Multiple sequence alignment - TraesCS6A01G035000

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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 TraesCS6A01G035000 chr6A 100.000 2628 0 0 1 2628 16704334 16706961 0.000000e+00 4854.0
1 TraesCS6A01G035000 chr6A 89.275 1007 73 20 745 1747 16656003 16655028 0.000000e+00 1229.0
2 TraesCS6A01G035000 chr6A 86.469 303 35 4 1864 2162 16654801 16654501 7.010000e-86 327.0
3 TraesCS6A01G035000 chr6D 89.692 1756 121 34 651 2367 16514232 16515966 0.000000e+00 2185.0
4 TraesCS6A01G035000 chr6D 89.179 1072 70 24 768 1815 16386786 16385737 0.000000e+00 1295.0
5 TraesCS6A01G035000 chr6D 85.495 586 70 5 17 595 16513659 16514236 4.840000e-167 597.0
6 TraesCS6A01G035000 chr6D 86.441 295 23 6 1871 2158 16385654 16385370 9.140000e-80 307.0
7 TraesCS6A01G035000 chr6D 88.485 165 16 2 2170 2331 16385322 16385158 2.060000e-46 196.0
8 TraesCS6A01G035000 chr3A 85.924 1428 131 42 376 1774 66253415 66254801 0.000000e+00 1459.0
9 TraesCS6A01G035000 chr3A 84.794 388 49 4 2 384 66252939 66253321 5.310000e-102 381.0
10 TraesCS6A01G035000 chr3A 83.744 406 47 12 1970 2364 66254805 66255202 1.490000e-97 366.0
11 TraesCS6A01G035000 chr1B 86.347 1399 93 42 771 2147 587501537 587500215 0.000000e+00 1435.0
12 TraesCS6A01G035000 chr1B 85.821 536 42 15 1550 2064 652543636 652544158 2.980000e-149 538.0
13 TraesCS6A01G035000 chr6B 88.038 1045 84 24 772 1805 29044514 29045528 0.000000e+00 1199.0
14 TraesCS6A01G035000 chr6B 86.832 1086 85 36 724 1800 28722176 28723212 0.000000e+00 1160.0
15 TraesCS6A01G035000 chr6B 88.559 944 75 26 677 1614 59298702 59299618 0.000000e+00 1114.0
16 TraesCS6A01G035000 chr6B 85.520 1029 96 34 782 1800 28942314 28943299 0.000000e+00 1026.0
17 TraesCS6A01G035000 chr6B 84.022 1114 96 31 724 1815 28513699 28512646 0.000000e+00 996.0
18 TraesCS6A01G035000 chr6B 93.267 505 29 2 1864 2364 29045535 29046038 0.000000e+00 739.0
19 TraesCS6A01G035000 chr6B 81.363 499 66 18 1 487 28721470 28721953 5.310000e-102 381.0
20 TraesCS6A01G035000 chr6B 84.810 316 38 4 1 310 29043987 29044298 2.540000e-80 309.0
21 TraesCS6A01G035000 chr6B 85.657 251 30 5 1914 2158 28512520 28512270 2.590000e-65 259.0
22 TraesCS6A01G035000 chr6B 88.462 208 18 5 2161 2366 28512231 28512028 2.020000e-61 246.0
23 TraesCS6A01G035000 chr6B 81.787 291 41 9 1954 2239 28723228 28723511 1.570000e-57 233.0
24 TraesCS6A01G035000 chr6B 82.166 157 15 12 533 680 59298444 59298596 3.550000e-24 122.0
25 TraesCS6A01G035000 chr6B 92.857 42 3 0 691 732 29044417 29044458 7.850000e-06 62.1
26 TraesCS6A01G035000 chr5A 96.642 268 9 0 2361 2628 1207613 1207880 1.860000e-121 446.0
27 TraesCS6A01G035000 chr4B 90.076 262 25 1 2367 2628 386735952 386735692 3.240000e-89 339.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G035000 chr6A 16704334 16706961 2627 False 4854.000000 4854 100.000000 1 2628 1 chr6A.!!$F1 2627
1 TraesCS6A01G035000 chr6A 16654501 16656003 1502 True 778.000000 1229 87.872000 745 2162 2 chr6A.!!$R1 1417
2 TraesCS6A01G035000 chr6D 16513659 16515966 2307 False 1391.000000 2185 87.593500 17 2367 2 chr6D.!!$F1 2350
3 TraesCS6A01G035000 chr6D 16385158 16386786 1628 True 599.333333 1295 88.035000 768 2331 3 chr6D.!!$R1 1563
4 TraesCS6A01G035000 chr3A 66252939 66255202 2263 False 735.333333 1459 84.820667 2 2364 3 chr3A.!!$F1 2362
5 TraesCS6A01G035000 chr1B 587500215 587501537 1322 True 1435.000000 1435 86.347000 771 2147 1 chr1B.!!$R1 1376
6 TraesCS6A01G035000 chr1B 652543636 652544158 522 False 538.000000 538 85.821000 1550 2064 1 chr1B.!!$F1 514
7 TraesCS6A01G035000 chr6B 28942314 28943299 985 False 1026.000000 1026 85.520000 782 1800 1 chr6B.!!$F1 1018
8 TraesCS6A01G035000 chr6B 59298444 59299618 1174 False 618.000000 1114 85.362500 533 1614 2 chr6B.!!$F4 1081
9 TraesCS6A01G035000 chr6B 28721470 28723511 2041 False 591.333333 1160 83.327333 1 2239 3 chr6B.!!$F2 2238
10 TraesCS6A01G035000 chr6B 29043987 29046038 2051 False 577.275000 1199 89.743000 1 2364 4 chr6B.!!$F3 2363
11 TraesCS6A01G035000 chr6B 28512028 28513699 1671 True 500.333333 996 86.047000 724 2366 3 chr6B.!!$R1 1642

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
755 1099 0.249615 CACACATCCATCGATCCGCT 60.25 55.0 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2489 3137 0.031585 CGTGGTCGTGGAGAAGTTCA 59.968 55.0 5.5 0.0 0.0 3.18 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
37 38 2.308722 GGGGCTTGGAGGGTGATGA 61.309 63.158 0.00 0.00 0.00 2.92
47 48 0.984230 AGGGTGATGAAGGCGAAAGA 59.016 50.000 0.00 0.00 0.00 2.52
