Multiple sequence alignment - TraesCS2A01G046800

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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 TraesCS2A01G046800 chr2A 100.000 2688 0 0 1 2688 18296511 18299198 0.000000e+00 4964
1 TraesCS2A01G046800 chr2A 82.642 2195 334 33 1 2181 18320228 18322389 0.000000e+00 1899
2 TraesCS2A01G046800 chr2A 83.228 1580 254 10 1 1574 18337942 18339516 0.000000e+00 1439
3 TraesCS2A01G046800 chr2A 83.871 217 31 4 2243 2457 18322799 18323013 1.260000e-48 204
4 TraesCS2A01G046800 chr2A 86.275 102 12 1 2445 2546 672997815 672997914 2.830000e-20 110
5 TraesCS2A01G046800 chrUn 90.404 1980 174 6 1 1966 266781433 266783410 0.000000e+00 2590
6 TraesCS2A01G046800 chrUn 83.673 1568 234 17 1 1560 24403038 24404591 0.000000e+00 1458
7 TraesCS2A01G046800 chrUn 92.432 555 34 2 1663 2217 266786791 266787337 0.000000e+00 785
8 TraesCS2A01G046800 chrUn 85.082 429 31 8 1792 2220 264218189 264218584 8.960000e-110 407
9 TraesCS2A01G046800 chrUn 92.857 70 5 0 2389 2458 264218598 264218667 4.730000e-18 102
10 TraesCS2A01G046800 chrUn 92.857 70 5 0 2389 2458 266787354 266787423 4.730000e-18 102
11 TraesCS2A01G046800 chr2D 82.599 2224 335 35 1 2205 16356386 16358576 0.000000e+00 1916
12 TraesCS2A01G046800 chr2D 81.907 2244 359 32 2 2220 16345555 16347776 0.000000e+00 1851
13 TraesCS2A01G046800 chr2D 81.264 1756 296 21 1 1745 16334215 16335948 0.000000e+00 1389
14 TraesCS2A01G046800 chr2D 91.864 295 13 6 1864 2151 16335951 16336241 4.170000e-108 401
15 TraesCS2A01G046800 chr2D 87.952 166 18 2 2292 2457 16348050 16348213 7.590000e-46 195
16 TraesCS2A01G046800 chr2B 82.736 1981 286 38 1 1949 28451113 28453069 0.000000e+00 1712
17 TraesCS2A01G046800 chr2B 84.211 1729 253 13 1 1721 28620599 28622315 0.000000e+00 1663
18 TraesCS2A01G046800 chr2B 81.271 1762 287 26 1 1744 28656290 28658026 0.000000e+00 1386
19 TraesCS2A01G046800 chr2B 88.488 582 42 9 1855 2424 28658021 28658589 0.000000e+00 680
20 TraesCS2A01G046800 chr2B 84.897 437 55 9 1789 2220 28622344 28622774 5.320000e-117 431
21 TraesCS2A01G046800 chr2B 86.735 98 11 2 2455 2550 737937391 737937488 1.020000e-19 108
22 TraesCS2A01G046800 chr1D 90.323 93 9 0 2458 2550 359496429 359496521 3.630000e-24 122
23 TraesCS2A01G046800 chr6A 90.361 83 5 3 2458 2537 74980452 74980534 3.660000e-19 106
24 TraesCS2A01G046800 chr5D 87.097 93 12 0 2458 2550 534099861 534099953 3.660000e-19 106
25 TraesCS2A01G046800 chr7B 86.022 93 13 0 2457 2549 22549952 22550044 1.700000e-17 100
26 TraesCS2A01G046800 chr7A 86.022 93 13 0 2458 2550 692684860 692684952 1.700000e-17 100
27 TraesCS2A01G046800 chr5B 86.022 93 13 0 2458 2550 674510785 674510877 1.700000e-17 100
28 TraesCS2A01G046800 chr6D 85.263 95 14 0 2456 2550 5477728 5477634 6.120000e-17 99


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 TraesCS2A01G046800 chr2A 18296511 18299198 2687 False 4964.0 4964 100.000000 1 2688 1 chr2A.!!$F1 2687
1 TraesCS2A01G046800 chr2A 18337942 18339516 1574 False 1439.0 1439 83.228000 1 1574 1 chr2A.!!$F2 1573
2 TraesCS2A01G046800 chr2A 18320228 18323013 2785 False 1051.5 1899 83.256500 1 2457 2 chr2A.!!$F4 2456
3 TraesCS2A01G046800 chrUn 24403038 24404591 1553 False 1458.0 1458 83.673000 1 1560 1 chrUn.!!$F1 1559
4 TraesCS2A01G046800 chrUn 266781433 266787423 5990 False 1159.0 2590 91.897667 1 2458 3 chrUn.!!$F3 2457
5 TraesCS2A01G046800 chr2D 16356386 16358576 2190 False 1916.0 1916 82.599000 1 2205 1 chr2D.!!$F1 2204
6 TraesCS2A01G046800 chr2D 16345555 16348213 2658 False 1023.0 1851 84.929500 2 2457 2 chr2D.!!$F3 2455
7 TraesCS2A01G046800 chr2D 16334215 16336241 2026 False 895.0 1389 86.564000 1 2151 2 chr2D.!!$F2 2150
8 TraesCS2A01G046800 chr2B 28451113 28453069 1956 False 1712.0 1712 82.736000 1 1949 1 chr2B.!!$F1 1948
9 TraesCS2A01G046800 chr2B 28620599 28622774 2175 False 1047.0 1663 84.554000 1 2220 2 chr2B.!!$F3 2219
10 TraesCS2A01G046800 chr2B 28656290 28658589 2299 False 1033.0 1386 84.879500 1 2424 2 chr2B.!!$F4 2423

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
882 891 0.034089 ACTTGCATACCCTGAAGGCC 60.034 55.0 0.0 0.0 40.58 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2496 6643 0.393077 ATATGACAGTACCCGGCAGC 59.607 55.0 0.0 0.0 0.0 5.25 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
64 65 1.860676 TGACAACCTAAGTCGTGTGC 58.139 50.000 0.00 0.00 38.83 4.57
69 70 3.067106 CAACCTAAGTCGTGTGCAGAAT 58.933 45.455 0.00 0.00 0.00 2.40
113 114 8.514594 CAAATACTTGCCTGACTATTTGAAGAA 58.485 33.333 0.00 0.00 38.21 2.52
