Multiple sequence alignment - TraesCS3B01G548700

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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 TraesCS3B01G548700 chr3B 100.000 3706 0 0 1 3706 784063672 784059967 0.000000e+00 6844.0
1 TraesCS3B01G548700 chr3B 96.000 200 8 0 3507 3706 79291948 79291749 3.570000e-85 326.0
2 TraesCS3B01G548700 chr3B 100.000 28 0 0 833 860 784062926 784062899 7.000000e-03 52.8
3 TraesCS3B01G548700 chr4A 99.520 3332 14 2 1 3331 626535098 626531768 0.000000e+00 6063.0
4 TraesCS3B01G548700 chr4A 92.000 200 15 1 3507 3706 540959909 540959711 2.820000e-71 279.0
5 TraesCS3B01G548700 chr4A 91.045 201 15 3 3507 3706 621743324 621743522 6.100000e-68 268.0
6 TraesCS3B01G548700 chr7A 98.529 3330 47 2 1 3329 7421833 7425161 0.000000e+00 5877.0
7 TraesCS3B01G548700 chr7A 98.455 2266 33 2 1 2266 46729832 46727569 0.000000e+00 3989.0
8 TraesCS3B01G548700 chr7A 98.366 1346 22 0 1 1346 194167193 194168538 0.000000e+00 2364.0
9 TraesCS3B01G548700 chr7A 85.106 329 37 9 2328 2648 680918614 680918290 3.570000e-85 326.0
10 TraesCS3B01G548700 chr7A 91.045 201 15 3 3507 3706 30925836 30925638 6.100000e-68 268.0
11 TraesCS3B01G548700 chr5B 98.018 3330 64 2 1 3329 457391273 457387945 0.000000e+00 5782.0
12 TraesCS3B01G548700 chr5B 97.612 2094 48 2 1 2093 493911231 493913323 0.000000e+00 3589.0
13 TraesCS3B01G548700 chr5B 97.933 1403 28 1 1925 3326 48320123 48321525 0.000000e+00 2429.0
14 TraesCS3B01G548700 chr1B 98.432 2424 37 1 1 2423 59040159 59042582 0.000000e+00 4265.0
15 TraesCS3B01G548700 chr1B 99.464 933 4 1 2397 3328 626237753 626236821 0.000000e+00 1694.0
16 TraesCS3B01G548700 chr1B 96.472 822 28 1 2508 3329 59042569 59043389 0.000000e+00 1356.0
17 TraesCS3B01G548700 chr1B 96.500 200 7 0 3507 3706 447168544 447168743 7.670000e-87 331.0
18 TraesCS3B01G548700 chr5A 98.411 2266 34 1 1 2266 41484866 41482603 0.000000e+00 3984.0
19 TraesCS3B01G548700 chr4B 97.509 1847 45 1 1484 3329 141440384 141438538 0.000000e+00 3155.0
20 TraesCS3B01G548700 chr4B 97.067 375 11 0 2955 3329 17271443 17271069 1.880000e-177 632.0
21 TraesCS3B01G548700 chr7D 91.093 2268 165 28 6 2251 321476090 321478342 0.000000e+00 3035.0
22 TraesCS3B01G548700 chr7D 85.304 626 65 11 2423 3042 321478537 321479141 4.070000e-174 621.0
23 TraesCS3B01G548700 chr7D 89.055 201 17 5 3507 3703 439325167 439324968 1.030000e-60 244.0
24 TraesCS3B01G548700 chr5D 96.682 1055 30 5 2127 3180 500933949 500934999 0.000000e+00 1749.0
25 TraesCS3B01G548700 chr5D 96.988 166 5 0 3163 3328 500935152 500935317 2.820000e-71 279.0
26 TraesCS3B01G548700 chr7B 94.000 200 12 0 3507 3706 680755163 680754964 1.670000e-78 303.0
27 TraesCS3B01G548700 chr2A 92.079 202 13 3 3506 3706 98900979 98901178 7.840000e-72 281.0
28 TraesCS3B01G548700 chr3A 91.045 201 15 3 3507 3706 742955975 742956173 6.100000e-68 268.0


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 TraesCS3B01G548700 chr3B 784059967 784063672 3705 True 3448.4 6844 100.0000 1 3706 2 chr3B.!!$R2 3705
1 TraesCS3B01G548700 chr4A 626531768 626535098 3330 True 6063.0 6063 99.5200 1 3331 1 chr4A.!!$R2 3330
2 TraesCS3B01G548700 chr7A 7421833 7425161 3328 False 5877.0 5877 98.5290 1 3329 1 chr7A.!!$F1 3328
3 TraesCS3B01G548700 chr7A 46727569 46729832 2263 True 3989.0 3989 98.4550 1 2266 1 chr7A.!!$R2 2265
4 TraesCS3B01G548700 chr7A 194167193 194168538 1345 False 2364.0 2364 98.3660 1 1346 1 chr7A.!!$F2 1345
5 TraesCS3B01G548700 chr5B 457387945 457391273 3328 True 5782.0 5782 98.0180 1 3329 1 chr5B.!!$R1 3328
6 TraesCS3B01G548700 chr5B 493911231 493913323 2092 False 3589.0 3589 97.6120 1 2093 1 chr5B.!!$F2 2092
7 TraesCS3B01G548700 chr5B 48320123 48321525 1402 False 2429.0 2429 97.9330 1925 3326 1 chr5B.!!$F1 1401
8 TraesCS3B01G548700 chr1B 59040159 59043389 3230 False 2810.5 4265 97.4520 1 3329 2 chr1B.!!$F2 3328
9 TraesCS3B01G548700 chr1B 626236821 626237753 932 True 1694.0 1694 99.4640 2397 3328 1 chr1B.!!$R1 931
10 TraesCS3B01G548700 chr5A 41482603 41484866 2263 True 3984.0 3984 98.4110 1 2266 1 chr5A.!!$R1 2265
11 TraesCS3B01G548700 chr4B 141438538 141440384 1846 True 3155.0 3155 97.5090 1484 3329 1 chr4B.!!$R2 1845
12 TraesCS3B01G548700 chr7D 321476090 321479141 3051 False 1828.0 3035 88.1985 6 3042 2 chr7D.!!$F1 3036
13 TraesCS3B01G548700 chr5D 500933949 500935317 1368 False 1014.0 1749 96.8350 2127 3328 2 chr5D.!!$F1 1201

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
