Multiple sequence alignment - TraesCS2B01G576400

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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 TraesCS2B01G576400 chr2B 100.000 4337 0 0 1 4337 765298987 765294651 0.000000e+00 8010.0
1 TraesCS2B01G576400 chr2B 88.046 435 42 2 1037 1461 765471743 765472177 1.390000e-139 507.0
2 TraesCS2B01G576400 chr2A 91.490 3349 193 39 933 4203 754569297 754565963 0.000000e+00 4521.0
3 TraesCS2B01G576400 chr2A 84.324 370 35 8 407 773 754569864 754569515 1.490000e-89 340.0
4 TraesCS2B01G576400 chr2A 82.973 370 29 13 407 773 754659265 754658927 1.960000e-78 303.0
5 TraesCS2B01G576400 chr2A 83.886 211 24 8 49 257 754659964 754659762 4.430000e-45 193.0
6 TraesCS2B01G576400 chr2A 93.151 73 2 2 379 450 754570107 754570037 2.130000e-18 104.0
7 TraesCS2B01G576400 chr2D 90.180 2943 192 43 912 3802 623393038 623390141 0.000000e+00 3744.0
8 TraesCS2B01G576400 chr2D 82.384 562 28 28 376 909 623405910 623405392 1.440000e-114 424.0
9 TraesCS2B01G576400 chr2D 75.159 946 210 21 2384 3317 9858138 9859070 5.190000e-114 422.0
10 TraesCS2B01G576400 chr2D 74.920 941 214 19 2380 3312 380090220 380091146 1.120000e-110 411.0
11 TraesCS2B01G576400 chr1A 82.441 2483 371 36 1004 3447 585354245 585351789 0.000000e+00 2109.0
12 TraesCS2B01G576400 chr1A 72.081 942 215 38 2393 3298 8328698 8329627 5.610000e-59 239.0
13 TraesCS2B01G576400 chr1A 74.098 610 132 21 2410 3000 8343633 8344235 1.210000e-55 228.0
14 TraesCS2B01G576400 chr1D 82.767 2147 311 34 1004 3114 487331174 487329051 0.000000e+00 1860.0
15 TraesCS2B01G576400 chr1D 71.353 939 224 33 2393 3298 6900019 6900945 7.350000e-48 202.0
16 TraesCS2B01G576400 chrUn 75.000 504 116 6 2393 2891 88844546 88845044 1.570000e-54 224.0
17 TraesCS2B01G576400 chr5B 73.107 647 159 13 2393 3030 549549535 549550175 2.630000e-52 217.0
18 TraesCS2B01G576400 chr3B 82.353 68 12 0 1068 1135 55126589 55126656 4.680000e-05 60.2


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 TraesCS2B01G576400 chr2B 765294651 765298987 4336 True 8010 8010 100.0000 1 4337 1 chr2B.!!$R1 4336
1 TraesCS2B01G576400 chr2A 754565963 754570107 4144 True 1655 4521 89.6550 379 4203 3 chr2A.!!$R1 3824
2 TraesCS2B01G576400 chr2A 754658927 754659964 1037 True 248 303 83.4295 49 773 2 chr2A.!!$R2 724
3 TraesCS2B01G576400 chr2D 623390141 623393038 2897 True 3744 3744 90.1800 912 3802 1 chr2D.!!$R1 2890
4 TraesCS2B01G576400 chr2D 623405392 623405910 518 True 424 424 82.3840 376 909 1 chr2D.!!$R2 533
5 TraesCS2B01G576400 chr2D 9858138 9859070 932 False 422 422 75.1590 2384 3317 1 chr2D.!!$F1 933
6 TraesCS2B01G576400 chr2D 380090220 380091146 926 False 411 411 74.9200 2380 3312 1 chr2D.!!$F2 932
7 TraesCS2B01G576400 chr1A 585351789 585354245 2456 True 2109 2109 82.4410 1004 3447 1 chr1A.!!$R1 2443
8 TraesCS2B01G576400 chr1A 8328698 8329627 929 False 239 239 72.0810 2393 3298 1 chr1A.!!$F1 905
9 TraesCS2B01G576400 chr1A 8343633 8344235 602 False 228 228 74.0980 2410 3000 1 chr1A.!!$F2 590
10 TraesCS2B01G576400 chr1D 487329051 487331174 2123 True 1860 1860 82.7670 1004 3114 1 chr1D.!!$R1 2110
11 TraesCS2B01G576400 chr1D 6900019 6900945 926 False 202 202 71.3530 2393 3298 1 chr1D.!!$F1 905
12 TraesCS2B01G576400 chr5B 549549535 549550175 640 False 217 217 73.1070 2393 3030 1 chr5B.!!$F1 637

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
269 284 0.178955 TCGGTCCCAGTTGGTCACTA 60.179 55.0 0.0 0.0 32.76 2.74 F
1373 1827 0.032952 CTCCTCGACAACGGAAACCA 59.967 55.0 0.0 0.0 40.21 3.67 F
2291 2772 0.257039 AGGGGACTGATCATTGGTGC 59.743 55.0 0.0 0.0 41.13 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1735 2210 0.391793 TCCATTATGCCGCGTGACAA 60.392 50.0 4.92 0.0 0.00 3.18 R
3053 3549 0.105593 TCCTTCATGAGCGCCATCTC 59.894 55.0 2.29 0.0 31.94 2.75 R
4107 4660 0.464916 AAAAGGGTCGACGGCAAGTT 60.465 50.0 9.92 0.0 0.00 2.66 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