52 53 4.130118 GGTGATGAAGGCGAAAGATGTAT 58.870 43.478 0.00 0.00 0.00 2.29
56 57 5.755375 TGATGAAGGCGAAAGATGTATTCTC 59.245 40.000 0.00 0.00 31.78 2.87
105 106 0.472471 GTTGGAGGTGTCAAGGTGGA 59.528 55.000 0.00 0.00 0.00 4.02
116 117 1.971357 TCAAGGTGGAAGTCCTCACTC 59.029 52.381 0.00 0.00 36.82 3.51
117 118 1.002544 CAAGGTGGAAGTCCTCACTCC 59.997 57.143 0.00 0.00 36.82 3.85
118 119 0.545548 AGGTGGAAGTCCTCACTCCC 60.546 60.000 0.00 0.00 36.82 4.30
158 159 5.392057 GCTACAGTGGAAAACCTAGATTTGC 60.392 44.000 0.00 0.00 0.00 3.68
171 177 2.084546 AGATTTGCTTTACTGGGCGAC 58.915 47.619 0.00 0.00 0.00 5.19
173 179 0.249953 TTTGCTTTACTGGGCGACGA 60.250 50.000 0.00 0.00 0.00 4.20
199 205 3.115554 GTTGTTAGCTTTGCTTGGTGTG 58.884 45.455 0.00 0.00 40.44 3.82
208 214 4.764336 CTTGGTGTGGCGCGCATG 62.764 66.667 34.42 9.43 0.00 4.06
230 236 2.358957 CCTCTTGATGGCATCGTTTCA 58.641 47.619 21.65 3.17 0.00 2.69
234 240 3.055891 TCTTGATGGCATCGTTTCAGAGA 60.056 43.478 21.65 12.43 0.00 3.10
237 243 2.028420 TGGCATCGTTTCAGAGATGG 57.972 50.000 7.43 0.00 43.14 3.51
245 251 1.541310 TTTCAGAGATGGCGGTCGGT 61.541 55.000 0.00 0.00 0.00 4.69
259 265 4.704833 CGGTGGGACCTGTGGCTG 62.705 72.222 0.00 0.00 35.66 4.85
403 520 3.181479 CCTCATGGGATGAAAACTGCATG 60.181 47.826 0.00 0.00 39.11 4.06
427 545 8.185003 TGTGTTCGATTTAACAGACATATCAG 57.815 34.615 0.00 0.00 39.92 2.90
436 554 9.647918 ATTTAACAGACATATCAGTCCTCTCTA 57.352 33.333 0.00 0.00 39.34 2.43
437 555 9.475620 TTTAACAGACATATCAGTCCTCTCTAA 57.524 33.333 0.00 0.00 39.34 2.10
438 556 9.647918 TTAACAGACATATCAGTCCTCTCTAAT 57.352 33.333 0.00 0.00 39.34 1.73
444 562 6.547880 ACATATCAGTCCTCTCTAATGTCGTT 59.452 38.462 0.00 0.00 0.00 3.85
448 566 4.079970 AGTCCTCTCTAATGTCGTTGTGA 58.920 43.478 0.00 0.00 0.00 3.58
455 573 4.800784 TCTAATGTCGTTGTGATTCGTGA 58.199 39.130 0.00 0.00 0.00 4.35
457 575 4.389664 AATGTCGTTGTGATTCGTGAAG 57.610 40.909 0.00 0.00 0.00 3.02
490 608 0.386838 GCCCAGACTAATGCAATGGC 59.613 55.000 0.00 0.00 41.68 4.40
495 613 3.444742 CCAGACTAATGCAATGGCTTTCA 59.555 43.478 0.00 0.00 41.91 2.69
498 616 2.827322 ACTAATGCAATGGCTTTCAGCA 59.173 40.909 0.00 1.52 44.75 4.41
542 660 1.819305 GCTGGAGCCAGTTTTCCTCAA 60.819 52.381 17.23 0.00 45.24 3.02
543 661 2.586425 CTGGAGCCAGTTTTCCTCAAA 58.414 47.619 8.38 0.00 39.10 2.69
544 662 3.160269 CTGGAGCCAGTTTTCCTCAAAT 58.840 45.455 8.38 0.00 39.10 2.32
564 684 0.746923 ATAAACCGAGCGGCCCTTTC 60.747 55.000 9.14 0.00 39.32 2.62
574 694 1.133216 GCGGCCCTTTCTTCATTCTTC 59.867 52.381 0.00 0.00 0.00 2.87
628 752 6.451393 TGCTTTATTTGGGTGTTCATGTAAC 58.549 36.000 0.00 0.00 38.67 2.50
650 781 6.009115 ACACCCGTTTCTAATCAATGTTTC 57.991 37.500 0.00 0.00 0.00 2.78
680 811 5.817784 TCGGGGTTCTAATCAATGGTTTTA 58.182 37.500 0.00 0.00 0.00 1.52
718 993 0.886043 TTCATGCTCTGCAACGTGCT 60.886 50.000 10.54 0.00 45.31 4.40
741 1085 0.756070 TGTACACGGGAGTCCACACA 60.756 55.000 12.30 4.12 44.67 3.72
755 1099 0.249615 CACACATCCATCGATCCGCT 60.250 55.000 0.00 0.00 0.00 5.52
762 1106 2.596046 ATCGATCCGCTCCGCTCT 60.596 61.111 0.00 0.00 0.00 4.09
766 1110 2.203422 ATCCGCTCCGCTCTAGCT 60.203 61.111 0.00 0.00 37.85 3.32
954 1311 3.470888 CCGCCCCATCCGTCTCTT 61.471 66.667 0.00 0.00 0.00 2.85
995 1365 1.000896 CCCTCACATCCCACCCAAC 60.001 63.158 0.00 0.00 0.00 3.77
996 1366 1.767036 CCTCACATCCCACCCAACA 59.233 57.895 0.00 0.00 0.00 3.33
998 1368 1.538047 CTCACATCCCACCCAACAAG 58.462 55.000 0.00 0.00 0.00 3.16
1384 1763 1.075970 CCGGGAGATCCAGACCTCA 60.076 63.158 0.00 0.00 37.91 3.86
1468 1847 3.907474 TCACCAAGTTCACCTCATCCTAA 59.093 43.478 0.00 0.00 0.00 2.69
1475 1862 0.179034 CACCTCATCCTAAGCTGGCC 60.179 60.000 0.00 0.00 0.00 5.36
1487 1878 2.049433 CTGGCCTCGTCGTCGTTT 60.049 61.111 3.32 0.00 38.33 3.60
1489 1880 2.049802 GGCCTCGTCGTCGTTTCA 60.050 61.111 0.00 0.00 38.33 2.69
1491 1882 1.683790 GGCCTCGTCGTCGTTTCATG 61.684 60.000 0.00 0.00 38.33 3.07
1493 1884 0.982673 CCTCGTCGTCGTTTCATGAC 59.017 55.000 0.00 0.00 38.33 3.06
1527 1938 0.953727 AGGCGTCGTGTGTGTAGTTA 59.046 50.000 0.00 0.00 0.00 2.24
1636 2055 1.951130 CGTCTGTGCTTGCGTGTCT 60.951 57.895 0.00 0.00 0.00 3.41
1653 2087 4.452795 CGTGTCTCTTCAGAGTTCAGACTA 59.547 45.833 3.73 0.00 42.60 2.59
1701 2135 4.751600 TGTCAGCAAGTTTCTACTGTGATG 59.248 41.667 0.00 0.00 34.01 3.07
1862 2427 3.267483 TCCTCTTTTGGCGCTATGTAAC 58.733 45.455 7.64 0.00 0.00 2.50
1911 2490 5.123227 TGAGTAAAACTGAAGTTGGTGAGG 58.877 41.667 0.00 0.00 38.44 3.86
1999 2580 2.032681 AAGAACAGCCTGACCGCC 59.967 61.111 0.00 0.00 0.00 6.13
2031 2612 6.685828 CAGAAAGTCACAATGCATTAGATTCG 59.314 38.462 12.53 0.80 0.00 3.34
