Multiple sequence alignment - TraesCS1B01G329600

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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 TraesCS1B01G329600 chr1B 100.000 3742 0 0 1 3742 555640909 555637168 0.000000e+00 6911.0
1 TraesCS1B01G329600 chr1A 92.992 3282 147 42 9 3275 508643808 508640595 0.000000e+00 4710.0
2 TraesCS1B01G329600 chr1A 91.538 130 9 2 3333 3461 588138514 588138642 1.070000e-40 178.0
3 TraesCS1B01G329600 chr1A 91.860 86 6 1 3653 3737 508640379 508640294 6.570000e-23 119.0
4 TraesCS1B01G329600 chr1A 91.489 47 4 0 3579 3625 575468821 575468775 8.680000e-07 65.8
5 TraesCS1B01G329600 chr1D 93.551 1411 39 18 1952 3339 412089750 412088369 0.000000e+00 2054.0
6 TraesCS1B01G329600 chr1D 98.182 990 18 0 934 1923 412090737 412089748 0.000000e+00 1729.0
7 TraesCS1B01G329600 chr1D 87.956 548 31 15 3 536 412091583 412091057 6.870000e-172 614.0
8 TraesCS1B01G329600 chr1D 94.620 316 13 3 586 898 412091059 412090745 1.560000e-133 486.0
9 TraesCS1B01G329600 chr1D 97.619 42 1 0 3580 3621 473411081 473411122 5.180000e-09 73.1
10 TraesCS1B01G329600 chr3D 90.580 138 11 2 3325 3461 582883993 582884129 8.260000e-42 182.0
11 TraesCS1B01G329600 chr7D 91.473 129 11 0 3333 3461 566026581 566026709 1.070000e-40 178.0
12 TraesCS1B01G329600 chr3B 91.538 130 9 2 3333 3461 138367731 138367859 1.070000e-40 178.0
13 TraesCS1B01G329600 chr3A 91.538 130 9 2 3333 3461 600920861 600920989 1.070000e-40 178.0
14 TraesCS1B01G329600 chr2D 91.473 129 11 0 3333 3461 318563888 318563760 1.070000e-40 178.0
15 TraesCS1B01G329600 chr2D 89.091 55 4 2 3570 3624 551845895 551845843 2.410000e-07 67.6
16 TraesCS1B01G329600 chr4D 89.706 136 13 1 3327 3461 75266747 75266882 4.970000e-39 172.0
17 TraesCS1B01G329600 chr2B 89.706 136 13 1 3328 3462 729635184 729635319 4.970000e-39 172.0
18 TraesCS1B01G329600 chr2B 97.674 43 1 0 3577 3619 231659267 231659225 1.440000e-09 75.0
19 TraesCS1B01G329600 chr4A 89.051 137 11 3 3326 3462 652193869 652193737 2.310000e-37 167.0
20 TraesCS1B01G329600 chr4A 93.617 47 3 0 3579 3625 7738271 7738317 1.860000e-08 71.3
21 TraesCS1B01G329600 chr4A 92.000 50 2 2 3577 3625 601295130 601295082 6.710000e-08 69.4
22 TraesCS1B01G329600 chrUn 95.652 46 1 1 3577 3621 101253981 101254026 5.180000e-09 73.1
23 TraesCS1B01G329600 chr6B 95.556 45 2 0 3580 3624 30889376 30889332 5.180000e-09 73.1
24 TraesCS1B01G329600 chr7A 89.091 55 5 1 3568 3621 472192855 472192909 2.410000e-07 67.6


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 TraesCS1B01G329600 chr1B 555637168 555640909 3741 True 6911.00 6911 100.00000 1 3742 1 chr1B.!!$R1 3741
1 TraesCS1B01G329600 chr1A 508640294 508643808 3514 True 2414.50 4710 92.42600 9 3737 2 chr1A.!!$R2 3728
2 TraesCS1B01G329600 chr1D 412088369 412091583 3214 True 1220.75 2054 93.57725 3 3339 4 chr1D.!!$R1 3336

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
36 37 0.250234 CCCATTTCTCACCTCTCGCA 59.750 55.000 0.00 0.0 0.00 5.10 F
1230 1254 0.038744 ACCACCTCAATCTTGGCCTG 59.961 55.000 3.32 0.0 33.25 4.85 F
1934 1958 3.566742 TGCATGGATAGCTTTATGTGCTG 59.433 43.478 12.28 0.0 41.32 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1411 1435 1.205893 ACCATTGTGTTTGCCGTTTGT 59.794 42.857 0.00 0.0 0.00 2.83 R
2168 2226 0.106719 CAATACGGGAAGGGCCACAT 60.107 55.000 6.18 0.0 38.95 3.21 R
2744 2805 0.240945 CACAACCATGTTCCGAAGCC 59.759 55.000 0.00 0.0 37.82 4.35 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
36 37 0.250234 CCCATTTCTCACCTCTCGCA 59.750 55.000 0.00 0.00 0.00 5.10
120 121 4.736896 GCCGCGGTCTCGTTCCTT 62.737 66.667 28.70 0.00 38.89 3.36
189 200 3.791586 GACTCCAGGCTGCCTCCC 61.792 72.222 20.49 2.40 0.00 4.30
217 232 1.584724 CACAGATAGGAAGGGGTGGT 58.415 55.000 0.00 0.00 0.00 4.16
268 283 3.722082 CGAAATTCGGTTCAAAGCTCTCG 60.722 47.826 7.61 0.00 36.00 4.04
276 291 4.109050 GGTTCAAAGCTCTCGTAGATCTG 58.891 47.826 5.18 0.00 33.89 2.90
313 328 2.261671 CGTCCTTCTGGGTGACGG 59.738 66.667 3.52 0.00 45.93 4.79
