Multiple sequence alignment - TraesCS1A01G321500

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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 TraesCS1A01G321500 chr1A 100.000 3032 0 0 1 3032 512041215 512038184 0.000000e+00 5600.0
1 TraesCS1A01G321500 chr1A 87.791 1548 85 38 817 2308 511636373 511634874 0.000000e+00 1716.0
2 TraesCS1A01G321500 chr1A 88.841 1165 99 11 2 1138 511791553 511790392 0.000000e+00 1402.0
3 TraesCS1A01G321500 chr1A 92.458 769 56 2 2 768 511637140 511636372 0.000000e+00 1098.0
4 TraesCS1A01G321500 chr1A 87.627 889 98 8 2 888 512019405 512018527 0.000000e+00 1022.0
5 TraesCS1A01G321500 chr1A 85.082 791 57 31 1977 2714 511784853 511784071 0.000000e+00 750.0
6 TraesCS1A01G321500 chr1A 83.817 655 69 19 1456 2102 512461280 512460655 3.370000e-164 588.0
7 TraesCS1A01G321500 chr1A 89.165 443 42 2 1110 1546 512018384 512017942 5.720000e-152 547.0
8 TraesCS1A01G321500 chr1A 96.541 318 9 2 2715 3032 3127705 3128020 2.680000e-145 525.0
9 TraesCS1A01G321500 chr1A 96.541 318 10 1 2715 3032 270146818 270146502 2.680000e-145 525.0
10 TraesCS1A01G321500 chr1A 84.962 532 54 12 1545 2073 514257466 514257974 1.610000e-142 516.0
11 TraesCS1A01G321500 chr1A 88.862 413 32 5 2313 2712 129655650 129655239 2.100000e-136 496.0
12 TraesCS1A01G321500 chr1A 89.300 243 22 4 1240 1480 511789919 511789679 4.910000e-78 302.0
13 TraesCS1A01G321500 chr1A 89.855 138 8 2 1110 1247 512461905 512461774 4.020000e-39 172.0
14 TraesCS1A01G321500 chr1A 100.000 34 0 0 1421 1454 512461345 512461312 2.520000e-06 63.9
15 TraesCS1A01G321500 chr1B 85.399 2356 218 56 5 2288 560790221 560787920 0.000000e+00 2329.0
16 TraesCS1A01G321500 chr1B 82.631 783 77 24 1451 2213 561157088 561156345 3.300000e-179 638.0
17 TraesCS1A01G321500 chr1B 85.396 493 50 10 1584 2073 563787783 563788256 2.720000e-135 492.0
18 TraesCS1A01G321500 chr1B 84.127 189 12 5 1071 1247 561257133 561256951 1.870000e-37 167.0
19 TraesCS1A01G321500 chr1B 87.075 147 10 7 1110 1247 561157718 561157572 1.130000e-34 158.0
20 TraesCS1A01G321500 chr1B 97.143 35 1 0 1420 1454 561157145 561157111 3.260000e-05 60.2
21 TraesCS1A01G321500 chr1B 96.875 32 1 0 859 890 563787166 563787197 2.000000e-03 54.7
22 TraesCS1A01G321500 chr1B 96.875 32 1 0 859 890 563847191 563847222 2.000000e-03 54.7
23 TraesCS1A01G321500 chr1D 89.332 1706 110 21 665 2309 414942151 414940457 0.000000e+00 2076.0
24 TraesCS1A01G321500 chr1D 89.648 1536 91 19 833 2309 415054024 415052498 0.000000e+00 1893.0
25 TraesCS1A01G321500 chr1D 84.257 1353 176 28 5 1327 415059922 415058577 0.000000e+00 1284.0
26 TraesCS1A01G321500 chr1D 89.638 801 77 5 10 806 415054822 415054024 0.000000e+00 1014.0
27 TraesCS1A01G321500 chr1D 87.680 625 63 10 2 623 415039885 415039272 0.000000e+00 715.0
28 TraesCS1A01G321500 chr1D 85.388 657 66 13 1451 2102 415145634 415145003 0.000000e+00 654.0
29 TraesCS1A01G321500 chr1D 82.982 664 81 11 10 669 414942922 414942287 3.390000e-159 571.0
30 TraesCS1A01G321500 chr1D 89.486 428 26 5 2305 2713 415041843 415041416 9.630000e-145 523.0
31 TraesCS1A01G321500 chr1D 84.962 532 52 12 1545 2073 416986038 416986544 5.800000e-142 514.0
32 TraesCS1A01G321500 chr1D 88.511 235 23 3 535 765 416931089 416931323 6.400000e-72 281.0
33 TraesCS1A01G321500 chr1D 86.475 244 15 5 1016 1247 415146343 415146106 5.020000e-63 252.0
34 TraesCS1A01G321500 chr1D 81.979 283 27 11 1071 1329 416985662 416985944 5.090000e-53 219.0
35 TraesCS1A01G321500 chr3A 89.537 497 34 11 2550 3032 524501105 524500613 5.560000e-172 614.0
36 TraesCS1A01G321500 chr3A 95.988 324 11 2 2709 3032 510784279 510784600 2.680000e-145 525.0
37 TraesCS1A01G321500 chr3A 86.874 419 41 11 2618 3029 698819792 698820203 9.910000e-125 457.0
38 TraesCS1A01G321500 chr7A 96.855 318 9 1 2715 3032 558048218 558048534 5.760000e-147 531.0
39 TraesCS1A01G321500 chr7A 96.562 320 10 1 2713 3032 513572275 513571957 2.070000e-146 529.0
40 TraesCS1A01G321500 chr7A 96.552 319 10 1 2714 3032 430215963 430215646 7.450000e-146 527.0
41 TraesCS1A01G321500 chr2A 95.152 330 14 2 2703 3032 554747332 554747659 1.250000e-143 520.0
42 TraesCS1A01G321500 chr2D 88.194 432 28 3 2305 2713 151585818 151585387 7.550000e-136 494.0
43 TraesCS1A01G321500 chr6D 88.652 423 22 3 2310 2713 264781195 264781610 2.720000e-135 492.0
44 TraesCS1A01G321500 chr2B 87.617 428 33 7 2305 2713 8316705 8316279 2.110000e-131 479.0
45 TraesCS1A01G321500 chr2B 96.875 96 3 0 2618 2713 619170413 619170318 8.700000e-36 161.0
46 TraesCS1A01G321500 chrUn 85.124 484 50 9 1583 2063 305658877 305659341 2.740000e-130 475.0
47 TraesCS1A01G321500 chrUn 86.270 437 44 7 1630 2063 342934775 342935198 7.660000e-126 460.0
48 TraesCS1A01G321500 chrUn 90.000 200 20 0 535 734 305657927 305658126 3.000000e-65 259.0
49 TraesCS1A01G321500 chr3B 87.112 419 35 9 2314 2713 761763654 761764072 9.910000e-125 457.0
50 TraesCS1A01G321500 chr3B 87.283 173 13 5 2550 2713 738915770 738915598 3.990000e-44 189.0
51 TraesCS1A01G321500 chr3B 96.907 97 2 1 2618 2713 794262253 794262349 8.700000e-36 161.0
52 TraesCS1A01G321500 chr4A 93.640 283 18 0 2305 2587 655482080 655482362 1.000000e-114 424.0
53 TraesCS1A01G321500 chr4B 80.292 411 58 21 2618 3016 622455281 622455680 3.820000e-74 289.0
54 TraesCS1A01G321500 chr7D 86.170 282 20 1 2451 2713 594993676 594993395 1.380000e-73 287.0
