Multiple sequence alignment - TraesCS4B01G169100

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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 TraesCS4B01G169100 chr4B 100.000 3920 0 0 1 3920 369484140 369488059 0.000000e+00 7239.0
1 TraesCS4B01G169100 chr4B 90.686 816 71 3 1 811 620098768 620099583 0.000000e+00 1081.0
2 TraesCS4B01G169100 chr4B 89.066 814 75 9 3 809 659603262 659602456 0.000000e+00 998.0
3 TraesCS4B01G169100 chr4B 88.834 806 84 5 10 812 620123405 620124207 0.000000e+00 985.0
4 TraesCS4B01G169100 chr4B 88.375 800 86 4 10 806 620182723 620183518 0.000000e+00 955.0
5 TraesCS4B01G169100 chr4B 87.591 137 16 1 3462 3597 622776267 622776403 1.460000e-34 158.0
6 TraesCS4B01G169100 chr4B 89.362 47 3 2 3289 3334 13429275 13429320 1.520000e-04 58.4
7 TraesCS4B01G169100 chr4D 95.348 2558 70 9 825 3361 298108062 298110591 0.000000e+00 4019.0
8 TraesCS4B01G169100 chr4D 92.283 311 24 0 3610 3920 298110826 298111136 3.590000e-120 442.0
9 TraesCS4B01G169100 chr4D 86.667 225 5 9 3272 3474 298110597 298110818 3.940000e-55 226.0
10 TraesCS4B01G169100 chr4A 95.583 2445 60 11 831 3264 188635516 188633109 0.000000e+00 3873.0
11 TraesCS4B01G169100 chr4A 83.792 327 45 3 3589 3910 703794228 703793905 1.770000e-78 303.0
12 TraesCS4B01G169100 chr4A 91.597 119 10 0 3473 3591 732350279 732350161 8.710000e-37 165.0
13 TraesCS4B01G169100 chr1A 88.603 816 85 4 1 812 555962204 555961393 0.000000e+00 985.0
14 TraesCS4B01G169100 chr1A 83.481 339 48 5 3589 3920 574682454 574682791 3.800000e-80 309.0
15 TraesCS4B01G169100 chr6B 87.073 820 93 7 3 813 230766005 230765190 0.000000e+00 915.0
16 TraesCS4B01G169100 chr6B 87.113 776 91 7 11 784 702279558 702278790 0.000000e+00 870.0
17 TraesCS4B01G169100 chr3B 86.893 824 91 11 3 812 61899236 61900056 0.000000e+00 907.0
18 TraesCS4B01G169100 chr3B 92.500 120 9 0 3473 3592 650615896 650616015 5.210000e-39 172.0
19 TraesCS4B01G169100 chr3B 90.323 124 12 0 3468 3591 694025011 694025134 3.130000e-36 163.0
20 TraesCS4B01G169100 chr2B 85.837 812 102 5 11 815 216716510 216715705 0.000000e+00 850.0
21 TraesCS4B01G169100 chr2B 81.306 337 56 4 3591 3920 791125533 791125197 2.320000e-67 267.0
22 TraesCS4B01G169100 chr2B 85.088 114 15 2 1523 1636 653841581 653841470 8.900000e-22 115.0
23 TraesCS4B01G169100 chr5B 85.163 337 45 3 3588 3920 677161882 677161547 1.350000e-89 340.0
24 TraesCS4B01G169100 chr5B 92.437 119 9 0 3473 3591 447149215 447149097 1.870000e-38 171.0
25 TraesCS4B01G169100 chr5B 90.833 120 10 1 3471 3590 26009529 26009647 4.050000e-35 159.0
26 TraesCS4B01G169100 chr5D 84.866 337 46 3 3588 3920 536544318 536543983 6.280000e-88 335.0
27 TraesCS4B01G169100 chr2D 83.929 336 49 2 3590 3920 297180707 297180372 2.270000e-82 316.0
28 TraesCS4B01G169100 chr2D 91.597 119 10 0 3471 3589 7396467 7396585 8.710000e-37 165.0
29 TraesCS4B01G169100 chr1D 83.631 336 48 4 3591 3920 478432273 478432607 3.800000e-80 309.0
30 TraesCS4B01G169100 chr3A 82.891 339 51 5 3588 3920 568243962 568244299 8.230000e-77 298.0
31 TraesCS4B01G169100 chr6D 91.057 123 11 0 3467 3589 108860643 108860765 2.420000e-37 167.0
32 TraesCS4B01G169100 chr7A 89.764 127 11 2 3463 3589 632588144 632588268 1.130000e-35 161.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G169100 chr4B 369484140 369488059 3919 False 7239.000000 7239 100.000000 1 3920 1 chr4B.!!$F2 3919
1 TraesCS4B01G169100 chr4B 620098768 620099583 815 False 1081.000000 1081 90.686000 1 811 1 chr4B.!!$F3 810
2 TraesCS4B01G169100 chr4B 659602456 659603262 806 True 998.000000 998 89.066000 3 809 1 chr4B.!!$R1 806
3 TraesCS4B01G169100 chr4B 620123405 620124207 802 False 985.000000 985 88.834000 10 812 1 chr4B.!!$F4 802
4 TraesCS4B01G169100 chr4B 620182723 620183518 795 False 955.000000 955 88.375000 10 806 1 chr4B.!!$F5 796
5 TraesCS4B01G169100 chr4D 298108062 298111136 3074 False 1562.333333 4019 91.432667 825 3920 3 chr4D.!!$F1 3095
