Multiple sequence alignment - TraesCS5B01G359700

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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 TraesCS5B01G359700 chr5B 100.000 4119 0 0 1 4119 539457469 539461587 0.000000e+00 7607.0
1 TraesCS5B01G359700 chr5B 98.765 81 1 0 3372 3452 201387430 201387350 1.190000e-30 145.0
2 TraesCS5B01G359700 chr5D 92.482 3485 159 54 575 4008 443248672 443252104 0.000000e+00 4889.0
3 TraesCS5B01G359700 chr5D 92.092 392 21 5 1 392 443246668 443247049 1.010000e-150 544.0
4 TraesCS5B01G359700 chr5A 89.905 3477 197 60 588 4015 559505284 559508655 0.000000e+00 4335.0
5 TraesCS5B01G359700 chr1B 89.130 184 20 0 975 1158 632389818 632389635 3.200000e-56 230.0
6 TraesCS5B01G359700 chr2B 98.810 84 1 0 3369 3452 720521379 720521462 2.560000e-32 150.0
7 TraesCS5B01G359700 chr3B 96.429 84 3 0 3369 3452 716166903 716166986 5.550000e-29 139.0
8 TraesCS5B01G359700 chr4B 96.296 81 3 0 3372 3452 84220290 84220210 2.580000e-27 134.0
9 TraesCS5B01G359700 chr7B 94.048 84 5 0 3369 3452 706542292 706542375 1.200000e-25 128.0
10 TraesCS5B01G359700 chr7B 100.000 29 0 0 199 227 436688954 436688982 2.000000e-03 54.7
11 TraesCS5B01G359700 chr7A 100.000 29 0 0 199 227 512449475 512449447 2.000000e-03 54.7


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 TraesCS5B01G359700 chr5B 539457469 539461587 4118 False 7607.0 7607 100.000 1 4119 1 chr5B.!!$F1 4118
1 TraesCS5B01G359700 chr5D 443246668 443252104 5436 False 2716.5 4889 92.287 1 4008 2 chr5D.!!$F1 4007
2 TraesCS5B01G359700 chr5A 559505284 559508655 3371 False 4335.0 4335 89.905 588 4015 1 chr5A.!!$F1 3427

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
751 2237 0.035739 GTCGCACCAAAACCCTAGGA 59.964 55.0 11.48 0.0 0.00 2.94 F
752 2238 0.035739 TCGCACCAAAACCCTAGGAC 59.964 55.0 11.48 0.0 0.00 3.85 F
2604 4138 0.176680 ATGCAGGGTCTGATGACGAC 59.823 55.0 0.00 0.0 43.79 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2661 4195 0.252881 AGAAGTCCTCCCCAGCATCA 60.253 55.0 0.0 0.0 0.00 3.07 R
2694 4228 1.025041 CATCCTCGTCATCGTCCTCA 58.975 55.0 0.0 0.0 38.33 3.86 R
4045 5633 0.248539 GCCTACCGCTAACGAGTCTG 60.249 60.0 0.0 0.0 43.93 3.51 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
37 38 8.271458 ACCAATGATAATACAGTATTCACACCA 58.729 33.333 9.20 3.08 0.00 4.17
62 63 8.245491 CAGATGATGGTTGAATGTGTGATTTTA 58.755 33.333 0.00 0.00 0.00 1.52
143 144 8.239681 AGTTTACAAGAAACAAAACAAAGAGC 57.760 30.769 3.26 0.00 34.92 4.09
149 150 5.170748 AGAAACAAAACAAAGAGCCAAGTG 58.829 37.500 0.00 0.00 0.00 3.16
177 178 2.029380 TCACTGAAAGGATCGAAGCGAA 60.029 45.455 0.00 0.00 37.67 4.70
178 179 2.932614 CACTGAAAGGATCGAAGCGAAT 59.067 45.455 0.00 0.00 37.67 3.34
179 180 2.932614 ACTGAAAGGATCGAAGCGAATG 59.067 45.455 0.00 0.00 37.67 2.67
180 181 3.190079 CTGAAAGGATCGAAGCGAATGA 58.810 45.455 0.00 0.00 39.99 2.57
181 182 2.930040 TGAAAGGATCGAAGCGAATGAC 59.070 45.455 0.00 0.00 39.99 3.06
182 183 2.969628 AAGGATCGAAGCGAATGACT 57.030 45.000 0.00 0.00 39.99 3.41
183 184 2.969628 AGGATCGAAGCGAATGACTT 57.030 45.000 0.00 0.00 39.99 3.01
184 185 2.544685 AGGATCGAAGCGAATGACTTG 58.455 47.619 0.00 0.00 39.99 3.16
185 186 1.594862 GGATCGAAGCGAATGACTTGG 59.405 52.381 0.00 0.00 39.99 3.61
186 187 1.594862 GATCGAAGCGAATGACTTGGG 59.405 52.381 0.00 0.00 39.99 4.12
187 188 0.391130 TCGAAGCGAATGACTTGGGG 60.391 55.000 0.00 0.00 31.06 4.96
188 189 1.369091 CGAAGCGAATGACTTGGGGG 61.369 60.000 0.00 0.00 0.00 5.40
253 254 5.521372 GGAAAAAGATGCATGTAAAGCCATC 59.479 40.000 2.46 0.00 0.00 3.51
296 297 0.798009 CATAACTTTTGGCAGCCGCG 60.798 55.000 7.03 0.00 39.92 6.46
322 323 0.400213 TCCTTCGCAATGAACACCCT 59.600 50.000 0.00 0.00 31.87 4.34
323 324 0.523072 CCTTCGCAATGAACACCCTG 59.477 55.000 0.00 0.00 31.87 4.45
326 327 1.973281 CGCAATGAACACCCTGCCT 60.973 57.895 0.00 0.00 0.00 4.75
362 363 2.208431 CAAGAGGCGAGATTCATGACC 58.792 52.381 0.00 0.00 0.00 4.02
379 380 0.037605 ACCGGCCACTTAAAGTCTCG 60.038 55.000 0.00 0.00 0.00 4.04
415 1900 2.167487 ACTCCTTTCTTCATCCTCGAGC 59.833 50.000 6.99 0.00 0.00 5.03
420 1905 3.516981 TTCTTCATCCTCGAGCAGAAG 57.483 47.619 22.95 22.95 37.60 2.85
427 1912 0.534412 CCTCGAGCAGAAGTGTGGAT 59.466 55.000 6.99 0.00 0.00 3.41
429 1914 0.969149 TCGAGCAGAAGTGTGGATGT 59.031 50.000 0.00 0.00 0.00 3.06
444 1929 9.612066 AAGTGTGGATGTGTGATTTTTATTTTT 57.388 25.926 0.00 0.00 0.00 1.94
