Multiple sequence alignment - TraesCS2A01G402800

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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 TraesCS2A01G402800 chr2A 100.000 4090 0 0 1 4090 657096053 657100142 0.000000e+00 7553.0
1 TraesCS2A01G402800 chr2A 100.000 3565 0 0 4343 7907 657100395 657103959 0.000000e+00 6584.0
2 TraesCS2A01G402800 chr2A 91.189 227 12 7 717 936 520580749 520580524 1.290000e-77 302.0
3 TraesCS2A01G402800 chr2A 93.750 64 4 0 6829 6892 657102818 657102881 6.530000e-16 97.1
4 TraesCS2A01G402800 chr2A 93.750 64 4 0 6766 6829 657102881 657102944 6.530000e-16 97.1
5 TraesCS2A01G402800 chr2A 93.878 49 3 0 7339 7387 53078513 53078465 3.060000e-09 75.0
6 TraesCS2A01G402800 chr4D 98.063 2891 37 11 4878 7749 341399206 341396316 0.000000e+00 5011.0
7 TraesCS2A01G402800 chr4D 95.875 1600 45 9 1 1595 341404106 341402523 0.000000e+00 2569.0
8 TraesCS2A01G402800 chr4D 95.892 1144 45 2 2948 4090 341401069 341399927 0.000000e+00 1851.0
9 TraesCS2A01G402800 chr4D 93.856 651 23 9 1606 2256 341402105 341401472 0.000000e+00 965.0
10 TraesCS2A01G402800 chr4D 92.669 532 16 9 4343 4853 341399882 341399353 0.000000e+00 745.0
11 TraesCS2A01G402800 chr4D 93.750 64 4 0 6766 6829 341397240 341397177 6.530000e-16 97.1
12 TraesCS2A01G402800 chr4D 93.750 64 4 0 6829 6892 341397303 341397240 6.530000e-16 97.1
13 TraesCS2A01G402800 chr4B 93.017 3480 138 39 4354 7749 423048795 423045337 0.000000e+00 4983.0
14 TraesCS2A01G402800 chr4B 90.513 1834 143 16 2276 4087 423050675 423048851 0.000000e+00 2394.0
15 TraesCS2A01G402800 chr4B 92.366 1323 49 27 681 1980 423052925 423051632 0.000000e+00 1836.0
16 TraesCS2A01G402800 chr4B 90.147 477 23 6 1 473 423053543 423053087 4.080000e-167 599.0
17 TraesCS2A01G402800 chr4B 96.410 195 5 1 2079 2273 423050984 423050792 3.560000e-83 320.0
18 TraesCS2A01G402800 chr4B 95.868 121 4 1 1957 2076 423051196 423051076 2.250000e-45 195.0
19 TraesCS2A01G402800 chr4B 96.875 64 2 0 6766 6829 423046260 423046197 3.020000e-19 108.0
20 TraesCS2A01G402800 chr4A 93.677 1787 68 19 4343 6090 125399851 125401631 0.000000e+00 2632.0
21 TraesCS2A01G402800 chr4A 94.083 1690 73 18 6082 7749 125403046 125404730 0.000000e+00 2542.0
22 TraesCS2A01G402800 chr4A 93.627 1632 59 22 669 2275 125396328 125397939 0.000000e+00 2396.0
23 TraesCS2A01G402800 chr4A 89.425 1201 85 15 2900 4087 125398632 125399803 0.000000e+00 1476.0
24 TraesCS2A01G402800 chr4A 91.681 589 39 6 2275 2857 125398053 125398637 0.000000e+00 808.0
25 TraesCS2A01G402800 chr4A 92.464 491 27 7 3 486 125395748 125396235 0.000000e+00 693.0
26 TraesCS2A01G402800 chr4A 93.750 64 4 0 6829 6892 125403734 125403797 6.530000e-16 97.1
27 TraesCS2A01G402800 chr4A 93.750 64 4 0 6766 6829 125403797 125403860 6.530000e-16 97.1
28 TraesCS2A01G402800 chr4A 92.000 50 4 0 7338 7387 732284697 732284746 3.960000e-08 71.3
29 TraesCS2A01G402800 chrUn 96.007 1202 37 4 1 1199 418950077 418951270 0.000000e+00 1943.0
30 TraesCS2A01G402800 chrUn 95.892 1144 45 2 2948 4090 298896418 298897560 0.000000e+00 1851.0
31 TraesCS2A01G402800 chrUn 94.009 651 22 9 1606 2256 298894805 298895438 0.000000e+00 970.0
32 TraesCS2A01G402800 chrUn 98.880 357 2 2 1241 1595 298894031 298894387 3.110000e-178 636.0
33 TraesCS2A01G402800 chrUn 96.190 105 4 0 4343 4447 298897605 298897709 1.050000e-38 172.0
34 TraesCS2A01G402800 chr7D 91.228 228 14 5 713 935 568325800 568326026 9.970000e-79 305.0
35 TraesCS2A01G402800 chr7D 79.570 279 47 9 2642 2916 312566845 312566573 2.910000e-44 191.0
36 TraesCS2A01G402800 chr7D 78.906 128 11 6 7520 7641 2428542 2428425 1.100000e-08 73.1
37 TraesCS2A01G402800 chr6A 91.593 226 12 6 717 936 135573408 135573632 9.970000e-79 305.0
38 TraesCS2A01G402800 chr6A 92.157 51 4 0 7335 7385 33182572 33182522 1.100000e-08 73.1
39 TraesCS2A01G402800 chr7B 91.518 224 14 4 717 935 703109522 703109299 3.590000e-78 303.0
40 TraesCS2A01G402800 chr7B 78.648 281 46 11 2642 2916 303158932 303158660 2.930000e-39 174.0
41 TraesCS2A01G402800 chr7B 92.453 53 4 0 7335 7387 632337875 632337823 8.510000e-10 76.8
42 TraesCS2A01G402800 chr1A 90.749 227 13 7 717 936 555102891 555102666 6.000000e-76 296.0
43 TraesCS2A01G402800 chr1A 82.486 177 24 7 7469 7641 540663720 540663893 1.780000e-31 148.0
44 TraesCS2A01G402800 chr2D 84.252 127 17 3 7520 7644 642993163 642993038 3.880000e-23 121.0
45 TraesCS2A01G402800 chr1B 89.024 82 6 2 585 664 616616866 616616786 1.820000e-16 99.0
46 TraesCS2A01G402800 chr6D 87.059 85 9 1 585 667 163130250 163130334 2.350000e-15 95.3
