Multiple sequence alignment - TraesCS6A01G156400

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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 TraesCS6A01G156400 chr6A 100.000 2864 0 0 2098 4961 145188585 145191448 0.000000e+00 5289.0
1 TraesCS6A01G156400 chr6A 100.000 1644 0 0 1 1644 145186488 145188131 0.000000e+00 3037.0
2 TraesCS6A01G156400 chr6B 91.903 2606 153 36 2378 4961 207452974 207455543 0.000000e+00 3591.0
3 TraesCS6A01G156400 chr6B 90.030 1003 67 24 651 1628 207451721 207452715 0.000000e+00 1267.0
4 TraesCS6A01G156400 chr6B 87.684 747 77 14 1 740 207451031 207451769 0.000000e+00 856.0
5 TraesCS6A01G156400 chr6B 92.258 155 8 4 2131 2282 503085609 503085456 3.010000e-52 217.0
6 TraesCS6A01G156400 chr6B 92.105 152 9 3 2131 2279 496271504 496271655 1.400000e-50 211.0
7 TraesCS6A01G156400 chr6D 95.618 2054 83 7 2283 4331 118634855 118632804 0.000000e+00 3288.0
8 TraesCS6A01G156400 chr6D 89.948 965 61 19 711 1642 118636238 118635277 0.000000e+00 1212.0
9 TraesCS6A01G156400 chr6D 88.560 743 74 11 4 740 118636987 118636250 0.000000e+00 891.0
10 TraesCS6A01G156400 chr6D 88.204 568 37 17 4407 4961 118632785 118632235 0.000000e+00 651.0
11 TraesCS6A01G156400 chr6D 92.453 159 8 3 2128 2282 85090576 85090418 1.800000e-54 224.0
12 TraesCS6A01G156400 chr6D 92.453 159 8 4 2128 2282 376939128 376938970 1.800000e-54 224.0
13 TraesCS6A01G156400 chr6D 91.195 159 8 5 2131 2284 453191632 453191789 1.400000e-50 211.0
14 TraesCS6A01G156400 chr6D 100.000 33 0 0 2098 2130 118634879 118634847 1.490000e-05 62.1
15 TraesCS6A01G156400 chr7D 93.590 156 7 3 2131 2283 58841708 58841863 3.860000e-56 230.0
16 TraesCS6A01G156400 chr1D 92.405 158 6 5 2130 2283 112352033 112352188 2.320000e-53 220.0
17 TraesCS6A01G156400 chr4D 91.613 155 9 4 2131 2282 306544022 306543869 1.400000e-50 211.0
18 TraesCS6A01G156400 chr2D 90.798 163 6 4 2130 2283 476697540 476697702 5.030000e-50 209.0


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 TraesCS6A01G156400 chr6A 145186488 145191448 4960 False 4163.000000 5289 100.000000 1 4961 2 chr6A.!!$F1 4960
1 TraesCS6A01G156400 chr6B 207451031 207455543 4512 False 1904.666667 3591 89.872333 1 4961 3 chr6B.!!$F2 4960
2 TraesCS6A01G156400 chr6D 118632235 118636987 4752 True 1220.820000 3288 92.466000 4 4961 5 chr6D.!!$R3 4957

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
118 119 0.307760 CAAACCAAAGCTCTCGCGTT 59.692 50.000 5.77 0.0 42.32 4.84 F
1426 1506 0.183492 AGCCAAGTGTTGCCTCTTCA 59.817 50.000 0.00 0.0 0.00 3.02 F
1576 1656 1.157585 CGACTGGACTGAAGACTCGA 58.842 55.000 0.00 0.0 0.00 4.04 F
1594 1674 1.667177 CGATAGATTCGTCAGGCGCAT 60.667 52.381 10.83 0.0 43.01 4.73 F
2709 2885 1.784358 TTCACGTATCCGGGGATTCT 58.216 50.000 5.38 0.0 38.30 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1547 1627 1.068588 CAGTCCAGTCGACAACCTGAA 59.931 52.381 19.50 0.00 44.66 3.02 R
3146 3328 1.055849 TTCAGTGCAGCCTCCAACTA 58.944 50.000 0.00 0.00 0.00 2.24 R
3270 3452 3.364366 CGACAAGCAAAAGGACATCTGTC 60.364 47.826 1.59 1.59 44.04 3.51 R
3729 3915 2.048597 CAGCTAACCGTGCGACCA 60.049 61.111 0.00 0.00 35.28 4.02 R
4345 4534 0.179140 CGCCTGTGTGCACAACTTTT 60.179 50.000 23.59 0.00 41.33 2.27 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
29 30 2.045524 TGGCTGGAAAAGAAAATGGCA 58.954 42.857 0.00 0.00 0.00 4.92
45 46 2.492025 TGGCACCAGGGATATTTCTCT 58.508 47.619 0.00 0.00 30.60 3.10
49 50 3.904339 GCACCAGGGATATTTCTCTCCTA 59.096 47.826 0.00 0.00 26.59 2.94
70 71 1.180456 TGCGAGACTTAACCCGGTCA 61.180 55.000 0.00 0.00 35.18 4.02
104 105 1.455383 CCACTGTGTCTGCCCAAACC 61.455 60.000 7.08 0.00 0.00 3.27
118 119 0.307760 CAAACCAAAGCTCTCGCGTT 59.692 50.000 5.77 0.00 42.32 4.84
152 153 4.081087 TCTCTCTGGTTTTCTTTATCGGGG 60.081 45.833 0.00 0.00 0.00 5.73
179 180 8.623310 TTCACTGTTTAAAATCGGTTTCTTTC 57.377 30.769 0.00 0.00 0.00 2.62
