Multiple sequence alignment - TraesCS6A01G066700

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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 TraesCS6A01G066700 chr6A 100.000 4311 0 0 1 4311 35564500 35560190 0.000000e+00 7962.0
1 TraesCS6A01G066700 chrUn 95.573 3614 127 19 8 3614 101061812 101065399 0.000000e+00 5757.0
2 TraesCS6A01G066700 chrUn 96.512 430 14 1 3863 4291 101161949 101162378 0.000000e+00 710.0
3 TraesCS6A01G066700 chrUn 95.312 128 6 0 3608 3735 101066643 101066516 2.030000e-48 204.0
4 TraesCS6A01G066700 chrUn 95.312 128 6 0 3608 3735 101082227 101082100 2.030000e-48 204.0
5 TraesCS6A01G066700 chrUn 92.593 108 6 2 3744 3850 101160531 101160637 2.080000e-33 154.0
6 TraesCS6A01G066700 chrUn 80.315 127 22 3 261 385 322518320 322518445 4.590000e-15 93.5
7 TraesCS6A01G066700 chrUn 80.315 127 22 3 261 385 369021461 369021586 4.590000e-15 93.5
8 TraesCS6A01G066700 chrUn 79.528 127 23 3 261 385 318030437 318030312 2.140000e-13 87.9
9 TraesCS6A01G066700 chrUn 79.528 127 23 3 261 385 318033929 318033804 2.140000e-13 87.9
10 TraesCS6A01G066700 chrUn 79.528 127 23 3 261 385 382592385 382592260 2.140000e-13 87.9
11 TraesCS6A01G066700 chr3D 92.654 3158 185 28 460 3612 519596702 519599817 0.000000e+00 4503.0
12 TraesCS6A01G066700 chr3D 88.090 2712 284 25 908 3612 519644323 519641644 0.000000e+00 3182.0
13 TraesCS6A01G066700 chr3D 89.147 1032 96 14 2232 3258 519620583 519621603 0.000000e+00 1271.0
14 TraesCS6A01G066700 chr3D 94.186 86 5 0 3653 3738 519601013 519600928 9.730000e-27 132.0
15 TraesCS6A01G066700 chr3B 91.577 3158 216 26 463 3612 684137229 684134114 0.000000e+00 4313.0
16 TraesCS6A01G066700 chr3A 91.456 3160 222 32 460 3612 654517986 654521104 0.000000e+00 4296.0
17 TraesCS6A01G066700 chr3A 91.977 2231 160 13 889 3108 654499525 654501747 0.000000e+00 3110.0
18 TraesCS6A01G066700 chr3A 86.953 2721 307 32 907 3612 654584759 654582072 0.000000e+00 3014.0
19 TraesCS6A01G066700 chr3A 91.942 484 37 2 3130 3612 654501739 654502221 0.000000e+00 676.0
20 TraesCS6A01G066700 chr3A 89.712 486 41 8 2236 2718 654559975 654560454 2.850000e-171 612.0
21 TraesCS6A01G066700 chr3A 91.572 439 30 3 460 898 654499141 654499572 2.220000e-167 599.0
22 TraesCS6A01G066700 chr3A 95.181 83 4 0 3653 3735 654512114 654512032 9.730000e-27 132.0
23 TraesCS6A01G066700 chr7D 73.996 1942 423 63 1037 2934 612711783 612713686 0.000000e+00 713.0
24 TraesCS6A01G066700 chr7B 74.060 1596 354 44 1382 2945 702196546 702194979 2.220000e-167 599.0
25 TraesCS6A01G066700 chr7B 80.315 127 22 3 261 385 658640088 658640213 4.590000e-15 93.5
26 TraesCS6A01G066700 chr7B 81.579 114 19 2 261 373 658765910 658766022 4.590000e-15 93.5
27 TraesCS6A01G066700 chr6D 77.812 320 58 8 121 434 455874935 455875247 7.360000e-43 185.0


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 TraesCS6A01G066700 chr6A 35560190 35564500 4310 True 7962.000000 7962 100.000000 1 4311 1 chr6A.!!$R1 4310
1 TraesCS6A01G066700 chrUn 101061812 101065399 3587 False 5757.000000 5757 95.573000 8 3614 1 chrUn.!!$F1 3606
2 TraesCS6A01G066700 chrUn 101160531 101162378 1847 False 432.000000 710 94.552500 3744 4291 2 chrUn.!!$F4 547
3 TraesCS6A01G066700 chr3D 519596702 519599817 3115 False 4503.000000 4503 92.654000 460 3612 1 chr3D.!!$F1 3152
4 TraesCS6A01G066700 chr3D 519641644 519644323 2679 True 3182.000000 3182 88.090000 908 3612 1 chr3D.!!$R2 2704
5 TraesCS6A01G066700 chr3D 519620583 519621603 1020 False 1271.000000 1271 89.147000 2232 3258 1 chr3D.!!$F2 1026
6 TraesCS6A01G066700 chr3B 684134114 684137229 3115 True 4313.000000 4313 91.577000 463 3612 1 chr3B.!!$R1 3149
7 TraesCS6A01G066700 chr3A 654517986 654521104 3118 False 4296.000000 4296 91.456000 460 3612 1 chr3A.!!$F1 3152
8 TraesCS6A01G066700 chr3A 654582072 654584759 2687 True 3014.000000 3014 86.953000 907 3612 1 chr3A.!!$R2 2705
9 TraesCS6A01G066700 chr3A 654499141 654502221 3080 False 1461.666667 3110 91.830333 460 3612 3 chr3A.!!$F3 3152
10 TraesCS6A01G066700 chr7D 612711783 612713686 1903 False 713.000000 713 73.996000 1037 2934 1 chr7D.!!$F1 1897
11 TraesCS6A01G066700 chr7B 702194979 702196546 1567 True 599.000000 599 74.060000 1382 2945 1 chr7B.!!$R1 1563

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
