Multiple sequence alignment - TraesCS2D01G480200

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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 TraesCS2D01G480200 chr2D 100.000 5125 0 0 1 5125 581522496 581527620 0.000000e+00 9465.0
1 TraesCS2D01G480200 chr2D 87.038 1273 132 17 2409 3666 545500012 545501266 0.000000e+00 1406.0
2 TraesCS2D01G480200 chr2D 85.641 1365 159 17 2324 3663 583232690 583231338 0.000000e+00 1400.0
3 TraesCS2D01G480200 chr2D 78.282 2316 385 64 1128 3384 438247661 438249917 0.000000e+00 1382.0
4 TraesCS2D01G480200 chr2D 83.739 1439 189 23 968 2386 545498516 545499929 0.000000e+00 1319.0
5 TraesCS2D01G480200 chr2D 83.971 1229 166 20 1033 2244 583234010 583232796 0.000000e+00 1149.0
6 TraesCS2D01G480200 chr2D 81.801 522 79 6 321 826 410754720 410755241 1.710000e-114 424.0
7 TraesCS2D01G480200 chr2D 94.800 250 12 1 4 253 113605428 113605180 6.220000e-104 388.0
8 TraesCS2D01G480200 chr2D 86.897 145 13 2 3824 3964 581526129 581526271 1.910000e-34 158.0
9 TraesCS2D01G480200 chr2D 86.897 145 13 2 3634 3776 581526319 581526459 1.910000e-34 158.0
10 TraesCS2D01G480200 chr2D 95.890 73 3 0 1033 1105 545498545 545498617 9.010000e-23 119.0
11 TraesCS2D01G480200 chr2D 100.000 62 0 0 968 1029 583234039 583233978 1.170000e-21 115.0
12 TraesCS2D01G480200 chr2D 94.286 70 4 0 3711 3780 545501280 545501349 1.950000e-19 108.0
13 TraesCS2D01G480200 chr2D 95.385 65 3 0 3716 3780 545501380 545501444 2.520000e-18 104.0
14 TraesCS2D01G480200 chr2D 95.385 65 3 0 3716 3780 545501475 545501539 2.520000e-18 104.0
15 TraesCS2D01G480200 chr2D 86.598 97 7 3 3904 3994 545501380 545501476 9.080000e-18 102.0
16 TraesCS2D01G480200 chr2D 95.082 61 3 0 3904 3964 545501475 545501535 4.220000e-16 97.1
17 TraesCS2D01G480200 chr2D 86.517 89 9 2 4023 4111 583231147 583231062 1.520000e-15 95.3
18 TraesCS2D01G480200 chr2D 92.308 65 4 1 3716 3780 583231219 583231156 1.970000e-14 91.6
19 TraesCS2D01G480200 chr2D 94.444 54 2 1 4024 4077 545501641 545501693 1.180000e-11 82.4
20 TraesCS2D01G480200 chr2D 95.833 48 2 0 997 1044 545498581 545498628 1.530000e-10 78.7
21 TraesCS2D01G480200 chr2D 81.111 90 14 3 984 1070 438247565 438247654 9.210000e-08 69.4
22 TraesCS2D01G480200 chr2D 97.297 37 1 0 1069 1105 545498545 545498581 4.280000e-06 63.9
23 TraesCS2D01G480200 chr2D 100.000 34 0 0 1072 1105 583234007 583233974 4.280000e-06 63.9
24 TraesCS2D01G480200 chr2D 94.595 37 2 0 1069 1105 581523492 581523528 1.990000e-04 58.4
25 TraesCS2D01G480200 chr2D 94.595 37 2 0 997 1033 581523564 581523600 1.990000e-04 58.4
26 TraesCS2D01G480200 chr2B 98.643 3096 32 1 999 4094 699830121 699827036 0.000000e+00 5476.0
27 TraesCS2D01G480200 chr2B 84.018 2409 300 49 1033 3376 702727607 702725219 0.000000e+00 2237.0
28 TraesCS2D01G480200 chr2B 78.072 2604 443 71 1122 3664 515912756 515915292 0.000000e+00 1528.0
29 TraesCS2D01G480200 chr2B 90.372 1049 66 22 1 1044 699831416 699830398 0.000000e+00 1345.0
30 TraesCS2D01G480200 chr2B 97.603 584 10 2 4542 5125 699822248 699821669 0.000000e+00 998.0
31 TraesCS2D01G480200 chr2B 98.529 272 3 1 4096 4367 699823102 699822832 3.590000e-131 479.0
32 TraesCS2D01G480200 chr2B 81.092 513 76 16 326 826 33696327 33695824 1.730000e-104 390.0
33 TraesCS2D01G480200 chr2B 86.986 146 13 2 3633 3776 699827307 699827166 5.310000e-35 159.0
34 TraesCS2D01G480200 chr2B 86.207 145 14 3 3824 3964 699827496 699827354 8.890000e-33 152.0
35 TraesCS2D01G480200 chr2B 91.429 105 6 3 968 1070 702727636 702727533 1.920000e-29 141.0
36 TraesCS2D01G480200 chr2B 88.073 109 11 2 4836 4944 16903028 16902922 1.500000e-25 128.0
37 TraesCS2D01G480200 chr2B 94.366 71 4 0 1035 1105 699830121 699830051 5.430000e-20 110.0
38 TraesCS2D01G480200 chr2B 92.308 65 4 1 3716 3780 702724582 702724519 1.970000e-14 91.6
39 TraesCS2D01G480200 chr2B 100.000 34 0 0 1072 1105 699830442 699830409 4.280000e-06 63.9
40 TraesCS2D01G480200 chr2A 83.673 2744 331 55 997 3666 687506746 687504046 0.000000e+00 2477.0
41 TraesCS2D01G480200 chr2A 86.717 1709 162 30 1754 3408 718379353 718377656 0.000000e+00 1838.0
42 TraesCS2D01G480200 chr2A 88.889 144 10 2 968 1105 687506811 687506668 6.820000e-39 172.0
43 TraesCS2D01G480200 chr2A 95.890 73 3 0 1033 1105 687506782 687506710 9.010000e-23 119.0
44 TraesCS2D01G480200 chr2A 94.118 68 4 0 3716 3783 687503837 687503770 2.520000e-18 104.0
