Multiple sequence alignment - TraesCS7A01G176800

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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 TraesCS7A01G176800 chr7A 100.000 2702 0 0 1 2702 130221821 130224522 0.000000e+00 4990
1 TraesCS7A01G176800 chr7B 90.417 2181 119 36 1 2140 92310125 92312256 0.000000e+00 2787
2 TraesCS7A01G176800 chr7B 84.974 193 15 10 2468 2658 92312402 92312582 1.650000e-42 183
3 TraesCS7A01G176800 chr7B 87.943 141 13 1 2157 2293 92312242 92312382 2.150000e-36 163
4 TraesCS7A01G176800 chr7B 96.610 59 2 0 2644 2702 92312725 92312783 6.160000e-17 99
5 TraesCS7A01G176800 chr7D 88.630 2190 129 48 1 2140 131459075 131461194 0.000000e+00 2555
6 TraesCS7A01G176800 chr7D 86.364 242 19 6 2458 2695 131461416 131461647 4.470000e-63 252
7 TraesCS7A01G176800 chr7D 91.613 155 11 2 2307 2459 53450747 53450593 2.110000e-51 213
8 TraesCS7A01G176800 chr7D 91.447 152 12 1 2308 2458 620117903 620118054 9.800000e-50 207
9 TraesCS7A01G176800 chr7D 91.391 151 12 1 2308 2457 34300981 34300831 3.530000e-49 206
10 TraesCS7A01G176800 chr1A 86.978 599 49 9 1112 1694 7330359 7330944 0.000000e+00 647
11 TraesCS7A01G176800 chr4B 85.900 539 59 8 1112 1646 19407097 19407622 2.350000e-155 558
12 TraesCS7A01G176800 chr2B 91.558 154 12 1 2309 2461 46413864 46413711 7.580000e-51 211
13 TraesCS7A01G176800 chr6B 90.909 154 13 1 2305 2457 413647562 413647409 3.530000e-49 206
14 TraesCS7A01G176800 chr5D 91.391 151 12 1 2308 2457 397941410 397941260 3.530000e-49 206
15 TraesCS7A01G176800 chr3D 90.850 153 13 1 2308 2459 488863429 488863581 1.270000e-48 204
16 TraesCS7A01G176800 chr1B 90.850 153 12 1 2307 2457 434646612 434646764 1.270000e-48 204
17 TraesCS7A01G176800 chr5B 89.375 160 13 4 2309 2467 478502449 478502605 5.900000e-47 198


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 TraesCS7A01G176800 chr7A 130221821 130224522 2701 False 4990.0 4990 100.000 1 2702 1 chr7A.!!$F1 2701
1 TraesCS7A01G176800 chr7B 92310125 92312783 2658 False 808.0 2787 89.986 1 2702 4 chr7B.!!$F1 2701
2 TraesCS7A01G176800 chr7D 131459075 131461647 2572 False 1403.5 2555 87.497 1 2695 2 chr7D.!!$F2 2694
3 TraesCS7A01G176800 chr1A 7330359 7330944 585 False 647.0 647 86.978 1112 1694 1 chr1A.!!$F1 582
4 TraesCS7A01G176800 chr4B 19407097 19407622 525 False 558.0 558 85.900 1112 1646 1 chr4B.!!$F1 534

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
286 290 0.108138 ACTGCACCGCCATTACTCTC 60.108 55.0 0.0 0.0 0.00 3.20 F
287 291 0.176680 CTGCACCGCCATTACTCTCT 59.823 55.0 0.0 0.0 0.00 3.10 F
1016 1072 0.393537 GAGATGGGTTCTGGTGGCAG 60.394 60.0 0.0 0.0 33.74 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1176 1232 0.315886 CGTGGCCGGCATGTACTATA 59.684 55.0 30.85 0.0 0.00 1.31 R
1246 1307 0.385473 AATTTTGCCGTGCGAGTTCG 60.385 50.0 0.00 0.0 43.27 3.95 R
2444 2636 0.036388 ATTTGTCGAGGATGTGGCGT 60.036 50.0 0.00 0.0 0.00 5.68 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
19 20 0.924090 GCACAGAAGACTTATCCGCG 59.076 55.000 0.00 0.00 0.00 6.46
26 27 3.056035 AGAAGACTTATCCGCGGAGTTTT 60.056 43.478 33.87 24.90 0.00 2.43
55 56 2.034879 ATTTCACTGTGCCGCCTCG 61.035 57.895 2.12 0.00 0.00 4.63
60 63 0.941463 CACTGTGCCGCCTCGATATC 60.941 60.000 0.00 0.00 0.00 1.63
65 68 1.244697 TGCCGCCTCGATATCTCTCC 61.245 60.000 0.34 0.00 0.00 3.71
66 69 1.244697 GCCGCCTCGATATCTCTCCA 61.245 60.000 0.34 0.00 0.00 3.86
67 70 1.468985 CCGCCTCGATATCTCTCCAT 58.531 55.000 0.34 0.00 0.00 3.41
68 71 1.821753 CCGCCTCGATATCTCTCCATT 59.178 52.381 0.34 0.00 0.00 3.16
69 72 2.416566 CCGCCTCGATATCTCTCCATTG 60.417 54.545 0.34 0.00 0.00 2.82
70 73 2.489722 CGCCTCGATATCTCTCCATTGA 59.510 50.000 0.34 0.00 0.00 2.57
85 88 6.528321 TCTCCATTGATCAGTTGCTATAAGG 58.472 40.000 0.00 0.00 0.00 2.69
88 91 4.502105 TTGATCAGTTGCTATAAGGCCA 57.498 40.909 5.01 0.00 0.00 5.36
124 127 1.000171 CCACCTCAAAGGCTTTGCTTC 60.000 52.381 30.40 0.00 39.63 3.86
172 175 3.279434 CTGGTTAGGCCTGTTAACATCC 58.721 50.000 17.99 13.07 38.35 3.51
192 195 3.442977 TCCGAAAGTACTAGCTTGGAGAC 59.557 47.826 0.00 0.00 0.00 3.36
