Multiple sequence alignment - TraesCS5B01G118900

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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 TraesCS5B01G118900 chr5B 100.000 6153 0 0 1 6153 209637886 209631734 0.000000e+00 11363.0
1 TraesCS5B01G118900 chr5B 96.970 165 3 2 5548 5711 301539640 301539477 6.080000e-70 276.0
2 TraesCS5B01G118900 chr5D 97.613 3435 67 12 2730 6152 199082996 199086427 0.000000e+00 5875.0
3 TraesCS5B01G118900 chr5D 95.919 2132 60 16 532 2647 199080877 199082997 0.000000e+00 3430.0
4 TraesCS5B01G118900 chr5D 90.600 500 46 1 1 500 199079897 199080395 0.000000e+00 662.0
5 TraesCS5B01G118900 chr5D 97.674 86 2 0 2646 2731 45490889 45490974 1.380000e-31 148.0
6 TraesCS5B01G118900 chr5A 96.723 3448 86 19 2730 6152 216690719 216694164 0.000000e+00 5716.0
7 TraesCS5B01G118900 chr5A 95.179 1120 28 9 637 1739 216688562 216689672 0.000000e+00 1746.0
8 TraesCS5B01G118900 chr5A 96.522 920 29 3 1730 2647 216689802 216690720 0.000000e+00 1519.0
9 TraesCS5B01G118900 chr5A 87.654 324 39 1 1 323 216687749 216688072 5.820000e-100 375.0
10 TraesCS5B01G118900 chr2B 96.123 2992 99 8 2723 5711 539962567 539965544 0.000000e+00 4867.0
11 TraesCS5B01G118900 chr2B 97.229 397 8 3 2252 2647 539962180 539962574 0.000000e+00 669.0
12 TraesCS5B01G118900 chr7D 97.646 1912 38 1 3800 5711 311618775 311620679 0.000000e+00 3275.0
13 TraesCS5B01G118900 chr7D 96.607 1061 22 6 2723 3776 311617726 311618779 0.000000e+00 1748.0
14 TraesCS5B01G118900 chr7D 97.733 397 6 3 2252 2647 311617339 311617733 0.000000e+00 680.0
15 TraesCS5B01G118900 chr7D 92.208 77 5 1 550 625 234073676 234073752 2.350000e-19 108.0
16 TraesCS5B01G118900 chr3B 97.067 1909 56 0 3803 5711 371039939 371038031 0.000000e+00 3216.0
17 TraesCS5B01G118900 chr3B 96.961 1053 29 2 2730 3780 371040985 371039934 0.000000e+00 1764.0
18 TraesCS5B01G118900 chr3B 97.229 397 8 3 2252 2647 371041378 371040984 0.000000e+00 669.0
19 TraesCS5B01G118900 chr3B 97.814 366 8 0 3012 3377 363589381 363589016 3.130000e-177 632.0
20 TraesCS5B01G118900 chr3B 96.498 257 8 1 3523 3779 363589022 363588767 2.050000e-114 424.0
21 TraesCS5B01G118900 chr3B 100.000 59 0 0 3088 3146 279755754 279755812 6.520000e-20 110.0
22 TraesCS5B01G118900 chr3A 97.616 1678 39 1 4034 5711 361576865 361575189 0.000000e+00 2876.0
23 TraesCS5B01G118900 chr6A 97.141 1679 46 2 4034 5711 197861226 197859549 0.000000e+00 2833.0
24 TraesCS5B01G118900 chr6A 92.208 77 5 1 551 626 91911616 91911540 2.350000e-19 108.0
25 TraesCS5B01G118900 chr4B 96.912 1684 46 4 4029 5711 175308786 175307108 0.000000e+00 2817.0
26 TraesCS5B01G118900 chr4B 97.048 1389 41 0 4323 5711 149993379 149994767 0.000000e+00 2338.0
27 TraesCS5B01G118900 chr4B 96.640 1131 36 2 4575 5704 609105459 609104330 0.000000e+00 1877.0
28 TraesCS5B01G118900 chr4B 96.667 990 32 1 4029 5017 531340095 531341084 0.000000e+00 1644.0
29 TraesCS5B01G118900 chr4B 96.610 649 17 4 2723 3368 175310341 175309695 0.000000e+00 1072.0
30 TraesCS5B01G118900 chr4B 95.840 649 21 4 2723 3368 531338541 531339186 0.000000e+00 1044.0
31 TraesCS5B01G118900 chr4B 96.497 628 19 3 5084 5711 531341082 531341706 0.000000e+00 1035.0
32 TraesCS5B01G118900 chr4B 97.552 531 13 0 4941 5471 338503956 338503426 0.000000e+00 909.0
33 TraesCS5B01G118900 chr4B 97.229 397 7 4 2252 2647 531338155 531338548 0.000000e+00 669.0
34 TraesCS5B01G118900 chr4B 95.970 397 13 3 2252 2647 175310728 175310334 5.200000e-180 641.0
35 TraesCS5B01G118900 chr4B 89.447 199 7 1 5513 5711 338503422 338503238 7.970000e-59 239.0
36 TraesCS5B01G118900 chr4B 93.939 99 6 0 2636 2734 40170079 40169981 3.840000e-32 150.0
37 TraesCS5B01G118900 chr4B 98.305 59 1 0 3088 3146 338504008 338503950 3.030000e-18 104.0
38 TraesCS5B01G118900 chr4B 95.161 62 1 2 2252 2313 609107551 609107492 5.080000e-16 97.1
39 TraesCS5B01G118900 chr4D 97.856 1586 34 0 4126 5711 366045591 366047176 0.000000e+00 2741.0