45 TraesCS2D01G480200 chr2A 94.118 68 4 0 3716 3783 687503932 687503865 2.520000e-18 104.0
46 TraesCS2D01G480200 chr2A 88.235 85 7 2 3701 3783 687504043 687503960 1.170000e-16 99.0
47 TraesCS2D01G480200 chr2A 95.082 61 3 0 3904 3964 687503837 687503777 4.220000e-16 97.1
48 TraesCS2D01G480200 chr2A 85.567 97 8 3 3904 3994 687503932 687503836 4.220000e-16 97.1
49 TraesCS2D01G480200 chr2A 89.189 74 8 0 330 403 194465571 194465498 5.460000e-15 93.5
50 TraesCS2D01G480200 chr2A 93.443 61 3 1 4023 4083 687503672 687503613 7.070000e-14 89.8
51 TraesCS2D01G480200 chr1A 78.958 2590 419 76 1131 3664 566587876 566585357 0.000000e+00 1648.0
52 TraesCS2D01G480200 chr1B 77.747 2157 379 59 1131 3237 657283928 657281823 0.000000e+00 1230.0
53 TraesCS2D01G480200 chr1B 80.312 513 84 12 324 827 61018532 61019036 6.270000e-99 372.0
54 TraesCS2D01G480200 chr1B 87.850 107 11 2 4844 4950 137654020 137653916 1.940000e-24 124.0
55 TraesCS2D01G480200 chr1B 85.321 109 14 2 4836 4944 647202336 647202230 1.510000e-20 111.0
56 TraesCS2D01G480200 chrUn 88.776 392 44 0 1182 1573 479739906 479739515 9.980000e-132 481.0
57 TraesCS2D01G480200 chrUn 84.392 378 46 8 451 823 350272809 350272440 4.880000e-95 359.0
58 TraesCS2D01G480200 chrUn 88.000 50 6 0 324 373 23390919 23390968 5.540000e-05 60.2
59 TraesCS2D01G480200 chr7B 81.731 520 75 13 324 826 722391260 722391776 2.850000e-112 416.0
60 TraesCS2D01G480200 chr7B 90.741 54 4 1 4892 4944 121891508 121891455 2.560000e-08 71.3
61 TraesCS2D01G480200 chr3B 81.836 523 68 11 330 826 672906775 672907296 1.030000e-111 414.0
62 TraesCS2D01G480200 chr3B 81.746 504 62 13 327 826 358679411 358679888 1.340000e-105 394.0
63 TraesCS2D01G480200 chr3B 87.156 109 13 1 4836 4944 663135443 663135550 6.970000e-24 122.0
64 TraesCS2D01G480200 chr3D 81.409 511 83 11 322 826 234628111 234627607 1.720000e-109 407.0
65 TraesCS2D01G480200 chr6D 94.800 250 13 0 4 253 449665903 449665654 1.730000e-104 390.0
66 TraesCS2D01G480200 chr5A 94.444 252 13 1 1 252 438145056 438144806 2.240000e-103 387.0
67 TraesCS2D01G480200 chr5A 94.737 247 12 1 7 253 658803141 658802896 2.900000e-102 383.0
68 TraesCS2D01G480200 chr1D 93.725 255 15 1 1 254 258301191 258301445 1.040000e-101 381.0
69 TraesCS2D01G480200 chr5D 94.024 251 14 1 1 251 301632089 301632338 3.750000e-101 379.0
70 TraesCS2D01G480200 chr7A 93.281 253 17 0 1 253 381687510 381687258 1.740000e-99 374.0
71 TraesCS2D01G480200 chr7D 93.281 253 15 1 1 253 320989348 320989098 6.270000e-99 372.0
72 TraesCS2D01G480200 chr7D 82.423 421 63 10 413 826 602767645 602768061 1.750000e-94 357.0
73 TraesCS2D01G480200 chr5B 75.518 531 101 19 1367 1872 710949097 710948571 3.090000e-57 233.0
74 TraesCS2D01G480200 chr4B 88.991 109 10 2 4836 4944 168573134 168573240 3.220000e-27 134.0


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 TraesCS2D01G480200 chr2D 581522496 581527620 5124 False 9465.000000 9465 100.000000 1 5125 1 chr2D.!!$F2 5124
1 TraesCS2D01G480200 chr2D 438247565 438249917 2352 False 725.700000 1382 79.696500 984 3384 2 chr2D.!!$F3 2400
2 TraesCS2D01G480200 chr2D 583231062 583234039 2977 True 485.800000 1400 91.406167 968 4111 6 chr2D.!!$R2 3143
3 TraesCS2D01G480200 chr2D 410754720 410755241 521 False 424.000000 424 81.801000 321 826 1 chr2D.!!$F1 505
4 TraesCS2D01G480200 chr2D 545498516 545501693 3177 False 325.827273 1406 92.816091 968 4077 11 chr2D.!!$F4 3109
5 TraesCS2D01G480200 chr2B 515912756 515915292 2536 False 1528.000000 1528 78.072000 1122 3664 1 chr2B.!!$F1 2542
6 TraesCS2D01G480200 chr2B 699821669 699831416 9747 True 1097.862500 5476 94.088250 1 5125 8 chr2B.!!$R3 5124
7 TraesCS2D01G480200 chr2B 702724519 702727636 3117 True 823.200000 2237 89.251667 968 3780 3 chr2B.!!$R4 2812
8 TraesCS2D01G480200 chr2B 33695824 33696327 503 True 390.000000 390 81.092000 326 826 1 chr2B.!!$R2 500
9 TraesCS2D01G480200 chr2A 718377656 718379353 1697 True 1838.000000 1838 86.717000 1754 3408 1 chr2A.!!$R2 1654
10 TraesCS2D01G480200 chr2A 687503613 687506811 3198 True 373.222222 2477 91.001667 968 4083 9 chr2A.!!$R3 3115
11 TraesCS2D01G480200 chr1A 566585357 566587876 2519 True 1648.000000 1648 78.958000 1131 3664 1 chr1A.!!$R1 2533
12 TraesCS2D01G480200 chr1B 657281823 657283928 2105 True 1230.000000 1230 77.747000 1131 3237 1 chr1B.!!$R3 2106