473 1958 0.609662 ACAATGAAATGCTGGTGGGC 59.390 50.000 0.00 0.00 0.00 5.36
479 1964 1.315257 AAATGCTGGTGGGCGATGAC 61.315 55.000 0.00 0.00 34.52 3.06
481 1966 4.760047 GCTGGTGGGCGATGACGT 62.760 66.667 0.00 0.00 41.98 4.34
496 1981 1.067565 TGACGTGCTCTTGATCCTCAC 60.068 52.381 0.00 0.00 0.00 3.51
509 1994 1.216444 CCTCACGCTGCTTCTGCTA 59.784 57.895 0.00 0.00 40.48 3.49
513 1998 0.376152 CACGCTGCTTCTGCTATTGG 59.624 55.000 0.00 0.00 40.48 3.16
524 2009 4.226427 TCTGCTATTGGAACATGAGCTT 57.774 40.909 0.00 0.00 43.91 3.74
525 2010 3.943381 TCTGCTATTGGAACATGAGCTTG 59.057 43.478 0.00 0.00 43.91 4.01
536 2021 2.624838 ACATGAGCTTGGTCAAACAAGG 59.375 45.455 9.69 0.00 46.10 3.61
539 2024 0.106015 AGCTTGGTCAAACAAGGGCT 60.106 50.000 9.69 0.00 46.10 5.19
540 2025 0.752658 GCTTGGTCAAACAAGGGCTT 59.247 50.000 9.69 0.00 46.10 4.35
542 2027 2.310538 CTTGGTCAAACAAGGGCTTCT 58.689 47.619 0.00 0.00 43.14 2.85
543 2028 2.452600 TGGTCAAACAAGGGCTTCTT 57.547 45.000 0.00 0.00 35.79 2.52
553 2038 3.486383 CAAGGGCTTCTTGTTAAGGACA 58.514 45.455 10.69 0.00 45.81 4.02
554 2039 3.876309 AGGGCTTCTTGTTAAGGACAA 57.124 42.857 0.00 0.00 45.70 3.18
555 2040 4.388577 AGGGCTTCTTGTTAAGGACAAT 57.611 40.909 0.00 0.00 46.58 2.71
556 2041 5.514500 AGGGCTTCTTGTTAAGGACAATA 57.486 39.130 0.00 0.00 46.58 1.90
557 2042 6.079712 AGGGCTTCTTGTTAAGGACAATAT 57.920 37.500 0.00 0.00 46.58 1.28
558 2043 7.208064 AGGGCTTCTTGTTAAGGACAATATA 57.792 36.000 0.00 0.00 46.58 0.86
559 2044 7.816411 AGGGCTTCTTGTTAAGGACAATATAT 58.184 34.615 0.00 0.00 46.58 0.86
560 2045 8.945193 AGGGCTTCTTGTTAAGGACAATATATA 58.055 33.333 0.00 0.00 46.58 0.86
561 2046 9.569122 GGGCTTCTTGTTAAGGACAATATATAA 57.431 33.333 0.00 0.00 46.58 0.98
569 2054 9.388672 TGTTAAGGACAATATATAAGGTAGGCT 57.611 33.333 0.00 0.00 34.69 4.58
570 2055 9.654663 GTTAAGGACAATATATAAGGTAGGCTG 57.345 37.037 0.00 0.00 0.00 4.85
571 2056 6.875972 AGGACAATATATAAGGTAGGCTGG 57.124 41.667 0.00 0.00 0.00 4.85
572 2057 6.571624 AGGACAATATATAAGGTAGGCTGGA 58.428 40.000 0.00 0.00 0.00 3.86
573 2058 6.440965 AGGACAATATATAAGGTAGGCTGGAC 59.559 42.308 0.00 0.00 0.00 4.02
574 2059 6.212791 GGACAATATATAAGGTAGGCTGGACA 59.787 42.308 0.00 0.00 0.00 4.02
575 2060 7.246171 ACAATATATAAGGTAGGCTGGACAG 57.754 40.000 0.00 0.00 0.00 3.51
658 2143 3.124051 AAGCCAGTGGACTGCAGCA 62.124 57.895 15.20 0.93 42.47 4.41
659 2144 3.054503 GCCAGTGGACTGCAGCAG 61.055 66.667 21.54 21.54 42.47 4.24
660 2145 3.054503 CCAGTGGACTGCAGCAGC 61.055 66.667 23.05 14.59 42.47 5.25
695 2180 1.066587 CTCGCCGTCTTCCATCTCC 59.933 63.158 0.00 0.00 0.00 3.71
704 2190 2.893682 CTTCCATCTCCAACGGCCCC 62.894 65.000 0.00 0.00 0.00 5.80
706 2192 4.856801 CATCTCCAACGGCCCCGG 62.857 72.222 11.83 0.00 44.69 5.73
749 2235 0.320073 TCGTCGCACCAAAACCCTAG 60.320 55.000 0.00 0.00 0.00 3.02
750 2236 1.296056 CGTCGCACCAAAACCCTAGG 61.296 60.000 0.06 0.06 0.00 3.02
751 2237 0.035739 GTCGCACCAAAACCCTAGGA 59.964 55.000 11.48 0.00 0.00 2.94
752 2238 0.035739 TCGCACCAAAACCCTAGGAC 59.964 55.000 11.48 0.00 0.00 3.85
753 2239 1.296056 CGCACCAAAACCCTAGGACG 61.296 60.000 11.48 0.00 0.00 4.79
797 2286 1.923395 CCACTCCACCCCAGCCTAA 60.923 63.158 0.00 0.00 0.00 2.69
917 2413 0.466124 CCGTCATCTCTTTCCTCCCC 59.534 60.000 0.00 0.00 0.00 4.81
997 2498 4.222847 CGCTCTAGGGTTCCGGGC 62.223 72.222 0.00 0.00 0.00 6.13
1204 2705 1.348036 GCGCCCCTCTCCACTATTTAT 59.652 52.381 0.00 0.00 0.00 1.40
1208 2709 4.283722 CGCCCCTCTCCACTATTTATTACT 59.716 45.833 0.00 0.00 0.00 2.24
1209 2710 5.479375 CGCCCCTCTCCACTATTTATTACTA 59.521 44.000 0.00 0.00 0.00 1.82
1334 2835 3.057245 GCTGGTGGAGTTGAATTTTCCTC 60.057 47.826 0.00 0.00 32.12 3.71
1335 2836 3.496331 TGGTGGAGTTGAATTTTCCTCC 58.504 45.455 9.94 9.94 42.35 4.30
1422 2923 2.220586 GCCCCTAGATCTGGAGGCC 61.221 68.421 19.44 3.16 35.96 5.19
1428 2929 2.559478 CCTAGATCTGGAGGCCTATGCT 60.559 54.545 4.42 0.00 37.74 3.79
1520 3021 2.693591 TGGTTTCTGCGGGTAGATCTAG 59.306 50.000 1.64 0.00 0.00 2.43
1521 3022 2.036089 GGTTTCTGCGGGTAGATCTAGG 59.964 54.545 1.64 0.00 0.00 3.02
1522 3023 1.996798 TTCTGCGGGTAGATCTAGGG 58.003 55.000 1.64 0.00 0.00 3.53
1523 3024 0.539901 TCTGCGGGTAGATCTAGGGC 60.540 60.000 1.64 7.59 0.00 5.19
1560 3061 2.679716 GCTGCATCAGGGGAGGTT 59.320 61.111 0.00 0.00 31.21 3.50
1563 3064 1.903877 CTGCATCAGGGGAGGTTCGT 61.904 60.000 0.00 0.00 0.00 3.85
1583 3084 4.821935 GCAGGTGCAAACCTAGGT 57.178 55.556 9.21 9.21 38.22 3.08
