Multiple sequence alignment - TraesCS2D01G435900

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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 TraesCS2D01G435900 chr2D 100.000 5223 0 0 1 5223 546816290 546811068 0.000000e+00 9646.0
1 TraesCS2D01G435900 chr2D 100.000 3102 0 0 5613 8714 546810678 546807577 0.000000e+00 5729.0
2 TraesCS2D01G435900 chr2D 91.882 2550 131 27 962 3451 546688191 546685658 0.000000e+00 3493.0
3 TraesCS2D01G435900 chr2D 97.200 1643 44 2 5613 7253 50447508 50449150 0.000000e+00 2778.0
4 TraesCS2D01G435900 chr2D 90.019 1052 64 19 3464 4478 546685617 546684570 0.000000e+00 1323.0
5 TraesCS2D01G435900 chr2D 94.864 701 33 3 4525 5223 398648172 398648871 0.000000e+00 1092.0
6 TraesCS2D01G435900 chr2D 95.808 501 21 0 7256 7756 546684563 546684063 0.000000e+00 809.0
7 TraesCS2D01G435900 chr2D 85.505 614 59 14 1683 2291 560095012 560095600 1.610000e-171 614.0
8 TraesCS2D01G435900 chr2D 90.558 233 14 6 7813 8038 546684064 546683833 1.420000e-77 302.0
9 TraesCS2D01G435900 chr2D 85.714 140 14 5 8049 8187 546683736 546683602 9.120000e-30 143.0
10 TraesCS2D01G435900 chr2D 96.970 33 1 0 8212 8244 546683597 546683565 1.000000e-03 56.5
11 TraesCS2D01G435900 chr2B 91.434 3654 180 50 942 4504 653598279 653594668 0.000000e+00 4891.0
12 TraesCS2D01G435900 chr2B 94.538 1190 50 6 7254 8436 653594671 653593490 0.000000e+00 1823.0
13 TraesCS2D01G435900 chr2B 87.054 448 47 9 3 444 653599317 653598875 6.080000e-136 496.0
14 TraesCS2D01G435900 chr2B 85.220 318 25 8 8382 8679 653593517 653593202 3.060000e-79 307.0
15 TraesCS2D01G435900 chr2A 95.645 1929 38 16 2614 4511 689756891 689758804 0.000000e+00 3055.0
16 TraesCS2D01G435900 chr2A 94.463 1806 61 17 847 2629 689753678 689755467 0.000000e+00 2745.0
17 TraesCS2D01G435900 chr2A 94.166 857 42 3 1 849 689752787 689753643 0.000000e+00 1299.0
18 TraesCS2D01G435900 chr2A 94.150 718 40 2 4505 5222 588437999 588437284 0.000000e+00 1092.0
19 TraesCS2D01G435900 chr2A 89.401 802 66 3 7254 8038 689758802 689759601 0.000000e+00 992.0
20 TraesCS2D01G435900 chr2A 83.172 725 58 31 8037 8714 689759682 689760389 9.680000e-169 604.0
21 TraesCS2D01G435900 chr6D 96.711 1642 53 1 5613 7253 143486127 143487768 0.000000e+00 2732.0
22 TraesCS2D01G435900 chr6D 96.285 1642 60 1 5613 7253 235771394 235773035 0.000000e+00 2693.0
23 TraesCS2D01G435900 chr6D 95.750 1647 56 10 5613 7257 100354168 100352534 0.000000e+00 2641.0
24 TraesCS2D01G435900 chr6A 96.224 1642 61 1 5613 7253 457657493 457655852 0.000000e+00 2687.0
25 TraesCS2D01G435900 chr1A 96.112 1646 62 2 5613 7256 442611057 442612702 0.000000e+00 2684.0
26 TraesCS2D01G435900 chr1D 95.859 1642 66 2 5613 7253 402342434 402344074 0.000000e+00 2654.0
27 TraesCS2D01G435900 chr5D 95.504 1646 71 3 5613 7256 255950078 255951722 0.000000e+00 2627.0
28 TraesCS2D01G435900 chr5D 95.136 699 32 2 4525 5222 297756614 297755917 0.000000e+00 1101.0
29 TraesCS2D01G435900 chr5D 92.098 734 33 5 4505 5222 489104433 489103709 0.000000e+00 1011.0
30 TraesCS2D01G435900 chr3A 95.554 1642 72 1 5613 7253 9560586 9558945 0.000000e+00 2627.0
31 TraesCS2D01G435900 chr3A 93.983 698 41 1 4525 5222 38022955 38023651 0.000000e+00 1055.0
32 TraesCS2D01G435900 chr3A 86.478 673 73 10 1624 2291 152724844 152724185 0.000000e+00 723.0
33 TraesCS2D01G435900 chr3D 93.133 699 45 3 4525 5222 135263322 135264018 0.000000e+00 1022.0
34 TraesCS2D01G435900 chr3D 91.869 701 50 4 4525 5222 30049125 30048429 0.000000e+00 972.0
35 TraesCS2D01G435900 chr4D 91.571 700 45 8 4525 5222 104841098 104840411 0.000000e+00 953.0
36 TraesCS2D01G435900 chr7A 91.508 683 41 6 4525 5192 574126219 574125539 0.000000e+00 924.0
37 TraesCS2D01G435900 chr7D 87.139 832 76 14 1478 2291 72328704 72329522 0.000000e+00 915.0
38 TraesCS2D01G435900 chr4A 83.313 833 86 26 1477 2291 8930663 8929866 0.000000e+00 719.0
39 TraesCS2D01G435900 chr4B 87.605 476 47 6 1477 1943 314827615 314827143 7.690000e-150 542.0
40 TraesCS2D01G435900 chr4B 90.909 275 24 1 1594 1868 320375637 320375910 1.380000e-97 368.0
41 TraesCS2D01G435900 chr7B 87.957 465 46 5 1477 1932 349588339 349587876 2.770000e-149 540.0
42 TraesCS2D01G435900 chr7B 88.857 350 36 2 1594 1943 73738129 73738475 2.250000e-115 427.0
43 TraesCS2D01G435900 chr7B 90.614 277 25 1 1592 1868 365341523 365341798 4.970000e-97 366.0