55 TraesCS1A01G321500 chr7D 84.699 183 7 7 2550 2713 2760860 2760680 2.420000e-36 163.0
56 TraesCS1A01G321500 chr7D 96.907 97 2 1 2618 2713 490518260 490518164 8.700000e-36 161.0
57 TraesCS1A01G321500 chr3D 96.875 96 3 0 2618 2713 64625836 64625741 8.700000e-36 161.0


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 TraesCS1A01G321500 chr1A 512038184 512041215 3031 True 5600.000000 5600 100.000000 1 3032 1 chr1A.!!$R4 3031
1 TraesCS1A01G321500 chr1A 511634874 511637140 2266 True 1407.000000 1716 90.124500 2 2308 2 chr1A.!!$R5 2306
2 TraesCS1A01G321500 chr1A 511789679 511791553 1874 True 852.000000 1402 89.070500 2 1480 2 chr1A.!!$R6 1478
3 TraesCS1A01G321500 chr1A 512017942 512019405 1463 True 784.500000 1022 88.396000 2 1546 2 chr1A.!!$R7 1544
4 TraesCS1A01G321500 chr1A 511784071 511784853 782 True 750.000000 750 85.082000 1977 2714 1 chr1A.!!$R3 737
5 TraesCS1A01G321500 chr1A 514257466 514257974 508 False 516.000000 516 84.962000 1545 2073 1 chr1A.!!$F2 528
6 TraesCS1A01G321500 chr1A 512460655 512461905 1250 True 274.633333 588 91.224000 1110 2102 3 chr1A.!!$R8 992
7 TraesCS1A01G321500 chr1B 560787920 560790221 2301 True 2329.000000 2329 85.399000 5 2288 1 chr1B.!!$R1 2283
8 TraesCS1A01G321500 chr1B 561156345 561157718 1373 True 285.400000 638 88.949667 1110 2213 3 chr1B.!!$R3 1103
9 TraesCS1A01G321500 chr1B 563787166 563788256 1090 False 273.350000 492 91.135500 859 2073 2 chr1B.!!$F2 1214
10 TraesCS1A01G321500 chr1D 415052498 415059922 7424 True 1397.000000 1893 87.847667 5 2309 3 chr1D.!!$R3 2304
11 TraesCS1A01G321500 chr1D 414940457 414942922 2465 True 1323.500000 2076 86.157000 10 2309 2 chr1D.!!$R1 2299
12 TraesCS1A01G321500 chr1D 415039272 415041843 2571 True 619.000000 715 88.583000 2 2713 2 chr1D.!!$R2 2711
13 TraesCS1A01G321500 chr1D 415145003 415146343 1340 True 453.000000 654 85.931500 1016 2102 2 chr1D.!!$R4 1086
14 TraesCS1A01G321500 chr1D 416985662 416986544 882 False 366.500000 514 83.470500 1071 2073 2 chr1D.!!$F2 1002
15 TraesCS1A01G321500 chrUn 305657927 305659341 1414 False 367.000000 475 87.562000 535 2063 2 chrUn.!!$F2 1528

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
778 8011 0.391263 GTCCGAAGAGCCGACCATTT 60.391 55.0 0.0 0.0 0.0 2.32 F
1344 9144 0.179056 CCGCTCCAATACCCGAATGT 60.179 55.0 0.0 0.0 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1740 9995 0.247736 GGCCGTCTCCTGCATATAGG 59.752 60.0 0.0 0.0 39.29 2.57 R
2646 11004 0.532115 AAATCCGGCATGACCTTTGC 59.468 50.0 0.0 0.0 39.41 3.68 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
32 1990 1.625818 GTCACTGTCATCCCACCTCTT 59.374 52.381 0.00 0.00 0.00 2.85
53 2011 1.754745 GTGGCAAGGAGAGGACACA 59.245 57.895 0.00 0.00 0.00 3.72
463 2445 2.040606 GGCCTGGGACCTCTACCA 59.959 66.667 0.00 0.00 35.05 3.25
592 7672 4.946157 GCAGCTAGGCATTGGACATATATT 59.054 41.667 0.00 0.00 0.00 1.28
730 7953 4.706035 AGGTGAAGATCATGAGAAGATGC 58.294 43.478 0.09 0.00 0.00 3.91
778 8011 0.391263 GTCCGAAGAGCCGACCATTT 60.391 55.000 0.00 0.00 0.00 2.32
786 8019 2.283532 CCGACCATTTGGGCCCAA 60.284 61.111 34.07 34.07 41.34 4.12
1021 8347 1.467678 ATCGCCATCTTCCCCTCTCG 61.468 60.000 0.00 0.00 0.00 4.04
1060 8386 0.610687 CCAACTTCCTCTTCGGCTCT 59.389 55.000 0.00 0.00 0.00 4.09
1339 9139 1.372997 CGATCCGCTCCAATACCCG 60.373 63.158 0.00 0.00 0.00 5.28
1342 9142 1.002087 GATCCGCTCCAATACCCGAAT 59.998 52.381 0.00 0.00 0.00 3.34
1344 9144 0.179056 CCGCTCCAATACCCGAATGT 60.179 55.000 0.00 0.00 0.00 2.71
1449 9667 0.817634 CCGTCCAGTCCACTGCAAAA 60.818 55.000 0.76 0.00 42.47 2.44
1501 9725 4.634703 TTCTTTCCTGCGCGCCCA 62.635 61.111 30.77 10.31 0.00 5.36
1555 9785 1.845791 TGATGGGCTTGGCAGATAGAA 59.154 47.619 0.00 0.00 0.00 2.10
1570 9803 0.838987 TAGAAGAACACGGCCCCCTT 60.839 55.000 0.00 0.00 0.00 3.95
1581 9814 4.447342 CCCCCTTCTGCCGCCAAT 62.447 66.667 0.00 0.00 0.00 3.16
1624 9857 1.966901 AATCCACTATGTCGCCGCCA 61.967 55.000 0.00 0.00 0.00 5.69
1637 9876 1.152902 CCGCCACCATCACCATGAT 60.153 57.895 0.00 0.00 37.65 2.45
1669 9908 1.340889 AGGTACGTGCGTTGGTTAGAA 59.659 47.619 1.66 0.00 0.00 2.10
1672 9911 0.531090 ACGTGCGTTGGTTAGAAGCA 60.531 50.000 0.00 0.00 35.27 3.91
1686 9925 1.610522 AGAAGCATTTGCAAAGCTCGT 59.389 42.857 25.85 16.78 45.16 4.18
1687 9926 1.717645 GAAGCATTTGCAAAGCTCGTG 59.282 47.619 25.85 17.16 45.16 4.35
1740 9995 3.909430 TGAGTGATGACTAACAACGGAC 58.091 45.455 0.00 0.00 30.16 4.79
1810 10065 1.627297 GGAAGGAGGTGCGGGAGATT 61.627 60.000 0.00 0.00 0.00 2.40
1826 10089 1.204941 AGATTGAGTTCTTCCCGACGG 59.795 52.381 6.99 6.99 0.00 4.79
2007 10280 5.336744 TGAACGAGTTGTTGGATTGTTTTC 58.663 37.500 0.00 0.00 42.09 2.29
2047 10334 6.818644 TGTCATTTCTGGAGCTAATTACAGTC 59.181 38.462 0.00 0.00 32.92 3.51
2074 10361 3.049708 ACATGCATGTATCGGATGAGG 57.950 47.619 30.50 0.00 39.68 3.86
2234 10534 5.372373 TGCAATTCAATCGTATCATACCCA 58.628 37.500 0.00 0.00 0.00 4.51
2308 10616 2.158986 GCTGCATATGACCTCACTCACT 60.159 50.000 6.97 0.00 0.00 3.41
2311 10619 3.708121 TGCATATGACCTCACTCACTGAT 59.292 43.478 6.97 0.00 0.00 2.90
2314 10622 1.561643 TGACCTCACTCACTGATCCC 58.438 55.000 0.00 0.00 0.00 3.85
2324 10632 1.075896 ACTGATCCCCTCCGACCTC 60.076 63.158 0.00 0.00 0.00 3.85
2352 10660 3.823304 GAGAATAGCCAAATCCCCATGTC 59.177 47.826 0.00 0.00 0.00 3.06
2368 10676 4.868734 CCCATGTCGATGATGATGTAGATG 59.131 45.833 8.55 0.00 0.00 2.90
