 58.635 45.455 0.00 0.00 0.00 2.24
874 2362 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
875 2363 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
876 2364 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
877 2365 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
878 2366 1.856629 TACTCCCTCCGTTCCGAATT 58.143 50.000 0.00 0.00 0.00 2.17
879 2367 2.083628 ATACTCCCTCCGTTCCGAAT 57.916 50.000 0.00 0.00 0.00 3.34
880 2368 2.734755 TATACTCCCTCCGTTCCGAA 57.265 50.000 0.00 0.00 0.00 4.30
881 2369 2.158564 ACATATACTCCCTCCGTTCCGA 60.159 50.000 0.00 0.00 0.00 4.55
882 2370 2.236766 ACATATACTCCCTCCGTTCCG 58.763 52.381 0.00 0.00 0.00 4.30
883 2371 4.147321 TGTACATATACTCCCTCCGTTCC 58.853 47.826 0.00 0.00 32.00 3.62
884 2372 4.217983 CCTGTACATATACTCCCTCCGTTC 59.782 50.000 0.00 0.00 32.00 3.95
885 2373 4.150359 CCTGTACATATACTCCCTCCGTT 58.850 47.826 0.00 0.00 32.00 4.44
886 2374 3.499926 CCCTGTACATATACTCCCTCCGT 60.500 52.174 0.00 0.00 32.00 4.69
887 2375 3.090037 CCCTGTACATATACTCCCTCCG 58.910 54.545 0.00 0.00 32.00 4.63
888 2376 4.044317 TCTCCCTGTACATATACTCCCTCC 59.956 50.000 0.00 0.00 32.00 4.30
889 2377 5.258216 TCTCCCTGTACATATACTCCCTC 57.742 47.826 0.00 0.00 32.00 4.30
890 2378 5.395611 GTTCTCCCTGTACATATACTCCCT 58.604 45.833 0.00 0.00 32.00 4.20
891 2379 4.527427 GGTTCTCCCTGTACATATACTCCC 59.473 50.000 0.00 0.00 32.00 4.30
892 2380 5.725325 GGTTCTCCCTGTACATATACTCC 57.275 47.826 0.00 0.00 32.00 3.85
919 2408 1.382522 CAGTGTGTTGGTGCTGAAGT 58.617 50.000 0.00 0.00 0.00 3.01
1259 2762 3.573772 TTGCAGAGGTCGAGCACGG 62.574 63.158 18.15 12.54 38.11 4.94
1515 3018 6.974622 TCTCAACTTGCTTTGAAAAGATTGAC 59.025 34.615 6.98 0.00 38.28 3.18
1524 3027 2.297033 GGGCATCTCAACTTGCTTTGAA 59.703 45.455 0.00 0.00 38.88 2.69
1527 3030 1.999648 TGGGCATCTCAACTTGCTTT 58.000 45.000 0.00 0.00 38.88 3.51
1561 3064 2.171003 GGTCCTCTGGAATGTTTTGGG 58.829 52.381 0.00 0.00 31.38 4.12
1592 3095 1.542492 CTGCAATTGCTCCTCTTGGT 58.458 50.000 29.37 0.00 42.66 3.67
1926 12392 9.203421 CTGACACACATTGTACTGAAATAGTTA 57.797 33.333 0.00 0.00 39.17 2.24
2019 12486 0.827507 ATGTGTTGGGTGTTGCCTCC 60.828 55.000 0.00 0.00 37.43 4.30
2086 12553 6.564873 CGGATCATTTATCGAAAAAGGCTCTC 60.565 42.308 0.00 0.00 35.21 3.20
2088 12555 5.236478 TCGGATCATTTATCGAAAAAGGCTC 59.764 40.000 0.00 0.00 35.21 4.70
2098 12565 4.808895 TGAGGTTTGTCGGATCATTTATCG 59.191 41.667 0.00 0.00 35.21 2.92
2108 12575 4.710324 AGTTAACATTGAGGTTTGTCGGA 58.290 39.130 8.61 0.00 32.29 4.55
2520 13110 1.674057 CAGCGAGACAAGAAGGGGT 59.326 57.895 0.00 0.00 0.00 4.95
2551 13141 4.570663 CCCGGACTTCGCTAGCGG 62.571 72.222 34.76 22.77 40.25 5.52
2554 13144 4.570663 CCGCCCGGACTTCGCTAG 62.571 72.222 0.73 0.00 37.50 3.42


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

AutoCloner maintained by Alex Coulton.