1600 3101 0.802494 GGTCGGTACATTGTGCCAAG 59.198 55.000 21.66 8.31 38.20 3.61
1615 3117 5.012239 TGTGCCAAGCAGAGAAAATATCTT 58.988 37.500 0.00 0.00 40.08 2.40
1617 3119 5.012239 TGCCAAGCAGAGAAAATATCTTGT 58.988 37.500 0.00 0.00 33.65 3.16
1733 3240 6.674760 GCACGATGATTACCCAAAACTACTTC 60.675 42.308 0.00 0.00 0.00 3.01
1770 3277 0.253894 CTGTGTCCCATCATGGAGCA 59.746 55.000 4.75 0.06 40.96 4.26
1775 3282 2.509131 TGTCCCATCATGGAGCACATTA 59.491 45.455 4.75 0.00 40.96 1.90
1780 3287 5.662208 TCCCATCATGGAGCACATTATTTTT 59.338 36.000 4.75 0.00 40.96 1.94
1781 3288 5.987347 CCCATCATGGAGCACATTATTTTTC 59.013 40.000 4.75 0.00 40.96 2.29
1866 3373 7.019774 GCAGTAAATGATGCTGTGAATAAGA 57.980 36.000 0.00 0.00 43.07 2.10
1875 3382 7.112122 TGATGCTGTGAATAAGATTTAGGTGT 58.888 34.615 0.00 0.00 0.00 4.16
2101 3616 1.226746 AAAAGTACTGTGGCTGTCGC 58.773 50.000 0.00 0.00 0.00 5.19
2118 3633 2.921121 GTCGCATGAGTGTCGTATTTGA 59.079 45.455 0.00 0.00 0.00 2.69
2185 3700 7.223584 CCCAAACTGGTTTTATTGAAAATCCT 58.776 34.615 0.00 0.00 35.16 3.24
2266 3781 6.294361 AGTGCTGTGGTTATTCTGTATACA 57.706 37.500 5.25 5.25 0.00 2.29
2284 3799 6.821665 TGTATACAAAGGGATTGCTTACTGAC 59.178 38.462 2.20 0.00 43.13 3.51
2287 3820 2.789409 AGGGATTGCTTACTGACCAC 57.211 50.000 0.00 0.00 0.00 4.16
2378 3912 3.702045 ACTACCTATCTTCCTGTGCTGAC 59.298 47.826 0.00 0.00 0.00 3.51
2379 3913 2.540383 ACCTATCTTCCTGTGCTGACA 58.460 47.619 0.00 0.00 0.00 3.58
2437 3971 4.933505 TGGAGCAGATATCTTCACTGAG 57.066 45.455 1.33 0.00 34.07 3.35
2463 3997 7.970614 GGACCAGCAAGAAATTATCAAGTAAAG 59.029 37.037 0.00 0.00 0.00 1.85
2488 4022 7.016563 AGTCATTACCCTATTCTGCATATGACA 59.983 37.037 6.97 3.31 40.90 3.58
2562 4096 4.224370 AGGCAATTTGGCAGAATCAAATCT 59.776 37.500 23.07 0.00 46.46 2.40
2604 4138 0.176680 ATGCAGGGTCTGATGACGAC 59.823 55.000 0.00 0.00 43.79 4.34
2610 4144 1.338337 GGGTCTGATGACGACGATGAT 59.662 52.381 0.00 0.00 43.79 2.45
2661 4195 3.753797 GTGATGCTGATGATGATGATGCT 59.246 43.478 0.00 0.00 0.00 3.79
2694 4228 1.619332 GACTTCTCGGGTGAAGAAGGT 59.381 52.381 15.18 3.68 44.40 3.50
2778 4312 5.161943 ACGATGATGATGATGGTGATGAT 57.838 39.130 0.00 0.00 0.00 2.45
2832 4366 2.656085 GATGATGATGACGAGGACGAC 58.344 52.381 0.00 0.00 42.66 4.34
2844 4378 0.183971 AGGACGACGATGAGGAGGAT 59.816 55.000 0.00 0.00 0.00 3.24
2904 4438 0.540923 GATCTGCCTTCCTGCTGTCT 59.459 55.000 0.00 0.00 0.00 3.41
2917 4451 1.230324 GCTGTCTGTGTTTCAGTCCC 58.770 55.000 0.00 0.00 43.97 4.46
2999 4533 0.537653 TCTGTGTCGTGGTGGTTTGA 59.462 50.000 0.00 0.00 0.00 2.69
3101 4635 2.095059 GCTGTGTTTATTGGAGCTGTGG 60.095 50.000 0.00 0.00 0.00 4.17
3168 4718 3.467374 TGAATGGCTTTTGGGTTCAAC 57.533 42.857 0.00 0.00 31.78 3.18
3183 4733 5.241506 TGGGTTCAACTTCTTTATGCTTCTG 59.758 40.000 0.00 0.00 0.00 3.02
3195 4745 7.568349 TCTTTATGCTTCTGGTGAGTGAATAT 58.432 34.615 0.00 0.00 0.00 1.28
3197 4747 7.558161 TTATGCTTCTGGTGAGTGAATATTG 57.442 36.000 0.00 0.00 0.00 1.90
3210 4760 8.119226 GTGAGTGAATATTGCAGAGTTTGTATC 58.881 37.037 0.00 0.00 0.00 2.24
3238 4788 7.315142 TGCTATCTGAATGTTTGGATTTGAAC 58.685 34.615 0.00 0.00 0.00 3.18
3242 4792 7.111247 TCTGAATGTTTGGATTTGAACAACT 57.889 32.000 0.00 0.00 39.03 3.16
3245 4795 7.102346 TGAATGTTTGGATTTGAACAACTTGT 58.898 30.769 0.00 0.00 39.03 3.16
3258 4808 5.362430 TGAACAACTTGTAAGGAAAAGGCAT 59.638 36.000 0.00 0.00 0.00 4.40
3296 4847 3.409026 ACCGAAGAAGCATTTGAGACT 57.591 42.857 0.00 0.00 0.00 3.24
3298 4849 3.748568 ACCGAAGAAGCATTTGAGACTTC 59.251 43.478 0.00 0.00 40.08 3.01
3304 4855 6.949352 AGAAGCATTTGAGACTTCTTTCAA 57.051 33.333 0.00 0.00 46.04 2.69
3305 4856 6.733145 AGAAGCATTTGAGACTTCTTTCAAC 58.267 36.000 0.00 0.00 46.04 3.18
3307 4858 5.136105 AGCATTTGAGACTTCTTTCAACCT 58.864 37.500 0.00 0.00 33.36 3.50
3308 4859 5.595952 AGCATTTGAGACTTCTTTCAACCTT 59.404 36.000 0.00 0.00 33.36 3.50
3309 4860 6.097412 AGCATTTGAGACTTCTTTCAACCTTT 59.903 34.615 0.00 0.00 33.36 3.11
3310 4861 6.758416 GCATTTGAGACTTCTTTCAACCTTTT 59.242 34.615 0.00 0.00 33.36 2.27
3487 5071 0.250038 CAGTATCTGGACGCCCATGG 60.250 60.000 4.14 4.14 42.59 3.66
3489 5073 1.074850 TATCTGGACGCCCATGGGA 60.075 57.895 36.00 12.22 42.59 4.37
3546 5133 3.324930 CAGTGCCCAGGAGCTCCA 61.325 66.667 33.90 10.85 38.89 3.86
3547 5134 2.285969 AGTGCCCAGGAGCTCCAT 60.286 61.111 33.90 16.57 38.89 3.41
3606 5193 5.126222 GGATTTTCCTTCTGAATGGTCCTTC 59.874 44.000 0.00 0.00 32.53 3.46
3630 5217 8.734218 TCGACTACTGATTACTCTCTGTTAAT 57.266 34.615 0.00 0.00 0.00 1.40
