Multiple sequence alignment - TraesCS7A01G456800

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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 TraesCS7A01G456800 chr7A 100.000 3806 0 0 1 3806 652537568 652541373 0.000000e+00 7029
1 TraesCS7A01G456800 chr7A 81.338 2422 395 37 1015 3389 652286451 652288862 0.000000e+00 1916
2 TraesCS7A01G456800 chr7A 80.974 2423 412 24 1000 3390 652356913 652359318 0.000000e+00 1875
3 TraesCS7A01G456800 chr7A 79.941 2368 447 19 1071 3419 652175089 652177447 0.000000e+00 1716
4 TraesCS7A01G456800 chr7A 79.802 2426 432 31 1007 3390 652337983 652340392 0.000000e+00 1712
5 TraesCS7A01G456800 chr7A 80.964 2033 349 28 1414 3419 652163852 652165873 0.000000e+00 1576
6 TraesCS7A01G456800 chr7D 95.085 2706 125 5 763 3467 566252741 566255439 0.000000e+00 4253
7 TraesCS7A01G456800 chr7D 82.164 2422 398 20 997 3390 566037455 566039870 0.000000e+00 2049
8 TraesCS7A01G456800 chr7D 82.171 2423 381 31 1008 3386 566013975 566016390 0.000000e+00 2034
9 TraesCS7A01G456800 chr7D 81.403 2452 420 21 997 3419 565617385 565619829 0.000000e+00 1969
10 TraesCS7A01G456800 chr7D 94.064 657 29 3 755 1408 566240995 566241644 0.000000e+00 989
11 TraesCS7A01G456800 chr7D 92.212 565 21 8 215 763 566235150 566235707 0.000000e+00 778
12 TraesCS7A01G456800 chr7D 83.416 603 86 12 2793 3388 565613909 565613314 7.190000e-152 547
13 TraesCS7A01G456800 chr7D 86.559 372 31 10 407 763 566252225 566252592 3.560000e-105 392
14 TraesCS7A01G456800 chr7D 86.301 219 25 3 1 217 566234895 566235110 2.290000e-57 233
15 TraesCS7A01G456800 chr7D 92.857 70 4 1 3465 3533 566255473 566255542 2.420000e-17 100
16 TraesCS7A01G456800 chr7B 81.960 2439 388 33 1000 3407 616749908 616747491 0.000000e+00 2019
17 TraesCS7A01G456800 chr7B 81.557 2440 410 24 1011 3419 616836254 616838684 0.000000e+00 1977
18 TraesCS7A01G456800 chr7B 80.341 1933 344 23 1485 3390 617578215 617580138 0.000000e+00 1432
19 TraesCS7A01G456800 chr7B 90.580 138 13 0 3669 3806 619162750 619162887 2.340000e-42 183


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 TraesCS7A01G456800 chr7A 652537568 652541373 3805 False 7029.000000 7029 100.000000 1 3806 1 chr7A.!!$F6 3805
1 TraesCS7A01G456800 chr7A 652286451 652288862 2411 False 1916.000000 1916 81.338000 1015 3389 1 chr7A.!!$F3 2374
2 TraesCS7A01G456800 chr7A 652356913 652359318 2405 False 1875.000000 1875 80.974000 1000 3390 1 chr7A.!!$F5 2390
3 TraesCS7A01G456800 chr7A 652175089 652177447 2358 False 1716.000000 1716 79.941000 1071 3419 1 chr7A.!!$F2 2348
4 TraesCS7A01G456800 chr7A 652337983 652340392 2409 False 1712.000000 1712 79.802000 1007 3390 1 chr7A.!!$F4 2383
5 TraesCS7A01G456800 chr7A 652163852 652165873 2021 False 1576.000000 1576 80.964000 1414 3419 1 chr7A.!!$F1 2005
6 TraesCS7A01G456800 chr7D 566037455 566039870 2415 False 2049.000000 2049 82.164000 997 3390 1 chr7D.!!$F3 2393
7 TraesCS7A01G456800 chr7D 566013975 566016390 2415 False 2034.000000 2034 82.171000 1008 3386 1 chr7D.!!$F2 2378
8 TraesCS7A01G456800 chr7D 565617385 565619829 2444 False 1969.000000 1969 81.403000 997 3419 1 chr7D.!!$F1 2422
9 TraesCS7A01G456800 chr7D 566252225 566255542 3317 False 1581.666667 4253 91.500333 407 3533 3 chr7D.!!$F6 3126
10 TraesCS7A01G456800 chr7D 566240995 566241644 649 False 989.000000 989 94.064000 755 1408 1 chr7D.!!$F4 653
11 TraesCS7A01G456800 chr7D 565613314 565613909 595 True 547.000000 547 83.416000 2793 3388 1 chr7D.!!$R1 595
12 TraesCS7A01G456800 chr7D 566234895 566235707 812 False 505.500000 778 89.256500 1 763 2 chr7D.!!$F5 762
13 TraesCS7A01G456800 chr7B 616747491 616749908 2417 True 2019.000000 2019 81.960000 1000 3407 1 chr7B.!!$R1 2407
14 TraesCS7A01G456800 chr7B 616836254 616838684 2430 False 1977.000000 1977 81.557000 1011 3419 1 chr7B.!!$F1 2408
15 TraesCS7A01G456800 chr7B 617578215 617580138 1923 False 1432.000000 1432 80.341000 1485 3390 1 chr7B.!!$F2 1905

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
628 698 0.110238 CTTGTGTCAATTGGACCGCG 60.110 55.0 5.42 0.0 46.38 6.46 F
1907 2159 0.516001 GACGTGTACGCTCTCTGTGA 59.484 55.0 4.67 0.0 44.43 3.58 F
2395 2677 0.672342 GGCCACGTCGGTCATACTAT 59.328 55.0 0.00 0.0 40.18 2.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2618 2906 0.555769 TTTGTCTCCCTGGCAAAGGT 59.444 50.0 4.16 0.0 44.28 3.50 R
2779 3080 0.036105 CTCAGGCATGCACCTACACA 60.036 55.0 21.36 0.0 38.26 3.72 R
3662 4014 0.036952 CCTCGTCCATGCACTTGACT 60.037 55.0 9.57 0.0 0.00 3.41 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 6.201044 CAGATACTACGGTGATAGCAAAAAGG 59.799 42.308 0.00 0.00 0.00 3.11
32 33 2.871453 ACGGTGATAGCAAAAAGGGTT 58.129 42.857 0.00 0.00 0.00 4.11
36 37 4.094442 CGGTGATAGCAAAAAGGGTTAGAC 59.906 45.833 0.00 0.00 0.00 2.59
63 64 1.894756 TTTTTGCGGTCGGGGTCAG 60.895 57.895 0.00 0.00 0.00 3.51
69 70 3.537874 GGTCGGGGTCAGATCCGG 61.538 72.222 13.20 7.96 45.69 5.14
76 77 0.831307 GGGTCAGATCCGGCTAAACT 59.169 55.000 0.00 0.00 0.00 2.66
77 78 1.209747 GGGTCAGATCCGGCTAAACTT 59.790 52.381 0.00 0.00 0.00 2.66
86 87 2.358267 TCCGGCTAAACTTTCGCAAAAA 59.642 40.909 0.00 0.00 0.00 1.94
