Multiple sequence alignment - TraesCS7B01G367800

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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 TraesCS7B01G367800 chr7B 100.000 3160 0 0 1 3160 632495768 632492609 0.000000e+00 5836.0
1 TraesCS7B01G367800 chr7B 84.645 788 97 13 1661 2437 632658316 632657542 0.000000e+00 763.0
2 TraesCS7B01G367800 chr7B 85.147 680 77 19 943 1606 632658987 632658316 0.000000e+00 675.0
3 TraesCS7B01G367800 chr7D 92.174 2351 118 37 176 2512 573698482 573696184 0.000000e+00 3262.0
4 TraesCS7B01G367800 chr7D 85.571 1497 179 29 883 2363 573827851 573826376 0.000000e+00 1533.0
5 TraesCS7B01G367800 chr7D 88.167 431 33 9 2541 2955 573696022 573695594 6.090000e-137 497.0
6 TraesCS7B01G367800 chr7D 79.173 677 98 24 1728 2384 15322955 15323608 2.250000e-116 429.0
7 TraesCS7B01G367800 chr7D 97.015 134 3 1 1 134 573718555 573718423 1.140000e-54 224.0
8 TraesCS7B01G367800 chr7D 91.411 163 8 3 3000 3158 573695422 573695262 5.310000e-53 219.0
9 TraesCS7B01G367800 chr7A 85.554 1696 170 37 842 2512 663534531 663532886 0.000000e+00 1705.0
10 TraesCS7B01G367800 chr7A 82.609 644 68 27 2541 3160 663532724 663532101 2.160000e-146 529.0
11 TraesCS7B01G367800 chr7A 80.128 624 95 19 1725 2334 14619273 14619881 3.740000e-119 438.0
12 TraesCS7B01G367800 chr7A 80.804 448 70 13 2013 2456 575286530 575286095 1.400000e-88 337.0
13 TraesCS7B01G367800 chr3B 97.695 347 8 0 1296 1642 14090478 14090132 5.830000e-167 597.0
14 TraesCS7B01G367800 chr2B 93.872 359 19 2 1294 1652 51284775 51284420 3.590000e-149 538.0
15 TraesCS7B01G367800 chr4A 79.840 625 97 17 1724 2334 720516322 720515713 2.250000e-116 429.0
16 TraesCS7B01G367800 chr5A 97.143 35 1 0 2961 2995 563772114 563772148 3.400000e-05 60.2


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 TraesCS7B01G367800 chr7B 632492609 632495768 3159 True 5836 5836 100.0000 1 3160 1 chr7B.!!$R1 3159
1 TraesCS7B01G367800 chr7B 632657542 632658987 1445 True 719 763 84.8960 943 2437 2 chr7B.!!$R2 1494
2 TraesCS7B01G367800 chr7D 573826376 573827851 1475 True 1533 1533 85.5710 883 2363 1 chr7D.!!$R2 1480
3 TraesCS7B01G367800 chr7D 573695262 573698482 3220 True 1326 3262 90.5840 176 3158 3 chr7D.!!$R3 2982
4 TraesCS7B01G367800 chr7D 15322955 15323608 653 False 429 429 79.1730 1728 2384 1 chr7D.!!$F1 656
5 TraesCS7B01G367800 chr7A 663532101 663534531 2430 True 1117 1705 84.0815 842 3160 2 chr7A.!!$R2 2318
6 TraesCS7B01G367800 chr7A 14619273 14619881 608 False 438 438 80.1280 1725 2334 1 chr7A.!!$F1 609
7 TraesCS7B01G367800 chr4A 720515713 720516322 609 True 429 429 79.8400 1724 2334 1 chr4A.!!$R1 610

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
32 33 0.030638 GTGTTGTGTTTGGCGAGCAT 59.969 50.0 0.00 0.00 0.0 3.79 F
670 679 0.165727 TGCGCATAAAACTGCAGACG 59.834 50.0 23.35 12.41 42.4 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1873 1909 1.690219 CCAGGATCGAGAGGGGGTTG 61.690 65.0 0.0 0.0 0.0 3.77 R
2639 2837 0.474184 ATTGAGGGCGGGAGGTAATG 59.526 55.0 0.0 0.0 0.0 1.90 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
23 24 6.761099 TTAGTGGTACATTGTGTTGTGTTT 57.239 33.333 0.00 0.00 44.52 2.83
24 25 4.992688 AGTGGTACATTGTGTTGTGTTTG 58.007 39.130 0.00 0.00 44.52 2.93
25 26 4.109050 GTGGTACATTGTGTTGTGTTTGG 58.891 43.478 0.00 0.00 44.52 3.28
26 27 3.120041 GGTACATTGTGTTGTGTTTGGC 58.880 45.455 0.00 0.00 0.00 4.52
27 28 1.919918 ACATTGTGTTGTGTTTGGCG 58.080 45.000 0.00 0.00 0.00 5.69
28 29 1.474478 ACATTGTGTTGTGTTTGGCGA 59.526 42.857 0.00 0.00 0.00 5.54
29 30 2.118683 CATTGTGTTGTGTTTGGCGAG 58.881 47.619 0.00 0.00 0.00 5.03
30 31 0.179150 TTGTGTTGTGTTTGGCGAGC 60.179 50.000 0.00 0.00 0.00 5.03
31 32 1.308783 TGTGTTGTGTTTGGCGAGCA 61.309 50.000 0.00 0.00 0.00 4.26
32 33 0.030638 GTGTTGTGTTTGGCGAGCAT 59.969 50.000 0.00 0.00 0.00 3.79
