Multiple sequence alignment - TraesCS6A01G144200

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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 TraesCS6A01G144200 chr6A 100.000 4059 0 0 1 4059 121658038 121662096 0.000000e+00 7496
1 TraesCS6A01G144200 chr6A 90.282 957 77 6 996 1946 121871004 121871950 0.000000e+00 1238
2 TraesCS6A01G144200 chr6A 83.965 923 120 12 995 1915 120130190 120129294 0.000000e+00 859
3 TraesCS6A01G144200 chr6D 94.156 1985 92 12 12 1981 101201202 101203177 0.000000e+00 3001
4 TraesCS6A01G144200 chr6D 89.804 1226 89 17 2080 3296 101203185 101204383 0.000000e+00 1539
5 TraesCS6A01G144200 chr6D 90.246 974 82 4 997 1967 25440238 25439275 0.000000e+00 1260
6 TraesCS6A01G144200 chr6D 90.135 963 79 5 994 1956 101212207 101213153 0.000000e+00 1238
7 TraesCS6A01G144200 chr6D 86.120 915 92 11 2214 3122 25438684 25437799 0.000000e+00 953
8 TraesCS6A01G144200 chr6D 83.513 928 121 12 1000 1923 100568781 100567882 0.000000e+00 837
9 TraesCS6A01G144200 chr6D 82.652 807 133 7 2270 3073 101214166 101214968 0.000000e+00 708
10 TraesCS6A01G144200 chr6D 87.711 415 34 3 3294 3693 101204497 101204909 6.140000e-128 468
11 TraesCS6A01G144200 chr6D 76.340 541 120 8 2481 3017 100794601 100795137 2.390000e-72 283
12 TraesCS6A01G144200 chr6D 93.860 114 6 1 3943 4056 101206474 101206586 1.940000e-38 171
13 TraesCS6A01G144200 chr6B 91.998 1987 125 13 1 1981 185099040 185100998 0.000000e+00 2758
14 TraesCS6A01G144200 chr6B 90.275 1419 111 11 2075 3492 185101002 185102394 0.000000e+00 1831
15 TraesCS6A01G144200 chr6B 88.505 1505 143 14 2078 3579 185123983 185125460 0.000000e+00 1794
16 TraesCS6A01G144200 chr6B 89.691 970 85 6 990 1956 185110521 185111478 0.000000e+00 1223
17 TraesCS6A01G144200 chr6B 84.301 930 120 11 995 1923 184725662 184724758 0.000000e+00 885
18 TraesCS6A01G144200 chr6B 90.312 320 28 3 1 318 185115290 185115608 2.260000e-112 416
19 TraesCS6A01G144200 chr6B 94.040 151 9 0 3906 4056 185108658 185108808 3.160000e-56 230
20 TraesCS6A01G144200 chr1D 81.406 882 154 10 2213 3090 334041706 334040831 0.000000e+00 712
21 TraesCS6A01G144200 chr4A 81.236 874 153 11 2213 3082 716963682 716962816 0.000000e+00 695
22 TraesCS6A01G144200 chr4A 79.162 883 171 13 2213 3090 123767395 123766521 2.090000e-167 599
23 TraesCS6A01G144200 chr4A 87.879 231 24 3 1688 1915 123767947 123767718 6.690000e-68 268
24 TraesCS6A01G144200 chr2D 94.059 101 5 1 1981 2080 46867287 46867187 7.030000e-33 152
25 TraesCS6A01G144200 chr2D 92.308 104 6 1 1979 2080 598725015 598724912 3.270000e-31 147
26 TraesCS6A01G144200 chr5D 93.204 103 4 1 1978 2080 269021845 269021944 9.090000e-32 148
27 TraesCS6A01G144200 chr5D 91.743 109 6 1 1973 2081 328501278 328501383 9.090000e-32 148
28 TraesCS6A01G144200 chr5A 91.667 108 6 1 1980 2087 643920477 643920373 3.270000e-31 147
29 TraesCS6A01G144200 chr7A 91.589 107 6 2 1975 2081 457605474 457605371 1.180000e-30 145
30 TraesCS6A01G144200 chr4D 93.069 101 4 1 1980 2080 440044305 440044402 1.180000e-30 145
31 TraesCS6A01G144200 chr3B 89.474 114 9 1 1977 2090 50788338 50788448 1.520000e-29 141
32 TraesCS6A01G144200 chr2B 90.179 112 6 4 1981 2091 715928019 715928126 1.520000e-29 141


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 TraesCS6A01G144200 chr6A 121658038 121662096 4058 False 7496.00 7496 100.000000 1 4059 1 chr6A.!!$F1 4058
1 TraesCS6A01G144200 chr6A 121871004 121871950 946 False 1238.00 1238 90.282000 996 1946 1 chr6A.!!$F2 950
2 TraesCS6A01G144200 chr6A 120129294 120130190 896 True 859.00 859 83.965000 995 1915 1 chr6A.!!$R1 920
3 TraesCS6A01G144200 chr6D 101201202 101206586 5384 False 1294.75 3001 91.382750 12 4056 4 chr6D.!!$F2 4044
4 TraesCS6A01G144200 chr6D 25437799 25440238 2439 True 1106.50 1260 88.183000 997 3122 2 chr6D.!!$R2 2125
5 TraesCS6A01G144200 chr6D 101212207 101214968 2761 False 973.00 1238 86.393500 994 3073 2 chr6D.!!$F3 2079
6 TraesCS6A01G144200 chr6D 100567882 100568781 899 True 837.00 837 83.513000 1000 1923 1 chr6D.!!$R1 923
7 TraesCS6A01G144200 chr6D 100794601 100795137 536 False 283.00 283 76.340000 2481 3017 1 chr6D.!!$F1 536
8 TraesCS6A01G144200 chr6B 185099040 185102394 3354 False 2294.50 2758 91.136500 1 3492 2 chr6B.!!$F2 3491