2264 2908 2.034053 TCACGAAGCCACCAATTTTGTC 59.966 45.455 0.00 0.00 0.00 3.18
2367 3015 2.229792 GCAAGAACCATTCACCACTCA 58.770 47.619 0.00 0.00 0.00 3.41
2368 3016 2.821969 GCAAGAACCATTCACCACTCAT 59.178 45.455 0.00 0.00 0.00 2.90
2369 3017 3.256631 GCAAGAACCATTCACCACTCATT 59.743 43.478 0.00 0.00 0.00 2.57
2370 3018 4.262164 GCAAGAACCATTCACCACTCATTT 60.262 41.667 0.00 0.00 0.00 2.32
2371 3019 5.464168 CAAGAACCATTCACCACTCATTTC 58.536 41.667 0.00 0.00 0.00 2.17
2372 3020 4.082125 AGAACCATTCACCACTCATTTCC 58.918 43.478 0.00 0.00 0.00 3.13
2373 3021 3.524095 ACCATTCACCACTCATTTCCA 57.476 42.857 0.00 0.00 0.00 3.53
2374 3022 3.424703 ACCATTCACCACTCATTTCCAG 58.575 45.455 0.00 0.00 0.00 3.86
2375 3023 2.165030 CCATTCACCACTCATTTCCAGC 59.835 50.000 0.00 0.00 0.00 4.85
2376 3024 1.909700 TTCACCACTCATTTCCAGCC 58.090 50.000 0.00 0.00 0.00 4.85
2377 3025 0.770499 TCACCACTCATTTCCAGCCA 59.230 50.000 0.00 0.00 0.00 4.75
2378 3026 1.355381 TCACCACTCATTTCCAGCCAT 59.645 47.619 0.00 0.00 0.00 4.40
2379 3027 1.475280 CACCACTCATTTCCAGCCATG 59.525 52.381 0.00 0.00 0.00 3.66
2396 3044 3.008141 TGGCGTTTCCACAATTCGA 57.992 47.368 0.00 0.00 40.72 3.71
2397 3045 1.529226 TGGCGTTTCCACAATTCGAT 58.471 45.000 0.00 0.00 40.72 3.59
2398 3046 1.198867 TGGCGTTTCCACAATTCGATG 59.801 47.619 0.00 0.00 40.72 3.84
2399 3047 1.467374 GGCGTTTCCACAATTCGATGG 60.467 52.381 0.00 0.00 37.32 3.51
2400 3048 1.467374 GCGTTTCCACAATTCGATGGG 60.467 52.381 3.03 0.00 36.56 4.00
2401 3049 1.132262 CGTTTCCACAATTCGATGGGG 59.868 52.381 0.48 0.48 45.79 4.96
2407 3055 3.230743 CACAATTCGATGGGGAAAACC 57.769 47.619 0.00 0.00 39.11 3.27
2416 3064 4.263452 GGGAAAACCCACGGTTGT 57.737 55.556 0.00 0.00 46.20 3.32
2417 3065 1.737201 GGGAAAACCCACGGTTGTG 59.263 57.895 0.00 0.00 46.20 3.33
2425 3073 4.889807 CACGGTTGTGGAAAGGGA 57.110 55.556 0.00 0.00 42.59 4.20
2426 3074 3.339547 CACGGTTGTGGAAAGGGAT 57.660 52.632 0.00 0.00 42.59 3.85
2427 3075 0.881118 CACGGTTGTGGAAAGGGATG 59.119 55.000 0.00 0.00 42.59 3.51
2428 3076 0.476771 ACGGTTGTGGAAAGGGATGT 59.523 50.000 0.00 0.00 0.00 3.06
2429 3077 0.881118 CGGTTGTGGAAAGGGATGTG 59.119 55.000 0.00 0.00 0.00 3.21
2430 3078 0.603065 GGTTGTGGAAAGGGATGTGC 59.397 55.000 0.00 0.00 0.00 4.57
2431 3079 0.240945 GTTGTGGAAAGGGATGTGCG 59.759 55.000 0.00 0.00 0.00 5.34
2432 3080 0.109532 TTGTGGAAAGGGATGTGCGA 59.890 50.000 0.00 0.00 0.00 5.10
2433 3081 0.321564 TGTGGAAAGGGATGTGCGAG 60.322 55.000 0.00 0.00 0.00 5.03
2434 3082 1.377202 TGGAAAGGGATGTGCGAGC 60.377 57.895 0.00 0.00 0.00 5.03
2435 3083 1.377202 GGAAAGGGATGTGCGAGCA 60.377 57.895 0.00 0.00 0.00 4.26
2436 3084 0.960364 GGAAAGGGATGTGCGAGCAA 60.960 55.000 0.00 0.00 0.00 3.91
2437 3085 1.098050 GAAAGGGATGTGCGAGCAAT 58.902 50.000 0.00 0.00 0.00 3.56
2438 3086 2.288666 GAAAGGGATGTGCGAGCAATA 58.711 47.619 0.00 0.00 0.00 1.90
2439 3087 1.668419 AAGGGATGTGCGAGCAATAC 58.332 50.000 0.00 0.00 0.00 1.89
2440 3088 0.833287 AGGGATGTGCGAGCAATACT 59.167 50.000 0.00 0.00 0.00 2.12
2441 3089 1.210478 AGGGATGTGCGAGCAATACTT 59.790 47.619 0.00 0.00 0.00 2.24
2442 3090 2.017049 GGGATGTGCGAGCAATACTTT 58.983 47.619 0.00 0.00 0.00 2.66
2443 3091 2.223340 GGGATGTGCGAGCAATACTTTG 60.223 50.000 0.00 0.00 35.85 2.77
2454 3102 3.691049 CAATACTTTGCCATGTACGGG 57.309 47.619 0.00 0.00 0.00 5.28
2455 3103 2.341846 ATACTTTGCCATGTACGGGG 57.658 50.000 5.63 2.18 0.00 5.73
2456 3104 0.985760 TACTTTGCCATGTACGGGGT 59.014 50.000 5.63 0.00 0.00 4.95
2457 3105 0.111639 ACTTTGCCATGTACGGGGTT 59.888 50.000 5.63 0.00 0.00 4.11
2458 3106 0.525761 CTTTGCCATGTACGGGGTTG 59.474 55.000 5.63 0.00 0.00 3.77
2459 3107 0.110678 TTTGCCATGTACGGGGTTGA 59.889 50.000 5.63 0.00 0.00 3.18
2460 3108 0.606944 TTGCCATGTACGGGGTTGAC 60.607 55.000 5.63 0.00 0.00 3.18
2461 3109 1.747745 GCCATGTACGGGGTTGACC 60.748 63.158 5.63 0.00 39.11 4.02
2462 3110 1.680487 CCATGTACGGGGTTGACCA 59.320 57.895 2.12 0.00 42.91 4.02
2463 3111 0.037017 CCATGTACGGGGTTGACCAA 59.963 55.000 2.12 0.00 42.91 3.67
2464 3112 1.340600 CCATGTACGGGGTTGACCAAT 60.341 52.381 2.12 0.00 42.91 3.16
2465 3113 2.014128 CATGTACGGGGTTGACCAATC 58.986 52.381 2.12 0.00 42.91 2.67
2466 3114 0.325602 TGTACGGGGTTGACCAATCC 59.674 55.000 3.47 3.47 42.91 3.01
2467 3115 0.616891 GTACGGGGTTGACCAATCCT 59.383 55.000 11.43 0.00 41.35 3.24
2468 3116 1.003928 GTACGGGGTTGACCAATCCTT 59.996 52.381 11.43 2.75 41.35 3.36
2469 3117 0.481128 ACGGGGTTGACCAATCCTTT 59.519 50.000 11.43 0.00 41.35 3.11
2470 3118 1.133294 ACGGGGTTGACCAATCCTTTT 60.133 47.619 11.43 0.00 41.35 2.27
2471 3119 1.272212 CGGGGTTGACCAATCCTTTTG 59.728 52.381 11.43 0.00 41.35 2.44