13 TraesCS2D01G480200 chr1B 61018532 61019036 504 False 372.000000 372 80.312000 324 827 1 chr1B.!!$F1 503
14 TraesCS2D01G480200 chr7B 722391260 722391776 516 False 416.000000 416 81.731000 324 826 1 chr7B.!!$F1 502
15 TraesCS2D01G480200 chr3B 672906775 672907296 521 False 414.000000 414 81.836000 330 826 1 chr3B.!!$F3 496
16 TraesCS2D01G480200 chr3D 234627607 234628111 504 True 407.000000 407 81.409000 322 826 1 chr3D.!!$R1 504
17 TraesCS2D01G480200 chr5B 710948571 710949097 526 True 233.000000 233 75.518000 1367 1872 1 chr5B.!!$R1 505

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
443 465 0.040692 GGTTCGGTTCGTTTCAAGCC 60.041 55.000 0.00 0.0 0.00 4.35 F
875 914 0.818040 ACAACCCGTTTGACCAGCTC 60.818 55.000 1.26 0.0 38.73 4.09 F
1840 2357 1.144093 CCAAGGTAACCCACACCTCAA 59.856 52.381 0.00 0.0 45.90 3.02 F
2956 3771 1.136774 CGTCGCAGATCGGTCTCAA 59.863 57.895 0.00 0.0 40.67 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2096 2664 0.398696 AATGGCGTGTAGGTGGTCAA 59.601 50.0 0.00 0.00 0.00 3.18 R
2573 3337 2.927553 AATGATTGCGAACCAGCTTC 57.072 45.0 0.00 0.00 38.13 3.86 R
3409 4445 6.641474 TGGCATCTTTTTCATGAAATGCATA 58.359 32.0 30.77 21.77 46.21 3.14 R
4413 9574 0.027586 GCAATAAGTACGGCTTGGCG 59.972 55.0 14.82 14.82 38.05 5.69 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
50 51 2.438975 GCATGGTGGCTGCTGCTA 60.439 61.111 15.64 6.53 39.59 3.49
74 75 2.044280 TCCATCCCCATGCCTCCA 59.956 61.111 0.00 0.00 0.00 3.86
78 79 1.308128 ATCCCCATGCCTCCACTCA 60.308 57.895 0.00 0.00 0.00 3.41
80 81 2.304056 CCCCATGCCTCCACTCAGT 61.304 63.158 0.00 0.00 0.00 3.41
83 84 1.153489 CATGCCTCCACTCAGTCCG 60.153 63.158 0.00 0.00 0.00 4.79
101 102 1.234615 CGACCACCAATCACCACCAC 61.235 60.000 0.00 0.00 0.00 4.16
118 119 2.765807 CGCCCCACTCCTCCTCAT 60.766 66.667 0.00 0.00 0.00 2.90
126 127 4.202727 CCCCACTCCTCCTCATCTTATCTA 60.203 50.000 0.00 0.00 0.00 1.98
188 189 1.064906 ACTCCTGCATGGGTCAATCAG 60.065 52.381 0.00 0.00 36.20 2.90
189 190 1.211212 CTCCTGCATGGGTCAATCAGA 59.789 52.381 0.00 0.00 36.20 3.27
191 192 1.747355 CCTGCATGGGTCAATCAGAAC 59.253 52.381 0.00 0.00 0.00 3.01
192 193 2.439409 CTGCATGGGTCAATCAGAACA 58.561 47.619 0.00 0.00 34.85 3.18
193 194 2.422479 CTGCATGGGTCAATCAGAACAG 59.578 50.000 0.00 0.00 34.85 3.16
196 197 2.566833 TGGGTCAATCAGAACAGGTG 57.433 50.000 0.00 0.00 34.85 4.00
200 201 3.636764 GGGTCAATCAGAACAGGTGTTTT 59.363 43.478 0.00 0.00 38.56 2.43
201 202 4.499696 GGGTCAATCAGAACAGGTGTTTTG 60.500 45.833 6.98 6.98 40.31 2.44
202 203 4.097892 GGTCAATCAGAACAGGTGTTTTGT 59.902 41.667 11.82 0.00 40.00 2.83
279 280 6.094048 GCAACTTAAATAGGACTGCAGATTGA 59.906 38.462 23.35 0.00 31.85 2.57
320 321 0.237235 TTCTGCAAAATCGCCACGAC 59.763 50.000 0.00 0.00 39.18 4.34
325 326 0.791422 CAAAATCGCCACGACGGTAA 59.209 50.000 0.00 0.00 39.18 2.85
328 329 1.880819 AATCGCCACGACGGTAAGGT 61.881 55.000 0.00 0.00 39.18 3.50
443 465 0.040692 GGTTCGGTTCGTTTCAAGCC 60.041 55.000 0.00 0.00 0.00 4.35
485 517 6.580041 GCTTGTTAACAGATTCTGATGTGTTG 59.420 38.462 20.33 6.61 45.91 3.33
525 558 8.194769 AGTGTGTAGATGTGGTTTTTAAAAAGG 58.805 33.333 13.58 0.00 0.00 3.11
548 581 6.712547 AGGAAGATGGTGACTACAAAAGAAAG 59.287 38.462 0.00 0.00 0.00 2.62
578 611 8.978472 ACTAGTTTGTTGCTTCCTATGTAGATA 58.022 33.333 0.00 0.00 0.00 1.98
618 651 6.315144 GGTTGAGGTGCTACAAAATTTTTGTT 59.685 34.615 27.27 12.29 34.11 2.83
706 739 2.668457 AGCTCGTTCGTTAAGCTCAATG 59.332 45.455 0.00 0.00 42.58 2.82
781 818 0.924090 GCTTGACGAGCCGAACTATG 59.076 55.000 2.95 0.00 46.01 2.23
795 832 2.205307 ACTATGGAGCGCTCGTTAAC 57.795 50.000 29.81 16.67 0.00 2.01
796 833 1.749634 ACTATGGAGCGCTCGTTAACT 59.250 47.619 29.81 13.10 0.00 2.24
797 834 2.223525 ACTATGGAGCGCTCGTTAACTC 60.224 50.000 29.81 15.23 0.00 3.01
806 845 2.349297 CTCGTTAACTCCGAGCAACT 57.651 50.000 3.71 0.00 44.42 3.16
809 848 2.816087 TCGTTAACTCCGAGCAACTAGT 59.184 45.455 3.71 0.00 0.00 2.57
815 854 4.067972 ACTCCGAGCAACTAGTTTTTGA 57.932 40.909 5.07 0.00 0.00 2.69
818 857 4.894784 TCCGAGCAACTAGTTTTTGATCT 58.105 39.130 5.07 0.00 37.26 2.75
827 866 6.869206 ACTAGTTTTTGATCTAGCCCTACA 57.131 37.500 0.00 0.00 37.67 2.74
828 867 6.641474 ACTAGTTTTTGATCTAGCCCTACAC 58.359 40.000 0.00 0.00 37.67 2.90
830 869 4.222145 AGTTTTTGATCTAGCCCTACACGA 59.778 41.667 0.00 0.00 0.00 4.35
831 870 4.811969 TTTTGATCTAGCCCTACACGAA 57.188 40.909 0.00 0.00 0.00 3.85
