Multiple sequence alignment - TraesCS2D01G025500

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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 TraesCS2D01G025500 chr2D 100.000 4165 0 0 1 4165 11043643 11047807 0.000000e+00 7692.0
1 TraesCS2D01G025500 chr2D 85.120 457 57 8 2253 2705 11061486 11061037 1.360000e-124 457.0
2 TraesCS2D01G025500 chr2D 88.679 265 18 7 1 265 11063399 11063147 3.130000e-81 313.0
3 TraesCS2D01G025500 chr2B 91.765 3230 187 45 188 3384 17367747 17364564 0.000000e+00 4418.0
4 TraesCS2D01G025500 chr2B 88.760 774 50 20 786 1557 16881235 16881973 0.000000e+00 913.0
5 TraesCS2D01G025500 chr2B 91.279 344 25 4 358 700 16880895 16881234 8.160000e-127 464.0
6 TraesCS2D01G025500 chr2B 75.970 541 95 16 1378 1894 16792641 16792112 3.220000e-61 246.0
7 TraesCS2D01G025500 chr2B 83.871 217 31 3 2696 2911 16791098 16790885 1.960000e-48 204.0
8 TraesCS2D01G025500 chr2B 93.220 118 6 2 224 341 16880125 16880240 5.540000e-39 172.0
9 TraesCS2D01G025500 chr2B 89.000 100 9 2 3489 3587 17364490 17364392 5.650000e-24 122.0
10 TraesCS2D01G025500 chr2B 96.721 61 1 1 143 202 17367828 17367768 2.650000e-17 100.0
11 TraesCS2D01G025500 chr2B 97.368 38 1 0 3908 3945 16790865 16790828 9.660000e-07 65.8
12 TraesCS2D01G025500 chrUn 92.543 1797 104 19 1262 3056 12633674 12631906 0.000000e+00 2549.0
13 TraesCS2D01G025500 chrUn 91.055 872 51 7 354 1224 12634687 12633842 0.000000e+00 1153.0
14 TraesCS2D01G025500 chrUn 87.105 791 41 28 3269 4038 248322044 248322794 0.000000e+00 839.0
15 TraesCS2D01G025500 chrUn 87.105 791 41 28 3269 4038 377094771 377094021 0.000000e+00 839.0
16 TraesCS2D01G025500 chrUn 91.076 437 18 10 1448 1882 12185545 12185962 4.670000e-159 571.0
17 TraesCS2D01G025500 chrUn 98.675 151 2 0 3058 3208 248321897 248322047 6.860000e-68 268.0
18 TraesCS2D01G025500 chrUn 98.675 151 2 0 3058 3208 377094918 377094768 6.860000e-68 268.0
19 TraesCS2D01G025500 chrUn 82.292 288 39 7 1840 2118 38572182 38572466 5.380000e-59 239.0
20 TraesCS2D01G025500 chrUn 82.292 288 39 7 1840 2118 283368737 283368453 5.380000e-59 239.0
21 TraesCS2D01G025500 chrUn 82.292 288 39 7 1840 2118 359469157 359468873 5.380000e-59 239.0
22 TraesCS2D01G025500 chrUn 82.292 288 39 7 1840 2118 376732015 376731731 5.380000e-59 239.0
23 TraesCS2D01G025500 chrUn 97.561 41 1 0 447 487 12185493 12185533 2.080000e-08 71.3
24 TraesCS2D01G025500 chr7B 88.172 1953 162 26 1528 3445 78244700 78242782 0.000000e+00 2263.0
25 TraesCS2D01G025500 chr7B 86.720 1122 106 21 374 1482 78245801 78244710 0.000000e+00 1206.0
26 TraesCS2D01G025500 chr7B 90.385 260 14 5 6 265 78247029 78246781 8.630000e-87 331.0
27 TraesCS2D01G025500 chr7B 87.255 204 19 1 3473 3669 78242783 78242580 4.190000e-55 226.0
28 TraesCS2D01G025500 chr7B 77.178 241 42 8 13 252 604807636 604807864 1.220000e-25 128.0
29 TraesCS2D01G025500 chr7B 95.522 67 3 0 280 346 78246451 78246385 1.580000e-19 108.0
30 TraesCS2D01G025500 chr2A 93.695 1142 56 12 2255 3384 11910502 11909365 0.000000e+00 1696.0
31 TraesCS2D01G025500 chr2A 90.258 852 60 15 1314 2163 11911546 11910716 0.000000e+00 1092.0
32 TraesCS2D01G025500 chr2A 90.830 578 35 6 720 1282 11912115 11911541 0.000000e+00 758.0
33 TraesCS2D01G025500 chr2A 98.431 255 4 0 6 260 11912507 11912253 2.280000e-122 449.0
34 TraesCS2D01G025500 chr2A 85.833 120 11 6 3473 3587 11909314 11909196 5.650000e-24 122.0
35 TraesCS2D01G025500 chr2A 91.935 62 0 2 285 341 11912258 11912197 9.600000e-12 82.4
36 TraesCS2D01G025500 chr4A 78.567 1535 267 40 1656 3152 530938421 530936911 0.000000e+00 955.0
37 TraesCS2D01G025500 chr4B 78.576 1517 260 48 1656 3152 95374473 95373002 0.000000e+00 941.0
38 TraesCS2D01G025500 chr4D 79.669 1328 225 33 1840 3152 65075834 65074537 0.000000e+00 915.0
39 TraesCS2D01G025500 chr4D 100.000 35 0 0 1448 1482 471190194 471190160 9.660000e-07 65.8
40 TraesCS2D01G025500 chr1B 76.327 735 148 20 2414 3134 512764841 512764119 1.830000e-98 370.0
41 TraesCS2D01G025500 chr3B 79.141 489 80 21 1656 2128 41037337 41036855 6.720000e-83 318.0
42 TraesCS2D01G025500 chr7A 78.541 233 39 5 28 260 733341098 733340877 4.340000e-30 143.0
43 TraesCS2D01G025500 chr7A 77.523 218 38 6 35 252 717846498 717846704 2.030000e-23 121.0
44 TraesCS2D01G025500 chr7D 77.099 262 45 8 6 265 633596381 633596629 2.020000e-28 137.0


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 TraesCS2D01G025500 chr2D 11043643 11047807 4164 False 7692.000000 7692 100.000000 1 4165 1 chr2D.!!$F1 4164
1 TraesCS2D01G025500 chr2D 11061037 11063399 2362 True 385.000000 457 86.899500 1 2705 2 chr2D.!!$R1 2704