6 TraesCS4B01G169100 chr4A 188633109 188635516 2407 True 3873.000000 3873 95.583000 831 3264 1 chr4A.!!$R1 2433
7 TraesCS4B01G169100 chr1A 555961393 555962204 811 True 985.000000 985 88.603000 1 812 1 chr1A.!!$R1 811
8 TraesCS4B01G169100 chr6B 230765190 230766005 815 True 915.000000 915 87.073000 3 813 1 chr6B.!!$R1 810
9 TraesCS4B01G169100 chr6B 702278790 702279558 768 True 870.000000 870 87.113000 11 784 1 chr6B.!!$R2 773
10 TraesCS4B01G169100 chr3B 61899236 61900056 820 False 907.000000 907 86.893000 3 812 1 chr3B.!!$F1 809
11 TraesCS4B01G169100 chr2B 216715705 216716510 805 True 850.000000 850 85.837000 11 815 1 chr2B.!!$R1 804

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
734 765 0.034896 GAGCGAACTGAACCCCAAGA 59.965 55.0 0.0 0.0 0.0 3.02 F
1248 1284 0.107703 GTTGTGAGGCGGATGGATGA 60.108 55.0 0.0 0.0 0.0 2.92 F
1249 1285 0.839277 TTGTGAGGCGGATGGATGAT 59.161 50.0 0.0 0.0 0.0 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2549 2597 1.279271 ACAGATAGCAACCACAGGACC 59.721 52.381 0.0 0.0 0.00 4.46 R
2697 2745 2.104792 TCTCCACAAAGGACCAACAGAG 59.895 50.000 0.0 0.0 43.07 3.35 R
2952 3000 5.299782 ACAAACCCAAACTATTTAACGAGCA 59.700 36.000 0.0 0.0 0.00 4.26 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
80 81 2.342279 CCGTCAAACCCGAGCTGA 59.658 61.111 0.00 0.00 0.00 4.26
130 131 2.892425 GGCGCCCTCGTCATCAAG 60.892 66.667 18.11 0.00 40.61 3.02
179 180 2.344203 CGCTCCCTTCGTCTGGTCT 61.344 63.158 0.00 0.00 0.00 3.85
205 206 2.270205 CCCGAGCTGGACATGCTT 59.730 61.111 0.00 0.00 41.30 3.91
235 236 4.830765 GAGCACGCCGGCATGGTA 62.831 66.667 28.69 0.00 41.21 3.25
248 249 3.674050 ATGGTAGCCCCCGACGACT 62.674 63.158 0.00 0.00 0.00 4.18
284 287 3.407657 CGAGGGAGGACTACGTCG 58.592 66.667 11.62 11.62 43.87 5.12
428 434 3.723348 GGCCGTCAAGCGTTGTCC 61.723 66.667 0.00 0.00 39.32 4.02
502 524 1.080974 CGACGACTACACCCGCTTT 60.081 57.895 0.00 0.00 0.00 3.51
691 719 2.356673 GAACTTCGCCGAACCCGT 60.357 61.111 0.00 0.00 0.00 5.28
723 754 1.367840 GTGTGACTGGGAGCGAACT 59.632 57.895 0.00 0.00 0.00 3.01
732 763 1.072505 GGAGCGAACTGAACCCCAA 59.927 57.895 0.00 0.00 0.00 4.12
734 765 0.034896 GAGCGAACTGAACCCCAAGA 59.965 55.000 0.00 0.00 0.00 3.02
736 767 1.133915 AGCGAACTGAACCCCAAGAAA 60.134 47.619 0.00 0.00 0.00 2.52
776 807 1.671054 CCAGGCCGCTCTTTTTCGA 60.671 57.895 0.00 0.00 0.00 3.71
785 816 1.508632 CTCTTTTTCGACGCCCTGAA 58.491 50.000 0.00 0.00 0.00 3.02
787 819 1.069513 TCTTTTTCGACGCCCTGAAGA 59.930 47.619 0.00 0.00 0.00 2.87
788 820 1.871039 CTTTTTCGACGCCCTGAAGAA 59.129 47.619 0.00 0.00 0.00 2.52
815 847 3.009723 CGGCTGGAGATGCTTTAAGAAA 58.990 45.455 0.00 0.00 0.00 2.52
816 848 3.440173 CGGCTGGAGATGCTTTAAGAAAA 59.560 43.478 0.00 0.00 0.00 2.29
817 849 4.082787 CGGCTGGAGATGCTTTAAGAAAAA 60.083 41.667 0.00 0.00 0.00 1.94
865 897 1.265635 CCGTCGAAAAATGAAGTGGCA 59.734 47.619 0.00 0.00 0.00 4.92
952 987 2.093341 TCCGGACTATTTTCTTTCCCCG 60.093 50.000 0.00 0.00 35.88 5.73
1049 1085 3.834799 GAACGCCGGGATCGAGGT 61.835 66.667 2.18 0.00 39.00 3.85
1056 1092 3.148279 GGGATCGAGGTGTCCGCT 61.148 66.667 0.00 0.00 35.28 5.52
1246 1282 0.548031 ATGTTGTGAGGCGGATGGAT 59.452 50.000 0.00 0.00 0.00 3.41
1247 1283 0.392863 TGTTGTGAGGCGGATGGATG 60.393 55.000 0.00 0.00 0.00 3.51
1248 1284 0.107703 GTTGTGAGGCGGATGGATGA 60.108 55.000 0.00 0.00 0.00 2.92
1249 1285 0.839277 TTGTGAGGCGGATGGATGAT 59.161 50.000 0.00 0.00 0.00 2.45
1452 1488 5.178252 CAGATTGTGTACTGTGGTTTCAGAG 59.822 44.000 0.00 0.00 39.84 3.35
1739 1787 9.570468 CATTAGGAGTACTAACCTGTCATACTA 57.430 37.037 12.37 0.00 44.04 1.82
1862 1910 9.010029 TCTGAATTTCTGGTACACTTAATTTCC 57.990 33.333 0.00 0.00 0.00 3.13
1863 1911 8.117813 TGAATTTCTGGTACACTTAATTTCCC 57.882 34.615 0.00 0.00 0.00 3.97
1864 1912 7.947890 TGAATTTCTGGTACACTTAATTTCCCT 59.052 33.333 0.00 0.00 0.00 4.20