832 871 4.386867 TTTGATCTAGCCCTACACGAAG 57.613 45.455 0.00 0.00 0.00 3.79
833 872 2.307768 TGATCTAGCCCTACACGAAGG 58.692 52.381 0.00 0.00 36.30 3.46
834 873 2.308690 GATCTAGCCCTACACGAAGGT 58.691 52.381 0.00 0.00 34.56 3.50
875 914 0.818040 ACAACCCGTTTGACCAGCTC 60.818 55.000 1.26 0.00 38.73 4.09
964 1003 3.768265 AACCCAACACCCCCTCCCT 62.768 63.158 0.00 0.00 0.00 4.20
1029 1150 1.306997 TGAGGAGGGGAAAGCGGAT 60.307 57.895 0.00 0.00 0.00 4.18
1044 1451 2.192979 GATGGGAAGATGGCGGCA 59.807 61.111 16.34 16.34 0.00 5.69
1050 1457 1.525535 GAAGATGGCGGCAGCTGAT 60.526 57.895 31.13 16.40 44.37 2.90
1070 1477 4.111053 GGGGAAAGCGGAGGGGAC 62.111 72.222 0.00 0.00 0.00 4.46
1840 2357 1.144093 CCAAGGTAACCCACACCTCAA 59.856 52.381 0.00 0.00 45.90 3.02
1912 2432 3.916761 AGCAATGCTGTTTACATGGTTG 58.083 40.909 7.07 0.00 37.57 3.77
2956 3771 1.136774 CGTCGCAGATCGGTCTCAA 59.863 57.895 0.00 0.00 40.67 3.02
3159 3974 5.471456 CCTTCCTAAATGGCAGATGTGTATC 59.529 44.000 0.00 0.00 30.20 2.24
3401 4437 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3402 4438 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3403 4439 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3404 4440 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3406 4442 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
3407 4443 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3408 4444 4.871822 TCTCTCTCTCTCTCTCTCTCTCA 58.128 47.826 0.00 0.00 0.00 3.27
3409 4445 5.462240 TCTCTCTCTCTCTCTCTCTCTCAT 58.538 45.833 0.00 0.00 0.00 2.90
4035 5264 2.084546 GTATGCGCCTCTTGGTTCTTT 58.915 47.619 4.18 0.00 35.27 2.52
4084 5313 4.338118 CCTTGCTTGGAACTGTAAAGTTGA 59.662 41.667 2.08 0.00 31.35 3.18
4094 5323 7.393234 TGGAACTGTAAAGTTGAATTAGGGATG 59.607 37.037 2.08 0.00 31.35 3.51
4149 9310 7.543868 TGGCCATTTAAATAATCACAAAGTTCG 59.456 33.333 0.00 0.00 0.00 3.95
4327 9488 5.578157 TTGGCTAACCTTCTACCTTTCTT 57.422 39.130 0.00 0.00 36.63 2.52
4367 9528 2.966050 TGTTTTGTTTTGGCTCGCTTT 58.034 38.095 0.00 0.00 0.00 3.51
4368 9529 2.670414 TGTTTTGTTTTGGCTCGCTTTG 59.330 40.909 0.00 0.00 0.00 2.77
4369 9530 1.933247 TTTGTTTTGGCTCGCTTTGG 58.067 45.000 0.00 0.00 0.00 3.28
4370 9531 0.529555 TTGTTTTGGCTCGCTTTGGC 60.530 50.000 0.00 0.00 0.00 4.52
4375 9536 2.991540 GGCTCGCTTTGGCCCTTT 60.992 61.111 0.00 0.00 42.30 3.11
4376 9537 2.574018 GGCTCGCTTTGGCCCTTTT 61.574 57.895 0.00 0.00 42.30 2.27
4377 9538 1.367471 GCTCGCTTTGGCCCTTTTT 59.633 52.632 0.00 0.00 34.44 1.94
4401 9562 6.538945 TTTTTGCCTTAGGAGAGTTGTTTT 57.461 33.333 0.69 0.00 0.00 2.43
4402 9563 6.538945 TTTTGCCTTAGGAGAGTTGTTTTT 57.461 33.333 0.69 0.00 0.00 1.94
4403 9564 7.648039 TTTTGCCTTAGGAGAGTTGTTTTTA 57.352 32.000 0.69 0.00 0.00 1.52
4404 9565 6.877611 TTGCCTTAGGAGAGTTGTTTTTAG 57.122 37.500 0.69 0.00 0.00 1.85
4405 9566 5.313712 TGCCTTAGGAGAGTTGTTTTTAGG 58.686 41.667 0.69 0.00 0.00 2.69
4406 9567 5.072600 TGCCTTAGGAGAGTTGTTTTTAGGA 59.927 40.000 0.69 0.00 0.00 2.94
4407 9568 6.181190 GCCTTAGGAGAGTTGTTTTTAGGAT 58.819 40.000 0.69 0.00 0.00 3.24
4408 9569 6.659668 GCCTTAGGAGAGTTGTTTTTAGGATT 59.340 38.462 0.69 0.00 0.00 3.01
4409 9570 7.362142 GCCTTAGGAGAGTTGTTTTTAGGATTG 60.362 40.741 0.69 0.00 0.00 2.67
4410 9571 5.966742 AGGAGAGTTGTTTTTAGGATTGC 57.033 39.130 0.00 0.00 0.00 3.56
4411 9572 5.635120 AGGAGAGTTGTTTTTAGGATTGCT 58.365 37.500 0.00 0.00 0.00 3.91
4412 9573 6.071320 AGGAGAGTTGTTTTTAGGATTGCTT 58.929 36.000 0.00 0.00 0.00 3.91
4413 9574 6.207614 AGGAGAGTTGTTTTTAGGATTGCTTC 59.792 38.462 0.00 0.00 0.00 3.86
4414 9575 6.002062 AGAGTTGTTTTTAGGATTGCTTCG 57.998 37.500 0.00 0.00 0.00 3.79
4415 9576 4.546570 AGTTGTTTTTAGGATTGCTTCGC 58.453 39.130 0.00 0.00 0.00 4.70
4416 9577 3.569250 TGTTTTTAGGATTGCTTCGCC 57.431 42.857 0.00 0.00 0.00 5.54
4417 9578 2.887783 TGTTTTTAGGATTGCTTCGCCA 59.112 40.909 0.00 0.00 0.00 5.69
4418 9579 3.319405 TGTTTTTAGGATTGCTTCGCCAA 59.681 39.130 0.00 0.00 0.00 4.52
4419 9580 3.848272 TTTTAGGATTGCTTCGCCAAG 57.152 42.857 0.00 0.00 0.00 3.61
4427 9588 4.278956 CTTCGCCAAGCCGTACTT 57.721 55.556 0.00 0.00 40.05 2.24
4428 9589 3.429043 CTTCGCCAAGCCGTACTTA 57.571 52.632 0.00 0.00 36.04 2.24
4429 9590 1.935933 CTTCGCCAAGCCGTACTTAT 58.064 50.000 0.00 0.00 36.04 1.73
4430 9591 2.277084 CTTCGCCAAGCCGTACTTATT 58.723 47.619 0.00 0.00 36.04 1.40
4431 9592 1.647346 TCGCCAAGCCGTACTTATTG 58.353 50.000 0.00 0.00 36.04 1.90