225 226 2.700897 ACACACCACAGTTTCTAGCTCT 59.299 45.455 0.0 0.0 0.0 4.09 F
1089 1126 5.871396 ACAATCTATCTCATTACCGTGGT 57.129 39.130 0.0 0.0 0.0 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1089 1126 1.979308 TCGGTAGTCCACCCATTTTGA 59.021 47.619 0.0 0.0 45.52 2.69 R
3079 3223 3.369175 TGCATGGCACCCAAATGTATAA 58.631 40.909 0.0 0.0 36.95 0.98 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
225 226 2.700897 ACACACCACAGTTTCTAGCTCT 59.299 45.455 0.00 0.00 0.00 4.09
1089 1126 5.871396 ACAATCTATCTCATTACCGTGGT 57.129 39.130 0.00 0.00 0.00 4.16
3079 3223 4.702131 AGAAAGTCTGTGCTGTTGAAAAGT 59.298 37.500 0.00 0.00 0.00 2.66
3331 3645 1.882308 TCCAAACGGGGCCTAAGATA 58.118 50.000 0.84 0.00 37.22 1.98
3332 3646 1.766496 TCCAAACGGGGCCTAAGATAG 59.234 52.381 0.84 0.00 37.22 2.08
3333 3647 1.594331 CAAACGGGGCCTAAGATAGC 58.406 55.000 0.84 0.00 0.00 2.97
3334 3648 0.106149 AAACGGGGCCTAAGATAGCG 59.894 55.000 0.84 0.00 0.00 4.26
3335 3649 0.757935 AACGGGGCCTAAGATAGCGA 60.758 55.000 0.84 0.00 0.00 4.93
3336 3650 0.542232 ACGGGGCCTAAGATAGCGAT 60.542 55.000 0.84 0.00 0.00 4.58
3337 3651 0.608640 CGGGGCCTAAGATAGCGATT 59.391 55.000 0.84 0.00 0.00 3.34
3338 3652 1.404315 CGGGGCCTAAGATAGCGATTC 60.404 57.143 0.84 0.00 0.00 2.52
3339 3653 1.903183 GGGGCCTAAGATAGCGATTCT 59.097 52.381 0.84 0.00 0.00 2.40
3340 3654 2.303311 GGGGCCTAAGATAGCGATTCTT 59.697 50.000 0.84 0.00 37.25 2.52
3341 3655 3.244596 GGGGCCTAAGATAGCGATTCTTT 60.245 47.826 0.84 0.00 35.19 2.52
3342 3656 4.390264 GGGCCTAAGATAGCGATTCTTTT 58.610 43.478 0.84 0.00 35.19 2.27
3343 3657 5.512576 GGGGCCTAAGATAGCGATTCTTTTA 60.513 44.000 0.84 0.00 35.19 1.52
3344 3658 5.639931 GGGCCTAAGATAGCGATTCTTTTAG 59.360 44.000 0.84 1.22 35.19 1.85
3345 3659 5.639931 GGCCTAAGATAGCGATTCTTTTAGG 59.360 44.000 0.00 7.50 36.40 2.69
3346 3660 5.120986 GCCTAAGATAGCGATTCTTTTAGGC 59.879 44.000 16.20 16.20 43.14 3.93
3347 3661 5.346281 CCTAAGATAGCGATTCTTTTAGGCG 59.654 44.000 4.54 0.00 35.19 5.52
3350 3664 3.516263 GCGATTCTTTTAGGCGCAG 57.484 52.632 10.83 0.00 46.19 5.18
3363 3677 3.559024 CGCAGCGATCCATCCATC 58.441 61.111 9.98 0.00 0.00 3.51
3364 3678 2.031516 CGCAGCGATCCATCCATCC 61.032 63.158 9.98 0.00 0.00 3.51
3365 3679 1.071987 GCAGCGATCCATCCATCCA 59.928 57.895 0.00 0.00 0.00 3.41
3366 3680 0.322277 GCAGCGATCCATCCATCCAT 60.322 55.000 0.00 0.00 0.00 3.41
3367 3681 1.735386 CAGCGATCCATCCATCCATC 58.265 55.000 0.00 0.00 0.00 3.51
3368 3682 0.248565 AGCGATCCATCCATCCATCG 59.751 55.000 0.00 0.00 40.89 3.84
3369 3683 0.742281 GCGATCCATCCATCCATCGG 60.742 60.000 0.00 0.00 38.84 4.18
3370 3684 0.897621 CGATCCATCCATCCATCGGA 59.102 55.000 0.00 0.00 35.54 4.55
3371 3685 1.483827 CGATCCATCCATCCATCGGAT 59.516 52.381 0.00 0.00 44.21 4.18
3372 3686 2.482664 CGATCCATCCATCCATCGGATC 60.483 54.545 6.65 6.65 45.75 3.36
3373 3687 0.897621 TCCATCCATCCATCGGATCG 59.102 55.000 0.00 0.00 40.98 3.69
3374 3688 0.742281 CCATCCATCCATCGGATCGC 60.742 60.000 0.00 0.00 40.98 4.58
3375 3689 1.080435 CATCCATCCATCGGATCGCG 61.080 60.000 0.00 0.00 40.98 5.87
3376 3690 1.250840 ATCCATCCATCGGATCGCGA 61.251 55.000 13.09 13.09 40.98 5.87
3377 3691 1.216444 CCATCCATCGGATCGCGAT 59.784 57.895 23.97 23.97 40.98 4.58
3378 3692 0.455815 CCATCCATCGGATCGCGATA 59.544 55.000 23.76 7.11 40.98 2.92
3379 3693 1.534805 CCATCCATCGGATCGCGATAG 60.535 57.143 23.76 18.86 40.98 2.08
3398 3712 4.444838 TGCCGGCTACGCGTTGAT 62.445 61.111 29.70 0.00 39.22 2.57
3399 3713 3.627218 GCCGGCTACGCGTTGATC 61.627 66.667 24.54 13.54 39.22 2.92
3400 3714 3.320078 CCGGCTACGCGTTGATCG 61.320 66.667 24.54 22.85 43.12 3.69
3401 3715 2.277692 CGGCTACGCGTTGATCGA 60.278 61.111 24.54 0.18 42.86 3.59
3402 3716 1.657487 CGGCTACGCGTTGATCGAT 60.657 57.895 24.54 0.00 42.86 3.59
3403 3717 1.597700 CGGCTACGCGTTGATCGATC 61.598 60.000 24.54 18.72 42.86 3.69
3404 3718 1.597700 GGCTACGCGTTGATCGATCG 61.598 60.000 24.54 9.36 42.86 3.69
3405 3719 0.656495 GCTACGCGTTGATCGATCGA 60.656 55.000 24.54 21.86 42.86 3.59
3406 3720 1.951792 CTACGCGTTGATCGATCGAT 58.048 50.000 29.76 29.76 42.86 3.59
3420 3734 2.048784 CGATCGATCGGCATGGCT 60.049 61.111 34.54 0.00 45.93 4.75
3421 3735 2.378084 CGATCGATCGGCATGGCTG 61.378 63.158 34.54 10.93 45.93 4.85
3422 3736 2.031516 GATCGATCGGCATGGCTGG 61.032 63.158 16.41 2.52 35.34 4.85
3423 3737 3.541950 ATCGATCGGCATGGCTGGG 62.542 63.158 16.41 1.73 35.34 4.45
3424 3738 4.552365 CGATCGGCATGGCTGGGT 62.552 66.667 18.09 0.00 35.34 4.51
