Multiple sequence alignment - TraesCS1D01G125600

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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 TraesCS1D01G125600 chr1D 100.000 3891 0 0 1 3891 134681216 134685106 0.000000e+00 7186.0
1 TraesCS1D01G125600 chr1D 88.095 84 6 2 3520 3599 474283914 474283831 3.200000e-16 97.1
2 TraesCS1D01G125600 chr1A 93.647 2959 120 23 1 2919 163384977 163382047 0.000000e+00 4361.0
3 TraesCS1D01G125600 chr1A 85.036 548 33 13 2916 3434 163378214 163377687 2.680000e-141 512.0
4 TraesCS1D01G125600 chr1B 92.456 2744 86 39 775 3432 201775001 201777709 0.000000e+00 3808.0
5 TraesCS1D01G125600 chr1B 93.447 412 25 1 296 705 201774576 201774987 9.240000e-171 610.0
6 TraesCS1D01G125600 chr1B 90.584 308 19 5 1 299 201760607 201760913 2.180000e-107 399.0
7 TraesCS1D01G125600 chr1B 83.392 283 33 7 3458 3734 201777812 201778086 2.320000e-62 250.0
8 TraesCS1D01G125600 chr3D 77.996 459 70 12 3449 3891 305492922 305492479 3.860000e-65 259.0
9 TraesCS1D01G125600 chr3D 76.407 462 84 15 3449 3891 418726869 418726414 3.910000e-55 226.0
10 TraesCS1D01G125600 chr3D 75.140 358 65 11 3449 3793 37959432 37959778 3.130000e-31 147.0
11 TraesCS1D01G125600 chr2B 80.912 351 48 12 3449 3784 651738518 651738172 3.860000e-65 259.0
12 TraesCS1D01G125600 chr2B 77.285 361 51 10 3453 3796 527912330 527911984 2.390000e-42 183.0
13 TraesCS1D01G125600 chr5D 80.556 360 45 9 3449 3796 333989169 333989515 1.790000e-63 254.0
14 TraesCS1D01G125600 chr2A 79.320 353 59 7 3446 3786 688409461 688409811 6.500000e-58 235.0
15 TraesCS1D01G125600 chr4B 87.234 188 24 0 2205 2392 412778110 412777923 8.470000e-52 215.0
16 TraesCS1D01G125600 chr4B 75.330 454 85 12 3462 3891 39296888 39296438 3.970000e-45 193.0
17 TraesCS1D01G125600 chr4B 76.307 287 49 11 3517 3786 414469242 414469526 6.780000e-28 135.0
18 TraesCS1D01G125600 chr4D 86.702 188 25 0 2205 2392 334962735 334962548 3.940000e-50 209.0
19 TraesCS1D01G125600 chr4A 86.702 188 25 0 2205 2392 138418992 138419179 3.940000e-50 209.0
20 TraesCS1D01G125600 chr4A 78.125 320 51 14 1227 1537 138418069 138418378 6.640000e-43 185.0
21 TraesCS1D01G125600 chr7B 74.728 459 83 16 3448 3891 645344294 645343854 1.440000e-39 174.0
22 TraesCS1D01G125600 chr2D 78.082 292 49 6 3525 3801 619937478 619937187 1.860000e-38 171.0
23 TraesCS1D01G125600 chr2D 76.294 367 53 20 3449 3796 629434497 629434146 8.650000e-37 165.0
24 TraesCS1D01G125600 chr2D 74.086 301 54 14 3512 3792 363527801 363527505 6.880000e-18 102.0
25 TraesCS1D01G125600 chr2D 100.000 31 0 0 713 743 15919709 15919679 1.510000e-04 58.4
26 TraesCS1D01G125600 chr3B 75.921 353 56 16 3446 3786 704919992 704920327 1.870000e-33 154.0
27 TraesCS1D01G125600 chr3B 74.000 400 68 13 3498 3890 416267068 416267438 3.160000e-26 130.0
28 TraesCS1D01G125600 chr6D 76.792 293 48 10 3512 3793 45805543 45805826 3.130000e-31 147.0
29 TraesCS1D01G125600 chr6A 76.016 246 34 14 3449 3686 59942741 59942969 1.910000e-18 104.0


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 TraesCS1D01G125600 chr1D 134681216 134685106 3890 False 7186.0 7186 100.0000 1 3891 1 chr1D.!!$F1 3890
1 TraesCS1D01G125600 chr1A 163377687 163384977 7290 True 2436.5 4361 89.3415 1 3434 2 chr1A.!!$R1 3433
2 TraesCS1D01G125600 chr1B 201774576 201778086 3510 False 1556.0 3808 89.7650 296 3734 3 chr1B.!!$F2 3438

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
489 491 0.036022 GCTACATCCTCCCTGATGGC 59.964 60.0 6.04 0.0 45.16 4.40 F
512 514 0.109342 ACTGGCTTCCTTGACCACTG 59.891 55.0 0.00 0.0 0.00 3.66 F
1501 1549 0.179097 GGAAGATCCACGTCAGGCTC 60.179 60.0 0.00 0.0 36.28 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2118 2177 0.817654 GCTTCAGTGTAATTGGGGGC 59.182 55.0 0.0 0.0 0.00 5.80 R
2471 2530 5.046663 TCAATTTGGAAGGAATTACAAGGGC 60.047 40.0 0.0 0.0 0.00 5.19 R
3018 6925 0.179018 GTCAGAGGCAACCACCACTT 60.179 55.0 0.0 0.0 37.17 3.16 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
19 20 1.726853 GAGTGGTCTGTGTACATGGC 58.273 55.000 0.00 0.00 0.00 4.40
20 21 1.001974 GAGTGGTCTGTGTACATGGCA 59.998 52.381 0.00 0.00 0.00 4.92