44 TraesCS2D01G435900 chr3B 87.714 350 32 7 1477 1817 72706348 72706001 1.760000e-106 398.0
45 TraesCS2D01G435900 chr5B 91.209 273 23 1 1596 1868 636520727 636520998 3.840000e-98 370.0
46 TraesCS2D01G435900 chr6B 89.928 278 26 2 1594 1871 630079906 630079631 2.990000e-94 357.0
47 TraesCS2D01G435900 chr6B 89.928 278 27 1 1594 1871 630113757 630113481 2.990000e-94 357.0


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 TraesCS2D01G435900 chr2D 546807577 546816290 8713 True 7687.500000 9646 100.000000 1 8714 2 chr2D.!!$R2 8713
1 TraesCS2D01G435900 chr2D 50447508 50449150 1642 False 2778.000000 2778 97.200000 5613 7253 1 chr2D.!!$F1 1640
2 TraesCS2D01G435900 chr2D 398648172 398648871 699 False 1092.000000 1092 94.864000 4525 5223 1 chr2D.!!$F2 698
3 TraesCS2D01G435900 chr2D 546683565 546688191 4626 True 1021.083333 3493 91.825167 962 8244 6 chr2D.!!$R1 7282
4 TraesCS2D01G435900 chr2D 560095012 560095600 588 False 614.000000 614 85.505000 1683 2291 1 chr2D.!!$F3 608
5 TraesCS2D01G435900 chr2B 653593202 653599317 6115 True 1879.250000 4891 89.561500 3 8679 4 chr2B.!!$R1 8676
6 TraesCS2D01G435900 chr2A 689752787 689760389 7602 False 1739.000000 3055 91.369400 1 8714 5 chr2A.!!$F1 8713
7 TraesCS2D01G435900 chr2A 588437284 588437999 715 True 1092.000000 1092 94.150000 4505 5222 1 chr2A.!!$R1 717
8 TraesCS2D01G435900 chr6D 143486127 143487768 1641 False 2732.000000 2732 96.711000 5613 7253 1 chr6D.!!$F1 1640
9 TraesCS2D01G435900 chr6D 235771394 235773035 1641 False 2693.000000 2693 96.285000 5613 7253 1 chr6D.!!$F2 1640
10 TraesCS2D01G435900 chr6D 100352534 100354168 1634 True 2641.000000 2641 95.750000 5613 7257 1 chr6D.!!$R1 1644
11 TraesCS2D01G435900 chr6A 457655852 457657493 1641 True 2687.000000 2687 96.224000 5613 7253 1 chr6A.!!$R1 1640
12 TraesCS2D01G435900 chr1A 442611057 442612702 1645 False 2684.000000 2684 96.112000 5613 7256 1 chr1A.!!$F1 1643
13 TraesCS2D01G435900 chr1D 402342434 402344074 1640 False 2654.000000 2654 95.859000 5613 7253 1 chr1D.!!$F1 1640
14 TraesCS2D01G435900 chr5D 255950078 255951722 1644 False 2627.000000 2627 95.504000 5613 7256 1 chr5D.!!$F1 1643
15 TraesCS2D01G435900 chr5D 297755917 297756614 697 True 1101.000000 1101 95.136000 4525 5222 1 chr5D.!!$R1 697
16 TraesCS2D01G435900 chr5D 489103709 489104433 724 True 1011.000000 1011 92.098000 4505 5222 1 chr5D.!!$R2 717
17 TraesCS2D01G435900 chr3A 9558945 9560586 1641 True 2627.000000 2627 95.554000 5613 7253 1 chr3A.!!$R1 1640
18 TraesCS2D01G435900 chr3A 38022955 38023651 696 False 1055.000000 1055 93.983000 4525 5222 1 chr3A.!!$F1 697
19 TraesCS2D01G435900 chr3A 152724185 152724844 659 True 723.000000 723 86.478000 1624 2291 1 chr3A.!!$R2 667
20 TraesCS2D01G435900 chr3D 135263322 135264018 696 False 1022.000000 1022 93.133000 4525 5222 1 chr3D.!!$F1 697
21 TraesCS2D01G435900 chr3D 30048429 30049125 696 True 972.000000 972 91.869000 4525 5222 1 chr3D.!!$R1 697
22 TraesCS2D01G435900 chr4D 104840411 104841098 687 True 953.000000 953 91.571000 4525 5222 1 chr4D.!!$R1 697
23 TraesCS2D01G435900 chr7A 574125539 574126219 680 True 924.000000 924 91.508000 4525 5192 1 chr7A.!!$R1 667
24 TraesCS2D01G435900 chr7D 72328704 72329522 818 False 915.000000 915 87.139000 1478 2291 1 chr7D.!!$F1 813
25 TraesCS2D01G435900 chr4A 8929866 8930663 797 True 719.000000 719 83.313000 1477 2291 1 chr4A.!!$R1 814

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
584 594 0.173481 CTCGAAGCGAACTGGATCCA 59.827 55.000 15.27 15.27 34.74 3.41 F
922 1148 0.327924 TCACTCCGGTGGATGCAATT 59.672 50.000 8.63 0.00 43.17 2.32 F
1484 1726 1.005037 ATTCTTGCGCGTGGAGTCA 60.005 52.632 8.43 0.00 0.00 3.41 F
1819 2088 1.134491 GTGGTCAGTATGGGTAGGCAC 60.134 57.143 0.00 0.00 36.16 5.01 F
2165 2441 1.347707 TGCTGTTCCTGGACTACTTGG 59.652 52.381 0.00 0.00 0.00 3.61 F
2704 4429 3.438087 CGGCATTGACAAGAAGACTTCAT 59.562 43.478 17.34 2.24 33.70 2.57 F
4139 5970 0.978146 ACCATAGAGCCCGTGAAGCT 60.978 55.000 0.00 0.00 45.23 3.74 F
4197 6028 0.179086 TTGCTCAGTCTGTGCGAACA 60.179 50.000 19.14 0.00 39.51 3.18 F
5118 6957 0.251077 ATACCTAGTCGGCCCCTACG 60.251 60.000 0.00 0.00 35.61 3.51 F
6731 8578 0.106318 GCCCCCGACTCTTCTACCTA 60.106 60.000 0.00 0.00 0.00 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1680 1948 0.302890 CATTCACATCTCGCGGCTTC 59.697 55.000 6.13 0.00 0.00 3.86 R
