Multiple sequence alignment - TraesCS4A01G172500

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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 TraesCS4A01G172500 chr4A 100.000 3466 0 0 1 3466 438318635 438322100 0.000000e+00 6401.0
1 TraesCS4A01G172500 chr4A 89.565 230 16 4 3174 3396 38714839 38715067 5.660000e-73 285.0
2 TraesCS4A01G172500 chr4A 95.652 46 2 0 3003 3048 438321597 438321642 1.330000e-09 75.0
3 TraesCS4A01G172500 chr4A 95.652 46 2 0 2963 3008 438321637 438321682 1.330000e-09 75.0
4 TraesCS4A01G172500 chr4D 97.256 1968 46 6 1 1963 211029116 211031080 0.000000e+00 3328.0
5 TraesCS4A01G172500 chr4D 97.417 929 23 1 2081 3008 211031176 211032104 0.000000e+00 1581.0
6 TraesCS4A01G172500 chr4D 96.241 399 7 2 3003 3396 211032059 211032454 0.000000e+00 647.0
7 TraesCS4A01G172500 chr6D 95.858 1690 52 3 1 1673 10464513 10462825 0.000000e+00 2717.0
8 TraesCS4A01G172500 chr6D 97.268 549 14 1 2197 2744 10462808 10462260 0.000000e+00 929.0
9 TraesCS4A01G172500 chr6D 81.201 766 81 25 650 1386 124147609 124148340 3.020000e-155 558.0
10 TraesCS4A01G172500 chr3B 95.050 1192 42 2 1 1176 309872594 309873784 0.000000e+00 1858.0
11 TraesCS4A01G172500 chr3B 94.517 766 24 4 1076 1836 309875203 309875955 0.000000e+00 1166.0
12 TraesCS4A01G172500 chr3B 96.182 681 25 1 2066 2745 309876055 309876735 0.000000e+00 1112.0
13 TraesCS4A01G172500 chr3B 86.982 1014 96 14 144 1131 806963058 806964061 0.000000e+00 1109.0
14 TraesCS4A01G172500 chr3B 86.879 1006 99 13 151 1131 56915231 56914234 0.000000e+00 1096.0
15 TraesCS4A01G172500 chr3B 93.098 681 22 6 2162 2841 309873783 309874439 0.000000e+00 974.0
16 TraesCS4A01G172500 chr3B 87.969 773 68 12 151 918 235841667 235840915 0.000000e+00 889.0
17 TraesCS4A01G172500 chr3B 86.531 245 29 2 2635 2875 56914083 56913839 2.050000e-67 267.0
18 TraesCS4A01G172500 chr3B 85.944 249 27 6 2635 2875 806964212 806964460 3.430000e-65 259.0
19 TraesCS4A01G172500 chr3B 81.172 239 28 13 1064 1297 730390101 730390327 3.560000e-40 176.0
20 TraesCS4A01G172500 chr3B 81.172 239 28 13 1064 1297 730407140 730407366 3.560000e-40 176.0
21 TraesCS4A01G172500 chr3D 96.501 943 33 0 2066 3008 480830119 480829177 0.000000e+00 1559.0
22 TraesCS4A01G172500 chr3D 96.231 398 11 3 3003 3396 480829222 480828825 0.000000e+00 649.0
23 TraesCS4A01G172500 chr3D 95.396 391 14 2 1577 1963 480830507 480830117 1.370000e-173 619.0
24 TraesCS4A01G172500 chr3D 90.393 229 16 2 3174 3396 65435639 65435411 2.620000e-76 296.0
25 TraesCS4A01G172500 chr3D 97.391 115 2 1 1958 2071 502141422 502141308 9.820000e-46 195.0
26 TraesCS4A01G172500 chr1D 87.463 1005 87 15 151 1131 95441458 95440469 0.000000e+00 1122.0
27 TraesCS4A01G172500 chr2B 95.461 705 26 4 1264 1963 67327127 67327830 0.000000e+00 1120.0
28 TraesCS4A01G172500 chr2B 95.691 673 26 2 2066 2735 67346366 67347038 0.000000e+00 1079.0
29 TraesCS4A01G172500 chr2B 95.678 671 28 1 2066 2735 67327828 67328498 0.000000e+00 1077.0
30 TraesCS4A01G172500 chr2B 95.529 671 29 1 2066 2735 67333107 67333777 0.000000e+00 1072.0
31 TraesCS4A01G172500 chr2B 95.387 672 28 3 2066 2735 67339737 67340407 0.000000e+00 1066.0
32 TraesCS4A01G172500 chr2B 95.238 672 29 3 2066 2735 67343051 67343721 0.000000e+00 1061.0
33 TraesCS4A01G172500 chr2B 95.089 672 30 3 2066 2735 67336422 67337092 0.000000e+00 1055.0
34 TraesCS4A01G172500 chr2B 96.192 604 18 3 1364 1963 67345766 67346368 0.000000e+00 983.0
35 TraesCS4A01G172500 chr2B 96.026 604 19 3 1364 1963 67335822 67336424 0.000000e+00 977.0
36 TraesCS4A01G172500 chr2B 96.026 604 19 3 1364 1963 67339137 67339739 0.000000e+00 977.0
37 TraesCS4A01G172500 chr2B 96.026 604 18 4 1364 1963 67342452 67343053 0.000000e+00 977.0
38 TraesCS4A01G172500 chr2B 95.861 604 20 3 1364 1963 67332507 67333109 0.000000e+00 972.0
39 TraesCS4A01G172500 chr2B 95.588 272 12 0 3003 3274 67329351 67329622 1.480000e-118 436.0
40 TraesCS4A01G172500 chr2B 92.199 282 21 1 2728 3008 67329115 67329396 6.970000e-107 398.0
41 TraesCS4A01G172500 chr2B 96.552 58 2 0 2728 2785 67334394 67334451 2.850000e-16 97.1
42 TraesCS4A01G172500 chr2B 96.552 58 2 0 2728 2785 67337709 67337766 2.850000e-16 97.1
43 TraesCS4A01G172500 chr2B 96.552 58 2 0 2728 2785 67341024 67341081 2.850000e-16 97.1
44 TraesCS4A01G172500 chr2B 96.552 58 2 0 2728 2785 67344338 67344395 2.850000e-16 97.1
45 TraesCS4A01G172500 chr2B 90.625 64 3 2 3110 3172 49336112 49336173 7.970000e-12 82.4