33 34 0.743688 TGTTGTGTTTGGCGAGCATT 59.256 45.000 0.00 0.00 0.00 3.56
34 35 1.268999 TGTTGTGTTTGGCGAGCATTC 60.269 47.619 0.00 0.00 0.00 2.67
35 36 1.001378 GTTGTGTTTGGCGAGCATTCT 60.001 47.619 0.00 0.00 0.00 2.40
36 37 1.317613 TGTGTTTGGCGAGCATTCTT 58.682 45.000 0.00 0.00 0.00 2.52
37 38 1.680735 TGTGTTTGGCGAGCATTCTTT 59.319 42.857 0.00 0.00 0.00 2.52
38 39 2.100584 TGTGTTTGGCGAGCATTCTTTT 59.899 40.909 0.00 0.00 0.00 2.27
39 40 2.472488 GTGTTTGGCGAGCATTCTTTTG 59.528 45.455 0.00 0.00 0.00 2.44
40 41 2.100584 TGTTTGGCGAGCATTCTTTTGT 59.899 40.909 0.00 0.00 0.00 2.83
41 42 2.704725 TTGGCGAGCATTCTTTTGTC 57.295 45.000 0.00 0.00 0.00 3.18
42 43 1.603456 TGGCGAGCATTCTTTTGTCA 58.397 45.000 0.00 0.00 0.00 3.58
43 44 2.161855 TGGCGAGCATTCTTTTGTCAT 58.838 42.857 0.00 0.00 0.00 3.06
44 45 2.095110 TGGCGAGCATTCTTTTGTCATG 60.095 45.455 0.00 0.00 0.00 3.07
45 46 2.523015 GCGAGCATTCTTTTGTCATGG 58.477 47.619 0.00 0.00 0.00 3.66
46 47 2.162208 GCGAGCATTCTTTTGTCATGGA 59.838 45.455 0.00 0.00 0.00 3.41
47 48 3.366273 GCGAGCATTCTTTTGTCATGGAA 60.366 43.478 0.00 0.00 0.00 3.53
48 49 4.676196 GCGAGCATTCTTTTGTCATGGAAT 60.676 41.667 0.00 0.00 0.00 3.01
49 50 5.404946 CGAGCATTCTTTTGTCATGGAATT 58.595 37.500 0.00 0.00 0.00 2.17
50 51 6.554419 CGAGCATTCTTTTGTCATGGAATTA 58.446 36.000 0.00 0.00 0.00 1.40
51 52 7.198390 CGAGCATTCTTTTGTCATGGAATTAT 58.802 34.615 0.00 0.00 0.00 1.28
52 53 7.703621 CGAGCATTCTTTTGTCATGGAATTATT 59.296 33.333 0.00 0.00 0.00 1.40
77 78 6.882610 TCTGAGAAAAATAAAGAGCTTGCA 57.117 33.333 0.00 0.00 0.00 4.08
78 79 7.275888 TCTGAGAAAAATAAAGAGCTTGCAA 57.724 32.000 0.00 0.00 0.00 4.08
79 80 7.715657 TCTGAGAAAAATAAAGAGCTTGCAAA 58.284 30.769 0.00 0.00 0.00 3.68
80 81 8.196771 TCTGAGAAAAATAAAGAGCTTGCAAAA 58.803 29.630 0.00 0.00 0.00 2.44
81 82 8.891671 TGAGAAAAATAAAGAGCTTGCAAAAT 57.108 26.923 0.00 0.00 0.00 1.82
82 83 8.767085 TGAGAAAAATAAAGAGCTTGCAAAATG 58.233 29.630 0.00 0.00 0.00 2.32
83 84 8.667076 AGAAAAATAAAGAGCTTGCAAAATGT 57.333 26.923 0.00 0.00 0.00 2.71
84 85 8.553696 AGAAAAATAAAGAGCTTGCAAAATGTG 58.446 29.630 0.00 0.00 0.00 3.21
100 101 7.901874 CAAAATGTGCCTTTCTTTTTGAATG 57.098 32.000 9.70 0.00 39.77 2.67
101 102 7.695820 CAAAATGTGCCTTTCTTTTTGAATGA 58.304 30.769 9.70 0.00 39.77 2.57
102 103 6.849588 AATGTGCCTTTCTTTTTGAATGAC 57.150 33.333 0.00 0.00 34.24 3.06
103 104 5.336150 TGTGCCTTTCTTTTTGAATGACA 57.664 34.783 0.00 0.00 34.24 3.58
104 105 5.916318 TGTGCCTTTCTTTTTGAATGACAT 58.084 33.333 0.00 0.00 34.24 3.06
105 106 6.347696 TGTGCCTTTCTTTTTGAATGACATT 58.652 32.000 0.00 0.00 34.24 2.71
106 107 7.495901 TGTGCCTTTCTTTTTGAATGACATTA 58.504 30.769 0.00 0.00 34.24 1.90
107 108 7.437862 TGTGCCTTTCTTTTTGAATGACATTAC 59.562 33.333 0.00 0.00 34.24 1.89
108 109 7.437862 GTGCCTTTCTTTTTGAATGACATTACA 59.562 33.333 0.00 0.00 34.24 2.41
109 110 7.652909 TGCCTTTCTTTTTGAATGACATTACAG 59.347 33.333 0.00 0.00 34.24 2.74
110 111 7.116805 GCCTTTCTTTTTGAATGACATTACAGG 59.883 37.037 0.00 0.00 34.24 4.00
111 112 8.143835 CCTTTCTTTTTGAATGACATTACAGGT 58.856 33.333 0.00 0.00 34.24 4.00
112 113 9.533253 CTTTCTTTTTGAATGACATTACAGGTT 57.467 29.630 0.00 0.00 34.24 3.50
113 114 9.883142 TTTCTTTTTGAATGACATTACAGGTTT 57.117 25.926 0.00 0.00 34.24 3.27
114 115 9.883142 TTCTTTTTGAATGACATTACAGGTTTT 57.117 25.926 0.00 0.00 0.00 2.43
115 116 9.883142 TCTTTTTGAATGACATTACAGGTTTTT 57.117 25.926 0.00 0.00 0.00 1.94
118 119 9.535878 TTTTGAATGACATTACAGGTTTTTACC 57.464 29.630 0.00 0.00 0.00 2.85
119 120 7.222000 TGAATGACATTACAGGTTTTTACCC 57.778 36.000 0.00 0.00 0.00 3.69
120 121 7.007723 TGAATGACATTACAGGTTTTTACCCT 58.992 34.615 0.00 0.00 0.00 4.34
121 122 7.507616 TGAATGACATTACAGGTTTTTACCCTT 59.492 33.333 0.00 0.00 0.00 3.95
122 123 7.849322 ATGACATTACAGGTTTTTACCCTTT 57.151 32.000 0.00 0.00 0.00 3.11
123 124 7.663043 TGACATTACAGGTTTTTACCCTTTT 57.337 32.000 0.00 0.00 0.00 2.27