328 343 4.202326 GGGTGACGGATTGGTGTATAGAAT 60.202 45.833 0.00 0.00 0.00 2.40
329 344 5.365619 GGTGACGGATTGGTGTATAGAATT 58.634 41.667 0.00 0.00 0.00 2.17
330 345 5.820947 GGTGACGGATTGGTGTATAGAATTT 59.179 40.000 0.00 0.00 0.00 1.82
383 398 6.913873 TTTATGGTATTACGAAGCTTGGTC 57.086 37.500 18.00 3.48 0.00 4.02
392 407 4.273148 ACGAAGCTTGGTCTAAGTTGAT 57.727 40.909 8.47 0.00 38.70 2.57
396 411 5.517054 CGAAGCTTGGTCTAAGTTGATAGTC 59.483 44.000 2.10 0.00 38.70 2.59
519 535 1.205893 GGATCAGAAAGCGAGGAGTGT 59.794 52.381 0.00 0.00 0.00 3.55
552 568 4.536090 TCATGGGAGAAGTACAACAGGATT 59.464 41.667 0.00 0.00 0.00 3.01
555 571 6.049955 TGGGAGAAGTACAACAGGATTTAG 57.950 41.667 0.00 0.00 0.00 1.85
556 572 5.045869 TGGGAGAAGTACAACAGGATTTAGG 60.046 44.000 0.00 0.00 0.00 2.69
557 573 5.429130 GGAGAAGTACAACAGGATTTAGGG 58.571 45.833 0.00 0.00 0.00 3.53
558 574 4.844884 AGAAGTACAACAGGATTTAGGGC 58.155 43.478 0.00 0.00 0.00 5.19
559 575 4.536489 AGAAGTACAACAGGATTTAGGGCT 59.464 41.667 0.00 0.00 0.00 5.19
560 576 5.724854 AGAAGTACAACAGGATTTAGGGCTA 59.275 40.000 0.00 0.00 0.00 3.93
561 577 5.615925 AGTACAACAGGATTTAGGGCTAG 57.384 43.478 0.00 0.00 0.00 3.42
562 578 5.278061 AGTACAACAGGATTTAGGGCTAGA 58.722 41.667 0.00 0.00 0.00 2.43
563 579 4.762289 ACAACAGGATTTAGGGCTAGAG 57.238 45.455 0.00 0.00 0.00 2.43
587 603 4.452733 GAGCGTGGACGGAAGGGG 62.453 72.222 0.71 0.00 40.23 4.79
607 623 1.432270 GACAGCGTATTCTGGCAGCC 61.432 60.000 10.34 3.66 41.71 4.85
685 702 9.831737 ATTATTGATTGTCAAAAAGTTCTCTCG 57.168 29.630 0.00 0.00 40.12 4.04
693 710 6.183360 TGTCAAAAAGTTCTCTCGCTGATTTT 60.183 34.615 0.00 0.00 0.00 1.82
785 802 3.880490 AGTAGCGGTCTAGTCTGATTCTG 59.120 47.826 0.00 0.00 0.00 3.02
874 898 9.010029 GTAATTTTTGAGTTGTCTGGGAGATAA 57.990 33.333 0.00 0.00 0.00 1.75
899 923 6.713903 AGTTGCTCCAATATCATTATGTCCTG 59.286 38.462 0.00 0.00 0.00 3.86
915 939 5.543507 TGTCCTGTGGTGCATTTATTTTT 57.456 34.783 0.00 0.00 0.00 1.94
916 940 5.537188 TGTCCTGTGGTGCATTTATTTTTC 58.463 37.500 0.00 0.00 0.00 2.29
917 941 4.621034 GTCCTGTGGTGCATTTATTTTTCG 59.379 41.667 0.00 0.00 0.00 3.46
918 942 4.279671 TCCTGTGGTGCATTTATTTTTCGT 59.720 37.500 0.00 0.00 0.00 3.85
920 944 6.016192 TCCTGTGGTGCATTTATTTTTCGTAA 60.016 34.615 0.00 0.00 0.00 3.18
921 945 6.307800 CCTGTGGTGCATTTATTTTTCGTAAG 59.692 38.462 0.00 0.00 0.00 2.34
922 946 5.631512 TGTGGTGCATTTATTTTTCGTAAGC 59.368 36.000 0.00 0.00 37.18 3.09
923 947 5.861787 GTGGTGCATTTATTTTTCGTAAGCT 59.138 36.000 0.00 0.00 37.18 3.74
924 948 6.364976 GTGGTGCATTTATTTTTCGTAAGCTT 59.635 34.615 3.48 3.48 37.18 3.74
925 949 6.364706 TGGTGCATTTATTTTTCGTAAGCTTG 59.635 34.615 9.86 0.00 37.18 4.01
926 950 6.584563 GGTGCATTTATTTTTCGTAAGCTTGA 59.415 34.615 9.86 0.00 37.18 3.02
927 951 7.275560 GGTGCATTTATTTTTCGTAAGCTTGAT 59.724 33.333 9.86 0.00 37.18 2.57
928 952 9.284594 GTGCATTTATTTTTCGTAAGCTTGATA 57.715 29.630 9.86 0.00 37.18 2.15
1089 1113 4.260170 GGTCTCTCATGACATCAAAGCTT 58.740 43.478 0.00 0.00 38.61 3.74
1164 1188 0.320374 TGAACACCGTCCCTGATGTC 59.680 55.000 0.00 0.00 0.00 3.06
1230 1254 0.038744 ACCACCTCAATCTTGGCCTG 59.961 55.000 3.32 0.00 33.25 4.85
1356 1380 4.849383 GGAAACAACGGTAATGTCAATTCG 59.151 41.667 0.00 0.00 0.00 3.34
1371 1395 6.969366 TGTCAATTCGTTCAAGATGAATGTT 58.031 32.000 11.01 0.00 41.94 2.71
1646 1670 5.467735 TCATTTCATATTCCATCTCGCACAG 59.532 40.000 0.00 0.00 0.00 3.66
1816 1840 5.240623 AGGTGTGCGATTGTTTCATTTTCTA 59.759 36.000 0.00 0.00 0.00 2.10
1923 1947 7.092137 TGCTTATATCATTTGCATGGATAGC 57.908 36.000 0.00 0.00 0.00 2.97
1924 1948 6.888088 TGCTTATATCATTTGCATGGATAGCT 59.112 34.615 12.96 0.00 0.00 3.32
1925 1949 7.395206 TGCTTATATCATTTGCATGGATAGCTT 59.605 33.333 0.00 0.00 0.00 3.74
1926 1950 8.248945 GCTTATATCATTTGCATGGATAGCTTT 58.751 33.333 0.00 0.00 0.00 3.51
1930 1954 6.964807 TCATTTGCATGGATAGCTTTATGT 57.035 33.333 0.00 0.00 0.00 2.29
1931 1955 6.741109 TCATTTGCATGGATAGCTTTATGTG 58.259 36.000 0.00 0.00 0.00 3.21
1932 1956 4.572985 TTGCATGGATAGCTTTATGTGC 57.427 40.909 0.00 0.00 0.00 4.57
