Multiple sequence alignment - TraesCS7A01G467100

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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 TraesCS7A01G467100 chr7A 100.000 4157 0 0 1 4157 663590816 663594972 0.000000e+00 7677.0
1 TraesCS7A01G467100 chr7D 95.851 2868 72 11 428 3275 574278692 574281532 0.000000e+00 4593.0
2 TraesCS7A01G467100 chr7D 97.087 412 8 2 1 408 574277732 574278143 0.000000e+00 691.0
3 TraesCS7A01G467100 chr7D 96.813 251 6 2 3366 3615 574281545 574281794 6.430000e-113 418.0
4 TraesCS7A01G467100 chr7D 96.721 183 6 0 3975 4157 574281954 574282136 5.220000e-79 305.0
5 TraesCS7A01G467100 chr7D 95.349 129 6 0 3617 3745 574281740 574281868 5.450000e-49 206.0
6 TraesCS7A01G467100 chr7D 90.385 104 9 1 672 775 506679431 506679533 7.250000e-28 135.0
7 TraesCS7A01G467100 chr7D 90.196 102 6 2 675 776 604292593 604292690 3.370000e-26 130.0
8 TraesCS7A01G467100 chr7D 88.785 107 9 1 672 775 101395200 101395306 1.210000e-25 128.0
9 TraesCS7A01G467100 chrUn 93.486 2134 98 22 1566 3666 86968564 86970689 0.000000e+00 3133.0
10 TraesCS7A01G467100 chrUn 96.371 1295 32 5 770 2058 86967302 86968587 0.000000e+00 2117.0
11 TraesCS7A01G467100 chrUn 91.416 233 12 4 428 659 86967028 86967253 3.120000e-81 313.0
12 TraesCS7A01G467100 chrUn 98.473 131 2 0 145 275 86962881 86963011 8.990000e-57 231.0
13 TraesCS7A01G467100 chrUn 95.105 143 7 0 1 143 242809733 242809591 4.180000e-55 226.0
14 TraesCS7A01G467100 chrUn 95.105 143 7 0 1 143 282253351 282253209 4.180000e-55 226.0
15 TraesCS7A01G467100 chrUn 96.040 101 4 0 308 408 86966093 86966193 9.250000e-37 165.0
16 TraesCS7A01G467100 chrUn 98.333 60 1 0 3691 3750 86970845 86970904 5.680000e-19 106.0
17 TraesCS7A01G467100 chrUn 96.970 33 1 0 3468 3500 86970169 86970201 5.810000e-04 56.5
18 TraesCS7A01G467100 chr5D 92.000 150 9 1 3770 3919 6096436 6096290 1.510000e-49 207.0
19 TraesCS7A01G467100 chr5D 91.333 150 10 1 3770 3919 330703114 330702968 7.050000e-48 202.0
20 TraesCS7A01G467100 chr6D 91.946 149 9 1 3770 3918 459356170 459356315 5.450000e-49 206.0
21 TraesCS7A01G467100 chr2B 90.909 154 10 2 3770 3923 9033564 9033415 1.960000e-48 204.0
22 TraesCS7A01G467100 chr2B 89.441 161 12 3 3770 3930 799360469 799360624 9.120000e-47 198.0
23 TraesCS7A01G467100 chr2D 91.333 150 10 1 3770 3919 194458636 194458782 7.050000e-48 202.0
24 TraesCS7A01G467100 chr2D 89.189 111 8 2 676 785 83966685 83966792 7.250000e-28 135.0
25 TraesCS7A01G467100 chr2D 89.524 105 7 3 670 774 83966785 83966685 3.370000e-26 130.0
26 TraesCS7A01G467100 chr4A 90.323 155 11 2 3770 3924 669813983 669814133 2.530000e-47 200.0
27 TraesCS7A01G467100 chr2A 89.441 161 11 4 3770 3930 767131096 767130942 9.120000e-47 198.0
28 TraesCS7A01G467100 chr1D 89.610 154 13 1 3776 3929 377952940 377952790 4.240000e-45 193.0
29 TraesCS7A01G467100 chr3B 89.189 111 10 2 675 783 731134811 731134701 2.020000e-28 137.0
30 TraesCS7A01G467100 chr4B 91.089 101 6 1 675 775 11736926 11736829 2.610000e-27 134.0
31 TraesCS7A01G467100 chr4B 90.099 101 8 1 675 775 544445278 544445376 3.370000e-26 130.0


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 TraesCS7A01G467100 chr7A 663590816 663594972 4156 False 7677.0 7677 100.000000 1 4157 1 chr7A.!!$F1 4156
1 TraesCS7A01G467100 chr7D 574277732 574282136 4404 False 1242.6 4593 96.364200 1 4157 5 chr7D.!!$F4 4156
2 TraesCS7A01G467100 chrUn 86962881 86970904 8023 False 874.5 3133 95.869857 145 3750 7 chrUn.!!$F1 3605

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
422 3475 0.192064 TTTTTCCCCAGCAATCCCCA 59.808 50.0 0.0 0.0 0.00 4.96 F
423 3476 0.252193 TTTTCCCCAGCAATCCCCAG 60.252 55.0 0.0 0.0 0.00 4.45 F
2241 6702 0.387622 CACTGGTTGCATGGAAAGCG 60.388 55.0 0.0 0.0 33.85 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2291 6752 1.340991 GGTTGCCCAGTGTACATCCAT 60.341 52.381 0.0 0.0 0.0 3.41 R
2385 6846 1.362224 TTCCCTTCTTCTCAGTGGGG 58.638 55.000 0.0 0.0 36.3 4.96 R
3956 8652 0.463654 TCTGCCTTCGTGTGCTTTGT 60.464 50.000 0.0 0.0 0.0 2.83 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
42 43 3.092511 GGCATGAGGAGGGAGGCA 61.093 66.667 0.00 0.00 0.00 4.75
60 61 4.714632 AGGCAAAGAGCTACACTTTAACA 58.285 39.130 0.00 0.00 44.79 2.41
268 269 4.583073 TGATAGGATGTAGTTAGCGCTTGA 59.417 41.667 18.68 1.06 0.00 3.02
422 3475 0.192064 TTTTTCCCCAGCAATCCCCA 59.808 50.000 0.00 0.00 0.00 4.96