4432 9593 0.027586 CGCCAAGCCGTACTTATTGC 59.972 55.000 0.00 0.00 36.04 3.56
4433 9594 1.091537 GCCAAGCCGTACTTATTGCA 58.908 50.000 0.00 0.00 36.04 4.08
4434 9595 1.202143 GCCAAGCCGTACTTATTGCAC 60.202 52.381 0.00 0.00 36.04 4.57
4435 9596 2.356135 CCAAGCCGTACTTATTGCACT 58.644 47.619 0.00 0.00 36.04 4.40
4436 9597 2.747446 CCAAGCCGTACTTATTGCACTT 59.253 45.455 0.00 0.00 36.04 3.16
4437 9598 3.426159 CCAAGCCGTACTTATTGCACTTG 60.426 47.826 0.00 0.00 36.04 3.16
4438 9599 3.053831 AGCCGTACTTATTGCACTTGT 57.946 42.857 0.00 0.00 0.00 3.16
4439 9600 3.408634 AGCCGTACTTATTGCACTTGTT 58.591 40.909 0.00 0.00 0.00 2.83
4440 9601 3.818773 AGCCGTACTTATTGCACTTGTTT 59.181 39.130 0.00 0.00 0.00 2.83
4441 9602 3.911964 GCCGTACTTATTGCACTTGTTTG 59.088 43.478 0.00 0.00 0.00 2.93
4442 9603 4.319911 GCCGTACTTATTGCACTTGTTTGA 60.320 41.667 0.00 0.00 0.00 2.69
4443 9604 5.619086 GCCGTACTTATTGCACTTGTTTGAT 60.619 40.000 0.00 0.00 0.00 2.57
4444 9605 6.378582 CCGTACTTATTGCACTTGTTTGATT 58.621 36.000 0.00 0.00 0.00 2.57
4445 9606 6.523201 CCGTACTTATTGCACTTGTTTGATTC 59.477 38.462 0.00 0.00 0.00 2.52
4446 9607 7.075121 CGTACTTATTGCACTTGTTTGATTCA 58.925 34.615 0.00 0.00 0.00 2.57
4447 9608 7.589587 CGTACTTATTGCACTTGTTTGATTCAA 59.410 33.333 0.00 0.00 0.00 2.69
4448 9609 9.243637 GTACTTATTGCACTTGTTTGATTCAAA 57.756 29.630 7.74 7.74 0.00 2.69
4449 9610 8.891671 ACTTATTGCACTTGTTTGATTCAAAT 57.108 26.923 14.54 0.00 35.74 2.32
4450 9611 8.981647 ACTTATTGCACTTGTTTGATTCAAATC 58.018 29.630 14.54 9.23 35.74 2.17
4451 9612 8.883954 TTATTGCACTTGTTTGATTCAAATCA 57.116 26.923 14.54 11.36 43.28 2.57
4498 9659 4.593033 CCCCCGATCTCCTAACGA 57.407 61.111 0.00 0.00 0.00 3.85
4499 9660 2.816746 CCCCCGATCTCCTAACGAA 58.183 57.895 0.00 0.00 0.00 3.85
4500 9661 0.674534 CCCCCGATCTCCTAACGAAG 59.325 60.000 0.00 0.00 0.00 3.79
4502 9663 2.579873 CCCCGATCTCCTAACGAAGTA 58.420 52.381 0.00 0.00 45.00 2.24
4503 9664 2.553172 CCCCGATCTCCTAACGAAGTAG 59.447 54.545 0.00 0.00 45.00 2.57
4504 9665 2.553172 CCCGATCTCCTAACGAAGTAGG 59.447 54.545 0.00 0.00 45.00 3.18
4505 9666 2.553172 CCGATCTCCTAACGAAGTAGGG 59.447 54.545 10.34 3.97 45.00 3.53
4506 9667 2.030981 CGATCTCCTAACGAAGTAGGGC 60.031 54.545 10.34 0.00 45.00 5.19
4507 9668 2.519771 TCTCCTAACGAAGTAGGGCA 57.480 50.000 10.34 0.00 45.00 5.36
4508 9669 2.097825 TCTCCTAACGAAGTAGGGCAC 58.902 52.381 10.34 0.00 45.00 5.01
4509 9670 1.822990 CTCCTAACGAAGTAGGGCACA 59.177 52.381 10.34 0.00 45.00 4.57
4510 9671 2.431057 CTCCTAACGAAGTAGGGCACAT 59.569 50.000 10.34 0.00 45.00 3.21
4511 9672 2.167693 TCCTAACGAAGTAGGGCACATG 59.832 50.000 10.34 0.00 45.00 3.21
4512 9673 2.093658 CCTAACGAAGTAGGGCACATGT 60.094 50.000 0.00 0.00 45.00 3.21
4513 9674 3.131577 CCTAACGAAGTAGGGCACATGTA 59.868 47.826 0.00 0.00 45.00 2.29
4514 9675 2.667473 ACGAAGTAGGGCACATGTAC 57.333 50.000 0.00 0.00 41.94 2.90
4515 9676 1.206371 ACGAAGTAGGGCACATGTACC 59.794 52.381 6.55 6.55 41.94 3.34
4516 9677 1.206132 CGAAGTAGGGCACATGTACCA 59.794 52.381 17.06 0.00 0.00 3.25
4517 9678 2.158957 CGAAGTAGGGCACATGTACCAT 60.159 50.000 17.06 12.48 0.00 3.55
4518 9679 3.467803 GAAGTAGGGCACATGTACCATC 58.532 50.000 17.06 10.22 0.00 3.51
4519 9680 2.764269 AGTAGGGCACATGTACCATCT 58.236 47.619 17.06 8.11 0.00 2.90
4520 9681 3.115390 AGTAGGGCACATGTACCATCTT 58.885 45.455 17.06 0.00 0.00 2.40
4521 9682 2.425143 AGGGCACATGTACCATCTTG 57.575 50.000 17.06 0.00 0.00 3.02
4522 9683 1.915489 AGGGCACATGTACCATCTTGA 59.085 47.619 17.06 0.00 0.00 3.02
4523 9684 2.511218 AGGGCACATGTACCATCTTGAT 59.489 45.455 17.06 0.00 0.00 2.57
4524 9685 3.716353 AGGGCACATGTACCATCTTGATA 59.284 43.478 17.06 0.00 0.00 2.15
4525 9686 4.352001 AGGGCACATGTACCATCTTGATAT 59.648 41.667 17.06 0.00 0.00 1.63
4526 9687 4.456911 GGGCACATGTACCATCTTGATATG 59.543 45.833 17.06 0.00 0.00 1.78
4527 9688 5.065914 GGCACATGTACCATCTTGATATGT 58.934 41.667 10.44 0.00 0.00 2.29
4528 9689 5.049198 GGCACATGTACCATCTTGATATGTG 60.049 44.000 10.44 14.35 43.93 3.21
4529 9690 5.993891 CACATGTACCATCTTGATATGTGC 58.006 41.667 0.00 3.46 37.97 4.57
4530 9691 5.049198 CACATGTACCATCTTGATATGTGCC 60.049 44.000 0.00 0.00 37.97 5.01
4531 9692 4.769345 TGTACCATCTTGATATGTGCCA 57.231 40.909 0.00 0.00 0.00 4.92
4532 9693 5.109500 TGTACCATCTTGATATGTGCCAA 57.891 39.130 0.00 0.00 0.00 4.52
4533 9694 5.504853 TGTACCATCTTGATATGTGCCAAA 58.495 37.500 0.00 0.00 0.00 3.28