2378 10686 9.415544 CGATGATGATGTAGATGTTTTGATAGA 57.584 33.333 0.00 0.00 0.00 1.98
2426 10765 5.151297 TGTGACAATGTGATGAAGCTAGA 57.849 39.130 0.00 0.00 0.00 2.43
2429 10768 6.656270 TGTGACAATGTGATGAAGCTAGATTT 59.344 34.615 0.00 0.00 0.00 2.17
2489 10828 8.899427 TTGCATGGAATAGAAAATTTTCAACA 57.101 26.923 28.00 19.21 39.61 3.33
2512 10851 8.682936 ACATAGGTCTTTCAAATATGATGGAC 57.317 34.615 0.00 0.00 37.02 4.02
2595 10934 4.081050 GGAACACCTCCAAGTGGC 57.919 61.111 0.00 0.00 44.67 5.01
2596 10935 1.603739 GGAACACCTCCAAGTGGCC 60.604 63.158 0.00 0.00 44.67 5.36
2605 10944 2.493278 CCTCCAAGTGGCCTATGTTTTG 59.507 50.000 3.32 0.00 34.44 2.44
2608 10947 1.066929 CAAGTGGCCTATGTTTTGCCC 60.067 52.381 3.32 0.00 44.72 5.36
2609 10948 0.114168 AGTGGCCTATGTTTTGCCCA 59.886 50.000 3.32 0.00 44.72 5.36
2613 10952 1.066929 GGCCTATGTTTTGCCCAAGTG 60.067 52.381 0.00 0.00 39.30 3.16
2639 10997 0.032130 TTCAGGCGCTCGATATGTCC 59.968 55.000 7.64 0.00 0.00 4.02
2646 11004 3.238441 GCGCTCGATATGTCCTTTCTAG 58.762 50.000 0.00 0.00 0.00 2.43
2661 11019 0.107703 TCTAGCAAAGGTCATGCCGG 60.108 55.000 0.00 0.00 44.91 6.13
2688 11046 6.576662 TTTCCGTTAATTTTGGCATGACTA 57.423 33.333 0.00 0.00 0.00 2.59
2696 11054 4.551702 TTTTGGCATGACTAGTGCTAGA 57.448 40.909 12.65 0.00 42.16 2.43
2728 11086 8.414629 AGGAAATATCTTGAAGGAAATATGCC 57.585 34.615 0.00 0.00 0.00 4.40
2729 11087 7.452813 AGGAAATATCTTGAAGGAAATATGCCC 59.547 37.037 0.00 0.00 0.00 5.36
2730 11088 7.452813 GGAAATATCTTGAAGGAAATATGCCCT 59.547 37.037 0.00 0.00 0.00 5.19
2731 11089 9.520515 GAAATATCTTGAAGGAAATATGCCCTA 57.479 33.333 0.00 0.00 31.36 3.53
2732 11090 9.525826 AAATATCTTGAAGGAAATATGCCCTAG 57.474 33.333 0.00 0.00 31.36 3.02
2733 11091 6.770286 ATCTTGAAGGAAATATGCCCTAGA 57.230 37.500 0.00 0.00 31.36 2.43
2734 11092 6.179906 TCTTGAAGGAAATATGCCCTAGAG 57.820 41.667 0.00 0.00 31.36 2.43
2735 11093 4.982241 TGAAGGAAATATGCCCTAGAGG 57.018 45.455 0.00 0.00 39.47 3.69
2751 11109 7.881775 CCCTAGAGGCAATAATAAAGTTGTT 57.118 36.000 0.00 0.00 0.00 2.83
2752 11110 8.974060 CCCTAGAGGCAATAATAAAGTTGTTA 57.026 34.615 0.00 0.00 0.00 2.41
2753 11111 9.574516 CCCTAGAGGCAATAATAAAGTTGTTAT 57.425 33.333 0.00 0.00 0.00 1.89
2813 11171 7.867305 TCATGCTAAAATTGTATTAACCGGA 57.133 32.000 9.46 0.00 0.00 5.14
2814 11172 8.282455 TCATGCTAAAATTGTATTAACCGGAA 57.718 30.769 9.46 0.00 0.00 4.30
2815 11173 8.740906 TCATGCTAAAATTGTATTAACCGGAAA 58.259 29.630 9.46 1.61 0.00 3.13
2816 11174 8.803799 CATGCTAAAATTGTATTAACCGGAAAC 58.196 33.333 9.46 0.00 0.00 2.78
2817 11175 8.113173 TGCTAAAATTGTATTAACCGGAAACT 57.887 30.769 9.46 0.00 0.00 2.66
2818 11176 8.578151 TGCTAAAATTGTATTAACCGGAAACTT 58.422 29.630 9.46 0.00 0.00 2.66
2824 11182 9.723601 AATTGTATTAACCGGAAACTTAGTACA 57.276 29.630 9.46 10.88 28.23 2.90
2825 11183 9.895138 ATTGTATTAACCGGAAACTTAGTACAT 57.105 29.630 9.46 2.28 29.53 2.29
2826 11184 8.706492 TGTATTAACCGGAAACTTAGTACATG 57.294 34.615 9.46 0.00 0.00 3.21
2827 11185 8.313292 TGTATTAACCGGAAACTTAGTACATGT 58.687 33.333 9.46 2.69 0.00 3.21
2828 11186 7.605410 ATTAACCGGAAACTTAGTACATGTG 57.395 36.000 9.46 0.00 0.00 3.21
2829 11187 4.612264 ACCGGAAACTTAGTACATGTGT 57.388 40.909 9.46 0.00 0.00 3.72
2830 11188 4.312443 ACCGGAAACTTAGTACATGTGTG 58.688 43.478 9.46 0.00 0.00 3.82
2831 11189 4.039488 ACCGGAAACTTAGTACATGTGTGA 59.961 41.667 9.46 0.00 0.00 3.58
2832 11190 4.992319 CCGGAAACTTAGTACATGTGTGAA 59.008 41.667 9.11 0.00 0.00 3.18
2833 11191 5.642063 CCGGAAACTTAGTACATGTGTGAAT 59.358 40.000 9.11 0.00 0.00 2.57
2834 11192 6.814644 CCGGAAACTTAGTACATGTGTGAATA 59.185 38.462 9.11 0.00 0.00 1.75
2835 11193 7.201496 CCGGAAACTTAGTACATGTGTGAATAC 60.201 40.741 9.11 0.00 0.00 1.89
2836 11194 7.329962 CGGAAACTTAGTACATGTGTGAATACA 59.670 37.037 9.11 0.00 34.63 2.29
2837 11195 9.162764 GGAAACTTAGTACATGTGTGAATACAT 57.837 33.333 9.11 0.00 41.77 2.29
2845 11203 9.151471 AGTACATGTGTGAATACATAGACAAAC 57.849 33.333 9.11 0.00 39.17 2.93
2846 11204 7.977789 ACATGTGTGAATACATAGACAAACA 57.022 32.000 0.00 0.00 39.17 2.83
2847 11205 8.032952 ACATGTGTGAATACATAGACAAACAG 57.967 34.615 0.00 0.00 39.17 3.16
2848 11206 7.877612 ACATGTGTGAATACATAGACAAACAGA 59.122 33.333 0.00 0.00 39.17 3.41
2849 11207 8.720562 CATGTGTGAATACATAGACAAACAGAA 58.279 33.333 0.00 0.00 39.17 3.02
2850 11208 8.846943 TGTGTGAATACATAGACAAACAGAAT 57.153 30.769 0.00 0.00 39.39 2.40
2851 11209 8.720562 TGTGTGAATACATAGACAAACAGAATG 58.279 33.333 0.00 0.00 40.12 2.67
2852 11210 8.721478 GTGTGAATACATAGACAAACAGAATGT 58.279 33.333 0.00 0.00 46.47 2.71
2866 11224 4.264460 CAGAATGTCCCTAGTATGCCTC 57.736 50.000 0.00 0.00 0.00 4.70
2867 11225 3.900601 CAGAATGTCCCTAGTATGCCTCT 59.099 47.826 0.00 0.00 0.00 3.69
2868 11226 5.080337 CAGAATGTCCCTAGTATGCCTCTA 58.920 45.833 0.00 0.00 0.00 2.43
2869 11227 5.047660 CAGAATGTCCCTAGTATGCCTCTAC 60.048 48.000 0.00 0.00 0.00 2.59
2870 11228 4.750833 ATGTCCCTAGTATGCCTCTACT 57.249 45.455 0.00 0.00 36.04 2.57
2871 11229 4.537945 TGTCCCTAGTATGCCTCTACTT 57.462 45.455 0.00 0.00 33.96 2.24
2872 11230 4.215908 TGTCCCTAGTATGCCTCTACTTG 58.784 47.826 0.00 0.00 33.96 3.16
2873 11231 4.079385 TGTCCCTAGTATGCCTCTACTTGA 60.079 45.833 0.00 0.00 33.96 3.02
2874 11232 4.278919 GTCCCTAGTATGCCTCTACTTGAC 59.721 50.000 0.00 0.00 33.96 3.18
2875 11233 4.168283 TCCCTAGTATGCCTCTACTTGACT 59.832 45.833 0.00 0.00 33.96 3.41
2876 11234 5.371769 TCCCTAGTATGCCTCTACTTGACTA 59.628 44.000 0.00 0.00 33.96 2.59