47 TraesCS2A01G402800 chr5D 83.654 104 14 3 580 683 485355331 485355431 2.350000e-15 95.3
48 TraesCS2A01G402800 chr5D 85.106 94 12 1 577 668 503136656 503136563 2.350000e-15 95.3
49 TraesCS2A01G402800 chr5D 81.982 111 15 4 561 667 387712409 387712300 1.090000e-13 89.8
50 TraesCS2A01G402800 chr3D 85.263 95 11 2 583 675 81366078 81366171 2.350000e-15 95.3
51 TraesCS2A01G402800 chr1D 86.747 83 10 1 585 667 199427782 199427863 3.040000e-14 91.6
52 TraesCS2A01G402800 chr2B 94.340 53 3 0 7335 7387 387071356 387071304 1.830000e-11 82.4
53 TraesCS2A01G402800 chr2B 86.000 50 6 1 7858 7907 184276 184228 1.400000e-02 52.8
54 TraesCS2A01G402800 chr5B 92.453 53 4 0 7332 7384 336408458 336408406 8.510000e-10 76.8
55 TraesCS2A01G402800 chr7A 91.667 48 3 1 2642 2688 341437676 341437629 1.840000e-06 65.8
56 TraesCS2A01G402800 chr7A 100.000 28 0 0 2879 2906 487711349 487711322 1.400000e-02 52.8
57 TraesCS2A01G402800 chr3A 96.774 31 1 0 7858 7888 662927131 662927101 1.400000e-02 52.8


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 TraesCS2A01G402800 chr2A 657096053 657103959 7906 False 3582.800000 7553 96.875000 1 7907 4 chr2A.!!$F1 7906
1 TraesCS2A01G402800 chr4D 341396316 341404106 7790 True 1619.314286 5011 94.836429 1 7749 7 chr4D.!!$R1 7748
2 TraesCS2A01G402800 chr4B 423045337 423053543 8206 True 1490.714286 4983 93.599429 1 7749 7 chr4B.!!$R1 7748
3 TraesCS2A01G402800 chr4A 125395748 125404730 8982 False 1342.650000 2632 92.807125 3 7749 8 chr4A.!!$F2 7746
4 TraesCS2A01G402800 chrUn 418950077 418951270 1193 False 1943.000000 1943 96.007000 1 1199 1 chrUn.!!$F1 1198
5 TraesCS2A01G402800 chrUn 298894031 298897709 3678 False 907.250000 1851 96.242750 1241 4447 4 chrUn.!!$F2 3206

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
755 827 0.527113 TTGAATGCGACAGCCCAATG 59.473 50.000 0.00 0.0 44.33 2.82 F
2719 3886 0.817634 CAAGAAGGACGCACCCAACA 60.818 55.000 0.00 0.0 40.05 3.33 F
2940 4107 0.238289 GATGCACCAAACCACTCACG 59.762 55.000 0.00 0.0 0.00 4.35 F
3823 5599 0.259065 TGGCTAGGACCGATCTGACT 59.741 55.000 0.00 0.0 0.00 3.41 F
4656 6471 1.081094 TCGAACGCGTGAGAGATGTA 58.919 50.000 14.98 0.0 38.98 2.29 F
4706 6521 1.334869 CCGCAGTAGAAATCATTGCCC 59.665 52.381 0.00 0.0 0.00 5.36 F
5788 7779 2.031683 ACTTTTGTTTCTCGTTGGCTCG 59.968 45.455 0.00 0.0 0.00 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2749 3916 1.240641 TAGGGGCATTGTGTTGTGCG 61.241 55.000 0.00 0.00 42.15 5.34 R
3817 5593 0.822164 GGCGCCTAACCTTAGTCAGA 59.178 55.000 22.15 0.00 0.00 3.27 R
4604 6419 1.712081 CATTGCTCTTCGAGGTGCG 59.288 57.895 15.48 0.00 42.69 5.34 R
5439 7430 0.181114 AAGCTTGACACTGACAGCCA 59.819 50.000 0.00 0.00 0.00 4.75 R
5788 7779 1.875514 TCTTTCAGCTGCATGTGTGAC 59.124 47.619 9.47 0.00 0.00 3.67 R
6367 9785 5.463392 TCTGAATTCTCACACTTGTTCTTCG 59.537 40.000 7.05 0.00 0.00 3.79 R
7779 11230 0.173708 CACCGCAGAGGGTACTTCTC 59.826 60.000 0.00 8.16 46.96 2.87 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
344 347 5.649782 AGGAAATGGTATTGCTGAGTTTG 57.350 39.130 0.00 0.00 29.04 2.93
461 473 2.093890 CATGCACACAGCCAAAGGATA 58.906 47.619 0.00 0.00 44.83 2.59
546 558 7.119605 GCACACAGCAATCAAAATTCATTAA 57.880 32.000 0.00 0.00 44.79 1.40
589 616 8.067751 TCATCTACAAGCATGTAAACTACTCT 57.932 34.615 3.08 0.00 41.36 3.24
592 619 8.123639 TCTACAAGCATGTAAACTACTCTCTT 57.876 34.615 3.08 0.00 41.36 2.85
593 620 8.585881 TCTACAAGCATGTAAACTACTCTCTTT 58.414 33.333 3.08 0.00 41.36 2.52
596 623 7.499232 ACAAGCATGTAAACTACTCTCTTTGTT 59.501 33.333 0.00 0.00 38.24 2.83
601 628 9.653287 CATGTAAACTACTCTCTTTGTTCCATA 57.347 33.333 0.00 0.00 0.00 2.74
645 672 3.050619 ACTAGTGTCAAAAACGCTCTCG 58.949 45.455 0.00 0.00 45.69 4.04
679 749 5.162947 ACGGAGGGGGTAGTAGATTACAATA 60.163 44.000 0.00 0.00 0.00 1.90
702 772 9.978044 AATATACTAGTATTCCGAACCAAGTTC 57.022 33.333 20.21 0.00 38.97 3.01
755 827 0.527113 TTGAATGCGACAGCCCAATG 59.473 50.000 0.00 0.00 44.33 2.82
859 940 4.669206 TCTTATACGGCGGATTTACCAA 57.331 40.909 11.19 0.00 38.90 3.67
1445 1542 3.063997 CCATCGCCATTGAAGTCTGTAAC 59.936 47.826 0.00 0.00 0.00 2.50
1628 2134 4.395231 GGGAAGATAAGTGTGTGCTAAACC 59.605 45.833 0.00 0.00 0.00 3.27
1710 2216 5.047235 GGAACAGTAAGCTAGAGAAGGACAA 60.047 44.000 0.00 0.00 0.00 3.18
1813 2321 1.202580 CCCCGATGCTTAGTTCTCCAG 60.203 57.143 0.00 0.00 0.00 3.86
1832 2340 6.000246 TCCAGCAGTTGAATGTAATGGATA 58.000 37.500 0.00 0.00 30.85 2.59
1833 2341 6.422333 TCCAGCAGTTGAATGTAATGGATAA 58.578 36.000 0.00 0.00 30.85 1.75
1881 2389 3.245122 GGATCCACTGTCAAAAACCCCTA 60.245 47.826 6.95 0.00 0.00 3.53
2057 3015 6.399743 TGTATGCACACTCGTAAAATCCTTA 58.600 36.000 0.00 0.00 0.00 2.69
