Multiple sequence alignment - TraesCS5B01G054100

Loading Multiple Alignment...

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 TraesCS5B01G054100 chr5B 100.000 3555 0 0 1 3555 59160252 59163806 0.000000e+00 6565.0
1 TraesCS5B01G054100 chr5B 95.238 105 4 1 418 522 643171729 643171832 7.900000e-37 165.0
2 TraesCS5B01G054100 chr5A 91.492 2868 172 33 415 3234 44979609 44982452 0.000000e+00 3879.0
3 TraesCS5B01G054100 chr5A 89.723 253 14 8 1 248 44979169 44979414 2.660000e-81 313.0
4 TraesCS5B01G054100 chr5A 95.192 104 4 1 419 522 640604120 640604222 2.840000e-36 163.0
5 TraesCS5B01G054100 chr5A 81.633 98 12 5 1511 1607 44981152 44981244 3.810000e-10 76.8
6 TraesCS5B01G054100 chr5D 93.891 1375 69 5 1868 3234 56451802 56453169 0.000000e+00 2060.0
7 TraesCS5B01G054100 chr5D 90.519 1445 102 22 417 1843 56450157 56451584 0.000000e+00 1877.0
8 TraesCS5B01G054100 chr5D 90.351 342 19 10 1 334 56449658 56449993 1.520000e-118 436.0
9 TraesCS5B01G054100 chr5D 85.897 234 27 2 1640 1873 56451967 56452194 9.860000e-61 244.0
10 TraesCS5B01G054100 chr5D 94.286 105 5 1 418 522 512204282 512204385 3.670000e-35 159.0
11 TraesCS5B01G054100 chr1A 97.938 97 0 2 419 514 554275616 554275521 2.200000e-37 167.0
12 TraesCS5B01G054100 chr6A 95.192 104 4 1 422 524 60430380 60430483 2.840000e-36 163.0
13 TraesCS5B01G054100 chr1D 95.238 105 2 3 417 520 462471280 462471382 2.840000e-36 163.0
14 TraesCS5B01G054100 chr2D 94.231 104 5 1 424 527 37930170 37930272 1.320000e-34 158.0
15 TraesCS5B01G054100 chr7D 90.110 91 8 1 1552 1642 33660253 33660342 2.240000e-22 117.0


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 TraesCS5B01G054100 chr5B 59160252 59163806 3554 False 6565.000000 6565 100.0000 1 3555 1 chr5B.!!$F1 3554
1 TraesCS5B01G054100 chr5A 44979169 44982452 3283 False 1422.933333 3879 87.6160 1 3234 3 chr5A.!!$F2 3233
2 TraesCS5B01G054100 chr5D 56449658 56453169 3511 False 1154.250000 2060 90.1645 1 3234 4 chr5D.!!$F2 3233

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
65 69 0.462047 GACATGGTACTGGGGCGAAG 60.462 60.0 0.0 0.0 0.00 3.79 F
529 630 0.468029 CCCTCTGGTGTTTTGCTGGT 60.468 55.0 0.0 0.0 0.00 4.00 F
1284 1398 0.171903 GCTTGCTGCCATTACCTGTG 59.828 55.0 0.0 0.0 35.15 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1249 1357 0.677842 AAGCAAGCAAAGCAAGGAGG 59.322 50.0 0.0 0.0 0.0 4.30 R
2268 2592 0.033642 TCATGTGTTGCCGTCCGTTA 59.966 50.0 0.0 0.0 0.0 3.18 R
3132 3457 0.819582 ATTTTTGCGGAGATGCCTGG 59.180 50.0 0.0 0.0 0.0 4.45 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
60 64 1.874129 TACCTGACATGGTACTGGGG 58.126 55.000 0.00 0.00 41.22 4.96
62 66 1.153369 CTGACATGGTACTGGGGCG 60.153 63.158 0.00 0.00 0.00 6.13
64 68 1.195442 TGACATGGTACTGGGGCGAA 61.195 55.000 0.00 0.00 0.00 4.70
65 69 0.462047 GACATGGTACTGGGGCGAAG 60.462 60.000 0.00 0.00 0.00 3.79
68 72 2.686106 GGTACTGGGGCGAAGGGA 60.686 66.667 0.00 0.00 0.00 4.20
98 102 7.876936 AGAGATAAAGTGCAATCATTCATGT 57.123 32.000 0.00 0.00 0.00 3.21
117 121 2.622942 TGTTCAAGTCCATGTTTGCTCC 59.377 45.455 0.00 0.00 0.00 4.70
123 127 3.482436 AGTCCATGTTTGCTCCGTAAAA 58.518 40.909 0.00 0.00 0.00 1.52
124 128 3.886505 AGTCCATGTTTGCTCCGTAAAAA 59.113 39.130 0.00 0.00 0.00 1.94
216 222 7.040755 TGTTGTGGTCAGTTAATAAGGAATGTG 60.041 37.037 0.00 0.00 0.00 3.21
220 226 7.065443 GTGGTCAGTTAATAAGGAATGTGGTAC 59.935 40.741 0.00 0.00 0.00 3.34
225 231 6.260050 AGTTAATAAGGAATGTGGTACATGCG 59.740 38.462 0.00 0.00 44.52 4.73
312 324 4.597079 TCGCAAACTGTTGACTGAAAATC 58.403 39.130 0.00 0.00 36.83 2.17
347 383 8.483758 TGGGTACTTTAGAAAAATAGCTAGGAG 58.516 37.037 0.00 0.00 0.00 3.69
379 421 5.372547 AAGAAGAAATAAGACAAACGGGC 57.627 39.130 0.00 0.00 0.00 6.13
381 423 2.774687 AGAAATAAGACAAACGGGCGT 58.225 42.857 0.00 0.00 0.00 5.68
394 436 1.133869 GGGCGTCGAAAATGGAACG 59.866 57.895 0.00 0.00 0.00 3.95
470 571 1.133407 GACCTCAGGATCACTCACGTC 59.867 57.143 0.00 0.00 0.00 4.34
527 628 2.344535 CCCCTCTGGTGTTTTGCTG 58.655 57.895 0.00 0.00 0.00 4.41
529 630 0.468029 CCCTCTGGTGTTTTGCTGGT 60.468 55.000 0.00 0.00 0.00 4.00
535 636 3.317711 TCTGGTGTTTTGCTGGTAATGTG 59.682 43.478 0.00 0.00 0.00 3.21
538 639 4.343526 TGGTGTTTTGCTGGTAATGTGAAT 59.656 37.500 0.00 0.00 0.00 2.57
539 640 5.163364 TGGTGTTTTGCTGGTAATGTGAATT 60.163 36.000 0.00 0.00 0.00 2.17
662 767 3.345808 CCGGTGAAGTGTGCCACG 61.346 66.667 0.00 0.00 39.64 4.94
664 769 2.110213 GGTGAAGTGTGCCACGGA 59.890 61.111 0.00 0.00 39.64 4.69
676 781 1.450312 CCACGGATTGCCCTCACTC 60.450 63.158 0.00 0.00 0.00 3.51
695 800 1.607801 CCACGCTCCTCCTGTCATGA 61.608 60.000 0.00 0.00 0.00 3.07
708 813 3.002042 CCTGTCATGATCGAGATGCAAAC 59.998 47.826 0.00 0.00 0.00 2.93
715 820 2.662006 TCGAGATGCAAACTCCTCTG 57.338 50.000 15.36 5.18 31.10 3.35
873 980 3.303526 CGGTTTTGAGGTTTGGTAAGTCG 60.304 47.826 0.00 0.00 0.00 4.18
940 1047 8.497745 CCATTATACCAGCATATAATCTCCCTT 58.502 37.037 5.41 0.00 36.16 3.95