45 46 5.942961 TGGTAAACATAAAGGAGACCACAA 58.057 37.500 0.00 0.00 30.67 3.33
65 66 8.450180 ACCACAACAATTTCTTTTTCAATGAAC 58.550 29.630 0.00 0.00 0.00 3.18
87 88 3.806380 TCTACCTCATACCGACACTCTC 58.194 50.000 0.00 0.00 0.00 3.20
88 89 2.509166 ACCTCATACCGACACTCTCA 57.491 50.000 0.00 0.00 0.00 3.27
97 98 1.409227 CGACACTCTCATGCTCACGC 61.409 60.000 0.00 0.00 0.00 5.34
183 184 2.032681 GTTGGGTCGCAGCCTCTT 59.967 61.111 6.06 0.00 36.53 2.85
215 216 1.129998 ACGACCACGAACATCTCTACG 59.870 52.381 0.00 0.00 42.66 3.51
236 237 0.607217 CGACCACAACCTTTACCCCC 60.607 60.000 0.00 0.00 0.00 5.40
282 284 1.859998 GCTTGCTCAAAACACGACCAC 60.860 52.381 0.00 0.00 0.00 4.16
326 328 1.369692 CACTTCGTGCCACCCACTA 59.630 57.895 0.00 0.00 42.42 2.74
371 373 1.364171 GTCGTGTCCACTGTGCTCT 59.636 57.895 1.29 0.00 0.00 4.09
387 389 1.769026 CTCTCTCCATCCTCGACCAA 58.231 55.000 0.00 0.00 0.00 3.67
441 443 0.908910 ATATGCTTGACCACCGTCCA 59.091 50.000 0.00 0.00 38.32 4.02
483 485 1.041437 GCGTTAGCTACATCCTCCCT 58.959 55.000 0.00 0.00 41.01 4.20
484 486 1.269831 GCGTTAGCTACATCCTCCCTG 60.270 57.143 0.00 0.00 41.01 4.45
485 487 2.307768 CGTTAGCTACATCCTCCCTGA 58.692 52.381 0.00 0.00 0.00 3.86
489 491 0.036022 GCTACATCCTCCCTGATGGC 59.964 60.000 6.04 0.00 45.16 4.40
512 514 0.109342 ACTGGCTTCCTTGACCACTG 59.891 55.000 0.00 0.00 0.00 3.66
575 577 3.003173 TGCCTGCCGCTACTCCTT 61.003 61.111 0.00 0.00 38.78 3.36
577 579 2.982130 CCTGCCGCTACTCCTTGT 59.018 61.111 0.00 0.00 0.00 3.16
599 601 1.103803 GTCCTCATCTGGCGACACTA 58.896 55.000 0.00 0.00 35.60 2.74
707 711 3.199071 AGCAAATCAATCATGGGCACATT 59.801 39.130 0.00 0.00 34.35 2.71
708 712 3.311322 GCAAATCAATCATGGGCACATTG 59.689 43.478 0.00 0.00 34.35 2.82
709 713 4.509616 CAAATCAATCATGGGCACATTGT 58.490 39.130 0.00 0.00 34.35 2.71
743 756 8.742777 AGCAATGACAGAAAATCTATGCTTTAA 58.257 29.630 0.00 0.00 36.16 1.52
883 896 1.031571 CAACGCCTGGGCACATACAT 61.032 55.000 12.34 0.00 42.06 2.29
890 903 2.172505 CCTGGGCACATACATAGTCCAA 59.827 50.000 0.00 0.00 0.00 3.53
894 907 5.268387 TGGGCACATACATAGTCCAATTTT 58.732 37.500 0.00 0.00 0.00 1.82
921 934 5.652014 TGTTGATAAAGATCGAAATTGGGCT 59.348 36.000 0.00 0.00 34.49 5.19
1316 1364 1.752501 CGCCGCCTTGTAAGTCATCG 61.753 60.000 0.00 0.00 0.00 3.84
1501 1549 0.179097 GGAAGATCCACGTCAGGCTC 60.179 60.000 0.00 0.00 36.28 4.70
1564 1612 5.538053 TGAATTGCCATTCACCTTGTTAGAA 59.462 36.000 9.05 0.00 43.32 2.10
1592 1640 4.635223 TCCTTTGAGAACAGTGTGATCTG 58.365 43.478 2.14 0.00 40.80 2.90
1593 1641 3.750130 CCTTTGAGAACAGTGTGATCTGG 59.250 47.826 2.14 2.73 39.48 3.86
1594 1642 4.503817 CCTTTGAGAACAGTGTGATCTGGA 60.504 45.833 2.14 0.00 39.48 3.86
1595 1643 3.949842 TGAGAACAGTGTGATCTGGAG 57.050 47.619 2.14 0.00 39.48 3.86
1596 1644 3.234353 TGAGAACAGTGTGATCTGGAGT 58.766 45.455 2.14 0.00 39.48 3.85
1699 1747 4.101119 AGACAAAGATGGTATTCCCCTACG 59.899 45.833 0.00 0.00 0.00 3.51
1838 1895 3.670625 TGTTCACCAGTATGCTACAACC 58.329 45.455 0.00 0.00 31.97 3.77
1877 1934 1.067821 GGGCATGTGTTTTCCGTTTGA 59.932 47.619 0.00 0.00 0.00 2.69
2101 2160 3.258372 TCTTCATAGTTGTGTCCTTCGCT 59.742 43.478 0.00 0.00 0.00 4.93
2118 2177 3.316283 TCGCTTAGCAAAATGCCAAAAG 58.684 40.909 4.70 2.62 46.52 2.27
2130 2189 0.980423 GCCAAAAGCCCCCAATTACA 59.020 50.000 0.00 0.00 34.35 2.41
2193 2252 5.749596 TGTTGAAATGTGTGGTTGACTAG 57.250 39.130 0.00 0.00 0.00 2.57
2196 2255 5.042463 TGAAATGTGTGGTTGACTAGGAA 57.958 39.130 0.00 0.00 0.00 3.36
2471 2530 7.278868 AGCCTGAACTTTTACATCTCTATTTCG 59.721 37.037 0.00 0.00 0.00 3.46
2483 2542 6.483640 ACATCTCTATTTCGCCCTTGTAATTC 59.516 38.462 0.00 0.00 0.00 2.17
2489 2548 1.631388 TCGCCCTTGTAATTCCTTCCA 59.369 47.619 0.00 0.00 0.00 3.53
2575 2634 3.316308 GGTGTTGTTGCAGATCTTCTTGT 59.684 43.478 0.00 0.00 0.00 3.16
2669 2728 3.428532 AGGATGTTGTGTACGAGTACCT 58.571 45.455 10.48 0.00 35.26 3.08
2700 2759 5.638783 GAAACTGCTTGAAGATCCATCTTG 58.361 41.667 6.54 0.00 46.47 3.02
2757 2816 2.320587 CGACGGCTTGCTTGAGCTT 61.321 57.895 4.44 0.00 42.32 3.74
2974 6881 2.519013 GCTGAACCCTTGAAATGTCCT 58.481 47.619 0.00 0.00 0.00 3.85
