Multiple sequence alignment - TraesCS5B01G042500

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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 TraesCS5B01G042500 chr5B 100.000 3559 0 0 1 3559 47120894 47124452 0.000000e+00 6573.0
1 TraesCS5B01G042500 chr5B 89.954 1304 99 14 2079 3367 502021495 502022781 0.000000e+00 1653.0
2 TraesCS5B01G042500 chr5B 76.566 1421 262 46 1587 2968 477965177 477966565 0.000000e+00 713.0
3 TraesCS5B01G042500 chr5B 81.583 581 71 22 212 778 505733214 505733772 8.250000e-122 448.0
4 TraesCS5B01G042500 chr5B 86.085 424 47 5 1657 2080 502015304 502015715 2.970000e-121 446.0
5 TraesCS5B01G042500 chr5B 81.770 565 67 21 225 773 502013117 502013661 1.380000e-119 440.0
6 TraesCS5B01G042500 chr5B 93.640 283 15 2 1294 1574 47252199 47252480 1.800000e-113 420.0
7 TraesCS5B01G042500 chr5B 100.000 176 0 0 4010 4185 47124903 47125078 4.030000e-85 326.0
8 TraesCS5B01G042500 chr5B 79.762 420 72 10 2753 3169 476902859 476902450 4.090000e-75 292.0
9 TraesCS5B01G042500 chr5A 94.066 1921 79 15 1574 3467 37081187 37083099 0.000000e+00 2883.0
10 TraesCS5B01G042500 chr5A 89.032 1167 95 14 1571 2737 528269219 528270352 0.000000e+00 1415.0
11 TraesCS5B01G042500 chr5A 90.537 708 56 10 1 703 37068130 37068831 0.000000e+00 926.0
12 TraesCS5B01G042500 chr5A 77.750 1600 289 44 1601 3168 503050094 503051658 0.000000e+00 920.0
13 TraesCS5B01G042500 chr5A 89.674 552 44 6 2763 3312 528270343 528270883 0.000000e+00 691.0
14 TraesCS5B01G042500 chr5A 79.465 935 146 25 1575 2496 502501048 502500147 4.600000e-174 621.0
15 TraesCS5B01G042500 chr5A 85.674 356 14 9 823 1141 37080207 37080562 1.440000e-89 340.0
16 TraesCS5B01G042500 chr5A 93.450 229 13 2 1347 1574 37080560 37080787 5.180000e-89 339.0
17 TraesCS5B01G042500 chr5A 83.444 151 24 1 59 209 528266317 528266466 5.640000e-29 139.0
18 TraesCS5B01G042500 chr5A 90.909 44 1 1 778 818 528267916 528267959 5.840000e-04 56.5
19 TraesCS5B01G042500 chr5D 94.341 1873 74 13 1574 3426 46067405 46069265 0.000000e+00 2843.0
20 TraesCS5B01G042500 chr5D 92.493 706 44 8 1 703 46063203 46063902 0.000000e+00 1002.0
21 TraesCS5B01G042500 chr5D 77.531 1620 289 47 1587 3168 397929796 397931378 0.000000e+00 905.0
22 TraesCS5B01G042500 chr5D 88.150 692 67 6 1571 2261 415629610 415630287 0.000000e+00 809.0
23 TraesCS5B01G042500 chr5D 85.298 857 38 20 778 1574 46065395 46066223 0.000000e+00 804.0
24 TraesCS5B01G042500 chr5D 81.120 911 151 12 1586 2492 396946953 396946060 0.000000e+00 710.0
25 TraesCS5B01G042500 chr5D 91.116 484 33 6 2771 3253 415645167 415645641 0.000000e+00 647.0
26 TraesCS5B01G042500 chr5D 91.481 270 21 2 2286 2554 415644835 415645103 1.840000e-98 370.0
27 TraesCS5B01G042500 chr5D 84.242 165 22 4 1928 2090 396918209 396918047 1.560000e-34 158.0
28 TraesCS5B01G042500 chr5D 95.238 63 3 0 4023 4085 46074908 46074970 2.660000e-17 100.0
29 TraesCS5B01G042500 chr5D 89.062 64 7 0 2674 2737 415645103 415645166 3.470000e-11 80.5
30 TraesCS5B01G042500 chr4A 80.066 301 44 13 406 694 656930046 656930342 4.240000e-50 209.0
31 TraesCS5B01G042500 chr7D 80.220 182 33 3 520 699 10088474 10088294 2.620000e-27 134.0
32 TraesCS5B01G042500 chr2B 76.471 255 35 16 417 655 606601992 606602237 9.510000e-22 115.0
33 TraesCS5B01G042500 chr2D 76.154 260 36 17 413 655 514939794 514940044 3.420000e-21 113.0


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 TraesCS5B01G042500 chr5B 47120894 47125078 4184 False 3449.500000 6573 100.000000 1 4185 2 chr5B.!!$F5 4184
1 TraesCS5B01G042500 chr5B 502021495 502022781 1286 False 1653.000000 1653 89.954000 2079 3367 1 chr5B.!!$F3 1288
2 TraesCS5B01G042500 chr5B 477965177 477966565 1388 False 713.000000 713 76.566000 1587 2968 1 chr5B.!!$F2 1381
3 TraesCS5B01G042500 chr5B 505733214 505733772 558 False 448.000000 448 81.583000 212 778 1 chr5B.!!$F4 566
4 TraesCS5B01G042500 chr5B 502013117 502015715 2598 False 443.000000 446 83.927500 225 2080 2 chr5B.!!$F6 1855
5 TraesCS5B01G042500 chr5A 37080207 37083099 2892 False 1187.333333 2883 91.063333 823 3467 3 chr5A.!!$F3 2644
6 TraesCS5B01G042500 chr5A 37068130 37068831 701 False 926.000000 926 90.537000 1 703 1 chr5A.!!$F1 702
7 TraesCS5B01G042500 chr5A 503050094 503051658 1564 False 920.000000 920 77.750000 1601 3168 1 chr5A.!!$F2 1567
8 TraesCS5B01G042500 chr5A 502500147 502501048 901 True 621.000000 621 79.465000 1575 2496 1 chr5A.!!$R1 921
9 TraesCS5B01G042500 chr5A 528266317 528270883 4566 False 575.375000 1415 88.264750 59 3312 4 chr5A.!!$F4 3253
10 TraesCS5B01G042500 chr5D 46063203 46069265 6062 False 1549.666667 2843 90.710667 1 3426 3 chr5D.!!$F4 3425
