Multiple sequence alignment - TraesCS2B01G557600

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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 TraesCS2B01G557600 chr2B 100.000 3061 0 0 1 3061 752397073 752394013 0.000000e+00 5653.0
1 TraesCS2B01G557600 chr2B 84.086 465 40 17 1 455 799894351 799894791 4.720000e-113 418.0
2 TraesCS2B01G557600 chr2B 86.260 393 39 14 2679 3061 665920021 665920408 2.200000e-111 412.0
3 TraesCS2B01G557600 chr2B 87.097 372 36 10 2697 3061 53536891 53536525 7.900000e-111 411.0
4 TraesCS2B01G557600 chr2D 94.042 2551 123 23 1 2546 616925190 616922664 0.000000e+00 3842.0
5 TraesCS2B01G557600 chr2D 84.475 438 50 15 1 423 519921023 519921457 1.700000e-112 416.0
6 TraesCS2B01G557600 chr2A 88.468 1821 144 31 755 2546 746917247 746915464 0.000000e+00 2139.0
7 TraesCS2B01G557600 chr1B 97.290 369 8 2 2695 3061 37123444 37123076 2.590000e-175 625.0
8 TraesCS2B01G557600 chr1B 95.425 153 6 1 2545 2696 238040018 238040170 3.050000e-60 243.0
9 TraesCS2B01G557600 chr6B 96.533 375 13 0 2687 3061 13758734 13759108 3.350000e-174 621.0
10 TraesCS2B01G557600 chr6B 95.455 154 6 1 2544 2696 191444476 191444323 8.480000e-61 244.0
11 TraesCS2B01G557600 chr6B 94.444 36 1 1 693 728 30966656 30966622 2.000000e-03 54.7
12 TraesCS2B01G557600 chrUn 97.268 366 8 2 2696 3061 212704960 212705323 1.210000e-173 619.0
13 TraesCS2B01G557600 chrUn 97.268 366 8 2 2696 3061 378412244 378412607 1.210000e-173 619.0
14 TraesCS2B01G557600 chr4B 97.027 370 7 4 2696 3061 635463476 635463845 1.210000e-173 619.0
15 TraesCS2B01G557600 chr4B 92.766 235 12 5 2675 2906 639739806 639740038 4.890000e-88 335.0
16 TraesCS2B01G557600 chr4B 92.766 235 12 5 2675 2906 639742907 639743139 4.890000e-88 335.0
17 TraesCS2B01G557600 chr4B 95.455 154 6 1 2544 2696 516562741 516562588 8.480000e-61 244.0
18 TraesCS2B01G557600 chr4B 95.425 153 6 1 2545 2696 293870202 293870050 3.050000e-60 243.0
19 TraesCS2B01G557600 chr4B 94.872 156 7 1 2542 2696 406928821 406928976 3.050000e-60 243.0
20 TraesCS2B01G557600 chr4B 89.796 49 4 1 681 729 628260159 628260206 9.160000e-06 62.1
21 TraesCS2B01G557600 chr4B 87.755 49 5 1 681 729 19035610 19035657 4.260000e-04 56.5
22 TraesCS2B01G557600 chr4B 87.755 49 5 1 681 729 628229691 628229738 4.260000e-04 56.5
23 TraesCS2B01G557600 chr4A 97.268 366 8 2 2696 3061 720592257 720592620 1.210000e-173 619.0
24 TraesCS2B01G557600 chr4A 85.000 60 4 5 672 729 690615247 690615303 4.260000e-04 56.5
25 TraesCS2B01G557600 chr3B 96.774 372 9 3 2693 3061 819012674 819013045 4.340000e-173 617.0
26 TraesCS2B01G557600 chr3B 95.475 221 9 1 2687 2906 52035164 52034944 4.860000e-93 351.0
27 TraesCS2B01G557600 chr3B 95.023 221 10 1 2687 2906 51998591 51998371 2.260000e-91 346.0
28 TraesCS2B01G557600 chr3B 94.570 221 11 1 2687 2906 52018752 52018532 1.050000e-89 340.0
29 TraesCS2B01G557600 chr4D 84.439 437 53 11 1 423 130404158 130404593 1.700000e-112 416.0
30 TraesCS2B01G557600 chr4D 83.562 438 54 13 1 423 230934798 230934364 7.960000e-106 394.0
31 TraesCS2B01G557600 chr4D 96.104 154 5 1 2544 2696 509132639 509132792 1.820000e-62 250.0
32 TraesCS2B01G557600 chr1D 84.368 435 54 9 1 423 409661588 409662020 6.110000e-112 414.0
33 TraesCS2B01G557600 chr5D 83.678 435 56 10 1 423 192746392 192746823 2.210000e-106 396.0
34 TraesCS2B01G557600 chr5D 83.333 438 56 13 1 423 230149471 230149906 3.700000e-104 388.0
35 TraesCS2B01G557600 chr5D 82.916 439 56 13 1 423 260505609 260506044 8.010000e-101 377.0
36 TraesCS2B01G557600 chr5D 78.164 403 62 14 1513 1899 482854223 482854615 1.840000e-57 233.0
37 TraesCS2B01G557600 chr5D 71.989 357 77 17 1565 1909 339086276 339085931 1.960000e-12 84.2
38 TraesCS2B01G557600 chr6D 83.599 439 53 12 1 423 120768432 120767997 7.960000e-106 394.0
39 TraesCS2B01G557600 chr6D 82.916 439 56 14 1 423 73429328 73429763 8.010000e-101 377.0
40 TraesCS2B01G557600 chr6D 78.776 523 91 16 1384 1899 62229621 62230130 1.760000e-87 333.0
41 TraesCS2B01G557600 chr6D 90.833 120 9 2 6 124 84687303 84687185 3.160000e-35 159.0
42 TraesCS2B01G557600 chr6D 91.667 72 6 0 3 74 85503193 85503264 1.940000e-17 100.0
