Multiple sequence alignment - TraesCS1D01G209800

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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 TraesCS1D01G209800 chr1D 100.000 2628 0 0 1 2628 295541123 295543750 0.000000e+00 4854.0
1 TraesCS1D01G209800 chr1A 92.491 2397 133 24 1 2387 368802047 368804406 0.000000e+00 3386.0
2 TraesCS1D01G209800 chr1B 93.750 1872 92 14 1 1871 397056623 397058470 0.000000e+00 2785.0
3 TraesCS1D01G209800 chr4D 77.644 416 63 20 1995 2387 300242790 300243198 2.630000e-55 226.0
4 TraesCS1D01G209800 chr4D 74.799 373 74 14 2001 2364 370364166 370363805 1.630000e-32 150.0
5 TraesCS1D01G209800 chr5A 86.631 187 20 5 2088 2271 268602010 268601826 4.440000e-48 202.0
6 TraesCS1D01G209800 chr5A 78.652 267 45 11 2024 2281 16529566 16529303 1.620000e-37 167.0
7 TraesCS1D01G209800 chr5D 84.293 191 26 4 2088 2276 207995657 207995469 1.610000e-42 183.0
8 TraesCS1D01G209800 chr5D 82.723 191 29 4 2088 2276 207966566 207966378 1.620000e-37 167.0
9 TraesCS1D01G209800 chr5D 80.833 120 20 3 2272 2389 258280956 258281074 1.000000e-14 91.6
10 TraesCS1D01G209800 chr5B 74.515 412 82 13 2001 2389 292494888 292495299 9.740000e-35 158.0
11 TraesCS1D01G209800 chr7D 74.457 368 72 17 2027 2386 2647506 2647153 3.530000e-29 139.0
12 TraesCS1D01G209800 chr3D 83.333 150 24 1 2024 2172 126250568 126250717 1.270000e-28 137.0
13 TraesCS1D01G209800 chr3D 81.081 148 27 1 2124 2270 114836216 114836363 1.650000e-22 117.0
14 TraesCS1D01G209800 chr2D 90.909 44 1 3 1930 1971 543527243 543527201 3.650000e-04 56.5
15 TraesCS1D01G209800 chr6B 94.286 35 0 2 1936 1968 337505149 337505115 5.000000e-03 52.8
16 TraesCS1D01G209800 chr2B 96.875 32 0 1 1930 1961 97223052 97223022 5.000000e-03 52.8


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 TraesCS1D01G209800 chr1D 295541123 295543750 2627 False 4854 4854 100.000 1 2628 1 chr1D.!!$F1 2627
1 TraesCS1D01G209800 chr1A 368802047 368804406 2359 False 3386 3386 92.491 1 2387 1 chr1A.!!$F1 2386
2 TraesCS1D01G209800 chr1B 397056623 397058470 1847 False 2785 2785 93.750 1 1871 1 chr1B.!!$F1 1870

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
438 439 0.250467 TGTGGGCTCTTGCTGTCTTC 60.25 55.0 0.0 0.0 39.59 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2085 2100 0.170339 GCGGCAGGGTGTTTAATGTC 59.83 55.0 0.0 0.0 0.0 3.06 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
345 346 3.742248 GAGGTAGGCGGAGAGGGCT 62.742 68.421 0.00 0.00 45.70 5.19
403 404 2.363018 TGAGCCTGTCGAGGAGGG 60.363 66.667 11.55 1.34 42.93 4.30
406 407 4.779733 GCCTGTCGAGGAGGGGGA 62.780 72.222 11.55 0.00 42.93 4.81
438 439 0.250467 TGTGGGCTCTTGCTGTCTTC 60.250 55.000 0.00 0.00 39.59 2.87
440 441 0.250467 TGGGCTCTTGCTGTCTTCAC 60.250 55.000 0.00 0.00 39.59 3.18
540 541 3.624861 CCAGTTCGGATTCTTCTCCATTG 59.375 47.826 0.00 0.00 36.56 2.82
543 544 1.134098 TCGGATTCTTCTCCATTGCCC 60.134 52.381 0.00 0.00 34.78 5.36
549 550 2.615227 CTTCTCCATTGCCCCCTCGG 62.615 65.000 0.00 0.00 0.00 4.63
550 551 3.089874 CTCCATTGCCCCCTCGGA 61.090 66.667 0.00 0.00 0.00 4.55
553 554 1.076044 CCATTGCCCCCTCGGATTT 60.076 57.895 0.00 0.00 0.00 2.17
554 555 0.687427 CCATTGCCCCCTCGGATTTT 60.687 55.000 0.00 0.00 0.00 1.82
672 673 1.284657 GAGATGCGTGTGATGACCAG 58.715 55.000 0.00 0.00 0.00 4.00
693 694 2.747460 CTGGCATGTGGGACCGTG 60.747 66.667 0.00 0.00 0.00 4.94
778 779 2.146342 CTGTCGTGGCTGAAACAAGAT 58.854 47.619 0.00 0.00 0.00 2.40
783 784 2.508526 GTGGCTGAAACAAGATGAGGT 58.491 47.619 0.00 0.00 0.00 3.85
864 866 4.351938 TTGGGCTCACGTCGACCG 62.352 66.667 10.58 7.90 44.03 4.79
958 960 1.825191 CTCACCGGCCCATCCATTG 60.825 63.158 0.00 0.00 34.01 2.82
992 994 3.246463 GCTAGCTCGCTAATTGGTCTTTC 59.754 47.826 7.70 0.00 0.00 2.62
999 1001 2.027688 GCTAATTGGTCTTTCGTCGACG 59.972 50.000 31.30 31.30 41.45 5.12
1157 1159 1.226888 GGAACGCCTACGCCTACAG 60.227 63.158 0.00 0.00 45.53 2.74
1211 1213 9.016438 CCTGAACCCTTCTATACTTATCTCTAC 57.984 40.741 0.00 0.00 0.00 2.59
1634 1640 0.248990 GAGCTGCTCCTGATCGAGTG 60.249 60.000 18.80 0.00 32.11 3.51
1636 1642 0.527385 GCTGCTCCTGATCGAGTGAC 60.527 60.000 0.00 0.00 32.11 3.67
1637 1643 0.102120 CTGCTCCTGATCGAGTGACC 59.898 60.000 0.00 0.00 32.11 4.02