9 TraesCS6A01G144200 chr6B 185123983 185125460 1477 False 1794.00 1794 88.505000 2078 3579 1 chr6B.!!$F1 1501
10 TraesCS6A01G144200 chr6B 184724758 184725662 904 True 885.00 885 84.301000 995 1923 1 chr6B.!!$R1 928
11 TraesCS6A01G144200 chr6B 185108658 185115608 6950 False 623.00 1223 91.347667 1 4056 3 chr6B.!!$F3 4055
12 TraesCS6A01G144200 chr1D 334040831 334041706 875 True 712.00 712 81.406000 2213 3090 1 chr1D.!!$R1 877
13 TraesCS6A01G144200 chr4A 716962816 716963682 866 True 695.00 695 81.236000 2213 3082 1 chr4A.!!$R1 869
14 TraesCS6A01G144200 chr4A 123766521 123767947 1426 True 433.50 599 83.520500 1688 3090 2 chr4A.!!$R2 1402

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
370 376 0.677288 TGGTAGTGTAGCAAGCGTGT 59.323 50.000 0.59 0.0 32.53 4.49 F
1069 2427 0.115152 TCTCCTGCTCCTCAACCTCA 59.885 55.000 0.00 0.0 0.00 3.86 F
1070 2428 0.536260 CTCCTGCTCCTCAACCTCAG 59.464 60.000 0.00 0.0 0.00 3.35 F
1668 3029 1.374947 CCTTGGCGACTTCTTCCCA 59.625 57.895 0.00 0.0 0.00 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1314 2675 1.139498 TCTTCATGGTGGGGCTCCAA 61.139 55.000 7.05 0.0 46.04 3.53 R
2958 5968 1.026718 GTCCAACCCATCAGGCTTCG 61.027 60.000 0.00 0.0 40.58 3.79 R
3004 6014 1.138883 CAGATCGTTCTTCCGCCGA 59.861 57.895 0.00 0.0 34.79 5.54 R
3138 6154 0.034059 ACTTCTTCACACAGCCTCCG 59.966 55.000 0.00 0.0 0.00 4.63 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
248 254 7.862741 ATGCATGCTATGTAAATCGAAATTG 57.137 32.000 20.33 0.00 0.00 2.32
249 255 5.686841 TGCATGCTATGTAAATCGAAATTGC 59.313 36.000 20.33 0.00 0.00 3.56
251 257 5.826601 TGCTATGTAAATCGAAATTGCCA 57.173 34.783 0.00 0.00 0.00 4.92
252 258 5.820131 TGCTATGTAAATCGAAATTGCCAG 58.180 37.500 0.00 0.00 0.00 4.85
253 259 5.356751 TGCTATGTAAATCGAAATTGCCAGT 59.643 36.000 0.00 0.00 0.00 4.00
275 281 5.667626 AGTGAGGGATAATTTTGGCTCTAGA 59.332 40.000 0.00 0.00 0.00 2.43
299 305 2.305928 CATATGCCCCCGAATGAACAA 58.694 47.619 0.00 0.00 0.00 2.83
353 359 8.954350 ACTGATTTCTCTTTTAGATGTTCATGG 58.046 33.333 0.00 0.00 33.05 3.66
361 367 9.307121 CTCTTTTAGATGTTCATGGTAGTGTAG 57.693 37.037 0.00 0.00 0.00 2.74
370 376 0.677288 TGGTAGTGTAGCAAGCGTGT 59.323 50.000 0.59 0.00 32.53 4.49
382 388 4.932146 AGCAAGCGTGTTTGATAACTTTT 58.068 34.783 0.59 0.00 35.24 2.27
420 426 4.692228 ACAATGCTTTGTCGGTGAAAAAT 58.308 34.783 11.92 0.00 42.43 1.82
482 488 1.539388 TGCACGGGTCAAAATGCTAAG 59.461 47.619 0.00 0.00 38.90 2.18
488 494 3.673323 CGGGTCAAAATGCTAAGGCTTTC 60.673 47.826 4.45 0.00 39.59 2.62
518 524 9.429359 CCACCTAAAATTTTGCATGTAACATTA 57.571 29.630 13.76 0.59 0.00 1.90
613 1069 3.007473 TGGGACCGAATTGGATTTACC 57.993 47.619 0.00 0.00 42.00 2.85
616 1072 4.021229 GGGACCGAATTGGATTTACCTTT 58.979 43.478 0.00 0.00 42.00 3.11
617 1073 5.195185 GGGACCGAATTGGATTTACCTTTA 58.805 41.667 0.00 0.00 42.00 1.85
620 1076 7.423199 GGACCGAATTGGATTTACCTTTAATC 58.577 38.462 0.00 0.00 42.00 1.75
621 1077 7.284716 GGACCGAATTGGATTTACCTTTAATCT 59.715 37.037 0.00 0.00 42.00 2.40
623 1079 9.031537 ACCGAATTGGATTTACCTTTAATCTTT 57.968 29.630 0.00 0.00 42.00 2.52
699 1227 8.442632 TCTTATTTGCTCCTCATGTCTAAATG 57.557 34.615 0.00 0.00 0.00 2.32
707 1235 4.971282 TCCTCATGTCTAAATGGTGGATCT 59.029 41.667 0.00 0.00 30.88 2.75
770 1723 4.164294 GCCTACGTCTGTACTGTGTTTAG 58.836 47.826 0.00 0.00 0.00 1.85
775 2127 7.436080 CCTACGTCTGTACTGTGTTTAGAAAAA 59.564 37.037 0.00 0.00 0.00 1.94
803 2156 7.895975 TGCTTATCTATAGTTAGCTGCAATG 57.104 36.000 17.76 0.00 0.00 2.82
804 2157 6.875726 TGCTTATCTATAGTTAGCTGCAATGG 59.124 38.462 17.76 0.00 0.00 3.16
916 2270 2.936498 ACACTTGTGTTCTCCGTTCAAG 59.064 45.455 0.00 0.00 40.54 3.02
928 2282 5.727434 TCTCCGTTCAAGTAATTAACCTCC 58.273 41.667 0.00 0.00 0.00 4.30
970 2324 1.067495 GTCACTCCACTACACTGCCTC 60.067 57.143 0.00 0.00 0.00 4.70
1065 2423 0.616111 TCCCTCTCCTGCTCCTCAAC 60.616 60.000 0.00 0.00 0.00 3.18
1066 2424 1.621672 CCCTCTCCTGCTCCTCAACC 61.622 65.000 0.00 0.00 0.00 3.77
1067 2425 0.617249 CCTCTCCTGCTCCTCAACCT 60.617 60.000 0.00 0.00 0.00 3.50
1068 2426 0.823460 CTCTCCTGCTCCTCAACCTC 59.177 60.000 0.00 0.00 0.00 3.85
1069 2427 0.115152 TCTCCTGCTCCTCAACCTCA 59.885 55.000 0.00 0.00 0.00 3.86