959 962 0.043637 TATTTCGTCCCTCCACCCCT 59.956 55.0 0.00 0.0 0.00 4.79 F
1229 1243 0.107945 GCACTCGGCCAGATCTCTTT 60.108 55.0 2.24 0.0 36.11 2.52 F
2735 2771 2.045561 TTCCCACGACATTTGTGTGT 57.954 45.0 0.00 0.0 35.56 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1844 1868 2.735126 GCACGAATATGCAACAAAGGGG 60.735 50.0 0.00 0.00 45.39 4.79 R
3088 3140 1.559368 TGTGGCAAATCCCAAGGATG 58.441 50.0 0.00 0.00 42.27 3.51 R
3634 3697 0.526662 AAGACTAGAAGGGTGACGCG 59.473 55.0 3.53 3.53 0.00 6.01 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
48 49 7.448161 TGTTGTTCATATGAGAGTTGTTGGAAT 59.552 33.333 5.39 0.00 0.00 3.01
55 56 1.523154 GAGTTGTTGGAATGCCGCCA 61.523 55.000 0.00 0.00 36.79 5.69
57 58 2.913765 TTGTTGGAATGCCGCCACG 61.914 57.895 0.00 0.00 34.56 4.94
60 61 3.247056 TTGGAATGCCGCCACGAGA 62.247 57.895 0.00 0.00 34.56 4.04
63 64 2.434884 AATGCCGCCACGAGACAG 60.435 61.111 0.00 0.00 0.00 3.51
88 90 3.740128 CTCCGCAGATTGGACGGGG 62.740 68.421 0.30 0.00 46.87 5.73
164 166 0.998928 TGGCCCCTTGTATGTGTGAT 59.001 50.000 0.00 0.00 0.00 3.06
170 172 3.443681 CCCCTTGTATGTGTGATTCAACC 59.556 47.826 0.00 0.00 0.00 3.77
178 180 2.361104 TGATTCAACCGGGCCTGC 60.361 61.111 5.85 0.00 0.00 4.85
181 183 3.224007 ATTCAACCGGGCCTGCCTT 62.224 57.895 5.85 0.00 36.10 4.35
189 191 0.886490 CGGGCCTGCCTTAGCTAATG 60.886 60.000 6.64 5.46 40.80 1.90
190 192 1.175347 GGGCCTGCCTTAGCTAATGC 61.175 60.000 22.47 22.47 40.80 3.56
191 193 0.466189 GGCCTGCCTTAGCTAATGCA 60.466 55.000 27.71 27.71 42.74 3.96
192 194 1.392589 GCCTGCCTTAGCTAATGCAA 58.607 50.000 28.72 16.98 42.74 4.08
215 217 6.199937 AGCTCAATACCATGTTGTTCAATC 57.800 37.500 0.00 0.00 0.00 2.67
252 254 2.939460 GCATCGGTTGCCAAATTAGT 57.061 45.000 0.00 0.00 46.15 2.24
253 255 3.230743 GCATCGGTTGCCAAATTAGTT 57.769 42.857 0.00 0.00 46.15 2.24
327 329 2.096268 CACCTGTTTGTCTATGTGCACG 60.096 50.000 13.13 0.00 0.00 5.34
361 363 4.797933 GCTCGCCCTTTTAAATTTGGTTGA 60.798 41.667 0.00 0.00 0.00 3.18
377 379 4.139038 TGGTTGACTTACTACCCAAAAGC 58.861 43.478 0.00 0.00 42.22 3.51
431 433 8.286800 TGAACTGCATAACACAATTAACACTAC 58.713 33.333 0.00 0.00 0.00 2.73
433 435 8.391075 ACTGCATAACACAATTAACACTACTT 57.609 30.769 0.00 0.00 0.00 2.24
436 438 8.079203 TGCATAACACAATTAACACTACTTTGG 58.921 33.333 0.00 0.00 0.00 3.28
531 533 5.305386 AGACGATCCATATGAGAACATTCCA 59.695 40.000 3.65 0.00 37.87 3.53
541 543 5.902613 TGAGAACATTCCAAATAAGGCAG 57.097 39.130 0.00 0.00 0.00 4.85
611 613 5.247337 CCCACATACAACAAGGGGTAATTTT 59.753 40.000 0.00 0.00 35.83 1.82
841 844 2.610859 CCACCACTACTGCCCCCT 60.611 66.667 0.00 0.00 0.00 4.79
905 908 4.787280 CCTCACCTCTCCCCGGCT 62.787 72.222 0.00 0.00 0.00 5.52
937 940 2.286523 CCGGCTTCCTCACCTCTGT 61.287 63.158 0.00 0.00 0.00 3.41
944 947 4.323868 GGCTTCCTCACCTCTGTCTTATTT 60.324 45.833 0.00 0.00 0.00 1.40
959 962 0.043637 TATTTCGTCCCTCCACCCCT 59.956 55.000 0.00 0.00 0.00 4.79
961 964 2.396651 TTTCGTCCCTCCACCCCTCT 62.397 60.000 0.00 0.00 0.00 3.69
997 1011 1.933181 GGTGGTGTTTTGCAAAAGCTC 59.067 47.619 24.46 17.62 0.00 4.09
1034 1048 1.078637 GGTGTCGCCTAGGTTTCCC 60.079 63.158 11.31 0.79 0.00 3.97
1055 1069 1.624312 AGATCCAGATCGCATCAGCAT 59.376 47.619 2.08 0.00 42.48 3.79
1101 1115 2.362120 CTTGCCAAGCTCCCCTGG 60.362 66.667 0.00 0.00 0.00 4.45
1229 1243 0.107945 GCACTCGGCCAGATCTCTTT 60.108 55.000 2.24 0.00 36.11 2.52
1844 1868 3.512680 CGACAGATAGACAAGGACAACC 58.487 50.000 0.00 0.00 0.00 3.77
1899 1923 9.156940 GTAAGTCCCCTCTCCTACTTAATTTAT 57.843 37.037 0.00 0.00 36.48 1.40
2361 2390 7.551974 AGTGGATCATGAGTTTGATTTACTGAG 59.448 37.037 0.09 0.00 36.48 3.35
2480 2509 3.066900 CGTCTTCGAGACCTATGGTTCAT 59.933 47.826 8.73 0.00 42.12 2.57
2558 2593 4.290093 AGCATCCTCCTACATGAAGTACA 58.710 43.478 0.00 0.00 0.00 2.90
2559 2594 4.716784 AGCATCCTCCTACATGAAGTACAA 59.283 41.667 0.00 0.00 0.00 2.41
2674 2709 5.652014 TGGCATCCCAATTGTAGAGTTTAAG 59.348 40.000 4.43 0.00 38.46 1.85
2690 2725 7.298122 AGAGTTTAAGTTGTGCATGTATTTCG 58.702 34.615 0.00 0.00 0.00 3.46
2735 2771 2.045561 TTCCCACGACATTTGTGTGT 57.954 45.000 0.00 0.00 35.56 3.72
2792 2835 7.395190 TGAATGGTGGAGTGAATGATAAAAG 57.605 36.000 0.00 0.00 0.00 2.27
2837 2882 5.958987 TCCTTACCTTTGTTTCCCTTTTTCA 59.041 36.000 0.00 0.00 0.00 2.69
2954 3005 3.809832 AGTAGGCTATAATTTGTGCAGCG 59.190 43.478 0.00 0.00 32.97 5.18
