Multiple sequence alignment - TraesCS7D01G331500

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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 TraesCS7D01G331500 chr7D 100.000 4066 0 0 1 4066 422726215 422722150 0.000000e+00 7509.0
1 TraesCS7D01G331500 chr7D 82.325 1273 180 26 721 1975 422868467 422867222 0.000000e+00 1062.0
2 TraesCS7D01G331500 chr7D 83.972 1123 142 23 2044 3140 422860354 422859244 0.000000e+00 1042.0
3 TraesCS7D01G331500 chr7D 81.231 1284 199 28 623 1890 422856440 422855183 0.000000e+00 998.0
4 TraesCS7D01G331500 chr7D 83.184 1118 143 29 2060 3141 422854933 422853825 0.000000e+00 981.0
5 TraesCS7D01G331500 chr7D 97.826 46 0 1 2617 2662 113958690 113958734 1.210000e-10 78.7
6 TraesCS7D01G331500 chr7B 93.765 1251 66 9 2256 3496 439997024 439995776 0.000000e+00 1868.0
7 TraesCS7D01G331500 chr7B 89.877 1215 117 4 773 1981 440001111 439999897 0.000000e+00 1557.0
8 TraesCS7D01G331500 chr7B 81.608 1169 196 17 733 1890 440007829 440006669 0.000000e+00 950.0
9 TraesCS7D01G331500 chr7B 84.142 845 106 16 2275 3095 440005999 440005159 0.000000e+00 793.0
10 TraesCS7D01G331500 chr7B 86.553 528 27 18 3547 4066 439995451 439994960 3.570000e-150 542.0
11 TraesCS7D01G331500 chr7B 81.019 569 79 14 1 542 135031683 135032249 3.760000e-115 425.0
12 TraesCS7D01G331500 chr7B 91.204 216 13 3 2046 2258 439999665 439999453 5.140000e-74 289.0
13 TraesCS7D01G331500 chr7B 87.190 242 18 6 541 777 440001651 440001418 3.120000e-66 263.0
14 TraesCS7D01G331500 chr7A 90.598 1287 113 4 697 1981 510377189 510378469 0.000000e+00 1700.0
15 TraesCS7D01G331500 chr7A 89.701 1204 92 15 2309 3496 510379594 510380781 0.000000e+00 1507.0
16 TraesCS7D01G331500 chr7A 82.564 1170 182 19 733 1890 510157034 510158193 0.000000e+00 1011.0
17 TraesCS7D01G331500 chr7A 83.021 1119 146 27 2060 3141 510158443 510159554 0.000000e+00 974.0
18 TraesCS7D01G331500 chr7A 85.223 582 60 11 1 557 510374462 510375042 3.520000e-160 575.0
19 TraesCS7D01G331500 chr7A 83.305 581 68 9 1 553 613507086 613507665 3.630000e-140 508.0
20 TraesCS7D01G331500 chr7A 85.573 506 42 16 3576 4066 510398985 510399474 6.070000e-138 501.0
21 TraesCS7D01G331500 chr7A 90.066 302 24 2 3767 4066 510466545 510466842 1.770000e-103 387.0
22 TraesCS7D01G331500 chr7A 89.199 287 24 4 2046 2329 510378701 510378983 6.470000e-93 351.0
23 TraesCS7D01G331500 chr7A 90.541 148 4 3 555 699 510376746 510376886 1.930000e-43 187.0
24 TraesCS7D01G331500 chr2B 83.542 559 61 15 1 530 3905020 3904464 1.020000e-135 494.0
25 TraesCS7D01G331500 chr2B 83.393 560 60 16 1 530 4184173 4183617 4.720000e-134 488.0
26 TraesCS7D01G331500 chr5D 82.765 557 65 8 1 530 384780825 384781377 6.150000e-128 468.0
27 TraesCS7D01G331500 chr5D 80.316 569 84 13 1 542 386143300 386143867 4.890000e-109 405.0
28 TraesCS7D01G331500 chr6D 82.042 568 72 12 2 541 103038754 103038189 1.330000e-124 457.0
29 TraesCS7D01G331500 chr6D 80.536 560 80 14 1 543 7252009 7251462 1.760000e-108 403.0
30 TraesCS7D01G331500 chr6D 97.826 46 0 1 2617 2662 426970183 426970139 1.210000e-10 78.7
31 TraesCS7D01G331500 chr6D 97.778 45 1 0 2499 2543 426970230 426970186 1.210000e-10 78.7
32 TraesCS7D01G331500 chr2A 81.944 576 71 15 1 548 25811741 25811171 1.330000e-124 457.0
33 TraesCS7D01G331500 chr3D 83.925 479 63 6 1 465 332234253 332233775 2.880000e-121 446.0
34 TraesCS7D01G331500 chr3D 97.826 46 0 1 2617 2662 450037200 450037156 1.210000e-10 78.7
35 TraesCS7D01G331500 chr3D 97.778 45 1 0 2499 2543 612199495 612199451 1.210000e-10 78.7
36 TraesCS7D01G331500 chr1D 81.162 568 75 17 1 541 104462447 104463009 1.040000e-115 427.0
37 TraesCS7D01G331500 chr1B 80.844 569 79 16 1 542 349568552 349567987 1.750000e-113 420.0
38 TraesCS7D01G331500 chr2D 85.829 374 51 2 1 372 405071960 405071587 2.950000e-106 396.0
39 TraesCS7D01G331500 chr6A 79.856 556 84 11 15 542 124912287 124912842 8.250000e-102 381.0
40 TraesCS7D01G331500 chr4D 77.617 554 83 21 18 544 5931124 5931663 8.540000e-77 298.0
41 TraesCS7D01G331500 chr4D 87.975 158 15 3 376 530 467790936 467790780 2.500000e-42 183.0
42 TraesCS7D01G331500 chr3B 97.826 46 1 0 2499 2544 34670657 34670612 3.370000e-11 80.5


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 TraesCS7D01G331500 chr7D 422722150 422726215 4065 True 7509.000000 7509 100.000000 1 4066 1 chr7D.!!$R1 4065
