Multiple sequence alignment - TraesCS1B01G246000

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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 TraesCS1B01G246000 chr1B 100.000 1616 0 0 1 1616 435193416 435195031 0.000000e+00 2985.0
1 TraesCS1B01G246000 chr1B 95.796 1570 48 8 1 1558 327025304 327023741 0.000000e+00 2518.0
2 TraesCS1B01G246000 chr1B 100.000 1363 0 0 1996 3358 435195411 435196773 0.000000e+00 2518.0
3 TraesCS1B01G246000 chr1B 94.900 1098 46 5 1996 3089 327023648 327022557 0.000000e+00 1709.0
4 TraesCS1B01G246000 chr1B 95.238 42 1 1 1575 1616 327023747 327023707 7.780000e-07 65.8
5 TraesCS1B01G246000 chr1D 95.215 1630 46 10 1 1616 322284451 322286062 0.000000e+00 2549.0
6 TraesCS1B01G246000 chr1D 95.608 1571 46 9 1 1558 227131595 227130035 0.000000e+00 2497.0
7 TraesCS1B01G246000 chr1D 96.621 1095 34 3 1996 3089 322286098 322287190 0.000000e+00 1814.0
8 TraesCS1B01G246000 chr1D 95.529 1096 41 4 1996 3089 227129615 227128526 0.000000e+00 1746.0
9 TraesCS1B01G246000 chr1D 84.146 164 21 4 292 451 112443752 112443590 1.610000e-33 154.0
10 TraesCS1B01G246000 chr1D 95.238 42 1 1 1575 1616 227130041 227130001 7.780000e-07 65.8
11 TraesCS1B01G246000 chr1A 96.414 1506 40 5 122 1616 406188904 406190406 0.000000e+00 2470.0
12 TraesCS1B01G246000 chr1A 96.497 942 30 3 1996 2934 406190467 406191408 0.000000e+00 1554.0
13 TraesCS1B01G246000 chr1A 96.774 124 2 2 1 122 406187725 406187848 4.390000e-49 206.0
14 TraesCS1B01G246000 chr1A 94.531 128 6 1 2925 3051 406203055 406203182 2.640000e-46 196.0
15 TraesCS1B01G246000 chr3A 86.410 883 92 16 701 1572 739735331 739734466 0.000000e+00 941.0
16 TraesCS1B01G246000 chr3A 87.075 735 73 11 884 1610 739322467 739323187 0.000000e+00 811.0
17 TraesCS1B01G246000 chr3A 86.264 364 38 11 1996 2350 739323323 739323683 5.260000e-103 385.0
18 TraesCS1B01G246000 chr3A 82.469 405 42 12 1996 2381 739734367 739733973 8.980000e-86 327.0
19 TraesCS1B01G246000 chr3B 84.921 955 104 20 676 1616 816692399 816691471 0.000000e+00 929.0
20 TraesCS1B01G246000 chr3B 92.029 276 17 2 3083 3358 610573586 610573856 1.890000e-102 383.0
21 TraesCS1B01G246000 chr3B 82.294 401 42 12 1996 2378 816691397 816691008 1.500000e-83 320.0
22 TraesCS1B01G246000 chr3B 82.292 384 39 14 1996 2361 816265261 816265633 4.210000e-79 305.0
23 TraesCS1B01G246000 chr3D 85.998 857 90 17 729 1572 607310709 607309870 0.000000e+00 891.0
24 TraesCS1B01G246000 chr3D 84.294 885 101 21 676 1550 606929734 606930590 0.000000e+00 830.0
25 TraesCS1B01G246000 chr3D 91.606 274 19 1 3085 3358 54461530 54461261 3.160000e-100 375.0
26 TraesCS1B01G246000 chr3D 83.085 402 43 8 1996 2381 606930712 606931104 3.210000e-90 342.0
27 TraesCS1B01G246000 chr7B 92.701 274 14 5 3086 3358 594709995 594710263 1.130000e-104 390.0
28 TraesCS1B01G246000 chr2D 92.308 273 16 4 3086 3358 346010533 346010800 1.890000e-102 383.0
29 TraesCS1B01G246000 chr4A 91.697 277 19 1 3082 3358 589798507 589798235 6.800000e-102 381.0
30 TraesCS1B01G246000 chr4D 92.222 270 17 1 3089 3358 490101107 490100842 2.450000e-101 379.0
31 TraesCS1B01G246000 chr4D 91.575 273 19 2 3086 3358 380341341 380341609 1.140000e-99 374.0
32 TraesCS1B01G246000 chr7D 91.697 277 16 4 3083 3358 565400225 565400495 8.790000e-101 377.0
33 TraesCS1B01G246000 chr7D 91.606 274 18 2 3086 3358 219705640 219705371 1.140000e-99 374.0


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 TraesCS1B01G246000 chr1B 435193416 435196773 3357 False 2751.500000 2985 100.000000 1 3358 2 chr1B.!!$F1 3357
1 TraesCS1B01G246000 chr1B 327022557 327025304 2747 True 1430.933333 2518 95.311333 1 3089 3 chr1B.!!$R1 3088
2 TraesCS1B01G246000 chr1D 322284451 322287190 2739 False 2181.500000 2549 95.918000 1 3089 2 chr1D.!!$F1 3088
3 TraesCS1B01G246000 chr1D 227128526 227131595 3069 True 1436.266667 2497 95.458333 1 3089 3 chr1D.!!$R2 3088
4 TraesCS1B01G246000 chr1A 406187725 406191408 3683 False 1410.000000 2470 96.561667 1 2934 3 chr1A.!!$F2 2933
5 TraesCS1B01G246000 chr3A 739733973 739735331 1358 True 634.000000 941 84.439500 701 2381 2 chr3A.!!$R1 1680
6 TraesCS1B01G246000 chr3A 739322467 739323683 1216 False 598.000000 811 86.669500 884 2350 2 chr3A.!!$F1 1466
7 TraesCS1B01G246000 chr3B 816691008 816692399 1391 True 624.500000 929 83.607500 676 2378 2 chr3B.!!$R1 1702
8 TraesCS1B01G246000 chr3D 607309870 607310709 839 True 891.000000 891 85.998000 729 1572 1 chr3D.!!$R2 843
9 TraesCS1B01G246000 chr3D 606929734 606931104 1370 False 586.000000 830 83.689500 676 2381 2 chr3D.!!$F1 1705

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
114 117 3.878778 ACAAGAATGGCTGTCATCTACC 58.121 45.455 0.0 0.0 34.44 3.18 F
1013 2131 1.537202 GCTATAAATGGCAGGGAAGCG 59.463 52.381 0.0 0.0 34.10 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1445 2563 0.110010 GCGCTGCTTTTCAGAGTTCC 60.11 55.0 0.00 0.00 45.72 3.62 R