2981 6888 2.507471 CCCTTGAAATGTCCTAGCCTCT 59.493 50.000 0.00 0.00 0.00 3.69
2992 6899 3.105283 TCCTAGCCTCTAACCTGGAAAC 58.895 50.000 0.00 0.00 0.00 2.78
2999 6906 4.506095 GCCTCTAACCTGGAAACCTTGTAA 60.506 45.833 0.00 0.00 0.00 2.41
3018 6925 5.285401 TGTAAGGGAATGGATACCTCTTGA 58.715 41.667 0.00 0.00 32.29 3.02
3019 6926 5.729229 TGTAAGGGAATGGATACCTCTTGAA 59.271 40.000 0.00 0.00 32.29 2.69
3125 7044 3.914579 CTGCTCCCTGGGCTGTGTG 62.915 68.421 8.22 0.00 0.00 3.82
3128 7047 2.122413 TCCCTGGGCTGTGTGTCT 60.122 61.111 8.22 0.00 0.00 3.41
3220 7143 2.498056 GGTGGTGTTGGGCAAGGTG 61.498 63.158 0.00 0.00 0.00 4.00
3320 7286 0.671251 CTCTAGGTCGTGATGGAGGC 59.329 60.000 0.00 0.00 0.00 4.70
3432 7399 4.287552 GGGACTGTGTCTCTAGGGATTTA 58.712 47.826 0.00 0.00 32.47 1.40
3434 7401 5.367060 GGGACTGTGTCTCTAGGGATTTAAT 59.633 44.000 0.00 0.00 32.47 1.40
3436 7403 6.325286 GGACTGTGTCTCTAGGGATTTAATCT 59.675 42.308 0.00 0.00 32.47 2.40
3437 7404 7.118496 ACTGTGTCTCTAGGGATTTAATCTG 57.882 40.000 0.00 0.00 0.00 2.90
3438 7405 6.098982 ACTGTGTCTCTAGGGATTTAATCTGG 59.901 42.308 0.00 0.00 0.00 3.86
3439 7406 5.964477 TGTGTCTCTAGGGATTTAATCTGGT 59.036 40.000 0.00 0.00 0.00 4.00
3440 7407 6.098409 TGTGTCTCTAGGGATTTAATCTGGTC 59.902 42.308 0.00 0.00 0.00 4.02
3441 7408 5.302059 TGTCTCTAGGGATTTAATCTGGTCG 59.698 44.000 0.00 0.00 0.00 4.79
3442 7409 4.833380 TCTCTAGGGATTTAATCTGGTCGG 59.167 45.833 4.87 0.00 0.00 4.79
3444 7411 4.833380 TCTAGGGATTTAATCTGGTCGGAG 59.167 45.833 4.87 0.00 0.00 4.63
3446 7413 2.495084 GGATTTAATCTGGTCGGAGCC 58.505 52.381 4.54 0.00 0.00 4.70
3447 7414 2.158813 GGATTTAATCTGGTCGGAGCCA 60.159 50.000 4.54 2.23 36.97 4.75
3448 7415 3.496870 GGATTTAATCTGGTCGGAGCCAT 60.497 47.826 4.54 0.00 37.96 4.40
3449 7416 2.620251 TTAATCTGGTCGGAGCCATG 57.380 50.000 4.54 0.00 37.96 3.66
3450 7417 0.106708 TAATCTGGTCGGAGCCATGC 59.893 55.000 4.54 0.00 37.96 4.06
3451 7418 2.615227 AATCTGGTCGGAGCCATGCC 62.615 60.000 4.54 0.00 37.96 4.40
3452 7419 4.864334 CTGGTCGGAGCCATGCCC 62.864 72.222 4.54 0.00 37.96 5.36
3470 7515 4.937431 GGCTCCCGCTACATGGGC 62.937 72.222 0.00 0.00 46.92 5.36
3505 7550 1.594310 GCTCCAGTGACTCCTCCAC 59.406 63.158 0.00 0.00 34.89 4.02
3507 7552 0.896019 CTCCAGTGACTCCTCCACGT 60.896 60.000 0.00 0.00 39.38 4.49
3514 7559 2.439701 CTCCTCCACGTCGGCCTA 60.440 66.667 0.00 0.00 33.14 3.93
3520 7565 2.954868 CACGTCGGCCTACGCATC 60.955 66.667 27.88 0.00 46.71 3.91
3527 7572 1.810606 CGGCCTACGCATCCATCTCT 61.811 60.000 0.00 0.00 36.38 3.10
3541 7586 0.736053 ATCTCTGCTTCGACCTCGTC 59.264 55.000 0.00 0.00 40.80 4.20
3578 7623 4.096003 ACCCGTTCCTGCCCGATG 62.096 66.667 0.00 0.00 0.00 3.84
3579 7624 3.781307 CCCGTTCCTGCCCGATGA 61.781 66.667 0.00 0.00 0.00 2.92
3580 7625 2.267642 CCGTTCCTGCCCGATGAA 59.732 61.111 0.00 0.00 0.00 2.57
3581 7626 2.106683 CCGTTCCTGCCCGATGAAC 61.107 63.158 0.00 0.00 36.02 3.18
3582 7627 2.106683 CGTTCCTGCCCGATGAACC 61.107 63.158 0.00 0.00 35.99 3.62
3583 7628 2.106683 GTTCCTGCCCGATGAACCG 61.107 63.158 0.00 0.00 33.85 4.44
3584 7629 3.969250 TTCCTGCCCGATGAACCGC 62.969 63.158 0.00 0.00 0.00 5.68
3596 7641 4.344865 AACCGCCGGCCTTCACAT 62.345 61.111 23.46 0.00 0.00 3.21
3598 7643 2.588877 CCGCCGGCCTTCACATAG 60.589 66.667 23.46 2.52 0.00 2.23
3608 7653 3.853355 CCTTCACATAGGCCTCATTCT 57.147 47.619 9.68 0.00 0.00 2.40
3614 7659 4.907269 TCACATAGGCCTCATTCTGGATAA 59.093 41.667 9.68 0.00 0.00 1.75
3618 7663 4.870021 AGGCCTCATTCTGGATAAACTT 57.130 40.909 0.00 0.00 0.00 2.66
3619 7664 4.786425 AGGCCTCATTCTGGATAAACTTC 58.214 43.478 0.00 0.00 0.00 3.01
3631 7681 0.673644 TAAACTTCGGCCTGCTGCTC 60.674 55.000 0.00 0.00 40.92 4.26
3653 7703 1.592669 CATCTCGGTAGCTTGGGCG 60.593 63.158 0.00 0.00 44.37 6.13
3719 7769 4.228567 GGCGCCAGCTACTCCTCC 62.229 72.222 24.80 0.00 44.37 4.30
3737 7787 3.231298 GGTTGCTCCGCCTCCTAT 58.769 61.111 0.00 0.00 0.00 2.57
3738 7788 1.227674 GGTTGCTCCGCCTCCTATG 60.228 63.158 0.00 0.00 0.00 2.23
3739 7789 1.686325 GGTTGCTCCGCCTCCTATGA 61.686 60.000 0.00 0.00 0.00 2.15
3740 7790 0.178068 GTTGCTCCGCCTCCTATGAA 59.822 55.000 0.00 0.00 0.00 2.57