11 TraesCS5B01G042500 chr5D 397929796 397931378 1582 False 905.000000 905 77.531000 1587 3168 1 chr5D.!!$F2 1581
12 TraesCS5B01G042500 chr5D 415629610 415630287 677 False 809.000000 809 88.150000 1571 2261 1 chr5D.!!$F3 690
13 TraesCS5B01G042500 chr5D 396946060 396946953 893 True 710.000000 710 81.120000 1586 2492 1 chr5D.!!$R2 906
14 TraesCS5B01G042500 chr5D 415644835 415645641 806 False 365.833333 647 90.553000 2286 3253 3 chr5D.!!$F5 967

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
941 3342 0.948678 GAGAGATCGACGGGGAGAAG 59.051 60.000 0.00 0.0 0.00 2.85 F
1570 4016 1.134280 AGCCCAGCTGCATTACTAGTG 60.134 52.381 8.66 0.0 37.57 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2133 6285 0.036294 AAGAAGGCACCCTAACTCGC 60.036 55.000 0.00 0.0 31.13 5.03 R
3524 7743 1.134189 GTATTGCACTGGTACCCCTCC 60.134 57.143 10.07 0.0 0.00 4.30 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
140 142 6.550481 TGGAAAAATTAGTTTTTACCCGGACT 59.450 34.615 13.98 0.00 44.19 3.85
304 361 5.213891 ACAACTTCCCCATTTTTGTCATC 57.786 39.130 0.00 0.00 0.00 2.92
354 413 9.868277 CCACCTATTTATAAAAGAACAATTGCA 57.132 29.630 5.05 0.00 0.00 4.08
553 628 4.204978 CGTTTTCAAAGATATTCCATGCGC 59.795 41.667 0.00 0.00 0.00 6.09
554 629 4.979943 TTTCAAAGATATTCCATGCGCA 57.020 36.364 14.96 14.96 0.00 6.09
562 637 5.987098 AGATATTCCATGCGCATTAGAGAT 58.013 37.500 22.81 16.22 0.00 2.75
644 1369 9.897744 ATGTGGCATTTTTCTTGTTATATATCG 57.102 29.630 0.00 0.00 0.00 2.92
659 1384 8.126074 TGTTATATATCGTGTCAATTTTGTGCC 58.874 33.333 0.00 0.00 0.00 5.01
683 1410 2.721425 TTGTCCCCTCACGTTTTCTT 57.279 45.000 0.00 0.00 0.00 2.52
765 2908 4.199432 TGGTCTTTGCAACAACAACAAT 57.801 36.364 0.00 0.00 0.00 2.71
768 2911 5.578727 TGGTCTTTGCAACAACAACAATAAC 59.421 36.000 0.00 0.00 0.00 1.89
772 2915 8.012241 GTCTTTGCAACAACAACAATAACAAAA 58.988 29.630 0.00 0.00 0.00 2.44
773 2916 8.559536 TCTTTGCAACAACAACAATAACAAAAA 58.440 25.926 0.00 0.00 0.00 1.94
830 2986 7.723324 ACTTTTTCTTATATAGCCTAGCGACA 58.277 34.615 0.00 0.00 0.00 4.35
858 3124 4.410400 CTTCGTCCCCACTGCCCC 62.410 72.222 0.00 0.00 0.00 5.80
941 3342 0.948678 GAGAGATCGACGGGGAGAAG 59.051 60.000 0.00 0.00 0.00 2.85
958 3377 3.560105 AGAAGGAAAAACAGCAGAGCTT 58.440 40.909 0.00 0.00 36.40 3.74
1096 3522 7.865706 ATATAGTTGTGAATTGGTGTCCTTC 57.134 36.000 0.00 0.00 0.00 3.46
1151 3589 3.612795 AGGCTCACTTTTTAAAGGGGT 57.387 42.857 4.75 0.00 39.88 4.95
1152 3590 3.923648 AGGCTCACTTTTTAAAGGGGTT 58.076 40.909 4.75 0.00 39.88 4.11
1153 3591 3.895656 AGGCTCACTTTTTAAAGGGGTTC 59.104 43.478 4.75 0.00 39.88 3.62
1154 3592 3.895656 GGCTCACTTTTTAAAGGGGTTCT 59.104 43.478 4.75 0.00 39.88 3.01
1155 3593 4.022242 GGCTCACTTTTTAAAGGGGTTCTC 60.022 45.833 4.75 0.00 39.88 2.87
1156 3594 4.022242 GCTCACTTTTTAAAGGGGTTCTCC 60.022 45.833 4.75 0.00 39.88 3.71
1157 3595 5.132043 TCACTTTTTAAAGGGGTTCTCCA 57.868 39.130 4.75 0.00 39.88 3.86
1161 3599 4.546224 TTTTAAAGGGGTTCTCCAGGTT 57.454 40.909 0.00 0.00 37.22 3.50
1246 3684 2.823154 TGGTTTGGAATTTAGGGCGAAG 59.177 45.455 0.00 0.00 0.00 3.79
1272 3710 3.576078 ACAGATGAGGAACAACACCAA 57.424 42.857 0.00 0.00 0.00 3.67
1289 3727 9.640952 ACAACACCAATATTGCCTTTATATACT 57.359 29.630 10.11 0.00 0.00 2.12
1291 3729 9.860650 AACACCAATATTGCCTTTATATACTCA 57.139 29.630 10.11 0.00 0.00 3.41
1292 3730 9.284968 ACACCAATATTGCCTTTATATACTCAC 57.715 33.333 10.11 0.00 0.00 3.51
1293 3731 9.507329 CACCAATATTGCCTTTATATACTCACT 57.493 33.333 10.11 0.00 0.00 3.41
1496 3937 5.129155 ACATATGCTGCACAAATTGGGTTAT 59.871 36.000 3.57 0.00 0.00 1.89
1524 3965 9.392259 ACCTATTGGTAGCTAACTGAATTTAAC 57.608 33.333 10.78 0.00 46.43 2.01
1555 4001 2.044650 GCAATCTCCTGCAGCCCA 60.045 61.111 8.66 0.00 42.17 5.36
1570 4016 1.134280 AGCCCAGCTGCATTACTAGTG 60.134 52.381 8.66 0.00 37.57 2.74
1627 5361 6.824305 AATGTGTTAACTCTTCTCCCATTG 57.176 37.500 7.22 0.00 0.00 2.82
1738 5883 2.097142 ACGTTCGTGGAGATGCTACTAC 59.903 50.000 0.00 0.00 0.00 2.73
1825 5971 7.168637 CACAAAGTTGATCAGATTTTGGAACAG 59.831 37.037 22.00 8.10 42.39 3.16
2080 6226 2.158755 CCATCCTACAGTTAGCCTTGGG 60.159 54.545 0.00 0.00 0.00 4.12
2115 6267 3.133691 TGACAGTGTTGCATCTTGAGTC 58.866 45.455 0.00 0.00 0.00 3.36
2132 6284 0.390735 GTCTGTGCGAATTACGGGGT 60.391 55.000 0.00 0.00 42.83 4.95
2133 6285 0.390603 TCTGTGCGAATTACGGGGTG 60.391 55.000 0.00 0.00 42.83 4.61
2208 6360 5.663106 TCAGGAGATGCTACCAGATAACTTT 59.337 40.000 0.00 0.00 0.00 2.66
2427 6582 1.278985 TGATGAGCTTCCGTCCATTGT 59.721 47.619 0.00 0.00 0.00 2.71
2453 6608 6.510317 GCCGAATCTTGAAACTCTTAGCATAC 60.510 42.308 0.00 0.00 0.00 2.39