2389 3665 0.669619 TTGTCGCAAGTACTGACGGA 59.33 50.0 15.43 0.98 35.40 4.69 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
81 84 7.693969 ACTCATGCTCAAGTTAAGCTATTTT 57.306 32.000 0.00 0.00 40.50 1.82
114 117 3.878778 ACAAGAATGGCTGTCATCTACC 58.121 45.455 0.00 0.00 34.44 3.18
219 1279 4.925646 TGTATCTGATTCGCATATGACTGC 59.074 41.667 6.97 0.00 38.81 4.40
314 1402 5.236478 ACGTCAAAATAGGACACAACTGAAG 59.764 40.000 0.00 0.00 34.97 3.02
483 1575 8.655651 TGTAAGCCGAAAAGAAAATGAAAAAT 57.344 26.923 0.00 0.00 0.00 1.82
535 1627 5.278957 GCTTATTTCCACCGCAATCCATAAT 60.279 40.000 0.00 0.00 0.00 1.28
551 1643 6.581388 TCCATAATCCTGTTTCTGGAGATT 57.419 37.500 2.29 0.00 35.07 2.40
1013 2131 1.537202 GCTATAAATGGCAGGGAAGCG 59.463 52.381 0.00 0.00 34.10 4.68
1202 2320 1.915141 ATTGTTGGACTCAGGCAAGG 58.085 50.000 0.00 0.00 0.00 3.61
1379 2497 1.539929 GCTACGATCTGAAGCAGGCAT 60.540 52.381 0.00 0.00 36.26 4.40
1428 2546 1.804748 GAAAAGGTGCAGGGTCTAACG 59.195 52.381 0.00 0.00 0.00 3.18
1445 2563 0.108615 ACGAAGGAGGTTGAGCATCG 60.109 55.000 0.00 0.00 38.61 3.84
2186 3440 4.452114 CCAAGTCATCGAAATCTGTTGTGA 59.548 41.667 0.00 0.00 0.00 3.58
2238 3496 2.124736 GCGGCCATGGAGCTTACA 60.125 61.111 18.40 0.00 0.00 2.41
2311 3581 5.651530 CGGCTATTCTTACAGAGAGAAACA 58.348 41.667 0.00 0.00 36.77 2.83
2351 3627 3.252284 CCCCCTGGCTATCCGCAT 61.252 66.667 0.00 0.00 41.67 4.73
2364 3640 0.258484 TCCGCATCCATGATTTGGGT 59.742 50.000 0.00 0.00 46.45 4.51
2389 3665 5.752036 TTGATCCTTGTCAGAGTTCATCT 57.248 39.130 0.00 0.00 39.56 2.90
2417 3693 4.150098 CAGTACTTGCGACAAAGTTCCTAC 59.850 45.833 0.00 0.00 40.77 3.18
2519 3795 1.368641 TTGTACCAGCGCTGCTTATG 58.631 50.000 31.96 19.65 36.40 1.90
2621 3897 3.733443 AGAAAATTGCAACAGGGTGTC 57.267 42.857 0.00 0.00 0.00 3.67
2732 4009 8.456471 CGATTGCATGAGGTGAAATATTATCAT 58.544 33.333 0.00 0.00 36.14 2.45
2826 4103 3.087370 AGAATAACAGCAACCCCCTTC 57.913 47.619 0.00 0.00 0.00 3.46
2884 4163 1.195115 GAGTGGTACTCCAGCCATCA 58.805 55.000 0.00 0.00 45.24 3.07
2888 4167 1.702401 TGGTACTCCAGCCATCACAAA 59.298 47.619 0.00 0.00 39.03 2.83
2896 4175 3.130869 TCCAGCCATCACAAATTACATGC 59.869 43.478 0.00 0.00 0.00 4.06
2911 4190 8.867935 CAAATTACATGCCATTTTCGTATTTCA 58.132 29.630 0.00 0.00 0.00 2.69
3021 4300 8.184192 ACTCATGTTTTATTGGTCGAATTGATC 58.816 33.333 0.00 0.00 0.00 2.92
3036 4315 5.559991 CGAATTGATCGTCAAACTTGAACCA 60.560 40.000 4.87 0.00 46.52 3.67
3061 4340 5.168647 ACACGAACCCATATAAACTTCCA 57.831 39.130 0.00 0.00 0.00 3.53
3089 4368 4.517285 AGTAGTGCAGACCAACATTATGG 58.483 43.478 0.00 0.00 46.38 2.74
3090 4369 2.726821 AGTGCAGACCAACATTATGGG 58.273 47.619 0.00 0.00 45.18 4.00
3095 4374 1.459450 GACCAACATTATGGGCGTGT 58.541 50.000 0.00 0.00 45.18 4.49
3096 4375 1.816224 GACCAACATTATGGGCGTGTT 59.184 47.619 0.00 0.00 45.18 3.32
3097 4376 2.230266 GACCAACATTATGGGCGTGTTT 59.770 45.455 0.00 0.00 45.18 2.83
3098 4377 2.029470 ACCAACATTATGGGCGTGTTTG 60.029 45.455 0.00 0.00 45.18 2.93
3099 4378 2.605030 CAACATTATGGGCGTGTTTGG 58.395 47.619 0.00 0.00 34.09 3.28
3100 4379 1.917872 ACATTATGGGCGTGTTTGGT 58.082 45.000 0.00 0.00 0.00 3.67
3101 4380 2.243810 ACATTATGGGCGTGTTTGGTT 58.756 42.857 0.00 0.00 0.00 3.67
3102 4381 2.230266 ACATTATGGGCGTGTTTGGTTC 59.770 45.455 0.00 0.00 0.00 3.62
3103 4382 1.249407 TTATGGGCGTGTTTGGTTCC 58.751 50.000 0.00 0.00 0.00 3.62
3104 4383 0.110678 TATGGGCGTGTTTGGTTCCA 59.889 50.000 0.00 0.00 0.00 3.53
3105 4384 1.178534 ATGGGCGTGTTTGGTTCCAG 61.179 55.000 0.00 0.00 0.00 3.86
3106 4385 1.826487 GGGCGTGTTTGGTTCCAGT 60.826 57.895 0.00 0.00 0.00 4.00
3107 4386 1.388837 GGGCGTGTTTGGTTCCAGTT 61.389 55.000 0.00 0.00 0.00 3.16
3108 4387 0.458260 GGCGTGTTTGGTTCCAGTTT 59.542 50.000 0.00 0.00 0.00 2.66
3109 4388 1.555477 GCGTGTTTGGTTCCAGTTTG 58.445 50.000 0.00 0.00 0.00 2.93
3110 4389 1.555477 CGTGTTTGGTTCCAGTTTGC 58.445 50.000 0.00 0.00 0.00 3.68
3111 4390 1.135257 CGTGTTTGGTTCCAGTTTGCA 60.135 47.619 0.00 0.00 0.00 4.08
3112 4391 2.672478 CGTGTTTGGTTCCAGTTTGCAA 60.672 45.455 0.00 0.00 0.00 4.08
3113 4392 2.670905 GTGTTTGGTTCCAGTTTGCAAC 59.329 45.455 0.00 0.00 0.00 4.17
3114 4393 2.300152 TGTTTGGTTCCAGTTTGCAACA 59.700 40.909 0.00 1.83 0.00 3.33
3115 4394 2.929398 GTTTGGTTCCAGTTTGCAACAG 59.071 45.455 0.00 0.00 0.00 3.16
3116 4395 1.846007 TGGTTCCAGTTTGCAACAGT 58.154 45.000 0.00 0.00 0.00 3.55
3117 4396 3.006112 TGGTTCCAGTTTGCAACAGTA 57.994 42.857 0.00 0.00 0.00 2.74
3118 4397 2.948979 TGGTTCCAGTTTGCAACAGTAG 59.051 45.455 0.00 0.00 0.00 2.57
3119 4398 2.287608 GGTTCCAGTTTGCAACAGTAGC 60.288 50.000 0.00 0.00 0.00 3.58
3120 4399 2.618709 GTTCCAGTTTGCAACAGTAGCT 59.381 45.455 0.00 0.00 0.00 3.32
3121 4400 2.221169 TCCAGTTTGCAACAGTAGCTG 58.779 47.619 0.00 0.00 37.52 4.24
3122 4401 1.335324 CCAGTTTGCAACAGTAGCTGC 60.335 52.381 0.00 0.00 37.36 5.25
3123 4402 1.334556 CAGTTTGCAACAGTAGCTGCA 59.665 47.619 4.12 0.00 44.49 4.41