3741 7791 1.131638 TTGCTCCGCCTCCTATGAAT 58.868 50.000 0.00 0.00 0.00 2.57
3742 7792 0.681733 TGCTCCGCCTCCTATGAATC 59.318 55.000 0.00 0.00 0.00 2.52
3743 7793 0.389166 GCTCCGCCTCCTATGAATCG 60.389 60.000 0.00 0.00 0.00 3.34
3744 7794 0.244994 CTCCGCCTCCTATGAATCGG 59.755 60.000 0.00 0.00 37.01 4.18
3745 7795 1.374758 CCGCCTCCTATGAATCGGC 60.375 63.158 0.00 0.00 37.40 5.54
3746 7796 1.374758 CGCCTCCTATGAATCGGCC 60.375 63.158 0.00 0.00 37.47 6.13
3747 7797 1.754745 GCCTCCTATGAATCGGCCA 59.245 57.895 2.24 0.00 34.75 5.36
3748 7798 0.603975 GCCTCCTATGAATCGGCCAC 60.604 60.000 2.24 0.00 34.75 5.01
3749 7799 0.035458 CCTCCTATGAATCGGCCACC 59.965 60.000 2.24 0.00 0.00 4.61
3750 7800 1.051812 CTCCTATGAATCGGCCACCT 58.948 55.000 2.24 0.00 0.00 4.00
3751 7801 1.001406 CTCCTATGAATCGGCCACCTC 59.999 57.143 2.24 0.00 0.00 3.85
3752 7802 0.035458 CCTATGAATCGGCCACCTCC 59.965 60.000 2.24 0.00 0.00 4.30
3753 7803 0.758734 CTATGAATCGGCCACCTCCA 59.241 55.000 2.24 0.00 0.00 3.86
3754 7804 1.349026 CTATGAATCGGCCACCTCCAT 59.651 52.381 2.24 1.61 0.00 3.41
3755 7805 0.109342 ATGAATCGGCCACCTCCATC 59.891 55.000 2.24 0.00 0.00 3.51
3756 7806 1.595382 GAATCGGCCACCTCCATCG 60.595 63.158 2.24 0.00 0.00 3.84
3757 7807 2.996168 GAATCGGCCACCTCCATCGG 62.996 65.000 2.24 0.00 0.00 4.18
3758 7808 4.770362 TCGGCCACCTCCATCGGA 62.770 66.667 2.24 0.00 0.00 4.55
3766 7816 4.598894 CTCCATCGGAGCCGGCTG 62.599 72.222 38.41 21.81 43.29 4.85
3777 7827 4.093291 CCGGCTGCTGCTCCTCTT 62.093 66.667 15.64 0.00 39.59 2.85
3778 7828 2.511145 CGGCTGCTGCTCCTCTTC 60.511 66.667 15.64 0.00 39.59 2.87
3779 7829 2.124778 GGCTGCTGCTCCTCTTCC 60.125 66.667 15.64 0.00 39.59 3.46
3780 7830 2.668120 GGCTGCTGCTCCTCTTCCT 61.668 63.158 15.64 0.00 39.59 3.36
3781 7831 1.153389 GCTGCTGCTCCTCTTCCTC 60.153 63.158 8.53 0.00 36.03 3.71
3782 7832 1.521616 CTGCTGCTCCTCTTCCTCC 59.478 63.158 0.00 0.00 0.00 4.30
3783 7833 0.977108 CTGCTGCTCCTCTTCCTCCT 60.977 60.000 0.00 0.00 0.00 3.69
3784 7834 0.975040 TGCTGCTCCTCTTCCTCCTC 60.975 60.000 0.00 0.00 0.00 3.71
3785 7835 1.685355 GCTGCTCCTCTTCCTCCTCC 61.685 65.000 0.00 0.00 0.00 4.30
3786 7836 1.380515 TGCTCCTCTTCCTCCTCCG 60.381 63.158 0.00 0.00 0.00 4.63
3787 7837 2.791868 GCTCCTCTTCCTCCTCCGC 61.792 68.421 0.00 0.00 0.00 5.54
3788 7838 2.042843 TCCTCTTCCTCCTCCGCC 60.043 66.667 0.00 0.00 0.00 6.13
3789 7839 2.042435 CCTCTTCCTCCTCCGCCT 60.042 66.667 0.00 0.00 0.00 5.52
3790 7840 2.131067 CCTCTTCCTCCTCCGCCTC 61.131 68.421 0.00 0.00 0.00 4.70
3791 7841 2.042843 TCTTCCTCCTCCGCCTCC 60.043 66.667 0.00 0.00 0.00 4.30
3792 7842 3.532155 CTTCCTCCTCCGCCTCCG 61.532 72.222 0.00 0.00 0.00 4.63
3809 7859 3.760035 GGCTCCGGCGAGTCTGAA 61.760 66.667 9.30 0.00 37.77 3.02
3810 7860 2.261671 GCTCCGGCGAGTCTGAAA 59.738 61.111 9.30 0.00 38.49 2.69
3811 7861 1.807573 GCTCCGGCGAGTCTGAAAG 60.808 63.158 9.30 0.00 38.49 2.62
3812 7862 1.807573 CTCCGGCGAGTCTGAAAGC 60.808 63.158 9.30 0.00 0.00 3.51
3813 7863 2.048222 CCGGCGAGTCTGAAAGCA 60.048 61.111 9.30 0.00 0.00 3.91
3814 7864 1.667830 CCGGCGAGTCTGAAAGCAA 60.668 57.895 9.30 0.00 0.00 3.91
3815 7865 1.630244 CCGGCGAGTCTGAAAGCAAG 61.630 60.000 9.30 0.00 0.00 4.01
3816 7866 0.946221 CGGCGAGTCTGAAAGCAAGT 60.946 55.000 0.00 0.00 0.00 3.16
3817 7867 1.230324 GGCGAGTCTGAAAGCAAGTT 58.770 50.000 0.00 0.00 0.00 2.66
3818 7868 1.069636 GGCGAGTCTGAAAGCAAGTTG 60.070 52.381 0.00 0.00 0.00 3.16
3819 7869 1.867233 GCGAGTCTGAAAGCAAGTTGA 59.133 47.619 7.16 0.00 0.00 3.18
3820 7870 2.348966 GCGAGTCTGAAAGCAAGTTGAC 60.349 50.000 7.16 0.00 0.00 3.18
3821 7871 2.221981 CGAGTCTGAAAGCAAGTTGACC 59.778 50.000 7.16 0.00 0.00 4.02
3822 7872 2.213499 AGTCTGAAAGCAAGTTGACCG 58.787 47.619 7.16 0.00 0.00 4.79
3823 7873 0.944386 TCTGAAAGCAAGTTGACCGC 59.056 50.000 7.16 0.00 0.00 5.68
3824 7874 0.384725 CTGAAAGCAAGTTGACCGCG 60.385 55.000 7.16 0.00 0.00 6.46
3825 7875 0.812014 TGAAAGCAAGTTGACCGCGA 60.812 50.000 8.23 0.00 0.00 5.87
3826 7876 0.517316 GAAAGCAAGTTGACCGCGAT 59.483 50.000 8.23 0.00 0.00 4.58
3827 7877 0.238289 AAAGCAAGTTGACCGCGATG 59.762 50.000 8.23 0.00 0.00 3.84