1865 1913 7.703058 ATTTCTGGTACACTTAATTTCCCTG 57.297 36.000 0.00 0.00 0.00 4.45
1866 1914 4.585879 TCTGGTACACTTAATTTCCCTGC 58.414 43.478 0.00 0.00 0.00 4.85
1867 1915 4.042311 TCTGGTACACTTAATTTCCCTGCA 59.958 41.667 0.00 0.00 0.00 4.41
1868 1916 4.730966 TGGTACACTTAATTTCCCTGCAA 58.269 39.130 0.00 0.00 0.00 4.08
1869 1917 5.141182 TGGTACACTTAATTTCCCTGCAAA 58.859 37.500 0.00 0.00 0.00 3.68
1870 1918 5.598830 TGGTACACTTAATTTCCCTGCAAAA 59.401 36.000 0.00 0.00 0.00 2.44
1871 1919 6.098409 TGGTACACTTAATTTCCCTGCAAAAA 59.902 34.615 0.00 0.00 0.00 1.94
1914 1962 7.307455 GCTTAACTTCAAGAGTACTGTCCTTTG 60.307 40.741 0.00 0.00 37.72 2.77
1932 1980 7.446931 TGTCCTTTGTATATTTCTCTTGTGCAA 59.553 33.333 0.00 0.00 0.00 4.08
1975 2023 7.672983 AGTAATATCCAGCGGTATGATTTTG 57.327 36.000 4.41 0.00 0.00 2.44
1994 2042 1.203112 TGCCCTTTTTATGCCTCCACA 60.203 47.619 0.00 0.00 0.00 4.17
2134 2182 3.495331 ACTATTGCATGGTGGTTGTTCA 58.505 40.909 0.00 0.00 0.00 3.18
2250 2298 8.882415 TGCTAAATAAGTAAGGAACCTTATCG 57.118 34.615 15.08 0.00 40.18 2.92
2524 2572 9.152595 CATGAGATCATTATGATTACTGACCAG 57.847 37.037 9.24 0.00 37.20 4.00
2697 2745 1.200716 CCGGGCATGCATAATCATGTC 59.799 52.381 21.36 3.10 45.58 3.06
2764 2812 2.019984 GGATGACAGGAACCATTGCTC 58.980 52.381 0.00 0.00 0.00 4.26
2925 2973 6.867293 TCAGAGATAAAGATGATTGATCTGCG 59.133 38.462 0.00 0.00 40.89 5.18
2928 2976 6.519382 AGATAAAGATGATTGATCTGCGTCA 58.481 36.000 0.00 0.00 40.89 4.35
2952 3000 9.545105 TCAAAGTTTGATGCTTGTCATTTTTAT 57.455 25.926 14.35 0.00 35.05 1.40
3010 3066 2.829720 TCGTAGGTTGCATCAAGTAGGT 59.170 45.455 0.00 0.00 0.00 3.08
3033 3089 5.677319 ATCTAGATCAGTGGAAACCGAAA 57.323 39.130 0.00 0.00 0.00 3.46
3124 3180 1.871080 CAGCACCTCGACCAATATCC 58.129 55.000 0.00 0.00 0.00 2.59
3127 3183 2.158900 AGCACCTCGACCAATATCCTTG 60.159 50.000 0.00 0.00 0.00 3.61
3133 3189 4.503910 CTCGACCAATATCCTTGAACACA 58.496 43.478 0.00 0.00 0.00 3.72
3269 3326 9.445786 AAAAATTTAACTGTTGTCATGAGTACG 57.554 29.630 2.69 0.00 0.00 3.67
3278 3430 5.924254 TGTTGTCATGAGTACGGAAGTTAAG 59.076 40.000 0.00 0.00 46.40 1.85
3297 3449 4.906065 AAGTAGTTGTCACGTACTCACA 57.094 40.909 0.00 0.00 0.00 3.58
3364 3516 7.962995 TGATACAGAGGAAGTAAATCACTCT 57.037 36.000 0.00 0.00 36.04 3.24
3408 3564 8.706322 AGTTTGTACTTCATCCCAAAATAAGT 57.294 30.769 0.00 0.00 34.86 2.24
3409 3565 8.576442 AGTTTGTACTTCATCCCAAAATAAGTG 58.424 33.333 0.00 0.00 32.85 3.16
3410 3566 8.357402 GTTTGTACTTCATCCCAAAATAAGTGT 58.643 33.333 0.00 0.00 32.85 3.55
3411 3567 7.681939 TGTACTTCATCCCAAAATAAGTGTC 57.318 36.000 0.00 0.00 32.85 3.67
3424 3597 2.256117 AAGTGTCTTTTGGGACGGAG 57.744 50.000 0.00 0.00 38.91 4.63
3481 3654 7.179076 TGTGAACTTATTTAGTACTCCCTCC 57.821 40.000 0.00 0.00 35.54 4.30
3482 3655 6.127535 TGTGAACTTATTTAGTACTCCCTCCG 60.128 42.308 0.00 0.00 35.54 4.63
3483 3656 5.954150 TGAACTTATTTAGTACTCCCTCCGT 59.046 40.000 0.00 0.00 35.54 4.69
3484 3657 6.096001 TGAACTTATTTAGTACTCCCTCCGTC 59.904 42.308 0.00 0.00 35.54 4.79
3485 3658 4.892345 ACTTATTTAGTACTCCCTCCGTCC 59.108 45.833 0.00 0.00 34.56 4.79
3486 3659 1.755179 TTTAGTACTCCCTCCGTCCG 58.245 55.000 0.00 0.00 0.00 4.79
3487 3660 0.107017 TTAGTACTCCCTCCGTCCGG 60.107 60.000 0.00 0.00 0.00 5.14
3488 3661 0.982852 TAGTACTCCCTCCGTCCGGA 60.983 60.000 0.00 0.00 42.90 5.14
3489 3662 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
3490 3663 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
3491 3664 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
3492 3665 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
3493 3666 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
3494 3667 0.324552 TCCCTCCGTCCGGAAATACA 60.325 55.000 5.23 0.00 44.66 2.29
3495 3668 0.179092 CCCTCCGTCCGGAAATACAC 60.179 60.000 5.23 0.00 44.66 2.90
3496 3669 0.526954 CCTCCGTCCGGAAATACACG 60.527 60.000 5.23 4.63 44.66 4.49
3497 3670 0.171903 CTCCGTCCGGAAATACACGT 59.828 55.000 5.23 0.00 44.66 4.49