121 122 6.808704 GCCTGACTATTTGAAGAATTGTTTCC 59.191 38.462 0.00 0.00 31.84 3.13
184 185 8.031277 ACAGAAAAAGATTGATTAGAATGTGGC 58.969 33.333 0.00 0.00 0.00 5.01
345 348 2.850060 GCATGATCTTGTGCGTGAATTG 59.150 45.455 10.05 0.00 0.00 2.32
417 426 1.929860 ATGGGGTGATGCAGGTGGAG 61.930 60.000 0.00 0.00 0.00 3.86
418 427 2.606587 GGGGTGATGCAGGTGGAGT 61.607 63.158 0.00 0.00 0.00 3.85
419 428 1.078143 GGGTGATGCAGGTGGAGTC 60.078 63.158 0.00 0.00 0.00 3.36
420 429 1.679311 GGTGATGCAGGTGGAGTCA 59.321 57.895 0.00 0.00 0.00 3.41
421 430 0.392193 GGTGATGCAGGTGGAGTCAG 60.392 60.000 0.00 0.00 0.00 3.51
422 431 0.610174 GTGATGCAGGTGGAGTCAGA 59.390 55.000 0.00 0.00 0.00 3.27
459 468 4.020928 TCAGTGCTCCAATGCAAAAATGAT 60.021 37.500 0.00 0.00 45.12 2.45
503 512 2.159085 GCAGGCTTCGTACCTTCATAGT 60.159 50.000 0.00 0.00 34.42 2.12
520 529 6.233905 TCATAGTATTTAGCACCAGCAAGA 57.766 37.500 0.00 0.00 45.49 3.02
539 548 6.208007 AGCAAGACATCATCTTCATTGTTTCA 59.792 34.615 0.00 0.00 44.99 2.69
601 610 8.310382 CAGGATTACCTATTGAGACTATTCCAG 58.690 40.741 0.00 0.00 45.94 3.86
603 612 8.308207 GGATTACCTATTGAGACTATTCCAGAC 58.692 40.741 0.00 0.00 0.00 3.51
612 621 5.983540 GAGACTATTCCAGACTCAATTGGT 58.016 41.667 5.42 2.31 43.16 3.67
652 661 0.821711 TTTGGGCCTTGACAAGACCG 60.822 55.000 16.99 1.24 30.76 4.79
721 730 7.500992 AGAAACACTGAGTCTTCAAGATACAA 58.499 34.615 0.00 0.00 31.69 2.41
756 765 3.955650 CCTCGAGGGTCTGAAAAACTA 57.044 47.619 24.62 0.00 0.00 2.24
760 769 4.638304 TCGAGGGTCTGAAAAACTAAAGG 58.362 43.478 0.00 0.00 0.00 3.11
767 776 5.010617 GGTCTGAAAAACTAAAGGGATTGCA 59.989 40.000 0.00 0.00 0.00 4.08
811 820 4.127171 GCTGGATAAAGCATTCTCGGTTA 58.873 43.478 0.00 0.00 43.01 2.85
812 821 4.024809 GCTGGATAAAGCATTCTCGGTTAC 60.025 45.833 0.00 0.00 43.01 2.50
816 825 5.220796 GGATAAAGCATTCTCGGTTACCAAC 60.221 44.000 1.13 0.00 0.00 3.77
820 829 2.159627 GCATTCTCGGTTACCAACAGTG 59.840 50.000 1.13 0.00 0.00 3.66
843 852 3.404899 TGAACCTATGGAACCGTTTGAC 58.595 45.455 0.00 0.00 0.00 3.18
870 879 3.953612 TGTGGAGTTTGAAGAACTTGCAT 59.046 39.130 0.00 0.00 0.00 3.96
873 882 4.518970 TGGAGTTTGAAGAACTTGCATACC 59.481 41.667 0.00 0.00 0.00 2.73
882 891 0.034089 ACTTGCATACCCTGAAGGCC 60.034 55.000 0.00 0.00 40.58 5.19
902 911 3.615496 GCCGTTCGAGCTAGTGAAATTTA 59.385 43.478 0.00 0.00 0.00 1.40
995 1004 1.068281 ACAGCTGTGTGACTCTCTGTG 59.932 52.381 20.97 0.00 34.75 3.66
1042 1051 7.661127 TTAGAAATAGTAGCAAGCAACGAAA 57.339 32.000 0.00 0.00 0.00 3.46
1089 1098 1.242076 CACTGCCAAACCCTCTTCAG 58.758 55.000 0.00 0.00 0.00 3.02
1185 1194 6.016192 CACTTCACACGATATCCCTATACTGT 60.016 42.308 0.00 0.00 0.00 3.55
1312 1321 1.165270 GTGGTTCCCGAATGTGAAGG 58.835 55.000 0.00 0.00 0.00 3.46
1406 1415 8.208224 TGAAGAACTTGTGATTAGTAACCTTGA 58.792 33.333 0.00 0.00 0.00 3.02
1407 1416 8.974060 AAGAACTTGTGATTAGTAACCTTGAA 57.026 30.769 0.00 0.00 0.00 2.69
1414 1423 6.934645 TGTGATTAGTAACCTTGAAGAACTGG 59.065 38.462 0.00 0.00 0.00 4.00
1417 1426 6.989155 TTAGTAACCTTGAAGAACTGGAGA 57.011 37.500 0.00 0.00 0.00 3.71
1418 1427 5.476091 AGTAACCTTGAAGAACTGGAGAG 57.524 43.478 0.00 0.00 0.00 3.20
1529 1549 6.073222 ACGACAAAACTAAATCATGTCCAGAC 60.073 38.462 0.00 0.00 37.66 3.51
1535 1555 0.107508 AATCATGTCCAGACAGCCCG 60.108 55.000 6.63 0.00 45.48 6.13
1560 1585 6.252228 GCTACAGTATACGGTAACTGAAACAC 59.748 42.308 24.26 12.59 44.79 3.32
1604 1630 3.132925 GTTTGCACTTTTCATGCCATGT 58.867 40.909 4.31 0.00 42.69 3.21
1625 1656 0.321919 ATGCGTGCTCAATCACCAGT 60.322 50.000 0.00 0.00 33.57 4.00
1729 1768 1.286501 TTGCAGTCATTATCGTCGGC 58.713 50.000 0.00 0.00 0.00 5.54
1824 5566 8.801715 TCATTTCTGCTTATTCAAACAAGAAC 57.198 30.769 0.00 0.00 0.00 3.01
1874 5620 8.537728 AATTATTTCTGTTCTTGCCATCCATA 57.462 30.769 0.00 0.00 0.00 2.74
2003 5759 6.467723 ACTTTCTCGACACATGTTCAATAC 57.532 37.500 0.00 0.00 0.00 1.89
2004 5760 6.223852 ACTTTCTCGACACATGTTCAATACT 58.776 36.000 0.00 0.00 0.00 2.12
2005 5761 7.375834 ACTTTCTCGACACATGTTCAATACTA 58.624 34.615 0.00 0.00 0.00 1.82
2012 5770 6.948228 CGACACATGTTCAATACTAGAAAACG 59.052 38.462 0.00 0.00 0.00 3.60
2067 5835 4.746115 GTGCAAAGCATCAGAACATTTTGA 59.254 37.500 0.00 0.00 41.91 2.69
2106 5874 4.060038 TGAGGTTCAGAACTTCACAGTC 57.940 45.455 21.14 0.00 41.79 3.51
2128 5897 4.345257 TCCAGTGTCTTTTAGCTCTTGTCT 59.655 41.667 0.00 0.00 0.00 3.41
2131 5904 4.345257 AGTGTCTTTTAGCTCTTGTCTGGA 59.655 41.667 0.00 0.00 0.00 3.86
2138 5916 8.543774 TCTTTTAGCTCTTGTCTGGAGAAATAT 58.456 33.333 0.00 0.00 33.03 1.28
2220 6152 3.181497 GCACTACTGTTGCATATTGGTGG 60.181 47.826 0.00 0.00 0.00 4.61
