Multiple sequence alignment - TraesCS1A01G065600

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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 TraesCS1A01G065600 chr1A 100.000 3921 0 0 855 4775 47826909 47822989 0.000000e+00 7241.0
1 TraesCS1A01G065600 chr1A 86.442 2434 325 4 995 3427 392529827 392527398 0.000000e+00 2662.0
2 TraesCS1A01G065600 chr1A 100.000 638 0 0 1 638 47827763 47827126 0.000000e+00 1179.0
3 TraesCS1A01G065600 chr1A 80.745 1101 194 16 1803 2896 47211649 47210560 0.000000e+00 843.0
4 TraesCS1A01G065600 chr1A 83.534 498 63 11 2959 3451 47210539 47210056 9.430000e-122 448.0
5 TraesCS1A01G065600 chr1A 77.734 768 132 16 963 1726 47212387 47211655 7.340000e-118 435.0
6 TraesCS1A01G065600 chr1A 96.774 93 1 2 3448 3539 98230601 98230692 2.300000e-33 154.0
7 TraesCS1A01G065600 chr1A 93.814 97 4 2 3448 3543 263537254 263537159 1.380000e-30 145.0
8 TraesCS1A01G065600 chr1A 74.344 343 65 14 3576 3901 47209891 47209555 1.800000e-24 124.0
9 TraesCS1A01G065600 chr1D 97.846 2600 53 2 855 3451 48024395 48021796 0.000000e+00 4488.0
10 TraesCS1A01G065600 chr1D 86.336 2459 331 3 970 3427 312973518 312971064 0.000000e+00 2675.0
11 TraesCS1A01G065600 chr1D 95.000 1060 35 11 3512 4558 48021816 48020762 0.000000e+00 1648.0
12 TraesCS1A01G065600 chr1D 95.466 794 28 3 3821 4608 47947679 47946888 0.000000e+00 1260.0
13 TraesCS1A01G065600 chr1D 80.913 1095 193 11 1801 2892 47329716 47328635 0.000000e+00 850.0
14 TraesCS1A01G065600 chr1D 91.446 491 11 8 1 468 48025210 48024728 0.000000e+00 645.0
15 TraesCS1A01G065600 chr1D 83.903 497 63 9 2959 3451 47328610 47328127 4.350000e-125 459.0
16 TraesCS1A01G065600 chr1D 92.000 225 11 3 3848 4067 47950831 47950609 4.640000e-80 309.0
17 TraesCS1A01G065600 chr1D 97.674 172 4 0 467 638 48024624 48024453 3.610000e-76 296.0
18 TraesCS1A01G065600 chr1D 96.629 89 3 0 3283 3371 47949627 47949539 1.070000e-31 148.0
19 TraesCS1A01G065600 chr1D 73.121 346 65 15 3576 3901 47328086 47327749 1.090000e-16 99.0
20 TraesCS1A01G065600 chr1B 97.113 2598 74 1 855 3451 67683356 67680759 0.000000e+00 4381.0
21 TraesCS1A01G065600 chr1B 86.373 2451 328 5 995 3444 423209942 423207497 0.000000e+00 2671.0
22 TraesCS1A01G065600 chr1B 93.971 680 30 7 3512 4186 67680779 67680106 0.000000e+00 1018.0
23 TraesCS1A01G065600 chr1B 79.144 1098 190 19 1803 2897 67053752 67052691 0.000000e+00 723.0
24 TraesCS1A01G065600 chr1B 91.651 527 21 10 1 504 67683879 67683353 0.000000e+00 708.0
25 TraesCS1A01G065600 chr1B 91.277 321 15 7 4187 4497 67679648 67679331 4.420000e-115 425.0
26 TraesCS1A01G065600 chr1B 100.000 28 0 0 4077 4104 67680281 67680254 9.000000e-03 52.8
27 TraesCS1A01G065600 chr4A 72.741 1926 474 43 1331 3232 136433693 136431795 6.840000e-168 601.0
28 TraesCS1A01G065600 chr4B 72.492 1934 483 46 1321 3232 415506509 415508415 3.200000e-161 579.0
29 TraesCS1A01G065600 chr4D 72.242 1931 493 39 1321 3232 336974822 336976728 1.500000e-154 556.0
30 TraesCS1A01G065600 chr3B 75.190 790 168 20 974 1753 564318039 564318810 9.840000e-92 348.0
31 TraesCS1A01G065600 chr3B 94.737 133 7 0 506 638 28298061 28298193 1.740000e-49 207.0
32 TraesCS1A01G065600 chr3D 88.571 210 24 0 2059 2268 91418837 91419046 6.130000e-64 255.0
33 TraesCS1A01G065600 chr3A 77.778 423 76 11 1355 1771 569625614 569626024 1.330000e-60 244.0
34 TraesCS1A01G065600 chr3A 94.815 135 5 2 504 638 476238419 476238551 4.840000e-50 209.0
35 TraesCS1A01G065600 chr7B 95.522 134 6 0 505 638 709448405 709448272 1.040000e-51 215.0
36 TraesCS1A01G065600 chr2A 94.776 134 7 0 505 638 208551578 208551711 4.840000e-50 209.0
37 TraesCS1A01G065600 chr2A 100.000 84 0 0 3448 3531 554014908 554014825 6.400000e-34 156.0
38 TraesCS1A01G065600 chr2B 94.697 132 7 0 507 638 108643978 108644109 6.260000e-49 206.0
39 TraesCS1A01G065600 chr2B 100.000 86 0 0 3448 3533 160667922 160667837 4.950000e-35 159.0
40 TraesCS1A01G065600 chr2B 97.727 88 1 1 3448 3535 197148682 197148596 2.980000e-32 150.0
41 TraesCS1A01G065600 chr6D 94.074 135 7 1 505 638 456502034 456501900 2.250000e-48 204.0
42 TraesCS1A01G065600 chr5D 94.118 136 5 3 504 638 532080626 532080759 2.250000e-48 204.0