199 202 3.083122 ACTAGCTTGGAGACGTCCTTA 57.917 47.619 13.01 0.00 44.30 2.69
214 217 3.956199 CGTCCTTATCCACAAGGTAGGTA 59.044 47.826 2.04 0.00 44.68 3.08
286 290 0.108138 ACTGCACCGCCATTACTCTC 60.108 55.000 0.00 0.00 0.00 3.20
287 291 0.176680 CTGCACCGCCATTACTCTCT 59.823 55.000 0.00 0.00 0.00 3.10
303 307 4.211920 ACTCTCTACCTTACAGCTGATCC 58.788 47.826 23.35 0.00 0.00 3.36
305 309 4.211125 TCTCTACCTTACAGCTGATCCAG 58.789 47.826 23.35 9.75 34.12 3.86
326 330 3.088194 CACCACAAGTGTACTGTACGT 57.912 47.619 12.87 0.00 41.93 3.57
327 331 2.792674 CACCACAAGTGTACTGTACGTG 59.207 50.000 12.87 13.19 41.93 4.49
372 384 1.726672 TACGCACGCACGTACACTG 60.727 57.895 6.45 0.00 46.19 3.66
375 387 1.702299 GCACGCACGTACACTGATC 59.298 57.895 0.00 0.00 0.00 2.92
496 536 4.993584 GTGAGAAAGATGTCTGAGCTGAAA 59.006 41.667 0.00 0.00 0.00 2.69
497 537 5.468072 GTGAGAAAGATGTCTGAGCTGAAAA 59.532 40.000 0.00 0.00 0.00 2.29
498 538 5.699915 TGAGAAAGATGTCTGAGCTGAAAAG 59.300 40.000 0.00 0.00 0.00 2.27
499 539 5.002516 AGAAAGATGTCTGAGCTGAAAAGG 58.997 41.667 0.00 0.00 0.00 3.11
500 540 2.709213 AGATGTCTGAGCTGAAAAGGC 58.291 47.619 0.00 0.00 0.00 4.35
501 541 1.742268 GATGTCTGAGCTGAAAAGGCC 59.258 52.381 0.00 0.00 0.00 5.19
502 542 0.473755 TGTCTGAGCTGAAAAGGCCA 59.526 50.000 5.01 0.00 0.00 5.36
503 543 1.163554 GTCTGAGCTGAAAAGGCCAG 58.836 55.000 5.01 0.00 34.88 4.85
520 560 3.408634 GCCAGCCAAAAGTAACTACTCA 58.591 45.455 0.00 0.00 34.99 3.41
523 563 4.396166 CCAGCCAAAAGTAACTACTCATGG 59.604 45.833 13.02 13.02 41.33 3.66
573 614 1.843753 CTTTGCGACCACGAAAAACAC 59.156 47.619 0.00 0.00 44.85 3.32
579 620 2.724358 CACGAAAAACACGCGCCC 60.724 61.111 5.73 0.00 0.00 6.13
626 670 5.332656 GAAGATATTACTTCCGCGAAAGCTG 60.333 44.000 8.23 0.00 45.37 4.24
780 825 1.456145 AACCCCAACGGAAACCACC 60.456 57.895 0.00 0.00 34.64 4.61
851 896 2.807895 CCGTCGCTAACCGGTGTG 60.808 66.667 8.52 2.84 39.38 3.82
869 914 4.379813 GGTGTGCATGCCATGTATATAAGC 60.380 45.833 16.68 0.00 0.00 3.09
880 925 1.914108 GTATATAAGCCCCTGACCCCC 59.086 57.143 0.00 0.00 0.00 5.40
942 987 2.383298 AACGCATTGACTGTTTGACG 57.617 45.000 0.00 0.00 0.00 4.35
946 991 1.678360 CATTGACTGTTTGACGCTGC 58.322 50.000 0.00 0.00 0.00 5.25
1016 1072 0.393537 GAGATGGGTTCTGGTGGCAG 60.394 60.000 0.00 0.00 33.74 4.85
1020 1076 2.985847 GGTTCTGGTGGCAGGTGC 60.986 66.667 0.00 0.00 41.14 5.01
1176 1232 0.743097 GCGACACCCTCGGTTAGTAT 59.257 55.000 0.00 0.00 43.18 2.12
1179 1235 3.753272 GCGACACCCTCGGTTAGTATATA 59.247 47.826 0.00 0.00 43.18 0.86
1180 1236 4.142730 GCGACACCCTCGGTTAGTATATAG 60.143 50.000 0.00 0.00 43.18 1.31
1181 1237 4.999950 CGACACCCTCGGTTAGTATATAGT 59.000 45.833 0.00 0.00 38.87 2.12
1182 1238 6.166279 CGACACCCTCGGTTAGTATATAGTA 58.834 44.000 0.00 0.00 38.87 1.82
1183 1239 6.091441 CGACACCCTCGGTTAGTATATAGTAC 59.909 46.154 0.00 0.00 38.87 2.73
1184 1240 6.841601 ACACCCTCGGTTAGTATATAGTACA 58.158 40.000 0.00 0.00 31.02 2.90
1185 1241 7.465116 ACACCCTCGGTTAGTATATAGTACAT 58.535 38.462 0.00 0.00 31.02 2.29
1188 1244 6.183360 CCCTCGGTTAGTATATAGTACATGCC 60.183 46.154 0.00 0.00 0.00 4.40
1231 1290 3.059188 ACATTTTCGTCTAGTTTGCCACG 60.059 43.478 0.00 0.00 0.00 4.94
1243 1304 2.916716 GTTTGCCACGCATTTACTGATG 59.083 45.455 0.00 0.00 38.76 3.07
1244 1305 2.106477 TGCCACGCATTTACTGATGA 57.894 45.000 0.00 0.00 31.71 2.92
1246 1307 2.161410 TGCCACGCATTTACTGATGAAC 59.839 45.455 0.00 0.00 31.71 3.18
1248 1309 2.670905 CCACGCATTTACTGATGAACGA 59.329 45.455 0.00 0.00 0.00 3.85
1251 1312 3.994392 ACGCATTTACTGATGAACGAACT 59.006 39.130 0.00 0.00 0.00 3.01
1255 1318 3.291809 TTACTGATGAACGAACTCGCA 57.708 42.857 0.00 0.00 44.43 5.10
1261 1324 2.586635 AACGAACTCGCACGGCAA 60.587 55.556 0.00 0.00 44.43 4.52
1267 1330 2.663334 CGAACTCGCACGGCAAAATTTA 60.663 45.455 0.00 0.00 0.00 1.40
1620 1695 4.697756 CCGGCCAAGCAGTCGGAA 62.698 66.667 8.58 0.00 44.69 4.30
1796 1885 2.855963 TGTCAGTCGTTTCTCGTTTGTC 59.144 45.455 0.00 0.00 40.80 3.18
1808 1897 1.361668 CGTTTGTCGAGGAGGCCATG 61.362 60.000 5.01 0.00 42.86 3.66