3124 4403 2.030540 CAGTTTGCAACAGTAGCTGCAT 60.031 45.455 4.12 0.00 45.37 3.96
3125 4404 2.624838 AGTTTGCAACAGTAGCTGCATT 59.375 40.909 4.12 0.00 45.37 3.56
3126 4405 2.710220 TTGCAACAGTAGCTGCATTG 57.290 45.000 4.12 9.33 45.37 2.82
3127 4406 0.241749 TGCAACAGTAGCTGCATTGC 59.758 50.000 26.30 26.30 41.57 3.56
3128 4407 0.241749 GCAACAGTAGCTGCATTGCA 59.758 50.000 27.34 11.50 40.66 4.08
3129 4408 1.135199 GCAACAGTAGCTGCATTGCAT 60.135 47.619 27.34 0.37 40.66 3.96
3130 4409 2.526077 CAACAGTAGCTGCATTGCATG 58.474 47.619 12.53 9.60 38.13 4.06
3131 4410 1.830279 ACAGTAGCTGCATTGCATGT 58.170 45.000 12.53 10.27 38.13 3.21
3132 4411 1.741706 ACAGTAGCTGCATTGCATGTC 59.258 47.619 12.53 4.80 38.13 3.06
3133 4412 1.065102 CAGTAGCTGCATTGCATGTCC 59.935 52.381 12.53 1.35 38.13 4.02
3134 4413 1.097232 GTAGCTGCATTGCATGTCCA 58.903 50.000 12.53 0.00 38.13 4.02
3135 4414 1.679680 GTAGCTGCATTGCATGTCCAT 59.320 47.619 12.53 0.00 38.13 3.41
3136 4415 0.744874 AGCTGCATTGCATGTCCATC 59.255 50.000 12.53 0.00 38.13 3.51
3137 4416 0.744874 GCTGCATTGCATGTCCATCT 59.255 50.000 12.53 0.00 38.13 2.90
3138 4417 1.269102 GCTGCATTGCATGTCCATCTC 60.269 52.381 12.53 0.00 38.13 2.75
3139 4418 1.337071 CTGCATTGCATGTCCATCTCC 59.663 52.381 12.53 0.00 38.13 3.71
3140 4419 1.341187 TGCATTGCATGTCCATCTCCA 60.341 47.619 7.38 0.00 31.71 3.86
3141 4420 1.337071 GCATTGCATGTCCATCTCCAG 59.663 52.381 3.15 0.00 0.00 3.86
3142 4421 1.337071 CATTGCATGTCCATCTCCAGC 59.663 52.381 0.00 0.00 0.00 4.85
3143 4422 0.394762 TTGCATGTCCATCTCCAGCC 60.395 55.000 0.00 0.00 0.00 4.85
3144 4423 1.225426 GCATGTCCATCTCCAGCCA 59.775 57.895 0.00 0.00 0.00 4.75
3145 4424 0.394762 GCATGTCCATCTCCAGCCAA 60.395 55.000 0.00 0.00 0.00 4.52
3146 4425 1.386533 CATGTCCATCTCCAGCCAAC 58.613 55.000 0.00 0.00 0.00 3.77
3147 4426 0.257039 ATGTCCATCTCCAGCCAACC 59.743 55.000 0.00 0.00 0.00 3.77
3148 4427 0.842030 TGTCCATCTCCAGCCAACCT 60.842 55.000 0.00 0.00 0.00 3.50
3149 4428 1.204146 GTCCATCTCCAGCCAACCTA 58.796 55.000 0.00 0.00 0.00 3.08
3150 4429 1.139853 GTCCATCTCCAGCCAACCTAG 59.860 57.143 0.00 0.00 0.00 3.02
3151 4430 1.207791 CCATCTCCAGCCAACCTAGT 58.792 55.000 0.00 0.00 0.00 2.57
3152 4431 1.561542 CCATCTCCAGCCAACCTAGTT 59.438 52.381 0.00 0.00 0.00 2.24
3153 4432 2.420687 CCATCTCCAGCCAACCTAGTTC 60.421 54.545 0.00 0.00 0.00 3.01
3154 4433 2.327325 TCTCCAGCCAACCTAGTTCT 57.673 50.000 0.00 0.00 0.00 3.01
3155 4434 2.621070 TCTCCAGCCAACCTAGTTCTT 58.379 47.619 0.00 0.00 0.00 2.52
3156 4435 2.303022 TCTCCAGCCAACCTAGTTCTTG 59.697 50.000 0.00 0.00 0.00 3.02
3157 4436 2.303022 CTCCAGCCAACCTAGTTCTTGA 59.697 50.000 0.00 0.00 0.00 3.02
3158 4437 2.708861 TCCAGCCAACCTAGTTCTTGAA 59.291 45.455 0.00 0.00 0.00 2.69
3159 4438 3.137544 TCCAGCCAACCTAGTTCTTGAAA 59.862 43.478 0.00 0.00 0.00 2.69
3160 4439 4.082125 CCAGCCAACCTAGTTCTTGAAAT 58.918 43.478 0.00 0.00 0.00 2.17
3161 4440 4.082571 CCAGCCAACCTAGTTCTTGAAATG 60.083 45.833 0.00 0.00 0.00 2.32
3162 4441 4.520492 CAGCCAACCTAGTTCTTGAAATGT 59.480 41.667 0.00 0.00 0.00 2.71
3163 4442 5.705441 CAGCCAACCTAGTTCTTGAAATGTA 59.295 40.000 0.00 0.00 0.00 2.29
3164 4443 5.940470 AGCCAACCTAGTTCTTGAAATGTAG 59.060 40.000 0.00 0.00 0.00 2.74
3165 4444 5.392057 GCCAACCTAGTTCTTGAAATGTAGC 60.392 44.000 0.00 0.00 0.00 3.58
3166 4445 5.123979 CCAACCTAGTTCTTGAAATGTAGCC 59.876 44.000 0.00 0.00 0.00 3.93
3167 4446 5.763876 ACCTAGTTCTTGAAATGTAGCCT 57.236 39.130 0.00 0.00 0.00 4.58
3168 4447 5.735766 ACCTAGTTCTTGAAATGTAGCCTC 58.264 41.667 0.00 0.00 0.00 4.70
3169 4448 5.248477 ACCTAGTTCTTGAAATGTAGCCTCA 59.752 40.000 0.00 0.00 0.00 3.86
3170 4449 6.069963 ACCTAGTTCTTGAAATGTAGCCTCAT 60.070 38.462 0.00 0.00 0.00 2.90
3171 4450 7.125811 ACCTAGTTCTTGAAATGTAGCCTCATA 59.874 37.037 0.00 0.00 0.00 2.15
3172 4451 8.153550 CCTAGTTCTTGAAATGTAGCCTCATAT 58.846 37.037 0.00 0.00 0.00 1.78
3173 4452 7.798596 AGTTCTTGAAATGTAGCCTCATATG 57.201 36.000 0.00 0.00 0.00 1.78
3174 4453 6.261826 AGTTCTTGAAATGTAGCCTCATATGC 59.738 38.462 0.00 0.00 0.00 3.14
3175 4454 5.683681 TCTTGAAATGTAGCCTCATATGCA 58.316 37.500 0.00 0.00 0.00 3.96
3176 4455 5.761726 TCTTGAAATGTAGCCTCATATGCAG 59.238 40.000 0.00 0.00 0.00 4.41
3177 4456 3.817084 TGAAATGTAGCCTCATATGCAGC 59.183 43.478 8.32 8.32 0.00 5.25
3178 4457 3.497103 AATGTAGCCTCATATGCAGCA 57.503 42.857 16.18 0.00 0.00 4.41
3179 4458 2.538512 TGTAGCCTCATATGCAGCAG 57.461 50.000 16.18 1.67 0.00 4.24
3180 4459 2.041701 TGTAGCCTCATATGCAGCAGA 58.958 47.619 16.18 0.00 0.00 4.26
3181 4460 2.636403 TGTAGCCTCATATGCAGCAGAT 59.364 45.455 16.18 0.00 0.00 2.90
3182 4461 2.186532 AGCCTCATATGCAGCAGATG 57.813 50.000 21.92 21.92 34.79 2.90
3194 4473 2.333926 CAGCAGATGCAACATGTTTGG 58.666 47.619 8.77 0.00 45.16 3.28
3195 4474 1.965643 AGCAGATGCAACATGTTTGGT 59.034 42.857 8.77 7.22 45.16 3.67
3196 4475 2.366266 AGCAGATGCAACATGTTTGGTT 59.634 40.909 8.77 0.00 45.16 3.67