43 TraesCS1A01G065600 chr5B 94.030 134 8 0 505 638 278087121 278087254 2.250000e-48 204.0
44 TraesCS1A01G065600 chr5B 97.727 88 0 2 3448 3535 67958894 67958809 2.980000e-32 150.0
45 TraesCS1A01G065600 chr6B 96.703 91 3 0 3447 3537 430374148 430374058 8.280000e-33 152.0
46 TraesCS1A01G065600 chr5A 95.699 93 4 0 3448 3540 668154399 668154307 2.980000e-32 150.0
47 TraesCS1A01G065600 chr6A 98.810 84 0 1 3448 3531 310143854 310143936 1.070000e-31 148.0


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 TraesCS1A01G065600 chr1A 47822989 47827763 4774 True 4210.000000 7241 100.000000 1 4775 2 chr1A.!!$R4 4774
1 TraesCS1A01G065600 chr1A 392527398 392529827 2429 True 2662.000000 2662 86.442000 995 3427 1 chr1A.!!$R2 2432
2 TraesCS1A01G065600 chr1A 47209555 47212387 2832 True 462.500000 843 79.089250 963 3901 4 chr1A.!!$R3 2938
3 TraesCS1A01G065600 chr1D 312971064 312973518 2454 True 2675.000000 2675 86.336000 970 3427 1 chr1D.!!$R1 2457
4 TraesCS1A01G065600 chr1D 48020762 48025210 4448 True 1769.250000 4488 95.491500 1 4558 4 chr1D.!!$R4 4557
5 TraesCS1A01G065600 chr1D 47946888 47950831 3943 True 572.333333 1260 94.698333 3283 4608 3 chr1D.!!$R3 1325
6 TraesCS1A01G065600 chr1D 47327749 47329716 1967 True 469.333333 850 79.312333 1801 3901 3 chr1D.!!$R2 2100
7 TraesCS1A01G065600 chr1B 423207497 423209942 2445 True 2671.000000 2671 86.373000 995 3444 1 chr1B.!!$R2 2449
8 TraesCS1A01G065600 chr1B 67679331 67683879 4548 True 1316.960000 4381 94.802400 1 4497 5 chr1B.!!$R3 4496
9 TraesCS1A01G065600 chr1B 67052691 67053752 1061 True 723.000000 723 79.144000 1803 2897 1 chr1B.!!$R1 1094
10 TraesCS1A01G065600 chr4A 136431795 136433693 1898 True 601.000000 601 72.741000 1331 3232 1 chr4A.!!$R1 1901
11 TraesCS1A01G065600 chr4B 415506509 415508415 1906 False 579.000000 579 72.492000 1321 3232 1 chr4B.!!$F1 1911
12 TraesCS1A01G065600 chr4D 336974822 336976728 1906 False 556.000000 556 72.242000 1321 3232 1 chr4D.!!$F1 1911
13 TraesCS1A01G065600 chr3B 564318039 564318810 771 False 348.000000 348 75.190000 974 1753 1 chr3B.!!$F2 779

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
132 133 0.179161 CCCAACGAGACTCGCTACAG 60.179 60.000 24.38 9.72 45.12 2.74 F
1056 1191 1.216444 GGACGGTAACCTTCGGTCC 59.784 63.158 6.84 6.84 43.91 4.46 F
1530 1666 3.141398 TCAAGTCAATGCTGTTCTGACC 58.859 45.455 0.00 0.00 40.29 4.02 F
2229 2370 1.406069 CCACTGGTACATGCTGGACTC 60.406 57.143 0.00 0.00 38.20 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1694 1834 1.136695 CTGCCTGTCTGATCTCCACTC 59.863 57.143 0.00 0.0 0.00 3.51 R
2197 2338 0.468226 ACCAGTGGAGCAAGTTTCGA 59.532 50.000 18.40 0.0 0.00 3.71 R
3454 3596 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.0 41.02 3.28 R
4011 5577 0.038744 ACAAGGACCAATCAGGCAGG 59.961 55.000 0.00 0.0 43.14 4.85 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
132 133 0.179161 CCCAACGAGACTCGCTACAG 60.179 60.000 24.38 9.72 45.12 2.74
328 354 9.855021 GATAAGAGAAGATAGCTTAATCAGGAC 57.145 37.037 0.00 0.00 33.61 3.85
347 373 1.295423 GCACCCGCTTGGAGACTAA 59.705 57.895 0.00 0.00 38.00 2.24
405 431 2.229062 TGACTGAAGCAGACGACCTAAG 59.771 50.000 0.82 0.00 35.18 2.18
457 483 6.183360 GCTGTGGACTACTATACTGTAGCTTT 60.183 42.308 0.00 0.00 42.53 3.51
1056 1191 1.216444 GGACGGTAACCTTCGGTCC 59.784 63.158 6.84 6.84 43.91 4.46
1530 1666 3.141398 TCAAGTCAATGCTGTTCTGACC 58.859 45.455 0.00 0.00 40.29 4.02
1694 1834 3.243535 TGCGAGACTGCTGTATCTAATGG 60.244 47.826 15.15 2.15 32.68 3.16
2001 2142 3.995705 CTCTGTTGAAGCAAGAGGAAGAG 59.004 47.826 4.76 0.00 35.78 2.85
2197 2338 2.326428 TCCTTGACGGTCCTTCTCTTT 58.674 47.619 5.55 0.00 0.00 2.52
2229 2370 1.406069 CCACTGGTACATGCTGGACTC 60.406 57.143 0.00 0.00 38.20 3.36
2328 2469 6.596888 TGTTTGAATTTTTGCATTCTCCAACA 59.403 30.769 0.00 0.00 34.66 3.33
2363 2504 7.507616 TCCAATTGTAACAAGTGGAAACCTTAT 59.492 33.333 18.48 0.00 40.88 1.73
2478 2619 8.462016 GGTTATGAAAATACAGCAGATTCAGTT 58.538 33.333 0.00 0.00 33.91 3.16
2651 2792 4.990526 AGCATTATAGGCCAGTTATTGCT 58.009 39.130 5.01 13.28 33.37 3.91
2673 2814 5.095145 TGGAGGTCATGAGAAGATTGAAG 57.905 43.478 0.00 0.00 0.00 3.02