3425 3739 2.124151 GATCGGCATGGCTGGGTT 60.124 61.111 18.09 0.00 35.34 4.11
3426 3740 1.754234 GATCGGCATGGCTGGGTTT 60.754 57.895 18.09 0.00 35.34 3.27
3427 3741 1.728490 GATCGGCATGGCTGGGTTTC 61.728 60.000 18.09 1.50 35.34 2.78
3428 3742 2.497792 ATCGGCATGGCTGGGTTTCA 62.498 55.000 18.09 0.00 35.34 2.69
3429 3743 2.274645 CGGCATGGCTGGGTTTCAA 61.275 57.895 18.09 0.00 0.00 2.69
3430 3744 1.606885 CGGCATGGCTGGGTTTCAAT 61.607 55.000 18.09 0.00 0.00 2.57
3431 3745 0.108041 GGCATGGCTGGGTTTCAATG 60.108 55.000 12.86 0.00 0.00 2.82
3432 3746 0.741927 GCATGGCTGGGTTTCAATGC 60.742 55.000 0.00 0.00 32.23 3.56
3433 3747 0.458889 CATGGCTGGGTTTCAATGCG 60.459 55.000 0.00 0.00 0.00 4.73
3434 3748 2.125952 GGCTGGGTTTCAATGCGC 60.126 61.111 0.00 0.00 0.00 6.09
3435 3749 2.639327 GGCTGGGTTTCAATGCGCT 61.639 57.895 9.73 0.00 0.00 5.92
3436 3750 1.153958 GCTGGGTTTCAATGCGCTC 60.154 57.895 9.73 0.00 0.00 5.03
3437 3751 1.508088 CTGGGTTTCAATGCGCTCC 59.492 57.895 9.73 0.00 0.00 4.70
3438 3752 2.257286 CTGGGTTTCAATGCGCTCCG 62.257 60.000 9.73 0.00 0.00 4.63
3458 3772 3.414700 GTTCGAGGCTGGTGCGTG 61.415 66.667 0.00 0.00 40.82 5.34
3462 3776 4.735132 GAGGCTGGTGCGTGCGTA 62.735 66.667 0.00 0.00 40.82 4.42
3463 3777 4.082523 AGGCTGGTGCGTGCGTAT 62.083 61.111 0.00 0.00 40.82 3.06
3464 3778 3.564027 GGCTGGTGCGTGCGTATC 61.564 66.667 0.00 0.00 40.82 2.24
3465 3779 2.509336 GCTGGTGCGTGCGTATCT 60.509 61.111 0.00 0.00 0.00 1.98
3466 3780 2.100631 GCTGGTGCGTGCGTATCTT 61.101 57.895 0.00 0.00 0.00 2.40
3467 3781 1.999051 CTGGTGCGTGCGTATCTTC 59.001 57.895 0.00 0.00 0.00 2.87
3468 3782 1.421410 CTGGTGCGTGCGTATCTTCC 61.421 60.000 0.00 0.00 0.00 3.46
3469 3783 1.447140 GGTGCGTGCGTATCTTCCA 60.447 57.895 0.00 0.00 0.00 3.53
3470 3784 0.810031 GGTGCGTGCGTATCTTCCAT 60.810 55.000 0.00 0.00 0.00 3.41
3471 3785 0.577269 GTGCGTGCGTATCTTCCATC 59.423 55.000 0.00 0.00 0.00 3.51
3472 3786 0.459899 TGCGTGCGTATCTTCCATCT 59.540 50.000 0.00 0.00 0.00 2.90
3473 3787 0.855349 GCGTGCGTATCTTCCATCTG 59.145 55.000 0.00 0.00 0.00 2.90
3474 3788 0.855349 CGTGCGTATCTTCCATCTGC 59.145 55.000 0.00 0.00 0.00 4.26
3475 3789 1.536922 CGTGCGTATCTTCCATCTGCT 60.537 52.381 0.00 0.00 0.00 4.24
3476 3790 2.555199 GTGCGTATCTTCCATCTGCTT 58.445 47.619 0.00 0.00 0.00 3.91
3477 3791 2.541762 GTGCGTATCTTCCATCTGCTTC 59.458 50.000 0.00 0.00 0.00 3.86
3478 3792 2.139118 GCGTATCTTCCATCTGCTTCC 58.861 52.381 0.00 0.00 0.00 3.46
3479 3793 2.224161 GCGTATCTTCCATCTGCTTCCT 60.224 50.000 0.00 0.00 0.00 3.36
3480 3794 3.742640 GCGTATCTTCCATCTGCTTCCTT 60.743 47.826 0.00 0.00 0.00 3.36
3481 3795 4.446371 CGTATCTTCCATCTGCTTCCTTT 58.554 43.478 0.00 0.00 0.00 3.11
3482 3796 4.272018 CGTATCTTCCATCTGCTTCCTTTG 59.728 45.833 0.00 0.00 0.00 2.77
3483 3797 2.440409 TCTTCCATCTGCTTCCTTTGC 58.560 47.619 0.00 0.00 0.00 3.68
3484 3798 2.040813 TCTTCCATCTGCTTCCTTTGCT 59.959 45.455 0.00 0.00 0.00 3.91
3485 3799 2.592102 TCCATCTGCTTCCTTTGCTT 57.408 45.000 0.00 0.00 0.00 3.91
3486 3800 2.880443 TCCATCTGCTTCCTTTGCTTT 58.120 42.857 0.00 0.00 0.00 3.51
3487 3801 2.559668 TCCATCTGCTTCCTTTGCTTTG 59.440 45.455 0.00 0.00 0.00 2.77
3488 3802 2.334838 CATCTGCTTCCTTTGCTTTGC 58.665 47.619 0.00 0.00 0.00 3.68
3489 3803 1.696063 TCTGCTTCCTTTGCTTTGCT 58.304 45.000 0.00 0.00 0.00 3.91
3490 3804 2.034124 TCTGCTTCCTTTGCTTTGCTT 58.966 42.857 0.00 0.00 0.00 3.91
3491 3805 2.132762 CTGCTTCCTTTGCTTTGCTTG 58.867 47.619 0.00 0.00 0.00 4.01
3492 3806 1.202557 TGCTTCCTTTGCTTTGCTTGG 60.203 47.619 0.00 0.00 0.00 3.61
3493 3807 1.202568 GCTTCCTTTGCTTTGCTTGGT 60.203 47.619 0.00 0.00 0.00 3.67
3494 3808 2.742856 GCTTCCTTTGCTTTGCTTGGTT 60.743 45.455 0.00 0.00 0.00 3.67
3495 3809 3.534554 CTTCCTTTGCTTTGCTTGGTTT 58.465 40.909 0.00 0.00 0.00 3.27
3496 3810 2.903798 TCCTTTGCTTTGCTTGGTTTG 58.096 42.857 0.00 0.00 0.00 2.93
3497 3811 1.941975 CCTTTGCTTTGCTTGGTTTGG 59.058 47.619 0.00 0.00 0.00 3.28
3498 3812 1.941975 CTTTGCTTTGCTTGGTTTGGG 59.058 47.619 0.00 0.00 0.00 4.12
3499 3813 1.198713 TTGCTTTGCTTGGTTTGGGA 58.801 45.000 0.00 0.00 0.00 4.37
3500 3814 0.752054 TGCTTTGCTTGGTTTGGGAG 59.248 50.000 0.00 0.00 0.00 4.30
3501 3815 1.039856 GCTTTGCTTGGTTTGGGAGA 58.960 50.000 0.00 0.00 0.00 3.71
3502 3816 1.620323 GCTTTGCTTGGTTTGGGAGAT 59.380 47.619 0.00 0.00 0.00 2.75
3503 3817 2.353109 GCTTTGCTTGGTTTGGGAGATC 60.353 50.000 0.00 0.00 0.00 2.75
3504 3818 2.978156 TTGCTTGGTTTGGGAGATCT 57.022 45.000 0.00 0.00 0.00 2.75
