Multiple sequence alignment - TraesCS4B01G052900

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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 TraesCS4B01G052900 chr4B 100.000 2577 0 0 1 2577 41742661 41745237 0.000000e+00 4759.0
1 TraesCS4B01G052900 chr4B 91.860 172 11 3 977 1148 609819084 609818916 1.190000e-58 237.0
2 TraesCS4B01G052900 chr4B 87.209 86 5 3 42 121 609506388 609506473 2.730000e-15 93.5
3 TraesCS4B01G052900 chr4D 89.306 1945 127 27 119 2016 29175790 29177700 0.000000e+00 2364.0
4 TraesCS4B01G052900 chr4D 93.269 208 11 1 2370 2577 29178166 29178370 1.160000e-78 303.0
5 TraesCS4B01G052900 chr4D 96.104 77 3 0 2294 2370 29178027 29178103 2.690000e-25 126.0
6 TraesCS4B01G052900 chr4A 88.953 1041 58 31 928 1936 574385353 574384338 0.000000e+00 1232.0
7 TraesCS4B01G052900 chr4A 89.084 797 49 16 124 896 574386126 574385344 0.000000e+00 955.0
8 TraesCS4B01G052900 chr4A 92.647 204 12 1 2370 2570 574383873 574383670 9.020000e-75 291.0
9 TraesCS4B01G052900 chr4A 91.379 174 11 3 969 1142 203470807 203470976 4.290000e-58 235.0
10 TraesCS4B01G052900 chr4A 95.946 74 3 0 2297 2370 574384009 574383936 1.250000e-23 121.0
11 TraesCS4B01G052900 chr2D 94.253 174 5 3 969 1142 283963794 283963962 7.070000e-66 261.0
12 TraesCS4B01G052900 chr5B 94.186 172 7 1 977 1148 691533840 691533672 2.540000e-65 259.0
13 TraesCS4B01G052900 chr5B 92.655 177 10 1 972 1148 499900170 499899997 4.260000e-63 252.0
14 TraesCS4B01G052900 chr3B 93.220 177 9 1 972 1148 811659087 811658914 9.150000e-65 257.0
15 TraesCS4B01G052900 chr1A 93.567 171 8 1 969 1139 481247731 481247898 4.260000e-63 252.0
16 TraesCS4B01G052900 chr1A 87.805 82 7 3 49 128 24618423 24618503 2.730000e-15 93.5
17 TraesCS4B01G052900 chr7B 86.697 218 24 3 1362 1575 677538443 677538227 1.190000e-58 237.0
18 TraesCS4B01G052900 chr7B 84.018 219 28 4 1362 1575 677667653 677667437 1.210000e-48 204.0
19 TraesCS4B01G052900 chr7A 85.845 219 24 4 1362 1575 690918206 690917990 2.580000e-55 226.0
20 TraesCS4B01G052900 chr7A 85.845 219 24 4 1362 1575 690929976 690929760 2.580000e-55 226.0
21 TraesCS4B01G052900 chr7D 84.332 217 27 4 1362 1573 598485345 598485131 3.360000e-49 206.0
22 TraesCS4B01G052900 chr7D 84.332 217 27 4 1362 1573 598496770 598496556 3.360000e-49 206.0
23 TraesCS4B01G052900 chr7D 88.462 78 6 2 48 125 8066177 8066251 9.820000e-15 91.6
24 TraesCS4B01G052900 chr1B 84.483 174 23 3 1365 1536 514817899 514817728 4.410000e-38 169.0
25 TraesCS4B01G052900 chr1B 82.796 186 28 3 1353 1536 28626461 28626644 2.050000e-36 163.0
26 TraesCS4B01G052900 chr1D 83.152 184 27 3 1355 1536 383760185 383760004 5.700000e-37 165.0
27 TraesCS4B01G052900 chr2B 93.243 74 2 1 49 122 99269994 99270064 3.510000e-19 106.0
28 TraesCS4B01G052900 chr6D 91.781 73 4 1 49 121 259292289 259292219 1.630000e-17 100.0
29 TraesCS4B01G052900 chr3A 89.873 79 7 1 48 125 697785784 697785706 1.630000e-17 100.0
30 TraesCS4B01G052900 chr3A 87.952 83 8 2 48 128 697785709 697785791 2.110000e-16 97.1
31 TraesCS4B01G052900 chr6B 88.750 80 6 3 44 121 657250028 657249950 7.590000e-16 95.3
32 TraesCS4B01G052900 chr5D 88.312 77 7 1 46 122 505395802 505395728 9.820000e-15 91.6


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 TraesCS4B01G052900 chr4B 41742661 41745237 2576 False 4759.00 4759 100.0000 1 2577 1 chr4B.!!$F1 2576
1 TraesCS4B01G052900 chr4D 29175790 29178370 2580 False 931.00 2364 92.8930 119 2577 3 chr4D.!!$F1 2458
2 TraesCS4B01G052900 chr4A 574383670 574386126 2456 True 649.75 1232 91.6575 124 2570 4 chr4A.!!$R1 2446

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
65 66 0.186873 GGTACTCCCTCCGTCCCATA 59.813 60.0 0.0 0.0 0.0 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2040 2116 0.179234 TCAGTTCTTCGTGGTGGCAA 59.821 50.0 0.0 0.0 0.0 4.52 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
25 26 8.970691 CAAGTTTCCTTTACCTGTTATTGATG 57.029 34.615 0.00 0.00 0.00 3.07
26 27 8.792633 CAAGTTTCCTTTACCTGTTATTGATGA 58.207 33.333 0.00 0.00 0.00 2.92
27 28 8.934023 AGTTTCCTTTACCTGTTATTGATGAA 57.066 30.769 0.00 0.00 0.00 2.57
28 29 8.793592 AGTTTCCTTTACCTGTTATTGATGAAC 58.206 33.333 0.00 0.00 0.00 3.18
29 30 8.793592 GTTTCCTTTACCTGTTATTGATGAACT 58.206 33.333 0.00 0.00 0.00 3.01
30 31 8.561738 TTCCTTTACCTGTTATTGATGAACTC 57.438 34.615 0.00 0.00 0.00 3.01