2 TraesCS2D01G025500 chr2B 17364392 17367828 3436 True 1546.666667 4418 92.495333 143 3587 3 chr2B.!!$R2 3444
3 TraesCS2D01G025500 chr2B 16880125 16881973 1848 False 516.333333 913 91.086333 224 1557 3 chr2B.!!$F1 1333
4 TraesCS2D01G025500 chrUn 12631906 12634687 2781 True 1851.000000 2549 91.799000 354 3056 2 chrUn.!!$R4 2702
5 TraesCS2D01G025500 chrUn 248321897 248322794 897 False 553.500000 839 92.890000 3058 4038 2 chrUn.!!$F3 980
6 TraesCS2D01G025500 chrUn 377094021 377094918 897 True 553.500000 839 92.890000 3058 4038 2 chrUn.!!$R5 980
7 TraesCS2D01G025500 chr7B 78242580 78247029 4449 True 826.800000 2263 89.610800 6 3669 5 chr7B.!!$R1 3663
8 TraesCS2D01G025500 chr2A 11909196 11912507 3311 True 699.900000 1696 91.830333 6 3587 6 chr2A.!!$R1 3581
9 TraesCS2D01G025500 chr4A 530936911 530938421 1510 True 955.000000 955 78.567000 1656 3152 1 chr4A.!!$R1 1496
10 TraesCS2D01G025500 chr4B 95373002 95374473 1471 True 941.000000 941 78.576000 1656 3152 1 chr4B.!!$R1 1496
11 TraesCS2D01G025500 chr4D 65074537 65075834 1297 True 915.000000 915 79.669000 1840 3152 1 chr4D.!!$R1 1312
12 TraesCS2D01G025500 chr1B 512764119 512764841 722 True 370.000000 370 76.327000 2414 3134 1 chr1B.!!$R1 720

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
246 283 1.610102 GCCATCTCCATCTGGAATCCG 60.610 57.143 0.00 0.0 44.91 4.18 F
1316 2597 0.179181 CTGCGTGCAATTTCGATGCT 60.179 50.000 10.58 0.0 44.14 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1747 3052 0.668535 ACAGTTCCAAAAGCGCCTTC 59.331 50.0 2.29 0.0 0.0 3.46 R
3252 4814 2.655090 TGGCCACACATGAGAGAAAA 57.345 45.0 0.00 0.0 0.0 2.29 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
33 34 2.165845 GCAGACCTCACCGTATAGTTGT 59.834 50.000 0.00 0.00 0.00 3.32
246 283 1.610102 GCCATCTCCATCTGGAATCCG 60.610 57.143 0.00 0.00 44.91 4.18
278 315 3.316308 CAGCCTGACCATTTTATAGGTGC 59.684 47.826 0.00 0.00 38.50 5.01
656 1692 3.775261 TGGGAAGCCTTTTAGTACGTT 57.225 42.857 0.00 0.00 0.00 3.99
681 1717 7.708051 TCGGATAATGTTTTGTGTGAAAAAGA 58.292 30.769 0.00 0.00 29.93 2.52
692 1749 7.446001 TTGTGTGAAAAAGAGCCAAAATTTT 57.554 28.000 0.00 0.00 0.00 1.82
693 1750 6.840075 TGTGTGAAAAAGAGCCAAAATTTTG 58.160 32.000 21.65 21.65 37.90 2.44
708 1765 7.429636 CAAAATTTTGGCAGAACTGATCATT 57.570 32.000 21.00 0.00 34.59 2.57
713 1770 3.954200 TGGCAGAACTGATCATTGCTTA 58.046 40.909 16.25 7.68 35.23 3.09
728 1785 5.191722 TCATTGCTTAGATGGTTAGAAGGGT 59.808 40.000 0.00 0.00 0.00 4.34
733 1790 5.806734 GCTTAGATGGTTAGAAGGGTGGTTT 60.807 44.000 0.00 0.00 0.00 3.27
750 1807 4.019950 GTGGTTTTACCTTCTGCCTACCTA 60.020 45.833 0.00 0.00 39.58 3.08
763 1824 5.103387 TCTGCCTACCTAGGGTCAAATACTA 60.103 44.000 14.81 0.00 43.82 1.82
781 1842 3.497332 ACTAGACTTGGTGCTCTGTGTA 58.503 45.455 0.00 0.00 0.00 2.90
830 1891 1.627329 AGCATCTCACATGGTGTCAGT 59.373 47.619 0.00 0.00 34.79 3.41
1075 2150 0.251634 AACTGAGGCTAGCAGGAAGC 59.748 55.000 18.24 0.00 46.19 3.86
1151 2227 3.644953 AGGATCCCTCAAGAGTCCC 57.355 57.895 8.55 0.00 0.00 4.46
1174 2250 6.127897 CCCATCTTCACAAGGTATGTTCTTTC 60.128 42.308 0.00 0.00 41.46 2.62
1183 2259 7.382218 CACAAGGTATGTTCTTTCAATTTGGAC 59.618 37.037 0.00 0.00 41.46 4.02
1202 2278 4.819088 TGGACGTTGATTGTTTTCAGATGA 59.181 37.500 0.00 0.00 0.00 2.92
1207 2290 7.870826 ACGTTGATTGTTTTCAGATGATGTTA 58.129 30.769 0.00 0.00 0.00 2.41
1316 2597 0.179181 CTGCGTGCAATTTCGATGCT 60.179 50.000 10.58 0.00 44.14 3.79
1329 2610 0.957395 CGATGCTGTGGCCAGAAGTT 60.957 55.000 5.11 0.00 41.50 2.66
1411 2698 9.748708 TTCTATTTCAGAGGAAAAACATGTTTG 57.251 29.630 23.93 10.85 45.52 2.93
1412 2699 8.912988 TCTATTTCAGAGGAAAAACATGTTTGT 58.087 29.630 23.93 19.13 45.52 2.83
1413 2700 7.775397 ATTTCAGAGGAAAAACATGTTTGTG 57.225 32.000 23.93 10.84 45.52 3.33
1414 2701 5.261209 TCAGAGGAAAAACATGTTTGTGG 57.739 39.130 23.93 10.00 35.83 4.17
1415 2702 4.952957 TCAGAGGAAAAACATGTTTGTGGA 59.047 37.500 23.93 11.90 35.83 4.02
1416 2703 5.598005 TCAGAGGAAAAACATGTTTGTGGAT 59.402 36.000 23.93 9.84 35.83 3.41
1417 2704 6.098124 TCAGAGGAAAAACATGTTTGTGGATT 59.902 34.615 23.93 13.96 35.83 3.01
1418 2705 7.286546 TCAGAGGAAAAACATGTTTGTGGATTA 59.713 33.333 23.93 4.99 35.83 1.75
1419 2706 7.596248 CAGAGGAAAAACATGTTTGTGGATTAG 59.404 37.037 23.93 8.03 35.83 1.73
1421 2708 7.433680 AGGAAAAACATGTTTGTGGATTAGTC 58.566 34.615 23.93 4.51 35.83 2.59
1423 2710 7.382218 GGAAAAACATGTTTGTGGATTAGTCAG 59.618 37.037 23.93 0.00 35.83 3.51
1433 2720 6.432607 TGTGGATTAGTCAGTTAGTCTACG 57.567 41.667 0.00 0.00 0.00 3.51