2484 6644 6.215841 TGGTGTGAGGTATATTCCAAAACCTA 59.784 38.462 12.09 1.14 42.40 3.08
2501 6665 9.248291 CCAAAACCTATTGTGATTATTATGCAC 57.752 33.333 0.00 0.00 0.00 4.57
2723 6907 3.005050 AGTCACTGTTCACCATGCAAATG 59.995 43.478 0.00 0.00 0.00 2.32
2727 6911 5.942826 TCACTGTTCACCATGCAAATGTATA 59.057 36.000 0.00 0.00 0.00 1.47
2731 6915 8.313292 ACTGTTCACCATGCAAATGTATATTTT 58.687 29.630 0.00 0.00 34.34 1.82
2748 6936 9.612066 TGTATATTTTGATGCACTCATTCTACA 57.388 29.630 0.00 0.00 32.72 2.74
2782 6974 3.443681 AGTTTCGGTGGCCAAATCATTAG 59.556 43.478 7.24 0.00 0.00 1.73
2936 7132 1.204146 GAGCATCTGTAGGTTCCCCA 58.796 55.000 0.00 0.00 0.00 4.96
3067 7263 1.836166 TCTGCTAAATGCTCCTGCTCT 59.164 47.619 0.00 0.00 43.37 4.09
3196 7392 4.380233 CCTTTGCCATGATGTTCAACTCTC 60.380 45.833 0.00 0.00 0.00 3.20
3375 7594 4.261405 CGTAATTGTTTGCTTGGTCCAAGA 60.261 41.667 31.94 15.89 43.42 3.02
3426 7645 1.526686 CAGGTTGACAGCTGCCACA 60.527 57.895 15.27 9.21 41.53 4.17
3443 7662 2.162208 CCACATCCATTTTCACTGGACG 59.838 50.000 0.00 0.00 45.27 4.79
3463 7682 2.650322 GGTCCAAGTTGTTCAGGTTGA 58.350 47.619 1.45 0.00 0.00 3.18
3467 7686 2.287915 CCAAGTTGTTCAGGTTGACGAG 59.712 50.000 1.45 0.00 0.00 4.18
3468 7687 1.583054 AGTTGTTCAGGTTGACGAGC 58.417 50.000 0.00 0.00 0.00 5.03
3469 7688 1.139058 AGTTGTTCAGGTTGACGAGCT 59.861 47.619 0.00 0.00 36.26 4.09
3470 7689 1.527311 GTTGTTCAGGTTGACGAGCTC 59.473 52.381 2.73 2.73 32.70 4.09
3471 7690 0.033504 TGTTCAGGTTGACGAGCTCC 59.966 55.000 8.47 0.00 32.70 4.70
3472 7691 0.670854 GTTCAGGTTGACGAGCTCCC 60.671 60.000 8.47 2.68 32.70 4.30
3473 7692 1.118965 TTCAGGTTGACGAGCTCCCA 61.119 55.000 8.47 3.58 32.70 4.37
3474 7693 1.079543 CAGGTTGACGAGCTCCCAG 60.080 63.158 8.47 0.00 32.70 4.45
3475 7694 1.228894 AGGTTGACGAGCTCCCAGA 60.229 57.895 8.47 0.00 0.00 3.86
3476 7695 1.216710 GGTTGACGAGCTCCCAGAG 59.783 63.158 8.47 0.00 0.00 3.35
3484 7703 4.200283 GCTCCCAGAGCGTCCGAG 62.200 72.222 0.06 0.00 45.85 4.63
3485 7704 2.752238 CTCCCAGAGCGTCCGAGT 60.752 66.667 0.00 0.00 0.00 4.18
3486 7705 3.057547 CTCCCAGAGCGTCCGAGTG 62.058 68.421 0.00 0.00 0.00 3.51
3487 7706 4.135153 CCCAGAGCGTCCGAGTGG 62.135 72.222 0.00 0.00 0.00 4.00
3488 7707 3.062466 CCAGAGCGTCCGAGTGGA 61.062 66.667 0.00 0.00 43.88 4.02
3524 7743 3.842126 CGCACAGCACGATGACGG 61.842 66.667 0.00 0.00 44.46 4.79
3525 7744 3.490759 GCACAGCACGATGACGGG 61.491 66.667 0.00 0.00 46.60 5.28
3526 7745 2.261361 CACAGCACGATGACGGGA 59.739 61.111 0.00 0.00 46.86 5.14
3527 7746 1.807165 CACAGCACGATGACGGGAG 60.807 63.158 0.00 0.00 46.86 4.30
3528 7747 2.202797 CAGCACGATGACGGGAGG 60.203 66.667 0.00 0.00 46.86 4.30
3529 7748 3.461773 AGCACGATGACGGGAGGG 61.462 66.667 0.00 0.00 46.86 4.30
3530 7749 4.530857 GCACGATGACGGGAGGGG 62.531 72.222 0.00 0.00 46.86 4.79
3531 7750 3.075005 CACGATGACGGGAGGGGT 61.075 66.667 0.00 0.00 46.86 4.95
3532 7751 1.755395 CACGATGACGGGAGGGGTA 60.755 63.158 0.00 0.00 46.86 3.69
3533 7752 1.755783 ACGATGACGGGAGGGGTAC 60.756 63.158 0.00 0.00 44.46 3.34
3534 7753 2.496291 CGATGACGGGAGGGGTACC 61.496 68.421 2.17 2.17 41.75 3.34
3549 7768 2.268298 GGTACCAGTGCAATACAGACG 58.732 52.381 7.15 0.00 0.00 4.18
3550 7769 2.094390 GGTACCAGTGCAATACAGACGA 60.094 50.000 7.15 0.00 0.00 4.20
3551 7770 2.370281 ACCAGTGCAATACAGACGAG 57.630 50.000 0.00 0.00 0.00 4.18
3552 7771 1.893137 ACCAGTGCAATACAGACGAGA 59.107 47.619 0.00 0.00 0.00 4.04
3553 7772 2.094494 ACCAGTGCAATACAGACGAGAG 60.094 50.000 0.00 0.00 0.00 3.20
3554 7773 2.534298 CAGTGCAATACAGACGAGAGG 58.466 52.381 0.00 0.00 0.00 3.69
3555 7774 1.478510 AGTGCAATACAGACGAGAGGG 59.521 52.381 0.00 0.00 0.00 4.30
3556 7775 1.204941 GTGCAATACAGACGAGAGGGT 59.795 52.381 0.00 0.00 0.00 4.34
3557 7776 1.476891 TGCAATACAGACGAGAGGGTC 59.523 52.381 0.00 0.00 37.19 4.46
3558 7777 1.476891 GCAATACAGACGAGAGGGTCA 59.523 52.381 0.00 0.00 39.42 4.02
4056 8275 9.612066 AAAATGTTGTTCATGTCCTATTTTTGT 57.388 25.926 0.00 0.00 36.81 2.83
4057 8276 9.612066 AAATGTTGTTCATGTCCTATTTTTGTT 57.388 25.926 0.00 0.00 36.81 2.83
4058 8277 9.612066 AATGTTGTTCATGTCCTATTTTTGTTT 57.388 25.926 0.00 0.00 36.81 2.83
4059 8278 9.612066 ATGTTGTTCATGTCCTATTTTTGTTTT 57.388 25.926 0.00 0.00 35.19 2.43
4060 8279 9.442047 TGTTGTTCATGTCCTATTTTTGTTTTT 57.558 25.926 0.00 0.00 0.00 1.94
4065 8284 9.995003 TTCATGTCCTATTTTTGTTTTTATGCT 57.005 25.926 0.00 0.00 0.00 3.79
4066 8285 9.638239 TCATGTCCTATTTTTGTTTTTATGCTC 57.362 29.630 0.00 0.00 0.00 4.26
4067 8286 9.643693 CATGTCCTATTTTTGTTTTTATGCTCT 57.356 29.630 0.00 0.00 0.00 4.09
4068 8287 9.643693 ATGTCCTATTTTTGTTTTTATGCTCTG 57.356 29.630 0.00 0.00 0.00 3.35