31 32 7.918076 TCCTTTACCTGTTATTGATGAACTCT 58.082 34.615 0.00 0.00 0.00 3.24
32 33 8.383175 TCCTTTACCTGTTATTGATGAACTCTT 58.617 33.333 0.00 0.00 0.00 2.85
33 34 8.454106 CCTTTACCTGTTATTGATGAACTCTTG 58.546 37.037 0.00 0.00 0.00 3.02
34 35 7.921786 TTACCTGTTATTGATGAACTCTTGG 57.078 36.000 0.00 0.00 0.00 3.61
35 36 6.126863 ACCTGTTATTGATGAACTCTTGGA 57.873 37.500 0.00 0.00 0.00 3.53
36 37 6.725364 ACCTGTTATTGATGAACTCTTGGAT 58.275 36.000 0.00 0.00 0.00 3.41
37 38 6.600822 ACCTGTTATTGATGAACTCTTGGATG 59.399 38.462 0.00 0.00 0.00 3.51
38 39 6.825213 CCTGTTATTGATGAACTCTTGGATGA 59.175 38.462 0.00 0.00 0.00 2.92
39 40 7.337689 CCTGTTATTGATGAACTCTTGGATGAA 59.662 37.037 0.00 0.00 0.00 2.57
40 41 8.812513 TGTTATTGATGAACTCTTGGATGAAT 57.187 30.769 0.00 0.00 0.00 2.57
41 42 9.246670 TGTTATTGATGAACTCTTGGATGAATT 57.753 29.630 0.00 0.00 0.00 2.17
42 43 9.512435 GTTATTGATGAACTCTTGGATGAATTG 57.488 33.333 0.00 0.00 0.00 2.32
43 44 6.519679 TTGATGAACTCTTGGATGAATTGG 57.480 37.500 0.00 0.00 0.00 3.16
44 45 5.573219 TGATGAACTCTTGGATGAATTGGT 58.427 37.500 0.00 0.00 0.00 3.67
45 46 6.720309 TGATGAACTCTTGGATGAATTGGTA 58.280 36.000 0.00 0.00 0.00 3.25
46 47 6.825213 TGATGAACTCTTGGATGAATTGGTAG 59.175 38.462 0.00 0.00 0.00 3.18
47 48 5.500234 TGAACTCTTGGATGAATTGGTAGG 58.500 41.667 0.00 0.00 0.00 3.18
48 49 5.014123 TGAACTCTTGGATGAATTGGTAGGT 59.986 40.000 0.00 0.00 0.00 3.08
49 50 6.214615 TGAACTCTTGGATGAATTGGTAGGTA 59.785 38.462 0.00 0.00 0.00 3.08
50 51 5.990668 ACTCTTGGATGAATTGGTAGGTAC 58.009 41.667 0.00 0.00 0.00 3.34
51 52 5.726793 ACTCTTGGATGAATTGGTAGGTACT 59.273 40.000 0.00 0.00 46.37 2.73
52 53 6.127026 ACTCTTGGATGAATTGGTAGGTACTC 60.127 42.308 0.00 0.00 41.75 2.59
53 54 5.130477 TCTTGGATGAATTGGTAGGTACTCC 59.870 44.000 0.00 0.00 41.75 3.85
54 55 3.714798 TGGATGAATTGGTAGGTACTCCC 59.285 47.826 0.00 0.00 41.75 4.30
56 57 4.040584 GGATGAATTGGTAGGTACTCCCTC 59.959 50.000 0.00 0.00 44.81 4.30
57 58 3.381335 TGAATTGGTAGGTACTCCCTCC 58.619 50.000 0.00 0.00 44.81 4.30
58 59 2.083628 ATTGGTAGGTACTCCCTCCG 57.916 55.000 0.00 0.00 44.81 4.63
59 60 0.706433 TTGGTAGGTACTCCCTCCGT 59.294 55.000 0.00 0.00 44.81 4.69
60 61 0.257039 TGGTAGGTACTCCCTCCGTC 59.743 60.000 0.00 0.00 44.81 4.79
61 62 0.467106 GGTAGGTACTCCCTCCGTCC 60.467 65.000 0.00 0.00 44.81 4.79
62 63 0.467106 GTAGGTACTCCCTCCGTCCC 60.467 65.000 0.00 0.00 44.81 4.46
63 64 0.920763 TAGGTACTCCCTCCGTCCCA 60.921 60.000 0.00 0.00 44.81 4.37
64 65 1.075450 GGTACTCCCTCCGTCCCAT 60.075 63.158 0.00 0.00 0.00 4.00
65 66 0.186873 GGTACTCCCTCCGTCCCATA 59.813 60.000 0.00 0.00 0.00 2.74
66 67 1.412074 GGTACTCCCTCCGTCCCATAA 60.412 57.143 0.00 0.00 0.00 1.90
67 68 2.606378 GTACTCCCTCCGTCCCATAAT 58.394 52.381 0.00 0.00 0.00 1.28
68 69 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
69 70 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
70 71 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
71 72 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
72 73 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
73 74 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
74 75 3.583086 CCCTCCGTCCCATAATGTAAGAT 59.417 47.826 0.00 0.00 0.00 2.40
75 76 4.563580 CCCTCCGTCCCATAATGTAAGATG 60.564 50.000 0.00 0.00 0.00 2.90
76 77 4.040461 CCTCCGTCCCATAATGTAAGATGT 59.960 45.833 0.00 0.00 0.00 3.06
77 78 5.454755 CCTCCGTCCCATAATGTAAGATGTT 60.455 44.000 0.00 0.00 0.00 2.71
78 79 5.996644 TCCGTCCCATAATGTAAGATGTTT 58.003 37.500 0.00 0.00 0.00 2.83
79 80 6.419791 TCCGTCCCATAATGTAAGATGTTTT 58.580 36.000 0.00 0.00 0.00 2.43
80 81 6.887545 TCCGTCCCATAATGTAAGATGTTTTT 59.112 34.615 0.00 0.00 0.00 1.94
112 113 7.611213 AAAAAGGTCTTACATTATGAGACGG 57.389 36.000 0.00 0.00 43.37 4.79
113 114 6.540438 AAAGGTCTTACATTATGAGACGGA 57.460 37.500 0.00 0.00 43.37 4.69
114 115 5.776173 AGGTCTTACATTATGAGACGGAG 57.224 43.478 0.00 0.00 43.37 4.63
115 116 4.585162 AGGTCTTACATTATGAGACGGAGG 59.415 45.833 0.00 0.00 43.37 4.30
116 117 4.262079 GGTCTTACATTATGAGACGGAGGG 60.262 50.000 0.00 0.00 43.37 4.30
117 118 4.583489 GTCTTACATTATGAGACGGAGGGA 59.417 45.833 0.00 0.00 34.53 4.20
141 142 7.175119 GGAGTACATCCTAGTTTTCAAAGCTTT 59.825 37.037 5.69 5.69 45.64 3.51
168 169 4.263462 TGTGAGCAGGTTACCATCAGATTT 60.263 41.667 3.51 0.00 0.00 2.17
182 183 1.005924 CAGATTTGGTTGGCCCTAGGT 59.994 52.381 8.29 0.00 0.00 3.08