1860 1951 3.601685 GTTGGCACGGTGGTTGGG 61.602 66.667 10.60 0.00 0.00 4.12
1883 1974 6.006449 GGTGCCTTGGATTCTATGTTATGAT 58.994 40.000 0.00 0.00 0.00 2.45
1884 1975 6.491403 GGTGCCTTGGATTCTATGTTATGATT 59.509 38.462 0.00 0.00 0.00 2.57
1885 1976 7.014615 GGTGCCTTGGATTCTATGTTATGATTT 59.985 37.037 0.00 0.00 0.00 2.17
1916 2007 1.062440 TCGCATTCATGTCATTGTCGC 59.938 47.619 0.00 0.00 0.00 5.19
1943 2034 2.178912 TGCCTACTTTGTACTGTGCC 57.821 50.000 0.00 0.00 0.00 5.01
1968 2059 4.442403 CGTGAGTGTCGGATCATTTATCTG 59.558 45.833 0.00 0.00 41.70 2.90
2035 2126 1.729517 TGGCGTATGAAACATGTCACG 59.270 47.619 0.00 5.73 0.00 4.35
2063 2154 6.163476 GGTTGTTGTTGAAGAGGTTTCTTTT 58.837 36.000 0.00 0.00 43.63 2.27
2065 2156 6.582677 TGTTGTTGAAGAGGTTTCTTTTGA 57.417 33.333 0.00 0.00 43.63 2.69
2104 2196 2.288458 TGAACAACCGGTTTCGTCATTC 59.712 45.455 19.55 14.20 40.63 2.67
2140 2232 0.538118 TACCAAGACGCCCCACATAC 59.462 55.000 0.00 0.00 0.00 2.39
2141 2233 1.813753 CCAAGACGCCCCACATACG 60.814 63.158 0.00 0.00 0.00 3.06
2142 2234 1.079405 CAAGACGCCCCACATACGT 60.079 57.895 0.00 0.00 43.83 3.57
2143 2235 0.672401 CAAGACGCCCCACATACGTT 60.672 55.000 0.00 0.00 40.69 3.99
2144 2236 0.035739 AAGACGCCCCACATACGTTT 59.964 50.000 0.00 0.00 40.69 3.60
2145 2237 0.390735 AGACGCCCCACATACGTTTC 60.391 55.000 0.00 0.00 40.69 2.78
2146 2238 0.671163 GACGCCCCACATACGTTTCA 60.671 55.000 0.00 0.00 40.69 2.69
2147 2239 0.250381 ACGCCCCACATACGTTTCAA 60.250 50.000 0.00 0.00 36.46 2.69
2148 2240 0.875728 CGCCCCACATACGTTTCAAA 59.124 50.000 0.00 0.00 0.00 2.69
2149 2241 1.267261 CGCCCCACATACGTTTCAAAA 59.733 47.619 0.00 0.00 0.00 2.44
2150 2242 2.287668 CGCCCCACATACGTTTCAAAAA 60.288 45.455 0.00 0.00 0.00 1.94
2151 2243 3.313690 GCCCCACATACGTTTCAAAAAG 58.686 45.455 0.00 0.00 0.00 2.27
2152 2244 3.004944 GCCCCACATACGTTTCAAAAAGA 59.995 43.478 0.00 0.00 0.00 2.52
2153 2245 4.500035 GCCCCACATACGTTTCAAAAAGAA 60.500 41.667 0.00 0.00 0.00 2.52
2154 2246 5.593010 CCCCACATACGTTTCAAAAAGAAA 58.407 37.500 0.00 0.00 43.71 2.52
2220 2405 5.522641 AGGCTCCTTCCAAATATTCAATGT 58.477 37.500 0.00 0.00 0.00 2.71
2229 2414 7.320443 TCCAAATATTCAATGTAGTGAGCAC 57.680 36.000 0.00 0.00 0.00 4.40
2232 2417 9.060347 CCAAATATTCAATGTAGTGAGCACTAT 57.940 33.333 12.94 0.00 44.73 2.12
2293 2485 8.783093 CATACCAAACTTGATCTACACAAAAGA 58.217 33.333 0.00 0.00 0.00 2.52
2294 2486 7.027778 ACCAAACTTGATCTACACAAAAGAC 57.972 36.000 0.00 0.00 0.00 3.01
2296 2488 7.122055 ACCAAACTTGATCTACACAAAAGACAA 59.878 33.333 0.00 0.00 0.00 3.18
2297 2489 7.973388 CCAAACTTGATCTACACAAAAGACAAA 59.027 33.333 0.00 0.00 0.00 2.83
2298 2490 9.520204 CAAACTTGATCTACACAAAAGACAAAT 57.480 29.630 0.00 0.00 0.00 2.32
2299 2491 9.736023 AAACTTGATCTACACAAAAGACAAATC 57.264 29.630 0.00 0.00 0.00 2.17
2300 2492 7.875971 ACTTGATCTACACAAAAGACAAATCC 58.124 34.615 0.00 0.00 0.00 3.01
2302 2494 7.815840 TGATCTACACAAAAGACAAATCCAA 57.184 32.000 0.00 0.00 0.00 3.53
2305 2497 8.918202 ATCTACACAAAAGACAAATCCAACTA 57.082 30.769 0.00 0.00 0.00 2.24
2306 2498 8.918202 TCTACACAAAAGACAAATCCAACTAT 57.082 30.769 0.00 0.00 0.00 2.12
2330 2522 2.309136 AAATGAGACCAACCCAAGGG 57.691 50.000 2.91 2.91 42.03 3.95
2331 2523 0.251787 AATGAGACCAACCCAAGGGC 60.252 55.000 4.70 0.00 39.32 5.19
2333 2525 4.681624 AGACCAACCCAAGGGCTA 57.318 55.556 4.70 0.00 44.68 3.93
2334 2526 2.877150 AGACCAACCCAAGGGCTAA 58.123 52.632 4.70 0.00 44.68 3.09
2335 2527 0.404426 AGACCAACCCAAGGGCTAAC 59.596 55.000 4.70 0.00 44.68 2.34
2336 2528 0.611062 GACCAACCCAAGGGCTAACC 60.611 60.000 4.70 0.00 39.32 2.85
2347 2539 3.520623 GGCTAACCCTCATTGGCAT 57.479 52.632 0.00 0.00 37.77 4.40
2348 2540 1.780503 GGCTAACCCTCATTGGCATT 58.219 50.000 0.00 0.00 37.77 3.56
2349 2541 2.110578 GGCTAACCCTCATTGGCATTT 58.889 47.619 0.00 0.00 37.77 2.32
2350 2542 2.501316 GGCTAACCCTCATTGGCATTTT 59.499 45.455 0.00 0.00 37.77 1.82
2351 2543 3.055167 GGCTAACCCTCATTGGCATTTTT 60.055 43.478 0.00 0.00 37.77 1.94
2372 2564 6.642683 TTTTTATAGAAGAAACTCCGCGAG 57.357 37.500 8.23 5.77 35.52 5.03
2373 2565 2.211353 ATAGAAGAAACTCCGCGAGC 57.789 50.000 8.23 0.00 32.04 5.03