186 187 1.530323 ATCGGTTTCTTTCGGGGTTG 58.470 50.000 0.00 0.00 0.00 3.77
189 190 1.002142 CGGTTTCTTTCGGGGTTGTTC 60.002 52.381 0.00 0.00 0.00 3.18
201 202 1.149148 GGTTGTTCTGGCTTCTCGTC 58.851 55.000 0.00 0.00 0.00 4.20
315 317 9.165014 CACATTGTACATTTTTATATACACCGC 57.835 33.333 0.00 0.00 0.00 5.68
501 504 9.844257 ATTTTATCAAATTCAGGGTTTTGAACA 57.156 25.926 2.60 0.00 43.04 3.18
581 585 5.008217 TCAATGGTACGAAACACTTCCTTTG 59.992 40.000 0.00 0.00 34.02 2.77
585 589 3.668596 ACGAAACACTTCCTTTGAACG 57.331 42.857 0.00 0.00 0.00 3.95
588 592 3.545426 CGAAACACTTCCTTTGAACGACC 60.545 47.826 0.00 0.00 0.00 4.79
780 828 8.523915 TGGAATGCTATACACATTTTCTGAAT 57.476 30.769 0.00 0.00 37.85 2.57
972 1029 0.603569 CCATTAGTAGCGAGGCCGAT 59.396 55.000 0.00 0.00 38.22 4.18
981 1038 3.889044 GAGGCCGATGCGAGACGA 61.889 66.667 0.00 0.00 38.85 4.20
1001 1058 3.682718 CGATACAAACCTGCTCCCTCAAT 60.683 47.826 0.00 0.00 0.00 2.57
1003 1060 1.425066 ACAAACCTGCTCCCTCAATGA 59.575 47.619 0.00 0.00 0.00 2.57
1068 1125 2.391678 GCCTGTGGAATGGAATTGGAT 58.608 47.619 0.00 0.00 36.07 3.41
1173 1242 4.681978 GTCACCCGGTGCTTCGCT 62.682 66.667 13.19 0.00 32.98 4.93
1371 1443 1.839994 TGAGCCTCTCCGATTCCATTT 59.160 47.619 0.00 0.00 0.00 2.32
1373 1445 3.282885 GAGCCTCTCCGATTCCATTTTT 58.717 45.455 0.00 0.00 0.00 1.94
1416 1496 1.062488 ACAGGAGGGAAGCCAAGTGT 61.062 55.000 0.00 0.00 0.00 3.55
1419 1499 1.527433 GGAGGGAAGCCAAGTGTTGC 61.527 60.000 0.00 0.00 0.00 4.17
1426 1506 0.183492 AGCCAAGTGTTGCCTCTTCA 59.817 50.000 0.00 0.00 0.00 3.02
1529 1609 2.034687 CAGGCCTCCACCAAGGTG 59.965 66.667 0.00 12.29 45.02 4.00
1547 1627 7.724061 ACCAAGGTGATTCTACTTGTTATGTTT 59.276 33.333 15.07 0.00 39.85 2.83
1558 1638 5.816919 ACTTGTTATGTTTTCAGGTTGTCG 58.183 37.500 0.00 0.00 0.00 4.35
1563 1643 2.285083 TGTTTTCAGGTTGTCGACTGG 58.715 47.619 17.92 1.84 35.47 4.00
1576 1656 1.157585 CGACTGGACTGAAGACTCGA 58.842 55.000 0.00 0.00 0.00 4.04
1594 1674 1.667177 CGATAGATTCGTCAGGCGCAT 60.667 52.381 10.83 0.00 43.01 4.73
1642 1722 9.265901 CATCTTAATATGCAGCAGTAGTACTTT 57.734 33.333 0.00 0.00 0.00 2.66
2139 2277 8.918202 TTTATCAATGTAGGAACAGTTTGTCT 57.082 30.769 0.00 0.00 39.49 3.41
2143 2281 8.918202 TCAATGTAGGAACAGTTTGTCTAATT 57.082 30.769 0.00 0.00 39.49 1.40
2144 2282 8.999431 TCAATGTAGGAACAGTTTGTCTAATTC 58.001 33.333 0.00 0.00 39.49 2.17
2145 2283 8.783093 CAATGTAGGAACAGTTTGTCTAATTCA 58.217 33.333 0.00 0.00 39.49 2.57
2146 2284 7.724305 TGTAGGAACAGTTTGTCTAATTCAC 57.276 36.000 0.00 0.00 0.00 3.18
2147 2285 7.276658 TGTAGGAACAGTTTGTCTAATTCACA 58.723 34.615 0.00 0.00 0.00 3.58
2148 2286 7.936847 TGTAGGAACAGTTTGTCTAATTCACAT 59.063 33.333 0.00 0.00 0.00 3.21
2149 2287 7.440523 AGGAACAGTTTGTCTAATTCACATC 57.559 36.000 0.00 0.00 0.00 3.06
2150 2288 7.227156 AGGAACAGTTTGTCTAATTCACATCT 58.773 34.615 0.00 0.00 0.00 2.90
2151 2289 8.375506 AGGAACAGTTTGTCTAATTCACATCTA 58.624 33.333 0.00 0.00 0.00 1.98
2152 2290 8.660373 GGAACAGTTTGTCTAATTCACATCTAG 58.340 37.037 0.00 0.00 0.00 2.43
2153 2291 9.424319 GAACAGTTTGTCTAATTCACATCTAGA 57.576 33.333 0.00 0.00 0.00 2.43
2154 2292 9.950496 AACAGTTTGTCTAATTCACATCTAGAT 57.050 29.630 0.00 0.00 0.00 1.98
2155 2293 9.376075 ACAGTTTGTCTAATTCACATCTAGATG 57.624 33.333 27.63 27.63 44.15 2.90
2183 2321 7.849804 TTTAAGAATGTCACATCTAAGCTCC 57.150 36.000 0.00 0.00 0.00 4.70
2184 2322 4.414337 AGAATGTCACATCTAAGCTCCC 57.586 45.455 0.00 0.00 0.00 4.30
2185 2323 3.776969 AGAATGTCACATCTAAGCTCCCA 59.223 43.478 0.00 0.00 0.00 4.37
2186 2324 3.550437 ATGTCACATCTAAGCTCCCAC 57.450 47.619 0.00 0.00 0.00 4.61
2187 2325 2.256306 TGTCACATCTAAGCTCCCACA 58.744 47.619 0.00 0.00 0.00 4.17
2188 2326 2.637382 TGTCACATCTAAGCTCCCACAA 59.363 45.455 0.00 0.00 0.00 3.33
2189 2327 3.072330 TGTCACATCTAAGCTCCCACAAA 59.928 43.478 0.00 0.00 0.00 2.83
2190 2328 4.263462 TGTCACATCTAAGCTCCCACAAAT 60.263 41.667 0.00 0.00 0.00 2.32