1 TraesCS7D01G331500 chr7D 422867222 422868467 1245 True 1062.000000 1062 82.325000 721 1975 1 chr7D.!!$R2 1254
2 TraesCS7D01G331500 chr7D 422853825 422860354 6529 True 1007.000000 1042 82.795667 623 3141 3 chr7D.!!$R3 2518
3 TraesCS7D01G331500 chr7B 439994960 440007829 12869 True 894.571429 1868 87.762714 541 4066 7 chr7B.!!$R1 3525
4 TraesCS7D01G331500 chr7B 135031683 135032249 566 False 425.000000 425 81.019000 1 542 1 chr7B.!!$F1 541
5 TraesCS7D01G331500 chr7A 510157034 510159554 2520 False 992.500000 1011 82.792500 733 3141 2 chr7A.!!$F4 2408
6 TraesCS7D01G331500 chr7A 510374462 510380781 6319 False 864.000000 1700 89.052400 1 3496 5 chr7A.!!$F5 3495
7 TraesCS7D01G331500 chr7A 613507086 613507665 579 False 508.000000 508 83.305000 1 553 1 chr7A.!!$F3 552
8 TraesCS7D01G331500 chr2B 3904464 3905020 556 True 494.000000 494 83.542000 1 530 1 chr2B.!!$R1 529
9 TraesCS7D01G331500 chr2B 4183617 4184173 556 True 488.000000 488 83.393000 1 530 1 chr2B.!!$R2 529
10 TraesCS7D01G331500 chr5D 384780825 384781377 552 False 468.000000 468 82.765000 1 530 1 chr5D.!!$F1 529
11 TraesCS7D01G331500 chr5D 386143300 386143867 567 False 405.000000 405 80.316000 1 542 1 chr5D.!!$F2 541
12 TraesCS7D01G331500 chr6D 103038189 103038754 565 True 457.000000 457 82.042000 2 541 1 chr6D.!!$R2 539
13 TraesCS7D01G331500 chr6D 7251462 7252009 547 True 403.000000 403 80.536000 1 543 1 chr6D.!!$R1 542
14 TraesCS7D01G331500 chr2A 25811171 25811741 570 True 457.000000 457 81.944000 1 548 1 chr2A.!!$R1 547
15 TraesCS7D01G331500 chr1D 104462447 104463009 562 False 427.000000 427 81.162000 1 541 1 chr1D.!!$F1 540
16 TraesCS7D01G331500 chr1B 349567987 349568552 565 True 420.000000 420 80.844000 1 542 1 chr1B.!!$R1 541
17 TraesCS7D01G331500 chr6A 124912287 124912842 555 False 381.000000 381 79.856000 15 542 1 chr6A.!!$F1 527
18 TraesCS7D01G331500 chr4D 5931124 5931663 539 False 298.000000 298 77.617000 18 544 1 chr4D.!!$F1 526

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
47 49 1.076777 CTGGGGGCATCGTTTGGAT 60.077 57.895 0.00 0.00 35.09 3.41 F
1619 11916 0.035458 ACTGAAGGCTTTGACCCTCG 59.965 55.000 0.00 0.00 0.00 4.63 F
2567 16135 0.108377 ATAGTTCGTGCGTGCATGGA 60.108 50.000 13.66 0.81 33.99 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1694 11997 0.672401 GCGGAAGGACACCATTCGAA 60.672 55.0 0.0 0.0 0.00 3.71 R
2754 16324 0.035317 TCAAGCTCGCCAGTGATTGT 59.965 50.0 0.0 0.0 38.12 2.71 R
3526 17130 0.657312 ACAACGATGTGTGCAGTGTG 59.343 50.0 0.0 0.0 38.69 3.82 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
47 49 1.076777 CTGGGGGCATCGTTTGGAT 60.077 57.895 0.00 0.00 35.09 3.41
146 148 4.735132 CTGCGGAGGTTCGGCGAA 62.735 66.667 19.83 19.83 44.42 4.70
218 232 3.822192 CATCGACGACAGGCCGGA 61.822 66.667 10.86 0.00 0.00 5.14
259 273 1.522580 GCTCTGAAGATGGACCGGC 60.523 63.158 0.00 0.00 0.00 6.13
352 366 2.165641 CTGGCGCATCCGGTTATAGATA 59.834 50.000 10.83 0.00 36.43 1.98
354 368 3.181479 TGGCGCATCCGGTTATAGATATC 60.181 47.826 10.83 0.00 37.80 1.63
367 381 7.104290 GGTTATAGATATCAGGGTTTAGTGCC 58.896 42.308 5.32 0.00 0.00 5.01
504 547 4.937201 AGTTGTATGCATCGTCCAGATA 57.063 40.909 0.19 0.00 37.52 1.98
506 549 4.342378 AGTTGTATGCATCGTCCAGATACT 59.658 41.667 0.19 0.00 37.52 2.12
512 556 2.287909 GCATCGTCCAGATACTGAGACC 60.288 54.545 0.00 0.00 37.52 3.85
526 571 4.345854 ACTGAGACCGAGGTTTATTCTCT 58.654 43.478 0.00 0.00 0.00 3.10
534 579 7.173390 AGACCGAGGTTTATTCTCTTTTTGAAG 59.827 37.037 0.00 0.00 0.00 3.02
570 2322 4.098894 TGGGACGGAAGGAGTAGTTTTAT 58.901 43.478 0.00 0.00 0.00 1.40
587 2339 7.227049 AGTTTTATTTGACGGGATGATTTGT 57.773 32.000 0.00 0.00 0.00 2.83
621 2373 3.345414 GAGAGAGTAACACTTCTCCGGA 58.655 50.000 2.93 2.93 31.87 5.14
623 2375 3.083293 GAGAGTAACACTTCTCCGGACT 58.917 50.000 0.00 0.00 0.00 3.85
624 2376 3.083293 AGAGTAACACTTCTCCGGACTC 58.917 50.000 0.00 2.63 33.58 3.36
701 3997 5.532406 ACAGTGCTCTCTTTGCAAATAAAGA 59.468 36.000 13.23 14.13 42.63 2.52
705 4001 7.118971 AGTGCTCTCTTTGCAAATAAAGACTAG 59.881 37.037 13.23 5.86 40.66 2.57
706 4002 7.118390 GTGCTCTCTTTGCAAATAAAGACTAGA 59.882 37.037 13.23 1.85 40.66 2.43
708 4004 7.582435 TCTCTTTGCAAATAAAGACTAGACG 57.418 36.000 13.23 0.00 40.66 4.18
710 4006 8.035394 TCTCTTTGCAAATAAAGACTAGACGAT 58.965 33.333 13.23 0.00 40.66 3.73