46 TraesCS4A01G172500 chr1B 88.204 763 76 7 151 907 415219212 415218458 0.000000e+00 898.0
47 TraesCS4A01G172500 chr1B 80.508 236 29 13 1067 1297 395225316 395225093 7.700000e-37 165.0
48 TraesCS4A01G172500 chr6B 87.855 774 68 13 151 918 641883085 641882332 0.000000e+00 885.0
49 TraesCS4A01G172500 chr6B 89.209 417 42 2 151 565 65861549 65861964 5.130000e-143 518.0
50 TraesCS4A01G172500 chr6B 88.969 417 42 3 151 565 65837172 65837586 2.390000e-141 512.0
51 TraesCS4A01G172500 chr6B 87.042 355 32 8 566 918 65870512 65870854 4.190000e-104 388.0
52 TraesCS4A01G172500 chr6B 90.175 285 22 4 1649 1928 641883292 641883009 1.970000e-97 366.0
53 TraesCS4A01G172500 chr7A 80.624 769 86 25 650 1389 721889131 721889865 1.420000e-148 536.0
54 TraesCS4A01G172500 chr7A 89.956 229 16 3 3174 3396 676282233 676282006 4.380000e-74 289.0
55 TraesCS4A01G172500 chr7A 95.082 122 4 2 1948 2068 619359584 619359704 1.270000e-44 191.0
56 TraesCS4A01G172500 chr7A 93.333 75 5 0 3392 3466 483974829 483974755 1.020000e-20 111.0
57 TraesCS4A01G172500 chr7A 89.130 92 4 1 3174 3265 316239300 316239215 3.660000e-20 110.0
58 TraesCS4A01G172500 chr5B 89.956 229 17 2 3174 3396 382955686 382955914 1.220000e-74 291.0
59 TraesCS4A01G172500 chr5B 83.333 120 19 1 3054 3172 622205115 622205234 3.660000e-20 110.0
60 TraesCS4A01G172500 chr2A 86.842 228 16 3 3174 3396 628524730 628524512 3.460000e-60 243.0
61 TraesCS4A01G172500 chr2A 98.230 113 2 0 1960 2072 96153110 96153222 7.590000e-47 198.0
62 TraesCS4A01G172500 chr2A 97.368 114 3 0 1959 2072 75116542 75116429 9.820000e-46 195.0
63 TraesCS4A01G172500 chr2A 92.000 75 6 0 3392 3466 524406151 524406077 4.730000e-19 106.0
64 TraesCS4A01G172500 chr2A 92.000 75 6 0 3392 3466 676379757 676379683 4.730000e-19 106.0
65 TraesCS4A01G172500 chr2A 91.026 78 7 0 3389 3466 695469363 695469440 4.730000e-19 106.0
66 TraesCS4A01G172500 chr5D 89.119 193 16 1 3209 3396 80212709 80212901 5.780000e-58 235.0
67 TraesCS4A01G172500 chr5D 95.238 42 0 1 3174 3213 80209897 80209938 8.030000e-07 65.8
68 TraesCS4A01G172500 chr7D 89.773 176 13 1 3226 3396 38012670 38012495 1.620000e-53 220.0
69 TraesCS4A01G172500 chr5A 96.667 120 3 1 1958 2076 492896372 492896253 7.590000e-47 198.0
70 TraesCS4A01G172500 chr5A 92.308 78 6 0 3389 3466 80928502 80928579 1.020000e-20 111.0
71 TraesCS4A01G172500 chr5A 91.026 78 7 0 3389 3466 138203564 138203641 4.730000e-19 106.0
72 TraesCS4A01G172500 chr3A 99.091 110 1 0 1959 2068 664694636 664694745 7.590000e-47 198.0
73 TraesCS4A01G172500 chr3A 93.333 75 5 0 3392 3466 229175806 229175732 1.020000e-20 111.0
74 TraesCS4A01G172500 chr6A 97.368 114 3 0 1962 2075 250834622 250834509 9.820000e-46 195.0
75 TraesCS4A01G172500 chr6A 93.333 75 5 0 3392 3466 119322266 119322192 1.020000e-20 111.0
76 TraesCS4A01G172500 chr6A 91.026 78 7 0 3389 3466 738729 738806 4.730000e-19 106.0
77 TraesCS4A01G172500 chr1A 95.833 120 5 0 1956 2075 534536492 534536611 9.820000e-46 195.0
78 TraesCS4A01G172500 chr1A 92.248 129 8 2 1952 2080 448018112 448018238 7.640000e-42 182.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G172500 chr4A 438318635 438322100 3465 False 2183.666667 6401 97.101333 1 3466 3 chr4A.!!$F2 3465
1 TraesCS4A01G172500 chr4D 211029116 211032454 3338 False 1852.000000 3328 96.971333 1 3396 3 chr4D.!!$F1 3395
2 TraesCS4A01G172500 chr6D 10462260 10464513 2253 True 1823.000000 2717 96.563000 1 2744 2 chr6D.!!$R1 2743
3 TraesCS4A01G172500 chr6D 124147609 124148340 731 False 558.000000 558 81.201000 650 1386 1 chr6D.!!$F1 736
4 TraesCS4A01G172500 chr3B 309872594 309876735 4141 False 1277.500000 1858 94.711750 1 2841 4 chr3B.!!$F3 2840
5 TraesCS4A01G172500 chr3B 235840915 235841667 752 True 889.000000 889 87.969000 151 918 1 chr3B.!!$R1 767
6 TraesCS4A01G172500 chr3B 806963058 806964460 1402 False 684.000000 1109 86.463000 144 2875 2 chr3B.!!$F4 2731
7 TraesCS4A01G172500 chr3B 56913839 56915231 1392 True 681.500000 1096 86.705000 151 2875 2 chr3B.!!$R2 2724
8 TraesCS4A01G172500 chr3D 480828825 480830507 1682 True 942.333333 1559 96.042667 1577 3396 3 chr3D.!!$R3 1819
9 TraesCS4A01G172500 chr1D 95440469 95441458 989 True 1122.000000 1122 87.463000 151 1131 1 chr1D.!!$R1 980
10 TraesCS4A01G172500 chr2B 67327127 67347038 19911 False 757.688889 1120 95.677722 1264 3274 18 chr2B.!!$F2 2010
11 TraesCS4A01G172500 chr1B 415218458 415219212 754 True 898.000000 898 88.204000 151 907 1 chr1B.!!$R2 756