1757 2025 2.046892 CCAGCCTCCGGTGAACAG 60.047 66.667 4.76 0.00 40.02 3.16 R
2669 4394 4.241681 GTCAATGCCGGCATTAAGAAAAA 58.758 39.130 44.99 24.81 43.92 1.94 R
3042 4797 4.649692 AGCATCCAATCACTCCATACATC 58.350 43.478 0.00 0.00 0.00 3.06 R
3937 5768 0.038744 CCCATCACCAGTCAAGCCTT 59.961 55.000 0.00 0.00 0.00 4.35 R
4187 6018 0.167470 CAAGCCTGATGTTCGCACAG 59.833 55.000 0.00 0.00 35.94 3.66 R
5184 7023 0.179000 CAGTGGTGATGTAGAGGCCC 59.821 60.000 0.00 0.00 0.00 5.80 R
5189 7028 0.250234 GCAGCCAGTGGTGATGTAGA 59.750 55.000 11.74 0.00 42.66 2.59 R
6909 8756 1.133823 CACAGCCCACCTAATATGCCA 60.134 52.381 0.00 0.00 0.00 4.92 R
8057 10023 0.185901 AACCCTGACCACAACTGCAT 59.814 50.000 0.00 0.00 0.00 3.96 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
244 250 6.405278 AGTTTTGGTCTGAATCGGAAAAAT 57.595 33.333 5.33 0.00 0.00 1.82
458 465 7.109501 TGCTATTGATAAGTTGCCTAGAAACA 58.890 34.615 9.93 0.00 0.00 2.83
463 470 7.994425 TGATAAGTTGCCTAGAAACAAATGA 57.006 32.000 9.93 0.00 0.00 2.57
475 482 6.382869 AGAAACAAATGAGTGAAAGTCTGG 57.617 37.500 0.00 0.00 37.14 3.86
584 594 0.173481 CTCGAAGCGAACTGGATCCA 59.827 55.000 15.27 15.27 34.74 3.41
596 606 1.209019 CTGGATCCAGGGAAGACACAG 59.791 57.143 31.14 4.36 40.17 3.66
633 646 2.112190 GGAGGGGAGTCTAAGACTTGG 58.888 57.143 0.00 0.00 43.53 3.61
634 647 1.483004 GAGGGGAGTCTAAGACTTGGC 59.517 57.143 0.00 0.00 43.53 4.52
641 654 2.367567 AGTCTAAGACTTGGCGGTTTGA 59.632 45.455 0.00 0.00 40.28 2.69
695 709 3.998672 GAAGGCGACGGTGGTGGA 61.999 66.667 0.00 0.00 0.00 4.02
782 796 2.430921 CACCTGTCGCGAGTGACC 60.431 66.667 19.01 3.98 38.11 4.02
826 843 1.985622 AGATTGGATGGGTGGAAGGA 58.014 50.000 0.00 0.00 0.00 3.36
831 848 0.470341 GGATGGGTGGAAGGACTAGC 59.530 60.000 0.00 0.00 0.00 3.42
832 849 1.501582 GATGGGTGGAAGGACTAGCT 58.498 55.000 0.00 0.00 0.00 3.32
842 859 3.118920 GGAAGGACTAGCTGAGGAAGAAC 60.119 52.174 0.00 0.00 0.00 3.01
845 862 3.513515 AGGACTAGCTGAGGAAGAACTTG 59.486 47.826 0.00 0.00 0.00 3.16
849 866 0.520847 GCTGAGGAAGAACTTGCAGC 59.479 55.000 8.58 11.51 41.38 5.25
850 867 1.881498 GCTGAGGAAGAACTTGCAGCT 60.881 52.381 17.88 0.00 43.81 4.24
851 868 2.502295 CTGAGGAAGAACTTGCAGCTT 58.498 47.619 8.58 0.00 33.04 3.74
852 869 3.668447 CTGAGGAAGAACTTGCAGCTTA 58.332 45.455 8.58 0.00 33.04 3.09
854 871 3.181455 TGAGGAAGAACTTGCAGCTTACA 60.181 43.478 8.58 0.00 33.04 2.41
857 874 4.829492 AGGAAGAACTTGCAGCTTACATTT 59.171 37.500 8.58 0.00 33.04 2.32
858 875 5.302823 AGGAAGAACTTGCAGCTTACATTTT 59.697 36.000 8.58 0.00 33.04 1.82
922 1148 0.327924 TCACTCCGGTGGATGCAATT 59.672 50.000 8.63 0.00 43.17 2.32
928 1154 1.684869 CCGGTGGATGCAATTTACCCT 60.685 52.381 0.00 0.00 31.32 4.34
979 1205 6.581171 AACTCACATTTGATTTCCTCTTCC 57.419 37.500 0.00 0.00 0.00 3.46
1011 1237 1.153568 CCTCGTCATGTCACGGCAT 60.154 57.895 7.05 0.00 40.35 4.40
1400 1642 1.481871 GTCACCGAGGTATTGGGAGA 58.518 55.000 0.00 0.00 33.68 3.71
1401 1643 1.829222 GTCACCGAGGTATTGGGAGAA 59.171 52.381 0.00 0.00 33.68 2.87
1484 1726 1.005037 ATTCTTGCGCGTGGAGTCA 60.005 52.632 8.43 0.00 0.00 3.41
1575 1843 5.627499 TGTTTCCATGACTAGAATGCAAC 57.373 39.130 0.00 6.63 0.00 4.17
1667 1935 6.564709 TGAATTACAGCTATTGGATCATGC 57.435 37.500 0.00 0.00 0.00 4.06
1680 1948 3.193903 TGGATCATGCAGTGGAACAATTG 59.806 43.478 3.24 3.24 44.16 2.32
1723 1991 6.105333 GCTATGACAAATAAACCATTGCCAA 58.895 36.000 0.00 0.00 33.75 4.52
1757 2025 1.542492 TCTCCTGAGGTTGTACGGTC 58.458 55.000 0.00 0.00 0.00 4.79
1819 2088 1.134491 GTGGTCAGTATGGGTAGGCAC 60.134 57.143 0.00 0.00 36.16 5.01
1995 2271 2.511600 GGGCAAGGACACGGATCG 60.512 66.667 0.00 0.00 0.00 3.69
2112 2388 2.214347 CTCATCAAGCTGCTCCTGATG 58.786 52.381 27.00 27.00 38.08 3.07
2165 2441 1.347707 TGCTGTTCCTGGACTACTTGG 59.652 52.381 0.00 0.00 0.00 3.61
2588 2872 5.184479 AGAACACGGCACTAATTAGTACTCA 59.816 40.000 17.62 0.00 34.13 3.41
2669 4394 5.008019 CGGCAATGTCTAGCTAATGTGATTT 59.992 40.000 0.00 0.00 0.00 2.17
2704 4429 3.438087 CGGCATTGACAAGAAGACTTCAT 59.562 43.478 17.34 2.24 33.70 2.57
3429 5201 9.529325 TTCAACTACATAATCCTGAAACTATCG 57.471 33.333 0.00 0.00 0.00 2.92
3937 5768 6.422333 TGCAGATTTATGTTCCTGGATGTAA 58.578 36.000 0.00 0.00 0.00 2.41
4139 5970 0.978146 ACCATAGAGCCCGTGAAGCT 60.978 55.000 0.00 0.00 45.23 3.74
4187 6018 4.754372 TGATGTTGATGTTTGCTCAGTC 57.246 40.909 0.00 0.00 0.00 3.51