2688 2830 8.512956 AGAAGATTGAAGTTGACATTTGATCTG 58.487 33.333 0.00 0.00 0.00 2.90
3387 3529 1.455383 CCCACCTGTTGCAGTTCACC 61.455 60.000 0.00 0.00 0.00 4.02
3433 3575 4.562082 CAGGTGCACATCATTTTCATTGT 58.438 39.130 20.43 0.00 0.00 2.71
3458 3600 9.886132 GTCATTTCTTCTAGTTATAGACCCAAA 57.114 33.333 0.00 0.00 37.77 3.28
3470 3612 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
3471 3613 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
3475 3617 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
3477 3619 2.606519 TGGTCGGACCCTTCCCTG 60.607 66.667 23.81 0.00 38.99 4.45
3478 3620 3.400054 GGTCGGACCCTTCCCTGG 61.400 72.222 16.55 0.00 38.99 4.45
3482 3624 3.015753 GGACCCTTCCCTGGACCC 61.016 72.222 0.00 0.00 35.57 4.46
3483 3625 2.125225 GACCCTTCCCTGGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
3484 3626 2.204151 ACCCTTCCCTGGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
3485 3627 3.732849 CCCTTCCCTGGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
3486 3628 4.101448 CCTTCCCTGGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
3487 3629 4.785453 CTTCCCTGGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
3513 3655 1.089920 GAGCTACATGCACCAGGTTG 58.910 55.000 0.00 0.00 45.94 3.77
3515 3657 1.937546 GCTACATGCACCAGGTTGCC 61.938 60.000 10.46 0.00 39.88 4.52
3519 3661 1.152269 ATGCACCAGGTTGCCCTTT 60.152 52.632 10.46 0.00 42.25 3.11
3520 3662 0.763986 ATGCACCAGGTTGCCCTTTT 60.764 50.000 10.46 0.00 42.25 2.27
3521 3663 0.980231 TGCACCAGGTTGCCCTTTTT 60.980 50.000 10.46 0.00 42.25 1.94
3717 5161 1.281899 GCCTTGATTCGGACGAAGAG 58.718 55.000 12.88 9.88 37.56 2.85
3803 5329 6.238076 GCGAAATCATTTTCTGTTGTTGGTTT 60.238 34.615 0.00 0.00 39.30 3.27
3806 5332 5.793026 TCATTTTCTGTTGTTGGTTTTGC 57.207 34.783 0.00 0.00 0.00 3.68
3969 5531 5.195940 ACTTGTTGCTTATCCATGCTATGT 58.804 37.500 0.00 0.00 0.00 2.29
3983 5549 7.564793 TCCATGCTATGTTGTCTATGTTACTT 58.435 34.615 0.00 0.00 0.00 2.24
3984 5550 8.046708 TCCATGCTATGTTGTCTATGTTACTTT 58.953 33.333 0.00 0.00 0.00 2.66
4011 5577 8.457261 AGTCTTTTTCTGTCATATGCTTTCATC 58.543 33.333 0.00 0.00 34.22 2.92
4023 5589 1.407979 GCTTTCATCCTGCCTGATTGG 59.592 52.381 0.00 0.00 39.35 3.16
4029 5595 0.329261 TCCTGCCTGATTGGTCCTTG 59.671 55.000 0.00 0.00 38.35 3.61
4105 5671 4.333926 GCTACCTGATTGATCCTTGTTGTC 59.666 45.833 0.00 0.00 0.00 3.18
4155 5723 5.302360 GCATGAATTATGGCCATGTCATTT 58.698 37.500 29.04 13.44 39.69 2.32
4247 6282 1.279271 GCAGAGGGCTTTTCTCAGGTA 59.721 52.381 0.00 0.00 40.25 3.08
4367 6402 0.883833 GCCATGACTCAACCCAGTTG 59.116 55.000 0.00 0.96 43.99 3.16
4368 6403 1.538047 CCATGACTCAACCCAGTTGG 58.462 55.000 7.56 0.00 42.99 3.77
4381 6416 0.742281 CAGTTGGCCTGATCTGACCG 60.742 60.000 3.32 0.00 44.49 4.79
4385 6420 1.369321 GGCCTGATCTGACCGATCC 59.631 63.158 0.00 0.00 46.52 3.36
4451 6487 2.889045 TGTAACGCTGACTACCTGAAGT 59.111 45.455 0.00 0.00 0.00 3.01
4452 6488 3.319972 TGTAACGCTGACTACCTGAAGTT 59.680 43.478 0.00 0.00 0.00 2.66
4453 6489 3.470645 AACGCTGACTACCTGAAGTTT 57.529 42.857 0.00 0.00 0.00 2.66
4546 6591 7.533426 CATGACTGGTTCTCAAAAAGGAATAG 58.467 38.462 0.00 0.00 0.00 1.73
4562 6607 9.520515 AAAAGGAATAGATGACTGCTTTTTCTA 57.479 29.630 0.00 0.00 0.00 2.10
4614 6659 3.374389 CATGTACTGCTGCTGTTAACG 57.626 47.619 17.29 1.65 0.00 3.18
4615 6660 2.519377 TGTACTGCTGCTGTTAACGT 57.481 45.000 17.29 0.00 0.00 3.99
4616 6661 2.400399 TGTACTGCTGCTGTTAACGTC 58.600 47.619 17.29 0.00 0.00 4.34
4617 6662 1.725164 GTACTGCTGCTGTTAACGTCC 59.275 52.381 17.29 0.00 0.00 4.79
4618 6663 0.393077 ACTGCTGCTGTTAACGTCCT 59.607 50.000 6.33 0.00 0.00 3.85
4619 6664 0.792640 CTGCTGCTGTTAACGTCCTG 59.207 55.000 0.00 0.00 0.00 3.86
4620 6665 0.602638 TGCTGCTGTTAACGTCCTGG 60.603 55.000 0.00 0.00 0.00 4.45
4621 6666 0.320421 GCTGCTGTTAACGTCCTGGA 60.320 55.000 0.26 0.00 0.00 3.86
4622 6667 1.676014 GCTGCTGTTAACGTCCTGGAT 60.676 52.381 0.00 0.00 0.00 3.41
4623 6668 2.699954 CTGCTGTTAACGTCCTGGATT 58.300 47.619 0.00 0.00 0.00 3.01
4624 6669 3.857052 CTGCTGTTAACGTCCTGGATTA 58.143 45.455 0.00 0.00 0.00 1.75
4625 6670 3.857052 TGCTGTTAACGTCCTGGATTAG 58.143 45.455 0.00 0.00 0.00 1.73