4534 9695 5.589855 TGTACCATCTTGATATGTGCCAAAG 59.410 40.000 0.00 0.00 0.00 2.77
4535 9696 4.603131 ACCATCTTGATATGTGCCAAAGT 58.397 39.130 0.00 0.00 0.00 2.66
4536 9697 4.641989 ACCATCTTGATATGTGCCAAAGTC 59.358 41.667 0.00 0.00 0.00 3.01
4537 9698 4.885907 CCATCTTGATATGTGCCAAAGTCT 59.114 41.667 0.00 0.00 0.00 3.24
4538 9699 5.359009 CCATCTTGATATGTGCCAAAGTCTT 59.641 40.000 0.00 0.00 0.00 3.01
4539 9700 6.127535 CCATCTTGATATGTGCCAAAGTCTTT 60.128 38.462 0.00 0.00 0.00 2.52
4540 9701 6.899393 TCTTGATATGTGCCAAAGTCTTTT 57.101 33.333 0.00 0.00 0.00 2.27
4859 10429 1.602327 AACCGCCCTAGTTCGAGTCC 61.602 60.000 2.87 0.00 0.00 3.85
4872 10442 3.672295 GAGTCCTGGCTTGGGCGAG 62.672 68.421 0.00 0.00 42.66 5.03
4971 10541 7.491372 AGAATCATGTTGATGCAGCAATAAAAG 59.509 33.333 21.76 12.28 37.15 2.27
5095 10665 3.251974 GCATGCAGGCGCTATCTC 58.748 61.111 14.21 0.00 39.64 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.751806 CAGATTGTTCCAGAGGCTTTCC 59.248 50.000 0.00 0.00 0.00 3.13
50 51 2.764128 ATGGGGATGGACGACGCT 60.764 61.111 0.00 0.00 0.00 5.07
74 75 0.608640 GATTGGTGGTCGGACTGAGT 59.391 55.000 8.23 0.00 0.00 3.41
78 79 1.125093 TGGTGATTGGTGGTCGGACT 61.125 55.000 8.23 0.00 0.00 3.85
80 81 1.373435 GTGGTGATTGGTGGTCGGA 59.627 57.895 0.00 0.00 0.00 4.55
83 84 1.234615 CGTGGTGGTGATTGGTGGTC 61.235 60.000 0.00 0.00 0.00 4.02
101 102 2.765807 ATGAGGAGGAGTGGGGCG 60.766 66.667 0.00 0.00 0.00 6.13
126 127 8.877864 ACTAATGATATCTCGAGAAAGAGGAT 57.122 34.615 20.91 3.19 38.71 3.24
279 280 6.879458 AGAAAACTCCTGCTGAATTACGTATT 59.121 34.615 0.00 0.00 0.00 1.89
320 321 2.606272 GCTCGTTAATCCAACCTTACCG 59.394 50.000 0.00 0.00 33.19 4.02
325 326 1.279271 AGCAGCTCGTTAATCCAACCT 59.721 47.619 0.00 0.00 33.19 3.50
328 329 2.621338 CTGAGCAGCTCGTTAATCCAA 58.379 47.619 17.81 0.00 32.35 3.53
485 517 3.895232 ACACACTCATCATGTAGACCC 57.105 47.619 0.00 0.00 0.00 4.46
525 558 7.355778 CACTTTCTTTTGTAGTCACCATCTTC 58.644 38.462 0.00 0.00 0.00 2.87
548 581 2.618709 AGGAAGCAACAAACTAGTGCAC 59.381 45.455 9.40 9.40 0.00 4.57
578 611 6.096846 GCACCTCAACCCATCTACATATTTTT 59.903 38.462 0.00 0.00 0.00 1.94
586 619 2.500098 TGTAGCACCTCAACCCATCTAC 59.500 50.000 0.00 0.00 0.00 2.59
618 651 9.571810 ACATAACACGTATTTTTATCTCACGTA 57.428 29.630 0.00 0.00 43.37 3.57
635 668 5.344128 AGCTCGTTAGTAACAACATAACACG 59.656 40.000 13.33 0.00 31.25 4.49
781 818 1.872679 CGGAGTTAACGAGCGCTCC 60.873 63.158 30.66 16.60 42.90 4.70
795 832 4.932200 AGATCAAAAACTAGTTGCTCGGAG 59.068 41.667 9.34 0.00 0.00 4.63
796 833 4.894784 AGATCAAAAACTAGTTGCTCGGA 58.105 39.130 9.34 3.76 0.00 4.55
797 834 5.220491 GCTAGATCAAAAACTAGTTGCTCGG 60.220 44.000 9.34 0.00 38.51 4.63
806 845 5.419788 TCGTGTAGGGCTAGATCAAAAACTA 59.580 40.000 0.00 0.00 0.00 2.24
809 848 4.811969 TCGTGTAGGGCTAGATCAAAAA 57.188 40.909 0.00 0.00 0.00 1.94
815 854 2.032620 CACCTTCGTGTAGGGCTAGAT 58.967 52.381 0.00 0.00 39.76 1.98
818 857 1.547372 GTTCACCTTCGTGTAGGGCTA 59.453 52.381 0.00 0.00 41.09 3.93
827 866 1.202651 CCACTTCCAGTTCACCTTCGT 60.203 52.381 0.00 0.00 0.00 3.85
828 867 1.512926 CCACTTCCAGTTCACCTTCG 58.487 55.000 0.00 0.00 0.00 3.79
830 869 0.178990 GGCCACTTCCAGTTCACCTT 60.179 55.000 0.00 0.00 0.00 3.50
831 870 1.456287 GGCCACTTCCAGTTCACCT 59.544 57.895 0.00 0.00 0.00 4.00
832 871 1.603739 GGGCCACTTCCAGTTCACC 60.604 63.158 4.39 0.00 0.00 4.02
833 872 0.467290 TTGGGCCACTTCCAGTTCAC 60.467 55.000 5.23 0.00 35.48 3.18
834 873 0.260230 TTTGGGCCACTTCCAGTTCA 59.740 50.000 5.23 0.00 35.48 3.18
835 874 1.408969 TTTTGGGCCACTTCCAGTTC 58.591 50.000 5.23 0.00 35.48 3.01
836 875 1.872773 TTTTTGGGCCACTTCCAGTT 58.127 45.000 5.23 0.00 35.48 3.16
837 876 3.625314 TTTTTGGGCCACTTCCAGT 57.375 47.368 5.23 0.00 35.48 4.00
859 898 1.071471 CAGAGCTGGTCAAACGGGT 59.929 57.895 9.78 0.00 0.00 5.28
875 914 4.767255 GTGCGACCCAGAGGCCAG 62.767 72.222 5.01 0.00 36.11 4.85
914 953 1.807142 GTAGTTGCCTGCTTGGTCTTC 59.193 52.381 0.00 0.00 38.35 2.87
917 956 1.298859 CGGTAGTTGCCTGCTTGGTC 61.299 60.000 0.00 0.00 38.35 4.02
918 957 1.302511 CGGTAGTTGCCTGCTTGGT 60.303 57.895 0.00 0.00 38.35 3.67
936 975 0.528901 GTGTTGGGTTTGGCCGTTTC 60.529 55.000 0.00 0.00 38.44 2.78
1029 1150 4.802051 GCTGCCGCCATCTTCCCA 62.802 66.667 0.00 0.00 0.00 4.37
1044 1451 1.222936 CGCTTTCCCCTCATCAGCT 59.777 57.895 0.00 0.00 0.00 4.24
1050 1457 3.009115 CCCTCCGCTTTCCCCTCA 61.009 66.667 0.00 0.00 0.00 3.86