3198 3251 6.481954 ACCTTTTATTTGCTAGTGAGAACG 57.518 37.500 0.00 0.00 0.00 3.95
3614 3677 8.986929 AAGAATTACCTTCCATTTCCTCTATG 57.013 34.615 0.00 0.00 34.11 2.23
3615 3678 8.337118 AGAATTACCTTCCATTTCCTCTATGA 57.663 34.615 0.00 0.00 34.11 2.15
3616 3679 8.781951 AGAATTACCTTCCATTTCCTCTATGAA 58.218 33.333 0.00 0.00 34.11 2.57
3617 3680 8.753497 AATTACCTTCCATTTCCTCTATGAAC 57.247 34.615 0.00 0.00 0.00 3.18
3618 3681 5.779241 ACCTTCCATTTCCTCTATGAACA 57.221 39.130 0.00 0.00 0.00 3.18
3619 3682 5.501156 ACCTTCCATTTCCTCTATGAACAC 58.499 41.667 0.00 0.00 0.00 3.32
3620 3683 4.572389 CCTTCCATTTCCTCTATGAACACG 59.428 45.833 0.00 0.00 0.00 4.49
3621 3684 5.414789 TTCCATTTCCTCTATGAACACGA 57.585 39.130 0.00 0.00 0.00 4.35
3622 3685 4.755411 TCCATTTCCTCTATGAACACGAC 58.245 43.478 0.00 0.00 0.00 4.34
3623 3686 4.221924 TCCATTTCCTCTATGAACACGACA 59.778 41.667 0.00 0.00 0.00 4.35
3624 3687 4.330074 CCATTTCCTCTATGAACACGACAC 59.670 45.833 0.00 0.00 0.00 3.67
3625 3688 4.594123 TTTCCTCTATGAACACGACACA 57.406 40.909 0.00 0.00 0.00 3.72
3626 3689 3.850122 TCCTCTATGAACACGACACAG 57.150 47.619 0.00 0.00 0.00 3.66
3627 3690 2.094700 TCCTCTATGAACACGACACAGC 60.095 50.000 0.00 0.00 0.00 4.40
3628 3691 2.352715 CCTCTATGAACACGACACAGCA 60.353 50.000 0.00 0.00 0.00 4.41
3629 3692 3.317150 CTCTATGAACACGACACAGCAA 58.683 45.455 0.00 0.00 0.00 3.91
3630 3693 3.723260 TCTATGAACACGACACAGCAAA 58.277 40.909 0.00 0.00 0.00 3.68
3631 3694 3.740832 TCTATGAACACGACACAGCAAAG 59.259 43.478 0.00 0.00 0.00 2.77
3632 3695 0.376852 TGAACACGACACAGCAAAGC 59.623 50.000 0.00 0.00 0.00 3.51
3633 3696 0.654472 GAACACGACACAGCAAAGCG 60.654 55.000 0.00 0.00 0.00 4.68
3634 3697 2.425773 CACGACACAGCAAAGCGC 60.426 61.111 0.00 0.00 42.91 5.92
3648 3711 4.789075 GCGCGCGTCACCCTTCTA 62.789 66.667 32.35 0.00 0.00 2.10
3649 3712 2.579787 CGCGCGTCACCCTTCTAG 60.580 66.667 24.19 0.00 0.00 2.43
3650 3713 2.572284 GCGCGTCACCCTTCTAGT 59.428 61.111 8.43 0.00 0.00 2.57
3651 3714 1.516603 GCGCGTCACCCTTCTAGTC 60.517 63.158 8.43 0.00 0.00 2.59
3652 3715 1.935327 GCGCGTCACCCTTCTAGTCT 61.935 60.000 8.43 0.00 0.00 3.24
3653 3716 0.526662 CGCGTCACCCTTCTAGTCTT 59.473 55.000 0.00 0.00 0.00 3.01
3654 3717 1.741706 CGCGTCACCCTTCTAGTCTTA 59.258 52.381 0.00 0.00 0.00 2.10
3655 3718 2.358267 CGCGTCACCCTTCTAGTCTTAT 59.642 50.000 0.00 0.00 0.00 1.73
3656 3719 3.181489 CGCGTCACCCTTCTAGTCTTATT 60.181 47.826 0.00 0.00 0.00 1.40
3657 3720 4.677250 CGCGTCACCCTTCTAGTCTTATTT 60.677 45.833 0.00 0.00 0.00 1.40
3658 3721 4.567159 GCGTCACCCTTCTAGTCTTATTTG 59.433 45.833 0.00 0.00 0.00 2.32
3659 3722 5.623824 GCGTCACCCTTCTAGTCTTATTTGA 60.624 44.000 0.00 0.00 0.00 2.69
3660 3723 6.037098 CGTCACCCTTCTAGTCTTATTTGAG 58.963 44.000 0.00 0.00 0.00 3.02
3661 3724 6.127703 CGTCACCCTTCTAGTCTTATTTGAGA 60.128 42.308 0.00 0.00 0.00 3.27
3662 3725 7.262048 GTCACCCTTCTAGTCTTATTTGAGAG 58.738 42.308 0.00 0.00 0.00 3.20
3663 3726 7.122948 GTCACCCTTCTAGTCTTATTTGAGAGA 59.877 40.741 0.00 0.00 0.00 3.10
3664 3727 7.841729 TCACCCTTCTAGTCTTATTTGAGAGAT 59.158 37.037 0.00 0.00 0.00 2.75
3665 3728 7.925483 CACCCTTCTAGTCTTATTTGAGAGATG 59.075 40.741 0.00 0.00 0.00 2.90
3666 3729 7.070571 ACCCTTCTAGTCTTATTTGAGAGATGG 59.929 40.741 0.00 0.00 31.35 3.51
3667 3730 7.070571 CCCTTCTAGTCTTATTTGAGAGATGGT 59.929 40.741 0.00 0.00 30.53 3.55
3668 3731 7.925483 CCTTCTAGTCTTATTTGAGAGATGGTG 59.075 40.741 0.00 0.00 0.00 4.17
3669 3732 7.962995 TCTAGTCTTATTTGAGAGATGGTGT 57.037 36.000 0.00 0.00 0.00 4.16
3670 3733 7.776107 TCTAGTCTTATTTGAGAGATGGTGTG 58.224 38.462 0.00 0.00 0.00 3.82
3671 3734 6.365970 AGTCTTATTTGAGAGATGGTGTGT 57.634 37.500 0.00 0.00 0.00 3.72
3672 3735 7.482169 AGTCTTATTTGAGAGATGGTGTGTA 57.518 36.000 0.00 0.00 0.00 2.90
3673 3736 7.324178 AGTCTTATTTGAGAGATGGTGTGTAC 58.676 38.462 0.00 0.00 0.00 2.90
3674 3737 7.039011 AGTCTTATTTGAGAGATGGTGTGTACA 60.039 37.037 0.00 0.00 0.00 2.90
3675 3738 7.602644 GTCTTATTTGAGAGATGGTGTGTACAA 59.397 37.037 0.00 0.00 0.00 2.41
3676 3739 8.154203 TCTTATTTGAGAGATGGTGTGTACAAA 58.846 33.333 0.00 0.00 0.00 2.83
3677 3740 8.862325 TTATTTGAGAGATGGTGTGTACAAAT 57.138 30.769 0.00 0.00 39.14 2.32
3678 3741 6.558771 TTTGAGAGATGGTGTGTACAAATG 57.441 37.500 0.00 0.00 0.00 2.32
3679 3742 4.578871 TGAGAGATGGTGTGTACAAATGG 58.421 43.478 0.00 0.00 0.00 3.16