3197 4476 2.477375 GCAGATGCAACATGTTTGGTTG 59.523 45.455 8.77 5.53 46.41 3.77
3202 4481 1.219646 CAACATGTTTGGTTGCCTGC 58.780 50.000 8.77 0.00 39.16 4.85
3203 4482 0.829333 AACATGTTTGGTTGCCTGCA 59.171 45.000 4.92 0.00 0.00 4.41
3204 4483 1.050204 ACATGTTTGGTTGCCTGCAT 58.950 45.000 0.00 0.00 0.00 3.96
3205 4484 1.001181 ACATGTTTGGTTGCCTGCATC 59.999 47.619 0.00 0.00 0.00 3.91
3206 4485 0.244450 ATGTTTGGTTGCCTGCATCG 59.756 50.000 0.00 0.00 0.00 3.84
3207 4486 1.734117 GTTTGGTTGCCTGCATCGC 60.734 57.895 0.00 0.00 0.00 4.58
3208 4487 2.198969 TTTGGTTGCCTGCATCGCA 61.199 52.632 4.57 4.57 36.92 5.10
3209 4488 1.534336 TTTGGTTGCCTGCATCGCAT 61.534 50.000 9.21 0.00 38.13 4.73
3210 4489 2.103538 GGTTGCCTGCATCGCATG 59.896 61.111 9.21 0.00 38.13 4.06
3211 4490 2.103538 GTTGCCTGCATCGCATGG 59.896 61.111 9.21 0.00 38.13 3.66
3212 4491 2.045143 TTGCCTGCATCGCATGGA 60.045 55.556 9.21 0.00 38.13 3.41
3213 4492 2.116533 TTGCCTGCATCGCATGGAG 61.117 57.895 9.21 9.58 46.82 3.86
3216 4495 2.593725 CTGCATCGCATGGAGGGG 60.594 66.667 8.93 0.00 43.98 4.79
3217 4496 4.881440 TGCATCGCATGGAGGGGC 62.881 66.667 0.00 0.00 31.71 5.80
3218 4497 4.881440 GCATCGCATGGAGGGGCA 62.881 66.667 0.00 0.00 0.00 5.36
3219 4498 2.114625 CATCGCATGGAGGGGCAT 59.885 61.111 0.00 0.00 0.00 4.40
3220 4499 1.529948 CATCGCATGGAGGGGCATT 60.530 57.895 0.00 0.00 0.00 3.56
3221 4500 1.111116 CATCGCATGGAGGGGCATTT 61.111 55.000 0.00 0.00 0.00 2.32
3222 4501 0.478072 ATCGCATGGAGGGGCATTTA 59.522 50.000 0.00 0.00 0.00 1.40
3223 4502 0.465460 TCGCATGGAGGGGCATTTAC 60.465 55.000 0.00 0.00 0.00 2.01
3224 4503 1.455383 CGCATGGAGGGGCATTTACC 61.455 60.000 0.00 0.00 0.00 2.85
3233 4512 2.799176 GGCATTTACCCTCCTGCTG 58.201 57.895 0.00 0.00 35.03 4.41
3234 4513 1.387295 GGCATTTACCCTCCTGCTGC 61.387 60.000 0.00 0.00 35.03 5.25
3235 4514 0.394899 GCATTTACCCTCCTGCTGCT 60.395 55.000 0.00 0.00 0.00 4.24
3236 4515 1.957113 GCATTTACCCTCCTGCTGCTT 60.957 52.381 0.00 0.00 0.00 3.91
3237 4516 1.747355 CATTTACCCTCCTGCTGCTTG 59.253 52.381 0.00 0.00 0.00 4.01
3238 4517 0.038166 TTTACCCTCCTGCTGCTTGG 59.962 55.000 0.00 3.48 0.00 3.61
3239 4518 1.133809 TTACCCTCCTGCTGCTTGGT 61.134 55.000 0.00 3.04 0.00 3.67
3240 4519 1.133809 TACCCTCCTGCTGCTTGGTT 61.134 55.000 0.00 0.00 0.00 3.67
3241 4520 1.975407 CCCTCCTGCTGCTTGGTTG 60.975 63.158 0.00 2.02 0.00 3.77
3242 4521 1.228367 CCTCCTGCTGCTTGGTTGT 60.228 57.895 0.00 0.00 0.00 3.32
3243 4522 1.239968 CCTCCTGCTGCTTGGTTGTC 61.240 60.000 0.00 0.00 0.00 3.18
3244 4523 1.572085 CTCCTGCTGCTTGGTTGTCG 61.572 60.000 0.00 0.00 0.00 4.35
3245 4524 1.893808 CCTGCTGCTTGGTTGTCGT 60.894 57.895 0.00 0.00 0.00 4.34
3246 4525 1.447317 CCTGCTGCTTGGTTGTCGTT 61.447 55.000 0.00 0.00 0.00 3.85
3247 4526 0.381801 CTGCTGCTTGGTTGTCGTTT 59.618 50.000 0.00 0.00 0.00 3.60
3248 4527 0.814457 TGCTGCTTGGTTGTCGTTTT 59.186 45.000 0.00 0.00 0.00 2.43
3249 4528 1.203523 TGCTGCTTGGTTGTCGTTTTT 59.796 42.857 0.00 0.00 0.00 1.94
3250 4529 1.587946 GCTGCTTGGTTGTCGTTTTTG 59.412 47.619 0.00 0.00 0.00 2.44
3251 4530 2.874849 CTGCTTGGTTGTCGTTTTTGT 58.125 42.857 0.00 0.00 0.00 2.83
3252 4531 2.598192 CTGCTTGGTTGTCGTTTTTGTG 59.402 45.455 0.00 0.00 0.00 3.33
3253 4532 2.029828 TGCTTGGTTGTCGTTTTTGTGT 60.030 40.909 0.00 0.00 0.00 3.72
3254 4533 2.990514 GCTTGGTTGTCGTTTTTGTGTT 59.009 40.909 0.00 0.00 0.00 3.32
3255 4534 3.430556 GCTTGGTTGTCGTTTTTGTGTTT 59.569 39.130 0.00 0.00 0.00 2.83
3256 4535 4.621886 GCTTGGTTGTCGTTTTTGTGTTTA 59.378 37.500 0.00 0.00 0.00 2.01
3257 4536 5.220135 GCTTGGTTGTCGTTTTTGTGTTTAG 60.220 40.000 0.00 0.00 0.00 1.85
3258 4537 4.734917 TGGTTGTCGTTTTTGTGTTTAGG 58.265 39.130 0.00 0.00 0.00 2.69
3259 4538 4.106909 GGTTGTCGTTTTTGTGTTTAGGG 58.893 43.478 0.00 0.00 0.00 3.53
3260 4539 4.380761 GGTTGTCGTTTTTGTGTTTAGGGT 60.381 41.667 0.00 0.00 0.00 4.34
3261 4540 4.358494 TGTCGTTTTTGTGTTTAGGGTG 57.642 40.909 0.00 0.00 0.00 4.61
3262 4541 3.757493 TGTCGTTTTTGTGTTTAGGGTGT 59.243 39.130 0.00 0.00 0.00 4.16
3263 4542 4.099824 GTCGTTTTTGTGTTTAGGGTGTG 58.900 43.478 0.00 0.00 0.00 3.82
3264 4543 4.008330 TCGTTTTTGTGTTTAGGGTGTGA 58.992 39.130 0.00 0.00 0.00 3.58
3265 4544 4.095185 TCGTTTTTGTGTTTAGGGTGTGAG 59.905 41.667 0.00 0.00 0.00 3.51
3266 4545 4.109766 GTTTTTGTGTTTAGGGTGTGAGC 58.890 43.478 0.00 0.00 0.00 4.26
3267 4546 2.719531 TTGTGTTTAGGGTGTGAGCA 57.280 45.000 0.00 0.00 0.00 4.26
3268 4547 2.254546 TGTGTTTAGGGTGTGAGCAG 57.745 50.000 0.00 0.00 0.00 4.24
3269 4548 1.765904 TGTGTTTAGGGTGTGAGCAGA 59.234 47.619 0.00 0.00 0.00 4.26
3270 4549 2.371841 TGTGTTTAGGGTGTGAGCAGAT 59.628 45.455 0.00 0.00 0.00 2.90
3271 4550 2.744202 GTGTTTAGGGTGTGAGCAGATG 59.256 50.000 0.00 0.00 0.00 2.90
3272 4551 1.740025 GTTTAGGGTGTGAGCAGATGC 59.260 52.381 0.00 0.00 42.49 3.91
3273 4552 0.983467 TTAGGGTGTGAGCAGATGCA 59.017 50.000 7.68 0.00 45.16 3.96
3274 4553 0.983467 TAGGGTGTGAGCAGATGCAA 59.017 50.000 7.68 0.00 45.16 4.08