2472 3120 1.623311 GGGGTTGACCAATCCTTTTGG 59.377 52.381 11.43 2.87 41.35 3.28
2479 3127 2.230130 CCAATCCTTTTGGTAGCCCA 57.770 50.000 0.00 0.00 41.38 5.36
2480 3128 2.750814 CCAATCCTTTTGGTAGCCCAT 58.249 47.619 0.00 0.00 41.49 4.00
2481 3129 2.431782 CCAATCCTTTTGGTAGCCCATG 59.568 50.000 0.00 0.00 41.49 3.66
2482 3130 2.431782 CAATCCTTTTGGTAGCCCATGG 59.568 50.000 4.14 4.14 41.49 3.66
2483 3131 0.324275 TCCTTTTGGTAGCCCATGGC 60.324 55.000 6.09 1.62 44.70 4.40
2492 3140 2.124736 GCCCATGGCTACGCTGAA 60.125 61.111 6.09 0.00 46.69 3.02
2493 3141 2.472909 GCCCATGGCTACGCTGAAC 61.473 63.158 6.09 0.00 46.69 3.18
2494 3142 1.221840 CCCATGGCTACGCTGAACT 59.778 57.895 6.09 0.00 0.00 3.01
2495 3143 0.392998 CCCATGGCTACGCTGAACTT 60.393 55.000 6.09 0.00 0.00 2.66
2496 3144 1.009829 CCATGGCTACGCTGAACTTC 58.990 55.000 0.00 0.00 0.00 3.01
2497 3145 1.406069 CCATGGCTACGCTGAACTTCT 60.406 52.381 0.00 0.00 0.00 2.85
2498 3146 1.929836 CATGGCTACGCTGAACTTCTC 59.070 52.381 0.00 0.00 0.00 2.87
2499 3147 0.246635 TGGCTACGCTGAACTTCTCC 59.753 55.000 0.00 0.00 0.00 3.71
2500 3148 0.246635 GGCTACGCTGAACTTCTCCA 59.753 55.000 0.00 0.00 0.00 3.86
2501 3149 1.351153 GCTACGCTGAACTTCTCCAC 58.649 55.000 0.00 0.00 0.00 4.02
2502 3150 1.618861 CTACGCTGAACTTCTCCACG 58.381 55.000 0.00 0.00 0.00 4.94
2503 3151 1.199327 CTACGCTGAACTTCTCCACGA 59.801 52.381 0.00 0.00 0.00 4.35
2504 3152 0.318784 ACGCTGAACTTCTCCACGAC 60.319 55.000 0.00 0.00 0.00 4.34
2505 3153 1.009389 CGCTGAACTTCTCCACGACC 61.009 60.000 0.00 0.00 0.00 4.79
2506 3154 0.033504 GCTGAACTTCTCCACGACCA 59.966 55.000 0.00 0.00 0.00 4.02
2507 3155 1.784525 CTGAACTTCTCCACGACCAC 58.215 55.000 0.00 0.00 0.00 4.16
2508 3156 0.031585 TGAACTTCTCCACGACCACG 59.968 55.000 0.00 0.00 45.75 4.94
2509 3157 0.666577 GAACTTCTCCACGACCACGG 60.667 60.000 0.00 0.00 44.46 4.94
2510 3158 2.432628 CTTCTCCACGACCACGGC 60.433 66.667 0.00 0.00 44.46 5.68
2511 3159 3.934391 CTTCTCCACGACCACGGCC 62.934 68.421 0.00 0.00 44.46 6.13
2513 3161 4.082523 CTCCACGACCACGGCCAT 62.083 66.667 2.24 0.00 44.46 4.40
2514 3162 3.605749 CTCCACGACCACGGCCATT 62.606 63.158 2.24 0.00 44.46 3.16
2515 3163 2.671619 CCACGACCACGGCCATTT 60.672 61.111 2.24 0.00 44.46 2.32
2516 3164 2.560861 CACGACCACGGCCATTTG 59.439 61.111 2.24 0.00 44.46 2.32
2517 3165 2.671619 ACGACCACGGCCATTTGG 60.672 61.111 12.54 12.54 44.46 3.28
2528 3176 2.649831 CCATTTGGCTGCAGTCAGT 58.350 52.632 22.01 11.73 42.29 3.41
2529 3177 0.963962 CCATTTGGCTGCAGTCAGTT 59.036 50.000 22.01 10.18 42.29 3.16
2530 3178 1.068055 CCATTTGGCTGCAGTCAGTTC 60.068 52.381 22.01 0.00 42.29 3.01
2531 3179 1.610038 CATTTGGCTGCAGTCAGTTCA 59.390 47.619 22.01 3.29 42.29 3.18
2532 3180 1.311859 TTTGGCTGCAGTCAGTTCAG 58.688 50.000 22.01 0.00 42.29 3.02
2534 3182 2.858868 GCTGCAGTCAGTTCAGCG 59.141 61.111 16.64 0.00 42.86 5.18
2535 3183 2.858868 CTGCAGTCAGTTCAGCGC 59.141 61.111 5.25 0.00 35.61 5.92
2536 3184 1.957695 CTGCAGTCAGTTCAGCGCA 60.958 57.895 11.47 0.00 35.61 6.09
2537 3185 1.501337 CTGCAGTCAGTTCAGCGCAA 61.501 55.000 11.47 0.00 35.61 4.85
2538 3186 1.206072 GCAGTCAGTTCAGCGCAAG 59.794 57.895 11.47 0.72 43.44 4.01
2539 3187 1.864862 CAGTCAGTTCAGCGCAAGG 59.135 57.895 11.47 0.00 38.28 3.61
2551 3199 4.770874 GCAAGGTCGCCGGCCTTA 62.771 66.667 24.35 3.24 43.87 2.69
2552 3200 2.046700 CAAGGTCGCCGGCCTTAA 60.047 61.111 24.35 0.19 43.87 1.85
2553 3201 2.046604 AAGGTCGCCGGCCTTAAC 60.047 61.111 23.53 13.90 43.87 2.01
2554 3202 2.590114 AAGGTCGCCGGCCTTAACT 61.590 57.895 23.53 12.21 43.87 2.24
2555 3203 2.798148 AAGGTCGCCGGCCTTAACTG 62.798 60.000 23.53 4.61 43.87 3.16
2556 3204 2.818274 GTCGCCGGCCTTAACTGG 60.818 66.667 23.46 3.72 39.28 4.00
2557 3205 4.090588 TCGCCGGCCTTAACTGGG 62.091 66.667 23.46 2.86 36.51 4.45
2558 3206 4.090588 CGCCGGCCTTAACTGGGA 62.091 66.667 23.46 0.00 36.51 4.37
2559 3207 2.124695 GCCGGCCTTAACTGGGAG 60.125 66.667 18.11 0.00 36.51 4.30
2560 3208 2.590092 CCGGCCTTAACTGGGAGG 59.410 66.667 0.00 0.00 36.09 4.30
2561 3209 2.590092 CGGCCTTAACTGGGAGGG 59.410 66.667 0.00 0.00 33.52 4.30
2562 3210 3.007542 GGCCTTAACTGGGAGGGG 58.992 66.667 0.00 0.00 33.52 4.79
2563 3211 1.929088 GGCCTTAACTGGGAGGGGT 60.929 63.158 0.00 0.00 33.52 4.95
2564 3212 1.506907 GGCCTTAACTGGGAGGGGTT 61.507 60.000 0.00 0.00 33.52 4.11
2565 3213 1.292085 GCCTTAACTGGGAGGGGTTA 58.708 55.000 0.00 0.00 33.52 2.85
2566 3214 1.850998 GCCTTAACTGGGAGGGGTTAT 59.149 52.381 0.00 0.00 33.52 1.89
2567 3215 2.422945 GCCTTAACTGGGAGGGGTTATG 60.423 54.545 0.00 0.00 33.52 1.90
2568 3216 2.422945 CCTTAACTGGGAGGGGTTATGC 60.423 54.545 0.00 0.00 0.00 3.14