1070 2428 0.536260 CTCCTGCTCCTCAACCTCAG 59.464 60.000 0.00 0.00 0.00 3.35
1079 2437 1.517242 CTCAACCTCAGGCTCAACAC 58.483 55.000 0.00 0.00 0.00 3.32
1088 2449 2.617274 GGCTCAACACCAAGCGTCC 61.617 63.158 0.00 0.00 39.47 4.79
1314 2675 2.665185 GTCTTTGCGACACGGCCT 60.665 61.111 0.00 0.00 42.37 5.19
1522 2883 2.227036 CCTGGGGAGCCAGTGAACT 61.227 63.158 0.00 0.00 36.18 3.01
1668 3029 1.374947 CCTTGGCGACTTCTTCCCA 59.625 57.895 0.00 0.00 0.00 4.37
1916 3307 4.528596 AGGAGTCATACTTGTAAGTGCACT 59.471 41.667 15.25 15.25 40.07 4.40
1989 4657 7.392418 ACTTACTTAAAACATGTACTCCCTCC 58.608 38.462 0.00 0.00 0.00 4.30
1990 4658 4.828829 ACTTAAAACATGTACTCCCTCCG 58.171 43.478 0.00 0.00 0.00 4.63
1991 4659 4.285260 ACTTAAAACATGTACTCCCTCCGT 59.715 41.667 0.00 0.00 0.00 4.69
1992 4660 3.782656 AAAACATGTACTCCCTCCGTT 57.217 42.857 0.00 0.00 0.00 4.44
1993 4661 3.782656 AAACATGTACTCCCTCCGTTT 57.217 42.857 0.00 0.00 0.00 3.60
1994 4662 3.329929 AACATGTACTCCCTCCGTTTC 57.670 47.619 0.00 0.00 0.00 2.78
1995 4663 2.253610 ACATGTACTCCCTCCGTTTCA 58.746 47.619 0.00 0.00 0.00 2.69
1996 4664 2.635915 ACATGTACTCCCTCCGTTTCAA 59.364 45.455 0.00 0.00 0.00 2.69
1997 4665 3.071892 ACATGTACTCCCTCCGTTTCAAA 59.928 43.478 0.00 0.00 0.00 2.69
1998 4666 3.842007 TGTACTCCCTCCGTTTCAAAA 57.158 42.857 0.00 0.00 0.00 2.44
1999 4667 4.360951 TGTACTCCCTCCGTTTCAAAAT 57.639 40.909 0.00 0.00 0.00 1.82
2000 4668 5.486735 TGTACTCCCTCCGTTTCAAAATA 57.513 39.130 0.00 0.00 0.00 1.40
2001 4669 5.484715 TGTACTCCCTCCGTTTCAAAATAG 58.515 41.667 0.00 0.00 0.00 1.73
2002 4670 4.903045 ACTCCCTCCGTTTCAAAATAGA 57.097 40.909 0.00 0.00 0.00 1.98
2003 4671 5.437191 ACTCCCTCCGTTTCAAAATAGAT 57.563 39.130 0.00 0.00 0.00 1.98
2004 4672 5.186198 ACTCCCTCCGTTTCAAAATAGATG 58.814 41.667 0.00 0.00 0.00 2.90
2005 4673 5.045869 ACTCCCTCCGTTTCAAAATAGATGA 60.046 40.000 0.00 0.00 0.00 2.92
2006 4674 5.183228 TCCCTCCGTTTCAAAATAGATGAC 58.817 41.667 0.00 0.00 0.00 3.06
2007 4675 4.335594 CCCTCCGTTTCAAAATAGATGACC 59.664 45.833 0.00 0.00 0.00 4.02
2008 4676 4.335594 CCTCCGTTTCAAAATAGATGACCC 59.664 45.833 0.00 0.00 0.00 4.46
2009 4677 4.912586 TCCGTTTCAAAATAGATGACCCA 58.087 39.130 0.00 0.00 0.00 4.51
2010 4678 5.317808 TCCGTTTCAAAATAGATGACCCAA 58.682 37.500 0.00 0.00 0.00 4.12
2011 4679 5.949354 TCCGTTTCAAAATAGATGACCCAAT 59.051 36.000 0.00 0.00 0.00 3.16
2012 4680 6.435904 TCCGTTTCAAAATAGATGACCCAATT 59.564 34.615 0.00 0.00 0.00 2.32
2013 4681 7.039363 TCCGTTTCAAAATAGATGACCCAATTT 60.039 33.333 0.00 0.00 0.00 1.82
2014 4682 7.602265 CCGTTTCAAAATAGATGACCCAATTTT 59.398 33.333 0.00 0.00 33.07 1.82
2015 4683 9.632807 CGTTTCAAAATAGATGACCCAATTTTA 57.367 29.630 0.00 0.00 31.97 1.52
2071 4739 7.133891 AGTTGAGTCATCTATTTTGAAACGG 57.866 36.000 1.70 0.00 0.00 4.44
2072 4740 6.934645 AGTTGAGTCATCTATTTTGAAACGGA 59.065 34.615 1.70 0.00 0.00 4.69
2073 4741 6.968131 TGAGTCATCTATTTTGAAACGGAG 57.032 37.500 0.00 0.00 0.00 4.63
2147 4819 9.725019 GTGATAGATTTGGTATTATGGATGTGA 57.275 33.333 0.00 0.00 0.00 3.58
2167 4839 9.409312 GATGTGATGTTGTCAATGTTGAAATTA 57.591 29.630 0.00 0.00 38.90 1.40
2257 5260 4.083217 ACGAGAGAGTAGTTAGCAACACAG 60.083 45.833 0.00 0.00 0.00 3.66
2550 5559 2.872370 AGTACAAGCTAAAGTACGCGG 58.128 47.619 12.47 0.00 43.98 6.46
2998 6008 4.614475 ACATGACAGAGAAGATGGGAGTA 58.386 43.478 0.00 0.00 0.00 2.59
3004 6014 4.841246 ACAGAGAAGATGGGAGTAACTGTT 59.159 41.667 0.00 0.00 33.29 3.16
3138 6154 1.355971 TATGTGCCTTTCTCGAACGC 58.644 50.000 0.00 0.00 0.00 4.84
3259 6278 2.499289 AGGAAGGCTCATCACACTACAG 59.501 50.000 0.00 0.00 0.00 2.74
3262 6282 4.563580 GGAAGGCTCATCACACTACAGAAA 60.564 45.833 0.00 0.00 0.00 2.52
3265 6285 4.469227 AGGCTCATCACACTACAGAAATCT 59.531 41.667 0.00 0.00 0.00 2.40
3443 8192 3.142174 CTGTTTGAGGGGAAGTGAAGAC 58.858 50.000 0.00 0.00 0.00 3.01
3449 8198 0.974383 GGGGAAGTGAAGACGGAAGA 59.026 55.000 0.00 0.00 0.00 2.87
3457 8206 6.128526 GGAAGTGAAGACGGAAGACAATTTAG 60.129 42.308 0.00 0.00 0.00 1.85
3487 8236 4.161942 CAGGAGAGATTTGTGAGGATGAGT 59.838 45.833 0.00 0.00 0.00 3.41
3514 8263 5.065218 CCTCCGGTTACATCTTTTGATTCAG 59.935 44.000 0.00 0.00 36.97 3.02
3516 8265 4.334443 CGGTTACATCTTTTGATTCAGCG 58.666 43.478 0.00 0.00 36.97 5.18
3521 8270 5.227238 ACATCTTTTGATTCAGCGTGATC 57.773 39.130 0.00 0.00 36.97 2.92