40 TraesCS5B01G118900 chr4D 85.926 135 19 0 4211 4345 66514952 66515086 1.790000e-30 145.0
41 TraesCS5B01G118900 chr4D 92.208 77 6 0 550 626 478990756 478990680 6.520000e-20 110.0
42 TraesCS5B01G118900 chr4D 100.000 55 0 0 4034 4088 366045531 366045585 1.090000e-17 102.0
43 TraesCS5B01G118900 chrUn 95.699 93 4 0 2645 2737 97273185 97273093 3.840000e-32 150.0
44 TraesCS5B01G118900 chrUn 94.624 93 5 0 2645 2737 97193568 97193476 1.790000e-30 145.0
45 TraesCS5B01G118900 chr7A 97.674 86 2 0 2646 2731 8367285 8367200 1.380000e-31 148.0
46 TraesCS5B01G118900 chr7A 92.208 77 5 1 551 626 629047062 629046986 2.350000e-19 108.0
47 TraesCS5B01G118900 chr7B 95.556 90 4 0 2645 2734 713437619 713437708 1.790000e-30 145.0
48 TraesCS5B01G118900 chr7B 93.684 95 6 0 2637 2731 451446976 451446882 6.430000e-30 143.0
49 TraesCS5B01G118900 chr7B 91.139 79 5 1 550 626 566634966 566635044 8.440000e-19 106.0
50 TraesCS5B01G118900 chr6D 92.929 99 5 2 2646 2742 119342009 119342107 6.430000e-30 143.0
51 TraesCS5B01G118900 chr6B 91.176 102 8 1 2631 2731 646944665 646944564 2.990000e-28 137.0
52 TraesCS5B01G118900 chr3D 90.361 83 6 2 550 632 169888213 169888133 2.350000e-19 108.0
53 TraesCS5B01G118900 chr3D 90.789 76 5 2 550 625 169888142 169888215 3.920000e-17 100.0
54 TraesCS5B01G118900 chr1B 90.789 76 7 0 550 625 379374133 379374058 1.090000e-17 102.0


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 TraesCS5B01G118900 chr5B 209631734 209637886 6152 True 11363.000000 11363 100.000000 1 6153 1 chr5B.!!$R1 6152
1 TraesCS5B01G118900 chr5D 199079897 199086427 6530 False 3322.333333 5875 94.710667 1 6152 3 chr5D.!!$F2 6151
2 TraesCS5B01G118900 chr5A 216687749 216694164 6415 False 2339.000000 5716 94.019500 1 6152 4 chr5A.!!$F1 6151
3 TraesCS5B01G118900 chr2B 539962180 539965544 3364 False 2768.000000 4867 96.676000 2252 5711 2 chr2B.!!$F1 3459
4 TraesCS5B01G118900 chr7D 311617339 311620679 3340 False 1901.000000 3275 97.328667 2252 5711 3 chr7D.!!$F2 3459
5 TraesCS5B01G118900 chr3B 371038031 371041378 3347 True 1883.000000 3216 97.085667 2252 5711 3 chr3B.!!$R2 3459
6 TraesCS5B01G118900 chr3B 363588767 363589381 614 True 528.000000 632 97.156000 3012 3779 2 chr3B.!!$R1 767
7 TraesCS5B01G118900 chr3A 361575189 361576865 1676 True 2876.000000 2876 97.616000 4034 5711 1 chr3A.!!$R1 1677
8 TraesCS5B01G118900 chr6A 197859549 197861226 1677 True 2833.000000 2833 97.141000 4034 5711 1 chr6A.!!$R2 1677
9 TraesCS5B01G118900 chr4B 149993379 149994767 1388 False 2338.000000 2338 97.048000 4323 5711 1 chr4B.!!$F1 1388
10 TraesCS5B01G118900 chr4B 175307108 175310728 3620 True 1510.000000 2817 96.497333 2252 5711 3 chr4B.!!$R2 3459
11 TraesCS5B01G118900 chr4B 531338155 531341706 3551 False 1098.000000 1644 96.558250 2252 5711 4 chr4B.!!$F2 3459
12 TraesCS5B01G118900 chr4B 609104330 609107551 3221 True 987.050000 1877 95.900500 2252 5704 2 chr4B.!!$R4 3452
13 TraesCS5B01G118900 chr4B 338503238 338504008 770 True 417.333333 909 95.101333 3088 5711 3 chr4B.!!$R3 2623
14 TraesCS5B01G118900 chr4D 366045531 366047176 1645 False 1421.500000 2741 98.928000 4034 5711 2 chr4D.!!$F2 1677

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
447 449 0.036010 AAGCTCAAGGATGGACGTGG 60.036 55.0 0.00 0.00 0.00 4.94 F
882 1340 0.256464 ACTACAGGTCTCCTCCTCGG 59.744 60.0 0.00 0.00 35.37 4.63 F
1677 2147 0.462759 GTGAGCTAGGTCATGTGCCC 60.463 60.0 26.20 9.75 0.00 5.36 F
2053 2669 1.814429 TCAGTCCCAGGAACTTCCAA 58.186 50.0 10.57 0.00 39.61 3.53 F
2656 3681 2.025226 TGTTGAGAGATACTCCCTCCGT 60.025 50.0 0.00 0.00 44.34 4.69 F
2657 3682 3.025262 GTTGAGAGATACTCCCTCCGTT 58.975 50.0 0.00 0.00 44.34 4.44 F
4399 6188 1.024579 AGGTATTGTTTCCGCCAGCG 61.025 55.0 4.75 4.75 39.44 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2151 2767 1.881072 CGCATGGCATCCATAGCTCTT 60.881 52.381 0.00 0.0 43.15 2.85 R
2708 3733 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.0 0.00 1.98 R
2709 3734 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.0 0.00 1.73 R