2191 2329 5.045942 TGTCACATCTAAGCTCCCACAAATA 60.046 40.000 0.00 0.00 0.00 1.40
2192 2330 6.058183 GTCACATCTAAGCTCCCACAAATAT 58.942 40.000 0.00 0.00 0.00 1.28
2193 2331 7.147567 TGTCACATCTAAGCTCCCACAAATATA 60.148 37.037 0.00 0.00 0.00 0.86
2194 2332 7.880195 GTCACATCTAAGCTCCCACAAATATAT 59.120 37.037 0.00 0.00 0.00 0.86
2195 2333 9.100197 TCACATCTAAGCTCCCACAAATATATA 57.900 33.333 0.00 0.00 0.00 0.86
2196 2334 9.725019 CACATCTAAGCTCCCACAAATATATAA 57.275 33.333 0.00 0.00 0.00 0.98
2199 2337 8.792830 TCTAAGCTCCCACAAATATATAATGC 57.207 34.615 0.00 0.00 0.00 3.56
2200 2338 8.382405 TCTAAGCTCCCACAAATATATAATGCA 58.618 33.333 0.00 0.00 0.00 3.96
2201 2339 7.458409 AAGCTCCCACAAATATATAATGCAG 57.542 36.000 0.00 0.00 0.00 4.41
2202 2340 5.416952 AGCTCCCACAAATATATAATGCAGC 59.583 40.000 0.00 0.00 0.00 5.25
2203 2341 5.183713 GCTCCCACAAATATATAATGCAGCA 59.816 40.000 0.00 0.00 0.00 4.41
2204 2342 6.294675 GCTCCCACAAATATATAATGCAGCAA 60.295 38.462 0.00 0.00 0.00 3.91
2205 2343 6.980593 TCCCACAAATATATAATGCAGCAAC 58.019 36.000 0.00 0.00 0.00 4.17
2206 2344 6.548993 TCCCACAAATATATAATGCAGCAACA 59.451 34.615 0.00 0.00 0.00 3.33
2207 2345 7.069208 TCCCACAAATATATAATGCAGCAACAA 59.931 33.333 0.00 0.00 0.00 2.83
2208 2346 7.383029 CCCACAAATATATAATGCAGCAACAAG 59.617 37.037 0.00 0.00 0.00 3.16
2209 2347 8.136800 CCACAAATATATAATGCAGCAACAAGA 58.863 33.333 0.00 0.00 0.00 3.02
2210 2348 9.518906 CACAAATATATAATGCAGCAACAAGAA 57.481 29.630 0.00 0.00 0.00 2.52
2216 2354 8.830201 ATATAATGCAGCAACAAGAAACAAAA 57.170 26.923 0.00 0.00 0.00 2.44
2217 2355 5.876612 AATGCAGCAACAAGAAACAAAAA 57.123 30.435 0.00 0.00 0.00 1.94
2254 2392 6.619801 AAAATAGACCACAAACAGAGTCAC 57.380 37.500 0.00 0.00 0.00 3.67
2255 2393 4.955811 ATAGACCACAAACAGAGTCACA 57.044 40.909 0.00 0.00 0.00 3.58
2256 2394 3.845781 AGACCACAAACAGAGTCACAT 57.154 42.857 0.00 0.00 0.00 3.21
2257 2395 3.733337 AGACCACAAACAGAGTCACATC 58.267 45.455 0.00 0.00 0.00 3.06
2258 2396 3.389329 AGACCACAAACAGAGTCACATCT 59.611 43.478 0.00 0.00 0.00 2.90
2259 2397 3.733337 ACCACAAACAGAGTCACATCTC 58.267 45.455 0.00 0.00 34.96 2.75
2260 2398 3.389329 ACCACAAACAGAGTCACATCTCT 59.611 43.478 0.00 0.00 44.45 3.10
2261 2399 4.588951 ACCACAAACAGAGTCACATCTCTA 59.411 41.667 0.00 0.00 42.10 2.43
2262 2400 5.167121 CCACAAACAGAGTCACATCTCTAG 58.833 45.833 0.00 0.00 42.10 2.43
2263 2401 5.047731 CCACAAACAGAGTCACATCTCTAGA 60.048 44.000 0.00 0.00 42.10 2.43
2264 2402 6.350864 CCACAAACAGAGTCACATCTCTAGAT 60.351 42.308 0.00 0.00 42.10 1.98
2277 2415 6.558771 CATCTCTAGATGTGTCCTAGACAG 57.441 45.833 11.14 0.00 45.10 3.51
2278 2416 5.959583 TCTCTAGATGTGTCCTAGACAGA 57.040 43.478 0.00 0.00 43.57 3.41
2279 2417 5.676552 TCTCTAGATGTGTCCTAGACAGAC 58.323 45.833 0.00 0.00 43.57 3.51
2280 2418 4.783055 TCTAGATGTGTCCTAGACAGACC 58.217 47.826 0.00 0.00 43.57 3.85
2281 2419 2.741145 AGATGTGTCCTAGACAGACCC 58.259 52.381 0.00 0.00 43.57 4.46
2282 2420 2.043115 AGATGTGTCCTAGACAGACCCA 59.957 50.000 0.00 0.00 43.57 4.51
2283 2421 2.623418 TGTGTCCTAGACAGACCCAT 57.377 50.000 0.00 0.00 43.57 4.00
2284 2422 2.179427 TGTGTCCTAGACAGACCCATG 58.821 52.381 0.00 0.00 43.57 3.66
2285 2423 2.180276 GTGTCCTAGACAGACCCATGT 58.820 52.381 0.00 0.00 43.57 3.21
2286 2424 3.245479 TGTGTCCTAGACAGACCCATGTA 60.245 47.826 0.00 0.00 43.57 2.29
2287 2425 3.381908 GTGTCCTAGACAGACCCATGTAG 59.618 52.174 0.00 0.00 43.57 2.74
2288 2426 2.959707 GTCCTAGACAGACCCATGTAGG 59.040 54.545 0.00 0.00 32.37 3.18
2289 2427 2.856864 TCCTAGACAGACCCATGTAGGA 59.143 50.000 0.00 1.39 41.22 2.94
2290 2428 3.271225 TCCTAGACAGACCCATGTAGGAA 59.729 47.826 2.78 0.00 35.79 3.36
2296 2434 1.916181 AGACCCATGTAGGAAACTGGG 59.084 52.381 4.93 4.93 45.19 4.45
2349 2487 4.980573 TCTTGGTATGGTTAGCAGTTTGT 58.019 39.130 0.00 0.00 37.16 2.83
2398 2572 5.275067 AGCAGTTGCCAATTTTGAACTTA 57.725 34.783 0.00 0.00 43.38 2.24