12 TraesCS4A01G172500 chr6B 641882332 641883292 960 True 625.500000 885 89.015000 151 1928 2 chr6B.!!$R1 1777
13 TraesCS4A01G172500 chr7A 721889131 721889865 734 False 536.000000 536 80.624000 650 1389 1 chr7A.!!$F2 739

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
661 736 1.070134 GGTGCCGATCAGGTGCTAATA 59.93 52.381 0.0 0.0 43.70 0.98 F
1292 2914 0.540454 GGTTACACTAGGACCAGGGC 59.46 60.000 0.0 0.0 33.61 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2039 8953 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.0 0.0 0.0 5.19 R
3020 23286 0.101399 ATGAGTAAGCTGCCTCGACG 59.899 55.000 0.0 0.0 0.0 5.12 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
28 29 6.432783 CCAAATAACTATGAACACACCCTTGA 59.567 38.462 0.00 0.00 0.00 3.02
203 261 5.392380 GGTTACACTCATCTTCAAATGGCAG 60.392 44.000 0.00 0.00 0.00 4.85
268 330 4.897051 AGGTACTATGTTCCATCCCTCTT 58.103 43.478 0.00 0.00 36.02 2.85
365 434 8.823584 TTTTGTTACTAATGTGTACACAAACG 57.176 30.769 31.01 22.18 45.41 3.60
661 736 1.070134 GGTGCCGATCAGGTGCTAATA 59.930 52.381 0.00 0.00 43.70 0.98
671 746 6.652481 CGATCAGGTGCTAATATGAATCCTTT 59.348 38.462 0.00 0.00 0.00 3.11
721 798 1.815613 TGGGTTGAATGCACATTACCG 59.184 47.619 8.51 0.00 32.67 4.02
949 1034 7.839907 TGCTAATTCTTTCAACATTATTGCCT 58.160 30.769 0.00 0.00 0.00 4.75
1058 1143 3.713288 CAATCATCGTCCTTAACCGCTA 58.287 45.455 0.00 0.00 0.00 4.26
1100 1201 1.341285 TGGCCTCATCATGGTTCCTTG 60.341 52.381 3.32 0.00 0.00 3.61
1181 2803 1.136690 GTCAATCACGTGTTCAGCGA 58.863 50.000 16.51 2.34 0.00 4.93
1286 2908 3.322828 TGTCAGTTGGGTTACACTAGGAC 59.677 47.826 0.00 0.00 0.00 3.85
1292 2914 0.540454 GGTTACACTAGGACCAGGGC 59.460 60.000 0.00 0.00 33.61 5.19
1535 3158 5.951148 TCCATTGATTGCTACAGATTTTGGA 59.049 36.000 0.00 0.00 0.00 3.53
1552 3175 2.639065 TGGAAGAACACTGTTGTCCAC 58.361 47.619 15.58 1.94 33.55 4.02
1564 3187 6.755141 ACACTGTTGTCCACGTTATATCATAC 59.245 38.462 0.00 0.00 0.00 2.39
1648 8554 5.945155 GTAGTGGTTCAGAACTACAGAGAG 58.055 45.833 26.48 0.00 45.30 3.20
1729 8635 5.189736 GCCCTATTCCTTTTCCCTTTTTCAT 59.810 40.000 0.00 0.00 0.00 2.57
1798 8708 9.166126 CGTTTTTATAGGAACAAACTGAAGAAC 57.834 33.333 0.00 0.00 0.00 3.01
1838 8748 5.335261 TGTAGTACTAATTCAGGTGTCCCA 58.665 41.667 3.61 0.00 0.00 4.37
1960 8874 5.730296 ATAGGCTACTAGCAGTACCATTG 57.270 43.478 10.27 0.00 44.75 2.82
1961 8875 3.375699 AGGCTACTAGCAGTACCATTGT 58.624 45.455 10.27 0.00 44.75 2.71
1962 8876 4.543689 AGGCTACTAGCAGTACCATTGTA 58.456 43.478 10.27 0.00 44.75 2.41
1963 8877 4.341520 AGGCTACTAGCAGTACCATTGTAC 59.658 45.833 10.27 0.00 44.75 2.90
1964 8878 7.913148 ATAGGCTACTAGCAGTACCATTGTACT 60.913 40.741 10.27 3.80 44.23 2.73
1975 8889 6.099159 GTACCATTGTACTCCCTCTATTCC 57.901 45.833 0.00 0.00 43.33 3.01
1976 8890 3.641906 ACCATTGTACTCCCTCTATTCCG 59.358 47.826 0.00 0.00 0.00 4.30
1977 8891 3.895656 CCATTGTACTCCCTCTATTCCGA 59.104 47.826 0.00 0.00 0.00 4.55
1978 8892 4.344102 CCATTGTACTCCCTCTATTCCGAA 59.656 45.833 0.00 0.00 0.00 4.30
1979 8893 5.012148 CCATTGTACTCCCTCTATTCCGAAT 59.988 44.000 0.00 0.00 0.00 3.34
1980 8894 6.464465 CCATTGTACTCCCTCTATTCCGAATT 60.464 42.308 0.00 0.00 0.00 2.17
1981 8895 7.256190 CCATTGTACTCCCTCTATTCCGAATTA 60.256 40.741 0.00 0.00 0.00 1.40
1982 8896 6.645790 TGTACTCCCTCTATTCCGAATTAC 57.354 41.667 0.00 0.00 0.00 1.89
1983 8897 6.371278 TGTACTCCCTCTATTCCGAATTACT 58.629 40.000 0.00 0.00 0.00 2.24
1984 8898 6.837568 TGTACTCCCTCTATTCCGAATTACTT 59.162 38.462 0.00 0.00 0.00 2.24
1985 8899 6.163135 ACTCCCTCTATTCCGAATTACTTG 57.837 41.667 0.00 0.00 0.00 3.16
1986 8900 5.661759 ACTCCCTCTATTCCGAATTACTTGT 59.338 40.000 0.00 0.00 0.00 3.16
1987 8901 6.158023 TCCCTCTATTCCGAATTACTTGTC 57.842 41.667 0.00 0.00 0.00 3.18
1988 8902 4.982916 CCCTCTATTCCGAATTACTTGTCG 59.017 45.833 0.00 0.00 37.01 4.35
1989 8903 4.444720 CCTCTATTCCGAATTACTTGTCGC 59.555 45.833 0.00 0.00 35.93 5.19
1990 8904 5.001237 TCTATTCCGAATTACTTGTCGCA 57.999 39.130 0.00 0.00 35.93 5.10
1991 8905 5.041287 TCTATTCCGAATTACTTGTCGCAG 58.959 41.667 0.00 0.00 35.93 5.18
1992 8906 2.004583 TCCGAATTACTTGTCGCAGG 57.995 50.000 0.00 0.00 35.93 4.85
1993 8907 1.274167 TCCGAATTACTTGTCGCAGGT 59.726 47.619 0.00 0.91 35.93 4.00
1994 8908 2.492881 TCCGAATTACTTGTCGCAGGTA 59.507 45.455 0.00 0.00 35.93 3.08
1995 8909 3.131577 TCCGAATTACTTGTCGCAGGTAT 59.868 43.478 3.46 0.00 35.93 2.73
1996 8910 3.245284 CCGAATTACTTGTCGCAGGTATG 59.755 47.826 3.46 0.00 35.93 2.39