2569 3217 0.834612 TAACTGGGAGGGGTTATGCG 59.165 55.000 0.00 0.00 0.00 4.73
2570 3218 0.912487 AACTGGGAGGGGTTATGCGA 60.912 55.000 0.00 0.00 0.00 5.10
2571 3219 1.338136 ACTGGGAGGGGTTATGCGAG 61.338 60.000 0.00 0.00 0.00 5.03
2572 3220 1.306654 TGGGAGGGGTTATGCGAGT 60.307 57.895 0.00 0.00 0.00 4.18
2573 3221 0.912487 TGGGAGGGGTTATGCGAGTT 60.912 55.000 0.00 0.00 0.00 3.01
2574 3222 0.255033 GGGAGGGGTTATGCGAGTTT 59.745 55.000 0.00 0.00 0.00 2.66
2575 3223 1.664873 GGAGGGGTTATGCGAGTTTC 58.335 55.000 0.00 0.00 0.00 2.78
2576 3224 1.209747 GGAGGGGTTATGCGAGTTTCT 59.790 52.381 0.00 0.00 0.00 2.52
2577 3225 2.355818 GGAGGGGTTATGCGAGTTTCTT 60.356 50.000 0.00 0.00 0.00 2.52
2578 3226 3.344515 GAGGGGTTATGCGAGTTTCTTT 58.655 45.455 0.00 0.00 0.00 2.52
2579 3227 3.081804 AGGGGTTATGCGAGTTTCTTTG 58.918 45.455 0.00 0.00 0.00 2.77
2580 3228 2.415491 GGGGTTATGCGAGTTTCTTTGC 60.415 50.000 0.00 0.00 0.00 3.68
2581 3229 2.227865 GGGTTATGCGAGTTTCTTTGCA 59.772 45.455 0.00 0.00 42.22 4.08
2582 3230 3.492313 GGTTATGCGAGTTTCTTTGCAG 58.508 45.455 0.00 0.00 41.19 4.41
2583 3231 2.900122 TATGCGAGTTTCTTTGCAGC 57.100 45.000 0.00 0.00 41.19 5.25
2584 3232 0.953727 ATGCGAGTTTCTTTGCAGCA 59.046 45.000 0.00 0.00 41.19 4.41
2585 3233 0.737804 TGCGAGTTTCTTTGCAGCAA 59.262 45.000 2.83 2.83 32.73 3.91
2586 3234 1.268692 TGCGAGTTTCTTTGCAGCAAG 60.269 47.619 8.12 3.23 32.73 4.01
2587 3235 1.268743 GCGAGTTTCTTTGCAGCAAGT 60.269 47.619 8.12 0.00 0.00 3.16
2588 3236 2.796032 GCGAGTTTCTTTGCAGCAAGTT 60.796 45.455 8.12 0.00 0.00 2.66
2589 3237 3.038710 CGAGTTTCTTTGCAGCAAGTTC 58.961 45.455 8.12 1.09 0.00 3.01
2590 3238 3.038710 GAGTTTCTTTGCAGCAAGTTCG 58.961 45.455 8.12 0.00 0.00 3.95
2591 3239 2.119457 GTTTCTTTGCAGCAAGTTCGG 58.881 47.619 8.12 0.00 0.00 4.30
2592 3240 0.667993 TTCTTTGCAGCAAGTTCGGG 59.332 50.000 8.12 0.00 0.00 5.14
2593 3241 1.372128 CTTTGCAGCAAGTTCGGGC 60.372 57.895 8.12 0.00 0.00 6.13
2594 3242 3.192954 TTTGCAGCAAGTTCGGGCG 62.193 57.895 8.12 0.00 34.54 6.13
2601 3249 4.612412 AAGTTCGGGCGCGACCAA 62.612 61.111 33.95 21.45 42.05 3.67
2608 3256 4.322385 GGCGCGACCAACACCAAC 62.322 66.667 12.10 0.00 38.86 3.77
2609 3257 3.578272 GCGCGACCAACACCAACA 61.578 61.111 12.10 0.00 0.00 3.33
2610 3258 3.102985 CGCGACCAACACCAACAA 58.897 55.556 0.00 0.00 0.00 2.83
2611 3259 1.298041 CGCGACCAACACCAACAAC 60.298 57.895 0.00 0.00 0.00 3.32
2612 3260 1.711060 CGCGACCAACACCAACAACT 61.711 55.000 0.00 0.00 0.00 3.16
2613 3261 0.248458 GCGACCAACACCAACAACTG 60.248 55.000 0.00 0.00 0.00 3.16
2614 3262 1.374560 CGACCAACACCAACAACTGA 58.625 50.000 0.00 0.00 0.00 3.41
2615 3263 1.946768 CGACCAACACCAACAACTGAT 59.053 47.619 0.00 0.00 0.00 2.90
2616 3264 2.357637 CGACCAACACCAACAACTGATT 59.642 45.455 0.00 0.00 0.00 2.57
2617 3265 3.562141 CGACCAACACCAACAACTGATTA 59.438 43.478 0.00 0.00 0.00 1.75
2618 3266 4.319477 CGACCAACACCAACAACTGATTAG 60.319 45.833 0.00 0.00 0.00 1.73
2619 3267 3.888930 ACCAACACCAACAACTGATTAGG 59.111 43.478 0.00 0.00 0.00 2.69
2620 3268 3.305335 CCAACACCAACAACTGATTAGGC 60.305 47.826 0.00 0.00 0.00 3.93
2621 3269 2.151202 ACACCAACAACTGATTAGGCG 58.849 47.619 0.00 0.00 0.00 5.52
2622 3270 2.224426 ACACCAACAACTGATTAGGCGA 60.224 45.455 0.00 0.00 0.00 5.54
2623 3271 3.009723 CACCAACAACTGATTAGGCGAT 58.990 45.455 0.00 0.00 0.00 4.58
2624 3272 3.440173 CACCAACAACTGATTAGGCGATT 59.560 43.478 0.00 0.00 0.00 3.34
2625 3273 4.079253 ACCAACAACTGATTAGGCGATTT 58.921 39.130 0.00 0.00 0.00 2.17
2626 3274 4.522789 ACCAACAACTGATTAGGCGATTTT 59.477 37.500 0.00 0.00 0.00 1.82
2627 3275 5.708230 ACCAACAACTGATTAGGCGATTTTA 59.292 36.000 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 3.865745 CGTGAGAATACATCTTTCGCCTT 59.134 43.478 0.00 0.00 38.96 4.35
56 57 3.257561 CTCGAAGGCGCCATCGTG 61.258 66.667 41.89 37.25 38.18 4.35
124 125 1.079127 CACTGTAGCTTGTCGGGGG 60.079 63.158 0.00 0.00 0.00 5.40
125 126 1.079127 CCACTGTAGCTTGTCGGGG 60.079 63.158 0.00 0.00 0.00 5.73
139 140 7.004691 AGTAAAGCAAATCTAGGTTTTCCACT 58.995 34.615 0.00 0.00 43.73 4.00
158 159 0.038526 ACTGTCGTCGCCCAGTAAAG 60.039 55.000 13.56 0.00 40.03 1.85
171 177 2.287915 AGCAAAGCTAACAACACTGTCG 59.712 45.455 0.00 0.00 36.99 4.35
173 179 3.181487 CCAAGCAAAGCTAACAACACTGT 60.181 43.478 0.00 0.00 38.25 3.55
177 183 2.757868 ACACCAAGCAAAGCTAACAACA 59.242 40.909 0.00 0.00 38.25 3.33
230 236 3.461773 CCACCGACCGCCATCTCT 61.462 66.667 0.00 0.00 0.00 3.10
245 251 3.569210 CACCAGCCACAGGTCCCA 61.569 66.667 0.00 0.00 37.23 4.37
251 257 1.601759 CCAACTCCACCAGCCACAG 60.602 63.158 0.00 0.00 0.00 3.66