24 25 7.553881 CTCGGTATTCATTCTATTTGTGGTT 57.446 36.000 0.00 0.00 0.00 3.67
25 26 7.548196 TCGGTATTCATTCTATTTGTGGTTC 57.452 36.000 0.00 0.00 0.00 3.62
26 27 7.106890 TCGGTATTCATTCTATTTGTGGTTCA 58.893 34.615 0.00 0.00 0.00 3.18
27 28 7.773224 TCGGTATTCATTCTATTTGTGGTTCAT 59.227 33.333 0.00 0.00 0.00 2.57
28 29 7.857389 CGGTATTCATTCTATTTGTGGTTCATG 59.143 37.037 0.00 0.00 0.00 3.07
29 30 8.686334 GGTATTCATTCTATTTGTGGTTCATGT 58.314 33.333 0.00 0.00 0.00 3.21
32 33 7.624360 TCATTCTATTTGTGGTTCATGTACC 57.376 36.000 14.25 14.25 38.73 3.34
33 34 7.171653 TCATTCTATTTGTGGTTCATGTACCA 58.828 34.615 19.30 19.30 45.73 3.25
40 41 2.778299 TGGTTCATGTACCACAAGAGC 58.222 47.619 19.30 0.00 43.14 4.09
41 42 2.371841 TGGTTCATGTACCACAAGAGCT 59.628 45.455 19.30 0.00 43.14 4.09
42 43 3.003480 GGTTCATGTACCACAAGAGCTC 58.997 50.000 16.03 5.27 38.12 4.09
43 44 2.654749 TCATGTACCACAAGAGCTCG 57.345 50.000 8.37 0.00 0.00 5.03
44 45 1.002366 CATGTACCACAAGAGCTCGC 58.998 55.000 8.37 0.00 0.00 5.03
45 46 0.608130 ATGTACCACAAGAGCTCGCA 59.392 50.000 8.37 0.00 0.00 5.10
46 47 0.608130 TGTACCACAAGAGCTCGCAT 59.392 50.000 8.37 0.00 0.00 4.73
47 48 1.002366 GTACCACAAGAGCTCGCATG 58.998 55.000 8.37 11.49 0.00 4.06
48 49 0.608130 TACCACAAGAGCTCGCATGT 59.392 50.000 8.37 12.14 0.00 3.21
49 50 0.952497 ACCACAAGAGCTCGCATGTG 60.952 55.000 28.53 28.53 42.10 3.21
50 51 0.671472 CCACAAGAGCTCGCATGTGA 60.671 55.000 33.11 8.98 44.52 3.58
51 52 1.150827 CACAAGAGCTCGCATGTGAA 58.849 50.000 30.24 0.00 44.52 3.18
52 53 1.136141 CACAAGAGCTCGCATGTGAAC 60.136 52.381 30.24 5.95 44.52 3.18
56 57 1.066645 AGAGCTCGCATGTGAACATCA 60.067 47.619 10.71 0.00 33.61 3.07
63 64 3.313249 TCGCATGTGAACATCATGATTCC 59.687 43.478 6.47 0.00 43.47 3.01
87 88 6.348498 CATGTATGTTCTCTTGGTGGTCATA 58.652 40.000 0.00 0.00 0.00 2.15
94 95 7.861629 TGTTCTCTTGGTGGTCATATAAGAAT 58.138 34.615 0.00 0.00 0.00 2.40
172 173 1.925185 GTTAGTTGCGGTGTAGCTAGC 59.075 52.381 6.62 6.62 38.13 3.42
180 181 1.583054 GGTGTAGCTAGCGGGAAATG 58.417 55.000 9.55 0.00 0.00 2.32
181 182 1.583054 GTGTAGCTAGCGGGAAATGG 58.417 55.000 9.55 0.00 0.00 3.16
182 183 0.468226 TGTAGCTAGCGGGAAATGGG 59.532 55.000 9.55 0.00 0.00 4.00
226 227 1.082756 GAAACGCGTGAGGTTGCAG 60.083 57.895 14.98 0.00 0.00 4.41
245 246 3.295800 CCCCACGGGTCAGTAGTC 58.704 66.667 0.41 0.00 38.25 2.59
246 247 1.305046 CCCCACGGGTCAGTAGTCT 60.305 63.158 0.41 0.00 38.25 3.24
247 248 1.321074 CCCCACGGGTCAGTAGTCTC 61.321 65.000 0.41 0.00 38.25 3.36
248 249 0.611062 CCCACGGGTCAGTAGTCTCA 60.611 60.000 0.00 0.00 0.00 3.27
249 250 0.526662 CCACGGGTCAGTAGTCTCAC 59.473 60.000 0.00 0.00 0.00 3.51
251 252 1.469308 CACGGGTCAGTAGTCTCACTC 59.531 57.143 0.00 0.00 0.00 3.51
264 279 1.458777 TCACTCGGTCCCAGTTGGT 60.459 57.895 0.00 0.00 34.77 3.67
269 284 0.178955 TCGGTCCCAGTTGGTCACTA 60.179 55.000 0.00 0.00 32.76 2.74
276 291 2.026822 CCCAGTTGGTCACTATGCTCTT 60.027 50.000 0.00 0.00 32.76 2.85
278 293 3.686726 CCAGTTGGTCACTATGCTCTTTC 59.313 47.826 0.00 0.00 32.76 2.62
281 296 3.616956 TGGTCACTATGCTCTTTCCAG 57.383 47.619 0.00 0.00 0.00 3.86
288 303 1.639298 ATGCTCTTTCCAGCGAACGC 61.639 55.000 11.31 11.31 42.92 4.84
316 414 2.758423 TGGCATGACTCGACTAGCTTTA 59.242 45.455 0.00 0.00 0.00 1.85
322 420 5.298197 TGACTCGACTAGCTTTACTCTTG 57.702 43.478 0.00 0.00 0.00 3.02
329 427 4.570930 ACTAGCTTTACTCTTGCCTGTTC 58.429 43.478 0.00 0.00 0.00 3.18
332 430 1.126846 CTTTACTCTTGCCTGTTCGCG 59.873 52.381 0.00 0.00 0.00 5.87
336 434 1.067142 ACTCTTGCCTGTTCGCGATAA 60.067 47.619 10.88 0.00 0.00 1.75
356 454 4.663636 AAGCTACACATACTTTGTTCGC 57.336 40.909 0.00 0.00 36.00 4.70
358 456 5.068234 AGCTACACATACTTTGTTCGCTA 57.932 39.130 0.00 0.00 36.00 4.26
360 458 4.624024 GCTACACATACTTTGTTCGCTACA 59.376 41.667 0.00 0.00 36.00 2.74
362 460 4.373527 ACACATACTTTGTTCGCTACACA 58.626 39.130 0.00 0.00 36.00 3.72