3418 4597 5.841237 CCTCTCCTATTATTTCTGAGGTGGA 59.159 44.000 0.00 0.0 36.00 4.02 R
4207 5792 1.133976 AGCATCATACCAACCTGCTCC 60.134 52.381 0.00 0.0 38.78 4.70 R
4437 6226 6.578944 ACAGTTCAATGCATGCATATTCATT 58.421 32.000 32.36 14.7 35.31 2.57 R
6064 8186 0.033601 TTGACCCAACCACTGCAACT 60.034 50.000 0.00 0.0 0.00 3.16 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
43 44 2.584835 AGCACAACTTATGGAAGGCA 57.415 45.000 0.00 0.00 36.95 4.75
82 84 2.044555 TGTAGAGCGTGGAGTCCGG 61.045 63.158 4.30 0.00 0.00 5.14
94 96 0.098200 GAGTCCGGCCGTTAAATTGC 59.902 55.000 26.12 4.48 0.00 3.56
113 115 8.648557 AAATTGCTTTGTCTTTTCTTCCTTAC 57.351 30.769 0.00 0.00 0.00 2.34
172 174 0.106868 TATTCCTCCTCCTGACGCGA 60.107 55.000 15.93 0.00 0.00 5.87
219 221 0.683179 GTATCGGGCTTTTTGGGGCT 60.683 55.000 0.00 0.00 0.00 5.19
221 223 2.155197 ATCGGGCTTTTTGGGGCTCT 62.155 55.000 0.00 0.00 0.00 4.09
231 233 0.689080 TTGGGGCTCTGTTTTGGCAA 60.689 50.000 0.00 0.00 0.00 4.52
286 288 2.047274 CGACAACGACCTGGCCAT 60.047 61.111 5.51 0.00 42.66 4.40
331 333 2.095567 GCGACAACTGAGATGTGCATTT 60.096 45.455 0.00 0.00 0.00 2.32
334 336 4.083643 CGACAACTGAGATGTGCATTTTCT 60.084 41.667 0.00 0.00 0.00 2.52
338 340 3.057033 ACTGAGATGTGCATTTTCTTGGC 60.057 43.478 0.00 0.00 0.00 4.52
362 364 6.094061 CGAGAAAAGAACGAAGATAAGAGGT 58.906 40.000 0.00 0.00 0.00 3.85
434 436 3.393970 CCGGCTGAGGGAAGCTCA 61.394 66.667 0.00 0.00 43.06 4.26
435 437 2.665000 CGGCTGAGGGAAGCTCAA 59.335 61.111 0.00 0.00 43.06 3.02
447 449 0.036010 AAGCTCAAGGATGGACGTGG 60.036 55.000 0.00 0.00 0.00 4.94
449 451 1.899437 GCTCAAGGATGGACGTGGGA 61.899 60.000 0.00 0.00 0.00 4.37
487 489 3.691609 GCTGTTTGTTATGGAAGGAGAGG 59.308 47.826 0.00 0.00 0.00 3.69
509 799 1.425066 AGAGGGAAGATGTGTTTGCCA 59.575 47.619 0.00 0.00 38.38 4.92
529 819 5.415701 TGCCACTTCTTGAATTTGATCTACC 59.584 40.000 0.00 0.00 0.00 3.18
533 823 7.010552 CCACTTCTTGAATTTGATCTACCGTAG 59.989 40.741 0.00 0.00 0.00 3.51
629 1085 9.710818 ATATTTCTTTACAGAGGGAGTACTACA 57.289 33.333 7.57 0.00 0.00 2.74
630 1086 8.611051 ATTTCTTTACAGAGGGAGTACTACAT 57.389 34.615 7.57 0.00 0.00 2.29
631 1087 9.710818 ATTTCTTTACAGAGGGAGTACTACATA 57.289 33.333 7.57 0.00 0.00 2.29
632 1088 8.517062 TTCTTTACAGAGGGAGTACTACATAC 57.483 38.462 7.57 0.00 0.00 2.39
634 1090 8.996655 TCTTTACAGAGGGAGTACTACATACTA 58.003 37.037 7.57 0.00 44.64 1.82
635 1091 8.970859 TTTACAGAGGGAGTACTACATACTAC 57.029 38.462 7.57 0.00 44.64 2.73
742 1200 7.781548 TTTAAGATCTGTTTAATAGCCGGAC 57.218 36.000 5.05 0.00 0.00 4.79
773 1231 2.223456 TGCCACAAACAATCAAGACACG 60.223 45.455 0.00 0.00 0.00 4.49
881 1339 1.384525 CACTACAGGTCTCCTCCTCG 58.615 60.000 0.00 0.00 35.37 4.63
882 1340 0.256464 ACTACAGGTCTCCTCCTCGG 59.744 60.000 0.00 0.00 35.37 4.63
883 1341 1.076923 TACAGGTCTCCTCCTCGGC 60.077 63.158 0.00 0.00 35.37 5.54
884 1342 1.572689 TACAGGTCTCCTCCTCGGCT 61.573 60.000 0.00 0.00 35.37 5.52
885 1343 2.124693 CAGGTCTCCTCCTCGGCTC 61.125 68.421 0.00 0.00 35.37 4.70
886 1344 2.835895 GGTCTCCTCCTCGGCTCC 60.836 72.222 0.00 0.00 0.00 4.70
887 1345 2.277404 GTCTCCTCCTCGGCTCCT 59.723 66.667 0.00 0.00 0.00 3.69
888 1346 1.826487 GTCTCCTCCTCGGCTCCTC 60.826 68.421 0.00 0.00 0.00 3.71
1402 1867 3.311322 TCTTTGTTCTTGCAGTTACCGTG 59.689 43.478 0.00 0.00 0.00 4.94
1459 1924 1.726853 CCTGCTTCTTCGGTTCGATT 58.273 50.000 0.00 0.00 35.23 3.34
1461 1926 1.661112 CTGCTTCTTCGGTTCGATTCC 59.339 52.381 0.00 0.00 35.23 3.01
1465 1933 3.440228 CTTCTTCGGTTCGATTCCTCTC 58.560 50.000 5.78 0.00 35.23 3.20
1487 1955 3.820467 CCTTCAGGTTTCACAATGCACTA 59.180 43.478 0.00 0.00 0.00 2.74
1551 2020 6.865205 CCTTTTGGTGCTTTTCTCTGATTTAG 59.135 38.462 0.00 0.00 34.07 1.85
1592 2061 3.534554 ACATTATTGCATCGTGAGCTGA 58.465 40.909 0.00 0.00 0.00 4.26
1594 2063 4.024302 ACATTATTGCATCGTGAGCTGATG 60.024 41.667 7.91 7.91 44.77 3.07
1664 2134 1.423794 TTTTCCCCTTCCCGTGAGCT 61.424 55.000 0.00 0.00 0.00 4.09
1677 2147 0.462759 GTGAGCTAGGTCATGTGCCC 60.463 60.000 26.20 9.75 0.00 5.36