2221 6153 4.009675 CACTACTGTTGCATATTGGTGGT 58.990 43.478 0.00 0.00 0.00 4.16
2222 6154 4.458989 CACTACTGTTGCATATTGGTGGTT 59.541 41.667 0.00 0.00 0.00 3.67
2223 6155 3.940209 ACTGTTGCATATTGGTGGTTG 57.060 42.857 0.00 0.00 0.00 3.77
2224 6156 2.562298 ACTGTTGCATATTGGTGGTTGG 59.438 45.455 0.00 0.00 0.00 3.77
2225 6157 2.562298 CTGTTGCATATTGGTGGTTGGT 59.438 45.455 0.00 0.00 0.00 3.67
2226 6158 2.298446 TGTTGCATATTGGTGGTTGGTG 59.702 45.455 0.00 0.00 0.00 4.17
2227 6159 0.894141 TGCATATTGGTGGTTGGTGC 59.106 50.000 0.00 0.00 0.00 5.01
2228 6160 0.179140 GCATATTGGTGGTTGGTGCG 60.179 55.000 0.00 0.00 0.00 5.34
2237 6169 0.953471 TGGTTGGTGCGCTGTGTATC 60.953 55.000 9.73 0.00 0.00 2.24
2238 6170 1.644786 GGTTGGTGCGCTGTGTATCC 61.645 60.000 9.73 0.00 0.00 2.59
2264 6409 2.607038 CCTTGCATGCATGATTGATCCG 60.607 50.000 30.64 10.56 0.00 4.18
2289 6434 4.602340 ACAGTTACCTTGTTCGATCAGT 57.398 40.909 0.00 0.00 0.00 3.41
2308 6455 3.504906 CAGTTGGTGAGAGACATTGCAAT 59.495 43.478 5.99 5.99 0.00 3.56
2316 6463 4.660303 TGAGAGACATTGCAATAGGGGTAT 59.340 41.667 12.53 2.86 0.00 2.73
2349 6496 4.037446 GCACTTGTCCAGGTTTATTTGACA 59.963 41.667 0.00 0.00 34.38 3.58
2350 6497 5.278957 GCACTTGTCCAGGTTTATTTGACAT 60.279 40.000 0.00 0.00 36.00 3.06
2353 6500 9.173021 CACTTGTCCAGGTTTATTTGACATATA 57.827 33.333 0.00 0.00 36.00 0.86
2385 6532 3.522343 GGAAATGGTCTAGTGGTAGGGTT 59.478 47.826 0.00 0.00 0.00 4.11
2402 6549 2.628696 TTGCAGTGGCGCATCCTTG 61.629 57.895 10.83 0.61 45.35 3.61
2416 6563 2.185004 TCCTTGCTAACCAGAGTTGC 57.815 50.000 0.00 0.00 36.68 4.17
2458 6605 8.151596 AGCAGGTAGGCTCTATCTTATTTAAAC 58.848 37.037 0.00 0.00 41.05 2.01
2459 6606 8.151596 GCAGGTAGGCTCTATCTTATTTAAACT 58.848 37.037 0.00 0.00 0.00 2.66
2472 6619 9.833917 ATCTTATTTAAACTAGGTAGGAAGTGC 57.166 33.333 0.00 0.00 0.00 4.40
2473 6620 7.977853 TCTTATTTAAACTAGGTAGGAAGTGCG 59.022 37.037 0.00 0.00 0.00 5.34
2474 6621 4.460948 TTAAACTAGGTAGGAAGTGCGG 57.539 45.455 0.00 0.00 0.00 5.69
2475 6622 0.535797 AACTAGGTAGGAAGTGCGGC 59.464 55.000 0.00 0.00 0.00 6.53
2476 6623 0.324460 ACTAGGTAGGAAGTGCGGCT 60.324 55.000 0.00 0.00 0.00 5.52
2477 6624 0.824759 CTAGGTAGGAAGTGCGGCTT 59.175 55.000 0.00 0.00 40.76 4.35
2478 6625 0.535335 TAGGTAGGAAGTGCGGCTTG 59.465 55.000 0.00 0.00 37.59 4.01
2479 6626 2.399356 GGTAGGAAGTGCGGCTTGC 61.399 63.158 0.00 4.58 44.59 4.01
2480 6627 2.046314 TAGGAAGTGCGGCTTGCC 60.046 61.111 0.00 0.75 45.25 4.52
2481 6628 3.950794 TAGGAAGTGCGGCTTGCCG 62.951 63.158 27.32 27.32 45.25 5.69
2512 6659 4.063967 CGCTGCCGGGTACTGTCA 62.064 66.667 2.18 0.00 0.00 3.58
2513 6660 2.584608 GCTGCCGGGTACTGTCAT 59.415 61.111 2.18 0.00 0.00 3.06
2514 6661 1.820581 GCTGCCGGGTACTGTCATA 59.179 57.895 2.18 0.00 0.00 2.15
2515 6662 0.393077 GCTGCCGGGTACTGTCATAT 59.607 55.000 2.18 0.00 0.00 1.78
2516 6663 1.605712 GCTGCCGGGTACTGTCATATC 60.606 57.143 2.18 0.00 0.00 1.63
2517 6664 1.000955 CTGCCGGGTACTGTCATATCC 59.999 57.143 2.18 0.00 0.00 2.59
2518 6665 1.045407 GCCGGGTACTGTCATATCCA 58.955 55.000 2.18 0.00 0.00 3.41
2519 6666 1.414919 GCCGGGTACTGTCATATCCAA 59.585 52.381 2.18 0.00 0.00 3.53
2520 6667 2.038557 GCCGGGTACTGTCATATCCAAT 59.961 50.000 2.18 0.00 0.00 3.16
2521 6668 3.864921 GCCGGGTACTGTCATATCCAATC 60.865 52.174 2.18 0.00 0.00 2.67
2522 6669 3.578716 CCGGGTACTGTCATATCCAATCT 59.421 47.826 0.00 0.00 0.00 2.40
2523 6670 4.040461 CCGGGTACTGTCATATCCAATCTT 59.960 45.833 0.00 0.00 0.00 2.40
2524 6671 5.245301 CCGGGTACTGTCATATCCAATCTTA 59.755 44.000 0.00 0.00 0.00 2.10
2525 6672 6.070767 CCGGGTACTGTCATATCCAATCTTAT 60.071 42.308 0.00 0.00 0.00 1.73
2526 6673 7.123697 CCGGGTACTGTCATATCCAATCTTATA 59.876 40.741 0.00 0.00 0.00 0.98
2527 6674 8.528643 CGGGTACTGTCATATCCAATCTTATAA 58.471 37.037 0.00 0.00 0.00 0.98
2555 6702 6.939132 ATCATAGGAGAATTGCAAGAAGTG 57.061 37.500 4.94 0.00 0.00 3.16
2556 6703 5.809001 TCATAGGAGAATTGCAAGAAGTGT 58.191 37.500 4.94 0.00 0.00 3.55
2557 6704 6.946340 TCATAGGAGAATTGCAAGAAGTGTA 58.054 36.000 4.94 0.00 0.00 2.90
2558 6705 6.818644 TCATAGGAGAATTGCAAGAAGTGTAC 59.181 38.462 4.94 0.00 0.00 2.90
2559 6706 4.973168 AGGAGAATTGCAAGAAGTGTACA 58.027 39.130 4.94 0.00 0.00 2.90
2560 6707 5.376625 AGGAGAATTGCAAGAAGTGTACAA 58.623 37.500 4.94 0.00 0.00 2.41
2561 6708 5.239525 AGGAGAATTGCAAGAAGTGTACAAC 59.760 40.000 4.94 0.00 0.00 3.32
2562 6709 5.008613 GGAGAATTGCAAGAAGTGTACAACA 59.991 40.000 4.94 0.00 0.00 3.33
2563 6710 6.294176 GGAGAATTGCAAGAAGTGTACAACAT 60.294 38.462 4.94 0.00 0.00 2.71