423 3476 0.252193 TTTTCCCCAGCAATCCCCAG 60.252 55.000 0.00 0.00 0.00 4.45
424 3477 2.803593 TTTCCCCAGCAATCCCCAGC 62.804 60.000 0.00 0.00 0.00 4.85
425 3478 4.064768 CCCCAGCAATCCCCAGCA 62.065 66.667 0.00 0.00 0.00 4.41
515 4490 1.682451 CGACGGCCCTTTCCTCCATA 61.682 60.000 0.00 0.00 0.00 2.74
576 4563 0.811616 CGTTCCCCATCAGTAGCAGC 60.812 60.000 0.00 0.00 0.00 5.25
768 4755 7.695869 AACGCTCTTATATTTCTTTACGGAG 57.304 36.000 0.00 0.00 0.00 4.63
785 4772 5.588958 ACGGAGGGAGTAGTTTACAATAC 57.411 43.478 0.00 0.00 0.00 1.89
841 4831 3.499048 CGGATAAATGGTCGACCGATAG 58.501 50.000 28.70 11.03 42.40 2.08
1433 5423 4.284490 TGGAGACATAGAGCTGAACAAAGT 59.716 41.667 0.00 0.00 33.40 2.66
1562 5553 4.010349 GGAAGGAACTAACAAGTCCATGG 58.990 47.826 4.97 4.97 38.49 3.66
1726 6180 5.652452 GTGGCATTAGAGGGTACTGATTTTT 59.348 40.000 0.00 0.00 0.00 1.94
2040 6501 5.789521 TGTTACTAGAACTGTGCATTGCTA 58.210 37.500 10.49 0.00 0.00 3.49
2180 6641 1.002087 ACTGCTTGAACCCTTAGACGG 59.998 52.381 0.00 0.00 0.00 4.79
2241 6702 0.387622 CACTGGTTGCATGGAAAGCG 60.388 55.000 0.00 0.00 33.85 4.68
2291 6752 4.616953 CTGATTGCAGCATATCAATTGCA 58.383 39.130 16.29 0.00 44.09 4.08
2375 6836 6.295688 GGGAGGTTTGTTCTTATAGACACTGA 60.296 42.308 0.00 0.00 0.00 3.41
2385 6846 7.849804 TCTTATAGACACTGAAGAAATTGGC 57.150 36.000 0.00 0.00 0.00 4.52
2405 6866 1.918957 CCCCACTGAGAAGAAGGGAAT 59.081 52.381 0.00 0.00 42.25 3.01
2535 6998 1.375013 GCGGTCAGCGGAACCTAAA 60.375 57.895 0.00 0.00 35.41 1.85
2736 7199 3.127548 CGCTGAAATGGCTGTCAGTAAAT 59.872 43.478 0.93 0.00 42.72 1.40
2759 7222 0.582005 GAATTCATCCGTGCTACGCC 59.418 55.000 0.00 0.00 40.91 5.68
2809 7272 8.634188 AAATAGGGTTACTGGTCCTAACTATT 57.366 34.615 0.00 0.00 36.81 1.73
2844 7307 1.888391 GCCAGGAAAAGAGACTTGGGG 60.888 57.143 0.00 0.00 34.52 4.96
2916 7379 1.884235 AGGCGAAACACCTCAAAGAG 58.116 50.000 0.00 0.00 28.76 2.85
2923 7386 5.444122 CGAAACACCTCAAAGAGATCAAAC 58.556 41.667 0.00 0.00 0.00 2.93
2990 7453 2.079925 GTTTGATGAGCTGGACCAGAC 58.920 52.381 26.25 17.35 32.44 3.51
3013 7476 1.067565 ACATTGATCTGTGCGACGAGT 60.068 47.619 0.00 0.00 0.00 4.18
3169 7632 1.632920 TGACATAGGCATCAACACCCA 59.367 47.619 0.00 0.00 0.00 4.51
3265 7728 5.353956 TGTCATCGAAATGTTTGGGATAGTG 59.646 40.000 0.00 0.00 34.32 2.74
3308 7778 1.802960 CTCCTGCTGTAGCTGTTTGTG 59.197 52.381 5.38 0.00 42.66 3.33
3334 7804 2.290323 GGTTACCTGCATGTGTTCCTCT 60.290 50.000 4.73 0.00 0.00 3.69
3340 7810 2.740981 CTGCATGTGTTCCTCTGAGTTC 59.259 50.000 3.66 0.00 0.00 3.01
3353 7823 3.024547 TCTGAGTTCTCTGATAACCGGG 58.975 50.000 6.32 0.00 0.00 5.73
3426 7907 5.474825 TGAGATGTTATCTGTTGCGTTGTA 58.525 37.500 0.00 0.00 40.38 2.41
3496 7977 3.960102 TGCTCCATTTTGTCAGGTTTCTT 59.040 39.130 0.00 0.00 0.00 2.52
3523 8004 5.091261 ACTGTTGTCTAGGGTCATCATTC 57.909 43.478 0.00 0.00 0.00 2.67
3602 8155 0.610174 TGGCTACAGCTCTCTTGTGG 59.390 55.000 0.54 0.00 41.70 4.17
3603 8156 0.610687 GGCTACAGCTCTCTTGTGGT 59.389 55.000 0.54 0.00 41.70 4.16
3604 8157 1.002544 GGCTACAGCTCTCTTGTGGTT 59.997 52.381 0.54 0.00 41.70 3.67
3605 8158 2.233922 GGCTACAGCTCTCTTGTGGTTA 59.766 50.000 0.54 0.00 41.70 2.85
3606 8159 3.254892 GCTACAGCTCTCTTGTGGTTAC 58.745 50.000 0.00 0.00 38.21 2.50
3607 8160 3.056465 GCTACAGCTCTCTTGTGGTTACT 60.056 47.826 0.00 0.00 38.21 2.24
3608 8161 3.669251 ACAGCTCTCTTGTGGTTACTC 57.331 47.619 0.00 0.00 0.00 2.59
3609 8162 2.300437 ACAGCTCTCTTGTGGTTACTCC 59.700 50.000 0.00 0.00 0.00 3.85
3610 8163 1.546476 AGCTCTCTTGTGGTTACTCCG 59.454 52.381 0.00 0.00 39.52 4.63
3611 8164 1.404315 GCTCTCTTGTGGTTACTCCGG 60.404 57.143 0.00 0.00 39.52 5.14
3612 8165 1.204941 CTCTCTTGTGGTTACTCCGGG 59.795 57.143 0.00 0.00 39.52 5.73
3613 8166 0.974383 CTCTTGTGGTTACTCCGGGT 59.026 55.000 0.00 0.32 39.52 5.28
3614 8167 0.682852 TCTTGTGGTTACTCCGGGTG 59.317 55.000 0.00 0.00 39.52 4.61
3615 8168 0.321298 CTTGTGGTTACTCCGGGTGG 60.321 60.000 0.00 0.00 39.52 4.61
3616 8169 2.046604 GTGGTTACTCCGGGTGGC 60.047 66.667 0.00 0.00 39.52 5.01
3617 8170 2.203877 TGGTTACTCCGGGTGGCT 60.204 61.111 0.00 0.00 39.52 4.75
3618 8171 2.267961 GGTTACTCCGGGTGGCTG 59.732 66.667 0.00 0.00 34.14 4.85
3619 8172 2.267961 GTTACTCCGGGTGGCTGG 59.732 66.667 0.00 0.00 34.14 4.85
3620 8173 2.203877 TTACTCCGGGTGGCTGGT 60.204 61.111 0.00 0.00 34.14 4.00
3621 8174 2.288025 TTACTCCGGGTGGCTGGTC 61.288 63.158 0.00 0.00 34.14 4.02
3630 8183 3.260297 TGGCTGGTCCATGTGGTT 58.740 55.556 0.00 0.00 40.72 3.67