1638 1644 0.323816 TGCTCCTGATCGAGTGACCT 60.324 55.000 0.00 0.00 32.11 3.85
1639 1645 0.383949 GCTCCTGATCGAGTGACCTC 59.616 60.000 0.00 0.00 32.11 3.85
1640 1646 2.021723 GCTCCTGATCGAGTGACCTCT 61.022 57.143 0.00 0.00 35.43 3.69
1641 1647 1.946768 CTCCTGATCGAGTGACCTCTC 59.053 57.143 0.00 0.00 35.43 3.20
1660 1670 3.482783 GTCTCTGCGCGCTGGAAC 61.483 66.667 33.04 26.23 0.00 3.62
1807 1817 6.542005 TGATTTGTACTGTCAATGACTGTTGT 59.458 34.615 26.39 15.82 40.79 3.32
1856 1868 8.771920 TGTTTCACAACATCTGTTATACCTAG 57.228 34.615 0.00 0.00 38.03 3.02
1892 1907 3.948719 GTGCGTCCCCAACCCTCA 61.949 66.667 0.00 0.00 0.00 3.86
1896 1911 1.454539 CGTCCCCAACCCTCAAACT 59.545 57.895 0.00 0.00 0.00 2.66
1899 1914 0.930726 TCCCCAACCCTCAAACTGTT 59.069 50.000 0.00 0.00 0.00 3.16
1900 1915 1.133606 TCCCCAACCCTCAAACTGTTC 60.134 52.381 0.00 0.00 0.00 3.18
1930 1945 3.349006 CAACGCGGCAGTGAAGCT 61.349 61.111 12.47 0.00 34.17 3.74
1938 1953 4.126390 CAGTGAAGCTGCGCGTCG 62.126 66.667 8.43 0.00 39.73 5.12
1947 1962 3.707156 CTGCGCGTCGGCATTGAAG 62.707 63.158 8.43 0.00 42.99 3.02
2004 2019 2.879462 GTGTACGCGCCTTCTCCG 60.879 66.667 5.73 0.00 0.00 4.63
2010 2025 2.047179 GCGCCTTCTCCGTCCTTT 60.047 61.111 0.00 0.00 0.00 3.11
2018 2033 3.188667 CCTTCTCCGTCCTTTAAACAAGC 59.811 47.826 0.00 0.00 0.00 4.01
2021 2036 0.589223 CCGTCCTTTAAACAAGCGCA 59.411 50.000 11.47 0.00 0.00 6.09
2023 2038 1.263217 CGTCCTTTAAACAAGCGCAGT 59.737 47.619 11.47 4.59 0.00 4.40
2028 2043 0.317436 TTAAACAAGCGCAGTTGCCG 60.317 50.000 17.21 0.00 37.91 5.69
2038 2053 1.019805 GCAGTTGCCGAGGAACCTAC 61.020 60.000 5.02 0.00 34.31 3.18
2077 2092 1.890510 GCCACCCGTTCGTTTGTCT 60.891 57.895 0.00 0.00 0.00 3.41
2078 2093 1.938861 CCACCCGTTCGTTTGTCTG 59.061 57.895 0.00 0.00 0.00 3.51
2079 2094 1.278637 CACCCGTTCGTTTGTCTGC 59.721 57.895 0.00 0.00 0.00 4.26
2080 2095 1.145377 ACCCGTTCGTTTGTCTGCT 59.855 52.632 0.00 0.00 0.00 4.24
2081 2096 0.390124 ACCCGTTCGTTTGTCTGCTA 59.610 50.000 0.00 0.00 0.00 3.49
2082 2097 1.068474 CCCGTTCGTTTGTCTGCTAG 58.932 55.000 0.00 0.00 0.00 3.42
2083 2098 0.438830 CCGTTCGTTTGTCTGCTAGC 59.561 55.000 8.10 8.10 0.00 3.42
2084 2099 1.136690 CGTTCGTTTGTCTGCTAGCA 58.863 50.000 18.22 18.22 0.00 3.49
2085 2100 1.125021 CGTTCGTTTGTCTGCTAGCAG 59.875 52.381 34.48 34.48 44.86 4.24
2097 2112 4.253685 TCTGCTAGCAGACATTAAACACC 58.746 43.478 37.64 0.00 46.80 4.16
2098 2113 3.343617 TGCTAGCAGACATTAAACACCC 58.656 45.455 14.93 0.00 0.00 4.61
2099 2114 3.009033 TGCTAGCAGACATTAAACACCCT 59.991 43.478 14.93 0.00 0.00 4.34
2100 2115 3.375299 GCTAGCAGACATTAAACACCCTG 59.625 47.826 10.63 0.00 0.00 4.45
2101 2116 2.162681 AGCAGACATTAAACACCCTGC 58.837 47.619 0.00 0.00 45.09 4.85
2102 2117 1.202348 GCAGACATTAAACACCCTGCC 59.798 52.381 0.00 0.00 40.58 4.85
2123 2138 0.179073 CTTGGCCTGGTATCCGTCTG 60.179 60.000 3.32 0.00 0.00 3.51
2134 2149 5.045215 TGGTATCCGTCTGCTATTTAAACG 58.955 41.667 0.00 0.00 0.00 3.60
2169 2184 3.740128 ATCGGCATCACACCTCCGC 62.740 63.158 0.00 0.00 41.49 5.54
2184 2199 3.213402 CGCTCCCGGTCTCCTCTC 61.213 72.222 0.00 0.00 0.00 3.20
2196 2211 0.177604 CTCCTCTCTGCACCACATCC 59.822 60.000 0.00 0.00 0.00 3.51
2263 2278 0.249405 GCCGAATCAGGAGCTCTCTG 60.249 60.000 20.19 20.19 0.00 3.35
2309 2324 4.775746 CTTGTCGACGAGCTCTCC 57.224 61.111 19.63 2.06 0.00 3.71
2321 2336 4.504916 CTCTCCGGAGTGCAGCGG 62.505 72.222 30.17 3.85 35.03 5.52
2356 2371 1.084370 GGAAGAGGCGTCCAACGATG 61.084 60.000 2.06 0.00 46.05 3.84
2359 2374 1.215647 GAGGCGTCCAACGATGAGT 59.784 57.895 3.28 0.00 46.05 3.41
2360 2375 0.454600 GAGGCGTCCAACGATGAGTA 59.545 55.000 3.28 0.00 46.05 2.59
2394 2409 3.556306 CCGGTCCATGCCCCGTAT 61.556 66.667 16.90 0.00 42.67 3.06
2395 2410 2.030562 CGGTCCATGCCCCGTATC 59.969 66.667 11.83 0.00 39.38 2.24
2396 2411 2.802724 CGGTCCATGCCCCGTATCA 61.803 63.158 11.83 0.00 39.38 2.15
2397 2412 1.071471 GGTCCATGCCCCGTATCAG 59.929 63.158 0.00 0.00 0.00 2.90
2398 2413 1.696097 GGTCCATGCCCCGTATCAGT 61.696 60.000 0.00 0.00 0.00 3.41
2399 2414 0.532862 GTCCATGCCCCGTATCAGTG 60.533 60.000 0.00 0.00 0.00 3.66
2400 2415 0.980754 TCCATGCCCCGTATCAGTGT 60.981 55.000 0.00 0.00 0.00 3.55
2401 2416 0.532862 CCATGCCCCGTATCAGTGTC 60.533 60.000 0.00 0.00 0.00 3.67