190 191 1.066071 GTTGGCCCTAGGTGAAGAGTC 60.066 57.143 8.29 0.00 0.00 3.36
239 241 1.726853 CCACTCGAGTTCAATGTCCC 58.273 55.000 17.26 0.00 0.00 4.46
264 266 2.100631 CGGTTAACAGGCGCTCCAG 61.101 63.158 7.64 0.00 33.74 3.86
301 303 5.637810 CAGTTATTTGGAGATGTACACGTGT 59.362 40.000 26.52 26.52 0.00 4.49
381 383 7.201702 TGTAACAAGGGTTCATCCATGTATA 57.798 36.000 0.00 0.00 36.99 1.47
406 409 3.139077 CGTATAGTTTGCCCAATCTCCC 58.861 50.000 0.00 0.00 0.00 4.30
412 415 0.486879 TTGCCCAATCTCCCTGGTTT 59.513 50.000 0.00 0.00 31.45 3.27
418 421 2.622436 CAATCTCCCTGGTTTCGACTC 58.378 52.381 0.00 0.00 0.00 3.36
430 433 3.467119 CGACTCCGCCGTTTGACG 61.467 66.667 0.00 0.00 42.11 4.35
441 447 3.181514 CGCCGTTTGACGATCCTAAATTT 60.182 43.478 1.51 0.00 46.05 1.82
499 505 1.745087 AGCTATGCAACACCAAATCGG 59.255 47.619 0.00 0.00 42.50 4.18
516 522 0.719465 CGGCACCATCAGTTTCGTAC 59.281 55.000 0.00 0.00 0.00 3.67
611 631 3.935828 GGCAACAAGATCTGAACTAGTCC 59.064 47.826 0.00 0.00 0.00 3.85
666 686 8.124823 CACGTGATACATTCTTTTTCATGCTAT 58.875 33.333 10.90 0.00 0.00 2.97
667 687 9.325198 ACGTGATACATTCTTTTTCATGCTATA 57.675 29.630 0.00 0.00 0.00 1.31
728 748 8.352942 CAGCCTCCATATAACCAGTTATTTTTC 58.647 37.037 8.27 0.00 37.07 2.29
729 749 7.505923 AGCCTCCATATAACCAGTTATTTTTCC 59.494 37.037 8.27 0.00 37.07 3.13
730 750 7.521585 GCCTCCATATAACCAGTTATTTTTCCG 60.522 40.741 8.27 0.00 37.07 4.30
731 751 7.501225 CCTCCATATAACCAGTTATTTTTCCGT 59.499 37.037 8.27 0.00 37.07 4.69
879 908 2.598787 CCTCGCACCCCAACCCTAA 61.599 63.158 0.00 0.00 0.00 2.69
974 1003 2.233922 CGAGAGGGTTTAGAAGCTTCCA 59.766 50.000 22.81 6.67 35.83 3.53
1017 1047 1.596934 GATGAGTTCCACCGGAGCA 59.403 57.895 9.46 0.00 35.33 4.26
1297 1341 1.186623 GATCGTTCGTTCGTTATCCGC 59.813 52.381 2.67 0.00 36.19 5.54
1324 1373 3.243068 CGAATCGGATTGGGGTTTGATTC 60.243 47.826 8.18 3.34 38.71 2.52
1328 1377 2.033299 CGGATTGGGGTTTGATTCGATG 59.967 50.000 0.00 0.00 0.00 3.84
1335 1384 2.159435 GGGTTTGATTCGATGGTTTCCG 60.159 50.000 0.00 0.00 0.00 4.30
1339 1388 2.773487 TGATTCGATGGTTTCCGTTGT 58.227 42.857 0.00 0.00 0.00 3.32
1342 1391 0.314618 TCGATGGTTTCCGTTGTCGA 59.685 50.000 0.00 0.00 39.71 4.20
1343 1392 1.067425 TCGATGGTTTCCGTTGTCGAT 60.067 47.619 0.00 0.00 39.71 3.59
1344 1393 1.730064 CGATGGTTTCCGTTGTCGATT 59.270 47.619 0.00 0.00 39.71 3.34
1348 1397 2.482336 TGGTTTCCGTTGTCGATTGATG 59.518 45.455 0.00 0.00 39.71 3.07
1579 1628 1.153667 CTCGCAGGAGTTCTGAGCC 60.154 63.158 1.33 0.00 46.18 4.70
1604 1653 1.746991 GCTTCAAGGCGAGGAAGGG 60.747 63.158 14.53 0.00 40.61 3.95
1718 1787 2.509052 TCAACTCTGTCGTGGTTGAG 57.491 50.000 0.00 0.00 42.56 3.02
1748 1817 2.414806 CGATCGATCGGTAGAAGAGGA 58.585 52.381 34.54 0.00 45.93 3.71
1753 1822 2.224329 CGATCGGTAGAAGAGGAGAGGA 60.224 54.545 7.38 0.00 0.00 3.71
1793 1862 9.719355 ATGTGGTTTCTTATATGCGAACATATA 57.281 29.630 2.41 2.41 45.67 0.86
1794 1863 9.719355 TGTGGTTTCTTATATGCGAACATATAT 57.281 29.630 6.60 0.00 46.30 0.86
1857 1928 8.164153 GGTTGTTTGAATGATTGAATGAATTCG 58.836 33.333 0.04 0.00 39.62 3.34
1933 2004 2.078392 TCTCGCCGTGGAAATAAAACC 58.922 47.619 0.00 0.00 0.00 3.27
1948 2019 1.198759 AAACCGCTCCTCTTAGCCCA 61.199 55.000 0.00 0.00 39.43 5.36
1956 2027 1.628846 TCCTCTTAGCCCAGTGGAAAC 59.371 52.381 11.95 0.00 34.22 2.78
1982 2053 3.273919 AGCATCAAACGCTGTTCTTTC 57.726 42.857 0.00 0.00 38.60 2.62
1983 2054 2.618241 AGCATCAAACGCTGTTCTTTCA 59.382 40.909 0.00 0.00 38.60 2.69
1984 2055 2.975851 GCATCAAACGCTGTTCTTTCAG 59.024 45.455 0.00 0.00 38.35 3.02
1985 2056 3.558505 CATCAAACGCTGTTCTTTCAGG 58.441 45.455 0.00 0.00 36.12 3.86
1986 2057 1.333619 TCAAACGCTGTTCTTTCAGGC 59.666 47.619 0.00 0.00 36.12 4.85
1989 2060 0.320771 ACGCTGTTCTTTCAGGCGAT 60.321 50.000 12.37 0.00 37.88 4.58
1990 2061 0.798776 CGCTGTTCTTTCAGGCGATT 59.201 50.000 0.00 0.00 37.24 3.34
1991 2062 1.464687 CGCTGTTCTTTCAGGCGATTG 60.465 52.381 0.00 0.00 37.24 2.67
2016 2092 7.715249 TGAACATAACTCTTAAGTTGCAGAAGT 59.285 33.333 1.63 0.00 45.37 3.01
2018 2094 9.555727 AACATAACTCTTAAGTTGCAGAAGTTA 57.444 29.630 11.08 11.08 45.37 2.24
2030 2106 9.732130 AAGTTGCAGAAGTTAATTATCTCTCTT 57.268 29.630 0.00 0.00 0.00 2.85
2031 2107 9.160496 AGTTGCAGAAGTTAATTATCTCTCTTG 57.840 33.333 0.00 0.00 0.00 3.02
2032 2108 9.155975 GTTGCAGAAGTTAATTATCTCTCTTGA 57.844 33.333 0.00 0.00 0.00 3.02