124 125 8.080363 TGACATTACAGGTTTTTACCCTTTTT 57.920 30.769 0.00 0.00 0.00 1.94
125 126 8.198778 TGACATTACAGGTTTTTACCCTTTTTC 58.801 33.333 0.00 0.00 0.00 2.29
126 127 8.313944 ACATTACAGGTTTTTACCCTTTTTCT 57.686 30.769 0.00 0.00 0.00 2.52
127 128 9.423964 ACATTACAGGTTTTTACCCTTTTTCTA 57.576 29.630 0.00 0.00 0.00 2.10
128 129 9.908152 CATTACAGGTTTTTACCCTTTTTCTAG 57.092 33.333 0.00 0.00 0.00 2.43
129 130 9.871175 ATTACAGGTTTTTACCCTTTTTCTAGA 57.129 29.630 0.00 0.00 0.00 2.43
130 131 9.871175 TTACAGGTTTTTACCCTTTTTCTAGAT 57.129 29.630 0.00 0.00 0.00 1.98
131 132 8.777578 ACAGGTTTTTACCCTTTTTCTAGATT 57.222 30.769 0.00 0.00 0.00 2.40
132 133 9.209048 ACAGGTTTTTACCCTTTTTCTAGATTT 57.791 29.630 0.00 0.00 0.00 2.17
164 165 7.441878 CGCAGCCTTTTCAAAAAGAATATAG 57.558 36.000 15.15 0.98 46.39 1.31
165 166 7.250569 CGCAGCCTTTTCAAAAAGAATATAGA 58.749 34.615 15.15 0.00 46.39 1.98
166 167 7.917505 CGCAGCCTTTTCAAAAAGAATATAGAT 59.082 33.333 15.15 0.00 46.39 1.98
208 209 4.452733 GCCCGCTAACGCACTCCT 62.453 66.667 0.00 0.00 38.22 3.69
236 237 4.764771 GGATTGCAGCCCAGCCCA 62.765 66.667 1.99 0.00 0.00 5.36
259 263 0.533755 CCCACATCCTCCGCAATCTC 60.534 60.000 0.00 0.00 0.00 2.75
270 274 0.312416 CGCAATCTCCTCCGTCTAGG 59.688 60.000 0.00 0.00 42.97 3.02
273 277 1.457009 AATCTCCTCCGTCTAGGCGC 61.457 60.000 12.24 0.00 40.77 6.53
333 342 4.796231 CCCTTCGGCGTCCACGAG 62.796 72.222 6.85 0.00 41.81 4.18
411 420 4.117661 ACGCCGACGCTTCTCCTC 62.118 66.667 0.00 0.00 45.53 3.71
430 439 1.056700 CCGGATCCATCCCTCCTGTT 61.057 60.000 13.41 0.00 44.24 3.16
483 492 1.824852 ACGAATGCCCTTTTGGATTCC 59.175 47.619 0.00 0.00 44.07 3.01
504 513 3.989167 CCGAATGCTGATTGAGATCTCTC 59.011 47.826 22.95 13.74 43.15 3.20
517 526 2.102757 AGATCTCTCGTTGATGCATGCT 59.897 45.455 20.33 4.11 0.00 3.79
575 584 6.677913 ACCAAACATCAGCACAAAATAGTAC 58.322 36.000 0.00 0.00 0.00 2.73
576 585 5.794945 CCAAACATCAGCACAAAATAGTACG 59.205 40.000 0.00 0.00 0.00 3.67
577 586 6.370593 CAAACATCAGCACAAAATAGTACGT 58.629 36.000 0.00 0.00 0.00 3.57
579 588 7.661127 AACATCAGCACAAAATAGTACGTAA 57.339 32.000 0.00 0.00 0.00 3.18
580 589 7.661127 ACATCAGCACAAAATAGTACGTAAA 57.339 32.000 0.00 0.00 0.00 2.01
581 590 8.090250 ACATCAGCACAAAATAGTACGTAAAA 57.910 30.769 0.00 0.00 0.00 1.52
582 591 8.227791 ACATCAGCACAAAATAGTACGTAAAAG 58.772 33.333 0.00 0.00 0.00 2.27
583 592 6.595794 TCAGCACAAAATAGTACGTAAAAGC 58.404 36.000 0.00 0.00 0.00 3.51
622 631 2.225727 CCCTCGGTTTTTCTTGCTGTAC 59.774 50.000 0.00 0.00 0.00 2.90
650 659 9.793259 TGATTTTCTTCCTAGTTATTGTCAGTT 57.207 29.630 0.00 0.00 0.00 3.16
654 663 5.637810 TCTTCCTAGTTATTGTCAGTTTGCG 59.362 40.000 0.00 0.00 0.00 4.85
668 677 2.293122 AGTTTGCGCATAAAACTGCAGA 59.707 40.909 23.35 0.00 44.21 4.26
670 679 0.165727 TGCGCATAAAACTGCAGACG 59.834 50.000 23.35 12.41 42.40 4.18
700 709 6.261381 TGAATTATACGGATTGCCAGTTAACC 59.739 38.462 0.88 0.00 0.00 2.85
772 781 1.105457 TTGGCATGCAAGTCCATAGC 58.895 50.000 21.36 0.00 0.00 2.97
777 786 2.093890 CATGCAAGTCCATAGCAACCA 58.906 47.619 0.00 0.00 42.15 3.67
780 789 4.169059 TGCAAGTCCATAGCAACCATAT 57.831 40.909 0.00 0.00 34.97 1.78
795 804 5.400485 GCAACCATATGCATTTCGATTCTTC 59.600 40.000 3.54 0.00 45.70 2.87
860 869 2.568062 TGTGCATTGCCATTTTGGAGAT 59.432 40.909 6.12 0.00 40.96 2.75
863 872 4.807304 GTGCATTGCCATTTTGGAGATAAG 59.193 41.667 6.12 0.00 40.96 1.73
866 875 6.126997 TGCATTGCCATTTTGGAGATAAGAAT 60.127 34.615 6.12 0.00 40.96 2.40
868 877 7.254658 GCATTGCCATTTTGGAGATAAGAATTG 60.255 37.037 0.00 0.00 40.96 2.32
885 894 0.735632 TTGCCAAATTTCCGATGCGC 60.736 50.000 0.00 0.00 0.00 6.09
940 949 0.247736 ACGGTGCTGGAAGATCTGAC 59.752 55.000 0.00 0.00 34.07 3.51
1134 1149 0.679505 TGTGGCCACAGTCAGACTAC 59.320 55.000 34.74 4.36 36.21 2.73
1248 1264 4.142816 CGATGCTTCACTTTTTACTGAGGG 60.143 45.833 0.08 0.00 0.00 4.30