3828 7878 2.187599 AAGCAAGTTGACCGCGATGC 62.188 55.000 8.23 6.37 0.00 3.91
3849 7899 4.680237 CTGCACGCCTCACCCGAA 62.680 66.667 0.00 0.00 0.00 4.30
3850 7900 3.958147 CTGCACGCCTCACCCGAAT 62.958 63.158 0.00 0.00 0.00 3.34
3851 7901 3.195698 GCACGCCTCACCCGAATC 61.196 66.667 0.00 0.00 0.00 2.52
3852 7902 2.579201 CACGCCTCACCCGAATCT 59.421 61.111 0.00 0.00 0.00 2.40
3853 7903 1.519455 CACGCCTCACCCGAATCTC 60.519 63.158 0.00 0.00 0.00 2.75
3854 7904 2.107141 CGCCTCACCCGAATCTCC 59.893 66.667 0.00 0.00 0.00 3.71
3855 7905 2.427245 CGCCTCACCCGAATCTCCT 61.427 63.158 0.00 0.00 0.00 3.69
3856 7906 1.144936 GCCTCACCCGAATCTCCTG 59.855 63.158 0.00 0.00 0.00 3.86
3857 7907 1.826024 CCTCACCCGAATCTCCTGG 59.174 63.158 0.00 0.00 0.00 4.45
3858 7908 0.978146 CCTCACCCGAATCTCCTGGT 60.978 60.000 0.00 0.00 0.00 4.00
3859 7909 0.461961 CTCACCCGAATCTCCTGGTC 59.538 60.000 0.00 0.00 0.00 4.02
3860 7910 0.252057 TCACCCGAATCTCCTGGTCA 60.252 55.000 0.00 0.00 0.00 4.02
3861 7911 0.613260 CACCCGAATCTCCTGGTCAA 59.387 55.000 0.00 0.00 0.00 3.18
3862 7912 1.210478 CACCCGAATCTCCTGGTCAAT 59.790 52.381 0.00 0.00 0.00 2.57
3863 7913 1.486726 ACCCGAATCTCCTGGTCAATC 59.513 52.381 0.00 0.00 0.00 2.67
3864 7914 1.765314 CCCGAATCTCCTGGTCAATCT 59.235 52.381 0.00 0.00 0.00 2.40
3865 7915 2.484417 CCCGAATCTCCTGGTCAATCTG 60.484 54.545 0.00 0.00 0.00 2.90
3866 7916 2.484417 CCGAATCTCCTGGTCAATCTGG 60.484 54.545 0.00 0.00 0.00 3.86
3867 7917 2.432146 CGAATCTCCTGGTCAATCTGGA 59.568 50.000 0.00 0.00 34.34 3.86
3868 7918 3.118629 CGAATCTCCTGGTCAATCTGGAA 60.119 47.826 0.00 0.00 34.96 3.53
3869 7919 3.922171 ATCTCCTGGTCAATCTGGAAC 57.078 47.619 0.00 0.00 34.96 3.62
3870 7920 1.909302 TCTCCTGGTCAATCTGGAACC 59.091 52.381 0.00 0.00 34.96 3.62
3871 7921 1.630369 CTCCTGGTCAATCTGGAACCA 59.370 52.381 0.00 0.00 34.96 3.67
3872 7922 1.630369 TCCTGGTCAATCTGGAACCAG 59.370 52.381 14.01 14.01 45.43 4.00
3873 7923 1.457346 CTGGTCAATCTGGAACCAGC 58.543 55.000 15.20 2.01 43.31 4.85
3874 7924 0.321564 TGGTCAATCTGGAACCAGCG 60.322 55.000 15.20 7.09 43.31 5.18
3875 7925 1.648467 GGTCAATCTGGAACCAGCGC 61.648 60.000 15.20 0.00 43.31 5.92
3876 7926 0.674895 GTCAATCTGGAACCAGCGCT 60.675 55.000 2.64 2.64 43.31 5.92
3877 7927 0.036732 TCAATCTGGAACCAGCGCTT 59.963 50.000 7.50 0.00 43.31 4.68
3878 7928 0.449388 CAATCTGGAACCAGCGCTTC 59.551 55.000 7.50 2.22 43.31 3.86
3879 7929 1.021390 AATCTGGAACCAGCGCTTCG 61.021 55.000 7.50 2.74 43.31 3.79
3880 7930 2.859273 ATCTGGAACCAGCGCTTCGG 62.859 60.000 7.50 10.30 43.31 4.30
3881 7931 3.883744 CTGGAACCAGCGCTTCGGT 62.884 63.158 7.50 11.13 37.24 4.69
3888 7938 4.299547 AGCGCTTCGGTGTGAGCA 62.300 61.111 2.64 0.00 35.85 4.26
3889 7939 3.121030 GCGCTTCGGTGTGAGCAT 61.121 61.111 0.00 0.00 0.00 3.79
3890 7940 1.809619 GCGCTTCGGTGTGAGCATA 60.810 57.895 0.00 0.00 0.00 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.055849 ACCAGTGCCATGTACACAGA 58.944 50.000 15.98 0.00 40.59 3.41
7 8 2.760634 TACCAGTGCCATGTACACAG 57.239 50.000 15.98 9.40 40.59 3.66
19 20 5.411669 GTGGTCTCCTTTATGTTTACCAGTG 59.588 44.000 0.00 0.00 36.27 3.66
20 21 5.072600 TGTGGTCTCCTTTATGTTTACCAGT 59.927 40.000 0.00 0.00 36.27 4.00
45 46 9.750125 GGTAGAGTTCATTGAAAAAGAAATTGT 57.250 29.630 0.00 0.00 35.10 2.71
65 66 3.810941 GAGAGTGTCGGTATGAGGTAGAG 59.189 52.174 0.00 0.00 0.00 2.43
97 98 3.112205 AATGCTGCTAGCGAGGGGG 62.112 63.158 10.77 0.00 46.26 5.40
177 178 2.429069 CGCCGCAAACAAAGAGGC 60.429 61.111 0.00 0.00 46.74 4.70
183 184 3.641986 GGTCGTCGCCGCAAACAA 61.642 61.111 0.00 0.00 0.00 2.83
215 216 1.239296 GGGTAAAGGTTGTGGTCGGC 61.239 60.000 0.00 0.00 0.00 5.54
239 240 1.403780 GGAGTTGACGTCGCCTAATGT 60.404 52.381 11.62 0.00 0.00 2.71
240 241 1.278238 GGAGTTGACGTCGCCTAATG 58.722 55.000 11.62 0.00 0.00 1.90
241 242 0.179145 CGGAGTTGACGTCGCCTAAT 60.179 55.000 11.62 0.00 0.00 1.73
242 243 1.210931 CGGAGTTGACGTCGCCTAA 59.789 57.895 11.62 0.00 0.00 2.69
326 328 1.612726 GGAAGAAGGCATGCTGACACT 60.613 52.381 18.92 2.16 0.00 3.55
371 373 1.667154 CGCTTGGTCGAGGATGGAGA 61.667 60.000 0.00 0.00 0.00 3.71
387 389 4.578898 TGGCAACGACGTCACGCT 62.579 61.111 17.16 0.00 42.51 5.07