3631 8184 1.541169 TGGCTGGTCCATGTGGTTT 59.459 52.632 0.00 0.00 40.72 3.27
3632 8185 0.827089 TGGCTGGTCCATGTGGTTTG 60.827 55.000 0.00 0.00 40.72 2.93
3633 8186 0.539438 GGCTGGTCCATGTGGTTTGA 60.539 55.000 0.00 0.00 36.34 2.69
3634 8187 1.549203 GCTGGTCCATGTGGTTTGAT 58.451 50.000 0.00 0.00 36.34 2.57
3635 8188 2.620367 GGCTGGTCCATGTGGTTTGATA 60.620 50.000 0.00 0.00 36.34 2.15
3636 8189 3.088532 GCTGGTCCATGTGGTTTGATAA 58.911 45.455 0.00 0.00 36.34 1.75
3637 8190 3.129287 GCTGGTCCATGTGGTTTGATAAG 59.871 47.826 0.00 0.00 36.34 1.73
3638 8191 4.335416 CTGGTCCATGTGGTTTGATAAGT 58.665 43.478 0.00 0.00 36.34 2.24
3639 8192 4.735369 TGGTCCATGTGGTTTGATAAGTT 58.265 39.130 0.00 0.00 36.34 2.66
3640 8193 5.144100 TGGTCCATGTGGTTTGATAAGTTT 58.856 37.500 0.00 0.00 36.34 2.66
3641 8194 5.010516 TGGTCCATGTGGTTTGATAAGTTTG 59.989 40.000 0.00 0.00 36.34 2.93
3642 8195 5.469479 GTCCATGTGGTTTGATAAGTTTGG 58.531 41.667 0.00 0.00 36.34 3.28
3643 8196 4.021544 TCCATGTGGTTTGATAAGTTTGGC 60.022 41.667 0.00 0.00 36.34 4.52
3644 8197 4.021192 CCATGTGGTTTGATAAGTTTGGCT 60.021 41.667 0.00 0.00 0.00 4.75
3645 8198 5.184864 CCATGTGGTTTGATAAGTTTGGCTA 59.815 40.000 0.00 0.00 0.00 3.93
3646 8199 5.699097 TGTGGTTTGATAAGTTTGGCTAC 57.301 39.130 0.00 0.00 0.00 3.58
3647 8200 5.133941 TGTGGTTTGATAAGTTTGGCTACA 58.866 37.500 0.00 0.00 0.00 2.74
3648 8201 5.240623 TGTGGTTTGATAAGTTTGGCTACAG 59.759 40.000 0.00 0.00 0.00 2.74
3649 8202 4.217550 TGGTTTGATAAGTTTGGCTACAGC 59.782 41.667 0.00 0.00 41.14 4.40
3650 8203 4.459337 GGTTTGATAAGTTTGGCTACAGCT 59.541 41.667 0.54 0.00 41.70 4.24
3651 8204 5.392057 GGTTTGATAAGTTTGGCTACAGCTC 60.392 44.000 0.54 0.00 41.70 4.09
3652 8205 4.826274 TGATAAGTTTGGCTACAGCTCT 57.174 40.909 0.54 0.00 41.70 4.09
3653 8206 5.165961 TGATAAGTTTGGCTACAGCTCTT 57.834 39.130 0.54 4.52 41.70 2.85
3654 8207 5.560724 TGATAAGTTTGGCTACAGCTCTTT 58.439 37.500 0.54 0.00 41.70 2.52
3655 8208 6.003950 TGATAAGTTTGGCTACAGCTCTTTT 58.996 36.000 0.54 0.00 41.70 2.27
3656 8209 4.574599 AAGTTTGGCTACAGCTCTTTTG 57.425 40.909 0.54 0.00 41.70 2.44
3657 8210 3.555966 AGTTTGGCTACAGCTCTTTTGT 58.444 40.909 0.54 0.00 41.70 2.83
3658 8211 3.316308 AGTTTGGCTACAGCTCTTTTGTG 59.684 43.478 0.54 0.00 41.70 3.33
3676 8229 1.451387 GTTACTCCGGGTGCCCATG 60.451 63.158 0.00 0.00 35.37 3.66
3746 8430 5.233050 CCAATGACAAGTCTTATCTGCTACG 59.767 44.000 1.53 0.00 0.00 3.51
3751 8435 1.041437 GTCTTATCTGCTACGCCCCT 58.959 55.000 0.00 0.00 0.00 4.79
3752 8436 1.040646 TCTTATCTGCTACGCCCCTG 58.959 55.000 0.00 0.00 0.00 4.45
3753 8437 0.753262 CTTATCTGCTACGCCCCTGT 59.247 55.000 0.00 0.00 0.00 4.00
3754 8438 1.139058 CTTATCTGCTACGCCCCTGTT 59.861 52.381 0.00 0.00 0.00 3.16
3755 8439 0.750850 TATCTGCTACGCCCCTGTTC 59.249 55.000 0.00 0.00 0.00 3.18
3756 8440 1.972660 ATCTGCTACGCCCCTGTTCC 61.973 60.000 0.00 0.00 0.00 3.62
3757 8441 2.606519 TGCTACGCCCCTGTTCCT 60.607 61.111 0.00 0.00 0.00 3.36
3758 8442 1.305465 TGCTACGCCCCTGTTCCTA 60.305 57.895 0.00 0.00 0.00 2.94
3759 8443 0.905809 TGCTACGCCCCTGTTCCTAA 60.906 55.000 0.00 0.00 0.00 2.69
3760 8444 0.251073 GCTACGCCCCTGTTCCTAAA 59.749 55.000 0.00 0.00 0.00 1.85
3761 8445 1.134189 GCTACGCCCCTGTTCCTAAAT 60.134 52.381 0.00 0.00 0.00 1.40
3762 8446 2.103601 GCTACGCCCCTGTTCCTAAATA 59.896 50.000 0.00 0.00 0.00 1.40
3763 8447 3.802675 GCTACGCCCCTGTTCCTAAATAG 60.803 52.174 0.00 0.00 0.00 1.73
3764 8448 2.193993 ACGCCCCTGTTCCTAAATAGT 58.806 47.619 0.00 0.00 0.00 2.12
3765 8449 3.377573 ACGCCCCTGTTCCTAAATAGTA 58.622 45.455 0.00 0.00 0.00 1.82
3766 8450 3.133542 ACGCCCCTGTTCCTAAATAGTAC 59.866 47.826 0.00 0.00 0.00 2.73
3767 8451 3.387050 CGCCCCTGTTCCTAAATAGTACT 59.613 47.826 0.00 0.00 0.00 2.73
3768 8452 4.704965 GCCCCTGTTCCTAAATAGTACTG 58.295 47.826 5.39 0.00 0.00 2.74
3769 8453 4.163649 GCCCCTGTTCCTAAATAGTACTGT 59.836 45.833 5.39 0.00 0.00 3.55
3770 8454 5.364735 GCCCCTGTTCCTAAATAGTACTGTA 59.635 44.000 5.39 0.00 0.00 2.74
3771 8455 6.042897 GCCCCTGTTCCTAAATAGTACTGTAT 59.957 42.308 5.39 0.00 0.00 2.29
3772 8456 7.668492 CCCCTGTTCCTAAATAGTACTGTATC 58.332 42.308 5.39 0.00 0.00 2.24
3773 8457 7.509659 CCCCTGTTCCTAAATAGTACTGTATCT 59.490 40.741 5.39 0.00 0.00 1.98
3774 8458 8.361139 CCCTGTTCCTAAATAGTACTGTATCTG 58.639 40.741 5.39 0.00 0.00 2.90
3775 8459 8.915036 CCTGTTCCTAAATAGTACTGTATCTGT 58.085 37.037 5.39 0.00 0.00 3.41
3776 8460 9.953697 CTGTTCCTAAATAGTACTGTATCTGTC 57.046 37.037 5.39 0.00 0.00 3.51