4069 8288 8.087750 TGTCCTATTTTTGTTTTTATGCTCTGG 58.912 33.333 0.00 0.00 0.00 3.86
4070 8289 7.545615 GTCCTATTTTTGTTTTTATGCTCTGGG 59.454 37.037 0.00 0.00 0.00 4.45
4071 8290 6.818142 CCTATTTTTGTTTTTATGCTCTGGGG 59.182 38.462 0.00 0.00 0.00 4.96
4072 8291 5.622346 TTTTTGTTTTTATGCTCTGGGGT 57.378 34.783 0.00 0.00 0.00 4.95
4073 8292 5.622346 TTTTGTTTTTATGCTCTGGGGTT 57.378 34.783 0.00 0.00 0.00 4.11
4074 8293 5.622346 TTTGTTTTTATGCTCTGGGGTTT 57.378 34.783 0.00 0.00 0.00 3.27
4075 8294 4.864704 TGTTTTTATGCTCTGGGGTTTC 57.135 40.909 0.00 0.00 0.00 2.78
4076 8295 4.479158 TGTTTTTATGCTCTGGGGTTTCT 58.521 39.130 0.00 0.00 0.00 2.52
4077 8296 5.636123 TGTTTTTATGCTCTGGGGTTTCTA 58.364 37.500 0.00 0.00 0.00 2.10
4078 8297 5.710099 TGTTTTTATGCTCTGGGGTTTCTAG 59.290 40.000 0.00 0.00 0.00 2.43
4079 8298 5.772393 TTTTATGCTCTGGGGTTTCTAGA 57.228 39.130 0.00 0.00 0.00 2.43
4080 8299 5.975988 TTTATGCTCTGGGGTTTCTAGAT 57.024 39.130 0.00 0.00 0.00 1.98
4081 8300 3.853355 ATGCTCTGGGGTTTCTAGATG 57.147 47.619 0.00 0.00 0.00 2.90
4082 8301 1.839994 TGCTCTGGGGTTTCTAGATGG 59.160 52.381 0.00 0.00 0.00 3.51
4083 8302 2.119495 GCTCTGGGGTTTCTAGATGGA 58.881 52.381 0.00 0.00 0.00 3.41
4084 8303 2.505819 GCTCTGGGGTTTCTAGATGGAA 59.494 50.000 0.00 0.00 0.00 3.53
4085 8304 3.432890 GCTCTGGGGTTTCTAGATGGAAG 60.433 52.174 0.00 0.00 0.00 3.46
4086 8305 4.033709 CTCTGGGGTTTCTAGATGGAAGA 58.966 47.826 0.00 0.00 0.00 2.87
4087 8306 4.435137 TCTGGGGTTTCTAGATGGAAGAA 58.565 43.478 0.00 0.00 0.00 2.52
4088 8307 5.039645 TCTGGGGTTTCTAGATGGAAGAAT 58.960 41.667 0.00 0.00 33.17 2.40
4089 8308 5.104360 TCTGGGGTTTCTAGATGGAAGAATG 60.104 44.000 0.00 0.00 33.17 2.67
4090 8309 4.540099 TGGGGTTTCTAGATGGAAGAATGT 59.460 41.667 0.00 0.00 33.17 2.71
4091 8310 4.884164 GGGGTTTCTAGATGGAAGAATGTG 59.116 45.833 0.00 0.00 33.17 3.21
4092 8311 4.336713 GGGTTTCTAGATGGAAGAATGTGC 59.663 45.833 0.00 0.00 33.17 4.57
4093 8312 4.336713 GGTTTCTAGATGGAAGAATGTGCC 59.663 45.833 0.00 0.00 33.17 5.01
4094 8313 5.189180 GTTTCTAGATGGAAGAATGTGCCT 58.811 41.667 0.00 0.00 33.17 4.75
4095 8314 4.412796 TCTAGATGGAAGAATGTGCCTG 57.587 45.455 0.00 0.00 0.00 4.85
4096 8315 2.431954 AGATGGAAGAATGTGCCTGG 57.568 50.000 0.00 0.00 0.00 4.45
4097 8316 1.637553 AGATGGAAGAATGTGCCTGGT 59.362 47.619 0.00 0.00 0.00 4.00
4098 8317 2.042162 AGATGGAAGAATGTGCCTGGTT 59.958 45.455 0.00 0.00 0.00 3.67
4099 8318 2.380064 TGGAAGAATGTGCCTGGTTT 57.620 45.000 0.00 0.00 0.00 3.27
4100 8319 2.676748 TGGAAGAATGTGCCTGGTTTT 58.323 42.857 0.00 0.00 0.00 2.43
4101 8320 2.364970 TGGAAGAATGTGCCTGGTTTTG 59.635 45.455 0.00 0.00 0.00 2.44
4102 8321 2.627699 GGAAGAATGTGCCTGGTTTTGA 59.372 45.455 0.00 0.00 0.00 2.69
4103 8322 3.069443 GGAAGAATGTGCCTGGTTTTGAA 59.931 43.478 0.00 0.00 0.00 2.69
4104 8323 4.442753 GGAAGAATGTGCCTGGTTTTGAAA 60.443 41.667 0.00 0.00 0.00 2.69
4105 8324 4.751767 AGAATGTGCCTGGTTTTGAAAA 57.248 36.364 0.00 0.00 0.00 2.29
4106 8325 4.696455 AGAATGTGCCTGGTTTTGAAAAG 58.304 39.130 0.00 0.00 0.00 2.27
4107 8326 4.405358 AGAATGTGCCTGGTTTTGAAAAGA 59.595 37.500 0.00 0.00 0.00 2.52
4108 8327 3.799281 TGTGCCTGGTTTTGAAAAGAG 57.201 42.857 0.00 0.00 0.00 2.85
4109 8328 3.360867 TGTGCCTGGTTTTGAAAAGAGA 58.639 40.909 0.00 0.00 0.00 3.10
4110 8329 3.766591 TGTGCCTGGTTTTGAAAAGAGAA 59.233 39.130 0.00 0.00 0.00 2.87
4111 8330 4.405358 TGTGCCTGGTTTTGAAAAGAGAAT 59.595 37.500 0.00 0.00 0.00 2.40
4112 8331 4.984785 GTGCCTGGTTTTGAAAAGAGAATC 59.015 41.667 0.00 0.00 0.00 2.52
4132 8351 9.155975 GAGAATCTACAATGAACTAAGCAAAGA 57.844 33.333 0.00 0.00 0.00 2.52
4133 8352 9.507329 AGAATCTACAATGAACTAAGCAAAGAA 57.493 29.630 0.00 0.00 0.00 2.52
4136 8355 8.902540 TCTACAATGAACTAAGCAAAGAAAGA 57.097 30.769 0.00 0.00 0.00 2.52
4137 8356 9.337396 TCTACAATGAACTAAGCAAAGAAAGAA 57.663 29.630 0.00 0.00 0.00 2.52
4138 8357 9.950680 CTACAATGAACTAAGCAAAGAAAGAAA 57.049 29.630 0.00 0.00 0.00 2.52
4140 8359 9.305925 ACAATGAACTAAGCAAAGAAAGAAAAG 57.694 29.630 0.00 0.00 0.00 2.27
4141 8360 9.305925 CAATGAACTAAGCAAAGAAAGAAAAGT 57.694 29.630 0.00 0.00 0.00 2.66
4150 8369 9.542462 AAGCAAAGAAAGAAAAGTATAAAACCC 57.458 29.630 0.00 0.00 0.00 4.11
4151 8370 8.924303 AGCAAAGAAAGAAAAGTATAAAACCCT 58.076 29.630 0.00 0.00 0.00 4.34
4152 8371 9.542462 GCAAAGAAAGAAAAGTATAAAACCCTT 57.458 29.630 0.00 0.00 0.00 3.95
4161 8380 9.193133 GAAAAGTATAAAACCCTTCTTTCTTGC 57.807 33.333 0.00 0.00 0.00 4.01
4162 8381 8.478775 AAAGTATAAAACCCTTCTTTCTTGCT 57.521 30.769 0.00 0.00 0.00 3.91
4163 8382 8.478775 AAGTATAAAACCCTTCTTTCTTGCTT 57.521 30.769 0.00 0.00 0.00 3.91
4164 8383 7.886338 AGTATAAAACCCTTCTTTCTTGCTTG 58.114 34.615 0.00 0.00 0.00 4.01