1256 1272 9.838339 CTTCACTTTTTACTGAGGGTATATGAT 57.162 33.333 0.00 0.00 0.00 2.45
1659 1694 1.123756 GCACGTACGTTTGCTGACTAC 59.876 52.381 20.23 0.00 35.74 2.73
1690 1725 7.175104 TCCTTGTCTTCAGTTTATAAGCCATT 58.825 34.615 0.00 0.00 0.00 3.16
1691 1726 8.325787 TCCTTGTCTTCAGTTTATAAGCCATTA 58.674 33.333 0.00 0.00 0.00 1.90
1692 1727 9.125026 CCTTGTCTTCAGTTTATAAGCCATTAT 57.875 33.333 0.00 0.00 35.71 1.28
1708 1744 8.814038 AAGCCATTATAAGTCTTCAGTTCATT 57.186 30.769 0.00 0.00 0.00 2.57
1719 1755 8.994429 AGTCTTCAGTTCATTCATAGTTACAG 57.006 34.615 0.00 0.00 0.00 2.74
1761 1797 8.474831 TGCTGACTACTAAAATGCTCACTTATA 58.525 33.333 0.00 0.00 0.00 0.98
1873 1909 6.606768 CAGTTCTTGCTGGTAAGAATTTCTC 58.393 40.000 14.72 4.58 45.40 2.87
1920 1962 2.578786 TCCTTGGCTGCATGATATGTG 58.421 47.619 0.50 0.00 0.00 3.21
1963 2014 3.689649 GCCTCCGTATTCAAGTCAACAAT 59.310 43.478 0.00 0.00 0.00 2.71
2016 2067 2.076863 ACTGTCAGCGTTTTATCTGCC 58.923 47.619 0.00 0.00 0.00 4.85
2079 2131 5.415701 ACGTCAAAACATTATCTGCAGGATT 59.584 36.000 15.13 1.77 35.98 3.01
2105 2157 0.600057 CAGAAAGGGCCTTTGCAGAC 59.400 55.000 34.98 19.89 40.13 3.51
2120 2172 0.861837 CAGACTTCGTCCTGTGCAAC 59.138 55.000 0.00 0.00 32.18 4.17
2167 2219 0.178068 TTCCTCGGATAAGCCACTGC 59.822 55.000 0.00 0.00 35.94 4.40
2172 2224 0.034059 CGGATAAGCCACTGCCCTAG 59.966 60.000 0.00 0.00 38.69 3.02
2238 2294 8.501580 GTCATCATGTTAGATATTCATGTGGTG 58.498 37.037 0.00 0.00 39.61 4.17
2261 2317 1.202521 ACACAACTGTCTGCGTGATCA 60.203 47.619 0.00 0.00 33.56 2.92
2424 2488 2.052782 GGAAATACTGATTGCCCGGT 57.947 50.000 0.00 0.00 34.85 5.28
2476 2540 2.525784 TTGCAAACATTGGCACCCT 58.474 47.368 0.00 0.00 40.23 4.34
2490 2554 3.010420 GGCACCCTTGATTTCTGTACTC 58.990 50.000 0.00 0.00 0.00 2.59
2498 2562 6.148480 CCCTTGATTTCTGTACTCTGAGTTTG 59.852 42.308 16.53 6.82 0.00 2.93
2533 2630 7.484007 CGAAGTTCTTCATTCAATCCAAGATTG 59.516 37.037 10.42 10.42 0.00 2.67
2536 2633 6.446781 TCTTCATTCAATCCAAGATTGCTC 57.553 37.500 11.60 0.00 0.00 4.26
2539 2636 4.400251 TCATTCAATCCAAGATTGCTCCAC 59.600 41.667 11.60 0.00 0.00 4.02
2570 2768 4.518970 TCTTGAACAGTTATGCAACTTCCC 59.481 41.667 0.00 0.00 42.51 3.97
2634 2832 5.423015 TGAACAAAACAAAGCTGGCATTTA 58.577 33.333 0.00 0.00 0.00 1.40
2639 2837 7.416817 ACAAAACAAAGCTGGCATTTATTTTC 58.583 30.769 0.83 0.00 0.00 2.29
2640 2838 7.066766 ACAAAACAAAGCTGGCATTTATTTTCA 59.933 29.630 0.83 0.00 0.00 2.69
2642 2840 7.748691 AACAAAGCTGGCATTTATTTTCATT 57.251 28.000 0.00 0.00 0.00 2.57
2644 2842 8.255394 ACAAAGCTGGCATTTATTTTCATTAC 57.745 30.769 0.00 0.00 0.00 1.89
2645 2843 7.334171 ACAAAGCTGGCATTTATTTTCATTACC 59.666 33.333 0.00 0.00 0.00 2.85
2646 2844 6.796785 AGCTGGCATTTATTTTCATTACCT 57.203 33.333 0.00 0.00 0.00 3.08
2649 2847 6.478512 TGGCATTTATTTTCATTACCTCCC 57.521 37.500 0.00 0.00 0.00 4.30
2650 2848 5.068460 TGGCATTTATTTTCATTACCTCCCG 59.932 40.000 0.00 0.00 0.00 5.14
2652 2850 5.528870 CATTTATTTTCATTACCTCCCGCC 58.471 41.667 0.00 0.00 0.00 6.13
2657 2865 0.619255 TCATTACCTCCCGCCCTCAA 60.619 55.000 0.00 0.00 0.00 3.02
2725 2939 7.824779 AGAAGGTTCTATTTGATCTTTTACGCT 59.175 33.333 0.00 0.00 35.34 5.07
2727 2941 9.614792 AAGGTTCTATTTGATCTTTTACGCTAT 57.385 29.630 0.00 0.00 0.00 2.97
2743 2957 2.860735 CGCTATGCACCAGTTCTACTTC 59.139 50.000 0.00 0.00 0.00 3.01
2748 2962 4.623932 TGCACCAGTTCTACTTCTGAAT 57.376 40.909 0.00 0.00 34.02 2.57
2749 2963 4.569943 TGCACCAGTTCTACTTCTGAATC 58.430 43.478 0.00 0.00 34.02 2.52
2771 2989 5.189928 TCGCCCTGCATTTTAGAGATTTTA 58.810 37.500 0.00 0.00 0.00 1.52
2814 3033 3.140325 TGCCACTTTCCTAAAGACCAG 57.860 47.619 6.41 0.00 41.02 4.00
2820 3039 6.166982 CCACTTTCCTAAAGACCAGAACTAG 58.833 44.000 6.41 0.00 41.02 2.57
2835 3055 8.311395 ACCAGAACTAGATTGTGAATCAGATA 57.689 34.615 0.00 0.00 40.42 1.98
2859 3079 3.734902 GCCAATCCAAAATAGCAGGAACG 60.735 47.826 0.00 0.00 34.62 3.95