363 461 4.994852 ACACATACTTTGTTCGCTACACAT 59.005 37.500 0.00 0.00 36.00 3.21
364 462 6.160684 ACACATACTTTGTTCGCTACACATA 58.839 36.000 0.00 0.00 36.00 2.29
365 463 6.090358 ACACATACTTTGTTCGCTACACATAC 59.910 38.462 0.00 0.00 36.00 2.39
367 465 6.872020 ACATACTTTGTTCGCTACACATACTT 59.128 34.615 0.00 0.00 36.21 2.24
369 467 5.985781 ACTTTGTTCGCTACACATACTTTG 58.014 37.500 0.00 0.00 36.21 2.77
371 469 5.994887 TTGTTCGCTACACATACTTTGTT 57.005 34.783 0.00 0.00 36.00 2.83
372 470 5.585500 TGTTCGCTACACATACTTTGTTC 57.415 39.130 0.00 0.00 36.00 3.18
373 471 4.149221 TGTTCGCTACACATACTTTGTTCG 59.851 41.667 0.00 0.00 36.00 3.95
383 503 6.816640 ACACATACTTTGTTCGCTACACATAT 59.183 34.615 0.00 0.00 36.00 1.78
433 561 0.250467 ATGCTGCCCATACCATCGAC 60.250 55.000 0.00 0.00 30.69 4.20
450 578 2.036217 TCGACGACCAACCAACAGTAAT 59.964 45.455 0.00 0.00 0.00 1.89
451 579 3.255395 TCGACGACCAACCAACAGTAATA 59.745 43.478 0.00 0.00 0.00 0.98
452 580 3.989167 CGACGACCAACCAACAGTAATAA 59.011 43.478 0.00 0.00 0.00 1.40
478 831 5.526010 AAAAATCGTTGACAGGTCGATAC 57.474 39.130 10.84 0.00 42.22 2.24
494 847 4.805719 GTCGATACAGATTCATCAACAGCA 59.194 41.667 0.00 0.00 0.00 4.41
495 848 5.464722 GTCGATACAGATTCATCAACAGCAT 59.535 40.000 0.00 0.00 0.00 3.79
496 849 5.464389 TCGATACAGATTCATCAACAGCATG 59.536 40.000 0.00 0.00 46.00 4.06
497 850 3.777465 ACAGATTCATCAACAGCATGC 57.223 42.857 10.51 10.51 42.53 4.06
498 851 3.086282 ACAGATTCATCAACAGCATGCA 58.914 40.909 21.98 0.00 42.53 3.96
499 852 3.699538 ACAGATTCATCAACAGCATGCAT 59.300 39.130 21.98 4.26 42.53 3.96
517 876 3.812609 TGCATGTGTGTGTACCTAAACAG 59.187 43.478 0.00 0.00 0.00 3.16
637 1001 3.706373 CCACTGGCGCCACTAGGT 61.706 66.667 29.03 19.98 37.19 3.08
640 1004 0.530650 CACTGGCGCCACTAGGTATG 60.531 60.000 29.03 16.25 37.19 2.39
644 1008 0.748450 GGCGCCACTAGGTATGTACA 59.252 55.000 24.80 0.00 37.19 2.90
645 1009 1.343465 GGCGCCACTAGGTATGTACAT 59.657 52.381 24.80 13.93 37.19 2.29
747 1114 3.003763 GTCTCCGGCAACCCTCCT 61.004 66.667 0.00 0.00 0.00 3.69
786 1161 3.716006 CCTGACGCGTGCCACTTG 61.716 66.667 20.70 0.00 0.00 3.16
787 1162 4.374702 CTGACGCGTGCCACTTGC 62.375 66.667 20.70 0.00 41.77 4.01
871 1285 9.161629 TGTATGTGTATGAGAAACGAATCATTT 57.838 29.630 0.00 0.00 37.36 2.32
910 1324 7.311486 GGGGTTCTAGTGGTTCTATAAAAAGGA 60.311 40.741 0.00 0.00 0.00 3.36
911 1325 7.551974 GGGTTCTAGTGGTTCTATAAAAAGGAC 59.448 40.741 0.00 0.00 0.00 3.85
912 1326 8.098912 GGTTCTAGTGGTTCTATAAAAAGGACA 58.901 37.037 0.00 0.00 0.00 4.02
914 1328 7.318141 TCTAGTGGTTCTATAAAAAGGACACG 58.682 38.462 0.00 0.00 0.00 4.49
915 1329 4.694037 AGTGGTTCTATAAAAAGGACACGC 59.306 41.667 0.00 0.00 0.00 5.34
918 1332 3.985019 TCTATAAAAAGGACACGCCCA 57.015 42.857 0.00 0.00 37.37 5.36
920 1334 2.579410 ATAAAAAGGACACGCCCACT 57.421 45.000 0.00 0.00 37.37 4.00
921 1335 1.600023 TAAAAAGGACACGCCCACTG 58.400 50.000 0.00 0.00 37.37 3.66
923 1337 1.101049 AAAAGGACACGCCCACTGTG 61.101 55.000 0.00 0.00 42.99 3.66
1009 1448 2.743553 TCTCCTGCTCATCAGTCATCA 58.256 47.619 0.00 0.00 41.25 3.07
1022 1461 2.273449 CATCACCCTCCACCTGCC 59.727 66.667 0.00 0.00 0.00 4.85
1332 1786 4.218686 ACCAGGGCCAACACCACC 62.219 66.667 6.18 0.00 0.00 4.61
1373 1827 0.032952 CTCCTCGACAACGGAAACCA 59.967 55.000 0.00 0.00 40.21 3.67
1388 1842 4.457496 CCATGTCCTCCGCAGCGT 62.457 66.667 15.05 0.00 0.00 5.07
1390 1844 4.498520 ATGTCCTCCGCAGCGTCG 62.499 66.667 15.05 3.70 0.00 5.12
1440 1894 1.676678 GGCAGAGCTACGATCACCCA 61.677 60.000 0.00 0.00 0.00 4.51
1656 2131 4.779733 ATCCCCGAGAGCGTGGGT 62.780 66.667 0.00 0.00 44.44 4.51
1704 2179 3.755378 CCAGCAACAAAGAAGAGCAGTAT 59.245 43.478 0.00 0.00 0.00 2.12
1716 2191 2.035193 AGAGCAGTATGTCCAGTATGCG 59.965 50.000 0.00 0.00 39.31 4.73
1735 2210 1.135139 CGATTGAGGATCCGACAGTGT 59.865 52.381 5.98 0.00 0.00 3.55
1755 2230 0.391793 TGTCACGCGGCATAATGGAA 60.392 50.000 12.47 0.00 0.00 3.53
1808 2283 3.371034 TCGAGGGGTCATCACAAGATTA 58.629 45.455 0.00 0.00 30.20 1.75