3505 3819 2.496899 TGCTTGGTTTGGGAGATCTC 57.503 50.000 14.75 14.75 0.00 2.75
3536 3850 6.756221 CGTAGCTAGGATTTTATGTTAGGGT 58.244 40.000 7.70 0.00 0.00 4.34
3537 3851 6.645415 CGTAGCTAGGATTTTATGTTAGGGTG 59.355 42.308 7.70 0.00 0.00 4.61
3538 3852 5.941788 AGCTAGGATTTTATGTTAGGGTGG 58.058 41.667 0.00 0.00 0.00 4.61
3539 3853 5.432060 AGCTAGGATTTTATGTTAGGGTGGT 59.568 40.000 0.00 0.00 0.00 4.16
3540 3854 6.069029 AGCTAGGATTTTATGTTAGGGTGGTT 60.069 38.462 0.00 0.00 0.00 3.67
3541 3855 6.262496 GCTAGGATTTTATGTTAGGGTGGTTC 59.738 42.308 0.00 0.00 0.00 3.62
3542 3856 6.147437 AGGATTTTATGTTAGGGTGGTTCA 57.853 37.500 0.00 0.00 0.00 3.18
3543 3857 6.557568 AGGATTTTATGTTAGGGTGGTTCAA 58.442 36.000 0.00 0.00 0.00 2.69
3544 3858 7.189087 AGGATTTTATGTTAGGGTGGTTCAAT 58.811 34.615 0.00 0.00 0.00 2.57
3545 3859 7.678171 AGGATTTTATGTTAGGGTGGTTCAATT 59.322 33.333 0.00 0.00 0.00 2.32
3546 3860 7.763985 GGATTTTATGTTAGGGTGGTTCAATTG 59.236 37.037 0.00 0.00 0.00 2.32
3547 3861 6.597832 TTTATGTTAGGGTGGTTCAATTGG 57.402 37.500 5.42 0.00 0.00 3.16
3548 3862 2.243810 TGTTAGGGTGGTTCAATTGGC 58.756 47.619 5.42 0.00 0.00 4.52
3549 3863 2.243810 GTTAGGGTGGTTCAATTGGCA 58.756 47.619 5.42 0.00 0.00 4.92
3550 3864 1.917872 TAGGGTGGTTCAATTGGCAC 58.082 50.000 5.42 2.94 0.00 5.01
3551 3865 0.831711 AGGGTGGTTCAATTGGCACC 60.832 55.000 16.79 16.79 0.00 5.01
3552 3866 1.118356 GGGTGGTTCAATTGGCACCA 61.118 55.000 20.55 20.55 38.30 4.17
3553 3867 0.318120 GGTGGTTCAATTGGCACCAG 59.682 55.000 23.41 0.00 41.37 4.00
3554 3868 1.327303 GTGGTTCAATTGGCACCAGA 58.673 50.000 23.41 7.02 41.37 3.86
3555 3869 1.686052 GTGGTTCAATTGGCACCAGAA 59.314 47.619 23.41 6.46 41.37 3.02
3556 3870 2.102252 GTGGTTCAATTGGCACCAGAAA 59.898 45.455 23.41 6.17 41.37 2.52
3557 3871 2.768527 TGGTTCAATTGGCACCAGAAAA 59.231 40.909 20.55 4.25 35.57 2.29
3558 3872 3.198635 TGGTTCAATTGGCACCAGAAAAA 59.801 39.130 20.55 3.69 35.57 1.94
3559 3873 4.141528 TGGTTCAATTGGCACCAGAAAAAT 60.142 37.500 20.55 0.00 35.57 1.82
3560 3874 4.821260 GGTTCAATTGGCACCAGAAAAATT 59.179 37.500 18.10 0.00 0.00 1.82
3561 3875 5.994668 GGTTCAATTGGCACCAGAAAAATTA 59.005 36.000 18.10 0.00 0.00 1.40
3562 3876 6.073276 GGTTCAATTGGCACCAGAAAAATTAC 60.073 38.462 18.10 0.00 0.00 1.89
3563 3877 6.166984 TCAATTGGCACCAGAAAAATTACA 57.833 33.333 5.42 0.00 0.00 2.41
3564 3878 5.988561 TCAATTGGCACCAGAAAAATTACAC 59.011 36.000 5.42 0.00 0.00 2.90
3565 3879 4.329462 TTGGCACCAGAAAAATTACACC 57.671 40.909 0.00 0.00 0.00 4.16
3566 3880 3.300388 TGGCACCAGAAAAATTACACCA 58.700 40.909 0.00 0.00 0.00 4.17
3567 3881 3.068873 TGGCACCAGAAAAATTACACCAC 59.931 43.478 0.00 0.00 0.00 4.16
3568 3882 3.068873 GGCACCAGAAAAATTACACCACA 59.931 43.478 0.00 0.00 0.00 4.17
3569 3883 4.442192 GGCACCAGAAAAATTACACCACAA 60.442 41.667 0.00 0.00 0.00 3.33
3570 3884 5.112686 GCACCAGAAAAATTACACCACAAA 58.887 37.500 0.00 0.00 0.00 2.83
3571 3885 5.757808 GCACCAGAAAAATTACACCACAAAT 59.242 36.000 0.00 0.00 0.00 2.32
3572 3886 6.259829 GCACCAGAAAAATTACACCACAAATT 59.740 34.615 0.00 0.00 0.00 1.82
3573 3887 7.201688 GCACCAGAAAAATTACACCACAAATTT 60.202 33.333 0.00 0.00 36.98 1.82
3574 3888 9.319143 CACCAGAAAAATTACACCACAAATTTA 57.681 29.630 0.00 0.00 34.93 1.40
3614 3928 7.701539 ACACAAAGAATATATCCAAAGCACA 57.298 32.000 0.00 0.00 0.00 4.57
3615 3929 8.297470 ACACAAAGAATATATCCAAAGCACAT 57.703 30.769 0.00 0.00 0.00 3.21
3616 3930 9.407380 ACACAAAGAATATATCCAAAGCACATA 57.593 29.630 0.00 0.00 0.00 2.29
3627 3941 6.942532 TCCAAAGCACATATCAATAAGGTC 57.057 37.500 0.00 0.00 0.00 3.85
3628 3942 6.662755 TCCAAAGCACATATCAATAAGGTCT 58.337 36.000 0.00 0.00 0.00 3.85
3629 3943 7.801104 TCCAAAGCACATATCAATAAGGTCTA 58.199 34.615 0.00 0.00 0.00 2.59
3630 3944 8.439971 TCCAAAGCACATATCAATAAGGTCTAT 58.560 33.333 0.00 0.00 0.00 1.98
3631 3945 8.725148 CCAAAGCACATATCAATAAGGTCTATC 58.275 37.037 0.00 0.00 0.00 2.08
3632 3946 9.276590 CAAAGCACATATCAATAAGGTCTATCA 57.723 33.333 0.00 0.00 0.00 2.15
3633 3947 9.851686 AAAGCACATATCAATAAGGTCTATCAA 57.148 29.630 0.00 0.00 0.00 2.57
3634 3948 9.851686 AAGCACATATCAATAAGGTCTATCAAA 57.148 29.630 0.00 0.00 0.00 2.69
3635 3949 9.499479 AGCACATATCAATAAGGTCTATCAAAG 57.501 33.333 0.00 0.00 0.00 2.77
3636 3950 8.233190 GCACATATCAATAAGGTCTATCAAAGC 58.767 37.037 0.00 0.00 0.00 3.51
3637 3951 9.276590 CACATATCAATAAGGTCTATCAAAGCA 57.723 33.333 0.00 0.00 0.00 3.91
3659 3973 8.652810 AGCATATTAAAATTCATGTTCAAGCC 57.347 30.769 0.00 0.00 0.00 4.35
3660 3974 8.480501 AGCATATTAAAATTCATGTTCAAGCCT 58.519 29.630 0.00 0.00 0.00 4.58