4626 6671 3.259876 TGCTGTTAACGTCCTGGATTAGT 59.740 43.478 0.00 0.00 0.00 2.24
4627 6672 4.251268 GCTGTTAACGTCCTGGATTAGTT 58.749 43.478 15.72 15.72 0.00 2.24
4628 6673 4.694037 GCTGTTAACGTCCTGGATTAGTTT 59.306 41.667 16.34 3.12 0.00 2.66
4629 6674 5.180680 GCTGTTAACGTCCTGGATTAGTTTT 59.819 40.000 16.34 1.68 0.00 2.43
4630 6675 6.548441 TGTTAACGTCCTGGATTAGTTTTG 57.452 37.500 16.34 0.00 0.00 2.44
4631 6676 6.289834 TGTTAACGTCCTGGATTAGTTTTGA 58.710 36.000 16.34 5.37 0.00 2.69
4632 6677 6.766944 TGTTAACGTCCTGGATTAGTTTTGAA 59.233 34.615 16.34 6.44 0.00 2.69
4633 6678 7.282675 TGTTAACGTCCTGGATTAGTTTTGAAA 59.717 33.333 16.34 6.19 0.00 2.69
4634 6679 6.702716 AACGTCCTGGATTAGTTTTGAAAA 57.297 33.333 0.00 0.00 0.00 2.29
4635 6680 6.702716 ACGTCCTGGATTAGTTTTGAAAAA 57.297 33.333 0.00 0.00 0.00 1.94
4636 6681 6.735130 ACGTCCTGGATTAGTTTTGAAAAAG 58.265 36.000 0.00 0.00 0.00 2.27
4637 6682 6.544564 ACGTCCTGGATTAGTTTTGAAAAAGA 59.455 34.615 0.00 0.00 0.00 2.52
4638 6683 7.230712 ACGTCCTGGATTAGTTTTGAAAAAGAT 59.769 33.333 0.00 0.00 0.00 2.40
4639 6684 8.726988 CGTCCTGGATTAGTTTTGAAAAAGATA 58.273 33.333 0.00 0.00 0.00 1.98
4640 6685 9.841880 GTCCTGGATTAGTTTTGAAAAAGATAC 57.158 33.333 0.00 0.00 0.00 2.24
4641 6686 8.726988 TCCTGGATTAGTTTTGAAAAAGATACG 58.273 33.333 0.00 0.00 0.00 3.06
4642 6687 8.512138 CCTGGATTAGTTTTGAAAAAGATACGT 58.488 33.333 0.00 0.00 0.00 3.57
4643 6688 9.893305 CTGGATTAGTTTTGAAAAAGATACGTT 57.107 29.630 0.00 0.00 0.00 3.99
4646 6691 9.989394 GATTAGTTTTGAAAAAGATACGTTTGC 57.011 29.630 0.00 0.00 0.00 3.68
4647 6692 9.744468 ATTAGTTTTGAAAAAGATACGTTTGCT 57.256 25.926 0.00 0.00 0.00 3.91
4648 6693 7.449934 AGTTTTGAAAAAGATACGTTTGCTG 57.550 32.000 0.00 0.00 0.00 4.41
4649 6694 7.033185 AGTTTTGAAAAAGATACGTTTGCTGT 58.967 30.769 0.00 0.00 0.00 4.40
4650 6695 7.544217 AGTTTTGAAAAAGATACGTTTGCTGTT 59.456 29.630 0.00 0.00 0.00 3.16
4651 6696 7.820044 TTTGAAAAAGATACGTTTGCTGTTT 57.180 28.000 0.00 0.00 0.00 2.83
4652 6697 7.444558 TTGAAAAAGATACGTTTGCTGTTTC 57.555 32.000 15.27 15.27 36.73 2.78
4653 6698 6.791303 TGAAAAAGATACGTTTGCTGTTTCT 58.209 32.000 19.49 1.12 36.99 2.52
4654 6699 7.921787 TGAAAAAGATACGTTTGCTGTTTCTA 58.078 30.769 19.49 9.93 36.99 2.10
4655 6700 8.564574 TGAAAAAGATACGTTTGCTGTTTCTAT 58.435 29.630 19.49 0.00 36.99 1.98
4656 6701 9.394477 GAAAAAGATACGTTTGCTGTTTCTATT 57.606 29.630 15.03 0.00 34.53 1.73
4657 6702 9.744468 AAAAAGATACGTTTGCTGTTTCTATTT 57.256 25.926 0.00 0.00 29.28 1.40
4659 6704 9.821662 AAAGATACGTTTGCTGTTTCTATTTAC 57.178 29.630 0.00 0.00 29.28 2.01
4660 6705 8.542497 AGATACGTTTGCTGTTTCTATTTACA 57.458 30.769 0.00 0.00 0.00 2.41
4661 6706 8.656849 AGATACGTTTGCTGTTTCTATTTACAG 58.343 33.333 0.00 0.00 43.58 2.74
4662 6707 6.854496 ACGTTTGCTGTTTCTATTTACAGA 57.146 33.333 6.43 0.00 43.45 3.41
4663 6708 6.888430 ACGTTTGCTGTTTCTATTTACAGAG 58.112 36.000 6.43 0.00 43.45 3.35
4664 6709 5.790495 CGTTTGCTGTTTCTATTTACAGAGC 59.210 40.000 6.43 0.00 43.45 4.09
4665 6710 6.565811 CGTTTGCTGTTTCTATTTACAGAGCA 60.566 38.462 6.43 0.00 43.45 4.26
4666 6711 6.875948 TTGCTGTTTCTATTTACAGAGCAA 57.124 33.333 6.43 0.00 43.45 3.91
4667 6712 7.452880 TTGCTGTTTCTATTTACAGAGCAAT 57.547 32.000 6.43 0.00 43.45 3.56
4668 6713 8.560355 TTGCTGTTTCTATTTACAGAGCAATA 57.440 30.769 6.43 0.00 43.45 1.90
4669 6714 8.737168 TGCTGTTTCTATTTACAGAGCAATAT 57.263 30.769 6.43 0.00 43.45 1.28
4670 6715 8.830580 TGCTGTTTCTATTTACAGAGCAATATC 58.169 33.333 6.43 0.00 43.45 1.63
4671 6716 8.286097 GCTGTTTCTATTTACAGAGCAATATCC 58.714 37.037 6.43 0.00 43.45 2.59
4672 6717 9.553064 CTGTTTCTATTTACAGAGCAATATCCT 57.447 33.333 0.00 0.00 43.45 3.24
4673 6718 9.330063 TGTTTCTATTTACAGAGCAATATCCTG 57.670 33.333 0.00 0.00 0.00 3.86
4674 6719 8.778358 GTTTCTATTTACAGAGCAATATCCTGG 58.222 37.037 0.00 0.00 32.52 4.45
4675 6720 6.467677 TCTATTTACAGAGCAATATCCTGGC 58.532 40.000 0.00 0.00 32.52 4.85
4676 6721 4.502105 TTTACAGAGCAATATCCTGGCA 57.498 40.909 0.00 0.00 32.52 4.92
4677 6722 2.634815 ACAGAGCAATATCCTGGCAG 57.365 50.000 7.75 7.75 32.52 4.85
4678 6723 1.236628 CAGAGCAATATCCTGGCAGC 58.763 55.000 9.56 0.00 0.00 5.25
4679 6724 0.841961 AGAGCAATATCCTGGCAGCA 59.158 50.000 9.56 0.00 0.00 4.41