953 1061 1.202927 TCTCCCTTCCAAAAGCACCAG 60.203 52.381 0.00 0.00 0.00 4.00
975 1083 1.077716 CGATCACCCCAAACCTCCC 60.078 63.158 0.00 0.00 0.00 4.30
978 1086 1.848886 ATCACCCCAAACCTCCCGAC 61.849 60.000 0.00 0.00 0.00 4.79
990 1098 1.402984 CCTCCCGACGTTCTTCTTCAG 60.403 57.143 0.00 0.00 0.00 3.02
993 1101 1.402984 CCCGACGTTCTTCTTCAGAGG 60.403 57.143 0.00 0.00 31.12 3.69
996 1104 2.062519 GACGTTCTTCTTCAGAGGCAC 58.937 52.381 0.00 0.00 31.12 5.01
1164 1272 1.620819 CTCAACAGGCAGTCCTACACT 59.379 52.381 0.00 0.00 41.93 3.55
1248 1356 2.978018 GCCTGCGTTTGTGTAGGGC 61.978 63.158 0.16 0.00 41.55 5.19
1249 1357 2.332654 CCTGCGTTTGTGTAGGGCC 61.333 63.158 0.00 0.00 38.01 5.80
1284 1398 0.171903 GCTTGCTGCCATTACCTGTG 59.828 55.000 0.00 0.00 35.15 3.66
1285 1399 1.825090 CTTGCTGCCATTACCTGTGA 58.175 50.000 0.00 0.00 0.00 3.58
1353 1467 5.123227 GCAGGTACTTTGTCATAGCCAATA 58.877 41.667 0.00 0.00 34.60 1.90
1389 1503 3.958860 ACCTGGTGGTGCTGCTCC 61.959 66.667 13.60 13.60 46.51 4.70
1400 1514 1.123861 TGCTGCTCCTCAGAAGGTGT 61.124 55.000 0.00 0.00 45.72 4.16
1401 1515 0.898320 GCTGCTCCTCAGAAGGTGTA 59.102 55.000 0.00 0.00 45.72 2.90
1406 1520 3.055819 TGCTCCTCAGAAGGTGTATTGTC 60.056 47.826 0.00 0.00 43.82 3.18
1541 1660 9.329913 CATTATTTACTCAAAGAAAACCTCACG 57.670 33.333 0.00 0.00 29.29 4.35
1576 1695 8.488764 GTTTCACACTTTCATCAGAGTAAGTAC 58.511 37.037 0.00 0.00 30.19 2.73
1615 1734 7.112528 TCATAAACATATTTTAGTAGCGCGG 57.887 36.000 8.83 0.00 0.00 6.46
1626 1745 3.677190 AGTAGCGCGGATATCGAATAG 57.323 47.619 8.83 0.00 42.43 1.73
1659 1778 5.869579 AGAAGCAACCAACTCAATCTAAGA 58.130 37.500 0.00 0.00 0.00 2.10
1665 1784 6.238759 GCAACCAACTCAATCTAAGAAAGTGT 60.239 38.462 0.00 0.00 0.00 3.55
1666 1785 6.867662 ACCAACTCAATCTAAGAAAGTGTG 57.132 37.500 0.00 0.00 0.00 3.82
1670 1789 7.012327 CCAACTCAATCTAAGAAAGTGTGTTGA 59.988 37.037 15.62 2.95 0.00 3.18
1687 1806 9.736023 AGTGTGTTGATCTTAAATGAAGTTTTC 57.264 29.630 0.00 0.00 36.45 2.29
1703 1822 2.492088 GTTTTCCCTACACAATCCAGGC 59.508 50.000 0.00 0.00 0.00 4.85
1712 1831 2.286872 CACAATCCAGGCAGATCTGAC 58.713 52.381 27.04 24.51 39.43 3.51
1715 1834 3.245016 ACAATCCAGGCAGATCTGACAAA 60.245 43.478 30.08 15.00 42.32 2.83
1729 1848 3.822735 TCTGACAAATTTGGAGCCTTCTG 59.177 43.478 21.74 12.38 0.00 3.02
1730 1849 3.565307 TGACAAATTTGGAGCCTTCTGT 58.435 40.909 21.74 0.00 0.00 3.41
1776 1895 8.336806 CAGCACTCAATCTAATCAAGAATCTTC 58.663 37.037 0.00 0.00 37.89 2.87
1816 1940 2.099756 AGTGGCTTGAGTGAAAAACTGC 59.900 45.455 0.00 0.00 40.07 4.40
1819 1943 2.544486 GGCTTGAGTGAAAAACTGCTGG 60.544 50.000 0.00 0.00 40.07 4.85
1820 1944 2.099756 GCTTGAGTGAAAAACTGCTGGT 59.900 45.455 0.00 0.00 40.07 4.00
1821 1945 3.699067 CTTGAGTGAAAAACTGCTGGTG 58.301 45.455 0.00 0.00 40.07 4.17
1822 1946 1.405105 TGAGTGAAAAACTGCTGGTGC 59.595 47.619 0.00 0.00 40.07 5.01
1823 1947 1.678101 GAGTGAAAAACTGCTGGTGCT 59.322 47.619 0.00 0.00 40.07 4.40
1883 2199 6.492429 AGCATATCTGGCAAACACATGATATT 59.508 34.615 0.00 0.00 0.00 1.28
1884 2200 7.014905 AGCATATCTGGCAAACACATGATATTT 59.985 33.333 0.00 0.00 0.00 1.40
1908 2224 1.349026 TCCTCCTCCTTGCACTTTCAG 59.651 52.381 0.00 0.00 0.00 3.02
1934 2250 8.137437 GTGTCCCAAATAAGATAATCATGGTTG 58.863 37.037 0.08 0.00 0.00 3.77
1951 2267 5.444744 TGGTTGTACTGGCCATTACTTAT 57.555 39.130 27.69 3.57 0.00 1.73
1975 2295 5.794894 ACAAAACCTCATCCAGTAGTAGTG 58.205 41.667 0.00 0.00 0.00 2.74
1984 2304 5.183331 TCATCCAGTAGTAGTGTCACACTTC 59.817 44.000 17.55 11.54 42.59 3.01
2102 2426 7.013823 ACACAATCCAGGGATATCTGATAAG 57.986 40.000 0.32 1.05 36.93 1.73
2106 2430 8.160106 ACAATCCAGGGATATCTGATAAGTTTC 58.840 37.037 0.32 0.00 36.93 2.78
2225 2549 5.242434 TGGTGCTGTACTTTGTATTGTAGG 58.758 41.667 0.00 0.00 0.00 3.18
2228 2552 4.693566 TGCTGTACTTTGTATTGTAGGCAC 59.306 41.667 0.00 0.00 0.00 5.01
2232 2556 6.400568 TGTACTTTGTATTGTAGGCACCTAC 58.599 40.000 18.21 18.21 46.56 3.18
2268 2592 6.418057 TCTGGCAAATTTCAAACCAGTATT 57.582 33.333 18.53 0.00 46.49 1.89
2271 2595 7.870445 TCTGGCAAATTTCAAACCAGTATTAAC 59.130 33.333 18.53 0.00 46.49 2.01
2297 2621 6.072112 ACGGCAACACATGATATATTTTCC 57.928 37.500 0.00 0.00 0.00 3.13
2305 2629 8.455903 ACACATGATATATTTTCCTCCTTGTG 57.544 34.615 0.00 0.00 0.00 3.33
2466 2790 2.492484 GTGGAGGTGTATCTCTCGTGTT 59.508 50.000 0.00 0.00 34.39 3.32
2473 2797 4.474113 GTGTATCTCTCGTGTTCTCGTTT 58.526 43.478 0.00 0.00 0.00 3.60
2482 2806 0.806884 TGTTCTCGTTTGTCGGCGTT 60.807 50.000 6.85 0.00 40.32 4.84
2498 2822 2.108514 GTTGCGCTCATGCTAGCCA 61.109 57.895 13.29 0.24 39.43 4.75
2523 2847 2.359602 GCTCTCAGCTGCAGCCAA 60.360 61.111 34.39 21.51 43.38 4.52
2599 2923 4.645136 CAGCTGATACCCAAGAGTACACTA 59.355 45.833 8.42 0.00 0.00 2.74
2600 2924 4.645588 AGCTGATACCCAAGAGTACACTAC 59.354 45.833 0.00 0.00 0.00 2.73
2601 2925 4.401519 GCTGATACCCAAGAGTACACTACA 59.598 45.833 0.00 0.00 0.00 2.74
2602 2926 5.679127 GCTGATACCCAAGAGTACACTACAC 60.679 48.000 0.00 0.00 0.00 2.90
2603 2927 5.577100 TGATACCCAAGAGTACACTACACT 58.423 41.667 0.00 0.00 0.00 3.55