1933 1957 3.824133 TGCATGGATAGCTTTATGTGCT 58.176 40.909 12.28 0.00 43.79 4.40
1934 1958 3.566742 TGCATGGATAGCTTTATGTGCTG 59.433 43.478 12.28 0.00 41.32 4.41
1935 1959 3.567164 GCATGGATAGCTTTATGTGCTGT 59.433 43.478 0.00 0.00 41.32 4.40
1936 1960 4.037208 GCATGGATAGCTTTATGTGCTGTT 59.963 41.667 0.00 0.00 41.32 3.16
1937 1961 5.450965 GCATGGATAGCTTTATGTGCTGTTT 60.451 40.000 0.00 0.00 41.32 2.83
1938 1962 6.238731 GCATGGATAGCTTTATGTGCTGTTTA 60.239 38.462 0.00 0.00 41.32 2.01
1939 1963 7.522725 GCATGGATAGCTTTATGTGCTGTTTAT 60.523 37.037 0.00 0.00 41.32 1.40
1940 1964 7.263100 TGGATAGCTTTATGTGCTGTTTATG 57.737 36.000 0.00 0.00 41.32 1.90
1941 1965 7.053498 TGGATAGCTTTATGTGCTGTTTATGA 58.947 34.615 0.00 0.00 41.32 2.15
1942 1966 7.555914 TGGATAGCTTTATGTGCTGTTTATGAA 59.444 33.333 0.00 0.00 41.32 2.57
1943 1967 8.571336 GGATAGCTTTATGTGCTGTTTATGAAT 58.429 33.333 0.00 0.00 41.32 2.57
1944 1968 9.956720 GATAGCTTTATGTGCTGTTTATGAATT 57.043 29.630 0.00 0.00 41.32 2.17
1946 1970 8.693542 AGCTTTATGTGCTGTTTATGAATTTC 57.306 30.769 0.00 0.00 39.56 2.17
1947 1971 7.761249 AGCTTTATGTGCTGTTTATGAATTTCC 59.239 33.333 0.00 0.00 39.56 3.13
1948 1972 7.761249 GCTTTATGTGCTGTTTATGAATTTCCT 59.239 33.333 0.00 0.00 0.00 3.36
1949 1973 9.643693 CTTTATGTGCTGTTTATGAATTTCCTT 57.356 29.630 0.00 0.00 0.00 3.36
1950 1974 9.995003 TTTATGTGCTGTTTATGAATTTCCTTT 57.005 25.926 0.00 0.00 0.00 3.11
2065 2123 6.685527 AGAACTTGAACTTTCCTGTTCTTC 57.314 37.500 15.24 4.93 44.63 2.87
2066 2124 6.418946 AGAACTTGAACTTTCCTGTTCTTCT 58.581 36.000 15.24 6.71 44.63 2.85
2067 2125 6.887002 AGAACTTGAACTTTCCTGTTCTTCTT 59.113 34.615 15.24 2.02 44.63 2.52
2096 2154 6.990349 TCTAGCTGTAATAAAACATGGTAGGC 59.010 38.462 0.00 0.00 33.84 3.93
2168 2226 3.198200 TCCCTATTAGCCAAACGTGCTTA 59.802 43.478 4.04 0.00 40.23 3.09
2190 2248 2.518587 GCCCTTCCCGTATTGCCC 60.519 66.667 0.00 0.00 0.00 5.36
2222 2280 7.667043 ATTAGAAGCGTACATGTTCTCAAAA 57.333 32.000 2.30 0.00 32.73 2.44
2320 2380 0.250467 TTCTTGTGTCTCAGGCTGCC 60.250 55.000 11.65 11.65 0.00 4.85
2485 2545 7.978982 AGCTTGTTTTACATGATCTGACATAC 58.021 34.615 0.00 0.00 0.00 2.39
2594 2654 2.222027 GATGGTCCTAAATTCCGCCTG 58.778 52.381 0.00 0.00 0.00 4.85
2744 2805 0.453793 AGACAGAAGACGCCTGATCG 59.546 55.000 0.00 0.00 35.69 3.69
2841 2902 2.567169 TCACAATGATCTGTTCCGTCCT 59.433 45.455 0.00 0.00 0.00 3.85
2967 3028 0.892755 TGCCGTCTGTCCGTAATCTT 59.107 50.000 0.00 0.00 0.00 2.40
3094 3155 4.740822 CCCCAAAGTGAGGGCGGG 62.741 72.222 0.00 0.00 45.39 6.13
3111 3172 1.674817 CGGGTGATGTTGGGAGTGTAC 60.675 57.143 0.00 0.00 0.00 2.90
3123 3184 2.105993 GGGAGTGTACCCTTGTTGTCTT 59.894 50.000 0.00 0.00 45.90 3.01
3148 3209 2.963101 ACCTTACCTTGGTTTGGAAAGC 59.037 45.455 14.48 0.00 33.34 3.51
3186 3247 2.292569 ACTTGATGCTGCTGTTTCTGTG 59.707 45.455 0.00 0.00 0.00 3.66
3191 3252 3.259425 CTGCTGTTTCTGTGCCGCC 62.259 63.158 0.00 0.00 0.00 6.13
3192 3253 2.980233 GCTGTTTCTGTGCCGCCT 60.980 61.111 0.00 0.00 0.00 5.52
3193 3254 2.949106 CTGTTTCTGTGCCGCCTG 59.051 61.111 0.00 0.00 0.00 4.85
3194 3255 1.893808 CTGTTTCTGTGCCGCCTGT 60.894 57.895 0.00 0.00 0.00 4.00
3195 3256 2.121564 CTGTTTCTGTGCCGCCTGTG 62.122 60.000 0.00 0.00 0.00 3.66
3196 3257 2.186826 GTTTCTGTGCCGCCTGTGT 61.187 57.895 0.00 0.00 0.00 3.72
3225 3295 4.094887 ACCTTGCAATTATACTCGTTGCTG 59.905 41.667 0.00 4.16 46.22 4.41
3232 3302 4.450082 TTATACTCGTTGCTGCTCTTGA 57.550 40.909 0.00 0.00 0.00 3.02
3300 3383 3.558006 TGTACACGTTGTCCATCTTGTTG 59.442 43.478 0.00 0.00 0.00 3.33
3313 3396 3.936902 TCTTGTTGCTTTCACGTACAC 57.063 42.857 0.00 0.00 0.00 2.90
3317 3400 2.867368 TGTTGCTTTCACGTACACGAAT 59.133 40.909 9.04 0.00 43.02 3.34
3322 3405 3.671928 GCTTTCACGTACACGAATGTAGT 59.328 43.478 9.04 0.00 42.06 2.73
3332 3415 7.693951 ACGTACACGAATGTAGTTATGTACTTC 59.306 37.037 9.04 0.00 42.06 3.01
3334 3417 9.219497 GTACACGAATGTAGTTATGTACTTCTC 57.781 37.037 5.34 0.00 42.06 2.87
3335 3418 8.053026 ACACGAATGTAGTTATGTACTTCTCT 57.947 34.615 0.00 0.00 37.26 3.10