2374 2566 0.885879 TAGAAGAAACTCCGCGAGCA 59.114 50.000 8.23 0.00 32.04 4.26
2375 2567 0.667792 AGAAGAAACTCCGCGAGCAC 60.668 55.000 8.23 0.00 32.04 4.40
2376 2568 1.627550 GAAGAAACTCCGCGAGCACC 61.628 60.000 8.23 0.00 32.04 5.01
2377 2569 3.479269 GAAACTCCGCGAGCACCG 61.479 66.667 8.23 0.00 42.21 4.94
2395 2587 2.876645 CGCGTTCGAGCCAGACTC 60.877 66.667 0.00 0.00 42.47 3.36
2396 2588 2.258591 GCGTTCGAGCCAGACTCA 59.741 61.111 0.00 0.00 46.63 3.41
2397 2589 1.372997 GCGTTCGAGCCAGACTCAA 60.373 57.895 0.00 0.00 46.63 3.02
2398 2590 0.944311 GCGTTCGAGCCAGACTCAAA 60.944 55.000 0.00 0.00 46.63 2.69
2399 2591 0.784778 CGTTCGAGCCAGACTCAAAC 59.215 55.000 0.00 0.00 46.63 2.93
2400 2592 1.603172 CGTTCGAGCCAGACTCAAACT 60.603 52.381 0.00 0.00 46.63 2.66
2401 2593 2.062519 GTTCGAGCCAGACTCAAACTC 58.937 52.381 0.00 0.00 46.63 3.01
2402 2594 1.328279 TCGAGCCAGACTCAAACTCA 58.672 50.000 0.00 0.00 46.63 3.41
2403 2595 1.270826 TCGAGCCAGACTCAAACTCAG 59.729 52.381 0.00 0.00 46.63 3.35
2404 2596 1.671261 CGAGCCAGACTCAAACTCAGG 60.671 57.143 0.00 0.00 46.63 3.86
2405 2597 1.346068 GAGCCAGACTCAAACTCAGGT 59.654 52.381 0.00 0.00 45.49 4.00
2406 2598 1.071385 AGCCAGACTCAAACTCAGGTG 59.929 52.381 0.00 0.00 0.00 4.00
2407 2599 1.879796 GCCAGACTCAAACTCAGGTGG 60.880 57.143 0.00 0.00 0.00 4.61
2408 2600 1.271054 CCAGACTCAAACTCAGGTGGG 60.271 57.143 0.00 0.00 0.00 4.61
2409 2601 0.398318 AGACTCAAACTCAGGTGGGC 59.602 55.000 0.00 0.00 0.00 5.36
2410 2602 0.398318 GACTCAAACTCAGGTGGGCT 59.602 55.000 0.00 0.00 0.00 5.19
2411 2603 0.109342 ACTCAAACTCAGGTGGGCTG 59.891 55.000 0.00 0.00 0.00 4.85
2412 2604 0.607489 CTCAAACTCAGGTGGGCTGG 60.607 60.000 0.00 0.00 0.00 4.85
2413 2605 2.116125 AAACTCAGGTGGGCTGGC 59.884 61.111 0.00 0.00 0.00 4.85
2414 2606 2.766925 AAACTCAGGTGGGCTGGCA 61.767 57.895 2.88 0.00 0.00 4.92
2415 2607 2.703675 AAACTCAGGTGGGCTGGCAG 62.704 60.000 10.94 10.94 0.00 4.85
2418 2610 4.980702 CAGGTGGGCTGGCAGCAA 62.981 66.667 37.49 23.99 44.75 3.91
2419 2611 4.982701 AGGTGGGCTGGCAGCAAC 62.983 66.667 37.49 31.77 44.75 4.17
2421 2613 4.982701 GTGGGCTGGCAGCAACCT 62.983 66.667 37.49 0.00 44.75 3.50
2422 2614 4.666253 TGGGCTGGCAGCAACCTC 62.666 66.667 37.49 21.25 44.75 3.85
2423 2615 4.666253 GGGCTGGCAGCAACCTCA 62.666 66.667 37.49 0.00 44.75 3.86
2424 2616 3.060615 GGCTGGCAGCAACCTCAG 61.061 66.667 37.49 0.50 44.75 3.35
2425 2617 3.745803 GCTGGCAGCAACCTCAGC 61.746 66.667 33.33 4.00 44.34 4.26
2426 2618 2.033757 CTGGCAGCAACCTCAGCT 59.966 61.111 0.00 0.00 44.62 4.24
2431 2623 3.573229 AGCAACCTCAGCTGCCCA 61.573 61.111 9.47 0.00 41.61 5.36
2432 2624 3.060615 GCAACCTCAGCTGCCCAG 61.061 66.667 9.47 0.70 32.18 4.45
2442 2634 3.365265 CTGCCCAGCCAACGGTTC 61.365 66.667 0.00 0.00 0.00 3.62
2445 2637 3.047877 CCCAGCCAACGGTTCGAC 61.048 66.667 0.00 0.00 0.00 4.20
2446 2638 3.411351 CCAGCCAACGGTTCGACG 61.411 66.667 0.00 0.00 40.31 5.12
2447 2639 4.072088 CAGCCAACGGTTCGACGC 62.072 66.667 0.00 0.00 37.37 5.19
2450 2642 3.708734 CCAACGGTTCGACGCCAC 61.709 66.667 6.10 0.00 37.37 5.01
2451 2643 2.962786 CAACGGTTCGACGCCACA 60.963 61.111 6.10 0.00 37.37 4.17
2452 2644 2.029964 AACGGTTCGACGCCACAT 59.970 55.556 6.10 0.00 37.37 3.21
2453 2645 2.025418 AACGGTTCGACGCCACATC 61.025 57.895 6.10 0.00 37.37 3.06
2454 2646 3.186047 CGGTTCGACGCCACATCC 61.186 66.667 6.10 0.00 0.00 3.51
2455 2647 2.264794 GGTTCGACGCCACATCCT 59.735 61.111 0.66 0.00 0.00 3.24
2456 2648 1.810030 GGTTCGACGCCACATCCTC 60.810 63.158 0.66 0.00 0.00 3.71
2513 2705 1.605753 AAAAGAGACTGAAACCGCCC 58.394 50.000 0.00 0.00 0.00 6.13
2528 2720 1.227943 GCCCGGCTCTGCATCATTA 60.228 57.895 0.71 0.00 0.00 1.90
2547 2742 2.346766 ATGATGCACGGCCATTCTTA 57.653 45.000 2.24 0.00 0.00 2.10
2548 2743 2.346766 TGATGCACGGCCATTCTTAT 57.653 45.000 2.24 0.00 0.00 1.73
2550 2745 2.358582 TGATGCACGGCCATTCTTATTG 59.641 45.455 2.24 0.00 0.00 1.90
2551 2746 2.121291 TGCACGGCCATTCTTATTGA 57.879 45.000 2.24 0.00 0.00 2.57
2552 2747 2.653726 TGCACGGCCATTCTTATTGAT 58.346 42.857 2.24 0.00 0.00 2.57
2553 2748 3.023119 TGCACGGCCATTCTTATTGATT 58.977 40.909 2.24 0.00 0.00 2.57