4197 6028 0.179086 TTGCTCAGTCTGTGCGAACA 60.179 50.000 19.14 0.00 39.51 3.18
4282 6113 2.497675 CCCACGAGATCTTCTCTTTGGA 59.502 50.000 17.34 0.00 42.45 3.53
4458 6297 8.463930 ACTTGGTCATGTCTTCTTTTATGAAA 57.536 30.769 0.00 0.00 31.98 2.69
4479 6318 0.824109 GCCTTTTAAGTGATGGCCCC 59.176 55.000 0.00 0.00 37.81 5.80
4492 6331 2.491621 GCCCCGAAGCTCATTTGC 59.508 61.111 0.00 0.00 0.00 3.68
4513 6352 3.941483 GCTTGCACTATGGTGTTATGACT 59.059 43.478 11.18 0.00 44.65 3.41
4606 6445 4.563140 ATTAGGGTCGTTTGCTTAGGAA 57.437 40.909 0.00 0.00 0.00 3.36
4717 6556 3.629220 GGAGACCTAACCCTAGCCA 57.371 57.895 0.00 0.00 0.00 4.75
5000 6839 3.716195 CCGCCACCACCCAGATGA 61.716 66.667 0.00 0.00 0.00 2.92
5001 6840 2.436646 CGCCACCACCCAGATGAC 60.437 66.667 0.00 0.00 0.00 3.06
5002 6841 2.436646 GCCACCACCCAGATGACG 60.437 66.667 0.00 0.00 0.00 4.35
5003 6842 2.268920 CCACCACCCAGATGACGG 59.731 66.667 0.00 0.00 0.00 4.79
5004 6843 2.436646 CACCACCCAGATGACGGC 60.437 66.667 0.00 0.00 0.00 5.68
5005 6844 4.082523 ACCACCCAGATGACGGCG 62.083 66.667 4.80 4.80 0.00 6.46
5011 6850 4.899239 CAGATGACGGCGCCCCTC 62.899 72.222 23.46 16.40 0.00 4.30
5034 6873 3.991051 CACCACCGACCGCTGTCT 61.991 66.667 6.71 0.00 39.47 3.41
5035 6874 2.282674 ACCACCGACCGCTGTCTA 60.283 61.111 6.71 0.00 39.47 2.59
5036 6875 2.181021 CCACCGACCGCTGTCTAC 59.819 66.667 6.71 0.00 39.47 2.59
5037 6876 2.341101 CCACCGACCGCTGTCTACT 61.341 63.158 6.71 0.00 39.47 2.57
5038 6877 1.136984 CACCGACCGCTGTCTACTC 59.863 63.158 6.71 0.00 39.47 2.59
5039 6878 2.045131 ACCGACCGCTGTCTACTCC 61.045 63.158 6.71 0.00 39.47 3.85
5040 6879 2.772691 CCGACCGCTGTCTACTCCC 61.773 68.421 6.71 0.00 39.47 4.30
5041 6880 2.772691 CGACCGCTGTCTACTCCCC 61.773 68.421 6.71 0.00 39.47 4.81
5042 6881 2.754658 ACCGCTGTCTACTCCCCG 60.755 66.667 0.00 0.00 0.00 5.73
5043 6882 3.528370 CCGCTGTCTACTCCCCGG 61.528 72.222 0.00 0.00 0.00 5.73
5044 6883 4.208686 CGCTGTCTACTCCCCGGC 62.209 72.222 0.00 0.00 0.00 6.13
5045 6884 4.208686 GCTGTCTACTCCCCGGCG 62.209 72.222 0.00 0.00 0.00 6.46
5046 6885 3.528370 CTGTCTACTCCCCGGCGG 61.528 72.222 21.46 21.46 0.00 6.13
5047 6886 4.051167 TGTCTACTCCCCGGCGGA 62.051 66.667 30.79 7.47 38.83 5.54
5062 6901 2.041819 GGAGATCACCGGGGTCCT 60.042 66.667 2.12 1.06 0.00 3.85
5063 6902 2.134933 GGAGATCACCGGGGTCCTC 61.135 68.421 16.29 16.29 0.00 3.71
5064 6903 1.381327 GAGATCACCGGGGTCCTCA 60.381 63.158 18.61 0.00 0.00 3.86
5065 6904 0.976073 GAGATCACCGGGGTCCTCAA 60.976 60.000 18.61 0.00 0.00 3.02
5066 6905 1.221021 GATCACCGGGGTCCTCAAC 59.779 63.158 2.12 0.00 0.00 3.18
5067 6906 2.573609 GATCACCGGGGTCCTCAACG 62.574 65.000 2.12 0.00 0.00 4.10
5068 6907 3.307906 CACCGGGGTCCTCAACGA 61.308 66.667 6.32 0.00 0.00 3.85
5069 6908 2.284405 ACCGGGGTCCTCAACGAT 60.284 61.111 6.32 0.00 0.00 3.73
5070 6909 2.356780 ACCGGGGTCCTCAACGATC 61.357 63.158 6.32 0.00 0.00 3.69
5071 6910 2.058595 CCGGGGTCCTCAACGATCT 61.059 63.158 0.00 0.00 0.00 2.75
5072 6911 1.614241 CCGGGGTCCTCAACGATCTT 61.614 60.000 0.00 0.00 0.00 2.40
5073 6912 0.460284 CGGGGTCCTCAACGATCTTG 60.460 60.000 0.00 0.00 0.00 3.02
5074 6913 0.613777 GGGGTCCTCAACGATCTTGT 59.386 55.000 0.00 0.00 0.00 3.16
5075 6914 1.405661 GGGGTCCTCAACGATCTTGTC 60.406 57.143 0.00 0.00 0.00 3.18
5076 6915 1.275291 GGGTCCTCAACGATCTTGTCA 59.725 52.381 0.00 0.00 0.00 3.58
5077 6916 2.338500 GGTCCTCAACGATCTTGTCAC 58.662 52.381 0.00 0.00 0.00 3.67
5078 6917 2.338500 GTCCTCAACGATCTTGTCACC 58.662 52.381 0.00 0.00 0.00 4.02
5079 6918 1.067846 TCCTCAACGATCTTGTCACCG 60.068 52.381 0.00 0.00 0.00 4.94
5080 6919 0.716108 CTCAACGATCTTGTCACCGC 59.284 55.000 0.00 0.00 0.00 5.68
5081 6920 0.669318 TCAACGATCTTGTCACCGCC 60.669 55.000 0.00 0.00 0.00 6.13
5082 6921 1.736645 AACGATCTTGTCACCGCCG 60.737 57.895 0.00 0.00 0.00 6.46
5083 6922 2.126071 CGATCTTGTCACCGCCGT 60.126 61.111 0.00 0.00 0.00 5.68
5084 6923 2.158959 CGATCTTGTCACCGCCGTC 61.159 63.158 0.00 0.00 0.00 4.79
5085 6924 1.810030 GATCTTGTCACCGCCGTCC 60.810 63.158 0.00 0.00 0.00 4.79
5086 6925 2.501223 GATCTTGTCACCGCCGTCCA 62.501 60.000 0.00 0.00 0.00 4.02
5087 6926 2.507110 ATCTTGTCACCGCCGTCCAG 62.507 60.000 0.00 0.00 0.00 3.86
5088 6927 4.308458 TTGTCACCGCCGTCCAGG 62.308 66.667 0.00 0.00 44.97 4.45
5098 6937 2.838225 CGTCCAGGGGATACGGCT 60.838 66.667 0.00 0.00 32.73 5.52