1105 1548 1.811645 GAGCGGTCAGGATAGGAGGC 61.812 65.000 10.30 0.00 0.00 4.70
1912 2432 3.485947 TGCGTAGATGACATTTTTGCC 57.514 42.857 0.00 0.00 0.00 4.52
2096 2664 0.398696 AATGGCGTGTAGGTGGTCAA 59.601 50.000 0.00 0.00 0.00 3.18
2573 3337 2.927553 AATGATTGCGAACCAGCTTC 57.072 45.000 0.00 0.00 38.13 3.86
3159 3974 6.968904 GCATGTGTAGATAAAACCATCAACAG 59.031 38.462 0.00 0.00 0.00 3.16
3401 4437 9.452065 CTTTTTCATGAAATGCATATGAGAGAG 57.548 33.333 21.10 2.39 46.21 3.20
3402 4438 9.181061 TCTTTTTCATGAAATGCATATGAGAGA 57.819 29.630 21.10 7.85 46.21 3.10
3403 4439 9.967346 ATCTTTTTCATGAAATGCATATGAGAG 57.033 29.630 21.10 5.83 46.21 3.20
3404 4440 9.744468 CATCTTTTTCATGAAATGCATATGAGA 57.256 29.630 21.10 13.37 46.21 3.27
3406 4442 7.439955 GGCATCTTTTTCATGAAATGCATATGA 59.560 33.333 30.77 19.90 46.21 2.15
3407 4443 7.225734 TGGCATCTTTTTCATGAAATGCATATG 59.774 33.333 30.77 23.55 46.21 1.78
3408 4444 7.276658 TGGCATCTTTTTCATGAAATGCATAT 58.723 30.769 30.77 16.25 46.21 1.78
3409 4445 6.641474 TGGCATCTTTTTCATGAAATGCATA 58.359 32.000 30.77 21.77 46.21 3.14
4035 5264 6.039159 TGCATACAAGTTCACAGAATTCACAA 59.961 34.615 8.44 0.00 0.00 3.33
4084 5313 3.403228 ACCCAATGCACATCCCTAATT 57.597 42.857 0.00 0.00 0.00 1.40
4094 5323 6.449635 TCACTTCATATAAACCCAATGCAC 57.550 37.500 0.00 0.00 0.00 4.57
4149 9310 2.038426 GTGGCCCCCAATAATTAATGCC 59.962 50.000 0.00 2.96 34.18 4.40
4202 9363 3.096092 ACACCACACAACACCTGATTTT 58.904 40.909 0.00 0.00 0.00 1.82
4327 9488 9.463443 CAAAACATGTAAACCCAAAAACAAAAA 57.537 25.926 0.00 0.00 0.00 1.94
4378 9539 6.538945 AAAACAACTCTCCTAAGGCAAAAA 57.461 33.333 0.00 0.00 0.00 1.94
4379 9540 6.538945 AAAAACAACTCTCCTAAGGCAAAA 57.461 33.333 0.00 0.00 0.00 2.44
4380 9541 6.264518 CCTAAAAACAACTCTCCTAAGGCAAA 59.735 38.462 0.00 0.00 0.00 3.68
4381 9542 5.768164 CCTAAAAACAACTCTCCTAAGGCAA 59.232 40.000 0.00 0.00 0.00 4.52
4382 9543 5.072600 TCCTAAAAACAACTCTCCTAAGGCA 59.927 40.000 0.00 0.00 0.00 4.75
4383 9544 5.557866 TCCTAAAAACAACTCTCCTAAGGC 58.442 41.667 0.00 0.00 0.00 4.35
4384 9545 7.362142 GCAATCCTAAAAACAACTCTCCTAAGG 60.362 40.741 0.00 0.00 0.00 2.69
4385 9546 7.391833 AGCAATCCTAAAAACAACTCTCCTAAG 59.608 37.037 0.00 0.00 0.00 2.18
4386 9547 7.231467 AGCAATCCTAAAAACAACTCTCCTAA 58.769 34.615 0.00 0.00 0.00 2.69
4387 9548 6.779860 AGCAATCCTAAAAACAACTCTCCTA 58.220 36.000 0.00 0.00 0.00 2.94
4388 9549 5.635120 AGCAATCCTAAAAACAACTCTCCT 58.365 37.500 0.00 0.00 0.00 3.69
4389 9550 5.966742 AGCAATCCTAAAAACAACTCTCC 57.033 39.130 0.00 0.00 0.00 3.71
4390 9551 6.080406 CGAAGCAATCCTAAAAACAACTCTC 58.920 40.000 0.00 0.00 0.00 3.20
4391 9552 6.002062 CGAAGCAATCCTAAAAACAACTCT 57.998 37.500 0.00 0.00 0.00 3.24
4410 9571 1.935933 ATAAGTACGGCTTGGCGAAG 58.064 50.000 22.62 3.77 38.05 3.79
4411 9572 2.004017 CAATAAGTACGGCTTGGCGAA 58.996 47.619 22.62 3.70 38.05 4.70
4412 9573 1.647346 CAATAAGTACGGCTTGGCGA 58.353 50.000 22.62 4.32 38.05 5.54
4413 9574 0.027586 GCAATAAGTACGGCTTGGCG 59.972 55.000 14.82 14.82 38.05 5.69
4414 9575 1.091537 TGCAATAAGTACGGCTTGGC 58.908 50.000 5.00 6.51 38.05 4.52
4415 9576 2.356135 AGTGCAATAAGTACGGCTTGG 58.644 47.619 0.00 0.00 38.05 3.61
4416 9577 3.188460 ACAAGTGCAATAAGTACGGCTTG 59.812 43.478 0.00 0.00 38.05 4.01
4417 9578 3.408634 ACAAGTGCAATAAGTACGGCTT 58.591 40.909 0.00 0.00 37.96 4.35
4418 9579 3.053831 ACAAGTGCAATAAGTACGGCT 57.946 42.857 0.00 0.00 37.96 5.52
4419 9580 3.824414 AACAAGTGCAATAAGTACGGC 57.176 42.857 0.00 0.00 37.96 5.68
4420 9581 5.351233 TCAAACAAGTGCAATAAGTACGG 57.649 39.130 0.00 0.00 37.96 4.02
4421 9582 7.075121 TGAATCAAACAAGTGCAATAAGTACG 58.925 34.615 0.00 0.00 37.96 3.67
4422 9583 8.795786 TTGAATCAAACAAGTGCAATAAGTAC 57.204 30.769 0.00 0.00 0.00 2.73
4423 9584 9.979578 ATTTGAATCAAACAAGTGCAATAAGTA 57.020 25.926 10.91 0.00 36.13 2.24
4424 9585 8.891671 ATTTGAATCAAACAAGTGCAATAAGT 57.108 26.923 10.91 0.00 36.13 2.24
4425 9586 8.980610 TGATTTGAATCAAACAAGTGCAATAAG 58.019 29.630 10.91 0.00 42.11 1.73
4426 9587 8.883954 TGATTTGAATCAAACAAGTGCAATAA 57.116 26.923 10.91 0.00 42.11 1.40
4481 9642 0.674534 CTTCGTTAGGAGATCGGGGG 59.325 60.000 0.00 0.00 0.00 5.40
4482 9643 1.400737 ACTTCGTTAGGAGATCGGGG 58.599 55.000 0.00 0.00 0.00 5.73
4483 9644 2.553172 CCTACTTCGTTAGGAGATCGGG 59.447 54.545 1.75 0.00 36.91 5.14
4484 9645 2.553172 CCCTACTTCGTTAGGAGATCGG 59.447 54.545 8.52 0.00 36.91 4.18
4485 9646 2.030981 GCCCTACTTCGTTAGGAGATCG 60.031 54.545 8.52 0.00 36.91 3.69