3339 3451 9.355215 CGAATGTAGTTATGTACTTCTCTGTTT 57.645 33.333 0.00 0.00 38.33 2.83
3397 3509 9.338622 TGGACTACATATGGATGTATATAGACG 57.661 37.037 7.80 0.00 45.42 4.18
3398 3510 8.291032 GGACTACATATGGATGTATATAGACGC 58.709 40.741 7.80 0.00 45.42 5.19
3399 3511 8.747538 ACTACATATGGATGTATATAGACGCA 57.252 34.615 7.80 0.00 45.42 5.24
3430 3542 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
3431 3543 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
3435 3547 6.582636 AGATTCACTCATTTTGCTCCGTATA 58.417 36.000 0.00 0.00 0.00 1.47
3437 3549 7.716998 AGATTCACTCATTTTGCTCCGTATATT 59.283 33.333 0.00 0.00 0.00 1.28
3440 3552 7.269316 TCACTCATTTTGCTCCGTATATTGTA 58.731 34.615 0.00 0.00 0.00 2.41
3441 3553 7.931407 TCACTCATTTTGCTCCGTATATTGTAT 59.069 33.333 0.00 0.00 0.00 2.29
3443 3555 9.944376 ACTCATTTTGCTCCGTATATTGTATAT 57.056 29.630 0.00 0.00 0.00 0.86
3469 3581 8.814038 ATTGAAATCTCTACAAATGTAGCCTT 57.186 30.769 14.37 6.15 45.69 4.35
3470 3582 7.849804 TGAAATCTCTACAAATGTAGCCTTC 57.150 36.000 14.37 12.99 45.69 3.46
3471 3583 7.394016 TGAAATCTCTACAAATGTAGCCTTCA 58.606 34.615 14.37 14.76 45.69 3.02
3472 3584 7.882791 TGAAATCTCTACAAATGTAGCCTTCAA 59.117 33.333 14.37 0.00 45.69 2.69
3473 3585 8.814038 AAATCTCTACAAATGTAGCCTTCAAT 57.186 30.769 14.37 1.36 45.69 2.57
3474 3586 9.905713 AAATCTCTACAAATGTAGCCTTCAATA 57.094 29.630 14.37 0.00 45.69 1.90
3510 3622 6.524101 TGAAATCTTTACAAATGTAGCCCC 57.476 37.500 0.00 0.00 0.00 5.80
3511 3623 6.252995 TGAAATCTTTACAAATGTAGCCCCT 58.747 36.000 0.00 0.00 0.00 4.79
3514 3626 7.640597 AATCTTTACAAATGTAGCCCCTTAC 57.359 36.000 0.00 0.00 0.00 2.34
3526 3638 5.962031 TGTAGCCCCTTACTGAAATCTCTAA 59.038 40.000 0.00 0.00 0.00 2.10
3618 3730 7.668525 AAAGACTTGTATTTAGAAACGGAGG 57.331 36.000 0.00 0.00 0.00 4.30
3619 3731 5.731591 AGACTTGTATTTAGAAACGGAGGG 58.268 41.667 0.00 0.00 0.00 4.30
3620 3732 5.482878 AGACTTGTATTTAGAAACGGAGGGA 59.517 40.000 0.00 0.00 0.00 4.20
3621 3733 6.156429 AGACTTGTATTTAGAAACGGAGGGAT 59.844 38.462 0.00 0.00 0.00 3.85
3622 3734 6.718294 ACTTGTATTTAGAAACGGAGGGATT 58.282 36.000 0.00 0.00 0.00 3.01
3623 3735 7.854337 ACTTGTATTTAGAAACGGAGGGATTA 58.146 34.615 0.00 0.00 0.00 1.75
3624 3736 7.985752 ACTTGTATTTAGAAACGGAGGGATTAG 59.014 37.037 0.00 0.00 0.00 1.73
3625 3737 6.823497 TGTATTTAGAAACGGAGGGATTAGG 58.177 40.000 0.00 0.00 0.00 2.69
3626 3738 5.970501 ATTTAGAAACGGAGGGATTAGGT 57.029 39.130 0.00 0.00 0.00 3.08
3627 3739 4.748277 TTAGAAACGGAGGGATTAGGTG 57.252 45.455 0.00 0.00 0.00 4.00
3628 3740 1.209747 AGAAACGGAGGGATTAGGTGC 59.790 52.381 0.00 0.00 0.00 5.01
3629 3741 1.209747 GAAACGGAGGGATTAGGTGCT 59.790 52.381 0.00 0.00 0.00 4.40
3630 3742 2.170012 AACGGAGGGATTAGGTGCTA 57.830 50.000 0.00 0.00 0.00 3.49
3631 3743 2.170012 ACGGAGGGATTAGGTGCTAA 57.830 50.000 0.00 0.00 0.00 3.09
3632 3744 2.474112 ACGGAGGGATTAGGTGCTAAA 58.526 47.619 0.00 0.00 29.35 1.85
3633 3745 2.841881 ACGGAGGGATTAGGTGCTAAAA 59.158 45.455 0.00 0.00 29.35 1.52
3634 3746 3.264964 ACGGAGGGATTAGGTGCTAAAAA 59.735 43.478 0.00 0.00 29.35 1.94
3635 3747 4.079958 ACGGAGGGATTAGGTGCTAAAAAT 60.080 41.667 0.00 0.00 29.35 1.82
3636 3748 4.275936 CGGAGGGATTAGGTGCTAAAAATG 59.724 45.833 0.00 0.00 29.35 2.32
3637 3749 4.584743 GGAGGGATTAGGTGCTAAAAATGG 59.415 45.833 0.00 0.00 29.35 3.16
3638 3750 5.201243 GAGGGATTAGGTGCTAAAAATGGT 58.799 41.667 0.00 0.00 29.35 3.55
3639 3751 5.201243 AGGGATTAGGTGCTAAAAATGGTC 58.799 41.667 0.00 0.00 29.35 4.02
3640 3752 4.953579 GGGATTAGGTGCTAAAAATGGTCA 59.046 41.667 0.00 0.00 29.35 4.02
3641 3753 5.163550 GGGATTAGGTGCTAAAAATGGTCAC 60.164 44.000 0.00 0.00 29.35 3.67
3642 3754 5.163550 GGATTAGGTGCTAAAAATGGTCACC 60.164 44.000 1.75 1.75 45.53 4.02
3644 3756 3.575965 GGTGCTAAAAATGGTCACCTG 57.424 47.619 0.00 0.00 42.77 4.00
3645 3757 2.352715 GGTGCTAAAAATGGTCACCTGC 60.353 50.000 0.00 0.00 42.77 4.85
3646 3758 2.558359 GTGCTAAAAATGGTCACCTGCT 59.442 45.455 0.00 0.00 0.00 4.24
3647 3759 3.005791 GTGCTAAAAATGGTCACCTGCTT 59.994 43.478 0.00 0.00 0.00 3.91