3525 8274 0.249120 TTGATTCAGCGTGATCGGGT 59.751 50.000 0.00 0.00 37.56 5.28
3549 8298 6.758886 GTGGACCATGATCTAGAGTTGTAAAG 59.241 42.308 0.00 0.00 0.00 1.85
3575 8324 2.827051 CGCATGTTGGAGGCCATCG 61.827 63.158 5.01 0.00 31.53 3.84
3609 8373 2.048603 AGCGCAAGGGGAATTCTGC 61.049 57.895 11.47 6.38 38.28 4.26
3616 8380 0.107017 AGGGGAATTCTGCATCACCG 60.107 55.000 5.23 0.00 44.18 4.94
3623 8387 0.321564 TTCTGCATCACCGAAGTGGG 60.322 55.000 0.00 0.00 44.64 4.61
3628 8392 1.945387 CATCACCGAAGTGGGATCTG 58.055 55.000 0.00 0.00 44.64 2.90
3639 8403 1.281867 GTGGGATCTGGTGGTCATGAA 59.718 52.381 0.00 0.00 0.00 2.57
3640 8404 1.281867 TGGGATCTGGTGGTCATGAAC 59.718 52.381 2.98 2.98 0.00 3.18
3693 8457 0.035152 TTGTCATGGATCGCCTGCTT 60.035 50.000 0.00 0.00 34.31 3.91
3696 8460 0.252761 TCATGGATCGCCTGCTTTCA 59.747 50.000 0.00 0.00 34.31 2.69
3697 8461 1.097232 CATGGATCGCCTGCTTTCAA 58.903 50.000 0.00 0.00 34.31 2.69
3698 8462 1.065102 CATGGATCGCCTGCTTTCAAG 59.935 52.381 0.00 0.00 34.31 3.02
3715 8479 1.000506 CAAGCACATCCTTTGCAGCTT 59.999 47.619 0.16 0.16 45.50 3.74
3716 8480 1.335145 AGCACATCCTTTGCAGCTTT 58.665 45.000 0.00 0.00 42.83 3.51
3717 8481 2.517959 AGCACATCCTTTGCAGCTTTA 58.482 42.857 0.00 0.00 42.83 1.85
3722 8486 4.682860 CACATCCTTTGCAGCTTTAAAGTG 59.317 41.667 16.38 13.43 33.21 3.16
3725 8489 4.932146 TCCTTTGCAGCTTTAAAGTGAAC 58.068 39.130 16.38 5.16 33.21 3.18
3727 8491 5.127031 TCCTTTGCAGCTTTAAAGTGAACTT 59.873 36.000 16.38 0.00 37.91 2.66
3731 8495 4.566360 TGCAGCTTTAAAGTGAACTTTTGC 59.434 37.500 16.38 15.44 43.07 3.68
3734 8498 6.142958 GCAGCTTTAAAGTGAACTTTTGCTAG 59.857 38.462 16.38 16.81 43.07 3.42
3743 8507 8.677148 AAGTGAACTTTTGCTAGTTTCTATCA 57.323 30.769 0.00 0.00 38.43 2.15
3744 8508 8.677148 AGTGAACTTTTGCTAGTTTCTATCAA 57.323 30.769 0.00 0.00 38.43 2.57
3749 8513 8.409358 ACTTTTGCTAGTTTCTATCAACCAAT 57.591 30.769 0.00 0.00 0.00 3.16
3753 8517 8.579850 TTGCTAGTTTCTATCAACCAATTCAT 57.420 30.769 0.00 0.00 0.00 2.57
3754 8518 8.579850 TGCTAGTTTCTATCAACCAATTCATT 57.420 30.769 0.00 0.00 0.00 2.57
3755 8519 9.023962 TGCTAGTTTCTATCAACCAATTCATTT 57.976 29.630 0.00 0.00 0.00 2.32
3777 8541 9.013490 CATTTTTCTATTCATTGGATTCGACAC 57.987 33.333 0.00 0.00 0.00 3.67
3779 8543 7.539712 TTTCTATTCATTGGATTCGACACTC 57.460 36.000 0.00 0.00 0.00 3.51
3780 8544 6.220726 TCTATTCATTGGATTCGACACTCA 57.779 37.500 0.00 0.00 0.00 3.41
3781 8545 6.820335 TCTATTCATTGGATTCGACACTCAT 58.180 36.000 0.00 0.00 0.00 2.90
3782 8546 7.951591 TCTATTCATTGGATTCGACACTCATA 58.048 34.615 0.00 0.00 0.00 2.15
3783 8547 6.851222 ATTCATTGGATTCGACACTCATAC 57.149 37.500 0.00 0.00 0.00 2.39
3784 8548 5.598416 TCATTGGATTCGACACTCATACT 57.402 39.130 0.00 0.00 0.00 2.12
3785 8549 5.977635 TCATTGGATTCGACACTCATACTT 58.022 37.500 0.00 0.00 0.00 2.24
3787 8551 7.726216 TCATTGGATTCGACACTCATACTTAT 58.274 34.615 0.00 0.00 0.00 1.73
3790 8554 7.576861 TGGATTCGACACTCATACTTATGTA 57.423 36.000 0.00 0.00 35.26 2.29
3792 8556 8.471609 TGGATTCGACACTCATACTTATGTAAA 58.528 33.333 0.00 0.00 35.26 2.01
3795 8559 8.697846 TTCGACACTCATACTTATGTAAAAGG 57.302 34.615 0.00 0.00 35.26 3.11
3796 8560 6.755141 TCGACACTCATACTTATGTAAAAGGC 59.245 38.462 0.00 0.00 35.26 4.35
3798 8562 7.919091 CGACACTCATACTTATGTAAAAGGCTA 59.081 37.037 0.00 0.00 35.26 3.93
3799 8563 9.765795 GACACTCATACTTATGTAAAAGGCTAT 57.234 33.333 0.00 0.00 35.26 2.97
3801 8565 9.764363 CACTCATACTTATGTAAAAGGCTATGA 57.236 33.333 0.00 0.00 35.26 2.15
3816 8580 8.451908 AAAGGCTATGATAGTTTCAATACACC 57.548 34.615 0.92 0.00 38.03 4.16
3817 8581 7.380423 AGGCTATGATAGTTTCAATACACCT 57.620 36.000 0.92 0.00 38.03 4.00
3819 8583 6.992715 GGCTATGATAGTTTCAATACACCTGT 59.007 38.462 0.92 0.00 38.03 4.00
3820 8584 7.041780 GGCTATGATAGTTTCAATACACCTGTG 60.042 40.741 0.92 0.00 38.03 3.66
3822 8586 6.121776 TGATAGTTTCAATACACCTGTGGT 57.878 37.500 1.91 0.00 35.62 4.16
3823 8587 6.539173 TGATAGTTTCAATACACCTGTGGTT 58.461 36.000 1.91 0.00 31.02 3.67
3825 8589 8.158132 TGATAGTTTCAATACACCTGTGGTTTA 58.842 33.333 1.91 0.00 31.02 2.01
3827 8591 7.448748 AGTTTCAATACACCTGTGGTTTATC 57.551 36.000 1.91 0.00 31.02 1.75
3828 8592 7.001674 AGTTTCAATACACCTGTGGTTTATCA 58.998 34.615 1.91 0.00 31.02 2.15