1732 2207 5.360999 TGATCTTGGATGTACTCCTGTGTAG 59.639 44.000 11.21 0.00 45.21 2.74
1734 2209 5.084519 TCTTGGATGTACTCCTGTGTAGTT 58.915 41.667 11.21 0.00 45.21 2.24
1751 2365 8.982091 TGTGTAGTTCTAGTATATCTCTGCTT 57.018 34.615 0.00 0.00 0.00 3.91
1753 2367 9.887406 GTGTAGTTCTAGTATATCTCTGCTTTC 57.113 37.037 0.00 0.00 0.00 2.62
1810 2424 4.096984 TCCTTAACTCCTTACGATTCCGAC 59.903 45.833 0.00 0.00 39.50 4.79
1889 2503 7.570324 GCTGTTCAGTTCAGAGTTAAATCAGTC 60.570 40.741 5.62 0.00 35.20 3.51
1890 2504 7.500992 TGTTCAGTTCAGAGTTAAATCAGTCT 58.499 34.615 5.62 0.00 0.00 3.24
1891 2505 8.638873 TGTTCAGTTCAGAGTTAAATCAGTCTA 58.361 33.333 5.62 0.00 0.00 2.59
1892 2506 9.134734 GTTCAGTTCAGAGTTAAATCAGTCTAG 57.865 37.037 5.62 0.00 0.00 2.43
1893 2507 8.410673 TCAGTTCAGAGTTAAATCAGTCTAGT 57.589 34.615 5.62 0.00 0.00 2.57
1894 2508 9.516546 TCAGTTCAGAGTTAAATCAGTCTAGTA 57.483 33.333 5.62 0.00 0.00 1.82
1922 2536 7.389053 AGCTCCAAAATACTCTGAACTTAACAG 59.611 37.037 0.00 0.00 36.80 3.16
1938 2552 7.897575 ACTTAACAGCTCAGAGTTAAATCAG 57.102 36.000 5.62 0.00 39.06 2.90
1943 2557 7.416964 ACAGCTCAGAGTTAAATCAGTCTAT 57.583 36.000 5.62 0.00 0.00 1.98
1944 2558 7.264221 ACAGCTCAGAGTTAAATCAGTCTATG 58.736 38.462 5.62 0.00 0.00 2.23
2041 2657 5.183331 GGAACCAACTTCTTAAATCAGTCCC 59.817 44.000 0.00 0.00 0.00 4.46
2043 2659 5.316987 ACCAACTTCTTAAATCAGTCCCAG 58.683 41.667 0.00 0.00 0.00 4.45
2053 2669 1.814429 TCAGTCCCAGGAACTTCCAA 58.186 50.000 10.57 0.00 39.61 3.53
2073 2689 8.642935 TTCCAACATATTCACTTTTGTCCATA 57.357 30.769 0.00 0.00 0.00 2.74
2151 2767 6.169800 TGACATCACGTTATCCAAATTCTGA 58.830 36.000 0.00 0.00 0.00 3.27
2543 3508 2.224113 ACTTTGTGCTGGAAAGGCATTG 60.224 45.455 0.00 0.00 41.86 2.82
2645 3670 5.453621 GCCATCAGATCTTCTGTTGAGAGAT 60.454 44.000 14.27 0.00 43.41 2.75
2646 3671 6.239261 GCCATCAGATCTTCTGTTGAGAGATA 60.239 42.308 14.27 0.00 43.41 1.98
2647 3672 7.147312 CCATCAGATCTTCTGTTGAGAGATAC 58.853 42.308 14.27 0.00 43.41 2.24
2648 3673 7.014518 CCATCAGATCTTCTGTTGAGAGATACT 59.985 40.741 14.27 0.00 43.41 2.12
2649 3674 7.566760 TCAGATCTTCTGTTGAGAGATACTC 57.433 40.000 0.00 0.00 44.58 2.59
2650 3675 6.545666 TCAGATCTTCTGTTGAGAGATACTCC 59.454 42.308 0.00 0.00 44.58 3.85
2651 3676 5.833131 AGATCTTCTGTTGAGAGATACTCCC 59.167 44.000 0.00 0.00 44.34 4.30
2652 3677 5.199982 TCTTCTGTTGAGAGATACTCCCT 57.800 43.478 0.00 0.00 44.34 4.20
2653 3678 5.197451 TCTTCTGTTGAGAGATACTCCCTC 58.803 45.833 0.00 0.00 44.34 4.30
2655 3680 2.621055 CTGTTGAGAGATACTCCCTCCG 59.379 54.545 0.00 0.00 44.34 4.63
2656 3681 2.025226 TGTTGAGAGATACTCCCTCCGT 60.025 50.000 0.00 0.00 44.34 4.69
2657 3682 3.025262 GTTGAGAGATACTCCCTCCGTT 58.975 50.000 0.00 0.00 44.34 4.44
2658 3683 3.383698 TGAGAGATACTCCCTCCGTTT 57.616 47.619 0.00 0.00 44.34 3.60
2659 3684 3.288964 TGAGAGATACTCCCTCCGTTTC 58.711 50.000 0.00 0.00 44.34 2.78
2660 3685 3.288964 GAGAGATACTCCCTCCGTTTCA 58.711 50.000 0.00 0.00 39.53 2.69
2661 3686 3.700038 GAGAGATACTCCCTCCGTTTCAA 59.300 47.826 0.00 0.00 39.53 2.69
2662 3687 4.094476 AGAGATACTCCCTCCGTTTCAAA 58.906 43.478 0.00 0.00 0.00 2.69
2663 3688 4.530946 AGAGATACTCCCTCCGTTTCAAAA 59.469 41.667 0.00 0.00 0.00 2.44
2664 3689 5.189934 AGAGATACTCCCTCCGTTTCAAAAT 59.810 40.000 0.00 0.00 0.00 1.82
2665 3690 6.383147 AGAGATACTCCCTCCGTTTCAAAATA 59.617 38.462 0.00 0.00 0.00 1.40
2666 3691 6.583562 AGATACTCCCTCCGTTTCAAAATAG 58.416 40.000 0.00 0.00 0.00 1.73
2667 3692 4.903045 ACTCCCTCCGTTTCAAAATAGA 57.097 40.909 0.00 0.00 0.00 1.98
2668 3693 5.437191 ACTCCCTCCGTTTCAAAATAGAT 57.563 39.130 0.00 0.00 0.00 1.98
2669 3694 5.186198 ACTCCCTCCGTTTCAAAATAGATG 58.814 41.667 0.00 0.00 0.00 2.90
2670 3695 5.045869 ACTCCCTCCGTTTCAAAATAGATGA 60.046 40.000 0.00 0.00 0.00 2.92
2671 3696 5.183228 TCCCTCCGTTTCAAAATAGATGAC 58.817 41.667 0.00 0.00 0.00 3.06
2672 3697 4.335594 CCCTCCGTTTCAAAATAGATGACC 59.664 45.833 0.00 0.00 0.00 4.02
2673 3698 4.335594 CCTCCGTTTCAAAATAGATGACCC 59.664 45.833 0.00 0.00 0.00 4.46
2674 3699 4.912586 TCCGTTTCAAAATAGATGACCCA 58.087 39.130 0.00 0.00 0.00 4.51