2033 2109 9.896645 TTGCAGAAGTTAATTATCTCTCTTGAT 57.103 29.630 0.00 0.00 0.00 2.57
2047 2123 7.807977 TCTCTCTTGATATTATTTTGCCACC 57.192 36.000 0.00 0.00 0.00 4.61
2048 2124 7.345691 TCTCTCTTGATATTATTTTGCCACCA 58.654 34.615 0.00 0.00 0.00 4.17
2049 2125 7.283127 TCTCTCTTGATATTATTTTGCCACCAC 59.717 37.037 0.00 0.00 0.00 4.16
2050 2126 6.038161 TCTCTTGATATTATTTTGCCACCACG 59.962 38.462 0.00 0.00 0.00 4.94
2051 2127 5.883115 TCTTGATATTATTTTGCCACCACGA 59.117 36.000 0.00 0.00 0.00 4.35
2052 2128 6.375736 TCTTGATATTATTTTGCCACCACGAA 59.624 34.615 0.00 0.00 0.00 3.85
2053 2129 6.130298 TGATATTATTTTGCCACCACGAAG 57.870 37.500 0.00 0.00 0.00 3.79
2054 2130 5.883115 TGATATTATTTTGCCACCACGAAGA 59.117 36.000 0.00 0.00 0.00 2.87
2055 2131 6.375736 TGATATTATTTTGCCACCACGAAGAA 59.624 34.615 0.00 0.00 0.00 2.52
2056 2132 2.793278 ATTTTGCCACCACGAAGAAC 57.207 45.000 0.00 0.00 0.00 3.01
2057 2133 1.757682 TTTTGCCACCACGAAGAACT 58.242 45.000 0.00 0.00 0.00 3.01
2058 2134 1.021202 TTTGCCACCACGAAGAACTG 58.979 50.000 0.00 0.00 0.00 3.16
2059 2135 0.179234 TTGCCACCACGAAGAACTGA 59.821 50.000 0.00 0.00 0.00 3.41
2060 2136 0.396435 TGCCACCACGAAGAACTGAT 59.604 50.000 0.00 0.00 0.00 2.90
2061 2137 1.202758 TGCCACCACGAAGAACTGATT 60.203 47.619 0.00 0.00 0.00 2.57
2062 2138 1.880027 GCCACCACGAAGAACTGATTT 59.120 47.619 0.00 0.00 0.00 2.17
2063 2139 2.095718 GCCACCACGAAGAACTGATTTC 60.096 50.000 0.00 0.00 33.95 2.17
2064 2140 3.138304 CCACCACGAAGAACTGATTTCA 58.862 45.455 0.00 0.00 36.57 2.69
2065 2141 3.058914 CCACCACGAAGAACTGATTTCAC 60.059 47.826 0.00 0.00 36.57 3.18
2066 2142 3.058914 CACCACGAAGAACTGATTTCACC 60.059 47.826 0.00 0.00 36.57 4.02
2067 2143 3.138304 CCACGAAGAACTGATTTCACCA 58.862 45.455 0.00 0.00 36.57 4.17
2068 2144 3.753272 CCACGAAGAACTGATTTCACCAT 59.247 43.478 0.00 0.00 36.57 3.55
2069 2145 4.216257 CCACGAAGAACTGATTTCACCATT 59.784 41.667 0.00 0.00 36.57 3.16
2070 2146 5.149273 CACGAAGAACTGATTTCACCATTG 58.851 41.667 0.00 0.00 36.57 2.82
2071 2147 5.049474 CACGAAGAACTGATTTCACCATTGA 60.049 40.000 0.00 0.00 36.57 2.57
2072 2148 5.180117 ACGAAGAACTGATTTCACCATTGAG 59.820 40.000 0.00 0.00 36.57 3.02
2073 2149 5.409520 CGAAGAACTGATTTCACCATTGAGA 59.590 40.000 0.00 0.00 36.57 3.27
2074 2150 6.073058 CGAAGAACTGATTTCACCATTGAGAA 60.073 38.462 0.00 0.00 36.57 2.87
2075 2151 7.361542 CGAAGAACTGATTTCACCATTGAGAAT 60.362 37.037 0.00 0.00 36.57 2.40
2076 2152 7.154435 AGAACTGATTTCACCATTGAGAATG 57.846 36.000 0.00 0.00 36.57 2.67
2077 2153 6.152323 AGAACTGATTTCACCATTGAGAATGG 59.848 38.462 12.84 12.84 46.40 3.16
2078 2154 8.716185 AGAACTGATTTCACCATTGAGAATGGG 61.716 40.741 17.58 8.34 45.86 4.00
2088 2164 5.648178 CATTGAGAATGGGATTGTTGTGA 57.352 39.130 0.00 0.00 35.23 3.58
2089 2165 6.216801 CATTGAGAATGGGATTGTTGTGAT 57.783 37.500 0.00 0.00 35.23 3.06
2090 2166 5.648178 TTGAGAATGGGATTGTTGTGATG 57.352 39.130 0.00 0.00 0.00 3.07
2099 2175 6.425735 TGGGATTGTTGTGATGTCTGATTAT 58.574 36.000 0.00 0.00 0.00 1.28
2167 2257 4.075763 GCAACTGCAGTGTCTGAATTAG 57.924 45.455 22.49 1.88 41.59 1.73
2168 2258 3.669023 GCAACTGCAGTGTCTGAATTAGC 60.669 47.826 22.49 8.03 41.59 3.09
2169 2259 2.704572 ACTGCAGTGTCTGAATTAGCC 58.295 47.619 20.97 0.00 32.44 3.93
2170 2260 2.012673 CTGCAGTGTCTGAATTAGCCC 58.987 52.381 5.25 0.00 32.44 5.19
2171 2261 1.340017 TGCAGTGTCTGAATTAGCCCC 60.340 52.381 0.66 0.00 32.44 5.80
2172 2262 2.019156 GCAGTGTCTGAATTAGCCCCC 61.019 57.143 0.66 0.00 32.44 5.40
2197 2287 5.435291 CCCCCTGAATATATCTCTGATTGC 58.565 45.833 0.00 0.00 0.00 3.56
2199 2289 6.114089 CCCCTGAATATATCTCTGATTGCTG 58.886 44.000 0.00 0.00 0.00 4.41
2201 2291 6.296317 CCCTGAATATATCTCTGATTGCTGGT 60.296 42.308 0.00 0.00 0.00 4.00
2202 2292 7.093156 CCCTGAATATATCTCTGATTGCTGGTA 60.093 40.741 0.00 0.00 0.00 3.25
2203 2293 8.316946 CCTGAATATATCTCTGATTGCTGGTAA 58.683 37.037 0.00 0.00 0.00 2.85
2210 2300 6.515272 TCTCTGATTGCTGGTAATTTTTCC 57.485 37.500 0.00 0.00 0.00 3.13
2211 2301 6.009589 TCTCTGATTGCTGGTAATTTTTCCA 58.990 36.000 0.00 0.00 0.00 3.53
2212 2302 6.493115 TCTCTGATTGCTGGTAATTTTTCCAA 59.507 34.615 0.00 0.00 33.06 3.53
2213 2303 6.690530 TCTGATTGCTGGTAATTTTTCCAAG 58.309 36.000 0.00 0.00 33.06 3.61
2214 2304 6.493115 TCTGATTGCTGGTAATTTTTCCAAGA 59.507 34.615 0.00 0.00 33.06 3.02
2250 2382 4.766404 AGTTTGGTTTGATCATCCGAAC 57.234 40.909 26.61 26.61 42.65 3.95