713 4009 7.899178 TTGCAAATAAAGACTAGACGATTGA 57.101 32.000 0.00 0.00 0.00 2.57
714 4010 7.290857 TGCAAATAAAGACTAGACGATTGAC 57.709 36.000 0.00 0.00 0.00 3.18
755 4354 3.036429 AAGGCTGGGTCGAGGCATC 62.036 63.158 8.96 0.00 40.98 3.91
759 4358 3.002583 TGGGTCGAGGCATCAGCA 61.003 61.111 0.00 0.00 44.61 4.41
795 4394 2.343758 GGGACAGAGTTGAGCGCA 59.656 61.111 11.47 0.00 0.00 6.09
860 4459 3.367607 CCTCGTTGATTCTCTCGACATC 58.632 50.000 0.00 0.00 38.06 3.06
865 4465 4.732923 CGTTGATTCTCTCGACATCTCTTC 59.267 45.833 0.00 0.00 38.06 2.87
872 4473 3.636300 CTCTCGACATCTCTTCCCTGATT 59.364 47.826 0.00 0.00 0.00 2.57
1053 4655 2.354729 CGGGGGCATGGAAGACAA 59.645 61.111 0.00 0.00 0.00 3.18
1337 11634 4.824166 CCACCGACGGCGACTACG 62.824 72.222 15.16 13.26 40.82 3.51
1356 11653 1.227089 CTGAAGATGACTCCGCCGG 60.227 63.158 0.00 0.00 0.00 6.13
1360 11657 4.148825 GATGACTCCGCCGGTGCT 62.149 66.667 10.27 0.00 34.43 4.40
1420 11717 1.869767 GCTGTCAAGGTTGTCACTCAG 59.130 52.381 0.00 0.00 0.00 3.35
1466 11763 2.159338 TCGGTATTCACTTCAGCGTACC 60.159 50.000 0.00 0.00 34.92 3.34
1608 11905 5.904362 ATTTTCTCCAATACACTGAAGGC 57.096 39.130 0.00 0.00 0.00 4.35
1619 11916 0.035458 ACTGAAGGCTTTGACCCTCG 59.965 55.000 0.00 0.00 0.00 4.63
1628 11925 1.938577 CTTTGACCCTCGCTGATGATG 59.061 52.381 0.00 0.00 0.00 3.07
1644 11941 8.337532 CGCTGATGATGTTATGTTCTCATTTAA 58.662 33.333 0.00 0.00 35.70 1.52
1645 11942 9.443283 GCTGATGATGTTATGTTCTCATTTAAC 57.557 33.333 0.00 0.00 35.70 2.01
1652 11949 9.859427 ATGTTATGTTCTCATTTAACAATGGTG 57.141 29.630 0.00 0.00 40.05 4.17
1683 11986 4.579869 TCTATTTCTGCTCCAAACCTCAC 58.420 43.478 0.00 0.00 0.00 3.51
1694 11997 2.370189 CCAAACCTCACTTCTCTGTCCT 59.630 50.000 0.00 0.00 0.00 3.85
1700 12003 3.194542 CCTCACTTCTCTGTCCTTCGAAT 59.805 47.826 0.00 0.00 0.00 3.34
1713 12016 0.672401 TTCGAATGGTGTCCTTCCGC 60.672 55.000 0.00 0.00 0.00 5.54
1781 12084 4.403432 CGTCAGTAGTACTTTTATGGGGGA 59.597 45.833 0.00 0.00 0.00 4.81
1782 12085 5.668471 GTCAGTAGTACTTTTATGGGGGAC 58.332 45.833 0.00 0.00 0.00 4.46
1790 12093 5.472301 ACTTTTATGGGGGACAATCAGAT 57.528 39.130 0.00 0.00 0.00 2.90
1801 12104 4.083643 GGGACAATCAGATATTGTGATGCG 60.084 45.833 8.03 1.64 41.76 4.73
1850 12153 5.482908 GCCTCTCTCATGTTAGAAGTTTGA 58.517 41.667 0.00 0.00 0.00 2.69
1892 12195 3.297134 AGGTGAGCTTCTTGGTTTGAA 57.703 42.857 0.00 0.00 0.00 2.69
1918 12223 4.310769 CCTATCTATGACGCCTCCTTTTG 58.689 47.826 0.00 0.00 0.00 2.44
1938 12243 6.817765 TTTGTTGGTAGATCACATTTCTCC 57.182 37.500 0.00 0.00 0.00 3.71
1981 12290 2.483877 TCTGCGACCTAAGCACATTTTG 59.516 45.455 0.00 0.00 40.01 2.44
1983 12292 2.225491 TGCGACCTAAGCACATTTTGTC 59.775 45.455 0.00 0.00 40.01 3.18
1985 12294 3.667960 GCGACCTAAGCACATTTTGTCTG 60.668 47.826 0.00 0.00 34.19 3.51
1987 12296 4.688879 CGACCTAAGCACATTTTGTCTGTA 59.311 41.667 0.00 0.00 0.00 2.74
1989 12298 6.455646 CGACCTAAGCACATTTTGTCTGTATC 60.456 42.308 0.00 0.00 0.00 2.24
1991 12300 6.595716 ACCTAAGCACATTTTGTCTGTATCTC 59.404 38.462 0.00 0.00 0.00 2.75
1992 12301 6.595326 CCTAAGCACATTTTGTCTGTATCTCA 59.405 38.462 0.00 0.00 0.00 3.27
1994 12303 5.555017 AGCACATTTTGTCTGTATCTCACT 58.445 37.500 0.00 0.00 0.00 3.41
1996 12305 6.148480 AGCACATTTTGTCTGTATCTCACTTC 59.852 38.462 0.00 0.00 0.00 3.01
1998 12307 7.361542 GCACATTTTGTCTGTATCTCACTTCAT 60.362 37.037 0.00 0.00 0.00 2.57
1999 12308 9.154847 CACATTTTGTCTGTATCTCACTTCATA 57.845 33.333 0.00 0.00 0.00 2.15
2000 12309 9.896645 ACATTTTGTCTGTATCTCACTTCATAT 57.103 29.630 0.00 0.00 0.00 1.78
2003 12312 9.534565 TTTTGTCTGTATCTCACTTCATATAGC 57.465 33.333 0.00 0.00 0.00 2.97
2004 12313 8.470657 TTGTCTGTATCTCACTTCATATAGCT 57.529 34.615 0.00 0.00 0.00 3.32
2005 12314 8.470657 TGTCTGTATCTCACTTCATATAGCTT 57.529 34.615 0.00 0.00 0.00 3.74
2006 12315 8.572185 TGTCTGTATCTCACTTCATATAGCTTC 58.428 37.037 0.00 0.00 0.00 3.86
2008 12317 9.306777 TCTGTATCTCACTTCATATAGCTTCAT 57.693 33.333 0.00 0.00 0.00 2.57
2009 12318 9.571810 CTGTATCTCACTTCATATAGCTTCATC 57.428 37.037 0.00 0.00 0.00 2.92
2010 12319 9.082313 TGTATCTCACTTCATATAGCTTCATCA 57.918 33.333 0.00 0.00 0.00 3.07
2011 12320 9.571810 GTATCTCACTTCATATAGCTTCATCAG 57.428 37.037 0.00 0.00 0.00 2.90
2042 12514 7.396540 AACAGATTGGACCAAAATATCTCAC 57.603 36.000 11.82 0.00 0.00 3.51