2877 11235 5.708230 CCCTAGTATGCCTCTACTTGACTAG 59.292 48.000 0.00 0.00 36.32 2.57
2878 11236 5.182380 CCTAGTATGCCTCTACTTGACTAGC 59.818 48.000 0.00 0.00 35.60 3.42
2879 11237 4.798882 AGTATGCCTCTACTTGACTAGCT 58.201 43.478 0.00 0.00 0.00 3.32
2880 11238 4.825085 AGTATGCCTCTACTTGACTAGCTC 59.175 45.833 0.00 0.00 0.00 4.09
2881 11239 2.017782 TGCCTCTACTTGACTAGCTCG 58.982 52.381 0.00 0.00 0.00 5.03
2882 11240 2.018515 GCCTCTACTTGACTAGCTCGT 58.981 52.381 0.00 0.00 0.00 4.18
2883 11241 2.424246 GCCTCTACTTGACTAGCTCGTT 59.576 50.000 0.00 0.00 0.00 3.85
2884 11242 3.732471 GCCTCTACTTGACTAGCTCGTTG 60.732 52.174 0.00 0.00 0.00 4.10
2885 11243 3.690139 CCTCTACTTGACTAGCTCGTTGA 59.310 47.826 0.00 0.00 0.00 3.18
2886 11244 4.156190 CCTCTACTTGACTAGCTCGTTGAA 59.844 45.833 0.00 0.00 0.00 2.69
2887 11245 5.163602 CCTCTACTTGACTAGCTCGTTGAAT 60.164 44.000 0.00 0.00 0.00 2.57
2888 11246 5.881447 TCTACTTGACTAGCTCGTTGAATC 58.119 41.667 0.00 0.00 0.00 2.52
2889 11247 4.521130 ACTTGACTAGCTCGTTGAATCA 57.479 40.909 0.00 0.00 0.00 2.57
2890 11248 4.883083 ACTTGACTAGCTCGTTGAATCAA 58.117 39.130 0.00 0.00 0.00 2.57
2891 11249 5.482908 ACTTGACTAGCTCGTTGAATCAAT 58.517 37.500 0.00 0.00 0.00 2.57
2892 11250 5.349817 ACTTGACTAGCTCGTTGAATCAATG 59.650 40.000 8.82 8.82 0.00 2.82
2893 11251 5.072040 TGACTAGCTCGTTGAATCAATGA 57.928 39.130 16.09 16.09 37.09 2.57
2894 11252 5.664457 TGACTAGCTCGTTGAATCAATGAT 58.336 37.500 17.14 7.33 38.47 2.45
2895 11253 5.521372 TGACTAGCTCGTTGAATCAATGATG 59.479 40.000 17.14 12.44 38.47 3.07
2896 11254 4.813161 ACTAGCTCGTTGAATCAATGATGG 59.187 41.667 17.14 8.97 38.47 3.51
2897 11255 3.614092 AGCTCGTTGAATCAATGATGGT 58.386 40.909 17.14 13.55 38.47 3.55
2898 11256 4.012374 AGCTCGTTGAATCAATGATGGTT 58.988 39.130 17.14 3.62 38.47 3.67
2899 11257 5.185454 AGCTCGTTGAATCAATGATGGTTA 58.815 37.500 17.14 0.00 38.47 2.85
2900 11258 5.824624 AGCTCGTTGAATCAATGATGGTTAT 59.175 36.000 17.14 0.00 38.47 1.89
2901 11259 5.911280 GCTCGTTGAATCAATGATGGTTATG 59.089 40.000 17.14 6.24 38.47 1.90
2902 11260 6.458751 GCTCGTTGAATCAATGATGGTTATGT 60.459 38.462 17.14 0.00 38.47 2.29
2903 11261 7.389803 TCGTTGAATCAATGATGGTTATGTT 57.610 32.000 13.38 0.00 34.89 2.71
2904 11262 7.825681 TCGTTGAATCAATGATGGTTATGTTT 58.174 30.769 13.38 0.00 34.89 2.83
2905 11263 7.967854 TCGTTGAATCAATGATGGTTATGTTTC 59.032 33.333 13.38 0.00 34.89 2.78
2906 11264 7.220683 CGTTGAATCAATGATGGTTATGTTTCC 59.779 37.037 9.47 0.00 32.66 3.13
2907 11265 7.959658 TGAATCAATGATGGTTATGTTTCCT 57.040 32.000 0.00 0.00 27.31 3.36
2908 11266 7.774134 TGAATCAATGATGGTTATGTTTCCTG 58.226 34.615 0.00 0.00 27.31 3.86
2909 11267 7.614974 TGAATCAATGATGGTTATGTTTCCTGA 59.385 33.333 0.00 0.00 27.31 3.86
2910 11268 6.757897 TCAATGATGGTTATGTTTCCTGAC 57.242 37.500 0.00 0.00 0.00 3.51
2911 11269 6.244654 TCAATGATGGTTATGTTTCCTGACA 58.755 36.000 0.00 0.00 0.00 3.58
2912 11270 6.718912 TCAATGATGGTTATGTTTCCTGACAA 59.281 34.615 0.00 0.00 32.47 3.18
2913 11271 7.396907 TCAATGATGGTTATGTTTCCTGACAAT 59.603 33.333 0.00 0.00 32.47 2.71
2914 11272 8.685427 CAATGATGGTTATGTTTCCTGACAATA 58.315 33.333 0.00 0.00 32.47 1.90
2915 11273 7.864108 TGATGGTTATGTTTCCTGACAATAG 57.136 36.000 0.00 0.00 32.47 1.73
2916 11274 7.629157 TGATGGTTATGTTTCCTGACAATAGA 58.371 34.615 0.00 0.00 32.47 1.98
2917 11275 7.552687 TGATGGTTATGTTTCCTGACAATAGAC 59.447 37.037 0.00 0.00 32.47 2.59
2918 11276 6.774673 TGGTTATGTTTCCTGACAATAGACA 58.225 36.000 0.00 0.00 32.47 3.41
2919 11277 7.402054 TGGTTATGTTTCCTGACAATAGACAT 58.598 34.615 0.00 0.00 32.47 3.06
2920 11278 7.336679 TGGTTATGTTTCCTGACAATAGACATG 59.663 37.037 0.00 0.00 32.47 3.21
2921 11279 7.552687 GGTTATGTTTCCTGACAATAGACATGA 59.447 37.037 0.00 0.00 32.47 3.07
2922 11280 8.607459 GTTATGTTTCCTGACAATAGACATGAG 58.393 37.037 0.00 0.00 32.47 2.90
2923 11281 6.114187 TGTTTCCTGACAATAGACATGAGT 57.886 37.500 0.00 0.00 0.00 3.41
2924 11282 6.533730 TGTTTCCTGACAATAGACATGAGTT 58.466 36.000 0.00 0.00 0.00 3.01
2925 11283 7.676004 TGTTTCCTGACAATAGACATGAGTTA 58.324 34.615 0.00 0.00 0.00 2.24
2926 11284 8.321353 TGTTTCCTGACAATAGACATGAGTTAT 58.679 33.333 0.00 0.00 0.00 1.89
2927 11285 8.821894 GTTTCCTGACAATAGACATGAGTTATC 58.178 37.037 0.00 0.00 0.00 1.75
2928 11286 7.904558 TCCTGACAATAGACATGAGTTATCT 57.095 36.000 0.00 0.00 0.00 1.98
2929 11287 8.311395 TCCTGACAATAGACATGAGTTATCTT 57.689 34.615 0.00 0.00 0.00 2.40
2930 11288 8.762645 TCCTGACAATAGACATGAGTTATCTTT 58.237 33.333 0.00 0.00 0.00 2.52
2931 11289 9.388506 CCTGACAATAGACATGAGTTATCTTTT 57.611 33.333 0.00 0.00 0.00 2.27
2933 11291 9.942850 TGACAATAGACATGAGTTATCTTTTGA 57.057 29.630 15.49 0.00 35.92 2.69
2953 11311 9.880157 CTTTTGATTAAAAGGGATCACATCATT 57.120 29.630 13.49 0.00 45.73 2.57
2956 11314 9.919416 TTGATTAAAAGGGATCACATCATTAGA 57.081 29.630 0.00 0.00 32.36 2.10
2957 11315 9.565090 TGATTAAAAGGGATCACATCATTAGAG 57.435 33.333 0.00 0.00 0.00 2.43
2958 11316 9.784531 GATTAAAAGGGATCACATCATTAGAGA 57.215 33.333 0.00 0.00 0.00 3.10
2961 11319 8.461249 AAAAGGGATCACATCATTAGAGAATG 57.539 34.615 0.00 0.00 43.39 2.67
2975 11333 9.106070 TCATTAGAGAATGATGTGATTGACTTG 57.894 33.333 0.00 0.00 45.26 3.16
2976 11334 9.106070 CATTAGAGAATGATGTGATTGACTTGA 57.894 33.333 0.00 0.00 44.59 3.02
2977 11335 6.981762 AGAGAATGATGTGATTGACTTGAC 57.018 37.500 0.00 0.00 0.00 3.18
2978 11336 5.879223 AGAGAATGATGTGATTGACTTGACC 59.121 40.000 0.00 0.00 0.00 4.02
