Multiple sequence alignment - TraesCS7B01G129700

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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 TraesCS7B01G129700 chr7B 100.000 6570 0 0 1 6570 155475552 155468983 0.000000e+00 12133.0
1 TraesCS7B01G129700 chr7B 97.561 41 1 0 20 60 334774319 334774279 3.290000e-08 71.3
2 TraesCS7B01G129700 chr7A 94.662 6107 232 42 508 6568 201990889 201984831 0.000000e+00 9385.0
3 TraesCS7B01G129700 chr7A 93.233 266 14 2 206 470 201991148 201990886 7.990000e-104 388.0
4 TraesCS7B01G129700 chr7A 94.194 155 8 1 4233 4386 486929939 486930093 1.100000e-57 235.0
5 TraesCS7B01G129700 chr7A 92.169 166 12 1 4222 4386 462978574 462978739 3.960000e-57 233.0
6 TraesCS7B01G129700 chr7A 79.688 128 24 2 219 345 610151572 610151698 2.520000e-14 91.6
7 TraesCS7B01G129700 chr7A 79.070 129 23 4 219 344 573837110 573837237 1.170000e-12 86.1
8 TraesCS7B01G129700 chr7D 96.545 4544 131 11 2028 6566 192373819 192369297 0.000000e+00 7498.0
9 TraesCS7B01G129700 chr7D 94.095 1829 73 16 188 1992 192375633 192373816 0.000000e+00 2747.0
10 TraesCS7B01G129700 chr7D 91.566 166 14 0 4234 4399 197927008 197927173 5.120000e-56 230.0
11 TraesCS7B01G129700 chr7D 93.548 155 9 1 4233 4386 436961794 436961948 5.120000e-56 230.0
12 TraesCS7B01G129700 chr7D 96.629 89 3 0 63 151 192375907 192375819 1.480000e-31 148.0
13 TraesCS7B01G129700 chr7D 95.349 43 2 0 18 60 126050273 126050231 1.180000e-07 69.4
14 TraesCS7B01G129700 chr7D 86.207 58 7 1 14 70 221683528 221683471 1.980000e-05 62.1
15 TraesCS7B01G129700 chr7D 100.000 31 0 0 160 190 192375685 192375655 2.560000e-04 58.4
16 TraesCS7B01G129700 chr4D 92.081 644 34 2 5795 6438 167197249 167197875 0.000000e+00 891.0
17 TraesCS7B01G129700 chr5A 92.857 168 10 2 4220 4387 86662183 86662018 6.580000e-60 243.0
18 TraesCS7B01G129700 chr5A 80.000 125 24 1 220 344 404557262 404557139 2.520000e-14 91.6
19 TraesCS7B01G129700 chr5A 95.455 44 2 0 17 60 227928565 227928522 3.290000e-08 71.3
20 TraesCS7B01G129700 chr5B 94.771 153 8 0 4234 4386 98663330 98663178 8.510000e-59 239.0
21 TraesCS7B01G129700 chr5B 81.301 123 20 2 223 343 489306560 489306439 5.420000e-16 97.1
22 TraesCS7B01G129700 chr4B 92.073 164 13 0 4227 4390 658773057 658773220 1.420000e-56 231.0
23 TraesCS7B01G129700 chr4B 95.745 47 1 1 21 66 660583502 660583548 2.540000e-09 75.0
24 TraesCS7B01G129700 chr2B 87.619 105 10 3 220 322 66962287 66962390 1.160000e-22 119.0
25 TraesCS7B01G129700 chr2B 88.889 54 6 0 14 67 704902595 704902542 4.250000e-07 67.6
26 TraesCS7B01G129700 chr1A 86.538 104 14 0 219 322 27264132 27264029 1.500000e-21 115.0
27 TraesCS7B01G129700 chr4A 79.528 127 25 1 219 344 210621496 210621622 9.070000e-14 89.8
28 TraesCS7B01G129700 chr4A 91.667 48 3 1 19 66 736711045 736711091 1.530000e-06 65.8
29 TraesCS7B01G129700 chr3D 94.231 52 3 0 18 69 489471210 489471261 5.460000e-11 80.5
30 TraesCS7B01G129700 chr2D 92.308 52 2 2 14 65 174577056 174577105 9.140000e-09 73.1


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 TraesCS7B01G129700 chr7B 155468983 155475552 6569 True 12133.00 12133 100.00000 1 6570 1 chr7B.!!$R1 6569
1 TraesCS7B01G129700 chr7A 201984831 201991148 6317 True 4886.50 9385 93.94750 206 6568 2 chr7A.!!$R1 6362
2 TraesCS7B01G129700 chr7D 192369297 192375907 6610 True 2612.85 7498 96.81725 63 6566 4 chr7D.!!$R3 6503
3 TraesCS7B01G129700 chr4D 167197249 167197875 626 False 891.00 891 92.08100 5795 6438 1 chr4D.!!$F1 643

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
630 781 0.036010 CCTCTGCGGGACACATTTCT 60.036 55.000 0.0 0.0 0.00 2.52 F
654 805 0.108662 CACTAGAGCCATGCACGACA 60.109 55.000 0.0 0.0 0.00 4.35 F
1904 2068 0.112412 GACTGGCTGGGAAGGGAAAA 59.888 55.000 0.0 0.0 0.00 2.29 F
2538 2732 0.193574 AGTCAAGGAAGACTGGGGGA 59.806 55.000 0.0 0.0 46.58 4.81 F
2809 3003 0.613012 GGTTCCTGCCAATGCCTCTT 60.613 55.000 0.0 0.0 36.33 2.85 F
3697 3892 2.346766 TGCACACCTGACACTCATTT 57.653 45.000 0.0 0.0 0.00 2.32 F
4934 5130 2.234168 GGACTGGGGTCTTCTACAGTTC 59.766 54.545 0.0 0.0 43.61 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1956 2140 0.388659 TTTCAATTGCACGCCAAGCT 59.611 45.000 0.00 0.00 36.76 3.74 R