1438 2734 6.262720 GGATTAGTCAGTTAGTCTACGGACAT 59.737 42.308 9.13 0.00 43.04 3.06
1747 3052 3.325870 TCAGAGAAGCGTGTAATTGGTG 58.674 45.455 0.00 0.00 0.00 4.17
1814 3149 6.110707 ACAGTTTCCGTCTTTTCAGAAGTTA 58.889 36.000 0.00 0.00 0.00 2.24
1832 3188 7.864379 CAGAAGTTACTGAAAAATGTTGCTGAT 59.136 33.333 0.00 0.00 39.94 2.90
1859 3215 0.957888 GAGGTTGAGCAGGGAACAGC 60.958 60.000 0.00 0.00 44.33 4.40
1902 3258 3.765026 TGTGAAGAAACTTGCCGAAAAC 58.235 40.909 0.00 0.00 0.00 2.43
2196 3560 9.420118 TCATACACTATTAATTGGAATTTGGCT 57.580 29.630 0.00 0.00 0.00 4.75
2285 3811 5.978919 TGACATGATCAAAAGAAGTTGCAAC 59.021 36.000 22.17 22.17 33.02 4.17
2299 3825 7.362662 AGAAGTTGCAACTGTACATACAAATG 58.637 34.615 31.73 0.00 39.66 2.32
2318 3845 8.571461 ACAAATGTGTCTTCTGTGATCAATAT 57.429 30.769 0.00 0.00 29.49 1.28
2923 4475 4.894784 TGGACACTAAACTTTAGAGGCTG 58.105 43.478 14.37 5.68 0.00 4.85
3174 4726 4.377841 GGCATTCTAATTGAGCTACGATGC 60.378 45.833 0.00 0.00 0.00 3.91
3230 4782 6.095720 CCATCCTAATGGCGGTTTTAGTTTAA 59.904 38.462 0.00 0.00 45.88 1.52
3237 4789 7.646446 ATGGCGGTTTTAGTTTAACAAATTC 57.354 32.000 0.00 0.00 0.00 2.17
3239 4791 7.039882 TGGCGGTTTTAGTTTAACAAATTCAA 58.960 30.769 0.00 0.00 0.00 2.69
3267 4829 9.850628 AATTGATACATTTTTCTCTCATGTGTG 57.149 29.630 0.00 0.00 33.19 3.82
3271 4833 2.655090 TTTTCTCTCATGTGTGGCCA 57.345 45.000 0.00 0.00 0.00 5.36
3448 5013 8.627403 TGTAGAACCATGTAGTTATGCTAGTAC 58.373 37.037 0.00 0.00 0.00 2.73
3526 5103 4.142071 TGGAATTTCAGATCTCCAGTCTCG 60.142 45.833 0.00 0.00 32.97 4.04
3610 5194 5.361135 GCTGTTTGCCAAATAATTTGCTT 57.639 34.783 0.00 0.00 39.31 3.91
3611 5195 5.384787 GCTGTTTGCCAAATAATTTGCTTC 58.615 37.500 0.00 0.00 39.31 3.86
3644 5228 4.278419 GTCATTGTGGAACCTGTTAGCTTT 59.722 41.667 0.00 0.00 34.36 3.51
3671 5255 8.504815 CATTTCTTATGATGATTGCTACTCCAG 58.495 37.037 0.00 0.00 0.00 3.86
3672 5256 6.983906 TCTTATGATGATTGCTACTCCAGA 57.016 37.500 0.00 0.00 0.00 3.86
3675 5259 8.526978 TCTTATGATGATTGCTACTCCAGATAC 58.473 37.037 0.00 0.00 0.00 2.24
3677 5261 6.094193 TGATGATTGCTACTCCAGATACAG 57.906 41.667 0.00 0.00 0.00 2.74
3679 5263 5.268118 TGATTGCTACTCCAGATACAGTG 57.732 43.478 0.00 0.00 0.00 3.66
3680 5264 3.526931 TTGCTACTCCAGATACAGTGC 57.473 47.619 0.00 0.00 0.00 4.40
3681 5265 2.456577 TGCTACTCCAGATACAGTGCA 58.543 47.619 0.00 0.00 0.00 4.57
3682 5266 2.428530 TGCTACTCCAGATACAGTGCAG 59.571 50.000 0.00 0.00 0.00 4.41
3684 5268 3.118956 GCTACTCCAGATACAGTGCAGTT 60.119 47.826 0.00 0.00 0.00 3.16
3686 5270 2.005451 CTCCAGATACAGTGCAGTTGC 58.995 52.381 0.00 0.00 42.50 4.17
3687 5271 1.089920 CCAGATACAGTGCAGTTGCC 58.910 55.000 1.06 0.00 41.18 4.52
3688 5272 1.339438 CCAGATACAGTGCAGTTGCCT 60.339 52.381 1.06 0.00 41.18 4.75
3689 5273 1.736126 CAGATACAGTGCAGTTGCCTG 59.264 52.381 16.09 16.09 41.71 4.85
3690 5274 1.349026 AGATACAGTGCAGTTGCCTGT 59.651 47.619 22.55 22.55 46.50 4.00
3691 5275 1.734465 GATACAGTGCAGTTGCCTGTC 59.266 52.381 22.59 11.98 44.98 3.51
3692 5276 0.250295 TACAGTGCAGTTGCCTGTCC 60.250 55.000 22.59 0.95 44.98 4.02
3693 5277 1.526686 CAGTGCAGTTGCCTGTCCA 60.527 57.895 1.06 0.00 41.02 4.02
3704 5303 1.539388 TGCCTGTCCAATTTAAGTGCG 59.461 47.619 0.00 0.00 0.00 5.34
3713 5312 4.624024 TCCAATTTAAGTGCGACGTAAGAG 59.376 41.667 0.00 0.00 43.62 2.85
3726 5325 4.802563 CGACGTAAGAGTTTTATTCTCCCC 59.197 45.833 0.00 0.00 43.62 4.81
3727 5326 5.622914 CGACGTAAGAGTTTTATTCTCCCCA 60.623 44.000 0.00 0.00 43.62 4.96
3730 5329 6.113411 CGTAAGAGTTTTATTCTCCCCATGT 58.887 40.000 0.00 0.00 43.02 3.21
3742 5341 9.847224 TTATTCTCCCCATGTAGATTTTAAGAC 57.153 33.333 0.00 0.00 0.00 3.01
3747 5346 3.555956 CCATGTAGATTTTAAGACGCGCT 59.444 43.478 5.73 0.50 0.00 5.92
3751 5350 5.162794 TGTAGATTTTAAGACGCGCTAACA 58.837 37.500 5.73 0.00 0.00 2.41
3763 5362 2.476185 CGCGCTAACATTTTCTCAAGGG 60.476 50.000 5.56 0.00 0.00 3.95
3776 5375 8.689972 CATTTTCTCAAGGGCAATTAGAGTATT 58.310 33.333 0.00 0.00 0.00 1.89
3876 5479 1.229114 GCCGGTATACCCTAGGCCT 60.229 63.158 22.34 11.78 41.81 5.19
3916 5519 6.564709 TGCATGTATCCATCATTAAGAAGC 57.435 37.500 0.00 0.00 0.00 3.86
3952 5556 9.515226 AAAGTAAAGTCATACAAGCCAGATAAA 57.485 29.630 0.00 0.00 0.00 1.40
3953 5557 9.515226 AAGTAAAGTCATACAAGCCAGATAAAA 57.485 29.630 0.00 0.00 0.00 1.52
3954 5558 9.515226 AGTAAAGTCATACAAGCCAGATAAAAA 57.485 29.630 0.00 0.00 0.00 1.94
3955 5559 9.774742 GTAAAGTCATACAAGCCAGATAAAAAG 57.225 33.333 0.00 0.00 0.00 2.27
3956 5560 7.396540 AAGTCATACAAGCCAGATAAAAAGG 57.603 36.000 0.00 0.00 0.00 3.11
3963 5567 2.959516 GCCAGATAAAAAGGCCAACAC 58.040 47.619 5.01 0.00 42.58 3.32
3964 5568 2.298729 GCCAGATAAAAAGGCCAACACA 59.701 45.455 5.01 0.00 42.58 3.72