3648 3760 4.217550 GTGCTAAAAATGGTCACCTGCTTA 59.782 41.667 0.00 0.00 0.00 3.09
3649 3761 4.458989 TGCTAAAAATGGTCACCTGCTTAG 59.541 41.667 0.00 0.00 0.00 2.18
3650 3762 3.942130 AAAAATGGTCACCTGCTTAGC 57.058 42.857 0.00 0.00 0.00 3.09
3651 3763 2.887151 AAATGGTCACCTGCTTAGCT 57.113 45.000 5.60 0.00 0.00 3.32
3658 3770 0.731417 CACCTGCTTAGCTGATGCAC 59.269 55.000 12.66 0.00 42.74 4.57
3691 3803 3.003480 GGTGAGCTGAAGTGGTTACATC 58.997 50.000 0.00 0.00 0.00 3.06
3693 3805 1.661112 GAGCTGAAGTGGTTACATCGC 59.339 52.381 0.00 0.00 0.00 4.58
3695 3807 2.496070 AGCTGAAGTGGTTACATCGCTA 59.504 45.455 0.00 0.00 34.87 4.26
3729 3841 2.447443 TGTGTTGTAGGTGCACCAAAA 58.553 42.857 36.39 23.49 38.89 2.44
3734 3846 4.705507 TGTTGTAGGTGCACCAAAACTTAA 59.294 37.500 36.39 18.44 38.89 1.85
3735 3847 5.163602 TGTTGTAGGTGCACCAAAACTTAAG 60.164 40.000 36.39 0.00 38.89 1.85
3736 3848 4.528920 TGTAGGTGCACCAAAACTTAAGT 58.471 39.130 36.39 14.99 38.89 2.24
3737 3849 4.336993 TGTAGGTGCACCAAAACTTAAGTG 59.663 41.667 36.39 0.00 38.89 3.16
3738 3850 3.361786 AGGTGCACCAAAACTTAAGTGT 58.638 40.909 36.39 9.21 38.89 3.55
3739 3851 3.130340 AGGTGCACCAAAACTTAAGTGTG 59.870 43.478 36.39 13.40 38.89 3.82
3740 3852 3.129638 GGTGCACCAAAACTTAAGTGTGA 59.870 43.478 31.23 8.86 35.64 3.58
3741 3853 4.381079 GGTGCACCAAAACTTAAGTGTGAA 60.381 41.667 31.23 12.47 35.64 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.745653 GAGAAATGGGGAAAGCGGAAG 59.254 52.381 0.00 0.00 0.00 3.46
7 8 1.074727 TGAGAAATGGGGAAAGCGGAA 59.925 47.619 0.00 0.00 0.00 4.30
20 21 3.265791 GAACATGCGAGAGGTGAGAAAT 58.734 45.455 0.00 0.00 0.00 2.17
189 200 2.109799 CTATCTGTGGCGGGGCAG 59.890 66.667 0.00 0.00 0.00 4.85
217 232 0.343372 ACTCCCCAAGCCCAGATCTA 59.657 55.000 0.00 0.00 0.00 1.98
268 283 8.986847 CAAATCACAACTATCATCCAGATCTAC 58.013 37.037 0.00 0.00 38.19 2.59
276 291 3.627577 ACGCCAAATCACAACTATCATCC 59.372 43.478 0.00 0.00 0.00 3.51
330 345 8.029642 TCTTTCAACCGCACAAAATTTAAAAA 57.970 26.923 0.00 0.00 0.00 1.94
335 350 6.744112 TCTATCTTTCAACCGCACAAAATTT 58.256 32.000 0.00 0.00 0.00 1.82
396 411 2.817901 TCATGCTCATGAGTCATGACG 58.182 47.619 34.43 23.30 44.60 4.35
404 419 8.155352 CTGACCATTTCAATTCATGCTCATGAG 61.155 40.741 18.84 18.84 40.30 2.90
405 420 5.419471 TGACCATTTCAATTCATGCTCATGA 59.581 36.000 8.37 8.37 45.30 3.07
406 421 5.656480 TGACCATTTCAATTCATGCTCATG 58.344 37.500 3.55 3.55 40.09 3.07
407 422 5.421056 ACTGACCATTTCAATTCATGCTCAT 59.579 36.000 0.00 0.00 32.21 2.90
408 423 4.768448 ACTGACCATTTCAATTCATGCTCA 59.232 37.500 0.00 0.00 32.21 4.26
409 424 5.100259 CACTGACCATTTCAATTCATGCTC 58.900 41.667 0.00 0.00 32.21 4.26
410 425 4.525487 ACACTGACCATTTCAATTCATGCT 59.475 37.500 0.00 0.00 32.21 3.79
411 426 4.813027 ACACTGACCATTTCAATTCATGC 58.187 39.130 0.00 0.00 32.21 4.06
491 507 1.153568 CTTTCTGATCCCGCGCTGA 60.154 57.895 5.56 1.66 0.00 4.26
519 535 3.074390 ACTTCTCCCATGAACACAATCCA 59.926 43.478 0.00 0.00 0.00 3.41
552 568 1.429687 CTCTAGCCCCTCTAGCCCTAA 59.570 57.143 0.00 0.00 43.55 2.69
555 571 1.911269 GCTCTAGCCCCTCTAGCCC 60.911 68.421 0.00 0.00 43.55 5.19
556 572 2.272447 CGCTCTAGCCCCTCTAGCC 61.272 68.421 0.00 0.00 43.55 3.93
557 573 1.529713 ACGCTCTAGCCCCTCTAGC 60.530 63.158 0.00 0.00 43.55 3.42
558 574 1.175983 CCACGCTCTAGCCCCTCTAG 61.176 65.000 0.00 0.00 44.90 2.43
559 575 1.152735 CCACGCTCTAGCCCCTCTA 60.153 63.158 0.00 0.00 37.91 2.43
560 576 2.443016 CCACGCTCTAGCCCCTCT 60.443 66.667 0.00 0.00 37.91 3.69
561 577 2.442272 TCCACGCTCTAGCCCCTC 60.442 66.667 0.00 0.00 37.91 4.30
562 578 2.760385 GTCCACGCTCTAGCCCCT 60.760 66.667 0.00 0.00 37.91 4.79
563 579 4.208686 CGTCCACGCTCTAGCCCC 62.209 72.222 0.00 0.00 37.91 5.80
587 603 1.432270 GCTGCCAGAATACGCTGTCC 61.432 60.000 0.00 0.00 34.06 4.02
607 623 3.100817 CAAGTTTCGACAGCAACAACAG 58.899 45.455 0.93 0.00 0.00 3.16
685 702 2.365293 ACTGAACCCAACCAAAATCAGC 59.635 45.455 0.00 0.00 38.22 4.26
693 710 3.964031 AGCAATAAAACTGAACCCAACCA 59.036 39.130 0.00 0.00 0.00 3.67
785 802 7.602517 TTTTTCAGAGCTGCTATCTAACTTC 57.397 36.000 0.15 0.00 0.00 3.01