2454 2648 0.400213 TCCTTGATGGTGTGGTGACC 59.600 55.000 0.00 0.00 37.07 4.02 R
3730 3925 1.002011 GAAGAAGGCACCCTGGGAC 60.002 63.158 22.23 10.97 32.13 4.46 R
4486 4682 1.063717 CATGCCAGGTATTCCAGGGTT 60.064 52.381 1.92 0.00 40.26 4.11 R
4850 5046 2.030274 TGACACGATGACGACAAGTGAT 60.030 45.455 24.36 13.68 42.66 3.06 R
5317 5513 3.004106 CCAGCCTGACAGAGAAGTTTTTG 59.996 47.826 3.32 0.00 0.00 2.44 R
6505 6709 1.060937 GCCATACGACTTGCTTGCG 59.939 57.895 0.00 0.00 0.00 4.85 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
26 27 6.986904 ACAACTACTCCTATTTTAGCTTGC 57.013 37.500 0.00 0.00 0.00 4.01
27 28 6.472887 ACAACTACTCCTATTTTAGCTTGCA 58.527 36.000 0.00 0.00 0.00 4.08
28 29 6.940298 ACAACTACTCCTATTTTAGCTTGCAA 59.060 34.615 0.00 0.00 0.00 4.08
29 30 7.447238 ACAACTACTCCTATTTTAGCTTGCAAA 59.553 33.333 0.00 0.00 0.00 3.68
30 31 7.996098 ACTACTCCTATTTTAGCTTGCAAAA 57.004 32.000 0.00 0.00 0.00 2.44
31 32 8.404107 ACTACTCCTATTTTAGCTTGCAAAAA 57.596 30.769 0.00 0.00 0.00 1.94
32 33 8.297426 ACTACTCCTATTTTAGCTTGCAAAAAC 58.703 33.333 0.00 0.00 0.00 2.43
33 34 6.149633 ACTCCTATTTTAGCTTGCAAAAACG 58.850 36.000 0.00 0.00 0.00 3.60
34 35 6.079424 TCCTATTTTAGCTTGCAAAAACGT 57.921 33.333 0.00 0.00 0.00 3.99
35 36 6.146898 TCCTATTTTAGCTTGCAAAAACGTC 58.853 36.000 0.00 0.00 0.00 4.34
36 37 6.016610 TCCTATTTTAGCTTGCAAAAACGTCT 60.017 34.615 0.00 0.00 0.00 4.18
37 38 6.640907 CCTATTTTAGCTTGCAAAAACGTCTT 59.359 34.615 0.00 0.00 0.00 3.01
38 39 7.806014 CCTATTTTAGCTTGCAAAAACGTCTTA 59.194 33.333 0.00 0.00 0.00 2.10
39 40 6.799786 TTTTAGCTTGCAAAAACGTCTTAC 57.200 33.333 0.00 0.00 0.00 2.34
40 41 5.487153 TTAGCTTGCAAAAACGTCTTACA 57.513 34.783 0.00 0.00 0.00 2.41
41 42 4.568152 AGCTTGCAAAAACGTCTTACAT 57.432 36.364 0.00 0.00 0.00 2.29
42 43 4.932146 AGCTTGCAAAAACGTCTTACATT 58.068 34.783 0.00 0.00 0.00 2.71
43 44 6.067263 AGCTTGCAAAAACGTCTTACATTA 57.933 33.333 0.00 0.00 0.00 1.90
44 45 6.677913 AGCTTGCAAAAACGTCTTACATTAT 58.322 32.000 0.00 0.00 0.00 1.28
45 46 6.582295 AGCTTGCAAAAACGTCTTACATTATG 59.418 34.615 0.00 0.00 0.00 1.90
46 47 6.580791 GCTTGCAAAAACGTCTTACATTATGA 59.419 34.615 0.00 0.00 0.00 2.15
47 48 7.201266 GCTTGCAAAAACGTCTTACATTATGAG 60.201 37.037 0.00 0.00 0.00 2.90
48 49 7.428282 TGCAAAAACGTCTTACATTATGAGA 57.572 32.000 0.00 0.00 0.00 3.27
49 50 8.039603 TGCAAAAACGTCTTACATTATGAGAT 57.960 30.769 0.00 0.00 0.00 2.75
50 51 7.962373 TGCAAAAACGTCTTACATTATGAGATG 59.038 33.333 0.00 0.52 36.29 2.90
51 52 7.429340 GCAAAAACGTCTTACATTATGAGATGG 59.571 37.037 0.00 0.00 34.85 3.51
52 53 8.664798 CAAAAACGTCTTACATTATGAGATGGA 58.335 33.333 0.00 0.00 34.85 3.41
53 54 8.425577 AAAACGTCTTACATTATGAGATGGAG 57.574 34.615 0.00 0.00 34.85 3.86
54 55 6.090483 ACGTCTTACATTATGAGATGGAGG 57.910 41.667 0.00 0.00 34.85 4.30
55 56 5.011125 ACGTCTTACATTATGAGATGGAGGG 59.989 44.000 0.00 0.00 34.85 4.30
56 57 5.243954 CGTCTTACATTATGAGATGGAGGGA 59.756 44.000 0.00 0.00 0.00 4.20
57 58 6.571344 CGTCTTACATTATGAGATGGAGGGAG 60.571 46.154 0.00 0.00 0.00 4.30
58 59 6.268847 GTCTTACATTATGAGATGGAGGGAGT 59.731 42.308 0.00 0.00 0.00 3.85
59 60 7.451877 GTCTTACATTATGAGATGGAGGGAGTA 59.548 40.741 0.00 0.00 0.00 2.59
60 61 7.671819 TCTTACATTATGAGATGGAGGGAGTAG 59.328 40.741 0.00 0.00 0.00 2.57
61 62 4.530161 ACATTATGAGATGGAGGGAGTAGC 59.470 45.833 0.00 0.00 0.00 3.58
92 93 7.659652 ACTAAACAGATTGAACAGTCTAAGC 57.340 36.000 0.00 0.00 0.00 3.09
112 113 9.692749 TCTAAGCATAAAATACAGTCCTAATCG 57.307 33.333 0.00 0.00 0.00 3.34
122 123 3.514309 ACAGTCCTAATCGCCACTAAAGT 59.486 43.478 0.00 0.00 0.00 2.66
151 152 4.529109 TGAATCACATGAGACGGTACAA 57.471 40.909 0.00 0.00 0.00 2.41
152 153 5.084818 TGAATCACATGAGACGGTACAAT 57.915 39.130 0.00 0.00 0.00 2.71
154 155 5.937540 TGAATCACATGAGACGGTACAATTT 59.062 36.000 0.00 0.00 0.00 1.82
155 156 6.429692 TGAATCACATGAGACGGTACAATTTT 59.570 34.615 0.00 0.00 0.00 1.82
156 157 5.856126 TCACATGAGACGGTACAATTTTC 57.144 39.130 0.00 0.00 0.00 2.29
157 158 4.387559 TCACATGAGACGGTACAATTTTCG 59.612 41.667 0.00 0.00 0.00 3.46
158 159 3.682858 ACATGAGACGGTACAATTTTCGG 59.317 43.478 0.00 0.00 0.00 4.30