43 TraesCS2B01G557600 chr5A 83.524 437 57 12 1 423 334623025 334623460 7.960000e-106 394.0
44 TraesCS2B01G557600 chr5A 84.596 396 42 16 2673 3061 31332850 31332467 2.880000e-100 375.0
45 TraesCS2B01G557600 chr5A 76.774 155 28 6 1507 1660 439773228 439773081 2.530000e-11 80.5
46 TraesCS2B01G557600 chr5A 79.661 118 13 6 1565 1676 439825633 439825521 1.180000e-09 75.0
47 TraesCS2B01G557600 chr3A 84.928 345 36 11 1 331 538226227 538226569 4.890000e-88 335.0
48 TraesCS2B01G557600 chr1A 84.884 344 38 11 1 331 178294936 178294594 4.890000e-88 335.0
49 TraesCS2B01G557600 chr7B 82.262 389 51 14 2678 3061 502966524 502966149 1.370000e-83 320.0
50 TraesCS2B01G557600 chr7B 96.104 154 5 1 2544 2696 28549573 28549420 1.820000e-62 250.0
51 TraesCS2B01G557600 chr7B 95.455 154 6 1 2544 2696 518193841 518193688 8.480000e-61 244.0
52 TraesCS2B01G557600 chr7B 94.340 159 6 3 2540 2696 739375121 739375278 1.100000e-59 241.0
53 TraesCS2B01G557600 chr7A 84.058 345 39 13 1 331 155625937 155626279 4.930000e-83 318.0
54 TraesCS2B01G557600 chr7A 91.489 47 1 3 694 738 611490882 611490837 9.160000e-06 62.1
55 TraesCS2B01G557600 chr6A 84.012 344 41 10 1 331 165840377 165840035 4.930000e-83 318.0
56 TraesCS2B01G557600 chr6A 77.437 554 108 12 1352 1899 79404548 79405090 6.370000e-82 315.0
57 TraesCS2B01G557600 chr7D 83.389 301 39 10 2682 2976 468289244 468288949 5.030000e-68 268.0
58 TraesCS2B01G557600 chr5B 81.545 233 30 7 1669 1899 592792208 592792429 2.420000e-41 180.0
59 TraesCS2B01G557600 chr5B 79.348 92 16 1 1554 1645 397965964 397965876 9.160000e-06 62.1


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 TraesCS2B01G557600 chr2B 752394013 752397073 3060 True 5653 5653 100.000 1 3061 1 chr2B.!!$R2 3060
1 TraesCS2B01G557600 chr2D 616922664 616925190 2526 True 3842 3842 94.042 1 2546 1 chr2D.!!$R1 2545
2 TraesCS2B01G557600 chr2A 746915464 746917247 1783 True 2139 2139 88.468 755 2546 1 chr2A.!!$R1 1791
3 TraesCS2B01G557600 chr4B 639739806 639743139 3333 False 335 335 92.766 2675 2906 2 chr4B.!!$F6 231
4 TraesCS2B01G557600 chr6D 62229621 62230130 509 False 333 333 78.776 1384 1899 1 chr6D.!!$F1 515
5 TraesCS2B01G557600 chr6A 79404548 79405090 542 False 315 315 77.437 1352 1899 1 chr6A.!!$F1 547

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
51 52 0.031857 TCGTGTTGGGCATGCTTTTG 59.968 50.0 18.92 1.72 34.19 2.44 F
98 99 0.179179 GTTGGCTCAAAGCTCATCGC 60.179 55.0 0.00 0.00 41.99 4.58 F
1287 1299 0.173481 CCATCGCCTCTTCGTCTTCA 59.827 55.0 0.00 0.00 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1281 1293 0.807496 GCTGCCCAGAACATGAAGAC 59.193 55.000 0.00 0.0 0.00 3.01 R
1610 1632 1.203313 AGTCCTTGAAGGGGCAGTAGA 60.203 52.381 11.99 0.0 35.59 2.59 R
2478 2522 0.187117 TTTGTGGAGCCAACCCATGA 59.813 50.000 0.00 0.0 35.91 3.07 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
51 52 0.031857 TCGTGTTGGGCATGCTTTTG 59.968 50.000 18.92 1.72 34.19 2.44
66 67 3.503363 TGCTTTTGAGGAACTACATGCTG 59.497 43.478 0.00 0.00 41.55 4.41
98 99 0.179179 GTTGGCTCAAAGCTCATCGC 60.179 55.000 0.00 0.00 41.99 4.58
196 198 4.100498 GGAAACATGGGCATTTCTGATGAT 59.900 41.667 0.00 0.00 35.55 2.45
198 200 4.665833 ACATGGGCATTTCTGATGATTG 57.334 40.909 0.00 0.00 0.00 2.67
239 241 8.017418 TGTCCTATTTGTTTGGTTCAAAGAAT 57.983 30.769 4.27 5.81 36.70 2.40
240 242 7.925483 TGTCCTATTTGTTTGGTTCAAAGAATG 59.075 33.333 4.27 0.28 36.70 2.67
258 260 5.368145 AGAATGCATATTAGTTGGCTTCGA 58.632 37.500 0.00 0.00 0.00 3.71
308 310 6.151648 ACTTGATGATGTGAACCTTGTAATGG 59.848 38.462 0.00 0.00 37.14 3.16
595 597 5.573219 AGGATGAAAAACACATGATCTGGA 58.427 37.500 0.00 0.00 0.00 3.86
623 625 3.273434 ACATGATGGGATCAACACGAAG 58.727 45.455 0.00 0.00 43.50 3.79
640 642 3.823873 ACGAAGATATGGCCAACAACAAA 59.176 39.130 10.96 0.00 0.00 2.83
653 655 5.173131 GCCAACAACAAAATCACTTAAGACG 59.827 40.000 10.09 0.00 0.00 4.18
665 667 4.081862 TCACTTAAGACGGGACCATAGTTG 60.082 45.833 10.09 0.00 0.00 3.16
676 678 4.399303 GGGACCATAGTTGAACATGGAAAG 59.601 45.833 23.87 6.86 43.80 2.62
687 689 9.436957 AGTTGAACATGGAAAGTAGTACATTAG 57.563 33.333 2.52 0.00 0.00 1.73