3275 4554 0.111061 AGGGTGTGAGCAGATGCAAA 59.889 50.000 7.68 0.00 45.16 3.68
3276 4555 1.180029 GGGTGTGAGCAGATGCAAAT 58.820 50.000 7.68 0.00 45.16 2.32
3277 4556 1.547372 GGGTGTGAGCAGATGCAAATT 59.453 47.619 7.68 0.00 45.16 1.82
3278 4557 2.028748 GGGTGTGAGCAGATGCAAATTT 60.029 45.455 7.68 0.00 45.16 1.82
3279 4558 3.248266 GGTGTGAGCAGATGCAAATTTC 58.752 45.455 7.68 0.00 45.16 2.17
3280 4559 3.305539 GGTGTGAGCAGATGCAAATTTCA 60.306 43.478 7.68 0.00 45.16 2.69
3281 4560 3.918591 GTGTGAGCAGATGCAAATTTCAG 59.081 43.478 7.68 0.00 45.16 3.02
3282 4561 2.921754 GTGAGCAGATGCAAATTTCAGC 59.078 45.455 7.68 0.00 45.16 4.26
3283 4562 2.823747 TGAGCAGATGCAAATTTCAGCT 59.176 40.909 7.68 4.79 45.16 4.24
3285 4564 2.561419 AGCAGATGCAAATTTCAGCTGT 59.439 40.909 23.91 14.82 46.32 4.40
3286 4565 3.006537 AGCAGATGCAAATTTCAGCTGTT 59.993 39.130 23.91 19.48 46.32 3.16
3287 4566 3.744426 GCAGATGCAAATTTCAGCTGTTT 59.256 39.130 23.91 4.16 46.32 2.83
3288 4567 4.377022 GCAGATGCAAATTTCAGCTGTTTG 60.377 41.667 23.91 18.96 46.32 2.93
3289 4568 4.151689 CAGATGCAAATTTCAGCTGTTTGG 59.848 41.667 22.52 11.63 41.51 3.28
3290 4569 3.540314 TGCAAATTTCAGCTGTTTGGT 57.460 38.095 22.52 3.90 34.34 3.67
3291 4570 3.871485 TGCAAATTTCAGCTGTTTGGTT 58.129 36.364 22.52 8.03 34.34 3.67
3292 4571 3.622163 TGCAAATTTCAGCTGTTTGGTTG 59.378 39.130 22.52 17.39 34.34 3.77
3293 4572 3.546616 GCAAATTTCAGCTGTTTGGTTGC 60.547 43.478 22.52 21.41 34.34 4.17
3294 4573 3.540314 AATTTCAGCTGTTTGGTTGCA 57.460 38.095 14.67 0.00 0.00 4.08
3295 4574 3.540314 ATTTCAGCTGTTTGGTTGCAA 57.460 38.095 14.67 0.00 0.00 4.08
3296 4575 3.325293 TTTCAGCTGTTTGGTTGCAAA 57.675 38.095 14.67 0.22 0.00 3.68
3317 4596 2.156697 ACAGCGTTTGTTTGTGTTTTGC 59.843 40.909 0.00 0.00 36.31 3.68
3318 4597 2.411409 CAGCGTTTGTTTGTGTTTTGCT 59.589 40.909 0.00 0.00 0.00 3.91
3319 4598 2.666022 AGCGTTTGTTTGTGTTTTGCTC 59.334 40.909 0.00 0.00 0.00 4.26
3320 4599 2.410053 GCGTTTGTTTGTGTTTTGCTCA 59.590 40.909 0.00 0.00 0.00 4.26
3321 4600 3.720630 GCGTTTGTTTGTGTTTTGCTCAC 60.721 43.478 0.00 0.00 36.48 3.51
3322 4601 3.181535 CGTTTGTTTGTGTTTTGCTCACC 60.182 43.478 0.00 0.00 35.25 4.02
3323 4602 2.663826 TGTTTGTGTTTTGCTCACCC 57.336 45.000 0.00 0.00 35.25 4.61
3324 4603 1.205893 TGTTTGTGTTTTGCTCACCCC 59.794 47.619 0.00 0.00 35.25 4.95
3325 4604 1.205893 GTTTGTGTTTTGCTCACCCCA 59.794 47.619 0.00 0.00 35.25 4.96
3326 4605 1.786937 TTGTGTTTTGCTCACCCCAT 58.213 45.000 0.00 0.00 35.25 4.00
3327 4606 1.786937 TGTGTTTTGCTCACCCCATT 58.213 45.000 0.00 0.00 35.25 3.16
3328 4607 1.686052 TGTGTTTTGCTCACCCCATTC 59.314 47.619 0.00 0.00 35.25 2.67
3329 4608 1.686052 GTGTTTTGCTCACCCCATTCA 59.314 47.619 0.00 0.00 0.00 2.57
3330 4609 2.102252 GTGTTTTGCTCACCCCATTCAA 59.898 45.455 0.00 0.00 0.00 2.69
3331 4610 2.768527 TGTTTTGCTCACCCCATTCAAA 59.231 40.909 0.00 0.00 0.00 2.69
3332 4611 3.390639 TGTTTTGCTCACCCCATTCAAAT 59.609 39.130 0.00 0.00 0.00 2.32
3333 4612 3.681593 TTTGCTCACCCCATTCAAATG 57.318 42.857 0.00 0.00 36.17 2.32
3334 4613 2.307496 TGCTCACCCCATTCAAATGT 57.693 45.000 2.31 0.00 34.60 2.71
3335 4614 1.894466 TGCTCACCCCATTCAAATGTG 59.106 47.619 2.31 0.00 34.60 3.21
3336 4615 1.205417 GCTCACCCCATTCAAATGTGG 59.795 52.381 3.07 3.07 39.49 4.17
3337 4616 2.528564 CTCACCCCATTCAAATGTGGT 58.471 47.619 4.29 4.29 46.15 4.16
3339 4618 1.643310 ACCCCATTCAAATGTGGTGG 58.357 50.000 8.80 3.57 44.02 4.61
3340 4619 0.249955 CCCCATTCAAATGTGGTGGC 59.750 55.000 2.31 0.00 34.60 5.01
3341 4620 0.249955 CCCATTCAAATGTGGTGGCC 59.750 55.000 0.00 0.00 34.60 5.36
3342 4621 1.269012 CCATTCAAATGTGGTGGCCT 58.731 50.000 3.32 0.00 34.60 5.19
3343 4622 1.624813 CCATTCAAATGTGGTGGCCTT 59.375 47.619 3.32 0.00 34.60 4.35
3344 4623 2.830923 CCATTCAAATGTGGTGGCCTTA 59.169 45.455 3.32 0.00 34.60 2.69
3345 4624 3.368323 CCATTCAAATGTGGTGGCCTTAC 60.368 47.826 3.32 0.44 34.60 2.34
3346 4625 1.917872 TCAAATGTGGTGGCCTTACC 58.082 50.000 3.32 4.45 41.24 2.85
3355 4634 2.469162 TGGCCTTACCACCACATGA 58.531 52.632 3.32 0.00 46.36 3.07
3356 4635 0.998928 TGGCCTTACCACCACATGAT 59.001 50.000 3.32 0.00 46.36 2.45
3357 4636 1.064758 TGGCCTTACCACCACATGATC 60.065 52.381 3.32 0.00 46.36 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 84 6.770785 ACAGCCATTCTTGTAAGTTCTAACAA 59.229 34.615 0.00 0.00 34.57 2.83
508 1600 2.489938 TTGCGGTGGAAATAAGCTCT 57.510 45.000 0.00 0.00 0.00 4.09
535 1627 5.249393 AGCTTAAGAATCTCCAGAAACAGGA 59.751 40.000 6.67 0.00 0.00 3.86
632 1725 4.534168 CTTTGCCTATGAAGAATGCATCG 58.466 43.478 0.00 0.00 34.81 3.84
850 1965 7.337480 ACATGACGTGTACCACTATGTATTA 57.663 36.000 0.00 0.00 39.91 0.98
927 2045 4.508124 ACTCACGTGTCAGAAATGACTTTC 59.492 41.667 16.51 0.00 40.95 2.62
1202 2320 9.165035 AGAGATCTTCTTTCAAATGAGACATTC 57.835 33.333 0.00 0.00 29.61 2.67
1379 2497 0.466007 TTGCCTCAAAGACTGCAGCA 60.466 50.000 15.27 0.00 34.81 4.41
1428 2546 0.537188 TCCGATGCTCAACCTCCTTC 59.463 55.000 0.00 0.00 0.00 3.46