2402 2417 0.532862 CATGCCCCGTATCAGTGTCC 60.533 60.000 0.00 0.00 0.00 4.02
2403 2418 2.028125 ATGCCCCGTATCAGTGTCCG 62.028 60.000 0.00 0.00 0.00 4.79
2404 2419 2.420568 GCCCCGTATCAGTGTCCGA 61.421 63.158 0.00 0.00 0.00 4.55
2405 2420 1.952102 GCCCCGTATCAGTGTCCGAA 61.952 60.000 0.00 0.00 0.00 4.30
2406 2421 0.179119 CCCCGTATCAGTGTCCGAAC 60.179 60.000 0.00 0.00 0.00 3.95
2407 2422 0.179119 CCCGTATCAGTGTCCGAACC 60.179 60.000 0.00 0.00 0.00 3.62
2408 2423 0.179119 CCGTATCAGTGTCCGAACCC 60.179 60.000 0.00 0.00 0.00 4.11
2409 2424 0.815734 CGTATCAGTGTCCGAACCCT 59.184 55.000 0.00 0.00 0.00 4.34
2410 2425 1.469251 CGTATCAGTGTCCGAACCCTG 60.469 57.143 0.00 0.00 32.71 4.45
2411 2426 1.549170 GTATCAGTGTCCGAACCCTGT 59.451 52.381 0.00 0.00 33.17 4.00
2412 2427 0.321671 ATCAGTGTCCGAACCCTGTG 59.678 55.000 0.00 0.00 33.17 3.66
2413 2428 1.046472 TCAGTGTCCGAACCCTGTGT 61.046 55.000 0.00 0.00 33.17 3.72
2414 2429 0.179056 CAGTGTCCGAACCCTGTGTT 60.179 55.000 0.00 0.00 40.81 3.32
2415 2430 0.179056 AGTGTCCGAACCCTGTGTTG 60.179 55.000 0.00 0.00 37.29 3.33
2416 2431 1.525077 TGTCCGAACCCTGTGTTGC 60.525 57.895 0.00 0.00 37.29 4.17
2417 2432 2.280524 TCCGAACCCTGTGTTGCG 60.281 61.111 0.00 0.00 37.29 4.85
2418 2433 3.353836 CCGAACCCTGTGTTGCGG 61.354 66.667 0.00 0.00 39.49 5.69
2419 2434 4.025401 CGAACCCTGTGTTGCGGC 62.025 66.667 0.00 0.00 37.29 6.53
2420 2435 2.594592 GAACCCTGTGTTGCGGCT 60.595 61.111 0.00 0.00 37.29 5.52
2421 2436 1.302192 GAACCCTGTGTTGCGGCTA 60.302 57.895 0.00 0.00 37.29 3.93
2422 2437 1.574702 GAACCCTGTGTTGCGGCTAC 61.575 60.000 7.63 7.63 37.29 3.58
2423 2438 2.746277 CCCTGTGTTGCGGCTACC 60.746 66.667 11.85 4.45 0.00 3.18
2424 2439 2.746277 CCTGTGTTGCGGCTACCC 60.746 66.667 11.85 1.00 0.00 3.69
2425 2440 2.031919 CTGTGTTGCGGCTACCCA 59.968 61.111 11.85 5.87 0.00 4.51
2426 2441 1.599518 CTGTGTTGCGGCTACCCAA 60.600 57.895 11.85 0.00 0.00 4.12
2427 2442 1.152943 TGTGTTGCGGCTACCCAAA 60.153 52.632 11.85 0.00 0.00 3.28
2428 2443 1.284715 GTGTTGCGGCTACCCAAAC 59.715 57.895 11.85 2.16 0.00 2.93
2429 2444 2.255172 TGTTGCGGCTACCCAAACG 61.255 57.895 11.85 0.00 32.58 3.60
2430 2445 2.111460 TTGCGGCTACCCAAACGT 59.889 55.556 0.00 0.00 0.00 3.99
2431 2446 2.255172 TTGCGGCTACCCAAACGTG 61.255 57.895 0.00 0.00 0.00 4.49
2432 2447 3.428282 GCGGCTACCCAAACGTGG 61.428 66.667 0.00 0.00 45.53 4.94
2440 2455 3.977244 CCAAACGTGGGGCAGCAC 61.977 66.667 0.00 0.00 41.77 4.40
2441 2456 3.977244 CAAACGTGGGGCAGCACC 61.977 66.667 6.79 6.79 37.93 5.01
2461 2476 3.712881 GGCACGACCACAAGCGAC 61.713 66.667 0.00 0.00 38.86 5.19
2462 2477 4.059459 GCACGACCACAAGCGACG 62.059 66.667 0.00 0.00 0.00 5.12
2463 2478 2.657296 CACGACCACAAGCGACGT 60.657 61.111 0.00 0.00 37.68 4.34
2464 2479 2.657296 ACGACCACAAGCGACGTG 60.657 61.111 0.00 0.00 35.91 4.49
2465 2480 4.059459 CGACCACAAGCGACGTGC 62.059 66.667 0.00 0.00 46.98 5.34
2474 2489 3.712881 GCGACGTGCTGGGACAAC 61.713 66.667 0.00 0.00 38.70 3.32
2475 2490 3.403057 CGACGTGCTGGGACAACG 61.403 66.667 0.00 0.00 38.70 4.10
2476 2491 2.279918 GACGTGCTGGGACAACGT 60.280 61.111 0.00 0.00 38.70 3.99
2477 2492 2.587753 ACGTGCTGGGACAACGTG 60.588 61.111 0.00 0.00 38.70 4.49
2478 2493 2.279851 CGTGCTGGGACAACGTGA 60.280 61.111 0.00 0.00 38.70 4.35
2479 2494 2.594962 CGTGCTGGGACAACGTGAC 61.595 63.158 0.00 0.00 38.70 3.67
2480 2495 1.227556 GTGCTGGGACAACGTGACT 60.228 57.895 0.00 0.00 38.70 3.41
2481 2496 0.032952 GTGCTGGGACAACGTGACTA 59.967 55.000 0.00 0.00 38.70 2.59
2482 2497 0.317160 TGCTGGGACAACGTGACTAG 59.683 55.000 0.00 0.00 38.70 2.57
2483 2498 0.389948 GCTGGGACAACGTGACTAGG 60.390 60.000 0.00 0.00 38.70 3.02
2484 2499 0.246635 CTGGGACAACGTGACTAGGG 59.753 60.000 0.00 0.00 38.70 3.53
2485 2500 1.189524 TGGGACAACGTGACTAGGGG 61.190 60.000 0.00 0.00 31.92 4.79
2486 2501 1.190178 GGGACAACGTGACTAGGGGT 61.190 60.000 0.00 0.00 0.00 4.95
2487 2502 1.549203 GGACAACGTGACTAGGGGTA 58.451 55.000 0.00 0.00 0.00 3.69
2488 2503 1.203287 GGACAACGTGACTAGGGGTAC 59.797 57.143 0.00 0.00 0.00 3.34
2489 2504 2.165998 GACAACGTGACTAGGGGTACT 58.834 52.381 0.00 0.00 0.00 2.73
2490 2505 3.347216 GACAACGTGACTAGGGGTACTA 58.653 50.000 0.00 0.00 0.00 1.82