3829 8593 7.174946 AGTTTCAATACACCTGTGGTTTATCAG 59.825 37.037 1.91 0.00 31.02 2.90
3840 8604 6.483307 CCTGTGGTTTATCAGGTATGTATGTG 59.517 42.308 3.38 0.00 44.19 3.21
3841 8605 6.353323 TGTGGTTTATCAGGTATGTATGTGG 58.647 40.000 0.00 0.00 0.00 4.17
3845 8609 6.320164 GGTTTATCAGGTATGTATGTGGCAAA 59.680 38.462 0.00 0.00 0.00 3.68
3846 8610 7.147983 GGTTTATCAGGTATGTATGTGGCAAAA 60.148 37.037 0.00 0.00 0.00 2.44
3847 8611 8.413229 GTTTATCAGGTATGTATGTGGCAAAAT 58.587 33.333 0.00 0.00 0.00 1.82
3849 8613 5.260424 TCAGGTATGTATGTGGCAAAATGT 58.740 37.500 0.00 0.00 0.00 2.71
3850 8614 5.125257 TCAGGTATGTATGTGGCAAAATGTG 59.875 40.000 0.00 0.00 0.00 3.21
3865 8629 5.740406 CAAAATGTGCAAGGATGTTTGTTC 58.260 37.500 0.00 0.00 0.00 3.18
3866 8630 4.942761 AATGTGCAAGGATGTTTGTTCT 57.057 36.364 0.00 0.00 0.00 3.01
3867 8631 6.403866 AAATGTGCAAGGATGTTTGTTCTA 57.596 33.333 0.00 0.00 0.00 2.10
3869 8633 4.460263 TGTGCAAGGATGTTTGTTCTAGT 58.540 39.130 0.00 0.00 0.00 2.57
3870 8634 4.275689 TGTGCAAGGATGTTTGTTCTAGTG 59.724 41.667 0.00 0.00 0.00 2.74
3871 8635 4.275936 GTGCAAGGATGTTTGTTCTAGTGT 59.724 41.667 0.00 0.00 0.00 3.55
3872 8636 4.887071 TGCAAGGATGTTTGTTCTAGTGTT 59.113 37.500 0.00 0.00 0.00 3.32
3875 8639 6.756542 GCAAGGATGTTTGTTCTAGTGTTTTT 59.243 34.615 0.00 0.00 0.00 1.94
3878 8642 8.062065 AGGATGTTTGTTCTAGTGTTTTTGAA 57.938 30.769 0.00 0.00 0.00 2.69
3879 8643 7.973944 AGGATGTTTGTTCTAGTGTTTTTGAAC 59.026 33.333 0.00 0.00 39.18 3.18
3881 8645 9.353999 GATGTTTGTTCTAGTGTTTTTGAACTT 57.646 29.630 0.00 0.00 39.38 2.66
3882 8646 9.705290 ATGTTTGTTCTAGTGTTTTTGAACTTT 57.295 25.926 0.00 0.00 39.38 2.66
3917 9658 6.554334 AAAGTTTTGCTCGCTTAGTATGAA 57.446 33.333 0.00 0.00 0.00 2.57
3919 9660 4.994852 AGTTTTGCTCGCTTAGTATGAACA 59.005 37.500 0.00 0.00 0.00 3.18
3938 9679 7.857734 TGAACATTTATGTGGTACATAGTGG 57.142 36.000 14.91 7.35 41.56 4.00
3939 9680 6.826231 TGAACATTTATGTGGTACATAGTGGG 59.174 38.462 14.91 6.19 41.56 4.61
3941 9682 7.440505 ACATTTATGTGGTACATAGTGGGTA 57.559 36.000 14.91 0.00 41.56 3.69
3962 10041 5.292589 GGTATTGTGTCATCGGTTTCGTATT 59.707 40.000 0.00 0.00 37.69 1.89
3974 10053 7.515957 TCGGTTTCGTATTTTGAGATTAGTC 57.484 36.000 0.00 0.00 37.69 2.59
3994 10073 6.051179 AGTCCTTCTATTTGTAGTTGACCC 57.949 41.667 0.00 0.00 0.00 4.46
4005 10084 8.943594 ATTTGTAGTTGACCCCTTTTGTAATA 57.056 30.769 0.00 0.00 0.00 0.98
4057 10136 9.772973 TGTAATATTTGGTGCTTTACGATATCT 57.227 29.630 0.34 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
248 254 2.101415 GCCAAAATTATCCCTCACTGGC 59.899 50.000 0.00 0.00 41.14 4.85
249 255 3.633986 GAGCCAAAATTATCCCTCACTGG 59.366 47.826 0.00 0.00 0.00 4.00
251 257 4.870021 AGAGCCAAAATTATCCCTCACT 57.130 40.909 0.00 0.00 0.00 3.41
252 258 5.930135 TCTAGAGCCAAAATTATCCCTCAC 58.070 41.667 0.00 0.00 0.00 3.51
253 259 5.072329 CCTCTAGAGCCAAAATTATCCCTCA 59.928 44.000 14.73 0.00 0.00 3.86
335 341 9.307121 CTACACTACCATGAACATCTAAAAGAG 57.693 37.037 0.00 0.00 0.00 2.85
353 359 2.798283 TCAAACACGCTTGCTACACTAC 59.202 45.455 0.00 0.00 0.00 2.73
361 367 6.927933 ATAAAAGTTATCAAACACGCTTGC 57.072 33.333 0.00 0.00 38.12 4.01
382 388 6.751514 AGCATTGTTGTCCAATTTCGTATA 57.248 33.333 0.00 0.00 41.93 1.47
404 410 9.458374 ACACTTAATAATTTTTCACCGACAAAG 57.542 29.630 0.00 0.00 0.00 2.77
450 456 5.012328 TGACCCGTGCAAAAATTAAAAGT 57.988 34.783 0.00 0.00 0.00 2.66
482 488 6.348458 GCAAAATTTTAGGTGGAATGAAAGCC 60.348 38.462 2.44 0.00 0.00 4.35
488 494 8.442384 GTTACATGCAAAATTTTAGGTGGAATG 58.558 33.333 2.44 4.11 0.00 2.67
623 1079 7.158021 ACATTCAGATTCCCGCAAAAATAAAA 58.842 30.769 0.00 0.00 0.00 1.52
707 1235 2.945440 GCCAGGATCATTGTAAGGTGCA 60.945 50.000 0.00 0.00 0.00 4.57
775 2127 8.908786 TGCAGCTAACTATAGATAAGCATTTT 57.091 30.769 20.09 1.64 0.00 1.82
803 2156 1.065854 AGCTGTGAGTATTGTCTGCCC 60.066 52.381 0.00 0.00 0.00 5.36
804 2157 2.393271 AGCTGTGAGTATTGTCTGCC 57.607 50.000 0.00 0.00 0.00 4.85
916 2270 9.866798 CCGGTCTTATATAAGGAGGTTAATTAC 57.133 37.037 19.98 8.37 34.14 1.89
928 2282 6.433404 TGACTCTAAGGCCGGTCTTATATAAG 59.567 42.308 27.92 22.20 34.65 1.73
1065 2423 1.239968 GCTTGGTGTTGAGCCTGAGG 61.240 60.000 0.00 0.00 32.80 3.86
1066 2424 1.572085 CGCTTGGTGTTGAGCCTGAG 61.572 60.000 0.00 0.00 35.49 3.35
1067 2425 1.597854 CGCTTGGTGTTGAGCCTGA 60.598 57.895 0.00 0.00 35.49 3.86