2554 2749 3.181488 TGCACGGCCATTCTTATTGATTG 60.181 43.478 2.24 0.00 0.00 2.67
2555 2750 3.374745 CACGGCCATTCTTATTGATTGC 58.625 45.455 2.24 0.00 0.00 3.56
2556 2751 2.362077 ACGGCCATTCTTATTGATTGCC 59.638 45.455 2.24 0.00 0.00 4.52
2557 2752 2.605338 CGGCCATTCTTATTGATTGCCG 60.605 50.000 2.24 5.14 38.25 5.69
2600 2798 9.281371 GAAATTAACACCTACCACTAAGACTTT 57.719 33.333 0.00 0.00 0.00 2.66
2608 2806 5.244178 CCTACCACTAAGACTTTCAGACACT 59.756 44.000 0.00 0.00 0.00 3.55
2609 2807 4.950050 ACCACTAAGACTTTCAGACACTG 58.050 43.478 0.00 0.00 0.00 3.66
2610 2808 3.743396 CCACTAAGACTTTCAGACACTGC 59.257 47.826 0.00 0.00 0.00 4.40
2611 2809 3.743396 CACTAAGACTTTCAGACACTGCC 59.257 47.826 0.00 0.00 0.00 4.85
2612 2810 3.388024 ACTAAGACTTTCAGACACTGCCA 59.612 43.478 0.00 0.00 0.00 4.92
2613 2811 3.498774 AAGACTTTCAGACACTGCCAT 57.501 42.857 0.00 0.00 0.00 4.40
2614 2812 4.623932 AAGACTTTCAGACACTGCCATA 57.376 40.909 0.00 0.00 0.00 2.74
2617 2815 5.911752 AGACTTTCAGACACTGCCATATAG 58.088 41.667 0.00 0.00 0.00 1.31
2621 2819 5.876651 TTCAGACACTGCCATATAGTCAT 57.123 39.130 0.00 0.00 0.00 3.06
2653 2851 2.488153 GCCTTGTTGGTTCTCCATGTAC 59.512 50.000 0.00 0.00 43.91 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 2.754946 TCAAAACTCCGCGGATAAGT 57.245 45.000 31.19 20.94 0.00 2.24
19 20 1.463674 ATGTGGCCGATCAAAACTCC 58.536 50.000 0.00 0.00 0.00 3.85
26 27 1.271325 ACAGTGAAATGTGGCCGATCA 60.271 47.619 0.00 0.00 30.46 2.92
55 56 6.465948 AGCAACTGATCAATGGAGAGATATC 58.534 40.000 9.51 0.00 0.00 1.63
60 63 6.649973 CCTTATAGCAACTGATCAATGGAGAG 59.350 42.308 9.51 0.00 0.00 3.20
65 68 4.823442 TGGCCTTATAGCAACTGATCAATG 59.177 41.667 3.32 0.00 0.00 2.82
66 69 5.052693 TGGCCTTATAGCAACTGATCAAT 57.947 39.130 3.32 0.00 0.00 2.57
67 70 4.454678 CTGGCCTTATAGCAACTGATCAA 58.545 43.478 3.32 0.00 0.00 2.57
68 71 3.745480 GCTGGCCTTATAGCAACTGATCA 60.745 47.826 3.32 0.00 39.67 2.92
69 72 2.810852 GCTGGCCTTATAGCAACTGATC 59.189 50.000 3.32 0.00 39.67 2.92
70 73 2.173356 TGCTGGCCTTATAGCAACTGAT 59.827 45.455 12.79 0.00 46.06 2.90
85 88 1.537202 GGATACATCCGATTTGCTGGC 59.463 52.381 0.00 0.00 37.19 4.85
124 127 7.063074 CAGTAGTAACTCCTAATCGTTTTGTGG 59.937 40.741 0.00 0.00 31.97 4.17
172 175 3.119919 ACGTCTCCAAGCTAGTACTTTCG 60.120 47.826 0.00 0.00 0.00 3.46
214 217 0.537188 ATCGGTCGATTGCTCAAGGT 59.463 50.000 0.00 0.00 0.00 3.50
223 227 1.100510 TCTCGGTTCATCGGTCGATT 58.899 50.000 2.84 0.00 31.62 3.34
258 262 1.287425 GGCGGTGCAGTTGTAGATAC 58.713 55.000 0.00 0.00 0.00 2.24
314 318 1.402456 CCAGCTCCACGTACAGTACAC 60.402 57.143 11.37 0.00 0.00 2.90
317 321 1.601419 GGCCAGCTCCACGTACAGTA 61.601 60.000 0.00 0.00 0.00 2.74
326 330 3.390521 ATCGTTCGGCCAGCTCCA 61.391 61.111 2.24 0.00 0.00 3.86
327 331 2.892425 CATCGTTCGGCCAGCTCC 60.892 66.667 2.24 0.00 0.00 4.70
358 366 0.109272 AGGATCAGTGTACGTGCGTG 60.109 55.000 7.55 0.00 0.00 5.34
362 370 2.492088 TGAAGGAGGATCAGTGTACGTG 59.508 50.000 0.00 0.00 36.25 4.49
372 384 4.019174 TGCCATCTTTTTGAAGGAGGATC 58.981 43.478 0.00 0.00 35.68 3.36
375 387 4.605640 TTTGCCATCTTTTTGAAGGAGG 57.394 40.909 0.00 0.00 35.68 4.30
420 432 1.192534 GAGAAGAACGACGCCAACAAG 59.807 52.381 0.00 0.00 0.00 3.16
466 482 4.395231 TCAGACATCTTTCTCACGTACGAT 59.605 41.667 24.41 3.10 0.00 3.73
496 536 2.381752 AGTTACTTTTGGCTGGCCTT 57.618 45.000 13.05 0.00 36.94 4.35
497 537 2.375509 AGTAGTTACTTTTGGCTGGCCT 59.624 45.455 13.05 0.00 32.71 5.19
498 538 2.747989 GAGTAGTTACTTTTGGCTGGCC 59.252 50.000 4.43 4.43 36.50 5.36
499 539 3.408634 TGAGTAGTTACTTTTGGCTGGC 58.591 45.455 0.00 0.00 36.50 4.85
500 540 4.396166 CCATGAGTAGTTACTTTTGGCTGG 59.604 45.833 0.00 0.00 36.50 4.85
501 541 5.003804 ACCATGAGTAGTTACTTTTGGCTG 58.996 41.667 15.68 1.74 39.92 4.85
502 542 5.242795 ACCATGAGTAGTTACTTTTGGCT 57.757 39.130 15.68 6.27 39.92 4.75
503 543 6.663944 CTACCATGAGTAGTTACTTTTGGC 57.336 41.667 15.68 0.00 43.12 4.52
589 630 9.825972 GAAGTAATATCTTCTCTCGATCTTGAG 57.174 37.037 5.73 5.73 40.19 3.02
592 633 7.574217 GCGGAAGTAATATCTTCTCTCGATCTT 60.574 40.741 6.44 0.00 42.19 2.40