5099 6938 1.529948 CGTCCAGGGGATACGGCTA 60.530 63.158 0.00 0.00 32.73 3.93
5100 6939 0.898789 CGTCCAGGGGATACGGCTAT 60.899 60.000 0.00 0.00 32.73 2.97
5101 6940 1.615116 CGTCCAGGGGATACGGCTATA 60.615 57.143 0.00 0.00 32.73 1.31
5102 6941 1.823610 GTCCAGGGGATACGGCTATAC 59.176 57.143 0.00 0.00 32.73 1.47
5103 6942 1.192428 CCAGGGGATACGGCTATACC 58.808 60.000 0.00 0.00 32.76 2.73
5104 6943 1.273098 CCAGGGGATACGGCTATACCT 60.273 57.143 5.54 0.00 33.97 3.08
5105 6944 2.024655 CCAGGGGATACGGCTATACCTA 60.025 54.545 5.54 0.00 33.97 3.08
5106 6945 3.288964 CAGGGGATACGGCTATACCTAG 58.711 54.545 5.54 0.00 33.97 3.02
5107 6946 2.924977 AGGGGATACGGCTATACCTAGT 59.075 50.000 5.54 0.00 33.97 2.57
5108 6947 3.053768 AGGGGATACGGCTATACCTAGTC 60.054 52.174 5.54 0.00 33.97 2.59
5112 6951 1.881602 CGGCTATACCTAGTCGGCC 59.118 63.158 0.00 0.00 46.76 6.13
5113 6952 1.593296 CGGCTATACCTAGTCGGCCC 61.593 65.000 0.00 0.00 46.76 5.80
5114 6953 1.256361 GGCTATACCTAGTCGGCCCC 61.256 65.000 0.00 0.00 35.61 5.80
5115 6954 0.251698 GCTATACCTAGTCGGCCCCT 60.252 60.000 0.00 0.00 35.61 4.79
5116 6955 1.005215 GCTATACCTAGTCGGCCCCTA 59.995 57.143 0.00 0.00 35.61 3.53
5117 6956 2.720915 CTATACCTAGTCGGCCCCTAC 58.279 57.143 0.00 0.00 35.61 3.18
5118 6957 0.251077 ATACCTAGTCGGCCCCTACG 60.251 60.000 0.00 0.00 35.61 3.51
5119 6958 2.343475 TACCTAGTCGGCCCCTACGG 62.343 65.000 0.00 4.41 35.61 4.02
5163 7002 2.437716 CCGCCTTGCCGTGGTATT 60.438 61.111 0.00 0.00 0.00 1.89
5164 7003 2.469516 CCGCCTTGCCGTGGTATTC 61.470 63.158 0.00 0.00 0.00 1.75
5165 7004 2.808958 CGCCTTGCCGTGGTATTCG 61.809 63.158 0.00 0.00 0.00 3.34
5171 7010 2.512974 CCGTGGTATTCGGCACCC 60.513 66.667 0.00 0.00 41.48 4.61
5195 7034 2.838225 CCGACCGGGCCTCTACAT 60.838 66.667 6.32 0.00 0.00 2.29
5196 7035 2.728817 CGACCGGGCCTCTACATC 59.271 66.667 6.32 0.00 0.00 3.06
5197 7036 2.125326 CGACCGGGCCTCTACATCA 61.125 63.158 6.32 0.00 0.00 3.07
5198 7037 1.442148 GACCGGGCCTCTACATCAC 59.558 63.158 6.32 0.00 0.00 3.06
5199 7038 2.029307 GACCGGGCCTCTACATCACC 62.029 65.000 6.32 0.00 0.00 4.02
5200 7039 2.063979 CCGGGCCTCTACATCACCA 61.064 63.158 0.84 0.00 0.00 4.17
5201 7040 1.144057 CGGGCCTCTACATCACCAC 59.856 63.158 0.84 0.00 0.00 4.16
5202 7041 1.330655 CGGGCCTCTACATCACCACT 61.331 60.000 0.84 0.00 0.00 4.00
5203 7042 0.179000 GGGCCTCTACATCACCACTG 59.821 60.000 0.84 0.00 0.00 3.66
5204 7043 0.179000 GGCCTCTACATCACCACTGG 59.821 60.000 0.00 0.00 0.00 4.00
5205 7044 0.462759 GCCTCTACATCACCACTGGC 60.463 60.000 0.00 0.00 0.00 4.85
5206 7045 1.198713 CCTCTACATCACCACTGGCT 58.801 55.000 0.00 0.00 0.00 4.75
5207 7046 1.134580 CCTCTACATCACCACTGGCTG 60.135 57.143 0.00 0.00 0.00 4.85
5208 7047 0.250234 TCTACATCACCACTGGCTGC 59.750 55.000 0.00 0.00 0.00 5.25
5209 7048 0.251354 CTACATCACCACTGGCTGCT 59.749 55.000 0.00 0.00 0.00 4.24
5210 7049 0.692476 TACATCACCACTGGCTGCTT 59.308 50.000 0.00 0.00 0.00 3.91
5211 7050 0.607489 ACATCACCACTGGCTGCTTC 60.607 55.000 0.00 0.00 0.00 3.86
5212 7051 0.607217 CATCACCACTGGCTGCTTCA 60.607 55.000 0.00 0.00 0.00 3.02
5213 7052 0.322277 ATCACCACTGGCTGCTTCAG 60.322 55.000 0.00 1.70 38.16 3.02
5635 7474 1.077501 CCGATCTGGCCACAATGGT 60.078 57.895 0.00 0.00 40.46 3.55
5681 7520 2.809601 CTCCGTCGTTTCCAGGCG 60.810 66.667 0.00 0.00 0.00 5.52
5766 7611 1.421485 CGTGCCGATTCAGCAAGTC 59.579 57.895 0.00 0.00 43.02 3.01
5865 7710 2.279073 CAGTCGGAGCCCTCCCTA 59.721 66.667 8.68 0.00 46.96 3.53
5984 7829 3.047718 CTTCGCTGCTCCGTACCGA 62.048 63.158 0.00 0.00 0.00 4.69
6107 7952 0.601046 CAGTGCGAGCAGTTCTTCCA 60.601 55.000 2.19 0.00 0.00 3.53
6459 8305 2.689034 GGACCCAGGACCTCCAGG 60.689 72.222 0.00 0.00 41.89 4.45
6525 8371 1.330655 CCAGTAGGCATCACCGTCCT 61.331 60.000 0.00 0.00 46.52 3.85
6731 8578 0.106318 GCCCCCGACTCTTCTACCTA 60.106 60.000 0.00 0.00 0.00 3.08
6903 8750 2.266055 CAGGCGGGGAGAAGTGTC 59.734 66.667 0.00 0.00 0.00 3.67
6909 8756 0.898320 CGGGGAGAAGTGTCATGACT 59.102 55.000 25.55 6.60 0.00 3.41
6945 8792 2.683362 GCTGTGGCCCAACTTATCTTAC 59.317 50.000 0.00 0.00 0.00 2.34
7155 9002 1.691195 TTCTCCACCACGCAAGGACA 61.691 55.000 0.00 0.00 46.39 4.02
7276 9123 4.155709 TGGGCCACATGAAATCAACTTAA 58.844 39.130 0.00 0.00 0.00 1.85
7306 9153 3.763897 ACCTGTTTTGTTGCTCTTGTCTT 59.236 39.130 0.00 0.00 0.00 3.01
7743 9594 1.652947 TCCACCCCTCTTCTGTAACC 58.347 55.000 0.00 0.00 0.00 2.85
7777 9628 8.431910 TTGAGGTACTTACTAAGAATCCTGTT 57.568 34.615 2.65 0.00 41.55 3.16