3965 5569 3.244044 GCCAGATAAAAAGGCCAACACAA 60.244 43.478 5.01 0.00 42.58 3.33
3966 5570 4.306600 CCAGATAAAAAGGCCAACACAAC 58.693 43.478 5.01 0.00 0.00 3.32
3967 5571 4.306600 CAGATAAAAAGGCCAACACAACC 58.693 43.478 5.01 0.00 0.00 3.77
3968 5572 2.873133 TAAAAAGGCCAACACAACCG 57.127 45.000 5.01 0.00 0.00 4.44
3969 5573 1.187087 AAAAAGGCCAACACAACCGA 58.813 45.000 5.01 0.00 0.00 4.69
4011 5615 5.330233 TGACACTCTCAAGGACCACTAATA 58.670 41.667 0.00 0.00 0.00 0.98
4017 5621 7.122948 CACTCTCAAGGACCACTAATACTAACT 59.877 40.741 0.00 0.00 0.00 2.24
4018 5622 7.122948 ACTCTCAAGGACCACTAATACTAACTG 59.877 40.741 0.00 0.00 0.00 3.16
4019 5623 6.952358 TCTCAAGGACCACTAATACTAACTGT 59.048 38.462 0.00 0.00 0.00 3.55
4034 5638 5.178797 ACTAACTGTGTGGTGCTTGATATC 58.821 41.667 0.00 0.00 0.00 1.63
4038 5642 2.571202 TGTGTGGTGCTTGATATCAGGA 59.429 45.455 18.34 5.75 0.00 3.86
4039 5643 3.200605 TGTGTGGTGCTTGATATCAGGAT 59.799 43.478 18.34 0.00 0.00 3.24
4040 5644 4.202441 GTGTGGTGCTTGATATCAGGATT 58.798 43.478 18.34 0.00 0.00 3.01
4041 5645 4.641989 GTGTGGTGCTTGATATCAGGATTT 59.358 41.667 18.34 0.00 0.00 2.17
4042 5646 5.126061 GTGTGGTGCTTGATATCAGGATTTT 59.874 40.000 18.34 0.00 0.00 1.82
4043 5647 5.716228 TGTGGTGCTTGATATCAGGATTTTT 59.284 36.000 18.34 0.00 0.00 1.94
4069 5673 8.908786 TTTTAATCTAGCTTGATATCAGGTGG 57.091 34.615 15.49 12.18 0.00 4.61
4070 5674 5.495926 AATCTAGCTTGATATCAGGTGGG 57.504 43.478 15.49 6.69 0.00 4.61
4071 5675 3.242867 TCTAGCTTGATATCAGGTGGGG 58.757 50.000 15.49 5.20 0.00 4.96
4072 5676 2.196742 AGCTTGATATCAGGTGGGGA 57.803 50.000 15.49 0.00 0.00 4.81
4073 5677 2.053244 AGCTTGATATCAGGTGGGGAG 58.947 52.381 15.49 5.48 0.00 4.30
4074 5678 1.544314 GCTTGATATCAGGTGGGGAGC 60.544 57.143 15.49 11.28 0.00 4.70
4075 5679 0.758734 TTGATATCAGGTGGGGAGCG 59.241 55.000 5.39 0.00 0.00 5.03
4076 5680 1.004440 GATATCAGGTGGGGAGCGC 60.004 63.158 0.00 0.00 0.00 5.92
4077 5681 1.758440 GATATCAGGTGGGGAGCGCA 61.758 60.000 11.47 0.00 0.00 6.09
4078 5682 1.762522 ATATCAGGTGGGGAGCGCAG 61.763 60.000 11.47 0.00 0.00 5.18
4097 5701 5.837068 CGCAGCGAATAGTCAATAATAGTG 58.163 41.667 9.98 0.00 0.00 2.74
4098 5702 5.612865 GCAGCGAATAGTCAATAATAGTGC 58.387 41.667 0.00 0.00 0.00 4.40
4099 5703 5.177511 GCAGCGAATAGTCAATAATAGTGCA 59.822 40.000 0.00 0.00 0.00 4.57
4100 5704 6.617317 GCAGCGAATAGTCAATAATAGTGCAG 60.617 42.308 0.00 0.00 0.00 4.41
4101 5705 5.406780 AGCGAATAGTCAATAATAGTGCAGC 59.593 40.000 0.00 0.00 0.00 5.25
4102 5706 5.389935 GCGAATAGTCAATAATAGTGCAGCC 60.390 44.000 0.00 0.00 0.00 4.85
4103 5707 5.928839 CGAATAGTCAATAATAGTGCAGCCT 59.071 40.000 0.00 0.00 0.00 4.58
4104 5708 6.128715 CGAATAGTCAATAATAGTGCAGCCTG 60.129 42.308 0.00 0.00 0.00 4.85
4105 5709 4.760530 AGTCAATAATAGTGCAGCCTGA 57.239 40.909 0.00 0.00 0.00 3.86
4106 5710 5.301835 AGTCAATAATAGTGCAGCCTGAT 57.698 39.130 0.00 0.00 0.00 2.90
4107 5711 5.688807 AGTCAATAATAGTGCAGCCTGATT 58.311 37.500 0.00 0.00 0.00 2.57
4108 5712 5.530171 AGTCAATAATAGTGCAGCCTGATTG 59.470 40.000 0.00 0.00 0.00 2.67
4109 5713 4.276678 TCAATAATAGTGCAGCCTGATTGC 59.723 41.667 0.00 0.00 41.86 3.56
4110 5714 2.431954 AATAGTGCAGCCTGATTGCT 57.568 45.000 0.00 0.00 44.00 3.91
4111 5715 2.431954 ATAGTGCAGCCTGATTGCTT 57.568 45.000 0.00 0.00 40.32 3.91
4112 5716 3.565764 ATAGTGCAGCCTGATTGCTTA 57.434 42.857 0.00 0.00 40.32 3.09
4113 5717 1.457346 AGTGCAGCCTGATTGCTTAC 58.543 50.000 0.00 0.00 40.32 2.34
4114 5718 0.453390 GTGCAGCCTGATTGCTTACC 59.547 55.000 0.00 0.00 40.32 2.85
4115 5719 0.329261 TGCAGCCTGATTGCTTACCT 59.671 50.000 0.00 0.00 40.32 3.08
4116 5720 0.737219 GCAGCCTGATTGCTTACCTG 59.263 55.000 0.00 0.00 40.32 4.00
4117 5721 1.386533 CAGCCTGATTGCTTACCTGG 58.613 55.000 0.00 0.00 40.32 4.45
4118 5722 0.257039 AGCCTGATTGCTTACCTGGG 59.743 55.000 0.00 0.00 38.85 4.45
4119 5723 1.387295 GCCTGATTGCTTACCTGGGC 61.387 60.000 0.00 0.00 0.00 5.36
4120 5724 0.753111 CCTGATTGCTTACCTGGGCC 60.753 60.000 0.00 0.00 0.00 5.80
4121 5725 0.034186 CTGATTGCTTACCTGGGCCA 60.034 55.000 5.85 5.85 0.00 5.36
4122 5726 0.034186 TGATTGCTTACCTGGGCCAG 60.034 55.000 27.04 27.04 0.00 4.85
4123 5727 1.380380 ATTGCTTACCTGGGCCAGC 60.380 57.895 28.51 17.72 0.00 4.85
4124 5728 2.861271 ATTGCTTACCTGGGCCAGCC 62.861 60.000 28.51 12.79 0.00 4.85
4125 5729 4.047125 GCTTACCTGGGCCAGCCA 62.047 66.667 28.51 14.48 37.98 4.75
4126 5730 2.273449 CTTACCTGGGCCAGCCAG 59.727 66.667 28.51 17.82 37.98 4.85
4136 5740 2.357836 CCAGCCAGGCCATCAGTT 59.642 61.111 8.22 0.00 0.00 3.16
4137 5741 1.751927 CCAGCCAGGCCATCAGTTC 60.752 63.158 8.22 0.00 0.00 3.01