95 96 6.546972 AAACTTTCGCAAAAAGGTCAAAAA 57.453 29.167 11.91 0.00 0.00 1.94
98 99 5.641636 ACTTTCGCAAAAAGGTCAAAAACAT 59.358 32.000 11.91 0.00 0.00 2.71
129 130 1.743431 CGCATAGTGACAATGAGCCCA 60.743 52.381 0.00 0.00 0.00 5.36
176 179 2.359531 GCTGGCAGACTAGTACTAGTGG 59.640 54.545 34.67 26.33 45.63 4.00
182 185 5.128991 GGCAGACTAGTACTAGTGGGAAAAT 59.871 44.000 34.67 12.07 45.63 1.82
189 192 3.933861 ACTAGTGGGAAAATGGCCTAG 57.066 47.619 3.32 0.00 0.00 3.02
208 211 4.210120 CCTAGCGCTCAATTAAGACATGAC 59.790 45.833 16.34 0.00 0.00 3.06
224 269 3.716353 ACATGACCTAGGGTGCATTCATA 59.284 43.478 14.81 0.00 35.25 2.15
249 304 2.371179 TCCATTCCAGCAGGATCTGATC 59.629 50.000 9.18 9.18 45.26 2.92
266 321 2.226674 TGATCAGTCGGAGCATCGTATC 59.773 50.000 0.00 0.00 36.91 2.24
277 332 3.983741 AGCATCGTATCACCTAAGAAGC 58.016 45.455 0.00 0.00 34.20 3.86
313 368 2.111384 GTTGCCTCCACTCTCATCCTA 58.889 52.381 0.00 0.00 0.00 2.94
318 373 2.534990 CTCCACTCTCATCCTATCCCC 58.465 57.143 0.00 0.00 0.00 4.81
344 399 2.561478 TCTGGGGTAGTTGTTGCTTC 57.439 50.000 0.00 0.00 0.00 3.86
356 411 2.042464 TGTTGCTTCAGTGGAGTCTCT 58.958 47.619 0.00 0.00 0.00 3.10
363 418 3.162147 TCAGTGGAGTCTCTAGCAACT 57.838 47.619 0.00 0.00 0.00 3.16
419 474 3.412386 GATGCGGCAAGGGAGTATTTAT 58.588 45.455 6.82 0.00 0.00 1.40
420 475 4.575885 GATGCGGCAAGGGAGTATTTATA 58.424 43.478 6.82 0.00 0.00 0.98
628 698 0.110238 CTTGTGTCAATTGGACCGCG 60.110 55.000 5.42 0.00 46.38 6.46
647 720 0.958876 GGCTAACCGTCCCAACAAGG 60.959 60.000 0.00 0.00 37.03 3.61
665 738 3.323751 AGGCATGCCAAAAATTCTGAC 57.676 42.857 37.18 6.57 38.92 3.51
717 793 1.523154 GCGCCCTGTCCAAATTGTCA 61.523 55.000 0.00 0.00 0.00 3.58
810 1035 8.950210 CAACCAAATCACAAATCAGTAGTAGAT 58.050 33.333 0.00 0.00 0.00 1.98
913 1141 3.585862 ACGAATGCACGAACAGTAGAAT 58.414 40.909 3.48 0.00 37.03 2.40
937 1165 1.755161 ATAAGTATGTGTCGCTCGCG 58.245 50.000 0.00 0.00 41.35 5.87
938 1166 0.728542 TAAGTATGTGTCGCTCGCGA 59.271 50.000 9.26 9.26 46.87 5.87
998 1226 2.493278 CAAATTCTTTCTGCGTCCCCAT 59.507 45.455 0.00 0.00 0.00 4.00
1344 1584 4.719369 GCCTCGCTGGTCGTCGTT 62.719 66.667 0.00 0.00 39.67 3.85
1373 1616 1.442526 AACCTGTCGTCGTCGTCACT 61.443 55.000 1.33 0.00 38.33 3.41
1447 1690 1.073897 GGCAGCAACTCCTCCAACT 59.926 57.895 0.00 0.00 0.00 3.16
1465 1708 2.831043 TGCTGTGGCAGAGCTTCA 59.169 55.556 32.76 14.08 44.28 3.02
1491 1734 1.960763 GACAGACACGCACATGCCA 60.961 57.895 0.00 0.00 37.91 4.92
1907 2159 0.516001 GACGTGTACGCTCTCTGTGA 59.484 55.000 4.67 0.00 44.43 3.58
1936 2188 1.148157 CGTATGCAACCAGAGGAGCG 61.148 60.000 0.00 0.00 32.11 5.03
2025 2277 4.309950 GGTGGTTGTCGCCGGAGT 62.310 66.667 5.05 0.00 36.17 3.85
2164 2416 2.959507 ATCCGCTTGCCAAAATAACC 57.040 45.000 0.00 0.00 0.00 2.85
2215 2473 2.899838 GTTGCACCGTCTGGCACA 60.900 61.111 0.00 0.00 40.23 4.57
2232 2490 2.930455 GCACAGAGAGCTCAAGAACCTC 60.930 54.545 17.77 2.36 0.00 3.85
2395 2677 0.672342 GGCCACGTCGGTCATACTAT 59.328 55.000 0.00 0.00 40.18 2.12
2552 2840 2.089887 TTTGGCTCAGTGTACCGCGA 62.090 55.000 8.23 0.00 0.00 5.87
2584 2872 0.951558 GCAAATGGGAGACAACACGT 59.048 50.000 0.00 0.00 0.00 4.49
2618 2906 1.956477 GGCAGTCAAGAAGCTGGAAAA 59.044 47.619 0.00 0.00 33.62 2.29
2674 2975 3.807538 GCACACTGGGCTGCATCG 61.808 66.667 0.50 0.00 33.31 3.84
2779 3080 3.309296 TCCCTCGATGGCTATCTTTTCT 58.691 45.455 8.55 0.00 0.00 2.52
2810 3111 0.250467 TGCCTGAGCTGGTGAGAAAC 60.250 55.000 0.00 0.00 40.80 2.78
2819 3120 2.033151 GCTGGTGAGAAACGTACAACAC 60.033 50.000 0.00 0.00 0.00 3.32
2923 3224 1.033574 CATCCTACTGGACGAGGACC 58.966 60.000 0.00 0.00 46.51 4.46
3407 3722 0.657840 GAGTGTTGCAACAGCTCGTT 59.342 50.000 31.81 13.36 40.05 3.85
3501 3852 2.699251 TGTACTACTGTCACAGCACG 57.301 50.000 4.13 0.00 34.37 5.34
3502 3853 1.268625 TGTACTACTGTCACAGCACGG 59.731 52.381 4.13 0.00 34.37 4.94
3508 3859 4.927782 GTCACAGCACGGGTGGCA 62.928 66.667 0.43 0.00 40.49 4.92
3513 3864 4.101448 AGCACGGGTGGCAGATCC 62.101 66.667 0.43 0.00 0.00 3.36
3533 3885 7.863375 CAGATCCTAAAGTGTTACTCTAATCCG 59.137 40.741 0.00 0.00 0.00 4.18
3534 3886 5.899299 TCCTAAAGTGTTACTCTAATCCGC 58.101 41.667 0.00 0.00 0.00 5.54
3535 3887 4.738740 CCTAAAGTGTTACTCTAATCCGCG 59.261 45.833 0.00 0.00 0.00 6.46
3536 3888 4.445452 AAAGTGTTACTCTAATCCGCGA 57.555 40.909 8.23 0.00 0.00 5.87
3537 3889 4.445452 AAGTGTTACTCTAATCCGCGAA 57.555 40.909 8.23 0.00 0.00 4.70
3538 3890 3.767278 AGTGTTACTCTAATCCGCGAAC 58.233 45.455 8.23 0.33 0.00 3.95
3539 3891 3.192001 AGTGTTACTCTAATCCGCGAACA 59.808 43.478 8.23 3.55 0.00 3.18
3540 3892 3.922240 GTGTTACTCTAATCCGCGAACAA 59.078 43.478 8.23 0.00 0.00 2.83
3541 3893 3.922240 TGTTACTCTAATCCGCGAACAAC 59.078 43.478 8.23 0.00 0.00 3.32
3542 3894 4.171754 GTTACTCTAATCCGCGAACAACT 58.828 43.478 8.23 0.00 0.00 3.16
3543 3895 2.607187 ACTCTAATCCGCGAACAACTG 58.393 47.619 8.23 0.00 0.00 3.16
3544 3896 1.324736 CTCTAATCCGCGAACAACTGC 59.675 52.381 8.23 0.00 0.00 4.40
3545 3897 1.075542 CTAATCCGCGAACAACTGCA 58.924 50.000 8.23 0.00 0.00 4.41
3546 3898 0.793861 TAATCCGCGAACAACTGCAC 59.206 50.000 8.23 0.00 0.00 4.57
3547 3899 1.852067 AATCCGCGAACAACTGCACC 61.852 55.000 8.23 0.00 0.00 5.01