724 726 6.766997 TTTTATATTATGGGACGGAGGGAA 57.233 37.500 0.00 0.00 0.00 3.97
764 767 7.861629 AGGAAAACAGACATATACTCCATTGA 58.138 34.615 0.00 0.00 0.00 2.57
809 812 3.508840 GAAGGCGCGTGGGGAATG 61.509 66.667 8.43 0.00 0.00 2.67
816 819 2.774799 GCGTGGGGAATGGCATGAC 61.775 63.158 0.00 0.00 0.00 3.06
821 829 1.000233 GGGAATGGCATGACCCACA 60.000 57.895 27.35 0.00 41.72 4.17
860 868 0.521735 GCGCCCTTCGAAATTCTTGT 59.478 50.000 0.00 0.00 41.67 3.16
886 894 1.909986 TCACCGGATACCAATCACCAA 59.090 47.619 9.46 0.00 33.41 3.67
887 895 2.093181 TCACCGGATACCAATCACCAAG 60.093 50.000 9.46 0.00 33.41 3.61
945 954 5.160607 TGCTGTAGTGGCTACTTAAACAT 57.839 39.130 8.46 0.00 37.78 2.71
954 963 4.276183 TGGCTACTTAAACATTGCGACAAA 59.724 37.500 0.00 0.00 0.00 2.83
955 964 4.851558 GGCTACTTAAACATTGCGACAAAG 59.148 41.667 0.00 0.00 0.00 2.77
985 994 2.283529 GGCGACCTCCTCACCTTCA 61.284 63.158 0.00 0.00 0.00 3.02
1119 1128 1.971481 TCCCGATATCCGACGAGAAA 58.029 50.000 0.00 0.00 41.76 2.52
1167 1176 2.224281 GGTGATCATGTCCTCCGCAATA 60.224 50.000 0.00 0.00 0.00 1.90
1270 1282 3.695606 GTGAGTGCTCCTCCGCCA 61.696 66.667 0.00 0.00 39.65 5.69
1281 1293 4.207281 TCCGCCATCGCCTCTTCG 62.207 66.667 0.00 0.00 0.00 3.79
1287 1299 0.173481 CCATCGCCTCTTCGTCTTCA 59.827 55.000 0.00 0.00 0.00 3.02
1290 1302 0.888619 TCGCCTCTTCGTCTTCATGT 59.111 50.000 0.00 0.00 0.00 3.21
1316 1328 4.925861 GCCCGGCTCCTCTGCATC 62.926 72.222 0.71 0.00 34.04 3.91
1317 1329 3.160047 CCCGGCTCCTCTGCATCT 61.160 66.667 0.00 0.00 34.04 2.90
1318 1330 2.108566 CCGGCTCCTCTGCATCTG 59.891 66.667 0.00 0.00 34.04 2.90
1319 1331 2.588314 CGGCTCCTCTGCATCTGC 60.588 66.667 0.00 0.00 42.50 4.26
1320 1332 2.588314 GGCTCCTCTGCATCTGCG 60.588 66.667 0.00 0.00 45.83 5.18
1610 1632 4.537433 GCTCGGCGCCAAGAGGAT 62.537 66.667 28.98 0.00 36.89 3.24
1827 1852 1.206831 GACGGCAAAGCGGAAGAAC 59.793 57.895 3.52 0.00 33.14 3.01
1914 1942 5.563592 TGCAGGTATGATGCTAGCATTTAT 58.436 37.500 30.08 26.09 44.17 1.40
1919 1947 9.875691 CAGGTATGATGCTAGCATTTATACTTA 57.124 33.333 34.96 22.92 37.18 2.24
1980 2008 7.954835 AGATTTCTGATGGTTGTTTCATTTCA 58.045 30.769 0.00 0.00 0.00 2.69
2078 2119 2.234661 GTGATAGGATGATCGATGGGCA 59.765 50.000 0.54 0.00 0.00 5.36
2131 2172 4.522789 GGAGGCTAAAGTTGTTTGGAATGA 59.477 41.667 0.00 0.00 0.00 2.57
2170 2211 5.728351 TTCTACGGACTTCAAACTGTTTG 57.272 39.130 23.72 23.72 41.96 2.93
2184 2226 7.038659 TCAAACTGTTTGGTGTGGATTTTAAG 58.961 34.615 27.52 2.34 40.98 1.85
2191 2233 5.637006 TGGTGTGGATTTTAAGTATGCAC 57.363 39.130 13.71 13.71 42.54 4.57
2238 2280 7.771183 TCTTTAGTGTTATTGGATGAATTGGC 58.229 34.615 0.00 0.00 0.00 4.52
2307 2349 6.938030 ACCCGAAGTTGTACTAAAAATCATGA 59.062 34.615 0.00 0.00 0.00 3.07
2330 2372 3.311486 CCGTTTGGGCATTTGTATTGT 57.689 42.857 0.00 0.00 0.00 2.71
2380 2422 4.318974 GCACTATTTACGTTTCACACCGTT 60.319 41.667 0.00 0.00 38.43 4.44
2442 2485 1.119684 AACTCCAAAAGGTTGTGGGC 58.880 50.000 0.00 0.00 35.46 5.36
2460 2504 4.080526 GTGGGCTTTTTCTACCTATGGAGA 60.081 45.833 0.00 0.00 0.00 3.71
2478 2522 2.566279 GAGACTTTCCCTTAACCGTCCT 59.434 50.000 0.00 0.00 0.00 3.85
2498 2542 1.047002 CATGGGTTGGCTCCACAAAA 58.953 50.000 0.00 0.00 37.08 2.44
2546 2590 1.024579 ACACCGCGCATCCCTTTAAG 61.025 55.000 8.75 0.00 0.00 1.85
2547 2591 0.742990 CACCGCGCATCCCTTTAAGA 60.743 55.000 8.75 0.00 0.00 2.10
2548 2592 0.462047 ACCGCGCATCCCTTTAAGAG 60.462 55.000 8.75 0.00 0.00 2.85
2549 2593 1.643832 CGCGCATCCCTTTAAGAGC 59.356 57.895 8.75 0.00 0.00 4.09
2550 2594 1.089481 CGCGCATCCCTTTAAGAGCA 61.089 55.000 8.75 0.00 0.00 4.26
2551 2595 1.312815 GCGCATCCCTTTAAGAGCAT 58.687 50.000 0.30 0.00 0.00 3.79
2552 2596 1.002033 GCGCATCCCTTTAAGAGCATG 60.002 52.381 0.30 0.00 0.00 4.06
2553 2597 1.605710 CGCATCCCTTTAAGAGCATGG 59.394 52.381 0.00 0.00 0.00 3.66
2554 2598 2.659428 GCATCCCTTTAAGAGCATGGT 58.341 47.619 0.00 0.00 0.00 3.55
2555 2599 3.026694 GCATCCCTTTAAGAGCATGGTT 58.973 45.455 0.00 0.00 0.00 3.67
2556 2600 4.207165 GCATCCCTTTAAGAGCATGGTTA 58.793 43.478 0.00 0.00 0.00 2.85
2557 2601 4.644685 GCATCCCTTTAAGAGCATGGTTAA 59.355 41.667 0.00 0.00 0.00 2.01