3498 3671 0.171007 TCCGTCCGGAAATACACGTC 59.829 55.000 5.23 0.00 42.05 4.34
3499 3672 1.135699 CCGTCCGGAAATACACGTCG 61.136 60.000 5.23 1.25 37.50 5.12
3500 3673 1.135699 CGTCCGGAAATACACGTCGG 61.136 60.000 5.23 3.39 41.80 4.79
3501 3674 0.171007 GTCCGGAAATACACGTCGGA 59.829 55.000 5.23 8.07 46.06 4.55
3502 3675 0.452987 TCCGGAAATACACGTCGGAG 59.547 55.000 0.00 0.00 43.84 4.63
3503 3676 0.452987 CCGGAAATACACGTCGGAGA 59.547 55.000 0.00 0.00 42.94 3.71
3504 3677 1.135315 CCGGAAATACACGTCGGAGAA 60.135 52.381 0.00 0.00 42.94 2.87
3505 3678 2.598589 CGGAAATACACGTCGGAGAAA 58.401 47.619 0.00 0.00 39.69 2.52
3506 3679 3.184541 CGGAAATACACGTCGGAGAAAT 58.815 45.455 0.00 0.00 39.69 2.17
3507 3680 3.000078 CGGAAATACACGTCGGAGAAATG 60.000 47.826 0.00 0.00 39.69 2.32
3508 3681 3.308866 GGAAATACACGTCGGAGAAATGG 59.691 47.826 0.00 0.00 39.69 3.16
3509 3682 3.880047 AATACACGTCGGAGAAATGGA 57.120 42.857 0.00 0.00 39.69 3.41
3510 3683 4.402056 AATACACGTCGGAGAAATGGAT 57.598 40.909 0.00 0.00 39.69 3.41
3511 3684 2.010145 ACACGTCGGAGAAATGGATG 57.990 50.000 0.00 0.00 39.69 3.51
3512 3685 1.275291 ACACGTCGGAGAAATGGATGT 59.725 47.619 0.00 0.00 39.69 3.06
3513 3686 2.494471 ACACGTCGGAGAAATGGATGTA 59.506 45.455 0.00 0.00 39.69 2.29
3514 3687 3.132289 ACACGTCGGAGAAATGGATGTAT 59.868 43.478 0.00 0.00 39.69 2.29
3515 3688 3.736252 CACGTCGGAGAAATGGATGTATC 59.264 47.826 0.00 0.00 39.69 2.24
3516 3689 3.637229 ACGTCGGAGAAATGGATGTATCT 59.363 43.478 0.00 0.00 39.69 1.98
3517 3690 4.825634 ACGTCGGAGAAATGGATGTATCTA 59.174 41.667 0.00 0.00 39.69 1.98
3518 3691 5.048643 ACGTCGGAGAAATGGATGTATCTAG 60.049 44.000 0.00 0.00 39.69 2.43
3519 3692 5.181433 CGTCGGAGAAATGGATGTATCTAGA 59.819 44.000 0.00 0.00 39.69 2.43
3520 3693 6.383415 GTCGGAGAAATGGATGTATCTAGAC 58.617 44.000 0.00 0.00 39.69 2.59
3521 3694 5.181433 TCGGAGAAATGGATGTATCTAGACG 59.819 44.000 0.00 0.00 0.00 4.18
3522 3695 5.048643 CGGAGAAATGGATGTATCTAGACGT 60.049 44.000 0.00 0.00 0.00 4.34
3523 3696 6.148976 CGGAGAAATGGATGTATCTAGACGTA 59.851 42.308 0.00 0.00 0.00 3.57
3524 3697 7.148222 CGGAGAAATGGATGTATCTAGACGTAT 60.148 40.741 0.00 0.00 0.00 3.06
3525 3698 8.524487 GGAGAAATGGATGTATCTAGACGTATT 58.476 37.037 0.00 0.00 0.00 1.89
3526 3699 9.915629 GAGAAATGGATGTATCTAGACGTATTT 57.084 33.333 0.00 0.00 0.00 1.40
3558 3731 7.839680 AGATACATCCAATTTTATTCACCCC 57.160 36.000 0.00 0.00 0.00 4.95
3559 3732 7.595488 AGATACATCCAATTTTATTCACCCCT 58.405 34.615 0.00 0.00 0.00 4.79
3560 3733 7.725844 AGATACATCCAATTTTATTCACCCCTC 59.274 37.037 0.00 0.00 0.00 4.30
3561 3734 4.962362 ACATCCAATTTTATTCACCCCTCC 59.038 41.667 0.00 0.00 0.00 4.30
3562 3735 3.626930 TCCAATTTTATTCACCCCTCCG 58.373 45.455 0.00 0.00 0.00 4.63
3563 3736 3.267291 TCCAATTTTATTCACCCCTCCGA 59.733 43.478 0.00 0.00 0.00 4.55
3564 3737 3.380320 CCAATTTTATTCACCCCTCCGAC 59.620 47.826 0.00 0.00 0.00 4.79
3565 3738 4.013728 CAATTTTATTCACCCCTCCGACA 58.986 43.478 0.00 0.00 0.00 4.35
3566 3739 3.791953 TTTTATTCACCCCTCCGACAA 57.208 42.857 0.00 0.00 0.00 3.18
3567 3740 3.791953 TTTATTCACCCCTCCGACAAA 57.208 42.857 0.00 0.00 0.00 2.83
3568 3741 4.310022 TTTATTCACCCCTCCGACAAAT 57.690 40.909 0.00 0.00 0.00 2.32
3569 3742 5.438698 TTTATTCACCCCTCCGACAAATA 57.561 39.130 0.00 0.00 0.00 1.40
3570 3743 5.640158 TTATTCACCCCTCCGACAAATAT 57.360 39.130 0.00 0.00 0.00 1.28
3571 3744 4.519906 ATTCACCCCTCCGACAAATATT 57.480 40.909 0.00 0.00 0.00 1.28
3572 3745 4.310022 TTCACCCCTCCGACAAATATTT 57.690 40.909 0.00 0.00 0.00 1.40
3573 3746 4.310022 TCACCCCTCCGACAAATATTTT 57.690 40.909 0.00 0.00 0.00 1.82
3574 3747 4.013728 TCACCCCTCCGACAAATATTTTG 58.986 43.478 0.00 0.00 0.00 2.44
3575 3748 3.130340 CACCCCTCCGACAAATATTTTGG 59.870 47.826 0.00 1.50 0.00 3.28
3576 3749 2.693074 CCCCTCCGACAAATATTTTGGG 59.307 50.000 0.00 0.59 0.00 4.12
3577 3750 3.626222 CCCCTCCGACAAATATTTTGGGA 60.626 47.826 0.00 4.92 34.34 4.37
3578 3751 4.020543 CCCTCCGACAAATATTTTGGGAA 58.979 43.478 0.00 0.00 34.34 3.97