2072 12564 7.636150 ATGCTCATTCTTAGTGCAATAACTT 57.364 32.000 1.78 0.00 38.72 2.66
2073 12565 7.076842 TGCTCATTCTTAGTGCAATAACTTC 57.923 36.000 1.78 0.00 33.16 3.01
2174 12669 3.318839 CAGATTGGACCAAAGCAACAGAA 59.681 43.478 11.82 0.00 0.00 3.02
2176 12671 3.731652 TTGGACCAAAGCAACAGAATG 57.268 42.857 3.84 0.00 46.00 2.67
2213 12708 5.419788 ACCATGCTGATTTAATCACATGTGT 59.580 36.000 27.62 24.09 41.64 3.72
2419 15986 2.292103 TGGCAAGTTTGTTGAAGCAC 57.708 45.000 0.00 0.00 0.00 4.40
2446 16014 7.486407 AAAAGAAATGGAAGAATAGCATGGT 57.514 32.000 1.62 1.62 0.00 3.55
2496 16064 5.902613 TTATTTGCAGGTGGAGATGAAAG 57.097 39.130 0.00 0.00 0.00 2.62
2501 16069 4.517285 TGCAGGTGGAGATGAAAGATAAC 58.483 43.478 0.00 0.00 0.00 1.89
2523 16091 1.619827 ACAGATGGTGCCCAACATTTG 59.380 47.619 13.40 13.40 43.74 2.32
2567 16135 0.108377 ATAGTTCGTGCGTGCATGGA 60.108 50.000 13.66 0.81 33.99 3.41
2594 16162 7.063593 ACTTCTATGCACTGATAGTCTTCCTA 58.936 38.462 0.00 0.00 0.00 2.94
2612 16180 6.215023 TCTTCCTACAGAACTCACCTAGTCTA 59.785 42.308 0.00 0.00 37.50 2.59
2663 16233 4.792521 ATATGGTCTTCTCCGTAGCATC 57.207 45.455 0.00 0.00 33.23 3.91
2728 16298 3.648009 TGTTCCTTTTTATTTGCCAGCG 58.352 40.909 0.00 0.00 0.00 5.18
2730 16300 3.296322 TCCTTTTTATTTGCCAGCGTG 57.704 42.857 0.00 0.00 0.00 5.34
2731 16301 2.887783 TCCTTTTTATTTGCCAGCGTGA 59.112 40.909 0.00 0.00 0.00 4.35
2740 16310 3.485947 TTGCCAGCGTGAATATCAAAC 57.514 42.857 0.00 0.00 0.00 2.93
2741 16311 1.396648 TGCCAGCGTGAATATCAAACG 59.603 47.619 0.00 0.00 40.22 3.60
2771 16341 1.406069 CCTACAATCACTGGCGAGCTT 60.406 52.381 0.00 0.00 0.00 3.74
2982 16560 7.178097 TGAAATTACATGGAATCACACATTGGA 59.822 33.333 2.92 0.00 0.00 3.53
3189 16786 2.000447 GTGCCATTCTGGTAGAACGTC 59.000 52.381 0.00 0.00 40.46 4.34
3207 16804 3.554259 GTCACACTACATGAGACGTGA 57.446 47.619 0.00 4.22 38.83 4.35
3220 16817 4.350346 TGAGACGTGAAAAATTGCTTGTG 58.650 39.130 0.00 0.00 0.00 3.33
3350 16948 2.540931 GGCTGCACAAAACTTGATGTTG 59.459 45.455 0.50 0.00 39.13 3.33
3353 16951 1.866601 GCACAAAACTTGATGTTGCCC 59.133 47.619 0.00 0.00 39.13 5.36
3392 16993 5.600908 AACAAAAATGCTTCATGTCATGC 57.399 34.783 8.03 0.00 0.00 4.06
3405 17006 4.768448 TCATGTCATGCCAATCTTTGAACT 59.232 37.500 8.03 0.00 0.00 3.01
3444 17045 6.993902 TGCAGCTCAACTTCATATGATATTCA 59.006 34.615 6.17 0.00 0.00 2.57
3475 17079 4.101430 ACACCCTTGAATTGCACTTCATTT 59.899 37.500 18.85 2.95 35.20 2.32
3493 17097 9.975218 ACTTCATTTGTAAACATAGTATTCCCT 57.025 29.630 0.00 0.00 0.00 4.20
3496 17100 9.403583 TCATTTGTAAACATAGTATTCCCTTCC 57.596 33.333 0.00 0.00 0.00 3.46
3497 17101 8.630037 CATTTGTAAACATAGTATTCCCTTCCC 58.370 37.037 0.00 0.00 0.00 3.97
3506 17110 2.736670 ATTCCCTTCCCTTCATTCGG 57.263 50.000 0.00 0.00 0.00 4.30
3513 17117 3.877508 CCTTCCCTTCATTCGGTTACATC 59.122 47.826 0.00 0.00 0.00 3.06
3514 17118 4.384208 CCTTCCCTTCATTCGGTTACATCT 60.384 45.833 0.00 0.00 0.00 2.90
3518 17122 7.792364 TCCCTTCATTCGGTTACATCTATAT 57.208 36.000 0.00 0.00 0.00 0.86
3521 17125 9.534565 CCCTTCATTCGGTTACATCTATATATG 57.465 37.037 0.00 0.00 0.00 1.78
3528 17132 9.797556 TTCGGTTACATCTATATATGTATGCAC 57.202 33.333 10.72 7.18 40.93 4.57
3529 17133 8.962679 TCGGTTACATCTATATATGTATGCACA 58.037 33.333 10.72 0.00 40.93 4.57
3533 17137 9.586435 TTACATCTATATATGTATGCACACTGC 57.414 33.333 10.72 0.00 40.93 4.40
3534 17138 7.614494 ACATCTATATATGTATGCACACTGCA 58.386 34.615 0.00 0.00 43.80 4.41
3535 17139 7.547019 ACATCTATATATGTATGCACACTGCAC 59.453 37.037 0.00 0.00 43.40 4.57
3542 17146 3.333414 GCACACTGCACACATCGT 58.667 55.556 0.00 0.00 44.26 3.73
3543 17147 1.648720 GCACACTGCACACATCGTT 59.351 52.632 0.00 0.00 44.26 3.85
3544 17148 0.658244 GCACACTGCACACATCGTTG 60.658 55.000 0.00 0.00 44.26 4.10
3545 17149 0.657312 CACACTGCACACATCGTTGT 59.343 50.000 0.00 0.00 36.15 3.32
3602 17485 7.804614 TTAATTCATACAAAACGTCAATGGC 57.195 32.000 0.00 0.00 0.00 4.40
3603 17486 5.643379 ATTCATACAAAACGTCAATGGCT 57.357 34.783 0.00 0.00 0.00 4.75
3616 17499 3.191371 GTCAATGGCTCGGATTTTCTGTT 59.809 43.478 0.00 0.00 0.00 3.16
3626 17509 7.545615 GGCTCGGATTTTCTGTTTTTCAAATAT 59.454 33.333 0.00 0.00 0.00 1.28
3679 17562 5.354513 ACGTATACATCATATCCAGTCGAGG 59.645 44.000 3.32 0.00 0.00 4.63
3680 17563 4.727507 ATACATCATATCCAGTCGAGGC 57.272 45.455 0.00 0.00 0.00 4.70
3681 17564 2.319844 ACATCATATCCAGTCGAGGCA 58.680 47.619 0.00 0.00 0.00 4.75