2558 2602 5.302823 GCATCCCTTTAAGAGCATGGTTAAT 59.697 40.000 0.00 0.00 0.00 1.40
2559 2603 6.490040 GCATCCCTTTAAGAGCATGGTTAATA 59.510 38.462 0.00 0.00 0.00 0.98
2560 2604 7.308830 GCATCCCTTTAAGAGCATGGTTAATAG 60.309 40.741 0.00 0.00 0.00 1.73
2561 2605 7.208064 TCCCTTTAAGAGCATGGTTAATAGT 57.792 36.000 0.00 0.00 0.00 2.12
2562 2606 8.326765 TCCCTTTAAGAGCATGGTTAATAGTA 57.673 34.615 0.00 0.00 0.00 1.82
2563 2607 8.945193 TCCCTTTAAGAGCATGGTTAATAGTAT 58.055 33.333 0.00 0.00 0.00 2.12
2567 2611 9.720769 TTTAAGAGCATGGTTAATAGTATAGCC 57.279 33.333 0.00 0.00 0.00 3.93
2568 2612 6.935240 AGAGCATGGTTAATAGTATAGCCA 57.065 37.500 0.00 3.65 39.96 4.75
2569 2613 6.940739 AGAGCATGGTTAATAGTATAGCCAG 58.059 40.000 0.00 2.11 39.18 4.85
2570 2614 5.491982 AGCATGGTTAATAGTATAGCCAGC 58.508 41.667 0.00 8.73 39.18 4.85
2571 2615 5.249393 AGCATGGTTAATAGTATAGCCAGCT 59.751 40.000 0.00 0.00 39.18 4.24
2572 2616 5.352569 GCATGGTTAATAGTATAGCCAGCTG 59.647 44.000 6.78 6.78 39.18 4.24
2573 2617 4.894784 TGGTTAATAGTATAGCCAGCTGC 58.105 43.478 8.66 3.91 41.71 5.25
2589 2633 3.820777 GCTGCTGCTATAAGCCAATAC 57.179 47.619 8.53 0.00 41.51 1.89
2590 2634 2.485814 GCTGCTGCTATAAGCCAATACC 59.514 50.000 8.53 0.00 41.51 2.73
2591 2635 3.743521 CTGCTGCTATAAGCCAATACCA 58.256 45.455 0.00 0.00 41.51 3.25
2592 2636 4.330250 CTGCTGCTATAAGCCAATACCAT 58.670 43.478 0.00 0.00 41.51 3.55
2593 2637 4.074259 TGCTGCTATAAGCCAATACCATG 58.926 43.478 0.00 0.00 41.51 3.66
2594 2638 4.074970 GCTGCTATAAGCCAATACCATGT 58.925 43.478 0.00 0.00 41.51 3.21
2595 2639 4.520492 GCTGCTATAAGCCAATACCATGTT 59.480 41.667 0.00 0.00 41.51 2.71
2596 2640 5.705441 GCTGCTATAAGCCAATACCATGTTA 59.295 40.000 0.00 0.00 41.51 2.41
2597 2641 6.375455 GCTGCTATAAGCCAATACCATGTTAT 59.625 38.462 0.00 0.00 41.51 1.89
2598 2642 7.414540 GCTGCTATAAGCCAATACCATGTTATC 60.415 40.741 0.00 0.00 41.51 1.75
2599 2643 7.689299 TGCTATAAGCCAATACCATGTTATCT 58.311 34.615 0.00 0.00 41.51 1.98
2600 2644 8.821817 TGCTATAAGCCAATACCATGTTATCTA 58.178 33.333 0.00 0.00 41.51 1.98
2601 2645 9.099454 GCTATAAGCCAATACCATGTTATCTAC 57.901 37.037 0.00 0.00 34.48 2.59
2604 2648 5.308825 AGCCAATACCATGTTATCTACAGC 58.691 41.667 0.00 0.00 40.83 4.40
2605 2649 4.455877 GCCAATACCATGTTATCTACAGCC 59.544 45.833 0.00 0.00 40.83 4.85
2606 2650 5.003804 CCAATACCATGTTATCTACAGCCC 58.996 45.833 0.00 0.00 40.83 5.19
2607 2651 5.456042 CCAATACCATGTTATCTACAGCCCA 60.456 44.000 0.00 0.00 40.83 5.36
2608 2652 6.240894 CAATACCATGTTATCTACAGCCCAT 58.759 40.000 0.00 0.00 40.83 4.00
2609 2653 4.357918 ACCATGTTATCTACAGCCCATC 57.642 45.455 0.00 0.00 40.83 3.51
2610 2654 3.976654 ACCATGTTATCTACAGCCCATCT 59.023 43.478 0.00 0.00 40.83 2.90
2611 2655 4.413520 ACCATGTTATCTACAGCCCATCTT 59.586 41.667 0.00 0.00 40.83 2.40
2612 2656 5.606749 ACCATGTTATCTACAGCCCATCTTA 59.393 40.000 0.00 0.00 40.83 2.10
2613 2657 6.273260 ACCATGTTATCTACAGCCCATCTTAT 59.727 38.462 0.00 0.00 40.83 1.73
2614 2658 7.457852 ACCATGTTATCTACAGCCCATCTTATA 59.542 37.037 0.00 0.00 40.83 0.98
2615 2659 7.984050 CCATGTTATCTACAGCCCATCTTATAG 59.016 40.741 0.00 0.00 40.83 1.31
2616 2660 8.535335 CATGTTATCTACAGCCCATCTTATAGT 58.465 37.037 0.00 0.00 40.83 2.12
2617 2661 8.123639 TGTTATCTACAGCCCATCTTATAGTC 57.876 38.462 0.00 0.00 31.68 2.59
2618 2662 7.728532 TGTTATCTACAGCCCATCTTATAGTCA 59.271 37.037 0.00 0.00 31.68 3.41
2619 2663 8.585881 GTTATCTACAGCCCATCTTATAGTCAA 58.414 37.037 0.00 0.00 0.00 3.18
2620 2664 6.406692 TCTACAGCCCATCTTATAGTCAAC 57.593 41.667 0.00 0.00 0.00 3.18
2621 2665 5.897250 TCTACAGCCCATCTTATAGTCAACA 59.103 40.000 0.00 0.00 0.00 3.33
2622 2666 5.636903 ACAGCCCATCTTATAGTCAACAT 57.363 39.130 0.00 0.00 0.00 2.71
2623 2667 5.371526 ACAGCCCATCTTATAGTCAACATG 58.628 41.667 0.00 0.00 0.00 3.21
2624 2668 5.104360 ACAGCCCATCTTATAGTCAACATGT 60.104 40.000 0.00 0.00 0.00 3.21
2625 2669 6.099701 ACAGCCCATCTTATAGTCAACATGTA 59.900 38.462 0.00 0.00 0.00 2.29
2626 2670 7.164122 CAGCCCATCTTATAGTCAACATGTAT 58.836 38.462 0.00 0.00 0.00 2.29
2627 2671 8.314021 CAGCCCATCTTATAGTCAACATGTATA 58.686 37.037 0.00 0.00 0.00 1.47