1997 8911 3.245284 CGAATTACTTGTCGCAGGTATGG 59.755 47.826 3.46 0.00 0.00 2.74
1998 8912 4.439057 GAATTACTTGTCGCAGGTATGGA 58.561 43.478 3.46 0.00 0.00 3.41
1999 8913 4.689612 ATTACTTGTCGCAGGTATGGAT 57.310 40.909 3.46 0.00 0.00 3.41
2000 8914 2.315925 ACTTGTCGCAGGTATGGATG 57.684 50.000 0.00 0.00 0.00 3.51
2001 8915 1.555075 ACTTGTCGCAGGTATGGATGT 59.445 47.619 0.00 0.00 0.00 3.06
2002 8916 2.764010 ACTTGTCGCAGGTATGGATGTA 59.236 45.455 0.00 0.00 0.00 2.29
2003 8917 3.388024 ACTTGTCGCAGGTATGGATGTAT 59.612 43.478 0.00 0.00 0.00 2.29
2004 8918 3.660501 TGTCGCAGGTATGGATGTATC 57.339 47.619 0.00 0.00 0.00 2.24
2005 8919 3.230976 TGTCGCAGGTATGGATGTATCT 58.769 45.455 0.00 0.00 0.00 1.98
2006 8920 4.403734 TGTCGCAGGTATGGATGTATCTA 58.596 43.478 0.00 0.00 0.00 1.98
2007 8921 4.459337 TGTCGCAGGTATGGATGTATCTAG 59.541 45.833 0.00 0.00 0.00 2.43
2008 8922 4.700692 GTCGCAGGTATGGATGTATCTAGA 59.299 45.833 0.00 0.00 0.00 2.43
2009 8923 5.358442 GTCGCAGGTATGGATGTATCTAGAT 59.642 44.000 10.73 10.73 0.00 1.98
2010 8924 5.358160 TCGCAGGTATGGATGTATCTAGATG 59.642 44.000 15.79 0.00 0.00 2.90
2011 8925 5.126222 CGCAGGTATGGATGTATCTAGATGT 59.874 44.000 15.79 1.25 0.00 3.06
2012 8926 6.318900 CGCAGGTATGGATGTATCTAGATGTA 59.681 42.308 15.79 4.44 0.00 2.29
2013 8927 7.013750 CGCAGGTATGGATGTATCTAGATGTAT 59.986 40.741 15.79 9.11 0.00 2.29
2014 8928 8.700051 GCAGGTATGGATGTATCTAGATGTATT 58.300 37.037 15.79 0.00 0.00 1.89
2040 8954 9.547753 TTTAGTTCTAGATACATCCATTTCTGC 57.452 33.333 0.00 0.00 0.00 4.26
2041 8955 6.219473 AGTTCTAGATACATCCATTTCTGCG 58.781 40.000 0.00 0.00 0.00 5.18
2042 8956 6.040955 AGTTCTAGATACATCCATTTCTGCGA 59.959 38.462 0.00 0.00 0.00 5.10
2043 8957 5.773575 TCTAGATACATCCATTTCTGCGAC 58.226 41.667 0.00 0.00 0.00 5.19
2044 8958 3.384668 AGATACATCCATTTCTGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
2045 8959 2.951457 TACATCCATTTCTGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
2046 8960 1.645034 ACATCCATTTCTGCGACGAG 58.355 50.000 0.00 0.00 0.00 4.18
2047 8961 1.066858 ACATCCATTTCTGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
2048 8962 2.165641 ACATCCATTTCTGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
2049 8963 3.186909 CATCCATTTCTGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
2050 8964 3.520290 TCCATTTCTGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
2051 8965 3.857052 TCCATTTCTGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
2052 8966 4.250464 TCCATTTCTGCGACGAGTAATTT 58.750 39.130 0.00 0.00 0.00 1.82
2053 8967 4.092821 TCCATTTCTGCGACGAGTAATTTG 59.907 41.667 0.00 0.00 0.00 2.32
2054 8968 4.334443 CATTTCTGCGACGAGTAATTTGG 58.666 43.478 0.00 0.00 0.00 3.28
2055 8969 3.306917 TTCTGCGACGAGTAATTTGGA 57.693 42.857 0.00 0.00 0.00 3.53
2056 8970 3.306917 TCTGCGACGAGTAATTTGGAA 57.693 42.857 0.00 0.00 0.00 3.53
2057 8971 2.991190 TCTGCGACGAGTAATTTGGAAC 59.009 45.455 0.00 0.00 0.00 3.62
2058 8972 1.722464 TGCGACGAGTAATTTGGAACG 59.278 47.619 0.00 0.00 0.00 3.95
2059 8973 1.060122 GCGACGAGTAATTTGGAACGG 59.940 52.381 0.00 0.00 0.00 4.44
2060 8974 2.598589 CGACGAGTAATTTGGAACGGA 58.401 47.619 0.00 0.00 0.00 4.69
2061 8975 2.597305 CGACGAGTAATTTGGAACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
2062 8976 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2063 8977 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
2064 8978 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
2109 9106 5.201243 GGCAAAGTAAGATGACCCCTATTT 58.799 41.667 0.00 0.00 0.00 1.40
2111 9108 6.405842 GGCAAAGTAAGATGACCCCTATTTTG 60.406 42.308 0.00 0.00 0.00 2.44
2206 19147 8.105829 AGATTTTGAGAGAACACTATTGTCCAT 58.894 33.333 0.00 0.00 33.55 3.41
2378 19319 5.471556 TTGCTTTTCCATGATCATGTGTT 57.528 34.783 29.23 0.00 37.11 3.32
2641 22899 0.457035 GTCATCCCGTTGCAATGCAT 59.543 50.000 9.39 4.46 38.76 3.96
2699 22958 2.052782 AATAGGGAAATGTGGACGCC 57.947 50.000 0.00 0.00 0.00 5.68
2737 22996 4.426704 AGGTGTCAATCTGGTACTTAGGT 58.573 43.478 0.00 0.00 0.00 3.08
2807 23073 8.029782 TCTGATTTATAGCCTAGGCACTTTTA 57.970 34.615 34.70 18.52 44.88 1.52
2891 23157 4.785453 GAGGAGGCCCGCTTGTGG 62.785 72.222 0.00 0.00 37.58 4.17
2915 23181 3.056328 GCCGGCACCAAAGACCTC 61.056 66.667 24.80 0.00 0.00 3.85
2917 23183 2.030562 CGGCACCAAAGACCTCGT 59.969 61.111 0.00 0.00 0.00 4.18
2919 23185 1.070786 GGCACCAAAGACCTCGTGA 59.929 57.895 0.00 0.00 0.00 4.35
3000 23266 1.565305 GTCGAGGCAGCTTACTCATG 58.435 55.000 13.26 0.00 33.36 3.07