7810 9661 4.094442 GCTCTTGTATTTTACCCAACTCGG 59.906 45.833 0.00 0.00 0.00 4.63
7825 9676 1.202440 ACTCGGCGAACTTACAACACA 60.202 47.619 12.13 0.00 0.00 3.72
7974 9844 5.421212 TTTTGCAGGCATTTTGAACATTC 57.579 34.783 0.00 0.00 0.00 2.67
7980 9851 7.259882 TGCAGGCATTTTGAACATTCTTATAG 58.740 34.615 0.00 0.00 0.00 1.31
8163 10132 1.347378 TGTGCACAGTAAGAGGCATGA 59.653 47.619 17.42 0.00 38.68 3.07
8244 10232 2.202864 GAGCGAGAGGAAGCTGCC 60.203 66.667 0.73 0.73 44.69 4.85
8398 10420 0.321996 ACAAGGAGAACCGGAGCTTC 59.678 55.000 9.46 0.70 41.83 3.86
8588 10648 2.981909 ACGAGGACGAAGGACGCA 60.982 61.111 0.00 0.00 46.94 5.24
8655 10723 3.440522 CGAGTTCACAGACAGACATCCTA 59.559 47.826 0.00 0.00 0.00 2.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 110 4.749245 AGCATGAAGAAGGTTTGTTACG 57.251 40.909 0.00 0.00 0.00 3.18
244 250 3.095912 TCTTCATCTAGTGTCCCCGAA 57.904 47.619 0.00 0.00 0.00 4.30
458 465 4.982241 TCTCCCAGACTTTCACTCATTT 57.018 40.909 0.00 0.00 0.00 2.32
461 468 3.576861 TCTTCTCCCAGACTTTCACTCA 58.423 45.455 0.00 0.00 0.00 3.41
463 470 4.202409 CCTTTCTTCTCCCAGACTTTCACT 60.202 45.833 0.00 0.00 0.00 3.41
475 482 1.557371 CCTCACCTCCCTTTCTTCTCC 59.443 57.143 0.00 0.00 0.00 3.71
584 594 4.379243 CGCCGCTGTGTCTTCCCT 62.379 66.667 0.00 0.00 0.00 4.20
596 606 3.490759 CACTGGTGTCATCGCCGC 61.491 66.667 0.00 0.00 46.30 6.53
701 715 0.840617 CTTTCCTCTAGGCCCCCTTC 59.159 60.000 0.00 0.00 34.61 3.46
826 843 2.634940 TGCAAGTTCTTCCTCAGCTAGT 59.365 45.455 0.00 0.00 0.00 2.57
831 848 2.181954 AGCTGCAAGTTCTTCCTCAG 57.818 50.000 1.02 0.00 35.30 3.35
832 849 2.645838 AAGCTGCAAGTTCTTCCTCA 57.354 45.000 1.02 0.00 35.30 3.86
865 1090 4.270325 GCCGACTATAGTTAAGTTGCTTGG 59.730 45.833 6.88 0.00 0.00 3.61
922 1148 3.853355 TTTGTCCGTTTGGTAGGGTAA 57.147 42.857 0.00 0.00 36.30 2.85
928 1154 3.123157 TCCGAATTTGTCCGTTTGGTA 57.877 42.857 0.00 0.00 36.30 3.25
979 1205 2.434359 GAGGAGGAAACACCGGCG 60.434 66.667 0.00 0.00 46.96 6.46
1011 1237 1.412710 GTGGTGACTTCACTGACTGGA 59.587 52.381 9.20 0.00 45.73 3.86
1033 1274 0.238289 GTCGGAAGCATTGTGTGGTG 59.762 55.000 0.00 0.00 38.84 4.17
1149 1391 2.585524 CAGCAGGCTAGCAGCTCG 60.586 66.667 25.50 18.27 41.99 5.03
1400 1642 3.732892 CAACCACGCGCCGGAATT 61.733 61.111 20.97 3.89 0.00 2.17
1667 1935 1.666888 GCGGCTTCAATTGTTCCACTG 60.667 52.381 5.13 0.00 0.00 3.66
1680 1948 0.302890 CATTCACATCTCGCGGCTTC 59.697 55.000 6.13 0.00 0.00 3.86
1723 1991 3.005554 CAGGAGAAAAGCACACATCGAT 58.994 45.455 0.00 0.00 0.00 3.59
1757 2025 2.046892 CCAGCCTCCGGTGAACAG 60.047 66.667 4.76 0.00 40.02 3.16
1819 2088 6.154363 AGTTCTCTAGTTTCTCAATCTCCTGG 59.846 42.308 0.00 0.00 0.00 4.45
2112 2388 2.282040 ACCTGCAGGCAAGACAGC 60.282 61.111 33.06 0.00 39.32 4.40
2165 2441 5.359576 AGTTCACAGAGTATGAGGAGTCATC 59.640 44.000 0.00 0.00 42.80 2.92
2588 2872 7.500992 TGATAGTTCTGAAGTTGAAGTGACTT 58.499 34.615 0.00 0.00 39.90 3.01
2669 4394 4.241681 GTCAATGCCGGCATTAAGAAAAA 58.758 39.130 44.99 24.81 43.92 1.94
2704 4429 6.313658 CCGACTGATGATCTGTTTTATTCACA 59.686 38.462 6.42 0.00 0.00 3.58
3042 4797 4.649692 AGCATCCAATCACTCCATACATC 58.350 43.478 0.00 0.00 0.00 3.06
3429 5201 8.451908 AAGGAAAGCAATGTATACCAGTAATC 57.548 34.615 0.00 0.00 0.00 1.75
3626 5428 6.425721 CCAGAATCACTGCACAAAATCAAAAT 59.574 34.615 0.00 0.00 44.52 1.82
3937 5768 0.038744 CCCATCACCAGTCAAGCCTT 59.961 55.000 0.00 0.00 0.00 4.35
4139 5970 2.483877 GCGTTCATCATTGGTGTTCAGA 59.516 45.455 0.00 0.00 0.00 3.27
4187 6018 0.167470 CAAGCCTGATGTTCGCACAG 59.833 55.000 0.00 0.00 35.94 3.66
4197 6028 4.083324 CGTACAATCAAACACAAGCCTGAT 60.083 41.667 0.00 0.00 0.00 2.90
4282 6113 7.119387 AGTCCAATAAACTGCTAAGGCTATTT 58.881 34.615 0.00 0.00 39.59 1.40
4458 6297 2.179427 GGGCCATCACTTAAAAGGCTT 58.821 47.619 4.39 0.00 44.60 4.35
4513 6352 1.133823 CACAGCCCACCTAATATGCCA 60.134 52.381 0.00 0.00 0.00 4.92
4540 6379 9.804758 CTAAGCCCCTAATAACGATAAGATAAG 57.195 37.037 0.00 0.00 0.00 1.73
4575 6414 5.467735 GCAAACGACCCTAATACCGATAAAT 59.532 40.000 0.00 0.00 0.00 1.40
4576 6415 4.810491 GCAAACGACCCTAATACCGATAAA 59.190 41.667 0.00 0.00 0.00 1.40
4985 6824 2.436646 CGTCATCTGGGTGGTGGC 60.437 66.667 0.00 0.00 0.00 5.01
4986 6825 2.268920 CCGTCATCTGGGTGGTGG 59.731 66.667 0.00 0.00 0.00 4.61
4987 6826 2.436646 GCCGTCATCTGGGTGGTG 60.437 66.667 0.00 0.00 0.00 4.17