2607 2931 3.006967 CCCAAGAGTACACTACACTGCTT 59.993 47.826 0.00 0.00 29.96 3.91
2735 3059 2.158755 ACTGTATATCACCTTGCCTGGC 60.159 50.000 12.87 12.87 0.00 4.85
2978 3302 1.812571 CCTGTTGTACTGCATGGAACC 59.187 52.381 0.00 0.00 0.00 3.62
3145 3470 2.423446 CCTACCAGGCATCTCCGC 59.577 66.667 0.00 0.00 40.77 5.54
3189 3514 4.650131 ACTAGGAGCTAAGTGATTACCACC 59.350 45.833 0.00 0.00 46.87 4.61
3218 3543 5.049612 CAGCACATCAGCCTAACAATCTATG 60.050 44.000 0.00 0.00 34.23 2.23
3220 3545 5.049818 GCACATCAGCCTAACAATCTATGAC 60.050 44.000 0.00 0.00 0.00 3.06
3223 3548 6.540189 ACATCAGCCTAACAATCTATGACAAC 59.460 38.462 0.00 0.00 0.00 3.32
3234 3559 6.173339 CAATCTATGACAACCACAACCTAGT 58.827 40.000 0.00 0.00 0.00 2.57
3235 3560 5.401531 TCTATGACAACCACAACCTAGTC 57.598 43.478 0.00 0.00 0.00 2.59
3236 3561 4.836175 TCTATGACAACCACAACCTAGTCA 59.164 41.667 0.00 0.00 39.90 3.41
3237 3562 4.640771 ATGACAACCACAACCTAGTCAT 57.359 40.909 0.00 0.00 40.67 3.06
3238 3563 5.755409 ATGACAACCACAACCTAGTCATA 57.245 39.130 0.00 0.00 42.83 2.15
3239 3564 5.554437 TGACAACCACAACCTAGTCATAA 57.446 39.130 0.00 0.00 31.72 1.90
3240 3565 6.121776 TGACAACCACAACCTAGTCATAAT 57.878 37.500 0.00 0.00 31.72 1.28
3241 3566 6.539173 TGACAACCACAACCTAGTCATAATT 58.461 36.000 0.00 0.00 31.72 1.40
3242 3567 6.653320 TGACAACCACAACCTAGTCATAATTC 59.347 38.462 0.00 0.00 31.72 2.17
3243 3568 6.779860 ACAACCACAACCTAGTCATAATTCT 58.220 36.000 0.00 0.00 0.00 2.40
3244 3569 6.655003 ACAACCACAACCTAGTCATAATTCTG 59.345 38.462 0.00 0.00 0.00 3.02
3245 3570 6.620877 ACCACAACCTAGTCATAATTCTGA 57.379 37.500 0.00 0.00 0.00 3.27
3246 3571 6.644347 ACCACAACCTAGTCATAATTCTGAG 58.356 40.000 0.00 0.00 0.00 3.35
3247 3572 6.213600 ACCACAACCTAGTCATAATTCTGAGT 59.786 38.462 6.44 6.44 33.45 3.41
3248 3573 7.106239 CCACAACCTAGTCATAATTCTGAGTT 58.894 38.462 6.50 0.00 31.37 3.01
3249 3574 7.065085 CCACAACCTAGTCATAATTCTGAGTTG 59.935 40.741 15.90 15.90 35.80 3.16
3250 3575 6.595716 ACAACCTAGTCATAATTCTGAGTTGC 59.404 38.462 16.77 0.00 34.47 4.17
3251 3576 5.675538 ACCTAGTCATAATTCTGAGTTGCC 58.324 41.667 6.50 0.00 31.37 4.52
3252 3577 5.189736 ACCTAGTCATAATTCTGAGTTGCCA 59.810 40.000 6.50 0.00 31.37 4.92
3253 3578 6.126652 ACCTAGTCATAATTCTGAGTTGCCAT 60.127 38.462 6.50 0.00 31.37 4.40
3254 3579 6.204301 CCTAGTCATAATTCTGAGTTGCCATG 59.796 42.308 6.50 0.00 31.37 3.66
3255 3580 4.885907 AGTCATAATTCTGAGTTGCCATGG 59.114 41.667 7.63 7.63 0.00 3.66
3256 3581 4.883585 GTCATAATTCTGAGTTGCCATGGA 59.116 41.667 18.40 0.00 0.00 3.41
3257 3582 5.533903 GTCATAATTCTGAGTTGCCATGGAT 59.466 40.000 18.40 0.00 0.00 3.41
3258 3583 6.040166 GTCATAATTCTGAGTTGCCATGGATT 59.960 38.462 18.40 5.32 0.00 3.01
3259 3584 6.608405 TCATAATTCTGAGTTGCCATGGATTT 59.392 34.615 18.40 0.00 0.00 2.17
3260 3585 5.750352 AATTCTGAGTTGCCATGGATTTT 57.250 34.783 18.40 0.00 0.00 1.82
3261 3586 5.750352 ATTCTGAGTTGCCATGGATTTTT 57.250 34.783 18.40 0.00 0.00 1.94
3262 3587 4.789012 TCTGAGTTGCCATGGATTTTTC 57.211 40.909 18.40 6.35 0.00 2.29
3263 3588 3.511146 TCTGAGTTGCCATGGATTTTTCC 59.489 43.478 18.40 0.00 0.00 3.13
3264 3589 3.509442 TGAGTTGCCATGGATTTTTCCT 58.491 40.909 18.40 0.00 0.00 3.36
3265 3590 3.903090 TGAGTTGCCATGGATTTTTCCTT 59.097 39.130 18.40 0.00 0.00 3.36
3266 3591 4.347583 TGAGTTGCCATGGATTTTTCCTTT 59.652 37.500 18.40 0.00 0.00 3.11
3267 3592 5.163216 TGAGTTGCCATGGATTTTTCCTTTT 60.163 36.000 18.40 0.00 0.00 2.27
3268 3593 6.042552 TGAGTTGCCATGGATTTTTCCTTTTA 59.957 34.615 18.40 0.00 0.00 1.52
3269 3594 6.836242 AGTTGCCATGGATTTTTCCTTTTAA 58.164 32.000 18.40 0.00 0.00 1.52
3270 3595 7.286313 AGTTGCCATGGATTTTTCCTTTTAAA 58.714 30.769 18.40 0.00 0.00 1.52
3271 3596 7.777440 AGTTGCCATGGATTTTTCCTTTTAAAA 59.223 29.630 18.40 0.00 0.00 1.52
3272 3597 8.409371 GTTGCCATGGATTTTTCCTTTTAAAAA 58.591 29.630 18.40 0.00 41.25 1.94
3273 3598 8.164058 TGCCATGGATTTTTCCTTTTAAAAAG 57.836 30.769 18.40 0.00 40.57 2.27
3274 3599 7.995488 TGCCATGGATTTTTCCTTTTAAAAAGA 59.005 29.630 18.40 0.00 40.57 2.52
3275 3600 8.845227 GCCATGGATTTTTCCTTTTAAAAAGAA 58.155 29.630 18.40 7.72 40.57 2.52
3311 3636 9.807649 GGTGATAAAATTTGCATTATCTTCAGT 57.192 29.630 15.37 0.00 38.66 3.41
3323 3648 9.453572 TGCATTATCTTCAGTTCAATTTAGTCT 57.546 29.630 0.00 0.00 0.00 3.24
3342 3667 9.656323 TTTAGTCTATACATTGGTAGTGATCCT 57.344 33.333 0.00 0.00 31.88 3.24
3343 3668 9.656323 TTAGTCTATACATTGGTAGTGATCCTT 57.344 33.333 0.00 0.00 31.88 3.36
3344 3669 8.184304 AGTCTATACATTGGTAGTGATCCTTC 57.816 38.462 0.00 0.00 31.88 3.46
3345 3670 8.007742 AGTCTATACATTGGTAGTGATCCTTCT 58.992 37.037 0.00 0.00 31.88 2.85
3346 3671 8.085296 GTCTATACATTGGTAGTGATCCTTCTG 58.915 40.741 0.00 0.00 31.88 3.02
3347 3672 6.814954 ATACATTGGTAGTGATCCTTCTGT 57.185 37.500 0.00 0.00 31.88 3.41
3348 3673 5.091261 ACATTGGTAGTGATCCTTCTGTC 57.909 43.478 0.00 0.00 0.00 3.51
3349 3674 4.780021 ACATTGGTAGTGATCCTTCTGTCT 59.220 41.667 0.00 0.00 0.00 3.41