2954 3179 8.921353 ATAACAGAATCTATGTAGTACTCCGT 57.079 34.615 0.00 0.00 0.00 4.69
2955 3180 6.864360 ACAGAATCTATGTAGTACTCCGTC 57.136 41.667 0.00 0.00 0.00 4.79
2956 3181 5.764192 ACAGAATCTATGTAGTACTCCGTCC 59.236 44.000 0.00 0.00 0.00 4.79
2958 3183 6.262496 CAGAATCTATGTAGTACTCCGTCCAA 59.738 42.308 0.00 0.00 0.00 3.53
2959 3184 6.832384 AGAATCTATGTAGTACTCCGTCCAAA 59.168 38.462 0.00 0.00 0.00 3.28
2960 3185 7.341256 AGAATCTATGTAGTACTCCGTCCAAAA 59.659 37.037 0.00 0.00 0.00 2.44
2984 3209 8.463930 AAAAACTTGTCTCTCAAATGGATGTA 57.536 30.769 0.00 0.00 35.48 2.29
2985 3210 8.641498 AAAACTTGTCTCTCAAATGGATGTAT 57.359 30.769 0.00 0.00 35.48 2.29
2986 3211 7.621428 AACTTGTCTCTCAAATGGATGTATG 57.379 36.000 0.00 0.00 35.48 2.39
3075 3461 5.244402 AGTTCATTCAACCAAAGCATGATGA 59.756 36.000 0.00 0.00 35.28 2.92
3147 3533 2.422597 GCAACTTGGCCCAAAAATACC 58.577 47.619 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.404844 CCAAACACAACACAATGTACCACTAA 60.405 38.462 0.00 0.00 30.84 2.24
1 2 5.066634 CCAAACACAACACAATGTACCACTA 59.933 40.000 0.00 0.00 30.84 2.74
2 3 4.142271 CCAAACACAACACAATGTACCACT 60.142 41.667 0.00 0.00 30.84 4.00
3 4 4.109050 CCAAACACAACACAATGTACCAC 58.891 43.478 0.00 0.00 30.84 4.16
4 5 3.429547 GCCAAACACAACACAATGTACCA 60.430 43.478 0.00 0.00 30.84 3.25
5 6 3.120041 GCCAAACACAACACAATGTACC 58.880 45.455 0.00 0.00 30.84 3.34
6 7 2.786578 CGCCAAACACAACACAATGTAC 59.213 45.455 0.00 0.00 30.84 2.90
7 8 2.683362 TCGCCAAACACAACACAATGTA 59.317 40.909 0.00 0.00 30.84 2.29
8 9 1.474478 TCGCCAAACACAACACAATGT 59.526 42.857 0.00 0.00 0.00 2.71
9 10 2.118683 CTCGCCAAACACAACACAATG 58.881 47.619 0.00 0.00 0.00 2.82
10 11 1.535860 GCTCGCCAAACACAACACAAT 60.536 47.619 0.00 0.00 0.00 2.71
11 12 0.179150 GCTCGCCAAACACAACACAA 60.179 50.000 0.00 0.00 0.00 3.33
12 13 1.308783 TGCTCGCCAAACACAACACA 61.309 50.000 0.00 0.00 0.00 3.72
13 14 0.030638 ATGCTCGCCAAACACAACAC 59.969 50.000 0.00 0.00 0.00 3.32
14 15 0.743688 AATGCTCGCCAAACACAACA 59.256 45.000 0.00 0.00 0.00 3.33
15 16 1.001378 AGAATGCTCGCCAAACACAAC 60.001 47.619 0.00 0.00 0.00 3.32
16 17 1.317613 AGAATGCTCGCCAAACACAA 58.682 45.000 0.00 0.00 0.00 3.33
17 18 1.317613 AAGAATGCTCGCCAAACACA 58.682 45.000 0.00 0.00 0.00 3.72
18 19 2.422276 AAAGAATGCTCGCCAAACAC 57.578 45.000 0.00 0.00 0.00 3.32
19 20 2.100584 ACAAAAGAATGCTCGCCAAACA 59.899 40.909 0.00 0.00 0.00 2.83
20 21 2.726241 GACAAAAGAATGCTCGCCAAAC 59.274 45.455 0.00 0.00 0.00 2.93
21 22 2.360483 TGACAAAAGAATGCTCGCCAAA 59.640 40.909 0.00 0.00 0.00 3.28
22 23 1.952990 TGACAAAAGAATGCTCGCCAA 59.047 42.857 0.00 0.00 0.00 4.52
23 24 1.603456 TGACAAAAGAATGCTCGCCA 58.397 45.000 0.00 0.00 0.00 5.69
24 25 2.523015 CATGACAAAAGAATGCTCGCC 58.477 47.619 0.00 0.00 0.00 5.54
25 26 2.162208 TCCATGACAAAAGAATGCTCGC 59.838 45.455 0.00 0.00 0.00 5.03
26 27 4.424061 TTCCATGACAAAAGAATGCTCG 57.576 40.909 0.00 0.00 0.00 5.03
27 28 8.937634 AATAATTCCATGACAAAAGAATGCTC 57.062 30.769 0.00 0.00 0.00 4.26
51 52 9.013229 TGCAAGCTCTTTATTTTTCTCAGATAA 57.987 29.630 0.00 0.00 0.00 1.75
52 53 8.565896 TGCAAGCTCTTTATTTTTCTCAGATA 57.434 30.769 0.00 0.00 0.00 1.98
53 54 7.458409 TGCAAGCTCTTTATTTTTCTCAGAT 57.542 32.000 0.00 0.00 0.00 2.90
54 55 6.882610 TGCAAGCTCTTTATTTTTCTCAGA 57.117 33.333 0.00 0.00 0.00 3.27
55 56 7.935338 TTTGCAAGCTCTTTATTTTTCTCAG 57.065 32.000 0.00 0.00 0.00 3.35
56 57 8.767085 CATTTTGCAAGCTCTTTATTTTTCTCA 58.233 29.630 0.00 0.00 0.00 3.27
57 58 8.768019 ACATTTTGCAAGCTCTTTATTTTTCTC 58.232 29.630 0.00 0.00 0.00 2.87
58 59 8.553696 CACATTTTGCAAGCTCTTTATTTTTCT 58.446 29.630 0.00 0.00 0.00 2.52
59 60 8.703823 CACATTTTGCAAGCTCTTTATTTTTC 57.296 30.769 0.00 0.00 0.00 2.29
72 73 7.837732 TTCAAAAAGAAAGGCACATTTTGCAAG 60.838 33.333 0.00 0.00 42.78 4.01
73 74 6.072286 TTCAAAAAGAAAGGCACATTTTGCAA 60.072 30.769 0.00 0.00 42.78 4.08