2400 2574 6.290605 AGCAGTTGCCAATTTTGAACTTAAT 58.709 32.000 0.00 0.00 43.38 1.40
2700 2876 3.746492 AGAAGCAAGTGTTTCACGTATCC 59.254 43.478 10.05 0.00 39.64 2.59
2709 2885 1.784358 TTCACGTATCCGGGGATTCT 58.216 50.000 5.38 0.00 38.30 2.40
3014 3191 2.605818 GCAGGAATATAACGTCGTTGCA 59.394 45.455 20.62 8.29 0.00 4.08
3068 3245 8.173542 TGGCAGTGATACGTATATTTCTCTTA 57.826 34.615 8.34 0.00 0.00 2.10
3133 3310 8.151141 ACTGCCTAGTTAAGTTTAACAAAGTC 57.849 34.615 15.04 5.00 44.14 3.01
3843 4030 0.753479 TTTTTCGGTTGCTGCAGGGA 60.753 50.000 17.12 0.00 0.00 4.20
3927 4114 2.410322 ATCTGGCAGCGGTTGAACCA 62.410 55.000 15.58 0.00 38.47 3.67
4086 4273 1.972660 GCGTCCATCTTACCTGGGCT 61.973 60.000 0.00 0.00 36.19 5.19
4113 4300 1.512694 GGCCAGGCTGTGTAAATGC 59.487 57.895 12.43 7.42 0.00 3.56
4150 4337 1.600023 TTCGTGTTAACTGGGCCTTG 58.400 50.000 4.53 0.00 0.00 3.61
4192 4379 5.109210 GGCCCAAAATATAAGTGTTTCTGC 58.891 41.667 0.00 0.00 0.00 4.26
4252 4440 5.051039 CGTGTATCATCACTACGGATTTTGG 60.051 44.000 0.00 0.00 36.33 3.28
4305 4494 1.585668 CTGAAGTCGATGCGATGTGAC 59.414 52.381 0.00 0.00 38.42 3.67
4306 4495 1.067915 TGAAGTCGATGCGATGTGACA 60.068 47.619 0.00 0.00 38.42 3.58
4309 4498 3.005341 AGTCGATGCGATGTGACATAG 57.995 47.619 0.00 0.00 38.42 2.23
4314 4503 4.445385 TCGATGCGATGTGACATAGAAATG 59.555 41.667 9.92 0.00 39.17 2.32
4333 4522 2.540383 TGTGAGCTTGGATGGACTACT 58.460 47.619 0.00 0.00 0.00 2.57
4334 4523 2.497675 TGTGAGCTTGGATGGACTACTC 59.502 50.000 0.00 0.00 0.00 2.59
4335 4524 2.763448 GTGAGCTTGGATGGACTACTCT 59.237 50.000 0.00 0.00 0.00 3.24
4337 4526 3.295973 GAGCTTGGATGGACTACTCTCT 58.704 50.000 0.00 0.00 0.00 3.10
4338 4527 3.295973 AGCTTGGATGGACTACTCTCTC 58.704 50.000 0.00 0.00 0.00 3.20
4339 4528 3.027412 GCTTGGATGGACTACTCTCTCA 58.973 50.000 0.00 0.00 0.00 3.27
4340 4529 3.449018 GCTTGGATGGACTACTCTCTCAA 59.551 47.826 0.00 0.00 0.00 3.02
4341 4530 4.081420 GCTTGGATGGACTACTCTCTCAAA 60.081 45.833 0.00 0.00 0.00 2.69
4342 4531 5.569630 GCTTGGATGGACTACTCTCTCAAAA 60.570 44.000 0.00 0.00 0.00 2.44
4343 4532 6.433847 TTGGATGGACTACTCTCTCAAAAA 57.566 37.500 0.00 0.00 0.00 1.94
4363 4552 2.008752 AAAAAGTTGTGCACACAGGC 57.991 45.000 21.56 10.26 42.94 4.85
4438 4638 2.908015 GGCCGGCCATCAGAGTAA 59.092 61.111 40.73 0.00 35.81 2.24
4439 4639 1.227674 GGCCGGCCATCAGAGTAAG 60.228 63.158 40.73 0.00 35.81 2.34
4440 4640 1.686325 GGCCGGCCATCAGAGTAAGA 61.686 60.000 40.73 0.00 35.81 2.10
4443 4643 1.339610 CCGGCCATCAGAGTAAGAGAG 59.660 57.143 2.24 0.00 0.00 3.20
4444 4644 2.028130 CGGCCATCAGAGTAAGAGAGT 58.972 52.381 2.24 0.00 0.00 3.24
4486 4691 0.104855 CGAATGATGAGGCGAAGGGA 59.895 55.000 0.00 0.00 0.00 4.20
4608 4813 4.785453 CCGTTCCCCTGCAGCCTC 62.785 72.222 8.66 0.00 0.00 4.70
4609 4814 3.710722 CGTTCCCCTGCAGCCTCT 61.711 66.667 8.66 0.00 0.00 3.69
4626 4831 0.959553 TCTCACTCAAGTCCGTCCAC 59.040 55.000 0.00 0.00 0.00 4.02
4765 4972 3.016736 ACTAAGCAGCGCCATTATTGTT 58.983 40.909 2.29 0.00 0.00 2.83
4766 4973 2.282701 AAGCAGCGCCATTATTGTTG 57.717 45.000 2.29 0.00 0.00 3.33
4767 4974 1.176527 AGCAGCGCCATTATTGTTGT 58.823 45.000 2.29 0.00 0.00 3.32
4768 4980 1.133025 AGCAGCGCCATTATTGTTGTC 59.867 47.619 2.29 0.00 0.00 3.18
4769 4981 1.133025 GCAGCGCCATTATTGTTGTCT 59.867 47.619 2.29 0.00 0.00 3.41
4831 5043 2.990479 CTGGGGCCTGAGGTGTAC 59.010 66.667 0.84 0.00 0.00 2.90
4832 5044 3.000819 TGGGGCCTGAGGTGTACG 61.001 66.667 0.84 0.00 0.00 3.67
4833 5045 2.682494 GGGGCCTGAGGTGTACGA 60.682 66.667 0.84 0.00 0.00 3.43
4834 5046 2.288025 GGGGCCTGAGGTGTACGAA 61.288 63.158 0.84 0.00 0.00 3.85
4835 5047 1.675219 GGGCCTGAGGTGTACGAAA 59.325 57.895 0.84 0.00 0.00 3.46
4837 5049 1.339727 GGGCCTGAGGTGTACGAAATT 60.340 52.381 0.84 0.00 0.00 1.82
4840 5052 2.414161 GCCTGAGGTGTACGAAATTTGC 60.414 50.000 0.00 0.00 0.00 3.68