2675 3700 5.317808 TCCGTTTCAAAATAGATGACCCAA 58.682 37.500 0.00 0.00 0.00 4.12
2676 3701 5.182380 TCCGTTTCAAAATAGATGACCCAAC 59.818 40.000 0.00 0.00 0.00 3.77
2677 3702 5.183140 CCGTTTCAAAATAGATGACCCAACT 59.817 40.000 0.00 0.00 0.00 3.16
2678 3703 6.294508 CCGTTTCAAAATAGATGACCCAACTT 60.295 38.462 0.00 0.00 0.00 2.66
2679 3704 7.145323 CGTTTCAAAATAGATGACCCAACTTT 58.855 34.615 0.00 0.00 0.00 2.66
2680 3705 7.114811 CGTTTCAAAATAGATGACCCAACTTTG 59.885 37.037 0.00 0.00 0.00 2.77
2681 3706 7.595819 TTCAAAATAGATGACCCAACTTTGT 57.404 32.000 0.00 0.00 0.00 2.83
2682 3707 8.698973 TTCAAAATAGATGACCCAACTTTGTA 57.301 30.769 0.00 0.00 0.00 2.41
2683 3708 8.106247 TCAAAATAGATGACCCAACTTTGTAC 57.894 34.615 0.00 0.00 0.00 2.90
2684 3709 7.942341 TCAAAATAGATGACCCAACTTTGTACT 59.058 33.333 0.00 0.00 0.00 2.73
2685 3710 9.226606 CAAAATAGATGACCCAACTTTGTACTA 57.773 33.333 0.00 0.00 0.00 1.82
2686 3711 9.802039 AAAATAGATGACCCAACTTTGTACTAA 57.198 29.630 0.00 0.00 0.00 2.24
2687 3712 9.802039 AAATAGATGACCCAACTTTGTACTAAA 57.198 29.630 0.00 0.00 0.00 1.85
2688 3713 9.802039 AATAGATGACCCAACTTTGTACTAAAA 57.198 29.630 0.00 0.00 0.00 1.52
2689 3714 9.975218 ATAGATGACCCAACTTTGTACTAAAAT 57.025 29.630 0.00 0.00 0.00 1.82
2690 3715 8.706322 AGATGACCCAACTTTGTACTAAAATT 57.294 30.769 0.00 0.00 0.00 1.82
2691 3716 9.802039 AGATGACCCAACTTTGTACTAAAATTA 57.198 29.630 0.00 0.00 0.00 1.40
2722 3747 8.931385 AAATTGAATCATCTATTTTGGAACGG 57.069 30.769 0.00 0.00 37.61 4.44
2723 3748 7.880160 ATTGAATCATCTATTTTGGAACGGA 57.120 32.000 0.00 0.00 0.00 4.69
2724 3749 6.925610 TGAATCATCTATTTTGGAACGGAG 57.074 37.500 0.00 0.00 0.00 4.63
2725 3750 5.822519 TGAATCATCTATTTTGGAACGGAGG 59.177 40.000 0.00 0.00 0.00 4.30
2726 3751 4.150897 TCATCTATTTTGGAACGGAGGG 57.849 45.455 0.00 0.00 0.00 4.30
2727 3752 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
2728 3753 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
2826 3853 5.861727 TGTAAAGTCCTTAGAACCTTCACC 58.138 41.667 0.00 0.00 0.00 4.02
3418 4597 4.028825 AGTTAGGGTATGGTAAACGCTCT 58.971 43.478 0.00 0.00 40.27 4.09
3577 4756 3.811497 GTGTTTGGTAAACTACGAGGCTT 59.189 43.478 6.07 0.00 41.90 4.35
4399 6188 1.024579 AGGTATTGTTTCCGCCAGCG 61.025 55.000 4.75 4.75 39.44 5.18
4437 6226 6.182627 AGCTGGATATTGTTCTGAATGTCAA 58.817 36.000 0.00 0.00 0.00 3.18
4763 6819 7.915293 AGTATTACAAATCACACCGAATCAA 57.085 32.000 0.00 0.00 0.00 2.57
5334 7393 1.561542 CCCTCTGGCATACCTCAAACT 59.438 52.381 0.00 0.00 36.63 2.66
5398 7457 8.230472 ACAATGAATTCCATAGGATCAGAAAC 57.770 34.615 2.27 0.00 34.45 2.78
5471 7531 7.201938 CCACCATATAGCAATCTCCATTTGTTT 60.202 37.037 0.00 0.00 0.00 2.83
5502 7600 8.262227 TGTCTGTAGGTTGTAAAGAGAAAAGAA 58.738 33.333 0.00 0.00 0.00 2.52
5546 7645 0.977395 AGTACAACCTGAGTGCCTCC 59.023 55.000 0.00 0.00 0.00 4.30
5833 7954 2.983592 CGGGCCTGGCGTCTTTTT 60.984 61.111 13.40 0.00 0.00 1.94
5853 7974 5.339008 TTTTGACGTCTAGGCTATGATGT 57.661 39.130 17.92 14.59 35.41 3.06
5937 8058 0.172803 GAGGAACTTTAGGAGCGCGA 59.827 55.000 12.10 0.00 41.55 5.87
5962 8083 1.668151 GTTCTTCGCCAAGGTCGCT 60.668 57.895 0.00 0.00 0.00 4.93
6011 8132 1.353022 TCGGGGTGTATTTGGAGCTTT 59.647 47.619 0.00 0.00 0.00 3.51
6031 8152 0.463620 TTTGCTTCTTTTGGCGGCTT 59.536 45.000 11.43 0.00 0.00 4.35
6064 8186 3.399181 CCTGGGCTTGCGGGTAGA 61.399 66.667 0.00 0.00 0.00 2.59
6103 8225 5.890419 GTCAATGGATTTCTTGATTCCCTCT 59.110 40.000 0.00 0.00 34.18 3.69
6104 8226 5.889853 TCAATGGATTTCTTGATTCCCTCTG 59.110 40.000 0.00 0.00 0.00 3.35
6105 8227 5.722172 ATGGATTTCTTGATTCCCTCTGA 57.278 39.130 0.00 0.00 0.00 3.27
6106 8228 5.108187 TGGATTTCTTGATTCCCTCTGAG 57.892 43.478 0.00 0.00 0.00 3.35
6107 8229 3.882288 GGATTTCTTGATTCCCTCTGAGC 59.118 47.826 0.00 0.00 0.00 4.26
6108 8230 4.385088 GGATTTCTTGATTCCCTCTGAGCT 60.385 45.833 0.00 0.00 0.00 4.09
6109 8231 3.902881 TTCTTGATTCCCTCTGAGCTC 57.097 47.619 6.82 6.82 0.00 4.09
6110 8232 3.113191 TCTTGATTCCCTCTGAGCTCT 57.887 47.619 16.19 0.00 0.00 4.09