3001 23267 0.179100 TCGAGGCAGCTTACTCATGC 60.179 55.000 13.26 0.00 39.25 4.06
3006 23272 1.020437 GCAGCTTACTCATGCCTTCC 58.980 55.000 0.00 0.00 33.81 3.46
3007 23273 1.679944 GCAGCTTACTCATGCCTTCCA 60.680 52.381 0.00 0.00 33.81 3.53
3008 23274 2.012673 CAGCTTACTCATGCCTTCCAC 58.987 52.381 0.00 0.00 0.00 4.02
3009 23275 1.630369 AGCTTACTCATGCCTTCCACA 59.370 47.619 0.00 0.00 0.00 4.17
3010 23276 2.240667 AGCTTACTCATGCCTTCCACAT 59.759 45.455 0.00 0.00 0.00 3.21
3011 23277 3.455910 AGCTTACTCATGCCTTCCACATA 59.544 43.478 0.00 0.00 0.00 2.29
3012 23278 3.812053 GCTTACTCATGCCTTCCACATAG 59.188 47.826 0.00 0.00 0.00 2.23
3013 23279 4.443457 GCTTACTCATGCCTTCCACATAGA 60.443 45.833 0.00 0.00 0.00 1.98
3014 23280 5.744300 GCTTACTCATGCCTTCCACATAGAT 60.744 44.000 0.00 0.00 0.00 1.98
3015 23281 4.348863 ACTCATGCCTTCCACATAGATC 57.651 45.455 0.00 0.00 0.00 2.75
3016 23282 3.072184 ACTCATGCCTTCCACATAGATCC 59.928 47.826 0.00 0.00 0.00 3.36
3017 23283 3.047857 TCATGCCTTCCACATAGATCCA 58.952 45.455 0.00 0.00 0.00 3.41
3018 23284 3.654321 TCATGCCTTCCACATAGATCCAT 59.346 43.478 0.00 0.00 0.00 3.41
3019 23285 3.497103 TGCCTTCCACATAGATCCATG 57.503 47.619 0.00 0.00 0.00 3.66
3020 23286 2.157738 GCCTTCCACATAGATCCATGC 58.842 52.381 0.59 0.00 0.00 4.06
3021 23287 2.420642 CCTTCCACATAGATCCATGCG 58.579 52.381 0.59 0.00 0.00 4.73
3022 23288 2.224378 CCTTCCACATAGATCCATGCGT 60.224 50.000 0.59 0.00 0.00 5.24
3023 23289 2.820059 TCCACATAGATCCATGCGTC 57.180 50.000 0.59 0.00 0.00 5.19
3024 23290 1.000274 TCCACATAGATCCATGCGTCG 60.000 52.381 0.59 0.00 0.00 5.12
3025 23291 1.000274 CCACATAGATCCATGCGTCGA 60.000 52.381 0.59 0.00 0.00 4.20
3026 23292 2.323059 CACATAGATCCATGCGTCGAG 58.677 52.381 0.59 0.00 0.00 4.04
3027 23293 1.270826 ACATAGATCCATGCGTCGAGG 59.729 52.381 0.59 0.00 0.00 4.63
3028 23294 0.244994 ATAGATCCATGCGTCGAGGC 59.755 55.000 22.60 22.60 0.00 4.70
3035 23301 2.126071 TGCGTCGAGGCAGCTTAC 60.126 61.111 27.51 0.00 38.17 2.34
3036 23302 2.182030 GCGTCGAGGCAGCTTACT 59.818 61.111 24.22 0.00 0.00 2.24
3037 23303 1.874466 GCGTCGAGGCAGCTTACTC 60.874 63.158 24.22 4.66 0.00 2.59
3038 23304 1.506718 CGTCGAGGCAGCTTACTCA 59.493 57.895 13.26 0.64 33.36 3.41
3039 23305 0.101399 CGTCGAGGCAGCTTACTCAT 59.899 55.000 13.26 0.00 33.36 2.90
3079 23345 3.128375 CAGGCGGCCTTTTGTTGT 58.872 55.556 21.26 0.00 0.00 3.32
3080 23346 1.441311 CAGGCGGCCTTTTGTTGTT 59.559 52.632 21.26 0.00 0.00 2.83
3082 23348 2.243957 GGCGGCCTTTTGTTGTTGC 61.244 57.895 12.87 0.00 0.00 4.17
3083 23349 2.584967 GCGGCCTTTTGTTGTTGCG 61.585 57.895 0.00 0.00 0.00 4.85
3084 23350 1.064946 CGGCCTTTTGTTGTTGCGA 59.935 52.632 0.00 0.00 0.00 5.10
3255 23521 4.332828 GCACTTTCCCTACAACCTATGTT 58.667 43.478 0.00 0.00 43.63 2.71
3269 23535 4.403752 AACCTATGTTAAGGGTACCGACTC 59.596 45.833 5.65 0.00 44.24 3.36
3396 23667 4.770531 ACTAGGGCGCTTCCTTAAAATTTT 59.229 37.500 9.23 8.75 38.30 1.82
3397 23668 5.947566 ACTAGGGCGCTTCCTTAAAATTTTA 59.052 36.000 9.23 6.54 38.30 1.52
3398 23669 5.731957 AGGGCGCTTCCTTAAAATTTTAA 57.268 34.783 19.58 19.58 32.13 1.52
3399 23670 6.104146 AGGGCGCTTCCTTAAAATTTTAAA 57.896 33.333 20.75 7.67 32.13 1.52
3400 23671 6.526526 AGGGCGCTTCCTTAAAATTTTAAAA 58.473 32.000 20.75 13.66 32.13 1.52
3401 23672 6.993308 AGGGCGCTTCCTTAAAATTTTAAAAA 59.007 30.769 20.75 16.62 32.13 1.94
3402 23673 7.663905 AGGGCGCTTCCTTAAAATTTTAAAAAT 59.336 29.630 20.75 0.00 32.13 1.82
3403 23674 8.293867 GGGCGCTTCCTTAAAATTTTAAAAATT 58.706 29.630 20.75 0.00 32.73 1.82
3425 23696 9.768215 AAATTACCTCCCATAATCTTTTTCAGA 57.232 29.630 0.00 0.00 35.33 3.27
3426 23697 8.753497 ATTACCTCCCATAATCTTTTTCAGAC 57.247 34.615 0.00 0.00 32.83 3.51
3427 23698 6.139679 ACCTCCCATAATCTTTTTCAGACA 57.860 37.500 0.00 0.00 32.83 3.41
3428 23699 6.735556 ACCTCCCATAATCTTTTTCAGACAT 58.264 36.000 0.00 0.00 32.83 3.06
3429 23700 6.604795 ACCTCCCATAATCTTTTTCAGACATG 59.395 38.462 0.00 0.00 32.83 3.21
3430 23701 6.040166 CCTCCCATAATCTTTTTCAGACATGG 59.960 42.308 0.00 7.10 42.44 3.66
3431 23702 6.730447 TCCCATAATCTTTTTCAGACATGGA 58.270 36.000 12.76 0.00 44.05 3.41
3432 23703 7.356680 TCCCATAATCTTTTTCAGACATGGAT 58.643 34.615 12.76 0.00 44.05 3.41
3433 23704 8.501904 TCCCATAATCTTTTTCAGACATGGATA 58.498 33.333 12.76 2.69 44.05 2.59
3434 23705 9.305555 CCCATAATCTTTTTCAGACATGGATAT 57.694 33.333 12.76 0.00 44.05 1.63
3440 23711 9.512588 ATCTTTTTCAGACATGGATATATCCAC 57.487 33.333 32.22 21.15 46.82 4.02
