Multiple sequence alignment - TraesCS3B01G219900

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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 TraesCS3B01G219900 chr3B 100.000 2580 0 0 2433 5012 266565309 266567888 0.000000e+00 4765.0
1 TraesCS3B01G219900 chr3B 100.000 2049 0 0 1 2049 266562877 266564925 0.000000e+00 3784.0
2 TraesCS3B01G219900 chr3B 87.958 382 46 0 3636 4017 254776609 254776228 7.650000e-123 451.0
3 TraesCS3B01G219900 chr3B 83.929 392 56 5 370 759 594457988 594457602 7.930000e-98 368.0
4 TraesCS3B01G219900 chr3B 89.091 110 8 4 997 1104 254779962 254779855 3.150000e-27 134.0
5 TraesCS3B01G219900 chr3B 97.727 44 1 0 4734 4777 560117404 560117361 5.380000e-10 76.8
6 TraesCS3B01G219900 chr3D 96.039 2045 36 23 2528 4533 185791304 185793342 0.000000e+00 3286.0
7 TraesCS3B01G219900 chr3D 94.189 740 17 4 1332 2049 185790578 185791313 0.000000e+00 1105.0
8 TraesCS3B01G219900 chr3D 95.467 353 11 4 761 1112 185789890 185790238 4.380000e-155 558.0
9 TraesCS3B01G219900 chr3D 98.413 252 4 0 1080 1331 185790242 185790493 1.280000e-120 444.0
10 TraesCS3B01G219900 chr3D 87.173 382 49 0 3636 4017 175405287 175404906 7.710000e-118 435.0
11 TraesCS3B01G219900 chr3D 96.804 219 7 0 4525 4743 185798360 185798142 2.850000e-97 366.0
12 TraesCS3B01G219900 chr3D 86.290 248 17 10 4782 5012 185798144 185797897 2.320000e-63 254.0
13 TraesCS3B01G219900 chr3D 90.000 110 7 4 997 1104 175408287 175408180 6.770000e-29 139.0
14 TraesCS3B01G219900 chr3A 96.979 1622 32 8 2528 4133 246043376 246041756 0.000000e+00 2708.0
15 TraesCS3B01G219900 chr3A 95.135 740 12 8 1332 2049 246044104 246043367 0.000000e+00 1146.0
16 TraesCS3B01G219900 chr3A 95.426 634 6 3 4132 4743 246041518 246040886 0.000000e+00 989.0
17 TraesCS3B01G219900 chr3A 92.267 569 18 7 763 1331 246044731 246044189 0.000000e+00 784.0
18 TraesCS3B01G219900 chr3A 87.792 385 46 1 3636 4019 215479565 215479181 2.750000e-122 449.0
19 TraesCS3B01G219900 chr3A 93.103 145 6 1 4782 4926 246040888 246040748 5.080000e-50 209.0
20 TraesCS3B01G219900 chr3A 89.623 106 8 3 997 1100 215482212 215482108 1.130000e-26 132.0
21 TraesCS3B01G219900 chr5D 91.473 774 51 6 1 764 152788477 152787709 0.000000e+00 1050.0
22 TraesCS3B01G219900 chr5A 90.168 773 55 8 1 764 237554998 237554238 0.000000e+00 987.0
23 TraesCS3B01G219900 chr5A 99.010 101 1 0 2433 2533 117508022 117508122 1.110000e-41 182.0
24 TraesCS3B01G219900 chr5A 100.000 97 0 0 2433 2529 512254244 512254340 3.990000e-41 180.0
25 TraesCS3B01G219900 chr2B 84.518 394 51 8 370 760 135131189 135131575 1.020000e-101 381.0
26 TraesCS3B01G219900 chr2B 84.987 373 52 4 370 742 694758779 694758411 4.740000e-100 375.0
27 TraesCS3B01G219900 chr2B 84.718 373 53 4 370 742 694801790 694801422 2.200000e-98 370.0
28 TraesCS3B01G219900 chr2B 86.087 115 8 7 967 1078 77168946 77169055 3.170000e-22 117.0
29 TraesCS3B01G219900 chr2B 93.478 46 1 2 4734 4777 459703573 459703528 3.240000e-07 67.6
30 TraesCS3B01G219900 chr6D 83.376 391 59 6 370 759 4674046 4674431 1.720000e-94 357.0
31 TraesCS3B01G219900 chr2D 83.418 392 57 8 370 759 584877561 584877946 1.720000e-94 357.0
32 TraesCS3B01G219900 chr2D 91.765 85 5 2 994 1078 49875917 49875999 3.170000e-22 117.0
33 TraesCS3B01G219900 chr2D 87.719 57 5 2 4719 4774 629560648 629560703 1.160000e-06 65.8
34 TraesCS3B01G219900 chr7D 83.333 390 60 5 370 759 448265421 448265037 6.170000e-94 355.0
35 TraesCS3B01G219900 chrUn 100.000 97 0 0 2433 2529 8841291 8841195 3.990000e-41 180.0
36 TraesCS3B01G219900 chrUn 100.000 97 0 0 2433 2529 40706796 40706892 3.990000e-41 180.0
37 TraesCS3B01G219900 chrUn 100.000 97 0 0 2433 2529 71055704 71055800 3.990000e-41 180.0
38 TraesCS3B01G219900 chrUn 100.000 97 0 0 2433 2529 87980809 87980905 3.990000e-41 180.0
39 TraesCS3B01G219900 chrUn 100.000 97 0 0 2433 2529 88100172 88100268 3.990000e-41 180.0
40 TraesCS3B01G219900 chrUn 100.000 97 0 0 2433 2529 255038330 255038234 3.990000e-41 180.0
41 TraesCS3B01G219900 chrUn 100.000 97 0 0 2433 2529 354972500 354972404 3.990000e-41 180.0
42 TraesCS3B01G219900 chr2A 91.765 85 5 2 994 1078 51582356 51582438 3.170000e-22 117.0
43 TraesCS3B01G219900 chr4D 92.405 79 6 0 1001 1079 312801842 312801764 4.100000e-21 113.0
44 TraesCS3B01G219900 chr7B 97.674 43 1 0 4735 4777 421056973 421056931 1.940000e-09 75.0
45 TraesCS3B01G219900 chr6B 92.308 52 1 2 4726 4774 336181199 336181250 2.500000e-08 71.3
46 TraesCS3B01G219900 chr6B 92.000 50 4 0 4728 4777 534500495 534500544 2.500000e-08 71.3
47 TraesCS3B01G219900 chr6B 90.566 53 4 1 4731 4783 552499543 552499492 9.000000e-08 69.4