3350 3675 4.808414 TTGGTAGTGATCCTTCTGTCTG 57.192 45.455 0.00 0.00 0.00 3.51
3351 3676 2.497675 TGGTAGTGATCCTTCTGTCTGC 59.502 50.000 0.00 0.00 0.00 4.26
3352 3677 2.480416 GGTAGTGATCCTTCTGTCTGCG 60.480 54.545 0.00 0.00 0.00 5.18
3353 3678 1.261480 AGTGATCCTTCTGTCTGCGT 58.739 50.000 0.00 0.00 0.00 5.24
3354 3679 1.620819 AGTGATCCTTCTGTCTGCGTT 59.379 47.619 0.00 0.00 0.00 4.84
3355 3680 2.037772 AGTGATCCTTCTGTCTGCGTTT 59.962 45.455 0.00 0.00 0.00 3.60
3356 3681 3.258372 AGTGATCCTTCTGTCTGCGTTTA 59.742 43.478 0.00 0.00 0.00 2.01
3357 3682 3.994392 GTGATCCTTCTGTCTGCGTTTAA 59.006 43.478 0.00 0.00 0.00 1.52
3358 3683 4.631813 GTGATCCTTCTGTCTGCGTTTAAT 59.368 41.667 0.00 0.00 0.00 1.40
3359 3684 5.810587 GTGATCCTTCTGTCTGCGTTTAATA 59.189 40.000 0.00 0.00 0.00 0.98
3360 3685 6.480320 GTGATCCTTCTGTCTGCGTTTAATAT 59.520 38.462 0.00 0.00 0.00 1.28
3361 3686 7.011482 GTGATCCTTCTGTCTGCGTTTAATATT 59.989 37.037 0.00 0.00 0.00 1.28
3362 3687 8.201464 TGATCCTTCTGTCTGCGTTTAATATTA 58.799 33.333 0.00 0.00 0.00 0.98
3363 3688 9.209175 GATCCTTCTGTCTGCGTTTAATATTAT 57.791 33.333 0.00 0.00 0.00 1.28
3364 3689 8.589335 TCCTTCTGTCTGCGTTTAATATTATC 57.411 34.615 0.00 0.00 0.00 1.75
3365 3690 8.421784 TCCTTCTGTCTGCGTTTAATATTATCT 58.578 33.333 0.00 0.00 0.00 1.98
3366 3691 9.692749 CCTTCTGTCTGCGTTTAATATTATCTA 57.307 33.333 0.00 0.00 0.00 1.98
3396 3721 9.071276 AGCTTCAAGATCATTAAACTTTTCTGA 57.929 29.630 0.00 0.00 0.00 3.27
3397 3722 9.683069 GCTTCAAGATCATTAAACTTTTCTGAA 57.317 29.630 0.00 0.00 0.00 3.02
3406 3731 8.967218 TCATTAAACTTTTCTGAAATTTGAGCG 58.033 29.630 3.31 0.00 0.00 5.03
3407 3732 7.692908 TTAAACTTTTCTGAAATTTGAGCGG 57.307 32.000 3.31 0.00 0.00 5.52
3408 3733 4.918810 ACTTTTCTGAAATTTGAGCGGT 57.081 36.364 3.31 0.00 0.00 5.68
3409 3734 5.262588 ACTTTTCTGAAATTTGAGCGGTT 57.737 34.783 3.31 0.00 0.00 4.44
3410 3735 5.660460 ACTTTTCTGAAATTTGAGCGGTTT 58.340 33.333 3.31 0.00 0.00 3.27
3411 3736 5.519927 ACTTTTCTGAAATTTGAGCGGTTTG 59.480 36.000 3.31 0.00 0.00 2.93
3412 3737 4.909696 TTCTGAAATTTGAGCGGTTTGA 57.090 36.364 0.00 0.00 0.00 2.69
3413 3738 4.488126 TCTGAAATTTGAGCGGTTTGAG 57.512 40.909 0.00 0.00 0.00 3.02
3414 3739 3.882888 TCTGAAATTTGAGCGGTTTGAGT 59.117 39.130 0.00 0.00 0.00 3.41
3415 3740 5.060506 TCTGAAATTTGAGCGGTTTGAGTA 58.939 37.500 0.00 0.00 0.00 2.59
3416 3741 5.529430 TCTGAAATTTGAGCGGTTTGAGTAA 59.471 36.000 0.00 0.00 0.00 2.24
3417 3742 6.038825 TCTGAAATTTGAGCGGTTTGAGTAAA 59.961 34.615 0.00 0.00 0.00 2.01
3418 3743 6.565234 TGAAATTTGAGCGGTTTGAGTAAAA 58.435 32.000 0.00 0.00 0.00 1.52
3419 3744 7.036220 TGAAATTTGAGCGGTTTGAGTAAAAA 58.964 30.769 0.00 0.00 0.00 1.94
3449 3774 9.835389 ACATAAAATTTGGGACCATAAATCATG 57.165 29.630 6.46 10.94 0.00 3.07
3450 3775 9.835389 CATAAAATTTGGGACCATAAATCATGT 57.165 29.630 6.46 0.00 32.21 3.21
3451 3776 9.835389 ATAAAATTTGGGACCATAAATCATGTG 57.165 29.630 6.46 0.00 32.21 3.21
3452 3777 6.872585 AATTTGGGACCATAAATCATGTGT 57.127 33.333 6.46 0.00 32.21 3.72
3453 3778 6.872585 ATTTGGGACCATAAATCATGTGTT 57.127 33.333 0.00 0.00 32.21 3.32
3454 3779 7.969690 ATTTGGGACCATAAATCATGTGTTA 57.030 32.000 0.00 0.00 32.21 2.41
3455 3780 7.782897 TTTGGGACCATAAATCATGTGTTAA 57.217 32.000 0.00 0.00 32.21 2.01
3456 3781 7.969690 TTGGGACCATAAATCATGTGTTAAT 57.030 32.000 0.00 0.00 32.21 1.40
3457 3782 9.480861 TTTGGGACCATAAATCATGTGTTAATA 57.519 29.630 0.00 0.00 32.21 0.98
3458 3783 9.653516 TTGGGACCATAAATCATGTGTTAATAT 57.346 29.630 0.00 0.00 32.21 1.28
3459 3784 9.076781 TGGGACCATAAATCATGTGTTAATATG 57.923 33.333 0.00 0.00 32.21 1.78
3460 3785 9.077885 GGGACCATAAATCATGTGTTAATATGT 57.922 33.333 0.00 0.00 32.21 2.29
3499 3824 9.624373 AAATCATGTGTAAAGATAAGAGCAGAT 57.376 29.630 0.00 0.00 0.00 2.90
3501 3826 9.926158 ATCATGTGTAAAGATAAGAGCAGATAG 57.074 33.333 0.00 0.00 0.00 2.08
3502 3827 8.363390 TCATGTGTAAAGATAAGAGCAGATAGG 58.637 37.037 0.00 0.00 0.00 2.57
3503 3828 7.055667 TGTGTAAAGATAAGAGCAGATAGGG 57.944 40.000 0.00 0.00 0.00 3.53
3504 3829 6.611642 TGTGTAAAGATAAGAGCAGATAGGGT 59.388 38.462 0.00 0.00 0.00 4.34
3505 3830 7.125811 TGTGTAAAGATAAGAGCAGATAGGGTT 59.874 37.037 0.00 0.00 0.00 4.11
3506 3831 8.639761 GTGTAAAGATAAGAGCAGATAGGGTTA 58.360 37.037 0.00 0.00 0.00 2.85
3507 3832 8.639761 TGTAAAGATAAGAGCAGATAGGGTTAC 58.360 37.037 0.00 0.00 0.00 2.50
3508 3833 6.673839 AAGATAAGAGCAGATAGGGTTACC 57.326 41.667 0.00 0.00 0.00 2.85
3518 3843 4.542075 GGGTTACCTAGCAGCTGC 57.458 61.111 31.53 31.53 42.49 5.25
3519 3844 1.153147 GGGTTACCTAGCAGCTGCC 60.153 63.158 34.39 17.16 43.38 4.85
3520 3845 1.627297 GGGTTACCTAGCAGCTGCCT 61.627 60.000 34.39 22.98 43.38 4.75
3521 3846 1.120530 GGTTACCTAGCAGCTGCCTA 58.879 55.000 34.39 22.87 43.38 3.93
3522 3847 1.069358 GGTTACCTAGCAGCTGCCTAG 59.931 57.143 34.39 29.09 43.38 3.02
3523 3848 2.032620 GTTACCTAGCAGCTGCCTAGA 58.967 52.381 34.39 16.63 43.38 2.43
3524 3849 2.630580 GTTACCTAGCAGCTGCCTAGAT 59.369 50.000 34.39 22.67 43.38 1.98
3525 3850 1.799933 ACCTAGCAGCTGCCTAGATT 58.200 50.000 34.39 17.78 43.38 2.40