4138 5742 1.302285 CAGCCAGGCCATCAGTTCT 59.698 57.895 8.22 0.00 0.00 3.01
4139 5743 0.747283 CAGCCAGGCCATCAGTTCTC 60.747 60.000 8.22 0.00 0.00 2.87
4140 5744 0.913451 AGCCAGGCCATCAGTTCTCT 60.913 55.000 8.22 0.00 0.00 3.10
4141 5745 0.463474 GCCAGGCCATCAGTTCTCTC 60.463 60.000 5.01 0.00 0.00 3.20
4142 5746 1.202330 CCAGGCCATCAGTTCTCTCT 58.798 55.000 5.01 0.00 0.00 3.10
4143 5747 1.558756 CCAGGCCATCAGTTCTCTCTT 59.441 52.381 5.01 0.00 0.00 2.85
4144 5748 2.026449 CCAGGCCATCAGTTCTCTCTTT 60.026 50.000 5.01 0.00 0.00 2.52
4145 5749 3.560882 CCAGGCCATCAGTTCTCTCTTTT 60.561 47.826 5.01 0.00 0.00 2.27
4146 5750 3.439476 CAGGCCATCAGTTCTCTCTTTTG 59.561 47.826 5.01 0.00 0.00 2.44
4147 5751 3.328931 AGGCCATCAGTTCTCTCTTTTGA 59.671 43.478 5.01 0.00 0.00 2.69
4148 5752 4.074970 GGCCATCAGTTCTCTCTTTTGAA 58.925 43.478 0.00 0.00 0.00 2.69
4149 5753 4.520492 GGCCATCAGTTCTCTCTTTTGAAA 59.480 41.667 0.00 0.00 0.00 2.69
4150 5754 5.010012 GGCCATCAGTTCTCTCTTTTGAAAA 59.990 40.000 0.00 0.00 0.00 2.29
4151 5755 6.461509 GGCCATCAGTTCTCTCTTTTGAAAAA 60.462 38.462 0.00 0.00 0.00 1.94
4152 5756 7.150640 GCCATCAGTTCTCTCTTTTGAAAAAT 58.849 34.615 0.00 0.00 0.00 1.82
4153 5757 7.115947 GCCATCAGTTCTCTCTTTTGAAAAATG 59.884 37.037 0.00 0.00 0.00 2.32
4154 5758 8.139989 CCATCAGTTCTCTCTTTTGAAAAATGT 58.860 33.333 0.00 0.00 0.00 2.71
4155 5759 9.525409 CATCAGTTCTCTCTTTTGAAAAATGTT 57.475 29.630 0.00 0.00 0.00 2.71
4156 5760 9.741647 ATCAGTTCTCTCTTTTGAAAAATGTTC 57.258 29.630 0.00 0.00 0.00 3.18
4157 5761 8.739039 TCAGTTCTCTCTTTTGAAAAATGTTCA 58.261 29.630 0.00 0.00 0.00 3.18
4158 5762 9.357652 CAGTTCTCTCTTTTGAAAAATGTTCAA 57.642 29.630 0.00 0.00 36.71 2.69
4159 5763 9.358872 AGTTCTCTCTTTTGAAAAATGTTCAAC 57.641 29.630 0.00 0.00 38.05 3.18
4160 5764 8.595533 GTTCTCTCTTTTGAAAAATGTTCAACC 58.404 33.333 0.00 0.00 38.05 3.77
4161 5765 8.066612 TCTCTCTTTTGAAAAATGTTCAACCT 57.933 30.769 0.00 0.00 38.05 3.50
4162 5766 7.975616 TCTCTCTTTTGAAAAATGTTCAACCTG 59.024 33.333 0.00 0.00 38.05 4.00
4163 5767 7.610865 TCTCTTTTGAAAAATGTTCAACCTGT 58.389 30.769 0.00 0.00 38.05 4.00
4164 5768 7.545265 TCTCTTTTGAAAAATGTTCAACCTGTG 59.455 33.333 0.00 0.00 38.05 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 1.729586 ACCTCTAGGCACCTGAACAA 58.270 50.000 0.00 0.00 39.32 2.83
246 283 0.603975 GGTCAGGCTGGACAGACAAC 60.604 60.000 15.73 5.16 39.50 3.32
278 315 2.543012 CAGATAATGAGCTGGAGTTGCG 59.457 50.000 0.00 0.00 35.34 4.85
616 1652 3.191371 CCAACAAGGGAGAACATACAAGC 59.809 47.826 0.00 0.00 0.00 4.01
642 1678 5.521372 ACATTATCCGAACGTACTAAAAGGC 59.479 40.000 0.00 0.00 0.00 4.35
656 1692 7.708051 TCTTTTTCACACAAAACATTATCCGA 58.292 30.769 0.00 0.00 0.00 4.55
692 1749 2.502142 AGCAATGATCAGTTCTGCCA 57.498 45.000 14.69 0.00 33.41 4.92
693 1750 4.194640 TCTAAGCAATGATCAGTTCTGCC 58.805 43.478 14.69 2.59 33.41 4.85
694 1751 5.277876 CCATCTAAGCAATGATCAGTTCTGC 60.278 44.000 0.09 7.58 0.00 4.26
695 1752 5.821470 ACCATCTAAGCAATGATCAGTTCTG 59.179 40.000 0.09 0.00 0.00 3.02
696 1753 5.999044 ACCATCTAAGCAATGATCAGTTCT 58.001 37.500 0.09 0.00 0.00 3.01
697 1754 6.690194 AACCATCTAAGCAATGATCAGTTC 57.310 37.500 0.09 0.00 0.00 3.01
698 1755 7.568349 TCTAACCATCTAAGCAATGATCAGTT 58.432 34.615 0.09 0.00 0.00 3.16
699 1756 7.129457 TCTAACCATCTAAGCAATGATCAGT 57.871 36.000 0.09 0.00 0.00 3.41
700 1757 7.172875 CCTTCTAACCATCTAAGCAATGATCAG 59.827 40.741 0.09 0.00 0.00 2.90
701 1758 6.994496 CCTTCTAACCATCTAAGCAATGATCA 59.006 38.462 0.00 0.00 0.00 2.92
702 1759 6.429385 CCCTTCTAACCATCTAAGCAATGATC 59.571 42.308 0.00 0.00 0.00 2.92
703 1760 6.126361 ACCCTTCTAACCATCTAAGCAATGAT 60.126 38.462 0.00 0.00 0.00 2.45
704 1761 5.191722 ACCCTTCTAACCATCTAAGCAATGA 59.808 40.000 0.00 0.00 0.00 2.57
705 1762 5.297776 CACCCTTCTAACCATCTAAGCAATG 59.702 44.000 0.00 0.00 0.00 2.82
706 1763 5.440610 CACCCTTCTAACCATCTAAGCAAT 58.559 41.667 0.00 0.00 0.00 3.56
707 1764 4.324254 CCACCCTTCTAACCATCTAAGCAA 60.324 45.833 0.00 0.00 0.00 3.91
708 1765 3.199946 CCACCCTTCTAACCATCTAAGCA 59.800 47.826 0.00 0.00 0.00 3.91
713 1770 4.741928 AAAACCACCCTTCTAACCATCT 57.258 40.909 0.00 0.00 0.00 2.90
728 1785 2.983898 AGGTAGGCAGAAGGTAAAACCA 59.016 45.455 0.00 0.00 41.95 3.67
733 1790 2.316982 ACCCTAGGTAGGCAGAAGGTAA 59.683 50.000 8.29 0.00 42.26 2.85
741 1798 4.003584 AGTATTTGACCCTAGGTAGGCA 57.996 45.455 8.29 0.00 42.26 4.75
750 1807 4.323562 GCACCAAGTCTAGTATTTGACCCT 60.324 45.833 0.00 0.00 34.02 4.34
763 1824 3.169099 AGATACACAGAGCACCAAGTCT 58.831 45.455 0.00 0.00 0.00 3.24
830 1891 3.699538 ACACTATAGCAAGGACATCGACA 59.300 43.478 0.00 0.00 0.00 4.35