6111 8233 2.765135 TCTTGATTCCCTCTGAGCTCTG 59.235 50.000 16.19 15.06 0.00 3.35
6112 8234 0.829333 TGATTCCCTCTGAGCTCTGC 59.171 55.000 16.19 0.43 0.00 4.26
6113 8235 0.829333 GATTCCCTCTGAGCTCTGCA 59.171 55.000 16.19 4.16 0.00 4.41
6152 8274 1.537202 GCTTTGACATTTGCGACCTCT 59.463 47.619 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 4.352893 AGTTGTGCTTAATAAGGGGCATT 58.647 39.130 1.88 0.00 37.05 3.56
43 44 1.131638 ACCTATGCACCGACATGGAT 58.868 50.000 0.00 0.00 42.00 3.41
82 84 5.462068 AGAAAAGACAAAGCAATTTAACGGC 59.538 36.000 0.00 0.00 0.00 5.68
85 87 8.648557 AGGAAGAAAAGACAAAGCAATTTAAC 57.351 30.769 0.00 0.00 0.00 2.01
94 96 6.846325 ACGAGTAAGGAAGAAAAGACAAAG 57.154 37.500 0.00 0.00 0.00 2.77
113 115 3.379057 GGAAGAAGGAAGGACTCTACGAG 59.621 52.174 0.00 0.00 35.52 4.18
172 174 0.179000 GACACCAGAAGGATCGCCAT 59.821 55.000 0.00 0.00 38.69 4.40
179 181 1.127567 CCCCACAGACACCAGAAGGA 61.128 60.000 0.00 0.00 38.69 3.36
219 221 2.045561 TCCTTCGTTGCCAAAACAGA 57.954 45.000 0.00 0.00 0.00 3.41
221 223 2.098443 GTCTTCCTTCGTTGCCAAAACA 59.902 45.455 0.00 0.00 0.00 2.83
231 233 0.537188 ATCGGCATGTCTTCCTTCGT 59.463 50.000 0.00 0.00 0.00 3.85
265 267 1.006571 GCCAGGTCGTTGTCGAGAA 60.007 57.895 0.00 0.00 46.96 2.87
286 288 0.914644 CCAGCTCCTCCCTGATTTCA 59.085 55.000 0.00 0.00 32.03 2.69
316 318 3.057033 GCCAAGAAAATGCACATCTCAGT 60.057 43.478 0.00 0.00 0.00 3.41
331 333 2.828877 TCGTTCTTTTCTCGCCAAGAA 58.171 42.857 0.00 0.00 42.35 2.52
334 336 2.828877 TCTTCGTTCTTTTCTCGCCAA 58.171 42.857 0.00 0.00 0.00 4.52
338 340 6.034044 CACCTCTTATCTTCGTTCTTTTCTCG 59.966 42.308 0.00 0.00 0.00 4.04
362 364 4.113815 CCTTCGGCATGCCCCTCA 62.114 66.667 30.79 9.69 0.00 3.86
393 395 1.141234 GACATTCGACGAGGTCCCC 59.859 63.158 16.50 0.00 0.00 4.81
394 396 0.179134 CAGACATTCGACGAGGTCCC 60.179 60.000 21.09 5.60 0.00 4.46
434 436 0.328258 CCTTTCCCACGTCCATCCTT 59.672 55.000 0.00 0.00 0.00 3.36
435 437 1.991230 CCTTTCCCACGTCCATCCT 59.009 57.895 0.00 0.00 0.00 3.24
447 449 2.189784 GGTCGCTAGGGCCTTTCC 59.810 66.667 13.45 3.82 34.44 3.13
449 451 4.468689 GCGGTCGCTAGGGCCTTT 62.469 66.667 13.45 0.00 38.26 3.11
468 470 6.295719 TCTACCTCTCCTTCCATAACAAAC 57.704 41.667 0.00 0.00 0.00 2.93
487 489 3.010420 GGCAAACACATCTTCCCTCTAC 58.990 50.000 0.00 0.00 0.00 2.59
509 799 7.837863 TCTACGGTAGATCAAATTCAAGAAGT 58.162 34.615 13.70 0.00 0.00 3.01
631 1087 8.826765 TCAAAAGGAAAATCTATGAGAGGTAGT 58.173 33.333 0.00 0.00 0.00 2.73
632 1088 9.672673 TTCAAAAGGAAAATCTATGAGAGGTAG 57.327 33.333 0.00 0.00 30.98 3.18
634 1090 8.797438 GTTTCAAAAGGAAAATCTATGAGAGGT 58.203 33.333 0.00 0.00 46.53 3.85
635 1091 9.018582 AGTTTCAAAAGGAAAATCTATGAGAGG 57.981 33.333 0.00 0.00 46.53 3.69
721 1179 5.615925 AGTCCGGCTATTAAACAGATCTT 57.384 39.130 0.00 0.00 0.00 2.40
742 1200 3.281341 TGTTTGTGGCATAAGCGAAAG 57.719 42.857 6.36 0.00 43.41 2.62
773 1231 5.283247 CGACTTATTGACTGTTGACGTCTAC 59.717 44.000 21.04 21.04 32.70 2.59
1341 1806 1.977293 GCCATGGAGAGGAGGTGGAC 61.977 65.000 18.40 0.00 31.59 4.02
1459 1924 2.689658 TGTGAAACCTGAAGGAGAGGA 58.310 47.619 2.62 0.00 38.94 3.71
1461 1926 3.190118 GCATTGTGAAACCTGAAGGAGAG 59.810 47.826 2.62 0.00 38.94 3.20
1465 1933 2.624838 AGTGCATTGTGAAACCTGAAGG 59.375 45.455 0.00 0.00 42.17 3.46
1592 2061 3.558931 TCACTCACACACCAAGAACAT 57.441 42.857 0.00 0.00 0.00 2.71
1594 2063 4.601019 CAAATCACTCACACACCAAGAAC 58.399 43.478 0.00 0.00 0.00 3.01
1664 2134 2.998097 GCAGGGGCACATGACCTA 59.002 61.111 3.93 0.00 44.77 3.08
1677 2147 2.611974 GTACACAACGGAAATGCAGG 57.388 50.000 0.00 0.00 0.00 4.85
1732 2207 7.291411 TGGGAAAGCAGAGATATACTAGAAC 57.709 40.000 0.00 0.00 0.00 3.01
1734 2209 7.344612 TGTTTGGGAAAGCAGAGATATACTAGA 59.655 37.037 0.00 0.00 0.00 2.43
1751 2365 4.810345 ACATTACCTTCCTTGTTTGGGAA 58.190 39.130 0.00 0.00 40.14 3.97
1753 2367 4.407365 AGACATTACCTTCCTTGTTTGGG 58.593 43.478 0.00 0.00 0.00 4.12
1790 2404 3.181497 CCGTCGGAATCGTAAGGAGTTAA 60.181 47.826 4.91 0.00 37.69 2.01