858 882 3.584848 AGCAACTTATCTCCCAGACAACT 59.415 43.478 0.00 0.00 0.00 3.16
864 888 3.634397 TTGGAGCAACTTATCTCCCAG 57.366 47.619 5.90 0.00 46.39 4.45
874 898 6.713903 CAGGACATAATGATATTGGAGCAACT 59.286 38.462 0.00 0.00 0.00 3.16
899 923 5.861787 AGCTTACGAAAAATAAATGCACCAC 59.138 36.000 0.00 0.00 0.00 4.16
915 939 7.604927 ACACTGGTAAAAATATCAAGCTTACGA 59.395 33.333 0.00 0.00 0.00 3.43
916 940 7.748847 ACACTGGTAAAAATATCAAGCTTACG 58.251 34.615 0.00 0.00 0.00 3.18
917 941 9.341899 CAACACTGGTAAAAATATCAAGCTTAC 57.658 33.333 0.00 0.00 0.00 2.34
918 942 9.073475 ACAACACTGGTAAAAATATCAAGCTTA 57.927 29.630 0.00 0.00 0.00 3.09
920 944 7.524717 ACAACACTGGTAAAAATATCAAGCT 57.475 32.000 0.00 0.00 0.00 3.74
921 945 8.487176 CAAACAACACTGGTAAAAATATCAAGC 58.513 33.333 0.00 0.00 0.00 4.01
922 946 9.528018 ACAAACAACACTGGTAAAAATATCAAG 57.472 29.630 0.00 0.00 0.00 3.02
923 947 9.522804 GACAAACAACACTGGTAAAAATATCAA 57.477 29.630 0.00 0.00 0.00 2.57
924 948 8.687242 TGACAAACAACACTGGTAAAAATATCA 58.313 29.630 0.00 0.00 0.00 2.15
925 949 8.964150 GTGACAAACAACACTGGTAAAAATATC 58.036 33.333 0.00 0.00 34.65 1.63
926 950 7.923878 GGTGACAAACAACACTGGTAAAAATAT 59.076 33.333 0.00 0.00 36.04 1.28
927 951 7.122948 AGGTGACAAACAACACTGGTAAAAATA 59.877 33.333 0.00 0.00 38.92 1.40
928 952 6.071051 AGGTGACAAACAACACTGGTAAAAAT 60.071 34.615 0.00 0.00 38.92 1.82
929 953 5.244178 AGGTGACAAACAACACTGGTAAAAA 59.756 36.000 0.00 0.00 38.92 1.94
1089 1113 3.817084 CCTTTGACTTTGTGATCTCAGCA 59.183 43.478 0.00 0.00 0.00 4.41
1230 1254 7.935755 TCATTCATCTTAAGATCCAGGTTCATC 59.064 37.037 15.24 0.00 31.21 2.92
1356 1380 3.826157 TGACCCCAACATTCATCTTGAAC 59.174 43.478 0.00 0.00 39.45 3.18
1371 1395 3.835478 TTGGGATATTTGTTGACCCCA 57.165 42.857 0.00 0.00 41.67 4.96
1389 1413 7.408756 TGTTTCCTTCCCATTCTGATTATTG 57.591 36.000 0.00 0.00 0.00 1.90
1411 1435 1.205893 ACCATTGTGTTTGCCGTTTGT 59.794 42.857 0.00 0.00 0.00 2.83
1630 1654 6.993079 ACATATAACTGTGCGAGATGGAATA 58.007 36.000 0.00 0.00 0.00 1.75
1633 1657 4.937201 ACATATAACTGTGCGAGATGGA 57.063 40.909 0.00 0.00 0.00 3.41
1816 1840 4.881850 CGAATAAGGAGGCTTGTGGTTATT 59.118 41.667 0.00 0.00 0.00 1.40
1920 1944 9.787532 GAAATTCATAAACAGCACATAAAGCTA 57.212 29.630 0.00 0.00 41.14 3.32
1921 1945 7.761249 GGAAATTCATAAACAGCACATAAAGCT 59.239 33.333 0.00 0.00 44.62 3.74
1922 1946 7.761249 AGGAAATTCATAAACAGCACATAAAGC 59.239 33.333 0.00 0.00 0.00 3.51
1923 1947 9.643693 AAGGAAATTCATAAACAGCACATAAAG 57.356 29.630 0.00 0.00 0.00 1.85
1924 1948 9.995003 AAAGGAAATTCATAAACAGCACATAAA 57.005 25.926 0.00 0.00 0.00 1.40
1925 1949 9.995003 AAAAGGAAATTCATAAACAGCACATAA 57.005 25.926 0.00 0.00 0.00 1.90
1927 1951 9.643693 CTAAAAGGAAATTCATAAACAGCACAT 57.356 29.630 0.00 0.00 0.00 3.21
1928 1952 8.855110 TCTAAAAGGAAATTCATAAACAGCACA 58.145 29.630 0.00 0.00 0.00 4.57
1929 1953 9.860898 ATCTAAAAGGAAATTCATAAACAGCAC 57.139 29.630 0.00 0.00 0.00 4.40
1930 1954 9.859427 CATCTAAAAGGAAATTCATAAACAGCA 57.141 29.630 0.00 0.00 0.00 4.41
2065 2123 9.994432 CCATGTTTTATTACAGCTAGAAGAAAG 57.006 33.333 0.00 0.00 0.00 2.62
2066 2124 9.515226 ACCATGTTTTATTACAGCTAGAAGAAA 57.485 29.630 0.00 0.00 0.00 2.52
2096 2154 7.396540 AGAAGCACAGGAATAAATTTGGTAG 57.603 36.000 0.00 0.00 0.00 3.18
2168 2226 0.106719 CAATACGGGAAGGGCCACAT 60.107 55.000 6.18 0.00 38.95 3.21
2190 2248 2.927477 TGTACGCTTCTAATTTCAGCCG 59.073 45.455 0.00 0.00 0.00 5.52
2222 2280 3.537580 GCATGTGCATTTGGAATGGAAT 58.462 40.909 0.00 0.00 41.59 3.01
2320 2380 6.088016 TCAATGTTTGATCCTCCAAAACTG 57.912 37.500 7.02 0.16 37.72 3.16
2460 2520 7.826252 AGTATGTCAGATCATGTAAAACAAGCT 59.174 33.333 0.00 0.00 0.00 3.74
2470 2530 6.269307 TGATGGATGAGTATGTCAGATCATGT 59.731 38.462 0.00 0.00 39.07 3.21
2485 2545 4.776308 TCCTCACCTGATATGATGGATGAG 59.224 45.833 0.00 0.00 33.25 2.90
2744 2805 0.240945 CACAACCATGTTCCGAAGCC 59.759 55.000 0.00 0.00 37.82 4.35
2841 2902 0.516877 CTTGCGCTTTCATGGACGAA 59.483 50.000 9.73 0.00 0.00 3.85
2967 3028 5.863965 TGAAGAAGAACATACACATCACCA 58.136 37.500 0.00 0.00 0.00 4.17