4841 5053 2.159707 CCTGAGGTGTACGAAATTTGCG 60.160 50.000 0.00 1.90 0.00 4.85
4842 5054 2.734606 CTGAGGTGTACGAAATTTGCGA 59.265 45.455 3.21 0.00 0.00 5.10
4844 5056 3.749088 TGAGGTGTACGAAATTTGCGATT 59.251 39.130 3.21 0.00 0.00 3.34
4845 5057 4.214545 TGAGGTGTACGAAATTTGCGATTT 59.785 37.500 3.21 0.00 0.00 2.17
4846 5058 4.719040 AGGTGTACGAAATTTGCGATTTC 58.281 39.130 3.21 12.79 35.34 2.17
4847 5059 4.214545 AGGTGTACGAAATTTGCGATTTCA 59.785 37.500 19.27 4.57 37.76 2.69
4855 5069 7.336975 ACGAAATTTGCGATTTCAAAAAGAAG 58.663 30.769 19.27 7.91 39.13 2.85
4860 5074 2.405025 GCGATTTCAAAAAGAAGCACGG 59.595 45.455 0.00 0.00 37.57 4.94
4864 5078 0.667993 TCAAAAAGAAGCACGGCCAG 59.332 50.000 2.24 0.00 0.00 4.85
4905 5119 1.530293 GATTCTGCTGCATCGATCACC 59.470 52.381 1.31 0.00 0.00 4.02
4925 5139 1.343506 ACGTTATTTCGTGCGAGTCC 58.656 50.000 0.00 0.00 42.56 3.85
4930 5144 1.282248 ATTTCGTGCGAGTCCGTGTG 61.282 55.000 0.00 0.00 38.24 3.82
4936 5150 3.299977 CGAGTCCGTGTGGGTGGA 61.300 66.667 0.00 0.00 37.00 4.02
4938 5152 2.923035 AGTCCGTGTGGGTGGAGG 60.923 66.667 0.00 0.00 34.21 4.30
4940 5154 4.567597 TCCGTGTGGGTGGAGGGT 62.568 66.667 0.00 0.00 37.00 4.34
4941 5155 4.329545 CCGTGTGGGTGGAGGGTG 62.330 72.222 0.00 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 5.013599 GCAATAGGAGAGAAATATCCCTGGT 59.986 44.000 0.00 0.00 36.14 4.00
45 46 2.100252 CGGGTTAAGTCTCGCAATAGGA 59.900 50.000 0.00 0.00 0.00 2.94
49 50 0.611714 ACCGGGTTAAGTCTCGCAAT 59.388 50.000 6.32 0.00 0.00 3.56
84 85 0.465460 GTTTGGGCAGACACAGTGGA 60.465 55.000 5.31 0.00 0.00 4.02
86 87 0.751277 TGGTTTGGGCAGACACAGTG 60.751 55.000 0.00 0.00 0.00 3.66
89 90 1.110442 CTTTGGTTTGGGCAGACACA 58.890 50.000 0.00 0.00 0.00 3.72
152 153 7.980742 AGAAACCGATTTTAAACAGTGAAAC 57.019 32.000 0.00 0.00 0.00 2.78
179 180 0.955919 GAGAAGCCAGAACAACCCCG 60.956 60.000 0.00 0.00 0.00 5.73
186 187 2.734276 AGAAGACGAGAAGCCAGAAC 57.266 50.000 0.00 0.00 0.00 3.01
189 190 1.068194 ACGAAGAAGACGAGAAGCCAG 60.068 52.381 0.00 0.00 34.70 4.85
312 314 6.862944 AAACATGTATAAAAATGTTCGCGG 57.137 33.333 6.13 0.00 44.24 6.46
581 585 2.096335 ACACAAAAAGTTCGGGTCGTTC 59.904 45.455 0.00 0.00 0.00 3.95
585 589 4.823790 ATGTACACAAAAAGTTCGGGTC 57.176 40.909 0.00 0.00 0.00 4.46
588 592 9.666626 TTTATACAATGTACACAAAAAGTTCGG 57.333 29.630 0.00 0.00 0.00 4.30
766 814 8.715191 TTGTTAGCAAAATTCAGAAAATGTGT 57.285 26.923 0.00 0.00 0.00 3.72
896 952 8.939201 TTTTTCTCTGTTTTTGTATTCATGCA 57.061 26.923 0.00 0.00 0.00 3.96
923 979 4.137543 CAAGTTGCTTCCTTCAGGTTAGT 58.862 43.478 0.00 0.00 36.34 2.24
924 980 3.503748 CCAAGTTGCTTCCTTCAGGTTAG 59.496 47.826 0.00 0.00 36.34 2.34
927 983 1.479389 CCCAAGTTGCTTCCTTCAGGT 60.479 52.381 0.00 0.00 36.34 4.00
928 984 1.251251 CCCAAGTTGCTTCCTTCAGG 58.749 55.000 0.00 0.00 0.00 3.86
972 1029 1.990799 CAGGTTTGTATCGTCTCGCA 58.009 50.000 0.00 0.00 0.00 5.10
981 1038 3.266772 TCATTGAGGGAGCAGGTTTGTAT 59.733 43.478 0.00 0.00 0.00 2.29
1053 1110 1.341877 ACCGCATCCAATTCCATTCCA 60.342 47.619 0.00 0.00 0.00 3.53
1173 1242 4.519350 ACGATGATCTTGAGCGGATACTTA 59.481 41.667 0.00 0.00 0.00 2.24
1426 1506 1.409064 TGAACAGAACGCACTCTCAGT 59.591 47.619 0.00 0.00 0.00 3.41
1529 1609 9.612620 CAACCTGAAAACATAACAAGTAGAATC 57.387 33.333 0.00 0.00 0.00 2.52
1547 1627 1.068588 CAGTCCAGTCGACAACCTGAA 59.931 52.381 19.50 0.00 44.66 3.02
1558 1638 4.193090 TCTATCGAGTCTTCAGTCCAGTC 58.807 47.826 0.00 0.00 0.00 3.51
1576 1656 2.533266 AATGCGCCTGACGAATCTAT 57.467 45.000 4.18 0.00 39.97 1.98
2157 2295 8.730680 GGAGCTTAGATGTGACATTCTTAAAAA 58.269 33.333 0.00 0.00 0.00 1.94
2158 2296 7.336931 GGGAGCTTAGATGTGACATTCTTAAAA 59.663 37.037 0.00 0.00 0.00 1.52
2159 2297 6.823689 GGGAGCTTAGATGTGACATTCTTAAA 59.176 38.462 0.00 0.00 0.00 1.52
2160 2298 6.070251 TGGGAGCTTAGATGTGACATTCTTAA 60.070 38.462 0.00 0.00 0.00 1.85
2161 2299 5.425217 TGGGAGCTTAGATGTGACATTCTTA 59.575 40.000 0.00 0.00 0.00 2.10