3680 3743 4.041567 TGAGAGATGGTGTGTACAAATGGT 59.958 41.667 0.00 0.00 0.00 3.55
3681 3744 4.985538 AGAGATGGTGTGTACAAATGGTT 58.014 39.130 0.00 0.00 0.00 3.67
3682 3745 5.003804 AGAGATGGTGTGTACAAATGGTTC 58.996 41.667 0.00 0.00 0.00 3.62
3683 3746 4.985538 AGATGGTGTGTACAAATGGTTCT 58.014 39.130 0.00 0.00 0.00 3.01
3684 3747 6.013725 AGAGATGGTGTGTACAAATGGTTCTA 60.014 38.462 0.00 0.00 0.00 2.10
3685 3748 6.721318 AGATGGTGTGTACAAATGGTTCTAT 58.279 36.000 0.00 0.00 0.00 1.98
3686 3749 7.175104 AGATGGTGTGTACAAATGGTTCTATT 58.825 34.615 0.00 0.00 0.00 1.73
3687 3750 6.811253 TGGTGTGTACAAATGGTTCTATTC 57.189 37.500 0.00 0.00 0.00 1.75
3688 3751 6.539173 TGGTGTGTACAAATGGTTCTATTCT 58.461 36.000 0.00 0.00 0.00 2.40
3689 3752 7.001674 TGGTGTGTACAAATGGTTCTATTCTT 58.998 34.615 0.00 0.00 0.00 2.52
3690 3753 8.158132 TGGTGTGTACAAATGGTTCTATTCTTA 58.842 33.333 0.00 0.00 0.00 2.10
3691 3754 8.665685 GGTGTGTACAAATGGTTCTATTCTTAG 58.334 37.037 0.00 0.00 0.00 2.18
3692 3755 8.665685 GTGTGTACAAATGGTTCTATTCTTAGG 58.334 37.037 0.00 0.00 0.00 2.69
3693 3756 7.335924 TGTGTACAAATGGTTCTATTCTTAGGC 59.664 37.037 0.00 0.00 0.00 3.93
3694 3757 7.553044 GTGTACAAATGGTTCTATTCTTAGGCT 59.447 37.037 0.00 0.00 0.00 4.58
3695 3758 8.107095 TGTACAAATGGTTCTATTCTTAGGCTT 58.893 33.333 0.00 0.00 0.00 4.35
3696 3759 7.396540 ACAAATGGTTCTATTCTTAGGCTTG 57.603 36.000 0.00 0.00 0.00 4.01
3697 3760 6.948309 ACAAATGGTTCTATTCTTAGGCTTGT 59.052 34.615 0.00 0.00 0.00 3.16
3698 3761 7.094205 ACAAATGGTTCTATTCTTAGGCTTGTG 60.094 37.037 0.00 0.00 0.00 3.33
3699 3762 4.261801 TGGTTCTATTCTTAGGCTTGTGC 58.738 43.478 0.00 0.00 38.76 4.57
3700 3763 4.261801 GGTTCTATTCTTAGGCTTGTGCA 58.738 43.478 0.00 0.00 41.91 4.57
3701 3764 4.884164 GGTTCTATTCTTAGGCTTGTGCAT 59.116 41.667 0.00 0.00 41.91 3.96
3702 3765 5.358160 GGTTCTATTCTTAGGCTTGTGCATT 59.642 40.000 0.00 0.00 41.91 3.56
3703 3766 6.127619 GGTTCTATTCTTAGGCTTGTGCATTT 60.128 38.462 0.00 0.00 41.91 2.32
3704 3767 7.315890 GTTCTATTCTTAGGCTTGTGCATTTT 58.684 34.615 0.00 0.00 41.91 1.82
3705 3768 6.855836 TCTATTCTTAGGCTTGTGCATTTTG 58.144 36.000 0.00 0.00 41.91 2.44
3706 3769 3.940209 TCTTAGGCTTGTGCATTTTGG 57.060 42.857 0.00 0.00 41.91 3.28
3707 3770 3.230134 TCTTAGGCTTGTGCATTTTGGT 58.770 40.909 0.00 0.00 41.91 3.67
3708 3771 3.640967 TCTTAGGCTTGTGCATTTTGGTT 59.359 39.130 0.00 0.00 41.91 3.67
3709 3772 4.100808 TCTTAGGCTTGTGCATTTTGGTTT 59.899 37.500 0.00 0.00 41.91 3.27
3710 3773 3.280197 AGGCTTGTGCATTTTGGTTTT 57.720 38.095 0.00 0.00 41.91 2.43
3711 3774 2.944349 AGGCTTGTGCATTTTGGTTTTG 59.056 40.909 0.00 0.00 41.91 2.44
3712 3775 2.682352 GGCTTGTGCATTTTGGTTTTGT 59.318 40.909 0.00 0.00 41.91 2.83
3713 3776 3.128415 GGCTTGTGCATTTTGGTTTTGTT 59.872 39.130 0.00 0.00 41.91 2.83
3714 3777 4.341935 GCTTGTGCATTTTGGTTTTGTTC 58.658 39.130 0.00 0.00 39.41 3.18
3715 3778 4.094739 GCTTGTGCATTTTGGTTTTGTTCT 59.905 37.500 0.00 0.00 39.41 3.01
3716 3779 5.293079 GCTTGTGCATTTTGGTTTTGTTCTA 59.707 36.000 0.00 0.00 39.41 2.10
3717 3780 6.183360 GCTTGTGCATTTTGGTTTTGTTCTAA 60.183 34.615 0.00 0.00 39.41 2.10
3718 3781 7.467131 GCTTGTGCATTTTGGTTTTGTTCTAAT 60.467 33.333 0.00 0.00 39.41 1.73
3719 3782 7.244166 TGTGCATTTTGGTTTTGTTCTAATG 57.756 32.000 0.00 0.00 0.00 1.90
3720 3783 6.135400 GTGCATTTTGGTTTTGTTCTAATGC 58.865 36.000 0.00 0.00 43.89 3.56
3721 3784 5.050499 TGCATTTTGGTTTTGTTCTAATGCG 60.050 36.000 0.00 0.00 45.56 4.73
3722 3785 5.176590 GCATTTTGGTTTTGTTCTAATGCGA 59.823 36.000 0.00 0.00 37.64 5.10
3723 3786 6.580476 CATTTTGGTTTTGTTCTAATGCGAC 58.420 36.000 0.00 0.00 0.00 5.19
3724 3787 3.907894 TGGTTTTGTTCTAATGCGACC 57.092 42.857 0.00 0.00 0.00 4.79
3725 3788 3.482436 TGGTTTTGTTCTAATGCGACCT 58.518 40.909 0.00 0.00 0.00 3.85
3726 3789 3.500680 TGGTTTTGTTCTAATGCGACCTC 59.499 43.478 0.00 0.00 0.00 3.85
3727 3790 3.500680 GGTTTTGTTCTAATGCGACCTCA 59.499 43.478 0.00 0.00 0.00 3.86
3728 3791 4.023536 GGTTTTGTTCTAATGCGACCTCAA 60.024 41.667 0.00 0.00 0.00 3.02
3729 3792 4.742438 TTTGTTCTAATGCGACCTCAAC 57.258 40.909 0.00 0.00 0.00 3.18
3730 3793 3.394674 TGTTCTAATGCGACCTCAACA 57.605 42.857 0.00 0.00 0.00 3.33
3731 3794 3.937814 TGTTCTAATGCGACCTCAACAT 58.062 40.909 0.00 0.00 0.00 2.71
3732 3795 3.932710 TGTTCTAATGCGACCTCAACATC 59.067 43.478 0.00 0.00 0.00 3.06
3733 3796 4.184629 GTTCTAATGCGACCTCAACATCT 58.815 43.478 0.00 0.00 0.00 2.90