3777 8461 9.696572 TGTTCCTAAATAGTACTGTATCTGTCT 57.303 33.333 5.39 0.00 0.00 3.41
3797 8481 9.396022 TCTGTCTTTCTAAAGATTTCAACAAGT 57.604 29.630 8.31 0.00 45.83 3.16
3798 8482 9.443283 CTGTCTTTCTAAAGATTTCAACAAGTG 57.557 33.333 8.31 0.00 45.83 3.16
3799 8483 9.173021 TGTCTTTCTAAAGATTTCAACAAGTGA 57.827 29.630 8.31 0.00 45.83 3.41
3800 8484 9.439537 GTCTTTCTAAAGATTTCAACAAGTGAC 57.560 33.333 8.31 0.00 45.83 3.67
3801 8485 9.396022 TCTTTCTAAAGATTTCAACAAGTGACT 57.604 29.630 1.00 0.00 39.95 3.41
3804 8488 9.832445 TTCTAAAGATTTCAACAAGTGACTAGT 57.168 29.630 0.00 0.00 35.39 2.57
3807 8491 8.958119 AAAGATTTCAACAAGTGACTAGTACA 57.042 30.769 0.00 0.00 35.39 2.90
3808 8492 9.561069 AAAGATTTCAACAAGTGACTAGTACAT 57.439 29.630 0.00 0.00 35.39 2.29
3810 8494 9.640963 AGATTTCAACAAGTGACTAGTACATAC 57.359 33.333 0.00 0.00 35.39 2.39
3811 8495 9.419297 GATTTCAACAAGTGACTAGTACATACA 57.581 33.333 0.00 0.00 35.39 2.29
3812 8496 9.772973 ATTTCAACAAGTGACTAGTACATACAA 57.227 29.630 0.00 0.00 35.39 2.41
3813 8497 9.602568 TTTCAACAAGTGACTAGTACATACAAA 57.397 29.630 0.00 0.00 35.39 2.83
3814 8498 8.812147 TCAACAAGTGACTAGTACATACAAAG 57.188 34.615 0.00 0.00 0.00 2.77
3815 8499 7.384115 TCAACAAGTGACTAGTACATACAAAGC 59.616 37.037 0.00 0.00 0.00 3.51
3816 8500 6.755206 ACAAGTGACTAGTACATACAAAGCA 58.245 36.000 0.00 0.00 0.00 3.91
3817 8501 7.214381 ACAAGTGACTAGTACATACAAAGCAA 58.786 34.615 0.00 0.00 0.00 3.91
3818 8502 7.713507 ACAAGTGACTAGTACATACAAAGCAAA 59.286 33.333 0.00 0.00 0.00 3.68
3819 8503 7.891183 AGTGACTAGTACATACAAAGCAAAG 57.109 36.000 0.00 0.00 0.00 2.77
3820 8504 7.442656 AGTGACTAGTACATACAAAGCAAAGT 58.557 34.615 0.00 0.00 0.00 2.66
3821 8505 7.385205 AGTGACTAGTACATACAAAGCAAAGTG 59.615 37.037 0.00 0.00 0.00 3.16
3822 8506 7.384115 GTGACTAGTACATACAAAGCAAAGTGA 59.616 37.037 0.00 0.00 0.00 3.41
3823 8507 7.598869 TGACTAGTACATACAAAGCAAAGTGAG 59.401 37.037 0.00 0.00 0.00 3.51
3824 8508 7.442656 ACTAGTACATACAAAGCAAAGTGAGT 58.557 34.615 0.00 0.00 0.00 3.41
3825 8509 6.545504 AGTACATACAAAGCAAAGTGAGTG 57.454 37.500 0.00 0.00 0.00 3.51
3826 8510 6.288294 AGTACATACAAAGCAAAGTGAGTGA 58.712 36.000 0.00 0.00 0.00 3.41
3827 8511 6.765989 AGTACATACAAAGCAAAGTGAGTGAA 59.234 34.615 0.00 0.00 0.00 3.18
3828 8512 6.639632 ACATACAAAGCAAAGTGAGTGAAT 57.360 33.333 0.00 0.00 0.00 2.57
3829 8513 6.672147 ACATACAAAGCAAAGTGAGTGAATC 58.328 36.000 0.00 0.00 0.00 2.52
3830 8514 6.488006 ACATACAAAGCAAAGTGAGTGAATCT 59.512 34.615 0.00 0.00 0.00 2.40
3831 8515 7.661437 ACATACAAAGCAAAGTGAGTGAATCTA 59.339 33.333 0.00 0.00 0.00 1.98
3832 8516 6.305693 ACAAAGCAAAGTGAGTGAATCTAC 57.694 37.500 0.00 0.00 0.00 2.59
3833 8517 5.822519 ACAAAGCAAAGTGAGTGAATCTACA 59.177 36.000 0.00 0.00 0.00 2.74
3834 8518 5.931441 AAGCAAAGTGAGTGAATCTACAC 57.069 39.130 0.00 0.00 40.60 2.90
3859 8543 9.661187 ACTCTAAAATATGTCTACATACGTTCG 57.339 33.333 4.98 0.00 41.15 3.95
3860 8544 9.661187 CTCTAAAATATGTCTACATACGTTCGT 57.339 33.333 4.98 2.91 41.15 3.85
3873 8557 6.858104 CATACGTTCGTATGTTGTAGTTCA 57.142 37.500 26.81 0.00 41.55 3.18
3874 8558 7.445900 CATACGTTCGTATGTTGTAGTTCAT 57.554 36.000 26.81 1.20 41.55 2.57
3875 8559 5.756950 ACGTTCGTATGTTGTAGTTCATG 57.243 39.130 0.00 0.00 0.00 3.07
3876 8560 5.224888 ACGTTCGTATGTTGTAGTTCATGT 58.775 37.500 0.00 0.00 0.00 3.21
3877 8561 5.118050 ACGTTCGTATGTTGTAGTTCATGTG 59.882 40.000 0.00 0.00 0.00 3.21
3878 8562 5.343860 CGTTCGTATGTTGTAGTTCATGTGA 59.656 40.000 0.00 0.00 0.00 3.58
3879 8563 6.129035 CGTTCGTATGTTGTAGTTCATGTGAA 60.129 38.462 0.00 0.00 0.00 3.18
3880 8564 7.567952 CGTTCGTATGTTGTAGTTCATGTGAAA 60.568 37.037 0.00 0.00 35.58 2.69
3881 8565 7.899178 TCGTATGTTGTAGTTCATGTGAAAT 57.101 32.000 1.21 1.21 35.58 2.17
3882 8566 7.738345 TCGTATGTTGTAGTTCATGTGAAATG 58.262 34.615 6.01 0.00 35.58 2.32
3883 8567 7.386573 TCGTATGTTGTAGTTCATGTGAAATGT 59.613 33.333 6.01 0.00 35.58 2.71
3884 8568 7.688167 CGTATGTTGTAGTTCATGTGAAATGTC 59.312 37.037 6.01 1.03 35.58 3.06
3885 8569 7.750229 ATGTTGTAGTTCATGTGAAATGTCT 57.250 32.000 6.01 0.00 35.58 3.41
3886 8570 8.846943 ATGTTGTAGTTCATGTGAAATGTCTA 57.153 30.769 6.01 0.00 35.58 2.59
3887 8571 8.083462 TGTTGTAGTTCATGTGAAATGTCTAC 57.917 34.615 6.01 9.23 35.58 2.59
3888 8572 7.713073 TGTTGTAGTTCATGTGAAATGTCTACA 59.287 33.333 14.71 14.71 36.68 2.74
3889 8573 8.556194 GTTGTAGTTCATGTGAAATGTCTACAA 58.444 33.333 20.82 20.82 40.34 2.41
3890 8574 8.669946 TGTAGTTCATGTGAAATGTCTACAAA 57.330 30.769 15.66 1.92 36.19 2.83