2491 2506 3.084786 ACAACGTGACTAGGGGTACTAC 58.915 50.000 0.00 0.00 0.00 2.73
2492 2507 2.424956 CAACGTGACTAGGGGTACTACC 59.575 54.545 0.00 0.00 37.60 3.18
2493 2508 1.635487 ACGTGACTAGGGGTACTACCA 59.365 52.381 7.57 0.00 41.02 3.25
2494 2509 2.019984 CGTGACTAGGGGTACTACCAC 58.980 57.143 7.57 3.24 43.77 4.16
2514 2529 2.333389 GGATACGACGCGATGATCTT 57.667 50.000 15.93 0.00 0.00 2.40
2515 2530 1.979469 GGATACGACGCGATGATCTTG 59.021 52.381 15.93 0.00 0.00 3.02
2516 2531 1.979469 GATACGACGCGATGATCTTGG 59.021 52.381 15.93 0.00 0.00 3.61
2517 2532 0.030235 TACGACGCGATGATCTTGGG 59.970 55.000 15.93 0.00 0.00 4.12
2518 2533 1.951130 CGACGCGATGATCTTGGGG 60.951 63.158 15.93 6.21 0.00 4.96
2519 2534 1.595382 GACGCGATGATCTTGGGGG 60.595 63.158 15.93 3.23 0.00 5.40
2520 2535 2.028125 GACGCGATGATCTTGGGGGA 62.028 60.000 15.93 0.00 0.00 4.81
2521 2536 1.301244 CGCGATGATCTTGGGGGAG 60.301 63.158 0.00 0.00 0.00 4.30
2522 2537 1.072159 GCGATGATCTTGGGGGAGG 59.928 63.158 0.00 0.00 0.00 4.30
2523 2538 1.072159 CGATGATCTTGGGGGAGGC 59.928 63.158 0.00 0.00 0.00 4.70
2524 2539 1.414061 CGATGATCTTGGGGGAGGCT 61.414 60.000 0.00 0.00 0.00 4.58
2525 2540 0.399833 GATGATCTTGGGGGAGGCTC 59.600 60.000 5.78 5.78 0.00 4.70
2526 2541 1.414061 ATGATCTTGGGGGAGGCTCG 61.414 60.000 8.69 0.00 0.00 5.03
2527 2542 1.762460 GATCTTGGGGGAGGCTCGA 60.762 63.158 8.69 0.00 0.00 4.04
2528 2543 1.753368 GATCTTGGGGGAGGCTCGAG 61.753 65.000 8.45 8.45 0.00 4.04
2529 2544 2.537714 ATCTTGGGGGAGGCTCGAGT 62.538 60.000 15.13 0.00 0.00 4.18
2530 2545 2.203938 TTGGGGGAGGCTCGAGTT 60.204 61.111 15.13 2.46 0.00 3.01
2531 2546 2.527951 CTTGGGGGAGGCTCGAGTTG 62.528 65.000 15.13 0.00 0.00 3.16
2532 2547 4.475135 GGGGGAGGCTCGAGTTGC 62.475 72.222 15.13 8.10 0.00 4.17
2533 2548 3.394836 GGGGAGGCTCGAGTTGCT 61.395 66.667 15.13 0.00 0.00 3.91
2534 2549 2.125350 GGGAGGCTCGAGTTGCTG 60.125 66.667 15.13 0.00 0.00 4.41
2535 2550 2.817396 GGAGGCTCGAGTTGCTGC 60.817 66.667 15.13 0.00 0.00 5.25
2536 2551 2.047844 GAGGCTCGAGTTGCTGCA 60.048 61.111 15.13 0.00 0.00 4.41
2537 2552 1.669115 GAGGCTCGAGTTGCTGCAA 60.669 57.895 15.13 11.69 0.00 4.08
2538 2553 1.905922 GAGGCTCGAGTTGCTGCAAC 61.906 60.000 32.31 32.31 43.83 4.17
2539 2554 2.558313 GCTCGAGTTGCTGCAACC 59.442 61.111 34.59 25.67 44.49 3.77
2540 2555 2.253758 GCTCGAGTTGCTGCAACCA 61.254 57.895 34.59 21.15 44.49 3.67
2541 2556 1.864862 CTCGAGTTGCTGCAACCAG 59.135 57.895 34.59 28.46 44.49 4.00
2585 2600 2.488820 GGTGACGGGTAGAGCGAC 59.511 66.667 0.00 0.00 0.00 5.19
2586 2601 2.099831 GTGACGGGTAGAGCGACG 59.900 66.667 0.00 0.00 0.00 5.12
2587 2602 2.359107 TGACGGGTAGAGCGACGT 60.359 61.111 0.00 0.00 42.88 4.34
2588 2603 2.402787 GACGGGTAGAGCGACGTC 59.597 66.667 5.18 5.18 46.89 4.34
2589 2604 3.431683 GACGGGTAGAGCGACGTCG 62.432 68.421 32.57 32.57 44.76 5.12
2590 2605 3.190849 CGGGTAGAGCGACGTCGA 61.191 66.667 39.74 17.73 43.02 4.20
2591 2606 2.532256 CGGGTAGAGCGACGTCGAT 61.532 63.158 39.74 35.55 43.02 3.59
2592 2607 1.009900 GGGTAGAGCGACGTCGATG 60.010 63.158 39.74 13.47 43.02 3.84
2593 2608 1.009900 GGTAGAGCGACGTCGATGG 60.010 63.158 39.74 13.08 43.02 3.51
2594 2609 1.654743 GTAGAGCGACGTCGATGGC 60.655 63.158 39.74 23.32 43.02 4.40
2595 2610 2.831366 TAGAGCGACGTCGATGGCC 61.831 63.158 39.74 22.57 43.02 5.36
2596 2611 4.492160 GAGCGACGTCGATGGCCA 62.492 66.667 39.74 8.56 43.02 5.36
2597 2612 3.982372 GAGCGACGTCGATGGCCAA 62.982 63.158 39.74 0.00 43.02 4.52
2598 2613 3.554692 GCGACGTCGATGGCCAAG 61.555 66.667 39.74 7.51 43.02 3.61
2599 2614 2.126071 CGACGTCGATGGCCAAGT 60.126 61.111 33.35 5.08 43.02 3.16
2600 2615 2.158959 CGACGTCGATGGCCAAGTC 61.159 63.158 33.35 13.47 43.02 3.01
2601 2616 2.126071 ACGTCGATGGCCAAGTCG 60.126 61.111 20.40 20.40 39.11 4.18
2602 2617 3.554692 CGTCGATGGCCAAGTCGC 61.555 66.667 21.39 15.59 37.74 5.19
2603 2618 3.554692 GTCGATGGCCAAGTCGCG 61.555 66.667 21.39 14.56 37.74 5.87
2604 2619 3.754530 TCGATGGCCAAGTCGCGA 61.755 61.111 21.39 16.38 37.74 5.87
2605 2620 3.257561 CGATGGCCAAGTCGCGAG 61.258 66.667 10.96 0.00 0.00 5.03
2606 2621 2.184322 GATGGCCAAGTCGCGAGA 59.816 61.111 10.96 0.00 38.16 4.04
2618 2633 3.490759 GCGAGACATGCGGGTGTG 61.491 66.667 0.00 0.00 31.16 3.82