3734 3797 4.471904 TCTAATGCGACCTCAACATCTT 57.528 40.909 0.00 0.00 0.00 2.40
3735 3798 4.183865 TCTAATGCGACCTCAACATCTTG 58.816 43.478 0.00 0.00 0.00 3.02
3736 3799 2.479566 ATGCGACCTCAACATCTTGT 57.520 45.000 0.00 0.00 0.00 3.16
3737 3800 2.254546 TGCGACCTCAACATCTTGTT 57.745 45.000 0.00 0.00 42.08 2.83
3749 3812 5.789643 AACATCTTGTTGTTACTGGCAAT 57.210 34.783 0.00 0.00 39.45 3.56
3751 3814 7.466746 AACATCTTGTTGTTACTGGCAATAT 57.533 32.000 0.00 0.00 39.45 1.28
3754 3817 8.367156 ACATCTTGTTGTTACTGGCAATATTTT 58.633 29.630 0.00 0.00 0.00 1.82
3755 3818 8.649841 CATCTTGTTGTTACTGGCAATATTTTG 58.350 33.333 0.00 0.00 35.85 2.44
3780 3843 3.055094 ACAAAGATTGGTCCGCTACATCT 60.055 43.478 0.00 0.00 34.12 2.90
3785 3848 2.082140 TGGTCCGCTACATCTATGGT 57.918 50.000 0.00 0.00 0.00 3.55
3796 3859 8.683615 CCGCTACATCTATGGTCATAAACTATA 58.316 37.037 0.00 0.00 30.71 1.31
3894 5256 9.813446 AACGGGAAAATAGAGTAATAACTGTAG 57.187 33.333 0.00 0.00 35.17 2.74
4050 5413 7.122799 AGGTAACCTCTTCATTTAAGCAATTCC 59.877 37.037 0.00 0.00 33.61 3.01
4059 5422 8.954950 TTCATTTAAGCAATTCCTGACAAAAA 57.045 26.923 0.00 0.00 0.00 1.94
4117 5480 3.776969 ACTCAAGGTGATGGAGCAGATTA 59.223 43.478 0.00 0.00 31.88 1.75
4131 5494 7.378181 TGGAGCAGATTATTTTCCAAGAAAAC 58.622 34.615 4.73 0.00 35.13 2.43
4157 5520 4.394300 AGATTGTCCGCTTTTTCAGATCTG 59.606 41.667 17.07 17.07 0.00 2.90
4275 5638 3.600388 AGCGCTTGAATTTAGCACTACT 58.400 40.909 2.64 3.31 38.55 2.57
4291 5654 5.807520 AGCACTACTATCGAATTCACAACTG 59.192 40.000 6.22 0.00 0.00 3.16
4292 5655 5.805486 GCACTACTATCGAATTCACAACTGA 59.195 40.000 6.22 0.00 0.00 3.41
4293 5656 6.310467 GCACTACTATCGAATTCACAACTGAA 59.690 38.462 6.22 0.00 40.77 3.02
4294 5657 7.667283 CACTACTATCGAATTCACAACTGAAC 58.333 38.462 6.22 0.00 39.28 3.18
4295 5658 6.812160 ACTACTATCGAATTCACAACTGAACC 59.188 38.462 6.22 0.00 39.28 3.62
4296 5659 5.547465 ACTATCGAATTCACAACTGAACCA 58.453 37.500 6.22 0.00 39.28 3.67
4297 5660 6.173339 ACTATCGAATTCACAACTGAACCAT 58.827 36.000 6.22 0.00 39.28 3.55
4298 5661 5.964958 ATCGAATTCACAACTGAACCATT 57.035 34.783 6.22 0.00 39.28 3.16
4299 5662 5.107109 TCGAATTCACAACTGAACCATTG 57.893 39.130 6.22 0.00 39.28 2.82
4300 5663 4.578516 TCGAATTCACAACTGAACCATTGT 59.421 37.500 6.22 0.00 39.28 2.71
4301 5664 5.760743 TCGAATTCACAACTGAACCATTGTA 59.239 36.000 6.22 0.00 39.28 2.41
4302 5665 6.429692 TCGAATTCACAACTGAACCATTGTAT 59.570 34.615 6.22 0.00 39.28 2.29
4303 5666 7.604545 TCGAATTCACAACTGAACCATTGTATA 59.395 33.333 6.22 0.00 39.28 1.47
4304 5667 7.692291 CGAATTCACAACTGAACCATTGTATAC 59.308 37.037 6.22 0.00 39.28 1.47
4305 5668 7.994425 ATTCACAACTGAACCATTGTATACA 57.006 32.000 0.08 0.08 39.28 2.29
4306 5669 7.433708 TTCACAACTGAACCATTGTATACAG 57.566 36.000 5.56 0.00 36.92 2.74
4307 5670 5.937540 TCACAACTGAACCATTGTATACAGG 59.062 40.000 5.56 7.59 36.92 4.00
4308 5671 5.937540 CACAACTGAACCATTGTATACAGGA 59.062 40.000 16.04 0.00 36.92 3.86
4309 5672 6.092670 CACAACTGAACCATTGTATACAGGAG 59.907 42.308 16.04 7.27 36.92 3.69
4310 5673 6.013725 ACAACTGAACCATTGTATACAGGAGA 60.014 38.462 16.04 0.00 37.27 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
88 90 0.106469 GGAAGCATTTCCCTCTCCCC 60.106 60.000 0.00 0.00 46.03 4.81
164 166 2.478335 CTAAGGCAGGCCCGGTTGAA 62.478 60.000 6.70 0.00 39.21 2.69
170 172 0.886490 CATTAGCTAAGGCAGGCCCG 60.886 60.000 12.54 0.00 41.70 6.13
189 191 3.855689 ACAACATGGTATTGAGCTTGC 57.144 42.857 0.00 0.00 32.84 4.01
190 192 5.375417 TGAACAACATGGTATTGAGCTTG 57.625 39.130 0.00 0.00 35.07 4.01
191 193 6.594788 ATTGAACAACATGGTATTGAGCTT 57.405 33.333 0.00 0.00 0.00 3.74
192 194 5.163723 CGATTGAACAACATGGTATTGAGCT 60.164 40.000 0.00 0.00 0.00 4.09
215 217 2.967362 TGCAGTGTAGGATACCAAACG 58.033 47.619 0.00 0.00 42.12 3.60
252 254 2.031120 GCAGGCCACCAAATAGCATAA 58.969 47.619 5.01 0.00 0.00 1.90
253 255 1.064091 TGCAGGCCACCAAATAGCATA 60.064 47.619 5.01 0.00 0.00 3.14
327 329 1.235724 AGGGCGAGCAAAACAACTAC 58.764 50.000 0.00 0.00 0.00 2.73
361 363 3.146847 GTGCTGCTTTTGGGTAGTAAGT 58.853 45.455 0.00 0.00 0.00 2.24
377 379 0.731417 GCCTGCTATGAAGTGTGCTG 59.269 55.000 0.00 0.00 0.00 4.41
461 463 4.996788 AAATAGCTTGGCCTTCAATCAG 57.003 40.909 3.32 0.00 34.45 2.90
525 527 4.142093 CCCAACTCTGCCTTATTTGGAATG 60.142 45.833 0.12 0.00 39.33 2.67