3891 8575 8.773645 TGTAGTTCATGTGAAATGTCTACAAAG 58.226 33.333 15.66 0.00 36.19 2.77
3892 8576 8.988934 GTAGTTCATGTGAAATGTCTACAAAGA 58.011 33.333 6.01 0.00 35.58 2.52
3893 8577 7.865707 AGTTCATGTGAAATGTCTACAAAGAC 58.134 34.615 0.00 0.00 42.91 3.01
3909 8593 8.748412 TCTACAAAGACAAATATTTGGGAATGG 58.252 33.333 27.43 16.09 40.62 3.16
3910 8594 7.552050 ACAAAGACAAATATTTGGGAATGGA 57.448 32.000 27.43 0.00 40.62 3.41
3911 8595 7.614494 ACAAAGACAAATATTTGGGAATGGAG 58.386 34.615 27.43 13.88 40.62 3.86
3912 8596 6.796785 AAGACAAATATTTGGGAATGGAGG 57.203 37.500 27.43 3.68 42.34 4.30
3913 8597 5.211201 AGACAAATATTTGGGAATGGAGGG 58.789 41.667 27.43 3.22 42.34 4.30
3914 8598 5.043432 AGACAAATATTTGGGAATGGAGGGA 60.043 40.000 27.43 0.00 42.34 4.20
3915 8599 5.211201 ACAAATATTTGGGAATGGAGGGAG 58.789 41.667 27.43 2.64 42.34 4.30
3916 8600 5.211201 CAAATATTTGGGAATGGAGGGAGT 58.789 41.667 18.72 0.00 34.59 3.85
3917 8601 6.068498 ACAAATATTTGGGAATGGAGGGAGTA 60.068 38.462 27.43 0.00 42.34 2.59
3918 8602 5.850046 ATATTTGGGAATGGAGGGAGTAG 57.150 43.478 0.00 0.00 0.00 2.57
3919 8603 2.961536 TTGGGAATGGAGGGAGTAGA 57.038 50.000 0.00 0.00 0.00 2.59
3920 8604 3.438131 TTGGGAATGGAGGGAGTAGAT 57.562 47.619 0.00 0.00 0.00 1.98
3945 8629 2.742372 GAGCCGACGCACCAACAT 60.742 61.111 0.00 0.00 37.52 2.71
3946 8630 3.027170 GAGCCGACGCACCAACATG 62.027 63.158 0.00 0.00 37.52 3.21
3948 8632 3.353029 CCGACGCACCAACATGCA 61.353 61.111 0.00 0.00 46.47 3.96
3956 8652 1.202510 GCACCAACATGCAACAAGGAA 60.203 47.619 0.00 0.00 45.39 3.36
4031 8739 0.991920 AGTTCCCTACACCCACCATG 59.008 55.000 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 6.942576 ACATGGATGTTAAAGTGTAGCTCTTT 59.057 34.615 0.00 0.00 37.90 2.52
60 61 4.838423 TGGTTATCATAGGACGACATGGAT 59.162 41.667 0.00 0.00 0.00 3.41
374 3427 1.978455 ATCGGATAAGGCGGGTGCAA 61.978 55.000 0.00 0.00 45.35 4.08
408 3461 4.064768 TGCTGGGGATTGCTGGGG 62.065 66.667 0.00 0.00 0.00 4.96
411 3464 1.751927 GACCTGCTGGGGATTGCTG 60.752 63.158 14.82 0.00 40.03 4.41
412 3465 1.504275 AAGACCTGCTGGGGATTGCT 61.504 55.000 14.82 0.00 40.03 3.91
413 3466 1.000396 AAGACCTGCTGGGGATTGC 60.000 57.895 14.82 0.00 40.03 3.56
414 3467 0.394899 GGAAGACCTGCTGGGGATTG 60.395 60.000 14.82 0.00 40.03 2.67
417 3470 2.610859 GGGAAGACCTGCTGGGGA 60.611 66.667 14.82 0.00 40.03 4.81
418 3471 3.732849 GGGGAAGACCTGCTGGGG 61.733 72.222 14.82 1.98 40.03 4.96
419 3472 2.935481 TGGGGAAGACCTGCTGGG 60.935 66.667 14.82 4.64 40.03 4.45
420 3473 2.673523 CTGGGGAAGACCTGCTGG 59.326 66.667 8.29 8.29 40.03 4.85
424 3477 1.267574 TAGCTGCTGGGGAAGACCTG 61.268 60.000 13.43 0.00 40.03 4.00
425 3478 0.980231 CTAGCTGCTGGGGAAGACCT 60.980 60.000 13.43 0.00 40.03 3.85
729 4716 4.017808 AGAGCGTTTAGATCACTACTGGT 58.982 43.478 0.00 0.00 37.82 4.00
730 4717 4.640789 AGAGCGTTTAGATCACTACTGG 57.359 45.455 0.00 0.00 37.82 4.00
731 4718 9.900710 AATATAAGAGCGTTTAGATCACTACTG 57.099 33.333 0.00 0.00 37.82 2.74
740 4727 9.241317 CCGTAAAGAAATATAAGAGCGTTTAGA 57.759 33.333 0.00 0.00 0.00 2.10
741 4728 9.241317 TCCGTAAAGAAATATAAGAGCGTTTAG 57.759 33.333 0.00 0.00 0.00 1.85
742 4729 9.241317 CTCCGTAAAGAAATATAAGAGCGTTTA 57.759 33.333 0.00 0.00 0.00 2.01
743 4730 7.224167 CCTCCGTAAAGAAATATAAGAGCGTTT 59.776 37.037 0.00 0.00 0.00 3.60
744 4731 6.700520 CCTCCGTAAAGAAATATAAGAGCGTT 59.299 38.462 0.00 0.00 0.00 4.84
768 4755 7.110043 AGCACTAGTATTGTAAACTACTCCC 57.890 40.000 0.00 0.00 30.98 4.30
785 4772 8.948631 TTGTAAATCCAAGATTCTAGCACTAG 57.051 34.615 0.00 0.00 34.56 2.57
841 4831 4.083590 GCCTCAAAATAGAGATCAATCGCC 60.084 45.833 0.00 0.00 37.87 5.54
1533 5524 6.383436 GGACTTGTTAGTTCCTTCCCTACTAT 59.617 42.308 0.00 0.00 33.84 2.12
1562 5553 5.693814 CAAAGGAAGTGAGTCTGCAATTAC 58.306 41.667 0.00 0.00 0.00 1.89
1727 6181 3.002862 GCAGTCCGTACACATGTGAAAAA 59.997 43.478 31.94 11.33 0.00 1.94
2180 6641 5.447818 CCAACGGTCTTCAAGAGAATATTGC 60.448 44.000 0.00 0.00 35.79 3.56
2241 6702 3.084786 CAGACTTCTGATGGTTTTCCCC 58.915 50.000 0.00 0.00 46.59 4.81
2291 6752 1.340991 GGTTGCCCAGTGTACATCCAT 60.341 52.381 0.00 0.00 0.00 3.41
2375 6836 1.428912 TCTCAGTGGGGCCAATTTCTT 59.571 47.619 4.39 0.00 0.00 2.52
2385 6846 1.362224 TTCCCTTCTTCTCAGTGGGG 58.638 55.000 0.00 0.00 36.30 4.96
2405 6866 3.515502 CAGGTTCCAGTCCTGTATGAAGA 59.484 47.826 4.06 0.00 45.09 2.87
2535 6998 2.902705 TGTACAGAAGACGCCAAAGT 57.097 45.000 0.00 0.00 0.00 2.66