3682 17565 2.036475 ACATCATATCCAGTCGAGGCAC 59.964 50.000 0.00 0.00 0.00 5.01
3685 17568 3.496331 TCATATCCAGTCGAGGCACATA 58.504 45.455 0.00 0.00 0.00 2.29
3687 17570 1.781786 ATCCAGTCGAGGCACATACT 58.218 50.000 0.00 0.00 0.00 2.12
3688 17571 1.557099 TCCAGTCGAGGCACATACTT 58.443 50.000 0.00 0.00 0.00 2.24
3689 17572 2.730382 TCCAGTCGAGGCACATACTTA 58.270 47.619 0.00 0.00 0.00 2.24
3690 17573 3.093814 TCCAGTCGAGGCACATACTTAA 58.906 45.455 0.00 0.00 0.00 1.85
3692 17575 3.130516 CCAGTCGAGGCACATACTTAAGA 59.869 47.826 10.09 0.00 0.00 2.10
3693 17576 4.106197 CAGTCGAGGCACATACTTAAGAC 58.894 47.826 10.09 0.00 0.00 3.01
3694 17577 3.762288 AGTCGAGGCACATACTTAAGACA 59.238 43.478 10.09 0.00 0.00 3.41
3695 17578 4.219944 AGTCGAGGCACATACTTAAGACAA 59.780 41.667 10.09 0.00 0.00 3.18
3696 17579 4.927425 GTCGAGGCACATACTTAAGACAAA 59.073 41.667 10.09 0.00 0.00 2.83
3697 17580 5.581085 GTCGAGGCACATACTTAAGACAAAT 59.419 40.000 10.09 0.00 0.00 2.32
3698 17581 5.580691 TCGAGGCACATACTTAAGACAAATG 59.419 40.000 10.09 9.38 0.00 2.32
3699 17582 5.351465 CGAGGCACATACTTAAGACAAATGT 59.649 40.000 10.09 9.97 0.00 2.71
3700 17583 6.533723 CGAGGCACATACTTAAGACAAATGTA 59.466 38.462 10.09 0.00 0.00 2.29
3701 17584 7.464178 CGAGGCACATACTTAAGACAAATGTAC 60.464 40.741 10.09 7.79 0.00 2.90
3702 17585 7.394816 AGGCACATACTTAAGACAAATGTACT 58.605 34.615 10.09 10.83 0.00 2.73
3703 17586 7.883311 AGGCACATACTTAAGACAAATGTACTT 59.117 33.333 10.09 2.58 0.00 2.24
3704 17587 9.158233 GGCACATACTTAAGACAAATGTACTTA 57.842 33.333 10.09 0.00 0.00 2.24
3705 17588 9.968743 GCACATACTTAAGACAAATGTACTTAC 57.031 33.333 10.09 0.00 0.00 2.34
3707 17590 8.866956 ACATACTTAAGACAAATGTACTTACGC 58.133 33.333 10.09 0.00 0.00 4.42
3708 17591 9.084164 CATACTTAAGACAAATGTACTTACGCT 57.916 33.333 10.09 0.00 0.00 5.07
3709 17592 7.578169 ACTTAAGACAAATGTACTTACGCTC 57.422 36.000 10.09 0.00 0.00 5.03
3712 17595 5.909621 AGACAAATGTACTTACGCTCCTA 57.090 39.130 0.00 0.00 0.00 2.94
3717 17600 6.151648 ACAAATGTACTTACGCTCCTACTACA 59.848 38.462 0.00 0.00 0.00 2.74
3739 17622 9.455847 CTACAAATAAGATGAATGCTTTTAGCC 57.544 33.333 0.00 0.00 41.51 3.93
3740 17623 7.839907 ACAAATAAGATGAATGCTTTTAGCCA 58.160 30.769 0.00 0.00 41.51 4.75
3743 17626 8.752005 AATAAGATGAATGCTTTTAGCCACTA 57.248 30.769 0.00 0.00 41.51 2.74
3745 17628 7.651027 AAGATGAATGCTTTTAGCCACTAAT 57.349 32.000 0.00 0.00 41.51 1.73
3748 17631 8.844244 AGATGAATGCTTTTAGCCACTAATTAG 58.156 33.333 11.05 11.05 41.51 1.73
3751 17634 9.627123 TGAATGCTTTTAGCCACTAATTAGTAT 57.373 29.630 17.62 9.55 41.51 2.12
3798 17686 4.161942 TGCTTTGGGCTATTATTGCAACAT 59.838 37.500 0.00 0.00 42.39 2.71
3799 17687 4.746611 GCTTTGGGCTATTATTGCAACATC 59.253 41.667 0.00 0.00 38.06 3.06
3800 17688 4.566545 TTGGGCTATTATTGCAACATCG 57.433 40.909 0.00 0.00 0.00 3.84
3801 17689 2.884012 TGGGCTATTATTGCAACATCGG 59.116 45.455 0.00 0.00 0.00 4.18
3802 17690 2.351738 GGGCTATTATTGCAACATCGGC 60.352 50.000 0.00 5.67 0.00 5.54
3803 17691 2.351738 GGCTATTATTGCAACATCGGCC 60.352 50.000 15.38 15.38 0.00 6.13
3804 17692 2.665519 GCTATTATTGCAACATCGGCCG 60.666 50.000 22.12 22.12 0.00 6.13
3837 17727 3.749088 TGTGTTATCGTTAAACAGCCTGG 59.251 43.478 0.00 0.00 37.51 4.45
3848 17738 3.177884 AGCCTGGAGCCCACACAA 61.178 61.111 0.00 0.00 45.47 3.33
3866 17756 0.743345 AATTGGCCGCGGTACTTCTC 60.743 55.000 28.70 7.66 0.00 2.87
3956 17846 2.509336 CGTCGGCTTCGGCTCATT 60.509 61.111 0.00 0.00 41.44 2.57
3992 17882 3.044059 GCTGCTTCACGATGTGGCC 62.044 63.158 0.00 0.00 33.87 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 49 1.303236 CCGTCCACCCAGCATTTGA 60.303 57.895 0.00 0.00 0.00 2.69
218 232 1.738099 GCTGACGCATCGACCTTGT 60.738 57.895 0.00 0.00 35.78 3.16
281 295 3.112709 GGTTCGGCGCACTCTCAC 61.113 66.667 10.83 0.00 0.00 3.51
335 349 4.499865 CCCTGATATCTATAACCGGATGCG 60.500 50.000 9.46 0.00 0.00 4.73
352 366 3.245229 TGAACATGGCACTAAACCCTGAT 60.245 43.478 0.00 0.00 0.00 2.90
354 368 2.489329 CTGAACATGGCACTAAACCCTG 59.511 50.000 0.00 0.00 0.00 4.45
367 381 2.815503 TGATGAAGGTGTGCTGAACATG 59.184 45.455 0.00 0.00 41.97 3.21
488 531 4.216472 GTCTCAGTATCTGGACGATGCATA 59.784 45.833 0.00 0.00 37.22 3.14
489 532 3.005261 GTCTCAGTATCTGGACGATGCAT 59.995 47.826 0.00 0.00 37.22 3.96
490 533 2.359214 GTCTCAGTATCTGGACGATGCA 59.641 50.000 0.00 0.00 37.22 3.96