3548 3900 4.025401 CCGCGAACAACTGCACCC 62.025 66.667 8.23 0.00 0.00 4.61
3549 3901 4.368808 CGCGAACAACTGCACCCG 62.369 66.667 0.00 0.00 0.00 5.28
3550 3902 3.276846 GCGAACAACTGCACCCGT 61.277 61.111 0.00 0.00 0.00 5.28
3551 3903 1.957186 GCGAACAACTGCACCCGTA 60.957 57.895 0.00 0.00 0.00 4.02
3552 3904 1.296056 GCGAACAACTGCACCCGTAT 61.296 55.000 0.00 0.00 0.00 3.06
3553 3905 0.442310 CGAACAACTGCACCCGTATG 59.558 55.000 0.00 0.00 0.00 2.39
3554 3906 1.803334 GAACAACTGCACCCGTATGA 58.197 50.000 0.00 0.00 0.00 2.15
3555 3907 2.147958 GAACAACTGCACCCGTATGAA 58.852 47.619 0.00 0.00 0.00 2.57
3556 3908 1.519408 ACAACTGCACCCGTATGAAC 58.481 50.000 0.00 0.00 0.00 3.18
3557 3909 1.071699 ACAACTGCACCCGTATGAACT 59.928 47.619 0.00 0.00 0.00 3.01
3558 3910 1.464608 CAACTGCACCCGTATGAACTG 59.535 52.381 0.00 0.00 0.00 3.16
3559 3911 0.685097 ACTGCACCCGTATGAACTGT 59.315 50.000 0.00 0.00 0.00 3.55
3560 3912 1.078709 CTGCACCCGTATGAACTGTG 58.921 55.000 0.00 0.00 32.30 3.66
3561 3913 0.682292 TGCACCCGTATGAACTGTGA 59.318 50.000 0.00 0.00 31.33 3.58
3562 3914 1.070914 TGCACCCGTATGAACTGTGAA 59.929 47.619 0.00 0.00 31.33 3.18
3563 3915 2.290008 TGCACCCGTATGAACTGTGAAT 60.290 45.455 0.00 0.00 31.33 2.57
3564 3916 2.747446 GCACCCGTATGAACTGTGAATT 59.253 45.455 0.00 0.00 31.33 2.17
3565 3917 3.181510 GCACCCGTATGAACTGTGAATTC 60.182 47.826 0.00 0.00 31.33 2.17
3566 3918 4.253685 CACCCGTATGAACTGTGAATTCT 58.746 43.478 7.05 0.00 31.33 2.40
3567 3919 5.416083 CACCCGTATGAACTGTGAATTCTA 58.584 41.667 7.05 0.00 31.33 2.10
3568 3920 5.520288 CACCCGTATGAACTGTGAATTCTAG 59.480 44.000 7.05 7.75 31.33 2.43
3569 3921 5.421056 ACCCGTATGAACTGTGAATTCTAGA 59.579 40.000 14.53 0.00 0.00 2.43
3570 3922 5.980116 CCCGTATGAACTGTGAATTCTAGAG 59.020 44.000 14.53 8.31 0.00 2.43
3571 3923 6.183360 CCCGTATGAACTGTGAATTCTAGAGA 60.183 42.308 14.53 2.14 0.00 3.10
3572 3924 7.258441 CCGTATGAACTGTGAATTCTAGAGAA 58.742 38.462 14.53 0.00 38.56 2.87
3573 3925 7.759886 CCGTATGAACTGTGAATTCTAGAGAAA 59.240 37.037 14.53 0.00 37.61 2.52
3574 3926 9.307121 CGTATGAACTGTGAATTCTAGAGAAAT 57.693 33.333 14.53 0.00 37.61 2.17
3578 3930 9.645059 TGAACTGTGAATTCTAGAGAAATAGTG 57.355 33.333 14.53 0.00 37.61 2.74
3579 3931 9.862371 GAACTGTGAATTCTAGAGAAATAGTGA 57.138 33.333 14.53 0.00 37.61 3.41
3612 3964 3.967332 AAAAATATGCTGCTGGTTGCT 57.033 38.095 0.00 0.00 43.37 3.91
3613 3965 3.515330 AAAATATGCTGCTGGTTGCTC 57.485 42.857 0.00 0.00 43.37 4.26
3614 3966 1.396653 AATATGCTGCTGGTTGCTCC 58.603 50.000 0.00 0.00 43.37 4.70
3615 3967 0.256752 ATATGCTGCTGGTTGCTCCA 59.743 50.000 0.00 1.68 45.01 3.86
3616 3968 0.256752 TATGCTGCTGGTTGCTCCAT 59.743 50.000 0.00 0.00 46.12 3.41
3617 3969 0.613853 ATGCTGCTGGTTGCTCCATT 60.614 50.000 0.00 0.00 46.12 3.16
3618 3970 0.038021 TGCTGCTGGTTGCTCCATTA 59.962 50.000 0.00 0.00 46.12 1.90
3619 3971 0.737219 GCTGCTGGTTGCTCCATTAG 59.263 55.000 0.00 5.21 46.12 1.73
3620 3972 1.386533 CTGCTGGTTGCTCCATTAGG 58.613 55.000 2.00 0.00 46.12 2.69
3621 3973 0.991146 TGCTGGTTGCTCCATTAGGA 59.009 50.000 2.00 0.00 46.12 2.94
3622 3974 1.565759 TGCTGGTTGCTCCATTAGGAT 59.434 47.619 2.00 0.00 46.12 3.24
3623 3975 1.952296 GCTGGTTGCTCCATTAGGATG 59.048 52.381 2.00 0.00 46.12 3.51
3624 3976 2.421952 GCTGGTTGCTCCATTAGGATGA 60.422 50.000 2.00 0.00 46.12 2.92
3625 3977 3.209410 CTGGTTGCTCCATTAGGATGAC 58.791 50.000 2.00 0.00 46.12 3.06
3626 3978 2.213499 GGTTGCTCCATTAGGATGACG 58.787 52.381 0.00 0.00 44.70 4.35
3627 3979 2.213499 GTTGCTCCATTAGGATGACGG 58.787 52.381 0.00 0.00 44.70 4.79
3628 3980 0.106708 TGCTCCATTAGGATGACGGC 59.893 55.000 0.00 0.00 44.70 5.68
3629 3981 0.946221 GCTCCATTAGGATGACGGCG 60.946 60.000 4.80 4.80 44.70 6.46
3630 3982 0.319900 CTCCATTAGGATGACGGCGG 60.320 60.000 13.24 0.00 44.70 6.13
3631 3983 1.046472 TCCATTAGGATGACGGCGGT 61.046 55.000 13.24 0.00 39.61 5.68
3632 3984 0.179056 CCATTAGGATGACGGCGGTT 60.179 55.000 13.24 0.00 36.89 4.44
3633 3985 1.217882 CATTAGGATGACGGCGGTTC 58.782 55.000 13.24 4.54 35.16 3.62
3634 3986 1.120530 ATTAGGATGACGGCGGTTCT 58.879 50.000 13.24 3.37 0.00 3.01
3635 3987 0.174845 TTAGGATGACGGCGGTTCTG 59.825 55.000 13.24 0.00 0.00 3.02
3636 3988 0.968901 TAGGATGACGGCGGTTCTGT 60.969 55.000 13.24 0.00 36.89 3.41
3637 3989 0.968901 AGGATGACGGCGGTTCTGTA 60.969 55.000 13.24 0.00 33.57 2.74
3638 3990 0.527817 GGATGACGGCGGTTCTGTAG 60.528 60.000 13.24 0.00 33.57 2.74
3639 3991 1.146358 GATGACGGCGGTTCTGTAGC 61.146 60.000 13.24 0.00 33.57 3.58
3640 3992 1.605058 ATGACGGCGGTTCTGTAGCT 61.605 55.000 13.24 0.00 33.57 3.32
3641 3993 1.080025 GACGGCGGTTCTGTAGCTT 60.080 57.895 13.24 0.00 33.57 3.74
3642 3994 0.669625 GACGGCGGTTCTGTAGCTTT 60.670 55.000 13.24 0.00 33.57 3.51
3643 3995 0.949105 ACGGCGGTTCTGTAGCTTTG 60.949 55.000 13.24 0.00 31.06 2.77
3644 3996 0.949105 CGGCGGTTCTGTAGCTTTGT 60.949 55.000 0.00 0.00 0.00 2.83
3645 3997 0.517316 GGCGGTTCTGTAGCTTTGTG 59.483 55.000 0.00 0.00 0.00 3.33
3646 3998 0.517316 GCGGTTCTGTAGCTTTGTGG 59.483 55.000 0.00 0.00 0.00 4.17
3647 3999 1.878953 CGGTTCTGTAGCTTTGTGGT 58.121 50.000 0.00 0.00 0.00 4.16
3648 4000 2.218603 CGGTTCTGTAGCTTTGTGGTT 58.781 47.619 0.00 0.00 0.00 3.67
3649 4001 3.395639 CGGTTCTGTAGCTTTGTGGTTA 58.604 45.455 0.00 0.00 0.00 2.85