2628 2672 8.880244 AGCCCATCTTATAGTCAACATGTATAA 58.120 33.333 0.00 0.00 0.00 0.98
2629 2673 9.672673 GCCCATCTTATAGTCAACATGTATAAT 57.327 33.333 0.00 0.00 0.00 1.28
2680 2724 2.917713 TATGTGGCCCACCTTTCATT 57.082 45.000 12.25 0.00 36.63 2.57
2681 2725 1.560505 ATGTGGCCCACCTTTCATTC 58.439 50.000 12.25 0.00 36.63 2.67
2683 2727 1.177401 GTGGCCCACCTTTCATTCTC 58.823 55.000 1.17 0.00 36.63 2.87
2684 2728 0.776810 TGGCCCACCTTTCATTCTCA 59.223 50.000 0.00 0.00 36.63 3.27
2685 2729 1.177401 GGCCCACCTTTCATTCTCAC 58.823 55.000 0.00 0.00 0.00 3.51
2689 2733 3.305608 GCCCACCTTTCATTCTCACAAAG 60.306 47.826 0.00 0.00 0.00 2.77
2810 2855 2.553466 CCCATTAGTCCCGGTTCAAACA 60.553 50.000 0.00 0.00 0.00 2.83
2822 2867 0.814812 TTCAAACACGAACCGGGACC 60.815 55.000 6.32 0.00 32.98 4.46
2823 2868 1.524165 CAAACACGAACCGGGACCA 60.524 57.895 6.32 0.00 32.98 4.02
2846 2891 4.704833 CCTCCACGTGGCCCTGTG 62.705 72.222 30.25 15.62 35.87 3.66
2876 2922 2.121506 TCAGGGGGCCTTTGGTCT 60.122 61.111 0.84 0.00 0.00 3.85
2906 2952 0.893727 CTCCAACCGGGACCAAAAGG 60.894 60.000 6.32 0.00 42.15 3.11
2907 2953 2.570284 CCAACCGGGACCAAAAGGC 61.570 63.158 6.32 0.00 40.01 4.35
2908 2954 1.830408 CAACCGGGACCAAAAGGCA 60.830 57.895 6.32 0.00 0.00 4.75
2909 2955 1.155155 AACCGGGACCAAAAGGCAT 59.845 52.632 6.32 0.00 0.00 4.40
2910 2956 0.898326 AACCGGGACCAAAAGGCATC 60.898 55.000 6.32 0.00 0.00 3.91
2911 2957 2.052104 CCGGGACCAAAAGGCATCC 61.052 63.158 0.00 0.00 0.00 3.51
2912 2958 1.304052 CGGGACCAAAAGGCATCCA 60.304 57.895 0.00 0.00 32.45 3.41
2913 2959 1.595093 CGGGACCAAAAGGCATCCAC 61.595 60.000 0.00 0.00 32.45 4.02
2914 2960 1.595093 GGGACCAAAAGGCATCCACG 61.595 60.000 0.00 0.00 32.45 4.94
2915 2961 1.212751 GACCAAAAGGCATCCACGC 59.787 57.895 0.00 0.00 0.00 5.34
2916 2962 2.179018 CCAAAAGGCATCCACGCG 59.821 61.111 3.53 3.53 0.00 6.01
2918 2964 1.154225 CAAAAGGCATCCACGCGTC 60.154 57.895 9.86 0.00 0.00 5.19
2919 2965 1.599518 AAAAGGCATCCACGCGTCA 60.600 52.632 9.86 0.00 0.00 4.35
2920 2966 1.577328 AAAAGGCATCCACGCGTCAG 61.577 55.000 9.86 3.57 0.00 3.51
2923 2969 3.197790 GCATCCACGCGTCAGCAT 61.198 61.111 9.86 0.00 45.49 3.79
2924 2970 2.753966 GCATCCACGCGTCAGCATT 61.754 57.895 9.86 0.00 45.49 3.56
2925 2971 1.349627 CATCCACGCGTCAGCATTC 59.650 57.895 9.86 0.00 45.49 2.67
2926 2972 1.815421 ATCCACGCGTCAGCATTCC 60.815 57.895 9.86 0.00 45.49 3.01
2927 2973 2.520465 ATCCACGCGTCAGCATTCCA 62.520 55.000 9.86 0.00 45.49 3.53
2946 2992 3.473923 CAGTGGCTGGGATTTTTGTTT 57.526 42.857 0.00 0.00 0.00 2.83
2947 2993 3.807553 CAGTGGCTGGGATTTTTGTTTT 58.192 40.909 0.00 0.00 0.00 2.43
2948 2994 4.198530 CAGTGGCTGGGATTTTTGTTTTT 58.801 39.130 0.00 0.00 0.00 1.94
2949 2995 4.035441 CAGTGGCTGGGATTTTTGTTTTTG 59.965 41.667 0.00 0.00 0.00 2.44
2950 2996 3.944650 GTGGCTGGGATTTTTGTTTTTGT 59.055 39.130 0.00 0.00 0.00 2.83
2951 2997 4.397730 GTGGCTGGGATTTTTGTTTTTGTT 59.602 37.500 0.00 0.00 0.00 2.83
2952 2998 5.012893 TGGCTGGGATTTTTGTTTTTGTTT 58.987 33.333 0.00 0.00 0.00 2.83
2953 2999 5.478332 TGGCTGGGATTTTTGTTTTTGTTTT 59.522 32.000 0.00 0.00 0.00 2.43
2954 3000 5.804473 GGCTGGGATTTTTGTTTTTGTTTTG 59.196 36.000 0.00 0.00 0.00 2.44
2955 3001 6.349694 GGCTGGGATTTTTGTTTTTGTTTTGA 60.350 34.615 0.00 0.00 0.00 2.69
2956 3002 7.087007 GCTGGGATTTTTGTTTTTGTTTTGAA 58.913 30.769 0.00 0.00 0.00 2.69
2957 3003 7.596621 GCTGGGATTTTTGTTTTTGTTTTGAAA 59.403 29.630 0.00 0.00 0.00 2.69
2958 3004 9.127006 CTGGGATTTTTGTTTTTGTTTTGAAAG 57.873 29.630 0.00 0.00 0.00 2.62
2959 3005 8.850156 TGGGATTTTTGTTTTTGTTTTGAAAGA 58.150 25.926 0.00 0.00 0.00 2.52
2960 3006 9.684448 GGGATTTTTGTTTTTGTTTTGAAAGAA 57.316 25.926 0.00 0.00 0.00 2.52
2963 3009 9.689976 ATTTTTGTTTTTGTTTTGAAAGAAGGG 57.310 25.926 0.00 0.00 0.00 3.95
2964 3010 6.809630 TTGTTTTTGTTTTGAAAGAAGGGG 57.190 33.333 0.00 0.00 0.00 4.79
2965 3011 5.249420 TGTTTTTGTTTTGAAAGAAGGGGG 58.751 37.500 0.00 0.00 0.00 5.40
3006 3052 8.999905 GGGGGTTAATTTAGGTGTTTCATATA 57.000 34.615 0.00 0.00 0.00 0.86
3007 3053 9.596308 GGGGGTTAATTTAGGTGTTTCATATAT 57.404 33.333 0.00 0.00 0.00 0.86
3054 3100 4.953579 AGAGAAGTGTCCTCTCTTATGTCC 59.046 45.833 0.00 0.00 37.55 4.02