3661 3975 9.101655 GCATATTAAAATTCATGTTCAAGCCTT 57.898 29.630 0.00 0.00 0.00 4.35
3666 3980 9.995003 TTAAAATTCATGTTCAAGCCTTACATT 57.005 25.926 0.00 0.00 30.45 2.71
3667 3981 8.538409 AAAATTCATGTTCAAGCCTTACATTC 57.462 30.769 0.00 0.00 30.45 2.67
3668 3982 4.944962 TCATGTTCAAGCCTTACATTCG 57.055 40.909 0.00 0.00 30.45 3.34
3669 3983 3.126858 TCATGTTCAAGCCTTACATTCGC 59.873 43.478 0.00 0.00 30.45 4.70
3670 3984 2.778299 TGTTCAAGCCTTACATTCGCT 58.222 42.857 0.00 0.00 0.00 4.93
3671 3985 3.146066 TGTTCAAGCCTTACATTCGCTT 58.854 40.909 0.00 0.00 43.45 4.68
3672 3986 4.320023 TGTTCAAGCCTTACATTCGCTTA 58.680 39.130 0.00 0.00 40.79 3.09
3673 3987 4.757657 TGTTCAAGCCTTACATTCGCTTAA 59.242 37.500 0.00 0.00 40.79 1.85
3674 3988 5.239744 TGTTCAAGCCTTACATTCGCTTAAA 59.760 36.000 0.00 0.00 40.79 1.52
3675 3989 5.950758 TCAAGCCTTACATTCGCTTAAAA 57.049 34.783 0.00 0.00 40.79 1.52
3676 3990 6.509418 TCAAGCCTTACATTCGCTTAAAAT 57.491 33.333 0.00 0.00 40.79 1.82
3677 3991 7.618502 TCAAGCCTTACATTCGCTTAAAATA 57.381 32.000 0.00 0.00 40.79 1.40
3678 3992 8.220755 TCAAGCCTTACATTCGCTTAAAATAT 57.779 30.769 0.00 0.00 40.79 1.28
3679 3993 9.332502 TCAAGCCTTACATTCGCTTAAAATATA 57.667 29.630 0.00 0.00 40.79 0.86
3680 3994 9.944663 CAAGCCTTACATTCGCTTAAAATATAA 57.055 29.630 0.00 0.00 40.79 0.98
3682 3996 9.946165 AGCCTTACATTCGCTTAAAATATAAAC 57.054 29.630 0.00 0.00 0.00 2.01
3683 3997 9.177304 GCCTTACATTCGCTTAAAATATAAACC 57.823 33.333 0.00 0.00 0.00 3.27
3687 4001 8.288689 ACATTCGCTTAAAATATAAACCACCT 57.711 30.769 0.00 0.00 0.00 4.00
3688 4002 8.745590 ACATTCGCTTAAAATATAAACCACCTT 58.254 29.630 0.00 0.00 0.00 3.50
3698 4012 8.810990 AAATATAAACCACCTTATTTGTCGGA 57.189 30.769 0.00 0.00 0.00 4.55
3699 4013 8.990163 AATATAAACCACCTTATTTGTCGGAT 57.010 30.769 0.00 0.00 0.00 4.18
3700 4014 6.937436 ATAAACCACCTTATTTGTCGGATC 57.063 37.500 0.00 0.00 0.00 3.36
3701 4015 3.277142 ACCACCTTATTTGTCGGATCC 57.723 47.619 0.00 0.00 0.00 3.36
3702 4016 2.574369 ACCACCTTATTTGTCGGATCCA 59.426 45.455 13.41 0.00 0.00 3.41
3703 4017 3.202151 ACCACCTTATTTGTCGGATCCAT 59.798 43.478 13.41 0.00 0.00 3.41
3704 4018 4.410883 ACCACCTTATTTGTCGGATCCATA 59.589 41.667 13.41 0.00 0.00 2.74
3705 4019 5.073144 ACCACCTTATTTGTCGGATCCATAT 59.927 40.000 13.41 0.00 0.00 1.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 3.282021 CGACCATCACATTTTGGGAGAT 58.718 45.455 0.00 0.00 30.64 2.75
1089 1126 1.979308 TCGGTAGTCCACCCATTTTGA 59.021 47.619 0.00 0.00 45.52 2.69
3079 3223 3.369175 TGCATGGCACCCAAATGTATAA 58.631 40.909 0.00 0.00 36.95 0.98
3124 3268 0.323360 ATACATGGCGCCCAAGTTGT 60.323 50.000 26.77 20.37 36.76 3.32
3293 3607 3.450457 TGGAATGTTGTTTTTCTGCCACT 59.550 39.130 0.00 0.00 0.00 4.00
3331 3645 1.009829 CTGCGCCTAAAAGAATCGCT 58.990 50.000 4.18 0.00 45.24 4.93
3332 3646 0.589979 GCTGCGCCTAAAAGAATCGC 60.590 55.000 4.18 0.00 45.23 4.58
3333 3647 0.315382 CGCTGCGCCTAAAAGAATCG 60.315 55.000 9.88 0.00 0.00 3.34
3334 3648 1.006832 TCGCTGCGCCTAAAAGAATC 58.993 50.000 18.65 0.00 0.00 2.52
3335 3649 1.599542 GATCGCTGCGCCTAAAAGAAT 59.400 47.619 18.65 1.56 0.00 2.40
3336 3650 1.006832 GATCGCTGCGCCTAAAAGAA 58.993 50.000 18.65 0.00 0.00 2.52
3337 3651 0.810031 GGATCGCTGCGCCTAAAAGA 60.810 55.000 18.65 0.00 0.00 2.52
3338 3652 1.089481 TGGATCGCTGCGCCTAAAAG 61.089 55.000 18.65 0.00 0.00 2.27
3339 3653 0.463654 ATGGATCGCTGCGCCTAAAA 60.464 50.000 18.65 0.00 0.00 1.52
3340 3654 0.880278 GATGGATCGCTGCGCCTAAA 60.880 55.000 18.65 0.00 0.00 1.85
3341 3655 1.300931 GATGGATCGCTGCGCCTAA 60.301 57.895 18.65 0.00 0.00 2.69
3342 3656 2.340078 GATGGATCGCTGCGCCTA 59.660 61.111 18.65 9.87 0.00 3.93
3343 3657 4.615815 GGATGGATCGCTGCGCCT 62.616 66.667 18.65 6.93 0.00 5.52
3344 3658 4.916293 TGGATGGATCGCTGCGCC 62.916 66.667 18.65 14.40 0.00 6.53
3345 3659 2.667536 ATGGATGGATCGCTGCGC 60.668 61.111 18.65 0.00 0.00 6.09
3346 3660 2.031516 GGATGGATGGATCGCTGCG 61.032 63.158 17.25 17.25 0.00 5.18
3347 3661 0.322277 ATGGATGGATGGATCGCTGC 60.322 55.000 0.00 0.00 0.00 5.25
3348 3662 1.735386 GATGGATGGATGGATCGCTG 58.265 55.000 0.00 0.00 0.00 5.18
3349 3663 0.248565 CGATGGATGGATGGATCGCT 59.751 55.000 0.00 0.00 32.13 4.93
3350 3664 0.742281 CCGATGGATGGATGGATCGC 60.742 60.000 0.00 0.00 37.08 4.58
3351 3665 0.897621 TCCGATGGATGGATGGATCG 59.102 55.000 0.00 0.00 37.93 3.69
3352 3666 2.482664 CGATCCGATGGATGGATGGATC 60.483 54.545 2.43 9.04 46.17 3.36
3353 3667 1.483827 CGATCCGATGGATGGATGGAT 59.516 52.381 2.43 0.00 46.17 3.41