48 TraesCS3B01G219900 chr5B 93.478 46 1 2 4734 4777 50175730 50175685 3.240000e-07 67.6
49 TraesCS3B01G219900 chr4A 89.091 55 4 2 4720 4774 669045735 669045683 3.240000e-07 67.6


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 TraesCS3B01G219900 chr3B 266562877 266567888 5011 False 4274.50 4765 100.0000 1 5012 2 chr3B.!!$F1 5011
1 TraesCS3B01G219900 chr3B 254776228 254779962 3734 True 292.50 451 88.5245 997 4017 2 chr3B.!!$R3 3020
2 TraesCS3B01G219900 chr3D 185789890 185793342 3452 False 1348.25 3286 96.0270 761 4533 4 chr3D.!!$F1 3772
3 TraesCS3B01G219900 chr3D 175404906 175408287 3381 True 287.00 435 88.5865 997 4017 2 chr3D.!!$R1 3020
4 TraesCS3B01G219900 chr3A 246040748 246044731 3983 True 1167.20 2708 94.5820 763 4926 5 chr3A.!!$R2 4163
5 TraesCS3B01G219900 chr3A 215479181 215482212 3031 True 290.50 449 88.7075 997 4019 2 chr3A.!!$R1 3022
6 TraesCS3B01G219900 chr5D 152787709 152788477 768 True 1050.00 1050 91.4730 1 764 1 chr5D.!!$R1 763
7 TraesCS3B01G219900 chr5A 237554238 237554998 760 True 987.00 987 90.1680 1 764 1 chr5A.!!$R1 763

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
788 800 0.179225 CGCAGCGACACATTGTTACC 60.179 55.000 9.98 0.0 0.00 2.85 F
1082 1094 0.338814 AAGGATGGGGACGGTACTCT 59.661 55.000 0.00 0.0 0.00 3.24 F
1971 3516 1.128692 GATCTGCGGGAAGTGTTTTCG 59.871 52.381 0.00 0.0 0.00 3.46 F
2520 4065 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.0 44.78 4.85 F
2522 4067 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.0 0.00 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2444 3989 0.248289 TGTAGGGAAAGGCTGCGTAC 59.752 55.000 0.00 0.00 37.28 3.67 R
2446 3991 0.328258 AATGTAGGGAAAGGCTGCGT 59.672 50.000 0.00 0.00 0.00 5.24 R
3192 4752 0.394192 CCTGTGTCAAGGCTCAGACA 59.606 55.000 16.03 16.03 42.06 3.41 R
3622 6145 1.542547 GCAACCTGGAAAGGAGACGAA 60.543 52.381 0.00 0.00 0.00 3.85 R
4405 8169 3.151912 AGCCATTCAAGCTGAAGAACT 57.848 42.857 0.00 0.00 40.05 3.01 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
28 29 3.559597 CCCCGTGTAATACCTTGTTTCCA 60.560 47.826 0.00 0.00 0.00 3.53
31 32 5.184287 CCCGTGTAATACCTTGTTTCCAAAT 59.816 40.000 0.00 0.00 0.00 2.32
184 194 1.984288 ATTAAGTGGCGGCCTCTCCC 61.984 60.000 22.60 4.80 0.00 4.30
235 245 1.660355 CTCCGGCGAGCTAGCAATA 59.340 57.895 20.82 3.78 39.27 1.90
241 251 1.605712 GGCGAGCTAGCAATAATCGGT 60.606 52.381 20.82 0.00 39.27 4.69
259 269 5.925506 TCGGTCTGTCCTTGTTGATTATA 57.074 39.130 0.00 0.00 0.00 0.98
310 320 4.130118 CAGGTACTTTGACAACTGCTCTT 58.870 43.478 0.00 0.00 34.60 2.85
315 325 4.737054 ACTTTGACAACTGCTCTTTGTTG 58.263 39.130 0.00 0.00 46.19 3.33
503 513 6.014327 ACCATTGATTGATGCTAAGGTTGTTT 60.014 34.615 0.00 0.00 0.00 2.83
505 515 6.403866 TTGATTGATGCTAAGGTTGTTTGT 57.596 33.333 0.00 0.00 0.00 2.83
509 519 5.437289 TGATGCTAAGGTTGTTTGTTCTG 57.563 39.130 0.00 0.00 0.00 3.02
510 520 5.129634 TGATGCTAAGGTTGTTTGTTCTGA 58.870 37.500 0.00 0.00 0.00 3.27
527 539 7.151999 TGTTCTGACGGTTATTTTATGCATT 57.848 32.000 3.54 0.00 0.00 3.56
570 582 7.114106 CGTGCTCATGAGTCATTACACTTATAG 59.886 40.741 23.38 5.70 0.00 1.31
587 599 6.306596 CACTTATAGTAGCGAGTGCATGTATG 59.693 42.308 0.00 0.00 46.23 2.39
592 604 1.086696 GCGAGTGCATGTATGTTGGT 58.913 50.000 0.00 0.00 42.15 3.67
788 800 0.179225 CGCAGCGACACATTGTTACC 60.179 55.000 9.98 0.00 0.00 2.85
799 811 7.401860 CGACACATTGTTACCAGAGAATATTG 58.598 38.462 0.00 0.00 0.00 1.90
817 829 2.283101 TGCCATCACTGCAACCCC 60.283 61.111 0.00 0.00 35.40 4.95
937 949 3.323979 GTCTTCTCCTACCCACAAGAACA 59.676 47.826 0.00 0.00 0.00 3.18
1082 1094 0.338814 AAGGATGGGGACGGTACTCT 59.661 55.000 0.00 0.00 0.00 3.24
1091 1140 2.092807 GGGACGGTACTCTCTCTCTCTT 60.093 54.545 0.00 0.00 0.00 2.85
1224 1273 1.555075 TCTGTTTTGAGGGATCTCGGG 59.445 52.381 0.00 0.00 42.79 5.14
1411 1547 2.824936 TGGTGGAATCATTGCGTTCATT 59.175 40.909 4.69 0.00 0.00 2.57
1412 1548 3.119531 TGGTGGAATCATTGCGTTCATTC 60.120 43.478 4.69 0.00 0.00 2.67
1413 1549 3.100817 GTGGAATCATTGCGTTCATTCG 58.899 45.455 4.69 0.00 0.00 3.34
1971 3516 1.128692 GATCTGCGGGAAGTGTTTTCG 59.871 52.381 0.00 0.00 0.00 3.46
2039 3584 7.947890 TGGAAAACTAATGAATTCAACCTAGGT 59.052 33.333 13.09 9.21 0.00 3.08
2040 3585 9.457436 GGAAAACTAATGAATTCAACCTAGGTA 57.543 33.333 16.67 0.00 0.00 3.08
2043 3588 7.989947 ACTAATGAATTCAACCTAGGTAGGA 57.010 36.000 16.67 13.43 46.63 2.94
2044 3589 8.568617 ACTAATGAATTCAACCTAGGTAGGAT 57.431 34.615 16.67 6.43 46.63 3.24
2045 3590 9.004231 ACTAATGAATTCAACCTAGGTAGGATT 57.996 33.333 16.67 14.63 46.63 3.01
2046 3591 9.853177 CTAATGAATTCAACCTAGGTAGGATTT 57.147 33.333 16.67 16.97 46.63 2.17