1445 2563 0.110010 GCGCTGCTTTTCAGAGTTCC 60.110 55.000 0.00 0.00 45.72 3.62
2238 3496 2.834549 CAGGAGTTGTCATAGGTGGTCT 59.165 50.000 0.00 0.00 0.00 3.85
2364 3640 7.000472 AGATGAACTCTGACAAGGATCAAAAA 59.000 34.615 0.00 0.00 31.12 1.94
2389 3665 0.669619 TTGTCGCAAGTACTGACGGA 59.330 50.000 15.43 0.98 35.40 4.69
2417 3693 3.003689 CACCACAAGTTTCAGTGCTAAGG 59.996 47.826 0.00 0.00 34.48 2.69
2497 3773 1.308069 AAGCAGCGCTGGTACAATGG 61.308 55.000 39.14 11.95 40.87 3.16
2519 3795 5.531634 TGATTTTCTGAAGAATGGTGCAAC 58.468 37.500 0.00 0.00 33.54 4.17
2732 4009 3.507162 TCAGTCCTCATTTTTGGCAGA 57.493 42.857 0.00 0.00 0.00 4.26
2826 4103 4.390603 TCAAAAATAAGACGGGACATGACG 59.609 41.667 0.00 3.53 0.00 4.35
2884 4163 8.770438 AAATACGAAAATGGCATGTAATTTGT 57.230 26.923 0.00 7.15 0.00 2.83
2888 4167 8.412456 TCATGAAATACGAAAATGGCATGTAAT 58.588 29.630 0.00 0.00 34.91 1.89
2911 4190 8.934825 CGGTCAAAATGGTCAATTAAAAATCAT 58.065 29.630 0.00 0.00 0.00 2.45
3021 4300 3.680789 GTGTTCTGGTTCAAGTTTGACG 58.319 45.455 0.00 0.00 36.83 4.35
3036 4315 5.878669 GGAAGTTTATATGGGTTCGTGTTCT 59.121 40.000 0.00 0.00 0.00 3.01
3061 4340 1.045407 TGGTCTGCACTACTTCCGTT 58.955 50.000 0.00 0.00 0.00 4.44
3078 4357 2.605030 CAAACACGCCCATAATGTTGG 58.395 47.619 0.00 0.00 36.69 3.77
3089 4368 0.458260 AAACTGGAACCAAACACGCC 59.542 50.000 0.00 0.00 0.00 5.68
3090 4369 1.555477 CAAACTGGAACCAAACACGC 58.445 50.000 0.00 0.00 0.00 5.34
3091 4370 1.135257 TGCAAACTGGAACCAAACACG 60.135 47.619 0.00 0.00 0.00 4.49
3092 4371 2.663826 TGCAAACTGGAACCAAACAC 57.336 45.000 0.00 0.00 0.00 3.32
3093 4372 2.966050 GTTGCAAACTGGAACCAAACA 58.034 42.857 0.00 0.00 45.32 2.83
3110 4389 2.526077 CATGCAATGCAGCTACTGTTG 58.474 47.619 14.98 0.00 43.65 3.33
3111 4390 2.933495 CATGCAATGCAGCTACTGTT 57.067 45.000 14.98 0.00 43.65 3.16
3123 4402 1.688772 GCTGGAGATGGACATGCAAT 58.311 50.000 0.00 0.00 0.00 3.56
3124 4403 0.394762 GGCTGGAGATGGACATGCAA 60.395 55.000 0.00 0.00 0.00 4.08
3125 4404 1.225426 GGCTGGAGATGGACATGCA 59.775 57.895 0.00 0.00 0.00 3.96
3126 4405 0.394762 TTGGCTGGAGATGGACATGC 60.395 55.000 0.00 0.00 0.00 4.06
3127 4406 1.386533 GTTGGCTGGAGATGGACATG 58.613 55.000 0.00 0.00 0.00 3.21
3128 4407 0.257039 GGTTGGCTGGAGATGGACAT 59.743 55.000 0.00 0.00 0.00 3.06
3129 4408 0.842030 AGGTTGGCTGGAGATGGACA 60.842 55.000 0.00 0.00 0.00 4.02
3130 4409 1.139853 CTAGGTTGGCTGGAGATGGAC 59.860 57.143 0.00 0.00 0.00 4.02
3131 4410 1.273838 ACTAGGTTGGCTGGAGATGGA 60.274 52.381 0.00 0.00 0.00 3.41
3132 4411 1.207791 ACTAGGTTGGCTGGAGATGG 58.792 55.000 0.00 0.00 0.00 3.51
3133 4412 2.503356 AGAACTAGGTTGGCTGGAGATG 59.497 50.000 0.00 0.00 0.00 2.90
3134 4413 2.839228 AGAACTAGGTTGGCTGGAGAT 58.161 47.619 0.00 0.00 0.00 2.75
3135 4414 2.303022 CAAGAACTAGGTTGGCTGGAGA 59.697 50.000 0.00 0.00 0.00 3.71
3136 4415 2.303022 TCAAGAACTAGGTTGGCTGGAG 59.697 50.000 0.00 0.00 0.00 3.86
3137 4416 2.334977 TCAAGAACTAGGTTGGCTGGA 58.665 47.619 0.00 0.00 0.00 3.86
3138 4417 2.859165 TCAAGAACTAGGTTGGCTGG 57.141 50.000 0.00 0.00 0.00 4.85
3139 4418 4.520492 ACATTTCAAGAACTAGGTTGGCTG 59.480 41.667 0.00 0.00 0.00 4.85
3140 4419 4.729868 ACATTTCAAGAACTAGGTTGGCT 58.270 39.130 0.00 0.00 0.00 4.75
3141 4420 5.392057 GCTACATTTCAAGAACTAGGTTGGC 60.392 44.000 0.00 0.00 0.00 4.52
3142 4421 5.123979 GGCTACATTTCAAGAACTAGGTTGG 59.876 44.000 0.00 0.00 0.00 3.77
3143 4422 5.940470 AGGCTACATTTCAAGAACTAGGTTG 59.060 40.000 0.00 0.00 0.00 3.77
3144 4423 6.128138 AGGCTACATTTCAAGAACTAGGTT 57.872 37.500 0.00 0.00 0.00 3.50
3145 4424 5.248477 TGAGGCTACATTTCAAGAACTAGGT 59.752 40.000 0.00 0.00 0.00 3.08
3146 4425 5.734720 TGAGGCTACATTTCAAGAACTAGG 58.265 41.667 0.00 0.00 0.00 3.02
3147 4426 8.986847 CATATGAGGCTACATTTCAAGAACTAG 58.013 37.037 0.00 0.00 0.00 2.57
3148 4427 7.442364 GCATATGAGGCTACATTTCAAGAACTA 59.558 37.037 6.97 0.00 0.00 2.24
3149 4428 6.261826 GCATATGAGGCTACATTTCAAGAACT 59.738 38.462 6.97 0.00 0.00 3.01
3150 4429 6.038603 TGCATATGAGGCTACATTTCAAGAAC 59.961 38.462 6.97 0.00 0.00 3.01
3151 4430 6.121590 TGCATATGAGGCTACATTTCAAGAA 58.878 36.000 6.97 0.00 0.00 2.52
3152 4431 5.683681 TGCATATGAGGCTACATTTCAAGA 58.316 37.500 6.97 0.00 0.00 3.02
3153 4432 5.562307 GCTGCATATGAGGCTACATTTCAAG 60.562 44.000 6.97 2.04 0.00 3.02
3154 4433 4.276678 GCTGCATATGAGGCTACATTTCAA 59.723 41.667 6.97 0.00 0.00 2.69
3155 4434 3.817084 GCTGCATATGAGGCTACATTTCA 59.183 43.478 6.97 0.00 0.00 2.69
3156 4435 3.817084 TGCTGCATATGAGGCTACATTTC 59.183 43.478 6.97 0.00 0.00 2.17
3157 4436 3.819337 CTGCTGCATATGAGGCTACATTT 59.181 43.478 6.97 0.00 0.00 2.32
3158 4437 3.072038 TCTGCTGCATATGAGGCTACATT 59.928 43.478 6.97 0.00 0.00 2.71
3159 4438 2.636403 TCTGCTGCATATGAGGCTACAT 59.364 45.455 6.97 0.00 0.00 2.29
3160 4439 2.041701 TCTGCTGCATATGAGGCTACA 58.958 47.619 6.97 0.00 0.00 2.74
3161 4440 2.827800 TCTGCTGCATATGAGGCTAC 57.172 50.000 6.97 0.00 0.00 3.58