2271 2403 3.738745 ATGAATTCCCAGGGGCGGC 62.739 63.158 5.33 0.00 34.68 6.53
2280 2412 2.609610 AGGGGCGGCCTAGTTTCA 60.610 61.111 28.80 0.00 0.00 2.69
2281 2413 2.228480 AGGGGCGGCCTAGTTTCAA 61.228 57.895 28.80 0.00 0.00 2.69
2295 2495 9.561069 GGCCTAGTTTCAAGAATCTGATTATTA 57.439 33.333 9.68 0.00 0.00 0.98
2308 2508 7.825331 ATCTGATTATTACTCTTCGTCCAGA 57.175 36.000 0.00 0.00 0.00 3.86
2319 2519 3.005897 TCTTCGTCCAGAGGAAACAGAAG 59.994 47.826 4.53 11.93 35.18 2.85
2372 2635 3.726557 TGTTCTTGGCATTCTCTCCAT 57.273 42.857 0.00 0.00 31.54 3.41
2390 2653 3.578282 TCCATTGACTTCTGTGCTAGTGA 59.422 43.478 0.00 0.00 0.00 3.41
2427 2690 5.111989 TCACCATTCGATTCTTCTCATCAC 58.888 41.667 0.00 0.00 0.00 3.06
2435 2698 8.601845 TTCGATTCTTCTCATCACAGTAAAAA 57.398 30.769 0.00 0.00 0.00 1.94
2492 2758 7.161773 ACAAAAATGCTATACATCAACAGCT 57.838 32.000 0.00 0.00 38.34 4.24
2531 2797 6.774673 TGAATTACACACCCTGATCAGTAAA 58.225 36.000 21.11 5.28 0.00 2.01
2555 2821 0.659417 CAACTTGCTTGCTGCTCGTG 60.659 55.000 0.00 0.00 43.37 4.35
2570 2836 2.028523 GCTCGTGAAGTGTTGATCGATG 59.971 50.000 0.54 0.00 0.00 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 8.793592 AGTTCATCAATAACAGGTAAAGGAAAC 58.206 33.333 0.00 0.00 0.00 2.78
4 5 8.934023 AGTTCATCAATAACAGGTAAAGGAAA 57.066 30.769 0.00 0.00 0.00 3.13
5 6 8.383175 AGAGTTCATCAATAACAGGTAAAGGAA 58.617 33.333 0.00 0.00 0.00 3.36
6 7 7.918076 AGAGTTCATCAATAACAGGTAAAGGA 58.082 34.615 0.00 0.00 0.00 3.36
7 8 8.454106 CAAGAGTTCATCAATAACAGGTAAAGG 58.546 37.037 0.00 0.00 0.00 3.11
8 9 8.454106 CCAAGAGTTCATCAATAACAGGTAAAG 58.546 37.037 0.00 0.00 0.00 1.85
9 10 8.160765 TCCAAGAGTTCATCAATAACAGGTAAA 58.839 33.333 0.00 0.00 0.00 2.01
10 11 7.685481 TCCAAGAGTTCATCAATAACAGGTAA 58.315 34.615 0.00 0.00 0.00 2.85
11 12 7.252612 TCCAAGAGTTCATCAATAACAGGTA 57.747 36.000 0.00 0.00 0.00 3.08
12 13 6.126863 TCCAAGAGTTCATCAATAACAGGT 57.873 37.500 0.00 0.00 0.00 4.00
13 14 6.825213 TCATCCAAGAGTTCATCAATAACAGG 59.175 38.462 0.00 0.00 0.00 4.00
14 15 7.854557 TCATCCAAGAGTTCATCAATAACAG 57.145 36.000 0.00 0.00 0.00 3.16
15 16 8.812513 ATTCATCCAAGAGTTCATCAATAACA 57.187 30.769 0.00 0.00 0.00 2.41
16 17 9.512435 CAATTCATCCAAGAGTTCATCAATAAC 57.488 33.333 0.00 0.00 0.00 1.89
17 18 8.689061 CCAATTCATCCAAGAGTTCATCAATAA 58.311 33.333 0.00 0.00 0.00 1.40
18 19 7.835682 ACCAATTCATCCAAGAGTTCATCAATA 59.164 33.333 0.00 0.00 0.00 1.90
19 20 6.666546 ACCAATTCATCCAAGAGTTCATCAAT 59.333 34.615 0.00 0.00 0.00 2.57
20 21 6.012113 ACCAATTCATCCAAGAGTTCATCAA 58.988 36.000 0.00 0.00 0.00 2.57
21 22 5.573219 ACCAATTCATCCAAGAGTTCATCA 58.427 37.500 0.00 0.00 0.00 3.07
22 23 6.261826 CCTACCAATTCATCCAAGAGTTCATC 59.738 42.308 0.00 0.00 0.00 2.92
23 24 6.125029 CCTACCAATTCATCCAAGAGTTCAT 58.875 40.000 0.00 0.00 0.00 2.57
24 25 5.014123 ACCTACCAATTCATCCAAGAGTTCA 59.986 40.000 0.00 0.00 0.00 3.18
25 26 5.501156 ACCTACCAATTCATCCAAGAGTTC 58.499 41.667 0.00 0.00 0.00 3.01
26 27 5.520748 ACCTACCAATTCATCCAAGAGTT 57.479 39.130 0.00 0.00 0.00 3.01
27 28 5.726793 AGTACCTACCAATTCATCCAAGAGT 59.273 40.000 0.00 0.00 0.00 3.24
28 29 6.240549 AGTACCTACCAATTCATCCAAGAG 57.759 41.667 0.00 0.00 0.00 2.85
29 30 5.130477 GGAGTACCTACCAATTCATCCAAGA 59.870 44.000 0.00 0.00 0.00 3.02
30 31 5.368989 GGAGTACCTACCAATTCATCCAAG 58.631 45.833 0.00 0.00 0.00 3.61
31 32 4.165372 GGGAGTACCTACCAATTCATCCAA 59.835 45.833 0.00 0.00 33.84 3.53
32 33 3.714798 GGGAGTACCTACCAATTCATCCA 59.285 47.826 0.00 0.00 33.84 3.41
33 34 4.353383 GGGAGTACCTACCAATTCATCC 57.647 50.000 0.00 0.00 33.84 3.51
46 47 0.186873 TATGGGACGGAGGGAGTACC 59.813 60.000 0.00 0.00 42.94 3.34
47 48 2.077687 TTATGGGACGGAGGGAGTAC 57.922 55.000 0.00 0.00 0.00 2.73
48 49 2.090943 ACATTATGGGACGGAGGGAGTA 60.091 50.000 0.00 0.00 0.00 2.59
49 50 1.344087 ACATTATGGGACGGAGGGAGT 60.344 52.381 0.00 0.00 0.00 3.85
50 51 1.424638 ACATTATGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
51 52 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
52 53 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
53 54 4.040461 ACATCTTACATTATGGGACGGAGG 59.960 45.833 0.00 0.00 0.00 4.30
54 55 5.215252 ACATCTTACATTATGGGACGGAG 57.785 43.478 0.00 0.00 0.00 4.63
55 56 5.623956 AACATCTTACATTATGGGACGGA 57.376 39.130 0.00 0.00 0.00 4.69
56 57 6.693315 AAAACATCTTACATTATGGGACGG 57.307 37.500 0.00 0.00 0.00 4.79