2564 6711 7.094805 GGAGAATTGCAAGAAGTGTACAACATA 60.095 37.037 4.94 0.00 0.00 2.29
2565 6712 8.340618 AGAATTGCAAGAAGTGTACAACATAT 57.659 30.769 4.94 0.00 0.00 1.78
2566 6713 8.239314 AGAATTGCAAGAAGTGTACAACATATG 58.761 33.333 4.94 0.00 0.00 1.78
2567 6714 6.875948 TTGCAAGAAGTGTACAACATATGT 57.124 33.333 1.41 1.41 46.36 2.29
2568 6715 7.971183 TTGCAAGAAGTGTACAACATATGTA 57.029 32.000 9.21 0.00 43.63 2.29
2569 6716 7.595311 TGCAAGAAGTGTACAACATATGTAG 57.405 36.000 9.21 0.00 45.00 2.74
2570 6717 6.092122 TGCAAGAAGTGTACAACATATGTAGC 59.908 38.462 9.21 0.73 45.00 3.58
2571 6718 6.456988 GCAAGAAGTGTACAACATATGTAGCC 60.457 42.308 9.21 0.00 45.00 3.93
2572 6719 6.294361 AGAAGTGTACAACATATGTAGCCA 57.706 37.500 9.21 1.26 45.00 4.75
2573 6720 6.341316 AGAAGTGTACAACATATGTAGCCAG 58.659 40.000 9.21 0.12 45.00 4.85
2574 6721 5.932619 AGTGTACAACATATGTAGCCAGA 57.067 39.130 9.21 0.00 45.00 3.86
2575 6722 5.907207 AGTGTACAACATATGTAGCCAGAG 58.093 41.667 9.21 0.00 45.00 3.35
2576 6723 5.656859 AGTGTACAACATATGTAGCCAGAGA 59.343 40.000 9.21 0.00 45.00 3.10
2577 6724 6.154534 AGTGTACAACATATGTAGCCAGAGAA 59.845 38.462 9.21 0.00 45.00 2.87
2578 6725 6.816640 GTGTACAACATATGTAGCCAGAGAAA 59.183 38.462 9.21 0.00 45.00 2.52
2579 6726 7.333423 GTGTACAACATATGTAGCCAGAGAAAA 59.667 37.037 9.21 0.00 45.00 2.29
2580 6727 6.992063 ACAACATATGTAGCCAGAGAAAAG 57.008 37.500 9.21 0.00 41.63 2.27
2581 6728 6.476378 ACAACATATGTAGCCAGAGAAAAGT 58.524 36.000 9.21 0.00 41.63 2.66
2582 6729 6.942576 ACAACATATGTAGCCAGAGAAAAGTT 59.057 34.615 9.21 0.00 41.63 2.66
2583 6730 8.100791 ACAACATATGTAGCCAGAGAAAAGTTA 58.899 33.333 9.21 0.00 41.63 2.24
2584 6731 9.113838 CAACATATGTAGCCAGAGAAAAGTTAT 57.886 33.333 9.21 0.00 0.00 1.89
2586 6733 9.988815 ACATATGTAGCCAGAGAAAAGTTATAG 57.011 33.333 6.56 0.00 0.00 1.31
2587 6734 8.930760 CATATGTAGCCAGAGAAAAGTTATAGC 58.069 37.037 0.00 0.00 0.00 2.97
2588 6735 6.294361 TGTAGCCAGAGAAAAGTTATAGCA 57.706 37.500 0.00 0.00 0.00 3.49
2589 6736 6.707290 TGTAGCCAGAGAAAAGTTATAGCAA 58.293 36.000 0.00 0.00 0.00 3.91
2590 6737 7.165485 TGTAGCCAGAGAAAAGTTATAGCAAA 58.835 34.615 0.00 0.00 0.00 3.68
2591 6738 7.663905 TGTAGCCAGAGAAAAGTTATAGCAAAA 59.336 33.333 0.00 0.00 0.00 2.44
2592 6739 7.150783 AGCCAGAGAAAAGTTATAGCAAAAG 57.849 36.000 0.00 0.00 0.00 2.27
2593 6740 5.802451 GCCAGAGAAAAGTTATAGCAAAAGC 59.198 40.000 0.00 0.00 0.00 3.51
2594 6741 6.570378 GCCAGAGAAAAGTTATAGCAAAAGCA 60.570 38.462 0.00 0.00 0.00 3.91
2595 6742 7.370383 CCAGAGAAAAGTTATAGCAAAAGCAA 58.630 34.615 0.00 0.00 0.00 3.91
2596 6743 7.540055 CCAGAGAAAAGTTATAGCAAAAGCAAG 59.460 37.037 0.00 0.00 0.00 4.01
2597 6744 7.540055 CAGAGAAAAGTTATAGCAAAAGCAAGG 59.460 37.037 0.00 0.00 0.00 3.61
2598 6745 7.448469 AGAGAAAAGTTATAGCAAAAGCAAGGA 59.552 33.333 0.00 0.00 0.00 3.36
2599 6746 7.951591 AGAAAAGTTATAGCAAAAGCAAGGAA 58.048 30.769 0.00 0.00 0.00 3.36
2600 6747 7.867909 AGAAAAGTTATAGCAAAAGCAAGGAAC 59.132 33.333 0.00 0.00 0.00 3.62
2602 6749 6.259550 AGTTATAGCAAAAGCAAGGAACTG 57.740 37.500 0.00 0.00 40.86 3.16
2603 6750 5.770162 AGTTATAGCAAAAGCAAGGAACTGT 59.230 36.000 0.00 0.00 40.86 3.55
2604 6751 6.265422 AGTTATAGCAAAAGCAAGGAACTGTT 59.735 34.615 0.00 0.00 40.86 3.16
2605 6752 3.169355 AGCAAAAGCAAGGAACTGTTG 57.831 42.857 0.00 0.00 40.86 3.33
2606 6753 2.497273 AGCAAAAGCAAGGAACTGTTGT 59.503 40.909 0.00 0.00 40.86 3.32
2607 6754 3.055891 AGCAAAAGCAAGGAACTGTTGTT 60.056 39.130 0.00 0.00 40.86 2.83
2608 6755 3.062504 GCAAAAGCAAGGAACTGTTGTTG 59.937 43.478 0.00 2.90 40.86 3.33
2609 6756 2.584492 AAGCAAGGAACTGTTGTTGC 57.416 45.000 21.27 21.27 44.60 4.17
2610 6757 1.473258 AGCAAGGAACTGTTGTTGCA 58.527 45.000 26.54 0.00 46.28 4.08
2611 6758 2.034124 AGCAAGGAACTGTTGTTGCAT 58.966 42.857 26.54 15.57 46.28 3.96
2612 6759 3.221771 AGCAAGGAACTGTTGTTGCATA 58.778 40.909 26.54 0.00 46.28 3.14
2613 6760 3.636300 AGCAAGGAACTGTTGTTGCATAA 59.364 39.130 26.54 0.00 46.28 1.90
2614 6761 3.983344 GCAAGGAACTGTTGTTGCATAAG 59.017 43.478 22.79 0.00 45.25 1.73
2615 6762 4.261572 GCAAGGAACTGTTGTTGCATAAGA 60.262 41.667 22.79 0.00 45.25 2.10
2616 6763 5.565439 GCAAGGAACTGTTGTTGCATAAGAT 60.565 40.000 22.79 0.00 45.25 2.40
2617 6764 6.349280 GCAAGGAACTGTTGTTGCATAAGATA 60.349 38.462 22.79 0.00 45.25 1.98
2618 6765 7.592938 CAAGGAACTGTTGTTGCATAAGATAA 58.407 34.615 0.00 0.00 45.25 1.75
2619 6766 7.759489 AGGAACTGTTGTTGCATAAGATAAA 57.241 32.000 0.00 0.00 45.25 1.40
2620 6767 8.353423 AGGAACTGTTGTTGCATAAGATAAAT 57.647 30.769 0.00 0.00 45.25 1.40
2621 6768 8.246180 AGGAACTGTTGTTGCATAAGATAAATG 58.754 33.333 0.00 0.00 45.25 2.32
