Multiple sequence alignment - TraesCS4B01G203300

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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 TraesCS4B01G203300 chr4B 100.000 8198 0 0 1 8198 434598913 434590716 0.000000e+00 15139
1 TraesCS4B01G203300 chr4B 90.278 720 58 8 1 711 364932502 364931786 0.000000e+00 931
2 TraesCS4B01G203300 chr4B 95.722 561 22 2 7638 8198 377688762 377689320 0.000000e+00 902
3 TraesCS4B01G203300 chr4A 95.169 5465 218 28 2134 7577 113602281 113607720 0.000000e+00 8588
4 TraesCS4B01G203300 chr4A 93.795 983 38 6 709 1669 113600691 113601672 0.000000e+00 1456
5 TraesCS4B01G203300 chr4A 97.033 337 9 1 1814 2150 113601929 113602264 4.290000e-157 566
6 TraesCS4B01G203300 chr4A 83.821 513 61 15 7707 8198 657891858 657891347 1.250000e-127 468
7 TraesCS4B01G203300 chr4D 94.150 3299 164 16 4305 7587 351664752 351661467 0.000000e+00 4996
8 TraesCS4B01G203300 chr4D 96.527 2534 62 5 852 3383 351667265 351664756 0.000000e+00 4169
9 TraesCS4B01G203300 chr4D 88.820 161 8 8 709 860 351668708 351668549 1.090000e-43 189
10 TraesCS4B01G203300 chr1B 91.632 717 48 9 1 708 605259456 605260169 0.000000e+00 981
11 TraesCS4B01G203300 chr1B 90.947 718 47 13 3 708 39230846 39231557 0.000000e+00 950
12 TraesCS4B01G203300 chr7B 90.871 723 52 11 1 711 130582871 130582151 0.000000e+00 957
13 TraesCS4B01G203300 chr7B 89.790 715 53 6 1 708 524877774 524878475 0.000000e+00 898
14 TraesCS4B01G203300 chr3B 90.960 719 45 15 1 708 62021610 62022319 0.000000e+00 950
15 TraesCS4B01G203300 chr3B 89.261 717 49 12 1 708 778711013 778711710 0.000000e+00 872
16 TraesCS4B01G203300 chr3B 88.482 191 20 2 1 190 734596603 734596414 6.400000e-56 230
17 TraesCS4B01G203300 chr6B 89.833 718 47 18 1 709 68520314 68521014 0.000000e+00 898
18 TraesCS4B01G203300 chr2B 87.258 722 69 14 1 713 98429371 98428664 0.000000e+00 802
19 TraesCS4B01G203300 chr7D 81.870 524 60 12 7707 8198 45571872 45571352 7.660000e-110 409


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 TraesCS4B01G203300 chr4B 434590716 434598913 8197 True 15139.000000 15139 100.000000 1 8198 1 chr4B.!!$R2 8197
1 TraesCS4B01G203300 chr4B 364931786 364932502 716 True 931.000000 931 90.278000 1 711 1 chr4B.!!$R1 710
2 TraesCS4B01G203300 chr4B 377688762 377689320 558 False 902.000000 902 95.722000 7638 8198 1 chr4B.!!$F1 560
3 TraesCS4B01G203300 chr4A 113600691 113607720 7029 False 3536.666667 8588 95.332333 709 7577 3 chr4A.!!$F1 6868
4 TraesCS4B01G203300 chr4A 657891347 657891858 511 True 468.000000 468 83.821000 7707 8198 1 chr4A.!!$R1 491
5 TraesCS4B01G203300 chr4D 351661467 351668708 7241 True 3118.000000 4996 93.165667 709 7587 3 chr4D.!!$R1 6878
6 TraesCS4B01G203300 chr1B 605259456 605260169 713 False 981.000000 981 91.632000 1 708 1 chr1B.!!$F2 707
7 TraesCS4B01G203300 chr1B 39230846 39231557 711 False 950.000000 950 90.947000 3 708 1 chr1B.!!$F1 705
8 TraesCS4B01G203300 chr7B 130582151 130582871 720 True 957.000000 957 90.871000 1 711 1 chr7B.!!$R1 710
9 TraesCS4B01G203300 chr7B 524877774 524878475 701 False 898.000000 898 89.790000 1 708 1 chr7B.!!$F1 707
10 TraesCS4B01G203300 chr3B 62021610 62022319 709 False 950.000000 950 90.960000 1 708 1 chr3B.!!$F1 707
11 TraesCS4B01G203300 chr3B 778711013 778711710 697 False 872.000000 872 89.261000 1 708 1 chr3B.!!$F2 707
12 TraesCS4B01G203300 chr6B 68520314 68521014 700 False 898.000000 898 89.833000 1 709 1 chr6B.!!$F1 708
13 TraesCS4B01G203300 chr2B 98428664 98429371 707 True 802.000000 802 87.258000 1 713 1 chr2B.!!$R1 712
14 TraesCS4B01G203300 chr7D 45571352 45571872 520 True 409.000000 409 81.870000 7707 8198 1 chr7D.!!$R1 491

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
814 869 1.465188 TCCCCCATTCACACCCACT 60.465 57.895 0.00 0.0 0.00 4.00 F
1316 2686 0.981183 TGGCGTAGTCAGTGGGAATT 59.019 50.000 0.00 0.0 36.97 2.17 F
1812 3365 1.188863 GATGATTTGGCCCTGTTGCT 58.811 50.000 0.00 0.0 0.00 3.91 F
3384 4974 0.250513 GGGACAGTAAGCTCACCAGG 59.749 60.000 0.00 0.0 0.00 4.45 F
4079 5670 0.396435 TCTGGCAGGAGCTCGAAAAA 59.604 50.000 15.73 0.0 41.70 1.94 F
4591 6190 0.039708 GCTGCTTTCTTGCACTGACC 60.040 55.000 0.00 0.0 38.12 4.02 F
4602 6201 0.389426 GCACTGACCGTCGTTGGTAT 60.389 55.000 1.35 0.0 44.01 2.73 F
4736 6335 1.459592 GTTGTTGGGTCGATTCGTGAG 59.540 52.381 5.89 0.0 0.00 3.51 F