491 534 2.287909 GGTCTCAGTATCTGGACGATGC 60.288 54.545 0.00 0.00 34.70 3.91
504 547 4.345854 AGAGAATAAACCTCGGTCTCAGT 58.654 43.478 0.00 0.00 37.73 3.41
506 549 5.740290 AAAGAGAATAAACCTCGGTCTCA 57.260 39.130 0.00 0.00 37.73 3.27
512 556 7.435068 TCCTTCAAAAAGAGAATAAACCTCG 57.565 36.000 0.00 0.00 35.88 4.63
534 579 6.370442 CCTTCCGTCCCAAAATAAATTTTTCC 59.630 38.462 0.00 0.00 37.86 3.13
552 597 5.636543 CGTCAAATAAAACTACTCCTTCCGT 59.363 40.000 0.00 0.00 0.00 4.69
553 598 5.063060 CCGTCAAATAAAACTACTCCTTCCG 59.937 44.000 0.00 0.00 0.00 4.30
570 2322 7.437748 ACAAAATAACAAATCATCCCGTCAAA 58.562 30.769 0.00 0.00 0.00 2.69
621 2373 1.559965 GGTTTAGGCCTTCCCGGAGT 61.560 60.000 12.58 0.00 39.21 3.85
623 2375 2.662070 CGGTTTAGGCCTTCCCGGA 61.662 63.158 22.86 0.00 39.21 5.14
624 2376 1.616091 TACGGTTTAGGCCTTCCCGG 61.616 60.000 29.60 17.19 42.81 5.73
626 2378 0.907486 ACTACGGTTTAGGCCTTCCC 59.093 55.000 12.58 7.87 0.00 3.97
627 2379 4.876125 GTATACTACGGTTTAGGCCTTCC 58.124 47.826 12.58 11.01 0.00 3.46
715 4011 1.201825 GAACAGCAAGCGTCGTCAC 59.798 57.895 0.00 0.00 0.00 3.67
727 4323 0.610232 ACCCAGCCTTGATGAACAGC 60.610 55.000 0.00 0.00 0.00 4.40
860 4459 6.675987 CAGAGAAACAAAAATCAGGGAAGAG 58.324 40.000 0.00 0.00 0.00 2.85
865 4465 3.004734 ACGCAGAGAAACAAAAATCAGGG 59.995 43.478 0.00 0.00 0.00 4.45
872 4473 2.933906 AGACGAACGCAGAGAAACAAAA 59.066 40.909 0.00 0.00 0.00 2.44
1040 4642 1.674962 GCTGATCTTGTCTTCCATGCC 59.325 52.381 0.00 0.00 0.00 4.40
1072 4674 2.433604 GAGAACATGGATGAGGAGCTCA 59.566 50.000 17.19 0.00 44.99 4.26
1337 11634 1.880340 CGGCGGAGTCATCTTCAGC 60.880 63.158 0.00 0.00 0.00 4.26
1356 11653 1.608283 GGGCGATCCATAGGTTAGCAC 60.608 57.143 0.00 0.00 35.00 4.40
1420 11717 2.366859 GCGAGCTGCAAATATTCGTTC 58.633 47.619 1.02 0.00 45.45 3.95
1493 11790 6.721208 TGCTTAAAGAAACCTTGGATCAGATT 59.279 34.615 0.00 0.00 0.00 2.40
1555 11852 3.063997 CCTGAATGTTGGTGTTCGATAGC 59.936 47.826 0.00 0.00 0.00 2.97
1608 11905 1.938577 CATCATCAGCGAGGGTCAAAG 59.061 52.381 0.00 0.00 0.00 2.77
1619 11916 9.443283 GTTAAATGAGAACATAACATCATCAGC 57.557 33.333 0.00 0.00 35.50 4.26
1628 11925 9.341899 GTCACCATTGTTAAATGAGAACATAAC 57.658 33.333 0.05 0.00 45.17 1.89
1644 11941 0.773644 AGAAGCCTGGTCACCATTGT 59.226 50.000 0.00 0.00 30.82 2.71
1645 11942 2.787473 TAGAAGCCTGGTCACCATTG 57.213 50.000 0.00 0.00 30.82 2.82
1646 11943 4.018050 AGAAATAGAAGCCTGGTCACCATT 60.018 41.667 0.00 0.00 30.82 3.16
1650 11947 2.680339 GCAGAAATAGAAGCCTGGTCAC 59.320 50.000 0.00 0.00 0.00 3.67
1651 11948 2.573462 AGCAGAAATAGAAGCCTGGTCA 59.427 45.455 0.00 0.00 32.66 4.02
1652 11949 3.202097 GAGCAGAAATAGAAGCCTGGTC 58.798 50.000 0.00 0.00 43.69 4.02
1683 11986 3.257393 CACCATTCGAAGGACAGAGAAG 58.743 50.000 12.12 0.00 0.00 2.85
1694 11997 0.672401 GCGGAAGGACACCATTCGAA 60.672 55.000 0.00 0.00 0.00 3.71
1727 12030 9.944663 CTCTAGAGATGTCATGTTCTTTAGTAC 57.055 37.037 15.05 0.00 31.77 2.73
1781 12084 4.707105 TCCGCATCACAATATCTGATTGT 58.293 39.130 0.00 0.00 42.38 2.71
1782 12085 5.391629 CCATCCGCATCACAATATCTGATTG 60.392 44.000 0.00 0.00 35.29 2.67
1790 12093 4.615588 TGATACCATCCGCATCACAATA 57.384 40.909 0.00 0.00 0.00 1.90
1801 12104 4.096984 CCAAGAAACTGCTTGATACCATCC 59.903 45.833 5.74 0.00 46.31 3.51
1850 12153 6.040054 ACCTTTTTAACGCCATAACAGAAGTT 59.960 34.615 0.00 0.00 41.74 2.66
1892 12195 1.269998 GAGGCGTCATAGATAGGCGTT 59.730 52.381 0.52 0.00 0.00 4.84
1918 12223 5.734720 TCTGGAGAAATGTGATCTACCAAC 58.265 41.667 0.00 0.00 0.00 3.77
1965 12274 6.595716 AGATACAGACAAAATGTGCTTAGGTC 59.404 38.462 0.00 0.00 32.02 3.85
1981 12290 8.572185 TGAAGCTATATGAAGTGAGATACAGAC 58.428 37.037 0.00 0.00 0.00 3.51
1983 12292 9.571810 GATGAAGCTATATGAAGTGAGATACAG 57.428 37.037 0.00 0.00 0.00 2.74
1985 12294 9.571810 CTGATGAAGCTATATGAAGTGAGATAC 57.428 37.037 0.00 0.00 0.00 2.24
2003 12312 6.988580 TCCAATCTGTTAGTATGCTGATGAAG 59.011 38.462 0.00 0.00 0.00 3.02
2004 12313 6.763135 GTCCAATCTGTTAGTATGCTGATGAA 59.237 38.462 0.00 0.00 0.00 2.57
2005 12314 6.283694 GTCCAATCTGTTAGTATGCTGATGA 58.716 40.000 0.00 0.00 0.00 2.92
2006 12315 5.468072 GGTCCAATCTGTTAGTATGCTGATG 59.532 44.000 0.00 0.00 0.00 3.07
2008 12317 4.469586 TGGTCCAATCTGTTAGTATGCTGA 59.530 41.667 0.00 0.00 0.00 4.26
2009 12318 4.769688 TGGTCCAATCTGTTAGTATGCTG 58.230 43.478 0.00 0.00 0.00 4.41