4680 6725 0.950116 GAGCAATATCCTGGCAGCAC 59.050 55.000 9.56 0.00 0.00 4.40
4681 6726 0.549950 AGCAATATCCTGGCAGCACT 59.450 50.000 9.56 0.00 0.00 4.40
4682 6727 0.950116 GCAATATCCTGGCAGCACTC 59.050 55.000 9.56 0.00 0.00 3.51
4683 6728 1.748244 GCAATATCCTGGCAGCACTCA 60.748 52.381 9.56 0.00 0.00 3.41
4684 6729 1.945394 CAATATCCTGGCAGCACTCAC 59.055 52.381 9.56 0.00 0.00 3.51
4685 6730 0.471617 ATATCCTGGCAGCACTCACC 59.528 55.000 9.56 0.00 0.00 4.02
4686 6731 0.618680 TATCCTGGCAGCACTCACCT 60.619 55.000 9.56 0.00 0.00 4.00
4687 6732 0.618680 ATCCTGGCAGCACTCACCTA 60.619 55.000 9.56 0.00 0.00 3.08
4688 6733 1.220206 CCTGGCAGCACTCACCTAG 59.780 63.158 9.56 0.00 0.00 3.02
4689 6734 1.548357 CCTGGCAGCACTCACCTAGT 61.548 60.000 9.56 0.00 39.81 2.57
4690 6735 0.108424 CTGGCAGCACTCACCTAGTC 60.108 60.000 0.00 0.00 35.76 2.59
4691 6736 0.542938 TGGCAGCACTCACCTAGTCT 60.543 55.000 0.00 0.00 35.76 3.24
4692 6737 0.174617 GGCAGCACTCACCTAGTCTC 59.825 60.000 0.00 0.00 35.76 3.36
4693 6738 0.179150 GCAGCACTCACCTAGTCTCG 60.179 60.000 0.00 0.00 35.76 4.04
4694 6739 1.454201 CAGCACTCACCTAGTCTCGA 58.546 55.000 0.00 0.00 35.76 4.04
4695 6740 1.813178 CAGCACTCACCTAGTCTCGAA 59.187 52.381 0.00 0.00 35.76 3.71
4696 6741 1.813786 AGCACTCACCTAGTCTCGAAC 59.186 52.381 0.00 0.00 35.76 3.95
4697 6742 1.540267 GCACTCACCTAGTCTCGAACA 59.460 52.381 0.00 0.00 35.76 3.18
4698 6743 2.030185 GCACTCACCTAGTCTCGAACAA 60.030 50.000 0.00 0.00 35.76 2.83
4699 6744 3.552273 GCACTCACCTAGTCTCGAACAAA 60.552 47.826 0.00 0.00 35.76 2.83
4700 6745 4.617959 CACTCACCTAGTCTCGAACAAAA 58.382 43.478 0.00 0.00 35.76 2.44
4701 6746 5.230942 CACTCACCTAGTCTCGAACAAAAT 58.769 41.667 0.00 0.00 35.76 1.82
4702 6747 6.387465 CACTCACCTAGTCTCGAACAAAATA 58.613 40.000 0.00 0.00 35.76 1.40
4703 6748 7.036220 CACTCACCTAGTCTCGAACAAAATAT 58.964 38.462 0.00 0.00 35.76 1.28
4704 6749 7.545965 CACTCACCTAGTCTCGAACAAAATATT 59.454 37.037 0.00 0.00 35.76 1.28
4705 6750 8.095169 ACTCACCTAGTCTCGAACAAAATATTT 58.905 33.333 0.00 0.00 30.33 1.40
4706 6751 8.251750 TCACCTAGTCTCGAACAAAATATTTG 57.748 34.615 0.39 1.47 0.00 2.32
4707 6752 7.876068 TCACCTAGTCTCGAACAAAATATTTGT 59.124 33.333 0.39 2.76 0.00 2.83
4708 6753 9.146984 CACCTAGTCTCGAACAAAATATTTGTA 57.853 33.333 8.72 0.00 31.50 2.41
4709 6754 9.367444 ACCTAGTCTCGAACAAAATATTTGTAG 57.633 33.333 8.72 6.89 31.50 2.74
4710 6755 9.367444 CCTAGTCTCGAACAAAATATTTGTAGT 57.633 33.333 8.72 0.00 31.50 2.73
4712 6757 8.827177 AGTCTCGAACAAAATATTTGTAGTGA 57.173 30.769 8.72 9.36 31.50 3.41
4713 6758 9.268268 AGTCTCGAACAAAATATTTGTAGTGAA 57.732 29.630 8.72 0.00 31.50 3.18
4714 6759 9.872757 GTCTCGAACAAAATATTTGTAGTGAAA 57.127 29.630 8.72 0.00 31.50 2.69
4737 6782 4.806640 AAAAGGCATGGTTGGAACTATG 57.193 40.909 10.60 10.60 46.74 2.23
4738 6783 3.456380 AAGGCATGGTTGGAACTATGT 57.544 42.857 14.94 0.00 46.03 2.29
4741 6786 3.764885 GCATGGTTGGAACTATGTCAC 57.235 47.619 14.94 0.00 46.03 3.67
4742 6787 3.347216 GCATGGTTGGAACTATGTCACT 58.653 45.455 14.94 0.00 46.03 3.41
4743 6788 3.127548 GCATGGTTGGAACTATGTCACTG 59.872 47.826 14.94 0.00 46.03 3.66
4744 6789 4.326826 CATGGTTGGAACTATGTCACTGT 58.673 43.478 7.51 0.00 41.34 3.55
4745 6790 3.738982 TGGTTGGAACTATGTCACTGTG 58.261 45.455 0.17 0.17 0.00 3.66
4746 6791 3.389656 TGGTTGGAACTATGTCACTGTGA 59.610 43.478 6.36 6.36 0.00 3.58
4747 6792 3.997021 GGTTGGAACTATGTCACTGTGAG 59.003 47.826 11.41 1.84 0.00 3.51
4748 6793 4.503296 GGTTGGAACTATGTCACTGTGAGT 60.503 45.833 11.41 5.83 0.00 3.41
4749 6794 4.955811 TGGAACTATGTCACTGTGAGTT 57.044 40.909 11.41 11.46 33.14 3.01
4750 6795 4.631131 TGGAACTATGTCACTGTGAGTTG 58.369 43.478 11.41 6.85 30.66 3.16
4751 6796 4.100963 TGGAACTATGTCACTGTGAGTTGT 59.899 41.667 11.41 7.46 30.66 3.32
4752 6797 5.057149 GGAACTATGTCACTGTGAGTTGTT 58.943 41.667 11.41 14.82 30.66 2.83
4753 6798 5.527582 GGAACTATGTCACTGTGAGTTGTTT 59.472 40.000 11.41 2.34 30.66 2.83
4754 6799 6.038271 GGAACTATGTCACTGTGAGTTGTTTT 59.962 38.462 11.41 0.74 30.66 2.43
4755 6800 7.391148 AACTATGTCACTGTGAGTTGTTTTT 57.609 32.000 11.41 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
118 119 1.197036 TGTTGTCTGTAGCGAGTCTCG 59.803 52.381 18.08 18.08 43.89 4.04