2619 2634 2.048222 CGAGACATGCGGGTGTGT 60.048 61.111 0.00 0.00 31.16 3.72
2620 2635 2.382746 CGAGACATGCGGGTGTGTG 61.383 63.158 0.00 0.00 31.16 3.82
2621 2636 2.032528 AGACATGCGGGTGTGTGG 59.967 61.111 0.00 0.00 31.16 4.17
2622 2637 2.031919 GACATGCGGGTGTGTGGA 59.968 61.111 0.00 0.00 31.16 4.02
2623 2638 2.032528 ACATGCGGGTGTGTGGAG 59.967 61.111 0.00 0.00 0.00 3.86
2624 2639 2.347114 CATGCGGGTGTGTGGAGA 59.653 61.111 0.00 0.00 0.00 3.71
2625 2640 1.078214 CATGCGGGTGTGTGGAGAT 60.078 57.895 0.00 0.00 0.00 2.75
2626 2641 1.078214 ATGCGGGTGTGTGGAGATG 60.078 57.895 0.00 0.00 0.00 2.90
2627 2642 2.436646 GCGGGTGTGTGGAGATGG 60.437 66.667 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 1.963338 GCTGCAACTTCTCCACGCT 60.963 57.895 0.00 0.00 0.00 5.07
318 319 1.381327 CGCCTACCTCTTCCTCCCA 60.381 63.158 0.00 0.00 0.00 4.37
345 346 2.759973 CGGTGGCTCCTCTGGCTA 60.760 66.667 3.83 0.00 0.00 3.93
540 541 2.516225 CCGAAAATCCGAGGGGGC 60.516 66.667 0.00 0.00 34.94 5.80
543 544 1.883084 CGAGCCGAAAATCCGAGGG 60.883 63.158 0.00 0.00 0.00 4.30
549 550 4.237809 GCCGCCGAGCCGAAAATC 62.238 66.667 0.00 0.00 0.00 2.17
693 694 1.374758 CCAGACGACCCAACAGCTC 60.375 63.158 0.00 0.00 0.00 4.09
778 779 3.362706 ACGGCAGAGTAGAATAACCTCA 58.637 45.455 0.00 0.00 0.00 3.86
909 911 1.856012 GAGCGAGCTGTGTGTCAAC 59.144 57.895 0.84 0.00 0.00 3.18
951 953 1.884579 GCTCGATGGAATGCAATGGAT 59.115 47.619 0.00 0.00 0.00 3.41
958 960 1.427435 GAGCTAGCTCGATGGAATGC 58.573 55.000 28.04 2.91 33.06 3.56
999 1001 4.554036 GCCCTCCTCCACGCCATC 62.554 72.222 0.00 0.00 0.00 3.51
1211 1213 2.890474 GCGATGGCTGGTACGTGG 60.890 66.667 0.00 0.00 35.83 4.94
1252 1258 4.564372 AGCATACATATTCGTCGATCATGC 59.436 41.667 13.61 12.65 37.19 4.06
1349 1355 2.126965 CTCGTCCGTCGTGTCCAC 60.127 66.667 0.00 0.00 40.80 4.02
1350 1356 3.359523 CCTCGTCCGTCGTGTCCA 61.360 66.667 0.00 0.00 40.80 4.02
1642 1648 4.742201 TTCCAGCGCGCAGAGACC 62.742 66.667 35.10 0.72 0.00 3.85
1643 1649 3.482783 GTTCCAGCGCGCAGAGAC 61.483 66.667 35.10 21.66 0.00 3.36
1660 1670 1.126113 CCAAAACGACAGAACCGATCG 59.874 52.381 8.51 8.51 41.60 3.69
1672 1682 6.428799 CCGTAGAAAACATAAACCAAAACGA 58.571 36.000 0.00 0.00 0.00 3.85
1733 1743 5.977129 ACGGACATTTTAGAAGCAAAACAAG 59.023 36.000 0.00 0.00 30.57 3.16
1853 1865 9.119329 CGCACTTAGCTAATTTATGACTACTAG 57.881 37.037 6.64 0.00 42.61 2.57
1856 1868 7.096147 GGACGCACTTAGCTAATTTATGACTAC 60.096 40.741 6.64 0.00 42.61 2.73
1879 1894 0.185175 ACAGTTTGAGGGTTGGGGAC 59.815 55.000 0.00 0.00 0.00 4.46
1882 1897 0.951558 CGAACAGTTTGAGGGTTGGG 59.048 55.000 0.00 0.00 0.00 4.12
1930 1945 3.787676 CTTCAATGCCGACGCGCA 61.788 61.111 5.73 12.33 44.35 6.09
1940 1955 4.817063 CGGCGCGCCACTTCAATG 62.817 66.667 45.26 25.41 35.37 2.82
1985 2000 2.572284 GAGAAGGCGCGTACACCT 59.428 61.111 8.43 1.76 38.14 4.00
1986 2001 2.508663 GGAGAAGGCGCGTACACC 60.509 66.667 8.43 0.00 0.00 4.16
1987 2002 2.879462 CGGAGAAGGCGCGTACAC 60.879 66.667 8.43 0.00 0.00 2.90
2004 2019 3.042887 CAACTGCGCTTGTTTAAAGGAC 58.957 45.455 9.73 0.00 0.00 3.85
2010 2025 1.160946 TCGGCAACTGCGCTTGTTTA 61.161 50.000 9.73 0.00 43.26 2.01
2018 2033 2.501223 TAGGTTCCTCGGCAACTGCG 62.501 60.000 0.00 0.00 43.26 5.18
2021 2036 1.551019 GGGTAGGTTCCTCGGCAACT 61.551 60.000 0.00 0.00 0.00 3.16
2023 2038 2.295602 GGGGTAGGTTCCTCGGCAA 61.296 63.158 0.00 0.00 0.00 4.52
2028 2043 3.073742 GCGTCGGGGTAGGTTCCTC 62.074 68.421 0.00 0.00 0.00 3.71
2077 2092 3.009033 AGGGTGTTTAATGTCTGCTAGCA 59.991 43.478 18.22 18.22 0.00 3.49
2078 2093 3.375299 CAGGGTGTTTAATGTCTGCTAGC 59.625 47.826 8.10 8.10 0.00 3.42
2079 2094 3.375299 GCAGGGTGTTTAATGTCTGCTAG 59.625 47.826 0.00 0.00 42.77 3.42
2080 2095 3.343617 GCAGGGTGTTTAATGTCTGCTA 58.656 45.455 0.00 0.00 42.77 3.49
2081 2096 2.162681 GCAGGGTGTTTAATGTCTGCT 58.837 47.619 0.00 0.00 42.77 4.24
2082 2097 1.202348 GGCAGGGTGTTTAATGTCTGC 59.798 52.381 0.00 0.00 44.60 4.26
2083 2098 1.468520 CGGCAGGGTGTTTAATGTCTG 59.531 52.381 0.00 0.00 0.00 3.51
2084 2099 1.821216 CGGCAGGGTGTTTAATGTCT 58.179 50.000 0.00 0.00 0.00 3.41
2085 2100 0.170339 GCGGCAGGGTGTTTAATGTC 59.830 55.000 0.00 0.00 0.00 3.06
2086 2101 0.251165 AGCGGCAGGGTGTTTAATGT 60.251 50.000 1.45 0.00 0.00 2.71