3636 5223 8.354711 ACTGATTACTCTCTGTTAATGACTCA 57.645 34.615 0.00 0.00 0.00 3.41
3639 5226 8.462811 TGATTACTCTCTGTTAATGACTCAGAC 58.537 37.037 0.00 0.00 34.97 3.51
3746 5333 1.366679 AAGAGCGACATCTGCACATG 58.633 50.000 0.00 0.00 33.85 3.21
3758 5345 2.805671 TCTGCACATGTACAAAAGACGG 59.194 45.455 0.00 0.00 0.00 4.79
3933 5520 3.056607 GTGTTTGTGATTCCCTGGAATGG 60.057 47.826 15.93 0.00 43.98 3.16
3941 5528 0.783206 TCCCTGGAATGGAAAGGCAA 59.217 50.000 0.00 0.00 0.00 4.52
3954 5541 3.552890 GGAAAGGCAATGAGTCAACAACC 60.553 47.826 0.00 0.00 0.00 3.77
3958 5545 1.000274 GCAATGAGTCAACAACCACCC 60.000 52.381 0.00 0.00 0.00 4.61
3970 5557 6.015434 GTCAACAACCACCCATAGAAGAAATT 60.015 38.462 0.00 0.00 0.00 1.82
3980 5568 6.153510 ACCCATAGAAGAAATTGCCTTTTCTC 59.846 38.462 10.40 5.94 43.42 2.87
4010 5598 1.360393 TGCTTCCCCTTTCCACCAGT 61.360 55.000 0.00 0.00 0.00 4.00
4015 5603 1.153756 CCCTTTCCACCAGTGCCTT 59.846 57.895 0.00 0.00 0.00 4.35
4016 5604 0.895559 CCCTTTCCACCAGTGCCTTC 60.896 60.000 0.00 0.00 0.00 3.46
4017 5605 0.178992 CCTTTCCACCAGTGCCTTCA 60.179 55.000 0.00 0.00 0.00 3.02
4018 5606 1.242076 CTTTCCACCAGTGCCTTCAG 58.758 55.000 0.00 0.00 0.00 3.02
4019 5607 0.550914 TTTCCACCAGTGCCTTCAGT 59.449 50.000 0.00 0.00 0.00 3.41
4020 5608 1.429930 TTCCACCAGTGCCTTCAGTA 58.570 50.000 0.00 0.00 0.00 2.74
4021 5609 1.429930 TCCACCAGTGCCTTCAGTAA 58.570 50.000 0.00 0.00 0.00 2.24
4022 5610 1.071699 TCCACCAGTGCCTTCAGTAAC 59.928 52.381 0.00 0.00 0.00 2.50
4023 5611 1.202758 CCACCAGTGCCTTCAGTAACA 60.203 52.381 0.00 0.00 0.00 2.41
4024 5612 2.571212 CACCAGTGCCTTCAGTAACAA 58.429 47.619 0.00 0.00 0.00 2.83
4025 5613 2.290641 CACCAGTGCCTTCAGTAACAAC 59.709 50.000 0.00 0.00 0.00 3.32
4026 5614 1.880027 CCAGTGCCTTCAGTAACAACC 59.120 52.381 0.00 0.00 0.00 3.77
4027 5615 2.571212 CAGTGCCTTCAGTAACAACCA 58.429 47.619 0.00 0.00 0.00 3.67
4028 5616 3.149196 CAGTGCCTTCAGTAACAACCAT 58.851 45.455 0.00 0.00 0.00 3.55
4029 5617 3.569701 CAGTGCCTTCAGTAACAACCATT 59.430 43.478 0.00 0.00 0.00 3.16
4030 5618 3.569701 AGTGCCTTCAGTAACAACCATTG 59.430 43.478 0.00 0.00 0.00 2.82
4047 5635 9.859427 ACAACCATTGTTTGATGAATTATACAG 57.141 29.630 0.51 0.00 42.22 2.74
4050 5638 9.466497 ACCATTGTTTGATGAATTATACAGACT 57.534 29.630 0.00 0.00 0.00 3.24
4051 5639 9.941664 CCATTGTTTGATGAATTATACAGACTC 57.058 33.333 0.00 0.00 0.00 3.36
4052 5640 9.642312 CATTGTTTGATGAATTATACAGACTCG 57.358 33.333 0.00 0.00 0.00 4.18
4053 5641 8.771920 TTGTTTGATGAATTATACAGACTCGT 57.228 30.769 0.00 0.00 0.00 4.18
4054 5642 8.771920 TGTTTGATGAATTATACAGACTCGTT 57.228 30.769 0.00 0.00 0.00 3.85
4055 5643 9.863845 TGTTTGATGAATTATACAGACTCGTTA 57.136 29.630 0.00 0.00 0.00 3.18
4057 5645 8.575565 TTGATGAATTATACAGACTCGTTAGC 57.424 34.615 0.00 0.00 0.00 3.09
4058 5646 6.856426 TGATGAATTATACAGACTCGTTAGCG 59.144 38.462 0.00 0.00 39.92 4.26
4059 5647 5.516996 TGAATTATACAGACTCGTTAGCGG 58.483 41.667 0.00 0.00 38.89 5.52
4060 5648 5.066893 TGAATTATACAGACTCGTTAGCGGT 59.933 40.000 0.00 0.00 38.89 5.68
4061 5649 6.260714 TGAATTATACAGACTCGTTAGCGGTA 59.739 38.462 0.00 0.00 38.89 4.02
4062 5650 5.663795 TTATACAGACTCGTTAGCGGTAG 57.336 43.478 0.00 0.00 38.89 3.18
4063 5651 1.093159 ACAGACTCGTTAGCGGTAGG 58.907 55.000 0.00 0.00 38.89 3.18
4064 5652 0.248539 CAGACTCGTTAGCGGTAGGC 60.249 60.000 0.00 0.00 44.05 3.93
4070 5658 2.282701 CGTTAGCGGTAGGCACTAAA 57.717 50.000 0.00 0.00 45.48 1.85
4071 5659 2.609350 CGTTAGCGGTAGGCACTAAAA 58.391 47.619 0.00 0.00 45.48 1.52
4072 5660 2.601763 CGTTAGCGGTAGGCACTAAAAG 59.398 50.000 0.00 0.00 45.48 2.27
4073 5661 3.593096 GTTAGCGGTAGGCACTAAAAGT 58.407 45.455 0.00 0.00 45.48 2.66
4074 5662 2.381725 AGCGGTAGGCACTAAAAGTC 57.618 50.000 0.00 0.00 45.48 3.01
4075 5663 1.900486 AGCGGTAGGCACTAAAAGTCT 59.100 47.619 0.00 0.00 45.48 3.24
4076 5664 2.000447 GCGGTAGGCACTAAAAGTCTG 59.000 52.381 0.00 0.00 45.48 3.51
4077 5665 2.353406 GCGGTAGGCACTAAAAGTCTGA 60.353 50.000 0.00 0.00 45.48 3.27
4078 5666 3.863400 GCGGTAGGCACTAAAAGTCTGAA 60.863 47.826 0.00 0.00 45.48 3.02
4079 5667 4.312443 CGGTAGGCACTAAAAGTCTGAAA 58.688 43.478 0.00 0.00 45.48 2.69
4080 5668 4.151867 CGGTAGGCACTAAAAGTCTGAAAC 59.848 45.833 0.00 0.00 45.48 2.78
4081 5669 5.306394 GGTAGGCACTAAAAGTCTGAAACT 58.694 41.667 0.00 0.00 45.48 2.66
4082 5670 6.461640 GGTAGGCACTAAAAGTCTGAAACTA 58.538 40.000 0.00 0.00 45.48 2.24