2622 6769 8.028938 GGAACTGTTGTTGCATAAGATAAATGT 58.971 33.333 0.00 0.00 42.86 2.71
2626 6773 8.854979 TGTTGTTGCATAAGATAAATGTATGC 57.145 30.769 7.72 7.72 46.70 3.14
2627 6774 7.920151 TGTTGTTGCATAAGATAAATGTATGCC 59.080 33.333 11.26 0.03 46.21 4.40
2628 6775 7.822161 TGTTGCATAAGATAAATGTATGCCT 57.178 32.000 11.26 0.00 46.21 4.75
2629 6776 8.916628 TGTTGCATAAGATAAATGTATGCCTA 57.083 30.769 11.26 0.00 46.21 3.93
2630 6777 9.348476 TGTTGCATAAGATAAATGTATGCCTAA 57.652 29.630 11.26 0.00 46.21 2.69
2631 6778 9.831737 GTTGCATAAGATAAATGTATGCCTAAG 57.168 33.333 11.26 0.00 46.21 2.18
2632 6779 9.573166 TTGCATAAGATAAATGTATGCCTAAGT 57.427 29.630 11.26 0.00 46.21 2.24
2633 6780 9.573166 TGCATAAGATAAATGTATGCCTAAGTT 57.427 29.630 11.26 0.00 46.21 2.66
2644 6791 7.083875 TGTATGCCTAAGTTCAATACAAAGC 57.916 36.000 0.00 0.00 0.00 3.51
2645 6792 6.657117 TGTATGCCTAAGTTCAATACAAAGCA 59.343 34.615 0.00 0.00 0.00 3.91
2646 6793 6.780457 ATGCCTAAGTTCAATACAAAGCAT 57.220 33.333 0.00 0.00 0.00 3.79
2647 6794 5.953183 TGCCTAAGTTCAATACAAAGCATG 58.047 37.500 0.00 0.00 0.00 4.06
2648 6795 5.105797 TGCCTAAGTTCAATACAAAGCATGG 60.106 40.000 0.00 0.00 0.00 3.66
2649 6796 5.125417 GCCTAAGTTCAATACAAAGCATGGA 59.875 40.000 0.00 0.00 0.00 3.41
2650 6797 6.678900 GCCTAAGTTCAATACAAAGCATGGAG 60.679 42.308 0.00 0.00 0.00 3.86
2651 6798 6.599244 CCTAAGTTCAATACAAAGCATGGAGA 59.401 38.462 0.00 0.00 0.00 3.71
2652 6799 7.284034 CCTAAGTTCAATACAAAGCATGGAGAT 59.716 37.037 0.00 0.00 0.00 2.75
2653 6800 7.472334 AAGTTCAATACAAAGCATGGAGATT 57.528 32.000 0.00 0.00 0.00 2.40
2654 6801 7.093322 AGTTCAATACAAAGCATGGAGATTC 57.907 36.000 0.00 0.00 0.00 2.52
2655 6802 6.660521 AGTTCAATACAAAGCATGGAGATTCA 59.339 34.615 0.00 0.00 0.00 2.57
2656 6803 7.177216 AGTTCAATACAAAGCATGGAGATTCAA 59.823 33.333 0.00 0.00 0.00 2.69
2657 6804 7.649533 TCAATACAAAGCATGGAGATTCAAT 57.350 32.000 0.00 0.00 0.00 2.57
2658 6805 8.070034 TCAATACAAAGCATGGAGATTCAATT 57.930 30.769 0.00 0.00 0.00 2.32
2659 6806 8.533657 TCAATACAAAGCATGGAGATTCAATTT 58.466 29.630 0.00 0.00 0.00 1.82
2660 6807 8.600625 CAATACAAAGCATGGAGATTCAATTTG 58.399 33.333 0.00 0.00 33.70 2.32
2661 6808 6.105397 ACAAAGCATGGAGATTCAATTTGT 57.895 33.333 0.00 0.00 35.44 2.83
2662 6809 7.230849 ACAAAGCATGGAGATTCAATTTGTA 57.769 32.000 0.00 0.00 37.73 2.41
2663 6810 7.092716 ACAAAGCATGGAGATTCAATTTGTAC 58.907 34.615 0.00 0.00 37.73 2.90
2664 6811 5.841957 AGCATGGAGATTCAATTTGTACC 57.158 39.130 0.00 0.00 0.00 3.34
2665 6812 5.263599 AGCATGGAGATTCAATTTGTACCA 58.736 37.500 0.00 0.00 0.00 3.25
2666 6813 5.716228 AGCATGGAGATTCAATTTGTACCAA 59.284 36.000 0.00 0.00 0.00 3.67
2667 6814 6.211184 AGCATGGAGATTCAATTTGTACCAAA 59.789 34.615 0.00 0.00 0.00 3.28
2668 6815 6.873076 GCATGGAGATTCAATTTGTACCAAAA 59.127 34.615 0.00 0.00 0.00 2.44
2669 6816 7.063780 GCATGGAGATTCAATTTGTACCAAAAG 59.936 37.037 0.00 0.00 0.00 2.27
2670 6817 7.595819 TGGAGATTCAATTTGTACCAAAAGT 57.404 32.000 0.00 0.00 0.00 2.66
2671 6818 8.698973 TGGAGATTCAATTTGTACCAAAAGTA 57.301 30.769 0.00 0.00 0.00 2.24
2672 6819 9.137459 TGGAGATTCAATTTGTACCAAAAGTAA 57.863 29.630 0.00 0.00 31.05 2.24
2673 6820 9.406828 GGAGATTCAATTTGTACCAAAAGTAAC 57.593 33.333 0.00 0.00 31.05 2.50
2674 6821 9.959749 GAGATTCAATTTGTACCAAAAGTAACA 57.040 29.630 0.00 0.00 31.05 2.41
2675 6822 9.744468 AGATTCAATTTGTACCAAAAGTAACAC 57.256 29.630 0.00 0.00 31.05 3.32
2676 6823 9.522804 GATTCAATTTGTACCAAAAGTAACACA 57.477 29.630 0.00 0.00 31.05 3.72
2677 6824 8.918961 TTCAATTTGTACCAAAAGTAACACAG 57.081 30.769 0.00 0.00 31.05 3.66
2678 6825 8.057536 TCAATTTGTACCAAAAGTAACACAGT 57.942 30.769 0.00 0.00 31.05 3.55
2679 6826 9.175312 TCAATTTGTACCAAAAGTAACACAGTA 57.825 29.630 0.00 0.00 31.05 2.74
2680 6827 9.445786 CAATTTGTACCAAAAGTAACACAGTAG 57.554 33.333 0.00 0.00 31.05 2.57
2681 6828 8.741603 ATTTGTACCAAAAGTAACACAGTAGT 57.258 30.769 0.00 0.00 31.05 2.73
2682 6829 8.564509 TTTGTACCAAAAGTAACACAGTAGTT 57.435 30.769 0.00 0.00 35.55 2.24
2683 6830 7.542534 TGTACCAAAAGTAACACAGTAGTTG 57.457 36.000 0.00 0.00 33.07 3.16
2684 6831 5.494632 ACCAAAAGTAACACAGTAGTTGC 57.505 39.130 0.00 0.00 34.80 4.17
2685 6832 4.337274 ACCAAAAGTAACACAGTAGTTGCC 59.663 41.667 0.00 0.00 35.10 4.52
2686 6833 4.578928 CCAAAAGTAACACAGTAGTTGCCT 59.421 41.667 0.00 0.00 35.10 4.75
2687 6834 5.761234 CCAAAAGTAACACAGTAGTTGCCTA 59.239 40.000 0.00 0.00 35.10 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
184 185 5.452078 TGTTCAATAAACCCTTCTGCAAG 57.548 39.130 0.00 0.00 37.03 4.01
345 348 1.821136 CTCTTGGACTGGAAAATGGCC 59.179 52.381 0.00 0.00 0.00 5.36