4165 8384 3.459232 AAACCCTTCTTTCTTGCTTGC 57.541 42.857 0.00 0.00 0.00 4.01
4166 8385 2.371658 ACCCTTCTTTCTTGCTTGCT 57.628 45.000 0.00 0.00 0.00 3.91
4167 8386 2.670939 ACCCTTCTTTCTTGCTTGCTT 58.329 42.857 0.00 0.00 0.00 3.91
4168 8387 2.363359 ACCCTTCTTTCTTGCTTGCTTG 59.637 45.455 0.00 0.00 0.00 4.01
4169 8388 2.624838 CCCTTCTTTCTTGCTTGCTTGA 59.375 45.455 0.00 0.00 0.00 3.02
4170 8389 3.257624 CCCTTCTTTCTTGCTTGCTTGAT 59.742 43.478 0.00 0.00 0.00 2.57
4171 8390 4.262335 CCCTTCTTTCTTGCTTGCTTGATT 60.262 41.667 0.00 0.00 0.00 2.57
4172 8391 5.047802 CCCTTCTTTCTTGCTTGCTTGATTA 60.048 40.000 0.00 0.00 0.00 1.75
4173 8392 6.091437 CCTTCTTTCTTGCTTGCTTGATTAG 58.909 40.000 0.00 0.00 0.00 1.73
4174 8393 6.294397 CCTTCTTTCTTGCTTGCTTGATTAGT 60.294 38.462 0.00 0.00 0.00 2.24
4175 8394 6.246420 TCTTTCTTGCTTGCTTGATTAGTC 57.754 37.500 0.00 0.00 0.00 2.59
4176 8395 4.668576 TTCTTGCTTGCTTGATTAGTCG 57.331 40.909 0.00 0.00 0.00 4.18
4177 8396 3.664107 TCTTGCTTGCTTGATTAGTCGT 58.336 40.909 0.00 0.00 0.00 4.34
4178 8397 4.065088 TCTTGCTTGCTTGATTAGTCGTT 58.935 39.130 0.00 0.00 0.00 3.85
4179 8398 3.811722 TGCTTGCTTGATTAGTCGTTG 57.188 42.857 0.00 0.00 0.00 4.10
4180 8399 2.483877 TGCTTGCTTGATTAGTCGTTGG 59.516 45.455 0.00 0.00 0.00 3.77
4181 8400 2.729156 GCTTGCTTGATTAGTCGTTGGC 60.729 50.000 0.00 0.00 0.00 4.52
4182 8401 2.472695 TGCTTGATTAGTCGTTGGCT 57.527 45.000 0.00 0.00 0.00 4.75
4183 8402 2.778299 TGCTTGATTAGTCGTTGGCTT 58.222 42.857 0.00 0.00 0.00 4.35
4184 8403 2.742053 TGCTTGATTAGTCGTTGGCTTC 59.258 45.455 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 89 9.801873 GCTATGAAAATAAAGTTGCCATTTCTA 57.198 29.630 0.00 0.00 0.00 2.10
91 93 7.496591 CCATGCTATGAAAATAAAGTTGCCATT 59.503 33.333 0.00 0.00 0.00 3.16
122 124 5.231702 TGTGAGTCCGGGTAAAAACTAAT 57.768 39.130 0.00 0.00 0.00 1.73
140 142 3.830178 TGGTCTACGAGAATTTCCTGTGA 59.170 43.478 0.00 0.00 0.00 3.58
209 211 9.655769 GTGCACATGACAGATTTATAAACTATG 57.344 33.333 13.17 2.71 0.00 2.23
210 212 9.394767 TGTGCACATGACAGATTTATAAACTAT 57.605 29.630 17.42 0.00 0.00 2.12
276 332 5.425217 ACAAAAATGGGGAAGTTGTTCTCTT 59.575 36.000 0.00 0.00 33.12 2.85
280 337 5.017294 TGACAAAAATGGGGAAGTTGTTC 57.983 39.130 0.00 0.00 32.75 3.18
289 346 2.110578 GGGAGGATGACAAAAATGGGG 58.889 52.381 0.00 0.00 0.00 4.96
304 361 5.400066 AATTTTGTATTTTCCACGGGAGG 57.600 39.130 0.00 0.00 31.21 4.30
410 473 6.642540 GCTTTTTATGCATAGGCTAATTCACC 59.357 38.462 6.50 0.00 41.91 4.02
599 1323 3.502211 ACATGGCTACAAGGAAAACTTCG 59.498 43.478 0.00 0.00 37.29 3.79
644 1369 2.723124 ATCGGGCACAAAATTGACAC 57.277 45.000 0.00 0.00 0.00 3.67
659 1384 0.321298 AACGTGAGGGGACAAATCGG 60.321 55.000 0.00 0.00 0.00 4.18
746 2889 6.639671 TGTTATTGTTGTTGTTGCAAAGAC 57.360 33.333 0.00 3.39 0.00 3.01
748 2891 8.719478 TTTTTGTTATTGTTGTTGTTGCAAAG 57.281 26.923 0.00 0.00 0.00 2.77
772 2915 3.704151 GCCCAGATTGCAGGCTTT 58.296 55.556 6.66 0.00 43.62 3.51
830 2986 2.038033 TGGGGACGAAGAACGATTTTCT 59.962 45.455 0.00 0.00 45.77 2.52
865 3245 2.456443 GCCCTGGGGAGAGGAATCC 61.456 68.421 16.03 0.00 38.76 3.01
871 3251 3.474570 CCTTCGCCCTGGGGAGAG 61.475 72.222 16.03 9.70 44.46 3.20
941 3342 2.620585 AGTCAAGCTCTGCTGTTTTTCC 59.379 45.455 0.00 0.00 39.62 3.13
1025 3444 1.408822 GGATCTGGATTTGGCGTTCCT 60.409 52.381 0.00 0.00 32.95 3.36
1075 3494 5.304686 AGAAGGACACCAATTCACAACTA 57.695 39.130 0.00 0.00 0.00 2.24
1076 3495 4.170468 AGAAGGACACCAATTCACAACT 57.830 40.909 0.00 0.00 0.00 3.16
1077 3496 5.305585 TCTAGAAGGACACCAATTCACAAC 58.694 41.667 0.00 0.00 0.00 3.32
1078 3497 5.560722 TCTAGAAGGACACCAATTCACAA 57.439 39.130 0.00 0.00 0.00 3.33
1082 3508 5.263968 TCGATCTAGAAGGACACCAATTC 57.736 43.478 0.00 0.00 0.00 2.17
1091 3517 9.907229 ATACATACATACATCGATCTAGAAGGA 57.093 33.333 0.00 0.00 0.00 3.36
1143 3581 1.074889 GCAACCTGGAGAACCCCTTTA 59.925 52.381 0.00 0.00 34.81 1.85
1144 3582 0.178961 GCAACCTGGAGAACCCCTTT 60.179 55.000 0.00 0.00 34.81 3.11
1145 3583 1.360393 TGCAACCTGGAGAACCCCTT 61.360 55.000 0.00 0.00 34.81 3.95
1146 3584 1.142688 ATGCAACCTGGAGAACCCCT 61.143 55.000 0.00 0.00 34.81 4.79
1147 3585 0.681243 GATGCAACCTGGAGAACCCC 60.681 60.000 0.00 0.00 34.81 4.95
1148 3586 0.329596 AGATGCAACCTGGAGAACCC 59.670 55.000 0.00 0.00 34.81 4.11
1149 3587 2.206576 AAGATGCAACCTGGAGAACC 57.793 50.000 0.00 0.00 0.00 3.62
1150 3588 4.590850 AAAAAGATGCAACCTGGAGAAC 57.409 40.909 0.00 0.00 0.00 3.01
1206 3644 9.157104 CCAAACCAACGCACATATATGTATATA 57.843 33.333 17.86 0.00 39.39 0.86
1212 3650 4.891627 TCCAAACCAACGCACATATATG 57.108 40.909 11.29 11.29 0.00 1.78
1213 3651 6.463995 AATTCCAAACCAACGCACATATAT 57.536 33.333 0.00 0.00 0.00 0.86