4486 9647 2.957006 TGCCCTACTTCGTTAGGAGATC 59.043 50.000 8.52 0.00 36.91 2.75
4487 9648 2.694109 GTGCCCTACTTCGTTAGGAGAT 59.306 50.000 8.52 0.00 36.91 2.75
4488 9649 2.097825 GTGCCCTACTTCGTTAGGAGA 58.902 52.381 8.52 0.00 36.91 3.71
4489 9650 1.822990 TGTGCCCTACTTCGTTAGGAG 59.177 52.381 8.52 1.77 35.51 3.69
4490 9651 1.927487 TGTGCCCTACTTCGTTAGGA 58.073 50.000 8.52 0.00 35.51 2.94
4491 9652 2.093658 ACATGTGCCCTACTTCGTTAGG 60.094 50.000 0.00 1.79 0.00 2.69
4492 9653 3.247006 ACATGTGCCCTACTTCGTTAG 57.753 47.619 0.00 0.00 0.00 2.34
4493 9654 3.119029 GGTACATGTGCCCTACTTCGTTA 60.119 47.826 21.39 0.00 0.00 3.18
4494 9655 2.354403 GGTACATGTGCCCTACTTCGTT 60.354 50.000 21.39 0.00 0.00 3.85
4495 9656 1.206371 GGTACATGTGCCCTACTTCGT 59.794 52.381 21.39 0.00 0.00 3.85
4496 9657 1.206132 TGGTACATGTGCCCTACTTCG 59.794 52.381 27.61 0.00 34.17 3.79
4506 9667 8.810617 TTGGCACATATCAAGATGGTACATGTG 61.811 40.741 9.11 14.25 41.58 3.21
4507 9668 6.859836 TTGGCACATATCAAGATGGTACATGT 60.860 38.462 2.69 2.69 41.58 3.21
4508 9669 5.532032 TTGGCACATATCAAGATGGTACATG 59.468 40.000 0.00 0.00 41.58 3.21
4509 9670 5.693961 TTGGCACATATCAAGATGGTACAT 58.306 37.500 0.00 0.00 41.58 2.29
4510 9671 5.109500 TTGGCACATATCAAGATGGTACA 57.891 39.130 0.00 0.00 41.54 2.90
4511 9672 5.590259 ACTTTGGCACATATCAAGATGGTAC 59.410 40.000 1.61 0.00 39.30 3.34
4512 9673 5.754782 ACTTTGGCACATATCAAGATGGTA 58.245 37.500 1.61 0.00 39.30 3.25
4513 9674 4.603131 ACTTTGGCACATATCAAGATGGT 58.397 39.130 1.61 0.00 39.30 3.55
4514 9675 4.885907 AGACTTTGGCACATATCAAGATGG 59.114 41.667 1.61 0.00 39.30 3.51
4515 9676 6.446781 AAGACTTTGGCACATATCAAGATG 57.553 37.500 1.61 0.00 39.30 2.90
4516 9677 7.395489 AGAAAAGACTTTGGCACATATCAAGAT 59.605 33.333 0.06 0.00 39.30 2.40
4517 9678 6.716628 AGAAAAGACTTTGGCACATATCAAGA 59.283 34.615 0.06 0.00 39.30 3.02
4518 9679 6.917533 AGAAAAGACTTTGGCACATATCAAG 58.082 36.000 0.06 0.00 39.30 3.02
4519 9680 6.071952 GGAGAAAAGACTTTGGCACATATCAA 60.072 38.462 0.06 0.00 39.30 2.57
4520 9681 5.415701 GGAGAAAAGACTTTGGCACATATCA 59.584 40.000 0.06 0.00 39.30 2.15
4521 9682 5.649831 AGGAGAAAAGACTTTGGCACATATC 59.350 40.000 0.06 0.00 39.30 1.63
4522 9683 5.574188 AGGAGAAAAGACTTTGGCACATAT 58.426 37.500 0.06 0.00 39.30 1.78
4523 9684 4.985538 AGGAGAAAAGACTTTGGCACATA 58.014 39.130 0.06 0.00 39.30 2.29
4524 9685 3.837355 AGGAGAAAAGACTTTGGCACAT 58.163 40.909 0.06 0.00 39.30 3.21
4525 9686 3.297134 AGGAGAAAAGACTTTGGCACA 57.703 42.857 0.06 0.00 0.00 4.57
4526 9687 4.655762 AAAGGAGAAAAGACTTTGGCAC 57.344 40.909 0.06 0.00 33.53 5.01
4527 9688 4.956075 AGAAAAGGAGAAAAGACTTTGGCA 59.044 37.500 0.06 0.00 34.89 4.92
4528 9689 5.521906 AGAAAAGGAGAAAAGACTTTGGC 57.478 39.130 0.06 0.00 34.89 4.52
4529 9690 7.819415 ACAAAAGAAAAGGAGAAAAGACTTTGG 59.181 33.333 0.06 0.00 34.89 3.28
4530 9691 8.650714 CACAAAAGAAAAGGAGAAAAGACTTTG 58.349 33.333 0.06 0.00 34.89 2.77
4531 9692 7.819415 CCACAAAAGAAAAGGAGAAAAGACTTT 59.181 33.333 0.00 0.00 36.09 2.66
4532 9693 7.323420 CCACAAAAGAAAAGGAGAAAAGACTT 58.677 34.615 0.00 0.00 0.00 3.01
4533 9694 6.127338 CCCACAAAAGAAAAGGAGAAAAGACT 60.127 38.462 0.00 0.00 0.00 3.24
4534 9695 6.042777 CCCACAAAAGAAAAGGAGAAAAGAC 58.957 40.000 0.00 0.00 0.00 3.01
4535 9696 5.955355 TCCCACAAAAGAAAAGGAGAAAAGA 59.045 36.000 0.00 0.00 0.00 2.52
4536 9697 6.220726 TCCCACAAAAGAAAAGGAGAAAAG 57.779 37.500 0.00 0.00 0.00 2.27
4537 9698 6.403049 GTTCCCACAAAAGAAAAGGAGAAAA 58.597 36.000 0.00 0.00 0.00 2.29
4538 9699 5.105106 GGTTCCCACAAAAGAAAAGGAGAAA 60.105 40.000 0.00 0.00 0.00 2.52
4539 9700 4.404394 GGTTCCCACAAAAGAAAAGGAGAA 59.596 41.667 0.00 0.00 0.00 2.87
4540 9701 3.958147 GGTTCCCACAAAAGAAAAGGAGA 59.042 43.478 0.00 0.00 0.00 3.71
4593 10163 6.649557 AGAAGACGTAATTTTAGGTTCCACAG 59.350 38.462 0.00 0.00 32.48 3.66
4701 10271 0.915364 AGGGGAGACTGGAATTCTGC 59.085 55.000 5.23 0.00 0.00 4.26
4849 10419 1.674057 CCAAGCCAGGACTCGAACT 59.326 57.895 0.00 0.00 0.00 3.01
4875 10445 4.495690 AGGAGAAAATCTCTAAGCACCC 57.504 45.455 7.27 0.00 42.95 4.61
4971 10541 1.213296 ACACCCCTATCACCATGTCC 58.787 55.000 0.00 0.00 0.00 4.02
5088 10658 2.814269 TGCACAGTCAATCGAGATAGC 58.186 47.619 0.00 0.00 0.00 2.97
5095 10665 4.345271 TGAATCATTGCACAGTCAATCG 57.655 40.909 0.00 0.00 34.68 3.34


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

AutoCloner maintained by Alex Coulton.