6575 8178 1.901591 AACACAATCAGGGCACAGAG 58.098 50.000 0.00 0.0 0.00 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1963 3516 2.235402 CTGCTGAGATTTTGGGCCAAAT 59.765 45.455 30.82 20.42 33.19 2.32 R
3006 4595 4.095782 TGTCACTTTACCAAGAACAAGTGC 59.904 41.667 6.10 3.26 43.88 4.40 R
3739 5329 2.684881 CCTTGCGGCTTTTACATCTGAT 59.315 45.455 0.00 0.00 0.00 2.90 R
4257 5848 0.881118 TTGCCAGTTTCAATCCTCGC 59.119 50.000 0.00 0.00 0.00 5.03 R
4886 6485 3.072330 TCAAATGGTTAGCTGACTGGACA 59.928 43.478 8.70 0.00 0.00 4.02 R
6202 7804 1.538950 GTCACGGTAGGTCGAGTTTCT 59.461 52.381 0.00 0.00 0.00 2.52 R
6203 7805 1.727213 CGTCACGGTAGGTCGAGTTTC 60.727 57.143 0.00 0.00 0.00 2.78 R
6666 8271 3.746492 AGCATCCGTACAACTTGTTTCTC 59.254 43.478 0.00 0.00 0.00 2.87 R
7594 9204 0.103390 TGAAGACCACGTTCGAGCAA 59.897 50.000 0.00 0.00 0.00 3.91 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
154 162 9.835389 ATCTTGAGAACAAATTTTGAAATGGAA 57.165 25.926 15.81 1.41 35.49 3.53
160 168 9.838975 AGAACAAATTTTGAAATGGAAAACAAC 57.161 25.926 15.81 0.00 0.00 3.32
165 173 9.636879 AAATTTTGAAATGGAAAACAACTTTGG 57.363 25.926 0.00 0.00 0.00 3.28
195 203 2.723124 ACAAATTTGGAAGCGCGAAT 57.277 40.000 21.74 0.00 0.00 3.34
204 212 4.481930 TGGAAGCGCGAATATTTTATGG 57.518 40.909 12.10 0.00 0.00 2.74
208 216 5.974751 GGAAGCGCGAATATTTTATGGAAAA 59.025 36.000 12.10 0.00 38.87 2.29
422 444 8.669946 ACCAAAGAAAGAAAACAAACAGAAAA 57.330 26.923 0.00 0.00 0.00 2.29
611 666 2.671396 CAGATTTGGGCGTACTGTGTAC 59.329 50.000 0.00 0.00 0.00 2.90
612 667 2.565834 AGATTTGGGCGTACTGTGTACT 59.434 45.455 6.35 0.00 0.00 2.73
738 793 5.833406 TTGCAAGAAGAAAGTGACATCAA 57.167 34.783 0.00 0.00 0.00 2.57
784 839 1.964373 CACGCGTTTAAGGCCCACT 60.964 57.895 10.22 0.00 0.00 4.00
810 865 2.043953 GCCTCCCCCATTCACACC 60.044 66.667 0.00 0.00 0.00 4.16
811 866 2.683475 CCTCCCCCATTCACACCC 59.317 66.667 0.00 0.00 0.00 4.61
812 867 2.237965 CCTCCCCCATTCACACCCA 61.238 63.158 0.00 0.00 0.00 4.51
814 869 1.465188 TCCCCCATTCACACCCACT 60.465 57.895 0.00 0.00 0.00 4.00
911 2281 2.472909 GCCCTTCTCCCAAATCGCG 61.473 63.158 0.00 0.00 0.00 5.87
957 2327 3.358932 ATTTCGCCCCAATCCGCCT 62.359 57.895 0.00 0.00 0.00 5.52
961 2331 4.440829 GCCCCAATCCGCCTCCAA 62.441 66.667 0.00 0.00 0.00 3.53
1167 2537 3.055719 AACGGCGGCAATGACAGG 61.056 61.111 13.24 0.00 0.00 4.00
1316 2686 0.981183 TGGCGTAGTCAGTGGGAATT 59.019 50.000 0.00 0.00 36.97 2.17
1337 2707 9.336171 GGAATTCTAGCTTTTATCTCTGATTGT 57.664 33.333 5.23 0.00 0.00 2.71
1366 2736 4.973663 GTGTAGTGACAACGGAAATTTTGG 59.026 41.667 0.00 0.00 37.31 3.28
1428 2798 2.072298 GAGTCAGTTGCACATCTCCAC 58.928 52.381 0.00 0.00 0.00 4.02
1664 3034 9.006215 GGATTTTAAATAGTTTTCGTCATTCGG 57.994 33.333 0.00 0.00 40.32 4.30
1670 3040 7.837202 AATAGTTTTCGTCATTCGGTTATCA 57.163 32.000 0.00 0.00 40.32 2.15
1812 3365 1.188863 GATGATTTGGCCCTGTTGCT 58.811 50.000 0.00 0.00 0.00 3.91
2257 3842 5.119898 GTGCGCCATATTTTTGACATTTTGA 59.880 36.000 4.18 0.00 0.00 2.69
2688 4273 6.069440 ACAGGGAATCAGGAACTCATGAAATA 60.069 38.462 0.00 0.00 40.22 1.40
2761 4349 3.751698 CAGGTGCAAAAGAGGTACTTACC 59.248 47.826 0.00 0.00 46.82 2.85
2928 4516 7.538678 CCATTTGAATAGTTGTTTCGAAGAAGG 59.461 37.037 0.00 0.00 45.90 3.46
3051 4640 6.988329 ACAACGAATGTTTTGATGTGTTTTC 58.012 32.000 0.00 0.00 40.06 2.29
3384 4974 0.250513 GGGACAGTAAGCTCACCAGG 59.749 60.000 0.00 0.00 0.00 4.45
3549 5139 9.384764 GTGCTAGTTTCCTACTTCTATTCATTT 57.615 33.333 0.00 0.00 38.33 2.32
3619 5209 6.139048 TGCTGTAGGTAAACCAAAAAGTTC 57.861 37.500 1.26 0.00 38.89 3.01
3628 5218 5.966636 AAACCAAAAAGTTCGCAAATCTC 57.033 34.783 0.00 0.00 0.00 2.75
3629 5219 3.977427 ACCAAAAAGTTCGCAAATCTCC 58.023 40.909 0.00 0.00 0.00 3.71
3652 5242 8.128322 TCCTATGCTTAAGGATCTCTATCAAC 57.872 38.462 13.28 0.00 38.24 3.18
3729 5319 7.013750 TCCTCGCATTATCATATAGGATCTCAC 59.986 40.741 2.57 0.00 0.00 3.51
3787 5377 8.496534 AAAAGAATGGAATTTATATCCCCCAG 57.503 34.615 0.00 0.00 36.07 4.45
3798 5388 2.968286 TCCCCCAGGAAAGGTTTGA 58.032 52.632 0.00 0.00 40.08 2.69
3828 5418 6.181190 AGGAGGCAGAGAAAAAGGTATAAAC 58.819 40.000 0.00 0.00 0.00 2.01
3884 5475 4.574013 GGAACCTCTGTGCAAGATATTGAG 59.426 45.833 3.77 0.00 33.29 3.02
3897 5488 8.755028 TGCAAGATATTGAGTGTTACCTTAGTA 58.245 33.333 3.77 0.00 0.00 1.82
4042 5633 8.642908 TCAGTATATAGTTCACGGTTGAATTG 57.357 34.615 0.00 0.00 43.72 2.32