3055 3101 3.697045 AGAAGTGTCCTCTCTTATGTCCG 59.303 47.826 0.00 0.00 0.00 4.79
3056 3102 3.088789 AGTGTCCTCTCTTATGTCCGT 57.911 47.619 0.00 0.00 0.00 4.69
3058 3104 1.476891 TGTCCTCTCTTATGTCCGTGC 59.523 52.381 0.00 0.00 0.00 5.34
3059 3105 1.751924 GTCCTCTCTTATGTCCGTGCT 59.248 52.381 0.00 0.00 0.00 4.40
3060 3106 2.166664 GTCCTCTCTTATGTCCGTGCTT 59.833 50.000 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 0.543749 AGCCCAGCATGTAGTTCCTC 59.456 55.000 0.00 0.00 0.00 3.71
66 67 0.322906 AGCCAACTTGCTTCTAGCCC 60.323 55.000 0.00 0.00 41.51 5.19
98 99 1.920325 TGCCACCCTCCTCTCCAAG 60.920 63.158 0.00 0.00 0.00 3.61
196 198 3.130869 GGACAGAATGCATATGCCAACAA 59.869 43.478 24.54 6.17 42.53 2.83
198 200 2.954318 AGGACAGAATGCATATGCCAAC 59.046 45.455 24.54 14.64 42.53 3.77
239 241 4.450976 ACATCGAAGCCAACTAATATGCA 58.549 39.130 0.00 0.00 0.00 3.96
240 242 5.207768 CAACATCGAAGCCAACTAATATGC 58.792 41.667 0.00 0.00 0.00 3.14
258 260 4.528596 AGTTCTACTCACTGCCTACAACAT 59.471 41.667 0.00 0.00 0.00 2.71
308 310 2.097466 CACAACCAGGAACAACTCACAC 59.903 50.000 0.00 0.00 0.00 3.82
430 432 6.481313 ACACTGATGCACTATCATTCATGTAC 59.519 38.462 0.00 0.00 44.48 2.90
546 548 7.009723 TCGCATGTTTTTGTTCCTTTTTAAGTC 59.990 33.333 0.00 0.00 0.00 3.01
553 555 3.383185 TCCTCGCATGTTTTTGTTCCTTT 59.617 39.130 0.00 0.00 0.00 3.11
595 597 5.047802 GTGTTGATCCCATCATGTTGTTCTT 60.048 40.000 3.19 0.00 39.39 2.52
608 610 3.744214 GCCATATCTTCGTGTTGATCCCA 60.744 47.826 0.00 0.00 0.00 4.37
623 625 5.723295 AGTGATTTTGTTGTTGGCCATATC 58.277 37.500 6.09 0.54 0.00 1.63
640 642 4.715297 ACTATGGTCCCGTCTTAAGTGATT 59.285 41.667 1.63 0.00 0.00 2.57
653 655 3.644966 TCCATGTTCAACTATGGTCCC 57.355 47.619 14.84 0.00 43.43 4.46
665 667 8.656849 CACACTAATGTACTACTTTCCATGTTC 58.343 37.037 0.00 0.00 36.72 3.18
701 703 6.766997 TTCCCTCCGTCCCATAATATAAAA 57.233 37.500 0.00 0.00 0.00 1.52
702 704 6.963117 ATTCCCTCCGTCCCATAATATAAA 57.037 37.500 0.00 0.00 0.00 1.40
764 767 6.625532 ATCCAAAGTTTGCCTCCATTTATT 57.374 33.333 10.25 0.00 0.00 1.40
781 784 2.088423 ACGCGCCTTCAATAATCCAAA 58.912 42.857 5.73 0.00 0.00 3.28
809 812 2.496871 TGATTGATTTGTGGGTCATGCC 59.503 45.455 0.00 0.00 0.00 4.40
816 819 2.671914 CGCTGGTTGATTGATTTGTGGG 60.672 50.000 0.00 0.00 0.00 4.61
821 829 2.421424 GCTCTCGCTGGTTGATTGATTT 59.579 45.455 0.00 0.00 0.00 2.17
843 851 2.095212 GGTGACAAGAATTTCGAAGGGC 60.095 50.000 0.00 0.00 0.00 5.19
844 852 3.146066 TGGTGACAAGAATTTCGAAGGG 58.854 45.455 0.00 0.00 37.44 3.95
860 868 1.574263 TTGGTATCCGGTGATGGTGA 58.426 50.000 0.00 0.00 32.18 4.02
886 894 0.250513 GAAGCCAATGGGTCGTCTCT 59.749 55.000 3.76 0.00 36.17 3.10
887 895 1.084370 CGAAGCCAATGGGTCGTCTC 61.084 60.000 3.76 0.00 36.17 3.36
945 954 0.667993 CCTCTTTGGCTTTGTCGCAA 59.332 50.000 0.00 0.00 0.00 4.85
968 977 1.079750 GTGAAGGTGAGGAGGTCGC 60.080 63.158 0.00 0.00 34.63 5.19
1082 1091 2.202295 GAAGAGCTCATCGTCCTCAC 57.798 55.000 17.77 0.00 30.91 3.51
1239 1248 2.066262 CACTCACCGTACATGACAACC 58.934 52.381 0.00 0.00 0.00 3.77
1270 1282 1.478510 ACATGAAGACGAAGAGGCGAT 59.521 47.619 0.00 0.00 34.83 4.58
1281 1293 0.807496 GCTGCCCAGAACATGAAGAC 59.193 55.000 0.00 0.00 0.00 3.01
1287 1299 4.431131 CCGGGCTGCCCAGAACAT 62.431 66.667 35.22 0.00 45.83 2.71
1303 1315 2.588314 CGCAGATGCAGAGGAGCC 60.588 66.667 5.55 0.00 42.21 4.70
1306 1318 2.895680 GGACGCAGATGCAGAGGA 59.104 61.111 5.55 0.00 42.21 3.71
1610 1632 1.203313 AGTCCTTGAAGGGGCAGTAGA 60.203 52.381 11.99 0.00 35.59 2.59
1815 1840 1.239347 GCTTCCAGTTCTTCCGCTTT 58.761 50.000 0.00 0.00 0.00 3.51
1901 1929 9.396022 ACAAACACTAAGTATAAATGCTAGCAT 57.604 29.630 24.67 24.67 38.46 3.79
1998 2026 1.279271 ACCACACCCATAGCAGAACTC 59.721 52.381 0.00 0.00 0.00 3.01
2102 2143 3.141767 ACAACTTTAGCCTCCCAAGAC 57.858 47.619 0.00 0.00 0.00 3.01
2115 2156 5.652014 TGTGTCTCTCATTCCAAACAACTTT 59.348 36.000 0.00 0.00 0.00 2.66
2131 2172 6.071334 TCCGTAGAAATCAGAAATGTGTCTCT 60.071 38.462 0.00 0.00 0.00 3.10
2170 2211 5.637006 TGTGCATACTTAAAATCCACACC 57.363 39.130 0.00 0.00 0.00 4.16
2184 2226 7.789341 TGTTCAAAACGATAATTGTGCATAC 57.211 32.000 0.00 0.00 0.00 2.39