2047 3592 8.525290 AATGAATTCAACCTAGGTAGGATTTG 57.475 34.615 16.67 8.86 46.63 2.32
2048 3593 7.265599 TGAATTCAACCTAGGTAGGATTTGA 57.734 36.000 16.67 11.33 46.63 2.69
2452 3997 3.447918 TTTGGGTCTATAGTACGCAGC 57.552 47.619 16.00 2.07 40.36 5.25
2453 3998 1.325355 TGGGTCTATAGTACGCAGCC 58.675 55.000 13.98 8.23 35.18 4.85
2454 3999 1.133575 TGGGTCTATAGTACGCAGCCT 60.134 52.381 13.98 0.00 35.18 4.58
2455 4000 1.962100 GGGTCTATAGTACGCAGCCTT 59.038 52.381 0.00 0.00 0.00 4.35
2456 4001 2.364647 GGGTCTATAGTACGCAGCCTTT 59.635 50.000 0.00 0.00 0.00 3.11
2457 4002 3.552478 GGGTCTATAGTACGCAGCCTTTC 60.552 52.174 0.00 0.00 0.00 2.62
2458 4003 3.552478 GGTCTATAGTACGCAGCCTTTCC 60.552 52.174 0.00 0.00 0.00 3.13
2459 4004 2.626743 TCTATAGTACGCAGCCTTTCCC 59.373 50.000 0.00 0.00 0.00 3.97
2460 4005 1.497161 ATAGTACGCAGCCTTTCCCT 58.503 50.000 0.00 0.00 0.00 4.20
2461 4006 2.148446 TAGTACGCAGCCTTTCCCTA 57.852 50.000 0.00 0.00 0.00 3.53
2462 4007 0.535797 AGTACGCAGCCTTTCCCTAC 59.464 55.000 0.00 0.00 0.00 3.18
2463 4008 0.248289 GTACGCAGCCTTTCCCTACA 59.752 55.000 0.00 0.00 0.00 2.74
2464 4009 1.134491 GTACGCAGCCTTTCCCTACAT 60.134 52.381 0.00 0.00 0.00 2.29
2465 4010 0.328258 ACGCAGCCTTTCCCTACATT 59.672 50.000 0.00 0.00 0.00 2.71
2466 4011 1.271926 ACGCAGCCTTTCCCTACATTT 60.272 47.619 0.00 0.00 0.00 2.32
2467 4012 1.401905 CGCAGCCTTTCCCTACATTTC 59.598 52.381 0.00 0.00 0.00 2.17
2468 4013 2.728007 GCAGCCTTTCCCTACATTTCT 58.272 47.619 0.00 0.00 0.00 2.52
2469 4014 2.424956 GCAGCCTTTCCCTACATTTCTG 59.575 50.000 0.00 0.00 0.00 3.02
2470 4015 3.690460 CAGCCTTTCCCTACATTTCTGT 58.310 45.455 0.00 0.00 39.49 3.41
2471 4016 4.843728 CAGCCTTTCCCTACATTTCTGTA 58.156 43.478 0.00 0.00 36.79 2.74
2472 4017 5.253330 CAGCCTTTCCCTACATTTCTGTAA 58.747 41.667 0.00 0.00 37.41 2.41
2473 4018 5.355350 CAGCCTTTCCCTACATTTCTGTAAG 59.645 44.000 0.00 0.00 37.41 2.34
2474 4019 5.250774 AGCCTTTCCCTACATTTCTGTAAGA 59.749 40.000 0.00 0.00 44.68 2.10
2486 4031 3.685139 TCTGTAAGAGGCTGTTTCCAG 57.315 47.619 0.90 9.48 38.67 3.86
2487 4032 2.303022 TCTGTAAGAGGCTGTTTCCAGG 59.697 50.000 17.71 5.83 38.67 4.45
2488 4033 2.303022 CTGTAAGAGGCTGTTTCCAGGA 59.697 50.000 0.90 0.00 35.89 3.86
2489 4034 2.038557 TGTAAGAGGCTGTTTCCAGGAC 59.961 50.000 0.90 0.00 39.22 3.85
2490 4035 1.439543 AAGAGGCTGTTTCCAGGACT 58.560 50.000 0.00 0.00 39.22 3.85
2491 4036 1.439543 AGAGGCTGTTTCCAGGACTT 58.560 50.000 0.00 0.00 39.22 3.01
2492 4037 1.072965 AGAGGCTGTTTCCAGGACTTG 59.927 52.381 0.00 0.00 39.22 3.16
2493 4038 1.072331 GAGGCTGTTTCCAGGACTTGA 59.928 52.381 0.00 0.00 39.22 3.02
2494 4039 1.494721 AGGCTGTTTCCAGGACTTGAA 59.505 47.619 0.00 0.00 39.22 2.69
2495 4040 1.609072 GGCTGTTTCCAGGACTTGAAC 59.391 52.381 0.00 0.00 39.22 3.18
2496 4041 1.609072 GCTGTTTCCAGGACTTGAACC 59.391 52.381 0.00 0.00 39.22 3.62
2497 4042 2.230660 CTGTTTCCAGGACTTGAACCC 58.769 52.381 0.00 0.00 34.90 4.11
2498 4043 1.566703 TGTTTCCAGGACTTGAACCCA 59.433 47.619 0.00 0.00 0.00 4.51
2499 4044 2.176798 TGTTTCCAGGACTTGAACCCAT 59.823 45.455 0.00 0.00 0.00 4.00
2500 4045 2.558359 GTTTCCAGGACTTGAACCCATG 59.442 50.000 0.00 0.00 0.00 3.66
2501 4046 1.741028 TCCAGGACTTGAACCCATGA 58.259 50.000 0.00 0.00 0.00 3.07
2502 4047 1.351017 TCCAGGACTTGAACCCATGAC 59.649 52.381 0.00 0.00 0.00 3.06
2503 4048 1.614317 CCAGGACTTGAACCCATGACC 60.614 57.143 0.00 0.00 34.29 4.02
2504 4049 1.352352 CAGGACTTGAACCCATGACCT 59.648 52.381 0.00 0.00 40.96 3.85
2505 4050 1.630878 AGGACTTGAACCCATGACCTC 59.369 52.381 0.00 0.00 37.82 3.85
2506 4051 1.351017 GGACTTGAACCCATGACCTCA 59.649 52.381 0.00 0.00 32.45 3.86
2507 4052 2.025887 GGACTTGAACCCATGACCTCAT 60.026 50.000 0.00 0.00 36.96 2.90
2519 4064 2.154139 ACCTCATGGTCACAAGGCA 58.846 52.632 0.00 0.00 44.78 4.75
2520 4065 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85
2521 4066 1.310933 CCTCATGGTCACAAGGCAGC 61.311 60.000 0.00 0.00 0.00 5.25
2522 4067 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.00 0.00 4.41
2523 4068 0.607217 TCATGGTCACAAGGCAGCAG 60.607 55.000 0.00 0.00 0.00 4.24
2524 4069 1.975407 ATGGTCACAAGGCAGCAGC 60.975 57.895 0.00 0.00 41.10 5.25
2525 4070 2.282040 GGTCACAAGGCAGCAGCT 60.282 61.111 0.00 0.00 41.70 4.24
2526 4071 1.900498 GGTCACAAGGCAGCAGCTT 60.900 57.895 0.00 0.00 41.70 3.74
2541 4086 5.397326 CAGCAGCTTTAGGATTTGAAGTTC 58.603 41.667 0.00 0.00 0.00 3.01
2888 4433 7.866393 ACCACGCATCAGATAACTAACTTATAC 59.134 37.037 0.00 0.00 0.00 1.47
2889 4434 8.082852 CCACGCATCAGATAACTAACTTATACT 58.917 37.037 0.00 0.00 0.00 2.12
2890 4435 9.119329 CACGCATCAGATAACTAACTTATACTC 57.881 37.037 0.00 0.00 0.00 2.59