2087 2102 0.887933 AAGCGGCAGGGTGTTTAATG 59.112 50.000 1.45 0.00 0.00 1.90
2088 2103 0.887933 CAAGCGGCAGGGTGTTTAAT 59.112 50.000 1.45 0.00 0.00 1.40
2089 2104 1.175983 CCAAGCGGCAGGGTGTTTAA 61.176 55.000 1.45 0.00 0.00 1.52
2090 2105 1.602323 CCAAGCGGCAGGGTGTTTA 60.602 57.895 1.45 0.00 0.00 2.01
2091 2106 2.912025 CCAAGCGGCAGGGTGTTT 60.912 61.111 1.45 0.00 0.00 2.83
2101 2116 2.203209 GGATACCAGGCCAAGCGG 60.203 66.667 5.01 1.59 0.00 5.52
2102 2117 2.588877 CGGATACCAGGCCAAGCG 60.589 66.667 5.01 0.00 0.00 4.68
2113 2128 5.051240 CCACGTTTAAATAGCAGACGGATAC 60.051 44.000 0.00 0.00 37.99 2.24
2123 2138 1.202256 GCCTGGCCACGTTTAAATAGC 60.202 52.381 7.66 0.00 0.00 2.97
2152 2167 4.451150 GCGGAGGTGTGATGCCGA 62.451 66.667 0.00 0.00 46.29 5.54
2169 2184 2.124693 GCAGAGAGGAGACCGGGAG 61.125 68.421 6.32 0.00 0.00 4.30
2179 2194 1.153489 CGGATGTGGTGCAGAGAGG 60.153 63.158 0.00 0.00 0.00 3.69
2184 2199 2.438975 ATGGCGGATGTGGTGCAG 60.439 61.111 0.00 0.00 0.00 4.41
2227 2242 1.730451 GGCTCGTCTGGTAGGCTCTC 61.730 65.000 0.00 0.00 35.52 3.20
2229 2244 2.809010 GGCTCGTCTGGTAGGCTC 59.191 66.667 0.00 0.00 35.52 4.70
2238 2253 2.010582 GCTCCTGATTCGGCTCGTCT 62.011 60.000 0.00 0.00 0.00 4.18
2321 2336 1.523154 TTCCATTGGCTTGTCCACGC 61.523 55.000 0.00 0.00 46.55 5.34
2324 2339 1.272092 CCTCTTCCATTGGCTTGTCCA 60.272 52.381 0.00 0.00 44.85 4.02
2328 2343 0.962356 ACGCCTCTTCCATTGGCTTG 60.962 55.000 0.00 0.00 44.09 4.01
2340 2355 1.251527 ACTCATCGTTGGACGCCTCT 61.252 55.000 0.00 0.00 42.21 3.69
2387 2402 0.179119 GTTCGGACACTGATACGGGG 60.179 60.000 0.00 0.00 0.00 5.73
2388 2403 0.179119 GGTTCGGACACTGATACGGG 60.179 60.000 0.00 0.00 0.00 5.28
2389 2404 0.179119 GGGTTCGGACACTGATACGG 60.179 60.000 0.00 0.00 0.00 4.02
2390 2405 0.815734 AGGGTTCGGACACTGATACG 59.184 55.000 0.00 0.00 38.36 3.06
2396 2411 0.179056 CAACACAGGGTTCGGACACT 60.179 55.000 0.00 0.00 41.23 3.55
2397 2412 1.782028 GCAACACAGGGTTCGGACAC 61.782 60.000 0.00 0.00 37.72 3.67
2398 2413 1.525077 GCAACACAGGGTTCGGACA 60.525 57.895 0.00 0.00 37.72 4.02
2399 2414 2.604174 CGCAACACAGGGTTCGGAC 61.604 63.158 0.00 0.00 37.72 4.79
2400 2415 2.280524 CGCAACACAGGGTTCGGA 60.281 61.111 0.00 0.00 37.72 4.55
2401 2416 3.353836 CCGCAACACAGGGTTCGG 61.354 66.667 10.73 10.73 40.83 4.30
2402 2417 4.025401 GCCGCAACACAGGGTTCG 62.025 66.667 0.00 0.00 37.72 3.95
2403 2418 1.302192 TAGCCGCAACACAGGGTTC 60.302 57.895 0.00 0.00 37.72 3.62
2404 2419 1.599797 GTAGCCGCAACACAGGGTT 60.600 57.895 0.00 0.00 41.47 4.11
2405 2420 2.032071 GTAGCCGCAACACAGGGT 59.968 61.111 0.00 0.00 41.59 4.34
2406 2421 2.746277 GGTAGCCGCAACACAGGG 60.746 66.667 0.00 0.00 0.00 4.45
2407 2422 2.746277 GGGTAGCCGCAACACAGG 60.746 66.667 0.00 0.00 0.00 4.00
2408 2423 1.169661 TTTGGGTAGCCGCAACACAG 61.170 55.000 6.45 0.00 42.49 3.66
2409 2424 1.152943 TTTGGGTAGCCGCAACACA 60.153 52.632 6.45 0.00 42.49 3.72
2410 2425 1.284715 GTTTGGGTAGCCGCAACAC 59.715 57.895 17.00 2.50 42.49 3.32
2411 2426 2.255172 CGTTTGGGTAGCCGCAACA 61.255 57.895 20.13 0.00 42.49 3.33
2412 2427 2.255881 ACGTTTGGGTAGCCGCAAC 61.256 57.895 13.43 13.43 42.49 4.17
2413 2428 2.111460 ACGTTTGGGTAGCCGCAA 59.889 55.556 6.45 0.00 41.25 4.85
2414 2429 2.666862 CACGTTTGGGTAGCCGCA 60.667 61.111 6.45 0.00 0.00 5.69
2415 2430 3.428282 CCACGTTTGGGTAGCCGC 61.428 66.667 6.45 0.00 39.57 6.53
2423 2438 3.977244 GTGCTGCCCCACGTTTGG 61.977 66.667 0.00 0.00 43.50 3.28
2424 2439 3.977244 GGTGCTGCCCCACGTTTG 61.977 66.667 0.00 0.00 36.59 2.93
2444 2459 3.712881 GTCGCTTGTGGTCGTGCC 61.713 66.667 0.00 0.00 37.90 5.01
2445 2460 4.059459 CGTCGCTTGTGGTCGTGC 62.059 66.667 0.00 0.00 0.00 5.34
2446 2461 2.657296 ACGTCGCTTGTGGTCGTG 60.657 61.111 0.00 0.00 33.55 4.35
2447 2462 2.657296 CACGTCGCTTGTGGTCGT 60.657 61.111 0.00 0.00 33.69 4.34
2448 2463 4.059459 GCACGTCGCTTGTGGTCG 62.059 66.667 0.00 0.00 37.80 4.79
2457 2472 3.712881 GTTGTCCCAGCACGTCGC 61.713 66.667 0.00 2.28 42.91 5.19
2458 2473 3.403057 CGTTGTCCCAGCACGTCG 61.403 66.667 0.00 0.00 0.00 5.12
2459 2474 2.279918 ACGTTGTCCCAGCACGTC 60.280 61.111 0.00 0.00 30.88 4.34
2460 2475 2.587753 CACGTTGTCCCAGCACGT 60.588 61.111 0.00 0.00 37.53 4.49
2461 2476 2.279851 TCACGTTGTCCCAGCACG 60.280 61.111 0.00 0.00 0.00 5.34