4988 6827 4.082523 CGCCGTCATCTGGGTGGT 62.083 66.667 0.00 0.00 0.00 4.16
4994 6833 4.899239 GAGGGGCGCCGTCATCTG 62.899 72.222 22.54 0.00 38.20 2.90
5024 6863 2.772691 CGGGGAGTAGACAGCGGTC 61.773 68.421 9.15 9.15 44.66 4.79
5025 6864 2.754658 CGGGGAGTAGACAGCGGT 60.755 66.667 0.00 0.00 0.00 5.68
5026 6865 3.528370 CCGGGGAGTAGACAGCGG 61.528 72.222 0.00 0.00 0.00 5.52
5027 6866 4.208686 GCCGGGGAGTAGACAGCG 62.209 72.222 2.18 0.00 0.00 5.18
5028 6867 4.208686 CGCCGGGGAGTAGACAGC 62.209 72.222 14.46 0.00 0.00 4.40
5029 6868 3.528370 CCGCCGGGGAGTAGACAG 61.528 72.222 21.95 0.00 38.47 3.51
5030 6869 4.051167 TCCGCCGGGGAGTAGACA 62.051 66.667 21.95 0.00 40.94 3.41
5045 6884 2.041819 AGGACCCCGGTGATCTCC 60.042 66.667 0.00 3.58 0.00 3.71
5046 6885 0.976073 TTGAGGACCCCGGTGATCTC 60.976 60.000 0.00 2.54 0.00 2.75
5047 6886 1.080354 TTGAGGACCCCGGTGATCT 59.920 57.895 0.00 0.00 0.00 2.75
5048 6887 1.221021 GTTGAGGACCCCGGTGATC 59.779 63.158 0.00 0.00 0.00 2.92
5049 6888 2.656069 CGTTGAGGACCCCGGTGAT 61.656 63.158 0.00 0.00 0.00 3.06
5050 6889 3.307906 CGTTGAGGACCCCGGTGA 61.308 66.667 0.00 0.00 0.00 4.02
5051 6890 2.573609 GATCGTTGAGGACCCCGGTG 62.574 65.000 0.00 0.00 0.00 4.94
5052 6891 2.284405 ATCGTTGAGGACCCCGGT 60.284 61.111 0.00 0.00 0.00 5.28
5053 6892 1.614241 AAGATCGTTGAGGACCCCGG 61.614 60.000 0.00 0.00 0.00 5.73
5054 6893 0.460284 CAAGATCGTTGAGGACCCCG 60.460 60.000 0.00 0.00 0.00 5.73
5055 6894 0.613777 ACAAGATCGTTGAGGACCCC 59.386 55.000 10.61 0.00 0.00 4.95
5056 6895 1.275291 TGACAAGATCGTTGAGGACCC 59.725 52.381 10.61 0.00 0.00 4.46
5057 6896 2.338500 GTGACAAGATCGTTGAGGACC 58.662 52.381 10.61 0.00 0.00 4.46
5058 6897 2.338500 GGTGACAAGATCGTTGAGGAC 58.662 52.381 10.61 5.27 0.00 3.85
5059 6898 1.067846 CGGTGACAAGATCGTTGAGGA 60.068 52.381 10.61 0.00 0.00 3.71
5060 6899 1.350193 CGGTGACAAGATCGTTGAGG 58.650 55.000 10.61 0.00 0.00 3.86
5061 6900 0.716108 GCGGTGACAAGATCGTTGAG 59.284 55.000 10.61 0.00 0.00 3.02
5062 6901 0.669318 GGCGGTGACAAGATCGTTGA 60.669 55.000 10.61 0.00 0.00 3.18
5063 6902 1.787847 GGCGGTGACAAGATCGTTG 59.212 57.895 4.09 4.09 0.00 4.10
5064 6903 1.736645 CGGCGGTGACAAGATCGTT 60.737 57.895 0.00 0.00 0.00 3.85
5065 6904 2.126071 CGGCGGTGACAAGATCGT 60.126 61.111 0.00 0.00 0.00 3.73
5066 6905 2.126071 ACGGCGGTGACAAGATCG 60.126 61.111 13.24 0.00 0.00 3.69
5067 6906 1.810030 GGACGGCGGTGACAAGATC 60.810 63.158 13.24 0.00 0.00 2.75
5068 6907 2.264794 GGACGGCGGTGACAAGAT 59.735 61.111 13.24 0.00 0.00 2.40
5069 6908 3.220999 CTGGACGGCGGTGACAAGA 62.221 63.158 13.24 0.00 0.00 3.02
5070 6909 2.738521 CTGGACGGCGGTGACAAG 60.739 66.667 13.24 0.00 0.00 3.16
5071 6910 4.308458 CCTGGACGGCGGTGACAA 62.308 66.667 13.24 0.00 0.00 3.18
5076 6915 4.468769 TATCCCCTGGACGGCGGT 62.469 66.667 13.24 0.00 32.98 5.68
5077 6916 3.925090 GTATCCCCTGGACGGCGG 61.925 72.222 13.24 0.00 32.98 6.13
5078 6917 4.280494 CGTATCCCCTGGACGGCG 62.280 72.222 4.80 4.80 32.98 6.46
5079 6918 3.925090 CCGTATCCCCTGGACGGC 61.925 72.222 11.17 0.00 35.24 5.68
5080 6919 2.989173 TAGCCGTATCCCCTGGACGG 62.989 65.000 17.61 17.61 42.09 4.79
5081 6920 0.898789 ATAGCCGTATCCCCTGGACG 60.899 60.000 0.00 0.00 32.98 4.79
5082 6921 1.823610 GTATAGCCGTATCCCCTGGAC 59.176 57.143 0.00 0.00 32.98 4.02
5083 6922 1.272872 GGTATAGCCGTATCCCCTGGA 60.273 57.143 0.00 0.00 35.55 3.86
5084 6923 1.192428 GGTATAGCCGTATCCCCTGG 58.808 60.000 0.00 0.00 0.00 4.45
5085 6924 2.233305 AGGTATAGCCGTATCCCCTG 57.767 55.000 0.00 0.00 43.70 4.45
5086 6925 2.924977 ACTAGGTATAGCCGTATCCCCT 59.075 50.000 0.00 0.00 43.70 4.79
5087 6926 3.286353 GACTAGGTATAGCCGTATCCCC 58.714 54.545 0.00 0.00 43.70 4.81
5088 6927 2.941720 CGACTAGGTATAGCCGTATCCC 59.058 54.545 0.00 0.00 43.70 3.85
5089 6928 2.941720 CCGACTAGGTATAGCCGTATCC 59.058 54.545 0.00 0.00 43.70 2.59
5090 6929 2.354199 GCCGACTAGGTATAGCCGTATC 59.646 54.545 0.00 0.00 43.70 2.24
5091 6930 2.363683 GCCGACTAGGTATAGCCGTAT 58.636 52.381 0.00 0.00 43.70 3.06
5092 6931 1.611673 GGCCGACTAGGTATAGCCGTA 60.612 57.143 0.00 0.00 43.70 4.02
5093 6932 0.892814 GGCCGACTAGGTATAGCCGT 60.893 60.000 0.00 0.00 43.70 5.68
5094 6933 1.593296 GGGCCGACTAGGTATAGCCG 61.593 65.000 0.00 0.00 43.70 5.52
5095 6934 1.256361 GGGGCCGACTAGGTATAGCC 61.256 65.000 0.00 0.00 43.70 3.93
5096 6935 0.251698 AGGGGCCGACTAGGTATAGC 60.252 60.000 0.00 0.00 43.70 2.97