2424 3587 4.630111 CCAAGGCTTAGAGCTCTAGAATG 58.370 47.826 22.19 16.72 41.99 2.67
2458 3621 1.477553 CAACTGTGGGCTATGGCAAT 58.522 50.000 2.58 0.00 40.87 3.56
2459 3622 2.653726 CAACTGTGGGCTATGGCAATA 58.346 47.619 2.58 0.00 40.87 1.90
2475 3638 9.334947 CTATGGCAATACATCTAATAATCCCTG 57.665 37.037 0.00 0.00 32.39 4.45
2493 3656 4.766891 TCCCTGAAGAAAATCCATGTGTTC 59.233 41.667 0.00 0.00 0.00 3.18
2562 3729 6.161381 GTGTTTTCAATTCATGCAGGATTCT 58.839 36.000 0.03 0.00 0.00 2.40
2563 3730 6.090358 GTGTTTTCAATTCATGCAGGATTCTG 59.910 38.462 0.03 0.00 43.64 3.02
2613 3780 6.783708 ATTTTTCTGTTCCTGTGTTTACCA 57.216 33.333 0.00 0.00 0.00 3.25
2660 3827 2.602660 GAGAAAACGCAAAAGCTTTGCA 59.397 40.909 23.83 0.00 45.14 4.08
2666 3833 2.284952 ACGCAAAAGCTTTGCATTTCAC 59.715 40.909 23.83 6.32 45.14 3.18
2716 3883 2.111999 CTCCAAGAAGGACGCACCCA 62.112 60.000 0.00 0.00 43.07 4.51
2719 3886 0.817634 CAAGAAGGACGCACCCAACA 60.818 55.000 0.00 0.00 40.05 3.33
2749 3916 0.532115 CAAGCAAGGCCATACCCAAC 59.468 55.000 5.01 0.00 40.58 3.77
2761 3928 1.681538 TACCCAACGCACAACACAAT 58.318 45.000 0.00 0.00 0.00 2.71
2803 3970 1.075482 CCCTTCAGGAGCAAAGCCA 59.925 57.895 0.00 0.00 38.24 4.75
2810 3977 1.905354 GGAGCAAAGCCACAAGCCT 60.905 57.895 0.00 0.00 45.47 4.58
2844 4011 4.803908 GCCCACACTGCCTAGCCC 62.804 72.222 0.00 0.00 0.00 5.19
2859 4026 1.303317 GCCCCCGACTTGATTGTGT 60.303 57.895 0.00 0.00 0.00 3.72
2881 4048 0.961358 AGGAGACGGTCGAGGTTGAG 60.961 60.000 1.89 0.00 0.00 3.02
2884 4051 3.966026 GACGGTCGAGGTTGAGCCG 62.966 68.421 6.81 6.81 46.83 5.52
2893 4060 0.674895 AGGTTGAGCCGAGCATTGTC 60.675 55.000 0.00 0.00 43.70 3.18
2937 4104 0.883833 CCAGATGCACCAAACCACTC 59.116 55.000 0.00 0.00 0.00 3.51
2940 4107 0.238289 GATGCACCAAACCACTCACG 59.762 55.000 0.00 0.00 0.00 4.35
2943 4110 1.896660 CACCAAACCACTCACGGGG 60.897 63.158 0.00 0.00 0.00 5.73
2977 4738 2.756283 CTTCCGAGCCGAGGACCT 60.756 66.667 0.00 0.00 37.53 3.85
3185 4954 1.407258 GATCTGGTCAAGCGAGCTACT 59.593 52.381 0.00 0.00 40.44 2.57
3186 4955 1.257743 TCTGGTCAAGCGAGCTACTT 58.742 50.000 0.00 0.00 40.44 2.24
3274 5043 2.824041 GCACATCCGCCGTCCAAT 60.824 61.111 0.00 0.00 0.00 3.16
3276 5045 2.124736 ACATCCGCCGTCCAATGG 60.125 61.111 0.00 0.00 0.00 3.16
3382 5151 3.005897 CCTGATATCCGAGATCCAACGTT 59.994 47.826 0.00 0.00 0.00 3.99
3417 5186 2.534042 TCCGAAGATTCAGGGAGACT 57.466 50.000 0.00 0.00 0.00 3.24
3497 5266 5.068215 TCCTAGAATAAGGCAGTAGCTCT 57.932 43.478 0.00 0.00 41.70 4.09
3612 5381 1.759445 GTGAGCATCCTCTAGAGCCAA 59.241 52.381 14.73 2.30 38.93 4.52
3614 5383 1.759445 GAGCATCCTCTAGAGCCAACA 59.241 52.381 14.73 0.00 35.16 3.33
3737 5507 1.152333 GCCAACCAAAAGGACCCCT 60.152 57.895 0.00 0.00 33.87 4.79
3817 5593 2.044806 GCATGGTGGCTAGGACCGAT 62.045 60.000 0.00 0.00 36.12 4.18
3823 5599 0.259065 TGGCTAGGACCGATCTGACT 59.741 55.000 0.00 0.00 0.00 3.41
4074 5852 2.034066 CAACCCCGACATGTGCCT 59.966 61.111 1.15 0.00 0.00 4.75
4387 6168 1.772063 GACGCCAGCAAACGAAGTGT 61.772 55.000 0.00 0.00 45.00 3.55
4454 6235 3.366052 AACAAACTGTTGAGGGTGTCT 57.634 42.857 0.00 0.00 39.45 3.41
4509 6290 1.315257 ATGTCGCAATCCCTTGTGGC 61.315 55.000 0.00 0.00 45.54 5.01
4518 6299 1.152984 CCCTTGTGGCGCCATATCA 60.153 57.895 35.23 23.67 0.00 2.15
4604 6419 1.887707 CCAAAGCCGATCCTACGCC 60.888 63.158 0.00 0.00 0.00 5.68
4656 6471 1.081094 TCGAACGCGTGAGAGATGTA 58.919 50.000 14.98 0.00 38.98 2.29
4657 6472 1.669265 TCGAACGCGTGAGAGATGTAT 59.331 47.619 14.98 0.00 38.98 2.29
4706 6521 1.334869 CCGCAGTAGAAATCATTGCCC 59.665 52.381 0.00 0.00 0.00 5.36
4849 6673 3.639561 TCACTGTCCAAACACTACAGCTA 59.360 43.478 0.00 0.00 43.53 3.32
5154 7124 7.497909 CCGTGATATATTTTAGGTCTGTGGTTT 59.502 37.037 0.00 0.00 0.00 3.27
5354 7325 2.754012 CCATGAAAAGGGGATAGCCA 57.246 50.000 0.00 0.00 35.15 4.75
5788 7779 2.031683 ACTTTTGTTTCTCGTTGGCTCG 59.968 45.455 0.00 0.00 0.00 5.03
6265 9683 5.182001 TCTGCTATTCTGCTTTGAACCTTTC 59.818 40.000 0.00 0.00 0.00 2.62
6367 9785 1.066645 CAGGAAGCAAAATGAAGCCCC 60.067 52.381 0.00 0.00 0.00 5.80
6429 9847 3.252701 GCTCATTGAGGAGGTAATGCATG 59.747 47.826 15.28 0.00 34.96 4.06
7030 10450 2.041701 ACCCTGCTTTGCTTGTGATTT 58.958 42.857 0.00 0.00 0.00 2.17
7347 10767 9.187996 GTCAGTTTTATACTTAGTACTCCCTCT 57.812 37.037 0.00 0.00 33.85 3.69
7355 10775 5.144100 ACTTAGTACTCCCTCTGATCCATG 58.856 45.833 0.00 0.00 0.00 3.66
7385 10805 2.548057 CGCAGCTTTGAACTAAGGTTGA 59.452 45.455 0.00 0.00 35.58 3.18
7469 10892 3.713826 AAAGAAGGTAAATGGGAGCGA 57.286 42.857 0.00 0.00 0.00 4.93
7472 10895 2.771943 AGAAGGTAAATGGGAGCGATCA 59.228 45.455 1.84 0.00 0.00 2.92