74 75 5.413833 TTCAAAAAGAAAGGCACATTTTGCA 59.586 32.000 11.69 0.00 42.78 4.08
75 76 5.878133 TTCAAAAAGAAAGGCACATTTTGC 58.122 33.333 11.69 0.00 41.27 3.68
76 77 7.641020 GTCATTCAAAAAGAAAGGCACATTTTG 59.359 33.333 0.00 0.00 40.22 2.44
77 78 7.336427 TGTCATTCAAAAAGAAAGGCACATTTT 59.664 29.630 0.00 0.00 34.91 1.82
78 79 6.822676 TGTCATTCAAAAAGAAAGGCACATTT 59.177 30.769 0.00 0.00 34.91 2.32
79 80 6.347696 TGTCATTCAAAAAGAAAGGCACATT 58.652 32.000 0.00 0.00 34.91 2.71
80 81 5.916318 TGTCATTCAAAAAGAAAGGCACAT 58.084 33.333 0.00 0.00 34.91 3.21
81 82 5.336150 TGTCATTCAAAAAGAAAGGCACA 57.664 34.783 0.00 0.00 34.91 4.57
82 83 6.849588 AATGTCATTCAAAAAGAAAGGCAC 57.150 33.333 0.00 0.00 41.67 5.01
83 84 7.495901 TGTAATGTCATTCAAAAAGAAAGGCA 58.504 30.769 0.07 0.00 42.85 4.75
84 85 7.116805 CCTGTAATGTCATTCAAAAAGAAAGGC 59.883 37.037 0.07 0.00 40.22 4.35
85 86 8.143835 ACCTGTAATGTCATTCAAAAAGAAAGG 58.856 33.333 0.07 0.00 40.22 3.11
86 87 9.533253 AACCTGTAATGTCATTCAAAAAGAAAG 57.467 29.630 0.07 0.00 40.22 2.62
87 88 9.883142 AAACCTGTAATGTCATTCAAAAAGAAA 57.117 25.926 0.07 0.00 40.22 2.52
88 89 9.883142 AAAACCTGTAATGTCATTCAAAAAGAA 57.117 25.926 0.07 0.00 41.28 2.52
89 90 9.883142 AAAAACCTGTAATGTCATTCAAAAAGA 57.117 25.926 0.07 0.00 0.00 2.52
92 93 9.535878 GGTAAAAACCTGTAATGTCATTCAAAA 57.464 29.630 0.07 0.00 0.00 2.44
93 94 8.145122 GGGTAAAAACCTGTAATGTCATTCAAA 58.855 33.333 0.07 0.00 0.00 2.69
94 95 7.507616 AGGGTAAAAACCTGTAATGTCATTCAA 59.492 33.333 0.07 0.00 36.85 2.69
95 96 7.007723 AGGGTAAAAACCTGTAATGTCATTCA 58.992 34.615 0.07 0.03 36.85 2.57
96 97 7.462571 AGGGTAAAAACCTGTAATGTCATTC 57.537 36.000 0.07 0.00 36.85 2.67
97 98 7.849322 AAGGGTAAAAACCTGTAATGTCATT 57.151 32.000 3.06 3.06 38.63 2.57
98 99 7.849322 AAAGGGTAAAAACCTGTAATGTCAT 57.151 32.000 0.00 0.00 38.63 3.06
99 100 7.663043 AAAAGGGTAAAAACCTGTAATGTCA 57.337 32.000 0.00 0.00 38.63 3.58
100 101 8.418662 AGAAAAAGGGTAAAAACCTGTAATGTC 58.581 33.333 0.00 0.00 38.63 3.06
101 102 8.313944 AGAAAAAGGGTAAAAACCTGTAATGT 57.686 30.769 0.00 0.00 38.63 2.71
102 103 9.908152 CTAGAAAAAGGGTAAAAACCTGTAATG 57.092 33.333 0.00 0.00 38.63 1.90
103 104 9.871175 TCTAGAAAAAGGGTAAAAACCTGTAAT 57.129 29.630 0.00 0.00 38.63 1.89
104 105 9.871175 ATCTAGAAAAAGGGTAAAAACCTGTAA 57.129 29.630 0.00 0.00 38.63 2.41
105 106 9.871175 AATCTAGAAAAAGGGTAAAAACCTGTA 57.129 29.630 0.00 0.00 38.63 2.74
106 107 8.777578 AATCTAGAAAAAGGGTAAAAACCTGT 57.222 30.769 0.00 0.00 38.63 4.00
133 134 3.444703 TTGAAAAGGCTGCGCTAAAAA 57.555 38.095 9.73 0.00 0.00 1.94
134 135 3.444703 TTTGAAAAGGCTGCGCTAAAA 57.555 38.095 9.73 0.00 0.00 1.52
135 136 3.444703 TTTTGAAAAGGCTGCGCTAAA 57.555 38.095 9.73 0.00 0.00 1.85
136 137 3.067461 TCTTTTTGAAAAGGCTGCGCTAA 59.933 39.130 9.73 0.00 44.22 3.09
137 138 2.621055 TCTTTTTGAAAAGGCTGCGCTA 59.379 40.909 9.73 0.00 44.22 4.26
138 139 1.408702 TCTTTTTGAAAAGGCTGCGCT 59.591 42.857 9.73 0.00 44.22 5.92
139 140 1.851658 TCTTTTTGAAAAGGCTGCGC 58.148 45.000 14.33 0.00 44.22 6.09
140 141 7.250569 TCTATATTCTTTTTGAAAAGGCTGCG 58.749 34.615 14.33 2.75 44.22 5.18
162 163 9.875708 AGCCCACCAAACATAATAATTTATCTA 57.124 29.630 0.00 0.00 0.00 1.98
163 164 8.782137 AGCCCACCAAACATAATAATTTATCT 57.218 30.769 0.00 0.00 0.00 1.98
164 165 8.637986 TGAGCCCACCAAACATAATAATTTATC 58.362 33.333 0.00 0.00 0.00 1.75
165 166 8.546083 TGAGCCCACCAAACATAATAATTTAT 57.454 30.769 0.00 0.00 0.00 1.40
166 167 7.417342 GCTGAGCCCACCAAACATAATAATTTA 60.417 37.037 0.00 0.00 0.00 1.40
167 168 6.630188 GCTGAGCCCACCAAACATAATAATTT 60.630 38.462 0.00 0.00 0.00 1.82
168 169 5.163416 GCTGAGCCCACCAAACATAATAATT 60.163 40.000 0.00 0.00 0.00 1.40
169 170 4.342092 GCTGAGCCCACCAAACATAATAAT 59.658 41.667 0.00 0.00 0.00 1.28
170 171 3.699038 GCTGAGCCCACCAAACATAATAA 59.301 43.478 0.00 0.00 0.00 1.40
171 172 3.287222 GCTGAGCCCACCAAACATAATA 58.713 45.455 0.00 0.00 0.00 0.98