3354 3668 0.897621 CGATCCGATGGATGGATGGA 59.102 55.000 2.43 0.00 46.17 3.41
3355 3669 0.742281 GCGATCCGATGGATGGATGG 60.742 60.000 11.45 0.00 46.17 3.51
3356 3670 1.080435 CGCGATCCGATGGATGGATG 61.080 60.000 0.00 0.22 46.17 3.51
3358 3672 1.901464 TCGCGATCCGATGGATGGA 60.901 57.895 3.71 0.43 43.27 3.41
3359 3673 2.650778 TCGCGATCCGATGGATGG 59.349 61.111 3.71 3.16 43.27 3.51
3367 3681 2.807045 GGCAGCTATCGCGATCCG 60.807 66.667 27.45 18.62 42.32 4.18
3368 3682 2.807045 CGGCAGCTATCGCGATCC 60.807 66.667 27.45 18.80 42.32 3.36
3369 3683 2.807045 CCGGCAGCTATCGCGATC 60.807 66.667 27.45 12.64 42.32 3.69
3387 3701 1.951792 ATCGATCGATCAACGCGTAG 58.048 50.000 24.60 6.30 42.26 3.51
3404 3718 2.031516 CCAGCCATGCCGATCGATC 61.032 63.158 18.66 15.68 0.00 3.69
3405 3719 2.031616 CCAGCCATGCCGATCGAT 59.968 61.111 18.66 0.00 0.00 3.59
3406 3720 4.240103 CCCAGCCATGCCGATCGA 62.240 66.667 18.66 0.00 0.00 3.59
3407 3721 4.552365 ACCCAGCCATGCCGATCG 62.552 66.667 8.51 8.51 0.00 3.69
3408 3722 1.728490 GAAACCCAGCCATGCCGATC 61.728 60.000 0.00 0.00 0.00 3.69
3409 3723 1.754234 GAAACCCAGCCATGCCGAT 60.754 57.895 0.00 0.00 0.00 4.18
3410 3724 2.361104 GAAACCCAGCCATGCCGA 60.361 61.111 0.00 0.00 0.00 5.54
3411 3725 1.606885 ATTGAAACCCAGCCATGCCG 61.607 55.000 0.00 0.00 0.00 5.69
3412 3726 0.108041 CATTGAAACCCAGCCATGCC 60.108 55.000 0.00 0.00 0.00 4.40
3413 3727 0.741927 GCATTGAAACCCAGCCATGC 60.742 55.000 0.00 0.00 0.00 4.06
3414 3728 0.458889 CGCATTGAAACCCAGCCATG 60.459 55.000 0.00 0.00 0.00 3.66
3415 3729 1.892338 CGCATTGAAACCCAGCCAT 59.108 52.632 0.00 0.00 0.00 4.40
3416 3730 2.929903 GCGCATTGAAACCCAGCCA 61.930 57.895 0.30 0.00 0.00 4.75
3417 3731 2.125952 GCGCATTGAAACCCAGCC 60.126 61.111 0.30 0.00 0.00 4.85
3418 3732 1.153958 GAGCGCATTGAAACCCAGC 60.154 57.895 11.47 0.00 0.00 4.85
3419 3733 1.508088 GGAGCGCATTGAAACCCAG 59.492 57.895 11.47 0.00 0.00 4.45
3420 3734 2.331893 CGGAGCGCATTGAAACCCA 61.332 57.895 11.47 0.00 0.00 4.51
3421 3735 2.485122 CGGAGCGCATTGAAACCC 59.515 61.111 11.47 0.00 0.00 4.11
3441 3755 3.414700 CACGCACCAGCCTCGAAC 61.415 66.667 0.00 0.00 37.52 3.95
3445 3759 4.735132 TACGCACGCACCAGCCTC 62.735 66.667 0.00 0.00 37.52 4.70
3446 3760 4.082523 ATACGCACGCACCAGCCT 62.083 61.111 0.00 0.00 37.52 4.58
3447 3761 3.564027 GATACGCACGCACCAGCC 61.564 66.667 0.00 0.00 37.52 4.85
3448 3762 2.025359 GAAGATACGCACGCACCAGC 62.025 60.000 0.00 0.00 37.42 4.85
3449 3763 1.421410 GGAAGATACGCACGCACCAG 61.421 60.000 0.00 0.00 0.00 4.00
3450 3764 1.447140 GGAAGATACGCACGCACCA 60.447 57.895 0.00 0.00 0.00 4.17
3451 3765 0.810031 ATGGAAGATACGCACGCACC 60.810 55.000 0.00 0.00 0.00 5.01
3452 3766 0.577269 GATGGAAGATACGCACGCAC 59.423 55.000 0.00 0.00 0.00 5.34
3453 3767 0.459899 AGATGGAAGATACGCACGCA 59.540 50.000 0.00 0.00 0.00 5.24
3454 3768 0.855349 CAGATGGAAGATACGCACGC 59.145 55.000 0.00 0.00 0.00 5.34
3455 3769 0.855349 GCAGATGGAAGATACGCACG 59.145 55.000 0.00 0.00 0.00 5.34
3456 3770 2.231215 AGCAGATGGAAGATACGCAC 57.769 50.000 0.00 0.00 0.00 5.34
3457 3771 2.483714 GGAAGCAGATGGAAGATACGCA 60.484 50.000 0.00 0.00 0.00 5.24
3458 3772 2.139118 GGAAGCAGATGGAAGATACGC 58.861 52.381 0.00 0.00 0.00 4.42
3459 3773 3.742433 AGGAAGCAGATGGAAGATACG 57.258 47.619 0.00 0.00 0.00 3.06
3460 3774 4.036144 GCAAAGGAAGCAGATGGAAGATAC 59.964 45.833 0.00 0.00 0.00 2.24
3461 3775 4.080129 AGCAAAGGAAGCAGATGGAAGATA 60.080 41.667 0.00 0.00 0.00 1.98
3462 3776 3.022406 GCAAAGGAAGCAGATGGAAGAT 58.978 45.455 0.00 0.00 0.00 2.40
3463 3777 2.040813 AGCAAAGGAAGCAGATGGAAGA 59.959 45.455 0.00 0.00 0.00 2.87
3464 3778 2.444421 AGCAAAGGAAGCAGATGGAAG 58.556 47.619 0.00 0.00 0.00 3.46
3465 3779 2.592102 AGCAAAGGAAGCAGATGGAA 57.408 45.000 0.00 0.00 0.00 3.53
3466 3780 2.559668 CAAAGCAAAGGAAGCAGATGGA 59.440 45.455 0.00 0.00 0.00 3.41
3467 3781 2.929592 GCAAAGCAAAGGAAGCAGATGG 60.930 50.000 0.00 0.00 0.00 3.51
3468 3782 2.029290 AGCAAAGCAAAGGAAGCAGATG 60.029 45.455 0.00 0.00 0.00 2.90
3469 3783 2.245582 AGCAAAGCAAAGGAAGCAGAT 58.754 42.857 0.00 0.00 0.00 2.90
3470 3784 1.696063 AGCAAAGCAAAGGAAGCAGA 58.304 45.000 0.00 0.00 0.00 4.26
3471 3785 2.132762 CAAGCAAAGCAAAGGAAGCAG 58.867 47.619 0.00 0.00 0.00 4.24
3472 3786 1.202557 CCAAGCAAAGCAAAGGAAGCA 60.203 47.619 0.00 0.00 0.00 3.91
3473 3787 1.202568 ACCAAGCAAAGCAAAGGAAGC 60.203 47.619 0.00 0.00 0.00 3.86
3474 3788 2.896745 ACCAAGCAAAGCAAAGGAAG 57.103 45.000 0.00 0.00 0.00 3.46