228 378 5.106475 GCAACCACATGCAATTTGATTCAAT 60.106 36.000 0.00 0.00 45.70 2.57
233 383 6.987404 CCACATGCAATTTGATTCAATGGATA 59.013 34.615 6.66 0.00 0.00 2.59
329 479 8.355169 TGAATCATATAGGAATTTTGCAGAAGC 58.645 33.333 0.00 0.00 42.57 3.86
487 638 4.320494 GGATTCAAAAATGAGCACGACACT 60.320 41.667 0.00 0.00 0.00 3.55
499 650 3.118775 AGCACGACACTGCAATCCTATAA 60.119 43.478 0.00 0.00 39.86 0.98
500 651 3.621268 GCACGACACTGCAATCCTATAAA 59.379 43.478 0.00 0.00 37.11 1.40
530 681 4.261578 TCCTACGTTTTCAGAATTCCGT 57.738 40.909 0.65 6.14 0.00 4.69
630 781 0.036010 CCTCTGCGGGACACATTTCT 60.036 55.000 0.00 0.00 0.00 2.52
654 805 0.108662 CACTAGAGCCATGCACGACA 60.109 55.000 0.00 0.00 0.00 4.35
678 829 2.509336 GCCTCCACCATCGTCGTG 60.509 66.667 0.00 0.00 0.00 4.35
707 858 3.474083 TGGAGTGAGTGATCCACCA 57.526 52.632 0.00 0.00 40.70 4.17
781 932 0.683504 GGGGAGCTAACAGAGACGGA 60.684 60.000 0.00 0.00 0.00 4.69
784 935 2.093106 GGAGCTAACAGAGACGGAGAA 58.907 52.381 0.00 0.00 0.00 2.87
785 936 2.691011 GGAGCTAACAGAGACGGAGAAT 59.309 50.000 0.00 0.00 0.00 2.40
786 937 3.243267 GGAGCTAACAGAGACGGAGAATC 60.243 52.174 0.00 0.00 0.00 2.52
983 1139 2.812609 ACACTCGCATGCAGCTCG 60.813 61.111 19.57 4.02 42.61 5.03
1332 1488 0.177836 AGGTATGCAGCGCACATGTA 59.822 50.000 21.94 7.24 43.04 2.29
1490 1646 1.241990 CGAGACGGAGGTTCTGGACA 61.242 60.000 0.00 0.00 0.00 4.02
1591 1747 2.089980 CGGTTCTACGAGAGGAAGGAA 58.910 52.381 0.00 0.00 35.47 3.36
1609 1765 3.003763 GGGGAGTTCCTGGAGCGT 61.004 66.667 4.82 0.00 35.95 5.07
1642 1798 2.895865 CGGCAGCAGCAGATCCTG 60.896 66.667 2.65 0.00 44.61 3.86
1789 1953 6.916440 ACATAAATGCATGCCACTATATGTG 58.084 36.000 16.68 5.70 45.80 3.21
1836 2000 5.355350 CCAGTTGAGGGTAAAAGCTGATTAG 59.645 44.000 0.00 0.00 0.00 1.73
1871 2035 2.342179 GCTGTCTAGCTGGTCTTGAAC 58.658 52.381 0.00 0.00 46.57 3.18
1872 2036 2.028567 GCTGTCTAGCTGGTCTTGAACT 60.029 50.000 0.00 0.00 46.57 3.01
1886 2050 9.330063 CTGGTCTTGAACTATGCATAAATAAGA 57.670 33.333 8.00 11.72 0.00 2.10
1890 2054 9.330063 TCTTGAACTATGCATAAATAAGACTGG 57.670 33.333 8.00 0.00 0.00 4.00
1891 2055 7.496529 TGAACTATGCATAAATAAGACTGGC 57.503 36.000 8.00 0.00 0.00 4.85
1892 2056 7.282585 TGAACTATGCATAAATAAGACTGGCT 58.717 34.615 8.00 0.00 0.00 4.75
1894 2058 6.000219 ACTATGCATAAATAAGACTGGCTGG 59.000 40.000 8.00 0.00 0.00 4.85
1895 2059 3.554934 TGCATAAATAAGACTGGCTGGG 58.445 45.455 0.00 0.00 0.00 4.45
1896 2060 3.201930 TGCATAAATAAGACTGGCTGGGA 59.798 43.478 0.00 0.00 0.00 4.37
1899 2063 3.372440 AAATAAGACTGGCTGGGAAGG 57.628 47.619 0.00 0.00 0.00 3.46
1900 2064 1.216990 ATAAGACTGGCTGGGAAGGG 58.783 55.000 0.00 0.00 0.00 3.95
1901 2065 0.118346 TAAGACTGGCTGGGAAGGGA 59.882 55.000 0.00 0.00 0.00 4.20
1902 2066 0.772124 AAGACTGGCTGGGAAGGGAA 60.772 55.000 0.00 0.00 0.00 3.97
1903 2067 0.772124 AGACTGGCTGGGAAGGGAAA 60.772 55.000 0.00 0.00 0.00 3.13
1904 2068 0.112412 GACTGGCTGGGAAGGGAAAA 59.888 55.000 0.00 0.00 0.00 2.29
1905 2069 0.560688 ACTGGCTGGGAAGGGAAAAA 59.439 50.000 0.00 0.00 0.00 1.94
1906 2070 1.149923 ACTGGCTGGGAAGGGAAAAAT 59.850 47.619 0.00 0.00 0.00 1.82
1907 2071 2.381961 ACTGGCTGGGAAGGGAAAAATA 59.618 45.455 0.00 0.00 0.00 1.40
1910 2094 3.076785 TGGCTGGGAAGGGAAAAATAGAA 59.923 43.478 0.00 0.00 0.00 2.10
1956 2140 5.778241 TCCAGATTAGTCCAGTAGTTGTTGA 59.222 40.000 0.00 0.00 0.00 3.18
1958 2142 5.578727 CAGATTAGTCCAGTAGTTGTTGAGC 59.421 44.000 0.00 0.00 0.00 4.26
1987 2171 5.459762 CGTGCAATTGAAAGGCATATTTAGG 59.540 40.000 10.34 0.00 40.05 2.69
1993 2177 9.252962 CAATTGAAAGGCATATTTAGGTTCATC 57.747 33.333 0.00 0.00 0.00 2.92
1994 2178 6.618287 TGAAAGGCATATTTAGGTTCATCG 57.382 37.500 0.00 0.00 0.00 3.84
1995 2179 5.530915 TGAAAGGCATATTTAGGTTCATCGG 59.469 40.000 0.00 0.00 0.00 4.18
1996 2180 4.706842 AGGCATATTTAGGTTCATCGGT 57.293 40.909 0.00 0.00 0.00 4.69
1997 2181 4.389374 AGGCATATTTAGGTTCATCGGTG 58.611 43.478 0.00 0.00 0.00 4.94
1998 2182 4.102524 AGGCATATTTAGGTTCATCGGTGA 59.897 41.667 0.00 0.00 0.00 4.02
1999 2183 4.452455 GGCATATTTAGGTTCATCGGTGAG 59.548 45.833 0.00 0.00 35.39 3.51
2000 2184 5.297547 GCATATTTAGGTTCATCGGTGAGA 58.702 41.667 0.00 0.00 35.39 3.27