406 408 2.287915 GCATATGGTGGTTGTCGATGTC 59.712 50.000 4.56 0.00 0.00 3.06
441 443 3.638860 TCATCGAGTACACACCCCTTAT 58.361 45.455 0.00 0.00 0.00 1.73
512 514 0.108945 GAAGTTGCTGCCATTGAGCC 60.109 55.000 0.00 0.00 35.43 4.70
575 577 2.710902 CGCCAGATGAGGACGGACA 61.711 63.158 0.00 0.00 0.00 4.02
577 579 2.044352 TCGCCAGATGAGGACGGA 60.044 61.111 0.00 0.00 0.00 4.69
599 601 1.668419 GGCAGGCTAATGACGATGTT 58.332 50.000 0.00 0.00 0.00 2.71
676 678 7.221450 CCCATGATTGATTTGCTTTATTGGAT 58.779 34.615 0.00 0.00 0.00 3.41
707 711 6.691754 TTTCTGTCATTGCTTAAACAGACA 57.308 33.333 10.66 3.60 45.65 3.41
708 712 8.078596 AGATTTTCTGTCATTGCTTAAACAGAC 58.921 33.333 10.66 0.00 45.65 3.51
709 713 8.169977 AGATTTTCTGTCATTGCTTAAACAGA 57.830 30.769 8.01 8.01 44.65 3.41
755 768 7.440523 AAACAAAATTATATTTTGCCCGCAA 57.559 28.000 19.42 0.00 41.66 4.85
757 770 9.995957 AATAAAACAAAATTATATTTTGCCCGC 57.004 25.926 19.42 0.00 41.66 6.13
839 852 9.183368 TGCCGCATGATCCAAATATTATTATTA 57.817 29.630 0.00 0.00 0.00 0.98
870 883 3.558931 TTGGACTATGTATGTGCCCAG 57.441 47.619 0.00 0.00 0.00 4.45
894 907 7.330700 GCCCAATTTCGATCTTTATCAACAAAA 59.669 33.333 0.00 0.00 31.93 2.44
898 911 6.136541 AGCCCAATTTCGATCTTTATCAAC 57.863 37.500 0.00 0.00 31.93 3.18
921 934 1.591703 CAGAAGGCCTGTCGCACTA 59.408 57.895 5.69 0.00 40.31 2.74
1038 1085 1.679898 CCTTTCTTCGCCTGAGGGT 59.320 57.895 0.00 0.00 34.45 4.34
1118 1166 4.815489 ACGGAGTCCTCGAACTCA 57.185 55.556 16.90 0.00 46.15 3.41
1316 1364 2.287977 AACCAAGGTTAAGACTGGCC 57.712 50.000 1.91 0.00 36.46 5.36
1501 1549 1.027255 TCTTCTCGAGCTCCCTGACG 61.027 60.000 7.81 2.09 0.00 4.35
1564 1612 4.823989 CACACTGTTCTCAAAGGAAAGGAT 59.176 41.667 0.00 0.00 0.00 3.24
1611 1659 8.757982 AACTTACTCCGACTTATTCCTATGTA 57.242 34.615 0.00 0.00 0.00 2.29
1620 1668 4.880696 ACTAGCGAACTTACTCCGACTTAT 59.119 41.667 0.00 0.00 0.00 1.73
1626 1674 1.267932 CGGACTAGCGAACTTACTCCG 60.268 57.143 0.00 0.00 32.20 4.63
1716 1764 1.912043 AGGCATGCTCTCTGGTAAAGT 59.088 47.619 18.92 0.00 0.00 2.66
1838 1895 3.805108 GCCCATAAGAGTACAGCATCCTG 60.805 52.174 0.00 0.00 44.80 3.86
1877 1934 8.850156 ACAGCATTTGAGTAAATACAACTCTTT 58.150 29.630 4.99 0.00 43.13 2.52
2035 2093 2.280628 GGCAATTAGAGGGAAGTGACG 58.719 52.381 0.00 0.00 0.00 4.35
2118 2177 0.817654 GCTTCAGTGTAATTGGGGGC 59.182 55.000 0.00 0.00 0.00 5.80
2193 2252 8.686334 ACAATAACAACATCCTACATTGATTCC 58.314 33.333 0.00 0.00 0.00 3.01
2196 2255 7.975616 GCAACAATAACAACATCCTACATTGAT 59.024 33.333 0.00 0.00 0.00 2.57
2471 2530 5.046663 TCAATTTGGAAGGAATTACAAGGGC 60.047 40.000 0.00 0.00 0.00 5.19
2483 2542 6.366877 GTGTCAATGTTGATCAATTTGGAAGG 59.633 38.462 23.19 7.60 39.73 3.46
2489 2548 8.945481 TCAAAAGTGTCAATGTTGATCAATTT 57.055 26.923 12.12 6.12 39.73 1.82
2575 2634 1.677052 GTTGTTGCGTTCCTTTGGGTA 59.323 47.619 0.00 0.00 0.00 3.69
2669 2728 0.749818 TCAAGCAGTTTCGGCAACCA 60.750 50.000 0.00 0.00 35.77 3.67
2700 2759 3.385755 ACAAGAGGGCCAATATGCAAATC 59.614 43.478 6.18 0.00 0.00 2.17
2757 2816 2.183478 ACATGATCCGAGCAACAACA 57.817 45.000 0.00 0.00 0.00 3.33
2974 6881 3.200958 AGGTTTCCAGGTTAGAGGCTA 57.799 47.619 0.00 0.00 0.00 3.93
2981 6888 3.982052 TCCCTTACAAGGTTTCCAGGTTA 59.018 43.478 7.23 0.00 44.98 2.85
2992 6899 4.660771 AGAGGTATCCATTCCCTTACAAGG 59.339 45.833 0.66 0.66 46.06 3.61
2999 6906 4.164988 CACTTCAAGAGGTATCCATTCCCT 59.835 45.833 0.00 0.00 0.00 4.20
3005 6912 2.571653 CCACCACTTCAAGAGGTATCCA 59.428 50.000 6.16 0.00 37.06 3.41
3018 6925 0.179018 GTCAGAGGCAACCACCACTT 60.179 55.000 0.00 0.00 37.17 3.16
3019 6926 1.451936 GTCAGAGGCAACCACCACT 59.548 57.895 0.00 0.00 37.17 4.00
3125 7044 1.394917 GTCACGACATCAATGGCAGAC 59.605 52.381 0.00 0.22 34.77 3.51
3128 7047 1.001860 TCTGTCACGACATCAATGGCA 59.998 47.619 0.00 0.00 41.01 4.92
3169 7092 2.031163 ACCTCGCTCAGTGTTGCC 59.969 61.111 5.57 0.00 0.00 4.52
3220 7143 2.570181 CCTACCACCGTCGTCCAC 59.430 66.667 0.00 0.00 0.00 4.02
3348 7315 1.816224 CTTAATCCACCACCCGTTTGG 59.184 52.381 0.00 0.00 43.04 3.28
3432 7399 1.153086 GCATGGCTCCGACCAGATT 60.153 57.895 0.00 0.00 44.71 2.40