3579 3752 4.097892 CCCTCCGACAAATATTTTGGGAAG 59.902 45.833 0.00 0.18 34.34 3.46
3580 3753 4.097892 CCTCCGACAAATATTTTGGGAAGG 59.902 45.833 0.00 5.77 0.00 3.46
3581 3754 4.924625 TCCGACAAATATTTTGGGAAGGA 58.075 39.130 0.00 0.01 0.00 3.36
3582 3755 4.947388 TCCGACAAATATTTTGGGAAGGAG 59.053 41.667 0.00 0.00 0.00 3.69
3583 3756 4.097892 CCGACAAATATTTTGGGAAGGAGG 59.902 45.833 0.00 0.00 0.00 4.30
3584 3757 4.097892 CGACAAATATTTTGGGAAGGAGGG 59.902 45.833 0.00 0.00 0.00 4.30
3585 3758 5.269189 GACAAATATTTTGGGAAGGAGGGA 58.731 41.667 0.00 0.00 0.00 4.20
3586 3759 5.272402 ACAAATATTTTGGGAAGGAGGGAG 58.728 41.667 0.00 0.00 0.00 4.30
3587 3760 5.222547 ACAAATATTTTGGGAAGGAGGGAGT 60.223 40.000 0.00 0.00 0.00 3.85
3588 3761 6.011096 ACAAATATTTTGGGAAGGAGGGAGTA 60.011 38.462 0.00 0.00 0.00 2.59
3589 3762 5.648330 ATATTTTGGGAAGGAGGGAGTAC 57.352 43.478 0.00 0.00 0.00 2.73
3590 3763 2.735259 TTTGGGAAGGAGGGAGTACT 57.265 50.000 0.00 0.00 0.00 2.73
3591 3764 3.858696 TTTGGGAAGGAGGGAGTACTA 57.141 47.619 0.00 0.00 0.00 1.82
3592 3765 3.399952 TTGGGAAGGAGGGAGTACTAG 57.600 52.381 0.00 0.00 0.00 2.57
3593 3766 1.063114 TGGGAAGGAGGGAGTACTAGC 60.063 57.143 0.00 0.00 0.00 3.42
3594 3767 1.063114 GGGAAGGAGGGAGTACTAGCA 60.063 57.143 0.00 0.00 0.00 3.49
3595 3768 2.312390 GGAAGGAGGGAGTACTAGCAG 58.688 57.143 0.00 0.00 0.00 4.24
3596 3769 2.091775 GGAAGGAGGGAGTACTAGCAGA 60.092 54.545 0.00 0.00 0.00 4.26
3597 3770 3.627747 GGAAGGAGGGAGTACTAGCAGAA 60.628 52.174 0.00 0.00 0.00 3.02
3598 3771 3.021177 AGGAGGGAGTACTAGCAGAAC 57.979 52.381 0.00 0.00 0.00 3.01
3599 3772 1.677052 GGAGGGAGTACTAGCAGAACG 59.323 57.143 0.00 0.00 0.00 3.95
3600 3773 1.065851 GAGGGAGTACTAGCAGAACGC 59.934 57.143 0.00 0.00 42.91 4.84
3617 3790 2.813179 GCTCGTGCGTTGCTATGGG 61.813 63.158 0.00 0.00 0.00 4.00
3618 3791 2.813179 CTCGTGCGTTGCTATGGGC 61.813 63.158 0.00 0.00 42.22 5.36
3640 3813 5.047235 GGCTATCCACCGTGTTATCTCTAAT 60.047 44.000 0.00 0.00 0.00 1.73
3648 3821 4.474113 CGTGTTATCTCTAATAGCCGTCC 58.526 47.826 0.00 0.00 0.00 4.79
3650 3823 5.462405 GTGTTATCTCTAATAGCCGTCCAG 58.538 45.833 0.00 0.00 0.00 3.86
3661 3834 1.008995 CCGTCCAGCACAAAAACCG 60.009 57.895 0.00 0.00 0.00 4.44
3690 3863 3.733077 GCGATGCATCTTCCCTTTTTCTG 60.733 47.826 23.73 5.20 0.00 3.02
3694 3867 3.074412 GCATCTTCCCTTTTTCTGTCGA 58.926 45.455 0.00 0.00 0.00 4.20
3700 3873 3.473625 TCCCTTTTTCTGTCGAAACCTC 58.526 45.455 0.00 0.00 38.77 3.85
3712 3885 2.138453 GAAACCTCCCCTTCCCGCTT 62.138 60.000 0.00 0.00 0.00 4.68
3722 3895 4.572571 TCCCGCTTGGTTTGCCGT 62.573 61.111 0.00 0.00 37.67 5.68
3723 3896 4.038080 CCCGCTTGGTTTGCCGTC 62.038 66.667 0.00 0.00 37.67 4.79
3728 3901 1.165270 GCTTGGTTTGCCGTCATAGT 58.835 50.000 0.00 0.00 37.67 2.12
3733 3906 1.408266 GGTTTGCCGTCATAGTGGGAT 60.408 52.381 0.00 0.00 0.00 3.85
3734 3907 1.670811 GTTTGCCGTCATAGTGGGATG 59.329 52.381 0.00 0.00 0.00 3.51
3744 3917 2.672961 TAGTGGGATGTTTCTCGCTG 57.327 50.000 0.00 0.00 43.14 5.18
3747 3920 0.690192 TGGGATGTTTCTCGCTGGAA 59.310 50.000 0.00 0.00 0.00 3.53
3755 3928 0.537188 TTCTCGCTGGAATCACCTCC 59.463 55.000 0.00 0.00 39.86 4.30
3838 4011 8.129496 TCATGTTTACAATACAGTAGAGTGGA 57.871 34.615 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 71 1.228894 TGTCTCCTTCAGCTCGGGT 60.229 57.895 0.00 0.00 0.00 5.28
80 81 1.456287 GCCCAAGTGGTGTCTCCTT 59.544 57.895 0.00 0.00 37.07 3.36
195 196 0.321564 CTTCACGGGAAGCATGTCCA 60.322 55.000 15.71 0.00 43.67 4.02
235 236 2.439883 GACTAGTCGTCGGGGGCT 60.440 66.667 7.22 0.00 32.04 5.19
248 249 1.912220 CCCATTTGAGGGCGGACTA 59.088 57.895 0.00 0.00 43.10 2.59
464 470 4.702081 GTCGTCGTGCGCCTCACT 62.702 66.667 4.18 0.00 43.46 3.41
502 524 0.613260 ACATGCCGAGAAGCCTGTAA 59.387 50.000 0.00 0.00 39.44 2.41
554 576 8.347771 ACTTAAAAACGAACTAAAAAGCCTAGG 58.652 33.333 3.67 3.67 0.00 3.02
691 719 4.164087 ACACGTCCACGGTTGCCA 62.164 61.111 3.81 0.00 44.95 4.92