3462 23733 9.460019 TCCACTTTCATATTCATATTTGTGTCA 57.540 29.630 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 7.253422 CGCAGATTCTCCTTTCACATTTATTT 58.747 34.615 0.00 0.00 0.00 1.40
203 261 2.292103 TGTGGCAGCAAAACAAGTTC 57.708 45.000 0.00 0.00 0.00 3.01
268 330 9.539825 AACATTGTTAATGCAGTGTGAAATAAA 57.460 25.926 0.00 0.00 42.69 1.40
406 475 7.254932 GCAAGTAGTCAGAATCAACTTTCACTT 60.255 37.037 0.00 0.00 0.00 3.16
495 570 1.587933 GGTTGAGCTCCGAGTCGTCT 61.588 60.000 12.15 5.37 0.00 4.18
661 736 5.935789 CACTTGCAATTGGAAAAGGATTCAT 59.064 36.000 13.69 0.00 0.00 2.57
671 746 2.300956 TAGGCCACTTGCAATTGGAA 57.699 45.000 33.21 17.76 43.89 3.53
721 798 5.288804 ACAAAAATTACATGGCAGTGTGAC 58.711 37.500 11.26 0.00 33.62 3.67
1018 1103 1.807226 CGTAGACATCCACGGAGCA 59.193 57.895 0.00 0.00 34.57 4.26
1039 1124 3.827302 AGATAGCGGTTAAGGACGATGAT 59.173 43.478 0.00 0.00 0.00 2.45
1058 1143 2.020720 CAGAGGTCACAGACGCTAGAT 58.979 52.381 0.00 0.00 32.65 1.98
1100 1201 2.267324 GTGAGCAGCTGGAGGGTC 59.733 66.667 17.12 4.86 0.00 4.46
1286 2908 3.066190 CTGGTGCACATGCCCTGG 61.066 66.667 20.43 0.00 41.18 4.45
1292 2914 3.581755 CAGGAAAATTCTGGTGCACATG 58.418 45.455 20.43 10.57 0.00 3.21
1301 2923 2.093869 CCACATGGGCAGGAAAATTCTG 60.094 50.000 0.00 0.00 35.49 3.02
1535 3158 2.396590 ACGTGGACAACAGTGTTCTT 57.603 45.000 5.27 0.00 38.41 2.52
1564 3187 9.643693 ACAAGAATGCTTTATAATTTGGAAGTG 57.356 29.630 0.00 0.00 30.14 3.16
1618 8524 5.864418 AGTTCTGAACCACTACTTGTACA 57.136 39.130 16.48 0.00 0.00 2.90
1619 8525 6.742109 TGTAGTTCTGAACCACTACTTGTAC 58.258 40.000 17.59 10.74 43.96 2.90
1729 8635 6.267699 TCAGTTCTTCATCACTCCTACTTTCA 59.732 38.462 0.00 0.00 0.00 2.69
1838 8748 9.010029 CAACATGTTCTAGTGGTAATAAAACCT 57.990 33.333 8.48 0.00 40.44 3.50
1960 8874 6.897706 AGTAATTCGGAATAGAGGGAGTAC 57.102 41.667 3.22 0.84 0.00 2.73
1961 8875 6.837568 ACAAGTAATTCGGAATAGAGGGAGTA 59.162 38.462 3.22 0.00 0.00 2.59
1962 8876 5.661759 ACAAGTAATTCGGAATAGAGGGAGT 59.338 40.000 3.22 0.00 0.00 3.85
1963 8877 6.163135 ACAAGTAATTCGGAATAGAGGGAG 57.837 41.667 3.22 0.00 0.00 4.30
1964 8878 5.221185 CGACAAGTAATTCGGAATAGAGGGA 60.221 44.000 3.22 0.00 0.00 4.20
1965 8879 4.982916 CGACAAGTAATTCGGAATAGAGGG 59.017 45.833 3.22 0.00 0.00 4.30
1966 8880 4.444720 GCGACAAGTAATTCGGAATAGAGG 59.555 45.833 3.22 0.00 35.73 3.69
1967 8881 5.041287 TGCGACAAGTAATTCGGAATAGAG 58.959 41.667 3.22 0.00 35.73 2.43
1968 8882 5.001237 TGCGACAAGTAATTCGGAATAGA 57.999 39.130 3.22 0.00 35.73 1.98
1969 8883 4.209288 CCTGCGACAAGTAATTCGGAATAG 59.791 45.833 3.22 0.00 35.02 1.73
1970 8884 4.116961 CCTGCGACAAGTAATTCGGAATA 58.883 43.478 3.22 0.00 35.02 1.75
1971 8885 2.936498 CCTGCGACAAGTAATTCGGAAT 59.064 45.455 0.00 0.00 35.02 3.01
1972 8886 2.289195 ACCTGCGACAAGTAATTCGGAA 60.289 45.455 0.00 0.00 35.02 4.30
1973 8887 1.274167 ACCTGCGACAAGTAATTCGGA 59.726 47.619 0.00 0.00 35.73 4.55
1974 8888 1.722011 ACCTGCGACAAGTAATTCGG 58.278 50.000 0.00 0.00 35.73 4.30
1975 8889 3.245284 CCATACCTGCGACAAGTAATTCG 59.755 47.826 0.00 0.00 38.31 3.34
1976 8890 4.439057 TCCATACCTGCGACAAGTAATTC 58.561 43.478 0.00 0.00 0.00 2.17
1977 8891 4.481368 TCCATACCTGCGACAAGTAATT 57.519 40.909 0.00 0.00 0.00 1.40
1978 8892 4.141711 ACATCCATACCTGCGACAAGTAAT 60.142 41.667 0.00 0.00 0.00 1.89
1979 8893 3.196901 ACATCCATACCTGCGACAAGTAA 59.803 43.478 0.00 0.00 0.00 2.24
1980 8894 2.764010 ACATCCATACCTGCGACAAGTA 59.236 45.455 0.00 0.00 0.00 2.24
1981 8895 1.555075 ACATCCATACCTGCGACAAGT 59.445 47.619 0.00 0.00 0.00 3.16
1982 8896 2.315925 ACATCCATACCTGCGACAAG 57.684 50.000 0.00 0.00 0.00 3.16
1983 8897 3.641436 AGATACATCCATACCTGCGACAA 59.359 43.478 0.00 0.00 0.00 3.18
1984 8898 3.230976 AGATACATCCATACCTGCGACA 58.769 45.455 0.00 0.00 0.00 4.35
1985 8899 3.944055 AGATACATCCATACCTGCGAC 57.056 47.619 0.00 0.00 0.00 5.19
1986 8900 4.918588 TCTAGATACATCCATACCTGCGA 58.081 43.478 0.00 0.00 0.00 5.10
1987 8901 5.126222 ACATCTAGATACATCCATACCTGCG 59.874 44.000 4.54 0.00 0.00 5.18
1988 8902 6.537453 ACATCTAGATACATCCATACCTGC 57.463 41.667 4.54 0.00 0.00 4.85
2014 8928 9.547753 GCAGAAATGGATGTATCTAGAACTAAA 57.452 33.333 0.00 0.00 0.00 1.85
2015 8929 7.867909 CGCAGAAATGGATGTATCTAGAACTAA 59.132 37.037 0.00 0.00 0.00 2.24
2016 8930 7.230712 TCGCAGAAATGGATGTATCTAGAACTA 59.769 37.037 0.00 0.00 0.00 2.24
2017 8931 6.040955 TCGCAGAAATGGATGTATCTAGAACT 59.959 38.462 0.00 0.00 0.00 3.01
2018 8932 6.144724 GTCGCAGAAATGGATGTATCTAGAAC 59.855 42.308 0.00 0.00 39.69 3.01