2979 11337 4.946157 AGAATGATGTGATTGACTTGACCC 59.054 41.667 0.00 0.00 0.00 4.46
2980 11338 3.786368 TGATGTGATTGACTTGACCCA 57.214 42.857 0.00 0.00 0.00 4.51
2981 11339 4.305539 TGATGTGATTGACTTGACCCAT 57.694 40.909 0.00 0.00 0.00 4.00
2982 11340 4.264253 TGATGTGATTGACTTGACCCATC 58.736 43.478 0.00 0.00 0.00 3.51
2983 11341 3.071874 TGTGATTGACTTGACCCATCC 57.928 47.619 0.00 0.00 0.00 3.51
2984 11342 2.374839 TGTGATTGACTTGACCCATCCA 59.625 45.455 0.00 0.00 0.00 3.41
2985 11343 3.010472 TGTGATTGACTTGACCCATCCAT 59.990 43.478 0.00 0.00 0.00 3.41
2986 11344 4.019174 GTGATTGACTTGACCCATCCATT 58.981 43.478 0.00 0.00 0.00 3.16
2987 11345 5.192927 GTGATTGACTTGACCCATCCATTA 58.807 41.667 0.00 0.00 0.00 1.90
2988 11346 5.297776 GTGATTGACTTGACCCATCCATTAG 59.702 44.000 0.00 0.00 0.00 1.73
2989 11347 3.281727 TGACTTGACCCATCCATTAGC 57.718 47.619 0.00 0.00 0.00 3.09
2990 11348 2.846206 TGACTTGACCCATCCATTAGCT 59.154 45.455 0.00 0.00 0.00 3.32
2991 11349 3.266772 TGACTTGACCCATCCATTAGCTT 59.733 43.478 0.00 0.00 0.00 3.74
2992 11350 4.473196 TGACTTGACCCATCCATTAGCTTA 59.527 41.667 0.00 0.00 0.00 3.09
2993 11351 5.041191 ACTTGACCCATCCATTAGCTTAG 57.959 43.478 0.00 0.00 0.00 2.18
2994 11352 3.492102 TGACCCATCCATTAGCTTAGC 57.508 47.619 0.00 0.00 0.00 3.09
2995 11353 2.777114 TGACCCATCCATTAGCTTAGCA 59.223 45.455 7.07 0.00 0.00 3.49
2996 11354 3.142174 GACCCATCCATTAGCTTAGCAC 58.858 50.000 7.07 0.00 0.00 4.40
2997 11355 2.146342 CCCATCCATTAGCTTAGCACG 58.854 52.381 7.07 0.00 0.00 5.34
2998 11356 2.485479 CCCATCCATTAGCTTAGCACGT 60.485 50.000 7.07 0.00 0.00 4.49
2999 11357 3.206150 CCATCCATTAGCTTAGCACGTT 58.794 45.455 7.07 0.00 0.00 3.99
3000 11358 3.002656 CCATCCATTAGCTTAGCACGTTG 59.997 47.826 7.07 0.00 0.00 4.10
3001 11359 3.603158 TCCATTAGCTTAGCACGTTGA 57.397 42.857 7.07 0.00 0.00 3.18
3002 11360 4.137116 TCCATTAGCTTAGCACGTTGAT 57.863 40.909 7.07 0.00 0.00 2.57
3003 11361 4.119862 TCCATTAGCTTAGCACGTTGATC 58.880 43.478 7.07 0.00 0.00 2.92
3004 11362 3.060272 CCATTAGCTTAGCACGTTGATCG 60.060 47.826 7.07 0.00 46.00 3.69
3017 11375 4.844511 CGTTGATCGTTTAGTTTGTTGC 57.155 40.909 0.00 0.00 34.52 4.17
3018 11376 4.523813 CGTTGATCGTTTAGTTTGTTGCT 58.476 39.130 0.00 0.00 34.52 3.91
3019 11377 5.672051 CGTTGATCGTTTAGTTTGTTGCTA 58.328 37.500 0.00 0.00 34.52 3.49
3020 11378 6.304126 CGTTGATCGTTTAGTTTGTTGCTAT 58.696 36.000 0.00 0.00 34.52 2.97
3021 11379 6.795114 CGTTGATCGTTTAGTTTGTTGCTATT 59.205 34.615 0.00 0.00 34.52 1.73
3022 11380 7.201149 CGTTGATCGTTTAGTTTGTTGCTATTG 60.201 37.037 0.00 0.00 34.52 1.90
3023 11381 6.083630 TGATCGTTTAGTTTGTTGCTATTGC 58.916 36.000 0.00 0.00 40.20 3.56
3024 11382 5.682943 TCGTTTAGTTTGTTGCTATTGCT 57.317 34.783 0.00 0.00 40.48 3.91
3025 11383 6.067263 TCGTTTAGTTTGTTGCTATTGCTT 57.933 33.333 0.00 0.00 40.48 3.91
3026 11384 6.500041 TCGTTTAGTTTGTTGCTATTGCTTT 58.500 32.000 0.00 0.00 40.48 3.51
3027 11385 6.635239 TCGTTTAGTTTGTTGCTATTGCTTTC 59.365 34.615 0.00 0.00 40.48 2.62
3028 11386 6.636850 CGTTTAGTTTGTTGCTATTGCTTTCT 59.363 34.615 0.00 0.00 40.48 2.52
3029 11387 7.149128 CGTTTAGTTTGTTGCTATTGCTTTCTC 60.149 37.037 0.00 0.00 40.48 2.87
3030 11388 5.126396 AGTTTGTTGCTATTGCTTTCTCC 57.874 39.130 0.00 0.00 40.48 3.71
3031 11389 4.584325 AGTTTGTTGCTATTGCTTTCTCCA 59.416 37.500 0.00 0.00 40.48 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 1966 2.213513 TGGGATGACAGTGACGCCA 61.214 57.895 0.00 0.00 0.00 5.69
32 1990 2.922503 TCCTCTCCTTGCCACGCA 60.923 61.111 0.00 0.00 36.47 5.24
53 2011 1.153568 CGATGTGGCGGTGATGTCT 60.154 57.895 0.00 0.00 0.00 3.41
76 2034 0.253160 AGGCCCTTCATGGTGACCTA 60.253 55.000 2.11 0.00 0.00 3.08
178 2139 1.676678 CCTAGGCCTCTGTTAGCGCA 61.677 60.000 9.68 0.00 0.00 6.09
375 2336 1.873903 GCGAATGCTGGTCGGTGATAT 60.874 52.381 6.43 0.00 38.93 1.63
463 2445 0.673644 CTTCGCGGTGGTCCTGAATT 60.674 55.000 6.13 0.00 0.00 2.17
509 7587 1.203287 CTGATCTTCGTGAGCTGGTCA 59.797 52.381 5.28 5.28 31.32 4.02
592 7672 7.415592 TCATGTTGTAAATAAATGCCCATGA 57.584 32.000 0.00 0.00 35.21 3.07
706 7928 5.453621 GCATCTTCTCATGATCTTCACCTCT 60.454 44.000 0.00 0.00 0.00 3.69
730 7953 0.448990 CTCATGTCGTGTGGCCATTG 59.551 55.000 9.72 1.32 0.00 2.82
798 8031 1.142748 CCTCTGTCCAGACGCATCC 59.857 63.158 0.00 0.00 33.22 3.51
824 8081 3.373565 GGGCCCGGCAGAACAAAG 61.374 66.667 5.69 0.00 0.00 2.77
848 8105 1.610522 CCAGCCAAACAAAGAGACAGG 59.389 52.381 0.00 0.00 0.00 4.00
957 8225 2.391389 GGGAGAGGCGCTCGTTTTG 61.391 63.158 12.17 0.00 44.91 2.44
1060 8386 3.311110 GACGTGTCCTCTGGGCCA 61.311 66.667 5.85 5.85 0.00 5.36
1088 8429 3.210528 GGAGAGGTCCGACGCGAT 61.211 66.667 15.93 0.00 31.37 4.58
1324 9124 0.105964 CATTCGGGTATTGGAGCGGA 59.894 55.000 0.00 0.00 33.51 5.54
1330 9130 1.495584 CGGCGACATTCGGGTATTGG 61.496 60.000 0.00 0.00 40.84 3.16
1333 9133 2.279918 GCGGCGACATTCGGGTAT 60.280 61.111 12.98 0.00 40.84 2.73
1334 9134 4.517815 GGCGGCGACATTCGGGTA 62.518 66.667 12.98 0.00 40.84 3.69
1520 9744 2.213499 CCATCATCGTCTTTGTAGGCC 58.787 52.381 0.00 0.00 0.00 5.19
1555 9785 2.529389 AGAAGGGGGCCGTGTTCT 60.529 61.111 7.61 7.61 0.00 3.01
1624 9857 1.227645 CGGCGATCATGGTGATGGT 60.228 57.895 0.00 0.00 37.20 3.55
1637 9876 2.793946 GTACCTTACGAGCGGCGA 59.206 61.111 12.98 0.00 44.57 5.54
1659 9898 4.084380 GCTTTGCAAATGCTTCTAACCAAC 60.084 41.667 13.23 0.00 42.99 3.77
1672 9911 3.004629 TGAATGACACGAGCTTTGCAAAT 59.995 39.130 13.23 0.00 0.00 2.32