7518 10947 5.630680 ACAATTGTCGTTTCATGCTGAAATC 59.369 36.000 4.92 8.43 46.55 2.17
7700 11150 2.159572 GCCGAACGCATTCAACTTGTAT 60.160 45.455 0.00 0.00 37.47 2.29
7703 11153 4.565166 CCGAACGCATTCAACTTGTATAGA 59.435 41.667 0.00 0.00 34.14 1.98
7732 11183 6.071503 ACTGCTAACTACTTGTTCGTTCCTAT 60.072 38.462 0.00 0.00 39.89 2.57
7750 11201 9.257651 CGTTCCTATAGATAAAACAAACTAGGG 57.742 37.037 0.00 0.00 0.00 3.53
7751 11202 9.557061 GTTCCTATAGATAAAACAAACTAGGGG 57.443 37.037 0.00 0.00 0.00 4.79
7752 11203 7.742767 TCCTATAGATAAAACAAACTAGGGGC 58.257 38.462 0.00 0.00 0.00 5.80
7753 11204 7.571357 TCCTATAGATAAAACAAACTAGGGGCT 59.429 37.037 0.00 0.00 0.00 5.19
7754 11205 7.661847 CCTATAGATAAAACAAACTAGGGGCTG 59.338 40.741 0.00 0.00 0.00 4.85
7755 11206 4.600062 AGATAAAACAAACTAGGGGCTGG 58.400 43.478 0.00 0.00 0.00 4.85
7756 11207 2.009681 AAAACAAACTAGGGGCTGGG 57.990 50.000 0.00 0.00 0.00 4.45
7757 11208 1.154430 AAACAAACTAGGGGCTGGGA 58.846 50.000 0.00 0.00 0.00 4.37
7758 11209 0.404426 AACAAACTAGGGGCTGGGAC 59.596 55.000 0.00 0.00 0.00 4.46
7759 11210 1.078426 CAAACTAGGGGCTGGGACG 60.078 63.158 0.00 0.00 0.00 4.79
7760 11211 1.538135 AAACTAGGGGCTGGGACGT 60.538 57.895 0.00 0.00 0.00 4.34
7761 11212 1.838073 AAACTAGGGGCTGGGACGTG 61.838 60.000 0.00 0.00 0.00 4.49
7762 11213 4.162690 CTAGGGGCTGGGACGTGC 62.163 72.222 0.00 0.00 0.00 5.34
7785 11236 4.443266 GCGCGCCTCCTGAGAAGT 62.443 66.667 23.24 0.00 0.00 3.01
7786 11237 3.064987 GCGCGCCTCCTGAGAAGTA 62.065 63.158 23.24 0.00 0.00 2.24
7787 11238 1.226717 CGCGCCTCCTGAGAAGTAC 60.227 63.158 0.00 0.00 0.00 2.73
7788 11239 1.142097 GCGCCTCCTGAGAAGTACC 59.858 63.158 0.00 0.00 0.00 3.34
7789 11240 1.817209 CGCCTCCTGAGAAGTACCC 59.183 63.158 0.00 0.00 0.00 3.69
7790 11241 0.684805 CGCCTCCTGAGAAGTACCCT 60.685 60.000 0.00 0.00 0.00 4.34
7791 11242 1.116308 GCCTCCTGAGAAGTACCCTC 58.884 60.000 6.06 6.06 0.00 4.30
7792 11243 1.342574 GCCTCCTGAGAAGTACCCTCT 60.343 57.143 12.38 4.90 0.00 3.69
7793 11244 2.383855 CCTCCTGAGAAGTACCCTCTG 58.616 57.143 12.38 11.52 0.00 3.35
7794 11245 1.754226 CTCCTGAGAAGTACCCTCTGC 59.246 57.143 12.38 1.72 0.00 4.26
7795 11246 0.457851 CCTGAGAAGTACCCTCTGCG 59.542 60.000 12.38 4.98 0.00 5.18
7796 11247 0.457851 CTGAGAAGTACCCTCTGCGG 59.542 60.000 12.38 0.00 0.00 5.69
7797 11248 0.251653 TGAGAAGTACCCTCTGCGGT 60.252 55.000 12.38 0.00 40.13 5.68
7798 11249 0.173708 GAGAAGTACCCTCTGCGGTG 59.826 60.000 0.00 0.00 36.56 4.94
7799 11250 1.448013 GAAGTACCCTCTGCGGTGC 60.448 63.158 0.00 0.00 38.69 5.01
7800 11251 2.854187 GAAGTACCCTCTGCGGTGCC 62.854 65.000 0.00 0.00 39.17 5.01
7801 11252 3.702048 GTACCCTCTGCGGTGCCA 61.702 66.667 0.00 0.00 36.56 4.92
7802 11253 3.390521 TACCCTCTGCGGTGCCAG 61.391 66.667 0.00 0.00 36.56 4.85
7805 11256 3.390521 CCTCTGCGGTGCCAGGTA 61.391 66.667 0.00 0.00 33.64 3.08
7806 11257 2.185350 CTCTGCGGTGCCAGGTAG 59.815 66.667 0.00 0.00 33.64 3.18
7807 11258 3.376935 CTCTGCGGTGCCAGGTAGG 62.377 68.421 0.00 0.00 41.84 3.18
7816 11267 2.590007 CCAGGTAGGCATGCGCTC 60.590 66.667 12.44 3.86 38.60 5.03
7817 11268 2.503061 CAGGTAGGCATGCGCTCT 59.497 61.111 12.44 5.86 38.60 4.09
7818 11269 1.153289 CAGGTAGGCATGCGCTCTT 60.153 57.895 12.44 0.00 38.60 2.85
7819 11270 0.745845 CAGGTAGGCATGCGCTCTTT 60.746 55.000 12.44 0.00 38.60 2.52
7820 11271 0.830648 AGGTAGGCATGCGCTCTTTA 59.169 50.000 12.44 0.00 38.60 1.85
7821 11272 0.938008 GGTAGGCATGCGCTCTTTAC 59.062 55.000 12.44 7.01 38.60 2.01
7822 11273 0.577269 GTAGGCATGCGCTCTTTACG 59.423 55.000 12.44 0.00 38.60 3.18
7823 11274 0.529773 TAGGCATGCGCTCTTTACGG 60.530 55.000 12.44 0.00 38.60 4.02
7824 11275 2.106683 GGCATGCGCTCTTTACGGT 61.107 57.895 12.44 0.00 38.60 4.83
7825 11276 0.808453 GGCATGCGCTCTTTACGGTA 60.808 55.000 12.44 0.00 38.60 4.02
7826 11277 0.300789 GCATGCGCTCTTTACGGTAC 59.699 55.000 9.73 0.00 34.30 3.34
7827 11278 0.928229 CATGCGCTCTTTACGGTACC 59.072 55.000 9.73 0.16 0.00 3.34
7828 11279 0.822164 ATGCGCTCTTTACGGTACCT 59.178 50.000 9.73 0.00 0.00 3.08
7829 11280 0.604578 TGCGCTCTTTACGGTACCTT 59.395 50.000 9.73 2.58 0.00 3.50
7830 11281 1.001181 TGCGCTCTTTACGGTACCTTT 59.999 47.619 9.73 0.00 0.00 3.11
7831 11282 2.071540 GCGCTCTTTACGGTACCTTTT 58.928 47.619 10.90 0.00 0.00 2.27
7832 11283 2.093310 GCGCTCTTTACGGTACCTTTTC 59.907 50.000 10.90 0.00 0.00 2.29
7833 11284 2.343544 CGCTCTTTACGGTACCTTTTCG 59.656 50.000 10.90 0.00 0.00 3.46
7834 11285 3.320626 GCTCTTTACGGTACCTTTTCGT 58.679 45.455 10.90 4.82 40.40 3.85
7835 11286 3.742882 GCTCTTTACGGTACCTTTTCGTT 59.257 43.478 10.90 0.00 38.19 3.85
7836 11287 4.923281 GCTCTTTACGGTACCTTTTCGTTA 59.077 41.667 10.90 0.00 38.19 3.18