2019 8933 6.216569 GTCGCAGAAATGGATGTATCTAGAA 58.783 40.000 0.00 0.00 39.69 2.10
2020 8934 5.562890 CGTCGCAGAAATGGATGTATCTAGA 60.563 44.000 0.00 0.00 39.69 2.43
2021 8935 4.618912 CGTCGCAGAAATGGATGTATCTAG 59.381 45.833 0.00 0.00 39.69 2.43
2022 8936 4.277423 TCGTCGCAGAAATGGATGTATCTA 59.723 41.667 0.00 0.00 39.69 1.98
2023 8937 3.068165 TCGTCGCAGAAATGGATGTATCT 59.932 43.478 0.00 0.00 39.69 1.98
2024 8938 3.381045 TCGTCGCAGAAATGGATGTATC 58.619 45.455 0.00 0.00 39.69 2.24
2025 8939 3.181475 ACTCGTCGCAGAAATGGATGTAT 60.181 43.478 0.00 0.00 39.69 2.29
2026 8940 2.165641 ACTCGTCGCAGAAATGGATGTA 59.834 45.455 0.00 0.00 39.69 2.29
2027 8941 1.066858 ACTCGTCGCAGAAATGGATGT 60.067 47.619 0.00 0.00 39.69 3.06
2028 8942 1.645034 ACTCGTCGCAGAAATGGATG 58.355 50.000 0.00 0.00 39.69 3.51
2029 8943 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
2030 8944 3.520290 ATTACTCGTCGCAGAAATGGA 57.480 42.857 0.00 0.00 39.69 3.41
2031 8945 4.334443 CAAATTACTCGTCGCAGAAATGG 58.666 43.478 0.00 0.00 39.69 3.16
2032 8946 4.092821 TCCAAATTACTCGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
2033 8947 4.250464 TCCAAATTACTCGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
2034 8948 3.655486 TCCAAATTACTCGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
2035 8949 3.306917 TCCAAATTACTCGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
2036 8950 2.991190 GTTCCAAATTACTCGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
2037 8951 2.222508 CGTTCCAAATTACTCGTCGCAG 60.223 50.000 0.00 0.00 0.00 5.18
2038 8952 1.722464 CGTTCCAAATTACTCGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
2039 8953 1.060122 CCGTTCCAAATTACTCGTCGC 59.940 52.381 0.00 0.00 0.00 5.19
2040 8954 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
2041 8955 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
2042 8956 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
2043 8957 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
2044 8958 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
2045 8959 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
2046 8960 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
2047 8961 5.703730 AATACTCCCTCCGTTCCAAATTA 57.296 39.130 0.00 0.00 0.00 1.40
2048 8962 4.586306 AATACTCCCTCCGTTCCAAATT 57.414 40.909 0.00 0.00 0.00 1.82
2049 8963 4.263771 ACAAATACTCCCTCCGTTCCAAAT 60.264 41.667 0.00 0.00 0.00 2.32
2050 8964 3.073356 ACAAATACTCCCTCCGTTCCAAA 59.927 43.478 0.00 0.00 0.00 3.28
2051 8965 2.640826 ACAAATACTCCCTCCGTTCCAA 59.359 45.455 0.00 0.00 0.00 3.53
2052 8966 2.235402 GACAAATACTCCCTCCGTTCCA 59.765 50.000 0.00 0.00 0.00 3.53
2053 8967 2.235402 TGACAAATACTCCCTCCGTTCC 59.765 50.000 0.00 0.00 0.00 3.62
2054 8968 3.604875 TGACAAATACTCCCTCCGTTC 57.395 47.619 0.00 0.00 0.00 3.95
2055 8969 4.569719 ATTGACAAATACTCCCTCCGTT 57.430 40.909 0.00 0.00 0.00 4.44
2056 8970 4.569719 AATTGACAAATACTCCCTCCGT 57.430 40.909 0.00 0.00 0.00 4.69
2057 8971 5.183140 ACAAAATTGACAAATACTCCCTCCG 59.817 40.000 0.00 0.00 0.00 4.63
2058 8972 6.590234 ACAAAATTGACAAATACTCCCTCC 57.410 37.500 0.00 0.00 0.00 4.30
2059 8973 7.393515 AGGTACAAAATTGACAAATACTCCCTC 59.606 37.037 0.00 0.00 0.00 4.30
2060 8974 7.176690 CAGGTACAAAATTGACAAATACTCCCT 59.823 37.037 0.00 0.00 0.00 4.20
2061 8975 7.312899 CAGGTACAAAATTGACAAATACTCCC 58.687 38.462 0.00 0.00 0.00 4.30
2062 8976 7.312899 CCAGGTACAAAATTGACAAATACTCC 58.687 38.462 0.00 0.00 0.00 3.85
2063 8977 6.806739 GCCAGGTACAAAATTGACAAATACTC 59.193 38.462 0.00 0.00 0.00 2.59
2064 8978 6.266558 TGCCAGGTACAAAATTGACAAATACT 59.733 34.615 0.00 0.00 0.00 2.12
2179 9176 8.593679 TGGACAATAGTGTTCTCTCAAAATCTA 58.406 33.333 2.84 0.00 38.41 1.98
2291 19232 4.380531 TGGTGCTTTCTTTCTCTGTAGTG 58.619 43.478 0.00 0.00 0.00 2.74
2378 19319 8.985315 AATATTTGATAGAGACAAAGGCATCA 57.015 30.769 0.00 0.00 39.90 3.07
2641 22899 3.009033 ACTGAATCAAATCGAAGGTCCCA 59.991 43.478 0.00 0.00 0.00 4.37
2699 22958 5.853936 TGACACCTAAGAAATGGATATCCG 58.146 41.667 17.04 1.85 39.43 4.18
2737 22996 6.808321 AGAACTCTGCCCTGTATTATACAA 57.192 37.500 6.52 0.00 38.38 2.41
2904 23170 2.567169 TGATGATCACGAGGTCTTTGGT 59.433 45.455 0.00 0.00 0.00 3.67
2917 23183 0.961753 CGTCTCCGGGATGATGATCA 59.038 55.000 0.00 0.00 32.95 2.92
2919 23185 2.163509 CTACGTCTCCGGGATGATGAT 58.836 52.381 16.26 8.30 38.78 2.45
2937 23203 0.686441 CCCACGATGGACCAGGACTA 60.686 60.000 0.00 0.00 40.96 2.59
3000 23266 2.157738 GCATGGATCTATGTGGAAGGC 58.842 52.381 19.01 0.65 0.00 4.35