1810 2424 6.094881 TGCCCAAAAATCTAGTTAATCTTCCG 59.905 38.462 0.00 0.00 0.00 4.30
1889 2503 9.685828 GTTCAGAGTATTTTGGAGCTATACTAG 57.314 37.037 6.16 3.65 35.74 2.57
1890 2504 9.422681 AGTTCAGAGTATTTTGGAGCTATACTA 57.577 33.333 6.16 0.00 35.74 1.82
1891 2505 8.312669 AGTTCAGAGTATTTTGGAGCTATACT 57.687 34.615 5.91 5.91 37.70 2.12
1892 2506 8.950208 AAGTTCAGAGTATTTTGGAGCTATAC 57.050 34.615 0.00 0.00 0.00 1.47
1894 2508 9.384764 GTTAAGTTCAGAGTATTTTGGAGCTAT 57.615 33.333 0.00 0.00 0.00 2.97
1896 2510 7.224297 TGTTAAGTTCAGAGTATTTTGGAGCT 58.776 34.615 0.00 0.00 0.00 4.09
1922 2536 9.757227 AATACATAGACTGATTTAACTCTGAGC 57.243 33.333 4.19 0.02 0.00 4.26
1938 2552 7.715249 TGGAGTATTTTGGAGCAATACATAGAC 59.285 37.037 6.63 0.00 38.91 2.59
1943 2557 6.061022 TCTGGAGTATTTTGGAGCAATACA 57.939 37.500 6.63 0.00 38.91 2.29
1944 2558 6.116126 ACTCTGGAGTATTTTGGAGCAATAC 58.884 40.000 0.95 0.00 40.43 1.89
2041 2657 6.824305 AAGTGAATATGTTGGAAGTTCCTG 57.176 37.500 22.41 0.00 37.46 3.86
2043 2659 7.433680 ACAAAAGTGAATATGTTGGAAGTTCC 58.566 34.615 15.50 15.50 36.96 3.62
2053 2669 8.109634 AGGTTCTATGGACAAAAGTGAATATGT 58.890 33.333 0.00 0.00 0.00 2.29
2073 2689 9.771534 GATTATTGATAAGAGCAGTTAGGTTCT 57.228 33.333 0.00 0.00 0.00 3.01
2114 2730 3.424829 CGTGATGTCATTAACTGCACCAC 60.425 47.826 0.00 0.00 32.50 4.16
2151 2767 1.881072 CGCATGGCATCCATAGCTCTT 60.881 52.381 0.00 0.00 43.15 2.85
2543 3508 9.909644 CACCTATGTATGTACAAAGATAGTACC 57.090 37.037 0.00 0.00 40.79 3.34
2645 3670 6.155565 TCATCTATTTTGAAACGGAGGGAGTA 59.844 38.462 0.00 0.00 0.00 2.59
2646 3671 4.903045 TCTATTTTGAAACGGAGGGAGT 57.097 40.909 0.00 0.00 0.00 3.85
2647 3672 5.294552 GTCATCTATTTTGAAACGGAGGGAG 59.705 44.000 0.00 0.00 0.00 4.30
2648 3673 5.183228 GTCATCTATTTTGAAACGGAGGGA 58.817 41.667 0.00 0.00 0.00 4.20
2649 3674 4.335594 GGTCATCTATTTTGAAACGGAGGG 59.664 45.833 0.00 0.00 0.00 4.30
2650 3675 4.335594 GGGTCATCTATTTTGAAACGGAGG 59.664 45.833 0.00 0.00 0.00 4.30
2651 3676 4.941263 TGGGTCATCTATTTTGAAACGGAG 59.059 41.667 0.00 0.00 0.00 4.63
2652 3677 4.912586 TGGGTCATCTATTTTGAAACGGA 58.087 39.130 0.00 0.00 0.00 4.69
2653 3678 5.183140 AGTTGGGTCATCTATTTTGAAACGG 59.817 40.000 0.00 0.00 0.00 4.44
2655 3680 7.926018 ACAAAGTTGGGTCATCTATTTTGAAAC 59.074 33.333 0.00 0.00 0.00 2.78
2656 3681 8.017418 ACAAAGTTGGGTCATCTATTTTGAAA 57.983 30.769 0.00 0.00 0.00 2.69
2657 3682 7.595819 ACAAAGTTGGGTCATCTATTTTGAA 57.404 32.000 0.00 0.00 0.00 2.69
2658 3683 7.942341 AGTACAAAGTTGGGTCATCTATTTTGA 59.058 33.333 0.00 0.00 0.00 2.69
2659 3684 8.110860 AGTACAAAGTTGGGTCATCTATTTTG 57.889 34.615 0.00 0.00 0.00 2.44
2660 3685 9.802039 TTAGTACAAAGTTGGGTCATCTATTTT 57.198 29.630 0.00 0.00 0.00 1.82
2661 3686 9.802039 TTTAGTACAAAGTTGGGTCATCTATTT 57.198 29.630 0.00 0.00 0.00 1.40
2662 3687 9.802039 TTTTAGTACAAAGTTGGGTCATCTATT 57.198 29.630 0.00 0.00 0.00 1.73
2663 3688 9.975218 ATTTTAGTACAAAGTTGGGTCATCTAT 57.025 29.630 0.00 0.00 0.00 1.98
2664 3689 9.802039 AATTTTAGTACAAAGTTGGGTCATCTA 57.198 29.630 0.00 0.00 0.00 1.98
2665 3690 8.706322 AATTTTAGTACAAAGTTGGGTCATCT 57.294 30.769 0.00 0.00 0.00 2.90
2696 3721 9.369904 CCGTTCCAAAATAGATGATTCAATTTT 57.630 29.630 0.00 0.00 33.07 1.82
2697 3722 8.748412 TCCGTTCCAAAATAGATGATTCAATTT 58.252 29.630 0.00 0.00 0.00 1.82
2698 3723 8.292444 TCCGTTCCAAAATAGATGATTCAATT 57.708 30.769 0.00 0.00 0.00 2.32
2699 3724 7.013655 CCTCCGTTCCAAAATAGATGATTCAAT 59.986 37.037 0.00 0.00 0.00 2.57
2700 3725 6.318648 CCTCCGTTCCAAAATAGATGATTCAA 59.681 38.462 0.00 0.00 0.00 2.69
2701 3726 5.822519 CCTCCGTTCCAAAATAGATGATTCA 59.177 40.000 0.00 0.00 0.00 2.57
2702 3727 5.239525 CCCTCCGTTCCAAAATAGATGATTC 59.760 44.000 0.00 0.00 0.00 2.52
2703 3728 5.104109 TCCCTCCGTTCCAAAATAGATGATT 60.104 40.000 0.00 0.00 0.00 2.57
2704 3729 4.412199 TCCCTCCGTTCCAAAATAGATGAT 59.588 41.667 0.00 0.00 0.00 2.45
2705 3730 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
2706 3731 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
2707 3732 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