132 133 2.241171 GGTGCCTTACCGTGTTGTC 58.759 57.895 0.00 0.00 40.26 3.18
232 254 9.720667 CCAAAATTCCAAAATCTTTGACTTTTC 57.279 29.630 0.69 0.00 31.59 2.29
233 255 9.241919 ACCAAAATTCCAAAATCTTTGACTTTT 57.758 25.926 0.69 2.09 31.59 2.27
235 257 8.676401 CAACCAAAATTCCAAAATCTTTGACTT 58.324 29.630 0.69 0.00 31.59 3.01
347 373 1.134098 CAGTTTGACCCGGCCTATCAT 60.134 52.381 0.00 0.00 0.00 2.45
380 406 1.190323 GTCGTCTGCTTCAGTCAAACG 59.810 52.381 0.00 0.00 32.07 3.60
405 431 3.978855 GCATTTTACCCAACTGACGAAAC 59.021 43.478 0.00 0.00 0.00 2.78
457 483 7.554118 CAGTTCCTCTGCCTCTTATTATTTTGA 59.446 37.037 0.00 0.00 37.36 2.69
493 625 1.889105 CGCCACTGCACACAAGACT 60.889 57.895 0.00 0.00 37.32 3.24
549 681 3.582164 TGGCCCCTGTTATCAAAAGTTT 58.418 40.909 0.00 0.00 0.00 2.66
611 743 8.830580 TGATTTGCTGCTAATTAGTAGATGAAC 58.169 33.333 28.44 17.42 38.14 3.18
875 1007 2.838225 TCCCCGGTAGCAGCTAGC 60.838 66.667 19.97 19.97 46.19 3.42
1056 1191 2.010145 TAAGGCTGCTTTCTGCTACG 57.990 50.000 0.00 0.00 43.37 3.51
1530 1666 1.746615 CATTCCCTGGACCACAGCG 60.747 63.158 0.00 0.00 46.14 5.18
1674 1811 4.277174 ACTCCATTAGATACAGCAGTCTCG 59.723 45.833 0.00 0.00 0.00 4.04
1694 1834 1.136695 CTGCCTGTCTGATCTCCACTC 59.863 57.143 0.00 0.00 0.00 3.51
2001 2142 5.277876 CCAGACATTATCATCTTGCTCTTGC 60.278 44.000 0.00 0.00 40.20 4.01
2197 2338 0.468226 ACCAGTGGAGCAAGTTTCGA 59.532 50.000 18.40 0.00 0.00 3.71
2328 2469 7.202526 CACTTGTTACAATTGGATTCACACTT 58.797 34.615 10.83 0.00 0.00 3.16
2363 2504 1.731709 GCAACACTGTCATGATACGCA 59.268 47.619 0.00 0.00 0.00 5.24
2478 2619 6.360370 AGATAAGGTGTAAGCACAGAAGAA 57.640 37.500 0.12 0.00 46.95 2.52
2651 2792 4.533707 ACTTCAATCTTCTCATGACCTCCA 59.466 41.667 0.00 0.00 0.00 3.86
2688 2830 5.499139 TGTCGCCTGATGAAAATATTTCC 57.501 39.130 0.10 0.00 0.00 3.13
2794 2936 2.889045 CAGCATTCTGGGTGATAATGGG 59.111 50.000 0.00 0.00 38.52 4.00
3387 3529 2.544685 CCATCCTTGTAGACAGCTTCG 58.455 52.381 0.00 0.00 0.00 3.79
3452 3594 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
3453 3595 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
3454 3596 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
3455 3597 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
3458 3600 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
3465 3607 3.015753 GGGTCCAGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
3466 3608 2.125225 AGGGTCCAGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
3467 3609 2.204151 CAGGGTCCAGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
3470 3612 4.785453 GCGCAGGGTCCAGGGAAG 62.785 72.222 0.30 0.00 0.00 3.46
3482 3624 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
3485 3627 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
3486 3628 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
3487 3629 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
3494 3636 1.089920 CAACCTGGTGCATGTAGCTC 58.910 55.000 14.15 0.00 45.94 4.09
3495 3637 0.962356 GCAACCTGGTGCATGTAGCT 60.962 55.000 14.15 0.00 44.29 3.32
3496 3638 1.508088 GCAACCTGGTGCATGTAGC 59.492 57.895 6.00 6.00 44.29 3.58
3497 3639 2.183409 GGCAACCTGGTGCATGTAG 58.817 57.895 18.44 0.00 46.81 2.74
3498 3640 4.413928 GGCAACCTGGTGCATGTA 57.586 55.556 18.44 0.00 46.81 2.29
3522 3664 7.972832 AACGGAACAGTCACTCATATAAAAA 57.027 32.000 0.00 0.00 0.00 1.94
3524 3666 7.383687 AGAAACGGAACAGTCACTCATATAAA 58.616 34.615 0.00 0.00 0.00 1.40
3717 5161 1.142748 CGATGCAGTCTCCCTGACC 59.857 63.158 0.00 0.00 46.46 4.02
3803 5329 2.951642 CACAAGAAGAAACCTCCAGCAA 59.048 45.455 0.00 0.00 0.00 3.91
3806 5332 2.575532 TGCACAAGAAGAAACCTCCAG 58.424 47.619 0.00 0.00 0.00 3.86
3930 5492 7.417612 AGCAACAAGTCAAACACATTAGTAAG 58.582 34.615 0.00 0.00 0.00 2.34
3983 5549 9.283768 TGAAAGCATATGACAGAAAAAGACTAA 57.716 29.630 6.97 0.00 0.00 2.24
3984 5550 8.846943 TGAAAGCATATGACAGAAAAAGACTA 57.153 30.769 6.97 0.00 0.00 2.59
3994 5560 3.252701 GGCAGGATGAAAGCATATGACAG 59.747 47.826 6.97 0.00 39.69 3.51
4011 5577 0.038744 ACAAGGACCAATCAGGCAGG 59.961 55.000 0.00 0.00 43.14 4.85
4023 5589 8.732746 ATAGAACATATACCAACAACAAGGAC 57.267 34.615 0.00 0.00 0.00 3.85
4029 5595 7.910162 CACTGCAATAGAACATATACCAACAAC 59.090 37.037 0.00 0.00 0.00 3.32