4055 5646 5.212194 CGGTTGAATTGACTTGTACCTTTG 58.788 41.667 0.00 0.00 0.00 2.77
4057 5648 5.068591 GGTTGAATTGACTTGTACCTTTGGT 59.931 40.000 0.00 0.00 40.16 3.67
4079 5670 0.396435 TCTGGCAGGAGCTCGAAAAA 59.604 50.000 15.73 0.00 41.70 1.94
4095 5686 7.225931 AGCTCGAAAAATACAGAAGTTTGTACA 59.774 33.333 0.00 0.00 36.45 2.90
4099 5690 9.262472 CGAAAAATACAGAAGTTTGTACATAGC 57.738 33.333 0.00 0.00 36.45 2.97
4199 5790 6.053650 AGTACGCAAAACCTTCTAGTTCTTT 58.946 36.000 0.00 0.00 0.00 2.52
4233 5824 6.946229 TCTACTTAGAACGCAAAAGCTTAG 57.054 37.500 0.00 0.00 0.00 2.18
4258 5849 9.883142 AGCATCTAAGTATCTTCATATTTAGGC 57.117 33.333 5.10 0.00 36.28 3.93
4272 5863 6.483307 TCATATTTAGGCGAGGATTGAAACTG 59.517 38.462 0.00 0.00 0.00 3.16
4368 5959 7.779326 TCATAATCTCAAATTTACTCCATGCCA 59.221 33.333 0.00 0.00 0.00 4.92
4491 6082 1.392589 CAAAGGTTCTGTGTGGCACT 58.607 50.000 19.83 0.00 35.11 4.40
4497 6088 0.176910 TTCTGTGTGGCACTGTCGAA 59.823 50.000 19.83 12.58 35.37 3.71
4519 6110 4.005487 ACTGCATCTGGAGATATTGCTC 57.995 45.455 5.66 0.00 36.93 4.26
4591 6190 0.039708 GCTGCTTTCTTGCACTGACC 60.040 55.000 0.00 0.00 38.12 4.02
4602 6201 0.389426 GCACTGACCGTCGTTGGTAT 60.389 55.000 1.35 0.00 44.01 2.73
4683 6282 6.567687 TGCTATTCAATTTTCGGTCTCAAA 57.432 33.333 0.00 0.00 0.00 2.69
4685 6284 7.250569 TGCTATTCAATTTTCGGTCTCAAATC 58.749 34.615 0.00 0.00 0.00 2.17
4731 6330 2.218603 ACACAGTTGTTGGGTCGATTC 58.781 47.619 0.00 0.00 40.09 2.52
4736 6335 1.459592 GTTGTTGGGTCGATTCGTGAG 59.540 52.381 5.89 0.00 0.00 3.51
4749 6348 2.177394 TCGTGAGCAGCACCAATTTA 57.823 45.000 0.00 0.00 44.85 1.40
4809 6408 8.998277 TTCAGCTAAATCTGAGGTACTACTAT 57.002 34.615 0.00 0.00 43.23 2.12
5127 6726 7.121463 TCAAAGTAGTGAGCCACTTTACAAAAA 59.879 33.333 12.22 0.00 42.59 1.94
5128 6727 6.373186 AGTAGTGAGCCACTTTACAAAAAC 57.627 37.500 12.22 3.69 42.59 2.43
5179 6778 6.544928 TTATAGCAGTGATGGTTTCAGAGA 57.455 37.500 0.00 0.00 34.17 3.10
5686 7285 3.230134 CCAGGAAAAGGACAATGGTCAA 58.770 45.455 1.86 0.00 46.17 3.18
5789 7391 7.830697 TCAGAATATGTTGGACAACTGAATGAT 59.169 33.333 15.37 3.36 41.67 2.45
6122 7724 7.554118 CCATTCTGTTTCTTACTGGTCACATAT 59.446 37.037 0.00 0.00 0.00 1.78
6160 7762 8.715191 AGAACATCTAAATAAGAGCTCAGTTG 57.285 34.615 17.77 10.67 37.74 3.16
6236 7838 2.224113 ACCGTGACGAACCTTGTAATGT 60.224 45.455 6.54 0.00 0.00 2.71
6281 7883 3.442625 TGAATTTCTTGCATGCAGAGAGG 59.557 43.478 21.50 9.94 0.00 3.69
6346 7948 3.421919 TCTTCACACAATGATGCAGGA 57.578 42.857 0.00 0.00 37.11 3.86
6377 7979 7.933396 TGCCATTACATCTGATATTTTGACTG 58.067 34.615 0.00 0.00 0.00 3.51
6494 8097 6.611613 TCTCACTTACTGGATCATGAAACT 57.388 37.500 0.00 0.00 0.00 2.66
6498 8101 8.134202 TCACTTACTGGATCATGAAACTAGAA 57.866 34.615 18.23 10.17 0.00 2.10
6530 8133 2.938838 ACTCTATCCACCTCCTTCTCG 58.061 52.381 0.00 0.00 0.00 4.04
6575 8178 1.901591 AACACAATCAGGGCACAGAG 58.098 50.000 0.00 0.00 0.00 3.35
6591 8194 6.127140 GGGCACAGAGTCTATAAGAACCTTTA 60.127 42.308 0.00 0.00 0.00 1.85
6637 8240 7.761704 AGATTACTCGGTAAGCTATATGCATTG 59.238 37.037 3.54 0.00 41.92 2.82
6687 8292 3.496884 TGAGAAACAAGTTGTACGGATGC 59.503 43.478 9.37 0.00 0.00 3.91
6688 8293 3.740115 AGAAACAAGTTGTACGGATGCT 58.260 40.909 9.37 0.00 0.00 3.79
6689 8294 3.498397 AGAAACAAGTTGTACGGATGCTG 59.502 43.478 9.37 0.00 0.00 4.41
6695 8300 3.332034 AGTTGTACGGATGCTGTAAACC 58.668 45.455 0.00 0.00 0.00 3.27
6746 8351 7.524717 ACACAAAATAGCTATTTGTTGGTCT 57.475 32.000 27.99 11.16 45.97 3.85
6768 8373 4.899352 AGTTCAGCTAAACAGATGGACT 57.101 40.909 1.78 0.00 39.02 3.85
6818 8423 6.826231 TGTTGAAAGAACTACATTCCTGACAA 59.174 34.615 0.00 0.00 38.16 3.18
6837 8442 6.264832 TGACAAAACTAGCAACTGAACAATG 58.735 36.000 0.00 0.00 0.00 2.82
6842 8447 3.753272 ACTAGCAACTGAACAATGCGAAT 59.247 39.130 0.00 0.00 44.60 3.34
6875 8480 2.147958 TGGACATGTTAACACTTCCGC 58.852 47.619 23.19 9.02 34.43 5.54
6876 8481 2.147958 GGACATGTTAACACTTCCGCA 58.852 47.619 11.22 0.00 0.00 5.69
6877 8482 2.747446 GGACATGTTAACACTTCCGCAT 59.253 45.455 11.22 0.00 0.00 4.73
6881 8487 5.242434 ACATGTTAACACTTCCGCATAAGA 58.758 37.500 11.22 0.00 0.00 2.10
6947 8553 7.395772 TCAATGCAAACCACCTTTCTATCATTA 59.604 33.333 0.00 0.00 0.00 1.90
6972 8578 8.365399 ACTATATCACGTGACATATTTGGTTG 57.635 34.615 22.71 7.86 0.00 3.77
7019 8625 1.374125 CAGTTCGTCATCGCCCACA 60.374 57.895 0.00 0.00 36.96 4.17