2001 2185 5.934625 GCATATTTAGGTTCATCGGTGAGAT 59.065 40.000 0.00 0.00 41.01 2.75
2002 2186 7.097192 GCATATTTAGGTTCATCGGTGAGATA 58.903 38.462 0.00 0.00 37.52 1.98
2003 2187 7.063544 GCATATTTAGGTTCATCGGTGAGATAC 59.936 40.741 0.00 0.00 37.52 2.24
2004 2188 4.931661 TTAGGTTCATCGGTGAGATACC 57.068 45.455 9.61 9.61 46.56 2.73
2022 2206 8.330247 TGAGATACCCTTAGTATAGGTGAGATC 58.670 40.741 2.56 0.00 41.94 2.75
2036 2222 3.371380 GGTGAGATCCTTCTTCAAGCCAT 60.371 47.826 0.00 0.00 30.30 4.40
2185 2379 2.951458 TCGAGCTTCGAAGTCGCA 59.049 55.556 29.15 20.72 46.90 5.10
2326 2520 1.584724 TGAAGGGGAGGACCATCTTC 58.415 55.000 0.00 0.00 42.54 2.87
2406 2600 3.405831 CAACAAGCTGAGGACATTCTCA 58.594 45.455 0.00 0.00 41.03 3.27
2469 2663 1.411651 TTCCGGTCACCACACCATCA 61.412 55.000 0.00 0.00 36.01 3.07
2497 2691 3.315765 TTCGCCATCCGTGAACTTT 57.684 47.368 0.00 0.00 36.05 2.66
2538 2732 0.193574 AGTCAAGGAAGACTGGGGGA 59.806 55.000 0.00 0.00 46.58 4.81
2547 2741 1.682344 GACTGGGGGAAATGGTGGC 60.682 63.158 0.00 0.00 0.00 5.01
2553 2747 1.379843 GGGAAATGGTGGCGATGGT 60.380 57.895 0.00 0.00 0.00 3.55
2667 2861 3.118261 ACCTCAAGACGTATCGGTAGGTA 60.118 47.826 0.13 0.00 34.40 3.08
2677 2871 4.035324 CGTATCGGTAGGTATAGCTGATGG 59.965 50.000 14.72 1.85 30.72 3.51
2691 2885 2.033801 GCTGATGGCATGGTATGTTGTC 59.966 50.000 3.81 0.00 41.35 3.18
2702 2896 2.884639 GGTATGTTGTCCTGCTTTGTGT 59.115 45.455 0.00 0.00 0.00 3.72
2703 2897 3.304659 GGTATGTTGTCCTGCTTTGTGTG 60.305 47.826 0.00 0.00 0.00 3.82
2766 2960 3.460103 CTTGAACATGCTGGCTTTTGTT 58.540 40.909 0.00 8.13 35.14 2.83
2809 3003 0.613012 GGTTCCTGCCAATGCCTCTT 60.613 55.000 0.00 0.00 36.33 2.85
2818 3012 2.625314 GCCAATGCCTCTTTCCTTATCC 59.375 50.000 0.00 0.00 0.00 2.59
2831 3025 4.329638 TCCTTATCCCATTGCCTGAAAA 57.670 40.909 0.00 0.00 0.00 2.29
2856 3050 9.903682 AATTATCACATATAAGCAATGCTGAAC 57.096 29.630 9.14 0.00 39.62 3.18
2861 3055 6.254157 CACATATAAGCAATGCTGAACAAACC 59.746 38.462 9.14 0.00 39.62 3.27
3224 3419 3.836562 AGCTTTGCATTCCTTCCAATTCT 59.163 39.130 0.00 0.00 0.00 2.40
3469 3664 7.647715 ACAAAAGGTGTTAAAACTCAATGATCG 59.352 33.333 0.00 0.00 37.01 3.69
3651 3846 4.811557 GTGTTCTTGATATGCACTACCTCC 59.188 45.833 0.00 0.00 0.00 4.30
3697 3892 2.346766 TGCACACCTGACACTCATTT 57.653 45.000 0.00 0.00 0.00 2.32
3730 3925 3.995199 TCTTCAAGTACAGTCCAAGCAG 58.005 45.455 0.00 0.00 0.00 4.24
3871 4066 2.956132 TGGTCTGCCCTTTCAAAATCA 58.044 42.857 0.00 0.00 0.00 2.57
3927 4122 6.108687 AGCGATCAGAAACATCATTCTAACA 58.891 36.000 0.00 0.00 37.56 2.41
4164 4359 5.450818 AAATGCTCAGTAGGGTCCATTTA 57.549 39.130 0.00 0.00 32.85 1.40
4200 4395 6.256975 TGATCAGCATCAATAATTGCTTTTGC 59.743 34.615 0.00 0.00 46.71 3.68
4219 4414 9.696417 GCTTTTGCCAACATGGATGTTTGTTTT 62.696 37.037 2.14 0.00 43.09 2.43
4357 4553 8.558973 ACATCCAATTCAGAAGAAAGTTAGAG 57.441 34.615 0.00 0.00 37.29 2.43
4390 4586 6.963083 ATAGTGAACAGAGGGAGTACATAC 57.037 41.667 0.00 0.00 0.00 2.39
4406 4602 6.344500 AGTACATACTACTACAGTGTAGCGT 58.656 40.000 26.79 24.08 42.53 5.07
4435 4631 8.031277 AGAGAAGCAATGATGGTGTTTAATTTC 58.969 33.333 0.00 0.00 37.35 2.17
4486 4682 4.442472 GGAAAATAGGTACCGCTGCTTAGA 60.442 45.833 6.18 0.00 0.00 2.10
4665 4861 4.002982 GACTTGCCACATCACAATGTCTA 58.997 43.478 0.00 0.00 44.41 2.59
4850 5046 2.771372 TGATAACAGTGCTGGATGGCTA 59.229 45.455 4.11 0.00 34.19 3.93
4934 5130 2.234168 GGACTGGGGTCTTCTACAGTTC 59.766 54.545 0.00 0.00 43.61 3.01
5055 5251 2.415168 TCGAAAAATTGCGAGCGAAGAT 59.585 40.909 0.00 0.00 32.13 2.40
5056 5252 3.615056 TCGAAAAATTGCGAGCGAAGATA 59.385 39.130 0.00 0.00 32.13 1.98
5057 5253 4.092237 TCGAAAAATTGCGAGCGAAGATAA 59.908 37.500 0.00 0.00 32.13 1.75
5058 5254 4.786068 CGAAAAATTGCGAGCGAAGATAAA 59.214 37.500 0.00 0.00 0.00 1.40
5171 5367 3.454858 TGGAAGCCTGGATTCTAGAGTT 58.545 45.455 22.59 0.00 0.00 3.01
5430 5626 3.089284 TCGAAGAGGACTAACAGCATGA 58.911 45.455 0.00 0.00 39.69 3.07
5635 5834 5.877012 ACATAGAGCACATAAGTTCCAACTG 59.123 40.000 0.00 0.00 39.66 3.16
5727 5926 8.251721 AGTACTCGAAAAATAGTTGCTCTACAT 58.748 33.333 0.00 0.00 0.00 2.29
5758 5958 4.698201 TGACTGTTCCACCATCTTGTAA 57.302 40.909 0.00 0.00 0.00 2.41