703 734 2.495409 TTCGCTCCCAGTCACACGT 61.495 57.895 0.00 0.00 0.00 4.49
723 754 3.618997 GCTAGATCGTTTCTTGGGGTTCA 60.619 47.826 0.00 0.00 35.79 3.18
732 763 1.065928 CCGGCGCTAGATCGTTTCT 59.934 57.895 7.64 0.00 38.57 2.52
734 765 2.585247 GCCGGCGCTAGATCGTTT 60.585 61.111 12.58 0.00 0.00 3.60
776 807 1.301479 GTTCGGTTCTTCAGGGCGT 60.301 57.895 0.00 0.00 0.00 5.68
785 816 1.258445 ATCTCCAGCCGTTCGGTTCT 61.258 55.000 12.81 0.00 0.00 3.01
787 819 1.079127 CATCTCCAGCCGTTCGGTT 60.079 57.895 12.81 3.82 0.00 4.44
788 820 2.579201 CATCTCCAGCCGTTCGGT 59.421 61.111 12.81 0.00 0.00 4.69
815 847 1.070105 TAGCACCCGTGAGCGTTTT 59.930 52.632 0.00 0.00 36.15 2.43
816 848 1.666872 GTAGCACCCGTGAGCGTTT 60.667 57.895 0.00 0.00 36.15 3.60
817 849 2.048503 GTAGCACCCGTGAGCGTT 60.049 61.111 0.00 0.00 36.15 4.84
818 850 4.065281 GGTAGCACCCGTGAGCGT 62.065 66.667 0.00 0.00 36.15 5.07
865 897 0.257039 GATTGATGACAGGTGGGGCT 59.743 55.000 0.00 0.00 0.00 5.19
1246 1282 2.439409 CAGTGACAATCTGGCCAATCA 58.561 47.619 7.01 2.93 0.00 2.57
1247 1283 1.747355 CCAGTGACAATCTGGCCAATC 59.253 52.381 7.01 0.00 44.46 2.67
1248 1284 1.843368 CCAGTGACAATCTGGCCAAT 58.157 50.000 7.01 0.08 44.46 3.16
1249 1285 3.344703 CCAGTGACAATCTGGCCAA 57.655 52.632 7.01 0.00 44.46 4.52
1486 1525 5.747197 GCAAAACTTAATGGCATGATCTCAG 59.253 40.000 0.00 0.00 0.00 3.35
1739 1787 5.357032 AGCAATTATTTAGCTACCGCTTTGT 59.643 36.000 0.00 0.00 46.47 2.83
1874 1922 9.696917 CTTGAAGTTAAGCTGGTCAATTTATTT 57.303 29.630 0.00 0.00 0.00 1.40
1875 1923 9.077885 TCTTGAAGTTAAGCTGGTCAATTTATT 57.922 29.630 0.00 0.00 0.00 1.40
1876 1924 8.635765 TCTTGAAGTTAAGCTGGTCAATTTAT 57.364 30.769 0.00 0.00 0.00 1.40
1877 1925 7.719633 ACTCTTGAAGTTAAGCTGGTCAATTTA 59.280 33.333 0.00 0.00 33.03 1.40
1878 1926 6.547510 ACTCTTGAAGTTAAGCTGGTCAATTT 59.452 34.615 0.00 0.00 33.03 1.82
1914 1962 8.345565 CCTTACCATTGCACAAGAGAAATATAC 58.654 37.037 0.00 0.00 0.00 1.47
1932 1980 6.707273 TTACTTCAACCTTACCCTTACCAT 57.293 37.500 0.00 0.00 0.00 3.55
1975 2023 1.555967 TGTGGAGGCATAAAAAGGGC 58.444 50.000 0.00 0.00 0.00 5.19
1994 2042 7.220030 CAAGAGATACATAAGGCCAACTGTAT 58.780 38.462 18.55 18.55 37.48 2.29
2549 2597 1.279271 ACAGATAGCAACCACAGGACC 59.721 52.381 0.00 0.00 0.00 4.46
2633 2681 3.072330 TCTGCCTGTGTGGACTCAAAATA 59.928 43.478 0.00 0.00 38.35 1.40
2697 2745 2.104792 TCTCCACAAAGGACCAACAGAG 59.895 50.000 0.00 0.00 43.07 3.35
2731 2779 5.977635 TCCTGTCATCCATACACTGTAAAG 58.022 41.667 0.00 0.00 0.00 1.85
2925 2973 6.833342 AAATGACAAGCATCAAACTTTGAC 57.167 33.333 6.35 0.00 43.48 3.18
2928 2976 8.284693 GCATAAAAATGACAAGCATCAAACTTT 58.715 29.630 0.00 0.00 35.78 2.66
2952 3000 5.299782 ACAAACCCAAACTATTTAACGAGCA 59.700 36.000 0.00 0.00 0.00 4.26
3010 3066 6.380274 AGTTTCGGTTTCCACTGATCTAGATA 59.620 38.462 4.89 0.00 38.17 1.98
3033 3089 7.287810 ACACTGAAAAGGTACCTAAATCAAGT 58.712 34.615 16.67 16.11 0.00 3.16
3124 3180 8.412456 AGATCAGTCTATACAGATGTGTTCAAG 58.588 37.037 0.00 0.00 32.48 3.02
3127 3183 8.012809 CGTAGATCAGTCTATACAGATGTGTTC 58.987 40.741 0.00 0.00 39.08 3.18
3133 3189 8.991026 GTAACACGTAGATCAGTCTATACAGAT 58.009 37.037 0.00 0.00 39.08 2.90
3178 3235 6.070951 TCAATGGTCCATCTCAAAAGAGAT 57.929 37.500 4.39 2.29 42.18 2.75
3231 3288 9.660180 AACAGTTAAATTTTTAAGAGGTTGCAA 57.340 25.926 0.00 0.00 33.66 4.08
3269 3326 6.442112 AGTACGTGACAACTACTTAACTTCC 58.558 40.000 0.00 0.00 0.00 3.46
3278 3430 3.973135 CAGTGTGAGTACGTGACAACTAC 59.027 47.826 0.00 0.00 0.00 2.73
3350 3502 7.546316 GGAAACAGGTCTAGAGTGATTTACTTC 59.454 40.741 8.70 0.00 40.53 3.01
3408 3564 0.765135 TCCCTCCGTCCCAAAAGACA 60.765 55.000 0.00 0.00 36.52 3.41
3409 3565 0.036294 CTCCCTCCGTCCCAAAAGAC 60.036 60.000 0.00 0.00 0.00 3.01
3410 3566 0.473117 ACTCCCTCCGTCCCAAAAGA 60.473 55.000 0.00 0.00 0.00 2.52
3411 3567 1.272807 TACTCCCTCCGTCCCAAAAG 58.727 55.000 0.00 0.00 0.00 2.27
3421 3594 5.940470 CCAGTTGCAATTATATACTCCCTCC 59.060 44.000 0.59 0.00 0.00 4.30