4083 5671 6.368243 GGTAGGCACTAAAAGTCTGAAACTAC 59.632 42.308 0.00 0.00 45.48 2.73
4084 5672 5.306394 AGGCACTAAAAGTCTGAAACTACC 58.694 41.667 0.00 0.00 34.23 3.18
4085 5673 5.061179 GGCACTAAAAGTCTGAAACTACCA 58.939 41.667 0.00 0.00 37.17 3.25
4086 5674 5.529800 GGCACTAAAAGTCTGAAACTACCAA 59.470 40.000 0.00 0.00 37.17 3.67
4087 5675 6.038936 GGCACTAAAAGTCTGAAACTACCAAA 59.961 38.462 0.00 0.00 37.17 3.28
4088 5676 7.415877 GGCACTAAAAGTCTGAAACTACCAAAA 60.416 37.037 0.00 0.00 37.17 2.44
4089 5677 7.431376 GCACTAAAAGTCTGAAACTACCAAAAC 59.569 37.037 0.00 0.00 37.17 2.43
4090 5678 8.674607 CACTAAAAGTCTGAAACTACCAAAACT 58.325 33.333 0.00 0.00 37.17 2.66
4091 5679 9.895138 ACTAAAAGTCTGAAACTACCAAAACTA 57.105 29.630 0.00 0.00 37.17 2.24
4094 5682 9.457436 AAAAGTCTGAAACTACCAAAACTAGAA 57.543 29.630 0.00 0.00 37.17 2.10
4095 5683 9.457436 AAAGTCTGAAACTACCAAAACTAGAAA 57.543 29.630 0.00 0.00 37.17 2.52
4096 5684 8.434733 AGTCTGAAACTACCAAAACTAGAAAC 57.565 34.615 0.00 0.00 36.07 2.78
4097 5685 8.044908 AGTCTGAAACTACCAAAACTAGAAACA 58.955 33.333 0.00 0.00 36.07 2.83
4098 5686 8.121086 GTCTGAAACTACCAAAACTAGAAACAC 58.879 37.037 0.00 0.00 0.00 3.32
4099 5687 8.044908 TCTGAAACTACCAAAACTAGAAACACT 58.955 33.333 0.00 0.00 0.00 3.55
4100 5688 9.321562 CTGAAACTACCAAAACTAGAAACACTA 57.678 33.333 0.00 0.00 0.00 2.74
4110 5698 4.408182 CTAGAAACACTAGGATGTGGGG 57.592 50.000 0.00 0.00 43.35 4.96
4111 5699 2.632537 AGAAACACTAGGATGTGGGGT 58.367 47.619 0.00 0.00 41.84 4.95
4112 5700 3.798515 AGAAACACTAGGATGTGGGGTA 58.201 45.455 0.00 0.00 41.84 3.69
4113 5701 4.371681 AGAAACACTAGGATGTGGGGTAT 58.628 43.478 0.00 0.00 41.84 2.73
4114 5702 4.788617 AGAAACACTAGGATGTGGGGTATT 59.211 41.667 0.00 0.00 41.84 1.89
4115 5703 4.772886 AACACTAGGATGTGGGGTATTC 57.227 45.455 0.00 0.00 41.84 1.75
4116 5704 3.046374 ACACTAGGATGTGGGGTATTCC 58.954 50.000 0.00 0.00 41.84 3.01
4117 5705 3.311402 ACACTAGGATGTGGGGTATTCCT 60.311 47.826 0.00 0.00 41.84 3.36
4118 5706 3.325135 CACTAGGATGTGGGGTATTCCTC 59.675 52.174 0.00 0.00 39.33 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 6.845758 AAATCACACATTCAACCATCATCT 57.154 33.333 0.00 0.00 0.00 2.90
62 63 5.221422 TGCCCGAGTTTCAAAAATGAAGAAT 60.221 36.000 0.00 0.00 0.00 2.40
143 144 0.247460 TCAGTGATCGAGCCACTTGG 59.753 55.000 17.42 9.91 42.44 3.61
149 150 2.478831 GATCCTTTCAGTGATCGAGCC 58.521 52.381 0.00 0.00 0.00 4.70
155 156 2.166459 TCGCTTCGATCCTTTCAGTGAT 59.834 45.455 0.00 0.00 0.00 3.06
157 158 1.996292 TCGCTTCGATCCTTTCAGTG 58.004 50.000 0.00 0.00 0.00 3.66
227 228 4.866486 GGCTTTACATGCATCTTTTTCCAG 59.134 41.667 0.00 0.00 0.00 3.86
296 297 1.512734 CATTGCGAAGGAAGTGCGC 60.513 57.895 0.00 0.00 44.16 6.09
322 323 3.288092 TGCGATCTTACTTCTCTAGGCA 58.712 45.455 0.00 0.00 0.00 4.75
323 324 3.992260 TGCGATCTTACTTCTCTAGGC 57.008 47.619 0.00 0.00 0.00 3.93
326 327 4.036971 GCCTCTTGCGATCTTACTTCTCTA 59.963 45.833 0.00 0.00 0.00 2.43
362 363 0.037605 ACCGAGACTTTAAGTGGCCG 60.038 55.000 0.93 3.09 0.00 6.13
379 380 0.458025 GGAGTTCGTCATCGGTCACC 60.458 60.000 0.00 0.00 37.69 4.02
415 1900 5.443185 AAAATCACACATCCACACTTCTG 57.557 39.130 0.00 0.00 0.00 3.02
447 1932 4.815308 CACCAGCATTTCATTGTCCAAAAA 59.185 37.500 0.00 0.00 0.00 1.94
465 1950 2.815211 CACGTCATCGCCCACCAG 60.815 66.667 0.00 0.00 41.18 4.00
473 1958 1.202348 AGGATCAAGAGCACGTCATCG 60.202 52.381 0.00 0.00 43.34 3.84
496 1981 1.063174 GTTCCAATAGCAGAAGCAGCG 59.937 52.381 0.00 0.00 45.49 5.18
509 1994 3.159213 TGACCAAGCTCATGTTCCAAT 57.841 42.857 0.00 0.00 0.00 3.16
513 1998 3.988379 TGTTTGACCAAGCTCATGTTC 57.012 42.857 0.00 0.00 0.00 3.18
524 2009 2.031120 CAAGAAGCCCTTGTTTGACCA 58.969 47.619 7.96 0.00 45.52 4.02
525 2010 2.800881 CAAGAAGCCCTTGTTTGACC 57.199 50.000 7.96 0.00 45.52 4.02
543 2028 9.388672 AGCCTACCTTATATATTGTCCTTAACA 57.611 33.333 0.00 0.00 35.59 2.41
545 2030 8.822805 CCAGCCTACCTTATATATTGTCCTTAA 58.177 37.037 0.00 0.00 0.00 1.85
546 2031 8.181524 TCCAGCCTACCTTATATATTGTCCTTA 58.818 37.037 0.00 0.00 0.00 2.69
548 2033 6.440965 GTCCAGCCTACCTTATATATTGTCCT 59.559 42.308 0.00 0.00 0.00 3.85
549 2034 6.212791 TGTCCAGCCTACCTTATATATTGTCC 59.787 42.308 0.00 0.00 0.00 4.02
550 2035 7.241042 TGTCCAGCCTACCTTATATATTGTC 57.759 40.000 0.00 0.00 0.00 3.18
551 2036 7.246171 CTGTCCAGCCTACCTTATATATTGT 57.754 40.000 0.00 0.00 0.00 2.71
571 2056 4.395583 GTTGCCTGCTGCGCTGTC 62.396 66.667 16.05 8.72 45.60 3.51
572 2057 4.943252 AGTTGCCTGCTGCGCTGT 62.943 61.111 16.05 0.00 45.60 4.40