259 265 3.948719 TCACCGGCCAACTCCACC 61.949 66.667 0.00 0.00 0.00 4.61
283 296 1.010125 CACACGGGCGAAAACACAG 60.010 57.895 0.00 0.00 0.00 3.66
307 320 2.225017 ACCCACCACCCAATTCAGTAAG 60.225 50.000 0.00 0.00 0.00 2.34
403 520 8.186178 ACTGATATGTCTGTTAAATCGAACAC 57.814 34.615 0.00 0.00 34.40 3.32
427 545 4.436242 TCACAACGACATTAGAGAGGAC 57.564 45.455 0.00 0.00 0.00 3.85
436 554 4.055360 TCTTCACGAATCACAACGACATT 58.945 39.130 0.00 0.00 0.00 2.71
437 555 3.649073 TCTTCACGAATCACAACGACAT 58.351 40.909 0.00 0.00 0.00 3.06
438 556 3.086818 TCTTCACGAATCACAACGACA 57.913 42.857 0.00 0.00 0.00 4.35
448 566 6.037610 GGCTTATCACAAGATTCTTCACGAAT 59.962 38.462 0.00 0.00 44.87 3.34
455 573 5.045286 AGTCTGGGCTTATCACAAGATTCTT 60.045 40.000 0.00 0.00 35.67 2.52
457 575 4.775236 AGTCTGGGCTTATCACAAGATTC 58.225 43.478 0.00 0.00 35.67 2.52
468 586 3.554934 CCATTGCATTAGTCTGGGCTTA 58.445 45.455 0.00 0.00 0.00 3.09
490 608 1.531423 ACCAGACTGCATGCTGAAAG 58.469 50.000 28.74 15.64 34.06 2.62
495 613 1.153489 CGCTACCAGACTGCATGCT 60.153 57.895 20.33 0.00 0.00 3.79
498 616 2.187946 GCCGCTACCAGACTGCAT 59.812 61.111 0.00 0.00 0.00 3.96
531 649 6.183360 CGCTCGGTTTATATTTGAGGAAAACT 60.183 38.462 0.00 0.00 32.11 2.66
542 660 0.763035 AGGGCCGCTCGGTTTATATT 59.237 50.000 10.24 0.00 37.65 1.28
543 661 0.763035 AAGGGCCGCTCGGTTTATAT 59.237 50.000 10.24 0.00 37.65 0.86
544 662 0.542805 AAAGGGCCGCTCGGTTTATA 59.457 50.000 10.24 0.00 37.65 0.98
564 684 7.676807 GCATGTGCTAGAGAAAGAAGAATGAAG 60.677 40.741 0.00 0.00 38.21 3.02
628 752 6.254281 AGAAACATTGATTAGAAACGGGTG 57.746 37.500 0.00 0.00 0.00 4.61
657 788 4.310022 AAACCATTGATTAGAACCCCGA 57.690 40.909 0.00 0.00 0.00 5.14
718 993 1.820519 GTGGACTCCCGTGTACATACA 59.179 52.381 0.00 0.00 32.86 2.29
741 1085 2.965783 CGGAGCGGATCGATGGAT 59.034 61.111 0.54 0.00 34.96 3.41
762 1106 1.346197 CGAGAACGTACGCGAGCTA 59.654 57.895 15.93 0.00 42.00 3.32
954 1311 1.742750 GCTGCTGATGCTGAGATGTGA 60.743 52.381 0.00 0.00 40.01 3.58
995 1365 4.366684 GTGGGGAGGTGGGGCTTG 62.367 72.222 0.00 0.00 0.00 4.01
1201 1580 6.478344 GCACCTTGAAGATGTAGATCTTGTAG 59.522 42.308 19.08 14.30 47.00 2.74
1487 1878 1.215382 CGCCCTCAACTCGTCATGA 59.785 57.895 0.00 0.00 0.00 3.07
1489 1880 2.579201 CCGCCCTCAACTCGTCAT 59.421 61.111 0.00 0.00 0.00 3.06
1491 1882 4.373116 TGCCGCCCTCAACTCGTC 62.373 66.667 0.00 0.00 0.00 4.20
1527 1938 6.452494 AGATTGTAACATCGTACTACTGCT 57.548 37.500 0.00 0.00 0.00 4.24
1564 1975 1.152694 AAGGCCACAAGCAAGCAGA 60.153 52.632 5.01 0.00 46.50 4.26
1653 2087 5.796424 AACAAATGGCATCAAGAAGAGTT 57.204 34.783 0.00 0.00 0.00 3.01
1817 2359 7.093333 GGAAGGAAAATCATGGATTTAACTGGT 60.093 37.037 4.77 0.00 40.77 4.00
1828 2370 5.727434 CCAAAAGAGGAAGGAAAATCATGG 58.273 41.667 0.00 0.00 0.00 3.66
1862 2427 5.853936 TGGCAGCAACAGTATATAGGTTAG 58.146 41.667 0.00 0.00 0.00 2.34
1911 2490 7.327032 GGAATGTTCTGTCAGAAATTAACAAGC 59.673 37.037 16.86 7.46 35.75 4.01
1999 2580 3.608707 GCATTGTGACTTTCTGAGCACTG 60.609 47.826 0.00 0.00 35.09 3.66
2239 2883 1.742761 ATTGGTGGCTTCGTGATCAG 58.257 50.000 0.00 0.00 0.00 2.90
2367 3015 0.532115 GAAACGCCATGGCTGGAAAT 59.468 50.000 33.07 13.85 46.37 2.17
2368 3016 1.531739 GGAAACGCCATGGCTGGAAA 61.532 55.000 33.07 0.00 46.37 3.13
2369 3017 1.976474 GGAAACGCCATGGCTGGAA 60.976 57.895 33.07 0.00 46.37 3.53
2370 3018 2.361104 GGAAACGCCATGGCTGGA 60.361 61.111 33.07 0.00 46.37 3.86
2371 3019 2.676121 TGGAAACGCCATGGCTGG 60.676 61.111 33.07 21.43 43.33 4.85
2378 3026 1.198867 CATCGAATTGTGGAAACGCCA 59.801 47.619 0.00 0.00 46.96 5.69
2379 3027 1.467374 CCATCGAATTGTGGAAACGCC 60.467 52.381 0.00 0.00 41.24 5.68
2380 3028 1.467374 CCCATCGAATTGTGGAAACGC 60.467 52.381 4.30 0.00 37.72 4.84
2381 3029 1.132262 CCCCATCGAATTGTGGAAACG 59.868 52.381 4.30 0.00 37.72 3.60
2382 3030 2.442413 TCCCCATCGAATTGTGGAAAC 58.558 47.619 4.30 0.00 37.72 2.78
2383 3031 2.889170 TCCCCATCGAATTGTGGAAA 57.111 45.000 4.30 0.00 37.72 3.13
2384 3032 2.889170 TTCCCCATCGAATTGTGGAA 57.111 45.000 4.30 1.77 37.72 3.53
2385 3033 2.823154 GTTTTCCCCATCGAATTGTGGA 59.177 45.455 4.30 0.00 37.72 4.02
2386 3034 2.094234 GGTTTTCCCCATCGAATTGTGG 60.094 50.000 0.00 0.00 35.22 4.17
2387 3035 3.230743 GGTTTTCCCCATCGAATTGTG 57.769 47.619 0.00 0.00 0.00 3.33
2408 3056 0.881118 CATCCCTTTCCACAACCGTG 59.119 55.000 0.00 0.00 43.21 4.94
2409 3057 0.476771 ACATCCCTTTCCACAACCGT 59.523 50.000 0.00 0.00 0.00 4.83
2410 3058 0.881118 CACATCCCTTTCCACAACCG 59.119 55.000 0.00 0.00 0.00 4.44
2411 3059 0.603065 GCACATCCCTTTCCACAACC 59.397 55.000 0.00 0.00 0.00 3.77
2412 3060 0.240945 CGCACATCCCTTTCCACAAC 59.759 55.000 0.00 0.00 0.00 3.32