7035 8641 3.077556 CAGGAGCTACTGGCCGGT 61.078 66.667 23.52 23.52 43.05 5.28
7059 8665 7.355017 GTGCATATAGCTTCGAATCAATTGAA 58.645 34.615 13.09 0.00 45.94 2.69
7075 8681 4.708726 ATTGAAGAATTGAAAGCCTCGG 57.291 40.909 0.00 0.00 0.00 4.63
7142 8748 5.197451 TGAAGTGGACAAAGGAAAAAGCTA 58.803 37.500 0.00 0.00 0.00 3.32
7149 8755 4.652822 ACAAAGGAAAAAGCTACTCGGAT 58.347 39.130 0.00 0.00 0.00 4.18
7237 8843 3.499918 AGCAAAAACTGTGAGATTCTCCG 59.500 43.478 11.12 2.75 0.00 4.63
7279 8885 0.034477 CCCTTGCCCGTTTATCACCT 60.034 55.000 0.00 0.00 0.00 4.00
7288 8894 4.674362 GCCCGTTTATCACCTTGTTGATTC 60.674 45.833 0.00 0.00 37.42 2.52
7294 8900 1.872952 TCACCTTGTTGATTCAGCGTG 59.127 47.619 0.00 0.00 0.00 5.34
7305 8911 1.753930 TTCAGCGTGTATCCGGAGTA 58.246 50.000 11.34 0.00 0.00 2.59
7306 8912 1.306148 TCAGCGTGTATCCGGAGTAG 58.694 55.000 11.34 0.23 0.00 2.57
7359 8969 2.715763 AGGGTAGTGAAGACCAGGAA 57.284 50.000 0.00 0.00 38.86 3.36
7373 8983 3.515901 GACCAGGAATGTAGAGGACAAGT 59.484 47.826 0.00 0.00 42.78 3.16
7385 8995 7.660112 TGTAGAGGACAAGTGTTTCGTAATAA 58.340 34.615 0.00 0.00 34.15 1.40
7386 8996 8.308931 TGTAGAGGACAAGTGTTTCGTAATAAT 58.691 33.333 0.00 0.00 34.15 1.28
7387 8997 9.793252 GTAGAGGACAAGTGTTTCGTAATAATA 57.207 33.333 0.00 0.00 0.00 0.98
7389 8999 9.530633 AGAGGACAAGTGTTTCGTAATAATATC 57.469 33.333 0.00 0.00 0.00 1.63
7390 9000 9.530633 GAGGACAAGTGTTTCGTAATAATATCT 57.469 33.333 0.00 0.00 0.00 1.98
7411 9021 6.697641 TCTAAAGGTTCTACTCCAACCATT 57.302 37.500 4.48 1.39 45.20 3.16
7426 9036 4.687483 CCAACCATTGATCTTGTTGCTTTC 59.313 41.667 0.00 0.00 37.38 2.62
7438 9048 2.036217 TGTTGCTTTCCATGCTTTCTGG 59.964 45.455 0.00 0.00 34.93 3.86
7442 9052 2.297033 GCTTTCCATGCTTTCTGGTCAA 59.703 45.455 0.00 0.00 35.19 3.18
7551 9161 6.966021 TGATGCAAACTTAGTTGAGTTTACC 58.034 36.000 0.00 0.00 45.44 2.85
7604 9214 6.911484 ATTTTAATTGAGTTTGCTCGAACG 57.089 33.333 0.00 0.00 44.48 3.95
7605 9215 5.412526 TTTAATTGAGTTTGCTCGAACGT 57.587 34.783 0.00 0.00 44.48 3.99
7606 9216 2.949714 ATTGAGTTTGCTCGAACGTG 57.050 45.000 0.00 0.00 44.48 4.49
7607 9217 0.934496 TTGAGTTTGCTCGAACGTGG 59.066 50.000 0.00 0.00 44.48 4.94
7608 9218 0.179094 TGAGTTTGCTCGAACGTGGT 60.179 50.000 0.00 0.00 44.48 4.16
7609 9219 0.507358 GAGTTTGCTCGAACGTGGTC 59.493 55.000 0.00 0.00 34.74 4.02
7610 9220 0.104304 AGTTTGCTCGAACGTGGTCT 59.896 50.000 0.00 0.00 34.74 3.85
7611 9221 0.935196 GTTTGCTCGAACGTGGTCTT 59.065 50.000 0.00 0.00 0.00 3.01
7612 9222 1.070776 GTTTGCTCGAACGTGGTCTTC 60.071 52.381 0.00 0.00 0.00 2.87
7613 9223 0.103390 TTGCTCGAACGTGGTCTTCA 59.897 50.000 0.00 0.00 0.00 3.02
7614 9224 0.318699 TGCTCGAACGTGGTCTTCAG 60.319 55.000 0.00 0.00 0.00 3.02
7615 9225 1.618640 GCTCGAACGTGGTCTTCAGC 61.619 60.000 0.00 0.00 0.00 4.26
7616 9226 1.337817 CTCGAACGTGGTCTTCAGCG 61.338 60.000 0.00 0.00 0.00 5.18
7617 9227 1.371267 CGAACGTGGTCTTCAGCGA 60.371 57.895 0.00 0.00 0.00 4.93
7618 9228 0.937699 CGAACGTGGTCTTCAGCGAA 60.938 55.000 0.00 0.00 0.00 4.70
7619 9229 1.214367 GAACGTGGTCTTCAGCGAAA 58.786 50.000 0.00 0.00 0.00 3.46
7620 9230 1.595794 GAACGTGGTCTTCAGCGAAAA 59.404 47.619 0.00 0.00 0.00 2.29
7621 9231 1.878953 ACGTGGTCTTCAGCGAAAAT 58.121 45.000 0.00 0.00 0.00 1.82
7622 9232 3.034721 ACGTGGTCTTCAGCGAAAATA 57.965 42.857 0.00 0.00 0.00 1.40
7623 9233 3.596214 ACGTGGTCTTCAGCGAAAATAT 58.404 40.909 0.00 0.00 0.00 1.28
7624 9234 4.000988 ACGTGGTCTTCAGCGAAAATATT 58.999 39.130 0.00 0.00 0.00 1.28
7625 9235 4.142902 ACGTGGTCTTCAGCGAAAATATTG 60.143 41.667 0.00 0.00 0.00 1.90
7626 9236 4.098416 GTGGTCTTCAGCGAAAATATTGC 58.902 43.478 0.00 0.00 0.00 3.56
7627 9237 3.181511 TGGTCTTCAGCGAAAATATTGCG 60.182 43.478 6.61 6.61 0.00 4.85
7628 9238 3.181510 GGTCTTCAGCGAAAATATTGCGT 60.182 43.478 11.22 0.00 0.00 5.24
7629 9239 4.033587 GGTCTTCAGCGAAAATATTGCGTA 59.966 41.667 11.22 0.00 0.00 4.42
7630 9240 5.191059 GTCTTCAGCGAAAATATTGCGTAG 58.809 41.667 11.22 5.95 0.00 3.51
7631 9241 5.005394 GTCTTCAGCGAAAATATTGCGTAGA 59.995 40.000 11.22 7.64 0.00 2.59
7632 9242 5.232202 TCTTCAGCGAAAATATTGCGTAGAG 59.768 40.000 11.22 6.31 0.00 2.43
7678 9288 3.776969 TCCATTTGACTAGGTCAGCTCAT 59.223 43.478 0.00 0.00 43.69 2.90
7705 9315 3.988379 TTATTCGCATCTGATTTGGCC 57.012 42.857 0.00 0.00 0.00 5.36
7730 9341 3.154710 ACGACCTCACATGAGTTCTACA 58.845 45.455 0.00 0.00 40.48 2.74
7901 9513 8.333186 GTTCTACTGAATAACGTGAAAAACAGT 58.667 33.333 14.23 14.23 39.90 3.55