3650 4002 3.185797 CGGTTCTGTAGCTTTGTGGTTAC 59.814 47.826 0.00 0.00 0.00 2.50
3651 4003 4.386711 GGTTCTGTAGCTTTGTGGTTACT 58.613 43.478 0.00 0.00 0.00 2.24
3652 4004 4.820173 GGTTCTGTAGCTTTGTGGTTACTT 59.180 41.667 0.00 0.00 0.00 2.24
3653 4005 5.993441 GGTTCTGTAGCTTTGTGGTTACTTA 59.007 40.000 0.00 0.00 0.00 2.24
3654 4006 6.484308 GGTTCTGTAGCTTTGTGGTTACTTAA 59.516 38.462 0.00 0.00 0.00 1.85
3655 4007 7.012610 GGTTCTGTAGCTTTGTGGTTACTTAAA 59.987 37.037 0.00 0.00 0.00 1.52
3656 4008 8.400186 GTTCTGTAGCTTTGTGGTTACTTAAAA 58.600 33.333 0.00 0.00 0.00 1.52
3657 4009 8.149973 TCTGTAGCTTTGTGGTTACTTAAAAG 57.850 34.615 0.00 0.00 0.00 2.27
3658 4010 7.988599 TCTGTAGCTTTGTGGTTACTTAAAAGA 59.011 33.333 0.00 0.00 31.01 2.52
3659 4011 8.508883 TGTAGCTTTGTGGTTACTTAAAAGAA 57.491 30.769 0.00 0.00 31.01 2.52
3660 4012 8.958506 TGTAGCTTTGTGGTTACTTAAAAGAAA 58.041 29.630 0.00 0.00 31.01 2.52
3661 4013 9.229784 GTAGCTTTGTGGTTACTTAAAAGAAAC 57.770 33.333 0.00 0.00 31.01 2.78
3662 4014 7.832769 AGCTTTGTGGTTACTTAAAAGAAACA 58.167 30.769 0.00 0.00 31.01 2.83
3663 4015 7.973944 AGCTTTGTGGTTACTTAAAAGAAACAG 59.026 33.333 0.00 0.00 31.01 3.16
3664 4016 7.758076 GCTTTGTGGTTACTTAAAAGAAACAGT 59.242 33.333 0.00 0.00 31.01 3.55
3665 4017 9.285770 CTTTGTGGTTACTTAAAAGAAACAGTC 57.714 33.333 0.00 0.00 31.01 3.51
3666 4018 7.925043 TGTGGTTACTTAAAAGAAACAGTCA 57.075 32.000 0.00 0.00 0.00 3.41
3667 4019 8.338072 TGTGGTTACTTAAAAGAAACAGTCAA 57.662 30.769 0.00 0.00 0.00 3.18
3668 4020 8.455682 TGTGGTTACTTAAAAGAAACAGTCAAG 58.544 33.333 0.00 0.00 0.00 3.02
3669 4021 8.456471 GTGGTTACTTAAAAGAAACAGTCAAGT 58.544 33.333 0.00 0.00 0.00 3.16
3670 4022 8.455682 TGGTTACTTAAAAGAAACAGTCAAGTG 58.544 33.333 0.00 0.00 0.00 3.16
3671 4023 7.431376 GGTTACTTAAAAGAAACAGTCAAGTGC 59.569 37.037 0.00 0.00 0.00 4.40
3672 4024 6.509418 ACTTAAAAGAAACAGTCAAGTGCA 57.491 33.333 0.00 0.00 0.00 4.57
3673 4025 7.100458 ACTTAAAAGAAACAGTCAAGTGCAT 57.900 32.000 0.00 0.00 0.00 3.96
3674 4026 6.974622 ACTTAAAAGAAACAGTCAAGTGCATG 59.025 34.615 0.00 0.00 0.00 4.06
3675 4027 3.996150 AAGAAACAGTCAAGTGCATGG 57.004 42.857 0.00 0.00 0.00 3.66
3676 4028 3.213206 AGAAACAGTCAAGTGCATGGA 57.787 42.857 0.00 0.00 0.00 3.41
3677 4029 2.880890 AGAAACAGTCAAGTGCATGGAC 59.119 45.455 9.70 9.70 0.00 4.02
3678 4030 1.229428 AACAGTCAAGTGCATGGACG 58.771 50.000 12.02 0.00 36.68 4.79
3679 4031 0.392706 ACAGTCAAGTGCATGGACGA 59.607 50.000 12.02 1.09 36.68 4.20
3680 4032 1.073964 CAGTCAAGTGCATGGACGAG 58.926 55.000 12.02 8.60 36.68 4.18
3681 4033 0.036952 AGTCAAGTGCATGGACGAGG 60.037 55.000 12.02 5.72 36.68 4.63
3682 4034 0.037326 GTCAAGTGCATGGACGAGGA 60.037 55.000 12.02 8.00 0.00 3.71
3683 4035 0.904649 TCAAGTGCATGGACGAGGAT 59.095 50.000 12.02 0.00 0.00 3.24
3684 4036 1.134699 TCAAGTGCATGGACGAGGATC 60.135 52.381 12.02 0.00 0.00 3.36
3685 4037 0.179000 AAGTGCATGGACGAGGATCC 59.821 55.000 12.02 2.48 39.45 3.36
3691 4043 3.269578 TGGACGAGGATCCACGTAA 57.730 52.632 32.72 22.44 44.14 3.18
3692 4044 1.548081 TGGACGAGGATCCACGTAAA 58.452 50.000 32.72 22.12 44.14 2.01
3693 4045 1.894466 TGGACGAGGATCCACGTAAAA 59.106 47.619 32.72 19.87 44.14 1.52
3694 4046 2.094390 TGGACGAGGATCCACGTAAAAG 60.094 50.000 32.72 7.51 44.14 2.27
3695 4047 2.537401 GACGAGGATCCACGTAAAAGG 58.463 52.381 32.72 6.81 42.66 3.11
3696 4048 1.287425 CGAGGATCCACGTAAAAGGC 58.713 55.000 21.81 0.00 0.00 4.35
3697 4049 1.664873 GAGGATCCACGTAAAAGGCC 58.335 55.000 15.82 0.00 0.00 5.19
3698 4050 1.209747 GAGGATCCACGTAAAAGGCCT 59.790 52.381 15.82 0.00 0.00 5.19
3699 4051 2.433239 GAGGATCCACGTAAAAGGCCTA 59.567 50.000 15.82 0.00 0.00 3.93
3700 4052 2.169978 AGGATCCACGTAAAAGGCCTAC 59.830 50.000 15.82 0.00 0.00 3.18
3701 4053 2.199236 GATCCACGTAAAAGGCCTACG 58.801 52.381 22.05 22.05 45.93 3.51
3702 4054 1.255882 TCCACGTAAAAGGCCTACGA 58.744 50.000 28.62 7.80 43.80 3.43
3703 4055 1.826720 TCCACGTAAAAGGCCTACGAT 59.173 47.619 28.62 13.03 43.80 3.73
3704 4056 1.931172 CCACGTAAAAGGCCTACGATG 59.069 52.381 28.62 21.36 43.80 3.84
3705 4057 2.417651 CCACGTAAAAGGCCTACGATGA 60.418 50.000 28.62 0.00 43.80 2.92
3706 4058 3.255725 CACGTAAAAGGCCTACGATGAA 58.744 45.455 28.62 0.00 43.80 2.57
3707 4059 3.306166 CACGTAAAAGGCCTACGATGAAG 59.694 47.826 28.62 11.65 43.80 3.02
3708 4060 3.056322 ACGTAAAAGGCCTACGATGAAGT 60.056 43.478 28.62 9.79 43.80 3.01
3709 4061 4.158394 ACGTAAAAGGCCTACGATGAAGTA 59.842 41.667 28.62 0.00 43.80 2.24
3710 4062 5.163478 ACGTAAAAGGCCTACGATGAAGTAT 60.163 40.000 28.62 5.08 43.80 2.12
3711 4063 6.039717 ACGTAAAAGGCCTACGATGAAGTATA 59.960 38.462 28.62 0.00 43.80 1.47
3712 4064 7.088905 CGTAAAAGGCCTACGATGAAGTATAT 58.911 38.462 19.67 0.00 43.80 0.86
3713 4065 8.239314 CGTAAAAGGCCTACGATGAAGTATATA 58.761 37.037 19.67 0.00 43.80 0.86
3714 4066 9.570488 GTAAAAGGCCTACGATGAAGTATATAG 57.430 37.037 5.16 0.00 0.00 1.31
3715 4067 7.778185 AAAGGCCTACGATGAAGTATATAGT 57.222 36.000 5.16 0.00 0.00 2.12
3716 4068 7.778185 AAGGCCTACGATGAAGTATATAGTT 57.222 36.000 5.16 2.31 0.00 2.24
3717 4069 7.393841 AGGCCTACGATGAAGTATATAGTTC 57.606 40.000 19.44 19.44 36.43 3.01
3718 4070 6.946583 AGGCCTACGATGAAGTATATAGTTCA 59.053 38.462 27.32 27.32 46.25 3.18