3162 4441 3.329929 CATCTGCTGCATATGAGGCTA 57.670 47.619 19.72 3.20 0.00 3.93
3163 4442 2.186532 CATCTGCTGCATATGAGGCT 57.813 50.000 19.72 0.00 0.00 4.58
3174 4453 2.288579 ACCAAACATGTTGCATCTGCTG 60.289 45.455 12.82 3.75 42.66 4.41
3175 4454 1.965643 ACCAAACATGTTGCATCTGCT 59.034 42.857 12.82 0.00 42.66 4.24
3176 4455 2.443887 ACCAAACATGTTGCATCTGC 57.556 45.000 12.82 0.00 42.50 4.26
3183 4462 1.219646 GCAGGCAACCAAACATGTTG 58.780 50.000 12.82 2.87 44.60 3.33
3184 4463 0.829333 TGCAGGCAACCAAACATGTT 59.171 45.000 4.92 4.92 37.17 2.71
3185 4464 1.001181 GATGCAGGCAACCAAACATGT 59.999 47.619 0.00 0.00 37.17 3.21
3186 4465 1.717194 GATGCAGGCAACCAAACATG 58.283 50.000 0.00 0.00 37.17 3.21
3187 4466 0.244450 CGATGCAGGCAACCAAACAT 59.756 50.000 0.00 0.00 37.17 2.71
3188 4467 1.659233 CGATGCAGGCAACCAAACA 59.341 52.632 0.00 0.00 37.17 2.83
3189 4468 1.734117 GCGATGCAGGCAACCAAAC 60.734 57.895 7.59 0.00 37.17 2.93
3190 4469 1.534336 ATGCGATGCAGGCAACCAAA 61.534 50.000 17.76 0.00 43.65 3.28
3191 4470 1.978080 ATGCGATGCAGGCAACCAA 60.978 52.632 17.76 0.00 43.65 3.67
3192 4471 2.361483 ATGCGATGCAGGCAACCA 60.361 55.556 17.76 0.00 43.65 3.67
3193 4472 2.103538 CATGCGATGCAGGCAACC 59.896 61.111 17.76 0.00 43.65 3.77
3194 4473 2.103538 CCATGCGATGCAGGCAAC 59.896 61.111 17.76 0.00 43.65 4.17
3195 4474 2.045143 TCCATGCGATGCAGGCAA 60.045 55.556 17.76 0.82 43.65 4.52
3196 4475 2.515290 CTCCATGCGATGCAGGCA 60.515 61.111 16.41 16.41 43.65 4.75
3197 4476 3.285215 CCTCCATGCGATGCAGGC 61.285 66.667 5.63 5.63 43.65 4.85
3198 4477 2.593725 CCCTCCATGCGATGCAGG 60.594 66.667 0.00 0.00 43.65 4.85
3199 4478 2.593725 CCCCTCCATGCGATGCAG 60.594 66.667 0.00 0.00 43.65 4.41
3200 4479 4.881440 GCCCCTCCATGCGATGCA 62.881 66.667 0.00 0.00 44.86 3.96
3201 4480 4.881440 TGCCCCTCCATGCGATGC 62.881 66.667 0.00 0.00 0.00 3.91
3202 4481 1.111116 AAATGCCCCTCCATGCGATG 61.111 55.000 0.00 0.00 0.00 3.84
3203 4482 0.478072 TAAATGCCCCTCCATGCGAT 59.522 50.000 0.00 0.00 0.00 4.58
3204 4483 0.465460 GTAAATGCCCCTCCATGCGA 60.465 55.000 0.00 0.00 0.00 5.10
3205 4484 1.455383 GGTAAATGCCCCTCCATGCG 61.455 60.000 0.00 0.00 0.00 4.73
3206 4485 1.115326 GGGTAAATGCCCCTCCATGC 61.115 60.000 0.00 0.00 42.89 4.06
3207 4486 3.131850 GGGTAAATGCCCCTCCATG 57.868 57.895 0.00 0.00 42.89 3.66
3215 4494 1.387295 GCAGCAGGAGGGTAAATGCC 61.387 60.000 0.00 0.00 39.51 4.40
3216 4495 0.394899 AGCAGCAGGAGGGTAAATGC 60.395 55.000 0.00 0.00 38.97 3.56
3217 4496 1.747355 CAAGCAGCAGGAGGGTAAATG 59.253 52.381 0.00 0.00 0.00 2.32
3218 4497 1.341383 CCAAGCAGCAGGAGGGTAAAT 60.341 52.381 0.00 0.00 0.00 1.40
3219 4498 0.038166 CCAAGCAGCAGGAGGGTAAA 59.962 55.000 0.00 0.00 0.00 2.01
3220 4499 1.133809 ACCAAGCAGCAGGAGGGTAA 61.134 55.000 10.66 0.00 0.00 2.85
3221 4500 1.133809 AACCAAGCAGCAGGAGGGTA 61.134 55.000 10.66 0.00 0.00 3.69
3222 4501 2.464403 AACCAAGCAGCAGGAGGGT 61.464 57.895 10.66 0.00 0.00 4.34
3223 4502 1.975407 CAACCAAGCAGCAGGAGGG 60.975 63.158 10.66 0.00 0.00 4.30
3224 4503 1.228367 ACAACCAAGCAGCAGGAGG 60.228 57.895 10.66 1.26 0.00 4.30
3225 4504 1.572085 CGACAACCAAGCAGCAGGAG 61.572 60.000 10.66 5.50 0.00 3.69
3226 4505 1.597854 CGACAACCAAGCAGCAGGA 60.598 57.895 10.66 0.00 0.00 3.86
3227 4506 1.447317 AACGACAACCAAGCAGCAGG 61.447 55.000 0.00 0.00 0.00 4.85
3228 4507 0.381801 AAACGACAACCAAGCAGCAG 59.618 50.000 0.00 0.00 0.00 4.24
3229 4508 0.814457 AAAACGACAACCAAGCAGCA 59.186 45.000 0.00 0.00 0.00 4.41
3230 4509 1.587946 CAAAAACGACAACCAAGCAGC 59.412 47.619 0.00 0.00 0.00 5.25
3231 4510 2.598192 CACAAAAACGACAACCAAGCAG 59.402 45.455 0.00 0.00 0.00 4.24
3232 4511 2.029828 ACACAAAAACGACAACCAAGCA 60.030 40.909 0.00 0.00 0.00 3.91
3233 4512 2.601804 ACACAAAAACGACAACCAAGC 58.398 42.857 0.00 0.00 0.00 4.01
3234 4513 5.287513 CCTAAACACAAAAACGACAACCAAG 59.712 40.000 0.00 0.00 0.00 3.61
3235 4514 5.162075 CCTAAACACAAAAACGACAACCAA 58.838 37.500 0.00 0.00 0.00 3.67
3236 4515 4.380655 CCCTAAACACAAAAACGACAACCA 60.381 41.667 0.00 0.00 0.00 3.67
3237 4516 4.106909 CCCTAAACACAAAAACGACAACC 58.893 43.478 0.00 0.00 0.00 3.77
3238 4517 4.559643 CACCCTAAACACAAAAACGACAAC 59.440 41.667 0.00 0.00 0.00 3.32
3239 4518 4.217983 ACACCCTAAACACAAAAACGACAA 59.782 37.500 0.00 0.00 0.00 3.18
3240 4519 3.757493 ACACCCTAAACACAAAAACGACA 59.243 39.130 0.00 0.00 0.00 4.35
3241 4520 4.099824 CACACCCTAAACACAAAAACGAC 58.900 43.478 0.00 0.00 0.00 4.34
3242 4521 4.008330 TCACACCCTAAACACAAAAACGA 58.992 39.130 0.00 0.00 0.00 3.85
3243 4522 4.347813 CTCACACCCTAAACACAAAAACG 58.652 43.478 0.00 0.00 0.00 3.60
3244 4523 4.109766 GCTCACACCCTAAACACAAAAAC 58.890 43.478 0.00 0.00 0.00 2.43
3245 4524 3.764434 TGCTCACACCCTAAACACAAAAA 59.236 39.130 0.00 0.00 0.00 1.94
3246 4525 3.357203 TGCTCACACCCTAAACACAAAA 58.643 40.909 0.00 0.00 0.00 2.44
3247 4526 2.948979 CTGCTCACACCCTAAACACAAA 59.051 45.455 0.00 0.00 0.00 2.83
3248 4527 2.171659 TCTGCTCACACCCTAAACACAA 59.828 45.455 0.00 0.00 0.00 3.33