2162 2300 4.225942 TGGGAGCTTAGATGTGACATTCTT 59.774 41.667 0.00 0.00 0.00 2.52
2163 2301 3.776969 TGGGAGCTTAGATGTGACATTCT 59.223 43.478 0.00 1.32 0.00 2.40
2164 2302 3.873952 GTGGGAGCTTAGATGTGACATTC 59.126 47.826 0.00 0.00 0.00 2.67
2165 2303 3.264193 TGTGGGAGCTTAGATGTGACATT 59.736 43.478 0.00 0.00 0.00 2.71
2166 2304 2.840038 TGTGGGAGCTTAGATGTGACAT 59.160 45.455 0.00 0.00 0.00 3.06
2167 2305 2.256306 TGTGGGAGCTTAGATGTGACA 58.744 47.619 0.00 0.00 0.00 3.58
2168 2306 3.334583 TTGTGGGAGCTTAGATGTGAC 57.665 47.619 0.00 0.00 0.00 3.67
2169 2307 4.574674 ATTTGTGGGAGCTTAGATGTGA 57.425 40.909 0.00 0.00 0.00 3.58
2170 2308 9.725019 TTATATATTTGTGGGAGCTTAGATGTG 57.275 33.333 0.00 0.00 0.00 3.21
2173 2311 9.401058 GCATTATATATTTGTGGGAGCTTAGAT 57.599 33.333 0.00 0.00 0.00 1.98
2174 2312 8.382405 TGCATTATATATTTGTGGGAGCTTAGA 58.618 33.333 0.00 0.00 0.00 2.10
2175 2313 8.565896 TGCATTATATATTTGTGGGAGCTTAG 57.434 34.615 0.00 0.00 0.00 2.18
2176 2314 7.121168 GCTGCATTATATATTTGTGGGAGCTTA 59.879 37.037 0.00 0.00 0.00 3.09
2177 2315 6.071728 GCTGCATTATATATTTGTGGGAGCTT 60.072 38.462 0.00 0.00 0.00 3.74
2178 2316 5.416952 GCTGCATTATATATTTGTGGGAGCT 59.583 40.000 0.00 0.00 0.00 4.09
2179 2317 5.183713 TGCTGCATTATATATTTGTGGGAGC 59.816 40.000 0.00 0.00 0.00 4.70
2180 2318 6.822667 TGCTGCATTATATATTTGTGGGAG 57.177 37.500 0.00 0.00 0.00 4.30
2181 2319 6.548993 TGTTGCTGCATTATATATTTGTGGGA 59.451 34.615 1.84 0.00 0.00 4.37
2182 2320 6.747125 TGTTGCTGCATTATATATTTGTGGG 58.253 36.000 1.84 0.00 0.00 4.61
2183 2321 8.136800 TCTTGTTGCTGCATTATATATTTGTGG 58.863 33.333 1.84 0.00 0.00 4.17
2184 2322 9.518906 TTCTTGTTGCTGCATTATATATTTGTG 57.481 29.630 1.84 0.00 0.00 3.33
2190 2328 9.920133 TTTTGTTTCTTGTTGCTGCATTATATA 57.080 25.926 1.84 0.00 0.00 0.86
2191 2329 8.830201 TTTTGTTTCTTGTTGCTGCATTATAT 57.170 26.923 1.84 0.00 0.00 0.86
2192 2330 8.654230 TTTTTGTTTCTTGTTGCTGCATTATA 57.346 26.923 1.84 0.00 0.00 0.98
2193 2331 7.551035 TTTTTGTTTCTTGTTGCTGCATTAT 57.449 28.000 1.84 0.00 0.00 1.28
2194 2332 6.974932 TTTTTGTTTCTTGTTGCTGCATTA 57.025 29.167 1.84 0.00 0.00 1.90
2195 2333 5.876612 TTTTTGTTTCTTGTTGCTGCATT 57.123 30.435 1.84 0.00 0.00 3.56
2230 2368 6.601613 TGTGACTCTGTTTGTGGTCTATTTTT 59.398 34.615 0.00 0.00 0.00 1.94
2231 2369 6.119536 TGTGACTCTGTTTGTGGTCTATTTT 58.880 36.000 0.00 0.00 0.00 1.82
2232 2370 5.680619 TGTGACTCTGTTTGTGGTCTATTT 58.319 37.500 0.00 0.00 0.00 1.40
2233 2371 5.290493 TGTGACTCTGTTTGTGGTCTATT 57.710 39.130 0.00 0.00 0.00 1.73
2234 2372 4.955811 TGTGACTCTGTTTGTGGTCTAT 57.044 40.909 0.00 0.00 0.00 1.98
2235 2373 4.588951 AGATGTGACTCTGTTTGTGGTCTA 59.411 41.667 0.00 0.00 0.00 2.59
2236 2374 3.389329 AGATGTGACTCTGTTTGTGGTCT 59.611 43.478 0.00 0.00 0.00 3.85
2237 2375 3.733337 AGATGTGACTCTGTTTGTGGTC 58.267 45.455 0.00 0.00 0.00 4.02
2238 2376 3.389329 AGAGATGTGACTCTGTTTGTGGT 59.611 43.478 0.00 0.00 44.29 4.16
2239 2377 4.000331 AGAGATGTGACTCTGTTTGTGG 58.000 45.455 0.00 0.00 44.29 4.17
2240 2378 6.018589 TCTAGAGATGTGACTCTGTTTGTG 57.981 41.667 0.00 0.00 45.33 3.33
2241 2379 6.629128 CATCTAGAGATGTGACTCTGTTTGT 58.371 40.000 10.80 0.00 45.33 2.83
2255 2393 6.296026 GTCTGTCTAGGACACATCTAGAGAT 58.704 44.000 0.00 0.00 42.45 2.75
2256 2394 5.396996 GGTCTGTCTAGGACACATCTAGAGA 60.397 48.000 0.00 0.00 42.45 3.10
2257 2395 4.819630 GGTCTGTCTAGGACACATCTAGAG 59.180 50.000 0.00 0.00 42.45 2.43
2258 2396 4.385421 GGGTCTGTCTAGGACACATCTAGA 60.385 50.000 0.00 0.00 37.67 2.43
2259 2397 3.886505 GGGTCTGTCTAGGACACATCTAG 59.113 52.174 0.00 0.00 37.67 2.43
2260 2398 3.268595 TGGGTCTGTCTAGGACACATCTA 59.731 47.826 0.00 0.00 41.46 1.98
2261 2399 2.043115 TGGGTCTGTCTAGGACACATCT 59.957 50.000 0.00 0.00 41.46 2.90
2262 2400 2.457598 TGGGTCTGTCTAGGACACATC 58.542 52.381 0.00 0.00 41.46 3.06
2263 2401 2.623418 TGGGTCTGTCTAGGACACAT 57.377 50.000 0.00 0.00 41.46 3.21