3737 4089 7.801716 AGTTCATAAACACAACAAGCTAGAA 57.198 32.000 0.00 0.00 37.88 2.10
3738 4090 7.639945 AGTTCATAAACACAACAAGCTAGAAC 58.360 34.615 0.00 0.00 37.88 3.01
3739 4091 7.499232 AGTTCATAAACACAACAAGCTAGAACT 59.501 33.333 0.00 0.00 37.88 3.01
3740 4092 7.801716 TCATAAACACAACAAGCTAGAACTT 57.198 32.000 0.00 0.00 0.00 2.66
3753 4105 7.588497 AAGCTAGAACTTGAGGAAAACAAAT 57.412 32.000 0.00 0.00 0.00 2.32
3754 4106 7.208225 AGCTAGAACTTGAGGAAAACAAATC 57.792 36.000 0.00 0.00 0.00 2.17
3755 4107 6.772716 AGCTAGAACTTGAGGAAAACAAATCA 59.227 34.615 0.00 0.00 0.00 2.57
3756 4108 7.449704 AGCTAGAACTTGAGGAAAACAAATCAT 59.550 33.333 0.00 0.00 0.00 2.45
3757 4109 8.084684 GCTAGAACTTGAGGAAAACAAATCATT 58.915 33.333 0.00 0.00 0.00 2.57
3758 4110 9.617975 CTAGAACTTGAGGAAAACAAATCATTC 57.382 33.333 0.00 0.00 0.00 2.67
3759 4111 8.242729 AGAACTTGAGGAAAACAAATCATTCT 57.757 30.769 0.00 0.00 0.00 2.40
3760 4112 8.355913 AGAACTTGAGGAAAACAAATCATTCTC 58.644 33.333 0.00 0.00 0.00 2.87
3761 4113 6.672147 ACTTGAGGAAAACAAATCATTCTCG 58.328 36.000 0.00 0.00 0.00 4.04
3762 4114 5.046910 TGAGGAAAACAAATCATTCTCGC 57.953 39.130 0.00 0.00 0.00 5.03
3763 4115 4.082787 TGAGGAAAACAAATCATTCTCGCC 60.083 41.667 0.00 0.00 0.00 5.54
3764 4116 3.826157 AGGAAAACAAATCATTCTCGCCA 59.174 39.130 0.00 0.00 0.00 5.69
3765 4117 4.280677 AGGAAAACAAATCATTCTCGCCAA 59.719 37.500 0.00 0.00 0.00 4.52
3766 4118 5.047092 AGGAAAACAAATCATTCTCGCCAAT 60.047 36.000 0.00 0.00 0.00 3.16
3767 4119 6.152661 AGGAAAACAAATCATTCTCGCCAATA 59.847 34.615 0.00 0.00 0.00 1.90
3768 4120 6.473455 GGAAAACAAATCATTCTCGCCAATAG 59.527 38.462 0.00 0.00 0.00 1.73
3769 4121 6.757897 AAACAAATCATTCTCGCCAATAGA 57.242 33.333 0.00 0.00 0.00 1.98
3770 4122 6.757897 AACAAATCATTCTCGCCAATAGAA 57.242 33.333 0.00 0.00 37.38 2.10
3771 4123 6.124088 ACAAATCATTCTCGCCAATAGAAC 57.876 37.500 0.00 0.00 35.87 3.01
3772 4124 5.647658 ACAAATCATTCTCGCCAATAGAACA 59.352 36.000 0.00 0.00 35.87 3.18
3773 4125 5.998454 AATCATTCTCGCCAATAGAACAG 57.002 39.130 0.00 0.00 35.87 3.16
3774 4126 3.797039 TCATTCTCGCCAATAGAACAGG 58.203 45.455 0.00 0.00 35.87 4.00
3775 4127 3.197766 TCATTCTCGCCAATAGAACAGGT 59.802 43.478 0.00 0.00 35.87 4.00
3776 4128 4.404394 TCATTCTCGCCAATAGAACAGGTA 59.596 41.667 0.00 0.00 35.87 3.08
3777 4129 3.795623 TCTCGCCAATAGAACAGGTAC 57.204 47.619 0.00 0.00 0.00 3.34
3778 4130 3.093814 TCTCGCCAATAGAACAGGTACA 58.906 45.455 0.00 0.00 0.00 2.90
3779 4131 3.512329 TCTCGCCAATAGAACAGGTACAA 59.488 43.478 0.00 0.00 0.00 2.41
3780 4132 4.020928 TCTCGCCAATAGAACAGGTACAAA 60.021 41.667 0.00 0.00 0.00 2.83
3781 4133 3.998341 TCGCCAATAGAACAGGTACAAAC 59.002 43.478 0.00 0.00 0.00 2.93
3782 4134 3.749088 CGCCAATAGAACAGGTACAAACA 59.251 43.478 0.00 0.00 0.00 2.83
3783 4135 4.394920 CGCCAATAGAACAGGTACAAACAT 59.605 41.667 0.00 0.00 0.00 2.71
3784 4136 5.106317 CGCCAATAGAACAGGTACAAACATT 60.106 40.000 0.00 0.00 0.00 2.71
3785 4137 6.569610 CGCCAATAGAACAGGTACAAACATTT 60.570 38.462 0.00 0.00 0.00 2.32
3786 4138 7.151976 GCCAATAGAACAGGTACAAACATTTT 58.848 34.615 0.00 0.00 0.00 1.82
3787 4139 7.655732 GCCAATAGAACAGGTACAAACATTTTT 59.344 33.333 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 6.459670 TTTTGCTATCACCGTAGTATCTGA 57.540 37.500 0.00 0.00 0.00 3.27
13 14 4.094442 GTCTAACCCTTTTTGCTATCACCG 59.906 45.833 0.00 0.00 0.00 4.94
15 16 5.562506 GGTCTAACCCTTTTTGCTATCAC 57.437 43.478 0.00 0.00 30.04 3.06
63 64 1.365699 TGCGAAAGTTTAGCCGGATC 58.634 50.000 16.71 0.00 0.00 3.36
69 70 4.356289 TGACCTTTTTGCGAAAGTTTAGC 58.644 39.130 13.17 13.17 0.00 3.09
76 77 5.639506 TCATGTTTTTGACCTTTTTGCGAAA 59.360 32.000 0.00 0.00 0.00 3.46
77 78 5.171476 TCATGTTTTTGACCTTTTTGCGAA 58.829 33.333 0.00 0.00 0.00 4.70
86 87 4.821260 GGCCAAATTTCATGTTTTTGACCT 59.179 37.500 0.00 0.00 32.21 3.85
95 96 2.760092 ACTATGCGGCCAAATTTCATGT 59.240 40.909 2.24 0.00 0.00 3.21
98 99 2.163412 GTCACTATGCGGCCAAATTTCA 59.837 45.455 2.24 0.00 0.00 2.69
150 153 1.407258 GTACTAGTCTGCCAGCCTCAG 59.593 57.143 0.00 0.00 0.00 3.35
176 179 0.748005 TGAGCGCTAGGCCATTTTCC 60.748 55.000 11.50 0.00 45.17 3.13
182 185 1.484653 TCTTAATTGAGCGCTAGGCCA 59.515 47.619 11.50 0.00 45.17 5.36
189 192 2.939103 AGGTCATGTCTTAATTGAGCGC 59.061 45.455 0.00 0.00 41.49 5.92
208 211 6.065976 TGGATATTATGAATGCACCCTAGG 57.934 41.667 0.06 0.06 0.00 3.02
224 269 4.600547 TCAGATCCTGCTGGAATGGATATT 59.399 41.667 17.04 0.00 46.80 1.28
249 304 1.600663 GGTGATACGATGCTCCGACTG 60.601 57.143 5.39 0.00 0.00 3.51
266 321 2.167693 TGGTGATACCGCTTCTTAGGTG 59.832 50.000 0.00 0.00 42.58 4.00
318 373 4.759782 CAACAACTACCCCAGATCTACAG 58.240 47.826 0.00 0.00 0.00 2.74
344 399 3.502191 GAGTTGCTAGAGACTCCACTG 57.498 52.381 12.49 0.00 37.02 3.66
363 418 1.934220 CTCGCTGGCTACAACTCGGA 61.934 60.000 0.00 0.00 0.00 4.55
419 474 3.813166 GCTGCCACAGTTAAGAAGTGTTA 59.187 43.478 0.00 0.00 42.19 2.41
420 475 2.618709 GCTGCCACAGTTAAGAAGTGTT 59.381 45.455 0.00 0.00 42.19 3.32
431 486 2.111878 AAGCTTCGCTGCCACAGT 59.888 55.556 0.00 0.00 39.62 3.55
432 487 2.559840 CAAGCTTCGCTGCCACAG 59.440 61.111 0.00 0.00 39.62 3.66
434 489 4.410743 GGCAAGCTTCGCTGCCAC 62.411 66.667 20.02 0.00 45.27 5.01