1972 2447 1.005748 GATCGATCGGCTGGATGCA 60.006 57.895 16.41 0.00 45.15 3.96
2038 2519 1.841450 CGGCGAGACAGATAAGTTCC 58.159 55.000 0.00 0.00 0.00 3.62
2064 2545 2.930826 TGACTTCTGTCCAACTTCCC 57.069 50.000 0.00 0.00 42.28 3.97
2113 2594 4.127907 CACTACTGCAGATGAATGCTCAT 58.872 43.478 23.35 0.00 46.63 2.90
2291 2772 0.257039 AGGGGACTGATCATTGGTGC 59.743 55.000 0.00 0.00 41.13 5.01
2294 2775 1.340405 GGGACTGATCATTGGTGCTGT 60.340 52.381 0.00 0.00 0.00 4.40
2646 3130 2.028020 CCAAGGTGACAGGAGGTTACTC 60.028 54.545 0.00 0.00 43.20 2.59
2756 3252 0.615850 GCTCTTGGGGTTGCTAGAGT 59.384 55.000 0.00 0.00 37.15 3.24
2961 3457 3.614092 TGAATGGATCAGCAGAACTTCC 58.386 45.455 0.00 0.00 33.04 3.46
3053 3549 2.760374 GAGTAAGCAATCATCCTCCCG 58.240 52.381 0.00 0.00 0.00 5.14
3123 3637 0.874390 TTGATGGAGACGTTGCAAGC 59.126 50.000 0.00 0.00 0.00 4.01
3144 3658 2.496871 CCTGGTGGATGCAAAATTGCTA 59.503 45.455 18.05 6.27 44.79 3.49
3186 3700 5.067283 GGAGGTTGAAAGAGTTTGCAAAGTA 59.933 40.000 19.29 0.84 0.00 2.24
3303 3817 2.164422 GGTGCCAAGATTACTTCAAGCC 59.836 50.000 0.00 0.00 33.70 4.35
3323 3837 1.822990 CATTGCAGGACAGCCAAATCT 59.177 47.619 0.00 0.00 36.29 2.40
3342 3856 8.680903 CCAAATCTGAAGATAATGTAGTTGCTT 58.319 33.333 0.00 0.00 33.73 3.91
3350 3864 7.865706 AGATAATGTAGTTGCTTAGTTTGGG 57.134 36.000 0.00 0.00 0.00 4.12
3363 3877 6.325286 TGCTTAGTTTGGGTTCTGGTTAAATT 59.675 34.615 0.00 0.00 0.00 1.82
3388 3902 5.824097 TCCCTTTTTATATGGTAGTTTCGCC 59.176 40.000 0.00 0.00 0.00 5.54
3401 3919 0.387565 TTTCGCCTGTTGCTTTTCCC 59.612 50.000 0.00 0.00 38.05 3.97
3406 3924 1.538849 GCCTGTTGCTTTTCCCTTGTG 60.539 52.381 0.00 0.00 36.87 3.33
3464 3989 6.153851 TGTGAAAGCTACTACTATGCTAACCA 59.846 38.462 0.00 0.00 35.85 3.67
3521 4046 5.809001 TCAGGAAGAATTATGTTGCTCTGT 58.191 37.500 0.00 0.00 27.50 3.41
3607 4145 0.250989 CACCTTTGGGGCTCGGTTAA 60.251 55.000 0.00 0.00 39.10 2.01
3637 4177 4.343239 GCAGAGGGGAATTGCAGATATTTT 59.657 41.667 0.00 0.00 37.75 1.82
3638 4178 5.163374 GCAGAGGGGAATTGCAGATATTTTT 60.163 40.000 0.00 0.00 37.75 1.94
3642 4182 5.364735 AGGGGAATTGCAGATATTTTTCAGG 59.635 40.000 0.00 0.00 0.00 3.86
3665 4206 2.657459 ACCCTAATGTCAAATTCCCCCA 59.343 45.455 0.00 0.00 0.00 4.96
3671 4212 7.092668 CCCTAATGTCAAATTCCCCCAAAAATA 60.093 37.037 0.00 0.00 0.00 1.40
3784 4333 1.824329 GCTCGAGATCTCCGACCCA 60.824 63.158 18.75 0.00 32.18 4.51
3939 4488 1.756950 TCGCCTCCTAATGTCGCCT 60.757 57.895 0.00 0.00 0.00 5.52
3940 4489 1.144057 CGCCTCCTAATGTCGCCTT 59.856 57.895 0.00 0.00 0.00 4.35
3964 4513 3.803082 CCGCCGCCTTGTGTCATG 61.803 66.667 0.00 0.00 0.00 3.07
4040 4589 3.665226 CTCCTCCGGCGATCGAGG 61.665 72.222 21.57 20.55 42.43 4.63
4068 4617 4.090588 GCCATGGAACCCGGTCGA 62.091 66.667 18.40 0.00 0.00 4.20
4155 4716 2.098298 CGGTGAAATCGGCGCAAG 59.902 61.111 10.83 1.95 43.44 4.01
4156 4717 2.677003 CGGTGAAATCGGCGCAAGT 61.677 57.895 10.83 0.00 41.68 3.16
4175 4736 1.134670 GTGGGAGAGAAATGACGAGGG 60.135 57.143 0.00 0.00 0.00 4.30
4217 4778 2.620234 TCCACCAGGGAGCTAATGG 58.380 57.895 9.26 9.26 42.15 3.16
4218 4779 1.152881 CCACCAGGGAGCTAATGGC 60.153 63.158 10.48 0.00 40.01 4.40
4219 4780 1.609239 CACCAGGGAGCTAATGGCA 59.391 57.895 10.48 0.00 44.79 4.92
4220 4781 0.184451 CACCAGGGAGCTAATGGCAT 59.816 55.000 10.48 0.00 44.79 4.40
4221 4782 0.475906 ACCAGGGAGCTAATGGCATC 59.524 55.000 0.00 0.00 44.79 3.91
4222 4783 0.769873 CCAGGGAGCTAATGGCATCT 59.230 55.000 0.00 0.00 44.79 2.90
4223 4784 1.271271 CCAGGGAGCTAATGGCATCTC 60.271 57.143 0.00 3.08 44.79 2.75
4224 4785 1.698532 CAGGGAGCTAATGGCATCTCT 59.301 52.381 12.69 5.47 44.79 3.10
4225 4786 2.106166 CAGGGAGCTAATGGCATCTCTT 59.894 50.000 12.69 0.00 44.79 2.85
4226 4787 2.782341 AGGGAGCTAATGGCATCTCTTT 59.218 45.455 12.69 0.00 44.79 2.52
4227 4788 2.883386 GGGAGCTAATGGCATCTCTTTG 59.117 50.000 12.69 0.00 44.79 2.77
4228 4789 3.434167 GGGAGCTAATGGCATCTCTTTGA 60.434 47.826 12.69 0.00 44.79 2.69