3526 3851 1.691434 ACCTAGCAGCTGCCTAGATTC 59.309 52.381 34.39 5.26 43.38 2.52
3527 3852 1.690893 CCTAGCAGCTGCCTAGATTCA 59.309 52.381 34.39 9.07 43.38 2.57
3528 3853 2.547642 CCTAGCAGCTGCCTAGATTCAC 60.548 54.545 34.39 3.66 43.38 3.18
3529 3854 0.907486 AGCAGCTGCCTAGATTCACA 59.093 50.000 34.39 0.00 43.38 3.58
3530 3855 1.134461 AGCAGCTGCCTAGATTCACAG 60.134 52.381 34.39 0.00 43.38 3.66
3535 3860 2.983229 CTGCCTAGATTCACAGCTTGT 58.017 47.619 0.00 0.00 0.00 3.16
3536 3861 2.935201 CTGCCTAGATTCACAGCTTGTC 59.065 50.000 0.00 0.00 0.00 3.18
3537 3862 2.284190 GCCTAGATTCACAGCTTGTCC 58.716 52.381 0.00 0.00 0.00 4.02
3538 3863 2.093235 GCCTAGATTCACAGCTTGTCCT 60.093 50.000 0.00 0.00 0.00 3.85
3539 3864 3.620966 GCCTAGATTCACAGCTTGTCCTT 60.621 47.826 0.00 0.00 0.00 3.36
3540 3865 4.583871 CCTAGATTCACAGCTTGTCCTTT 58.416 43.478 0.00 0.00 0.00 3.11
3541 3866 4.394300 CCTAGATTCACAGCTTGTCCTTTG 59.606 45.833 0.00 0.00 0.00 2.77
3542 3867 3.825328 AGATTCACAGCTTGTCCTTTGT 58.175 40.909 0.00 0.00 0.00 2.83
3543 3868 4.210331 AGATTCACAGCTTGTCCTTTGTT 58.790 39.130 0.00 0.00 0.00 2.83
3544 3869 4.646492 AGATTCACAGCTTGTCCTTTGTTT 59.354 37.500 0.00 0.00 0.00 2.83
3545 3870 4.799564 TTCACAGCTTGTCCTTTGTTTT 57.200 36.364 0.00 0.00 0.00 2.43
3546 3871 4.799564 TCACAGCTTGTCCTTTGTTTTT 57.200 36.364 0.00 0.00 0.00 1.94
3547 3872 4.493547 TCACAGCTTGTCCTTTGTTTTTG 58.506 39.130 0.00 0.00 0.00 2.44
3548 3873 4.021544 TCACAGCTTGTCCTTTGTTTTTGT 60.022 37.500 0.00 0.00 0.00 2.83
3549 3874 4.690280 CACAGCTTGTCCTTTGTTTTTGTT 59.310 37.500 0.00 0.00 0.00 2.83
3550 3875 5.179182 CACAGCTTGTCCTTTGTTTTTGTTT 59.821 36.000 0.00 0.00 0.00 2.83
3551 3876 5.762711 ACAGCTTGTCCTTTGTTTTTGTTTT 59.237 32.000 0.00 0.00 0.00 2.43
3552 3877 6.262049 ACAGCTTGTCCTTTGTTTTTGTTTTT 59.738 30.769 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 64 0.745468 ATCTCTACGGTTCCCTTCGC 59.255 55.000 0.00 0.00 0.00 4.70
62 66 5.349809 CACTTTATCTCTACGGTTCCCTTC 58.650 45.833 0.00 0.00 0.00 3.46
64 68 3.132467 GCACTTTATCTCTACGGTTCCCT 59.868 47.826 0.00 0.00 0.00 4.20
65 69 3.118884 TGCACTTTATCTCTACGGTTCCC 60.119 47.826 0.00 0.00 0.00 3.97
68 72 5.730550 TGATTGCACTTTATCTCTACGGTT 58.269 37.500 0.00 0.00 0.00 4.44
98 102 1.879380 CGGAGCAAACATGGACTTGAA 59.121 47.619 0.00 0.00 0.00 2.69
123 127 1.341976 ACACCACAGCCTGTCCTTTTT 60.342 47.619 0.00 0.00 0.00 1.94
124 128 0.258774 ACACCACAGCCTGTCCTTTT 59.741 50.000 0.00 0.00 0.00 2.27
169 174 5.809001 ACATATATGGCATGTGTAAGAGGG 58.191 41.667 16.96 0.00 35.33 4.30
216 222 5.291293 ACTTTTGTGATTACGCATGTACC 57.709 39.130 0.00 0.00 36.39 3.34
284 296 6.403333 TCAGTCAACAGTTTGCGATAATAC 57.597 37.500 0.00 0.00 32.17 1.89
302 314 3.119495 CCCAAACATCCCGATTTTCAGTC 60.119 47.826 0.00 0.00 0.00 3.51
312 324 4.210724 TCTAAAGTACCCAAACATCCCG 57.789 45.455 0.00 0.00 0.00 5.14
340 376 1.065854 TCTTTTGCCTGAGCTCCTAGC 60.066 52.381 12.15 11.83 42.84 3.42
347 383 6.089476 GTCTTATTTCTTCTTTTGCCTGAGC 58.911 40.000 0.00 0.00 40.48 4.26
353 389 6.143919 CCCGTTTGTCTTATTTCTTCTTTTGC 59.856 38.462 0.00 0.00 0.00 3.68
379 421 3.548668 TGTATAGCGTTCCATTTTCGACG 59.451 43.478 0.00 0.00 38.45 5.12
381 423 6.148150 ACTTTTGTATAGCGTTCCATTTTCGA 59.852 34.615 0.00 0.00 0.00 3.71
470 571 1.135916 GCGCGTAGGTCTCATAGCTAG 60.136 57.143 8.43 0.00 38.83 3.42
514 615 3.317711 TCACATTACCAGCAAAACACCAG 59.682 43.478 0.00 0.00 0.00 4.00
600 705 8.038944 TGGTTAGGTACATCTAACATGAGAAAC 58.961 37.037 18.13 0.32 46.50 2.78
664 769 2.045926 GCGTGGAGTGAGGGCAAT 60.046 61.111 0.00 0.00 0.00 3.56
676 781 1.153489 CATGACAGGAGGAGCGTGG 60.153 63.158 0.00 0.00 36.71 4.94
695 800 2.741228 GCAGAGGAGTTTGCATCTCGAT 60.741 50.000 11.50 5.01 40.02 3.59
719 824 4.677673 AGTGCCAAAGAAGAGCATTTTT 57.322 36.364 0.00 0.00 39.04 1.94
820 925 2.671888 GGCTACCTTGTTTCTACTTCGC 59.328 50.000 0.00 0.00 0.00 4.70
873 980 0.109132 CGGATCTTGCAAGTTTGGGC 60.109 55.000 25.19 5.94 0.00 5.36
910 1017 9.319143 GAGATTATATGCTGGTATAATGGTGAC 57.681 37.037 11.63 0.00 37.37 3.67
953 1061 1.749258 GGTTTGGGGTGATCGGAGC 60.749 63.158 0.00 0.00 0.00 4.70
975 1083 1.335964 TGCCTCTGAAGAAGAACGTCG 60.336 52.381 0.00 0.00 33.37 5.12
978 1086 1.433534 GGTGCCTCTGAAGAAGAACG 58.566 55.000 0.00 0.00 33.37 3.95
990 1098 1.077429 GAGGTCCATTGGGTGCCTC 60.077 63.158 18.91 18.91 44.02 4.70
993 1101 1.450312 CTCGAGGTCCATTGGGTGC 60.450 63.158 3.91 0.00 34.93 5.01
996 1104 0.816825 CATGCTCGAGGTCCATTGGG 60.817 60.000 15.58 0.00 0.00 4.12
1050 1158 1.905922 GCTTGTCCTTGAGCGAGCAC 61.906 60.000 0.00 0.00 40.77 4.40
1167 1275 3.372730 CCCACAATGGCCACCACG 61.373 66.667 8.16 0.00 35.80 4.94
1199 1307 1.202698 ACTTGGCAGTGAAGGTCTGTC 60.203 52.381 0.00 0.00 37.94 3.51
1200 1308 0.839946 ACTTGGCAGTGAAGGTCTGT 59.160 50.000 0.00 0.00 35.60 3.41
1248 1356 1.183676 AGCAAGCAAAGCAAGGAGGG 61.184 55.000 0.00 0.00 0.00 4.30
1249 1357 0.677842 AAGCAAGCAAAGCAAGGAGG 59.322 50.000 0.00 0.00 0.00 4.30