1068 2426 1.845809 GACGCTTGGTGTTGAGCCTG 61.846 60.000 0.00 0.00 35.49 4.85
1069 2427 1.598130 GACGCTTGGTGTTGAGCCT 60.598 57.895 0.00 0.00 35.49 4.58
1070 2428 2.617274 GGACGCTTGGTGTTGAGCC 61.617 63.158 0.00 0.00 35.49 4.70
1314 2675 1.139498 TCTTCATGGTGGGGCTCCAA 61.139 55.000 7.05 0.00 46.04 3.53
1515 2876 1.373497 CCGCTCGCTCAAGTTCACT 60.373 57.895 0.00 0.00 0.00 3.41
1916 3307 9.959721 AGTATTCTGAAACAAATTAAGGAGCTA 57.040 29.630 0.00 0.00 0.00 3.32
1981 4649 4.903045 TCTATTTTGAAACGGAGGGAGT 57.097 40.909 0.00 0.00 0.00 3.85
1982 4650 5.294552 GTCATCTATTTTGAAACGGAGGGAG 59.705 44.000 0.00 0.00 0.00 4.30
1983 4651 5.183228 GTCATCTATTTTGAAACGGAGGGA 58.817 41.667 0.00 0.00 0.00 4.20
1984 4652 4.335594 GGTCATCTATTTTGAAACGGAGGG 59.664 45.833 0.00 0.00 0.00 4.30
1985 4653 4.335594 GGGTCATCTATTTTGAAACGGAGG 59.664 45.833 0.00 0.00 0.00 4.30
1986 4654 4.941263 TGGGTCATCTATTTTGAAACGGAG 59.059 41.667 0.00 0.00 0.00 4.63
1987 4655 4.912586 TGGGTCATCTATTTTGAAACGGA 58.087 39.130 0.00 0.00 0.00 4.69
1988 4656 5.637006 TTGGGTCATCTATTTTGAAACGG 57.363 39.130 0.00 0.00 0.00 4.44
1989 4657 8.532977 AAAATTGGGTCATCTATTTTGAAACG 57.467 30.769 0.00 0.00 31.14 3.60
2045 4713 8.076178 CCGTTTCAAAATAGATGACTCAACTTT 58.924 33.333 0.00 0.00 0.00 2.66
2046 4714 7.444183 TCCGTTTCAAAATAGATGACTCAACTT 59.556 33.333 0.00 0.00 0.00 2.66
2047 4715 6.934645 TCCGTTTCAAAATAGATGACTCAACT 59.065 34.615 0.00 0.00 0.00 3.16
2048 4716 7.129109 TCCGTTTCAAAATAGATGACTCAAC 57.871 36.000 0.00 0.00 0.00 3.18
2049 4717 6.371548 CCTCCGTTTCAAAATAGATGACTCAA 59.628 38.462 0.00 0.00 0.00 3.02
2050 4718 5.874810 CCTCCGTTTCAAAATAGATGACTCA 59.125 40.000 0.00 0.00 0.00 3.41
2051 4719 5.294552 CCCTCCGTTTCAAAATAGATGACTC 59.705 44.000 0.00 0.00 0.00 3.36
2052 4720 5.045869 TCCCTCCGTTTCAAAATAGATGACT 60.046 40.000 0.00 0.00 0.00 3.41
2053 4721 5.183228 TCCCTCCGTTTCAAAATAGATGAC 58.817 41.667 0.00 0.00 0.00 3.06
2054 4722 5.045869 ACTCCCTCCGTTTCAAAATAGATGA 60.046 40.000 0.00 0.00 0.00 2.92
2055 4723 5.186198 ACTCCCTCCGTTTCAAAATAGATG 58.814 41.667 0.00 0.00 0.00 2.90
2056 4724 5.437191 ACTCCCTCCGTTTCAAAATAGAT 57.563 39.130 0.00 0.00 0.00 1.98
2057 4725 4.903045 ACTCCCTCCGTTTCAAAATAGA 57.097 40.909 0.00 0.00 0.00 1.98
2058 4726 8.726870 TTAATACTCCCTCCGTTTCAAAATAG 57.273 34.615 0.00 0.00 0.00 1.73
2059 4727 9.517868 TTTTAATACTCCCTCCGTTTCAAAATA 57.482 29.630 0.00 0.00 0.00 1.40
2060 4728 8.301720 GTTTTAATACTCCCTCCGTTTCAAAAT 58.698 33.333 0.00 0.00 0.00 1.82
2061 4729 7.284944 TGTTTTAATACTCCCTCCGTTTCAAAA 59.715 33.333 0.00 0.00 0.00 2.44
2062 4730 6.771749 TGTTTTAATACTCCCTCCGTTTCAAA 59.228 34.615 0.00 0.00 0.00 2.69
2063 4731 6.297582 TGTTTTAATACTCCCTCCGTTTCAA 58.702 36.000 0.00 0.00 0.00 2.69
2064 4732 5.867330 TGTTTTAATACTCCCTCCGTTTCA 58.133 37.500 0.00 0.00 0.00 2.69
2065 4733 6.806388 TTGTTTTAATACTCCCTCCGTTTC 57.194 37.500 0.00 0.00 0.00 2.78
2066 4734 6.774170 AGTTTGTTTTAATACTCCCTCCGTTT 59.226 34.615 0.00 0.00 0.00 3.60
2067 4735 6.301486 AGTTTGTTTTAATACTCCCTCCGTT 58.699 36.000 0.00 0.00 0.00 4.44
2068 4736 5.872963 AGTTTGTTTTAATACTCCCTCCGT 58.127 37.500 0.00 0.00 0.00 4.69
2069 4737 7.910441 TTAGTTTGTTTTAATACTCCCTCCG 57.090 36.000 0.00 0.00 0.00 4.63
2120 4790 8.950210 CACATCCATAATACCAAATCTATCACC 58.050 37.037 0.00 0.00 0.00 4.02
2187 4862 8.474025 TGAATCTATGTTGTCCAAACTTTTTGT 58.526 29.630 0.00 0.00 0.00 2.83
2201 4900 8.870160 TGTTTGACCTTTTTGAATCTATGTTG 57.130 30.769 0.00 0.00 0.00 3.33
2438 5447 2.173782 TCCCAGCGCCAAATAAATCCTA 59.826 45.455 2.29 0.00 0.00 2.94
2550 5559 6.642540 CACTTTATGCTTTTCTTGGAGGTTTC 59.357 38.462 0.00 0.00 0.00 2.78
2774 5784 1.712056 TCTGGTTTGAACTCCTCGGA 58.288 50.000 0.00 0.00 0.00 4.55
2803 5813 2.542020 TGAAGTCAATCGTGCCAGAA 57.458 45.000 0.00 0.00 0.00 3.02
2859 5869 3.402681 CAGGGCACATCCTCCGGT 61.403 66.667 0.00 0.00 34.31 5.28
2924 5934 2.738964 GCTCCCAATCGAAGTGGTAGAC 60.739 54.545 13.34 3.63 34.01 2.59
2958 5968 1.026718 GTCCAACCCATCAGGCTTCG 61.027 60.000 0.00 0.00 40.58 3.79
2998 6008 1.219522 CGTTCTTCCGCCGAACAGTT 61.220 55.000 9.36 0.00 40.50 3.16
3004 6014 1.138883 CAGATCGTTCTTCCGCCGA 59.861 57.895 0.00 0.00 34.79 5.54
3087 6102 9.638176 AAGGCATAGTAGATGAGAATTCATTTT 57.362 29.630 8.44 0.00 44.01 1.82