573 2058 4.099170 GAGTTGCCTGCTGCGCTG 62.099 66.667 9.73 10.04 45.60 5.18
576 2061 4.711949 AGGGAGTTGCCTGCTGCG 62.712 66.667 0.00 0.00 45.60 5.18
577 2062 3.060615 CAGGGAGTTGCCTGCTGC 61.061 66.667 6.75 0.00 41.77 5.25
578 2063 2.360852 CCAGGGAGTTGCCTGCTG 60.361 66.667 13.63 0.00 36.66 4.41
579 2064 4.357279 GCCAGGGAGTTGCCTGCT 62.357 66.667 13.63 0.00 36.66 4.24
580 2065 4.666253 TGCCAGGGAGTTGCCTGC 62.666 66.667 13.63 9.87 36.66 4.85
581 2066 2.207501 ATCTGCCAGGGAGTTGCCTG 62.208 60.000 12.28 12.28 36.66 4.85
582 2067 1.927527 ATCTGCCAGGGAGTTGCCT 60.928 57.895 8.03 0.00 36.66 4.75
583 2068 1.751927 CATCTGCCAGGGAGTTGCC 60.752 63.158 8.03 0.00 0.00 4.52
584 2069 1.751927 CCATCTGCCAGGGAGTTGC 60.752 63.158 12.58 0.00 0.00 4.17
725 2211 3.835790 TTTTGGTGCGACGAGGGGG 62.836 63.158 0.00 0.00 0.00 5.40
732 2218 0.035739 TCCTAGGGTTTTGGTGCGAC 59.964 55.000 9.46 0.00 0.00 5.19
781 2267 1.923909 GGTTAGGCTGGGGTGGAGT 60.924 63.158 0.00 0.00 0.00 3.85
997 2498 2.124151 CCAAATCTGGGCTCCGGG 60.124 66.667 0.00 0.00 39.30 5.73
1204 2705 5.172934 CACAATAACAAGGCGGAGTAGTAA 58.827 41.667 0.00 0.00 0.00 2.24
1208 2709 2.352388 GCACAATAACAAGGCGGAGTA 58.648 47.619 0.00 0.00 0.00 2.59
1209 2710 1.165270 GCACAATAACAAGGCGGAGT 58.835 50.000 0.00 0.00 0.00 3.85
1239 2740 1.745653 GAATAACAAGGGAGGCAGCAC 59.254 52.381 0.00 0.00 0.00 4.40
1422 2923 3.722147 AGCATTACGGTCAAGAGCATAG 58.278 45.455 0.00 0.00 0.00 2.23
1428 2929 2.235155 TGCCTAAGCATTACGGTCAAGA 59.765 45.455 0.00 0.00 46.52 3.02
1520 3021 0.324285 CCAGATCTGCCTAGATGCCC 59.676 60.000 17.76 0.00 43.63 5.36
1521 3022 0.324285 CCCAGATCTGCCTAGATGCC 59.676 60.000 17.76 0.00 43.63 4.40
1522 3023 1.055040 ACCCAGATCTGCCTAGATGC 58.945 55.000 17.76 0.00 43.63 3.91
1523 3024 1.347050 CCACCCAGATCTGCCTAGATG 59.653 57.143 17.76 7.91 43.63 2.90
1600 3101 6.237755 GCAATGCAACAAGATATTTTCTCTGC 60.238 38.462 0.00 0.00 36.07 4.26
1615 3117 1.186267 TGCCCTGATGCAATGCAACA 61.186 50.000 16.99 16.99 43.62 3.33
1617 3119 1.609635 CCTGCCCTGATGCAATGCAA 61.610 55.000 13.45 0.00 43.62 4.08
1672 3174 5.638596 AAACCCGACAATAACAATCTTCC 57.361 39.130 0.00 0.00 0.00 3.46
1866 3373 5.588648 CCGTTATCCATTCACACACCTAAAT 59.411 40.000 0.00 0.00 0.00 1.40
1875 3382 3.523547 CGGTAACCGTTATCCATTCACA 58.476 45.455 0.00 0.00 42.73 3.58
1900 3407 6.368779 ACAATTGCTAGGAAACTACCACTA 57.631 37.500 5.05 0.00 43.67 2.74
1961 3473 5.479124 AACATTACTGAGAACCTAACCGT 57.521 39.130 0.00 0.00 0.00 4.83
2101 3616 5.446473 GCTTTCCTCAAATACGACACTCATG 60.446 44.000 0.00 0.00 0.00 3.07
2118 3633 1.076438 AACCCTGCTTAGGCTTTCCT 58.924 50.000 0.00 0.00 46.57 3.36
2158 3673 5.622346 TTTCAATAAAACCAGTTTGGGCT 57.378 34.783 0.00 0.00 43.37 5.19
2159 3674 6.072728 GGATTTTCAATAAAACCAGTTTGGGC 60.073 38.462 0.00 0.00 43.37 5.36
2185 3700 7.228507 ACATTTAATTCTACAGTCACAGTGCAA 59.771 33.333 0.00 0.00 0.00 4.08
2248 3763 7.260387 TCCCTTTGTATACAGAATAACCACA 57.740 36.000 5.56 0.00 0.00 4.17
2266 3781 3.421844 GTGGTCAGTAAGCAATCCCTTT 58.578 45.455 0.00 0.00 37.07 3.11
2284 3799 3.915437 ACAAAGCTTATTCAACCGTGG 57.085 42.857 0.00 0.00 0.00 4.94
2287 3820 6.724263 TGCATATACAAAGCTTATTCAACCG 58.276 36.000 0.00 0.00 0.00 4.44
2379 3913 6.420638 TCCATCTGAACATGATTCAAGTCAT 58.579 36.000 0.00 0.00 39.34 3.06
2437 3971 5.904362 ACTTGATAATTTCTTGCTGGTCC 57.096 39.130 0.00 0.00 0.00 4.46
2463 3997 7.161404 TGTCATATGCAGAATAGGGTAATGAC 58.839 38.462 0.00 0.00 35.46 3.06
2488 4022 6.886459 ACAGAAAACTATACATTGCAGTGGAT 59.114 34.615 12.10 12.10 0.00 3.41
2604 4138 5.721232 TCCTCATCTTCATCATCATCATCG 58.279 41.667 0.00 0.00 0.00 3.84
2610 4144 6.681729 TCATCATCCTCATCTTCATCATCA 57.318 37.500 0.00 0.00 0.00 3.07
2661 4195 0.252881 AGAAGTCCTCCCCAGCATCA 60.253 55.000 0.00 0.00 0.00 3.07
2694 4228 1.025041 CATCCTCGTCATCGTCCTCA 58.975 55.000 0.00 0.00 38.33 3.86
2778 4312 4.374399 CATCTTCACCATCATCATCGTCA 58.626 43.478 0.00 0.00 0.00 4.35
2832 4366 2.591923 TCTTCCTCATCCTCCTCATCG 58.408 52.381 0.00 0.00 0.00 3.84
2844 4378 1.198713 GCTGGTCCTCATCTTCCTCA 58.801 55.000 0.00 0.00 0.00 3.86
2904 4438 6.934645 CAGATAAACTAAGGGACTGAAACACA 59.065 38.462 0.00 0.00 40.86 3.72
2917 4451 9.409312 CATCATCTAGACAGCAGATAAACTAAG 57.591 37.037 0.00 0.00 31.48 2.18
2999 4533 7.126421 AGTTCAATGTTCTACCCTATGAGACAT 59.874 37.037 0.00 0.00 0.00 3.06
3168 4718 5.240891 TCACTCACCAGAAGCATAAAGAAG 58.759 41.667 0.00 0.00 0.00 2.85