1215 3653 4.799564 AATTCCAAACCAACGCACATAT 57.200 36.364 0.00 0.00 0.00 1.78
1217 3655 3.467374 AAATTCCAAACCAACGCACAT 57.533 38.095 0.00 0.00 0.00 3.21
1222 3660 2.669950 CGCCCTAAATTCCAAACCAACG 60.670 50.000 0.00 0.00 0.00 4.10
1223 3661 2.559231 TCGCCCTAAATTCCAAACCAAC 59.441 45.455 0.00 0.00 0.00 3.77
1246 3684 3.003480 GTTGTTCCTCATCTGTAGTGCC 58.997 50.000 0.00 0.00 0.00 5.01
1249 3687 3.646162 TGGTGTTGTTCCTCATCTGTAGT 59.354 43.478 0.00 0.00 0.00 2.73
1401 3842 6.430864 TGAATACTCCCTTATTTTGCCATCA 58.569 36.000 0.00 0.00 0.00 3.07
1519 3960 5.590530 TTGCAGCAGAAAAAGAGGTTAAA 57.409 34.783 0.00 0.00 0.00 1.52
1524 3965 3.119566 GGAGATTGCAGCAGAAAAAGAGG 60.120 47.826 0.00 0.00 0.00 3.69
1555 4001 3.133542 TCATCAGCACTAGTAATGCAGCT 59.866 43.478 6.34 2.28 45.92 4.24
1570 4016 5.841957 ATCAAATGTTTACCCTCATCAGC 57.158 39.130 0.00 0.00 0.00 4.26
1627 5361 0.030638 AAATGTCCTGCACGCACAAC 59.969 50.000 0.00 0.00 0.00 3.32
1738 5883 8.630037 GTTTGACTATTAAATATGAGGTTGGGG 58.370 37.037 0.00 0.00 0.00 4.96
1825 5971 3.058160 ACGCCAATGCCTGAGTGC 61.058 61.111 0.00 0.00 0.00 4.40
2080 6226 0.954452 CTGTCAGGTTTCCCAAGCAC 59.046 55.000 0.00 0.00 32.36 4.40
2115 6267 1.977594 GCACCCCGTAATTCGCACAG 61.978 60.000 0.00 0.00 38.35 3.66
2132 6284 1.192146 AGAAGGCACCCTAACTCGCA 61.192 55.000 0.00 0.00 31.13 5.10
2133 6285 0.036294 AAGAAGGCACCCTAACTCGC 60.036 55.000 0.00 0.00 31.13 5.03
2208 6360 2.044758 GCCGGGAAGGTATCTTTAGGA 58.955 52.381 2.18 0.00 43.70 2.94
2427 6582 3.684788 GCTAAGAGTTTCAAGATTCGGCA 59.315 43.478 0.00 0.00 0.00 5.69
2453 6608 6.298361 TGGAATATACCTCACACCATGAATG 58.702 40.000 0.00 0.00 36.69 2.67
2501 6665 5.330455 TCCAAAGTATCACTACTGCTCTG 57.670 43.478 0.00 0.00 38.23 3.35
2727 6911 9.715121 ATTTTTGTAGAATGAGTGCATCAAAAT 57.285 25.926 0.00 0.00 42.53 1.82
2748 6936 6.160684 GGCCACCGAAACTTGTTATATTTTT 58.839 36.000 0.00 0.00 0.00 1.94
2749 6937 5.244178 TGGCCACCGAAACTTGTTATATTTT 59.756 36.000 0.00 0.00 0.00 1.82
2936 7132 2.213499 CTCAACCACGCTCTTTGAACT 58.787 47.619 0.00 0.00 0.00 3.01
3067 7263 1.415672 GGGCTTCCATGGGTCCGATA 61.416 60.000 13.02 0.00 0.00 2.92
3312 7515 4.067972 TGAGAGGTCAAACTTTAAGCGT 57.932 40.909 0.00 0.00 0.00 5.07
3415 7634 1.547372 GAAAATGGATGTGGCAGCTGT 59.453 47.619 16.64 0.00 0.00 4.40
3443 7662 2.357952 GTCAACCTGAACAACTTGGACC 59.642 50.000 0.00 0.00 0.00 4.46
3468 7687 2.752238 ACTCGGACGCTCTGGGAG 60.752 66.667 1.38 0.00 0.00 4.30
3469 7688 3.062466 CACTCGGACGCTCTGGGA 61.062 66.667 1.38 0.00 0.00 4.37
3470 7689 4.135153 CCACTCGGACGCTCTGGG 62.135 72.222 0.00 0.00 0.00 4.45
3471 7690 3.062466 TCCACTCGGACGCTCTGG 61.062 66.667 0.00 0.00 35.91 3.86
3506 7725 4.489795 CGTCATCGTGCTGTGCGC 62.490 66.667 0.00 0.00 39.77 6.09
3507 7726 3.842126 CCGTCATCGTGCTGTGCG 61.842 66.667 0.00 0.00 35.01 5.34
3508 7727 3.490759 CCCGTCATCGTGCTGTGC 61.491 66.667 0.00 0.00 35.01 4.57
3509 7728 1.807165 CTCCCGTCATCGTGCTGTG 60.807 63.158 0.00 0.00 35.01 3.66
3510 7729 2.573869 CTCCCGTCATCGTGCTGT 59.426 61.111 0.00 0.00 35.01 4.40
3511 7730 2.202797 CCTCCCGTCATCGTGCTG 60.203 66.667 0.00 0.00 35.01 4.41
3512 7731 3.461773 CCCTCCCGTCATCGTGCT 61.462 66.667 0.00 0.00 35.01 4.40
3513 7732 4.530857 CCCCTCCCGTCATCGTGC 62.531 72.222 0.00 0.00 35.01 5.34
3514 7733 1.755395 TACCCCTCCCGTCATCGTG 60.755 63.158 0.00 0.00 35.01 4.35
3515 7734 1.755783 GTACCCCTCCCGTCATCGT 60.756 63.158 0.00 0.00 35.01 3.73
3516 7735 2.496291 GGTACCCCTCCCGTCATCG 61.496 68.421 0.00 0.00 0.00 3.84
3517 7736 1.382146 TGGTACCCCTCCCGTCATC 60.382 63.158 10.07 0.00 0.00 2.92
3518 7737 1.382695 CTGGTACCCCTCCCGTCAT 60.383 63.158 10.07 0.00 0.00 3.06
3519 7738 2.038329 CTGGTACCCCTCCCGTCA 59.962 66.667 10.07 0.00 0.00 4.35
3520 7739 2.038490 ACTGGTACCCCTCCCGTC 59.962 66.667 10.07 0.00 0.00 4.79
3521 7740 2.284405 CACTGGTACCCCTCCCGT 60.284 66.667 10.07 0.00 0.00 5.28
3522 7741 3.782443 GCACTGGTACCCCTCCCG 61.782 72.222 10.07 0.00 0.00 5.14
3523 7742 1.571773 ATTGCACTGGTACCCCTCCC 61.572 60.000 10.07 0.00 0.00 4.30
3524 7743 1.134189 GTATTGCACTGGTACCCCTCC 60.134 57.143 10.07 0.00 0.00 4.30
3525 7744 1.557832 TGTATTGCACTGGTACCCCTC 59.442 52.381 10.07 0.00 0.00 4.30
3526 7745 1.559682 CTGTATTGCACTGGTACCCCT 59.440 52.381 10.07 0.00 0.00 4.79
3527 7746 1.557832 TCTGTATTGCACTGGTACCCC 59.442 52.381 10.07 0.00 0.00 4.95
3528 7747 2.629051 GTCTGTATTGCACTGGTACCC 58.371 52.381 10.07 0.00 0.00 3.69
3529 7748 2.094390 TCGTCTGTATTGCACTGGTACC 60.094 50.000 4.43 4.43 0.00 3.34
3530 7749 3.119602 TCTCGTCTGTATTGCACTGGTAC 60.120 47.826 0.00 0.00 0.00 3.34
3531 7750 3.086282 TCTCGTCTGTATTGCACTGGTA 58.914 45.455 0.00 0.00 0.00 3.25