2265 2403 2.180276 ACATGGGTCTGTCTAGGACAC 58.820 52.381 0.00 0.00 37.67 3.67
2266 2404 2.623418 ACATGGGTCTGTCTAGGACA 57.377 50.000 0.00 0.43 40.50 4.02
2267 2405 2.959707 CCTACATGGGTCTGTCTAGGAC 59.040 54.545 0.00 0.00 29.72 3.85
2268 2406 2.856864 TCCTACATGGGTCTGTCTAGGA 59.143 50.000 0.00 0.00 33.46 2.94
2269 2407 3.314307 TCCTACATGGGTCTGTCTAGG 57.686 52.381 0.00 0.00 36.20 3.02
2270 2408 4.712337 AGTTTCCTACATGGGTCTGTCTAG 59.288 45.833 0.00 0.00 36.20 2.43
2271 2409 4.466370 CAGTTTCCTACATGGGTCTGTCTA 59.534 45.833 0.00 0.00 36.20 2.59
2272 2410 3.261897 CAGTTTCCTACATGGGTCTGTCT 59.738 47.826 0.00 0.00 36.20 3.41
2273 2411 3.600388 CAGTTTCCTACATGGGTCTGTC 58.400 50.000 0.00 0.00 36.20 3.51
2274 2412 2.305927 CCAGTTTCCTACATGGGTCTGT 59.694 50.000 0.00 0.00 36.20 3.41
2275 2413 2.356125 CCCAGTTTCCTACATGGGTCTG 60.356 54.545 0.00 1.63 46.19 3.51
2276 2414 1.916181 CCCAGTTTCCTACATGGGTCT 59.084 52.381 0.00 0.00 46.19 3.85
2277 2415 2.420058 CCCAGTTTCCTACATGGGTC 57.580 55.000 0.00 0.00 46.19 4.46
2280 2418 3.263425 ACAGTACCCAGTTTCCTACATGG 59.737 47.826 0.00 0.00 37.10 3.66
2281 2419 4.553330 ACAGTACCCAGTTTCCTACATG 57.447 45.455 0.00 0.00 0.00 3.21
2282 2420 5.578157 AAACAGTACCCAGTTTCCTACAT 57.422 39.130 3.62 0.00 32.90 2.29
2283 2421 5.603813 AGTAAACAGTACCCAGTTTCCTACA 59.396 40.000 10.74 0.00 38.71 2.74
2284 2422 6.106648 AGTAAACAGTACCCAGTTTCCTAC 57.893 41.667 10.74 5.98 38.71 3.18
2285 2423 7.177392 GTCTAGTAAACAGTACCCAGTTTCCTA 59.823 40.741 10.74 9.03 38.71 2.94
2286 2424 6.014755 GTCTAGTAAACAGTACCCAGTTTCCT 60.015 42.308 10.74 8.49 38.71 3.36
2287 2425 6.162079 GTCTAGTAAACAGTACCCAGTTTCC 58.838 44.000 10.74 2.49 38.71 3.13
2288 2426 6.752168 TGTCTAGTAAACAGTACCCAGTTTC 58.248 40.000 10.74 5.36 38.71 2.78
2289 2427 6.736110 TGTCTAGTAAACAGTACCCAGTTT 57.264 37.500 11.75 11.75 40.68 2.66
2290 2428 6.736110 TTGTCTAGTAAACAGTACCCAGTT 57.264 37.500 0.00 0.00 0.00 3.16
2326 2464 5.415701 CACAAACTGCTAACCATACCAAGAT 59.584 40.000 0.00 0.00 0.00 2.40
2349 2487 5.183713 CCATACCAAGAACTGAAGCATTTCA 59.816 40.000 0.00 0.00 40.92 2.69
2398 2572 4.166919 AGACTTGCTGGGGAATTAGCTATT 59.833 41.667 0.00 0.00 40.52 1.73
2400 2574 3.115390 AGACTTGCTGGGGAATTAGCTA 58.885 45.455 0.00 0.00 40.52 3.32
2530 2706 3.026694 CCTTAGAAATTGAGGGCCAAGG 58.973 50.000 6.18 2.30 38.31 3.61
2700 2876 3.560636 ATGACCAAGTTAGAATCCCCG 57.439 47.619 0.00 0.00 0.00 5.73
2709 2885 9.005777 GTAAACCAATCTACAATGACCAAGTTA 57.994 33.333 0.00 0.00 0.00 2.24
2969 3146 2.472861 CCGCTCAGCAATAGTACAATCG 59.527 50.000 0.00 0.00 0.00 3.34
3014 3191 7.896496 TGAACTTACCCCAATAATACAACCATT 59.104 33.333 0.00 0.00 0.00 3.16
3068 3245 5.019470 TCATTGTCACATCTGTAGAGGTCT 58.981 41.667 0.00 0.00 36.90 3.85
3082 3259 8.654230 TCATAAGCTATTCTTCTCATTGTCAC 57.346 34.615 0.00 0.00 36.25 3.67
3133 3310 4.336713 GCCTCCAACTAATTCTTGCCTAAG 59.663 45.833 0.00 0.00 35.16 2.18
3146 3328 1.055849 TTCAGTGCAGCCTCCAACTA 58.944 50.000 0.00 0.00 0.00 2.24
3265 3447 4.579869 AGCAAAAGGACATCTGTCGTATT 58.420 39.130 6.01 0.00 45.65 1.89
3270 3452 3.364366 CGACAAGCAAAAGGACATCTGTC 60.364 47.826 1.59 1.59 44.04 3.51
3729 3915 2.048597 CAGCTAACCGTGCGACCA 60.049 61.111 0.00 0.00 35.28 4.02
3767 3954 3.521560 CGCAATTAGCTGTGGTTCTAGA 58.478 45.455 0.00 0.00 42.61 2.43
3903 4090 2.117156 AACCGCTGCCAGATGATGC 61.117 57.895 0.00 0.00 0.00 3.91
3980 4167 0.613292 ATCCGGTGACTCTCAGCAGT 60.613 55.000 0.00 0.00 44.51 4.40
4086 4273 0.704076 ACAGCCTGGCCCTGAAATTA 59.296 50.000 16.57 0.00 34.47 1.40
4150 4337 4.242475 GGCCCTAAATTGCACAAACTAAC 58.758 43.478 0.00 0.00 0.00 2.34
4263 4451 3.064207 TCGATGACCACTTTGCAGTTAC 58.936 45.455 0.00 0.00 0.00 2.50
4305 4494 5.008415 GTCCATCCAAGCTCACATTTCTATG 59.992 44.000 0.00 0.00 37.79 2.23
4306 4495 5.104193 AGTCCATCCAAGCTCACATTTCTAT 60.104 40.000 0.00 0.00 0.00 1.98
4309 4498 3.350833 AGTCCATCCAAGCTCACATTTC 58.649 45.455 0.00 0.00 0.00 2.17