2224 2266 3.289836 TGTCATCGCCAATTCATCCAAT 58.710 40.909 0.00 0.00 0.00 3.16
2238 2280 1.466866 CCAGCTTGTTGCATGTCATCG 60.467 52.381 0.00 0.00 45.94 3.84
2328 2370 0.254462 TCTGTTGGTTGAGTGCCACA 59.746 50.000 0.00 0.00 35.46 4.17
2330 2372 0.465460 GGTCTGTTGGTTGAGTGCCA 60.465 55.000 0.00 0.00 0.00 4.92
2442 2485 7.851387 GGAAAGTCTCCATAGGTAGAAAAAG 57.149 40.000 0.00 0.00 44.67 2.27
2460 2504 2.332117 TGAGGACGGTTAAGGGAAAGT 58.668 47.619 0.00 0.00 0.00 2.66
2478 2522 0.187117 TTTGTGGAGCCAACCCATGA 59.813 50.000 0.00 0.00 35.91 3.07
2533 2577 1.605710 CCATGCTCTTAAAGGGATGCG 59.394 52.381 0.00 0.00 31.46 4.73
2546 2590 5.582665 GCTGGCTATACTATTAACCATGCTC 59.417 44.000 0.00 0.00 0.00 4.26
2547 2591 5.249393 AGCTGGCTATACTATTAACCATGCT 59.751 40.000 0.00 0.00 31.38 3.79
2548 2592 5.352569 CAGCTGGCTATACTATTAACCATGC 59.647 44.000 5.57 0.00 0.00 4.06
2549 2593 5.352569 GCAGCTGGCTATACTATTAACCATG 59.647 44.000 17.12 0.00 40.25 3.66
2550 2594 5.491982 GCAGCTGGCTATACTATTAACCAT 58.508 41.667 17.12 0.00 40.25 3.55
2551 2595 4.894784 GCAGCTGGCTATACTATTAACCA 58.105 43.478 17.12 0.00 40.25 3.67
2569 2613 2.485814 GGTATTGGCTTATAGCAGCAGC 59.514 50.000 0.00 0.00 44.75 5.25
2570 2614 3.743521 TGGTATTGGCTTATAGCAGCAG 58.256 45.455 0.00 0.00 44.75 4.24
2571 2615 3.855255 TGGTATTGGCTTATAGCAGCA 57.145 42.857 0.00 0.00 44.75 4.41
2572 2616 4.074970 ACATGGTATTGGCTTATAGCAGC 58.925 43.478 14.19 0.00 44.75 5.25
2573 2617 7.826252 AGATAACATGGTATTGGCTTATAGCAG 59.174 37.037 4.39 10.25 44.75 4.24
2574 2618 7.689299 AGATAACATGGTATTGGCTTATAGCA 58.311 34.615 4.39 12.19 44.75 3.49
2575 2619 9.099454 GTAGATAACATGGTATTGGCTTATAGC 57.901 37.037 4.39 0.00 41.46 2.97
2578 2622 7.607991 GCTGTAGATAACATGGTATTGGCTTAT 59.392 37.037 4.39 0.00 37.50 1.73
2579 2623 6.934645 GCTGTAGATAACATGGTATTGGCTTA 59.065 38.462 4.39 0.00 37.50 3.09
2580 2624 5.765182 GCTGTAGATAACATGGTATTGGCTT 59.235 40.000 4.39 0.00 37.50 4.35
2581 2625 5.308825 GCTGTAGATAACATGGTATTGGCT 58.691 41.667 4.39 0.22 37.50 4.75
2582 2626 4.455877 GGCTGTAGATAACATGGTATTGGC 59.544 45.833 4.39 5.48 37.50 4.52
2583 2627 5.003804 GGGCTGTAGATAACATGGTATTGG 58.996 45.833 4.39 0.00 37.50 3.16
2584 2628 5.620206 TGGGCTGTAGATAACATGGTATTG 58.380 41.667 4.39 0.00 37.50 1.90
2585 2629 5.904984 TGGGCTGTAGATAACATGGTATT 57.095 39.130 4.39 0.00 37.50 1.89
2586 2630 5.787494 AGATGGGCTGTAGATAACATGGTAT 59.213 40.000 1.96 1.96 37.50 2.73
2587 2631 5.155161 AGATGGGCTGTAGATAACATGGTA 58.845 41.667 0.00 0.00 37.50 3.25
2588 2632 3.976654 AGATGGGCTGTAGATAACATGGT 59.023 43.478 0.00 0.00 37.50 3.55
2589 2633 4.630644 AGATGGGCTGTAGATAACATGG 57.369 45.455 0.00 0.00 37.50 3.66
2590 2634 8.535335 ACTATAAGATGGGCTGTAGATAACATG 58.465 37.037 0.00 0.00 37.50 3.21
2591 2635 8.671987 ACTATAAGATGGGCTGTAGATAACAT 57.328 34.615 0.00 0.00 37.50 2.71
2592 2636 7.728532 TGACTATAAGATGGGCTGTAGATAACA 59.271 37.037 0.00 0.00 36.42 2.41
2593 2637 8.123639 TGACTATAAGATGGGCTGTAGATAAC 57.876 38.462 0.00 0.00 0.00 1.89
2594 2638 8.585881 GTTGACTATAAGATGGGCTGTAGATAA 58.414 37.037 0.00 0.00 0.00 1.75
2595 2639 7.728532 TGTTGACTATAAGATGGGCTGTAGATA 59.271 37.037 0.00 0.00 0.00 1.98
2596 2640 6.554982 TGTTGACTATAAGATGGGCTGTAGAT 59.445 38.462 0.00 0.00 0.00 1.98
2597 2641 5.897250 TGTTGACTATAAGATGGGCTGTAGA 59.103 40.000 0.00 0.00 0.00 2.59
2598 2642 6.161855 TGTTGACTATAAGATGGGCTGTAG 57.838 41.667 0.00 0.00 0.00 2.74
2599 2643 6.099701 ACATGTTGACTATAAGATGGGCTGTA 59.900 38.462 0.00 0.00 36.09 2.74
2600 2644 5.104360 ACATGTTGACTATAAGATGGGCTGT 60.104 40.000 0.00 0.00 36.09 4.40
2601 2645 5.371526 ACATGTTGACTATAAGATGGGCTG 58.628 41.667 0.00 0.00 36.09 4.85
2602 2646 5.636903 ACATGTTGACTATAAGATGGGCT 57.363 39.130 0.00 0.00 36.09 5.19
2603 2647 9.672673 ATTATACATGTTGACTATAAGATGGGC 57.327 33.333 2.30 0.00 36.09 5.36
2654 2698 5.544176 TGAAAGGTGGGCCACATAATAAAAA 59.456 36.000 35.69 10.35 35.86 1.94
2655 2699 5.087323 TGAAAGGTGGGCCACATAATAAAA 58.913 37.500 35.69 11.39 35.86 1.52
2656 2700 4.678256 TGAAAGGTGGGCCACATAATAAA 58.322 39.130 35.69 13.51 35.86 1.40
2657 2701 4.323569 TGAAAGGTGGGCCACATAATAA 57.676 40.909 35.69 13.98 35.86 1.40