88 89 7.391620 TCCGTCTCATAATGTAAGACCTTTTT 58.608 34.615 0.00 0.00 36.84 1.94
89 90 6.942976 TCCGTCTCATAATGTAAGACCTTTT 58.057 36.000 0.00 0.00 36.84 2.27
90 91 6.407074 CCTCCGTCTCATAATGTAAGACCTTT 60.407 42.308 0.00 0.00 36.84 3.11
91 92 5.069251 CCTCCGTCTCATAATGTAAGACCTT 59.931 44.000 0.00 0.00 36.84 3.50
92 93 4.585162 CCTCCGTCTCATAATGTAAGACCT 59.415 45.833 0.00 0.00 36.84 3.85
93 94 4.262079 CCCTCCGTCTCATAATGTAAGACC 60.262 50.000 0.00 0.00 36.84 3.85
94 95 4.583489 TCCCTCCGTCTCATAATGTAAGAC 59.417 45.833 0.00 0.00 36.82 3.01
95 96 4.800023 TCCCTCCGTCTCATAATGTAAGA 58.200 43.478 0.00 0.00 0.00 2.10
96 97 4.585162 ACTCCCTCCGTCTCATAATGTAAG 59.415 45.833 0.00 0.00 0.00 2.34
97 98 4.543689 ACTCCCTCCGTCTCATAATGTAA 58.456 43.478 0.00 0.00 0.00 2.41
98 99 4.180377 ACTCCCTCCGTCTCATAATGTA 57.820 45.455 0.00 0.00 0.00 2.29
99 100 3.033659 ACTCCCTCCGTCTCATAATGT 57.966 47.619 0.00 0.00 0.00 2.71
100 101 3.889538 TGTACTCCCTCCGTCTCATAATG 59.110 47.826 0.00 0.00 0.00 1.90
101 102 4.180377 TGTACTCCCTCCGTCTCATAAT 57.820 45.455 0.00 0.00 0.00 1.28
102 103 3.657398 TGTACTCCCTCCGTCTCATAA 57.343 47.619 0.00 0.00 0.00 1.90
103 104 3.498121 GGATGTACTCCCTCCGTCTCATA 60.498 52.174 0.00 0.00 38.19 2.15
104 105 2.588620 GATGTACTCCCTCCGTCTCAT 58.411 52.381 0.00 0.00 0.00 2.90
105 106 1.409802 GGATGTACTCCCTCCGTCTCA 60.410 57.143 0.00 0.00 38.19 3.27
106 107 1.133730 AGGATGTACTCCCTCCGTCTC 60.134 57.143 7.50 0.00 46.27 3.36
107 108 0.927767 AGGATGTACTCCCTCCGTCT 59.072 55.000 7.50 0.00 46.27 4.18
108 109 2.158638 ACTAGGATGTACTCCCTCCGTC 60.159 54.545 9.41 0.00 46.27 4.79
109 110 1.851653 ACTAGGATGTACTCCCTCCGT 59.148 52.381 9.41 6.55 46.27 4.69
110 111 2.660670 ACTAGGATGTACTCCCTCCG 57.339 55.000 9.41 6.05 46.27 4.63
111 112 4.715297 TGAAAACTAGGATGTACTCCCTCC 59.285 45.833 9.41 3.69 46.27 4.30
112 113 5.934402 TGAAAACTAGGATGTACTCCCTC 57.066 43.478 9.41 0.00 46.27 4.30
113 114 6.697641 TTTGAAAACTAGGATGTACTCCCT 57.302 37.500 10.65 10.65 46.27 4.20
114 115 5.354513 GCTTTGAAAACTAGGATGTACTCCC 59.645 44.000 7.50 2.60 46.27 4.30
115 116 6.174049 AGCTTTGAAAACTAGGATGTACTCC 58.826 40.000 0.00 0.00 45.33 3.85
116 117 7.674471 AAGCTTTGAAAACTAGGATGTACTC 57.326 36.000 0.00 0.00 0.00 2.59
117 118 9.740710 ATAAAGCTTTGAAAACTAGGATGTACT 57.259 29.630 22.02 0.00 0.00 2.73
141 142 5.045942 TCTGATGGTAACCTGCTCACAAATA 60.046 40.000 0.00 0.00 0.00 1.40
168 169 0.474854 TCTTCACCTAGGGCCAACCA 60.475 55.000 14.81 0.00 43.89 3.67
182 183 2.702592 ACACGGTTTTGGACTCTTCA 57.297 45.000 0.00 0.00 0.00 3.02
190 191 4.041723 GTGAGAATGAAACACGGTTTTGG 58.958 43.478 3.96 0.00 0.00 3.28
239 241 3.018840 GCCTGTTAACCGAACGCCG 62.019 63.158 2.48 0.00 41.35 6.46
264 266 5.905480 CAAATAACTGTTTGGAAGGTTGC 57.095 39.130 0.00 0.00 35.86 4.17
329 331 7.653647 TGTACCCACTTCATAAAACACATTTC 58.346 34.615 0.00 0.00 32.27 2.17
341 343 7.054124 CCTTGTTACATATGTACCCACTTCAT 58.946 38.462 15.20 0.00 0.00 2.57
381 383 5.048846 AGATTGGGCAAACTATACGGAAT 57.951 39.130 0.00 0.00 0.00 3.01
418 421 0.458889 TTAGGATCGTCAAACGGCGG 60.459 55.000 13.24 0.00 42.81 6.13
499 505 1.654105 CTCGTACGAAACTGATGGTGC 59.346 52.381 20.00 0.00 0.00 5.01
516 522 7.862741 TTATACGGTGCTTATATTTCACTCG 57.137 36.000 0.00 0.00 33.71 4.18
587 599 2.206576 AGTTCAGATCTTGTTGCCCC 57.793 50.000 0.00 0.00 0.00 5.80
588 600 3.935828 GACTAGTTCAGATCTTGTTGCCC 59.064 47.826 0.00 0.00 0.00 5.36
591 603 5.152623 TGGGACTAGTTCAGATCTTGTTG 57.847 43.478 2.92 0.00 0.00 3.33
620 640 3.330766 ACGCGAGTCTACATGCTTC 57.669 52.632 15.93 0.00 44.19 3.86
666 686 8.190326 AGGAAATCTGACGGTCATGTATTATA 57.810 34.615 11.86 0.00 0.00 0.98
667 687 7.067496 AGGAAATCTGACGGTCATGTATTAT 57.933 36.000 11.86 4.14 0.00 1.28
668 688 6.479972 AGGAAATCTGACGGTCATGTATTA 57.520 37.500 11.86 0.00 0.00 0.98
669 689 5.359194 AGGAAATCTGACGGTCATGTATT 57.641 39.130 11.86 9.08 0.00 1.89
670 690 6.672266 ATAGGAAATCTGACGGTCATGTAT 57.328 37.500 11.86 3.34 0.00 2.29
671 691 7.591421 TTATAGGAAATCTGACGGTCATGTA 57.409 36.000 11.86 0.92 0.00 2.29
680 700 7.180748 GCTGTTCGTTTTATAGGAAATCTGAC 58.819 38.462 0.00 0.00 32.84 3.51
689 709 3.869065 TGGAGGCTGTTCGTTTTATAGG 58.131 45.455 0.00 0.00 0.00 2.57
739 763 6.294397 GGAGAATGCTTCTGTTTTGATTCACT 60.294 38.462 3.55 0.00 40.87 3.41
753 777 8.742554 TTTTATTTCTTTTCGGAGAATGCTTC 57.257 30.769 0.00 0.00 45.90 3.86