435 490 4.648626 AGGCAAGCTTCGCTGCCA 62.649 61.111 25.22 0.00 46.91 4.92
436 491 4.112341 CAGGCAAGCTTCGCTGCC 62.112 66.667 17.78 17.78 45.82 4.85
514 570 1.596260 CGCTCACGCATTCATGATTCT 59.404 47.619 0.00 0.00 35.30 2.40
547 617 7.349711 GTGCTTTCACGATAGACTTTTTGTAA 58.650 34.615 0.00 0.00 41.38 2.41
628 698 0.958876 CCTTGTTGGGACGGTTAGCC 60.959 60.000 0.00 0.00 0.00 3.93
647 720 2.663119 GACGTCAGAATTTTTGGCATGC 59.337 45.455 9.90 9.90 0.00 4.06
717 793 5.735070 GCAGTCCGTGGTTGTAAAAAGAAAT 60.735 40.000 0.00 0.00 0.00 2.17
913 1141 4.668431 GCGAGCGACACATACTTATATCGA 60.668 45.833 0.00 0.00 0.00 3.59
937 1165 7.539366 CGGATAGAAAGAAGAATTACCTCGATC 59.461 40.741 0.00 0.00 0.00 3.69
938 1166 7.014422 ACGGATAGAAAGAAGAATTACCTCGAT 59.986 37.037 0.00 0.00 0.00 3.59
939 1167 6.320672 ACGGATAGAAAGAAGAATTACCTCGA 59.679 38.462 0.00 0.00 0.00 4.04
940 1168 6.505272 ACGGATAGAAAGAAGAATTACCTCG 58.495 40.000 0.00 0.00 0.00 4.63
946 1174 6.155393 AGGTGAGACGGATAGAAAGAAGAATT 59.845 38.462 0.00 0.00 0.00 2.17
998 1226 2.419673 GTGGCAATGATCAACGACATGA 59.580 45.455 0.00 0.00 0.00 3.07
1267 1507 4.154347 GGCAGAGACCCGGAGCTG 62.154 72.222 0.73 5.71 0.00 4.24
1334 1574 0.665068 CGATGACCAAACGACGACCA 60.665 55.000 0.00 0.00 0.00 4.02
1373 1616 2.280524 CCGTGTTGTTCGAGCCCA 60.281 61.111 0.00 0.00 0.00 5.36
1465 1708 2.420043 CGTGTCTGTCGGGTGGTT 59.580 61.111 0.00 0.00 0.00 3.67
1644 1887 3.802418 GACGCCGGTCCGCCAATAT 62.802 63.158 5.50 0.00 37.19 1.28
2025 2277 2.815211 GAGCATGTGAGCGGCGAA 60.815 61.111 12.98 0.00 40.15 4.70
2164 2416 2.512515 GTAGGCCTGGCAAGAGCG 60.513 66.667 22.05 0.00 43.41 5.03
2232 2490 1.803289 TGAGATGTCAGAGTCCGCG 59.197 57.895 0.00 0.00 0.00 6.46
2395 2677 2.555227 GGGCAGAAACAATTCTCCAGGA 60.555 50.000 0.00 0.00 44.11 3.86
2552 2840 0.877071 CATTTGCTGCTTCAGGACGT 59.123 50.000 0.00 0.00 30.08 4.34
2584 2872 1.352622 ACTGCCACCTGAACTTGGGA 61.353 55.000 0.00 0.00 33.01 4.37
2618 2906 0.555769 TTTGTCTCCCTGGCAAAGGT 59.444 50.000 4.16 0.00 44.28 3.50
2674 2975 1.337821 CTGACGAGGTTAACGTGCTC 58.662 55.000 5.36 3.07 43.97 4.26
2779 3080 0.036105 CTCAGGCATGCACCTACACA 60.036 55.000 21.36 0.00 38.26 3.72
2810 3111 1.632046 GCCGACCATGGTGTTGTACG 61.632 60.000 25.52 18.04 0.00 3.67
2923 3224 2.190578 GGCGATCCTTGGGGACAG 59.809 66.667 0.00 0.00 45.43 3.51
3045 3346 3.426568 GTCGGTCTTGCTGCTGGC 61.427 66.667 0.00 0.00 42.22 4.85
3046 3347 3.114616 CGTCGGTCTTGCTGCTGG 61.115 66.667 0.00 0.00 0.00 4.85
3110 3416 0.529992 CGCTGTACCCCTCGGAATTC 60.530 60.000 0.00 0.00 0.00 2.17
3113 3419 2.036098 TCGCTGTACCCCTCGGAA 59.964 61.111 0.00 0.00 0.00 4.30
3407 3722 4.385358 TTCGCACTAATGAGCTCATGTA 57.615 40.909 29.34 20.11 36.56 2.29
3423 3738 9.929722 GTACAATTGTTCTAATATTGATTCGCA 57.070 29.630 17.78 0.00 34.28 5.10
3501 3852 1.282157 ACACTTTAGGATCTGCCACCC 59.718 52.381 0.00 0.00 40.02 4.61
3502 3853 2.789409 ACACTTTAGGATCTGCCACC 57.211 50.000 0.00 0.00 40.02 4.61
3508 3859 7.470286 GCGGATTAGAGTAACACTTTAGGATCT 60.470 40.741 0.00 0.00 0.00 2.75
3513 3864 5.575957 TCGCGGATTAGAGTAACACTTTAG 58.424 41.667 6.13 0.00 0.00 1.85
3533 3885 1.296056 ATACGGGTGCAGTTGTTCGC 61.296 55.000 0.00 0.00 0.00 4.70
3534 3886 0.442310 CATACGGGTGCAGTTGTTCG 59.558 55.000 0.00 0.00 0.00 3.95
3535 3887 1.803334 TCATACGGGTGCAGTTGTTC 58.197 50.000 0.00 0.00 0.00 3.18
3536 3888 1.877443 GTTCATACGGGTGCAGTTGTT 59.123 47.619 0.00 0.00 0.00 2.83
3537 3889 1.071699 AGTTCATACGGGTGCAGTTGT 59.928 47.619 0.00 0.00 0.00 3.32
3538 3890 1.464608 CAGTTCATACGGGTGCAGTTG 59.535 52.381 0.00 0.00 0.00 3.16
3539 3891 1.071699 ACAGTTCATACGGGTGCAGTT 59.928 47.619 0.00 0.00 0.00 3.16
3540 3892 0.685097 ACAGTTCATACGGGTGCAGT 59.315 50.000 0.00 0.00 0.00 4.40
3541 3893 1.078709 CACAGTTCATACGGGTGCAG 58.921 55.000 0.00 0.00 31.22 4.41
3542 3894 0.682292 TCACAGTTCATACGGGTGCA 59.318 50.000 0.00 0.00 35.65 4.57
3543 3895 1.803334 TTCACAGTTCATACGGGTGC 58.197 50.000 0.00 0.00 35.65 5.01
3544 3896 4.253685 AGAATTCACAGTTCATACGGGTG 58.746 43.478 8.44 0.00 36.44 4.61
3545 3897 4.553330 AGAATTCACAGTTCATACGGGT 57.447 40.909 8.44 0.00 0.00 5.28
3546 3898 5.902681 TCTAGAATTCACAGTTCATACGGG 58.097 41.667 8.44 0.00 0.00 5.28
3547 3899 6.796426 TCTCTAGAATTCACAGTTCATACGG 58.204 40.000 8.44 0.00 0.00 4.02
3548 3900 8.689251 TTTCTCTAGAATTCACAGTTCATACG 57.311 34.615 8.44 0.00 33.54 3.06
3552 3904 9.645059 CACTATTTCTCTAGAATTCACAGTTCA 57.355 33.333 8.44 0.00 33.54 3.18
3553 3905 9.862371 TCACTATTTCTCTAGAATTCACAGTTC 57.138 33.333 8.44 0.00 33.54 3.01
3606 3958 2.213499 CGTCATCCTAATGGAGCAACC 58.787 52.381 0.00 0.00 46.91 3.77
3607 3959 2.213499 CCGTCATCCTAATGGAGCAAC 58.787 52.381 0.00 0.00 46.91 4.17
3608 3960 1.475034 GCCGTCATCCTAATGGAGCAA 60.475 52.381 0.00 0.00 46.91 3.91
3609 3961 0.106708 GCCGTCATCCTAATGGAGCA 59.893 55.000 0.00 0.00 46.91 4.26
3610 3962 0.946221 CGCCGTCATCCTAATGGAGC 60.946 60.000 0.00 0.00 46.91 4.70
3611 3963 0.319900 CCGCCGTCATCCTAATGGAG 60.320 60.000 0.00 0.00 46.91 3.86
3613 3965 0.179056 AACCGCCGTCATCCTAATGG 60.179 55.000 0.00 0.00 33.42 3.16
3614 3966 1.202533 AGAACCGCCGTCATCCTAATG 60.203 52.381 0.00 0.00 0.00 1.90