594 635 6.025280 GCGGAAGTAATATCTTCTCTCGATC 58.975 44.000 6.44 0.00 42.19 3.69
595 636 5.391097 CGCGGAAGTAATATCTTCTCTCGAT 60.391 44.000 0.00 0.00 42.19 3.59
596 637 4.083961 CGCGGAAGTAATATCTTCTCTCGA 60.084 45.833 0.00 0.00 42.19 4.04
597 638 4.083961 TCGCGGAAGTAATATCTTCTCTCG 60.084 45.833 6.13 7.41 42.19 4.04
598 639 5.359716 TCGCGGAAGTAATATCTTCTCTC 57.640 43.478 6.13 0.00 42.19 3.20
599 640 5.769484 TTCGCGGAAGTAATATCTTCTCT 57.231 39.130 6.13 0.00 42.19 3.10
606 647 3.131396 CCAGCTTTCGCGGAAGTAATAT 58.869 45.455 27.18 7.02 42.32 1.28
626 670 1.429463 CTACCACTGTCTTCAACGCC 58.571 55.000 0.00 0.00 0.00 5.68
665 710 2.450609 TGTGCCTTAGAAACGACTCC 57.549 50.000 0.00 0.00 0.00 3.85
780 825 1.079543 CTGGGAGTTGGTGAGCTCG 60.080 63.158 9.64 0.00 32.83 5.03
851 896 2.689983 GGGGCTTATATACATGGCATGC 59.310 50.000 26.70 9.90 0.00 4.06
954 1010 1.482593 CAACCTAACCGGAGAGCAGAT 59.517 52.381 9.46 0.00 36.31 2.90
958 1014 0.323957 AACCAACCTAACCGGAGAGC 59.676 55.000 9.46 0.00 36.31 4.09
959 1015 1.621814 TCAACCAACCTAACCGGAGAG 59.378 52.381 9.46 4.10 36.31 3.20
1113 1169 2.126071 CAGGTGGTGTAGTCCGCG 60.126 66.667 0.00 0.00 38.71 6.46
1176 1232 0.315886 CGTGGCCGGCATGTACTATA 59.684 55.000 30.85 0.00 0.00 1.31
1179 1235 2.352821 TACGTGGCCGGCATGTACT 61.353 57.895 30.85 12.64 38.78 2.73
1180 1236 2.169146 GTACGTGGCCGGCATGTAC 61.169 63.158 30.57 30.57 37.71 2.90
1181 1237 1.890625 AAGTACGTGGCCGGCATGTA 61.891 55.000 30.85 24.26 38.78 2.29
1182 1238 2.741486 AAAGTACGTGGCCGGCATGT 62.741 55.000 30.85 25.28 38.78 3.21
1183 1239 1.582610 AAAAGTACGTGGCCGGCATG 61.583 55.000 30.85 21.04 38.78 4.06
1184 1240 1.302993 AAAAGTACGTGGCCGGCAT 60.303 52.632 30.85 13.00 38.78 4.40
1185 1241 1.962306 GAAAAGTACGTGGCCGGCA 60.962 57.895 30.85 12.04 38.78 5.69
1188 1244 2.358939 ACTAGAAAAGTACGTGGCCG 57.641 50.000 0.00 0.00 36.36 6.13
1221 1280 2.226330 TCAGTAAATGCGTGGCAAACT 58.774 42.857 0.00 0.00 43.62 2.66
1231 1290 4.569029 CGAGTTCGTTCATCAGTAAATGC 58.431 43.478 0.00 0.00 34.11 3.56
1243 1304 2.096481 TTTGCCGTGCGAGTTCGTTC 62.096 55.000 3.27 0.00 42.22 3.95
1244 1305 1.707239 TTTTGCCGTGCGAGTTCGTT 61.707 50.000 3.27 0.00 42.22 3.85
1246 1307 0.385473 AATTTTGCCGTGCGAGTTCG 60.385 50.000 0.00 0.00 43.27 3.95
1248 1309 2.033550 TGTAAATTTTGCCGTGCGAGTT 59.966 40.909 0.00 0.00 0.00 3.01
1251 1312 1.604755 ACTGTAAATTTTGCCGTGCGA 59.395 42.857 0.00 0.00 0.00 5.10
1255 1318 4.640789 TGAACACTGTAAATTTTGCCGT 57.359 36.364 0.00 0.00 0.00 5.68
1261 1324 5.559417 CGGCGTAGTTGAACACTGTAAATTT 60.559 40.000 0.00 0.00 35.97 1.82
1267 1330 0.599204 CCGGCGTAGTTGAACACTGT 60.599 55.000 6.01 0.00 35.97 3.55
1667 1742 3.762247 CCACAAGCCCGGCAATGG 61.762 66.667 13.15 11.94 0.00 3.16
1771 1860 1.266175 ACGAGAAACGACTGACACGAT 59.734 47.619 0.00 0.00 45.77 3.73
1772 1861 0.659427 ACGAGAAACGACTGACACGA 59.341 50.000 0.00 0.00 45.77 4.35
1773 1862 1.474017 AACGAGAAACGACTGACACG 58.526 50.000 0.00 0.00 45.77 4.49
1774 1863 2.601763 ACAAACGAGAAACGACTGACAC 59.398 45.455 0.00 0.00 45.77 3.67
1796 1885 1.826385 AAAGAAACATGGCCTCCTCG 58.174 50.000 3.32 0.00 0.00 4.63
1808 1897 1.878088 GTCCCCTCCGTCAAAAGAAAC 59.122 52.381 0.00 0.00 0.00 2.78
1860 1951 7.516198 AATCATAACATAGAATCCAAGGCAC 57.484 36.000 0.00 0.00 0.00 5.01
1898 1989 1.202065 ACGCGACAATGACATGAATGC 60.202 47.619 15.93 0.00 0.00 3.56
1916 2007 6.795114 CACAGTACAAAGTAGGCAAAAATACG 59.205 38.462 0.00 0.00 0.00 3.06
1943 2034 1.996292 AATGATCCGACACTCACGTG 58.004 50.000 9.94 9.94 46.63 4.49
1993 2084 8.908678 CGCCACATGAATGAATTATATGAAAAG 58.091 33.333 0.00 0.00 0.00 2.27
2035 2126 3.139077 ACCTCTTCAACAACAACCGATC 58.861 45.455 0.00 0.00 0.00 3.69
2063 2154 2.675242 CGGTACCTTGGGGCCATCA 61.675 63.158 10.90 0.00 35.63 3.07
2065 2156 1.696314 ATCGGTACCTTGGGGCCAT 60.696 57.895 10.90 0.00 35.63 4.40
2153 2245 2.159382 CACTATGTGGGGCGTCTTTTT 58.841 47.619 0.00 0.00 0.00 1.94
2154 2246 1.821216 CACTATGTGGGGCGTCTTTT 58.179 50.000 0.00 0.00 0.00 2.27
2155 2247 0.676782 GCACTATGTGGGGCGTCTTT 60.677 55.000 0.00 0.00 33.64 2.52