1329 1443 2.304470 TGGCTATGACAAAGTACCTGCA 59.696 45.455 0.00 0.00 0.00 4.41
1353 1467 3.200825 AGGTTATACAGACTGGCAATGCT 59.799 43.478 4.82 0.00 0.00 3.79
1389 1503 3.369892 CCCTGGACAATACACCTTCTGAG 60.370 52.174 0.00 0.00 0.00 3.35
1400 1514 2.317530 GGCCCTTCCCTGGACAATA 58.682 57.895 0.00 0.00 0.00 1.90
1401 1515 3.100111 GGCCCTTCCCTGGACAAT 58.900 61.111 0.00 0.00 0.00 2.71
1541 1660 6.423905 TGATGAAAGTGTGAAACTACTACTGC 59.576 38.462 0.00 0.00 38.56 4.40
1611 1730 4.208666 TCGTAGATCTATTCGATATCCGCG 59.791 45.833 5.57 0.00 38.37 6.46
1615 1734 8.273557 GCTTCTCTCGTAGATCTATTCGATATC 58.726 40.741 13.87 0.00 33.89 1.63
1626 1745 3.784701 TGGTTGCTTCTCTCGTAGATC 57.215 47.619 0.00 0.00 33.89 2.75
1665 1784 8.477419 AGGGAAAACTTCATTTAAGATCAACA 57.523 30.769 0.00 0.00 38.67 3.33
1666 1785 9.841880 GTAGGGAAAACTTCATTTAAGATCAAC 57.158 33.333 0.00 0.00 38.67 3.18
1670 1789 8.934023 TGTGTAGGGAAAACTTCATTTAAGAT 57.066 30.769 0.00 0.00 38.67 2.40
1687 1806 0.911769 TCTGCCTGGATTGTGTAGGG 59.088 55.000 0.00 0.00 32.15 3.53
1703 1822 4.015084 AGGCTCCAAATTTGTCAGATCTG 58.985 43.478 17.07 17.07 0.00 2.90
1712 1831 3.070015 ACCAACAGAAGGCTCCAAATTTG 59.930 43.478 11.40 11.40 0.00 2.32
1715 1834 2.242043 CACCAACAGAAGGCTCCAAAT 58.758 47.619 0.00 0.00 0.00 2.32
1729 1848 5.682943 TGTGTTTTCATAGTAGCACCAAC 57.317 39.130 0.00 0.00 0.00 3.77
1730 1849 4.215399 GCTGTGTTTTCATAGTAGCACCAA 59.785 41.667 0.00 0.00 40.44 3.67
1776 1895 3.058016 CACTGGTTGTGGATAGTTGCAAG 60.058 47.826 0.00 0.00 42.68 4.01
1820 1944 1.267533 CAATACAAGTGCAGCACAGCA 59.732 47.619 27.35 10.59 43.35 4.41
1821 1945 1.267806 ACAATACAAGTGCAGCACAGC 59.732 47.619 27.35 0.16 36.74 4.40
1822 1946 3.996363 TCTACAATACAAGTGCAGCACAG 59.004 43.478 27.35 20.35 36.74 3.66
1823 1947 3.745975 GTCTACAATACAAGTGCAGCACA 59.254 43.478 27.35 7.05 36.74 4.57
1884 2200 3.312736 AAGTGCAAGGAGGAGGAAAAA 57.687 42.857 0.00 0.00 0.00 1.94
1902 2218 9.177608 TGATTATCTTATTTGGGACACTGAAAG 57.822 33.333 0.00 0.00 39.29 2.62
1908 2224 7.823745 ACCATGATTATCTTATTTGGGACAC 57.176 36.000 0.00 0.00 39.29 3.67
1934 2250 7.555195 AGGTTTTGTATAAGTAATGGCCAGTAC 59.445 37.037 31.15 31.15 32.56 2.73
1951 2267 6.495872 ACACTACTACTGGATGAGGTTTTGTA 59.504 38.462 0.00 0.00 0.00 2.41
1975 2295 5.590530 AGATACTCTGATGGAAGTGTGAC 57.409 43.478 0.00 0.00 0.00 3.67
1984 2304 5.350504 ACAGTCCAAAGATACTCTGATGG 57.649 43.478 0.00 3.86 36.29 3.51
2076 2400 6.617782 ATCAGATATCCCTGGATTGTGTAG 57.382 41.667 3.59 0.00 36.17 2.74
2102 2426 1.659098 CACCGTCATAAGGCTCGAAAC 59.341 52.381 0.00 0.00 0.00 2.78
2106 2430 0.384309 TAGCACCGTCATAAGGCTCG 59.616 55.000 0.00 0.00 36.10 5.03
2225 2549 0.320374 TGTGCCACAGTAGTAGGTGC 59.680 55.000 0.00 0.00 33.72 5.01
2228 2552 2.159043 CCAGATGTGCCACAGTAGTAGG 60.159 54.545 3.00 0.00 0.00 3.18
2232 2556 0.036105 TGCCAGATGTGCCACAGTAG 60.036 55.000 3.00 0.00 0.00 2.57
2268 2592 0.033642 TCATGTGTTGCCGTCCGTTA 59.966 50.000 0.00 0.00 0.00 3.18
2271 2595 1.581934 ATATCATGTGTTGCCGTCCG 58.418 50.000 0.00 0.00 0.00 4.79
2297 2621 1.808945 GGACATTGACAGCACAAGGAG 59.191 52.381 9.19 0.64 35.84 3.69
2305 2629 2.489938 TTACCTGGGACATTGACAGC 57.510 50.000 0.00 0.00 38.20 4.40
2452 2776 4.023450 ACAAACGAGAACACGAGAGATACA 60.023 41.667 0.00 0.00 37.03 2.29
2458 2782 1.598676 CCGACAAACGAGAACACGAGA 60.599 52.381 0.00 0.00 45.77 4.04
2466 2790 2.591311 GCAACGCCGACAAACGAGA 61.591 57.895 0.00 0.00 45.77 4.04
2498 2822 1.271217 TGCAGCTGAGAGCAAGTTCAT 60.271 47.619 20.43 0.00 45.56 2.57
2581 2905 5.679127 GCAGTGTAGTGTACTCTTGGGTATC 60.679 48.000 2.25 0.00 30.75 2.24
2599 2923 1.977854 TCCCAGTGACATAAGCAGTGT 59.022 47.619 0.00 0.00 35.44 3.55
2600 2924 2.768253 TCCCAGTGACATAAGCAGTG 57.232 50.000 0.00 0.00 36.65 3.66
2601 2925 2.573462 ACATCCCAGTGACATAAGCAGT 59.427 45.455 0.00 0.00 0.00 4.40
2602 2926 2.941064 CACATCCCAGTGACATAAGCAG 59.059 50.000 0.00 0.00 42.05 4.24
2603 2927 2.571202 TCACATCCCAGTGACATAAGCA 59.429 45.455 0.00 0.00 43.18 3.91
2700 3024 8.395633 GGTGATATACAGTTGTACACCAAATTC 58.604 37.037 18.37 0.00 41.26 2.17
2752 3076 3.222603 CCATAACCAACCAGGGCTTATC 58.777 50.000 0.00 0.00 43.89 1.75
3132 3457 0.819582 ATTTTTGCGGAGATGCCTGG 59.180 50.000 0.00 0.00 0.00 4.45
3145 3470 6.592798 AGTTGCATGTTGACTGAATTTTTG 57.407 33.333 0.00 0.00 0.00 2.44
3189 3514 2.857575 TAGGCTGATGTGCTGCACCG 62.858 60.000 28.17 15.32 42.62 4.94
3218 3543 6.879458 AGAATTATGACTAGGTTGTGGTTGTC 59.121 38.462 0.00 0.00 0.00 3.18
3220 3545 6.878923 TCAGAATTATGACTAGGTTGTGGTTG 59.121 38.462 0.00 0.00 0.00 3.77
3223 3548 6.644347 ACTCAGAATTATGACTAGGTTGTGG 58.356 40.000 0.00 0.00 0.00 4.17
3234 3559 5.114764 TCCATGGCAACTCAGAATTATGA 57.885 39.130 6.96 2.26 37.61 2.15
3235 3560 6.401047 AATCCATGGCAACTCAGAATTATG 57.599 37.500 6.96 0.00 37.61 1.90
3236 3561 7.427989 AAAATCCATGGCAACTCAGAATTAT 57.572 32.000 6.96 0.00 37.61 1.28
3237 3562 6.855763 AAAATCCATGGCAACTCAGAATTA 57.144 33.333 6.96 0.00 37.61 1.40