531 533 3.846588 TCTCTCCCAACTCTGCCTTATTT 59.153 43.478 0.00 0.00 0.00 1.40
541 543 0.908198 ACATGCCTCTCTCCCAACTC 59.092 55.000 0.00 0.00 0.00 3.01
611 613 4.339530 TGTCGGATTTTTGTTTGATGGACA 59.660 37.500 0.00 0.00 0.00 4.02
763 766 0.678366 GTGGTGTGTGGTGGTGTCAA 60.678 55.000 0.00 0.00 0.00 3.18
841 844 2.204244 GAGGGGAGGGTGGGGAAA 60.204 66.667 0.00 0.00 0.00 3.13
905 908 2.038975 CCGGGGAGAGGTGAGGAA 59.961 66.667 0.00 0.00 0.00 3.36
937 940 1.835531 GGGTGGAGGGACGAAATAAGA 59.164 52.381 0.00 0.00 0.00 2.10
944 947 3.273654 AGAGGGGTGGAGGGACGA 61.274 66.667 0.00 0.00 0.00 4.20
959 962 1.271840 CCGTTCCCCCTCCAATGAGA 61.272 60.000 0.00 0.00 41.42 3.27
961 964 1.540367 ACCGTTCCCCCTCCAATGA 60.540 57.895 0.00 0.00 0.00 2.57
997 1011 3.005261 CACCTAGATCTGAACTCCATCGG 59.995 52.174 5.18 0.00 0.00 4.18
1026 1040 1.765314 CGATCTGGATCTGGGAAACCT 59.235 52.381 8.65 0.00 40.72 3.50
1034 1048 1.270147 TGCTGATGCGATCTGGATCTG 60.270 52.381 15.76 15.63 45.05 2.90
1055 1069 2.447429 AGGAGTAGATCATCGGGAAGGA 59.553 50.000 0.00 0.00 0.00 3.36
1101 1115 3.554692 CGCACCGCAACTCCGATC 61.555 66.667 0.00 0.00 0.00 3.69
1229 1243 0.401738 CAGGGAAACTGCAGGAGGAA 59.598 55.000 19.93 0.00 40.97 3.36
1267 1284 1.142531 TGCTCGCTATGTCCTGCTG 59.857 57.895 0.00 0.00 0.00 4.41
1344 1361 1.136329 AGCTTGAGGGGAAGGAAGCA 61.136 55.000 0.00 0.00 42.71 3.91
1549 1569 3.791586 GCTGAGGAGGAGGGTGCC 61.792 72.222 0.00 0.00 0.00 5.01
1776 1799 4.998051 ACCAAGGACCAAACACAATAGAT 58.002 39.130 0.00 0.00 0.00 1.98
1844 1868 2.735126 GCACGAATATGCAACAAAGGGG 60.735 50.000 0.00 0.00 45.39 4.79
2361 2390 7.306574 GCTTTGGTGCAAATACAAGTAGTTTTC 60.307 37.037 0.00 0.00 32.70 2.29
2480 2509 6.882656 AGCTAAGATAGACAAAGCATTCTGA 58.117 36.000 0.00 0.00 35.63 3.27
2674 2709 6.846283 GCTACTAATCGAAATACATGCACAAC 59.154 38.462 0.00 0.00 0.00 3.32
2735 2771 6.381498 TCTAACAAAATATGAGGGTGTGGA 57.619 37.500 0.00 0.00 0.00 4.02
2837 2882 8.034804 GGCTTGACCATTAAAGAACATTGTAAT 58.965 33.333 0.00 0.00 38.86 1.89
2902 2952 5.269991 AGACAACTAGTTGATGCCTAGGTA 58.730 41.667 36.14 6.26 42.93 3.08
2904 2954 4.744795 AGACAACTAGTTGATGCCTAGG 57.255 45.455 36.14 3.67 42.93 3.02
2954 3005 4.377431 CGAGCCTTTAACATGAGTCAACAC 60.377 45.833 0.00 0.00 0.00 3.32
3065 3117 9.998106 GATGGTCAATTTAGGTAAGATAGCTTA 57.002 33.333 0.00 0.00 37.70 3.09
3088 3140 1.559368 TGTGGCAAATCCCAAGGATG 58.441 50.000 0.00 0.00 42.27 3.51
3139 3191 7.730364 AGAGGGATATAAATACAAAAGTGCG 57.270 36.000 0.00 0.00 0.00 5.34
3175 3228 6.228258 TCGTTCTCACTAGCAAATAAAAGGT 58.772 36.000 0.00 0.00 0.00 3.50
3177 3230 7.064609 TGGATCGTTCTCACTAGCAAATAAAAG 59.935 37.037 0.00 0.00 0.00 2.27
3614 3677 0.654472 CGCTTTGCTGTGTCGTGTTC 60.654 55.000 0.00 0.00 0.00 3.18
3615 3678 1.351707 CGCTTTGCTGTGTCGTGTT 59.648 52.632 0.00 0.00 0.00 3.32
3616 3679 3.014036 CGCTTTGCTGTGTCGTGT 58.986 55.556 0.00 0.00 0.00 4.49
3617 3680 2.425773 GCGCTTTGCTGTGTCGTG 60.426 61.111 0.00 0.00 41.73 4.35
3618 3681 4.000557 CGCGCTTTGCTGTGTCGT 62.001 61.111 5.56 0.00 43.27 4.34
3631 3694 4.789075 TAGAAGGGTGACGCGCGC 62.789 66.667 32.58 23.91 34.93 6.86
3632 3695 2.579787 CTAGAAGGGTGACGCGCG 60.580 66.667 30.96 30.96 34.93 6.86
3633 3696 1.516603 GACTAGAAGGGTGACGCGC 60.517 63.158 5.73 0.00 0.00 6.86
3634 3697 0.526662 AAGACTAGAAGGGTGACGCG 59.473 55.000 3.53 3.53 0.00 6.01
3635 3698 4.388378 AATAAGACTAGAAGGGTGACGC 57.612 45.455 0.00 0.00 0.00 5.19
3636 3699 5.962433 TCAAATAAGACTAGAAGGGTGACG 58.038 41.667 0.00 0.00 0.00 4.35
3637 3700 7.122948 TCTCTCAAATAAGACTAGAAGGGTGAC 59.877 40.741 0.00 0.00 0.00 3.67
3638 3701 7.182760 TCTCTCAAATAAGACTAGAAGGGTGA 58.817 38.462 0.00 0.00 0.00 4.02
3639 3702 7.411486 TCTCTCAAATAAGACTAGAAGGGTG 57.589 40.000 0.00 0.00 0.00 4.61
3640 3703 7.070571 CCATCTCTCAAATAAGACTAGAAGGGT 59.929 40.741 0.00 0.00 0.00 4.34
3641 3704 7.070571 ACCATCTCTCAAATAAGACTAGAAGGG 59.929 40.741 0.00 0.00 0.00 3.95
3642 3705 7.925483 CACCATCTCTCAAATAAGACTAGAAGG 59.075 40.741 0.00 0.00 0.00 3.46
3643 3706 8.474025 ACACCATCTCTCAAATAAGACTAGAAG 58.526 37.037 0.00 0.00 0.00 2.85
3644 3707 8.253810 CACACCATCTCTCAAATAAGACTAGAA 58.746 37.037 0.00 0.00 0.00 2.10
3645 3708 7.397476 ACACACCATCTCTCAAATAAGACTAGA 59.603 37.037 0.00 0.00 0.00 2.43
3646 3709 7.551585 ACACACCATCTCTCAAATAAGACTAG 58.448 38.462 0.00 0.00 0.00 2.57