2658 2702 4.534647 ATGAAAGGTGGGCCACATAATA 57.465 40.909 35.69 19.38 35.86 0.98
2659 2703 2.917713 TGAAAGGTGGGCCACATAAT 57.082 45.000 35.69 22.42 35.86 1.28
2660 2704 2.917713 ATGAAAGGTGGGCCACATAA 57.082 45.000 35.69 19.62 35.86 1.90
2661 2705 2.311542 AGAATGAAAGGTGGGCCACATA 59.688 45.455 35.69 16.77 35.86 2.29
2662 2706 1.077663 AGAATGAAAGGTGGGCCACAT 59.922 47.619 35.69 28.70 35.86 3.21
2663 2707 0.482446 AGAATGAAAGGTGGGCCACA 59.518 50.000 35.69 17.39 35.86 4.17
2664 2708 1.177401 GAGAATGAAAGGTGGGCCAC 58.823 55.000 28.69 28.69 37.19 5.01
2665 2709 0.776810 TGAGAATGAAAGGTGGGCCA 59.223 50.000 0.00 0.00 37.19 5.36
2666 2710 1.177401 GTGAGAATGAAAGGTGGGCC 58.823 55.000 0.00 0.00 0.00 5.80
2667 2711 1.909700 TGTGAGAATGAAAGGTGGGC 58.090 50.000 0.00 0.00 0.00 5.36
2668 2712 3.891366 ACTTTGTGAGAATGAAAGGTGGG 59.109 43.478 0.00 0.00 0.00 4.61
2669 2713 5.048713 GGTACTTTGTGAGAATGAAAGGTGG 60.049 44.000 0.00 0.00 0.00 4.61
2670 2714 5.765182 AGGTACTTTGTGAGAATGAAAGGTG 59.235 40.000 0.00 0.00 27.25 4.00
2671 2715 5.941788 AGGTACTTTGTGAGAATGAAAGGT 58.058 37.500 0.00 0.00 27.25 3.50
2672 2716 6.934645 TGTAGGTACTTTGTGAGAATGAAAGG 59.065 38.462 0.00 0.00 41.75 3.11
2673 2717 7.657761 AGTGTAGGTACTTTGTGAGAATGAAAG 59.342 37.037 0.00 0.00 41.75 2.62
2680 2724 7.683578 TCTACTAGTGTAGGTACTTTGTGAGA 58.316 38.462 5.39 0.00 44.61 3.27
2681 2725 7.918536 TCTACTAGTGTAGGTACTTTGTGAG 57.081 40.000 5.39 0.00 44.61 3.51
2683 2727 9.754382 TTTTTCTACTAGTGTAGGTACTTTGTG 57.246 33.333 5.39 0.00 44.61 3.33
2684 2728 9.755804 GTTTTTCTACTAGTGTAGGTACTTTGT 57.244 33.333 5.39 0.00 44.61 2.83
2685 2729 9.754382 TGTTTTTCTACTAGTGTAGGTACTTTG 57.246 33.333 5.39 0.00 44.61 2.77
2689 2733 7.890515 AGGTGTTTTTCTACTAGTGTAGGTAC 58.109 38.462 5.39 0.00 44.61 3.34
2714 2759 2.958355 CCCTTACGAACCGGGACTATTA 59.042 50.000 6.32 0.00 40.55 0.98
2716 2761 1.406903 CCCTTACGAACCGGGACTAT 58.593 55.000 6.32 0.00 40.55 2.12
2758 2803 1.753073 AGTAACGACCCATTAGTCCCG 59.247 52.381 0.00 0.00 32.91 5.14
2810 2855 1.302192 CACATTGGTCCCGGTTCGT 60.302 57.895 0.00 0.00 0.00 3.85
2822 2867 3.266964 CCACGTGGAGGCACATTG 58.733 61.111 31.31 0.00 37.39 2.82
2906 2952 2.637715 GAATGCTGACGCGTGGATGC 62.638 60.000 20.70 15.70 39.65 3.91
2907 2953 1.349627 GAATGCTGACGCGTGGATG 59.650 57.895 20.70 4.59 39.65 3.51
2908 2954 1.815421 GGAATGCTGACGCGTGGAT 60.815 57.895 20.70 7.22 39.65 3.41
2909 2955 2.434185 GGAATGCTGACGCGTGGA 60.434 61.111 20.70 4.37 39.65 4.02
2910 2956 2.741985 TGGAATGCTGACGCGTGG 60.742 61.111 20.70 10.85 39.65 4.94
2911 2957 2.029288 ACTGGAATGCTGACGCGTG 61.029 57.895 20.70 3.71 39.65 5.34
2912 2958 2.029288 CACTGGAATGCTGACGCGT 61.029 57.895 13.85 13.85 39.65 6.01
2913 2959 2.743752 CCACTGGAATGCTGACGCG 61.744 63.158 3.53 3.53 39.65 6.01
2914 2960 3.044059 GCCACTGGAATGCTGACGC 62.044 63.158 0.00 0.00 0.00 5.19
2915 2961 1.376424 AGCCACTGGAATGCTGACG 60.376 57.895 0.00 0.00 33.23 4.35
2916 2962 4.730487 AGCCACTGGAATGCTGAC 57.270 55.556 0.00 0.00 33.23 3.51
2926 2972 3.473923 AAACAAAAATCCCAGCCACTG 57.526 42.857 0.00 0.00 0.00 3.66
2927 2973 4.198530 CAAAAACAAAAATCCCAGCCACT 58.801 39.130 0.00 0.00 0.00 4.00
2937 2983 9.689976 CCCTTCTTTCAAAACAAAAACAAAAAT 57.310 25.926 0.00 0.00 0.00 1.82
2938 2984 8.138074 CCCCTTCTTTCAAAACAAAAACAAAAA 58.862 29.630 0.00 0.00 0.00 1.94
2939 2985 7.255625 CCCCCTTCTTTCAAAACAAAAACAAAA 60.256 33.333 0.00 0.00 0.00 2.44
2940 2986 6.207614 CCCCCTTCTTTCAAAACAAAAACAAA 59.792 34.615 0.00 0.00 0.00 2.83
2941 2987 5.707764 CCCCCTTCTTTCAAAACAAAAACAA 59.292 36.000 0.00 0.00 0.00 2.83
2942 2988 5.249420 CCCCCTTCTTTCAAAACAAAAACA 58.751 37.500 0.00 0.00 0.00 2.83
2943 2989 5.811399 CCCCCTTCTTTCAAAACAAAAAC 57.189 39.130 0.00 0.00 0.00 2.43
2965 3011 2.528127 CCCAAAACCCCAACCCCC 60.528 66.667 0.00 0.00 0.00 5.40
2966 3012 2.528127 CCCCAAAACCCCAACCCC 60.528 66.667 0.00 0.00 0.00 4.95
2967 3013 2.528127 CCCCCAAAACCCCAACCC 60.528 66.667 0.00 0.00 0.00 4.11
2994 3040 9.931210 GCTAGTTAACACAATATATGAAACACC 57.069 33.333 8.61 0.00 0.00 4.16


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

AutoCloner maintained by Alex Coulton.