2156 2248 1.078426 GCACTATGTGGGGCGTCTT 60.078 57.895 0.00 0.00 33.64 3.01
2157 2249 1.836999 TTGCACTATGTGGGGCGTCT 61.837 55.000 0.00 0.00 33.64 4.18
2158 2250 0.958382 TTTGCACTATGTGGGGCGTC 60.958 55.000 0.00 0.00 33.64 5.19
2159 2251 1.074072 TTTGCACTATGTGGGGCGT 59.926 52.632 0.00 0.00 33.64 5.68
2160 2252 0.960364 AGTTTGCACTATGTGGGGCG 60.960 55.000 0.00 0.00 33.64 6.13
2161 2253 0.527565 CAGTTTGCACTATGTGGGGC 59.472 55.000 0.00 0.00 33.64 5.80
2162 2254 0.527565 GCAGTTTGCACTATGTGGGG 59.472 55.000 0.00 0.00 44.26 4.96
2186 2278 4.222847 GGAGCCTAACGCGAGGGG 62.223 72.222 15.93 12.42 44.76 4.79
2220 2405 8.617290 TTATTAGTCGATGATAGTGCTCACTA 57.383 34.615 11.64 11.64 46.68 2.74
2269 2461 7.771361 TGTCTTTTGTGTAGATCAAGTTTGGTA 59.229 33.333 0.00 0.00 0.00 3.25
2271 2463 7.026631 TGTCTTTTGTGTAGATCAAGTTTGG 57.973 36.000 0.00 0.00 0.00 3.28
2278 2470 7.502226 AGTTGGATTTGTCTTTTGTGTAGATCA 59.498 33.333 0.00 0.00 0.00 2.92
2311 2503 1.827245 GCCCTTGGGTTGGTCTCATTT 60.827 52.381 7.61 0.00 0.00 2.32
2312 2504 0.251787 GCCCTTGGGTTGGTCTCATT 60.252 55.000 7.61 0.00 0.00 2.57
2313 2505 1.142688 AGCCCTTGGGTTGGTCTCAT 61.143 55.000 7.61 0.00 0.00 2.90
2314 2506 0.474854 TAGCCCTTGGGTTGGTCTCA 60.475 55.000 7.61 0.00 34.28 3.27
2315 2507 0.696501 TTAGCCCTTGGGTTGGTCTC 59.303 55.000 7.61 0.00 34.28 3.36
2316 2508 0.404426 GTTAGCCCTTGGGTTGGTCT 59.596 55.000 7.61 0.00 34.28 3.85
2317 2509 0.611062 GGTTAGCCCTTGGGTTGGTC 60.611 60.000 7.61 0.00 34.28 4.02
2318 2510 1.463375 GGTTAGCCCTTGGGTTGGT 59.537 57.895 7.61 0.00 34.28 3.67
2319 2511 4.434483 GGTTAGCCCTTGGGTTGG 57.566 61.111 7.61 0.00 34.28 3.77
2329 2521 1.780503 AATGCCAATGAGGGTTAGCC 58.219 50.000 0.00 0.00 38.09 3.93
2330 2522 3.893326 AAAATGCCAATGAGGGTTAGC 57.107 42.857 0.00 0.00 38.09 3.09
2349 2541 5.063060 GCTCGCGGAGTTTCTTCTATAAAAA 59.937 40.000 6.13 0.00 31.39 1.94
2350 2542 4.565564 GCTCGCGGAGTTTCTTCTATAAAA 59.434 41.667 6.13 0.00 31.39 1.52
2351 2543 4.110482 GCTCGCGGAGTTTCTTCTATAAA 58.890 43.478 6.13 0.00 31.39 1.40
2352 2544 3.129813 TGCTCGCGGAGTTTCTTCTATAA 59.870 43.478 6.13 0.00 31.39 0.98
2353 2545 2.686405 TGCTCGCGGAGTTTCTTCTATA 59.314 45.455 6.13 0.00 31.39 1.31
2354 2546 1.476891 TGCTCGCGGAGTTTCTTCTAT 59.523 47.619 6.13 0.00 31.39 1.98
2355 2547 0.885879 TGCTCGCGGAGTTTCTTCTA 59.114 50.000 6.13 0.00 31.39 2.10
2356 2548 0.667792 GTGCTCGCGGAGTTTCTTCT 60.668 55.000 6.13 0.00 31.39 2.85
2357 2549 1.627550 GGTGCTCGCGGAGTTTCTTC 61.628 60.000 6.13 0.00 31.39 2.87
2358 2550 1.668151 GGTGCTCGCGGAGTTTCTT 60.668 57.895 6.13 0.00 31.39 2.52
2359 2551 2.048127 GGTGCTCGCGGAGTTTCT 60.048 61.111 6.13 0.00 31.39 2.52
2360 2552 3.479269 CGGTGCTCGCGGAGTTTC 61.479 66.667 6.13 0.00 31.39 2.78
2378 2570 2.876645 GAGTCTGGCTCGAACGCG 60.877 66.667 3.53 3.53 34.13 6.01
2385 2577 1.346068 ACCTGAGTTTGAGTCTGGCTC 59.654 52.381 1.45 1.45 39.46 4.70
2386 2578 1.071385 CACCTGAGTTTGAGTCTGGCT 59.929 52.381 8.17 0.00 39.46 4.75
2387 2579 1.517242 CACCTGAGTTTGAGTCTGGC 58.483 55.000 8.17 0.00 39.46 4.85
2388 2580 1.271054 CCCACCTGAGTTTGAGTCTGG 60.271 57.143 7.03 7.03 41.03 3.86
2389 2581 1.879796 GCCCACCTGAGTTTGAGTCTG 60.880 57.143 0.00 0.00 0.00 3.51
2390 2582 0.398318 GCCCACCTGAGTTTGAGTCT 59.602 55.000 0.00 0.00 0.00 3.24
2391 2583 0.398318 AGCCCACCTGAGTTTGAGTC 59.602 55.000 0.00 0.00 0.00 3.36
2392 2584 0.109342 CAGCCCACCTGAGTTTGAGT 59.891 55.000 0.00 0.00 44.64 3.41
2393 2585 0.607489 CCAGCCCACCTGAGTTTGAG 60.607 60.000 0.00 0.00 44.64 3.02
2394 2586 1.455849 CCAGCCCACCTGAGTTTGA 59.544 57.895 0.00 0.00 44.64 2.69
2395 2587 2.270986 GCCAGCCCACCTGAGTTTG 61.271 63.158 0.00 0.00 44.64 2.93
2396 2588 2.116125 GCCAGCCCACCTGAGTTT 59.884 61.111 0.00 0.00 44.64 2.66
2397 2589 3.177884 TGCCAGCCCACCTGAGTT 61.178 61.111 0.00 0.00 44.64 3.01
2398 2590 3.644606 CTGCCAGCCCACCTGAGT 61.645 66.667 0.00 0.00 44.64 3.41
2401 2593 4.980702 TTGCTGCCAGCCCACCTG 62.981 66.667 15.29 0.00 41.51 4.00
2402 2594 4.982701 GTTGCTGCCAGCCCACCT 62.983 66.667 15.29 0.00 41.51 4.00
2404 2596 4.982701 AGGTTGCTGCCAGCCCAC 62.983 66.667 15.29 10.81 42.79 4.61