2462 2477 0.032952 TAGTCACGTTGTCCCAGCAC 59.967 55.000 0.00 0.00 0.00 4.40
2463 2478 0.317160 CTAGTCACGTTGTCCCAGCA 59.683 55.000 0.00 0.00 0.00 4.41
2464 2479 0.389948 CCTAGTCACGTTGTCCCAGC 60.390 60.000 0.00 0.00 0.00 4.85
2465 2480 0.246635 CCCTAGTCACGTTGTCCCAG 59.753 60.000 0.00 0.00 0.00 4.45
2466 2481 1.189524 CCCCTAGTCACGTTGTCCCA 61.190 60.000 0.00 0.00 0.00 4.37
2467 2482 1.190178 ACCCCTAGTCACGTTGTCCC 61.190 60.000 0.00 0.00 0.00 4.46
2468 2483 1.203287 GTACCCCTAGTCACGTTGTCC 59.797 57.143 0.00 0.00 0.00 4.02
2469 2484 2.165998 AGTACCCCTAGTCACGTTGTC 58.834 52.381 0.00 0.00 0.00 3.18
2470 2485 2.299326 AGTACCCCTAGTCACGTTGT 57.701 50.000 0.00 0.00 0.00 3.32
2471 2486 2.424956 GGTAGTACCCCTAGTCACGTTG 59.575 54.545 8.27 0.00 30.04 4.10
2472 2487 2.041620 TGGTAGTACCCCTAGTCACGTT 59.958 50.000 16.91 0.00 37.50 3.99
2473 2488 1.635487 TGGTAGTACCCCTAGTCACGT 59.365 52.381 16.91 0.00 37.50 4.49
2474 2489 2.019984 GTGGTAGTACCCCTAGTCACG 58.980 57.143 16.91 0.00 37.50 4.35
2475 2490 2.019984 CGTGGTAGTACCCCTAGTCAC 58.980 57.143 16.91 5.36 37.50 3.67
2476 2491 1.064463 CCGTGGTAGTACCCCTAGTCA 60.064 57.143 16.91 0.00 37.50 3.41
2477 2492 1.212935 TCCGTGGTAGTACCCCTAGTC 59.787 57.143 16.91 0.32 37.50 2.59
2478 2493 1.298953 TCCGTGGTAGTACCCCTAGT 58.701 55.000 16.91 0.00 37.50 2.57
2479 2494 2.671896 ATCCGTGGTAGTACCCCTAG 57.328 55.000 16.91 5.33 37.50 3.02
2480 2495 2.224523 CGTATCCGTGGTAGTACCCCTA 60.225 54.545 16.91 0.30 37.50 3.53
2481 2496 1.477558 CGTATCCGTGGTAGTACCCCT 60.478 57.143 16.91 0.00 37.50 4.79
2482 2497 0.954452 CGTATCCGTGGTAGTACCCC 59.046 60.000 16.91 4.11 37.50 4.95
2483 2498 1.604278 GTCGTATCCGTGGTAGTACCC 59.396 57.143 16.91 7.24 37.50 3.69
2484 2499 1.261619 CGTCGTATCCGTGGTAGTACC 59.738 57.143 12.80 12.80 39.22 3.34
2485 2500 1.333258 GCGTCGTATCCGTGGTAGTAC 60.333 57.143 0.00 0.00 35.01 2.73
2486 2501 0.937304 GCGTCGTATCCGTGGTAGTA 59.063 55.000 0.00 0.00 35.01 1.82
2487 2502 1.723870 GCGTCGTATCCGTGGTAGT 59.276 57.895 0.00 0.00 35.01 2.73
2488 2503 1.368493 CGCGTCGTATCCGTGGTAG 60.368 63.158 0.00 0.00 35.01 3.18
2489 2504 1.159713 ATCGCGTCGTATCCGTGGTA 61.160 55.000 5.77 0.00 36.53 3.25
2490 2505 2.475466 ATCGCGTCGTATCCGTGGT 61.475 57.895 5.77 0.00 36.53 4.16
2491 2506 2.009226 CATCGCGTCGTATCCGTGG 61.009 63.158 5.77 0.00 36.53 4.94
2492 2507 0.385598 ATCATCGCGTCGTATCCGTG 60.386 55.000 5.77 0.00 37.17 4.94
2493 2508 0.110328 GATCATCGCGTCGTATCCGT 60.110 55.000 5.77 0.00 35.01 4.69
2494 2509 0.166161 AGATCATCGCGTCGTATCCG 59.834 55.000 5.77 0.00 0.00 4.18
2495 2510 1.979469 CAAGATCATCGCGTCGTATCC 59.021 52.381 5.77 0.00 0.00 2.59
2496 2511 1.979469 CCAAGATCATCGCGTCGTATC 59.021 52.381 5.77 5.73 0.00 2.24
2497 2512 1.335964 CCCAAGATCATCGCGTCGTAT 60.336 52.381 5.77 0.00 0.00 3.06
2498 2513 0.030235 CCCAAGATCATCGCGTCGTA 59.970 55.000 5.77 0.00 0.00 3.43
2499 2514 1.226974 CCCAAGATCATCGCGTCGT 60.227 57.895 5.77 0.00 0.00 4.34
2500 2515 1.951130 CCCCAAGATCATCGCGTCG 60.951 63.158 5.77 0.00 0.00 5.12
2501 2516 1.595382 CCCCCAAGATCATCGCGTC 60.595 63.158 5.77 0.00 0.00 5.19
2502 2517 2.032860 CTCCCCCAAGATCATCGCGT 62.033 60.000 5.77 0.00 0.00 6.01
2503 2518 1.301244 CTCCCCCAAGATCATCGCG 60.301 63.158 0.00 0.00 0.00 5.87
2504 2519 1.072159 CCTCCCCCAAGATCATCGC 59.928 63.158 0.00 0.00 0.00 4.58
2505 2520 1.072159 GCCTCCCCCAAGATCATCG 59.928 63.158 0.00 0.00 0.00 3.84
2506 2521 0.399833 GAGCCTCCCCCAAGATCATC 59.600 60.000 0.00 0.00 0.00 2.92
2507 2522 1.414061 CGAGCCTCCCCCAAGATCAT 61.414 60.000 0.00 0.00 0.00 2.45
2508 2523 2.066393 CGAGCCTCCCCCAAGATCA 61.066 63.158 0.00 0.00 0.00 2.92
2509 2524 1.753368 CTCGAGCCTCCCCCAAGATC 61.753 65.000 0.00 0.00 0.00 2.75
2510 2525 1.764054 CTCGAGCCTCCCCCAAGAT 60.764 63.158 0.00 0.00 0.00 2.40
2511 2526 2.364317 CTCGAGCCTCCCCCAAGA 60.364 66.667 0.00 0.00 0.00 3.02
2512 2527 2.294078 AACTCGAGCCTCCCCCAAG 61.294 63.158 13.61 0.00 0.00 3.61
2513 2528 2.203938 AACTCGAGCCTCCCCCAA 60.204 61.111 13.61 0.00 0.00 4.12
2514 2529 3.003173 CAACTCGAGCCTCCCCCA 61.003 66.667 13.61 0.00 0.00 4.96
2515 2530 4.475135 GCAACTCGAGCCTCCCCC 62.475 72.222 13.61 0.00 0.00 5.40
2516 2531 3.394836 AGCAACTCGAGCCTCCCC 61.395 66.667 13.61 0.00 0.00 4.81