2891 4436 8.298140 ACGCATCAGATAACTAACTTATACTCC 58.702 37.037 0.00 0.00 0.00 3.85
2892 4437 8.297426 CGCATCAGATAACTAACTTATACTCCA 58.703 37.037 0.00 0.00 0.00 3.86
2990 4550 4.062991 GGTGATTTACCTGACAGTCGTTT 58.937 43.478 0.93 0.00 46.51 3.60
3020 4580 1.298041 GTTGTTGTGGGTTCGCACG 60.298 57.895 13.59 0.00 32.51 5.34
3192 4752 8.862325 TGGAAAGATTCATGTAACAACATACT 57.138 30.769 0.00 0.00 0.00 2.12
3282 4842 3.044059 GCCCTGCTCAATGTGACGC 62.044 63.158 0.00 0.00 0.00 5.19
3369 4929 1.206523 GTGCCCGAGCGTTATTAGAC 58.793 55.000 0.00 0.00 44.31 2.59
3391 4951 4.058817 CCCTGAACGTTAGCTCCATAATC 58.941 47.826 0.00 0.00 0.00 1.75
3622 6145 6.374417 ACACCTGGACTTGAATAACATAGT 57.626 37.500 0.00 0.00 0.00 2.12
4038 7540 3.634397 TTACCATCTGAGGGAAGCTTG 57.366 47.619 16.28 0.00 0.00 4.01
4052 7554 3.935828 GGAAGCTTGAGTAATCAGACCAC 59.064 47.826 2.10 0.00 0.00 4.16
4405 8169 5.776208 TGGTAATGGAAGTGCGGTATCTATA 59.224 40.000 0.00 0.00 0.00 1.31
4754 8518 7.672122 AATAATAATATACTCCCTCCGTCCC 57.328 40.000 0.00 0.00 0.00 4.46
4755 8519 4.687262 ATAATATACTCCCTCCGTCCCA 57.313 45.455 0.00 0.00 0.00 4.37
4756 8520 3.339713 AATATACTCCCTCCGTCCCAA 57.660 47.619 0.00 0.00 0.00 4.12
4757 8521 2.852714 TATACTCCCTCCGTCCCAAA 57.147 50.000 0.00 0.00 0.00 3.28
4758 8522 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
4759 8523 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
4760 8524 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
4761 8525 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
4762 8526 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
4763 8527 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
4764 8528 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
4765 8529 2.290705 CCCTCCGTCCCAAAATAAGTGT 60.291 50.000 0.00 0.00 0.00 3.55
4766 8530 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
4767 8531 3.307480 CCTCCGTCCCAAAATAAGTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
4768 8532 4.324267 CTCCGTCCCAAAATAAGTGTCTT 58.676 43.478 0.00 0.00 0.00 3.01
4769 8533 4.069304 TCCGTCCCAAAATAAGTGTCTTG 58.931 43.478 0.00 0.00 0.00 3.02
4770 8534 4.069304 CCGTCCCAAAATAAGTGTCTTGA 58.931 43.478 0.00 0.00 0.00 3.02
4771 8535 4.154195 CCGTCCCAAAATAAGTGTCTTGAG 59.846 45.833 0.00 0.00 0.00 3.02
4772 8536 4.378459 CGTCCCAAAATAAGTGTCTTGAGC 60.378 45.833 0.00 0.00 0.00 4.26
4773 8537 4.762251 GTCCCAAAATAAGTGTCTTGAGCT 59.238 41.667 0.00 0.00 0.00 4.09
4774 8538 4.761739 TCCCAAAATAAGTGTCTTGAGCTG 59.238 41.667 0.00 0.00 0.00 4.24
4775 8539 4.761739 CCCAAAATAAGTGTCTTGAGCTGA 59.238 41.667 0.00 0.00 0.00 4.26
4776 8540 5.106396 CCCAAAATAAGTGTCTTGAGCTGAG 60.106 44.000 0.00 0.00 0.00 3.35
4777 8541 5.106396 CCAAAATAAGTGTCTTGAGCTGAGG 60.106 44.000 0.00 0.00 0.00 3.86
4778 8542 3.902881 ATAAGTGTCTTGAGCTGAGGG 57.097 47.619 0.00 0.00 0.00 4.30
4779 8543 1.722034 AAGTGTCTTGAGCTGAGGGA 58.278 50.000 0.00 0.00 0.00 4.20
4780 8544 1.265236 AGTGTCTTGAGCTGAGGGAG 58.735 55.000 0.00 0.00 0.00 4.30
4781 8545 0.972883 GTGTCTTGAGCTGAGGGAGT 59.027 55.000 0.00 0.00 0.00 3.85
4782 8546 2.171840 GTGTCTTGAGCTGAGGGAGTA 58.828 52.381 0.00 0.00 0.00 2.59
4783 8547 2.094442 GTGTCTTGAGCTGAGGGAGTAC 60.094 54.545 0.00 0.00 0.00 2.73
4784 8548 2.171840 GTCTTGAGCTGAGGGAGTACA 58.828 52.381 0.00 0.00 0.00 2.90
4796 8560 3.504375 AGGGAGTACAAAAGACCGTAGT 58.496 45.455 0.00 0.00 0.00 2.73
4830 8594 5.148502 TCTCCTTAGTTCTAGCCCCATTAG 58.851 45.833 0.00 0.00 0.00 1.73
4867 8631 4.511454 CCAAACGTATGTGGACATATCTGG 59.489 45.833 6.96 4.57 40.53 3.86
4882 8646 1.734477 CTGGACTTGTCTGCGGACG 60.734 63.158 20.49 9.90 44.83 4.79
4883 8647 2.432628 GGACTTGTCTGCGGACGG 60.433 66.667 20.49 17.08 44.83 4.79
4884 8648 2.649034 GACTTGTCTGCGGACGGA 59.351 61.111 20.49 10.85 44.83 4.69
4926 8690 1.714899 CCGACCCGGTGCATCAAATC 61.715 60.000 0.00 0.00 42.73 2.17
4927 8691 1.714899 CGACCCGGTGCATCAAATCC 61.715 60.000 0.00 0.00 0.00 3.01
4928 8692 0.679640 GACCCGGTGCATCAAATCCA 60.680 55.000 0.00 0.00 0.00 3.41
4929 8693 0.033208 ACCCGGTGCATCAAATCCAT 60.033 50.000 0.00 0.00 0.00 3.41
4930 8694 0.670162 CCCGGTGCATCAAATCCATC 59.330 55.000 0.00 0.00 0.00 3.51
4931 8695 0.670162 CCGGTGCATCAAATCCATCC 59.330 55.000 0.00 0.00 0.00 3.51
4932 8696 1.391577 CGGTGCATCAAATCCATCCA 58.608 50.000 0.00 0.00 0.00 3.41
4933 8697 1.750206 CGGTGCATCAAATCCATCCAA 59.250 47.619 0.00 0.00 0.00 3.53
4934 8698 2.480073 CGGTGCATCAAATCCATCCAAC 60.480 50.000 0.00 0.00 0.00 3.77
4935 8699 2.762327 GGTGCATCAAATCCATCCAACT 59.238 45.455 0.00 0.00 0.00 3.16
4936 8700 3.181483 GGTGCATCAAATCCATCCAACTC 60.181 47.826 0.00 0.00 0.00 3.01