3475 3789 3.269178 CAAACCAAGCAAAGCAAAGGAA 58.731 40.909 0.00 0.00 0.00 3.36
3476 3790 2.419851 CCAAACCAAGCAAAGCAAAGGA 60.420 45.455 0.00 0.00 0.00 3.36
3477 3791 1.941975 CCAAACCAAGCAAAGCAAAGG 59.058 47.619 0.00 0.00 0.00 3.11
3478 3792 1.941975 CCCAAACCAAGCAAAGCAAAG 59.058 47.619 0.00 0.00 0.00 2.77
3479 3793 1.556911 TCCCAAACCAAGCAAAGCAAA 59.443 42.857 0.00 0.00 0.00 3.68
3480 3794 1.138661 CTCCCAAACCAAGCAAAGCAA 59.861 47.619 0.00 0.00 0.00 3.91
3481 3795 0.752054 CTCCCAAACCAAGCAAAGCA 59.248 50.000 0.00 0.00 0.00 3.91
3482 3796 1.039856 TCTCCCAAACCAAGCAAAGC 58.960 50.000 0.00 0.00 0.00 3.51
3483 3797 3.160269 AGATCTCCCAAACCAAGCAAAG 58.840 45.455 0.00 0.00 0.00 2.77
3484 3798 3.157087 GAGATCTCCCAAACCAAGCAAA 58.843 45.455 12.00 0.00 0.00 3.68
3485 3799 2.555227 GGAGATCTCCCAAACCAAGCAA 60.555 50.000 28.84 0.00 43.94 3.91
3486 3800 1.004745 GGAGATCTCCCAAACCAAGCA 59.995 52.381 28.84 0.00 43.94 3.91
3487 3801 1.756430 GGAGATCTCCCAAACCAAGC 58.244 55.000 28.84 1.61 43.94 4.01
3498 3812 0.031449 GCTACGCCACTGGAGATCTC 59.969 60.000 14.75 14.75 0.00 2.75
3499 3813 0.396417 AGCTACGCCACTGGAGATCT 60.396 55.000 5.72 0.00 0.00 2.75
3500 3814 1.268352 CTAGCTACGCCACTGGAGATC 59.732 57.143 5.72 0.00 0.00 2.75
3501 3815 1.323412 CTAGCTACGCCACTGGAGAT 58.677 55.000 5.72 0.00 0.00 2.75
3502 3816 0.752009 CCTAGCTACGCCACTGGAGA 60.752 60.000 5.72 0.00 0.00 3.71
3503 3817 0.752009 TCCTAGCTACGCCACTGGAG 60.752 60.000 0.00 0.00 0.00 3.86
3504 3818 0.106167 ATCCTAGCTACGCCACTGGA 60.106 55.000 0.00 0.00 0.00 3.86
3505 3819 0.753262 AATCCTAGCTACGCCACTGG 59.247 55.000 0.00 0.00 0.00 4.00
3506 3820 2.604046 AAATCCTAGCTACGCCACTG 57.396 50.000 0.00 0.00 0.00 3.66
3507 3821 4.101119 ACATAAAATCCTAGCTACGCCACT 59.899 41.667 0.00 0.00 0.00 4.00
3508 3822 4.377897 ACATAAAATCCTAGCTACGCCAC 58.622 43.478 0.00 0.00 0.00 5.01
3509 3823 4.682778 ACATAAAATCCTAGCTACGCCA 57.317 40.909 0.00 0.00 0.00 5.69
3510 3824 5.638234 CCTAACATAAAATCCTAGCTACGCC 59.362 44.000 0.00 0.00 0.00 5.68
3511 3825 5.638234 CCCTAACATAAAATCCTAGCTACGC 59.362 44.000 0.00 0.00 0.00 4.42
3512 3826 6.645415 CACCCTAACATAAAATCCTAGCTACG 59.355 42.308 0.00 0.00 0.00 3.51
3513 3827 6.935208 CCACCCTAACATAAAATCCTAGCTAC 59.065 42.308 0.00 0.00 0.00 3.58
3514 3828 6.618196 ACCACCCTAACATAAAATCCTAGCTA 59.382 38.462 0.00 0.00 0.00 3.32
3515 3829 5.432060 ACCACCCTAACATAAAATCCTAGCT 59.568 40.000 0.00 0.00 0.00 3.32
3516 3830 5.691896 ACCACCCTAACATAAAATCCTAGC 58.308 41.667 0.00 0.00 0.00 3.42
3517 3831 7.343357 TGAACCACCCTAACATAAAATCCTAG 58.657 38.462 0.00 0.00 0.00 3.02
3518 3832 7.273457 TGAACCACCCTAACATAAAATCCTA 57.727 36.000 0.00 0.00 0.00 2.94
3519 3833 6.147437 TGAACCACCCTAACATAAAATCCT 57.853 37.500 0.00 0.00 0.00 3.24
3520 3834 6.844097 TTGAACCACCCTAACATAAAATCC 57.156 37.500 0.00 0.00 0.00 3.01
3521 3835 7.763985 CCAATTGAACCACCCTAACATAAAATC 59.236 37.037 7.12 0.00 0.00 2.17
3522 3836 7.619965 CCAATTGAACCACCCTAACATAAAAT 58.380 34.615 7.12 0.00 0.00 1.82
3523 3837 6.519213 GCCAATTGAACCACCCTAACATAAAA 60.519 38.462 7.12 0.00 0.00 1.52
3524 3838 5.046950 GCCAATTGAACCACCCTAACATAAA 60.047 40.000 7.12 0.00 0.00 1.40
3525 3839 4.464597 GCCAATTGAACCACCCTAACATAA 59.535 41.667 7.12 0.00 0.00 1.90
3526 3840 4.020543 GCCAATTGAACCACCCTAACATA 58.979 43.478 7.12 0.00 0.00 2.29
3527 3841 2.831526 GCCAATTGAACCACCCTAACAT 59.168 45.455 7.12 0.00 0.00 2.71
3528 3842 2.243810 GCCAATTGAACCACCCTAACA 58.756 47.619 7.12 0.00 0.00 2.41
3529 3843 2.029380 GTGCCAATTGAACCACCCTAAC 60.029 50.000 7.12 0.00 0.00 2.34
3530 3844 2.243810 GTGCCAATTGAACCACCCTAA 58.756 47.619 7.12 0.00 0.00 2.69
3531 3845 1.549037 GGTGCCAATTGAACCACCCTA 60.549 52.381 22.09 0.00 41.39 3.53
3532 3846 0.831711 GGTGCCAATTGAACCACCCT 60.832 55.000 22.09 0.00 41.39 4.34
3533 3847 1.118356 TGGTGCCAATTGAACCACCC 61.118 55.000 26.13 15.89 45.49 4.61
3534 3848 0.318120 CTGGTGCCAATTGAACCACC 59.682 55.000 22.12 23.23 46.10 4.61
3535 3849 1.327303 TCTGGTGCCAATTGAACCAC 58.673 50.000 22.12 17.26 39.05 4.16
3536 3850 2.079170 TTCTGGTGCCAATTGAACCA 57.921 45.000 23.56 23.56 41.66 3.67
3537 3851 3.467374 TTTTCTGGTGCCAATTGAACC 57.533 42.857 18.45 18.45 34.38 3.62
3538 3852 6.481644 TGTAATTTTTCTGGTGCCAATTGAAC 59.518 34.615 7.12 4.86 0.00 3.18
3539 3853 6.481644 GTGTAATTTTTCTGGTGCCAATTGAA 59.518 34.615 7.12 0.00 0.00 2.69
3540 3854 5.988561 GTGTAATTTTTCTGGTGCCAATTGA 59.011 36.000 7.12 0.00 0.00 2.57
3541 3855 5.179182 GGTGTAATTTTTCTGGTGCCAATTG 59.821 40.000 0.00 0.00 0.00 2.32