2413 3061 0.109532 TCGCACATCCCTTTCCACAA 59.890 50.000 0.00 0.00 0.00 3.33
2414 3062 0.321564 CTCGCACATCCCTTTCCACA 60.322 55.000 0.00 0.00 0.00 4.17
2415 3063 1.648467 GCTCGCACATCCCTTTCCAC 61.648 60.000 0.00 0.00 0.00 4.02
2416 3064 1.377202 GCTCGCACATCCCTTTCCA 60.377 57.895 0.00 0.00 0.00 3.53
2417 3065 0.960364 TTGCTCGCACATCCCTTTCC 60.960 55.000 0.00 0.00 0.00 3.13
2418 3066 1.098050 ATTGCTCGCACATCCCTTTC 58.902 50.000 0.00 0.00 0.00 2.62
2419 3067 2.017049 GTATTGCTCGCACATCCCTTT 58.983 47.619 0.00 0.00 0.00 3.11
2420 3068 1.210478 AGTATTGCTCGCACATCCCTT 59.790 47.619 0.00 0.00 0.00 3.95
2421 3069 0.833287 AGTATTGCTCGCACATCCCT 59.167 50.000 0.00 0.00 0.00 4.20
2422 3070 1.668419 AAGTATTGCTCGCACATCCC 58.332 50.000 0.00 0.00 0.00 3.85
2423 3071 3.056952 CAAAGTATTGCTCGCACATCC 57.943 47.619 0.00 0.00 0.00 3.51
2434 3082 2.357637 CCCCGTACATGGCAAAGTATTG 59.642 50.000 0.00 0.00 39.65 1.90
2435 3083 2.025699 ACCCCGTACATGGCAAAGTATT 60.026 45.455 0.00 0.00 0.00 1.89
2436 3084 1.562475 ACCCCGTACATGGCAAAGTAT 59.438 47.619 0.00 0.00 0.00 2.12
2437 3085 0.985760 ACCCCGTACATGGCAAAGTA 59.014 50.000 0.00 0.00 0.00 2.24
2438 3086 0.111639 AACCCCGTACATGGCAAAGT 59.888 50.000 0.00 0.00 0.00 2.66
2439 3087 0.525761 CAACCCCGTACATGGCAAAG 59.474 55.000 0.00 0.00 0.00 2.77
2440 3088 0.110678 TCAACCCCGTACATGGCAAA 59.889 50.000 0.00 0.00 0.00 3.68
2441 3089 0.606944 GTCAACCCCGTACATGGCAA 60.607 55.000 0.00 0.00 0.00 4.52
2442 3090 1.003112 GTCAACCCCGTACATGGCA 60.003 57.895 0.00 0.00 0.00 4.92
2443 3091 1.747745 GGTCAACCCCGTACATGGC 60.748 63.158 0.00 0.00 0.00 4.40
2444 3092 0.037017 TTGGTCAACCCCGTACATGG 59.963 55.000 0.00 0.00 34.29 3.66
2445 3093 2.014128 GATTGGTCAACCCCGTACATG 58.986 52.381 0.00 0.00 34.29 3.21
2446 3094 1.064979 GGATTGGTCAACCCCGTACAT 60.065 52.381 0.00 0.00 34.29 2.29
2447 3095 0.325602 GGATTGGTCAACCCCGTACA 59.674 55.000 0.00 0.00 34.29 2.90
2448 3096 0.616891 AGGATTGGTCAACCCCGTAC 59.383 55.000 0.00 0.00 34.29 3.67
2449 3097 1.364269 AAGGATTGGTCAACCCCGTA 58.636 50.000 0.00 0.00 34.29 4.02
2450 3098 0.481128 AAAGGATTGGTCAACCCCGT 59.519 50.000 0.00 0.00 34.29 5.28
2451 3099 1.272212 CAAAAGGATTGGTCAACCCCG 59.728 52.381 0.00 0.00 34.29 5.73
2452 3100 1.623311 CCAAAAGGATTGGTCAACCCC 59.377 52.381 0.00 0.00 34.92 4.95
2460 3108 2.230130 TGGGCTACCAAAAGGATTGG 57.770 50.000 5.69 5.69 45.87 3.16
2483 3131 1.199327 TCGTGGAGAAGTTCAGCGTAG 59.801 52.381 5.50 0.00 0.00 3.51
2484 3132 1.068748 GTCGTGGAGAAGTTCAGCGTA 60.069 52.381 5.50 0.00 0.00 4.42
2485 3133 0.318784 GTCGTGGAGAAGTTCAGCGT 60.319 55.000 5.50 0.00 0.00 5.07
2486 3134 1.009389 GGTCGTGGAGAAGTTCAGCG 61.009 60.000 5.50 4.12 0.00 5.18
2487 3135 0.033504 TGGTCGTGGAGAAGTTCAGC 59.966 55.000 5.50 0.00 0.00 4.26
2488 3136 1.784525 GTGGTCGTGGAGAAGTTCAG 58.215 55.000 5.50 0.00 0.00 3.02
2489 3137 0.031585 CGTGGTCGTGGAGAAGTTCA 59.968 55.000 5.50 0.00 0.00 3.18
2490 3138 0.666577 CCGTGGTCGTGGAGAAGTTC 60.667 60.000 0.00 0.00 35.01 3.01
2491 3139 1.366366 CCGTGGTCGTGGAGAAGTT 59.634 57.895 0.00 0.00 35.01 2.66
2492 3140 3.048602 CCGTGGTCGTGGAGAAGT 58.951 61.111 0.00 0.00 35.01 3.01
2493 3141 2.432628 GCCGTGGTCGTGGAGAAG 60.433 66.667 0.00 0.00 35.01 2.85
2494 3142 3.998672 GGCCGTGGTCGTGGAGAA 61.999 66.667 0.00 0.00 35.01 2.87
2496 3144 3.605749 AATGGCCGTGGTCGTGGAG 62.606 63.158 0.00 0.00 35.01 3.86
2497 3145 3.185299 AAATGGCCGTGGTCGTGGA 62.185 57.895 0.00 0.00 35.01 4.02
2498 3146 2.671619 AAATGGCCGTGGTCGTGG 60.672 61.111 0.00 0.00 35.01 4.94
2499 3147 2.560861 CAAATGGCCGTGGTCGTG 59.439 61.111 0.00 0.00 35.01 4.35
2500 3148 2.671619 CCAAATGGCCGTGGTCGT 60.672 61.111 11.00 0.00 35.01 4.34
2510 3158 0.963962 AACTGACTGCAGCCAAATGG 59.036 50.000 15.27 0.00 46.26 3.16
2511 3159 1.610038 TGAACTGACTGCAGCCAAATG 59.390 47.619 15.27 0.00 46.26 2.32
2512 3160 1.884579 CTGAACTGACTGCAGCCAAAT 59.115 47.619 15.27 0.00 46.26 2.32
2513 3161 1.311859 CTGAACTGACTGCAGCCAAA 58.688 50.000 15.27 0.00 46.26 3.28
2514 3162 1.168407 GCTGAACTGACTGCAGCCAA 61.168 55.000 15.27 0.00 46.94 4.52
2515 3163 1.598962 GCTGAACTGACTGCAGCCA 60.599 57.895 15.27 8.41 46.94 4.75
2516 3164 3.261933 GCTGAACTGACTGCAGCC 58.738 61.111 15.27 2.30 46.94 4.85
2519 3167 1.501337 CTTGCGCTGAACTGACTGCA 61.501 55.000 9.73 0.00 35.10 4.41
2520 3168 1.206072 CTTGCGCTGAACTGACTGC 59.794 57.895 9.73 0.00 0.00 4.40
2521 3169 0.882042 ACCTTGCGCTGAACTGACTG 60.882 55.000 9.73 0.00 0.00 3.51
2522 3170 0.601311 GACCTTGCGCTGAACTGACT 60.601 55.000 9.73 0.00 0.00 3.41
2523 3171 1.862806 GACCTTGCGCTGAACTGAC 59.137 57.895 9.73 0.00 0.00 3.51