3615 3967 1.120530 AGAACCGCCGTCATCCTAAT 58.879 50.000 0.00 0.00 0.00 1.73
3616 3968 0.174845 CAGAACCGCCGTCATCCTAA 59.825 55.000 0.00 0.00 0.00 2.69
3617 3969 0.968901 ACAGAACCGCCGTCATCCTA 60.969 55.000 0.00 0.00 0.00 2.94
3618 3970 0.968901 TACAGAACCGCCGTCATCCT 60.969 55.000 0.00 0.00 0.00 3.24
3619 3971 0.527817 CTACAGAACCGCCGTCATCC 60.528 60.000 0.00 0.00 0.00 3.51
3620 3972 1.146358 GCTACAGAACCGCCGTCATC 61.146 60.000 0.00 0.00 0.00 2.92
3621 3973 1.153628 GCTACAGAACCGCCGTCAT 60.154 57.895 0.00 0.00 0.00 3.06
3622 3974 1.812686 AAGCTACAGAACCGCCGTCA 61.813 55.000 0.00 0.00 0.00 4.35
3623 3975 0.669625 AAAGCTACAGAACCGCCGTC 60.670 55.000 0.00 0.00 0.00 4.79
3624 3976 0.949105 CAAAGCTACAGAACCGCCGT 60.949 55.000 0.00 0.00 0.00 5.68
3625 3977 0.949105 ACAAAGCTACAGAACCGCCG 60.949 55.000 0.00 0.00 0.00 6.46
3626 3978 0.517316 CACAAAGCTACAGAACCGCC 59.483 55.000 0.00 0.00 0.00 6.13
3627 3979 0.517316 CCACAAAGCTACAGAACCGC 59.483 55.000 0.00 0.00 0.00 5.68
3628 3980 1.878953 ACCACAAAGCTACAGAACCG 58.121 50.000 0.00 0.00 0.00 4.44
3629 3981 4.386711 AGTAACCACAAAGCTACAGAACC 58.613 43.478 0.00 0.00 0.00 3.62
3630 3982 7.486802 TTAAGTAACCACAAAGCTACAGAAC 57.513 36.000 0.00 0.00 0.00 3.01
3631 3983 8.508883 TTTTAAGTAACCACAAAGCTACAGAA 57.491 30.769 0.00 0.00 0.00 3.02
3632 3984 7.988599 TCTTTTAAGTAACCACAAAGCTACAGA 59.011 33.333 0.00 0.00 0.00 3.41
3633 3985 8.149973 TCTTTTAAGTAACCACAAAGCTACAG 57.850 34.615 0.00 0.00 0.00 2.74
3634 3986 8.508883 TTCTTTTAAGTAACCACAAAGCTACA 57.491 30.769 0.00 0.00 0.00 2.74
3635 3987 9.229784 GTTTCTTTTAAGTAACCACAAAGCTAC 57.770 33.333 0.00 0.00 32.26 3.58
3636 3988 8.958506 TGTTTCTTTTAAGTAACCACAAAGCTA 58.041 29.630 8.79 0.00 36.02 3.32
3637 3989 7.832769 TGTTTCTTTTAAGTAACCACAAAGCT 58.167 30.769 8.79 0.00 36.02 3.74
3638 3990 7.758076 ACTGTTTCTTTTAAGTAACCACAAAGC 59.242 33.333 8.79 0.00 36.02 3.51
3639 3991 9.285770 GACTGTTTCTTTTAAGTAACCACAAAG 57.714 33.333 8.79 3.48 36.02 2.77
3640 3992 8.794553 TGACTGTTTCTTTTAAGTAACCACAAA 58.205 29.630 8.79 0.00 36.02 2.83
3641 3993 8.338072 TGACTGTTTCTTTTAAGTAACCACAA 57.662 30.769 8.79 0.00 36.02 3.33
3642 3994 7.925043 TGACTGTTTCTTTTAAGTAACCACA 57.075 32.000 8.79 4.98 36.02 4.17
3643 3995 8.456471 ACTTGACTGTTTCTTTTAAGTAACCAC 58.544 33.333 8.79 3.12 36.02 4.16
3644 3996 8.455682 CACTTGACTGTTTCTTTTAAGTAACCA 58.544 33.333 8.79 0.00 36.02 3.67
3645 3997 7.431376 GCACTTGACTGTTTCTTTTAAGTAACC 59.569 37.037 8.79 0.00 36.02 2.85
3646 3998 7.966204 TGCACTTGACTGTTTCTTTTAAGTAAC 59.034 33.333 5.38 5.38 36.99 2.50
3647 3999 8.046294 TGCACTTGACTGTTTCTTTTAAGTAA 57.954 30.769 0.00 0.00 0.00 2.24
3648 4000 7.618502 TGCACTTGACTGTTTCTTTTAAGTA 57.381 32.000 0.00 0.00 0.00 2.24
3649 4001 6.509418 TGCACTTGACTGTTTCTTTTAAGT 57.491 33.333 0.00 0.00 0.00 2.24
3650 4002 6.418819 CCATGCACTTGACTGTTTCTTTTAAG 59.581 38.462 0.00 0.00 0.00 1.85
3651 4003 6.096141 TCCATGCACTTGACTGTTTCTTTTAA 59.904 34.615 0.00 0.00 0.00 1.52
3652 4004 5.592282 TCCATGCACTTGACTGTTTCTTTTA 59.408 36.000 0.00 0.00 0.00 1.52
3653 4005 4.402155 TCCATGCACTTGACTGTTTCTTTT 59.598 37.500 0.00 0.00 0.00 2.27
3654 4006 3.953612 TCCATGCACTTGACTGTTTCTTT 59.046 39.130 0.00 0.00 0.00 2.52
3655 4007 3.316308 GTCCATGCACTTGACTGTTTCTT 59.684 43.478 0.00 0.00 0.00 2.52
3656 4008 2.880890 GTCCATGCACTTGACTGTTTCT 59.119 45.455 0.00 0.00 0.00 2.52
3657 4009 2.349817 CGTCCATGCACTTGACTGTTTC 60.350 50.000 9.57 0.00 0.00 2.78
3658 4010 1.603802 CGTCCATGCACTTGACTGTTT 59.396 47.619 9.57 0.00 0.00 2.83
3659 4011 1.202639 TCGTCCATGCACTTGACTGTT 60.203 47.619 9.57 0.00 0.00 3.16
3660 4012 0.392706 TCGTCCATGCACTTGACTGT 59.607 50.000 9.57 0.00 0.00 3.55
3661 4013 1.073964 CTCGTCCATGCACTTGACTG 58.926 55.000 9.57 4.82 0.00 3.51
3662 4014 0.036952 CCTCGTCCATGCACTTGACT 60.037 55.000 9.57 0.00 0.00 3.41
3663 4015 0.037326 TCCTCGTCCATGCACTTGAC 60.037 55.000 0.00 0.00 0.00 3.18
3664 4016 0.904649 ATCCTCGTCCATGCACTTGA 59.095 50.000 0.00 0.00 0.00 3.02
3665 4017 1.293924 GATCCTCGTCCATGCACTTG 58.706 55.000 0.00 0.00 0.00 3.16
3666 4018 0.179000 GGATCCTCGTCCATGCACTT 59.821 55.000 3.84 0.00 38.20 3.16
3667 4019 0.977627 TGGATCCTCGTCCATGCACT 60.978 55.000 14.23 0.00 43.20 4.40
3668 4020 1.522092 TGGATCCTCGTCCATGCAC 59.478 57.895 14.23 0.00 43.20 4.57
3669 4021 4.048696 TGGATCCTCGTCCATGCA 57.951 55.556 14.23 0.00 43.20 3.96
3673 4025 1.548081 TTTACGTGGATCCTCGTCCA 58.452 50.000 37.14 25.13 45.78 4.02
3674 4026 2.537401 CTTTTACGTGGATCCTCGTCC 58.463 52.381 37.14 9.90 43.55 4.79
3675 4027 2.537401 CCTTTTACGTGGATCCTCGTC 58.463 52.381 37.14 14.19 43.55 4.20
3676 4028 1.405121 GCCTTTTACGTGGATCCTCGT 60.405 52.381 35.78 35.78 45.84 4.18
3677 4029 1.287425 GCCTTTTACGTGGATCCTCG 58.713 55.000 29.49 29.49 38.64 4.63
3678 4030 1.209747 AGGCCTTTTACGTGGATCCTC 59.790 52.381 14.23 8.71 0.00 3.71
3679 4031 1.286248 AGGCCTTTTACGTGGATCCT 58.714 50.000 14.23 0.00 0.00 3.24
3680 4032 2.558378 GTAGGCCTTTTACGTGGATCC 58.442 52.381 12.58 4.20 0.00 3.36
3681 4033 2.159198 TCGTAGGCCTTTTACGTGGATC 60.159 50.000 22.48 0.00 43.17 3.36
3682 4034 1.826720 TCGTAGGCCTTTTACGTGGAT 59.173 47.619 22.48 0.00 43.17 3.41
3683 4035 1.255882 TCGTAGGCCTTTTACGTGGA 58.744 50.000 22.48 4.65 43.17 4.02