4105 5671 8.854312 CAATAGTGTGACAAGTCATATATAGCG 58.146 37.037 6.15 0.00 42.18 4.26
4155 5723 4.065088 CTCCACTGAAAGAATTCCGACAA 58.935 43.478 0.65 0.00 37.43 3.18
4451 6487 5.894393 TGAAGATTGGTCAGGTTGGTTAAAA 59.106 36.000 0.00 0.00 0.00 1.52
4452 6488 5.450453 TGAAGATTGGTCAGGTTGGTTAAA 58.550 37.500 0.00 0.00 0.00 1.52
4453 6489 5.055265 TGAAGATTGGTCAGGTTGGTTAA 57.945 39.130 0.00 0.00 0.00 2.01
4604 6649 2.851263 AATCCAGGACGTTAACAGCA 57.149 45.000 6.39 0.00 0.00 4.41
4605 6650 3.858247 ACTAATCCAGGACGTTAACAGC 58.142 45.455 6.39 0.00 0.00 4.40
4606 6651 6.425721 TCAAAACTAATCCAGGACGTTAACAG 59.574 38.462 6.39 1.29 0.00 3.16
4607 6652 6.289834 TCAAAACTAATCCAGGACGTTAACA 58.710 36.000 6.39 0.00 0.00 2.41
4608 6653 6.790285 TCAAAACTAATCCAGGACGTTAAC 57.210 37.500 0.00 0.00 0.00 2.01
4609 6654 7.804843 TTTCAAAACTAATCCAGGACGTTAA 57.195 32.000 0.00 0.00 0.00 2.01
4610 6655 7.804843 TTTTCAAAACTAATCCAGGACGTTA 57.195 32.000 0.00 0.00 0.00 3.18
4611 6656 6.702716 TTTTCAAAACTAATCCAGGACGTT 57.297 33.333 0.00 0.00 0.00 3.99
4612 6657 6.544564 TCTTTTTCAAAACTAATCCAGGACGT 59.455 34.615 0.00 0.00 0.00 4.34
4613 6658 6.966021 TCTTTTTCAAAACTAATCCAGGACG 58.034 36.000 0.00 0.00 0.00 4.79
4614 6659 9.841880 GTATCTTTTTCAAAACTAATCCAGGAC 57.158 33.333 0.00 0.00 0.00 3.85
4615 6660 8.726988 CGTATCTTTTTCAAAACTAATCCAGGA 58.273 33.333 0.00 0.00 0.00 3.86
4616 6661 8.512138 ACGTATCTTTTTCAAAACTAATCCAGG 58.488 33.333 0.00 0.00 0.00 4.45
4617 6662 9.893305 AACGTATCTTTTTCAAAACTAATCCAG 57.107 29.630 0.00 0.00 0.00 3.86
4620 6665 9.989394 GCAAACGTATCTTTTTCAAAACTAATC 57.011 29.630 0.00 0.00 0.00 1.75
4621 6666 9.744468 AGCAAACGTATCTTTTTCAAAACTAAT 57.256 25.926 0.00 0.00 0.00 1.73
4622 6667 9.015577 CAGCAAACGTATCTTTTTCAAAACTAA 57.984 29.630 0.00 0.00 0.00 2.24
4623 6668 8.185505 ACAGCAAACGTATCTTTTTCAAAACTA 58.814 29.630 0.00 0.00 0.00 2.24
4624 6669 7.033185 ACAGCAAACGTATCTTTTTCAAAACT 58.967 30.769 0.00 0.00 0.00 2.66
4625 6670 7.216920 ACAGCAAACGTATCTTTTTCAAAAC 57.783 32.000 0.00 0.00 0.00 2.43
4626 6671 7.820044 AACAGCAAACGTATCTTTTTCAAAA 57.180 28.000 0.00 0.00 0.00 2.44
4627 6672 7.757624 AGAAACAGCAAACGTATCTTTTTCAAA 59.242 29.630 17.59 0.00 32.14 2.69
4628 6673 7.254852 AGAAACAGCAAACGTATCTTTTTCAA 58.745 30.769 17.59 0.00 32.14 2.69
4629 6674 6.791303 AGAAACAGCAAACGTATCTTTTTCA 58.209 32.000 17.59 0.00 32.14 2.69
4630 6675 8.950403 ATAGAAACAGCAAACGTATCTTTTTC 57.050 30.769 11.85 11.85 30.71 2.29
4631 6676 9.744468 AAATAGAAACAGCAAACGTATCTTTTT 57.256 25.926 0.00 0.00 0.00 1.94
4633 6678 9.821662 GTAAATAGAAACAGCAAACGTATCTTT 57.178 29.630 0.00 0.00 0.00 2.52
4634 6679 8.995220 TGTAAATAGAAACAGCAAACGTATCTT 58.005 29.630 0.00 0.00 0.00 2.40
4635 6680 8.542497 TGTAAATAGAAACAGCAAACGTATCT 57.458 30.769 0.00 0.00 0.00 1.98
4636 6681 8.653338 TCTGTAAATAGAAACAGCAAACGTATC 58.347 33.333 0.00 0.00 42.31 2.24
4637 6682 8.542497 TCTGTAAATAGAAACAGCAAACGTAT 57.458 30.769 0.00 0.00 42.31 3.06
4638 6683 7.359765 GCTCTGTAAATAGAAACAGCAAACGTA 60.360 37.037 0.00 0.00 42.31 3.57
4639 6684 6.565999 GCTCTGTAAATAGAAACAGCAAACGT 60.566 38.462 0.00 0.00 42.31 3.99
4640 6685 5.790495 GCTCTGTAAATAGAAACAGCAAACG 59.210 40.000 0.00 0.00 42.31 3.60
4641 6686 6.668323 TGCTCTGTAAATAGAAACAGCAAAC 58.332 36.000 0.00 0.00 42.31 2.93
4642 6687 6.875948 TGCTCTGTAAATAGAAACAGCAAA 57.124 33.333 0.00 0.00 42.31 3.68
4643 6688 6.875948 TTGCTCTGTAAATAGAAACAGCAA 57.124 33.333 0.00 0.00 42.31 3.91
4644 6689 8.737168 ATATTGCTCTGTAAATAGAAACAGCA 57.263 30.769 0.00 0.00 42.31 4.41
4645 6690 8.286097 GGATATTGCTCTGTAAATAGAAACAGC 58.714 37.037 0.00 0.00 42.31 4.40
4646 6691 9.553064 AGGATATTGCTCTGTAAATAGAAACAG 57.447 33.333 0.00 0.00 43.63 3.16
4647 6692 9.330063 CAGGATATTGCTCTGTAAATAGAAACA 57.670 33.333 0.00 0.00 0.00 2.83
4648 6693 8.778358 CCAGGATATTGCTCTGTAAATAGAAAC 58.222 37.037 0.00 0.00 0.00 2.78
4649 6694 7.445402 GCCAGGATATTGCTCTGTAAATAGAAA 59.555 37.037 0.00 0.00 0.00 2.52
4650 6695 6.936900 GCCAGGATATTGCTCTGTAAATAGAA 59.063 38.462 0.00 0.00 0.00 2.10
4651 6696 6.043127 TGCCAGGATATTGCTCTGTAAATAGA 59.957 38.462 0.00 0.00 0.00 1.98