417 426 3.305964 TGACAAACGACGAGAATCTGAC 58.694 45.455 0.00 0.00 0.00 3.51
418 427 3.004419 ACTGACAAACGACGAGAATCTGA 59.996 43.478 0.00 0.00 0.00 3.27
419 428 3.120286 CACTGACAAACGACGAGAATCTG 59.880 47.826 0.00 0.98 0.00 2.90
420 429 3.309388 CACTGACAAACGACGAGAATCT 58.691 45.455 0.00 0.00 0.00 2.40
421 430 2.159960 GCACTGACAAACGACGAGAATC 60.160 50.000 0.00 0.00 0.00 2.52
422 431 1.792949 GCACTGACAAACGACGAGAAT 59.207 47.619 0.00 0.00 0.00 2.40
459 468 5.067674 GCATTGACCTATGCTTGGTTGAATA 59.932 40.000 8.72 0.00 45.80 1.75
503 512 4.842574 TGATGTCTTGCTGGTGCTAAATA 58.157 39.130 0.00 0.00 40.48 1.40
520 529 6.938596 TCTGACTGAAACAATGAAGATGATGT 59.061 34.615 0.00 0.00 0.00 3.06
539 548 6.820656 CACAGCAAGGTATTTAGATTCTGACT 59.179 38.462 0.00 0.00 0.00 3.41
652 661 6.222389 CAGATCTTGGGAGTATCTTCACATC 58.778 44.000 0.00 0.00 28.99 3.06
721 730 0.534412 CGAGGGAGATGCAGACAGTT 59.466 55.000 0.00 0.00 0.00 3.16
753 762 2.584835 TGTGCTGCAATCCCTTTAGT 57.415 45.000 2.77 0.00 0.00 2.24
756 765 3.775261 AAAATGTGCTGCAATCCCTTT 57.225 38.095 2.77 0.00 0.00 3.11
760 769 8.870160 TTATACATAAAAATGTGCTGCAATCC 57.130 30.769 2.77 0.00 36.08 3.01
799 808 2.159627 CACTGTTGGTAACCGAGAATGC 59.840 50.000 0.00 0.00 0.00 3.56
811 820 3.137544 TCCATAGGTTCAACACTGTTGGT 59.862 43.478 19.60 7.02 0.00 3.67
812 821 3.750371 TCCATAGGTTCAACACTGTTGG 58.250 45.455 19.60 4.30 0.00 3.77
816 825 2.742053 CGGTTCCATAGGTTCAACACTG 59.258 50.000 0.00 0.00 0.00 3.66
820 829 3.816523 TCAAACGGTTCCATAGGTTCAAC 59.183 43.478 0.00 0.00 0.00 3.18
843 852 2.526304 TCTTCAAACTCCACAGTCCG 57.474 50.000 0.00 0.00 29.93 4.79
847 856 3.378112 TGCAAGTTCTTCAAACTCCACAG 59.622 43.478 0.00 0.00 0.00 3.66
870 879 1.601419 CTCGAACGGCCTTCAGGGTA 61.601 60.000 0.00 0.00 37.43 3.69
873 882 1.945354 TAGCTCGAACGGCCTTCAGG 61.945 60.000 0.00 1.17 38.53 3.86
882 891 4.322804 ACGTAAATTTCACTAGCTCGAACG 59.677 41.667 0.00 0.00 0.00 3.95
951 960 0.044855 AGTGGATGCTCCTTACCCCT 59.955 55.000 4.21 0.00 37.46 4.79
995 1004 1.736681 GTGAGAGCTGGTGCATCTTTC 59.263 52.381 0.00 0.00 42.74 2.62
1042 1051 0.694771 TCAAGCTGGAGCACCTCATT 59.305 50.000 0.71 0.00 45.16 2.57
1089 1098 1.718396 GCCCTGCAAAAATGAGCTTC 58.282 50.000 0.00 0.00 0.00 3.86
1136 1145 6.608405 TGCATCTCCATGGTTTGAGAAATATT 59.392 34.615 12.58 0.00 40.75 1.28
1185 1194 1.671742 GTTCTCCACGAGCTGGGAA 59.328 57.895 0.00 0.00 41.06 3.97
1406 1415 1.963985 AGGGATGCTCTCCAGTTCTT 58.036 50.000 7.98 0.00 46.98 2.52
1407 1416 2.292521 TGTAGGGATGCTCTCCAGTTCT 60.293 50.000 7.98 0.00 46.98 3.01
1414 1423 1.365633 CGCCTGTAGGGATGCTCTC 59.634 63.158 0.00 0.00 37.23 3.20
1417 1426 1.221840 CAACGCCTGTAGGGATGCT 59.778 57.895 0.00 0.00 37.23 3.79
1418 1427 0.392461 TTCAACGCCTGTAGGGATGC 60.392 55.000 0.00 0.00 37.23 3.91
1473 1490 6.773976 TTCCTTTCGAAATTAGGATGCATT 57.226 33.333 15.99 0.00 37.87 3.56
1529 1549 0.039437 CCGTATACTGTAGCGGGCTG 60.039 60.000 19.44 0.00 40.45 4.85
1535 1555 6.252228 GTGTTTCAGTTACCGTATACTGTAGC 59.748 42.308 11.63 11.63 41.87 3.58
1560 1585 6.893583 ACATAATATATTGGCTAGCTGAGGG 58.106 40.000 15.72 0.00 0.00 4.30
1604 1630 0.321475 TGGTGATTGAGCACGCATCA 60.321 50.000 0.00 0.00 39.66 3.07
1739 5474 5.817296 TCCATTGCACAACAGAGATGTATAC 59.183 40.000 0.00 0.00 0.00 1.47
1824 5566 5.410067 CCATGCCTTATTACAAACCAGTTG 58.590 41.667 0.00 0.00 43.43 3.16
1978 5734 7.870954 AGTATTGAACATGTGTCGAGAAAGTAA 59.129 33.333 0.00 0.00 0.00 2.24
1984 5740 6.753107 TCTAGTATTGAACATGTGTCGAGA 57.247 37.500 0.00 0.00 0.00 4.04
2003 5759 6.072673 AGTGGCAAATAAGGTTCGTTTTCTAG 60.073 38.462 0.00 0.00 0.00 2.43
2004 5760 5.766174 AGTGGCAAATAAGGTTCGTTTTCTA 59.234 36.000 0.00 0.00 0.00 2.10
2005 5761 4.583073 AGTGGCAAATAAGGTTCGTTTTCT 59.417 37.500 0.00 0.00 0.00 2.52
2067 5835 3.264897 GCAGCCGCGAACGATGAT 61.265 61.111 8.23 0.00 43.93 2.45
2106 5874 4.450419 CAGACAAGAGCTAAAAGACACTGG 59.550 45.833 0.00 0.00 0.00 4.00
2128 5897 9.797642 ACATGTCATAAAGCATATATTTCTCCA 57.202 29.630 0.00 0.00 0.00 3.86
2138 5916 9.336171 TGCATAAGTTACATGTCATAAAGCATA 57.664 29.630 0.00 0.00 0.00 3.14
2220 6152 0.953471 TGGATACACAGCGCACCAAC 60.953 55.000 11.47 0.00 46.17 3.77
2221 6153 1.373059 TGGATACACAGCGCACCAA 59.627 52.632 11.47 0.00 46.17 3.67
2222 6154 3.064416 TGGATACACAGCGCACCA 58.936 55.556 11.47 4.38 46.17 4.17
2228 6160 3.781841 TGCAAGGCATTGGATACACAGC 61.782 50.000 13.70 0.00 39.61 4.40
2289 6434 4.264253 CCTATTGCAATGTCTCTCACCAA 58.736 43.478 22.27 0.00 0.00 3.67
2308 6455 6.614087 ACAAGTGCTACTGAATAATACCCCTA 59.386 38.462 0.00 0.00 0.00 3.53