3647 3710 7.482169 ACACACCATCTCTCAAATAAGACTA 57.518 36.000 0.00 0.00 0.00 2.59
3648 3711 6.365970 ACACACCATCTCTCAAATAAGACT 57.634 37.500 0.00 0.00 0.00 3.24
3649 3712 7.097192 TGTACACACCATCTCTCAAATAAGAC 58.903 38.462 0.00 0.00 0.00 3.01
3650 3713 7.239763 TGTACACACCATCTCTCAAATAAGA 57.760 36.000 0.00 0.00 0.00 2.10
3651 3714 7.905604 TTGTACACACCATCTCTCAAATAAG 57.094 36.000 0.00 0.00 0.00 1.73
3652 3715 8.729756 CATTTGTACACACCATCTCTCAAATAA 58.270 33.333 0.00 0.00 34.16 1.40
3653 3716 7.336679 CCATTTGTACACACCATCTCTCAAATA 59.663 37.037 0.00 0.00 34.16 1.40
3654 3717 6.151648 CCATTTGTACACACCATCTCTCAAAT 59.848 38.462 0.00 0.00 35.56 2.32
3655 3718 5.473162 CCATTTGTACACACCATCTCTCAAA 59.527 40.000 0.00 0.00 0.00 2.69
3656 3719 5.003160 CCATTTGTACACACCATCTCTCAA 58.997 41.667 0.00 0.00 0.00 3.02
3657 3720 4.041567 ACCATTTGTACACACCATCTCTCA 59.958 41.667 0.00 0.00 0.00 3.27
3658 3721 4.579869 ACCATTTGTACACACCATCTCTC 58.420 43.478 0.00 0.00 0.00 3.20
3659 3722 4.640771 ACCATTTGTACACACCATCTCT 57.359 40.909 0.00 0.00 0.00 3.10
3660 3723 5.003804 AGAACCATTTGTACACACCATCTC 58.996 41.667 0.00 0.00 0.00 2.75
3661 3724 4.985538 AGAACCATTTGTACACACCATCT 58.014 39.130 0.00 0.00 0.00 2.90
3662 3725 7.336931 AGAATAGAACCATTTGTACACACCATC 59.663 37.037 0.00 0.00 0.00 3.51
3663 3726 7.175104 AGAATAGAACCATTTGTACACACCAT 58.825 34.615 0.00 0.00 0.00 3.55
3664 3727 6.539173 AGAATAGAACCATTTGTACACACCA 58.461 36.000 0.00 0.00 0.00 4.17
3665 3728 7.448748 AAGAATAGAACCATTTGTACACACC 57.551 36.000 0.00 0.00 0.00 4.16
3666 3729 8.665685 CCTAAGAATAGAACCATTTGTACACAC 58.334 37.037 0.00 0.00 0.00 3.82
3667 3730 7.335924 GCCTAAGAATAGAACCATTTGTACACA 59.664 37.037 0.00 0.00 0.00 3.72
3668 3731 7.553044 AGCCTAAGAATAGAACCATTTGTACAC 59.447 37.037 0.00 0.00 0.00 2.90
3669 3732 7.630082 AGCCTAAGAATAGAACCATTTGTACA 58.370 34.615 0.00 0.00 0.00 2.90
3670 3733 8.398665 CAAGCCTAAGAATAGAACCATTTGTAC 58.601 37.037 0.00 0.00 0.00 2.90
3671 3734 8.107095 ACAAGCCTAAGAATAGAACCATTTGTA 58.893 33.333 0.00 0.00 0.00 2.41
3672 3735 6.948309 ACAAGCCTAAGAATAGAACCATTTGT 59.052 34.615 0.00 0.00 0.00 2.83
3673 3736 7.253422 CACAAGCCTAAGAATAGAACCATTTG 58.747 38.462 0.00 0.00 0.00 2.32
3674 3737 6.127619 GCACAAGCCTAAGAATAGAACCATTT 60.128 38.462 0.00 0.00 33.58 2.32
3675 3738 5.358160 GCACAAGCCTAAGAATAGAACCATT 59.642 40.000 0.00 0.00 33.58 3.16
3676 3739 4.884164 GCACAAGCCTAAGAATAGAACCAT 59.116 41.667 0.00 0.00 33.58 3.55
3677 3740 4.261801 GCACAAGCCTAAGAATAGAACCA 58.738 43.478 0.00 0.00 33.58 3.67
3678 3741 4.261801 TGCACAAGCCTAAGAATAGAACC 58.738 43.478 0.00 0.00 41.13 3.62
3679 3742 6.442513 AATGCACAAGCCTAAGAATAGAAC 57.557 37.500 0.00 0.00 41.13 3.01
3680 3743 7.315142 CAAAATGCACAAGCCTAAGAATAGAA 58.685 34.615 0.00 0.00 41.13 2.10
3681 3744 6.127647 CCAAAATGCACAAGCCTAAGAATAGA 60.128 38.462 0.00 0.00 41.13 1.98
3682 3745 6.038356 CCAAAATGCACAAGCCTAAGAATAG 58.962 40.000 0.00 0.00 41.13 1.73
3683 3746 5.480073 ACCAAAATGCACAAGCCTAAGAATA 59.520 36.000 0.00 0.00 41.13 1.75
3684 3747 4.284234 ACCAAAATGCACAAGCCTAAGAAT 59.716 37.500 0.00 0.00 41.13 2.40
3685 3748 3.640967 ACCAAAATGCACAAGCCTAAGAA 59.359 39.130 0.00 0.00 41.13 2.52
3686 3749 3.230134 ACCAAAATGCACAAGCCTAAGA 58.770 40.909 0.00 0.00 41.13 2.10
3687 3750 3.665745 ACCAAAATGCACAAGCCTAAG 57.334 42.857 0.00 0.00 41.13 2.18
3688 3751 4.414337 AAACCAAAATGCACAAGCCTAA 57.586 36.364 0.00 0.00 41.13 2.69
3689 3752 4.125703 CAAAACCAAAATGCACAAGCCTA 58.874 39.130 0.00 0.00 41.13 3.93
3690 3753 2.944349 CAAAACCAAAATGCACAAGCCT 59.056 40.909 0.00 0.00 41.13 4.58
3691 3754 2.682352 ACAAAACCAAAATGCACAAGCC 59.318 40.909 0.00 0.00 41.13 4.35
3692 3755 4.094739 AGAACAAAACCAAAATGCACAAGC 59.905 37.500 0.00 0.00 42.57 4.01
3693 3756 5.799681 AGAACAAAACCAAAATGCACAAG 57.200 34.783 0.00 0.00 0.00 3.16
3694 3757 7.678218 GCATTAGAACAAAACCAAAATGCACAA 60.678 33.333 11.15 0.00 44.33 3.33
3695 3758 6.238320 GCATTAGAACAAAACCAAAATGCACA 60.238 34.615 11.15 0.00 44.33 4.57
3696 3759 6.135400 GCATTAGAACAAAACCAAAATGCAC 58.865 36.000 11.15 0.00 44.33 4.57
3697 3760 5.050499 CGCATTAGAACAAAACCAAAATGCA 60.050 36.000 15.04 0.00 44.87 3.96
3698 3761 5.176590 TCGCATTAGAACAAAACCAAAATGC 59.823 36.000 6.98 6.98 42.52 3.56
3699 3762 6.346518 GGTCGCATTAGAACAAAACCAAAATG 60.347 38.462 0.00 0.00 0.00 2.32
3700 3763 5.694458 GGTCGCATTAGAACAAAACCAAAAT 59.306 36.000 0.00 0.00 0.00 1.82