879 908 0.529119 CGCCTCGGGTTTTATAGCGT 60.529 55.000 0.00 0.00 37.47 5.07
974 1003 3.330720 CGCCTTTGGGGGAGGTCT 61.331 66.667 0.00 0.00 46.99 3.85
1324 1373 1.355971 ATCGACAACGGAAACCATCG 58.644 50.000 0.00 0.00 40.21 3.84
1328 1377 2.727916 GCATCAATCGACAACGGAAACC 60.728 50.000 0.00 0.00 40.21 3.27
1335 1384 1.589022 GCGTACGCATCAATCGACAAC 60.589 52.381 33.90 0.00 41.49 3.32
1564 1613 2.125350 CGGGCTCAGAACTCCTGC 60.125 66.667 0.00 0.00 42.62 4.85
1604 1653 2.187946 CATGACAGGACGGCCTCC 59.812 66.667 7.01 2.12 44.80 4.30
1700 1769 1.860950 CACTCAACCACGACAGAGTTG 59.139 52.381 0.00 0.00 39.17 3.16
1701 1770 1.754803 TCACTCAACCACGACAGAGTT 59.245 47.619 0.00 0.00 39.17 3.01
1702 1771 1.399714 TCACTCAACCACGACAGAGT 58.600 50.000 0.00 0.00 41.70 3.24
1737 1806 9.984590 AGTATATATTTCCTCTCCTCTTCTACC 57.015 37.037 0.00 0.00 0.00 3.18
1748 1817 9.845214 AACCACATAGGAGTATATATTTCCTCT 57.155 33.333 17.43 9.11 41.46 3.69
1793 1862 8.565896 TCATAAAAGACAACTGAGCAACATAT 57.434 30.769 0.00 0.00 0.00 1.78
1794 1863 7.977789 TCATAAAAGACAACTGAGCAACATA 57.022 32.000 0.00 0.00 0.00 2.29
1816 1887 5.707764 TCAAACAACCGAACCATATCAATCA 59.292 36.000 0.00 0.00 0.00 2.57
1857 1928 9.899226 AGATTCTTGTAACTAAAATTTCACAGC 57.101 29.630 0.00 0.00 0.00 4.40
1894 1965 6.350974 GCGAGATTATCATTTCTTTCAGACG 58.649 40.000 0.00 0.00 0.00 4.18
1911 1982 3.128068 GGTTTTATTTCCACGGCGAGATT 59.872 43.478 16.62 3.60 0.00 2.40
1933 2004 1.142748 CACTGGGCTAAGAGGAGCG 59.857 63.158 0.00 0.00 43.83 5.03
1948 2019 4.734398 TTGATGCTGTTTTGTTTCCACT 57.266 36.364 0.00 0.00 0.00 4.00
1979 2050 5.245531 AGAGTTATGTTCAATCGCCTGAAA 58.754 37.500 1.18 0.00 37.08 2.69
1981 2052 4.471904 AGAGTTATGTTCAATCGCCTGA 57.528 40.909 0.00 0.00 0.00 3.86
1982 2053 6.313905 ACTTAAGAGTTATGTTCAATCGCCTG 59.686 38.462 10.09 0.00 29.87 4.85
1983 2054 6.407202 ACTTAAGAGTTATGTTCAATCGCCT 58.593 36.000 10.09 0.00 29.87 5.52
1984 2055 6.663944 ACTTAAGAGTTATGTTCAATCGCC 57.336 37.500 10.09 0.00 29.87 5.54
1985 2056 6.466097 GCAACTTAAGAGTTATGTTCAATCGC 59.534 38.462 10.09 0.00 44.14 4.58
1986 2057 7.518161 TGCAACTTAAGAGTTATGTTCAATCG 58.482 34.615 10.09 0.00 44.14 3.34
1989 2060 8.445275 TTCTGCAACTTAAGAGTTATGTTCAA 57.555 30.769 10.09 0.00 44.14 2.69
1990 2061 7.715249 ACTTCTGCAACTTAAGAGTTATGTTCA 59.285 33.333 10.09 0.00 44.14 3.18
1991 2062 8.089115 ACTTCTGCAACTTAAGAGTTATGTTC 57.911 34.615 10.09 0.00 44.14 3.18
2021 2097 9.507329 GGTGGCAAAATAATATCAAGAGAGATA 57.493 33.333 0.00 0.00 35.16 1.98
2022 2098 8.000709 TGGTGGCAAAATAATATCAAGAGAGAT 58.999 33.333 0.00 0.00 0.00 2.75
2023 2099 7.283127 GTGGTGGCAAAATAATATCAAGAGAGA 59.717 37.037 0.00 0.00 0.00 3.10
2024 2100 7.420800 GTGGTGGCAAAATAATATCAAGAGAG 58.579 38.462 0.00 0.00 0.00 3.20
2026 2102 6.038161 TCGTGGTGGCAAAATAATATCAAGAG 59.962 38.462 0.00 0.00 0.00 2.85
2027 2103 5.883115 TCGTGGTGGCAAAATAATATCAAGA 59.117 36.000 0.00 0.00 0.00 3.02
2028 2104 6.130298 TCGTGGTGGCAAAATAATATCAAG 57.870 37.500 0.00 0.00 0.00 3.02
2030 2106 5.883115 TCTTCGTGGTGGCAAAATAATATCA 59.117 36.000 0.00 0.00 0.00 2.15
2031 2107 6.371809 TCTTCGTGGTGGCAAAATAATATC 57.628 37.500 0.00 0.00 0.00 1.63
2032 2108 6.377146 AGTTCTTCGTGGTGGCAAAATAATAT 59.623 34.615 0.00 0.00 0.00 1.28
2033 2109 5.708230 AGTTCTTCGTGGTGGCAAAATAATA 59.292 36.000 0.00 0.00 0.00 0.98
2034 2110 4.522789 AGTTCTTCGTGGTGGCAAAATAAT 59.477 37.500 0.00 0.00 0.00 1.28
2035 2111 3.886505 AGTTCTTCGTGGTGGCAAAATAA 59.113 39.130 0.00 0.00 0.00 1.40
2036 2112 3.252215 CAGTTCTTCGTGGTGGCAAAATA 59.748 43.478 0.00 0.00 0.00 1.40
2037 2113 2.034558 CAGTTCTTCGTGGTGGCAAAAT 59.965 45.455 0.00 0.00 0.00 1.82
2038 2114 1.403679 CAGTTCTTCGTGGTGGCAAAA 59.596 47.619 0.00 0.00 0.00 2.44
2039 2115 1.021202 CAGTTCTTCGTGGTGGCAAA 58.979 50.000 0.00 0.00 0.00 3.68
2040 2116 0.179234 TCAGTTCTTCGTGGTGGCAA 59.821 50.000 0.00 0.00 0.00 4.52
2041 2117 0.396435 ATCAGTTCTTCGTGGTGGCA 59.604 50.000 0.00 0.00 0.00 4.92
2042 2118 1.523758 AATCAGTTCTTCGTGGTGGC 58.476 50.000 0.00 0.00 0.00 5.01
2043 2119 3.058914 GTGAAATCAGTTCTTCGTGGTGG 60.059 47.826 0.00 0.00 37.13 4.61
2044 2120 3.058914 GGTGAAATCAGTTCTTCGTGGTG 60.059 47.826 0.00 0.00 37.13 4.17
2045 2121 3.139077 GGTGAAATCAGTTCTTCGTGGT 58.861 45.455 0.00 0.00 37.13 4.16
2046 2122 3.138304 TGGTGAAATCAGTTCTTCGTGG 58.862 45.455 0.00 0.00 37.13 4.94