5097 6936 2.720915 GTAGGGGCCGACTAGGTATAG 58.279 57.143 6.08 0.00 43.70 1.31
5098 6937 1.003580 CGTAGGGGCCGACTAGGTATA 59.996 57.143 14.31 0.00 43.70 1.47
5099 6938 0.251077 CGTAGGGGCCGACTAGGTAT 60.251 60.000 14.31 0.00 43.70 2.73
5100 6939 1.149174 CGTAGGGGCCGACTAGGTA 59.851 63.158 14.31 0.00 43.70 3.08
5101 6940 2.123982 CGTAGGGGCCGACTAGGT 60.124 66.667 14.31 0.00 43.70 3.08
5146 6985 2.437716 AATACCACGGCAAGGCGG 60.438 61.111 20.05 6.46 35.02 6.13
5147 6986 2.808958 CGAATACCACGGCAAGGCG 61.809 63.158 14.69 14.69 0.00 5.52
5148 6987 2.469516 CCGAATACCACGGCAAGGC 61.470 63.158 0.00 0.00 43.74 4.35
5149 6988 3.808036 CCGAATACCACGGCAAGG 58.192 61.111 0.00 0.00 43.74 3.61
5178 7017 2.838225 ATGTAGAGGCCCGGTCGG 60.838 66.667 0.00 1.86 0.00 4.79
5179 7018 2.125326 TGATGTAGAGGCCCGGTCG 61.125 63.158 0.00 0.00 0.00 4.79
5180 7019 1.442148 GTGATGTAGAGGCCCGGTC 59.558 63.158 0.00 0.00 0.00 4.79
5181 7020 2.064581 GGTGATGTAGAGGCCCGGT 61.065 63.158 0.00 0.00 0.00 5.28
5182 7021 2.063979 TGGTGATGTAGAGGCCCGG 61.064 63.158 0.00 0.00 0.00 5.73
5183 7022 1.144057 GTGGTGATGTAGAGGCCCG 59.856 63.158 0.00 0.00 0.00 6.13
5184 7023 0.179000 CAGTGGTGATGTAGAGGCCC 59.821 60.000 0.00 0.00 0.00 5.80
5185 7024 0.179000 CCAGTGGTGATGTAGAGGCC 59.821 60.000 0.00 0.00 0.00 5.19
5186 7025 0.462759 GCCAGTGGTGATGTAGAGGC 60.463 60.000 11.74 0.00 0.00 4.70
5187 7026 1.134580 CAGCCAGTGGTGATGTAGAGG 60.135 57.143 11.74 0.00 42.66 3.69
5188 7027 1.741732 GCAGCCAGTGGTGATGTAGAG 60.742 57.143 11.74 0.00 42.66 2.43
5189 7028 0.250234 GCAGCCAGTGGTGATGTAGA 59.750 55.000 11.74 0.00 42.66 2.59
5190 7029 0.251354 AGCAGCCAGTGGTGATGTAG 59.749 55.000 11.74 0.00 42.66 2.74
5191 7030 0.692476 AAGCAGCCAGTGGTGATGTA 59.308 50.000 11.74 0.00 42.66 2.29
5192 7031 0.607489 GAAGCAGCCAGTGGTGATGT 60.607 55.000 11.74 0.00 42.66 3.06
5193 7032 0.607217 TGAAGCAGCCAGTGGTGATG 60.607 55.000 11.74 8.79 42.66 3.07
5194 7033 0.322277 CTGAAGCAGCCAGTGGTGAT 60.322 55.000 11.74 3.82 42.66 3.06
5195 7034 1.071987 CTGAAGCAGCCAGTGGTGA 59.928 57.895 11.74 0.00 42.66 4.02
5196 7035 3.664495 CTGAAGCAGCCAGTGGTG 58.336 61.111 11.74 9.06 42.91 4.17
5855 7700 0.536915 GTCGTACGATAGGGAGGGCT 60.537 60.000 22.57 0.00 43.77 5.19
5865 7710 3.214845 GAGGGCCCGTCGTACGAT 61.215 66.667 22.57 2.64 46.05 3.73
5984 7829 2.559840 CGTGAGTGTACGGCTCGT 59.440 61.111 11.14 5.58 44.35 4.18
6232 8077 1.293498 GAAGGAGGCAGAACTCGCA 59.707 57.895 0.00 0.00 38.39 5.10
6510 8356 2.063979 CCCAGGACGGTGATGCCTA 61.064 63.158 0.00 0.00 34.25 3.93
6731 8578 2.168106 CTCAATGTAGTCTGCAGCCTCT 59.832 50.000 9.47 9.75 0.00 3.69
6804 8651 1.139256 TCAACCAGCGTCAAACACCTA 59.861 47.619 0.00 0.00 0.00 3.08
6903 8750 3.415212 CCCACCTAATATGCCAGTCATG 58.585 50.000 0.00 0.00 36.63 3.07
6909 8756 1.133823 CACAGCCCACCTAATATGCCA 60.134 52.381 0.00 0.00 0.00 4.92
6936 8783 6.356186 AGCCCCTAATAACGGTAAGATAAG 57.644 41.667 0.00 0.00 0.00 1.73
6945 8792 2.180432 GGCTAAGCCCCTAATAACGG 57.820 55.000 0.00 0.00 44.06 4.44
7276 9123 8.299570 CAAGAGCAACAAAACAGGTAATAGAAT 58.700 33.333 0.00 0.00 0.00 2.40
7306 9153 5.518848 AATGTTTGCATCAGTTGTTCTCA 57.481 34.783 0.00 0.00 33.50 3.27
7384 9231 7.415541 CCAAATTGTCAATATGGAGGTGTACAG 60.416 40.741 0.00 0.00 32.82 2.74
7449 9297 0.967887 AGCAGAAGTAGCAGCCTCGA 60.968 55.000 0.00 0.00 0.00 4.04
7689 9540 6.951198 TCTAATAGTCATCTTCCTGATCCTCC 59.049 42.308 0.00 0.00 32.05 4.30
7693 9544 8.855110 TCACTTCTAATAGTCATCTTCCTGATC 58.145 37.037 0.00 0.00 32.05 2.92
7743 9594 7.972277 TCTTAGTAAGTACCTCAAGTATTTGCG 59.028 37.037 9.71 0.00 38.01 4.85
7777 9628 8.301002 GGGTAAAATACAAGAGCAAATGTTACA 58.699 33.333 0.00 0.00 0.00 2.41
7810 9661 2.286833 TCAGCTTGTGTTGTAAGTTCGC 59.713 45.455 0.00 0.00 0.00 4.70
7825 9676 3.558829 CAGCATCATGATACGTTCAGCTT 59.441 43.478 8.15 0.00 37.89 3.74
8057 10023 0.185901 AACCCTGACCACAACTGCAT 59.814 50.000 0.00 0.00 0.00 3.96
8163 10132 1.518903 GCAAGCTCCTTCTTTGCCGT 61.519 55.000 0.00 0.00 0.00 5.68
8398 10420 2.416162 CCGGTTCTCTTTCCTCTTCGAG 60.416 54.545 0.00 0.00 0.00 4.04
8606 10666 2.046892 GCTCACAGGCGTCACCAT 60.047 61.111 0.00 0.00 43.14 3.55
8628 10696 1.884579 TCTGTCTGTGAACTCGTACCC 59.115 52.381 0.00 0.00 0.00 3.69
8655 10723 1.918262 TGGAGGTGAAGAAGGATGCAT 59.082 47.619 0.00 0.00 0.00 3.96


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

AutoCloner maintained by Alex Coulton.