3701 3764 5.044558 GGTCGCATTAGAACAAAACCAAAA 58.955 37.500 0.00 0.00 0.00 2.44
3702 3765 4.339814 AGGTCGCATTAGAACAAAACCAAA 59.660 37.500 0.00 0.00 0.00 3.28
3703 3766 3.886505 AGGTCGCATTAGAACAAAACCAA 59.113 39.130 0.00 0.00 0.00 3.67
3704 3767 3.482436 AGGTCGCATTAGAACAAAACCA 58.518 40.909 0.00 0.00 0.00 3.67
3705 3768 3.500680 TGAGGTCGCATTAGAACAAAACC 59.499 43.478 0.00 0.00 0.00 3.27
3706 3769 4.742438 TGAGGTCGCATTAGAACAAAAC 57.258 40.909 0.00 0.00 0.00 2.43
3707 3770 4.576873 TGTTGAGGTCGCATTAGAACAAAA 59.423 37.500 0.00 0.00 0.00 2.44
3708 3771 4.130857 TGTTGAGGTCGCATTAGAACAAA 58.869 39.130 0.00 0.00 0.00 2.83
3709 3772 3.734463 TGTTGAGGTCGCATTAGAACAA 58.266 40.909 0.00 0.00 0.00 2.83
3710 3773 3.394674 TGTTGAGGTCGCATTAGAACA 57.605 42.857 0.00 0.00 0.00 3.18
3711 3774 4.184629 AGATGTTGAGGTCGCATTAGAAC 58.815 43.478 0.00 0.00 0.00 3.01
3712 3775 4.471904 AGATGTTGAGGTCGCATTAGAA 57.528 40.909 0.00 0.00 0.00 2.10
3713 3776 4.183865 CAAGATGTTGAGGTCGCATTAGA 58.816 43.478 0.00 0.00 35.46 2.10
3714 3777 3.935203 ACAAGATGTTGAGGTCGCATTAG 59.065 43.478 9.96 0.00 37.10 1.73
3715 3778 3.937814 ACAAGATGTTGAGGTCGCATTA 58.062 40.909 9.96 0.00 37.10 1.90
3716 3779 2.783135 ACAAGATGTTGAGGTCGCATT 58.217 42.857 9.96 0.00 37.10 3.56
3717 3780 2.479566 ACAAGATGTTGAGGTCGCAT 57.520 45.000 9.96 0.00 37.10 4.73
3718 3781 2.254546 AACAAGATGTTGAGGTCGCA 57.745 45.000 9.96 0.00 39.45 5.10
3727 3790 5.789643 ATTGCCAGTAACAACAAGATGTT 57.210 34.783 1.42 1.42 45.14 2.71
3728 3791 7.466746 AATATTGCCAGTAACAACAAGATGT 57.533 32.000 0.00 0.00 34.24 3.06
3729 3792 8.649841 CAAAATATTGCCAGTAACAACAAGATG 58.350 33.333 0.00 0.00 0.00 2.90
3730 3793 7.818930 CCAAAATATTGCCAGTAACAACAAGAT 59.181 33.333 0.00 0.00 35.10 2.40
3731 3794 7.151308 CCAAAATATTGCCAGTAACAACAAGA 58.849 34.615 0.00 0.00 35.10 3.02
3732 3795 6.928492 ACCAAAATATTGCCAGTAACAACAAG 59.072 34.615 0.00 0.00 35.10 3.16
3733 3796 6.821388 ACCAAAATATTGCCAGTAACAACAA 58.179 32.000 0.00 0.00 35.10 2.83
3734 3797 6.412362 ACCAAAATATTGCCAGTAACAACA 57.588 33.333 0.00 0.00 35.10 3.33
3735 3798 7.371936 TGTACCAAAATATTGCCAGTAACAAC 58.628 34.615 0.00 0.00 35.10 3.32
3736 3799 7.526142 TGTACCAAAATATTGCCAGTAACAA 57.474 32.000 0.00 0.00 35.10 2.83
3737 3800 7.526142 TTGTACCAAAATATTGCCAGTAACA 57.474 32.000 0.00 0.00 35.10 2.41
3738 3801 8.301002 TCTTTGTACCAAAATATTGCCAGTAAC 58.699 33.333 0.00 0.00 35.10 2.50
3739 3802 8.410673 TCTTTGTACCAAAATATTGCCAGTAA 57.589 30.769 0.00 0.00 35.10 2.24
3740 3803 8.588290 ATCTTTGTACCAAAATATTGCCAGTA 57.412 30.769 0.00 0.00 35.10 2.74
3741 3804 6.909550 TCTTTGTACCAAAATATTGCCAGT 57.090 33.333 0.00 0.00 35.10 4.00
3742 3805 7.278424 CCAATCTTTGTACCAAAATATTGCCAG 59.722 37.037 13.61 3.89 34.63 4.85
3748 3811 6.405397 GCGGACCAATCTTTGTACCAAAATAT 60.405 38.462 0.00 0.00 0.00 1.28
3749 3812 5.106078 GCGGACCAATCTTTGTACCAAAATA 60.106 40.000 0.00 0.00 0.00 1.40
3751 3814 3.004944 GCGGACCAATCTTTGTACCAAAA 59.995 43.478 0.00 0.00 0.00 2.44
3754 3817 1.349688 AGCGGACCAATCTTTGTACCA 59.650 47.619 0.00 0.00 0.00 3.25
3755 3818 2.109425 AGCGGACCAATCTTTGTACC 57.891 50.000 0.00 0.00 0.00 3.34
3761 3824 4.262635 CCATAGATGTAGCGGACCAATCTT 60.263 45.833 0.00 0.00 0.00 2.40
3850 3913 9.621629 TTTCCCGTTCAAATATCAATGTACTAT 57.378 29.630 0.00 0.00 0.00 2.12
3852 3915 7.931578 TTTCCCGTTCAAATATCAATGTACT 57.068 32.000 0.00 0.00 0.00 2.73
3855 3918 9.184523 TCTATTTTCCCGTTCAAATATCAATGT 57.815 29.630 0.00 0.00 0.00 2.71
3856 3919 9.669353 CTCTATTTTCCCGTTCAAATATCAATG 57.331 33.333 0.00 0.00 0.00 2.82
3857 3920 9.408648 ACTCTATTTTCCCGTTCAAATATCAAT 57.591 29.630 0.00 0.00 0.00 2.57
3858 3921 8.801882 ACTCTATTTTCCCGTTCAAATATCAA 57.198 30.769 0.00 0.00 0.00 2.57
3859 3922 9.893634 TTACTCTATTTTCCCGTTCAAATATCA 57.106 29.630 0.00 0.00 0.00 2.15
4059 5422 6.817765 TTCTGAAAAAGCGGACAATCTATT 57.182 33.333 0.00 0.00 0.00 1.73
4117 5480 8.028938 CGGACAATCTATGTTTTCTTGGAAAAT 58.971 33.333 8.38 0.00 44.12 1.82
4131 5494 5.801350 TCTGAAAAAGCGGACAATCTATG 57.199 39.130 0.00 0.00 0.00 2.23
4227 5590 2.426024 TGTCCTGACTGCGACCTAATAC 59.574 50.000 0.00 0.00 0.00 1.89
4275 5638 6.429692 ACAATGGTTCAGTTGTGAATTCGATA 59.570 34.615 0.04 0.00 44.58 2.92


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

AutoCloner maintained by Alex Coulton.