7917 9529 5.675684 AAACAGTTCCAACCAATTTCACT 57.324 34.783 0.00 0.00 0.00 3.41
7976 9607 4.851639 ACCAAGTTCTTGCCTATCTGAT 57.148 40.909 7.00 0.00 0.00 2.90
7984 9615 5.095145 TCTTGCCTATCTGATGGATATGC 57.905 43.478 2.20 0.00 43.83 3.14
7997 9632 9.337396 TCTGATGGATATGCGTTTAAAAATAGT 57.663 29.630 0.00 0.00 0.00 2.12
8037 9672 9.243637 GCACTTCTGTATCAACATTTGTTTTAA 57.756 29.630 0.00 0.00 35.83 1.52
8069 9704 9.941664 GATACATGTCTATCCAAAATGTTGAAG 57.058 33.333 0.00 0.00 36.83 3.02
8110 9751 5.938125 AGTTAGCACAAGTAATTGTCGGATT 59.062 36.000 5.41 0.00 31.86 3.01
8132 9773 2.187599 GAGCGCAACCACACATGACC 62.188 60.000 11.47 0.00 0.00 4.02
8153 9794 3.800506 CCCGAACCAACAGATAATACGTC 59.199 47.826 0.00 0.00 0.00 4.34
8154 9795 4.426416 CCGAACCAACAGATAATACGTCA 58.574 43.478 0.00 0.00 0.00 4.35
8155 9796 5.047847 CCGAACCAACAGATAATACGTCAT 58.952 41.667 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 71 7.439655 CACTTCCAAATTTGTTCGGGATTTTTA 59.560 33.333 16.73 0.00 0.00 1.52
204 212 7.518211 CGGATTTCAATTGTTTGTTCCCTTTTC 60.518 37.037 5.13 0.00 34.32 2.29
208 216 4.262420 CCGGATTTCAATTGTTTGTTCCCT 60.262 41.667 5.13 0.00 34.32 4.20
218 226 5.516339 GCAGAAATGTACCGGATTTCAATTG 59.484 40.000 22.26 15.37 40.74 2.32
275 283 9.950680 GAAGTTCTCAAGATTCAAACATTGTTA 57.049 29.630 1.76 0.00 0.00 2.41
784 839 0.404796 ATGGGGGAGGCATTGGGATA 60.405 55.000 0.00 0.00 0.00 2.59
810 865 4.715130 TCGGGGAGTGGGGAGTGG 62.715 72.222 0.00 0.00 0.00 4.00
811 866 3.077556 CTCGGGGAGTGGGGAGTG 61.078 72.222 0.00 0.00 0.00 3.51
812 867 3.273654 TCTCGGGGAGTGGGGAGT 61.274 66.667 0.00 0.00 0.00 3.85
814 869 4.393778 GGTCTCGGGGAGTGGGGA 62.394 72.222 0.00 0.00 0.00 4.81
911 2281 1.468914 GTTTCTGTTGGATTCGGCTCC 59.531 52.381 0.00 0.00 35.74 4.70
923 2293 1.265905 GAAATCCGCGTGGTTTCTGTT 59.734 47.619 23.87 7.75 34.83 3.16
924 2294 0.872388 GAAATCCGCGTGGTTTCTGT 59.128 50.000 23.87 8.03 34.83 3.41
957 2327 1.302949 CCCGGAGCTTGGATTTGGA 59.697 57.895 0.73 0.00 0.00 3.53
961 2331 2.998949 GACCCCGGAGCTTGGATT 59.001 61.111 0.73 0.00 0.00 3.01
999 2369 2.110213 TTCGGGGTATGCGCCATC 59.890 61.111 16.93 0.00 46.90 3.51
1230 2600 2.917343 GCTTACAAAGATTTTGCTCGGC 59.083 45.455 1.68 0.00 0.00 5.54
1316 2686 8.535335 AGTTGACAATCAGAGATAAAAGCTAGA 58.465 33.333 0.00 0.00 0.00 2.43
1337 2707 2.427812 TCCGTTGTCACTACACAGTTGA 59.572 45.455 0.00 0.00 34.61 3.18
1366 2736 2.030958 GCACCAGCAGCAATTTGCC 61.031 57.895 17.51 3.74 46.52 4.52
1415 2785 0.602638 GACACCGTGGAGATGTGCAA 60.603 55.000 3.03 0.00 0.00 4.08
1428 2798 5.347635 TCATAAAAACGAATCAGAGACACCG 59.652 40.000 0.00 0.00 0.00 4.94
1601 2971 4.080356 AGCAAGCACAGGGATCAATAGTAA 60.080 41.667 0.00 0.00 0.00 2.24
1602 2972 3.455910 AGCAAGCACAGGGATCAATAGTA 59.544 43.478 0.00 0.00 0.00 1.82
1653 3023 7.837202 AAATTAGTGATAACCGAATGACGAA 57.163 32.000 0.00 0.00 45.77 3.85
1786 3339 2.498481 CAGGGCCAAATCATCAACACAT 59.502 45.455 6.18 0.00 0.00 3.21
1963 3516 2.235402 CTGCTGAGATTTTGGGCCAAAT 59.765 45.455 30.82 20.42 33.19 2.32
2928 4516 6.403309 GCCTACAACATACCTAACTGAAAAGC 60.403 42.308 0.00 0.00 0.00 3.51
3005 4594 4.335594 GTCACTTTACCAAGAACAAGTGCT 59.664 41.667 6.10 0.00 43.88 4.40
3006 4595 4.095782 TGTCACTTTACCAAGAACAAGTGC 59.904 41.667 6.10 3.26 43.88 4.40
3008 4597 5.163794 CGTTGTCACTTTACCAAGAACAAGT 60.164 40.000 7.47 0.00 38.60 3.16
3010 4599 4.936411 TCGTTGTCACTTTACCAAGAACAA 59.064 37.500 0.00 0.00 37.12 2.83
3384 4974 4.200092 CACCTAAGGATTCCCTAAGCAAC 58.800 47.826 0.00 0.00 43.48 4.17
3549 5139 3.407698 TCAACTAAATCGGAGCAGCAAA 58.592 40.909 0.00 0.00 0.00 3.68
3553 5143 5.788450 AGGATATCAACTAAATCGGAGCAG 58.212 41.667 4.83 0.00 0.00 4.24
3586 5176 8.326680 TGGTTTACCTACAGCAATAGTTAAAC 57.673 34.615 14.14 14.14 38.41 2.01
3589 5179 8.921353 TTTTGGTTTACCTACAGCAATAGTTA 57.079 30.769 0.00 0.00 36.82 2.24
3594 5184 6.724893 ACTTTTTGGTTTACCTACAGCAAT 57.275 33.333 0.00 0.00 36.82 3.56
3619 5209 4.380531 TCCTTAAGCATAGGAGATTTGCG 58.619 43.478 0.00 0.00 41.22 4.85
3628 5218 7.901029 TGTTGATAGAGATCCTTAAGCATAGG 58.099 38.462 0.00 0.00 0.00 2.57
3629 5219 9.770097 TTTGTTGATAGAGATCCTTAAGCATAG 57.230 33.333 0.00 0.00 0.00 2.23
3739 5329 2.684881 CCTTGCGGCTTTTACATCTGAT 59.315 45.455 0.00 0.00 0.00 2.90
3754 5344 3.874392 ATTCCATTCTTTTCCCTTGCG 57.126 42.857 0.00 0.00 0.00 4.85
3787 5377 4.013050 CCTCCTCAAGATCAAACCTTTCC 58.987 47.826 0.00 0.00 0.00 3.13