3094 3155 2.109425 GGGTACACTCCCAACATCAC 57.891 55.000 0.00 0.00 46.30 3.06
3111 3172 4.517832 GGTAAGGTACAAAGACAACAAGGG 59.482 45.833 0.00 0.00 0.00 3.95
3123 3184 4.792513 TCCAAACCAAGGTAAGGTACAA 57.207 40.909 9.02 0.00 38.76 2.41
3148 3209 3.318839 TCAAGTCAAATGCAAGGTTCCAG 59.681 43.478 0.00 0.00 0.00 3.86
3186 3247 2.335011 GTTTCCAACACAGGCGGC 59.665 61.111 0.00 0.00 0.00 6.53
3191 3252 2.957491 TTGCAAGGTTTCCAACACAG 57.043 45.000 0.00 0.00 0.00 3.66
3192 3253 3.902881 AATTGCAAGGTTTCCAACACA 57.097 38.095 4.94 0.00 0.00 3.72
3193 3254 6.687604 AGTATAATTGCAAGGTTTCCAACAC 58.312 36.000 4.94 0.00 0.00 3.32
3194 3255 6.348950 CGAGTATAATTGCAAGGTTTCCAACA 60.349 38.462 4.94 0.00 0.00 3.33
3195 3256 6.027749 CGAGTATAATTGCAAGGTTTCCAAC 58.972 40.000 4.94 0.00 0.00 3.77
3196 3257 5.708230 ACGAGTATAATTGCAAGGTTTCCAA 59.292 36.000 4.94 0.00 0.00 3.53
3213 3283 2.029020 TGTCAAGAGCAGCAACGAGTAT 60.029 45.455 0.00 0.00 0.00 2.12
3225 3295 3.360249 ACAAAGCAACATGTCAAGAGC 57.640 42.857 0.00 0.00 0.00 4.09
3232 3302 1.569708 CGGCAAACAAAGCAACATGT 58.430 45.000 0.00 0.00 0.00 3.21
3260 3340 3.084579 GCGACAGCGTCATCAAGG 58.915 61.111 8.91 0.00 40.36 3.61
3300 3383 3.671928 ACTACATTCGTGTACGTGAAAGC 59.328 43.478 0.00 0.00 40.80 3.51
3313 3396 8.912787 AACAGAGAAGTACATAACTACATTCG 57.087 34.615 0.00 0.00 37.50 3.34
3381 3493 9.809096 CTCTAAAATGCGTCTATATACATCCAT 57.191 33.333 0.00 0.00 0.00 3.41
3382 3494 8.803235 ACTCTAAAATGCGTCTATATACATCCA 58.197 33.333 0.00 0.00 0.00 3.41
3383 3495 9.077674 CACTCTAAAATGCGTCTATATACATCC 57.922 37.037 0.00 0.00 0.00 3.51
3384 3496 9.627395 ACACTCTAAAATGCGTCTATATACATC 57.373 33.333 0.00 0.00 0.00 3.06
3390 3502 9.894783 GAATCTACACTCTAAAATGCGTCTATA 57.105 33.333 0.00 0.00 0.00 1.31
3391 3503 8.414003 TGAATCTACACTCTAAAATGCGTCTAT 58.586 33.333 0.00 0.00 0.00 1.98
3392 3504 7.701078 GTGAATCTACACTCTAAAATGCGTCTA 59.299 37.037 0.00 0.00 37.73 2.59
3393 3505 6.531948 GTGAATCTACACTCTAAAATGCGTCT 59.468 38.462 0.00 0.00 37.73 4.18
3394 3506 6.531948 AGTGAATCTACACTCTAAAATGCGTC 59.468 38.462 0.00 0.00 46.36 5.19
3395 3507 6.398918 AGTGAATCTACACTCTAAAATGCGT 58.601 36.000 0.00 0.00 46.36 5.24
3396 3508 6.893958 AGTGAATCTACACTCTAAAATGCG 57.106 37.500 0.00 0.00 46.36 4.73
3484 3596 8.691797 GGGGCTACATTTGTAAAGATTTCAATA 58.308 33.333 0.00 0.00 0.00 1.90
3485 3597 7.400052 AGGGGCTACATTTGTAAAGATTTCAAT 59.600 33.333 0.00 0.00 0.00 2.57
3486 3598 6.723977 AGGGGCTACATTTGTAAAGATTTCAA 59.276 34.615 0.00 0.00 0.00 2.69
3487 3599 6.252995 AGGGGCTACATTTGTAAAGATTTCA 58.747 36.000 0.00 0.00 0.00 2.69
3488 3600 6.775594 AGGGGCTACATTTGTAAAGATTTC 57.224 37.500 0.00 0.00 0.00 2.17
3489 3601 7.893833 AGTAAGGGGCTACATTTGTAAAGATTT 59.106 33.333 0.00 0.00 0.00 2.17
3490 3602 7.339466 CAGTAAGGGGCTACATTTGTAAAGATT 59.661 37.037 0.00 0.00 0.00 2.40
3491 3603 6.828785 CAGTAAGGGGCTACATTTGTAAAGAT 59.171 38.462 0.00 0.00 0.00 2.40
3492 3604 6.013206 TCAGTAAGGGGCTACATTTGTAAAGA 60.013 38.462 0.00 0.00 0.00 2.52
3493 3605 6.177610 TCAGTAAGGGGCTACATTTGTAAAG 58.822 40.000 0.00 0.00 0.00 1.85
3494 3606 6.129414 TCAGTAAGGGGCTACATTTGTAAA 57.871 37.500 0.00 0.00 0.00 2.01
3495 3607 5.765576 TCAGTAAGGGGCTACATTTGTAA 57.234 39.130 0.00 0.00 0.00 2.41
3496 3608 5.765576 TTCAGTAAGGGGCTACATTTGTA 57.234 39.130 0.00 0.00 0.00 2.41
3497 3609 4.650972 TTCAGTAAGGGGCTACATTTGT 57.349 40.909 0.00 0.00 0.00 2.83
3498 3610 5.888161 AGATTTCAGTAAGGGGCTACATTTG 59.112 40.000 0.00 0.00 0.00 2.32
3499 3611 6.069381 AGAGATTTCAGTAAGGGGCTACATTT 60.069 38.462 0.00 0.00 0.00 2.32
3500 3612 5.430089 AGAGATTTCAGTAAGGGGCTACATT 59.570 40.000 0.00 0.00 0.00 2.71
3501 3613 4.971924 AGAGATTTCAGTAAGGGGCTACAT 59.028 41.667 0.00 0.00 0.00 2.29
3502 3614 4.362677 AGAGATTTCAGTAAGGGGCTACA 58.637 43.478 0.00 0.00 0.00 2.74
3503 3615 6.481434 TTAGAGATTTCAGTAAGGGGCTAC 57.519 41.667 0.00 0.00 0.00 3.58
3504 3616 7.504926 TTTTAGAGATTTCAGTAAGGGGCTA 57.495 36.000 0.00 0.00 0.00 3.93
3505 3617 6.388619 TTTTAGAGATTTCAGTAAGGGGCT 57.611 37.500 0.00 0.00 0.00 5.19