7837 11288 5.405269 GCTCTTTACGGTACCTTTTCGTTAA 59.595 40.000 10.90 1.93 38.19 2.01
7838 11289 6.091305 GCTCTTTACGGTACCTTTTCGTTAAT 59.909 38.462 10.90 0.00 38.19 1.40
7839 11290 7.360353 GCTCTTTACGGTACCTTTTCGTTAATT 60.360 37.037 10.90 0.00 38.19 1.40
7840 11291 7.795859 TCTTTACGGTACCTTTTCGTTAATTG 58.204 34.615 10.90 0.00 38.19 2.32
7841 11292 6.479095 TTACGGTACCTTTTCGTTAATTGG 57.521 37.500 10.90 0.00 38.19 3.16
7842 11293 4.388485 ACGGTACCTTTTCGTTAATTGGT 58.612 39.130 10.90 0.00 32.95 3.67
7843 11294 4.213906 ACGGTACCTTTTCGTTAATTGGTG 59.786 41.667 10.90 0.00 32.95 4.17
7844 11295 4.451774 CGGTACCTTTTCGTTAATTGGTGA 59.548 41.667 10.90 0.00 0.00 4.02
7845 11296 5.122711 CGGTACCTTTTCGTTAATTGGTGAT 59.877 40.000 10.90 0.00 0.00 3.06
7846 11297 6.313411 CGGTACCTTTTCGTTAATTGGTGATA 59.687 38.462 10.90 0.00 0.00 2.15
7847 11298 7.464977 CGGTACCTTTTCGTTAATTGGTGATAG 60.465 40.741 10.90 0.00 0.00 2.08
7848 11299 7.550196 GGTACCTTTTCGTTAATTGGTGATAGA 59.450 37.037 4.06 0.00 0.00 1.98
7849 11300 9.106070 GTACCTTTTCGTTAATTGGTGATAGAT 57.894 33.333 0.00 0.00 0.00 1.98
7850 11301 7.985476 ACCTTTTCGTTAATTGGTGATAGATG 58.015 34.615 0.00 0.00 0.00 2.90
7851 11302 7.610305 ACCTTTTCGTTAATTGGTGATAGATGT 59.390 33.333 0.00 0.00 0.00 3.06
7852 11303 8.458843 CCTTTTCGTTAATTGGTGATAGATGTT 58.541 33.333 0.00 0.00 0.00 2.71
7853 11304 9.490663 CTTTTCGTTAATTGGTGATAGATGTTC 57.509 33.333 0.00 0.00 0.00 3.18
7854 11305 8.554835 TTTCGTTAATTGGTGATAGATGTTCA 57.445 30.769 0.00 0.00 0.00 3.18
7855 11306 7.770801 TCGTTAATTGGTGATAGATGTTCAG 57.229 36.000 0.00 0.00 0.00 3.02
7856 11307 7.552459 TCGTTAATTGGTGATAGATGTTCAGA 58.448 34.615 0.00 0.00 0.00 3.27
7857 11308 8.204160 TCGTTAATTGGTGATAGATGTTCAGAT 58.796 33.333 0.00 0.00 0.00 2.90
7858 11309 9.476202 CGTTAATTGGTGATAGATGTTCAGATA 57.524 33.333 0.00 0.00 0.00 1.98
7862 11313 9.941325 AATTGGTGATAGATGTTCAGATATCTC 57.059 33.333 1.03 0.00 35.61 2.75
7863 11314 8.718158 TTGGTGATAGATGTTCAGATATCTCT 57.282 34.615 1.03 0.00 35.61 3.10
7864 11315 8.347004 TGGTGATAGATGTTCAGATATCTCTC 57.653 38.462 1.03 0.00 35.61 3.20
7865 11316 7.395772 TGGTGATAGATGTTCAGATATCTCTCC 59.604 40.741 1.03 0.00 35.61 3.71
7866 11317 7.147915 GGTGATAGATGTTCAGATATCTCTCCC 60.148 44.444 1.03 0.00 35.61 4.30
7867 11318 7.615365 GTGATAGATGTTCAGATATCTCTCCCT 59.385 40.741 1.03 0.00 35.61 4.20
7868 11319 8.840751 TGATAGATGTTCAGATATCTCTCCCTA 58.159 37.037 1.03 1.13 35.61 3.53
7869 11320 9.693739 GATAGATGTTCAGATATCTCTCCCTAA 57.306 37.037 1.03 0.00 35.61 2.69
7883 11334 7.664552 TCTCTCCCTAATAATAAAACACGGA 57.335 36.000 0.00 0.00 0.00 4.69
7884 11335 8.258850 TCTCTCCCTAATAATAAAACACGGAT 57.741 34.615 0.00 0.00 0.00 4.18
7885 11336 8.365647 TCTCTCCCTAATAATAAAACACGGATC 58.634 37.037 0.00 0.00 0.00 3.36
7886 11337 7.149973 TCTCCCTAATAATAAAACACGGATCG 58.850 38.462 0.00 0.00 0.00 3.69
7887 11338 7.014518 TCTCCCTAATAATAAAACACGGATCGA 59.985 37.037 0.00 0.00 0.00 3.59
7888 11339 7.673180 TCCCTAATAATAAAACACGGATCGAT 58.327 34.615 0.00 0.00 0.00 3.59
7889 11340 8.152246 TCCCTAATAATAAAACACGGATCGATT 58.848 33.333 0.00 0.00 0.00 3.34
7890 11341 8.780249 CCCTAATAATAAAACACGGATCGATTT 58.220 33.333 0.00 0.00 0.00 2.17
7894 11345 9.498307 AATAATAAAACACGGATCGATTTTGTC 57.502 29.630 0.00 0.00 33.60 3.18
7895 11346 4.822036 AAAACACGGATCGATTTTGTCA 57.178 36.364 0.00 0.00 31.72 3.58
7896 11347 4.404507 AAACACGGATCGATTTTGTCAG 57.595 40.909 0.00 0.00 0.00 3.51
7897 11348 2.346803 ACACGGATCGATTTTGTCAGG 58.653 47.619 0.00 0.00 0.00 3.86
7898 11349 2.289444 ACACGGATCGATTTTGTCAGGT 60.289 45.455 0.00 0.00 0.00 4.00
7899 11350 2.742053 CACGGATCGATTTTGTCAGGTT 59.258 45.455 0.00 0.00 0.00 3.50
7900 11351 3.000727 ACGGATCGATTTTGTCAGGTTC 58.999 45.455 0.00 0.00 0.00 3.62
7901 11352 3.000041 CGGATCGATTTTGTCAGGTTCA 59.000 45.455 0.00 0.00 0.00 3.18
7902 11353 3.181520 CGGATCGATTTTGTCAGGTTCAC 60.182 47.826 0.00 0.00 0.00 3.18
7903 11354 4.003648 GGATCGATTTTGTCAGGTTCACT 58.996 43.478 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
344 347 1.079503 GAAGCGTCCAGTGACCATTC 58.920 55.000 0.00 0.00 38.32 2.67
461 473 0.946221 GCACGCACAGCAGTTAGTCT 60.946 55.000 0.00 0.00 0.00 3.24
570 597 6.992715 ACAAAGAGAGTAGTTTACATGCTTGT 59.007 34.615 10.40 10.40 39.98 3.16
645 672 2.606378 ACCCCCTCCGTCTCATAATAC 58.394 52.381 0.00 0.00 0.00 1.89
653 680 1.532038 ATCTACTACCCCCTCCGTCT 58.468 55.000 0.00 0.00 0.00 4.18
656 683 3.234234 TGTAATCTACTACCCCCTCCG 57.766 52.381 0.00 0.00 0.00 4.63
733 804 0.821301 TGGGCTGTCGCATTCAAACA 60.821 50.000 0.00 0.00 38.10 2.83
755 827 0.453390 CTCGATTCAAAAGCAGGGCC 59.547 55.000 0.00 0.00 0.00 5.80