1075 2150 2.289072 TGAAGCTTCTGAGAAGGAACCG 60.289 50.000 26.09 0.00 0.00 4.44
1151 2227 7.439157 TGAAAGAACATACCTTGTGAAGATG 57.561 36.000 0.00 0.00 38.99 2.90
1174 2250 6.475076 TCTGAAAACAATCAACGTCCAAATTG 59.525 34.615 0.00 0.00 35.68 2.32
1183 2259 7.802720 TGTAACATCATCTGAAAACAATCAACG 59.197 33.333 0.00 0.00 0.00 4.10
1202 2278 4.883585 CCATAGACATGGCTGTTGTAACAT 59.116 41.667 12.69 0.00 45.29 2.71
1256 2342 7.625606 GCAAGCAACGGTAAAAGATGTAGTAAT 60.626 37.037 0.00 0.00 0.00 1.89
1310 2591 0.957395 AACTTCTGGCCACAGCATCG 60.957 55.000 0.00 0.00 44.54 3.84
1316 2597 2.972713 AGAGTTCTAACTTCTGGCCACA 59.027 45.455 0.00 0.00 39.88 4.17
1329 2610 5.023452 TGATACAAGCCCAGAAGAGTTCTA 58.977 41.667 0.00 0.00 38.11 2.10
1363 2648 8.814038 AGAAACTTCTATAGATTTGTTGCCAT 57.186 30.769 2.58 0.00 35.34 4.40
1411 2698 5.587844 TCCGTAGACTAACTGACTAATCCAC 59.412 44.000 0.00 0.00 0.00 4.02
1412 2699 5.587844 GTCCGTAGACTAACTGACTAATCCA 59.412 44.000 0.00 0.00 40.10 3.41
1413 2700 5.587844 TGTCCGTAGACTAACTGACTAATCC 59.412 44.000 8.11 0.00 43.91 3.01
1414 2701 6.674694 TGTCCGTAGACTAACTGACTAATC 57.325 41.667 8.11 0.00 43.91 1.75
1415 2702 7.201803 GGAATGTCCGTAGACTAACTGACTAAT 60.202 40.741 8.11 0.00 43.91 1.73
1416 2703 6.094603 GGAATGTCCGTAGACTAACTGACTAA 59.905 42.308 8.11 0.00 43.91 2.24
1417 2704 5.587844 GGAATGTCCGTAGACTAACTGACTA 59.412 44.000 8.11 0.00 43.91 2.59
1418 2705 4.398673 GGAATGTCCGTAGACTAACTGACT 59.601 45.833 8.11 0.00 43.91 3.41
1419 2706 4.157289 TGGAATGTCCGTAGACTAACTGAC 59.843 45.833 0.00 0.00 43.91 3.51
1421 2708 4.713824 TGGAATGTCCGTAGACTAACTG 57.286 45.455 0.00 0.00 43.91 3.16
1438 2734 5.189928 ACACAAGACTAAACACACATGGAA 58.810 37.500 0.00 0.00 0.00 3.53
1506 2810 7.252612 TCTCCATATACCAGAGAACAACAAA 57.747 36.000 0.00 0.00 33.80 2.83
1507 2811 6.867519 TCTCCATATACCAGAGAACAACAA 57.132 37.500 0.00 0.00 33.80 2.83
1508 2812 6.867519 TTCTCCATATACCAGAGAACAACA 57.132 37.500 6.77 0.00 40.73 3.33
1567 2871 4.777896 TGTGACTCCTAATTTACCAGAGCT 59.222 41.667 0.00 0.00 0.00 4.09
1747 3052 0.668535 ACAGTTCCAAAAGCGCCTTC 59.331 50.000 2.29 0.00 0.00 3.46
1814 3149 6.939163 AGACTCTATCAGCAACATTTTTCAGT 59.061 34.615 0.00 0.00 0.00 3.41
1832 3188 2.451490 CCTGCTCAACCTCAGACTCTA 58.549 52.381 0.00 0.00 32.26 2.43
1859 3215 2.354729 TGGTTTCCCCATCTGGCG 59.645 61.111 0.00 0.00 38.72 5.69
1962 3318 7.493971 CCAACCAACTTTACAACATTTTCATGA 59.506 33.333 0.00 0.00 34.11 3.07
2127 3485 5.327616 ACATTGATGCAATTTGAATCGGA 57.672 34.783 11.87 4.72 35.09 4.55
2189 3553 7.178274 TGGTGTAACAAAGATTGATAGCCAAAT 59.822 33.333 0.00 0.00 39.98 2.32
2196 3560 6.706716 TGAACGTGGTGTAACAAAGATTGATA 59.293 34.615 0.00 0.00 39.98 2.15
2251 3617 8.394971 TCTTTTGATCATGTCAACTGTTGTAT 57.605 30.769 19.12 12.39 46.14 2.29
2285 3811 7.384932 TCACAGAAGACACATTTGTATGTACAG 59.615 37.037 0.33 0.00 43.07 2.74
2670 4209 6.038714 CCAGAGAGGTTAGGATGCATTTAAAC 59.961 42.308 0.00 6.26 0.00 2.01
2673 4217 5.296151 CCAGAGAGGTTAGGATGCATTTA 57.704 43.478 0.00 0.00 0.00 1.40
2919 4471 9.674824 CACAAAAGATCATTTCTAATATCAGCC 57.325 33.333 0.00 0.00 33.05 4.85
3244 4806 6.127925 GCCACACATGAGAGAAAAATGTATCA 60.128 38.462 0.00 0.00 33.31 2.15
3252 4814 2.655090 TGGCCACACATGAGAGAAAA 57.345 45.000 0.00 0.00 0.00 2.29
3406 4971 5.362263 GTTCTACAGATGCCGGGTTAATAA 58.638 41.667 2.18 0.00 0.00 1.40
3526 5103 3.451540 AGACCCGAACTTAATTCTCCCTC 59.548 47.826 0.00 0.00 34.88 4.30
3542 5119 1.257743 TGTCTCCTGAAGAAGACCCG 58.742 55.000 0.00 0.00 35.21 5.28
3610 5194 4.904253 TCCACAATGACGTACATATCGA 57.096 40.909 0.00 0.00 38.38 3.59
3611 5195 4.208460 GGTTCCACAATGACGTACATATCG 59.792 45.833 0.00 0.00 38.38 2.92
3644 5228 8.212995 TGGAGTAGCAATCATCATAAGAAATGA 58.787 33.333 0.00 0.00 36.40 2.57
3682 5266 3.317150 GCACTTAAATTGGACAGGCAAC 58.683 45.455 0.00 0.00 0.00 4.17
3684 5268 1.539388 CGCACTTAAATTGGACAGGCA 59.461 47.619 0.00 0.00 0.00 4.75
3686 5270 2.159707 CGTCGCACTTAAATTGGACAGG 60.160 50.000 0.00 0.00 0.00 4.00
3687 5271 2.478894 ACGTCGCACTTAAATTGGACAG 59.521 45.455 0.00 0.00 0.00 3.51
3688 5272 2.485903 ACGTCGCACTTAAATTGGACA 58.514 42.857 0.00 0.00 0.00 4.02
3689 5273 4.386652 TCTTACGTCGCACTTAAATTGGAC 59.613 41.667 0.00 0.00 0.00 4.02
3690 5274 4.558178 TCTTACGTCGCACTTAAATTGGA 58.442 39.130 0.00 0.00 0.00 3.53
3691 5275 4.387862 ACTCTTACGTCGCACTTAAATTGG 59.612 41.667 0.00 0.00 0.00 3.16
3692 5276 5.511088 ACTCTTACGTCGCACTTAAATTG 57.489 39.130 0.00 0.00 0.00 2.32
3693 5277 6.535274 AAACTCTTACGTCGCACTTAAATT 57.465 33.333 0.00 0.00 0.00 1.82
3704 5303 5.727434 TGGGGAGAATAAAACTCTTACGTC 58.273 41.667 0.00 0.00 35.10 4.34