3090 6105 8.204903 AGAAGGCATAGTAGATGAGAATTCAT 57.795 34.615 8.44 0.00 46.61 2.57
3091 6106 7.609097 AGAAGGCATAGTAGATGAGAATTCA 57.391 36.000 8.44 0.00 37.81 2.57
3138 6154 0.034059 ACTTCTTCACACAGCCTCCG 59.966 55.000 0.00 0.00 0.00 4.63
3443 8192 1.396996 CCGCCACTAAATTGTCTTCCG 59.603 52.381 0.00 0.00 0.00 4.30
3449 8198 0.037590 TCCTGCCGCCACTAAATTGT 59.962 50.000 0.00 0.00 0.00 2.71
3457 8206 1.078143 AAATCTCTCCTGCCGCCAC 60.078 57.895 0.00 0.00 0.00 5.01
3514 8263 3.385749 ATGGTCCACCCGATCACGC 62.386 63.158 0.00 0.00 33.27 5.34
3516 8265 0.469917 ATCATGGTCCACCCGATCAC 59.530 55.000 0.00 0.00 33.27 3.06
3521 8270 1.615883 CTCTAGATCATGGTCCACCCG 59.384 57.143 1.24 0.00 35.15 5.28
3525 8274 6.127054 CCTTTACAACTCTAGATCATGGTCCA 60.127 42.308 1.24 0.00 0.00 4.02
3549 8298 3.530260 CCAACATGCGCATCCCCC 61.530 66.667 22.51 0.00 0.00 5.40
3575 8324 2.413142 GCTGCTGAGGAATGGCCAC 61.413 63.158 8.16 0.00 40.02 5.01
3616 8380 0.984230 TGACCACCAGATCCCACTTC 59.016 55.000 0.00 0.00 0.00 3.01
3657 8421 1.815421 AAGTCATCCGCCATCGCAC 60.815 57.895 0.00 0.00 34.03 5.34
3661 8425 1.600957 CATGACAAGTCATCCGCCATC 59.399 52.381 12.50 0.00 46.57 3.51
3667 8431 1.869767 GCGATCCATGACAAGTCATCC 59.130 52.381 12.50 2.94 46.57 3.51
3672 8436 0.745845 GCAGGCGATCCATGACAAGT 60.746 55.000 0.00 0.00 33.74 3.16
3699 8463 4.682860 CACTTTAAAGCTGCAAAGGATGTG 59.317 41.667 15.24 9.32 36.32 3.21
3700 8464 4.584325 TCACTTTAAAGCTGCAAAGGATGT 59.416 37.500 15.24 2.60 36.32 3.06
3701 8465 5.125100 TCACTTTAAAGCTGCAAAGGATG 57.875 39.130 15.24 12.07 36.32 3.51
3702 8466 5.302823 AGTTCACTTTAAAGCTGCAAAGGAT 59.697 36.000 15.24 2.76 36.32 3.24
3703 8467 4.644685 AGTTCACTTTAAAGCTGCAAAGGA 59.355 37.500 15.24 12.79 36.32 3.36
3704 8468 4.936891 AGTTCACTTTAAAGCTGCAAAGG 58.063 39.130 15.24 11.28 36.32 3.11
3705 8469 6.892310 AAAGTTCACTTTAAAGCTGCAAAG 57.108 33.333 15.24 15.37 43.73 2.77
3706 8470 6.402011 GCAAAAGTTCACTTTAAAGCTGCAAA 60.402 34.615 15.24 0.42 44.69 3.68
3707 8471 5.063312 GCAAAAGTTCACTTTAAAGCTGCAA 59.937 36.000 15.24 0.43 44.69 4.08
3708 8472 4.566360 GCAAAAGTTCACTTTAAAGCTGCA 59.434 37.500 15.24 1.19 44.69 4.41
3709 8473 4.805719 AGCAAAAGTTCACTTTAAAGCTGC 59.194 37.500 15.24 16.51 44.69 5.25
3710 8474 7.196331 ACTAGCAAAAGTTCACTTTAAAGCTG 58.804 34.615 23.53 12.12 44.69 4.24
3722 8486 7.871853 TGGTTGATAGAAACTAGCAAAAGTTC 58.128 34.615 10.29 0.21 38.76 3.01
3725 8489 9.346725 GAATTGGTTGATAGAAACTAGCAAAAG 57.653 33.333 10.29 0.00 35.26 2.27
3727 8491 8.402798 TGAATTGGTTGATAGAAACTAGCAAA 57.597 30.769 10.29 0.00 35.26 3.68
3749 8513 9.787532 GTCGAATCCAATGAATAGAAAAATGAA 57.212 29.630 0.00 0.00 0.00 2.57
3753 8517 8.335532 AGTGTCGAATCCAATGAATAGAAAAA 57.664 30.769 0.00 0.00 0.00 1.94
3754 8518 7.606073 TGAGTGTCGAATCCAATGAATAGAAAA 59.394 33.333 0.00 0.00 0.00 2.29
3755 8519 7.102993 TGAGTGTCGAATCCAATGAATAGAAA 58.897 34.615 0.00 0.00 0.00 2.52
3759 8523 7.726216 AGTATGAGTGTCGAATCCAATGAATA 58.274 34.615 0.00 0.00 0.00 1.75
3760 8524 6.586344 AGTATGAGTGTCGAATCCAATGAAT 58.414 36.000 0.00 0.00 0.00 2.57
3761 8525 5.977635 AGTATGAGTGTCGAATCCAATGAA 58.022 37.500 0.00 0.00 0.00 2.57
3762 8526 5.598416 AGTATGAGTGTCGAATCCAATGA 57.402 39.130 0.00 0.00 0.00 2.57
3766 8530 6.465439 ACATAAGTATGAGTGTCGAATCCA 57.535 37.500 5.33 0.00 37.15 3.41
3767 8531 8.867112 TTTACATAAGTATGAGTGTCGAATCC 57.133 34.615 5.33 0.00 37.15 3.01
3770 8534 7.277098 GCCTTTTACATAAGTATGAGTGTCGAA 59.723 37.037 5.33 0.00 37.15 3.71
3772 8536 6.757010 AGCCTTTTACATAAGTATGAGTGTCG 59.243 38.462 5.33 0.00 37.15 4.35
3790 8554 8.903820 GGTGTATTGAAACTATCATAGCCTTTT 58.096 33.333 0.00 0.00 38.03 2.27
3792 8556 7.716998 CAGGTGTATTGAAACTATCATAGCCTT 59.283 37.037 0.00 0.00 38.03 4.35
3794 8558 6.992715 ACAGGTGTATTGAAACTATCATAGCC 59.007 38.462 0.00 0.00 38.03 3.93
3795 8559 7.041780 CCACAGGTGTATTGAAACTATCATAGC 60.042 40.741 0.00 0.00 38.03 2.97
3796 8560 7.987458 ACCACAGGTGTATTGAAACTATCATAG 59.013 37.037 0.00 0.00 34.02 2.23
3798 8562 6.721318 ACCACAGGTGTATTGAAACTATCAT 58.279 36.000 0.00 0.00 34.02 2.45
3799 8563 6.121776 ACCACAGGTGTATTGAAACTATCA 57.878 37.500 0.00 0.00 32.98 2.15
3801 8565 9.174166 GATAAACCACAGGTGTATTGAAACTAT 57.826 33.333 0.64 0.00 36.34 2.12