2524 3172 1.664649 CGACCTTGCGCTGAACTGA 60.665 57.895 9.73 0.00 0.00 3.41
2525 3173 2.856032 CGACCTTGCGCTGAACTG 59.144 61.111 9.73 0.00 0.00 3.16
2534 3182 4.770874 TAAGGCCGGCGACCTTGC 62.771 66.667 33.44 16.59 46.99 4.01
2535 3183 2.046700 TTAAGGCCGGCGACCTTG 60.047 61.111 33.44 6.75 46.99 3.61
2537 3185 3.001406 AGTTAAGGCCGGCGACCT 61.001 61.111 22.54 9.64 40.02 3.85
2538 3186 2.818274 CAGTTAAGGCCGGCGACC 60.818 66.667 22.54 6.17 0.00 4.79
2539 3187 2.818274 CCAGTTAAGGCCGGCGAC 60.818 66.667 22.54 15.96 0.00 5.19
2540 3188 4.090588 CCCAGTTAAGGCCGGCGA 62.091 66.667 22.54 5.08 0.00 5.54
2541 3189 4.090588 TCCCAGTTAAGGCCGGCG 62.091 66.667 22.54 3.99 0.00 6.46
2542 3190 2.124695 CTCCCAGTTAAGGCCGGC 60.125 66.667 21.18 21.18 0.00 6.13
2543 3191 2.590092 CCTCCCAGTTAAGGCCGG 59.410 66.667 0.00 0.00 0.00 6.13
2544 3192 2.590092 CCCTCCCAGTTAAGGCCG 59.410 66.667 0.00 0.00 0.00 6.13
2545 3193 1.506907 AACCCCTCCCAGTTAAGGCC 61.507 60.000 0.00 0.00 0.00 5.19
2546 3194 1.292085 TAACCCCTCCCAGTTAAGGC 58.708 55.000 0.00 0.00 0.00 4.35
2547 3195 2.422945 GCATAACCCCTCCCAGTTAAGG 60.423 54.545 0.00 0.00 32.52 2.69
2548 3196 2.745152 CGCATAACCCCTCCCAGTTAAG 60.745 54.545 0.00 0.00 32.52 1.85
2549 3197 1.210967 CGCATAACCCCTCCCAGTTAA 59.789 52.381 0.00 0.00 32.52 2.01
2550 3198 0.834612 CGCATAACCCCTCCCAGTTA 59.165 55.000 0.00 0.00 33.26 2.24
2551 3199 0.912487 TCGCATAACCCCTCCCAGTT 60.912 55.000 0.00 0.00 0.00 3.16
2552 3200 1.306654 TCGCATAACCCCTCCCAGT 60.307 57.895 0.00 0.00 0.00 4.00
2553 3201 1.338136 ACTCGCATAACCCCTCCCAG 61.338 60.000 0.00 0.00 0.00 4.45
2554 3202 0.912487 AACTCGCATAACCCCTCCCA 60.912 55.000 0.00 0.00 0.00 4.37
2555 3203 0.255033 AAACTCGCATAACCCCTCCC 59.745 55.000 0.00 0.00 0.00 4.30
2556 3204 1.209747 AGAAACTCGCATAACCCCTCC 59.790 52.381 0.00 0.00 0.00 4.30
2557 3205 2.693267 AGAAACTCGCATAACCCCTC 57.307 50.000 0.00 0.00 0.00 4.30
2558 3206 3.081804 CAAAGAAACTCGCATAACCCCT 58.918 45.455 0.00 0.00 0.00 4.79
2559 3207 2.415491 GCAAAGAAACTCGCATAACCCC 60.415 50.000 0.00 0.00 0.00 4.95
2560 3208 2.227865 TGCAAAGAAACTCGCATAACCC 59.772 45.455 0.00 0.00 0.00 4.11
2561 3209 3.492313 CTGCAAAGAAACTCGCATAACC 58.508 45.455 0.00 0.00 33.15 2.85
2562 3210 2.911102 GCTGCAAAGAAACTCGCATAAC 59.089 45.455 0.00 0.00 33.15 1.89
2563 3211 2.551887 TGCTGCAAAGAAACTCGCATAA 59.448 40.909 0.00 0.00 33.15 1.90
2564 3212 2.150390 TGCTGCAAAGAAACTCGCATA 58.850 42.857 0.00 0.00 33.15 3.14
2565 3213 0.953727 TGCTGCAAAGAAACTCGCAT 59.046 45.000 0.00 0.00 33.15 4.73
2566 3214 0.737804 TTGCTGCAAAGAAACTCGCA 59.262 45.000 13.51 0.00 0.00 5.10
2567 3215 1.268743 ACTTGCTGCAAAGAAACTCGC 60.269 47.619 16.74 0.00 0.00 5.03
2568 3216 2.763249 ACTTGCTGCAAAGAAACTCG 57.237 45.000 16.74 4.59 0.00 4.18
2569 3217 3.038710 CGAACTTGCTGCAAAGAAACTC 58.961 45.455 16.74 5.89 0.00 3.01
2570 3218 2.223572 CCGAACTTGCTGCAAAGAAACT 60.224 45.455 16.74 0.00 0.00 2.66
2571 3219 2.119457 CCGAACTTGCTGCAAAGAAAC 58.881 47.619 16.74 5.75 0.00 2.78
2572 3220 1.066908 CCCGAACTTGCTGCAAAGAAA 59.933 47.619 16.74 0.00 0.00 2.52
2573 3221 0.667993 CCCGAACTTGCTGCAAAGAA 59.332 50.000 16.74 0.00 0.00 2.52
2574 3222 1.795170 GCCCGAACTTGCTGCAAAGA 61.795 55.000 16.74 0.00 0.00 2.52
2575 3223 1.372128 GCCCGAACTTGCTGCAAAG 60.372 57.895 16.74 12.43 0.00 2.77
2576 3224 2.727544 GCCCGAACTTGCTGCAAA 59.272 55.556 16.74 0.61 0.00 3.68
2577 3225 3.659092 CGCCCGAACTTGCTGCAA 61.659 61.111 15.16 15.16 0.00 4.08
2591 3239 4.322385 GTTGGTGTTGGTCGCGCC 62.322 66.667 0.00 6.97 37.06 6.53
2592 3240 3.114647 TTGTTGGTGTTGGTCGCGC 62.115 57.895 0.00 0.00 0.00 6.86
2593 3241 1.298041 GTTGTTGGTGTTGGTCGCG 60.298 57.895 0.00 0.00 0.00 5.87
2594 3242 0.248458 CAGTTGTTGGTGTTGGTCGC 60.248 55.000 0.00 0.00 0.00 5.19
2595 3243 1.374560 TCAGTTGTTGGTGTTGGTCG 58.625 50.000 0.00 0.00 0.00 4.79
2596 3244 4.023193 CCTAATCAGTTGTTGGTGTTGGTC 60.023 45.833 0.00 0.00 0.00 4.02
2597 3245 3.888930 CCTAATCAGTTGTTGGTGTTGGT 59.111 43.478 0.00 0.00 0.00 3.67
2598 3246 3.305335 GCCTAATCAGTTGTTGGTGTTGG 60.305 47.826 0.00 0.00 0.00 3.77
2599 3247 3.609175 CGCCTAATCAGTTGTTGGTGTTG 60.609 47.826 0.00 0.00 0.00 3.33
2600 3248 2.552315 CGCCTAATCAGTTGTTGGTGTT 59.448 45.455 0.00 0.00 0.00 3.32
2601 3249 2.151202 CGCCTAATCAGTTGTTGGTGT 58.849 47.619 0.00 0.00 0.00 4.16
2602 3250 2.422597 TCGCCTAATCAGTTGTTGGTG 58.577 47.619 0.00 0.00 0.00 4.17
2603 3251 2.851263 TCGCCTAATCAGTTGTTGGT 57.149 45.000 0.00 0.00 0.00 3.67
2604 3252 4.701956 AAATCGCCTAATCAGTTGTTGG 57.298 40.909 0.00 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.