2316 6463 4.286032 ACCTGGACAAGTGCTACTGAATAA 59.714 41.667 0.00 0.00 0.00 1.40
2349 6496 9.745018 CTAGACCATTTCCCAATTCACATATAT 57.255 33.333 0.00 0.00 0.00 0.86
2350 6497 8.723365 ACTAGACCATTTCCCAATTCACATATA 58.277 33.333 0.00 0.00 0.00 0.86
2353 6500 5.653769 CACTAGACCATTTCCCAATTCACAT 59.346 40.000 0.00 0.00 0.00 3.21
2365 6512 3.308188 GCAACCCTACCACTAGACCATTT 60.308 47.826 0.00 0.00 0.00 2.32
2402 6549 2.080286 TTCGAGCAACTCTGGTTAGC 57.920 50.000 0.00 0.00 33.88 3.09
2416 6563 2.093216 GCTTGTGGCAGGATTCGAG 58.907 57.895 0.00 0.00 41.35 4.04
2458 6605 0.824759 AAGCCGCACTTCCTACCTAG 59.175 55.000 0.00 0.00 30.77 3.02
2459 6606 0.535335 CAAGCCGCACTTCCTACCTA 59.465 55.000 0.00 0.00 36.04 3.08
2460 6607 1.296715 CAAGCCGCACTTCCTACCT 59.703 57.895 0.00 0.00 36.04 3.08
2461 6608 2.399356 GCAAGCCGCACTTCCTACC 61.399 63.158 0.00 0.00 41.79 3.18
2462 6609 2.399356 GGCAAGCCGCACTTCCTAC 61.399 63.158 0.00 0.00 45.17 3.18
2463 6610 2.046314 GGCAAGCCGCACTTCCTA 60.046 61.111 0.00 0.00 45.17 2.94
2494 6641 4.814294 GACAGTACCCGGCAGCGG 62.814 72.222 0.00 0.00 0.00 5.52
2495 6642 2.011741 TATGACAGTACCCGGCAGCG 62.012 60.000 0.00 0.00 0.00 5.18
2496 6643 0.393077 ATATGACAGTACCCGGCAGC 59.607 55.000 0.00 0.00 0.00 5.25
2497 6644 1.000955 GGATATGACAGTACCCGGCAG 59.999 57.143 0.00 0.00 0.00 4.85
2498 6645 1.045407 GGATATGACAGTACCCGGCA 58.955 55.000 0.00 0.00 0.00 5.69
2499 6646 1.045407 TGGATATGACAGTACCCGGC 58.955 55.000 0.00 0.00 0.00 6.13
2500 6647 3.578716 AGATTGGATATGACAGTACCCGG 59.421 47.826 0.00 0.00 0.00 5.73
2501 6648 4.873746 AGATTGGATATGACAGTACCCG 57.126 45.455 0.00 0.00 0.00 5.28
2529 6676 9.064706 CACTTCTTGCAATTCTCCTATGATTAT 57.935 33.333 0.00 0.00 0.00 1.28
2530 6677 8.049117 ACACTTCTTGCAATTCTCCTATGATTA 58.951 33.333 0.00 0.00 0.00 1.75
2531 6678 6.888632 ACACTTCTTGCAATTCTCCTATGATT 59.111 34.615 0.00 0.00 0.00 2.57
2532 6679 6.421485 ACACTTCTTGCAATTCTCCTATGAT 58.579 36.000 0.00 0.00 0.00 2.45
2533 6680 5.809001 ACACTTCTTGCAATTCTCCTATGA 58.191 37.500 0.00 0.00 0.00 2.15
2534 6681 6.595326 TGTACACTTCTTGCAATTCTCCTATG 59.405 38.462 0.00 0.00 0.00 2.23
2535 6682 6.711277 TGTACACTTCTTGCAATTCTCCTAT 58.289 36.000 0.00 0.00 0.00 2.57
2536 6683 6.109156 TGTACACTTCTTGCAATTCTCCTA 57.891 37.500 0.00 0.00 0.00 2.94
2537 6684 4.973168 TGTACACTTCTTGCAATTCTCCT 58.027 39.130 0.00 0.00 0.00 3.69
2538 6685 5.008613 TGTTGTACACTTCTTGCAATTCTCC 59.991 40.000 0.00 0.00 0.00 3.71
2539 6686 6.060028 TGTTGTACACTTCTTGCAATTCTC 57.940 37.500 0.00 0.00 0.00 2.87
2540 6687 6.639632 ATGTTGTACACTTCTTGCAATTCT 57.360 33.333 0.00 0.00 0.00 2.40
2541 6688 8.023128 ACATATGTTGTACACTTCTTGCAATTC 58.977 33.333 1.41 0.00 36.57 2.17
2542 6689 7.885297 ACATATGTTGTACACTTCTTGCAATT 58.115 30.769 1.41 0.00 36.57 2.32
2543 6690 7.452880 ACATATGTTGTACACTTCTTGCAAT 57.547 32.000 1.41 0.00 36.57 3.56
2544 6691 6.875948 ACATATGTTGTACACTTCTTGCAA 57.124 33.333 1.41 0.00 36.57 4.08
2545 6692 6.092122 GCTACATATGTTGTACACTTCTTGCA 59.908 38.462 14.77 0.00 39.87 4.08
2546 6693 6.456988 GGCTACATATGTTGTACACTTCTTGC 60.457 42.308 14.77 0.00 39.87 4.01
2547 6694 6.593770 TGGCTACATATGTTGTACACTTCTTG 59.406 38.462 14.77 0.00 39.87 3.02
2548 6695 6.707290 TGGCTACATATGTTGTACACTTCTT 58.293 36.000 14.77 0.00 39.87 2.52
2549 6696 6.154534 TCTGGCTACATATGTTGTACACTTCT 59.845 38.462 14.77 0.00 39.87 2.85
2550 6697 6.338146 TCTGGCTACATATGTTGTACACTTC 58.662 40.000 14.77 0.00 39.87 3.01
2551 6698 6.154534 TCTCTGGCTACATATGTTGTACACTT 59.845 38.462 14.77 0.00 39.87 3.16
2552 6699 5.656859 TCTCTGGCTACATATGTTGTACACT 59.343 40.000 14.77 0.00 39.87 3.55
2553 6700 5.902681 TCTCTGGCTACATATGTTGTACAC 58.097 41.667 14.77 5.30 39.87 2.90
2554 6701 6.538945 TTCTCTGGCTACATATGTTGTACA 57.461 37.500 14.77 13.61 39.87 2.90
2555 6702 7.549488 ACTTTTCTCTGGCTACATATGTTGTAC 59.451 37.037 14.77 9.91 39.87 2.90
2556 6703 7.620880 ACTTTTCTCTGGCTACATATGTTGTA 58.379 34.615 14.77 5.12 39.87 2.41
2557 6704 6.476378 ACTTTTCTCTGGCTACATATGTTGT 58.524 36.000 14.77 0.00 42.62 3.32
2558 6705 6.992063 ACTTTTCTCTGGCTACATATGTTG 57.008 37.500 14.77 13.38 0.00 3.33
2560 6707 9.988815 CTATAACTTTTCTCTGGCTACATATGT 57.011 33.333 13.93 13.93 0.00 2.29
2561 6708 8.930760 GCTATAACTTTTCTCTGGCTACATATG 58.069 37.037 0.00 0.00 0.00 1.78
2562 6709 8.651389 TGCTATAACTTTTCTCTGGCTACATAT 58.349 33.333 0.00 0.00 0.00 1.78
2563 6710 8.018537 TGCTATAACTTTTCTCTGGCTACATA 57.981 34.615 0.00 0.00 0.00 2.29
2564 6711 6.889198 TGCTATAACTTTTCTCTGGCTACAT 58.111 36.000 0.00 0.00 0.00 2.29
2565 6712 6.294361 TGCTATAACTTTTCTCTGGCTACA 57.706 37.500 0.00 0.00 0.00 2.74