4937 8701 2.684374 TGCATCAAATCCATCCAACTCG 59.316 45.455 0.00 0.00 0.00 4.18
4938 8702 2.033801 GCATCAAATCCATCCAACTCGG 59.966 50.000 0.00 0.00 0.00 4.63
4939 8703 3.282021 CATCAAATCCATCCAACTCGGT 58.718 45.455 0.00 0.00 35.57 4.69
4940 8704 2.710377 TCAAATCCATCCAACTCGGTG 58.290 47.619 0.00 0.00 35.57 4.94
4941 8705 1.133025 CAAATCCATCCAACTCGGTGC 59.867 52.381 0.00 0.00 35.57 5.01
4942 8706 0.327924 AATCCATCCAACTCGGTGCA 59.672 50.000 0.00 0.00 35.57 4.57
4943 8707 0.548031 ATCCATCCAACTCGGTGCAT 59.452 50.000 0.00 0.00 35.57 3.96
4944 8708 0.107703 TCCATCCAACTCGGTGCATC 60.108 55.000 0.00 0.00 35.57 3.91
4945 8709 0.392863 CCATCCAACTCGGTGCATCA 60.393 55.000 0.00 0.00 35.57 3.07
4946 8710 1.452110 CATCCAACTCGGTGCATCAA 58.548 50.000 0.00 0.00 35.57 2.57
4947 8711 1.811965 CATCCAACTCGGTGCATCAAA 59.188 47.619 0.00 0.00 35.57 2.69
4948 8712 2.198827 TCCAACTCGGTGCATCAAAT 57.801 45.000 0.00 0.00 35.57 2.32
4949 8713 1.811965 TCCAACTCGGTGCATCAAATG 59.188 47.619 0.00 0.00 35.57 2.32
4950 8714 1.541147 CCAACTCGGTGCATCAAATGT 59.459 47.619 0.00 0.00 0.00 2.71
4951 8715 2.414559 CCAACTCGGTGCATCAAATGTC 60.415 50.000 0.00 0.00 0.00 3.06
4952 8716 1.453155 ACTCGGTGCATCAAATGTCC 58.547 50.000 0.00 0.00 0.00 4.02
4953 8717 0.374758 CTCGGTGCATCAAATGTCCG 59.625 55.000 0.00 14.60 44.51 4.79
4954 8718 1.226379 CGGTGCATCAAATGTCCGC 60.226 57.895 0.00 0.00 40.51 5.54
4955 8719 1.139520 GGTGCATCAAATGTCCGCC 59.860 57.895 0.00 0.00 0.00 6.13
4956 8720 1.139520 GTGCATCAAATGTCCGCCC 59.860 57.895 0.00 0.00 0.00 6.13
4957 8721 1.303970 TGCATCAAATGTCCGCCCA 60.304 52.632 0.00 0.00 0.00 5.36
4958 8722 1.314534 TGCATCAAATGTCCGCCCAG 61.315 55.000 0.00 0.00 0.00 4.45
4959 8723 2.008268 GCATCAAATGTCCGCCCAGG 62.008 60.000 0.00 0.00 42.97 4.45
4960 8724 0.680921 CATCAAATGTCCGCCCAGGT 60.681 55.000 0.00 0.00 41.99 4.00
4961 8725 0.039618 ATCAAATGTCCGCCCAGGTT 59.960 50.000 0.00 0.00 41.99 3.50
4962 8726 0.608035 TCAAATGTCCGCCCAGGTTC 60.608 55.000 0.00 0.00 41.99 3.62
4963 8727 1.304134 AAATGTCCGCCCAGGTTCC 60.304 57.895 0.00 0.00 41.99 3.62
4964 8728 3.622060 AATGTCCGCCCAGGTTCCG 62.622 63.158 0.00 0.00 41.99 4.30
4972 8736 3.787001 CCAGGTTCCGGCCTCCTC 61.787 72.222 0.00 0.00 36.58 3.71
4973 8737 3.787001 CAGGTTCCGGCCTCCTCC 61.787 72.222 0.00 0.00 36.58 4.30
4974 8738 4.332543 AGGTTCCGGCCTCCTCCA 62.333 66.667 0.00 0.00 32.39 3.86
4975 8739 3.090532 GGTTCCGGCCTCCTCCAT 61.091 66.667 0.00 0.00 0.00 3.41
4976 8740 2.680370 GGTTCCGGCCTCCTCCATT 61.680 63.158 0.00 0.00 0.00 3.16
4977 8741 1.303282 GTTCCGGCCTCCTCCATTT 59.697 57.895 0.00 0.00 0.00 2.32
4978 8742 1.032114 GTTCCGGCCTCCTCCATTTG 61.032 60.000 0.00 0.00 0.00 2.32
4979 8743 1.204786 TTCCGGCCTCCTCCATTTGA 61.205 55.000 0.00 0.00 0.00 2.69
4980 8744 1.153086 CCGGCCTCCTCCATTTGAG 60.153 63.158 0.00 0.00 41.07 3.02
4981 8745 1.626356 CCGGCCTCCTCCATTTGAGA 61.626 60.000 0.00 0.00 44.42 3.27
4982 8746 0.253044 CGGCCTCCTCCATTTGAGAA 59.747 55.000 0.00 0.00 44.42 2.87
4983 8747 1.745141 CGGCCTCCTCCATTTGAGAAG 60.745 57.143 0.00 0.00 44.42 2.85
4984 8748 1.387539 GCCTCCTCCATTTGAGAAGC 58.612 55.000 0.00 0.00 44.42 3.86
4985 8749 1.340405 GCCTCCTCCATTTGAGAAGCA 60.340 52.381 0.00 0.00 44.42 3.91
4986 8750 2.686118 GCCTCCTCCATTTGAGAAGCAT 60.686 50.000 0.00 0.00 44.42 3.79
4987 8751 3.434167 GCCTCCTCCATTTGAGAAGCATA 60.434 47.826 0.00 0.00 44.42 3.14
4988 8752 4.749166 GCCTCCTCCATTTGAGAAGCATAT 60.749 45.833 0.00 0.00 44.42 1.78
4989 8753 4.760715 CCTCCTCCATTTGAGAAGCATATG 59.239 45.833 0.00 0.00 44.42 1.78
4990 8754 5.374921 CTCCTCCATTTGAGAAGCATATGT 58.625 41.667 4.29 0.00 44.42 2.29
4991 8755 6.464892 CCTCCTCCATTTGAGAAGCATATGTA 60.465 42.308 4.29 0.00 44.42 2.29
4992 8756 6.528321 TCCTCCATTTGAGAAGCATATGTAG 58.472 40.000 4.29 0.00 44.42 2.74
4993 8757 6.327365 TCCTCCATTTGAGAAGCATATGTAGA 59.673 38.462 4.29 0.00 44.42 2.59
4994 8758 7.016957 TCCTCCATTTGAGAAGCATATGTAGAT 59.983 37.037 4.29 0.00 44.42 1.98
4995 8759 7.333921 CCTCCATTTGAGAAGCATATGTAGATC 59.666 40.741 4.29 0.00 44.42 2.75
4996 8760 7.738847 TCCATTTGAGAAGCATATGTAGATCA 58.261 34.615 4.29 2.06 35.09 2.92
4997 8761 8.212995 TCCATTTGAGAAGCATATGTAGATCAA 58.787 33.333 4.29 7.80 35.09 2.57
4998 8762 9.011095 CCATTTGAGAAGCATATGTAGATCAAT 57.989 33.333 4.29 0.00 35.09 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 2.604382 GGGCCCTGGTGCACATTT 60.604 61.111 20.43 0.00 33.82 2.32
235 245 3.703001 ATCAACAAGGACAGACCGATT 57.297 42.857 0.00 0.00 44.74 3.34
241 251 4.404394 TCCGCTATAATCAACAAGGACAGA 59.596 41.667 0.00 0.00 0.00 3.41
310 320 7.233389 AGTTAGATTGAGAGACTAGCAACAA 57.767 36.000 0.00 0.00 0.00 2.83