4314 4503 2.763448 AGAGTAGTCCATCCAAGCTCAC 59.237 50.000 0.00 0.00 0.00 3.51
4345 4534 0.179140 CGCCTGTGTGCACAACTTTT 60.179 50.000 23.59 0.00 41.33 2.27
4363 4552 0.318699 TTCGAGTTCACCTCACAGCG 60.319 55.000 0.00 0.00 40.48 5.18
4382 4571 2.689034 GGGTGCAGCTCCCTACCT 60.689 66.667 23.37 0.00 41.58 3.08
4401 4601 3.837570 GAGTTTTGCCGACGGGGGT 62.838 63.158 17.22 0.00 35.78 4.95
4402 4602 3.053896 GAGTTTTGCCGACGGGGG 61.054 66.667 17.22 0.00 35.78 5.40
4403 4603 3.053896 GGAGTTTTGCCGACGGGG 61.054 66.667 17.22 0.00 39.58 5.73
4434 4634 2.622977 CCAGCTCCCTCACTCTCTTACT 60.623 54.545 0.00 0.00 0.00 2.24
4435 4635 1.754226 CCAGCTCCCTCACTCTCTTAC 59.246 57.143 0.00 0.00 0.00 2.34
4436 4636 1.962402 GCCAGCTCCCTCACTCTCTTA 60.962 57.143 0.00 0.00 0.00 2.10
4438 4638 1.685421 GCCAGCTCCCTCACTCTCT 60.685 63.158 0.00 0.00 0.00 3.10
4439 4639 1.685421 AGCCAGCTCCCTCACTCTC 60.685 63.158 0.00 0.00 0.00 3.20
4440 4640 1.988956 CAGCCAGCTCCCTCACTCT 60.989 63.158 0.00 0.00 0.00 3.24
4443 4643 3.005539 TCCAGCCAGCTCCCTCAC 61.006 66.667 0.00 0.00 0.00 3.51
4444 4644 3.005539 GTCCAGCCAGCTCCCTCA 61.006 66.667 0.00 0.00 0.00 3.86
4486 4691 2.294078 CCGCTGGTCTCCTCCCTTT 61.294 63.158 0.00 0.00 0.00 3.11
4596 4801 3.007920 AGTGAGAGGCTGCAGGGG 61.008 66.667 17.12 0.00 0.00 4.79
4608 4813 0.387367 CGTGGACGGACTTGAGTGAG 60.387 60.000 0.00 0.00 35.37 3.51
4609 4814 1.658114 CGTGGACGGACTTGAGTGA 59.342 57.895 0.00 0.00 35.37 3.41
4699 4905 2.950309 CAATGATGGGAGGAGAAAGCTG 59.050 50.000 0.00 0.00 0.00 4.24
4753 4960 4.793071 TGTTTGAGACAACAATAATGGCG 58.207 39.130 0.00 0.00 34.69 5.69
4780 4992 6.463995 TGAGGTTTCATTGCTTAGTGTTTT 57.536 33.333 0.00 0.00 0.00 2.43
4781 4993 6.463995 TTGAGGTTTCATTGCTTAGTGTTT 57.536 33.333 0.00 0.00 32.27 2.83
4782 4994 6.655078 ATTGAGGTTTCATTGCTTAGTGTT 57.345 33.333 0.00 0.00 32.27 3.32
4783 4995 6.655078 AATTGAGGTTTCATTGCTTAGTGT 57.345 33.333 0.00 0.00 32.27 3.55
4784 4996 8.461222 TCATAATTGAGGTTTCATTGCTTAGTG 58.539 33.333 0.00 0.00 32.27 2.74
4797 5009 3.569491 CCCAGCCATCATAATTGAGGTT 58.431 45.455 0.00 0.00 34.73 3.50
4827 5039 7.432545 TCTTTTTGAAATCGCAAATTTCGTACA 59.567 29.630 13.78 0.00 40.02 2.90
4831 5043 6.298336 GCTTCTTTTTGAAATCGCAAATTTCG 59.702 34.615 13.78 0.00 40.02 3.46
4832 5044 7.110628 GTGCTTCTTTTTGAAATCGCAAATTTC 59.889 33.333 12.44 12.44 35.90 2.17
4833 5045 6.906678 GTGCTTCTTTTTGAAATCGCAAATTT 59.093 30.769 0.00 0.00 35.90 1.82
4834 5046 6.421405 GTGCTTCTTTTTGAAATCGCAAATT 58.579 32.000 0.00 0.00 35.90 1.82
4835 5047 5.332506 CGTGCTTCTTTTTGAAATCGCAAAT 60.333 36.000 0.00 0.00 35.90 2.32
4837 5049 3.485378 CGTGCTTCTTTTTGAAATCGCAA 59.515 39.130 0.00 0.00 35.90 4.85
4840 5052 2.405025 GCCGTGCTTCTTTTTGAAATCG 59.595 45.455 0.00 0.00 33.79 3.34
4841 5053 2.731451 GGCCGTGCTTCTTTTTGAAATC 59.269 45.455 0.00 0.00 33.79 2.17
4842 5054 2.102252 TGGCCGTGCTTCTTTTTGAAAT 59.898 40.909 0.00 0.00 33.79 2.17
4844 5056 1.066908 CTGGCCGTGCTTCTTTTTGAA 59.933 47.619 0.00 0.00 0.00 2.69
4845 5057 0.667993 CTGGCCGTGCTTCTTTTTGA 59.332 50.000 0.00 0.00 0.00 2.69
4846 5058 0.940991 GCTGGCCGTGCTTCTTTTTG 60.941 55.000 12.59 0.00 0.00 2.44
4847 5059 1.363807 GCTGGCCGTGCTTCTTTTT 59.636 52.632 12.59 0.00 0.00 1.94
4919 5133 3.282745 CTCCACCCACACGGACTCG 62.283 68.421 0.00 0.00 43.02 4.18
4924 5138 4.329545 CACCCTCCACCCACACGG 62.330 72.222 0.00 0.00 37.81 4.94
4925 5139 4.329545 CCACCCTCCACCCACACG 62.330 72.222 0.00 0.00 0.00 4.49
4930 5144 0.037734 CACTTTACCACCCTCCACCC 59.962 60.000 0.00 0.00 0.00 4.61
4936 5150 0.039618 CCCATGCACTTTACCACCCT 59.960 55.000 0.00 0.00 0.00 4.34
4938 5152 1.604147 GCCCCATGCACTTTACCACC 61.604 60.000 0.00 0.00 40.77 4.61
4940 5154 4.432601 GCCCCATGCACTTTACCA 57.567 55.556 0.00 0.00 40.77 3.25


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

AutoCloner maintained by Alex Coulton.