2736 7199 2.481276 CGTAGCACGGATGAATTCCTCA 60.481 50.000 12.10 0.00 42.99 3.86
2759 7222 0.539051 ATCCTTCCTTGACTCAGCGG 59.461 55.000 0.00 0.00 0.00 5.52
2809 7272 0.035881 CTGGCCTTCTCAGTGCTCAA 59.964 55.000 3.32 0.00 0.00 3.02
2844 7307 0.610174 TGACACAGACCAGCCATCTC 59.390 55.000 0.00 0.00 0.00 2.75
2889 7352 1.029681 GGTGTTTCGCCTTGGTCTTT 58.970 50.000 0.00 0.00 0.00 2.52
2916 7379 4.966366 GCAGTGAGCATAAATCGTTTGATC 59.034 41.667 0.00 0.00 44.79 2.92
2990 7453 3.115554 TCGTCGCACAGATCAATGTATG 58.884 45.455 0.00 0.00 0.00 2.39
3013 7476 3.914984 GCTCCCGCAGCTCATTATA 57.085 52.632 0.00 0.00 45.83 0.98
3169 7632 1.544724 TTTGCCTGATTAGCCGCTTT 58.455 45.000 0.00 0.00 0.00 3.51
3265 7728 2.353579 ACTACAACGACAACAAAGTGGC 59.646 45.455 0.00 0.00 0.00 5.01
3308 7778 1.000896 ACATGCAGGTAACCAGCCC 60.001 57.895 0.06 0.00 37.32 5.19
3334 7804 2.108168 CCCCGGTTATCAGAGAACTCA 58.892 52.381 7.83 0.00 0.00 3.41
3340 7810 0.469917 ATGTGCCCCGGTTATCAGAG 59.530 55.000 0.00 0.00 0.00 3.35
3353 7823 1.665599 GCAGCAACCACAATGTGCC 60.666 57.895 8.05 0.00 31.34 5.01
3426 7907 6.407074 CCTTCCTGTTACAATAGGTCGAAGAT 60.407 42.308 4.87 0.00 40.67 2.40
3496 7977 2.158370 TGACCCTAGACAACAGTCTCCA 60.158 50.000 0.79 0.00 41.54 3.86
3602 8155 2.267961 CCAGCCACCCGGAGTAAC 59.732 66.667 0.73 0.00 0.00 2.50
3603 8156 2.203877 ACCAGCCACCCGGAGTAA 60.204 61.111 0.73 0.00 0.00 2.24
3604 8157 2.682494 GACCAGCCACCCGGAGTA 60.682 66.667 0.73 0.00 0.00 2.59
3614 8167 0.539438 TCAAACCACATGGACCAGCC 60.539 55.000 4.53 0.00 38.94 4.85
3615 8168 1.549203 ATCAAACCACATGGACCAGC 58.451 50.000 4.53 0.00 38.94 4.85
3616 8169 4.335416 ACTTATCAAACCACATGGACCAG 58.665 43.478 4.53 0.00 38.94 4.00
3617 8170 4.380843 ACTTATCAAACCACATGGACCA 57.619 40.909 4.53 0.00 38.94 4.02
3618 8171 5.469479 CAAACTTATCAAACCACATGGACC 58.531 41.667 4.53 0.00 38.94 4.46
3619 8172 5.469479 CCAAACTTATCAAACCACATGGAC 58.531 41.667 4.53 0.00 38.94 4.02
3620 8173 4.021544 GCCAAACTTATCAAACCACATGGA 60.022 41.667 4.53 0.00 38.94 3.41
3621 8174 4.021192 AGCCAAACTTATCAAACCACATGG 60.021 41.667 0.00 0.00 42.17 3.66
3622 8175 5.138125 AGCCAAACTTATCAAACCACATG 57.862 39.130 0.00 0.00 0.00 3.21
3623 8176 5.772672 TGTAGCCAAACTTATCAAACCACAT 59.227 36.000 0.00 0.00 0.00 3.21
3624 8177 5.133941 TGTAGCCAAACTTATCAAACCACA 58.866 37.500 0.00 0.00 0.00 4.17
3625 8178 5.699097 TGTAGCCAAACTTATCAAACCAC 57.301 39.130 0.00 0.00 0.00 4.16
3626 8179 4.217550 GCTGTAGCCAAACTTATCAAACCA 59.782 41.667 0.00 0.00 34.31 3.67
3627 8180 4.459337 AGCTGTAGCCAAACTTATCAAACC 59.541 41.667 0.00 0.00 43.38 3.27
3628 8181 5.412904 AGAGCTGTAGCCAAACTTATCAAAC 59.587 40.000 0.00 0.00 43.38 2.93
3629 8182 5.560724 AGAGCTGTAGCCAAACTTATCAAA 58.439 37.500 0.00 0.00 43.38 2.69
3630 8183 5.165961 AGAGCTGTAGCCAAACTTATCAA 57.834 39.130 0.00 0.00 43.38 2.57
3631 8184 4.826274 AGAGCTGTAGCCAAACTTATCA 57.174 40.909 0.00 0.00 43.38 2.15
3632 8185 6.072452 ACAAAAGAGCTGTAGCCAAACTTATC 60.072 38.462 0.00 0.00 43.38 1.75
3633 8186 5.770162 ACAAAAGAGCTGTAGCCAAACTTAT 59.230 36.000 0.00 0.00 43.38 1.73
3634 8187 5.008613 CACAAAAGAGCTGTAGCCAAACTTA 59.991 40.000 0.00 0.00 43.38 2.24
3635 8188 3.954258 ACAAAAGAGCTGTAGCCAAACTT 59.046 39.130 0.00 0.00 43.38 2.66
3636 8189 3.316308 CACAAAAGAGCTGTAGCCAAACT 59.684 43.478 0.00 0.00 43.38 2.66
3637 8190 3.066760 ACACAAAAGAGCTGTAGCCAAAC 59.933 43.478 0.00 0.00 43.38 2.93
3638 8191 3.287222 ACACAAAAGAGCTGTAGCCAAA 58.713 40.909 0.00 0.00 43.38 3.28
3639 8192 2.930950 ACACAAAAGAGCTGTAGCCAA 58.069 42.857 0.00 0.00 43.38 4.52
3640 8193 2.638480 ACACAAAAGAGCTGTAGCCA 57.362 45.000 0.00 0.00 43.38 4.75
3641 8194 4.065789 AGTAACACAAAAGAGCTGTAGCC 58.934 43.478 0.00 0.00 43.38 3.93
3642 8195 4.152580 GGAGTAACACAAAAGAGCTGTAGC 59.847 45.833 0.00 0.00 42.49 3.58
3643 8196 4.386049 CGGAGTAACACAAAAGAGCTGTAG 59.614 45.833 0.00 0.00 0.00 2.74
3644 8197 4.304110 CGGAGTAACACAAAAGAGCTGTA 58.696 43.478 0.00 0.00 0.00 2.74
3645 8198 3.131396 CGGAGTAACACAAAAGAGCTGT 58.869 45.455 0.00 0.00 0.00 4.40
3646 8199 2.480419 CCGGAGTAACACAAAAGAGCTG 59.520 50.000 0.00 0.00 0.00 4.24
3647 8200 2.550208 CCCGGAGTAACACAAAAGAGCT 60.550 50.000 0.73 0.00 0.00 4.09
3648 8201 1.804748 CCCGGAGTAACACAAAAGAGC 59.195 52.381 0.73 0.00 0.00 4.09
3649 8202 2.806244 CACCCGGAGTAACACAAAAGAG 59.194 50.000 0.73 0.00 0.00 2.85
3650 8203 2.841215 CACCCGGAGTAACACAAAAGA 58.159 47.619 0.73 0.00 0.00 2.52
3651 8204 1.265905 GCACCCGGAGTAACACAAAAG 59.734 52.381 0.73 0.00 0.00 2.27