1686 9925 5.993055 TCTGCCAAATCTAGATGAATGACA 58.007 37.500 5.86 4.40 0.00 3.58
1687 9926 6.541641 AGTTCTGCCAAATCTAGATGAATGAC 59.458 38.462 5.86 0.00 0.00 3.06
1740 9995 0.247736 GGCCGTCTCCTGCATATAGG 59.752 60.000 0.00 0.00 39.29 2.57
1878 10147 4.475135 GCGAGGAGGACAAGGGCC 62.475 72.222 0.00 0.00 0.00 5.80
1909 10178 3.947041 AGGTCCAGGGAGCCACCT 61.947 66.667 13.58 2.77 42.97 4.00
2047 10334 2.542205 CCGATACATGCATGTTTGGCAG 60.542 50.000 35.45 19.98 45.68 4.85
2074 10361 1.876156 GGGGCATTCATCTCAATCGTC 59.124 52.381 0.00 0.00 0.00 4.20
2141 10439 6.669278 CGAATCCTCGTCTATCATCTTACAA 58.331 40.000 0.00 0.00 40.33 2.41
2308 10616 2.123854 CGAGGTCGGAGGGGATCA 60.124 66.667 0.00 0.00 35.37 2.92
2311 10619 4.124943 CCTCGAGGTCGGAGGGGA 62.125 72.222 24.04 0.00 40.29 4.81
2329 10637 2.638480 TGGGGATTTGGCTATTCTCG 57.362 50.000 0.00 0.00 0.00 4.04
2334 10642 1.774254 TCGACATGGGGATTTGGCTAT 59.226 47.619 0.00 0.00 0.00 2.97
2335 10643 1.208706 TCGACATGGGGATTTGGCTA 58.791 50.000 0.00 0.00 0.00 3.93
2345 10653 4.525912 TCTACATCATCATCGACATGGG 57.474 45.455 0.00 3.00 0.00 4.00
2352 10660 9.415544 TCTATCAAAACATCTACATCATCATCG 57.584 33.333 0.00 0.00 0.00 3.84
2403 10711 5.737860 TCTAGCTTCATCACATTGTCACAT 58.262 37.500 0.00 0.00 0.00 3.21
2488 10827 8.681486 TGTCCATCATATTTGAAAGACCTATG 57.319 34.615 12.94 0.00 37.25 2.23
2489 10828 9.872684 AATGTCCATCATATTTGAAAGACCTAT 57.127 29.630 12.94 3.10 37.25 2.57
2535 10874 4.504858 GGCAAGCACTAGTAGTACACAAT 58.495 43.478 1.57 0.00 0.00 2.71
2566 10905 2.749621 GAGGTGTTCCCTGCAAACATAG 59.250 50.000 5.77 0.00 46.51 2.23
2595 10934 3.320541 TCAACACTTGGGCAAAACATAGG 59.679 43.478 0.00 0.00 0.00 2.57
2596 10935 4.582701 TCAACACTTGGGCAAAACATAG 57.417 40.909 0.00 0.00 0.00 2.23
2605 10944 2.867647 GCCTGAAATTCAACACTTGGGC 60.868 50.000 4.75 4.75 0.00 5.36
2608 10947 2.053627 GCGCCTGAAATTCAACACTTG 58.946 47.619 0.00 0.00 0.00 3.16
2609 10948 1.956477 AGCGCCTGAAATTCAACACTT 59.044 42.857 2.29 0.00 0.00 3.16
2613 10952 0.796312 TCGAGCGCCTGAAATTCAAC 59.204 50.000 2.29 0.00 0.00 3.18
2639 10997 2.096496 CGGCATGACCTTTGCTAGAAAG 59.904 50.000 0.00 0.92 40.03 2.62
2646 11004 0.532115 AAATCCGGCATGACCTTTGC 59.468 50.000 0.00 0.00 39.41 3.68
2661 11019 7.117667 AGTCATGCCAAAATTAACGGAAAAATC 59.882 33.333 0.00 0.00 0.00 2.17
2670 11028 5.954335 AGCACTAGTCATGCCAAAATTAAC 58.046 37.500 0.00 0.00 44.53 2.01
2672 11030 6.649155 TCTAGCACTAGTCATGCCAAAATTA 58.351 36.000 4.67 0.00 44.53 1.40
2714 11072 4.982241 CCTCTAGGGCATATTTCCTTCA 57.018 45.455 0.00 0.00 34.75 3.02
2727 11085 7.881775 AACAACTTTATTATTGCCTCTAGGG 57.118 36.000 0.00 0.00 35.18 3.53
2787 11145 8.908903 TCCGGTTAATACAATTTTAGCATGAAT 58.091 29.630 0.00 0.00 0.00 2.57
2788 11146 8.282455 TCCGGTTAATACAATTTTAGCATGAA 57.718 30.769 0.00 0.00 0.00 2.57
2789 11147 7.867305 TCCGGTTAATACAATTTTAGCATGA 57.133 32.000 0.00 0.00 0.00 3.07
2790 11148 8.803799 GTTTCCGGTTAATACAATTTTAGCATG 58.196 33.333 0.00 0.00 0.00 4.06
2791 11149 8.745590 AGTTTCCGGTTAATACAATTTTAGCAT 58.254 29.630 0.00 0.00 0.00 3.79
2792 11150 8.113173 AGTTTCCGGTTAATACAATTTTAGCA 57.887 30.769 0.00 0.00 0.00 3.49
2793 11151 8.975410 AAGTTTCCGGTTAATACAATTTTAGC 57.025 30.769 0.00 0.00 0.00 3.09
2798 11156 9.723601 TGTACTAAGTTTCCGGTTAATACAATT 57.276 29.630 0.00 0.00 0.00 2.32
2799 11157 9.895138 ATGTACTAAGTTTCCGGTTAATACAAT 57.105 29.630 0.00 0.00 28.05 2.71
2800 11158 9.153721 CATGTACTAAGTTTCCGGTTAATACAA 57.846 33.333 0.00 0.00 28.05 2.41
2801 11159 8.313292 ACATGTACTAAGTTTCCGGTTAATACA 58.687 33.333 0.00 3.81 28.60 2.29
2802 11160 8.598075 CACATGTACTAAGTTTCCGGTTAATAC 58.402 37.037 0.00 0.00 0.00 1.89
2803 11161 8.313292 ACACATGTACTAAGTTTCCGGTTAATA 58.687 33.333 0.00 0.00 0.00 0.98
2804 11162 7.118680 CACACATGTACTAAGTTTCCGGTTAAT 59.881 37.037 0.00 0.00 0.00 1.40
2805 11163 6.424509 CACACATGTACTAAGTTTCCGGTTAA 59.575 38.462 0.00 0.00 0.00 2.01
2806 11164 5.927689 CACACATGTACTAAGTTTCCGGTTA 59.072 40.000 0.00 0.00 0.00 2.85
2807 11165 4.753107 CACACATGTACTAAGTTTCCGGTT 59.247 41.667 0.00 0.00 0.00 4.44
2808 11166 4.039488 TCACACATGTACTAAGTTTCCGGT 59.961 41.667 0.00 0.00 0.00 5.28
2809 11167 4.562082 TCACACATGTACTAAGTTTCCGG 58.438 43.478 0.00 0.00 0.00 5.14
2810 11168 6.721571 ATTCACACATGTACTAAGTTTCCG 57.278 37.500 0.00 0.00 0.00 4.30
2811 11169 8.542497 TGTATTCACACATGTACTAAGTTTCC 57.458 34.615 0.00 0.00 0.00 3.13
2819 11177 9.151471 GTTTGTCTATGTATTCACACATGTACT 57.849 33.333 0.00 0.00 39.46 2.73
2820 11178 8.931775 TGTTTGTCTATGTATTCACACATGTAC 58.068 33.333 0.00 0.00 39.46 2.90
2821 11179 9.150348 CTGTTTGTCTATGTATTCACACATGTA 57.850 33.333 0.00 0.00 39.46 2.29
2822 11180 7.877612 TCTGTTTGTCTATGTATTCACACATGT 59.122 33.333 0.00 0.00 39.46 3.21
2823 11181 8.255394 TCTGTTTGTCTATGTATTCACACATG 57.745 34.615 0.00 0.00 39.46 3.21
2824 11182 8.846943 TTCTGTTTGTCTATGTATTCACACAT 57.153 30.769 0.00 0.00 41.88 3.21
2825 11183 8.720562 CATTCTGTTTGTCTATGTATTCACACA 58.279 33.333 0.00 0.00 37.54 3.72
2826 11184 8.721478 ACATTCTGTTTGTCTATGTATTCACAC 58.279 33.333 0.00 0.00 37.54 3.82
2827 11185 8.846943 ACATTCTGTTTGTCTATGTATTCACA 57.153 30.769 0.00 0.00 39.52 3.58
2828 11186 8.391106 GGACATTCTGTTTGTCTATGTATTCAC 58.609 37.037 10.78 0.00 42.48 3.18
2829 11187 7.552687 GGGACATTCTGTTTGTCTATGTATTCA 59.447 37.037 10.78 0.00 42.48 2.57
2830 11188 7.770897 AGGGACATTCTGTTTGTCTATGTATTC 59.229 37.037 10.78 0.00 42.48 1.75