5927 6127 1.246056 TGCAAAGTGGCATCCTGCTC 61.246 55.000 15.57 0.00 44.28 4.26
5991 6191 1.064389 AGCAAATAGGGGCCAGACTTC 60.064 52.381 4.39 0.00 0.00 3.01
5992 6192 1.064389 GCAAATAGGGGCCAGACTTCT 60.064 52.381 4.39 0.00 0.00 2.85
5993 6193 2.621668 GCAAATAGGGGCCAGACTTCTT 60.622 50.000 4.39 0.00 0.00 2.52
5994 6194 3.019564 CAAATAGGGGCCAGACTTCTTG 58.980 50.000 4.39 3.28 0.00 3.02
6055 6255 1.839424 GCCACTTTGCATCCCTAAGT 58.161 50.000 0.00 0.00 39.56 2.24
6222 6422 4.690184 TGTGTCTTCTTTGCTGCATATG 57.310 40.909 1.84 0.00 0.00 1.78
6292 6492 1.403323 GTAAGAAGAGCTGGGCAATGC 59.597 52.381 0.00 0.00 0.00 3.56
6366 6567 4.395542 GGCATTGCATTTGCTTCCAATAAA 59.604 37.500 18.32 0.00 42.66 1.40
6418 6619 9.466497 AACATCAAAACTCACCTGACAATATAT 57.534 29.630 0.00 0.00 0.00 0.86
6478 6682 8.062448 CAGTTTACAACAGTTTAGTAACAGAGC 58.938 37.037 0.00 0.00 36.70 4.09
6510 6714 9.046296 ACCTTAAGATAAGAAACATATCGCAAG 57.954 33.333 3.36 0.00 35.40 4.01
6517 6721 3.062639 AGAAACATATCGCAAGCAAGTCG 59.937 43.478 0.00 0.00 37.18 4.18
6568 6772 3.612860 CCTTCGTACCAAGTCATCTTTCG 59.387 47.826 0.00 0.00 0.00 3.46
6569 6773 4.482386 CTTCGTACCAAGTCATCTTTCGA 58.518 43.478 0.00 0.00 0.00 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.943002 GCAAGCTAAAATAGGAGTAGTTGTAAA 58.057 33.333 0.00 0.00 0.00 2.01
1 2 8.098286 TGCAAGCTAAAATAGGAGTAGTTGTAA 58.902 33.333 0.00 0.00 0.00 2.41
2 3 7.617225 TGCAAGCTAAAATAGGAGTAGTTGTA 58.383 34.615 0.00 0.00 0.00 2.41
3 4 6.472887 TGCAAGCTAAAATAGGAGTAGTTGT 58.527 36.000 0.00 0.00 0.00 3.32
4 5 6.985188 TGCAAGCTAAAATAGGAGTAGTTG 57.015 37.500 0.00 0.00 0.00 3.16
5 6 7.996098 TTTGCAAGCTAAAATAGGAGTAGTT 57.004 32.000 0.00 0.00 0.00 2.24
6 7 7.996098 TTTTGCAAGCTAAAATAGGAGTAGT 57.004 32.000 0.00 0.00 0.00 2.73
7 8 7.481798 CGTTTTTGCAAGCTAAAATAGGAGTAG 59.518 37.037 15.21 0.00 34.43 2.57
8 9 7.040961 ACGTTTTTGCAAGCTAAAATAGGAGTA 60.041 33.333 15.21 0.00 34.43 2.59
9 10 6.149633 CGTTTTTGCAAGCTAAAATAGGAGT 58.850 36.000 15.21 0.00 34.43 3.85
10 11 6.149633 ACGTTTTTGCAAGCTAAAATAGGAG 58.850 36.000 15.21 8.89 34.43 3.69
11 12 6.016610 AGACGTTTTTGCAAGCTAAAATAGGA 60.017 34.615 15.21 0.00 34.43 2.94
12 13 6.149633 AGACGTTTTTGCAAGCTAAAATAGG 58.850 36.000 15.21 11.07 34.43 2.57
13 14 7.623268 AAGACGTTTTTGCAAGCTAAAATAG 57.377 32.000 15.21 14.27 34.43 1.73
14 15 8.129840 TGTAAGACGTTTTTGCAAGCTAAAATA 58.870 29.630 15.21 3.73 34.43 1.40
15 16 6.975772 TGTAAGACGTTTTTGCAAGCTAAAAT 59.024 30.769 15.21 3.37 34.43 1.82
16 17 6.323266 TGTAAGACGTTTTTGCAAGCTAAAA 58.677 32.000 9.67 9.67 0.00 1.52
17 18 5.881447 TGTAAGACGTTTTTGCAAGCTAAA 58.119 33.333 0.00 0.00 0.00 1.85
18 19 5.487153 TGTAAGACGTTTTTGCAAGCTAA 57.513 34.783 0.00 0.00 0.00 3.09
19 20 5.682943 ATGTAAGACGTTTTTGCAAGCTA 57.317 34.783 0.00 0.00 0.00 3.32
20 21 4.568152 ATGTAAGACGTTTTTGCAAGCT 57.432 36.364 0.00 0.00 0.00 3.74
21 22 6.580791 TCATAATGTAAGACGTTTTTGCAAGC 59.419 34.615 0.00 0.00 0.00 4.01
22 23 8.015087 TCTCATAATGTAAGACGTTTTTGCAAG 58.985 33.333 0.00 0.00 0.00 4.01
23 24 7.866729 TCTCATAATGTAAGACGTTTTTGCAA 58.133 30.769 0.00 0.00 0.00 4.08
24 25 7.428282 TCTCATAATGTAAGACGTTTTTGCA 57.572 32.000 0.00 1.87 0.00 4.08
25 26 7.429340 CCATCTCATAATGTAAGACGTTTTTGC 59.571 37.037 0.00 0.00 0.00 3.68
26 27 8.664798 TCCATCTCATAATGTAAGACGTTTTTG 58.335 33.333 0.00 0.00 0.00 2.44
27 28 8.786826 TCCATCTCATAATGTAAGACGTTTTT 57.213 30.769 0.00 0.00 0.00 1.94
28 29 7.495934 CCTCCATCTCATAATGTAAGACGTTTT 59.504 37.037 0.00 0.00 0.00 2.43
29 30 6.986817 CCTCCATCTCATAATGTAAGACGTTT 59.013 38.462 0.00 0.00 0.00 3.60
30 31 6.463049 CCCTCCATCTCATAATGTAAGACGTT 60.463 42.308 0.00 0.00 0.00 3.99
31 32 5.011125 CCCTCCATCTCATAATGTAAGACGT 59.989 44.000 0.00 0.00 0.00 4.34
32 33 5.243954 TCCCTCCATCTCATAATGTAAGACG 59.756 44.000 0.00 0.00 0.00 4.18
33 34 6.268847 ACTCCCTCCATCTCATAATGTAAGAC 59.731 42.308 0.00 0.00 0.00 3.01
34 35 6.385443 ACTCCCTCCATCTCATAATGTAAGA 58.615 40.000 0.00 0.00 0.00 2.10
35 36 6.678568 ACTCCCTCCATCTCATAATGTAAG 57.321 41.667 0.00 0.00 0.00 2.34
36 37 6.211584 GCTACTCCCTCCATCTCATAATGTAA 59.788 42.308 0.00 0.00 0.00 2.41
37 38 5.717178 GCTACTCCCTCCATCTCATAATGTA 59.283 44.000 0.00 0.00 0.00 2.29