3532 7751 1.893137 TCTCGTCTGTATTGCACTGGT 59.107 47.619 0.00 0.00 0.00 4.00
3533 7752 2.534298 CTCTCGTCTGTATTGCACTGG 58.466 52.381 0.00 0.00 0.00 4.00
3534 7753 2.534298 CCTCTCGTCTGTATTGCACTG 58.466 52.381 0.00 0.00 0.00 3.66
3535 7754 1.478510 CCCTCTCGTCTGTATTGCACT 59.521 52.381 0.00 0.00 0.00 4.40
3536 7755 1.204941 ACCCTCTCGTCTGTATTGCAC 59.795 52.381 0.00 0.00 0.00 4.57
3537 7756 1.476891 GACCCTCTCGTCTGTATTGCA 59.523 52.381 0.00 0.00 0.00 4.08
3538 7757 1.476891 TGACCCTCTCGTCTGTATTGC 59.523 52.381 0.00 0.00 33.70 3.56
4030 8249 9.612066 ACAAAAATAGGACATGAACAACATTTT 57.388 25.926 0.00 1.24 37.07 1.82
4031 8250 9.612066 AACAAAAATAGGACATGAACAACATTT 57.388 25.926 0.00 0.00 37.07 2.32
4032 8251 9.612066 AAACAAAAATAGGACATGAACAACATT 57.388 25.926 0.00 0.00 37.07 2.71
4033 8252 9.612066 AAAACAAAAATAGGACATGAACAACAT 57.388 25.926 0.00 0.00 40.17 2.71
4034 8253 9.442047 AAAAACAAAAATAGGACATGAACAACA 57.558 25.926 0.00 0.00 0.00 3.33
4039 8258 9.995003 AGCATAAAAACAAAAATAGGACATGAA 57.005 25.926 0.00 0.00 0.00 2.57
4040 8259 9.638239 GAGCATAAAAACAAAAATAGGACATGA 57.362 29.630 0.00 0.00 0.00 3.07
4041 8260 9.643693 AGAGCATAAAAACAAAAATAGGACATG 57.356 29.630 0.00 0.00 0.00 3.21
4042 8261 9.643693 CAGAGCATAAAAACAAAAATAGGACAT 57.356 29.630 0.00 0.00 0.00 3.06
4043 8262 8.087750 CCAGAGCATAAAAACAAAAATAGGACA 58.912 33.333 0.00 0.00 0.00 4.02
4044 8263 7.545615 CCCAGAGCATAAAAACAAAAATAGGAC 59.454 37.037 0.00 0.00 0.00 3.85
4045 8264 7.310361 CCCCAGAGCATAAAAACAAAAATAGGA 60.310 37.037 0.00 0.00 0.00 2.94
4046 8265 6.818142 CCCCAGAGCATAAAAACAAAAATAGG 59.182 38.462 0.00 0.00 0.00 2.57
4047 8266 7.386059 ACCCCAGAGCATAAAAACAAAAATAG 58.614 34.615 0.00 0.00 0.00 1.73
4048 8267 7.309770 ACCCCAGAGCATAAAAACAAAAATA 57.690 32.000 0.00 0.00 0.00 1.40
4049 8268 6.186420 ACCCCAGAGCATAAAAACAAAAAT 57.814 33.333 0.00 0.00 0.00 1.82
4050 8269 5.622346 ACCCCAGAGCATAAAAACAAAAA 57.378 34.783 0.00 0.00 0.00 1.94
4051 8270 5.622346 AACCCCAGAGCATAAAAACAAAA 57.378 34.783 0.00 0.00 0.00 2.44
4052 8271 5.365314 AGAAACCCCAGAGCATAAAAACAAA 59.635 36.000 0.00 0.00 0.00 2.83
4053 8272 4.898861 AGAAACCCCAGAGCATAAAAACAA 59.101 37.500 0.00 0.00 0.00 2.83
4054 8273 4.479158 AGAAACCCCAGAGCATAAAAACA 58.521 39.130 0.00 0.00 0.00 2.83
4055 8274 5.944007 TCTAGAAACCCCAGAGCATAAAAAC 59.056 40.000 0.00 0.00 0.00 2.43
4056 8275 6.134535 TCTAGAAACCCCAGAGCATAAAAA 57.865 37.500 0.00 0.00 0.00 1.94
4057 8276 5.772393 TCTAGAAACCCCAGAGCATAAAA 57.228 39.130 0.00 0.00 0.00 1.52
4058 8277 5.397899 CCATCTAGAAACCCCAGAGCATAAA 60.398 44.000 0.00 0.00 0.00 1.40
4059 8278 4.103153 CCATCTAGAAACCCCAGAGCATAA 59.897 45.833 0.00 0.00 0.00 1.90
4060 8279 3.648067 CCATCTAGAAACCCCAGAGCATA 59.352 47.826 0.00 0.00 0.00 3.14
4061 8280 2.441001 CCATCTAGAAACCCCAGAGCAT 59.559 50.000 0.00 0.00 0.00 3.79
4062 8281 1.839994 CCATCTAGAAACCCCAGAGCA 59.160 52.381 0.00 0.00 0.00 4.26
4063 8282 2.119495 TCCATCTAGAAACCCCAGAGC 58.881 52.381 0.00 0.00 0.00 4.09
4064 8283 4.033709 TCTTCCATCTAGAAACCCCAGAG 58.966 47.826 0.00 0.00 0.00 3.35
4065 8284 4.074799 TCTTCCATCTAGAAACCCCAGA 57.925 45.455 0.00 0.00 0.00 3.86
4066 8285 4.844349 TTCTTCCATCTAGAAACCCCAG 57.156 45.455 0.00 0.00 0.00 4.45
4067 8286 4.540099 ACATTCTTCCATCTAGAAACCCCA 59.460 41.667 0.00 0.00 35.43 4.96
4068 8287 4.884164 CACATTCTTCCATCTAGAAACCCC 59.116 45.833 0.00 0.00 35.43 4.95
4069 8288 4.336713 GCACATTCTTCCATCTAGAAACCC 59.663 45.833 0.00 0.00 35.43 4.11
4070 8289 4.336713 GGCACATTCTTCCATCTAGAAACC 59.663 45.833 0.00 0.00 35.43 3.27
4071 8290 5.065731 CAGGCACATTCTTCCATCTAGAAAC 59.934 44.000 0.00 0.00 35.43 2.78
4072 8291 5.188434 CAGGCACATTCTTCCATCTAGAAA 58.812 41.667 0.00 0.00 35.43 2.52
4073 8292 4.384537 CCAGGCACATTCTTCCATCTAGAA 60.385 45.833 0.00 0.00 36.18 2.10
4074 8293 3.135348 CCAGGCACATTCTTCCATCTAGA 59.865 47.826 0.00 0.00 0.00 2.43
4075 8294 3.118112 ACCAGGCACATTCTTCCATCTAG 60.118 47.826 0.00 0.00 0.00 2.43
4076 8295 2.846206 ACCAGGCACATTCTTCCATCTA 59.154 45.455 0.00 0.00 0.00 1.98
4077 8296 1.637553 ACCAGGCACATTCTTCCATCT 59.362 47.619 0.00 0.00 0.00 2.90
4078 8297 2.134789 ACCAGGCACATTCTTCCATC 57.865 50.000 0.00 0.00 0.00 3.51
4079 8298 2.610438 AACCAGGCACATTCTTCCAT 57.390 45.000 0.00 0.00 0.00 3.41
4080 8299 2.364970 CAAAACCAGGCACATTCTTCCA 59.635 45.455 0.00 0.00 0.00 3.53
4081 8300 2.627699 TCAAAACCAGGCACATTCTTCC 59.372 45.455 0.00 0.00 0.00 3.46
4082 8301 4.320608 TTCAAAACCAGGCACATTCTTC 57.679 40.909 0.00 0.00 0.00 2.87
4083 8302 4.751767 TTTCAAAACCAGGCACATTCTT 57.248 36.364 0.00 0.00 0.00 2.52
4084 8303 4.405358 TCTTTTCAAAACCAGGCACATTCT 59.595 37.500 0.00 0.00 0.00 2.40