2010 12319 5.435686 TTGGTCCAATCTGTTAGTATGCT 57.564 39.130 0.00 0.00 0.00 3.79
2011 12320 6.509418 TTTTGGTCCAATCTGTTAGTATGC 57.491 37.500 4.80 0.00 0.00 3.14
2014 12323 9.832445 GAGATATTTTGGTCCAATCTGTTAGTA 57.168 33.333 4.80 0.00 0.00 1.82
2015 12324 8.328758 TGAGATATTTTGGTCCAATCTGTTAGT 58.671 33.333 4.80 0.00 0.00 2.24
2016 12325 8.616076 GTGAGATATTTTGGTCCAATCTGTTAG 58.384 37.037 4.80 0.00 0.00 2.34
2017 12326 8.328758 AGTGAGATATTTTGGTCCAATCTGTTA 58.671 33.333 4.80 0.00 0.00 2.41
2020 12329 7.337689 TGAAGTGAGATATTTTGGTCCAATCTG 59.662 37.037 4.80 0.00 0.00 2.90
2023 12332 9.872684 ATATGAAGTGAGATATTTTGGTCCAAT 57.127 29.630 4.80 0.00 0.00 3.16
2024 12333 9.123902 CATATGAAGTGAGATATTTTGGTCCAA 57.876 33.333 0.00 0.00 0.00 3.53
2025 12334 7.229306 GCATATGAAGTGAGATATTTTGGTCCA 59.771 37.037 6.97 0.00 0.00 4.02
2026 12335 7.446625 AGCATATGAAGTGAGATATTTTGGTCC 59.553 37.037 6.97 0.00 0.00 4.46
2042 12514 6.856135 TGCACTAAGAATGAGCATATGAAG 57.144 37.500 6.97 0.00 0.00 3.02
2127 12621 0.251341 AGGAGTTGGCAATGTGGTCC 60.251 55.000 1.92 5.40 0.00 4.46
2128 12622 2.084546 GTAGGAGTTGGCAATGTGGTC 58.915 52.381 1.92 0.00 0.00 4.02
2176 12671 1.881973 AGCATGGTTGTGTCACATGAC 59.118 47.619 6.48 5.02 43.46 3.06
2186 12681 5.981088 TGTGATTAAATCAGCATGGTTGT 57.019 34.783 0.00 0.00 39.53 3.32
2269 15195 7.776969 AGCACAAATAGAGATCATGTTAACCAT 59.223 33.333 2.48 0.00 0.00 3.55
2348 15913 1.595109 CGCTTCTGACTGTGTGCCA 60.595 57.895 0.00 0.00 0.00 4.92
2440 16007 8.986477 ATTAAGACAGAACATTAAAACCATGC 57.014 30.769 0.00 0.00 0.00 4.06
2475 16043 5.178096 TCTTTCATCTCCACCTGCAAATA 57.822 39.130 0.00 0.00 0.00 1.40
2533 16101 6.387465 CACGAACTATGAAGAGTCAGGTTTA 58.613 40.000 0.00 0.00 37.14 2.01
2554 16122 1.959899 GAAGTCTCCATGCACGCACG 61.960 60.000 0.00 0.00 0.00 5.34
2567 16135 6.040391 GGAAGACTATCAGTGCATAGAAGTCT 59.960 42.308 18.80 18.80 42.91 3.24
2594 16162 6.294843 GCTTCTTTAGACTAGGTGAGTTCTGT 60.295 42.308 0.00 0.00 39.06 3.41
2612 16180 8.594550 TGGTATAGTTCAAGAGTTAGCTTCTTT 58.405 33.333 0.00 0.00 0.00 2.52
2663 16233 5.125900 TGCACCAACATTCATTGAAGGATAG 59.874 40.000 17.21 1.97 0.00 2.08
2728 16298 6.874134 AGGTATATCCTGCGTTTGATATTCAC 59.126 38.462 7.63 3.07 46.19 3.18
2746 16316 4.322049 GCTCGCCAGTGATTGTAGGTATAT 60.322 45.833 0.00 0.00 0.00 0.86
2754 16324 0.035317 TCAAGCTCGCCAGTGATTGT 59.965 50.000 0.00 0.00 38.12 2.71
2771 16341 7.157347 GCTCACATGTAAATGATCTATCCTCA 58.843 38.462 0.00 0.00 0.00 3.86
2982 16560 7.414222 AATAATGTTTGCCTGAGATGACATT 57.586 32.000 0.00 0.00 39.94 2.71
3189 16786 5.651172 TTTTTCACGTCTCATGTAGTGTG 57.349 39.130 0.00 0.00 36.16 3.82
3207 16804 2.944349 CCAACCAGCACAAGCAATTTTT 59.056 40.909 0.00 0.00 45.49 1.94
3220 16817 4.338400 GGACCAATATAAACTCCAACCAGC 59.662 45.833 0.00 0.00 0.00 4.85
3350 16948 2.888834 TCAAAAACAGCAGAAAGGGC 57.111 45.000 0.00 0.00 0.00 5.19
3353 16951 8.842777 CATTTTTGTTTCAAAAACAGCAGAAAG 58.157 29.630 18.26 0.00 32.67 2.62
3405 17006 3.193903 TGAGCTGCACATAAGGTACGTAA 59.806 43.478 1.02 0.00 0.00 3.18
3444 17045 4.832266 TGCAATTCAAGGGTGTCTTTACAT 59.168 37.500 0.00 0.00 38.08 2.29
3451 17052 2.622942 TGAAGTGCAATTCAAGGGTGTC 59.377 45.455 25.91 0.00 36.28 3.67
3452 17053 2.665165 TGAAGTGCAATTCAAGGGTGT 58.335 42.857 25.91 0.00 36.28 4.16
3475 17079 7.183112 TGAAGGGAAGGGAATACTATGTTTACA 59.817 37.037 0.00 0.00 0.00 2.41
3493 17097 4.837093 AGATGTAACCGAATGAAGGGAA 57.163 40.909 0.00 0.00 0.00 3.97
3494 17098 7.792364 ATATAGATGTAACCGAATGAAGGGA 57.208 36.000 0.00 0.00 0.00 4.20
3495 17099 9.534565 CATATATAGATGTAACCGAATGAAGGG 57.465 37.037 0.00 0.00 0.00 3.95
3525 17129 0.658244 CAACGATGTGTGCAGTGTGC 60.658 55.000 0.00 0.00 45.29 4.57
3526 17130 0.657312 ACAACGATGTGTGCAGTGTG 59.343 50.000 0.00 0.00 38.69 3.82
3528 17132 0.936600 TGACAACGATGTGTGCAGTG 59.063 50.000 1.86 0.00 40.74 3.66
3529 17133 1.330521 GTTGACAACGATGTGTGCAGT 59.669 47.619 1.86 0.00 40.74 4.40
3531 17135 0.660488 GGTTGACAACGATGTGTGCA 59.340 50.000 12.07 0.00 40.74 4.57
3532 17136 0.944386 AGGTTGACAACGATGTGTGC 59.056 50.000 12.07 0.00 40.74 4.57
3533 17137 2.483876 AGAGGTTGACAACGATGTGTG 58.516 47.619 12.07 0.00 40.74 3.82
3534 17138 2.910688 AGAGGTTGACAACGATGTGT 57.089 45.000 12.07 0.00 40.74 3.72
3535 17139 3.393800 AGAAGAGGTTGACAACGATGTG 58.606 45.455 12.07 0.00 40.74 3.21
3536 17140 3.753294 AGAAGAGGTTGACAACGATGT 57.247 42.857 12.07 0.00 44.25 3.06