38 39 4.530161 GCTACTCCCTCCATCTCATAATGT 59.470 45.833 0.00 0.00 0.00 2.71
39 40 4.776837 AGCTACTCCCTCCATCTCATAATG 59.223 45.833 0.00 0.00 0.00 1.90
40 41 5.022227 AGCTACTCCCTCCATCTCATAAT 57.978 43.478 0.00 0.00 0.00 1.28
41 42 4.477536 AGCTACTCCCTCCATCTCATAA 57.522 45.455 0.00 0.00 0.00 1.90
42 43 4.477536 AAGCTACTCCCTCCATCTCATA 57.522 45.455 0.00 0.00 0.00 2.15
43 44 3.342926 AAGCTACTCCCTCCATCTCAT 57.657 47.619 0.00 0.00 0.00 2.90
44 45 2.856760 AAGCTACTCCCTCCATCTCA 57.143 50.000 0.00 0.00 0.00 3.27
45 46 5.615925 TTAAAAGCTACTCCCTCCATCTC 57.384 43.478 0.00 0.00 0.00 2.75
46 47 5.489278 AGTTTAAAAGCTACTCCCTCCATCT 59.511 40.000 0.00 0.00 0.00 2.90
47 48 5.746284 AGTTTAAAAGCTACTCCCTCCATC 58.254 41.667 0.00 0.00 0.00 3.51
48 49 5.780958 AGTTTAAAAGCTACTCCCTCCAT 57.219 39.130 0.00 0.00 0.00 3.41
49 50 6.691255 TTAGTTTAAAAGCTACTCCCTCCA 57.309 37.500 0.00 0.00 0.00 3.86
50 51 6.938596 TGTTTAGTTTAAAAGCTACTCCCTCC 59.061 38.462 0.00 0.00 0.00 4.30
51 52 7.876582 TCTGTTTAGTTTAAAAGCTACTCCCTC 59.123 37.037 0.00 0.00 0.00 4.30
52 53 7.742767 TCTGTTTAGTTTAAAAGCTACTCCCT 58.257 34.615 0.00 0.00 0.00 4.20
53 54 7.974482 TCTGTTTAGTTTAAAAGCTACTCCC 57.026 36.000 0.00 0.00 0.00 4.30
54 55 9.827411 CAATCTGTTTAGTTTAAAAGCTACTCC 57.173 33.333 0.00 0.00 0.00 3.85
59 60 9.736023 CTGTTCAATCTGTTTAGTTTAAAAGCT 57.264 29.630 0.00 0.00 0.00 3.74
60 61 9.516314 ACTGTTCAATCTGTTTAGTTTAAAAGC 57.484 29.630 0.00 0.00 0.00 3.51
92 93 6.706270 AGTGGCGATTAGGACTGTATTTTATG 59.294 38.462 0.00 0.00 0.00 1.90
112 113 4.963276 TTCATGCATGTACTTTAGTGGC 57.037 40.909 25.43 0.00 0.00 5.01
151 152 5.927115 GCTATGCTACTACTAAGCCGAAAAT 59.073 40.000 0.00 0.00 39.30 1.82
152 153 5.287226 GCTATGCTACTACTAAGCCGAAAA 58.713 41.667 0.00 0.00 39.30 2.29
154 155 3.058432 CGCTATGCTACTACTAAGCCGAA 60.058 47.826 0.00 0.00 39.30 4.30
155 156 2.483106 CGCTATGCTACTACTAAGCCGA 59.517 50.000 0.00 0.00 39.30 5.54
156 157 2.483106 TCGCTATGCTACTACTAAGCCG 59.517 50.000 0.00 0.00 39.30 5.52
157 158 4.396790 AGATCGCTATGCTACTACTAAGCC 59.603 45.833 0.00 0.00 39.30 4.35
158 159 5.353123 AGAGATCGCTATGCTACTACTAAGC 59.647 44.000 0.00 0.00 40.50 3.09
228 378 9.265862 ACCATCCAAAATTTCTACAAATATCCA 57.734 29.630 0.00 0.00 31.51 3.41
270 420 8.428063 TGAATCAAACAACCATTGTAGGAAAAT 58.572 29.630 0.00 0.00 44.59 1.82
363 513 7.114754 TCAAGAGATTTGAGTGGATGCTATTT 58.885 34.615 0.00 0.00 0.00 1.40
469 620 2.046313 GCAGTGTCGTGCTCATTTTTG 58.954 47.619 0.00 0.00 40.54 2.44
499 650 8.801882 TTCTGAAAACGTAGGAATATGGATTT 57.198 30.769 0.00 0.00 0.00 2.17
500 651 8.980481 ATTCTGAAAACGTAGGAATATGGATT 57.020 30.769 0.00 0.00 0.00 3.01
530 681 5.279106 CCATTTCAGTGCCTCTTTTGATTCA 60.279 40.000 0.00 0.00 0.00 2.57
578 729 1.675641 CCACGGGAAAAGGAGCTGG 60.676 63.158 0.00 0.00 0.00 4.85
579 730 1.675641 CCCACGGGAAAAGGAGCTG 60.676 63.158 0.00 0.00 37.50 4.24
580 731 2.757077 CCCACGGGAAAAGGAGCT 59.243 61.111 0.00 0.00 37.50 4.09
581 732 3.062466 GCCCACGGGAAAAGGAGC 61.062 66.667 6.21 0.00 37.50 4.70
582 733 2.361230 GGCCCACGGGAAAAGGAG 60.361 66.667 6.21 0.00 37.50 3.69
583 734 3.974293 GGGCCCACGGGAAAAGGA 61.974 66.667 19.95 0.00 37.50 3.36
585 736 4.653888 ACGGGCCCACGGGAAAAG 62.654 66.667 24.92 3.98 38.39 2.27
601 752 1.066143 TCCCGCAGAGGATGAAGAAAC 60.066 52.381 0.00 0.00 45.00 2.78
630 781 1.908344 TGCATGGCTCTAGTGCAAAA 58.092 45.000 17.89 4.12 44.99 2.44
654 805 0.537188 CGATGGTGGAGGCTGTTAGT 59.463 55.000 0.00 0.00 0.00 2.24
678 829 0.393537 CTCACTCCATTGGACCAGCC 60.394 60.000 0.00 0.00 37.10 4.85
707 858 5.054477 CGTGTTTTATAGGACGGATGGATT 58.946 41.667 0.00 0.00 0.00 3.01
781 932 1.715931 TGGGTTGGTTGGATGGATTCT 59.284 47.619 0.00 0.00 0.00 2.40
784 935 1.552254 GGTTGGGTTGGTTGGATGGAT 60.552 52.381 0.00 0.00 0.00 3.41
785 936 0.178947 GGTTGGGTTGGTTGGATGGA 60.179 55.000 0.00 0.00 0.00 3.41
786 937 1.191489 GGGTTGGGTTGGTTGGATGG 61.191 60.000 0.00 0.00 0.00 3.51
787 938 0.470833 TGGGTTGGGTTGGTTGGATG 60.471 55.000 0.00 0.00 0.00 3.51
793 944 2.123033 GCCTTGGGTTGGGTTGGT 60.123 61.111 0.00 0.00 0.00 3.67
942 1098 1.672854 CGGTAGCGTCCATTGGAGGA 61.673 60.000 25.67 6.18 39.66 3.71