3652 8205 1.310904 GCACCCGGAGTAACACAAAA 58.689 50.000 0.73 0.00 0.00 2.44
3653 8206 0.535553 GGCACCCGGAGTAACACAAA 60.536 55.000 0.73 0.00 0.00 2.83
3654 8207 1.071814 GGCACCCGGAGTAACACAA 59.928 57.895 0.73 0.00 0.00 3.33
3655 8208 2.745037 GGCACCCGGAGTAACACA 59.255 61.111 0.73 0.00 0.00 3.72
3676 8229 5.006455 GCAAATAAGTACTAAAGGAGCGTCC 59.994 44.000 0.00 0.00 36.58 4.79
3746 8430 4.163649 ACAGTACTATTTAGGAACAGGGGC 59.836 45.833 0.00 0.00 0.00 5.80
3751 8435 9.696572 AGACAGATACAGTACTATTTAGGAACA 57.303 33.333 0.00 0.00 0.00 3.18
3771 8455 9.396022 ACTTGTTGAAATCTTTAGAAAGACAGA 57.604 29.630 6.85 0.00 46.80 3.41
3772 8456 9.443283 CACTTGTTGAAATCTTTAGAAAGACAG 57.557 33.333 6.85 0.00 46.80 3.51
3773 8457 9.173021 TCACTTGTTGAAATCTTTAGAAAGACA 57.827 29.630 6.85 0.00 46.80 3.41
3774 8458 9.439537 GTCACTTGTTGAAATCTTTAGAAAGAC 57.560 33.333 6.85 0.00 40.95 3.01
3775 8459 9.396022 AGTCACTTGTTGAAATCTTTAGAAAGA 57.604 29.630 7.15 7.15 41.72 2.52
3778 8462 9.832445 ACTAGTCACTTGTTGAAATCTTTAGAA 57.168 29.630 0.00 0.00 35.39 2.10
3782 8466 8.958119 TGTACTAGTCACTTGTTGAAATCTTT 57.042 30.769 0.00 0.00 35.39 2.52
3784 8468 9.640963 GTATGTACTAGTCACTTGTTGAAATCT 57.359 33.333 0.00 0.00 35.39 2.40
3785 8469 9.419297 TGTATGTACTAGTCACTTGTTGAAATC 57.581 33.333 0.00 0.00 35.39 2.17
3786 8470 9.772973 TTGTATGTACTAGTCACTTGTTGAAAT 57.227 29.630 0.00 0.00 35.39 2.17
3787 8471 9.602568 TTTGTATGTACTAGTCACTTGTTGAAA 57.397 29.630 0.00 0.00 35.39 2.69
3788 8472 9.256477 CTTTGTATGTACTAGTCACTTGTTGAA 57.744 33.333 0.00 0.00 35.39 2.69
3789 8473 7.384115 GCTTTGTATGTACTAGTCACTTGTTGA 59.616 37.037 0.00 0.00 0.00 3.18
3790 8474 7.170828 TGCTTTGTATGTACTAGTCACTTGTTG 59.829 37.037 0.00 0.00 0.00 3.33
3791 8475 7.214381 TGCTTTGTATGTACTAGTCACTTGTT 58.786 34.615 0.00 0.00 0.00 2.83
3792 8476 6.755206 TGCTTTGTATGTACTAGTCACTTGT 58.245 36.000 0.00 0.00 0.00 3.16
3793 8477 7.652300 TTGCTTTGTATGTACTAGTCACTTG 57.348 36.000 0.00 0.00 0.00 3.16
3794 8478 7.931948 ACTTTGCTTTGTATGTACTAGTCACTT 59.068 33.333 0.00 0.00 0.00 3.16
3795 8479 7.385205 CACTTTGCTTTGTATGTACTAGTCACT 59.615 37.037 0.00 0.00 0.00 3.41
3796 8480 7.384115 TCACTTTGCTTTGTATGTACTAGTCAC 59.616 37.037 0.00 0.00 0.00 3.67
3797 8481 7.438564 TCACTTTGCTTTGTATGTACTAGTCA 58.561 34.615 0.00 0.00 0.00 3.41
3798 8482 7.599245 ACTCACTTTGCTTTGTATGTACTAGTC 59.401 37.037 0.00 0.00 0.00 2.59
3799 8483 7.385205 CACTCACTTTGCTTTGTATGTACTAGT 59.615 37.037 0.00 0.00 0.00 2.57
3800 8484 7.598869 TCACTCACTTTGCTTTGTATGTACTAG 59.401 37.037 0.00 0.00 0.00 2.57
3801 8485 7.438564 TCACTCACTTTGCTTTGTATGTACTA 58.561 34.615 0.00 0.00 0.00 1.82
3802 8486 6.288294 TCACTCACTTTGCTTTGTATGTACT 58.712 36.000 0.00 0.00 0.00 2.73
3803 8487 6.539649 TCACTCACTTTGCTTTGTATGTAC 57.460 37.500 0.00 0.00 0.00 2.90
3804 8488 7.661437 AGATTCACTCACTTTGCTTTGTATGTA 59.339 33.333 0.00 0.00 0.00 2.29
3805 8489 6.488006 AGATTCACTCACTTTGCTTTGTATGT 59.512 34.615 0.00 0.00 0.00 2.29
3806 8490 6.906659 AGATTCACTCACTTTGCTTTGTATG 58.093 36.000 0.00 0.00 0.00 2.39
3807 8491 7.661437 TGTAGATTCACTCACTTTGCTTTGTAT 59.339 33.333 0.00 0.00 0.00 2.29
3808 8492 6.989759 TGTAGATTCACTCACTTTGCTTTGTA 59.010 34.615 0.00 0.00 0.00 2.41
3809 8493 5.822519 TGTAGATTCACTCACTTTGCTTTGT 59.177 36.000 0.00 0.00 0.00 2.83
3810 8494 6.017605 AGTGTAGATTCACTCACTTTGCTTTG 60.018 38.462 0.00 0.00 44.07 2.77
3811 8495 6.058183 AGTGTAGATTCACTCACTTTGCTTT 58.942 36.000 0.00 0.00 44.07 3.51
3812 8496 5.615289 AGTGTAGATTCACTCACTTTGCTT 58.385 37.500 0.00 0.00 44.07 3.91
3813 8497 5.220710 AGTGTAGATTCACTCACTTTGCT 57.779 39.130 0.00 0.00 44.07 3.91
3833 8517 9.661187 CGAACGTATGTAGACATATTTTAGAGT 57.339 33.333 5.69 0.00 40.53 3.24
3834 8518 9.661187 ACGAACGTATGTAGACATATTTTAGAG 57.339 33.333 5.69 0.00 40.53 2.43
3851 8535 7.008901 CACATGAACTACAACATACGAACGTAT 59.991 37.037 13.03 13.03 41.49 3.06
3852 8536 6.306117 CACATGAACTACAACATACGAACGTA 59.694 38.462 9.41 9.41 34.87 3.57
3853 8537 5.118050 CACATGAACTACAACATACGAACGT 59.882 40.000 0.00 5.03 0.00 3.99
3854 8538 5.343860 TCACATGAACTACAACATACGAACG 59.656 40.000 0.00 0.00 0.00 3.95
3855 8539 6.699895 TCACATGAACTACAACATACGAAC 57.300 37.500 0.00 0.00 0.00 3.95
3856 8540 7.716768 TTTCACATGAACTACAACATACGAA 57.283 32.000 0.00 0.00 33.13 3.85
3857 8541 7.386573 ACATTTCACATGAACTACAACATACGA 59.613 33.333 0.00 0.00 33.13 3.43
3858 8542 7.518161 ACATTTCACATGAACTACAACATACG 58.482 34.615 0.00 0.00 33.13 3.06