2517 2532 2.125350 CAGCAACTCGAGCCTCCC 60.125 66.667 13.61 0.00 0.00 4.30
2518 2533 2.817396 GCAGCAACTCGAGCCTCC 60.817 66.667 13.61 0.00 0.00 4.30
2519 2534 1.669115 TTGCAGCAACTCGAGCCTC 60.669 57.895 13.61 0.97 0.00 4.70
2520 2535 1.963338 GTTGCAGCAACTCGAGCCT 60.963 57.895 27.98 3.51 40.73 4.58
2521 2536 2.558313 GTTGCAGCAACTCGAGCC 59.442 61.111 27.98 2.48 40.73 4.70
2522 2537 2.180131 CTGGTTGCAGCAACTCGAGC 62.180 60.000 32.22 18.60 43.14 5.03
2523 2538 1.864862 CTGGTTGCAGCAACTCGAG 59.135 57.895 32.22 22.37 43.14 4.04
2524 2539 2.253758 GCTGGTTGCAGCAACTCGA 61.254 57.895 32.22 18.14 46.73 4.04
2525 2540 2.253452 GCTGGTTGCAGCAACTCG 59.747 61.111 32.22 24.25 46.73 4.18
2531 2546 4.077188 GACGTCGCTGGTTGCAGC 62.077 66.667 0.00 0.00 44.25 5.25
2532 2547 3.767230 CGACGTCGCTGGTTGCAG 61.767 66.667 26.59 0.00 43.06 4.41
2561 2576 3.701604 CTACCCGTCACCGAGCTGC 62.702 68.421 0.00 0.00 35.63 5.25
2562 2577 1.994507 CTCTACCCGTCACCGAGCTG 61.995 65.000 0.00 0.00 35.63 4.24
2563 2578 1.749638 CTCTACCCGTCACCGAGCT 60.750 63.158 0.00 0.00 35.63 4.09
2564 2579 2.799371 CTCTACCCGTCACCGAGC 59.201 66.667 0.00 0.00 35.63 5.03
2565 2580 2.799371 GCTCTACCCGTCACCGAG 59.201 66.667 0.00 0.00 35.63 4.63
2566 2581 3.129502 CGCTCTACCCGTCACCGA 61.130 66.667 0.00 0.00 35.63 4.69
2567 2582 3.129502 TCGCTCTACCCGTCACCG 61.130 66.667 0.00 0.00 0.00 4.94
2568 2583 2.488820 GTCGCTCTACCCGTCACC 59.511 66.667 0.00 0.00 0.00 4.02
2569 2584 2.099831 CGTCGCTCTACCCGTCAC 59.900 66.667 0.00 0.00 0.00 3.67
2570 2585 2.359107 ACGTCGCTCTACCCGTCA 60.359 61.111 0.00 0.00 0.00 4.35
2571 2586 2.402787 GACGTCGCTCTACCCGTC 59.597 66.667 0.00 0.00 42.22 4.79
2572 2587 3.494336 CGACGTCGCTCTACCCGT 61.494 66.667 26.59 0.00 36.04 5.28
2573 2588 2.532256 ATCGACGTCGCTCTACCCG 61.532 63.158 32.19 7.15 39.60 5.28
2574 2589 1.009900 CATCGACGTCGCTCTACCC 60.010 63.158 32.19 0.00 39.60 3.69
2575 2590 1.009900 CCATCGACGTCGCTCTACC 60.010 63.158 32.19 0.00 39.60 3.18
2576 2591 1.654743 GCCATCGACGTCGCTCTAC 60.655 63.158 32.19 16.24 39.60 2.59
2577 2592 2.713770 GCCATCGACGTCGCTCTA 59.286 61.111 32.19 16.33 39.60 2.43
2578 2593 4.194720 GGCCATCGACGTCGCTCT 62.195 66.667 32.19 16.47 39.60 4.09
2579 2594 3.982372 TTGGCCATCGACGTCGCTC 62.982 63.158 32.19 18.97 39.60 5.03
2580 2595 3.989698 CTTGGCCATCGACGTCGCT 62.990 63.158 32.19 21.45 39.60 4.93
2581 2596 3.554692 CTTGGCCATCGACGTCGC 61.555 66.667 32.19 18.17 39.60 5.19
2582 2597 2.126071 ACTTGGCCATCGACGTCG 60.126 61.111 31.30 31.30 41.45 5.12
2583 2598 2.158959 CGACTTGGCCATCGACGTC 61.159 63.158 21.60 14.20 40.86 4.34
2584 2599 2.126071 CGACTTGGCCATCGACGT 60.126 61.111 21.60 7.31 40.86 4.34
2585 2600 3.554692 GCGACTTGGCCATCGACG 61.555 66.667 28.45 22.85 40.86 5.12
2586 2601 3.554692 CGCGACTTGGCCATCGAC 61.555 66.667 28.45 18.85 40.86 4.20
2587 2602 3.699955 CTCGCGACTTGGCCATCGA 62.700 63.158 28.45 19.38 40.86 3.59
2588 2603 3.257561 CTCGCGACTTGGCCATCG 61.258 66.667 21.77 21.77 41.32 3.84
2589 2604 2.167861 GTCTCGCGACTTGGCCATC 61.168 63.158 6.09 0.00 37.19 3.51
2590 2605 2.125512 GTCTCGCGACTTGGCCAT 60.126 61.111 6.09 0.00 37.19 4.40
2591 2606 2.942796 ATGTCTCGCGACTTGGCCA 61.943 57.895 3.71 0.00 40.86 5.36
2592 2607 2.125512 ATGTCTCGCGACTTGGCC 60.126 61.111 3.71 0.00 40.86 5.36
2593 2608 3.084579 CATGTCTCGCGACTTGGC 58.915 61.111 3.71 0.00 40.02 4.52
2594 2609 3.084579 GCATGTCTCGCGACTTGG 58.915 61.111 19.27 0.00 42.46 3.61
2601 2616 3.490759 CACACCCGCATGTCTCGC 61.491 66.667 0.00 0.00 0.00 5.03
2602 2617 2.048222 ACACACCCGCATGTCTCG 60.048 61.111 0.00 0.00 0.00 4.04
2603 2618 2.034879 CCACACACCCGCATGTCTC 61.035 63.158 0.00 0.00 0.00 3.36
2604 2619 2.032528 CCACACACCCGCATGTCT 59.967 61.111 0.00 0.00 0.00 3.41
2605 2620 2.031919 TCCACACACCCGCATGTC 59.968 61.111 0.00 0.00 0.00 3.06
2606 2621 1.841302 ATCTCCACACACCCGCATGT 61.841 55.000 0.00 0.00 0.00 3.21
2607 2622 1.078214 ATCTCCACACACCCGCATG 60.078 57.895 0.00 0.00 0.00 4.06
2608 2623 1.078214 CATCTCCACACACCCGCAT 60.078 57.895 0.00 0.00 0.00 4.73
2609 2624 2.347114 CATCTCCACACACCCGCA 59.653 61.111 0.00 0.00 0.00 5.69
2610 2625 2.436646 CCATCTCCACACACCCGC 60.437 66.667 0.00 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.