3424 3597 5.629079 GCCAGTTGCAATTATATACTCCC 57.371 43.478 0.59 0.00 40.77 4.30
3474 3647 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
3476 3649 0.179092 GTGTATTTCCGGACGGAGGG 60.179 60.000 13.64 0.00 46.06 4.30
3477 3650 0.526954 CGTGTATTTCCGGACGGAGG 60.527 60.000 13.64 0.00 46.06 4.30
3479 3652 0.171007 GACGTGTATTTCCGGACGGA 59.829 55.000 1.83 9.76 43.52 4.69
3480 3653 1.135699 CGACGTGTATTTCCGGACGG 61.136 60.000 1.83 3.96 36.14 4.79
3481 3654 1.135699 CCGACGTGTATTTCCGGACG 61.136 60.000 1.83 6.61 42.49 4.79
3482 3655 0.171007 TCCGACGTGTATTTCCGGAC 59.829 55.000 1.83 0.00 43.47 4.79
3483 3656 0.452987 CTCCGACGTGTATTTCCGGA 59.547 55.000 0.00 0.00 45.74 5.14
3484 3657 0.452987 TCTCCGACGTGTATTTCCGG 59.547 55.000 0.00 0.00 41.36 5.14
3485 3658 2.267188 TTCTCCGACGTGTATTTCCG 57.733 50.000 0.00 0.00 0.00 4.30
3486 3659 3.308866 CCATTTCTCCGACGTGTATTTCC 59.691 47.826 0.00 0.00 0.00 3.13
3487 3660 4.178540 TCCATTTCTCCGACGTGTATTTC 58.821 43.478 0.00 0.00 0.00 2.17
3488 3661 4.196626 TCCATTTCTCCGACGTGTATTT 57.803 40.909 0.00 0.00 0.00 1.40
3489 3662 3.880047 TCCATTTCTCCGACGTGTATT 57.120 42.857 0.00 0.00 0.00 1.89
3490 3663 3.132289 ACATCCATTTCTCCGACGTGTAT 59.868 43.478 0.00 0.00 0.00 2.29
3491 3664 2.494471 ACATCCATTTCTCCGACGTGTA 59.506 45.455 0.00 0.00 0.00 2.90
3492 3665 1.275291 ACATCCATTTCTCCGACGTGT 59.725 47.619 0.00 0.00 0.00 4.49
3493 3666 2.010145 ACATCCATTTCTCCGACGTG 57.990 50.000 0.00 0.00 0.00 4.49
3494 3667 3.637229 AGATACATCCATTTCTCCGACGT 59.363 43.478 0.00 0.00 0.00 4.34
3495 3668 4.244425 AGATACATCCATTTCTCCGACG 57.756 45.455 0.00 0.00 0.00 5.12
3496 3669 6.383415 GTCTAGATACATCCATTTCTCCGAC 58.617 44.000 0.00 0.00 0.00 4.79
3497 3670 5.181433 CGTCTAGATACATCCATTTCTCCGA 59.819 44.000 0.00 0.00 0.00 4.55
3498 3671 5.048643 ACGTCTAGATACATCCATTTCTCCG 60.049 44.000 0.00 0.00 0.00 4.63
3499 3672 6.334102 ACGTCTAGATACATCCATTTCTCC 57.666 41.667 0.00 0.00 0.00 3.71
3500 3673 9.915629 AAATACGTCTAGATACATCCATTTCTC 57.084 33.333 0.00 0.00 0.00 2.87
3532 3705 9.533831 GGGGTGAATAAAATTGGATGTATCTAT 57.466 33.333 0.00 0.00 0.00 1.98
3533 3706 8.732854 AGGGGTGAATAAAATTGGATGTATCTA 58.267 33.333 0.00 0.00 0.00 1.98
3534 3707 7.595488 AGGGGTGAATAAAATTGGATGTATCT 58.405 34.615 0.00 0.00 0.00 1.98
3535 3708 7.039714 GGAGGGGTGAATAAAATTGGATGTATC 60.040 40.741 0.00 0.00 0.00 2.24
3536 3709 6.782494 GGAGGGGTGAATAAAATTGGATGTAT 59.218 38.462 0.00 0.00 0.00 2.29
3537 3710 6.133356 GGAGGGGTGAATAAAATTGGATGTA 58.867 40.000 0.00 0.00 0.00 2.29
3538 3711 4.962362 GGAGGGGTGAATAAAATTGGATGT 59.038 41.667 0.00 0.00 0.00 3.06
3539 3712 4.037923 CGGAGGGGTGAATAAAATTGGATG 59.962 45.833 0.00 0.00 0.00 3.51
3540 3713 4.079443 TCGGAGGGGTGAATAAAATTGGAT 60.079 41.667 0.00 0.00 0.00 3.41
3541 3714 3.267291 TCGGAGGGGTGAATAAAATTGGA 59.733 43.478 0.00 0.00 0.00 3.53
3542 3715 3.380320 GTCGGAGGGGTGAATAAAATTGG 59.620 47.826 0.00 0.00 0.00 3.16
3543 3716 4.013728 TGTCGGAGGGGTGAATAAAATTG 58.986 43.478 0.00 0.00 0.00 2.32
3544 3717 4.310022 TGTCGGAGGGGTGAATAAAATT 57.690 40.909 0.00 0.00 0.00 1.82
3545 3718 4.310022 TTGTCGGAGGGGTGAATAAAAT 57.690 40.909 0.00 0.00 0.00 1.82
3546 3719 3.791953 TTGTCGGAGGGGTGAATAAAA 57.208 42.857 0.00 0.00 0.00 1.52
3547 3720 3.791953 TTTGTCGGAGGGGTGAATAAA 57.208 42.857 0.00 0.00 0.00 1.40
3548 3721 5.640158 ATATTTGTCGGAGGGGTGAATAA 57.360 39.130 0.00 0.00 0.00 1.40
3549 3722 5.640158 AATATTTGTCGGAGGGGTGAATA 57.360 39.130 0.00 0.00 0.00 1.75
3550 3723 4.519906 AATATTTGTCGGAGGGGTGAAT 57.480 40.909 0.00 0.00 0.00 2.57
3551 3724 4.310022 AAATATTTGTCGGAGGGGTGAA 57.690 40.909 0.00 0.00 0.00 3.18
3552 3725 4.013728 CAAAATATTTGTCGGAGGGGTGA 58.986 43.478 0.39 0.00 0.00 4.02
3553 3726 3.130340 CCAAAATATTTGTCGGAGGGGTG 59.870 47.826 0.39 0.00 0.00 4.61
3554 3727 3.361786 CCAAAATATTTGTCGGAGGGGT 58.638 45.455 0.39 0.00 0.00 4.95