2708 3733 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
2709 3734 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
2710 3735 7.383156 AATATACTCCCTCCGTTCCAAAATA 57.617 36.000 0.00 0.00 0.00 1.40
2711 3736 5.906772 ATATACTCCCTCCGTTCCAAAAT 57.093 39.130 0.00 0.00 0.00 1.82
2712 3737 5.703730 AATATACTCCCTCCGTTCCAAAA 57.296 39.130 0.00 0.00 0.00 2.44
2713 3738 5.427481 AGAAATATACTCCCTCCGTTCCAAA 59.573 40.000 0.00 0.00 0.00 3.28
2714 3739 4.966805 AGAAATATACTCCCTCCGTTCCAA 59.033 41.667 0.00 0.00 0.00 3.53
2715 3740 4.553678 AGAAATATACTCCCTCCGTTCCA 58.446 43.478 0.00 0.00 0.00 3.53
2716 3741 5.304871 AGAAGAAATATACTCCCTCCGTTCC 59.695 44.000 0.00 0.00 0.00 3.62
2717 3742 6.040616 TCAGAAGAAATATACTCCCTCCGTTC 59.959 42.308 0.00 0.00 0.00 3.95
2718 3743 5.897824 TCAGAAGAAATATACTCCCTCCGTT 59.102 40.000 0.00 0.00 0.00 4.44
2719 3744 5.302313 GTCAGAAGAAATATACTCCCTCCGT 59.698 44.000 0.00 0.00 0.00 4.69
2720 3745 5.279056 GGTCAGAAGAAATATACTCCCTCCG 60.279 48.000 0.00 0.00 0.00 4.63
2721 3746 5.841783 AGGTCAGAAGAAATATACTCCCTCC 59.158 44.000 0.00 0.00 0.00 4.30
2722 3747 6.551601 TCAGGTCAGAAGAAATATACTCCCTC 59.448 42.308 0.00 0.00 0.00 4.30
2723 3748 6.444704 TCAGGTCAGAAGAAATATACTCCCT 58.555 40.000 0.00 0.00 0.00 4.20
2724 3749 6.551601 TCTCAGGTCAGAAGAAATATACTCCC 59.448 42.308 0.00 0.00 0.00 4.30
2725 3750 7.589958 TCTCAGGTCAGAAGAAATATACTCC 57.410 40.000 0.00 0.00 0.00 3.85
2726 3751 7.014230 AGCTCTCAGGTCAGAAGAAATATACTC 59.986 40.741 0.00 0.00 0.00 2.59
2727 3752 6.838612 AGCTCTCAGGTCAGAAGAAATATACT 59.161 38.462 0.00 0.00 0.00 2.12
2728 3753 7.049799 AGCTCTCAGGTCAGAAGAAATATAC 57.950 40.000 0.00 0.00 0.00 1.47
3173 4210 7.595819 ACAAAACATCAGGAAGAACCAATAA 57.404 32.000 0.00 0.00 42.04 1.40
3418 4597 5.841237 CCTCTCCTATTATTTCTGAGGTGGA 59.159 44.000 0.00 0.00 36.00 4.02
4207 5792 1.133976 AGCATCATACCAACCTGCTCC 60.134 52.381 0.00 0.00 38.78 4.70
4421 6210 9.309516 GCATATTCATTTGACATTCAGAACAAT 57.690 29.630 0.00 0.00 0.00 2.71
4437 6226 6.578944 ACAGTTCAATGCATGCATATTCATT 58.421 32.000 32.36 14.70 35.31 2.57
4763 6819 8.579850 TTCCAGCATATACTCAAAACTGAAAT 57.420 30.769 0.00 0.00 0.00 2.17
4822 6879 3.245586 TGGTGAAGGAATAACAAGGGCAT 60.246 43.478 0.00 0.00 0.00 4.40
5334 7393 7.061566 TGACCATTATATCCAGAATCGAACA 57.938 36.000 0.00 0.00 0.00 3.18
5398 7457 4.197750 CAAAATCCCTCACATCCTCTCAG 58.802 47.826 0.00 0.00 0.00 3.35
5471 7531 6.719829 TCTCTTTACAACCTACAGACAGATCA 59.280 38.462 0.00 0.00 0.00 2.92
5502 7600 6.776116 TCATATCTACAACCCAATCTCGTAGT 59.224 38.462 0.00 0.00 33.03 2.73
5546 7645 6.795399 AGCCCTTGTTTTTCGAATATACATG 58.205 36.000 0.00 6.26 0.00 3.21
5779 7881 6.607735 AATGTCAAAATCAAGGCACAAAAG 57.392 33.333 0.00 0.00 0.00 2.27
5833 7954 5.768164 TCATACATCATAGCCTAGACGTCAA 59.232 40.000 19.50 0.00 0.00 3.18
5853 7974 2.625617 GGGGGTCCCAGCAAAAATCATA 60.626 50.000 10.98 0.00 44.65 2.15
5937 8058 1.543429 CCTTGGCGAAGAACAAGAGGT 60.543 52.381 10.40 0.00 43.39 3.85
5962 8083 1.731709 CGAAAACCGTGATCATCAGCA 59.268 47.619 0.00 0.00 0.00 4.41
6011 8132 0.463620 AGCCGCCAAAAGAAGCAAAA 59.536 45.000 0.00 0.00 0.00 2.44
6064 8186 0.033601 TTGACCCAACCACTGCAACT 60.034 50.000 0.00 0.00 0.00 3.16
6103 8225 0.822811 CCTAGCTTCTGCAGAGCTCA 59.177 55.000 30.97 20.58 42.74 4.26
6104 8226 0.104671 CCCTAGCTTCTGCAGAGCTC 59.895 60.000 30.97 19.01 42.74 4.09
6105 8227 1.970352 GCCCTAGCTTCTGCAGAGCT 61.970 60.000 30.30 30.30 42.74 4.09
6106 8228 1.523484 GCCCTAGCTTCTGCAGAGC 60.523 63.158 22.79 22.79 42.74 4.09
6107 8229 1.227205 CGCCCTAGCTTCTGCAGAG 60.227 63.158 17.43 12.15 42.74 3.35
6108 8230 2.725312 CCGCCCTAGCTTCTGCAGA 61.725 63.158 13.74 13.74 42.74 4.26
6109 8231 2.202987 CCGCCCTAGCTTCTGCAG 60.203 66.667 7.63 7.63 42.74 4.41
6110 8232 4.473520 GCCGCCCTAGCTTCTGCA 62.474 66.667 0.00 0.00 42.74 4.41
6111 8233 4.168291 AGCCGCCCTAGCTTCTGC 62.168 66.667 0.00 0.00 37.24 4.26


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

AutoCloner maintained by Alex Coulton.