3434 7401 3.785859 GGCATGGCTCCGACCAGA 61.786 66.667 12.86 0.00 44.71 3.86
3481 7526 3.363844 GAGTCACTGGAGCCGGAGC 62.364 68.421 5.05 0.00 40.32 4.70
3488 7533 0.896019 ACGTGGAGGAGTCACTGGAG 60.896 60.000 0.00 0.00 33.31 3.86
3492 7537 1.972223 CCGACGTGGAGGAGTCACT 60.972 63.158 0.00 0.00 42.00 3.41
3494 7539 3.371063 GCCGACGTGGAGGAGTCA 61.371 66.667 0.00 0.00 42.00 3.41
3505 7550 3.499929 ATGGATGCGTAGGCCGACG 62.500 63.158 31.10 31.10 45.70 5.12
3507 7552 1.806461 GAGATGGATGCGTAGGCCGA 61.806 60.000 4.72 0.00 39.56 5.54
3520 7565 0.248825 CGAGGTCGAAGCAGAGATGG 60.249 60.000 0.00 0.00 43.02 3.51
3563 7608 2.106683 GTTCATCGGGCAGGAACGG 61.107 63.158 0.00 0.00 32.57 4.44
3576 7621 4.028490 TGAAGGCCGGCGGTTCAT 62.028 61.111 29.43 13.22 0.00 2.57
3578 7623 2.862674 TATGTGAAGGCCGGCGGTTC 62.863 60.000 28.82 25.81 0.00 3.62
3579 7624 2.869503 CTATGTGAAGGCCGGCGGTT 62.870 60.000 28.82 16.91 0.00 4.44
3580 7625 3.385749 CTATGTGAAGGCCGGCGGT 62.386 63.158 28.82 10.87 0.00 5.68
3581 7626 2.588877 CTATGTGAAGGCCGGCGG 60.589 66.667 24.35 24.35 0.00 6.13
3582 7627 2.588877 CCTATGTGAAGGCCGGCG 60.589 66.667 22.54 0.00 0.00 6.46
3591 7636 2.763039 TCCAGAATGAGGCCTATGTGA 58.237 47.619 4.42 0.00 39.69 3.58
3594 7639 5.874093 AGTTTATCCAGAATGAGGCCTATG 58.126 41.667 4.42 0.00 39.69 2.23
3596 7641 5.453339 CGAAGTTTATCCAGAATGAGGCCTA 60.453 44.000 4.42 0.00 39.69 3.93
3598 7643 3.561725 CGAAGTTTATCCAGAATGAGGCC 59.438 47.826 0.00 0.00 39.69 5.19
3608 7653 0.618458 AGCAGGCCGAAGTTTATCCA 59.382 50.000 0.00 0.00 0.00 3.41
3614 7659 2.359230 GAGCAGCAGGCCGAAGTT 60.359 61.111 0.00 0.00 46.50 2.66
3703 7753 4.577246 CGGAGGAGTAGCTGGCGC 62.577 72.222 0.00 0.00 0.00 6.53
3734 7784 0.758734 TGGAGGTGGCCGATTCATAG 59.241 55.000 0.00 0.00 0.00 2.23
3735 7785 1.347707 GATGGAGGTGGCCGATTCATA 59.652 52.381 0.00 0.00 0.00 2.15
3736 7786 0.109342 GATGGAGGTGGCCGATTCAT 59.891 55.000 0.00 0.00 0.00 2.57
3737 7787 1.526887 GATGGAGGTGGCCGATTCA 59.473 57.895 0.00 0.00 0.00 2.57
3738 7788 1.595382 CGATGGAGGTGGCCGATTC 60.595 63.158 0.00 0.00 0.00 2.52
3739 7789 2.505982 CGATGGAGGTGGCCGATT 59.494 61.111 0.00 0.00 0.00 3.34
3740 7790 3.550431 CCGATGGAGGTGGCCGAT 61.550 66.667 0.00 0.00 0.00 4.18
3741 7791 4.770362 TCCGATGGAGGTGGCCGA 62.770 66.667 0.00 0.00 0.00 5.54
3742 7792 4.227134 CTCCGATGGAGGTGGCCG 62.227 72.222 4.89 0.00 45.43 6.13
3760 7810 4.093291 AAGAGGAGCAGCAGCCGG 62.093 66.667 0.00 0.00 43.56 6.13
3761 7811 2.511145 GAAGAGGAGCAGCAGCCG 60.511 66.667 0.00 0.00 43.56 5.52
3762 7812 2.124778 GGAAGAGGAGCAGCAGCC 60.125 66.667 0.00 0.00 43.56 4.85
3763 7813 1.153389 GAGGAAGAGGAGCAGCAGC 60.153 63.158 0.00 0.00 42.56 5.25
3764 7814 0.977108 AGGAGGAAGAGGAGCAGCAG 60.977 60.000 0.00 0.00 0.00 4.24
3765 7815 0.975040 GAGGAGGAAGAGGAGCAGCA 60.975 60.000 0.00 0.00 0.00 4.41
3766 7816 1.685355 GGAGGAGGAAGAGGAGCAGC 61.685 65.000 0.00 0.00 0.00 5.25
3767 7817 1.391157 CGGAGGAGGAAGAGGAGCAG 61.391 65.000 0.00 0.00 0.00 4.24
3768 7818 1.380515 CGGAGGAGGAAGAGGAGCA 60.381 63.158 0.00 0.00 0.00 4.26
3769 7819 2.791868 GCGGAGGAGGAAGAGGAGC 61.792 68.421 0.00 0.00 0.00 4.70
3770 7820 2.131067 GGCGGAGGAGGAAGAGGAG 61.131 68.421 0.00 0.00 0.00 3.69
3771 7821 2.042843 GGCGGAGGAGGAAGAGGA 60.043 66.667 0.00 0.00 0.00 3.71
3772 7822 2.042435 AGGCGGAGGAGGAAGAGG 60.042 66.667 0.00 0.00 0.00 3.69
3773 7823 2.131067 GGAGGCGGAGGAGGAAGAG 61.131 68.421 0.00 0.00 0.00 2.85
3774 7824 2.042843 GGAGGCGGAGGAGGAAGA 60.043 66.667 0.00 0.00 0.00 2.87
3775 7825 3.532155 CGGAGGCGGAGGAGGAAG 61.532 72.222 0.00 0.00 0.00 3.46
3792 7842 3.296709 TTTCAGACTCGCCGGAGCC 62.297 63.158 5.05 0.00 44.48 4.70
3793 7843 1.807573 CTTTCAGACTCGCCGGAGC 60.808 63.158 5.05 0.00 44.48 4.70
3794 7844 1.807573 GCTTTCAGACTCGCCGGAG 60.808 63.158 5.05 0.00 46.13 4.63
3795 7845 2.094757 TTGCTTTCAGACTCGCCGGA 62.095 55.000 5.05 0.00 0.00 5.14
3796 7846 1.630244 CTTGCTTTCAGACTCGCCGG 61.630 60.000 0.00 0.00 0.00 6.13
3797 7847 0.946221 ACTTGCTTTCAGACTCGCCG 60.946 55.000 0.00 0.00 0.00 6.46
3798 7848 1.069636 CAACTTGCTTTCAGACTCGCC 60.070 52.381 0.00 0.00 0.00 5.54
3799 7849 1.867233 TCAACTTGCTTTCAGACTCGC 59.133 47.619 0.00 0.00 0.00 5.03