4229 4790 4.202441 GGAGCTAATGGCATCTCTTTGAA 58.798 43.478 12.69 0.00 44.79 2.69
4230 4791 4.641989 GGAGCTAATGGCATCTCTTTGAAA 59.358 41.667 12.69 0.00 44.79 2.69
4231 4792 5.126061 GGAGCTAATGGCATCTCTTTGAAAA 59.874 40.000 12.69 0.00 44.79 2.29
4232 4793 6.350445 GGAGCTAATGGCATCTCTTTGAAAAA 60.350 38.462 12.69 0.00 44.79 1.94
4233 4794 7.179076 AGCTAATGGCATCTCTTTGAAAAAT 57.821 32.000 0.00 0.00 44.79 1.82
4234 4795 8.297470 AGCTAATGGCATCTCTTTGAAAAATA 57.703 30.769 0.00 0.00 44.79 1.40
4235 4796 8.752187 AGCTAATGGCATCTCTTTGAAAAATAA 58.248 29.630 0.00 0.00 44.79 1.40
4236 4797 9.538508 GCTAATGGCATCTCTTTGAAAAATAAT 57.461 29.630 0.00 0.00 41.35 1.28
4289 4850 9.443323 TCGAATATTTCTAGGAAATTGTGAACA 57.557 29.630 10.17 0.00 0.00 3.18
4308 4869 9.862371 TGTGAACAAATCTTTTAAAAGTAAGCA 57.138 25.926 23.75 12.95 37.31 3.91
4324 4885 9.985730 AAAAGTAAGCAATGATTGAAAATCTGA 57.014 25.926 9.76 0.00 0.00 3.27
4325 4886 8.976986 AAGTAAGCAATGATTGAAAATCTGAC 57.023 30.769 9.76 0.00 0.00 3.51
4326 4887 8.114331 AGTAAGCAATGATTGAAAATCTGACA 57.886 30.769 9.76 0.00 0.00 3.58
4327 4888 8.579006 AGTAAGCAATGATTGAAAATCTGACAA 58.421 29.630 9.76 0.00 0.00 3.18
4328 4889 9.362539 GTAAGCAATGATTGAAAATCTGACAAT 57.637 29.630 9.76 0.00 37.03 2.71
4329 4890 8.842358 AAGCAATGATTGAAAATCTGACAATT 57.158 26.923 9.76 0.00 34.94 2.32
4330 4891 8.842358 AGCAATGATTGAAAATCTGACAATTT 57.158 26.923 9.76 0.00 34.94 1.82
4331 4892 9.280174 AGCAATGATTGAAAATCTGACAATTTT 57.720 25.926 9.76 7.58 40.60 1.82
4332 4893 9.887406 GCAATGATTGAAAATCTGACAATTTTT 57.113 25.926 9.76 3.42 38.59 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.279981 TGAACCACAAATAGAATGAATACCGAG 59.720 37.037 0.00 0.00 0.00 4.63
1 2 7.106890 TGAACCACAAATAGAATGAATACCGA 58.893 34.615 0.00 0.00 0.00 4.69
2 3 7.315247 TGAACCACAAATAGAATGAATACCG 57.685 36.000 0.00 0.00 0.00 4.02
3 4 8.686334 ACATGAACCACAAATAGAATGAATACC 58.314 33.333 0.00 0.00 0.00 2.73
6 7 8.686334 GGTACATGAACCACAAATAGAATGAAT 58.314 33.333 0.00 0.00 39.50 2.57
7 8 7.667635 TGGTACATGAACCACAAATAGAATGAA 59.332 33.333 0.00 0.00 44.68 2.57
8 9 7.171653 TGGTACATGAACCACAAATAGAATGA 58.828 34.615 0.00 0.00 44.68 2.57
9 10 7.389803 TGGTACATGAACCACAAATAGAATG 57.610 36.000 0.00 0.00 44.68 2.67
21 22 3.003480 GAGCTCTTGTGGTACATGAACC 58.997 50.000 6.43 0.00 44.52 3.62
22 23 2.668457 CGAGCTCTTGTGGTACATGAAC 59.332 50.000 12.85 0.00 44.52 3.18
23 24 2.930887 GCGAGCTCTTGTGGTACATGAA 60.931 50.000 12.85 0.00 44.52 2.57
24 25 1.404181 GCGAGCTCTTGTGGTACATGA 60.404 52.381 12.85 0.00 44.52 3.07
25 26 1.002366 GCGAGCTCTTGTGGTACATG 58.998 55.000 12.85 0.00 44.52 3.21
26 27 0.608130 TGCGAGCTCTTGTGGTACAT 59.392 50.000 12.85 0.00 44.52 2.29
27 28 0.608130 ATGCGAGCTCTTGTGGTACA 59.392 50.000 12.85 0.00 0.00 2.90
28 29 1.002366 CATGCGAGCTCTTGTGGTAC 58.998 55.000 12.85 0.00 0.00 3.34
29 30 0.608130 ACATGCGAGCTCTTGTGGTA 59.392 50.000 12.85 0.00 0.00 3.25
30 31 0.952497 CACATGCGAGCTCTTGTGGT 60.952 55.000 23.24 10.01 38.02 4.16
31 32 0.671472 TCACATGCGAGCTCTTGTGG 60.671 55.000 27.06 16.15 40.44 4.17
32 33 1.136141 GTTCACATGCGAGCTCTTGTG 60.136 52.381 24.23 24.23 41.02 3.33
33 34 1.151668 GTTCACATGCGAGCTCTTGT 58.848 50.000 12.85 9.84 0.00 3.16
34 35 1.150827 TGTTCACATGCGAGCTCTTG 58.849 50.000 12.85 9.19 0.00 3.02
35 36 2.005451 GATGTTCACATGCGAGCTCTT 58.995 47.619 12.85 0.00 36.57 2.85
36 37 1.066645 TGATGTTCACATGCGAGCTCT 60.067 47.619 12.85 0.00 36.57 4.09
37 38 1.362768 TGATGTTCACATGCGAGCTC 58.637 50.000 2.73 2.73 36.57 4.09
38 39 1.669265 CATGATGTTCACATGCGAGCT 59.331 47.619 0.00 0.00 38.58 4.09
39 40 1.667212 TCATGATGTTCACATGCGAGC 59.333 47.619 0.00 0.00 43.03 5.03
40 41 4.524749 GAATCATGATGTTCACATGCGAG 58.475 43.478 9.46 0.00 43.03 5.03
41 42 3.313249 GGAATCATGATGTTCACATGCGA 59.687 43.478 9.46 0.00 43.03 5.10
42 43 3.065648 TGGAATCATGATGTTCACATGCG 59.934 43.478 9.46 0.00 43.03 4.73