2405 2597 4.666253 GAGGTTGCTGCCAGCCCA 62.666 66.667 15.29 0.00 42.79 5.36
2406 2598 4.666253 TGAGGTTGCTGCCAGCCC 62.666 66.667 15.29 9.16 42.79 5.19
2407 2599 3.060615 CTGAGGTTGCTGCCAGCC 61.061 66.667 15.29 0.00 41.51 4.85
2408 2600 3.745803 GCTGAGGTTGCTGCCAGC 61.746 66.667 10.45 10.45 44.00 4.85
2409 2601 2.033757 AGCTGAGGTTGCTGCCAG 59.966 61.111 0.00 0.00 39.56 4.85
2414 2606 3.564345 CTGGGCAGCTGAGGTTGCT 62.564 63.158 20.43 0.00 46.51 3.91
2415 2607 3.060615 CTGGGCAGCTGAGGTTGC 61.061 66.667 20.43 0.23 46.58 4.17
2425 2617 3.365265 GAACCGTTGGCTGGGCAG 61.365 66.667 0.00 0.00 0.00 4.85
2428 2620 3.047877 GTCGAACCGTTGGCTGGG 61.048 66.667 0.00 0.00 0.00 4.45
2429 2621 3.411351 CGTCGAACCGTTGGCTGG 61.411 66.667 0.00 0.00 0.00 4.85
2430 2622 4.072088 GCGTCGAACCGTTGGCTG 62.072 66.667 0.00 0.00 0.00 4.85
2433 2625 3.708734 GTGGCGTCGAACCGTTGG 61.709 66.667 0.00 0.00 0.00 3.77
2434 2626 2.222953 GATGTGGCGTCGAACCGTTG 62.223 60.000 0.00 0.00 0.00 4.10
2435 2627 2.025418 GATGTGGCGTCGAACCGTT 61.025 57.895 0.00 0.00 0.00 4.44
2436 2628 2.431942 GATGTGGCGTCGAACCGT 60.432 61.111 0.00 0.00 0.00 4.83
2437 2629 3.186047 GGATGTGGCGTCGAACCG 61.186 66.667 0.00 0.00 0.00 4.44
2438 2630 1.810030 GAGGATGTGGCGTCGAACC 60.810 63.158 0.00 0.00 0.00 3.62
2439 2631 2.158959 CGAGGATGTGGCGTCGAAC 61.159 63.158 0.00 0.00 45.81 3.95
2440 2632 2.180769 CGAGGATGTGGCGTCGAA 59.819 61.111 0.00 0.00 45.81 3.71
2442 2634 2.579787 GTCGAGGATGTGGCGTCG 60.580 66.667 0.00 0.00 44.72 5.12
2443 2635 0.669318 TTTGTCGAGGATGTGGCGTC 60.669 55.000 0.00 0.00 0.00 5.19
2444 2636 0.036388 ATTTGTCGAGGATGTGGCGT 60.036 50.000 0.00 0.00 0.00 5.68
2445 2637 0.652592 GATTTGTCGAGGATGTGGCG 59.347 55.000 0.00 0.00 0.00 5.69
2446 2638 1.017387 GGATTTGTCGAGGATGTGGC 58.983 55.000 0.00 0.00 0.00 5.01
2447 2639 2.401583 TGGATTTGTCGAGGATGTGG 57.598 50.000 0.00 0.00 0.00 4.17
2448 2640 3.338249 AGTTGGATTTGTCGAGGATGTG 58.662 45.455 0.00 0.00 0.00 3.21
2449 2641 3.703001 AGTTGGATTTGTCGAGGATGT 57.297 42.857 0.00 0.00 0.00 3.06
2450 2642 5.359756 TCATAGTTGGATTTGTCGAGGATG 58.640 41.667 0.00 0.00 0.00 3.51
2451 2643 5.614324 TCATAGTTGGATTTGTCGAGGAT 57.386 39.130 0.00 0.00 0.00 3.24
2452 2644 5.414789 TTCATAGTTGGATTTGTCGAGGA 57.585 39.130 0.00 0.00 0.00 3.71
2453 2645 5.586243 ACATTCATAGTTGGATTTGTCGAGG 59.414 40.000 0.00 0.00 0.00 4.63
2454 2646 6.313658 TGACATTCATAGTTGGATTTGTCGAG 59.686 38.462 0.00 0.00 33.73 4.04
2455 2647 6.092122 GTGACATTCATAGTTGGATTTGTCGA 59.908 38.462 0.00 0.00 33.73 4.20
2456 2648 6.092670 AGTGACATTCATAGTTGGATTTGTCG 59.907 38.462 0.00 0.00 33.73 4.35
2489 2681 3.556423 GCGGTTTCAGTCTCTTTTAGGGA 60.556 47.826 0.00 0.00 0.00 4.20
2513 2705 3.741805 CATCATAATGATGCAGAGCCG 57.258 47.619 0.00 0.00 46.37 5.52
2528 2720 2.346766 TAAGAATGGCCGTGCATCAT 57.653 45.000 5.50 0.00 0.00 2.45
2537 2729 2.622942 TCGGCAATCAATAAGAATGGCC 59.377 45.455 0.00 0.00 46.80 5.36
2547 2742 5.184864 TCTTGTAATGGTTTCGGCAATCAAT 59.815 36.000 0.00 0.00 0.00 2.57
2548 2743 4.520874 TCTTGTAATGGTTTCGGCAATCAA 59.479 37.500 0.00 0.00 0.00 2.57
2550 2745 4.695217 TCTTGTAATGGTTTCGGCAATC 57.305 40.909 0.00 0.00 0.00 2.67
2551 2746 5.184864 TCATTCTTGTAATGGTTTCGGCAAT 59.815 36.000 0.00 0.00 0.00 3.56
2552 2747 4.520874 TCATTCTTGTAATGGTTTCGGCAA 59.479 37.500 0.00 0.00 0.00 4.52
2553 2748 4.075682 TCATTCTTGTAATGGTTTCGGCA 58.924 39.130 0.00 0.00 0.00 5.69
2554 2749 4.695217 TCATTCTTGTAATGGTTTCGGC 57.305 40.909 0.00 0.00 0.00 5.54
2555 2750 9.632807 TTAATTTCATTCTTGTAATGGTTTCGG 57.367 29.630 0.00 0.00 0.00 4.30
2600 2798 6.950619 AGATATGACTATATGGCAGTGTCTGA 59.049 38.462 0.00 0.00 36.95 3.27
2608 2806 9.177608 GGCAAATTTAGATATGACTATATGGCA 57.822 33.333 0.00 0.00 38.56 4.92
2609 2807 9.401058 AGGCAAATTTAGATATGACTATATGGC 57.599 33.333 0.00 0.00 29.67 4.40
2617 2815 7.547227 ACCAACAAGGCAAATTTAGATATGAC 58.453 34.615 0.00 0.00 43.14 3.06
2621 2819 7.093945 GGAGAACCAACAAGGCAAATTTAGATA 60.094 37.037 0.00 0.00 43.14 1.98


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

AutoCloner maintained by Alex Coulton.