832 912 7.037438 GGTAAATCCGCCGTATAAGATTCATA 58.963 38.462 0.00 0.00 0.00 2.15
859 940 0.376152 CGTCACTCCGTGTACGCTAT 59.624 55.000 4.67 0.00 38.18 2.97
972 1057 3.369388 AGGGAGGGAGGGAGGGAC 61.369 72.222 0.00 0.00 0.00 4.46
1180 1267 0.815615 GATGGAGCGCCTAGGGTTTG 60.816 60.000 11.72 0.00 34.31 2.93
1233 1320 3.606662 GCGGCGGCCATAGAGAGA 61.607 66.667 20.71 0.00 0.00 3.10
1445 1542 3.044986 CAAAACAAGGTGAGCGAACATG 58.955 45.455 0.00 0.00 0.00 3.21
1813 2321 9.034544 GGATTTTTATCCATTACATTCAACTGC 57.965 33.333 0.00 0.00 40.43 4.40
1832 2340 5.374071 ACTGAGAGTAACCAACGGATTTTT 58.626 37.500 0.00 0.00 0.00 1.94
1833 2341 4.969484 ACTGAGAGTAACCAACGGATTTT 58.031 39.130 0.00 0.00 0.00 1.82
1881 2389 6.098266 ACTTTATTCCAAACAAAGGACAGCTT 59.902 34.615 0.00 0.00 34.19 3.74
1947 2455 9.739276 AGAATCCAGAAGTTTTCACATGTTATA 57.261 29.630 0.00 0.00 0.00 0.98
1949 2457 8.463930 AAGAATCCAGAAGTTTTCACATGTTA 57.536 30.769 0.00 0.00 0.00 2.41
1951 2459 6.774656 AGAAGAATCCAGAAGTTTTCACATGT 59.225 34.615 0.00 0.00 0.00 3.21
1952 2460 7.040892 TGAGAAGAATCCAGAAGTTTTCACATG 60.041 37.037 0.00 0.00 0.00 3.21
1953 2461 7.000472 TGAGAAGAATCCAGAAGTTTTCACAT 59.000 34.615 0.00 0.00 0.00 3.21
1954 2462 6.356556 TGAGAAGAATCCAGAAGTTTTCACA 58.643 36.000 0.00 0.00 0.00 3.58
1955 2463 6.867662 TGAGAAGAATCCAGAAGTTTTCAC 57.132 37.500 0.00 0.00 0.00 3.18
2197 3244 8.394971 TGGAACGATCATATAATGCATCTTTT 57.605 30.769 0.00 0.00 0.00 2.27
2263 3310 2.879103 ATCCTTCCGGTGTTCATTGT 57.121 45.000 0.00 0.00 0.00 2.71
2372 3533 1.488812 CTACGGAATTGGGGTGATGGA 59.511 52.381 0.00 0.00 0.00 3.41
2415 3577 5.121454 GCCAGACACAGAAAACATTCTAGAG 59.879 44.000 0.00 0.00 0.00 2.43
2424 3587 2.423538 ACAGTTGCCAGACACAGAAAAC 59.576 45.455 0.00 0.00 0.00 2.43
2459 3622 9.579932 GGATTTTCTTCAGGGATTATTAGATGT 57.420 33.333 0.00 0.00 0.00 3.06
2483 3646 4.586421 TGCACCATAAAAAGAACACATGGA 59.414 37.500 5.94 0.00 38.77 3.41
2484 3647 4.880759 TGCACCATAAAAAGAACACATGG 58.119 39.130 0.00 0.00 41.60 3.66
2584 3751 6.377327 ACACAGGAACAGAAAAATACACAG 57.623 37.500 0.00 0.00 0.00 3.66
2660 3827 7.563020 TCTTCTCTCTATCAATGCAGTGAAAT 58.437 34.615 21.97 8.28 0.00 2.17
2666 3833 6.146601 TGACTCTTCTCTCTATCAATGCAG 57.853 41.667 0.00 0.00 0.00 4.41
2716 3883 3.701040 CCTTGCTTGGGCTATTGTATGTT 59.299 43.478 0.00 0.00 39.59 2.71
2719 3886 2.310538 GCCTTGCTTGGGCTATTGTAT 58.689 47.619 7.67 0.00 45.57 2.29
2742 3909 1.335182 CATTGTGTTGTGCGTTGGGTA 59.665 47.619 0.00 0.00 0.00 3.69
2749 3916 1.240641 TAGGGGCATTGTGTTGTGCG 61.241 55.000 0.00 0.00 42.15 5.34
2761 3928 1.822613 CGACTAGCGTCTAGGGGCA 60.823 63.158 15.28 0.00 38.03 5.36
2803 3970 2.663196 GGGCGTGTCTAGGCTTGT 59.337 61.111 0.00 0.00 37.80 3.16
2810 3977 3.449227 CTCTGGCGGGCGTGTCTA 61.449 66.667 0.00 0.00 0.00 2.59
2830 3997 4.473520 CGGGGGCTAGGCAGTGTG 62.474 72.222 19.14 0.00 0.00 3.82
2831 3998 4.715130 TCGGGGGCTAGGCAGTGT 62.715 66.667 19.14 0.00 0.00 3.55
2844 4011 1.806542 CCTCAACACAATCAAGTCGGG 59.193 52.381 0.00 0.00 0.00 5.14
2859 4026 0.538977 AACCTCGACCGTCTCCTCAA 60.539 55.000 0.00 0.00 0.00 3.02
2881 4048 0.302890 CATCTTCGACAATGCTCGGC 59.697 55.000 5.66 0.00 34.27 5.54
2884 4051 3.615614 GCAATCATCTTCGACAATGCTC 58.384 45.455 2.05 0.00 0.00 4.26
2893 4060 3.795659 CATCATGACGCAATCATCTTCG 58.204 45.455 0.00 0.00 45.52 3.79
2940 4107 4.065281 CGTGTCCTCGGTCACCCC 62.065 72.222 7.56 0.00 32.14 4.95
2943 4110 4.736896 GGGCGTGTCCTCGGTCAC 62.737 72.222 3.66 3.66 34.39 3.67
2977 4738 1.004394 TGCTTCTCGTCTCCTACCTCA 59.996 52.381 0.00 0.00 0.00 3.86
2987 4748 2.349912 GGCAAGAAACTTGCTTCTCGTC 60.350 50.000 27.35 11.72 44.36 4.20
2988 4749 1.604278 GGCAAGAAACTTGCTTCTCGT 59.396 47.619 27.35 0.00 44.36 4.18
2994 4755 1.484038 TTGGTGGCAAGAAACTTGCT 58.516 45.000 27.35 0.00 44.36 3.91
3185 4954 2.034179 TCTCGCTCGTCAAGTTCTTCAA 59.966 45.455 0.00 0.00 0.00 2.69
3186 4955 1.607148 TCTCGCTCGTCAAGTTCTTCA 59.393 47.619 0.00 0.00 0.00 3.02
3218 4987 2.493675 TGCTATGACGCTCTCTTTGAGT 59.506 45.455 0.00 0.00 44.41 3.41
3274 5043 2.434843 CGGATGCCCTCTAGTGCCA 61.435 63.158 0.00 0.00 0.00 4.92
3276 5045 1.227380 CACGGATGCCCTCTAGTGC 60.227 63.158 0.00 0.00 0.00 4.40
3406 5175 1.561643 CACCAGCTAGTCTCCCTGAA 58.438 55.000 0.00 0.00 0.00 3.02
3497 5266 0.888736 CAAGATGGTGGTTGGCGACA 60.889 55.000 7.28 0.00 39.83 4.35
3612 5381 0.898320 CAATCAGTCTCCGGGTCTGT 59.102 55.000 0.00 0.00 0.00 3.41
3614 5383 1.617947 GGCAATCAGTCTCCGGGTCT 61.618 60.000 0.00 0.00 0.00 3.85
3737 5507 3.845992 TCCCAGATTGACAAGATCCTCAA 59.154 43.478 0.00 0.00 0.00 3.02
3817 5593 0.822164 GGCGCCTAACCTTAGTCAGA 59.178 55.000 22.15 0.00 0.00 3.27