3249 4528 1.765904 TCTGCTCACACCCTAAACACA 59.234 47.619 0.00 0.00 0.00 3.72
3250 4529 2.543777 TCTGCTCACACCCTAAACAC 57.456 50.000 0.00 0.00 0.00 3.32
3251 4530 2.875672 GCATCTGCTCACACCCTAAACA 60.876 50.000 0.00 0.00 38.21 2.83
3252 4531 1.740025 GCATCTGCTCACACCCTAAAC 59.260 52.381 0.00 0.00 38.21 2.01
3253 4532 1.350684 TGCATCTGCTCACACCCTAAA 59.649 47.619 3.53 0.00 42.66 1.85
3254 4533 0.983467 TGCATCTGCTCACACCCTAA 59.017 50.000 3.53 0.00 42.66 2.69
3255 4534 0.983467 TTGCATCTGCTCACACCCTA 59.017 50.000 3.53 0.00 42.66 3.53
3256 4535 0.111061 TTTGCATCTGCTCACACCCT 59.889 50.000 3.53 0.00 42.66 4.34
3257 4536 1.180029 ATTTGCATCTGCTCACACCC 58.820 50.000 3.53 0.00 42.66 4.61
3258 4537 3.248266 GAAATTTGCATCTGCTCACACC 58.752 45.455 0.00 0.00 42.66 4.16
3259 4538 3.904571 TGAAATTTGCATCTGCTCACAC 58.095 40.909 0.00 0.00 42.66 3.82
3260 4539 3.613193 GCTGAAATTTGCATCTGCTCACA 60.613 43.478 9.02 0.00 42.66 3.58
3261 4540 2.921754 GCTGAAATTTGCATCTGCTCAC 59.078 45.455 9.02 0.00 42.66 3.51
3262 4541 2.823747 AGCTGAAATTTGCATCTGCTCA 59.176 40.909 12.15 0.93 44.38 4.26
3263 4542 3.179830 CAGCTGAAATTTGCATCTGCTC 58.820 45.455 8.42 0.00 45.41 4.26
3265 4544 2.955614 ACAGCTGAAATTTGCATCTGC 58.044 42.857 23.35 8.40 39.82 4.26
3266 4545 4.151689 CCAAACAGCTGAAATTTGCATCTG 59.848 41.667 23.35 6.67 36.03 2.90
3267 4546 4.202284 ACCAAACAGCTGAAATTTGCATCT 60.202 37.500 23.35 1.25 32.98 2.90
3268 4547 4.060205 ACCAAACAGCTGAAATTTGCATC 58.940 39.130 23.35 0.00 32.98 3.91
3269 4548 4.075963 ACCAAACAGCTGAAATTTGCAT 57.924 36.364 23.35 8.77 32.98 3.96
3270 4549 3.540314 ACCAAACAGCTGAAATTTGCA 57.460 38.095 23.35 0.00 32.98 4.08
3271 4550 3.546616 GCAACCAAACAGCTGAAATTTGC 60.547 43.478 23.35 21.44 32.98 3.68
3272 4551 3.622163 TGCAACCAAACAGCTGAAATTTG 59.378 39.130 23.35 19.51 33.90 2.32
3273 4552 3.871485 TGCAACCAAACAGCTGAAATTT 58.129 36.364 23.35 7.93 0.00 1.82
3274 4553 3.540314 TGCAACCAAACAGCTGAAATT 57.460 38.095 23.35 9.50 0.00 1.82
3275 4554 3.540314 TTGCAACCAAACAGCTGAAAT 57.460 38.095 23.35 2.84 0.00 2.17
3276 4555 3.325293 TTTGCAACCAAACAGCTGAAA 57.675 38.095 23.35 3.89 36.09 2.69
3285 4564 1.728971 CAAACGCTGTTTGCAACCAAA 59.271 42.857 16.97 0.00 43.06 3.28
3286 4565 1.337260 ACAAACGCTGTTTGCAACCAA 60.337 42.857 24.26 0.00 43.06 3.67
3287 4566 0.244994 ACAAACGCTGTTTGCAACCA 59.755 45.000 24.26 0.00 43.06 3.67
3288 4567 1.355005 AACAAACGCTGTTTGCAACC 58.645 45.000 24.26 0.00 46.49 3.77
3296 4575 2.156697 GCAAAACACAAACAAACGCTGT 59.843 40.909 0.00 0.00 41.27 4.40
3297 4576 2.411409 AGCAAAACACAAACAAACGCTG 59.589 40.909 0.00 0.00 0.00 5.18
3298 4577 2.666022 GAGCAAAACACAAACAAACGCT 59.334 40.909 0.00 0.00 0.00 5.07
3299 4578 2.410053 TGAGCAAAACACAAACAAACGC 59.590 40.909 0.00 0.00 0.00 4.84
3300 4579 3.181535 GGTGAGCAAAACACAAACAAACG 60.182 43.478 0.00 0.00 39.65 3.60
3301 4580 3.124466 GGGTGAGCAAAACACAAACAAAC 59.876 43.478 0.00 0.00 39.65 2.93
3302 4581 3.330267 GGGTGAGCAAAACACAAACAAA 58.670 40.909 0.00 0.00 39.65 2.83
3303 4582 2.354203 GGGGTGAGCAAAACACAAACAA 60.354 45.455 0.00 0.00 39.65 2.83
3304 4583 1.205893 GGGGTGAGCAAAACACAAACA 59.794 47.619 0.00 0.00 39.65 2.83
3305 4584 1.205893 TGGGGTGAGCAAAACACAAAC 59.794 47.619 0.00 0.00 39.65 2.93
3306 4585 1.561643 TGGGGTGAGCAAAACACAAA 58.438 45.000 0.00 0.00 39.65 2.83
3307 4586 1.786937 ATGGGGTGAGCAAAACACAA 58.213 45.000 0.00 0.00 39.65 3.33
3308 4587 1.686052 GAATGGGGTGAGCAAAACACA 59.314 47.619 0.00 0.00 39.65 3.72
3309 4588 1.686052 TGAATGGGGTGAGCAAAACAC 59.314 47.619 0.00 0.00 37.51 3.32
3310 4589 2.079170 TGAATGGGGTGAGCAAAACA 57.921 45.000 0.00 0.00 0.00 2.83
3311 4590 3.467374 TTTGAATGGGGTGAGCAAAAC 57.533 42.857 0.00 0.00 0.00 2.43
3312 4591 3.390639 ACATTTGAATGGGGTGAGCAAAA 59.609 39.130 8.44 0.00 40.70 2.44
3313 4592 2.971330 ACATTTGAATGGGGTGAGCAAA 59.029 40.909 8.44 0.00 40.70 3.68
3314 4593 2.299582 CACATTTGAATGGGGTGAGCAA 59.700 45.455 8.44 0.00 40.70 3.91
3315 4594 1.894466 CACATTTGAATGGGGTGAGCA 59.106 47.619 8.44 0.00 40.70 4.26
3316 4595 2.660189 CACATTTGAATGGGGTGAGC 57.340 50.000 8.44 0.00 40.70 4.26
3322 4601 0.249955 GGCCACCACATTTGAATGGG 59.750 55.000 0.00 3.97 40.59 4.00
3323 4602 1.269012 AGGCCACCACATTTGAATGG 58.731 50.000 5.01 0.00 40.70 3.16
3324 4603 3.368323 GGTAAGGCCACCACATTTGAATG 60.368 47.826 5.01 2.29 38.55 2.67
3325 4604 2.831526 GGTAAGGCCACCACATTTGAAT 59.168 45.455 5.01 0.00 38.55 2.57
3326 4605 2.243810 GGTAAGGCCACCACATTTGAA 58.756 47.619 5.01 0.00 38.55 2.69
3327 4606 1.145945 TGGTAAGGCCACCACATTTGA 59.854 47.619 10.88 0.00 43.76 2.69
3328 4607 1.626686 TGGTAAGGCCACCACATTTG 58.373 50.000 10.88 0.00 43.76 2.32
3337 4616 0.998928 ATCATGTGGTGGTAAGGCCA 59.001 50.000 5.01 0.00 46.95 5.36
3338 4617 1.680338 GATCATGTGGTGGTAAGGCC 58.320 55.000 0.00 0.00 37.90 5.19


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

AutoCloner maintained by Alex Coulton.