43 44 4.642445 TGGAATCATGATGTTCACATGC 57.358 40.909 9.46 0.00 43.03 4.06
56 57 6.544931 CACCAAGAGAACATACATGGAATCAT 59.455 38.462 0.00 0.00 0.00 2.45
63 64 4.578871 TGACCACCAAGAGAACATACATG 58.421 43.478 0.00 0.00 0.00 3.21
68 69 7.437713 TCTTATATGACCACCAAGAGAACAT 57.562 36.000 0.00 0.00 0.00 2.71
135 136 7.910162 CGCAACTAACATGAAGCACTTATAATT 59.090 33.333 0.00 0.00 0.00 1.40
136 137 7.409697 CGCAACTAACATGAAGCACTTATAAT 58.590 34.615 0.00 0.00 0.00 1.28
139 140 4.094887 CCGCAACTAACATGAAGCACTTAT 59.905 41.667 0.00 0.00 0.00 1.73
140 141 3.435327 CCGCAACTAACATGAAGCACTTA 59.565 43.478 0.00 0.00 0.00 2.24
141 142 2.226437 CCGCAACTAACATGAAGCACTT 59.774 45.455 0.00 0.00 0.00 3.16
142 143 1.806542 CCGCAACTAACATGAAGCACT 59.193 47.619 0.00 0.00 0.00 4.40
172 173 1.269448 CTTGTTCACACCCATTTCCCG 59.731 52.381 0.00 0.00 0.00 5.14
180 181 9.337396 TCACATATATAAATCTTGTTCACACCC 57.663 33.333 0.00 0.00 0.00 4.61
201 202 1.078709 CCTCACGCGTTTCATCACAT 58.921 50.000 10.22 0.00 0.00 3.21
202 203 0.249699 ACCTCACGCGTTTCATCACA 60.250 50.000 10.22 0.00 0.00 3.58
211 212 2.661866 GTCTGCAACCTCACGCGT 60.662 61.111 5.58 5.58 0.00 6.01
231 232 1.469308 GAGTGAGACTACTGACCCGTG 59.531 57.143 0.00 0.00 30.79 4.94
233 234 0.727970 CGAGTGAGACTACTGACCCG 59.272 60.000 0.00 0.00 30.79 5.28
242 243 0.178958 AACTGGGACCGAGTGAGACT 60.179 55.000 10.24 0.00 0.00 3.24
243 244 0.038159 CAACTGGGACCGAGTGAGAC 60.038 60.000 10.24 0.00 0.00 3.36
244 245 1.185618 CCAACTGGGACCGAGTGAGA 61.186 60.000 10.24 0.00 40.01 3.27
245 246 1.293498 CCAACTGGGACCGAGTGAG 59.707 63.158 10.24 6.19 40.01 3.51
246 247 1.458777 ACCAACTGGGACCGAGTGA 60.459 57.895 10.24 0.00 41.15 3.41
247 248 1.004918 GACCAACTGGGACCGAGTG 60.005 63.158 10.24 1.19 41.15 3.51
248 249 1.458777 TGACCAACTGGGACCGAGT 60.459 57.895 2.81 2.81 41.15 4.18
249 250 1.004918 GTGACCAACTGGGACCGAG 60.005 63.158 1.27 1.27 41.15 4.63
251 252 0.902531 ATAGTGACCAACTGGGACCG 59.097 55.000 0.00 0.00 40.26 4.79
264 279 1.824852 TCGCTGGAAAGAGCATAGTGA 59.175 47.619 0.00 0.00 39.07 3.41
269 284 1.639298 GCGTTCGCTGGAAAGAGCAT 61.639 55.000 9.99 0.00 39.07 3.79
292 307 1.928152 GCTAGTCGAGTCATGCCATCG 60.928 57.143 0.00 7.47 37.79 3.84
293 308 1.339610 AGCTAGTCGAGTCATGCCATC 59.660 52.381 0.00 0.00 0.00 3.51
294 309 1.407936 AGCTAGTCGAGTCATGCCAT 58.592 50.000 0.00 0.00 0.00 4.40
295 310 1.186200 AAGCTAGTCGAGTCATGCCA 58.814 50.000 0.00 0.00 0.00 4.92
296 311 2.301577 AAAGCTAGTCGAGTCATGCC 57.698 50.000 0.00 0.00 0.00 4.40
299 314 5.677598 GCAAGAGTAAAGCTAGTCGAGTCAT 60.678 44.000 0.00 0.00 33.32 3.06
300 315 4.379603 GCAAGAGTAAAGCTAGTCGAGTCA 60.380 45.833 0.00 0.00 33.32 3.41
306 404 4.195225 ACAGGCAAGAGTAAAGCTAGTC 57.805 45.455 0.00 0.00 0.00 2.59
316 414 0.530744 TATCGCGAACAGGCAAGAGT 59.469 50.000 15.24 0.00 0.00 3.24
322 420 0.853419 GTAGCTTATCGCGAACAGGC 59.147 55.000 15.24 16.38 45.59 4.85
329 427 4.503007 ACAAAGTATGTGTAGCTTATCGCG 59.497 41.667 0.00 0.00 42.06 5.87
332 430 6.255887 AGCGAACAAAGTATGTGTAGCTTATC 59.744 38.462 0.00 0.00 44.51 1.75
336 434 3.926616 AGCGAACAAAGTATGTGTAGCT 58.073 40.909 0.00 0.00 42.90 3.32
356 454 5.631929 TGTGTAGCGAACAAAGTATGTGTAG 59.368 40.000 0.00 0.00 33.49 2.74
358 456 4.373527 TGTGTAGCGAACAAAGTATGTGT 58.626 39.130 0.00 0.00 39.08 3.72
360 458 7.843490 AATATGTGTAGCGAACAAAGTATGT 57.157 32.000 0.00 0.00 46.82 2.29
362 460 8.487313 TCAAATATGTGTAGCGAACAAAGTAT 57.513 30.769 0.00 0.00 40.63 2.12
363 461 7.064134 CCTCAAATATGTGTAGCGAACAAAGTA 59.936 37.037 0.00 0.00 40.63 2.24
364 462 6.128282 CCTCAAATATGTGTAGCGAACAAAGT 60.128 38.462 0.00 0.00 40.63 2.66
365 463 6.250819 CCTCAAATATGTGTAGCGAACAAAG 58.749 40.000 0.00 0.00 40.63 2.77
367 465 4.094294 GCCTCAAATATGTGTAGCGAACAA 59.906 41.667 0.00 0.00 40.63 2.83
369 467 3.621268 TGCCTCAAATATGTGTAGCGAAC 59.379 43.478 0.00 0.00 0.00 3.95
371 469 3.535280 TGCCTCAAATATGTGTAGCGA 57.465 42.857 0.00 0.00 0.00 4.93