3183 4733 5.182001 ACAAACTCTGCAATATTCACTCACC 59.818 40.000 0.00 0.00 0.00 4.02
3210 4760 6.446781 AATCCAAACATTCAGATAGCAGTG 57.553 37.500 0.00 0.00 0.00 3.66
3238 4788 5.200368 ACATGCCTTTTCCTTACAAGTTG 57.800 39.130 0.00 0.00 0.00 3.16
3242 4792 5.774690 AGATTGACATGCCTTTTCCTTACAA 59.225 36.000 0.00 0.00 0.00 2.41
3245 4795 9.342308 CTATTAGATTGACATGCCTTTTCCTTA 57.658 33.333 0.00 0.00 0.00 2.69
3258 4808 8.063200 TCTTCGGTTCTTCTATTAGATTGACA 57.937 34.615 0.00 0.00 0.00 3.58
3309 4860 9.474920 CATGCAAAGATAGGTTTTTAGACAAAA 57.525 29.630 0.00 0.00 31.76 2.44
3310 4861 8.087750 CCATGCAAAGATAGGTTTTTAGACAAA 58.912 33.333 0.00 0.00 0.00 2.83
3312 4863 6.945435 TCCATGCAAAGATAGGTTTTTAGACA 59.055 34.615 0.00 0.00 0.00 3.41
3313 4864 7.391148 TCCATGCAAAGATAGGTTTTTAGAC 57.609 36.000 0.00 0.00 0.00 2.59
3314 4865 7.615365 ACATCCATGCAAAGATAGGTTTTTAGA 59.385 33.333 0.00 0.00 0.00 2.10
3315 4866 7.775120 ACATCCATGCAAAGATAGGTTTTTAG 58.225 34.615 0.00 0.00 0.00 1.85
3316 4867 7.716799 ACATCCATGCAAAGATAGGTTTTTA 57.283 32.000 0.00 0.00 0.00 1.52
3317 4868 6.610075 ACATCCATGCAAAGATAGGTTTTT 57.390 33.333 0.00 0.00 0.00 1.94
3318 4869 6.211184 TCAACATCCATGCAAAGATAGGTTTT 59.789 34.615 0.00 0.00 0.00 2.43
3319 4870 5.716228 TCAACATCCATGCAAAGATAGGTTT 59.284 36.000 0.00 0.00 0.00 3.27
3324 4875 5.069383 CCCATTCAACATCCATGCAAAGATA 59.931 40.000 0.00 0.00 0.00 1.98
3330 4881 2.101783 GTCCCATTCAACATCCATGCA 58.898 47.619 0.00 0.00 0.00 3.96
3334 4885 3.235750 TGTTGTCCCATTCAACATCCA 57.764 42.857 7.28 0.00 46.35 3.41
3487 5071 6.452494 AGTAGACAGTGTATGTACATGTCC 57.548 41.667 18.81 6.81 44.17 4.02
3489 5073 7.228314 ACAAGTAGACAGTGTATGTACATGT 57.772 36.000 18.81 8.71 44.17 3.21
3546 5133 1.832998 CACCCTGCCCAGCAAATTTAT 59.167 47.619 0.00 0.00 38.41 1.40
3547 5134 1.203112 TCACCCTGCCCAGCAAATTTA 60.203 47.619 0.00 0.00 38.41 1.40
3606 5193 8.613482 TCATTAACAGAGAGTAATCAGTAGTCG 58.387 37.037 0.00 0.00 37.26 4.18
3630 5217 0.464036 ACAAGTTGGCGTCTGAGTCA 59.536 50.000 7.96 0.00 0.00 3.41
3636 5223 2.293399 GGATTTCAACAAGTTGGCGTCT 59.707 45.455 12.54 0.00 40.78 4.18
3639 5226 2.607771 CCAGGATTTCAACAAGTTGGCG 60.608 50.000 12.54 0.00 40.78 5.69
3675 5262 0.798776 CTGCCGTCTGGTTGACATTC 59.201 55.000 0.00 0.00 45.60 2.67
3746 5333 6.535274 ACAACTCATTACCGTCTTTTGTAC 57.465 37.500 0.00 0.00 0.00 2.90
3758 5345 9.297586 TCACGTATCATTCTAACAACTCATTAC 57.702 33.333 0.00 0.00 0.00 1.89
3933 5520 3.068024 TGGTTGTTGACTCATTGCCTTTC 59.932 43.478 0.00 0.00 0.00 2.62
3941 5528 2.978156 ATGGGTGGTTGTTGACTCAT 57.022 45.000 0.00 0.00 0.00 2.90
3954 5541 5.665916 AAAGGCAATTTCTTCTATGGGTG 57.334 39.130 0.00 0.00 0.00 4.61
3958 5545 7.275123 GCAAGAGAAAAGGCAATTTCTTCTATG 59.725 37.037 16.26 13.64 46.77 2.23
3970 5557 1.956477 GAGTTGGCAAGAGAAAAGGCA 59.044 47.619 0.00 0.00 35.94 4.75
3980 5568 1.246737 GGGGAAGCAGAGTTGGCAAG 61.247 60.000 0.00 0.00 0.00 4.01
4010 5598 3.561143 ACAATGGTTGTTACTGAAGGCA 58.439 40.909 0.00 0.00 42.22 4.75
4024 5612 9.466497 AGTCTGTATAATTCATCAAACAATGGT 57.534 29.630 0.00 0.00 0.00 3.55
4025 5613 9.941664 GAGTCTGTATAATTCATCAAACAATGG 57.058 33.333 0.00 0.00 0.00 3.16
4026 5614 9.642312 CGAGTCTGTATAATTCATCAAACAATG 57.358 33.333 0.00 0.00 0.00 2.82
4027 5615 9.383519 ACGAGTCTGTATAATTCATCAAACAAT 57.616 29.630 0.00 0.00 0.00 2.71
4028 5616 8.771920 ACGAGTCTGTATAATTCATCAAACAA 57.228 30.769 0.00 0.00 0.00 2.83
4029 5617 8.771920 AACGAGTCTGTATAATTCATCAAACA 57.228 30.769 0.00 0.00 0.00 2.83
4031 5619 9.031360 GCTAACGAGTCTGTATAATTCATCAAA 57.969 33.333 0.00 0.00 0.00 2.69
4032 5620 7.378728 CGCTAACGAGTCTGTATAATTCATCAA 59.621 37.037 0.00 0.00 43.93 2.57
4033 5621 6.856426 CGCTAACGAGTCTGTATAATTCATCA 59.144 38.462 0.00 0.00 43.93 3.07
4034 5622 6.305877 CCGCTAACGAGTCTGTATAATTCATC 59.694 42.308 0.00 0.00 43.93 2.92
4035 5623 6.150318 CCGCTAACGAGTCTGTATAATTCAT 58.850 40.000 0.00 0.00 43.93 2.57
4036 5624 5.066893 ACCGCTAACGAGTCTGTATAATTCA 59.933 40.000 0.00 0.00 43.93 2.57
4037 5625 5.517904 ACCGCTAACGAGTCTGTATAATTC 58.482 41.667 0.00 0.00 43.93 2.17
4038 5626 5.511234 ACCGCTAACGAGTCTGTATAATT 57.489 39.130 0.00 0.00 43.93 1.40
4039 5627 5.180868 CCTACCGCTAACGAGTCTGTATAAT 59.819 44.000 0.00 0.00 43.93 1.28
4040 5628 4.512944 CCTACCGCTAACGAGTCTGTATAA 59.487 45.833 0.00 0.00 43.93 0.98
4041 5629 4.060900 CCTACCGCTAACGAGTCTGTATA 58.939 47.826 0.00 0.00 43.93 1.47