4652 6697 6.233434 TGCCAGGATATTGCTCTGTAAATAG 58.767 40.000 0.00 0.00 0.00 1.73
4653 6698 6.186420 TGCCAGGATATTGCTCTGTAAATA 57.814 37.500 0.00 0.00 0.00 1.40
4654 6699 5.052693 TGCCAGGATATTGCTCTGTAAAT 57.947 39.130 0.00 0.00 0.00 1.40
4655 6700 4.454678 CTGCCAGGATATTGCTCTGTAAA 58.545 43.478 0.00 0.00 0.00 2.01
4656 6701 3.745480 GCTGCCAGGATATTGCTCTGTAA 60.745 47.826 0.00 0.00 0.00 2.41
4657 6702 2.224378 GCTGCCAGGATATTGCTCTGTA 60.224 50.000 0.00 0.00 0.00 2.74
4658 6703 1.476471 GCTGCCAGGATATTGCTCTGT 60.476 52.381 0.00 0.00 0.00 3.41
4659 6704 1.236628 GCTGCCAGGATATTGCTCTG 58.763 55.000 0.00 0.00 0.00 3.35
4660 6705 0.841961 TGCTGCCAGGATATTGCTCT 59.158 50.000 0.00 0.00 0.00 4.09
4661 6706 0.950116 GTGCTGCCAGGATATTGCTC 59.050 55.000 0.00 0.00 0.00 4.26
4662 6707 0.549950 AGTGCTGCCAGGATATTGCT 59.450 50.000 0.00 0.00 0.00 3.91
4663 6708 0.950116 GAGTGCTGCCAGGATATTGC 59.050 55.000 0.00 0.00 0.00 3.56
4664 6709 1.945394 GTGAGTGCTGCCAGGATATTG 59.055 52.381 0.00 0.00 0.00 1.90
4665 6710 1.133976 GGTGAGTGCTGCCAGGATATT 60.134 52.381 0.00 0.00 0.00 1.28
4666 6711 0.471617 GGTGAGTGCTGCCAGGATAT 59.528 55.000 0.00 0.00 0.00 1.63
4667 6712 0.618680 AGGTGAGTGCTGCCAGGATA 60.619 55.000 0.00 0.00 0.00 2.59
4668 6713 0.618680 TAGGTGAGTGCTGCCAGGAT 60.619 55.000 0.00 0.00 0.00 3.24
4669 6714 1.229177 TAGGTGAGTGCTGCCAGGA 60.229 57.895 0.00 0.00 0.00 3.86
4670 6715 1.220206 CTAGGTGAGTGCTGCCAGG 59.780 63.158 0.00 0.00 0.00 4.45
4671 6716 0.108424 GACTAGGTGAGTGCTGCCAG 60.108 60.000 0.00 0.00 39.06 4.85
4672 6717 0.542938 AGACTAGGTGAGTGCTGCCA 60.543 55.000 0.00 0.00 39.06 4.92
4673 6718 0.174617 GAGACTAGGTGAGTGCTGCC 59.825 60.000 0.00 0.00 39.06 4.85
4674 6719 0.179150 CGAGACTAGGTGAGTGCTGC 60.179 60.000 0.00 0.00 39.06 5.25
4675 6720 1.454201 TCGAGACTAGGTGAGTGCTG 58.546 55.000 0.00 0.00 39.06 4.41
4676 6721 1.813786 GTTCGAGACTAGGTGAGTGCT 59.186 52.381 0.00 0.00 39.06 4.40
4677 6722 1.540267 TGTTCGAGACTAGGTGAGTGC 59.460 52.381 0.00 0.00 39.06 4.40
4678 6723 3.917329 TTGTTCGAGACTAGGTGAGTG 57.083 47.619 0.00 0.00 39.06 3.51
4679 6724 4.931661 TTTTGTTCGAGACTAGGTGAGT 57.068 40.909 0.00 0.00 42.90 3.41
4680 6725 8.383619 CAAATATTTTGTTCGAGACTAGGTGAG 58.616 37.037 0.00 0.00 0.00 3.51
4681 6726 7.876068 ACAAATATTTTGTTCGAGACTAGGTGA 59.124 33.333 0.00 0.00 0.00 4.02
4682 6727 8.029642 ACAAATATTTTGTTCGAGACTAGGTG 57.970 34.615 0.00 0.00 0.00 4.00
4683 6728 9.367444 CTACAAATATTTTGTTCGAGACTAGGT 57.633 33.333 10.55 0.00 34.11 3.08
4684 6729 9.367444 ACTACAAATATTTTGTTCGAGACTAGG 57.633 33.333 10.55 0.00 34.11 3.02
4686 6731 9.917129 TCACTACAAATATTTTGTTCGAGACTA 57.083 29.630 10.55 0.00 34.11 2.59
4687 6732 8.827177 TCACTACAAATATTTTGTTCGAGACT 57.173 30.769 10.55 0.00 34.11 3.24
4688 6733 9.872757 TTTCACTACAAATATTTTGTTCGAGAC 57.127 29.630 10.55 0.00 34.11 3.36
4715 6760 4.592778 ACATAGTTCCAACCATGCCTTTTT 59.407 37.500 0.00 0.00 32.32 1.94
4716 6761 4.159557 ACATAGTTCCAACCATGCCTTTT 58.840 39.130 0.00 0.00 32.32 2.27
4717 6762 3.763897 GACATAGTTCCAACCATGCCTTT 59.236 43.478 0.00 0.00 32.32 3.11
4718 6763 3.245229 TGACATAGTTCCAACCATGCCTT 60.245 43.478 0.00 0.00 32.32 4.35
4719 6764 2.308570 TGACATAGTTCCAACCATGCCT 59.691 45.455 0.00 0.00 32.32 4.75
4720 6765 2.423538 GTGACATAGTTCCAACCATGCC 59.576 50.000 0.00 0.00 32.32 4.40
4721 6766 3.127548 CAGTGACATAGTTCCAACCATGC 59.872 47.826 0.00 0.00 32.32 4.06
4722 6767 4.154737 CACAGTGACATAGTTCCAACCATG 59.845 45.833 0.00 0.00 34.76 3.66
4723 6768 4.041567 TCACAGTGACATAGTTCCAACCAT 59.958 41.667 0.00 0.00 0.00 3.55
4724 6769 3.389656 TCACAGTGACATAGTTCCAACCA 59.610 43.478 0.00 0.00 0.00 3.67
4725 6770 3.997021 CTCACAGTGACATAGTTCCAACC 59.003 47.826 0.00 0.00 0.00 3.77
4726 6771 4.632153 ACTCACAGTGACATAGTTCCAAC 58.368 43.478 0.00 0.00 0.00 3.77
4727 6772 4.955811 ACTCACAGTGACATAGTTCCAA 57.044 40.909 0.00 0.00 0.00 3.53
4728 6773 4.100963 ACAACTCACAGTGACATAGTTCCA 59.899 41.667 0.00 0.00 0.00 3.53
4729 6774 4.632153 ACAACTCACAGTGACATAGTTCC 58.368 43.478 0.00 0.00 0.00 3.62
4730 6775 6.604735 AAACAACTCACAGTGACATAGTTC 57.395 37.500 0.00 0.00 0.00 3.01
4731 6776 7.391148 AAAAACAACTCACAGTGACATAGTT 57.609 32.000 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.