2047 2123 5.049474 TCAATGGTGAAATCAGTTCTTCGTG 60.049 40.000 0.00 0.00 37.13 4.35
2048 2124 5.063204 TCAATGGTGAAATCAGTTCTTCGT 58.937 37.500 0.00 0.00 37.13 3.85
2049 2125 5.409520 TCTCAATGGTGAAATCAGTTCTTCG 59.590 40.000 0.00 0.00 37.13 3.79
2050 2126 6.808008 TCTCAATGGTGAAATCAGTTCTTC 57.192 37.500 0.00 0.00 37.13 2.87
2051 2127 7.600065 CATTCTCAATGGTGAAATCAGTTCTT 58.400 34.615 0.00 0.00 34.87 2.52
2052 2128 7.154435 CATTCTCAATGGTGAAATCAGTTCT 57.846 36.000 0.00 0.00 34.87 3.01
2066 2142 5.648178 TCACAACAATCCCATTCTCAATG 57.352 39.130 0.00 0.00 38.63 2.82
2067 2143 5.718130 ACATCACAACAATCCCATTCTCAAT 59.282 36.000 0.00 0.00 0.00 2.57
2068 2144 5.078949 ACATCACAACAATCCCATTCTCAA 58.921 37.500 0.00 0.00 0.00 3.02
2069 2145 4.665451 ACATCACAACAATCCCATTCTCA 58.335 39.130 0.00 0.00 0.00 3.27
2070 2146 4.946157 AGACATCACAACAATCCCATTCTC 59.054 41.667 0.00 0.00 0.00 2.87
2071 2147 4.703575 CAGACATCACAACAATCCCATTCT 59.296 41.667 0.00 0.00 0.00 2.40
2072 2148 4.701651 TCAGACATCACAACAATCCCATTC 59.298 41.667 0.00 0.00 0.00 2.67
2073 2149 4.665451 TCAGACATCACAACAATCCCATT 58.335 39.130 0.00 0.00 0.00 3.16
2074 2150 4.305539 TCAGACATCACAACAATCCCAT 57.694 40.909 0.00 0.00 0.00 4.00
2075 2151 3.786368 TCAGACATCACAACAATCCCA 57.214 42.857 0.00 0.00 0.00 4.37
2076 2152 6.543465 TGATAATCAGACATCACAACAATCCC 59.457 38.462 0.00 0.00 0.00 3.85
2077 2153 7.558161 TGATAATCAGACATCACAACAATCC 57.442 36.000 0.00 0.00 0.00 3.01
2078 2154 9.844790 TTTTGATAATCAGACATCACAACAATC 57.155 29.630 0.00 0.00 31.04 2.67
2120 2196 6.612863 AGCCACAGATATATATATGGACAGCA 59.387 38.462 18.96 0.00 0.00 4.41
2121 2197 6.927936 CAGCCACAGATATATATATGGACAGC 59.072 42.308 18.96 14.97 0.00 4.40
2122 2198 6.927936 GCAGCCACAGATATATATATGGACAG 59.072 42.308 18.96 7.92 0.00 3.51
2123 2199 6.383726 TGCAGCCACAGATATATATATGGACA 59.616 38.462 18.96 11.81 0.00 4.02
2124 2200 6.820335 TGCAGCCACAGATATATATATGGAC 58.180 40.000 18.96 9.42 0.00 4.02
2126 2202 7.226128 CAGTTGCAGCCACAGATATATATATGG 59.774 40.741 18.96 15.60 0.00 2.74
2127 2203 7.254692 GCAGTTGCAGCCACAGATATATATATG 60.255 40.741 14.43 14.43 41.59 1.78
2175 2265 6.114089 CAGCAATCAGAGATATATTCAGGGG 58.886 44.000 0.00 0.00 0.00 4.79
2176 2266 6.114089 CCAGCAATCAGAGATATATTCAGGG 58.886 44.000 0.00 0.00 0.00 4.45
2177 2267 6.709281 ACCAGCAATCAGAGATATATTCAGG 58.291 40.000 0.00 0.00 0.00 3.86
2178 2268 9.887629 ATTACCAGCAATCAGAGATATATTCAG 57.112 33.333 0.00 0.00 0.00 3.02
2185 2275 7.833682 TGGAAAAATTACCAGCAATCAGAGATA 59.166 33.333 0.00 0.00 0.00 1.98
2186 2276 6.664816 TGGAAAAATTACCAGCAATCAGAGAT 59.335 34.615 0.00 0.00 0.00 2.75
2188 2278 6.271488 TGGAAAAATTACCAGCAATCAGAG 57.729 37.500 0.00 0.00 0.00 3.35
2189 2279 6.493115 TCTTGGAAAAATTACCAGCAATCAGA 59.507 34.615 0.00 0.00 37.48 3.27
2192 2282 7.967178 CAATCTTGGAAAAATTACCAGCAATC 58.033 34.615 0.00 0.00 37.48 2.67
2193 2283 7.910441 CAATCTTGGAAAAATTACCAGCAAT 57.090 32.000 0.00 0.00 37.48 3.56
2210 2300 8.090214 ACCAAACTAAATCATCAACCAATCTTG 58.910 33.333 0.00 0.00 0.00 3.02
2211 2301 8.193953 ACCAAACTAAATCATCAACCAATCTT 57.806 30.769 0.00 0.00 0.00 2.40
2212 2302 7.781324 ACCAAACTAAATCATCAACCAATCT 57.219 32.000 0.00 0.00 0.00 2.40
2213 2303 8.711457 CAAACCAAACTAAATCATCAACCAATC 58.289 33.333 0.00 0.00 0.00 2.67
2214 2304 8.428063 TCAAACCAAACTAAATCATCAACCAAT 58.572 29.630 0.00 0.00 0.00 3.16
2218 2308 9.643693 ATGATCAAACCAAACTAAATCATCAAC 57.356 29.630 0.00 0.00 28.86 3.18
2228 2360 4.390603 CGTTCGGATGATCAAACCAAACTA 59.609 41.667 17.75 1.79 0.00 2.24
2250 2382 1.447317 CGCCCCTGGGAATTCATTCG 61.447 60.000 16.20 0.00 37.67 3.34
2280 2412 8.696374 TGGACGAAGAGTAATAATCAGATTCTT 58.304 33.333 0.00 0.00 0.00 2.52
2281 2413 8.239038 TGGACGAAGAGTAATAATCAGATTCT 57.761 34.615 0.00 0.00 0.00 2.40
2295 2495 2.297597 CTGTTTCCTCTGGACGAAGAGT 59.702 50.000 11.62 0.00 41.89 3.24
2308 2508 5.048434 GCATTTTACTGCTCTTCTGTTTCCT 60.048 40.000 0.00 0.00 39.12 3.36
2372 2635 4.814147 CTGATCACTAGCACAGAAGTCAA 58.186 43.478 0.00 0.00 32.90 3.18
2390 2653 4.925054 CGAATGGTGAAACAAATTGCTGAT 59.075 37.500 0.00 0.00 39.98 2.90
2492 2758 0.978151 ATTCAGGCATTGCAGGCAAA 59.022 45.000 11.10 5.90 39.55 3.68
2531 2797 2.719426 GCAGCAAGCAAGTTGATTCT 57.281 45.000 7.16 3.69 44.79 2.40
2555 2821 4.859629 GTAACCCATCGATCAACACTTC 57.140 45.455 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.