2831 11189 7.633789 AGGGACATTCTGTTTGTCTATGTATT 58.366 34.615 10.78 0.00 42.48 1.89
2832 11190 7.200434 AGGGACATTCTGTTTGTCTATGTAT 57.800 36.000 10.78 0.00 42.48 2.29
2833 11191 6.620877 AGGGACATTCTGTTTGTCTATGTA 57.379 37.500 10.78 0.00 42.48 2.29
2834 11192 5.505181 AGGGACATTCTGTTTGTCTATGT 57.495 39.130 10.78 0.00 42.48 2.29
2835 11193 6.644347 ACTAGGGACATTCTGTTTGTCTATG 58.356 40.000 0.00 0.00 42.48 2.23
2836 11194 6.875972 ACTAGGGACATTCTGTTTGTCTAT 57.124 37.500 0.00 4.99 42.48 1.98
2837 11195 7.632898 GCATACTAGGGACATTCTGTTTGTCTA 60.633 40.741 0.00 0.00 42.48 2.59
2838 11196 6.644347 CATACTAGGGACATTCTGTTTGTCT 58.356 40.000 0.00 0.00 42.48 3.41
2839 11197 5.294552 GCATACTAGGGACATTCTGTTTGTC 59.705 44.000 0.00 0.00 42.20 3.18
2840 11198 5.186198 GCATACTAGGGACATTCTGTTTGT 58.814 41.667 0.00 0.00 0.00 2.83
2841 11199 4.576463 GGCATACTAGGGACATTCTGTTTG 59.424 45.833 0.00 0.00 0.00 2.93
2842 11200 4.475016 AGGCATACTAGGGACATTCTGTTT 59.525 41.667 0.00 0.00 0.00 2.83
2843 11201 4.040755 AGGCATACTAGGGACATTCTGTT 58.959 43.478 0.00 0.00 0.00 3.16
2844 11202 3.643792 GAGGCATACTAGGGACATTCTGT 59.356 47.826 0.00 0.00 0.00 3.41
2845 11203 3.900601 AGAGGCATACTAGGGACATTCTG 59.099 47.826 0.00 0.00 0.00 3.02
2846 11204 4.206244 AGAGGCATACTAGGGACATTCT 57.794 45.455 0.00 0.00 0.00 2.40
2847 11205 5.081032 AGTAGAGGCATACTAGGGACATTC 58.919 45.833 0.00 0.00 34.21 2.67
2848 11206 5.081315 AGTAGAGGCATACTAGGGACATT 57.919 43.478 0.00 0.00 34.21 2.71
2849 11207 4.750833 AGTAGAGGCATACTAGGGACAT 57.249 45.455 0.00 0.00 34.21 3.06
2850 11208 4.079385 TCAAGTAGAGGCATACTAGGGACA 60.079 45.833 3.23 0.00 34.90 4.02
2851 11209 4.278919 GTCAAGTAGAGGCATACTAGGGAC 59.721 50.000 3.23 7.70 34.90 4.46
2852 11210 4.168283 AGTCAAGTAGAGGCATACTAGGGA 59.832 45.833 3.23 0.66 34.90 4.20
2853 11211 4.475345 AGTCAAGTAGAGGCATACTAGGG 58.525 47.826 3.23 0.00 34.90 3.53
2854 11212 5.182380 GCTAGTCAAGTAGAGGCATACTAGG 59.818 48.000 0.00 0.67 36.85 3.02
2855 11213 6.001460 AGCTAGTCAAGTAGAGGCATACTAG 58.999 44.000 0.00 0.00 38.50 2.57
2856 11214 5.942961 AGCTAGTCAAGTAGAGGCATACTA 58.057 41.667 3.23 0.00 34.90 1.82
2857 11215 4.798882 AGCTAGTCAAGTAGAGGCATACT 58.201 43.478 0.00 0.00 37.61 2.12
2858 11216 4.319911 CGAGCTAGTCAAGTAGAGGCATAC 60.320 50.000 0.00 0.00 0.00 2.39
2859 11217 3.815962 CGAGCTAGTCAAGTAGAGGCATA 59.184 47.826 0.00 0.00 0.00 3.14
2860 11218 2.621055 CGAGCTAGTCAAGTAGAGGCAT 59.379 50.000 0.00 0.00 0.00 4.40
2861 11219 2.017782 CGAGCTAGTCAAGTAGAGGCA 58.982 52.381 0.00 0.00 0.00 4.75
2862 11220 2.018515 ACGAGCTAGTCAAGTAGAGGC 58.981 52.381 0.00 0.00 0.00 4.70
2863 11221 3.690139 TCAACGAGCTAGTCAAGTAGAGG 59.310 47.826 0.00 0.00 0.00 3.69
2864 11222 4.948608 TCAACGAGCTAGTCAAGTAGAG 57.051 45.455 0.00 0.00 0.00 2.43
2865 11223 5.414765 TGATTCAACGAGCTAGTCAAGTAGA 59.585 40.000 0.00 0.00 0.00 2.59
2866 11224 5.641709 TGATTCAACGAGCTAGTCAAGTAG 58.358 41.667 0.00 0.00 0.00 2.57
2867 11225 5.638596 TGATTCAACGAGCTAGTCAAGTA 57.361 39.130 0.00 0.00 0.00 2.24
2868 11226 4.521130 TGATTCAACGAGCTAGTCAAGT 57.479 40.909 0.00 0.00 0.00 3.16
2869 11227 5.578336 TCATTGATTCAACGAGCTAGTCAAG 59.422 40.000 0.00 0.00 0.00 3.02
2870 11228 5.478407 TCATTGATTCAACGAGCTAGTCAA 58.522 37.500 0.00 0.17 0.00 3.18
2871 11229 5.072040 TCATTGATTCAACGAGCTAGTCA 57.928 39.130 0.00 0.00 0.00 3.41
2872 11230 5.050499 CCATCATTGATTCAACGAGCTAGTC 60.050 44.000 0.00 0.00 0.00 2.59
2873 11231 4.813161 CCATCATTGATTCAACGAGCTAGT 59.187 41.667 0.15 0.00 0.00 2.57
2874 11232 4.813161 ACCATCATTGATTCAACGAGCTAG 59.187 41.667 0.15 0.00 0.00 3.42
2875 11233 4.769688 ACCATCATTGATTCAACGAGCTA 58.230 39.130 0.15 0.00 0.00 3.32
2876 11234 3.614092 ACCATCATTGATTCAACGAGCT 58.386 40.909 0.15 0.00 0.00 4.09
2877 11235 4.361451 AACCATCATTGATTCAACGAGC 57.639 40.909 0.15 0.00 0.00 5.03
2878 11236 7.019774 ACATAACCATCATTGATTCAACGAG 57.980 36.000 0.15 0.00 0.00 4.18
2879 11237 7.389803 AACATAACCATCATTGATTCAACGA 57.610 32.000 0.15 0.00 0.00 3.85
2880 11238 7.220683 GGAAACATAACCATCATTGATTCAACG 59.779 37.037 0.15 0.00 0.00 4.10
2881 11239 8.253113 AGGAAACATAACCATCATTGATTCAAC 58.747 33.333 0.15 0.00 0.00 3.18
2882 11240 8.252417 CAGGAAACATAACCATCATTGATTCAA 58.748 33.333 0.75 0.75 0.00 2.69
2883 11241 7.614974 TCAGGAAACATAACCATCATTGATTCA 59.385 33.333 0.00 0.00 0.00 2.57
2884 11242 7.917505 GTCAGGAAACATAACCATCATTGATTC 59.082 37.037 0.00 0.00 0.00 2.52
2885 11243 7.396907 TGTCAGGAAACATAACCATCATTGATT 59.603 33.333 0.00 0.00 0.00 2.57
2886 11244 6.891361 TGTCAGGAAACATAACCATCATTGAT 59.109 34.615 0.00 0.00 0.00 2.57
2887 11245 6.244654 TGTCAGGAAACATAACCATCATTGA 58.755 36.000 0.00 0.00 0.00 2.57
2888 11246 6.513806 TGTCAGGAAACATAACCATCATTG 57.486 37.500 0.00 0.00 0.00 2.82
2889 11247 7.722949 ATTGTCAGGAAACATAACCATCATT 57.277 32.000 0.00 0.00 0.00 2.57
2890 11248 8.274322 TCTATTGTCAGGAAACATAACCATCAT 58.726 33.333 0.00 0.00 0.00 2.45
2891 11249 7.552687 GTCTATTGTCAGGAAACATAACCATCA 59.447 37.037 0.00 0.00 0.00 3.07
2892 11250 7.552687 TGTCTATTGTCAGGAAACATAACCATC 59.447 37.037 0.00 0.00 0.00 3.51
2893 11251 7.402054 TGTCTATTGTCAGGAAACATAACCAT 58.598 34.615 0.00 0.00 0.00 3.55
2894 11252 6.774673 TGTCTATTGTCAGGAAACATAACCA 58.225 36.000 0.00 0.00 0.00 3.67
2895 11253 7.552687 TCATGTCTATTGTCAGGAAACATAACC 59.447 37.037 0.00 0.00 0.00 2.85
2896 11254 8.492673 TCATGTCTATTGTCAGGAAACATAAC 57.507 34.615 0.00 0.00 0.00 1.89