372 470 4.614555 TTTGCCTCAAATATGTGTAGCG 57.385 40.909 0.00 0.00 0.00 4.26
402 522 0.952280 GGCAGCATCAGTGATGGATG 59.048 55.000 29.66 20.70 41.92 3.51
403 523 0.178998 GGGCAGCATCAGTGATGGAT 60.179 55.000 29.66 10.65 41.92 3.41
404 524 1.225426 GGGCAGCATCAGTGATGGA 59.775 57.895 29.66 0.00 41.92 3.41
433 561 7.424227 TTTACTTATTACTGTTGGTTGGTCG 57.576 36.000 0.00 0.00 0.00 4.79
466 819 5.188327 TGATGAATCTGTATCGACCTGTC 57.812 43.478 0.00 0.00 0.00 3.51
476 829 4.263435 TGCATGCTGTTGATGAATCTGTA 58.737 39.130 20.33 0.00 0.00 2.74
478 831 3.775661 TGCATGCTGTTGATGAATCTG 57.224 42.857 20.33 0.00 0.00 2.90
494 847 4.393834 TGTTTAGGTACACACACATGCAT 58.606 39.130 0.00 0.00 0.00 3.96
495 848 3.809905 TGTTTAGGTACACACACATGCA 58.190 40.909 0.00 0.00 0.00 3.96
496 849 3.188460 CCTGTTTAGGTACACACACATGC 59.812 47.826 0.00 0.00 39.39 4.06
497 850 4.637276 TCCTGTTTAGGTACACACACATG 58.363 43.478 0.00 0.00 44.88 3.21
498 851 4.262894 CCTCCTGTTTAGGTACACACACAT 60.263 45.833 0.00 0.00 44.88 3.21
499 852 3.070446 CCTCCTGTTTAGGTACACACACA 59.930 47.826 0.00 0.00 44.88 3.72
517 876 2.231721 GGCTAATCGGTGACTATCCTCC 59.768 54.545 0.00 0.00 0.00 4.30
609 973 1.949525 GCGCCAGTGGATCATAACAAT 59.050 47.619 15.20 0.00 0.00 2.71
637 1001 4.772624 GGTCCTCTCCTGCATATGTACATA 59.227 45.833 17.65 17.65 0.00 2.29
640 1004 2.300437 GGGTCCTCTCCTGCATATGTAC 59.700 54.545 4.29 0.00 0.00 2.90
644 1008 1.771255 GTTGGGTCCTCTCCTGCATAT 59.229 52.381 0.00 0.00 0.00 1.78
645 1009 1.204146 GTTGGGTCCTCTCCTGCATA 58.796 55.000 0.00 0.00 0.00 3.14
747 1114 4.576137 GGATCATCCATGGGAACCGAGTA 61.576 52.174 13.02 0.00 45.31 2.59
804 1179 3.874392 CCAACTGGCTTATGGAAAAGG 57.126 47.619 0.00 0.00 36.27 3.11
871 1285 1.710244 AGAACCCCAACATGGTGATCA 59.290 47.619 13.74 0.00 35.17 2.92
910 1324 4.626081 GAGGCACAGTGGGCGTGT 62.626 66.667 18.89 0.36 36.71 4.49
914 1328 2.360475 GAAGGAGGCACAGTGGGC 60.360 66.667 9.51 9.51 0.00 5.36
915 1329 2.352805 GGAAGGAGGCACAGTGGG 59.647 66.667 1.84 0.00 0.00 4.61
918 1332 0.178903 TAGTGGGAAGGAGGCACAGT 60.179 55.000 0.00 0.00 0.00 3.55
920 1334 1.559682 GAATAGTGGGAAGGAGGCACA 59.440 52.381 0.00 0.00 0.00 4.57
921 1335 1.473434 CGAATAGTGGGAAGGAGGCAC 60.473 57.143 0.00 0.00 0.00 5.01
923 1337 0.831307 ACGAATAGTGGGAAGGAGGC 59.169 55.000 0.00 0.00 0.00 4.70
1022 1461 2.276740 GGCATTGAGGGAGGGTGG 59.723 66.667 0.00 0.00 0.00 4.61
1353 1807 0.669625 GGTTTCCGTTGTCGAGGAGG 60.670 60.000 0.00 0.00 37.88 4.30
1373 1827 4.498520 CGACGCTGCGGAGGACAT 62.499 66.667 26.95 2.40 0.00 3.06
1396 1850 0.608035 ACATTGGACGAATTGGGCGT 60.608 50.000 0.00 0.00 45.79 5.68
1399 1853 4.236935 CAGAAAACATTGGACGAATTGGG 58.763 43.478 0.00 0.00 0.00 4.12
1440 1894 0.393077 CCTGGAGAACAGTGTCGGTT 59.607 55.000 0.00 0.00 46.06 4.44
1461 1915 1.700042 GGATCAGGCCGGTGGATCTT 61.700 60.000 22.58 0.00 37.99 2.40
1462 1916 2.143419 GGATCAGGCCGGTGGATCT 61.143 63.158 22.58 5.26 37.99 2.75
1704 2179 2.107366 TCCTCAATCGCATACTGGACA 58.893 47.619 0.00 0.00 0.00 4.02
1716 2191 2.932614 CAACACTGTCGGATCCTCAATC 59.067 50.000 10.75 0.00 0.00 2.67
1735 2210 0.391793 TCCATTATGCCGCGTGACAA 60.392 50.000 4.92 0.00 0.00 3.18
1755 2230 1.978580 ACCTTCATTTGACCGGAGACT 59.021 47.619 9.46 0.00 0.00 3.24
1972 2447 5.246203 TGCAGTAGAGTGGAGTATTTCTTGT 59.754 40.000 0.00 0.00 0.00 3.16
2038 2519 3.261897 AGTTGGACAGAAGTCATAGGGTG 59.738 47.826 0.00 0.00 46.80 4.61
2064 2545 2.034879 AACGTTCCTGGCATCAGCG 61.035 57.895 0.00 0.00 43.41 5.18
2094 2575 5.494632 CAAATGAGCATTCATCTGCAGTA 57.505 39.130 14.67 0.48 43.20 2.74
2113 2594 1.228956 AGCTTCCCAGGCATGCAAA 60.229 52.632 21.36 4.42 0.00 3.68
2118 2599 2.274760 GAGCAGCTTCCCAGGCAT 59.725 61.111 0.00 0.00 0.00 4.40
2291 2772 0.457035 AGTGCTTGCACCAACAACAG 59.543 50.000 20.39 0.00 0.00 3.16
2358 2839 4.101430 TGAGCATCATCACCATACTGCTTA 59.899 41.667 0.00 0.00 42.56 3.09
2726 3222 4.929146 ACCCCAAGAGCTATTTTGTACT 57.071 40.909 0.00 0.00 0.00 2.73