3555 3728 2.693074 CCCAAAATATTTGTCGGAGGGG 59.307 50.000 0.39 1.60 0.00 4.79
3556 3729 3.626930 TCCCAAAATATTTGTCGGAGGG 58.373 45.455 0.39 7.02 35.09 4.30
3557 3730 4.097892 CCTTCCCAAAATATTTGTCGGAGG 59.902 45.833 0.39 7.37 0.00 4.30
3558 3731 4.947388 TCCTTCCCAAAATATTTGTCGGAG 59.053 41.667 0.39 0.00 0.00 4.63
3559 3732 4.924625 TCCTTCCCAAAATATTTGTCGGA 58.075 39.130 0.39 4.46 0.00 4.55
3560 3733 4.097892 CCTCCTTCCCAAAATATTTGTCGG 59.902 45.833 0.39 3.29 0.00 4.79
3561 3734 4.097892 CCCTCCTTCCCAAAATATTTGTCG 59.902 45.833 0.39 0.00 0.00 4.35
3562 3735 5.269189 TCCCTCCTTCCCAAAATATTTGTC 58.731 41.667 0.39 0.00 0.00 3.18
3563 3736 5.222547 ACTCCCTCCTTCCCAAAATATTTGT 60.223 40.000 0.39 0.00 0.00 2.83
3564 3737 5.272402 ACTCCCTCCTTCCCAAAATATTTG 58.728 41.667 0.39 0.00 0.00 2.32
3565 3738 5.552430 ACTCCCTCCTTCCCAAAATATTT 57.448 39.130 0.00 0.00 0.00 1.40
3566 3739 5.736616 AGTACTCCCTCCTTCCCAAAATATT 59.263 40.000 0.00 0.00 0.00 1.28
3567 3740 5.297799 AGTACTCCCTCCTTCCCAAAATAT 58.702 41.667 0.00 0.00 0.00 1.28
3568 3741 4.706616 AGTACTCCCTCCTTCCCAAAATA 58.293 43.478 0.00 0.00 0.00 1.40
3569 3742 3.542604 AGTACTCCCTCCTTCCCAAAAT 58.457 45.455 0.00 0.00 0.00 1.82
3570 3743 2.999928 AGTACTCCCTCCTTCCCAAAA 58.000 47.619 0.00 0.00 0.00 2.44
3571 3744 2.735259 AGTACTCCCTCCTTCCCAAA 57.265 50.000 0.00 0.00 0.00 3.28
3572 3745 2.626149 GCTAGTACTCCCTCCTTCCCAA 60.626 54.545 0.00 0.00 0.00 4.12
3573 3746 1.063114 GCTAGTACTCCCTCCTTCCCA 60.063 57.143 0.00 0.00 0.00 4.37
3574 3747 1.063114 TGCTAGTACTCCCTCCTTCCC 60.063 57.143 0.00 0.00 0.00 3.97
3575 3748 2.091775 TCTGCTAGTACTCCCTCCTTCC 60.092 54.545 0.00 0.00 0.00 3.46
3576 3749 3.300239 TCTGCTAGTACTCCCTCCTTC 57.700 52.381 0.00 0.00 0.00 3.46
3577 3750 3.367321 GTTCTGCTAGTACTCCCTCCTT 58.633 50.000 0.00 0.00 0.00 3.36
3578 3751 2.684334 CGTTCTGCTAGTACTCCCTCCT 60.684 54.545 0.00 0.00 0.00 3.69
3579 3752 1.677052 CGTTCTGCTAGTACTCCCTCC 59.323 57.143 0.00 0.00 0.00 4.30
3580 3753 1.065851 GCGTTCTGCTAGTACTCCCTC 59.934 57.143 0.00 0.00 41.73 4.30
3581 3754 1.104630 GCGTTCTGCTAGTACTCCCT 58.895 55.000 0.00 0.00 41.73 4.20
3582 3755 3.644774 GCGTTCTGCTAGTACTCCC 57.355 57.895 0.00 0.00 41.73 4.30
3599 3772 2.703409 CCATAGCAACGCACGAGC 59.297 61.111 0.00 0.00 37.42 5.03
3600 3773 2.813179 GCCCATAGCAACGCACGAG 61.813 63.158 0.00 0.00 42.97 4.18
3601 3774 2.817834 GCCCATAGCAACGCACGA 60.818 61.111 0.00 0.00 42.97 4.35
3617 3790 5.449107 TTAGAGATAACACGGTGGATAGC 57.551 43.478 13.48 8.07 0.00 2.97
3618 3791 7.251994 GCTATTAGAGATAACACGGTGGATAG 58.748 42.308 13.48 6.70 0.00 2.08
3626 3799 4.023450 TGGACGGCTATTAGAGATAACACG 60.023 45.833 0.00 0.00 0.00 4.49
3627 3800 5.449107 TGGACGGCTATTAGAGATAACAC 57.551 43.478 0.00 0.00 0.00 3.32
3640 3813 0.948678 GTTTTTGTGCTGGACGGCTA 59.051 50.000 4.59 0.00 0.00 3.93
3648 3821 0.667184 GGGATGCGGTTTTTGTGCTG 60.667 55.000 0.00 0.00 0.00 4.41
3650 3823 1.732683 CGGGATGCGGTTTTTGTGC 60.733 57.895 0.00 0.00 0.00 4.57
3690 3863 1.298993 GGGAAGGGGAGGTTTCGAC 59.701 63.158 0.00 0.00 0.00 4.20
3694 3867 2.160853 AAGCGGGAAGGGGAGGTTT 61.161 57.895 0.00 0.00 0.00 3.27
3700 3873 2.117423 AAACCAAGCGGGAAGGGG 59.883 61.111 4.35 0.00 41.15 4.79
3712 3885 0.322098 CCCACTATGACGGCAAACCA 60.322 55.000 0.00 0.00 34.57 3.67
3722 3895 2.766263 AGCGAGAAACATCCCACTATGA 59.234 45.455 0.00 0.00 0.00 2.15
3723 3896 2.868583 CAGCGAGAAACATCCCACTATG 59.131 50.000 0.00 0.00 0.00 2.23
3728 3901 0.690192 TTCCAGCGAGAAACATCCCA 59.310 50.000 0.00 0.00 0.00 4.37
3733 3906 1.347707 AGGTGATTCCAGCGAGAAACA 59.652 47.619 0.00 0.00 44.94 2.83
3734 3907 2.003301 GAGGTGATTCCAGCGAGAAAC 58.997 52.381 0.00 0.00 44.94 2.78
3744 3917 5.321927 TCTGGTTTTAAAGGAGGTGATTCC 58.678 41.667 0.00 0.00 37.52 3.01
3747 3920 5.946377 GTCATCTGGTTTTAAAGGAGGTGAT 59.054 40.000 8.54 0.00 0.00 3.06
3755 3928 4.083484 GGTGGACGTCATCTGGTTTTAAAG 60.083 45.833 18.91 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.