3238 3563 5.750352 AAAATCCATGGCAACTCAGAATT 57.250 34.783 6.96 0.00 37.61 2.17
3239 3564 5.337813 GGAAAAATCCATGGCAACTCAGAAT 60.338 40.000 6.96 0.00 37.61 2.40
3240 3565 4.021192 GGAAAAATCCATGGCAACTCAGAA 60.021 41.667 6.96 0.00 37.61 3.02
3241 3566 3.511146 GGAAAAATCCATGGCAACTCAGA 59.489 43.478 6.96 0.00 37.61 3.27
3242 3567 3.512724 AGGAAAAATCCATGGCAACTCAG 59.487 43.478 6.96 0.00 37.61 3.35
3243 3568 3.509442 AGGAAAAATCCATGGCAACTCA 58.491 40.909 6.96 0.00 37.61 3.41
3244 3569 4.541973 AAGGAAAAATCCATGGCAACTC 57.458 40.909 6.96 0.00 37.61 3.01
3245 3570 4.980339 AAAGGAAAAATCCATGGCAACT 57.020 36.364 6.96 0.00 37.61 3.16
3246 3571 7.503521 TTTAAAAGGAAAAATCCATGGCAAC 57.496 32.000 6.96 0.00 0.00 4.17
3247 3572 8.525290 TTTTTAAAAGGAAAAATCCATGGCAA 57.475 26.923 6.96 0.00 34.23 4.52
3248 3573 7.995488 TCTTTTTAAAAGGAAAAATCCATGGCA 59.005 29.630 16.21 0.00 37.58 4.92
3249 3574 8.389779 TCTTTTTAAAAGGAAAAATCCATGGC 57.610 30.769 16.21 0.00 37.58 4.40
3285 3610 9.807649 ACTGAAGATAATGCAAATTTTATCACC 57.192 29.630 16.33 9.81 0.00 4.02
3297 3622 9.453572 AGACTAAATTGAACTGAAGATAATGCA 57.546 29.630 0.00 0.00 0.00 3.96
3316 3641 9.656323 AGGATCACTACCAATGTATAGACTAAA 57.344 33.333 0.00 0.00 0.00 1.85
3317 3642 9.656323 AAGGATCACTACCAATGTATAGACTAA 57.344 33.333 0.00 0.00 0.00 2.24
3318 3643 9.298250 GAAGGATCACTACCAATGTATAGACTA 57.702 37.037 0.00 0.00 0.00 2.59
3319 3644 8.007742 AGAAGGATCACTACCAATGTATAGACT 58.992 37.037 0.00 0.00 0.00 3.24
3320 3645 8.085296 CAGAAGGATCACTACCAATGTATAGAC 58.915 40.741 0.00 0.00 0.00 2.59
3321 3646 7.785028 ACAGAAGGATCACTACCAATGTATAGA 59.215 37.037 0.00 0.00 0.00 1.98
3322 3647 7.957002 ACAGAAGGATCACTACCAATGTATAG 58.043 38.462 0.00 0.00 0.00 1.31
3323 3648 7.785028 AGACAGAAGGATCACTACCAATGTATA 59.215 37.037 0.00 0.00 0.00 1.47
3324 3649 6.613271 AGACAGAAGGATCACTACCAATGTAT 59.387 38.462 0.00 0.00 0.00 2.29
3325 3650 5.958380 AGACAGAAGGATCACTACCAATGTA 59.042 40.000 0.00 0.00 0.00 2.29
3326 3651 4.780021 AGACAGAAGGATCACTACCAATGT 59.220 41.667 0.00 0.00 0.00 2.71
3327 3652 5.114780 CAGACAGAAGGATCACTACCAATG 58.885 45.833 0.00 0.00 0.00 2.82
3328 3653 4.383552 GCAGACAGAAGGATCACTACCAAT 60.384 45.833 0.00 0.00 0.00 3.16
3329 3654 3.055819 GCAGACAGAAGGATCACTACCAA 60.056 47.826 0.00 0.00 0.00 3.67
3330 3655 2.497675 GCAGACAGAAGGATCACTACCA 59.502 50.000 0.00 0.00 0.00 3.25
3331 3656 2.480416 CGCAGACAGAAGGATCACTACC 60.480 54.545 0.00 0.00 0.00 3.18
3332 3657 2.164624 ACGCAGACAGAAGGATCACTAC 59.835 50.000 0.00 0.00 0.00 2.73
3333 3658 2.447443 ACGCAGACAGAAGGATCACTA 58.553 47.619 0.00 0.00 0.00 2.74
3334 3659 1.261480 ACGCAGACAGAAGGATCACT 58.739 50.000 0.00 0.00 0.00 3.41
3335 3660 2.086054 AACGCAGACAGAAGGATCAC 57.914 50.000 0.00 0.00 0.00 3.06
3336 3661 2.839486 AAACGCAGACAGAAGGATCA 57.161 45.000 0.00 0.00 0.00 2.92
3337 3662 7.484035 AATATTAAACGCAGACAGAAGGATC 57.516 36.000 0.00 0.00 0.00 3.36
3338 3663 9.209175 GATAATATTAAACGCAGACAGAAGGAT 57.791 33.333 0.00 0.00 0.00 3.24
3339 3664 8.421784 AGATAATATTAAACGCAGACAGAAGGA 58.578 33.333 0.00 0.00 0.00 3.36
3340 3665 8.594881 AGATAATATTAAACGCAGACAGAAGG 57.405 34.615 0.00 0.00 0.00 3.46
3370 3695 9.071276 TCAGAAAAGTTTAATGATCTTGAAGCT 57.929 29.630 0.00 0.00 0.00 3.74
3371 3696 9.683069 TTCAGAAAAGTTTAATGATCTTGAAGC 57.317 29.630 0.00 0.00 0.00 3.86
3380 3705 8.967218 CGCTCAAATTTCAGAAAAGTTTAATGA 58.033 29.630 0.00 0.00 30.72 2.57
3381 3706 8.216453 CCGCTCAAATTTCAGAAAAGTTTAATG 58.784 33.333 0.00 0.00 30.72 1.90
3382 3707 7.926018 ACCGCTCAAATTTCAGAAAAGTTTAAT 59.074 29.630 0.00 0.00 30.72 1.40
3383 3708 7.262048 ACCGCTCAAATTTCAGAAAAGTTTAA 58.738 30.769 0.00 0.00 30.72 1.52
3384 3709 6.801575 ACCGCTCAAATTTCAGAAAAGTTTA 58.198 32.000 0.00 0.00 30.72 2.01
3385 3710 5.660460 ACCGCTCAAATTTCAGAAAAGTTT 58.340 33.333 0.00 0.00 30.72 2.66
3386 3711 5.262588 ACCGCTCAAATTTCAGAAAAGTT 57.737 34.783 0.00 0.00 33.21 2.66
3387 3712 4.918810 ACCGCTCAAATTTCAGAAAAGT 57.081 36.364 0.00 0.00 0.00 2.66
3388 3713 5.748152 TCAAACCGCTCAAATTTCAGAAAAG 59.252 36.000 0.00 0.00 0.00 2.27
3389 3714 5.655488 TCAAACCGCTCAAATTTCAGAAAA 58.345 33.333 0.00 0.00 0.00 2.29
3390 3715 5.163561 ACTCAAACCGCTCAAATTTCAGAAA 60.164 36.000 0.00 0.00 0.00 2.52
3391 3716 4.338118 ACTCAAACCGCTCAAATTTCAGAA 59.662 37.500 0.00 0.00 0.00 3.02
3392 3717 3.882888 ACTCAAACCGCTCAAATTTCAGA 59.117 39.130 0.00 0.00 0.00 3.27
3393 3718 4.228912 ACTCAAACCGCTCAAATTTCAG 57.771 40.909 0.00 0.00 0.00 3.02
3394 3719 5.759506 TTACTCAAACCGCTCAAATTTCA 57.240 34.783 0.00 0.00 0.00 2.69
3395 3720 7.458038 TTTTTACTCAAACCGCTCAAATTTC 57.542 32.000 0.00 0.00 0.00 2.17
3423 3748 9.835389 CATGATTTATGGTCCCAAATTTTATGT 57.165 29.630 0.00 0.00 32.95 2.29
3424 3749 9.835389 ACATGATTTATGGTCCCAAATTTTATG 57.165 29.630 0.00 7.87 41.25 1.90
3425 3750 9.835389 CACATGATTTATGGTCCCAAATTTTAT 57.165 29.630 0.00 0.00 41.25 1.40
3426 3751 8.820831 ACACATGATTTATGGTCCCAAATTTTA 58.179 29.630 0.00 0.00 41.25 1.52