315 325 8.897872 AGTACTAGTTAGATTGAGAGACTAGC 57.102 38.462 0.00 0.00 42.07 3.42
342 352 3.945981 TGTTAGCATGGTCTTACGTGA 57.054 42.857 0.00 0.00 0.00 4.35
343 353 4.520743 CATGTTAGCATGGTCTTACGTG 57.479 45.455 11.46 6.61 46.47 4.49
423 433 5.867903 AAGTGGAAAAATCACATGGAACA 57.132 34.783 0.00 0.00 37.58 3.18
454 464 7.095102 GGTTTATTCGGTCAAGCAAACTAGTAA 60.095 37.037 0.00 0.00 0.00 2.24
455 465 6.369615 GGTTTATTCGGTCAAGCAAACTAGTA 59.630 38.462 0.00 0.00 0.00 1.82
503 513 6.751514 ATGCATAAAATAACCGTCAGAACA 57.248 33.333 0.00 0.00 0.00 3.18
505 515 7.624360 AGAATGCATAAAATAACCGTCAGAA 57.376 32.000 0.00 0.00 0.00 3.02
527 539 4.450976 AGCACGGATTTGCATTGTATAGA 58.549 39.130 0.00 0.00 45.62 1.98
544 556 3.515630 AGTGTAATGACTCATGAGCACG 58.484 45.455 22.83 0.00 31.27 5.34
570 582 2.285220 CCAACATACATGCACTCGCTAC 59.715 50.000 0.00 0.00 39.64 3.58
600 612 6.572167 ATTGGTTCGGTTTATTCGGTTAAA 57.428 33.333 0.00 0.00 0.00 1.52
659 671 9.927668 AAGAAATGAAAACCGAAATAATCACAT 57.072 25.926 0.00 0.00 0.00 3.21
799 811 2.639327 GGGGTTGCAGTGATGGCAC 61.639 63.158 0.00 0.00 45.49 5.01
937 949 1.815421 GGTGGCGATGCGAATGAGT 60.815 57.895 0.00 0.00 0.00 3.41
1082 1094 5.960811 AGAGAGAGAGAGAGAAAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
1091 1140 4.023980 ACGAGAGAGAGAGAGAGAGAGAA 58.976 47.826 0.00 0.00 0.00 2.87
1224 1273 0.532573 TGCAGACCAGGAATCGAGAC 59.467 55.000 0.00 0.00 0.00 3.36
1340 1476 2.961522 GACGAATCAAAACTCGGCAA 57.038 45.000 0.00 0.00 42.80 4.52
1971 3516 6.073765 TCAGAGAGTATTTGCAGAACGAAAAC 60.074 38.462 0.00 0.00 0.00 2.43
2432 3977 2.101917 GGCTGCGTACTATAGACCCAAA 59.898 50.000 6.78 0.00 0.00 3.28
2433 3978 1.684983 GGCTGCGTACTATAGACCCAA 59.315 52.381 6.78 0.00 0.00 4.12
2434 3979 1.133575 AGGCTGCGTACTATAGACCCA 60.134 52.381 6.78 0.00 0.00 4.51
2435 3980 1.618487 AGGCTGCGTACTATAGACCC 58.382 55.000 6.78 0.00 0.00 4.46
2436 3981 3.552478 GGAAAGGCTGCGTACTATAGACC 60.552 52.174 6.78 0.00 0.00 3.85
2437 3982 3.552478 GGGAAAGGCTGCGTACTATAGAC 60.552 52.174 6.78 0.00 0.00 2.59
2438 3983 2.626743 GGGAAAGGCTGCGTACTATAGA 59.373 50.000 6.78 0.00 0.00 1.98
2439 3984 2.628657 AGGGAAAGGCTGCGTACTATAG 59.371 50.000 0.00 0.00 0.00 1.31
2440 3985 2.674420 AGGGAAAGGCTGCGTACTATA 58.326 47.619 0.00 0.00 0.00 1.31
2441 3986 1.497161 AGGGAAAGGCTGCGTACTAT 58.503 50.000 0.00 0.00 0.00 2.12
2442 3987 1.753073 GTAGGGAAAGGCTGCGTACTA 59.247 52.381 0.00 0.00 34.81 1.82
2443 3988 0.535797 GTAGGGAAAGGCTGCGTACT 59.464 55.000 0.00 0.00 34.81 2.73
2444 3989 0.248289 TGTAGGGAAAGGCTGCGTAC 59.752 55.000 0.00 0.00 37.28 3.67
2445 3990 1.200519 ATGTAGGGAAAGGCTGCGTA 58.799 50.000 0.00 0.00 0.00 4.42
2446 3991 0.328258 AATGTAGGGAAAGGCTGCGT 59.672 50.000 0.00 0.00 0.00 5.24
2447 3992 1.401905 GAAATGTAGGGAAAGGCTGCG 59.598 52.381 0.00 0.00 0.00 5.18
2448 3993 2.424956 CAGAAATGTAGGGAAAGGCTGC 59.575 50.000 0.00 0.00 0.00 5.25
2449 3994 3.690460 ACAGAAATGTAGGGAAAGGCTG 58.310 45.455 0.00 0.00 0.00 4.85
2450 3995 5.250774 TCTTACAGAAATGTAGGGAAAGGCT 59.749 40.000 0.00 0.00 0.00 4.58
2451 3996 5.497474 TCTTACAGAAATGTAGGGAAAGGC 58.503 41.667 0.00 0.00 0.00 4.35
2452 3997 6.116126 CCTCTTACAGAAATGTAGGGAAAGG 58.884 44.000 0.00 0.00 0.00 3.11
2453 3998 5.586643 GCCTCTTACAGAAATGTAGGGAAAG 59.413 44.000 0.00 0.00 0.00 2.62
2454 3999 5.250774 AGCCTCTTACAGAAATGTAGGGAAA 59.749 40.000 0.00 0.00 0.00 3.13
2455 4000 4.783227 AGCCTCTTACAGAAATGTAGGGAA 59.217 41.667 0.00 0.00 0.00 3.97
2456 4001 4.162320 CAGCCTCTTACAGAAATGTAGGGA 59.838 45.833 0.00 0.00 0.00 4.20
2457 4002 4.080863 ACAGCCTCTTACAGAAATGTAGGG 60.081 45.833 0.00 0.66 0.00 3.53
2458 4003 5.091261 ACAGCCTCTTACAGAAATGTAGG 57.909 43.478 0.00 0.00 0.00 3.18
2459 4004 6.092807 GGAAACAGCCTCTTACAGAAATGTAG 59.907 42.308 0.00 0.00 0.00 2.74
2460 4005 5.938125 GGAAACAGCCTCTTACAGAAATGTA 59.062 40.000 0.00 0.00 0.00 2.29
2461 4006 4.762251 GGAAACAGCCTCTTACAGAAATGT 59.238 41.667 0.00 0.00 0.00 2.71
2462 4007 4.761739 TGGAAACAGCCTCTTACAGAAATG 59.238 41.667 0.00 0.00 35.01 2.32
2463 4008 4.985538 TGGAAACAGCCTCTTACAGAAAT 58.014 39.130 0.00 0.00 35.01 2.17
2464 4009 4.431416 TGGAAACAGCCTCTTACAGAAA 57.569 40.909 0.00 0.00 35.01 2.52
2478 4023 1.566703 TGGGTTCAAGTCCTGGAAACA 59.433 47.619 0.00 0.00 32.36 2.83
2479 4024 2.358322 TGGGTTCAAGTCCTGGAAAC 57.642 50.000 0.00 0.00 0.00 2.78
2480 4025 2.445145 TCATGGGTTCAAGTCCTGGAAA 59.555 45.455 0.00 0.00 0.00 3.13
2481 4026 2.061848 TCATGGGTTCAAGTCCTGGAA 58.938 47.619 0.00 0.00 0.00 3.53
2482 4027 1.351017 GTCATGGGTTCAAGTCCTGGA 59.649 52.381 0.00 0.00 0.00 3.86
2483 4028 1.614317 GGTCATGGGTTCAAGTCCTGG 60.614 57.143 0.00 0.00 0.00 4.45