3537 17141 6.539649 TTTTAGAAGAGGTTGACAACGATG 57.460 37.500 12.07 0.00 0.00 3.84
3600 17483 4.237349 TGAAAAACAGAAAATCCGAGCC 57.763 40.909 0.00 0.00 0.00 4.70
3601 17484 6.769608 ATTTGAAAAACAGAAAATCCGAGC 57.230 33.333 0.00 0.00 0.00 5.03
3626 17509 8.560355 TTTCTGCTGAACTACTATTGCATTTA 57.440 30.769 5.41 0.00 31.02 1.40
3628 17511 6.656693 ACTTTCTGCTGAACTACTATTGCATT 59.343 34.615 5.41 0.00 31.02 3.56
3629 17512 6.176183 ACTTTCTGCTGAACTACTATTGCAT 58.824 36.000 5.41 0.00 31.02 3.96
3630 17513 5.551233 ACTTTCTGCTGAACTACTATTGCA 58.449 37.500 5.41 0.00 31.02 4.08
3631 17514 5.639506 TGACTTTCTGCTGAACTACTATTGC 59.360 40.000 5.41 0.00 31.02 3.56
3632 17515 6.183360 CGTGACTTTCTGCTGAACTACTATTG 60.183 42.308 5.41 0.00 31.02 1.90
3635 17518 4.277672 ACGTGACTTTCTGCTGAACTACTA 59.722 41.667 5.41 0.00 31.02 1.82
3636 17519 3.068307 ACGTGACTTTCTGCTGAACTACT 59.932 43.478 5.41 0.00 31.02 2.57
3637 17520 3.381949 ACGTGACTTTCTGCTGAACTAC 58.618 45.455 5.41 2.71 31.02 2.73
3638 17521 3.728076 ACGTGACTTTCTGCTGAACTA 57.272 42.857 5.41 0.00 31.02 2.24
3640 17523 4.921515 TGTATACGTGACTTTCTGCTGAAC 59.078 41.667 5.41 0.00 31.02 3.18
3641 17524 5.128992 TGTATACGTGACTTTCTGCTGAA 57.871 39.130 0.00 1.33 0.00 3.02
3642 17525 4.776795 TGTATACGTGACTTTCTGCTGA 57.223 40.909 0.00 0.00 0.00 4.26
3643 17526 5.102313 TGATGTATACGTGACTTTCTGCTG 58.898 41.667 1.31 0.00 0.00 4.41
3644 17527 5.324784 TGATGTATACGTGACTTTCTGCT 57.675 39.130 1.31 0.00 0.00 4.24
3645 17528 7.062371 GGATATGATGTATACGTGACTTTCTGC 59.938 40.741 1.31 0.00 0.00 4.26
3646 17529 8.082242 TGGATATGATGTATACGTGACTTTCTG 58.918 37.037 1.31 0.00 0.00 3.02
3679 17562 9.968743 GTAAGTACATTTGTCTTAAGTATGTGC 57.031 33.333 17.39 16.41 33.71 4.57
3681 17564 8.866956 GCGTAAGTACATTTGTCTTAAGTATGT 58.133 33.333 1.63 10.36 41.68 2.29
3682 17565 9.084164 AGCGTAAGTACATTTGTCTTAAGTATG 57.916 33.333 1.63 5.47 41.68 2.39
3685 17568 6.589139 GGAGCGTAAGTACATTTGTCTTAAGT 59.411 38.462 1.63 0.00 41.68 2.24
3687 17570 6.694447 AGGAGCGTAAGTACATTTGTCTTAA 58.306 36.000 0.00 0.00 41.68 1.85
3688 17571 6.276832 AGGAGCGTAAGTACATTTGTCTTA 57.723 37.500 0.00 0.00 41.68 2.10
3689 17572 5.148651 AGGAGCGTAAGTACATTTGTCTT 57.851 39.130 0.00 0.00 41.68 3.01
3690 17573 4.803098 AGGAGCGTAAGTACATTTGTCT 57.197 40.909 0.00 0.00 41.68 3.41
3692 17575 5.656213 AGTAGGAGCGTAAGTACATTTGT 57.344 39.130 0.00 0.00 41.68 2.83
3693 17576 6.558009 TGTAGTAGGAGCGTAAGTACATTTG 58.442 40.000 0.00 0.00 41.68 2.32
3694 17577 6.764308 TGTAGTAGGAGCGTAAGTACATTT 57.236 37.500 0.00 0.00 41.68 2.32
3695 17578 6.764308 TTGTAGTAGGAGCGTAAGTACATT 57.236 37.500 0.00 0.00 41.68 2.71
3696 17579 6.764308 TTTGTAGTAGGAGCGTAAGTACAT 57.236 37.500 0.00 0.00 41.68 2.29
3697 17580 6.764308 ATTTGTAGTAGGAGCGTAAGTACA 57.236 37.500 0.00 0.00 41.68 2.90
3698 17581 8.616076 TCTTATTTGTAGTAGGAGCGTAAGTAC 58.384 37.037 0.00 0.00 41.68 2.73
3699 17582 8.737168 TCTTATTTGTAGTAGGAGCGTAAGTA 57.263 34.615 0.00 0.00 41.68 2.24
3700 17583 7.636150 TCTTATTTGTAGTAGGAGCGTAAGT 57.364 36.000 0.00 0.00 41.68 2.24
3701 17584 8.350722 TCATCTTATTTGTAGTAGGAGCGTAAG 58.649 37.037 0.00 0.00 43.44 2.34
3702 17585 8.229253 TCATCTTATTTGTAGTAGGAGCGTAA 57.771 34.615 0.00 0.00 0.00 3.18
3703 17586 7.812690 TCATCTTATTTGTAGTAGGAGCGTA 57.187 36.000 0.00 0.00 0.00 4.42
3704 17587 6.710597 TCATCTTATTTGTAGTAGGAGCGT 57.289 37.500 0.00 0.00 0.00 5.07
3705 17588 7.359598 GCATTCATCTTATTTGTAGTAGGAGCG 60.360 40.741 0.00 0.00 0.00 5.03
3706 17589 7.659390 AGCATTCATCTTATTTGTAGTAGGAGC 59.341 37.037 0.00 0.00 0.00 4.70
3707 17590 9.553064 AAGCATTCATCTTATTTGTAGTAGGAG 57.447 33.333 0.00 0.00 0.00 3.69
3708 17591 9.905713 AAAGCATTCATCTTATTTGTAGTAGGA 57.094 29.630 0.00 0.00 0.00 2.94
3717 17600 8.071177 AGTGGCTAAAAGCATTCATCTTATTT 57.929 30.769 0.78 0.00 44.75 1.40
3803 17691 1.089481 ATAACACATGACCAGCCGCG 61.089 55.000 0.00 0.00 0.00 6.46
3804 17692 0.657840 GATAACACATGACCAGCCGC 59.342 55.000 0.00 0.00 0.00 6.53
3808 17696 6.474819 TGTTTAACGATAACACATGACCAG 57.525 37.500 0.00 0.00 30.96 4.00
3814 17702 4.394920 CCAGGCTGTTTAACGATAACACAT 59.605 41.667 14.43 0.00 32.46 3.21
3848 17738 1.153429 GAGAAGTACCGCGGCCAAT 60.153 57.895 28.58 10.26 0.00 3.16


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

AutoCloner maintained by Alex Coulton.