983 1139 4.501071 CATGGGGTATGGCGTACTTATAC 58.499 47.826 15.98 0.00 33.64 1.47
996 1152 1.929494 TCAAAGGAAGCCATGGGGTAT 59.071 47.619 15.13 0.00 36.17 2.73
1214 1370 1.227943 GCCTGGAACTGTGACTGCA 60.228 57.895 0.00 0.00 0.00 4.41
1332 1488 2.185004 AATAGTTTGCACGAGGCTGT 57.815 45.000 0.00 0.00 45.15 4.40
1591 1747 2.685380 CGCTCCAGGAACTCCCCT 60.685 66.667 0.00 0.00 34.60 4.79
1632 1788 1.381056 AGCTCGACCAGGATCTGCT 60.381 57.895 0.00 0.00 0.00 4.24
1871 2035 5.413833 CCCAGCCAGTCTTATTTATGCATAG 59.586 44.000 6.50 0.00 0.00 2.23
1872 2036 5.073008 TCCCAGCCAGTCTTATTTATGCATA 59.927 40.000 1.16 1.16 0.00 3.14
1886 2050 0.560688 TTTTTCCCTTCCCAGCCAGT 59.439 50.000 0.00 0.00 0.00 4.00
1889 2053 3.382083 TCTATTTTTCCCTTCCCAGCC 57.618 47.619 0.00 0.00 0.00 4.85
1890 2054 4.600062 TCTTCTATTTTTCCCTTCCCAGC 58.400 43.478 0.00 0.00 0.00 4.85
1891 2055 5.196695 CCTCTTCTATTTTTCCCTTCCCAG 58.803 45.833 0.00 0.00 0.00 4.45
1892 2056 4.569865 GCCTCTTCTATTTTTCCCTTCCCA 60.570 45.833 0.00 0.00 0.00 4.37
1894 2058 4.600062 TGCCTCTTCTATTTTTCCCTTCC 58.400 43.478 0.00 0.00 0.00 3.46
1895 2059 6.183360 GGATTGCCTCTTCTATTTTTCCCTTC 60.183 42.308 0.00 0.00 0.00 3.46
1896 2060 5.658634 GGATTGCCTCTTCTATTTTTCCCTT 59.341 40.000 0.00 0.00 0.00 3.95
1899 2063 5.068329 CCAGGATTGCCTCTTCTATTTTTCC 59.932 44.000 0.00 0.00 44.80 3.13
1900 2064 5.654209 ACCAGGATTGCCTCTTCTATTTTTC 59.346 40.000 0.00 0.00 44.80 2.29
1901 2065 5.583932 ACCAGGATTGCCTCTTCTATTTTT 58.416 37.500 0.00 0.00 44.80 1.94
1902 2066 5.198602 ACCAGGATTGCCTCTTCTATTTT 57.801 39.130 0.00 0.00 44.80 1.82
1903 2067 4.870021 ACCAGGATTGCCTCTTCTATTT 57.130 40.909 0.00 0.00 44.80 1.40
1904 2068 4.530875 CAACCAGGATTGCCTCTTCTATT 58.469 43.478 0.00 0.00 44.80 1.73
1905 2069 3.117738 CCAACCAGGATTGCCTCTTCTAT 60.118 47.826 0.00 0.00 44.80 1.98
1906 2070 2.239654 CCAACCAGGATTGCCTCTTCTA 59.760 50.000 0.00 0.00 44.80 2.10
1907 2071 1.005215 CCAACCAGGATTGCCTCTTCT 59.995 52.381 0.00 0.00 44.80 2.85
1910 2094 1.000396 GCCAACCAGGATTGCCTCT 60.000 57.895 0.00 0.00 44.80 3.69
1936 2120 5.725362 AGCTCAACAACTACTGGACTAATC 58.275 41.667 0.00 0.00 0.00 1.75
1956 2140 0.388659 TTTCAATTGCACGCCAAGCT 59.611 45.000 0.00 0.00 36.76 3.74
1958 2142 1.421382 CCTTTCAATTGCACGCCAAG 58.579 50.000 0.00 0.00 36.76 3.61
1995 2179 7.460071 TCTCACCTATACTAAGGGTATCTCAC 58.540 42.308 0.00 0.00 41.32 3.51
1996 2180 7.643612 TCTCACCTATACTAAGGGTATCTCA 57.356 40.000 0.00 0.00 41.32 3.27
1997 2181 7.776500 GGATCTCACCTATACTAAGGGTATCTC 59.224 44.444 0.00 0.00 41.32 2.75
1998 2182 7.466213 AGGATCTCACCTATACTAAGGGTATCT 59.534 40.741 0.00 0.00 41.32 1.98
1999 2183 7.645002 AGGATCTCACCTATACTAAGGGTATC 58.355 42.308 0.00 0.00 41.32 2.24
2000 2184 7.606892 AGGATCTCACCTATACTAAGGGTAT 57.393 40.000 0.00 0.00 41.32 2.73
2001 2185 7.297588 AGAAGGATCTCACCTATACTAAGGGTA 59.702 40.741 0.00 0.00 41.32 3.69
2002 2186 5.952161 AGGATCTCACCTATACTAAGGGT 57.048 43.478 0.00 0.00 41.32 4.34
2003 2187 6.557568 AGAAGGATCTCACCTATACTAAGGG 58.442 44.000 0.00 0.00 41.32 3.95
2004 2188 7.726291 TGAAGAAGGATCTCACCTATACTAAGG 59.274 40.741 0.00 0.00 39.62 2.69
2005 2189 8.698973 TGAAGAAGGATCTCACCTATACTAAG 57.301 38.462 0.00 0.00 39.62 2.18
2006 2190 9.137459 CTTGAAGAAGGATCTCACCTATACTAA 57.863 37.037 0.00 0.00 39.62 2.24
2007 2191 7.231722 GCTTGAAGAAGGATCTCACCTATACTA 59.768 40.741 0.00 0.00 39.62 1.82
2008 2192 6.041523 GCTTGAAGAAGGATCTCACCTATACT 59.958 42.308 0.00 0.00 39.62 2.12
2009 2193 6.220201 GCTTGAAGAAGGATCTCACCTATAC 58.780 44.000 0.00 0.00 39.62 1.47
2010 2194 5.305644 GGCTTGAAGAAGGATCTCACCTATA 59.694 44.000 0.00 0.00 39.62 1.31
2011 2195 4.102367 GGCTTGAAGAAGGATCTCACCTAT 59.898 45.833 0.00 0.00 39.62 2.57
2012 2196 3.452627 GGCTTGAAGAAGGATCTCACCTA 59.547 47.826 0.00 0.00 39.62 3.08
2013 2197 2.238395 GGCTTGAAGAAGGATCTCACCT 59.762 50.000 0.00 0.00 42.69 4.00
2014 2198 2.026822 TGGCTTGAAGAAGGATCTCACC 60.027 50.000 0.00 0.00 33.77 4.02
2015 2199 3.340814 TGGCTTGAAGAAGGATCTCAC 57.659 47.619 0.00 0.00 33.77 3.51
2036 2222 9.587772 GAAGACTAACAATGAATAACTAGCTCA 57.412 33.333 0.00 0.00 0.00 4.26
2066 2252 5.126061 ACACCATTCAATTCCTTGTATGCTC 59.874 40.000 0.93 0.00 38.27 4.26