172 173 2.102578 GCTGAGCCCACCAAACATAAT 58.897 47.619 0.00 0.00 0.00 1.28
173 174 1.544724 GCTGAGCCCACCAAACATAA 58.455 50.000 0.00 0.00 0.00 1.90
174 175 0.323360 GGCTGAGCCCACCAAACATA 60.323 55.000 13.77 0.00 44.06 2.29
208 209 1.291906 TGCAATCCGTCTTCGCAGA 59.708 52.632 0.00 0.00 35.54 4.26
214 215 1.377725 CTGGGCTGCAATCCGTCTT 60.378 57.895 0.50 0.00 0.00 3.01
236 237 4.115199 GCGGAGGATGTGGGGCTT 62.115 66.667 0.00 0.00 0.00 4.35
353 362 4.773117 GCTGCGCTCTGGCTTTGC 62.773 66.667 9.73 0.00 36.09 3.68
354 363 4.112341 GGCTGCGCTCTGGCTTTG 62.112 66.667 9.73 0.00 36.09 2.77
454 463 0.539986 AGGGCATTCGTTACACGGAT 59.460 50.000 0.00 0.00 41.21 4.18
483 492 3.669588 CGAGAGATCTCAATCAGCATTCG 59.330 47.826 24.39 16.28 43.00 3.34
504 513 2.274437 AGACAGTAGCATGCATCAACG 58.726 47.619 21.98 5.40 0.00 4.10
517 526 6.253758 TCTACTTGGGATTCTGAAGACAGTA 58.746 40.000 0.00 0.00 43.81 2.74
559 568 6.347888 GGCTTTTACGTACTATTTTGTGCTGA 60.348 38.462 0.00 0.00 0.00 4.26
561 570 5.470777 TGGCTTTTACGTACTATTTTGTGCT 59.529 36.000 0.00 0.00 0.00 4.40
562 571 5.691815 TGGCTTTTACGTACTATTTTGTGC 58.308 37.500 0.00 0.00 0.00 4.57
575 584 4.033358 TGTTTGTTTGCAATGGCTTTTACG 59.967 37.500 0.00 0.00 41.91 3.18
576 585 5.262422 GTGTTTGTTTGCAATGGCTTTTAC 58.738 37.500 0.00 0.00 41.91 2.01
577 586 4.033358 CGTGTTTGTTTGCAATGGCTTTTA 59.967 37.500 0.00 0.00 41.91 1.52
579 588 2.351111 CGTGTTTGTTTGCAATGGCTTT 59.649 40.909 0.00 0.00 41.91 3.51
580 589 1.932511 CGTGTTTGTTTGCAATGGCTT 59.067 42.857 0.00 0.00 41.91 4.35
581 590 1.569708 CGTGTTTGTTTGCAATGGCT 58.430 45.000 0.00 0.00 41.91 4.75
582 591 0.042274 GCGTGTTTGTTTGCAATGGC 60.042 50.000 0.00 0.00 41.68 4.40
583 592 0.581053 GGCGTGTTTGTTTGCAATGG 59.419 50.000 0.00 0.00 34.18 3.16
668 677 4.152402 GCAATCCGTATAATTCAGATGCGT 59.848 41.667 0.00 0.00 31.41 5.24
670 679 4.455533 TGGCAATCCGTATAATTCAGATGC 59.544 41.667 0.00 0.00 34.14 3.91
700 709 6.293027 GCAAAACAAATTCAGATGACCAAAGG 60.293 38.462 0.00 0.00 0.00 3.11
745 754 1.135527 ACTTGCATGCCAATTCATCGG 59.864 47.619 16.68 0.00 31.91 4.18
747 756 2.166870 TGGACTTGCATGCCAATTCATC 59.833 45.455 16.68 3.10 35.47 2.92
772 781 5.916883 GGAAGAATCGAAATGCATATGGTTG 59.083 40.000 0.00 0.00 0.00 3.77
777 786 4.728772 TGGGGAAGAATCGAAATGCATAT 58.271 39.130 0.00 0.00 0.00 1.78
780 789 2.505650 TGGGGAAGAATCGAAATGCA 57.494 45.000 0.00 0.00 0.00 3.96
795 804 0.538516 TTGTTGTGAACCGGATGGGG 60.539 55.000 9.46 0.00 41.60 4.96
831 840 1.254954 TGGCAATGCACATGTAAGCA 58.745 45.000 12.69 12.69 45.92 3.91
860 869 5.108517 GCATCGGAAATTTGGCAATTCTTA 58.891 37.500 12.01 3.29 30.80 2.10
863 872 2.282290 CGCATCGGAAATTTGGCAATTC 59.718 45.455 0.00 2.60 30.80 2.17
866 875 0.735632 GCGCATCGGAAATTTGGCAA 60.736 50.000 0.30 0.00 0.00 4.52
868 877 2.223549 CGCGCATCGGAAATTTGGC 61.224 57.895 8.75 0.00 33.78 4.52
940 949 7.641411 CAGTATGAAACAGAAAACAAGTCACAG 59.359 37.037 0.00 0.00 39.69 3.66
1134 1149 6.528321 TGTTAGAATAGGATCAGCAATCAGG 58.472 40.000 0.00 0.00 35.96 3.86
1294 1311 5.416013 TGCACCCATGTATTATCGAAAAACA 59.584 36.000 0.00 0.00 0.00 2.83
1701 1736 8.725148 CAGCTTTTCTGTAACTATGAATGAACT 58.275 33.333 0.00 0.00 38.02 3.01
1707 1743 5.643777 GGCTCAGCTTTTCTGTAACTATGAA 59.356 40.000 0.00 0.00 43.32 2.57
1708 1744 5.178797 GGCTCAGCTTTTCTGTAACTATGA 58.821 41.667 0.00 0.00 43.32 2.15
1761 1797 6.208599 CCCATGTAAACAACCTAGTTTGTCAT 59.791 38.462 6.09 3.40 41.48 3.06
1770 1806 6.469410 CAACTACTCCCATGTAAACAACCTA 58.531 40.000 0.00 0.00 0.00 3.08
1873 1909 1.690219 CCAGGATCGAGAGGGGGTTG 61.690 65.000 0.00 0.00 0.00 3.77
1920 1962 3.429085 CACACTGCAAAAACAGACAGTC 58.571 45.455 0.00 0.00 41.28 3.51
1963 2014 6.126409 AGTTACCTTGAATTCCTTGTTGTCA 58.874 36.000 2.27 0.00 0.00 3.58
1992 2043 4.702392 CAGATAAAACGCTGACAGTGAAC 58.298 43.478 22.51 6.83 34.06 3.18
2016 2067 4.600012 ATCCAAAGAACAAACTATCGCG 57.400 40.909 0.00 0.00 0.00 5.87