3726 5325 4.778842 AGCGCGTCTTAAAATCTACATG 57.221 40.909 8.43 0.00 0.00 3.21
3727 5326 5.808540 TGTTAGCGCGTCTTAAAATCTACAT 59.191 36.000 8.43 0.00 0.00 2.29
3730 5329 6.897259 AATGTTAGCGCGTCTTAAAATCTA 57.103 33.333 8.43 0.00 0.00 1.98
3742 5341 2.476185 CCCTTGAGAAAATGTTAGCGCG 60.476 50.000 0.00 0.00 0.00 6.86
3747 5346 7.669722 ACTCTAATTGCCCTTGAGAAAATGTTA 59.330 33.333 0.00 0.00 0.00 2.41
3751 5350 8.829373 AATACTCTAATTGCCCTTGAGAAAAT 57.171 30.769 0.00 0.00 0.00 1.82
3851 5450 2.723322 AGGGTATACCGGCCTTTTTC 57.277 50.000 15.80 0.00 46.96 2.29
3852 5451 2.440627 CCTAGGGTATACCGGCCTTTTT 59.559 50.000 15.80 0.00 46.96 1.94
3876 5479 1.016627 GCATACAATTGGCGCAGAGA 58.983 50.000 10.83 0.00 0.00 3.10
3916 5519 8.289440 TGTATGACTTTACTTTGTACGTGAAG 57.711 34.615 0.00 2.33 35.04 3.02
3952 5556 1.136110 CTTTCGGTTGTGTTGGCCTTT 59.864 47.619 3.32 0.00 0.00 3.11
3953 5557 0.744281 CTTTCGGTTGTGTTGGCCTT 59.256 50.000 3.32 0.00 0.00 4.35
3954 5558 1.106944 CCTTTCGGTTGTGTTGGCCT 61.107 55.000 3.32 0.00 0.00 5.19
3955 5559 1.362355 CCTTTCGGTTGTGTTGGCC 59.638 57.895 0.00 0.00 0.00 5.36
3956 5560 1.299850 GCCTTTCGGTTGTGTTGGC 60.300 57.895 0.00 0.00 0.00 4.52
3957 5561 0.457851 TTGCCTTTCGGTTGTGTTGG 59.542 50.000 0.00 0.00 0.00 3.77
3958 5562 2.507339 ATTGCCTTTCGGTTGTGTTG 57.493 45.000 0.00 0.00 0.00 3.33
3959 5563 3.482436 TCTATTGCCTTTCGGTTGTGTT 58.518 40.909 0.00 0.00 0.00 3.32
3960 5564 3.074412 CTCTATTGCCTTTCGGTTGTGT 58.926 45.455 0.00 0.00 0.00 3.72
3961 5565 3.334691 TCTCTATTGCCTTTCGGTTGTG 58.665 45.455 0.00 0.00 0.00 3.33
3962 5566 3.695830 TCTCTATTGCCTTTCGGTTGT 57.304 42.857 0.00 0.00 0.00 3.32
3963 5567 5.584649 TGTAATCTCTATTGCCTTTCGGTTG 59.415 40.000 0.00 0.00 0.00 3.77
3964 5568 5.741011 TGTAATCTCTATTGCCTTTCGGTT 58.259 37.500 0.00 0.00 0.00 4.44
3965 5569 5.353394 TGTAATCTCTATTGCCTTTCGGT 57.647 39.130 0.00 0.00 0.00 4.69
3966 5570 5.991606 TCATGTAATCTCTATTGCCTTTCGG 59.008 40.000 0.00 0.00 0.00 4.30
3967 5571 6.479990 TGTCATGTAATCTCTATTGCCTTTCG 59.520 38.462 0.00 0.00 0.00 3.46
3968 5572 7.497249 AGTGTCATGTAATCTCTATTGCCTTTC 59.503 37.037 0.00 0.00 0.00 2.62
3969 5573 7.341805 AGTGTCATGTAATCTCTATTGCCTTT 58.658 34.615 0.00 0.00 0.00 3.11
4011 5615 3.492102 ATCAAGCACCACACAGTTAGT 57.508 42.857 0.00 0.00 0.00 2.24
4017 5621 2.571202 TCCTGATATCAAGCACCACACA 59.429 45.455 6.90 0.00 0.00 3.72
4018 5622 3.266510 TCCTGATATCAAGCACCACAC 57.733 47.619 6.90 0.00 0.00 3.82
4019 5623 4.508551 AATCCTGATATCAAGCACCACA 57.491 40.909 6.90 0.00 0.00 4.17
4043 5647 9.342308 CCACCTGATATCAAGCTAGATTAAAAA 57.658 33.333 6.90 0.00 0.00 1.94
4044 5648 7.939039 CCCACCTGATATCAAGCTAGATTAAAA 59.061 37.037 6.90 0.00 0.00 1.52
4045 5649 7.453393 CCCACCTGATATCAAGCTAGATTAAA 58.547 38.462 6.90 0.00 0.00 1.52
4046 5650 6.013379 CCCCACCTGATATCAAGCTAGATTAA 60.013 42.308 6.90 0.00 0.00 1.40
4047 5651 5.485353 CCCCACCTGATATCAAGCTAGATTA 59.515 44.000 6.90 0.00 0.00 1.75
4048 5652 4.288105 CCCCACCTGATATCAAGCTAGATT 59.712 45.833 6.90 0.00 0.00 2.40
4049 5653 3.843027 CCCCACCTGATATCAAGCTAGAT 59.157 47.826 6.90 0.00 0.00 1.98
4050 5654 3.116746 TCCCCACCTGATATCAAGCTAGA 60.117 47.826 6.90 0.00 0.00 2.43
4051 5655 3.242867 TCCCCACCTGATATCAAGCTAG 58.757 50.000 6.90 0.00 0.00 3.42
4052 5656 3.242867 CTCCCCACCTGATATCAAGCTA 58.757 50.000 6.90 0.00 0.00 3.32
4053 5657 2.053244 CTCCCCACCTGATATCAAGCT 58.947 52.381 6.90 0.00 0.00 3.74
4054 5658 1.544314 GCTCCCCACCTGATATCAAGC 60.544 57.143 6.90 7.17 0.00 4.01
4055 5659 1.270518 CGCTCCCCACCTGATATCAAG 60.271 57.143 6.90 3.07 0.00 3.02
4056 5660 0.758734 CGCTCCCCACCTGATATCAA 59.241 55.000 6.90 0.00 0.00 2.57
4057 5661 1.758440 GCGCTCCCCACCTGATATCA 61.758 60.000 5.07 5.07 0.00 2.15
4058 5662 1.004440 GCGCTCCCCACCTGATATC 60.004 63.158 0.00 0.00 0.00 1.63
4059 5663 1.762522 CTGCGCTCCCCACCTGATAT 61.763 60.000 9.73 0.00 0.00 1.63
4060 5664 2.364973 TGCGCTCCCCACCTGATA 60.365 61.111 9.73 0.00 0.00 2.15
4061 5665 3.790437 CTGCGCTCCCCACCTGAT 61.790 66.667 9.73 0.00 0.00 2.90
4066 5670 3.733344 TATTCGCTGCGCTCCCCAC 62.733 63.158 18.65 0.00 0.00 4.61
4067 5671 3.445518 CTATTCGCTGCGCTCCCCA 62.446 63.158 18.65 0.00 0.00 4.96
4068 5672 2.663188 CTATTCGCTGCGCTCCCC 60.663 66.667 18.65 0.00 0.00 4.81
4069 5673 1.951631 GACTATTCGCTGCGCTCCC 60.952 63.158 18.65 0.28 0.00 4.30
4070 5674 0.806102 TTGACTATTCGCTGCGCTCC 60.806 55.000 18.65 0.00 0.00 4.70
4071 5675 1.212616 ATTGACTATTCGCTGCGCTC 58.787 50.000 18.65 6.84 0.00 5.03
4072 5676 2.509052 TATTGACTATTCGCTGCGCT 57.491 45.000 18.65 9.65 0.00 5.92
4073 5677 3.795561 ATTATTGACTATTCGCTGCGC 57.204 42.857 18.65 0.00 0.00 6.09