4454 6235 2.616765 CCCCATGTTCGTGTTGGTGATA 60.617 50.000 0.00 0.00 0.00 2.15
4604 6419 1.712081 CATTGCTCTTCGAGGTGCG 59.288 57.895 15.48 0.00 42.69 5.34
4656 6471 8.788238 AATAATTTTGGGCCTCTTCTGAATAT 57.212 30.769 4.53 0.00 0.00 1.28
4657 6472 8.608185 AAATAATTTTGGGCCTCTTCTGAATA 57.392 30.769 4.53 0.00 0.00 1.75
4706 6521 6.978343 TGATTTCTAACCAATACACTTCCG 57.022 37.500 0.00 0.00 0.00 4.30
5154 7124 1.351017 CACCCTTTGGCACTCTTCCTA 59.649 52.381 0.00 0.00 33.59 2.94
5314 7285 0.185901 GGGCAGCCAATCCCATAGAA 59.814 55.000 15.19 0.00 42.18 2.10
5343 7314 3.174265 GCTGGCTGGCTATCCCCT 61.174 66.667 2.00 0.00 0.00 4.79
5354 7325 1.516110 ATACAGGGATCAAGCTGGCT 58.484 50.000 0.00 0.00 0.00 4.75
5439 7430 0.181114 AAGCTTGACACTGACAGCCA 59.819 50.000 0.00 0.00 0.00 4.75
5567 7558 7.224949 TCACGTATGTAACTTTGTTGTGAATCA 59.775 33.333 0.00 0.00 31.55 2.57
5788 7779 1.875514 TCTTTCAGCTGCATGTGTGAC 59.124 47.619 9.47 0.00 0.00 3.67
6265 9683 7.712639 TCTGTAGGCAGAGCAATTAATAAGAAG 59.287 37.037 0.00 0.00 45.94 2.85
6367 9785 5.463392 TCTGAATTCTCACACTTGTTCTTCG 59.537 40.000 7.05 0.00 0.00 3.79
6429 9847 9.884465 GAACATCCTGATTAGTTTGTATAATGC 57.116 33.333 0.00 0.00 0.00 3.56
6753 10173 2.747436 CTTTGTTTCCTTTCTGCCTGC 58.253 47.619 0.00 0.00 0.00 4.85
7030 10450 1.278985 CACATACCACAGCTCCCAGAA 59.721 52.381 0.00 0.00 0.00 3.02
7347 10767 3.721035 CTGCGACACTTATCATGGATCA 58.279 45.455 0.00 0.00 0.00 2.92
7355 10775 3.433615 AGTTCAAAGCTGCGACACTTATC 59.566 43.478 0.00 0.00 0.00 1.75
7385 10805 3.971305 TCCATATGAAGTACACCCCGATT 59.029 43.478 3.65 0.00 0.00 3.34
7518 10947 1.843992 AAGTTTTCAGCGCTTGCAAG 58.156 45.000 22.44 22.44 42.66 4.01
7590 11036 6.575162 ATGACCTTGGATGAACAGTAAAAC 57.425 37.500 0.00 0.00 0.00 2.43
7700 11150 7.707893 ACGAACAAGTAGTTAGCAGTTTTTCTA 59.292 33.333 0.00 0.00 41.51 2.10
7703 11153 6.673154 ACGAACAAGTAGTTAGCAGTTTTT 57.327 33.333 0.00 0.00 41.51 1.94
7732 11183 5.339695 CCCAGCCCCTAGTTTGTTTTATCTA 60.340 44.000 0.00 0.00 0.00 1.98
7745 11196 4.162690 GCACGTCCCAGCCCCTAG 62.163 72.222 0.00 0.00 0.00 3.02
7768 11219 3.064987 TACTTCTCAGGAGGCGCGC 62.065 63.158 25.94 25.94 0.00 6.86
7769 11220 1.226717 GTACTTCTCAGGAGGCGCG 60.227 63.158 0.00 0.00 0.00 6.86
7770 11221 1.142097 GGTACTTCTCAGGAGGCGC 59.858 63.158 0.00 0.00 0.00 6.53
7771 11222 0.684805 AGGGTACTTCTCAGGAGGCG 60.685 60.000 0.00 0.00 0.00 5.52
7772 11223 1.116308 GAGGGTACTTCTCAGGAGGC 58.884 60.000 10.45 0.00 0.00 4.70
7773 11224 2.383855 CAGAGGGTACTTCTCAGGAGG 58.616 57.143 15.46 0.00 33.92 4.30
7774 11225 1.754226 GCAGAGGGTACTTCTCAGGAG 59.246 57.143 15.46 0.00 33.92 3.69
7775 11226 1.853963 GCAGAGGGTACTTCTCAGGA 58.146 55.000 15.46 0.00 33.92 3.86
7776 11227 0.457851 CGCAGAGGGTACTTCTCAGG 59.542 60.000 15.46 9.98 33.92 3.86
7777 11228 0.457851 CCGCAGAGGGTACTTCTCAG 59.542 60.000 15.46 10.45 35.97 3.35
7778 11229 0.251653 ACCGCAGAGGGTACTTCTCA 60.252 55.000 15.46 0.00 46.96 3.27
7779 11230 0.173708 CACCGCAGAGGGTACTTCTC 59.826 60.000 0.00 8.16 46.96 2.87
7780 11231 1.889530 GCACCGCAGAGGGTACTTCT 61.890 60.000 0.00 0.00 46.96 2.85
7781 11232 1.448013 GCACCGCAGAGGGTACTTC 60.448 63.158 0.00 0.00 46.96 3.01
7782 11233 2.663196 GCACCGCAGAGGGTACTT 59.337 61.111 0.00 0.00 46.96 2.24
7783 11234 3.391382 GGCACCGCAGAGGGTACT 61.391 66.667 0.00 0.00 46.96 2.73
7784 11235 3.665675 CTGGCACCGCAGAGGGTAC 62.666 68.421 0.00 0.00 46.96 3.34
7785 11236 3.390521 CTGGCACCGCAGAGGGTA 61.391 66.667 0.00 0.00 46.96 3.69
7789 11240 2.185350 CTACCTGGCACCGCAGAG 59.815 66.667 0.00 0.00 0.00 3.35
7790 11241 3.390521 CCTACCTGGCACCGCAGA 61.391 66.667 0.00 0.00 0.00 4.26
7799 11250 2.590007 GAGCGCATGCCTACCTGG 60.590 66.667 13.15 0.00 44.31 4.45
7800 11251 0.745845 AAAGAGCGCATGCCTACCTG 60.746 55.000 13.15 0.00 44.31 4.00
7801 11252 0.830648 TAAAGAGCGCATGCCTACCT 59.169 50.000 13.15 3.20 44.31 3.08
7802 11253 0.938008 GTAAAGAGCGCATGCCTACC 59.062 55.000 13.15 0.00 44.31 3.18
7803 11254 0.577269 CGTAAAGAGCGCATGCCTAC 59.423 55.000 13.15 1.57 44.31 3.18
7804 11255 0.529773 CCGTAAAGAGCGCATGCCTA 60.530 55.000 13.15 0.00 44.31 3.93
7805 11256 1.815421 CCGTAAAGAGCGCATGCCT 60.815 57.895 13.15 10.37 44.31 4.75
7806 11257 0.808453 TACCGTAAAGAGCGCATGCC 60.808 55.000 13.15 4.99 44.31 4.40
7807 11258 0.300789 GTACCGTAAAGAGCGCATGC 59.699 55.000 11.47 7.91 43.24 4.06
7808 11259 0.928229 GGTACCGTAAAGAGCGCATG 59.072 55.000 11.47 0.00 0.00 4.06
7809 11260 0.822164 AGGTACCGTAAAGAGCGCAT 59.178 50.000 11.47 0.00 0.00 4.73
7810 11261 0.604578 AAGGTACCGTAAAGAGCGCA 59.395 50.000 11.47 0.00 0.00 6.09
7811 11262 1.718396 AAAGGTACCGTAAAGAGCGC 58.282 50.000 6.18 0.00 0.00 5.92