3427 3752 7.688343 ACACATGATTTATGGTCCCAAATTTT 58.312 30.769 0.00 0.00 41.25 1.82
3428 3753 7.256494 ACACATGATTTATGGTCCCAAATTT 57.744 32.000 0.00 0.00 41.25 1.82
3429 3754 6.872585 ACACATGATTTATGGTCCCAAATT 57.127 33.333 0.00 0.00 41.25 1.82
3430 3755 6.872585 AACACATGATTTATGGTCCCAAAT 57.127 33.333 0.00 0.00 41.25 2.32
3431 3756 7.782897 TTAACACATGATTTATGGTCCCAAA 57.217 32.000 0.00 0.00 41.25 3.28
3432 3757 7.969690 ATTAACACATGATTTATGGTCCCAA 57.030 32.000 0.00 0.00 41.25 4.12
3433 3758 9.076781 CATATTAACACATGATTTATGGTCCCA 57.923 33.333 0.00 0.00 41.25 4.37
3434 3759 9.077885 ACATATTAACACATGATTTATGGTCCC 57.922 33.333 0.00 0.00 41.25 4.46
3473 3798 9.624373 ATCTGCTCTTATCTTTACACATGATTT 57.376 29.630 0.00 0.00 0.00 2.17
3475 3800 9.926158 CTATCTGCTCTTATCTTTACACATGAT 57.074 33.333 0.00 0.00 0.00 2.45
3476 3801 8.363390 CCTATCTGCTCTTATCTTTACACATGA 58.637 37.037 0.00 0.00 0.00 3.07
3477 3802 7.601886 CCCTATCTGCTCTTATCTTTACACATG 59.398 40.741 0.00 0.00 0.00 3.21
3478 3803 7.291182 ACCCTATCTGCTCTTATCTTTACACAT 59.709 37.037 0.00 0.00 0.00 3.21
3479 3804 6.611642 ACCCTATCTGCTCTTATCTTTACACA 59.388 38.462 0.00 0.00 0.00 3.72
3480 3805 7.056844 ACCCTATCTGCTCTTATCTTTACAC 57.943 40.000 0.00 0.00 0.00 2.90
3481 3806 7.676683 AACCCTATCTGCTCTTATCTTTACA 57.323 36.000 0.00 0.00 0.00 2.41
3482 3807 8.089597 GGTAACCCTATCTGCTCTTATCTTTAC 58.910 40.741 0.00 0.00 0.00 2.01
3483 3808 8.011290 AGGTAACCCTATCTGCTCTTATCTTTA 58.989 37.037 0.00 0.00 40.19 1.85
3484 3809 6.847036 AGGTAACCCTATCTGCTCTTATCTTT 59.153 38.462 0.00 0.00 40.19 2.52
3485 3810 6.386284 AGGTAACCCTATCTGCTCTTATCTT 58.614 40.000 0.00 0.00 40.19 2.40
3486 3811 5.971493 AGGTAACCCTATCTGCTCTTATCT 58.029 41.667 0.00 0.00 40.19 1.98
3487 3812 6.127563 GCTAGGTAACCCTATCTGCTCTTATC 60.128 46.154 0.00 0.00 42.54 1.75
3488 3813 5.717654 GCTAGGTAACCCTATCTGCTCTTAT 59.282 44.000 0.00 0.00 42.54 1.73
3489 3814 5.078256 GCTAGGTAACCCTATCTGCTCTTA 58.922 45.833 0.00 0.00 42.54 2.10
3490 3815 3.898741 GCTAGGTAACCCTATCTGCTCTT 59.101 47.826 0.00 0.00 42.54 2.85
3491 3816 3.117093 TGCTAGGTAACCCTATCTGCTCT 60.117 47.826 0.00 0.00 42.54 4.09
3492 3817 3.231818 TGCTAGGTAACCCTATCTGCTC 58.768 50.000 0.00 0.00 42.54 4.26
3493 3818 3.235200 CTGCTAGGTAACCCTATCTGCT 58.765 50.000 0.00 0.00 42.54 4.24
3494 3819 2.289133 GCTGCTAGGTAACCCTATCTGC 60.289 54.545 5.96 5.96 42.96 4.26
3495 3820 3.006323 CAGCTGCTAGGTAACCCTATCTG 59.994 52.174 0.00 0.00 42.54 2.90
3496 3821 3.235200 CAGCTGCTAGGTAACCCTATCT 58.765 50.000 0.00 0.00 42.54 1.98
3497 3822 2.289133 GCAGCTGCTAGGTAACCCTATC 60.289 54.545 31.33 0.00 42.54 2.08
3498 3823 1.694696 GCAGCTGCTAGGTAACCCTAT 59.305 52.381 31.33 0.00 42.54 2.57
3499 3824 1.120530 GCAGCTGCTAGGTAACCCTA 58.879 55.000 31.33 0.00 42.66 3.53
3500 3825 1.627297 GGCAGCTGCTAGGTAACCCT 61.627 60.000 35.82 0.00 40.45 4.34
3501 3826 1.153147 GGCAGCTGCTAGGTAACCC 60.153 63.158 35.82 14.01 41.70 4.11
3502 3827 1.069358 CTAGGCAGCTGCTAGGTAACC 59.931 57.143 35.82 17.96 41.70 2.85
3503 3828 2.032620 TCTAGGCAGCTGCTAGGTAAC 58.967 52.381 35.82 18.70 41.70 2.50
3504 3829 2.454336 TCTAGGCAGCTGCTAGGTAA 57.546 50.000 35.82 16.72 41.70 2.85
3505 3830 2.685106 ATCTAGGCAGCTGCTAGGTA 57.315 50.000 35.82 20.81 41.70 3.08
3506 3831 1.691434 GAATCTAGGCAGCTGCTAGGT 59.309 52.381 35.82 26.31 41.70 3.08
3507 3832 1.690893 TGAATCTAGGCAGCTGCTAGG 59.309 52.381 35.82 24.32 41.70 3.02
3508 3833 2.102084 TGTGAATCTAGGCAGCTGCTAG 59.898 50.000 35.82 30.16 41.70 3.42
3509 3834 2.102084 CTGTGAATCTAGGCAGCTGCTA 59.898 50.000 35.82 23.83 41.70 3.49
3510 3835 0.907486 TGTGAATCTAGGCAGCTGCT 59.093 50.000 35.82 23.99 41.70 4.24
3511 3836 1.297664 CTGTGAATCTAGGCAGCTGC 58.702 55.000 30.88 30.88 41.14 5.25
3515 3840 2.935201 GACAAGCTGTGAATCTAGGCAG 59.065 50.000 0.00 0.00 0.00 4.85
3516 3841 2.355108 GGACAAGCTGTGAATCTAGGCA 60.355 50.000 0.00 0.00 0.00 4.75
3517 3842 2.093235 AGGACAAGCTGTGAATCTAGGC 60.093 50.000 0.00 0.00 0.00 3.93
3518 3843 3.902881 AGGACAAGCTGTGAATCTAGG 57.097 47.619 0.00 0.00 0.00 3.02
3519 3844 4.999950 ACAAAGGACAAGCTGTGAATCTAG 59.000 41.667 0.00 0.00 0.00 2.43
3520 3845 4.973168 ACAAAGGACAAGCTGTGAATCTA 58.027 39.130 0.00 0.00 0.00 1.98
3521 3846 3.825328 ACAAAGGACAAGCTGTGAATCT 58.175 40.909 0.00 0.00 0.00 2.40
3522 3847 4.574599 AACAAAGGACAAGCTGTGAATC 57.425 40.909 0.00 0.00 0.00 2.52
3523 3848 5.343307 AAAACAAAGGACAAGCTGTGAAT 57.657 34.783 0.00 0.00 0.00 2.57
3524 3849 4.799564 AAAACAAAGGACAAGCTGTGAA 57.200 36.364 0.00 0.00 0.00 3.18
3525 3850 4.021544 ACAAAAACAAAGGACAAGCTGTGA 60.022 37.500 0.00 0.00 0.00 3.58
3526 3851 4.244862 ACAAAAACAAAGGACAAGCTGTG 58.755 39.130 0.00 0.00 0.00 3.66
3527 3852 4.535526 ACAAAAACAAAGGACAAGCTGT 57.464 36.364 0.00 0.00 0.00 4.40
3528 3853 5.861222 AAACAAAAACAAAGGACAAGCTG 57.139 34.783 0.00 0.00 0.00 4.24
3529 3854 6.875948 AAAAACAAAAACAAAGGACAAGCT 57.124 29.167 0.00 0.00 0.00 3.74


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

AutoCloner maintained by Alex Coulton.