3798 5388 4.567327 CCTTTTTCTCTGCCTCCTCAAGAT 60.567 45.833 0.00 0.00 0.00 2.40
3828 5418 9.713740 GCATATTTAGAACAATCTGAAGTCTTG 57.286 33.333 0.00 0.00 34.98 3.02
3860 5451 4.019411 TCAATATCTTGCACAGAGGTTCCA 60.019 41.667 0.00 0.00 33.87 3.53
3908 5499 3.998913 TCCCTCATTGTCTGCAACATA 57.001 42.857 3.15 0.00 37.82 2.29
3919 5510 3.230134 TGTTCCACCTTTTCCCTCATTG 58.770 45.455 0.00 0.00 0.00 2.82
4032 5623 5.212194 CAAAGGTACAAGTCAATTCAACCG 58.788 41.667 0.00 0.00 30.90 4.44
4042 5633 3.139077 CAGACCACCAAAGGTACAAGTC 58.861 50.000 0.00 0.00 43.38 3.01
4055 5646 3.322318 GAGCTCCTGCCAGACCACC 62.322 68.421 0.87 0.00 40.80 4.61
4057 5648 3.385384 CGAGCTCCTGCCAGACCA 61.385 66.667 8.47 0.00 40.80 4.02
4079 5670 6.758886 GCTCTGCTATGTACAAACTTCTGTAT 59.241 38.462 0.00 0.00 34.41 2.29
4095 5686 0.464870 CTGTGCTCCTGCTCTGCTAT 59.535 55.000 0.00 0.00 40.48 2.97
4099 5690 0.954449 CAACCTGTGCTCCTGCTCTG 60.954 60.000 0.00 0.00 40.48 3.35
4199 5790 7.494211 TGCGTTCTAAGTAGATATAAAAGCCA 58.506 34.615 0.00 0.00 31.40 4.75
4232 5823 9.883142 GCCTAAATATGAAGATACTTAGATGCT 57.117 33.333 0.00 0.00 29.03 3.79
4233 5824 8.812329 CGCCTAAATATGAAGATACTTAGATGC 58.188 37.037 0.00 0.00 29.03 3.91
4257 5848 0.881118 TTGCCAGTTTCAATCCTCGC 59.119 50.000 0.00 0.00 0.00 5.03
4258 5849 2.417933 CTCTTGCCAGTTTCAATCCTCG 59.582 50.000 0.00 0.00 0.00 4.63
4272 5863 2.514458 TCCAGAAATTCCCTCTTGCC 57.486 50.000 0.00 0.00 0.00 4.52
4322 5913 5.220710 TGAAGTCCTTTTCCTTCAGAGAG 57.779 43.478 0.00 0.00 41.47 3.20
4461 6052 1.676006 AGAACCTTTGCACGTTCAAGG 59.324 47.619 17.97 15.23 40.69 3.61
4491 6082 1.618343 TCTCCAGATGCAGTTTCGACA 59.382 47.619 0.00 0.00 0.00 4.35
4497 6088 4.141551 TGAGCAATATCTCCAGATGCAGTT 60.142 41.667 0.00 0.00 36.05 3.16
4683 6282 4.277476 AGAAGTCCAAGACTCTGATCGAT 58.723 43.478 0.00 0.00 42.59 3.59
4685 6284 4.082517 TGAAGAAGTCCAAGACTCTGATCG 60.083 45.833 0.00 0.00 42.59 3.69
4731 6330 2.478370 CCATAAATTGGTGCTGCTCACG 60.478 50.000 0.00 0.00 46.56 4.35
4736 6335 2.099756 GGACTCCATAAATTGGTGCTGC 59.900 50.000 0.00 0.00 46.52 5.25
4886 6485 3.072330 TCAAATGGTTAGCTGACTGGACA 59.928 43.478 8.70 0.00 0.00 4.02
5082 6681 7.615403 ACTTTGAATCAGATAGCAACTACTCA 58.385 34.615 0.00 0.00 0.00 3.41
5127 6726 8.890472 TGTTAATAAGATAGGCCATGATTAGGT 58.110 33.333 5.01 0.00 0.00 3.08
5128 6727 9.388506 CTGTTAATAAGATAGGCCATGATTAGG 57.611 37.037 5.01 0.00 0.00 2.69
5158 6757 4.469227 AGTCTCTGAAACCATCACTGCTAT 59.531 41.667 0.00 0.00 33.47 2.97
5179 6778 8.621286 CAAAACCTCAGTTAATACTTGTTCAGT 58.379 33.333 0.00 0.00 35.71 3.41
5628 7227 6.089954 GCTAAAATTCCAGCAATCTTGTCAAC 59.910 38.462 6.41 0.00 37.73 3.18
5674 7273 7.865706 ACAATAGATAAGTTGACCATTGTCC 57.134 36.000 0.00 0.00 41.01 4.02
5789 7391 5.360144 GTGTTCCTGCTCCTCACTATACTTA 59.640 44.000 0.00 0.00 0.00 2.24
5885 7487 5.316327 CCAGGAATTGGTTCTTTAGCTTC 57.684 43.478 0.00 0.00 42.41 3.86
5909 7511 5.812127 GGTATTAGCATGCGATGACATATCA 59.188 40.000 13.01 0.00 39.83 2.15
6202 7804 1.538950 GTCACGGTAGGTCGAGTTTCT 59.461 52.381 0.00 0.00 0.00 2.52
6203 7805 1.727213 CGTCACGGTAGGTCGAGTTTC 60.727 57.143 0.00 0.00 0.00 2.78
6236 7838 6.273730 TCATTAGAAAAACTGGGAAGGACCTA 59.726 38.462 0.00 0.00 38.98 3.08
6346 7948 8.660295 AAATATCAGATGTAATGGCATGGAAT 57.340 30.769 0.00 0.00 0.00 3.01
6377 7979 7.865385 CCAAGTAGATATGTTACTCTCTGAAGC 59.135 40.741 0.00 0.00 31.22 3.86
6421 8023 9.449719 ACATAAGGAAAAGAACATATTTCGAGT 57.550 29.630 0.00 0.00 36.60 4.18
6432 8034 9.841880 GAAAGTGGATAACATAAGGAAAAGAAC 57.158 33.333 0.00 0.00 0.00 3.01
6480 8083 8.828644 CATTCTCTTTCTAGTTTCATGATCCAG 58.171 37.037 0.00 0.00 0.00 3.86
6494 8097 8.478877 GTGGATAGAGTTTCCATTCTCTTTCTA 58.521 37.037 10.55 4.50 44.75 2.10
6498 8101 5.728741 AGGTGGATAGAGTTTCCATTCTCTT 59.271 40.000 0.00 0.00 44.75 2.85
6530 8133 4.400251 TCAGTCAGCAATCCCAAATGATTC 59.600 41.667 0.00 0.00 32.71 2.52
6601 8204 8.044908 AGCTTACCGAGTAATCTTTTTCCATAA 58.955 33.333 0.00 0.00 0.00 1.90
6605 8208 9.708092 ATATAGCTTACCGAGTAATCTTTTTCC 57.292 33.333 0.00 0.00 29.25 3.13
6611 8214 6.835819 TGCATATAGCTTACCGAGTAATCT 57.164 37.500 0.00 5.77 45.94 2.40
6666 8271 3.746492 AGCATCCGTACAACTTGTTTCTC 59.254 43.478 0.00 0.00 0.00 2.87
6731 8336 4.938226 GCTGAACTAGACCAACAAATAGCT 59.062 41.667 0.00 0.00 0.00 3.32
6733 8338 8.443937 GTTTAGCTGAACTAGACCAACAAATAG 58.556 37.037 13.77 0.00 31.28 1.73