2125 2319 0.783206 TGTGATGGGGAATGGGTGTT 59.217 50.000 0.00 0.00 0.00 3.32
2185 2379 5.046448 TGGCAAGCCACAAATCAATTTCTAT 60.046 36.000 10.24 0.00 41.89 1.98
2406 2600 3.322466 CAAGTGACCGCCCTCCCT 61.322 66.667 0.00 0.00 0.00 4.20
2454 2648 0.400213 TCCTTGATGGTGTGGTGACC 59.600 55.000 0.00 0.00 37.07 4.02
2469 2663 1.375523 GATGGCGAACACGGTCCTT 60.376 57.895 0.00 0.00 0.00 3.36
2497 2691 2.677836 GGCTTAGCATGTCATCGAACAA 59.322 45.455 6.53 0.00 31.81 2.83
2538 2732 1.076549 ACCACCATCGCCACCATTT 59.923 52.632 0.00 0.00 0.00 2.32
2547 2741 2.341257 CTCAACTTCTCACCACCATCG 58.659 52.381 0.00 0.00 0.00 3.84
2553 2747 3.490439 TTGATGCTCAACTTCTCACCA 57.510 42.857 0.00 0.00 30.26 4.17
2667 2861 4.077108 CAACATACCATGCCATCAGCTAT 58.923 43.478 0.00 0.00 44.23 2.97
2677 2871 1.755179 AGCAGGACAACATACCATGC 58.245 50.000 0.00 0.00 33.72 4.06
2691 2885 1.893808 ACTCGGCACACAAAGCAGG 60.894 57.895 0.00 0.00 0.00 4.85
2702 2896 1.532078 TGTCAGTACCCACTCGGCA 60.532 57.895 0.00 0.00 30.46 5.69
2703 2897 1.215647 CTGTCAGTACCCACTCGGC 59.784 63.158 0.00 0.00 30.46 5.54
2809 3003 4.329638 TTTCAGGCAATGGGATAAGGAA 57.670 40.909 0.00 0.00 0.00 3.36
2831 3025 9.070179 TGTTCAGCATTGCTTATATGTGATAAT 57.930 29.630 8.83 0.00 36.40 1.28
3002 3196 4.277672 GGAACCTTTGGAGTTTTGGTAGAC 59.722 45.833 0.00 0.00 0.00 2.59
3069 3263 2.024871 GCTCCTCGACATCGTCCG 59.975 66.667 0.54 0.00 40.80 4.79
3242 3437 5.023533 TGACAGTAGTGCATAAGGATTCC 57.976 43.478 0.00 0.00 0.00 3.01
3453 3648 8.085909 TGTCAGTACTCGATCATTGAGTTTTAA 58.914 33.333 13.09 0.00 44.00 1.52
3469 3664 5.657474 TGGGATCGTTTAATGTCAGTACTC 58.343 41.667 0.00 0.00 0.00 2.59
3651 3846 3.003171 TGACACCAACAACAATCGTCATG 59.997 43.478 0.00 0.00 0.00 3.07
3697 3892 7.514721 ACTGTACTTGAAGAATACCCTTTGAA 58.485 34.615 0.00 0.00 0.00 2.69
3730 3925 1.002011 GAAGAAGGCACCCTGGGAC 60.002 63.158 22.23 10.97 32.13 4.46
3894 4089 7.272244 TGATGTTTCTGATCGCTATTAGGAAA 58.728 34.615 0.00 0.00 0.00 3.13
3927 4122 4.800023 AGCAAAGTACCTTGTAAAAGGGT 58.200 39.130 16.40 4.56 44.27 4.34
3968 4163 5.934935 GACTCCGTCCACTCATTTAAAAA 57.065 39.130 0.00 0.00 0.00 1.94
4014 4209 9.403110 CCTGCATATAAACATGAATTTAGCTTC 57.597 33.333 0.00 0.00 0.00 3.86
4164 4359 4.329392 TGATGCTGATCAGTTCATGTTGT 58.671 39.130 23.38 0.00 33.40 3.32
4357 4553 7.671302 TCCCTCTGTTCACTATTATAAGATGC 58.329 38.462 0.00 0.00 0.00 3.91
4376 4572 6.158344 ACACTGTAGTAGTATGTACTCCCTCT 59.842 42.308 0.00 0.00 37.60 3.69
4390 4586 5.107824 TCTCTACACGCTACACTGTAGTAG 58.892 45.833 16.08 12.94 43.39 2.57
4406 4602 4.558226 ACACCATCATTGCTTCTCTACA 57.442 40.909 0.00 0.00 0.00 2.74
4486 4682 1.063717 CATGCCAGGTATTCCAGGGTT 60.064 52.381 1.92 0.00 40.26 4.11
4850 5046 2.030274 TGACACGATGACGACAAGTGAT 60.030 45.455 24.36 13.68 42.66 3.06
5055 5251 6.538742 GGCTCTCTGTAAGTACATGCAATTTA 59.461 38.462 0.00 0.00 35.36 1.40
5056 5252 5.355350 GGCTCTCTGTAAGTACATGCAATTT 59.645 40.000 0.00 0.00 35.36 1.82
5057 5253 4.878397 GGCTCTCTGTAAGTACATGCAATT 59.122 41.667 0.00 0.00 35.36 2.32
5058 5254 4.163078 AGGCTCTCTGTAAGTACATGCAAT 59.837 41.667 0.00 0.00 35.36 3.56
5171 5367 3.815401 GAGCTGCCAAAAAGAACAGAGTA 59.185 43.478 0.00 0.00 31.67 2.59
5317 5513 3.004106 CCAGCCTGACAGAGAAGTTTTTG 59.996 47.826 3.32 0.00 0.00 2.44
5430 5626 3.425713 CGTGCTGCAATGACGCCT 61.426 61.111 2.77 0.00 0.00 5.52
5635 5834 7.312899 CAGTACCAATTCTTACATGGAAAACC 58.687 38.462 0.00 0.00 37.66 3.27
5727 5926 3.945285 GGTGGAACAGTCAACAGAAGAAA 59.055 43.478 0.00 0.00 41.80 2.52
5927 6127 2.789409 AGCTTAGTTTAGTGGGCCTG 57.211 50.000 4.53 0.00 0.00 4.85
6055 6255 2.287248 TGATGCGTGCGATTTTGTTGAA 60.287 40.909 0.00 0.00 0.00 2.69
6366 6567 6.208840 TGGAAATTTAGAGGTGTAAACCCT 57.791 37.500 0.00 0.00 34.11 4.34
6418 6619 8.426489 AGTTCTTACCACTGTGTACAATTCTTA 58.574 33.333 7.08 0.00 0.00 2.10
6429 6630 4.260784 GCAAACAGAGTTCTTACCACTGTG 60.261 45.833 0.00 0.00 40.09 3.66
6505 6709 1.060937 GCCATACGACTTGCTTGCG 59.939 57.895 0.00 0.00 0.00 4.85
6510 6714 4.994852 TCCTTTATATGCCATACGACTTGC 59.005 41.667 0.00 0.00 0.00 4.01


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

AutoCloner maintained by Alex Coulton.