2897 11255 8.321353 ACTCATGTCTATTGTCAGGAAACATAA 58.679 33.333 0.00 0.00 0.00 1.90
2898 11256 7.851228 ACTCATGTCTATTGTCAGGAAACATA 58.149 34.615 0.00 0.00 0.00 2.29
2899 11257 6.715280 ACTCATGTCTATTGTCAGGAAACAT 58.285 36.000 0.00 0.00 0.00 2.71
2900 11258 6.114187 ACTCATGTCTATTGTCAGGAAACA 57.886 37.500 0.00 0.00 0.00 2.83
2901 11259 8.723942 ATAACTCATGTCTATTGTCAGGAAAC 57.276 34.615 0.00 0.00 0.00 2.78
2902 11260 8.762645 AGATAACTCATGTCTATTGTCAGGAAA 58.237 33.333 0.00 0.00 0.00 3.13
2903 11261 8.311395 AGATAACTCATGTCTATTGTCAGGAA 57.689 34.615 0.00 0.00 0.00 3.36
2904 11262 7.904558 AGATAACTCATGTCTATTGTCAGGA 57.095 36.000 0.00 0.00 0.00 3.86
2905 11263 8.954950 AAAGATAACTCATGTCTATTGTCAGG 57.045 34.615 0.00 0.00 0.00 3.86
2907 11265 9.942850 TCAAAAGATAACTCATGTCTATTGTCA 57.057 29.630 0.00 0.00 0.00 3.58
2927 11285 9.880157 AATGATGTGATCCCTTTTAATCAAAAG 57.120 29.630 0.00 0.00 46.84 2.27
2930 11288 9.919416 TCTAATGATGTGATCCCTTTTAATCAA 57.081 29.630 0.00 0.00 33.89 2.57
2931 11289 9.565090 CTCTAATGATGTGATCCCTTTTAATCA 57.435 33.333 0.00 0.00 0.00 2.57
2932 11290 9.784531 TCTCTAATGATGTGATCCCTTTTAATC 57.215 33.333 0.00 0.00 0.00 1.75
2935 11293 9.565090 CATTCTCTAATGATGTGATCCCTTTTA 57.435 33.333 0.00 0.00 44.50 1.52
2936 11294 8.277197 TCATTCTCTAATGATGTGATCCCTTTT 58.723 33.333 0.00 0.00 45.17 2.27
2937 11295 7.809238 TCATTCTCTAATGATGTGATCCCTTT 58.191 34.615 0.00 0.00 45.17 3.11
2938 11296 7.384524 TCATTCTCTAATGATGTGATCCCTT 57.615 36.000 0.00 0.00 45.17 3.95
2950 11308 9.106070 TCAAGTCAATCACATCATTCTCTAATG 57.894 33.333 0.00 0.00 43.32 1.90
2951 11309 9.107177 GTCAAGTCAATCACATCATTCTCTAAT 57.893 33.333 0.00 0.00 0.00 1.73
2952 11310 7.550551 GGTCAAGTCAATCACATCATTCTCTAA 59.449 37.037 0.00 0.00 0.00 2.10
2953 11311 7.044181 GGTCAAGTCAATCACATCATTCTCTA 58.956 38.462 0.00 0.00 0.00 2.43
2954 11312 5.879223 GGTCAAGTCAATCACATCATTCTCT 59.121 40.000 0.00 0.00 0.00 3.10
2955 11313 5.065731 GGGTCAAGTCAATCACATCATTCTC 59.934 44.000 0.00 0.00 0.00 2.87
2956 11314 4.946157 GGGTCAAGTCAATCACATCATTCT 59.054 41.667 0.00 0.00 0.00 2.40
2957 11315 4.701651 TGGGTCAAGTCAATCACATCATTC 59.298 41.667 0.00 0.00 0.00 2.67
2958 11316 4.665451 TGGGTCAAGTCAATCACATCATT 58.335 39.130 0.00 0.00 0.00 2.57
2959 11317 4.305539 TGGGTCAAGTCAATCACATCAT 57.694 40.909 0.00 0.00 0.00 2.45
2960 11318 3.786368 TGGGTCAAGTCAATCACATCA 57.214 42.857 0.00 0.00 0.00 3.07
2961 11319 3.629398 GGATGGGTCAAGTCAATCACATC 59.371 47.826 0.00 0.00 34.33 3.06
2962 11320 3.010472 TGGATGGGTCAAGTCAATCACAT 59.990 43.478 0.00 0.00 0.00 3.21
2963 11321 2.374839 TGGATGGGTCAAGTCAATCACA 59.625 45.455 0.00 0.00 0.00 3.58
2964 11322 3.071874 TGGATGGGTCAAGTCAATCAC 57.928 47.619 0.00 0.00 0.00 3.06
2965 11323 4.320546 AATGGATGGGTCAAGTCAATCA 57.679 40.909 0.00 0.00 0.00 2.57
2966 11324 4.276926 GCTAATGGATGGGTCAAGTCAATC 59.723 45.833 0.00 0.00 0.00 2.67
2967 11325 4.079558 AGCTAATGGATGGGTCAAGTCAAT 60.080 41.667 0.00 0.00 0.00 2.57
2968 11326 3.266772 AGCTAATGGATGGGTCAAGTCAA 59.733 43.478 0.00 0.00 0.00 3.18
2969 11327 2.846206 AGCTAATGGATGGGTCAAGTCA 59.154 45.455 0.00 0.00 0.00 3.41
2970 11328 3.567478 AGCTAATGGATGGGTCAAGTC 57.433 47.619 0.00 0.00 0.00 3.01
2971 11329 4.687219 GCTAAGCTAATGGATGGGTCAAGT 60.687 45.833 0.00 0.00 0.00 3.16
2972 11330 3.817647 GCTAAGCTAATGGATGGGTCAAG 59.182 47.826 0.00 0.00 0.00 3.02
2973 11331 3.201930 TGCTAAGCTAATGGATGGGTCAA 59.798 43.478 0.00 0.00 0.00 3.18
2974 11332 2.777114 TGCTAAGCTAATGGATGGGTCA 59.223 45.455 0.00 0.00 0.00 4.02
2975 11333 3.142174 GTGCTAAGCTAATGGATGGGTC 58.858 50.000 0.00 0.00 0.00 4.46
2976 11334 2.485479 CGTGCTAAGCTAATGGATGGGT 60.485 50.000 0.00 0.00 0.00 4.51
2977 11335 2.146342 CGTGCTAAGCTAATGGATGGG 58.854 52.381 0.00 0.00 0.00 4.00
2978 11336 2.838736 ACGTGCTAAGCTAATGGATGG 58.161 47.619 0.00 0.00 0.00 3.51
2979 11337 3.871006 TCAACGTGCTAAGCTAATGGATG 59.129 43.478 0.00 0.00 0.00 3.51
2980 11338 4.137116 TCAACGTGCTAAGCTAATGGAT 57.863 40.909 0.00 0.00 0.00 3.41
2981 11339 3.603158 TCAACGTGCTAAGCTAATGGA 57.397 42.857 0.00 0.00 0.00 3.41
2982 11340 3.060272 CGATCAACGTGCTAAGCTAATGG 60.060 47.826 0.00 0.00 37.22 3.16
2983 11341 4.107586 CGATCAACGTGCTAAGCTAATG 57.892 45.455 0.00 0.00 37.22 1.90
2997 11355 7.409343 GCAATAGCAACAAACTAAACGATCAAC 60.409 37.037 0.00 0.00 41.58 3.18
2998 11356 6.580791 GCAATAGCAACAAACTAAACGATCAA 59.419 34.615 0.00 0.00 41.58 2.57
2999 11357 6.072728 AGCAATAGCAACAAACTAAACGATCA 60.073 34.615 0.00 0.00 45.49 2.92
3000 11358 6.314784 AGCAATAGCAACAAACTAAACGATC 58.685 36.000 0.00 0.00 45.49 3.69
3001 11359 6.254281 AGCAATAGCAACAAACTAAACGAT 57.746 33.333 0.00 0.00 45.49 3.73
3002 11360 5.682943 AGCAATAGCAACAAACTAAACGA 57.317 34.783 0.00 0.00 45.49 3.85
3003 11361 6.636850 AGAAAGCAATAGCAACAAACTAAACG 59.363 34.615 0.00 0.00 45.49 3.60
3004 11362 7.114953 GGAGAAAGCAATAGCAACAAACTAAAC 59.885 37.037 0.00 0.00 45.49 2.01
3005 11363 7.145323 GGAGAAAGCAATAGCAACAAACTAAA 58.855 34.615 0.00 0.00 45.49 1.85
3006 11364 6.264292 TGGAGAAAGCAATAGCAACAAACTAA 59.736 34.615 0.00 0.00 45.49 2.24
3007 11365 5.767665 TGGAGAAAGCAATAGCAACAAACTA 59.232 36.000 0.00 0.00 45.49 2.24
3008 11366 4.584325 TGGAGAAAGCAATAGCAACAAACT 59.416 37.500 0.00 0.00 45.49 2.66
3009 11367 4.870363 TGGAGAAAGCAATAGCAACAAAC 58.130 39.130 0.00 0.00 45.49 2.93


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

AutoCloner maintained by Alex Coulton.