2484 4029 1.352352 AGGTCATGGGTTCAAGTCCTG 59.648 52.381 0.00 0.00 0.00 3.86
2485 4030 1.630878 GAGGTCATGGGTTCAAGTCCT 59.369 52.381 0.00 0.00 0.00 3.85
2486 4031 1.351017 TGAGGTCATGGGTTCAAGTCC 59.649 52.381 0.00 0.00 0.00 3.85
2487 4032 2.859165 TGAGGTCATGGGTTCAAGTC 57.141 50.000 0.00 0.00 0.00 3.01
2502 4047 1.310933 GCTGCCTTGTGACCATGAGG 61.311 60.000 0.00 0.00 42.21 3.86
2503 4048 0.607217 TGCTGCCTTGTGACCATGAG 60.607 55.000 0.00 0.00 0.00 2.90
2504 4049 0.607217 CTGCTGCCTTGTGACCATGA 60.607 55.000 0.00 0.00 0.00 3.07
2505 4050 1.880894 CTGCTGCCTTGTGACCATG 59.119 57.895 0.00 0.00 0.00 3.66
2506 4051 1.975407 GCTGCTGCCTTGTGACCAT 60.975 57.895 3.85 0.00 0.00 3.55
2507 4052 2.595463 GCTGCTGCCTTGTGACCA 60.595 61.111 3.85 0.00 0.00 4.02
2508 4053 1.458639 AAAGCTGCTGCCTTGTGACC 61.459 55.000 12.44 0.00 40.80 4.02
2509 4054 1.198637 CTAAAGCTGCTGCCTTGTGAC 59.801 52.381 12.44 0.00 40.80 3.67
2510 4055 1.527034 CTAAAGCTGCTGCCTTGTGA 58.473 50.000 12.44 0.00 40.80 3.58
2511 4056 0.524862 CCTAAAGCTGCTGCCTTGTG 59.475 55.000 12.44 3.78 40.80 3.33
2512 4057 0.401738 TCCTAAAGCTGCTGCCTTGT 59.598 50.000 12.44 0.00 40.80 3.16
2513 4058 1.760192 ATCCTAAAGCTGCTGCCTTG 58.240 50.000 12.44 1.20 40.80 3.61
2514 4059 2.494870 CAAATCCTAAAGCTGCTGCCTT 59.505 45.455 12.44 8.34 40.80 4.35
2515 4060 2.097825 CAAATCCTAAAGCTGCTGCCT 58.902 47.619 12.44 2.45 40.80 4.75
2516 4061 2.094675 TCAAATCCTAAAGCTGCTGCC 58.905 47.619 12.44 0.00 40.80 4.85
2517 4062 3.192212 ACTTCAAATCCTAAAGCTGCTGC 59.808 43.478 1.35 7.62 40.05 5.25
2518 4063 5.048504 TGAACTTCAAATCCTAAAGCTGCTG 60.049 40.000 1.35 0.00 0.00 4.41
2519 4064 5.072741 TGAACTTCAAATCCTAAAGCTGCT 58.927 37.500 0.00 0.00 0.00 4.24
2520 4065 5.376854 TGAACTTCAAATCCTAAAGCTGC 57.623 39.130 0.00 0.00 0.00 5.25
2888 4433 1.126488 TCAGGCAGCTATCCTTGGAG 58.874 55.000 4.08 0.00 0.00 3.86
2889 4434 1.583556 TTCAGGCAGCTATCCTTGGA 58.416 50.000 4.08 0.00 0.00 3.53
2890 4435 2.158711 TGATTCAGGCAGCTATCCTTGG 60.159 50.000 4.08 0.00 0.00 3.61
2891 4436 3.204306 TGATTCAGGCAGCTATCCTTG 57.796 47.619 4.08 1.89 0.00 3.61
2892 4437 3.939740 TTGATTCAGGCAGCTATCCTT 57.060 42.857 4.08 0.00 0.00 3.36
2984 4544 7.321271 CACAACAACTCAAGATATTCAAACGAC 59.679 37.037 0.00 0.00 0.00 4.34
2990 4550 5.630121 ACCCACAACAACTCAAGATATTCA 58.370 37.500 0.00 0.00 0.00 2.57
3020 4580 8.950208 AGTCTTATTTCCATCTAGCTAACAAC 57.050 34.615 0.00 0.00 0.00 3.32
3192 4752 0.394192 CCTGTGTCAAGGCTCAGACA 59.606 55.000 16.03 16.03 42.06 3.41
3359 4919 4.501921 GCTAACGTTCAGGGTCTAATAACG 59.498 45.833 2.82 0.00 46.11 3.18
3369 4929 3.536956 TTATGGAGCTAACGTTCAGGG 57.463 47.619 2.82 0.00 0.00 4.45
3391 4951 5.880332 TCCATCTATTTCTTCCACGGAAAAG 59.120 40.000 0.00 0.00 36.47 2.27
3622 6145 1.542547 GCAACCTGGAAAGGAGACGAA 60.543 52.381 0.00 0.00 0.00 3.85
4405 8169 3.151912 AGCCATTCAAGCTGAAGAACT 57.848 42.857 0.00 0.00 40.05 3.01
4743 8507 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
4744 8508 2.290705 ACACTTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
4745 8509 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
4746 8510 3.939066 AGACACTTATTTTGGGACGGAG 58.061 45.455 0.00 0.00 0.00 4.63
4747 8511 4.069304 CAAGACACTTATTTTGGGACGGA 58.931 43.478 0.00 0.00 0.00 4.69
4748 8512 4.069304 TCAAGACACTTATTTTGGGACGG 58.931 43.478 0.00 0.00 0.00 4.79
4749 8513 4.378459 GCTCAAGACACTTATTTTGGGACG 60.378 45.833 0.00 0.00 0.00 4.79
4750 8514 4.762251 AGCTCAAGACACTTATTTTGGGAC 59.238 41.667 0.00 0.00 0.00 4.46
4751 8515 4.761739 CAGCTCAAGACACTTATTTTGGGA 59.238 41.667 0.00 0.00 0.00 4.37
4752 8516 4.761739 TCAGCTCAAGACACTTATTTTGGG 59.238 41.667 0.00 0.00 0.00 4.12
4753 8517 5.106396 CCTCAGCTCAAGACACTTATTTTGG 60.106 44.000 0.00 0.00 0.00 3.28
4754 8518 5.106396 CCCTCAGCTCAAGACACTTATTTTG 60.106 44.000 0.00 0.00 0.00 2.44
4755 8519 5.006386 CCCTCAGCTCAAGACACTTATTTT 58.994 41.667 0.00 0.00 0.00 1.82
4756 8520 4.287067 TCCCTCAGCTCAAGACACTTATTT 59.713 41.667 0.00 0.00 0.00 1.40
4757 8521 3.840666 TCCCTCAGCTCAAGACACTTATT 59.159 43.478 0.00 0.00 0.00 1.40
4758 8522 3.445008 TCCCTCAGCTCAAGACACTTAT 58.555 45.455 0.00 0.00 0.00 1.73
4759 8523 2.828520 CTCCCTCAGCTCAAGACACTTA 59.171 50.000 0.00 0.00 0.00 2.24
4760 8524 1.622811 CTCCCTCAGCTCAAGACACTT 59.377 52.381 0.00 0.00 0.00 3.16
4761 8525 1.265236 CTCCCTCAGCTCAAGACACT 58.735 55.000 0.00 0.00 0.00 3.55
4762 8526 0.972883 ACTCCCTCAGCTCAAGACAC 59.027 55.000 0.00 0.00 0.00 3.67
4763 8527 2.171840 GTACTCCCTCAGCTCAAGACA 58.828 52.381 0.00 0.00 0.00 3.41
4764 8528 2.171840 TGTACTCCCTCAGCTCAAGAC 58.828 52.381 0.00 0.00 0.00 3.01