2079 2131 1.158007 AAGGCCCTTTCTGGAGGAAA 58.842 50.000 0.00 0.00 41.11 3.13
2105 2157 1.230635 CCAGGTTGCACAGGACGAAG 61.231 60.000 0.00 0.00 0.00 3.79
2167 2219 4.192317 CAAAATCTCGGAAACTCCTAGGG 58.808 47.826 9.46 2.03 33.30 3.53
2172 2224 4.995487 ACACTACAAAATCTCGGAAACTCC 59.005 41.667 0.00 0.00 0.00 3.85
2238 2294 2.677971 ACGCAGACAGTTGTGTGAC 58.322 52.632 12.95 4.24 41.29 3.67
2330 2386 4.344968 AGTTTCACCCCCTCAAAAGAAATG 59.655 41.667 0.00 0.00 0.00 2.32
2475 2539 7.953158 TCAAACTCAGAGTACAGAAATCAAG 57.047 36.000 2.64 0.00 0.00 3.02
2476 2540 8.908786 AATCAAACTCAGAGTACAGAAATCAA 57.091 30.769 2.64 0.00 0.00 2.57
2490 2554 5.409643 ACTTCGACACAAATCAAACTCAG 57.590 39.130 0.00 0.00 0.00 3.35
2498 2562 6.658831 TGAATGAAGAACTTCGACACAAATC 58.341 36.000 9.51 0.00 42.28 2.17
2533 2630 3.070748 GTTCAAGAAGAGGAAGTGGAGC 58.929 50.000 0.00 0.00 0.00 4.70
2536 2633 4.078639 ACTGTTCAAGAAGAGGAAGTGG 57.921 45.455 11.08 0.00 36.16 4.00
2539 2636 5.702670 TGCATAACTGTTCAAGAAGAGGAAG 59.297 40.000 11.08 0.91 36.16 3.46
2570 2768 2.745884 TTCATGGCGCTTGGTCGG 60.746 61.111 7.64 0.00 0.00 4.79
2634 2832 1.569072 AGGGCGGGAGGTAATGAAAAT 59.431 47.619 0.00 0.00 0.00 1.82
2639 2837 0.474184 ATTGAGGGCGGGAGGTAATG 59.526 55.000 0.00 0.00 0.00 1.90
2640 2838 1.133792 CAATTGAGGGCGGGAGGTAAT 60.134 52.381 0.00 0.00 0.00 1.89
2642 2840 0.912487 ACAATTGAGGGCGGGAGGTA 60.912 55.000 13.59 0.00 0.00 3.08
2644 2842 1.750399 CACAATTGAGGGCGGGAGG 60.750 63.158 13.59 0.00 0.00 4.30
2645 2843 0.609131 AACACAATTGAGGGCGGGAG 60.609 55.000 13.59 0.00 0.00 4.30
2646 2844 0.693622 TAACACAATTGAGGGCGGGA 59.306 50.000 13.59 0.00 0.00 5.14
2649 2847 2.676342 GGTACTAACACAATTGAGGGCG 59.324 50.000 13.59 0.05 0.00 6.13
2650 2848 3.681593 TGGTACTAACACAATTGAGGGC 58.318 45.455 13.59 0.00 0.00 5.19
2652 2850 6.877611 ACTTTGGTACTAACACAATTGAGG 57.122 37.500 13.59 6.39 0.00 3.86
2657 2865 6.603997 TGGTTGAACTTTGGTACTAACACAAT 59.396 34.615 0.00 0.00 0.00 2.71
2709 2923 5.356751 TGGTGCATAGCGTAAAAGATCAAAT 59.643 36.000 0.00 0.00 0.00 2.32
2722 2936 2.586258 AGTAGAACTGGTGCATAGCG 57.414 50.000 0.00 0.00 0.00 4.26
2725 2939 5.738619 TTCAGAAGTAGAACTGGTGCATA 57.261 39.130 0.00 0.00 35.20 3.14
2727 2941 4.569943 GATTCAGAAGTAGAACTGGTGCA 58.430 43.478 0.00 0.00 35.20 4.57
2743 2957 2.945008 TCTAAAATGCAGGGCGATTCAG 59.055 45.455 0.00 0.00 0.00 3.02
2748 2962 3.281727 AATCTCTAAAATGCAGGGCGA 57.718 42.857 0.00 0.00 0.00 5.54
2749 2963 4.376340 AAAATCTCTAAAATGCAGGGCG 57.624 40.909 0.00 0.00 0.00 6.13
2814 3033 7.658982 TGGCATATCTGATTCACAATCTAGTTC 59.341 37.037 0.00 0.00 38.72 3.01
2820 3039 6.208007 TGGATTGGCATATCTGATTCACAATC 59.792 38.462 18.41 18.41 41.11 2.67
2835 3055 3.645434 TCCTGCTATTTTGGATTGGCAT 58.355 40.909 0.00 0.00 0.00 4.40
2902 3127 9.729281 AATTTCTTAATTTCATGTTGCCTTCAT 57.271 25.926 0.00 0.00 29.68 2.57
2959 3184 7.352079 ACATCCATTTGAGAGACAAGTTTTT 57.648 32.000 0.00 0.00 39.77 1.94
2960 3185 6.966534 ACATCCATTTGAGAGACAAGTTTT 57.033 33.333 0.00 0.00 39.77 2.43
2963 3188 6.715280 ACATACATCCATTTGAGAGACAAGT 58.285 36.000 0.00 0.00 39.77 3.16
2964 3189 7.042187 GCTACATACATCCATTTGAGAGACAAG 60.042 40.741 0.00 0.00 39.77 3.16
2966 3191 6.127083 TGCTACATACATCCATTTGAGAGACA 60.127 38.462 0.00 0.00 0.00 3.41
2968 3193 6.098838 AGTGCTACATACATCCATTTGAGAGA 59.901 38.462 0.00 0.00 0.00 3.10
2969 3194 6.286758 AGTGCTACATACATCCATTTGAGAG 58.713 40.000 0.00 0.00 0.00 3.20
2970 3195 6.239217 AGTGCTACATACATCCATTTGAGA 57.761 37.500 0.00 0.00 0.00 3.27
2971 3196 6.986231 TGTAGTGCTACATACATCCATTTGAG 59.014 38.462 7.87 0.00 40.77 3.02
2986 3211 3.243569 CCTGTAGGCTCATGTAGTGCTAC 60.244 52.174 0.00 2.60 36.95 3.58
3075 3461 3.243401 GGAATGCGTTTCAACTGGAGTTT 60.243 43.478 0.00 0.00 35.83 2.66


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

AutoCloner maintained by Alex Coulton.