6739 8344 5.539048 TCTGTTTAGCTGAACTAGACCAAC 58.461 41.667 20.61 0.00 35.56 3.77
6746 8351 6.360370 AAGTCCATCTGTTTAGCTGAACTA 57.640 37.500 20.61 10.44 0.00 2.24
6818 8423 3.563808 TCGCATTGTTCAGTTGCTAGTTT 59.436 39.130 0.00 0.00 34.23 2.66
6837 8442 3.058914 GTCCATAAGGTGCATACATTCGC 60.059 47.826 0.00 0.00 32.39 4.70
6842 8447 4.502105 ACATGTCCATAAGGTGCATACA 57.498 40.909 0.00 0.00 33.02 2.29
6947 8553 7.042051 GCAACCAAATATGTCACGTGATATAGT 60.042 37.037 30.36 27.26 32.85 2.12
6956 8562 3.567576 TTGGCAACCAAATATGTCACG 57.432 42.857 0.00 0.00 40.92 4.35
6968 8574 2.622942 TGTTGAGAGAACATTGGCAACC 59.377 45.455 0.00 0.00 35.89 3.77
6972 8578 2.508526 ACCTGTTGAGAGAACATTGGC 58.491 47.619 0.00 0.00 0.00 4.52
7019 8625 3.077556 CACCGGCCAGTAGCTCCT 61.078 66.667 0.00 0.00 43.05 3.69
7035 8641 7.442062 TCTTCAATTGATTCGAAGCTATATGCA 59.558 33.333 15.31 0.00 45.94 3.96
7059 8665 1.168714 GCACCGAGGCTTTCAATTCT 58.831 50.000 0.00 0.00 0.00 2.40
7063 8669 1.600636 CTGGCACCGAGGCTTTCAA 60.601 57.895 0.00 0.00 44.55 2.69
7142 8748 0.313043 ACGTGTCGTTTGATCCGAGT 59.687 50.000 0.00 0.00 36.35 4.18
7149 8755 0.669619 TAGGAGCACGTGTCGTTTGA 59.330 50.000 18.38 0.00 38.32 2.69
7237 8843 3.338249 TCTTGCCATCTTTACAGCACTC 58.662 45.455 0.00 0.00 34.37 3.51
7279 8885 2.670905 CGGATACACGCTGAATCAACAA 59.329 45.455 0.00 0.00 0.00 2.83
7288 8894 1.306148 TCTACTCCGGATACACGCTG 58.694 55.000 3.57 0.00 0.00 5.18
7294 8900 3.802685 GTGCAACATTCTACTCCGGATAC 59.197 47.826 3.57 0.00 36.32 2.24
7329 8935 4.885907 TCTTCACTACCCTACGATTAGGTG 59.114 45.833 0.00 0.00 43.41 4.00
7334 8944 3.700038 CTGGTCTTCACTACCCTACGATT 59.300 47.826 0.00 0.00 36.06 3.34
7359 8969 4.602340 ACGAAACACTTGTCCTCTACAT 57.398 40.909 0.00 0.00 38.10 2.29
7385 8995 7.989947 TGGTTGGAGTAGAACCTTTAGATAT 57.010 36.000 0.00 0.00 43.00 1.63
7386 8996 7.989947 ATGGTTGGAGTAGAACCTTTAGATA 57.010 36.000 0.00 0.00 43.00 1.98
7387 8997 6.893020 ATGGTTGGAGTAGAACCTTTAGAT 57.107 37.500 0.00 0.00 43.00 1.98
7388 8998 6.271391 TCAATGGTTGGAGTAGAACCTTTAGA 59.729 38.462 0.00 0.00 43.00 2.10
7389 8999 6.472887 TCAATGGTTGGAGTAGAACCTTTAG 58.527 40.000 0.00 0.00 43.00 1.85
7390 9000 6.442541 TCAATGGTTGGAGTAGAACCTTTA 57.557 37.500 0.00 0.00 43.00 1.85
7391 9001 5.319043 TCAATGGTTGGAGTAGAACCTTT 57.681 39.130 0.00 0.00 43.00 3.11
7392 9002 4.993705 TCAATGGTTGGAGTAGAACCTT 57.006 40.909 0.00 0.00 43.00 3.50
7393 9003 4.785376 AGATCAATGGTTGGAGTAGAACCT 59.215 41.667 0.00 0.00 43.00 3.50
7394 9004 5.104259 AGATCAATGGTTGGAGTAGAACC 57.896 43.478 0.00 0.00 42.90 3.62
7395 9005 5.940470 ACAAGATCAATGGTTGGAGTAGAAC 59.060 40.000 0.00 0.00 0.00 3.01
7396 9006 6.126863 ACAAGATCAATGGTTGGAGTAGAA 57.873 37.500 0.00 0.00 0.00 2.10
7397 9007 5.762179 ACAAGATCAATGGTTGGAGTAGA 57.238 39.130 0.00 0.00 0.00 2.59
7398 9008 5.392380 GCAACAAGATCAATGGTTGGAGTAG 60.392 44.000 15.70 0.00 40.61 2.57
7399 9009 4.458989 GCAACAAGATCAATGGTTGGAGTA 59.541 41.667 15.70 0.00 40.61 2.59
7400 9010 3.256631 GCAACAAGATCAATGGTTGGAGT 59.743 43.478 15.70 0.00 40.61 3.85
7401 9011 3.508793 AGCAACAAGATCAATGGTTGGAG 59.491 43.478 15.70 2.76 40.61 3.86
7402 9012 3.499338 AGCAACAAGATCAATGGTTGGA 58.501 40.909 15.70 0.00 40.61 3.53
7405 9015 4.344679 TGGAAAGCAACAAGATCAATGGTT 59.655 37.500 0.00 0.00 35.23 3.67
7411 9021 3.159472 AGCATGGAAAGCAACAAGATCA 58.841 40.909 0.00 0.00 0.00 2.92
7426 9036 3.508793 ACTTGATTGACCAGAAAGCATGG 59.491 43.478 0.00 0.00 43.87 3.66
7438 9048 3.667960 GCACATTCGACCACTTGATTGAC 60.668 47.826 0.00 0.00 0.00 3.18
7442 9052 1.078709 CGCACATTCGACCACTTGAT 58.921 50.000 0.00 0.00 0.00 2.57
7551 9161 5.425539 TCTCCCATTTTAAGAGGACTAGGTG 59.574 44.000 0.00 0.00 0.00 4.00
7587 9197 1.531149 CCACGTTCGAGCAAACTCAAT 59.469 47.619 0.00 0.00 43.66 2.57
7588 9198 0.934496 CCACGTTCGAGCAAACTCAA 59.066 50.000 0.00 0.00 43.66 3.02
7589 9199 0.179094 ACCACGTTCGAGCAAACTCA 60.179 50.000 0.00 0.00 43.66 3.41
7590 9200 0.507358 GACCACGTTCGAGCAAACTC 59.493 55.000 0.00 0.00 39.75 3.01
7591 9201 0.104304 AGACCACGTTCGAGCAAACT 59.896 50.000 0.00 0.00 0.00 2.66
7592 9202 0.935196 AAGACCACGTTCGAGCAAAC 59.065 50.000 0.00 0.00 0.00 2.93
7593 9203 1.214367 GAAGACCACGTTCGAGCAAA 58.786 50.000 0.00 0.00 0.00 3.68
7594 9204 0.103390 TGAAGACCACGTTCGAGCAA 59.897 50.000 0.00 0.00 0.00 3.91
7595 9205 0.318699 CTGAAGACCACGTTCGAGCA 60.319 55.000 0.00 0.00 0.00 4.26