4765 8529 2.604912 TGTACTCCCTCAGCTCAAGA 57.395 50.000 0.00 0.00 0.00 3.02
4766 8530 3.685139 TTTGTACTCCCTCAGCTCAAG 57.315 47.619 0.00 0.00 0.00 3.02
4767 8531 3.646162 TCTTTTGTACTCCCTCAGCTCAA 59.354 43.478 0.00 0.00 0.00 3.02
4768 8532 3.006967 GTCTTTTGTACTCCCTCAGCTCA 59.993 47.826 0.00 0.00 0.00 4.26
4769 8533 3.591023 GTCTTTTGTACTCCCTCAGCTC 58.409 50.000 0.00 0.00 0.00 4.09
4770 8534 2.303311 GGTCTTTTGTACTCCCTCAGCT 59.697 50.000 0.00 0.00 0.00 4.24
4771 8535 2.701107 GGTCTTTTGTACTCCCTCAGC 58.299 52.381 0.00 0.00 0.00 4.26
4772 8536 2.299297 ACGGTCTTTTGTACTCCCTCAG 59.701 50.000 0.00 0.00 0.00 3.35
4773 8537 2.322658 ACGGTCTTTTGTACTCCCTCA 58.677 47.619 0.00 0.00 0.00 3.86
4774 8538 3.509184 ACTACGGTCTTTTGTACTCCCTC 59.491 47.826 0.00 0.00 0.00 4.30
4775 8539 3.504375 ACTACGGTCTTTTGTACTCCCT 58.496 45.455 0.00 0.00 0.00 4.20
4776 8540 3.367806 GGACTACGGTCTTTTGTACTCCC 60.368 52.174 0.00 0.00 41.82 4.30
4777 8541 3.509184 AGGACTACGGTCTTTTGTACTCC 59.491 47.826 0.00 0.00 41.82 3.85
4778 8542 4.780275 AGGACTACGGTCTTTTGTACTC 57.220 45.455 0.00 0.00 41.82 2.59
4779 8543 5.713861 ACATAGGACTACGGTCTTTTGTACT 59.286 40.000 0.00 0.00 40.05 2.73
4780 8544 5.958955 ACATAGGACTACGGTCTTTTGTAC 58.041 41.667 3.53 0.00 40.05 2.90
4781 8545 6.594788 AACATAGGACTACGGTCTTTTGTA 57.405 37.500 5.26 0.00 40.58 2.41
4782 8546 5.479124 AACATAGGACTACGGTCTTTTGT 57.521 39.130 0.00 0.00 42.15 2.83
4783 8547 6.164176 AGAAACATAGGACTACGGTCTTTTG 58.836 40.000 0.00 0.00 41.82 2.44
4784 8548 6.210984 AGAGAAACATAGGACTACGGTCTTTT 59.789 38.462 0.00 0.00 41.82 2.27
4796 8560 7.285858 GCTAGAACTAAGGAGAGAAACATAGGA 59.714 40.741 0.00 0.00 0.00 2.94
4867 8631 1.733399 GTCCGTCCGCAGACAAGTC 60.733 63.158 0.20 0.00 43.73 3.01
4882 8646 3.851128 GCTCCCCTACCGCTGTCC 61.851 72.222 0.00 0.00 0.00 4.02
4883 8647 3.851128 GGCTCCCCTACCGCTGTC 61.851 72.222 0.00 0.00 0.00 3.51
4909 8673 0.679640 TGGATTTGATGCACCGGGTC 60.680 55.000 6.32 0.00 0.00 4.46
4926 8690 0.392863 TGATGCACCGAGTTGGATGG 60.393 55.000 2.42 0.00 42.00 3.51
4927 8691 1.452110 TTGATGCACCGAGTTGGATG 58.548 50.000 2.42 0.00 42.00 3.51
4928 8692 2.198827 TTTGATGCACCGAGTTGGAT 57.801 45.000 2.42 0.00 42.00 3.41
4929 8693 1.811965 CATTTGATGCACCGAGTTGGA 59.188 47.619 2.42 0.00 42.00 3.53
4930 8694 1.541147 ACATTTGATGCACCGAGTTGG 59.459 47.619 0.00 0.00 46.41 3.77
4931 8695 2.414559 GGACATTTGATGCACCGAGTTG 60.415 50.000 0.00 0.00 0.00 3.16
4932 8696 1.812571 GGACATTTGATGCACCGAGTT 59.187 47.619 0.00 0.00 0.00 3.01
4933 8697 1.453155 GGACATTTGATGCACCGAGT 58.547 50.000 0.00 0.00 0.00 4.18
4937 8701 1.139520 GGCGGACATTTGATGCACC 59.860 57.895 0.00 0.00 0.00 5.01
4938 8702 1.139520 GGGCGGACATTTGATGCAC 59.860 57.895 0.00 0.00 0.00 4.57
4939 8703 1.303970 TGGGCGGACATTTGATGCA 60.304 52.632 0.00 0.00 0.00 3.96
4940 8704 1.434696 CTGGGCGGACATTTGATGC 59.565 57.895 0.00 0.00 0.00 3.91
4941 8705 0.680921 ACCTGGGCGGACATTTGATG 60.681 55.000 0.00 0.00 36.31 3.07
4942 8706 0.039618 AACCTGGGCGGACATTTGAT 59.960 50.000 0.00 0.00 36.31 2.57
4943 8707 0.608035 GAACCTGGGCGGACATTTGA 60.608 55.000 0.00 0.00 36.31 2.69
4944 8708 1.595093 GGAACCTGGGCGGACATTTG 61.595 60.000 0.00 0.00 36.31 2.32
4945 8709 1.304134 GGAACCTGGGCGGACATTT 60.304 57.895 0.00 0.00 36.31 2.32
4946 8710 2.355115 GGAACCTGGGCGGACATT 59.645 61.111 0.00 0.00 36.31 2.71
4947 8711 4.096003 CGGAACCTGGGCGGACAT 62.096 66.667 0.00 0.00 36.31 3.06
4955 8719 3.787001 GAGGAGGCCGGAACCTGG 61.787 72.222 16.96 0.00 41.32 4.45
4956 8720 3.787001 GGAGGAGGCCGGAACCTG 61.787 72.222 16.96 0.00 41.32 4.00
4957 8721 3.642741 ATGGAGGAGGCCGGAACCT 62.643 63.158 5.05 10.27 45.04 3.50
4958 8722 2.211468 AAATGGAGGAGGCCGGAACC 62.211 60.000 5.05 4.51 0.00 3.62
4959 8723 1.032114 CAAATGGAGGAGGCCGGAAC 61.032 60.000 5.05 0.00 0.00 3.62
4960 8724 1.204786 TCAAATGGAGGAGGCCGGAA 61.205 55.000 5.05 0.00 0.00 4.30
4961 8725 1.615124 TCAAATGGAGGAGGCCGGA 60.615 57.895 5.05 0.00 0.00 5.14
4962 8726 1.153086 CTCAAATGGAGGAGGCCGG 60.153 63.158 0.00 0.00 40.13 6.13
4963 8727 0.253044 TTCTCAAATGGAGGAGGCCG 59.747 55.000 0.00 0.00 44.19 6.13
4964 8728 2.049888 CTTCTCAAATGGAGGAGGCC 57.950 55.000 0.00 0.00 44.44 5.19
4968 8732 5.378230 ACATATGCTTCTCAAATGGAGGA 57.622 39.130 1.58 0.00 44.19 3.71
4969 8733 6.528321 TCTACATATGCTTCTCAAATGGAGG 58.472 40.000 1.58 0.00 44.19 4.30
4970 8734 7.876582 TGATCTACATATGCTTCTCAAATGGAG 59.123 37.037 1.58 0.00 45.49 3.86
4971 8735 7.738847 TGATCTACATATGCTTCTCAAATGGA 58.261 34.615 1.58 0.00 0.00 3.41
4972 8736 7.974482 TGATCTACATATGCTTCTCAAATGG 57.026 36.000 1.58 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.