7812 11263 2.343544 CGAAAAGGTACCGTAAAGAGCG 59.656 50.000 6.18 0.26 0.00 5.03
7813 11264 3.320626 ACGAAAAGGTACCGTAAAGAGC 58.679 45.455 6.18 0.00 34.52 4.09
7814 11265 7.586714 ATTAACGAAAAGGTACCGTAAAGAG 57.413 36.000 6.18 0.00 35.28 2.85
7815 11266 7.095271 CCAATTAACGAAAAGGTACCGTAAAGA 60.095 37.037 6.18 0.00 35.28 2.52
7816 11267 7.017055 CCAATTAACGAAAAGGTACCGTAAAG 58.983 38.462 6.18 2.22 35.28 1.85
7817 11268 6.484977 ACCAATTAACGAAAAGGTACCGTAAA 59.515 34.615 6.18 0.00 35.28 2.01
7818 11269 5.994668 ACCAATTAACGAAAAGGTACCGTAA 59.005 36.000 6.18 0.00 35.28 3.18
7819 11270 5.407995 CACCAATTAACGAAAAGGTACCGTA 59.592 40.000 6.18 0.00 35.28 4.02
7820 11271 4.213906 CACCAATTAACGAAAAGGTACCGT 59.786 41.667 6.18 0.00 38.24 4.83
7821 11272 4.451774 TCACCAATTAACGAAAAGGTACCG 59.548 41.667 6.18 0.00 30.71 4.02
7822 11273 5.945466 TCACCAATTAACGAAAAGGTACC 57.055 39.130 2.73 2.73 30.71 3.34
7823 11274 8.483307 TCTATCACCAATTAACGAAAAGGTAC 57.517 34.615 0.00 0.00 30.71 3.34
7824 11275 9.104965 CATCTATCACCAATTAACGAAAAGGTA 57.895 33.333 0.00 0.00 30.71 3.08
7825 11276 7.610305 ACATCTATCACCAATTAACGAAAAGGT 59.390 33.333 0.00 0.00 31.66 3.50
7826 11277 7.985476 ACATCTATCACCAATTAACGAAAAGG 58.015 34.615 0.00 0.00 0.00 3.11
7827 11278 9.490663 GAACATCTATCACCAATTAACGAAAAG 57.509 33.333 0.00 0.00 0.00 2.27
7828 11279 9.004717 TGAACATCTATCACCAATTAACGAAAA 57.995 29.630 0.00 0.00 0.00 2.29
7829 11280 8.554835 TGAACATCTATCACCAATTAACGAAA 57.445 30.769 0.00 0.00 0.00 3.46
7830 11281 8.038351 TCTGAACATCTATCACCAATTAACGAA 58.962 33.333 0.00 0.00 0.00 3.85
7831 11282 7.552459 TCTGAACATCTATCACCAATTAACGA 58.448 34.615 0.00 0.00 0.00 3.85
7832 11283 7.770801 TCTGAACATCTATCACCAATTAACG 57.229 36.000 0.00 0.00 0.00 3.18
7836 11287 9.941325 GAGATATCTGAACATCTATCACCAATT 57.059 33.333 10.74 0.00 31.63 2.32
7837 11288 9.324008 AGAGATATCTGAACATCTATCACCAAT 57.676 33.333 10.74 0.00 31.63 3.16
7838 11289 8.718158 AGAGATATCTGAACATCTATCACCAA 57.282 34.615 10.74 0.00 31.63 3.67
7839 11290 7.395772 GGAGAGATATCTGAACATCTATCACCA 59.604 40.741 10.74 0.00 39.95 4.17
7840 11291 7.147915 GGGAGAGATATCTGAACATCTATCACC 60.148 44.444 10.74 16.24 39.95 4.02
7841 11292 7.615365 AGGGAGAGATATCTGAACATCTATCAC 59.385 40.741 10.74 18.05 41.26 3.06
7842 11293 7.707648 AGGGAGAGATATCTGAACATCTATCA 58.292 38.462 10.74 0.00 39.95 2.15
7843 11294 9.693739 TTAGGGAGAGATATCTGAACATCTATC 57.306 37.037 10.74 14.24 38.31 2.08
7857 11308 9.370930 TCCGTGTTTTATTATTAGGGAGAGATA 57.629 33.333 0.00 0.00 0.00 1.98
7858 11309 8.258850 TCCGTGTTTTATTATTAGGGAGAGAT 57.741 34.615 0.00 0.00 0.00 2.75
7859 11310 7.664552 TCCGTGTTTTATTATTAGGGAGAGA 57.335 36.000 0.00 0.00 0.00 3.10
7860 11311 7.328737 CGATCCGTGTTTTATTATTAGGGAGAG 59.671 40.741 0.00 0.00 0.00 3.20
7861 11312 7.014518 TCGATCCGTGTTTTATTATTAGGGAGA 59.985 37.037 0.00 0.00 0.00 3.71
7862 11313 7.149973 TCGATCCGTGTTTTATTATTAGGGAG 58.850 38.462 0.00 0.00 0.00 4.30
7863 11314 7.053316 TCGATCCGTGTTTTATTATTAGGGA 57.947 36.000 0.00 0.00 0.00 4.20
7864 11315 7.900782 ATCGATCCGTGTTTTATTATTAGGG 57.099 36.000 0.00 0.00 0.00 3.53
7868 11319 9.498307 GACAAAATCGATCCGTGTTTTATTATT 57.502 29.630 0.00 0.00 30.30 1.40
7869 11320 8.670135 TGACAAAATCGATCCGTGTTTTATTAT 58.330 29.630 0.00 0.00 30.30 1.28
7870 11321 8.030744 TGACAAAATCGATCCGTGTTTTATTA 57.969 30.769 0.00 0.00 30.30 0.98
7871 11322 6.904498 TGACAAAATCGATCCGTGTTTTATT 58.096 32.000 0.00 0.00 30.30 1.40
7872 11323 6.403200 CCTGACAAAATCGATCCGTGTTTTAT 60.403 38.462 0.00 0.00 30.30 1.40
7873 11324 5.106869 CCTGACAAAATCGATCCGTGTTTTA 60.107 40.000 0.00 0.00 30.30 1.52
7874 11325 4.320202 CCTGACAAAATCGATCCGTGTTTT 60.320 41.667 0.00 0.00 0.00 2.43
7875 11326 3.188460 CCTGACAAAATCGATCCGTGTTT 59.812 43.478 0.00 0.00 0.00 2.83
7876 11327 2.742053 CCTGACAAAATCGATCCGTGTT 59.258 45.455 0.00 0.00 0.00 3.32
7877 11328 2.289444 ACCTGACAAAATCGATCCGTGT 60.289 45.455 0.00 3.16 0.00 4.49
7878 11329 2.346803 ACCTGACAAAATCGATCCGTG 58.653 47.619 0.00 0.00 0.00 4.94
7879 11330 2.762535 ACCTGACAAAATCGATCCGT 57.237 45.000 0.00 0.00 0.00 4.69
7880 11331 3.000041 TGAACCTGACAAAATCGATCCG 59.000 45.455 0.00 0.00 0.00 4.18
7881 11332 4.003648 AGTGAACCTGACAAAATCGATCC 58.996 43.478 0.00 0.00 0.00 3.36
7882 11333 4.452455 ACAGTGAACCTGACAAAATCGATC 59.548 41.667 0.00 0.00 44.49 3.69
7883 11334 4.389374 ACAGTGAACCTGACAAAATCGAT 58.611 39.130 0.00 0.00 44.49 3.59
7884 11335 3.804036 ACAGTGAACCTGACAAAATCGA 58.196 40.909 0.00 0.00 44.49 3.59
7885 11336 4.133856 GACAGTGAACCTGACAAAATCG 57.866 45.455 0.00 0.00 44.49 3.34


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

AutoCloner maintained by Alex Coulton.