2756 3252 4.030913 ACTTGAATGCAGGTAGGCTAGTA 58.969 43.478 0.00 0.00 31.91 1.82
2953 3449 6.547141 TCAACTTTTGATGTGATGGAAGTTCT 59.453 34.615 2.25 0.00 35.75 3.01
3053 3549 0.105593 TCCTTCATGAGCGCCATCTC 59.894 55.000 2.29 0.00 31.94 2.75
3144 3658 1.988107 TCCTCCAGATTTGCTTCACCT 59.012 47.619 0.00 0.00 0.00 4.00
3153 3667 4.352298 ACTCTTTCAACCTCCTCCAGATTT 59.648 41.667 0.00 0.00 0.00 2.17
3186 3700 3.354948 TCTTGAATACACCAGCATGCT 57.645 42.857 16.30 16.30 31.97 3.79
3243 3757 4.160439 TCAGACAGACACTCAAGAAACTGT 59.840 41.667 0.00 0.00 40.49 3.55
3303 3817 1.822990 AGATTTGGCTGTCCTGCAATG 59.177 47.619 0.00 0.00 34.04 2.82
3323 3837 8.946085 CCAAACTAAGCAACTACATTATCTTCA 58.054 33.333 0.00 0.00 0.00 3.02
3342 3856 6.268158 GGGAAATTTAACCAGAACCCAAACTA 59.732 38.462 6.53 0.00 36.47 2.24
3363 3877 6.319405 GGCGAAACTACCATATAAAAAGGGAA 59.681 38.462 0.00 0.00 0.00 3.97
3388 3902 1.410153 AGCACAAGGGAAAAGCAACAG 59.590 47.619 0.00 0.00 0.00 3.16
3401 3919 6.428159 AGACCAAATTACAAGAGTAGCACAAG 59.572 38.462 0.00 0.00 0.00 3.16
3464 3989 4.166919 AGCCAGGCCTTAACTGAATCTTAT 59.833 41.667 8.22 0.00 38.20 1.73
3521 4046 0.930310 GCATGAGCGCGATTAGTGAA 59.070 50.000 12.10 0.00 0.00 3.18
3607 4145 2.158696 GCAATTCCCCTCTGCTCTATGT 60.159 50.000 0.00 0.00 33.20 2.29
3615 4153 6.097270 TGAAAAATATCTGCAATTCCCCTCTG 59.903 38.462 0.00 0.00 0.00 3.35
3637 4177 5.714806 GGAATTTGACATTAGGGTTCCTGAA 59.285 40.000 0.00 0.00 34.61 3.02
3638 4178 5.261216 GGAATTTGACATTAGGGTTCCTGA 58.739 41.667 0.00 0.00 34.61 3.86
3642 4182 3.704566 GGGGGAATTTGACATTAGGGTTC 59.295 47.826 0.00 0.00 0.00 3.62
3671 4212 8.738645 AGAAATCTTAGGATTAGCGTTTCATT 57.261 30.769 0.00 0.00 40.86 2.57
3804 4353 1.141019 AGCATATTCGCACGACGGT 59.859 52.632 0.00 0.00 43.89 4.83
3808 4357 1.501169 CCATCAGCATATTCGCACGA 58.499 50.000 0.00 0.00 0.00 4.35
4107 4660 0.464916 AAAAGGGTCGACGGCAAGTT 60.465 50.000 9.92 0.00 0.00 2.66
4108 4661 0.464916 AAAAAGGGTCGACGGCAAGT 60.465 50.000 9.92 0.00 0.00 3.16
4109 4662 2.327228 AAAAAGGGTCGACGGCAAG 58.673 52.632 9.92 0.00 0.00 4.01
4110 4663 4.563404 AAAAAGGGTCGACGGCAA 57.437 50.000 9.92 0.00 0.00 4.52
4155 4716 1.134670 CCCTCGTCATTTCTCTCCCAC 60.135 57.143 0.00 0.00 0.00 4.61
4156 4717 1.195115 CCCTCGTCATTTCTCTCCCA 58.805 55.000 0.00 0.00 0.00 4.37
4203 4764 0.769873 AGATGCCATTAGCTCCCTGG 59.230 55.000 0.00 0.00 44.23 4.45
4204 4765 1.698532 AGAGATGCCATTAGCTCCCTG 59.301 52.381 0.00 0.00 44.23 4.45
4205 4766 2.115337 AGAGATGCCATTAGCTCCCT 57.885 50.000 0.00 0.00 44.23 4.20
4206 4767 2.883386 CAAAGAGATGCCATTAGCTCCC 59.117 50.000 0.00 0.00 44.23 4.30
4207 4768 3.813443 TCAAAGAGATGCCATTAGCTCC 58.187 45.455 0.00 0.00 44.23 4.70
4208 4769 5.824904 TTTCAAAGAGATGCCATTAGCTC 57.175 39.130 0.00 0.00 44.23 4.09
4209 4770 6.594788 TTTTTCAAAGAGATGCCATTAGCT 57.405 33.333 0.00 0.00 44.23 3.32
4210 4771 8.931385 TTATTTTTCAAAGAGATGCCATTAGC 57.069 30.769 0.00 0.00 44.14 3.09
4263 4824 9.443323 TGTTCACAATTTCCTAGAAATATTCGA 57.557 29.630 3.15 0.00 34.02 3.71
4282 4843 9.862371 TGCTTACTTTTAAAAGATTTGTTCACA 57.138 25.926 29.97 13.91 39.31 3.58
4298 4859 9.985730 TCAGATTTTCAATCATTGCTTACTTTT 57.014 25.926 0.00 0.00 0.00 2.27
4299 4860 9.415544 GTCAGATTTTCAATCATTGCTTACTTT 57.584 29.630 0.00 0.00 0.00 2.66
4300 4861 8.579006 TGTCAGATTTTCAATCATTGCTTACTT 58.421 29.630 0.00 0.00 0.00 2.24
4301 4862 8.114331 TGTCAGATTTTCAATCATTGCTTACT 57.886 30.769 0.00 0.00 0.00 2.24
4302 4863 8.746922 TTGTCAGATTTTCAATCATTGCTTAC 57.253 30.769 0.00 0.00 0.00 2.34
4303 4864 9.932207 AATTGTCAGATTTTCAATCATTGCTTA 57.068 25.926 0.00 0.00 32.39 3.09
4304 4865 8.842358 AATTGTCAGATTTTCAATCATTGCTT 57.158 26.923 0.00 0.00 32.39 3.91
4305 4866 8.842358 AAATTGTCAGATTTTCAATCATTGCT 57.158 26.923 0.00 0.00 32.39 3.91
4306 4867 9.887406 AAAAATTGTCAGATTTTCAATCATTGC 57.113 25.926 0.00 0.00 38.04 3.56


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

AutoCloner maintained by Alex Coulton.