3684 4036 1.931172 CATCGTAGGCCTTTTACGTGG 59.069 52.381 22.48 13.77 43.17 4.94
3685 4037 2.883574 TCATCGTAGGCCTTTTACGTG 58.116 47.619 22.48 19.07 43.17 4.49
3686 4038 3.056322 ACTTCATCGTAGGCCTTTTACGT 60.056 43.478 22.48 10.16 43.17 3.57
3687 4039 3.518590 ACTTCATCGTAGGCCTTTTACG 58.481 45.455 18.56 18.56 43.82 3.18
3688 4040 9.570488 CTATATACTTCATCGTAGGCCTTTTAC 57.430 37.037 12.58 1.17 0.00 2.01
3689 4041 9.305555 ACTATATACTTCATCGTAGGCCTTTTA 57.694 33.333 12.58 0.00 0.00 1.52
3690 4042 8.191534 ACTATATACTTCATCGTAGGCCTTTT 57.808 34.615 12.58 0.00 0.00 2.27
3691 4043 7.778185 ACTATATACTTCATCGTAGGCCTTT 57.222 36.000 12.58 0.00 0.00 3.11
3692 4044 7.450634 TGAACTATATACTTCATCGTAGGCCTT 59.549 37.037 12.58 0.00 0.00 4.35
3693 4045 6.946583 TGAACTATATACTTCATCGTAGGCCT 59.053 38.462 11.78 11.78 0.00 5.19
3694 4046 7.154435 TGAACTATATACTTCATCGTAGGCC 57.846 40.000 0.00 0.00 0.00 5.19
3711 4063 9.502091 TTCTAGCTTGTTGTGTTTATGAACTAT 57.498 29.630 0.00 0.00 36.70 2.12
3712 4064 8.770828 GTTCTAGCTTGTTGTGTTTATGAACTA 58.229 33.333 0.00 0.00 36.70 2.24
3713 4065 7.499232 AGTTCTAGCTTGTTGTGTTTATGAACT 59.501 33.333 0.00 0.00 36.70 3.01
3714 4066 7.639945 AGTTCTAGCTTGTTGTGTTTATGAAC 58.360 34.615 0.00 0.00 36.29 3.18
3715 4067 7.801716 AGTTCTAGCTTGTTGTGTTTATGAA 57.198 32.000 0.00 0.00 0.00 2.57
3716 4068 7.497579 TCAAGTTCTAGCTTGTTGTGTTTATGA 59.502 33.333 9.18 0.00 44.41 2.15
3717 4069 7.639039 TCAAGTTCTAGCTTGTTGTGTTTATG 58.361 34.615 9.18 0.00 44.41 1.90
3718 4070 7.041098 CCTCAAGTTCTAGCTTGTTGTGTTTAT 60.041 37.037 9.18 0.00 44.41 1.40
3719 4071 6.260050 CCTCAAGTTCTAGCTTGTTGTGTTTA 59.740 38.462 9.18 0.00 44.41 2.01
3720 4072 5.066505 CCTCAAGTTCTAGCTTGTTGTGTTT 59.933 40.000 9.18 0.00 44.41 2.83
3721 4073 4.576463 CCTCAAGTTCTAGCTTGTTGTGTT 59.424 41.667 9.18 0.00 44.41 3.32
3722 4074 4.130118 CCTCAAGTTCTAGCTTGTTGTGT 58.870 43.478 9.18 0.00 44.41 3.72
3723 4075 4.380531 TCCTCAAGTTCTAGCTTGTTGTG 58.619 43.478 9.18 0.00 44.41 3.33
3724 4076 4.689612 TCCTCAAGTTCTAGCTTGTTGT 57.310 40.909 9.18 0.00 44.41 3.32
3725 4077 6.183360 TGTTTTCCTCAAGTTCTAGCTTGTTG 60.183 38.462 9.18 0.00 44.41 3.33
3726 4078 5.885912 TGTTTTCCTCAAGTTCTAGCTTGTT 59.114 36.000 9.18 0.00 44.41 2.83
3727 4079 5.437060 TGTTTTCCTCAAGTTCTAGCTTGT 58.563 37.500 9.18 0.00 44.41 3.16
3728 4080 6.377327 TTGTTTTCCTCAAGTTCTAGCTTG 57.623 37.500 0.00 4.25 45.18 4.01
3729 4081 7.285401 TGATTTGTTTTCCTCAAGTTCTAGCTT 59.715 33.333 0.00 0.00 0.00 3.74
3730 4082 6.772716 TGATTTGTTTTCCTCAAGTTCTAGCT 59.227 34.615 0.00 0.00 0.00 3.32
3731 4083 6.970484 TGATTTGTTTTCCTCAAGTTCTAGC 58.030 36.000 0.00 0.00 0.00 3.42
3732 4084 9.617975 GAATGATTTGTTTTCCTCAAGTTCTAG 57.382 33.333 0.00 0.00 0.00 2.43
3733 4085 9.354673 AGAATGATTTGTTTTCCTCAAGTTCTA 57.645 29.630 0.00 0.00 0.00 2.10
3734 4086 8.242729 AGAATGATTTGTTTTCCTCAAGTTCT 57.757 30.769 0.00 0.00 0.00 3.01
3735 4087 7.324616 CGAGAATGATTTGTTTTCCTCAAGTTC 59.675 37.037 0.00 0.00 0.00 3.01
3736 4088 7.141363 CGAGAATGATTTGTTTTCCTCAAGTT 58.859 34.615 0.00 0.00 0.00 2.66
3737 4089 6.672147 CGAGAATGATTTGTTTTCCTCAAGT 58.328 36.000 0.00 0.00 0.00 3.16
3738 4090 5.570589 GCGAGAATGATTTGTTTTCCTCAAG 59.429 40.000 0.00 0.00 0.00 3.02
3739 4091 5.460646 GCGAGAATGATTTGTTTTCCTCAA 58.539 37.500 0.00 0.00 0.00 3.02
3740 4092 4.082787 GGCGAGAATGATTTGTTTTCCTCA 60.083 41.667 0.00 0.00 0.00 3.86
3741 4093 4.082787 TGGCGAGAATGATTTGTTTTCCTC 60.083 41.667 0.00 0.00 0.00 3.71
3742 4094 3.826157 TGGCGAGAATGATTTGTTTTCCT 59.174 39.130 0.00 0.00 0.00 3.36
3743 4095 4.173036 TGGCGAGAATGATTTGTTTTCC 57.827 40.909 0.00 0.00 0.00 3.13
3744 4096 7.250569 TCTATTGGCGAGAATGATTTGTTTTC 58.749 34.615 0.00 0.00 0.00 2.29
3745 4097 7.156876 TCTATTGGCGAGAATGATTTGTTTT 57.843 32.000 0.00 0.00 0.00 2.43
3746 4098 6.757897 TCTATTGGCGAGAATGATTTGTTT 57.242 33.333 0.00 0.00 0.00 2.83
3747 4099 6.150976 TGTTCTATTGGCGAGAATGATTTGTT 59.849 34.615 0.00 0.00 35.46 2.83
3748 4100 5.647658 TGTTCTATTGGCGAGAATGATTTGT 59.352 36.000 0.00 0.00 35.46 2.83
3749 4101 6.122850 TGTTCTATTGGCGAGAATGATTTG 57.877 37.500 0.00 0.00 35.46 2.32
3750 4102 5.297776 CCTGTTCTATTGGCGAGAATGATTT 59.702 40.000 0.00 0.00 35.46 2.17
3751 4103 4.818546 CCTGTTCTATTGGCGAGAATGATT 59.181 41.667 0.00 0.00 35.46 2.57
3752 4104 4.141620 ACCTGTTCTATTGGCGAGAATGAT 60.142 41.667 0.00 0.00 35.46 2.45
3753 4105 3.197766 ACCTGTTCTATTGGCGAGAATGA 59.802 43.478 0.00 0.00 35.46 2.57
3754 4106 3.535561 ACCTGTTCTATTGGCGAGAATG 58.464 45.455 0.00 0.00 35.46 2.67
3755 4107 3.914426 ACCTGTTCTATTGGCGAGAAT 57.086 42.857 0.00 0.00 35.46 2.40
3756 4108 3.512329 TGTACCTGTTCTATTGGCGAGAA 59.488 43.478 0.00 0.00 0.00 2.87
3757 4109 3.093814 TGTACCTGTTCTATTGGCGAGA 58.906 45.455 0.00 0.00 0.00 4.04
3758 4110 3.520290 TGTACCTGTTCTATTGGCGAG 57.480 47.619 0.00 0.00 0.00 5.03
3759 4111 3.965379 TTGTACCTGTTCTATTGGCGA 57.035 42.857 0.00 0.00 0.00 5.54
3760 4112 3.749088 TGTTTGTACCTGTTCTATTGGCG 59.251 43.478 0.00 0.00 0.00 5.69
3761 4113 5.897377 ATGTTTGTACCTGTTCTATTGGC 57.103 39.130 0.00 0.00 0.00 4.52


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

AutoCloner maintained by Alex Coulton.