4074 5678 5.666427 GCACTATTATTGACTATTCGCTGCG 60.666 44.000 17.25 17.25 0.00 5.18
4075 5679 5.177511 TGCACTATTATTGACTATTCGCTGC 59.822 40.000 0.00 0.00 0.00 5.25
4076 5680 6.617317 GCTGCACTATTATTGACTATTCGCTG 60.617 42.308 0.00 0.00 0.00 5.18
4077 5681 5.406780 GCTGCACTATTATTGACTATTCGCT 59.593 40.000 0.00 0.00 0.00 4.93
4078 5682 5.389935 GGCTGCACTATTATTGACTATTCGC 60.390 44.000 0.50 0.00 0.00 4.70
4079 5683 5.928839 AGGCTGCACTATTATTGACTATTCG 59.071 40.000 0.50 0.00 0.00 3.34
4080 5684 6.931281 TCAGGCTGCACTATTATTGACTATTC 59.069 38.462 10.34 0.00 0.00 1.75
4081 5685 6.830912 TCAGGCTGCACTATTATTGACTATT 58.169 36.000 10.34 0.00 0.00 1.73
4082 5686 6.425210 TCAGGCTGCACTATTATTGACTAT 57.575 37.500 10.34 0.00 0.00 2.12
4083 5687 5.869649 TCAGGCTGCACTATTATTGACTA 57.130 39.130 10.34 0.00 0.00 2.59
4084 5688 4.760530 TCAGGCTGCACTATTATTGACT 57.239 40.909 10.34 0.00 0.00 3.41
4085 5689 5.755813 CAATCAGGCTGCACTATTATTGAC 58.244 41.667 10.34 0.00 0.00 3.18
4086 5690 4.276678 GCAATCAGGCTGCACTATTATTGA 59.723 41.667 20.53 0.00 39.69 2.57
4087 5691 4.277672 AGCAATCAGGCTGCACTATTATTG 59.722 41.667 10.34 13.24 43.89 1.90
4088 5692 4.467769 AGCAATCAGGCTGCACTATTATT 58.532 39.130 10.34 0.00 43.89 1.40
4089 5693 4.096190 AGCAATCAGGCTGCACTATTAT 57.904 40.909 10.34 0.00 43.89 1.28
4090 5694 3.565764 AGCAATCAGGCTGCACTATTA 57.434 42.857 10.34 0.00 43.89 0.98
4091 5695 2.431954 AGCAATCAGGCTGCACTATT 57.568 45.000 10.34 1.08 43.89 1.73
4092 5696 2.431954 AAGCAATCAGGCTGCACTAT 57.568 45.000 10.34 0.00 45.07 2.12
4093 5697 2.632377 GTAAGCAATCAGGCTGCACTA 58.368 47.619 10.34 0.00 45.07 2.74
4094 5698 1.457346 GTAAGCAATCAGGCTGCACT 58.543 50.000 10.34 0.96 45.07 4.40
4095 5699 0.453390 GGTAAGCAATCAGGCTGCAC 59.547 55.000 10.34 0.00 45.07 4.57
4096 5700 0.329261 AGGTAAGCAATCAGGCTGCA 59.671 50.000 10.34 0.00 45.07 4.41
4097 5701 0.737219 CAGGTAAGCAATCAGGCTGC 59.263 55.000 10.34 0.00 45.07 5.25
4098 5702 1.386533 CCAGGTAAGCAATCAGGCTG 58.613 55.000 8.58 8.58 45.07 4.85
4100 5704 1.387295 GCCCAGGTAAGCAATCAGGC 61.387 60.000 0.00 0.00 0.00 4.85
4101 5705 0.753111 GGCCCAGGTAAGCAATCAGG 60.753 60.000 0.00 0.00 0.00 3.86
4102 5706 0.034186 TGGCCCAGGTAAGCAATCAG 60.034 55.000 0.00 0.00 0.00 2.90
4103 5707 0.034186 CTGGCCCAGGTAAGCAATCA 60.034 55.000 1.63 0.00 0.00 2.57
4104 5708 1.387295 GCTGGCCCAGGTAAGCAATC 61.387 60.000 13.78 0.00 35.69 2.67
4105 5709 1.380380 GCTGGCCCAGGTAAGCAAT 60.380 57.895 13.78 0.00 35.69 3.56
4106 5710 2.035626 GCTGGCCCAGGTAAGCAA 59.964 61.111 13.78 0.00 35.69 3.91
4107 5711 4.047125 GGCTGGCCCAGGTAAGCA 62.047 66.667 13.78 0.00 37.40 3.91
4108 5712 4.047125 TGGCTGGCCCAGGTAAGC 62.047 66.667 13.78 0.00 39.18 3.09
4119 5723 1.751927 GAACTGATGGCCTGGCTGG 60.752 63.158 19.68 5.98 39.35 4.85
4120 5724 0.747283 GAGAACTGATGGCCTGGCTG 60.747 60.000 19.68 6.63 0.00 4.85
4121 5725 0.913451 AGAGAACTGATGGCCTGGCT 60.913 55.000 19.68 0.00 0.00 4.75
4122 5726 0.463474 GAGAGAACTGATGGCCTGGC 60.463 60.000 11.05 11.05 0.00 4.85
4123 5727 1.202330 AGAGAGAACTGATGGCCTGG 58.798 55.000 3.32 0.00 0.00 4.45
4124 5728 3.347077 AAAGAGAGAACTGATGGCCTG 57.653 47.619 3.32 0.00 0.00 4.85
4125 5729 3.328931 TCAAAAGAGAGAACTGATGGCCT 59.671 43.478 3.32 0.00 0.00 5.19
4126 5730 3.679389 TCAAAAGAGAGAACTGATGGCC 58.321 45.455 0.00 0.00 0.00 5.36
4127 5731 5.695851 TTTCAAAAGAGAGAACTGATGGC 57.304 39.130 0.00 0.00 0.00 4.40
4128 5732 8.139989 ACATTTTTCAAAAGAGAGAACTGATGG 58.860 33.333 0.00 0.00 0.00 3.51
4129 5733 9.525409 AACATTTTTCAAAAGAGAGAACTGATG 57.475 29.630 0.00 0.00 0.00 3.07
4130 5734 9.741647 GAACATTTTTCAAAAGAGAGAACTGAT 57.258 29.630 0.00 0.00 0.00 2.90
4131 5735 8.739039 TGAACATTTTTCAAAAGAGAGAACTGA 58.261 29.630 0.00 0.00 0.00 3.41
4132 5736 8.915871 TGAACATTTTTCAAAAGAGAGAACTG 57.084 30.769 0.00 0.00 0.00 3.16
4133 5737 9.358872 GTTGAACATTTTTCAAAAGAGAGAACT 57.641 29.630 0.00 0.00 39.76 3.01
4134 5738 8.595533 GGTTGAACATTTTTCAAAAGAGAGAAC 58.404 33.333 0.00 0.00 39.76 3.01
4135 5739 8.531146 AGGTTGAACATTTTTCAAAAGAGAGAA 58.469 29.630 0.00 0.00 39.76 2.87
4136 5740 7.975616 CAGGTTGAACATTTTTCAAAAGAGAGA 59.024 33.333 0.00 0.00 39.76 3.10
4137 5741 7.761249 ACAGGTTGAACATTTTTCAAAAGAGAG 59.239 33.333 0.00 0.00 39.76 3.20
4138 5742 7.545265 CACAGGTTGAACATTTTTCAAAAGAGA 59.455 33.333 0.00 0.00 39.76 3.10
4139 5743 7.678226 CACAGGTTGAACATTTTTCAAAAGAG 58.322 34.615 0.00 0.00 39.76 2.85
4140 5744 7.593875 CACAGGTTGAACATTTTTCAAAAGA 57.406 32.000 0.00 0.00 39.76 2.52


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

AutoCloner maintained by Alex Coulton.