4042 5630 2.877168 CCTACCGCTAACGAGTCTGTAT 59.123 50.000 0.00 0.00 43.93 2.29
4043 5631 2.283298 CCTACCGCTAACGAGTCTGTA 58.717 52.381 0.00 0.00 43.93 2.74
4044 5632 1.093159 CCTACCGCTAACGAGTCTGT 58.907 55.000 0.00 0.00 43.93 3.41
4045 5633 0.248539 GCCTACCGCTAACGAGTCTG 60.249 60.000 0.00 0.00 43.93 3.51
4046 5634 0.679002 TGCCTACCGCTAACGAGTCT 60.679 55.000 0.00 0.00 43.93 3.24
4047 5635 0.525029 GTGCCTACCGCTAACGAGTC 60.525 60.000 0.00 0.00 43.93 3.36
4048 5636 0.964358 AGTGCCTACCGCTAACGAGT 60.964 55.000 0.00 0.00 43.93 4.18
4049 5637 1.019673 TAGTGCCTACCGCTAACGAG 58.980 55.000 0.00 0.00 43.93 4.18
4050 5638 1.462616 TTAGTGCCTACCGCTAACGA 58.537 50.000 0.00 0.00 40.59 3.85
4051 5639 2.282701 TTTAGTGCCTACCGCTAACG 57.717 50.000 0.00 0.00 44.01 3.18
4052 5640 3.593096 ACTTTTAGTGCCTACCGCTAAC 58.407 45.455 0.00 0.00 44.01 2.34
4053 5641 3.512724 AGACTTTTAGTGCCTACCGCTAA 59.487 43.478 0.00 0.00 42.98 3.09
4054 5642 3.094572 AGACTTTTAGTGCCTACCGCTA 58.905 45.455 0.00 0.00 38.78 4.26
4055 5643 1.900486 AGACTTTTAGTGCCTACCGCT 59.100 47.619 0.00 0.00 38.78 5.52
4056 5644 2.000447 CAGACTTTTAGTGCCTACCGC 59.000 52.381 0.00 0.00 38.31 5.68
4057 5645 3.587797 TCAGACTTTTAGTGCCTACCG 57.412 47.619 0.00 0.00 0.00 4.02
4058 5646 5.306394 AGTTTCAGACTTTTAGTGCCTACC 58.694 41.667 0.00 0.00 33.92 3.18
4059 5647 6.368243 GGTAGTTTCAGACTTTTAGTGCCTAC 59.632 42.308 0.00 0.00 39.86 3.18
4060 5648 6.042322 TGGTAGTTTCAGACTTTTAGTGCCTA 59.958 38.462 0.00 0.00 39.86 3.93
4061 5649 5.163237 TGGTAGTTTCAGACTTTTAGTGCCT 60.163 40.000 0.00 0.00 39.86 4.75
4062 5650 5.061179 TGGTAGTTTCAGACTTTTAGTGCC 58.939 41.667 0.00 0.00 39.86 5.01
4063 5651 6.613755 TTGGTAGTTTCAGACTTTTAGTGC 57.386 37.500 0.00 0.00 39.86 4.40
4064 5652 8.674607 AGTTTTGGTAGTTTCAGACTTTTAGTG 58.325 33.333 0.00 0.00 39.86 2.74
4065 5653 8.803397 AGTTTTGGTAGTTTCAGACTTTTAGT 57.197 30.769 0.00 0.00 39.86 2.24
4068 5656 9.457436 TTCTAGTTTTGGTAGTTTCAGACTTTT 57.543 29.630 0.00 0.00 39.86 2.27
4069 5657 9.457436 TTTCTAGTTTTGGTAGTTTCAGACTTT 57.543 29.630 0.00 0.00 39.86 2.66
4070 5658 8.890718 GTTTCTAGTTTTGGTAGTTTCAGACTT 58.109 33.333 0.00 0.00 39.86 3.01
4071 5659 8.044908 TGTTTCTAGTTTTGGTAGTTTCAGACT 58.955 33.333 0.00 0.00 42.55 3.24
4072 5660 8.121086 GTGTTTCTAGTTTTGGTAGTTTCAGAC 58.879 37.037 0.00 0.00 0.00 3.51
4073 5661 8.044908 AGTGTTTCTAGTTTTGGTAGTTTCAGA 58.955 33.333 0.00 0.00 0.00 3.27
4074 5662 8.209917 AGTGTTTCTAGTTTTGGTAGTTTCAG 57.790 34.615 0.00 0.00 0.00 3.02
4075 5663 9.321562 CTAGTGTTTCTAGTTTTGGTAGTTTCA 57.678 33.333 0.00 0.00 40.72 2.69
4076 5664 8.771766 CCTAGTGTTTCTAGTTTTGGTAGTTTC 58.228 37.037 0.00 0.00 43.23 2.78
4077 5665 8.488668 TCCTAGTGTTTCTAGTTTTGGTAGTTT 58.511 33.333 0.00 0.00 43.23 2.66
4078 5666 8.026396 TCCTAGTGTTTCTAGTTTTGGTAGTT 57.974 34.615 0.00 0.00 43.23 2.24
4079 5667 7.607615 TCCTAGTGTTTCTAGTTTTGGTAGT 57.392 36.000 0.00 0.00 43.23 2.73
4080 5668 8.095169 ACATCCTAGTGTTTCTAGTTTTGGTAG 58.905 37.037 0.00 0.00 43.23 3.18
4081 5669 7.876068 CACATCCTAGTGTTTCTAGTTTTGGTA 59.124 37.037 0.00 0.00 43.23 3.25
4082 5670 6.710744 CACATCCTAGTGTTTCTAGTTTTGGT 59.289 38.462 0.00 0.00 43.23 3.67
4083 5671 6.149474 CCACATCCTAGTGTTTCTAGTTTTGG 59.851 42.308 0.00 0.00 43.23 3.28
4084 5672 6.149474 CCCACATCCTAGTGTTTCTAGTTTTG 59.851 42.308 0.00 0.00 43.23 2.44
4085 5673 6.238648 CCCACATCCTAGTGTTTCTAGTTTT 58.761 40.000 0.00 0.00 43.23 2.43
4086 5674 5.280521 CCCCACATCCTAGTGTTTCTAGTTT 60.281 44.000 0.00 0.00 43.23 2.66
4087 5675 4.225267 CCCCACATCCTAGTGTTTCTAGTT 59.775 45.833 0.00 0.00 43.23 2.24
4088 5676 3.775316 CCCCACATCCTAGTGTTTCTAGT 59.225 47.826 0.00 0.00 43.23 2.57
4089 5677 3.775316 ACCCCACATCCTAGTGTTTCTAG 59.225 47.826 0.00 0.00 44.07 2.43
4090 5678 3.798515 ACCCCACATCCTAGTGTTTCTA 58.201 45.455 0.00 0.00 37.82 2.10
4091 5679 2.632537 ACCCCACATCCTAGTGTTTCT 58.367 47.619 0.00 0.00 37.82 2.52
4092 5680 4.772886 ATACCCCACATCCTAGTGTTTC 57.227 45.455 0.00 0.00 37.82 2.78
4093 5681 4.079958 GGAATACCCCACATCCTAGTGTTT 60.080 45.833 0.00 0.00 37.82 2.83
4094 5682 3.458487 GGAATACCCCACATCCTAGTGTT 59.542 47.826 0.00 0.00 37.82 3.32
4095 5683 3.046374 GGAATACCCCACATCCTAGTGT 58.954 50.000 0.00 0.00 37.82 3.55
4096 5684 3.318313 AGGAATACCCCACATCCTAGTG 58.682 50.000 0.00 0.00 40.47 2.74
4097 5685 3.588569 GAGGAATACCCCACATCCTAGT 58.411 50.000 0.00 0.00 42.28 2.57


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

AutoCloner maintained by Alex Coulton.