3800 7850 2.221981 GGTCAACTTGCTTTCAGACTCG 59.778 50.000 0.00 0.00 0.00 4.18
3801 7851 2.221981 CGGTCAACTTGCTTTCAGACTC 59.778 50.000 0.00 0.00 0.00 3.36
3802 7852 2.213499 CGGTCAACTTGCTTTCAGACT 58.787 47.619 0.00 0.00 0.00 3.24
3803 7853 1.334149 GCGGTCAACTTGCTTTCAGAC 60.334 52.381 0.00 0.00 0.00 3.51
3804 7854 0.944386 GCGGTCAACTTGCTTTCAGA 59.056 50.000 0.00 0.00 0.00 3.27
3805 7855 0.384725 CGCGGTCAACTTGCTTTCAG 60.385 55.000 0.00 0.00 0.00 3.02
3806 7856 0.812014 TCGCGGTCAACTTGCTTTCA 60.812 50.000 6.13 0.00 0.00 2.69
3807 7857 0.517316 ATCGCGGTCAACTTGCTTTC 59.483 50.000 6.13 0.00 0.00 2.62
3808 7858 0.238289 CATCGCGGTCAACTTGCTTT 59.762 50.000 6.13 0.00 0.00 3.51
3809 7859 1.868997 CATCGCGGTCAACTTGCTT 59.131 52.632 6.13 0.00 0.00 3.91
3810 7860 2.680913 GCATCGCGGTCAACTTGCT 61.681 57.895 6.13 0.00 0.00 3.91
3811 7861 2.202349 GCATCGCGGTCAACTTGC 60.202 61.111 6.13 0.00 0.00 4.01
3832 7882 3.958147 ATTCGGGTGAGGCGTGCAG 62.958 63.158 0.00 0.00 0.00 4.41
3833 7883 3.950794 GATTCGGGTGAGGCGTGCA 62.951 63.158 0.00 0.00 0.00 4.57
3834 7884 3.195698 GATTCGGGTGAGGCGTGC 61.196 66.667 0.00 0.00 0.00 5.34
3835 7885 1.519455 GAGATTCGGGTGAGGCGTG 60.519 63.158 0.00 0.00 0.00 5.34
3836 7886 2.722201 GGAGATTCGGGTGAGGCGT 61.722 63.158 0.00 0.00 0.00 5.68
3837 7887 2.107141 GGAGATTCGGGTGAGGCG 59.893 66.667 0.00 0.00 0.00 5.52
3838 7888 1.144936 CAGGAGATTCGGGTGAGGC 59.855 63.158 0.00 0.00 0.00 4.70
3839 7889 0.978146 ACCAGGAGATTCGGGTGAGG 60.978 60.000 0.00 0.00 31.04 3.86
3840 7890 0.461961 GACCAGGAGATTCGGGTGAG 59.538 60.000 0.00 0.00 32.77 3.51
3841 7891 0.252057 TGACCAGGAGATTCGGGTGA 60.252 55.000 0.00 0.00 32.77 4.02
3842 7892 0.613260 TTGACCAGGAGATTCGGGTG 59.387 55.000 0.00 0.00 32.77 4.61
3843 7893 1.486726 GATTGACCAGGAGATTCGGGT 59.513 52.381 0.00 0.00 36.05 5.28
3844 7894 1.765314 AGATTGACCAGGAGATTCGGG 59.235 52.381 0.00 0.00 0.00 5.14
3845 7895 2.484417 CCAGATTGACCAGGAGATTCGG 60.484 54.545 0.00 0.00 0.00 4.30
3846 7896 2.432146 TCCAGATTGACCAGGAGATTCG 59.568 50.000 0.00 0.00 0.00 3.34
3847 7897 4.195416 GTTCCAGATTGACCAGGAGATTC 58.805 47.826 0.00 0.00 0.00 2.52
3848 7898 3.054065 GGTTCCAGATTGACCAGGAGATT 60.054 47.826 0.00 0.00 33.61 2.40
3849 7899 2.507471 GGTTCCAGATTGACCAGGAGAT 59.493 50.000 0.00 0.00 33.61 2.75
3850 7900 1.909302 GGTTCCAGATTGACCAGGAGA 59.091 52.381 0.00 0.00 33.61 3.71
3851 7901 1.630369 TGGTTCCAGATTGACCAGGAG 59.370 52.381 0.00 0.00 38.47 3.69
3852 7902 1.741028 TGGTTCCAGATTGACCAGGA 58.259 50.000 0.00 0.00 38.47 3.86
3855 7905 0.321564 CGCTGGTTCCAGATTGACCA 60.322 55.000 21.32 0.00 40.95 4.02
3856 7906 1.648467 GCGCTGGTTCCAGATTGACC 61.648 60.000 21.32 2.95 36.24 4.02
3857 7907 0.674895 AGCGCTGGTTCCAGATTGAC 60.675 55.000 21.32 3.61 36.24 3.18
3858 7908 0.036732 AAGCGCTGGTTCCAGATTGA 59.963 50.000 21.32 0.00 36.24 2.57
3859 7909 0.449388 GAAGCGCTGGTTCCAGATTG 59.551 55.000 21.32 11.28 36.24 2.67
3860 7910 1.021390 CGAAGCGCTGGTTCCAGATT 61.021 55.000 21.32 12.19 36.81 2.40
3861 7911 1.448540 CGAAGCGCTGGTTCCAGAT 60.449 57.895 21.32 4.71 36.81 2.90
3862 7912 2.048222 CGAAGCGCTGGTTCCAGA 60.048 61.111 21.32 0.00 36.81 3.86
3863 7913 3.121030 CCGAAGCGCTGGTTCCAG 61.121 66.667 12.58 13.88 36.81 3.86
3864 7914 3.936203 ACCGAAGCGCTGGTTCCA 61.936 61.111 12.58 0.00 36.81 3.53
3865 7915 3.423154 CACCGAAGCGCTGGTTCC 61.423 66.667 16.31 0.77 36.81 3.62
3866 7916 2.665185 ACACCGAAGCGCTGGTTC 60.665 61.111 16.31 7.10 35.96 3.62
3867 7917 2.972505 CACACCGAAGCGCTGGTT 60.973 61.111 16.31 0.00 35.96 3.67
3868 7918 3.865929 CTCACACCGAAGCGCTGGT 62.866 63.158 12.58 13.08 39.66 4.00
3869 7919 3.114616 CTCACACCGAAGCGCTGG 61.115 66.667 12.58 12.25 0.00 4.85
3870 7920 3.782244 GCTCACACCGAAGCGCTG 61.782 66.667 12.58 0.00 0.00 5.18
3871 7921 2.225791 TATGCTCACACCGAAGCGCT 62.226 55.000 2.64 2.64 0.00 5.92
3872 7922 1.809619 TATGCTCACACCGAAGCGC 60.810 57.895 0.00 0.00 0.00 5.92
3873 7923 4.494811 TATGCTCACACCGAAGCG 57.505 55.556 0.00 0.00 0.00 4.68


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

AutoCloner maintained by Alex Coulton.