3506 3618 6.884836 TCTTTTTAGAGATTTCAGTAAGGGGC 59.115 38.462 0.00 0.00 0.00 5.80
3507 3619 8.103935 AGTCTTTTTAGAGATTTCAGTAAGGGG 58.896 37.037 0.00 0.00 0.00 4.79
3508 3620 9.157104 GAGTCTTTTTAGAGATTTCAGTAAGGG 57.843 37.037 0.00 0.00 0.00 3.95
3509 3621 9.712305 TGAGTCTTTTTAGAGATTTCAGTAAGG 57.288 33.333 0.00 0.00 0.00 2.69
3592 3704 8.565416 CCTCCGTTTCTAAATACAAGTCTTTTT 58.435 33.333 0.00 0.00 0.00 1.94
3593 3705 7.174426 CCCTCCGTTTCTAAATACAAGTCTTTT 59.826 37.037 0.00 0.00 0.00 2.27
3594 3706 6.653740 CCCTCCGTTTCTAAATACAAGTCTTT 59.346 38.462 0.00 0.00 0.00 2.52
3595 3707 6.013984 TCCCTCCGTTTCTAAATACAAGTCTT 60.014 38.462 0.00 0.00 0.00 3.01
3596 3708 5.482878 TCCCTCCGTTTCTAAATACAAGTCT 59.517 40.000 0.00 0.00 0.00 3.24
3597 3709 5.727434 TCCCTCCGTTTCTAAATACAAGTC 58.273 41.667 0.00 0.00 0.00 3.01
3598 3710 5.750352 TCCCTCCGTTTCTAAATACAAGT 57.250 39.130 0.00 0.00 0.00 3.16
3599 3711 7.441458 CCTAATCCCTCCGTTTCTAAATACAAG 59.559 40.741 0.00 0.00 0.00 3.16
3600 3712 7.092757 ACCTAATCCCTCCGTTTCTAAATACAA 60.093 37.037 0.00 0.00 0.00 2.41
3601 3713 6.384886 ACCTAATCCCTCCGTTTCTAAATACA 59.615 38.462 0.00 0.00 0.00 2.29
3602 3714 6.704937 CACCTAATCCCTCCGTTTCTAAATAC 59.295 42.308 0.00 0.00 0.00 1.89
3603 3715 6.687139 GCACCTAATCCCTCCGTTTCTAAATA 60.687 42.308 0.00 0.00 0.00 1.40
3604 3716 5.681639 CACCTAATCCCTCCGTTTCTAAAT 58.318 41.667 0.00 0.00 0.00 1.40
3605 3717 4.624604 GCACCTAATCCCTCCGTTTCTAAA 60.625 45.833 0.00 0.00 0.00 1.85
3606 3718 3.118519 GCACCTAATCCCTCCGTTTCTAA 60.119 47.826 0.00 0.00 0.00 2.10
3607 3719 2.433239 GCACCTAATCCCTCCGTTTCTA 59.567 50.000 0.00 0.00 0.00 2.10
3608 3720 1.209747 GCACCTAATCCCTCCGTTTCT 59.790 52.381 0.00 0.00 0.00 2.52
3609 3721 1.209747 AGCACCTAATCCCTCCGTTTC 59.790 52.381 0.00 0.00 0.00 2.78
3610 3722 1.286248 AGCACCTAATCCCTCCGTTT 58.714 50.000 0.00 0.00 0.00 3.60
3611 3723 2.170012 TAGCACCTAATCCCTCCGTT 57.830 50.000 0.00 0.00 0.00 4.44
3612 3724 2.170012 TTAGCACCTAATCCCTCCGT 57.830 50.000 0.00 0.00 0.00 4.69
3613 3725 3.553828 TTTTAGCACCTAATCCCTCCG 57.446 47.619 0.00 0.00 0.00 4.63
3614 3726 4.584743 CCATTTTTAGCACCTAATCCCTCC 59.415 45.833 0.00 0.00 0.00 4.30
3615 3727 5.201243 ACCATTTTTAGCACCTAATCCCTC 58.799 41.667 0.00 0.00 0.00 4.30
3616 3728 5.201243 GACCATTTTTAGCACCTAATCCCT 58.799 41.667 0.00 0.00 0.00 4.20
3617 3729 4.953579 TGACCATTTTTAGCACCTAATCCC 59.046 41.667 0.00 0.00 0.00 3.85
3618 3730 5.163550 GGTGACCATTTTTAGCACCTAATCC 60.164 44.000 0.00 0.00 44.23 3.01
3619 3731 5.891451 GGTGACCATTTTTAGCACCTAATC 58.109 41.667 0.00 0.00 44.23 1.75
3620 3732 5.914898 GGTGACCATTTTTAGCACCTAAT 57.085 39.130 0.00 0.00 44.23 1.73
3625 3737 2.558359 AGCAGGTGACCATTTTTAGCAC 59.442 45.455 3.63 0.00 0.00 4.40
3626 3738 2.875296 AGCAGGTGACCATTTTTAGCA 58.125 42.857 3.63 0.00 0.00 3.49
3627 3739 3.942130 AAGCAGGTGACCATTTTTAGC 57.058 42.857 3.63 0.00 0.00 3.09
3628 3740 4.702131 AGCTAAGCAGGTGACCATTTTTAG 59.298 41.667 3.63 7.51 0.00 1.85
3629 3741 4.662278 AGCTAAGCAGGTGACCATTTTTA 58.338 39.130 3.63 0.00 0.00 1.52
3630 3742 3.500343 AGCTAAGCAGGTGACCATTTTT 58.500 40.909 3.63 0.00 0.00 1.94
3631 3743 3.160679 AGCTAAGCAGGTGACCATTTT 57.839 42.857 3.63 0.00 0.00 1.82
3632 3744 2.887151 AGCTAAGCAGGTGACCATTT 57.113 45.000 3.63 0.00 0.00 2.32
3640 3752 0.325933 TGTGCATCAGCTAAGCAGGT 59.674 50.000 7.10 0.00 42.74 4.00
3641 3753 1.015109 CTGTGCATCAGCTAAGCAGG 58.985 55.000 7.10 1.31 42.74 4.85
3650 3762 1.671328 CAATCCTCAGCTGTGCATCAG 59.329 52.381 14.67 10.75 46.12 2.90
3651 3763 1.680860 CCAATCCTCAGCTGTGCATCA 60.681 52.381 14.67 0.00 0.00 3.07
3658 3770 0.252479 AGCTCACCAATCCTCAGCTG 59.748 55.000 7.63 7.63 39.02 4.24
3666 3778 2.191128 ACCACTTCAGCTCACCAATC 57.809 50.000 0.00 0.00 0.00 2.67
3691 3803 3.119291 CACAACCTTGATCTAGCTAGCG 58.881 50.000 16.35 0.00 0.00 4.26
3693 3805 5.482908 ACAACACAACCTTGATCTAGCTAG 58.517 41.667 15.01 15.01 0.00 3.42
3695 3807 4.357918 ACAACACAACCTTGATCTAGCT 57.642 40.909 0.00 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.