3859 8543 8.721478 AGACATTTCACATGAACTACAACATAC 58.279 33.333 0.00 0.00 33.13 2.39
3860 8544 8.846943 AGACATTTCACATGAACTACAACATA 57.153 30.769 0.00 0.00 33.13 2.29
3861 8545 7.750229 AGACATTTCACATGAACTACAACAT 57.250 32.000 0.00 0.00 33.13 2.71
3862 8546 7.713073 TGTAGACATTTCACATGAACTACAACA 59.287 33.333 15.22 5.91 38.26 3.33
3863 8547 8.083462 TGTAGACATTTCACATGAACTACAAC 57.917 34.615 15.22 4.04 38.26 3.32
3864 8548 8.669946 TTGTAGACATTTCACATGAACTACAA 57.330 30.769 20.57 20.57 42.15 2.41
3865 8549 8.669946 TTTGTAGACATTTCACATGAACTACA 57.330 30.769 14.24 14.24 38.75 2.74
3866 8550 8.988934 TCTTTGTAGACATTTCACATGAACTAC 58.011 33.333 0.00 10.81 35.48 2.73
3883 8567 8.748412 CCATTCCCAAATATTTGTCTTTGTAGA 58.252 33.333 23.24 7.17 36.45 2.59
3884 8568 8.748412 TCCATTCCCAAATATTTGTCTTTGTAG 58.252 33.333 23.24 8.23 36.45 2.74
3885 8569 8.657387 TCCATTCCCAAATATTTGTCTTTGTA 57.343 30.769 23.24 5.03 36.45 2.41
3886 8570 7.310609 CCTCCATTCCCAAATATTTGTCTTTGT 60.311 37.037 23.24 5.20 36.45 2.83
3887 8571 7.043565 CCTCCATTCCCAAATATTTGTCTTTG 58.956 38.462 23.24 15.62 36.45 2.77
3888 8572 6.156775 CCCTCCATTCCCAAATATTTGTCTTT 59.843 38.462 23.24 6.34 36.45 2.52
3889 8573 5.662657 CCCTCCATTCCCAAATATTTGTCTT 59.337 40.000 23.24 6.03 36.45 3.01
3890 8574 5.043432 TCCCTCCATTCCCAAATATTTGTCT 60.043 40.000 23.24 5.58 36.45 3.41
3891 8575 5.208121 TCCCTCCATTCCCAAATATTTGTC 58.792 41.667 23.24 0.00 36.45 3.18
3892 8576 5.211201 CTCCCTCCATTCCCAAATATTTGT 58.789 41.667 23.24 5.47 36.45 2.83
3893 8577 5.211201 ACTCCCTCCATTCCCAAATATTTG 58.789 41.667 19.40 19.40 37.90 2.32
3894 8578 5.487861 ACTCCCTCCATTCCCAAATATTT 57.512 39.130 0.00 0.00 0.00 1.40
3895 8579 5.917087 TCTACTCCCTCCATTCCCAAATATT 59.083 40.000 0.00 0.00 0.00 1.28
3896 8580 5.486332 TCTACTCCCTCCATTCCCAAATAT 58.514 41.667 0.00 0.00 0.00 1.28
3897 8581 4.903149 TCTACTCCCTCCATTCCCAAATA 58.097 43.478 0.00 0.00 0.00 1.40
3898 8582 3.747852 TCTACTCCCTCCATTCCCAAAT 58.252 45.455 0.00 0.00 0.00 2.32
3899 8583 3.214694 TCTACTCCCTCCATTCCCAAA 57.785 47.619 0.00 0.00 0.00 3.28
3900 8584 2.961536 TCTACTCCCTCCATTCCCAA 57.038 50.000 0.00 0.00 0.00 4.12
3901 8585 2.022035 ACATCTACTCCCTCCATTCCCA 60.022 50.000 0.00 0.00 0.00 4.37
3902 8586 2.635427 GACATCTACTCCCTCCATTCCC 59.365 54.545 0.00 0.00 0.00 3.97
3903 8587 2.635427 GGACATCTACTCCCTCCATTCC 59.365 54.545 0.00 0.00 0.00 3.01
3904 8588 3.309296 TGGACATCTACTCCCTCCATTC 58.691 50.000 0.00 0.00 0.00 2.67
3905 8589 3.421394 TGGACATCTACTCCCTCCATT 57.579 47.619 0.00 0.00 0.00 3.16
3906 8590 3.246301 CATGGACATCTACTCCCTCCAT 58.754 50.000 0.00 0.00 41.55 3.41
3907 8591 2.682594 CATGGACATCTACTCCCTCCA 58.317 52.381 0.00 0.00 35.49 3.86
3908 8592 1.974236 CCATGGACATCTACTCCCTCC 59.026 57.143 5.56 0.00 0.00 4.30
3909 8593 2.896685 CTCCATGGACATCTACTCCCTC 59.103 54.545 11.44 0.00 0.00 4.30
3910 8594 2.969628 CTCCATGGACATCTACTCCCT 58.030 52.381 11.44 0.00 0.00 4.20
3911 8595 1.346068 GCTCCATGGACATCTACTCCC 59.654 57.143 11.44 0.00 0.00 4.30
3912 8596 1.346068 GGCTCCATGGACATCTACTCC 59.654 57.143 11.44 0.00 0.00 3.85
3913 8597 1.000283 CGGCTCCATGGACATCTACTC 60.000 57.143 11.44 0.00 0.00 2.59
3914 8598 1.043816 CGGCTCCATGGACATCTACT 58.956 55.000 11.44 0.00 0.00 2.57
3915 8599 1.040646 TCGGCTCCATGGACATCTAC 58.959 55.000 11.44 0.00 0.00 2.59
3916 8600 1.040646 GTCGGCTCCATGGACATCTA 58.959 55.000 11.44 0.00 0.00 1.98
3917 8601 1.826024 GTCGGCTCCATGGACATCT 59.174 57.895 11.44 0.00 0.00 2.90
3918 8602 1.592669 CGTCGGCTCCATGGACATC 60.593 63.158 11.44 2.73 0.00 3.06
3919 8603 2.501128 CGTCGGCTCCATGGACAT 59.499 61.111 11.44 0.00 0.00 3.06
3920 8604 4.451150 GCGTCGGCTCCATGGACA 62.451 66.667 11.44 0.00 35.83 4.02
3945 8629 1.547820 TGTGCTTTGTTCCTTGTTGCA 59.452 42.857 0.00 0.00 0.00 4.08
3946 8630 1.926510 GTGTGCTTTGTTCCTTGTTGC 59.073 47.619 0.00 0.00 0.00 4.17
3948 8632 2.088423 TCGTGTGCTTTGTTCCTTGTT 58.912 42.857 0.00 0.00 0.00 2.83
3956 8652 0.463654 TCTGCCTTCGTGTGCTTTGT 60.464 50.000 0.00 0.00 0.00 2.83
4031 8739 5.390251 GGCGTCTTTTAGTAAAACCAGCTAC 60.390 44.000 16.80 5.72 0.00 3.58
4044 8752 1.743995 CACCGGGGGCGTCTTTTAG 60.744 63.158 6.32 0.00 0.00 1.85
4045 8753 2.348243 CACCGGGGGCGTCTTTTA 59.652 61.111 6.32 0.00 0.00 1.52
4072 8780 4.154347 CGCTGACCCAGAGCTCCC 62.154 72.222 10.93 0.00 34.03 4.30


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

AutoCloner maintained by Alex Coulton.