3803 8567 7.001674 TGATAAACCACAGGTGTATTGAAACT 58.998 34.615 0.64 0.00 36.34 2.66
3804 8568 7.209471 TGATAAACCACAGGTGTATTGAAAC 57.791 36.000 0.64 0.00 36.34 2.78
3805 8569 6.432783 CCTGATAAACCACAGGTGTATTGAAA 59.567 38.462 0.00 0.00 45.82 2.69
3806 8570 5.943416 CCTGATAAACCACAGGTGTATTGAA 59.057 40.000 0.00 0.00 45.82 2.69
3807 8571 5.496556 CCTGATAAACCACAGGTGTATTGA 58.503 41.667 0.00 0.00 45.82 2.57
3808 8572 5.818136 CCTGATAAACCACAGGTGTATTG 57.182 43.478 0.00 0.00 45.82 1.90
3816 8580 6.483307 CCACATACATACCTGATAAACCACAG 59.517 42.308 0.00 0.00 0.00 3.66
3817 8581 6.353323 CCACATACATACCTGATAAACCACA 58.647 40.000 0.00 0.00 0.00 4.17
3819 8583 5.104318 TGCCACATACATACCTGATAAACCA 60.104 40.000 0.00 0.00 0.00 3.67
3820 8584 5.373222 TGCCACATACATACCTGATAAACC 58.627 41.667 0.00 0.00 0.00 3.27
3822 8586 7.946381 TTTTGCCACATACATACCTGATAAA 57.054 32.000 0.00 0.00 0.00 1.40
3823 8587 7.559533 ACATTTTGCCACATACATACCTGATAA 59.440 33.333 0.00 0.00 0.00 1.75
3825 8589 5.893255 ACATTTTGCCACATACATACCTGAT 59.107 36.000 0.00 0.00 0.00 2.90
3827 8591 5.342433 CACATTTTGCCACATACATACCTG 58.658 41.667 0.00 0.00 0.00 4.00
3828 8592 4.142182 GCACATTTTGCCACATACATACCT 60.142 41.667 0.00 0.00 46.63 3.08
3829 8593 4.111916 GCACATTTTGCCACATACATACC 58.888 43.478 0.00 0.00 46.63 2.73
3845 8609 4.942761 AGAACAAACATCCTTGCACATT 57.057 36.364 0.00 0.00 0.00 2.71
3846 8610 5.048504 CACTAGAACAAACATCCTTGCACAT 60.049 40.000 0.00 0.00 0.00 3.21
3847 8611 4.275689 CACTAGAACAAACATCCTTGCACA 59.724 41.667 0.00 0.00 0.00 4.57
3849 8613 4.460263 ACACTAGAACAAACATCCTTGCA 58.540 39.130 0.00 0.00 0.00 4.08
3850 8614 5.438761 AACACTAGAACAAACATCCTTGC 57.561 39.130 0.00 0.00 0.00 4.01
3851 8615 7.973388 TCAAAAACACTAGAACAAACATCCTTG 59.027 33.333 0.00 0.00 0.00 3.61
3853 8617 7.639113 TCAAAAACACTAGAACAAACATCCT 57.361 32.000 0.00 0.00 0.00 3.24
3854 8618 7.973944 AGTTCAAAAACACTAGAACAAACATCC 59.026 33.333 0.00 0.00 42.01 3.51
3855 8619 8.911247 AGTTCAAAAACACTAGAACAAACATC 57.089 30.769 0.00 0.00 42.01 3.06
3856 8620 9.705290 AAAGTTCAAAAACACTAGAACAAACAT 57.295 25.926 0.00 0.00 42.01 2.71
3883 8647 9.476202 AAGCGAGCAAAACTTTTAAATTTATCT 57.524 25.926 0.00 0.00 0.00 1.98
3886 8650 9.738832 ACTAAGCGAGCAAAACTTTTAAATTTA 57.261 25.926 0.00 0.00 0.00 1.40
3887 8651 8.642908 ACTAAGCGAGCAAAACTTTTAAATTT 57.357 26.923 0.00 0.00 0.00 1.82
3888 8652 9.908152 ATACTAAGCGAGCAAAACTTTTAAATT 57.092 25.926 0.00 0.00 0.00 1.82
3889 8653 9.341899 CATACTAAGCGAGCAAAACTTTTAAAT 57.658 29.630 0.00 0.00 0.00 1.40
3890 8654 8.561212 TCATACTAAGCGAGCAAAACTTTTAAA 58.439 29.630 0.00 0.00 0.00 1.52
3891 8655 8.090250 TCATACTAAGCGAGCAAAACTTTTAA 57.910 30.769 0.00 0.00 0.00 1.52
3892 8656 7.661127 TCATACTAAGCGAGCAAAACTTTTA 57.339 32.000 0.00 0.00 0.00 1.52
3893 8657 6.554334 TCATACTAAGCGAGCAAAACTTTT 57.446 33.333 0.00 0.00 0.00 2.27
3895 8659 5.468746 TGTTCATACTAAGCGAGCAAAACTT 59.531 36.000 0.00 0.00 0.00 2.66
3896 8660 4.994852 TGTTCATACTAAGCGAGCAAAACT 59.005 37.500 0.00 0.00 0.00 2.66
3897 8661 5.277601 TGTTCATACTAAGCGAGCAAAAC 57.722 39.130 0.00 0.00 0.00 2.43
3901 8665 6.761242 ACATAAATGTTCATACTAAGCGAGCA 59.239 34.615 0.00 0.00 37.90 4.26
3902 8666 7.065894 CACATAAATGTTCATACTAAGCGAGC 58.934 38.462 0.00 0.00 39.39 5.03
3903 8667 7.224753 ACCACATAAATGTTCATACTAAGCGAG 59.775 37.037 0.00 0.00 39.39 5.03
3905 8669 7.246674 ACCACATAAATGTTCATACTAAGCG 57.753 36.000 0.00 0.00 39.39 4.68
3906 8670 9.104965 TGTACCACATAAATGTTCATACTAAGC 57.895 33.333 0.00 0.00 39.39 3.09
3917 9658 6.321821 ACCCACTATGTACCACATAAATGT 57.678 37.500 1.07 0.00 40.23 2.71
3919 9660 8.499406 ACAATACCCACTATGTACCACATAAAT 58.501 33.333 1.07 0.00 40.23 1.40
3937 9678 2.350498 CGAAACCGATGACACAATACCC 59.650 50.000 0.00 0.00 0.00 3.69
3938 9679 2.997986 ACGAAACCGATGACACAATACC 59.002 45.455 0.00 0.00 0.00 2.73
3939 9680 5.961395 ATACGAAACCGATGACACAATAC 57.039 39.130 0.00 0.00 0.00 1.89
3941 9682 5.873179 AAATACGAAACCGATGACACAAT 57.127 34.783 0.00 0.00 0.00 2.71
3974 10053 5.437191 AGGGGTCAACTACAAATAGAAGG 57.563 43.478 0.00 0.00 32.23 3.46
4005 10084 7.987750 TTTAAAAGGTTGCAAAGTTTCCTTT 57.012 28.000 19.89 19.89 46.26 3.11


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

AutoCloner maintained by Alex Coulton.