2566 6713 7.611213 TTTGCTATAACTTTTCTCTGGCTAC 57.389 36.000 0.00 0.00 0.00 3.58
2567 6714 7.148239 GCTTTTGCTATAACTTTTCTCTGGCTA 60.148 37.037 0.00 0.00 43.35 3.93
2568 6715 6.349694 GCTTTTGCTATAACTTTTCTCTGGCT 60.350 38.462 0.00 0.00 43.35 4.75
2569 6716 5.802451 GCTTTTGCTATAACTTTTCTCTGGC 59.198 40.000 0.00 0.00 43.35 4.85
2587 6734 3.062504 GCAACAACAGTTCCTTGCTTTTG 59.937 43.478 14.42 0.00 36.81 2.44
2588 6735 3.261580 GCAACAACAGTTCCTTGCTTTT 58.738 40.909 14.42 0.00 36.81 2.27
2589 6736 2.233431 TGCAACAACAGTTCCTTGCTTT 59.767 40.909 19.45 0.00 39.81 3.51
2590 6737 1.824230 TGCAACAACAGTTCCTTGCTT 59.176 42.857 19.45 0.00 39.81 3.91
2591 6738 1.473258 TGCAACAACAGTTCCTTGCT 58.527 45.000 19.45 0.00 39.81 3.91
2592 6739 2.514205 ATGCAACAACAGTTCCTTGC 57.486 45.000 14.69 14.69 39.60 4.01
2593 6740 5.437289 TCTTATGCAACAACAGTTCCTTG 57.563 39.130 0.00 0.00 0.00 3.61
2594 6741 7.759489 TTATCTTATGCAACAACAGTTCCTT 57.241 32.000 0.00 0.00 0.00 3.36
2595 6742 7.759489 TTTATCTTATGCAACAACAGTTCCT 57.241 32.000 0.00 0.00 0.00 3.36
2596 6743 8.028938 ACATTTATCTTATGCAACAACAGTTCC 58.971 33.333 0.00 0.00 0.00 3.62
2597 6744 8.970691 ACATTTATCTTATGCAACAACAGTTC 57.029 30.769 0.00 0.00 0.00 3.01
2600 6747 8.961092 GCATACATTTATCTTATGCAACAACAG 58.039 33.333 7.72 0.00 44.98 3.16
2601 6748 7.920151 GGCATACATTTATCTTATGCAACAACA 59.080 33.333 13.27 0.00 46.64 3.33
2602 6749 8.137437 AGGCATACATTTATCTTATGCAACAAC 58.863 33.333 13.27 0.00 46.64 3.32
2603 6750 8.236585 AGGCATACATTTATCTTATGCAACAA 57.763 30.769 13.27 0.00 46.64 2.83
2604 6751 7.822161 AGGCATACATTTATCTTATGCAACA 57.178 32.000 13.27 0.00 46.64 3.33
2605 6752 9.831737 CTTAGGCATACATTTATCTTATGCAAC 57.168 33.333 13.27 0.00 46.64 4.17
2606 6753 9.573166 ACTTAGGCATACATTTATCTTATGCAA 57.427 29.630 13.27 1.74 46.64 4.08
2607 6754 9.573166 AACTTAGGCATACATTTATCTTATGCA 57.427 29.630 13.27 0.00 46.64 3.96
2618 6765 8.190784 GCTTTGTATTGAACTTAGGCATACATT 58.809 33.333 0.00 0.00 0.00 2.71
2619 6766 7.339212 TGCTTTGTATTGAACTTAGGCATACAT 59.661 33.333 0.00 0.00 0.00 2.29
2620 6767 6.657117 TGCTTTGTATTGAACTTAGGCATACA 59.343 34.615 0.00 0.00 0.00 2.29
2621 6768 7.083875 TGCTTTGTATTGAACTTAGGCATAC 57.916 36.000 0.00 0.00 0.00 2.39
2622 6769 7.201812 CCATGCTTTGTATTGAACTTAGGCATA 60.202 37.037 0.00 0.00 35.53 3.14
2623 6770 6.406177 CCATGCTTTGTATTGAACTTAGGCAT 60.406 38.462 0.00 0.00 36.95 4.40
2624 6771 5.105797 CCATGCTTTGTATTGAACTTAGGCA 60.106 40.000 0.00 0.00 32.87 4.75
2625 6772 5.125417 TCCATGCTTTGTATTGAACTTAGGC 59.875 40.000 0.00 0.00 0.00 3.93
2626 6773 6.599244 TCTCCATGCTTTGTATTGAACTTAGG 59.401 38.462 0.00 0.00 0.00 2.69
2627 6774 7.615582 TCTCCATGCTTTGTATTGAACTTAG 57.384 36.000 0.00 0.00 0.00 2.18
2628 6775 8.579850 AATCTCCATGCTTTGTATTGAACTTA 57.420 30.769 0.00 0.00 0.00 2.24
2629 6776 7.177216 TGAATCTCCATGCTTTGTATTGAACTT 59.823 33.333 0.00 0.00 0.00 2.66
2630 6777 6.660521 TGAATCTCCATGCTTTGTATTGAACT 59.339 34.615 0.00 0.00 0.00 3.01
2631 6778 6.855836 TGAATCTCCATGCTTTGTATTGAAC 58.144 36.000 0.00 0.00 0.00 3.18
2632 6779 7.465353 TTGAATCTCCATGCTTTGTATTGAA 57.535 32.000 0.00 0.00 0.00 2.69
2633 6780 7.649533 ATTGAATCTCCATGCTTTGTATTGA 57.350 32.000 0.00 0.00 0.00 2.57
2634 6781 8.600625 CAAATTGAATCTCCATGCTTTGTATTG 58.399 33.333 0.00 0.00 0.00 1.90
2635 6782 8.316214 ACAAATTGAATCTCCATGCTTTGTATT 58.684 29.630 0.00 0.00 34.75 1.89
2636 6783 7.844009 ACAAATTGAATCTCCATGCTTTGTAT 58.156 30.769 0.00 0.00 34.75 2.29
2637 6784 7.230849 ACAAATTGAATCTCCATGCTTTGTA 57.769 32.000 0.00 0.00 34.75 2.41
2638 6785 6.105397 ACAAATTGAATCTCCATGCTTTGT 57.895 33.333 0.00 0.00 32.43 2.83
2639 6786 6.532657 GGTACAAATTGAATCTCCATGCTTTG 59.467 38.462 0.00 0.00 0.00 2.77
2640 6787 6.211184 TGGTACAAATTGAATCTCCATGCTTT 59.789 34.615 0.00 0.00 31.92 3.51
2641 6788 5.716228 TGGTACAAATTGAATCTCCATGCTT 59.284 36.000 0.00 0.00 31.92 3.91
2642 6789 5.263599 TGGTACAAATTGAATCTCCATGCT 58.736 37.500 0.00 0.00 31.92 3.79
2643 6790 5.581126 TGGTACAAATTGAATCTCCATGC 57.419 39.130 0.00 0.00 31.92 4.06
2659 6806 6.037391 GCAACTACTGTGTTACTTTTGGTACA 59.963 38.462 0.00 0.00 0.00 2.90
2660 6807 6.424683 GCAACTACTGTGTTACTTTTGGTAC 58.575 40.000 0.00 0.00 0.00 3.34
2661 6808 5.528320 GGCAACTACTGTGTTACTTTTGGTA 59.472 40.000 0.00 0.00 0.00 3.25
2662 6809 4.337274 GGCAACTACTGTGTTACTTTTGGT 59.663 41.667 0.00 0.00 0.00 3.67
2663 6810 4.855531 GGCAACTACTGTGTTACTTTTGG 58.144 43.478 0.00 0.00 0.00 3.28


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

AutoCloner maintained by Alex Coulton.