4085 8304 4.692228 TCTTTTCAAAACCAGGCACATTC 58.308 39.130 0.00 0.00 0.00 2.67
4086 8305 4.405358 TCTCTTTTCAAAACCAGGCACATT 59.595 37.500 0.00 0.00 0.00 2.71
4087 8306 3.960102 TCTCTTTTCAAAACCAGGCACAT 59.040 39.130 0.00 0.00 0.00 3.21
4088 8307 3.360867 TCTCTTTTCAAAACCAGGCACA 58.639 40.909 0.00 0.00 0.00 4.57
4089 8308 4.385358 TTCTCTTTTCAAAACCAGGCAC 57.615 40.909 0.00 0.00 0.00 5.01
4090 8309 4.895297 AGATTCTCTTTTCAAAACCAGGCA 59.105 37.500 0.00 0.00 0.00 4.75
4091 8310 5.459536 AGATTCTCTTTTCAAAACCAGGC 57.540 39.130 0.00 0.00 0.00 4.85
4092 8311 7.510549 TGTAGATTCTCTTTTCAAAACCAGG 57.489 36.000 0.00 0.00 0.00 4.45
4093 8312 9.403110 CATTGTAGATTCTCTTTTCAAAACCAG 57.597 33.333 0.00 0.00 0.00 4.00
4094 8313 9.130661 TCATTGTAGATTCTCTTTTCAAAACCA 57.869 29.630 0.00 0.00 0.00 3.67
4095 8314 9.965824 TTCATTGTAGATTCTCTTTTCAAAACC 57.034 29.630 0.00 0.00 0.00 3.27
4101 8320 9.980780 GCTTAGTTCATTGTAGATTCTCTTTTC 57.019 33.333 0.00 0.00 0.00 2.29
4102 8321 9.507329 TGCTTAGTTCATTGTAGATTCTCTTTT 57.493 29.630 0.00 0.00 0.00 2.27
4103 8322 9.507329 TTGCTTAGTTCATTGTAGATTCTCTTT 57.493 29.630 0.00 0.00 0.00 2.52
4104 8323 9.507329 TTTGCTTAGTTCATTGTAGATTCTCTT 57.493 29.630 0.00 0.00 0.00 2.85
4105 8324 9.160496 CTTTGCTTAGTTCATTGTAGATTCTCT 57.840 33.333 0.00 0.00 0.00 3.10
4106 8325 9.155975 TCTTTGCTTAGTTCATTGTAGATTCTC 57.844 33.333 0.00 0.00 0.00 2.87
4107 8326 9.507329 TTCTTTGCTTAGTTCATTGTAGATTCT 57.493 29.630 0.00 0.00 0.00 2.40
4110 8329 9.507329 TCTTTCTTTGCTTAGTTCATTGTAGAT 57.493 29.630 0.00 0.00 0.00 1.98
4111 8330 8.902540 TCTTTCTTTGCTTAGTTCATTGTAGA 57.097 30.769 0.00 0.00 0.00 2.59
4112 8331 9.950680 TTTCTTTCTTTGCTTAGTTCATTGTAG 57.049 29.630 0.00 0.00 0.00 2.74
4114 8333 9.305925 CTTTTCTTTCTTTGCTTAGTTCATTGT 57.694 29.630 0.00 0.00 0.00 2.71
4115 8334 9.305925 ACTTTTCTTTCTTTGCTTAGTTCATTG 57.694 29.630 0.00 0.00 0.00 2.82
4124 8343 9.542462 GGGTTTTATACTTTTCTTTCTTTGCTT 57.458 29.630 0.00 0.00 0.00 3.91
4125 8344 8.924303 AGGGTTTTATACTTTTCTTTCTTTGCT 58.076 29.630 0.00 0.00 0.00 3.91
4126 8345 9.542462 AAGGGTTTTATACTTTTCTTTCTTTGC 57.458 29.630 0.00 0.00 0.00 3.68
4135 8354 9.193133 GCAAGAAAGAAGGGTTTTATACTTTTC 57.807 33.333 0.00 0.00 0.00 2.29
4136 8355 8.924303 AGCAAGAAAGAAGGGTTTTATACTTTT 58.076 29.630 0.00 0.00 0.00 2.27
4137 8356 8.478775 AGCAAGAAAGAAGGGTTTTATACTTT 57.521 30.769 0.00 0.00 0.00 2.66
4138 8357 8.360390 CAAGCAAGAAAGAAGGGTTTTATACTT 58.640 33.333 0.00 0.00 0.00 2.24
4139 8358 7.523873 GCAAGCAAGAAAGAAGGGTTTTATACT 60.524 37.037 0.00 0.00 0.00 2.12
4140 8359 6.586463 GCAAGCAAGAAAGAAGGGTTTTATAC 59.414 38.462 0.00 0.00 0.00 1.47
4141 8360 6.493458 AGCAAGCAAGAAAGAAGGGTTTTATA 59.507 34.615 0.00 0.00 0.00 0.98
4142 8361 5.305386 AGCAAGCAAGAAAGAAGGGTTTTAT 59.695 36.000 0.00 0.00 0.00 1.40
4143 8362 4.649218 AGCAAGCAAGAAAGAAGGGTTTTA 59.351 37.500 0.00 0.00 0.00 1.52
4144 8363 3.452264 AGCAAGCAAGAAAGAAGGGTTTT 59.548 39.130 0.00 0.00 0.00 2.43
4145 8364 3.033909 AGCAAGCAAGAAAGAAGGGTTT 58.966 40.909 0.00 0.00 0.00 3.27
4146 8365 2.670939 AGCAAGCAAGAAAGAAGGGTT 58.329 42.857 0.00 0.00 0.00 4.11
4147 8366 2.363359 CAAGCAAGCAAGAAAGAAGGGT 59.637 45.455 0.00 0.00 0.00 4.34
4148 8367 2.624838 TCAAGCAAGCAAGAAAGAAGGG 59.375 45.455 0.00 0.00 0.00 3.95
4149 8368 3.996150 TCAAGCAAGCAAGAAAGAAGG 57.004 42.857 0.00 0.00 0.00 3.46
4150 8369 6.675987 ACTAATCAAGCAAGCAAGAAAGAAG 58.324 36.000 0.00 0.00 0.00 2.85
4151 8370 6.566564 CGACTAATCAAGCAAGCAAGAAAGAA 60.567 38.462 0.00 0.00 0.00 2.52
4152 8371 5.106948 CGACTAATCAAGCAAGCAAGAAAGA 60.107 40.000 0.00 0.00 0.00 2.52
4153 8372 5.084722 CGACTAATCAAGCAAGCAAGAAAG 58.915 41.667 0.00 0.00 0.00 2.62
4154 8373 4.515191 ACGACTAATCAAGCAAGCAAGAAA 59.485 37.500 0.00 0.00 0.00 2.52
4155 8374 4.065088 ACGACTAATCAAGCAAGCAAGAA 58.935 39.130 0.00 0.00 0.00 2.52
4156 8375 3.664107 ACGACTAATCAAGCAAGCAAGA 58.336 40.909 0.00 0.00 0.00 3.02
4157 8376 4.153986 CAACGACTAATCAAGCAAGCAAG 58.846 43.478 0.00 0.00 0.00 4.01
4158 8377 3.058293 CCAACGACTAATCAAGCAAGCAA 60.058 43.478 0.00 0.00 0.00 3.91
4159 8378 2.483877 CCAACGACTAATCAAGCAAGCA 59.516 45.455 0.00 0.00 0.00 3.91
4160 8379 2.729156 GCCAACGACTAATCAAGCAAGC 60.729 50.000 0.00 0.00 0.00 4.01
4161 8380 2.744202 AGCCAACGACTAATCAAGCAAG 59.256 45.455 0.00 0.00 0.00 4.01
4162 8381 2.778299 AGCCAACGACTAATCAAGCAA 58.222 42.857 0.00 0.00 0.00 3.91
4163 8382 2.472695 AGCCAACGACTAATCAAGCA 57.527 45.000 0.00 0.00 0.00 3.91
4164 8383 3.391227 GAAGCCAACGACTAATCAAGC 57.609 47.619 0.00 0.00 0.00 4.01


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

AutoCloner maintained by Alex Coulton.