7596 9206 1.618640 GCTGAAGACCACGTTCGAGC 61.619 60.000 0.00 0.00 0.00 5.03
7597 9207 1.337817 CGCTGAAGACCACGTTCGAG 61.338 60.000 0.00 0.00 0.00 4.04
7598 9208 1.371267 CGCTGAAGACCACGTTCGA 60.371 57.895 0.00 0.00 0.00 3.71
7599 9209 0.937699 TTCGCTGAAGACCACGTTCG 60.938 55.000 0.00 0.00 0.00 3.95
7600 9210 1.214367 TTTCGCTGAAGACCACGTTC 58.786 50.000 0.00 0.00 0.00 3.95
7601 9211 1.658994 TTTTCGCTGAAGACCACGTT 58.341 45.000 0.00 0.00 0.00 3.99
7602 9212 1.878953 ATTTTCGCTGAAGACCACGT 58.121 45.000 0.00 0.00 0.00 4.49
7603 9213 4.334443 CAATATTTTCGCTGAAGACCACG 58.666 43.478 0.00 0.00 0.00 4.94
7604 9214 4.098416 GCAATATTTTCGCTGAAGACCAC 58.902 43.478 0.00 0.00 0.00 4.16
7605 9215 3.181511 CGCAATATTTTCGCTGAAGACCA 60.182 43.478 0.00 0.00 0.00 4.02
7606 9216 3.181510 ACGCAATATTTTCGCTGAAGACC 60.182 43.478 6.75 0.00 0.00 3.85
7607 9217 4.003519 ACGCAATATTTTCGCTGAAGAC 57.996 40.909 6.75 0.00 0.00 3.01
7608 9218 5.106442 TCTACGCAATATTTTCGCTGAAGA 58.894 37.500 6.75 3.63 0.00 2.87
7609 9219 5.389642 TCTACGCAATATTTTCGCTGAAG 57.610 39.130 6.75 1.88 0.00 3.02
7610 9220 4.260212 GCTCTACGCAATATTTTCGCTGAA 60.260 41.667 6.75 0.00 38.92 3.02
7611 9221 3.245284 GCTCTACGCAATATTTTCGCTGA 59.755 43.478 6.75 5.16 38.92 4.26
7612 9222 3.246226 AGCTCTACGCAATATTTTCGCTG 59.754 43.478 6.75 1.86 42.61 5.18
7613 9223 3.458189 AGCTCTACGCAATATTTTCGCT 58.542 40.909 6.75 0.00 42.61 4.93
7614 9224 3.861569 AGCTCTACGCAATATTTTCGC 57.138 42.857 6.75 0.00 42.61 4.70
7615 9225 5.405571 ACCATAGCTCTACGCAATATTTTCG 59.594 40.000 0.00 5.58 42.61 3.46
7616 9226 6.128526 GGACCATAGCTCTACGCAATATTTTC 60.129 42.308 0.00 0.00 42.61 2.29
7617 9227 5.701290 GGACCATAGCTCTACGCAATATTTT 59.299 40.000 0.00 0.00 42.61 1.82
7618 9228 5.221641 TGGACCATAGCTCTACGCAATATTT 60.222 40.000 0.00 0.00 42.61 1.40
7619 9229 4.283467 TGGACCATAGCTCTACGCAATATT 59.717 41.667 0.00 0.00 42.61 1.28
7620 9230 3.832490 TGGACCATAGCTCTACGCAATAT 59.168 43.478 0.00 0.00 42.61 1.28
7621 9231 3.005472 GTGGACCATAGCTCTACGCAATA 59.995 47.826 0.00 0.00 42.61 1.90
7622 9232 2.039418 TGGACCATAGCTCTACGCAAT 58.961 47.619 0.00 0.00 42.61 3.56
7623 9233 1.136305 GTGGACCATAGCTCTACGCAA 59.864 52.381 0.00 0.00 42.61 4.85
7624 9234 0.744874 GTGGACCATAGCTCTACGCA 59.255 55.000 0.00 0.00 42.61 5.24
7625 9235 0.744874 TGTGGACCATAGCTCTACGC 59.255 55.000 0.00 0.00 39.57 4.42
7626 9236 1.749063 TGTGTGGACCATAGCTCTACG 59.251 52.381 0.00 0.00 0.00 3.51
7627 9237 3.195825 AGTTGTGTGGACCATAGCTCTAC 59.804 47.826 0.00 0.00 0.00 2.59
7628 9238 3.195610 CAGTTGTGTGGACCATAGCTCTA 59.804 47.826 0.00 0.00 0.00 2.43
7629 9239 2.027745 CAGTTGTGTGGACCATAGCTCT 60.028 50.000 0.00 0.00 0.00 4.09
7630 9240 2.289694 ACAGTTGTGTGGACCATAGCTC 60.290 50.000 0.00 0.00 34.75 4.09
7631 9241 1.699634 ACAGTTGTGTGGACCATAGCT 59.300 47.619 0.00 0.00 34.75 3.32
7632 9242 2.185004 ACAGTTGTGTGGACCATAGC 57.815 50.000 0.00 0.00 34.75 2.97
7633 9243 3.476552 ACAACAGTTGTGTGGACCATAG 58.523 45.455 18.49 0.00 43.48 2.23
7634 9244 3.135712 AGACAACAGTTGTGTGGACCATA 59.864 43.478 23.94 0.00 45.52 2.74
7635 9245 2.092429 AGACAACAGTTGTGTGGACCAT 60.092 45.455 23.94 0.00 45.52 3.55
7636 9246 1.280710 AGACAACAGTTGTGTGGACCA 59.719 47.619 23.94 0.00 45.52 4.02
7678 9288 7.809331 GCCAAATCAGATGCGAATAAAATATCA 59.191 33.333 0.00 0.00 0.00 2.15
7705 9315 1.475403 ACTCATGTGAGGTCGTAGGG 58.525 55.000 14.05 0.00 46.13 3.53
7758 9369 8.450578 TTGACACAAGAATACAGTCAATTTCT 57.549 30.769 0.00 0.00 42.35 2.52
7901 9513 7.685481 TCATAGACTAGTGAAATTGGTTGGAA 58.315 34.615 0.00 0.00 0.00 3.53
7938 9555 9.424319 AGAACTTGGTTTTCTTTTCTTTTCTTC 57.576 29.630 0.00 0.00 28.36 2.87
8037 9672 7.624360 TTTTGGATAGACATGTATCGCTTTT 57.376 32.000 0.00 0.00 31.10 2.27
8069 9704 7.011109 TGTGCTAACTCGAAAAATTATAGGAGC 59.989 37.037 0.00 0.00 0.00 4.70
8110 9751 3.529341 ATGTGTGGTTGCGCTCGGA 62.529 57.895 9.73 0.00 0.00 4.55
8116 9757 2.953821 GGGTCATGTGTGGTTGCG 59.046 61.111 0.00 0.00 0.00 4.85
8132 9773 4.426416 TGACGTATTATCTGTTGGTTCGG 58.574 43.478 0.00 0.00 0.00 4.30
8153 9794 3.528532 GGGGAGAACACGGTAGTTTATG 58.471 50.000 0.00 0.00 0.00 1.90
8154 9795 2.502947 GGGGGAGAACACGGTAGTTTAT 59.497 50.000 0.00 0.00 0.00 1.40
8155 9796 1.901833 GGGGGAGAACACGGTAGTTTA 59.098 52.381 0.00 0.00 0.00 2.01


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

AutoCloner maintained by Alex Coulton.