3542 3856 5.163258 TGGTGTAATTTTTCTGGTGCCAATT 60.163 36.000 0.00 0.00 0.00 2.32
3543 3857 4.346418 TGGTGTAATTTTTCTGGTGCCAAT 59.654 37.500 0.00 0.00 0.00 3.16
3544 3858 3.706594 TGGTGTAATTTTTCTGGTGCCAA 59.293 39.130 0.00 0.00 0.00 4.52
3545 3859 3.068873 GTGGTGTAATTTTTCTGGTGCCA 59.931 43.478 0.00 0.00 0.00 4.92
3546 3860 3.068873 TGTGGTGTAATTTTTCTGGTGCC 59.931 43.478 0.00 0.00 0.00 5.01
3547 3861 4.314740 TGTGGTGTAATTTTTCTGGTGC 57.685 40.909 0.00 0.00 0.00 5.01
3548 3862 7.784633 AATTTGTGGTGTAATTTTTCTGGTG 57.215 32.000 0.00 0.00 0.00 4.17
3588 3902 9.407380 TGTGCTTTGGATATATTCTTTGTGTAT 57.593 29.630 0.00 0.00 0.00 2.29
3589 3903 8.800370 TGTGCTTTGGATATATTCTTTGTGTA 57.200 30.769 0.00 0.00 0.00 2.90
3590 3904 7.701539 TGTGCTTTGGATATATTCTTTGTGT 57.298 32.000 0.00 0.00 0.00 3.72
3601 3915 9.236006 GACCTTATTGATATGTGCTTTGGATAT 57.764 33.333 0.00 0.00 0.00 1.63
3602 3916 8.439971 AGACCTTATTGATATGTGCTTTGGATA 58.560 33.333 0.00 0.00 0.00 2.59
3603 3917 7.293073 AGACCTTATTGATATGTGCTTTGGAT 58.707 34.615 0.00 0.00 0.00 3.41
3604 3918 6.662755 AGACCTTATTGATATGTGCTTTGGA 58.337 36.000 0.00 0.00 0.00 3.53
3605 3919 6.949352 AGACCTTATTGATATGTGCTTTGG 57.051 37.500 0.00 0.00 0.00 3.28
3606 3920 9.276590 TGATAGACCTTATTGATATGTGCTTTG 57.723 33.333 0.00 0.00 0.00 2.77
3607 3921 9.851686 TTGATAGACCTTATTGATATGTGCTTT 57.148 29.630 0.00 0.00 0.00 3.51
3608 3922 9.851686 TTTGATAGACCTTATTGATATGTGCTT 57.148 29.630 0.00 0.00 0.00 3.91
3609 3923 9.499479 CTTTGATAGACCTTATTGATATGTGCT 57.501 33.333 0.00 0.00 0.00 4.40
3610 3924 8.233190 GCTTTGATAGACCTTATTGATATGTGC 58.767 37.037 0.00 0.00 0.00 4.57
3611 3925 9.276590 TGCTTTGATAGACCTTATTGATATGTG 57.723 33.333 0.00 0.00 0.00 3.21
3633 3947 9.101655 GGCTTGAACATGAATTTTAATATGCTT 57.898 29.630 0.00 0.00 0.00 3.91
3634 3948 8.480501 AGGCTTGAACATGAATTTTAATATGCT 58.519 29.630 0.00 0.00 0.00 3.79
3635 3949 8.652810 AGGCTTGAACATGAATTTTAATATGC 57.347 30.769 0.00 0.00 0.00 3.14
3640 3954 9.995003 AATGTAAGGCTTGAACATGAATTTTAA 57.005 25.926 14.63 0.00 34.20 1.52
3641 3955 9.638239 GAATGTAAGGCTTGAACATGAATTTTA 57.362 29.630 14.63 0.00 34.20 1.52
3642 3956 7.329226 CGAATGTAAGGCTTGAACATGAATTTT 59.671 33.333 14.63 1.34 34.20 1.82
3643 3957 6.808212 CGAATGTAAGGCTTGAACATGAATTT 59.192 34.615 14.63 1.96 34.20 1.82
3644 3958 6.324819 CGAATGTAAGGCTTGAACATGAATT 58.675 36.000 14.63 2.28 34.20 2.17
3645 3959 5.677091 GCGAATGTAAGGCTTGAACATGAAT 60.677 40.000 14.63 1.87 34.20 2.57
3646 3960 4.379394 GCGAATGTAAGGCTTGAACATGAA 60.379 41.667 14.63 0.00 34.20 2.57
3647 3961 3.126858 GCGAATGTAAGGCTTGAACATGA 59.873 43.478 14.63 0.00 34.20 3.07
3648 3962 3.127548 AGCGAATGTAAGGCTTGAACATG 59.872 43.478 14.63 6.34 34.20 3.21
3649 3963 3.347216 AGCGAATGTAAGGCTTGAACAT 58.653 40.909 10.69 9.91 35.40 2.71
3650 3964 2.778299 AGCGAATGTAAGGCTTGAACA 58.222 42.857 10.69 7.72 31.91 3.18
3651 3965 3.831715 AAGCGAATGTAAGGCTTGAAC 57.168 42.857 10.69 1.06 44.69 3.18
3652 3966 5.950758 TTTAAGCGAATGTAAGGCTTGAA 57.049 34.783 10.69 3.27 45.79 2.69
3653 3967 5.950758 TTTTAAGCGAATGTAAGGCTTGA 57.049 34.783 10.69 0.00 45.79 3.02
3654 3968 9.944663 TTATATTTTAAGCGAATGTAAGGCTTG 57.055 29.630 10.69 0.00 45.79 4.01
3656 3970 9.946165 GTTTATATTTTAAGCGAATGTAAGGCT 57.054 29.630 0.00 0.00 39.01 4.58
3657 3971 9.177304 GGTTTATATTTTAAGCGAATGTAAGGC 57.823 33.333 0.00 0.00 0.00 4.35
3661 3975 9.398538 AGGTGGTTTATATTTTAAGCGAATGTA 57.601 29.630 0.00 0.00 0.00 2.29
3662 3976 8.288689 AGGTGGTTTATATTTTAAGCGAATGT 57.711 30.769 0.00 0.00 0.00 2.71
3672 3986 9.245481 TCCGACAAATAAGGTGGTTTATATTTT 57.755 29.630 0.00 0.00 0.00 1.82
3673 3987 8.810990 TCCGACAAATAAGGTGGTTTATATTT 57.189 30.769 0.00 0.00 0.00 1.40
3674 3988 8.990163 ATCCGACAAATAAGGTGGTTTATATT 57.010 30.769 0.00 0.00 0.00 1.28
3675 3989 7.664318 GGATCCGACAAATAAGGTGGTTTATAT 59.336 37.037 0.00 0.00 0.00 0.86
3676 3990 6.993902 GGATCCGACAAATAAGGTGGTTTATA 59.006 38.462 0.00 0.00 0.00 0.98
3677 3991 5.826208 GGATCCGACAAATAAGGTGGTTTAT 59.174 40.000 0.00 0.00 0.00 1.40
3678 3992 5.187687 GGATCCGACAAATAAGGTGGTTTA 58.812 41.667 0.00 0.00 0.00 2.01
3679 3993 4.014406 GGATCCGACAAATAAGGTGGTTT 58.986 43.478 0.00 0.00 0.00 3.27
3680 3994 3.009695 TGGATCCGACAAATAAGGTGGTT 59.990 43.478 7.39 0.00 0.00 3.67
3681 3995 2.574369 TGGATCCGACAAATAAGGTGGT 59.426 45.455 7.39 0.00 0.00 4.16
3682 3996 3.275617 TGGATCCGACAAATAAGGTGG 57.724 47.619 7.39 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.