3001 23267 2.224378 ACGCATGGATCTATGTGGAAGG 60.224 50.000 29.15 11.97 41.62 3.46
3002 23268 3.062763 GACGCATGGATCTATGTGGAAG 58.937 50.000 29.15 14.77 41.62 3.46
3003 23269 2.545742 CGACGCATGGATCTATGTGGAA 60.546 50.000 29.15 0.00 41.62 3.53
3004 23270 1.000274 CGACGCATGGATCTATGTGGA 60.000 52.381 29.15 0.00 41.62 4.02
3005 23271 1.000274 TCGACGCATGGATCTATGTGG 60.000 52.381 29.15 19.31 41.62 4.17
3006 23272 2.323059 CTCGACGCATGGATCTATGTG 58.677 52.381 25.74 25.74 42.67 3.21
3007 23273 1.270826 CCTCGACGCATGGATCTATGT 59.729 52.381 19.01 1.56 0.00 2.29
3008 23274 1.988063 CCTCGACGCATGGATCTATG 58.012 55.000 14.36 14.36 0.00 2.23
3009 23275 0.244994 GCCTCGACGCATGGATCTAT 59.755 55.000 1.23 0.00 0.00 1.98
3010 23276 1.106944 TGCCTCGACGCATGGATCTA 61.107 55.000 4.90 0.00 32.62 1.98
3011 23277 2.360949 CTGCCTCGACGCATGGATCT 62.361 60.000 9.55 0.00 38.30 2.75
3012 23278 1.953138 CTGCCTCGACGCATGGATC 60.953 63.158 9.55 0.00 38.30 3.36
3013 23279 2.107750 CTGCCTCGACGCATGGAT 59.892 61.111 9.55 0.00 38.30 3.41
3014 23280 4.819761 GCTGCCTCGACGCATGGA 62.820 66.667 9.55 0.00 38.30 3.41
3015 23281 2.906182 TAAGCTGCCTCGACGCATGG 62.906 60.000 9.55 0.84 38.30 3.66
3016 23282 1.519234 TAAGCTGCCTCGACGCATG 60.519 57.895 9.55 5.70 38.30 4.06
3017 23283 1.519455 GTAAGCTGCCTCGACGCAT 60.519 57.895 9.55 0.00 38.30 4.73
3018 23284 2.126071 GTAAGCTGCCTCGACGCA 60.126 61.111 8.80 8.80 37.19 5.24
3019 23285 1.874466 GAGTAAGCTGCCTCGACGC 60.874 63.158 0.00 0.00 0.00 5.19
3020 23286 0.101399 ATGAGTAAGCTGCCTCGACG 59.899 55.000 0.00 0.00 0.00 5.12
3021 23287 1.565305 CATGAGTAAGCTGCCTCGAC 58.435 55.000 0.00 0.00 0.00 4.20
3022 23288 0.179100 GCATGAGTAAGCTGCCTCGA 60.179 55.000 0.00 0.00 0.00 4.04
3023 23289 2.305405 GCATGAGTAAGCTGCCTCG 58.695 57.895 0.00 0.00 0.00 4.63
3027 23293 0.950116 GGATGGCATGAGTAAGCTGC 59.050 55.000 3.81 0.00 35.16 5.25
3028 23294 2.336945 TGGATGGCATGAGTAAGCTG 57.663 50.000 3.81 0.00 0.00 4.24
3029 23295 2.860009 CATGGATGGCATGAGTAAGCT 58.140 47.619 3.81 0.00 32.09 3.74
3030 23296 1.268899 GCATGGATGGCATGAGTAAGC 59.731 52.381 3.81 0.00 32.09 3.09
3031 23297 1.534163 CGCATGGATGGCATGAGTAAG 59.466 52.381 3.81 0.00 32.09 2.34
3032 23298 1.596603 CGCATGGATGGCATGAGTAA 58.403 50.000 3.81 0.00 32.09 2.24
3033 23299 0.886043 GCGCATGGATGGCATGAGTA 60.886 55.000 3.81 0.00 33.41 2.59
3034 23300 2.191513 GCGCATGGATGGCATGAGT 61.192 57.895 3.81 0.00 33.41 3.41
3035 23301 2.190841 TGCGCATGGATGGCATGAG 61.191 57.895 5.66 0.00 31.96 2.90
3036 23302 2.124236 TGCGCATGGATGGCATGA 60.124 55.556 5.66 0.00 31.96 3.07
3037 23303 2.027024 GTGCGCATGGATGGCATG 59.973 61.111 15.91 0.00 36.73 4.06
3038 23304 1.830847 ATGTGCGCATGGATGGCAT 60.831 52.632 15.91 7.58 36.73 4.40
3039 23305 2.440613 ATGTGCGCATGGATGGCA 60.441 55.556 15.91 4.96 33.37 4.92
3062 23328 0.875474 CAACAACAAAAGGCCGCCTG 60.875 55.000 14.19 3.87 32.13 4.85
3079 23345 6.578944 AGTTGTTACAGGATATATGTCGCAA 58.421 36.000 0.00 2.39 32.02 4.85
3080 23346 6.156748 AGTTGTTACAGGATATATGTCGCA 57.843 37.500 0.00 0.00 32.02 5.10
3082 23348 8.975439 GGTTTAGTTGTTACAGGATATATGTCG 58.025 37.037 0.00 0.00 32.02 4.35
3083 23349 9.269453 GGGTTTAGTTGTTACAGGATATATGTC 57.731 37.037 0.00 0.00 32.02 3.06
3084 23350 8.999895 AGGGTTTAGTTGTTACAGGATATATGT 58.000 33.333 0.00 0.00 34.62 2.29
3172 23438 7.557358 TCATACATTCATATATGGCAATGTCCC 59.443 37.037 24.94 0.00 36.88 4.46
3255 23521 4.785346 ATCACTAGAGTCGGTACCCTTA 57.215 45.455 6.25 0.00 0.00 2.69
3399 23670 9.768215 TCTGAAAAAGATTATGGGAGGTAATTT 57.232 29.630 0.00 0.00 0.00 1.82
3400 23671 9.190317 GTCTGAAAAAGATTATGGGAGGTAATT 57.810 33.333 0.00 0.00 37.23 1.40
3401 23672 8.336235 TGTCTGAAAAAGATTATGGGAGGTAAT 58.664 33.333 0.00 0.00 37.23 1.89
3402 23673 7.695055 TGTCTGAAAAAGATTATGGGAGGTAA 58.305 34.615 0.00 0.00 37.23 2.85
3403 23674 7.265599 TGTCTGAAAAAGATTATGGGAGGTA 57.734 36.000 0.00 0.00 37.23 3.08
3404 23675 6.139679 TGTCTGAAAAAGATTATGGGAGGT 57.860 37.500 0.00 0.00 37.23 3.85
3405 23676 6.040166 CCATGTCTGAAAAAGATTATGGGAGG 59.960 42.308 11.07 0.00 42.81 4.30
3406 23677 6.830324 TCCATGTCTGAAAAAGATTATGGGAG 59.170 38.462 15.62 0.00 44.62 4.30
3407 23678 6.730447 TCCATGTCTGAAAAAGATTATGGGA 58.270 36.000 15.62 0.00 44.62 4.37
3408 23679 7.592885 ATCCATGTCTGAAAAAGATTATGGG 57.407 36.000 15.62 0.00 44.62 4.00
3436 23707 9.460019 TGACACAAATATGAATATGAAAGTGGA 57.540 29.630 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.