Multiple sequence alignment - TraesCS7D01G037800

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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 TraesCS7D01G037800 chr7D 100.000 3531 0 0 1 3531 19210083 19206553 0.000000e+00 6521.0
1 TraesCS7D01G037800 chr7D 88.321 1781 180 19 1186 2949 19329269 19327500 0.000000e+00 2111.0
2 TraesCS7D01G037800 chr7D 86.343 864 72 14 311 1167 19330077 19329253 0.000000e+00 900.0
3 TraesCS7D01G037800 chr7D 93.248 548 25 6 2991 3529 156825316 156824772 0.000000e+00 797.0
4 TraesCS7D01G037800 chr7D 91.200 500 33 2 240 728 19283518 19283019 0.000000e+00 669.0
5 TraesCS7D01G037800 chr7D 97.727 44 1 0 197 240 19283966 19283923 3.780000e-10 76.8
6 TraesCS7D01G037800 chr7A 94.369 1776 64 17 1184 2950 19705974 19704226 0.000000e+00 2693.0
7 TraesCS7D01G037800 chr7A 82.489 908 77 30 316 1167 19706836 19705955 0.000000e+00 721.0
8 TraesCS7D01G037800 chr7A 95.455 44 2 0 2949 2992 19704170 19704127 1.760000e-08 71.3
9 TraesCS7D01G037800 chr4A 93.775 1783 71 9 1183 2950 713728850 713730607 0.000000e+00 2641.0
10 TraesCS7D01G037800 chr4A 90.798 978 38 23 196 1164 713727932 713728866 0.000000e+00 1260.0
11 TraesCS7D01G037800 chr4A 91.751 497 32 7 2996 3487 100125258 100124766 0.000000e+00 682.0
12 TraesCS7D01G037800 chr4A 86.935 199 21 4 2 200 722205509 722205702 5.930000e-53 219.0
13 TraesCS7D01G037800 chr4A 97.727 44 1 0 2949 2992 713730663 713730706 3.780000e-10 76.8
14 TraesCS7D01G037800 chr2A 92.043 553 33 4 2988 3531 668222672 668222122 0.000000e+00 767.0
15 TraesCS7D01G037800 chr2A 91.193 545 36 6 2996 3531 580856975 580856434 0.000000e+00 730.0
16 TraesCS7D01G037800 chr2A 88.806 536 54 6 2998 3531 21922069 21921538 0.000000e+00 652.0
17 TraesCS7D01G037800 chr3D 91.356 509 33 5 2995 3495 122691282 122691787 0.000000e+00 686.0
18 TraesCS7D01G037800 chr6A 80.562 890 150 18 1698 2569 579005936 579006820 0.000000e+00 664.0
19 TraesCS7D01G037800 chr6A 88.321 548 48 6 2993 3531 212217820 212217280 0.000000e+00 643.0
20 TraesCS7D01G037800 chr2D 89.901 505 49 2 3029 3531 155825179 155825683 0.000000e+00 649.0
21 TraesCS7D01G037800 chr6B 80.529 832 150 11 1688 2512 653072736 653073562 2.310000e-176 628.0
22 TraesCS7D01G037800 chr2B 87.687 536 51 10 2995 3521 167507001 167507530 8.380000e-171 610.0


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 TraesCS7D01G037800 chr7D 19206553 19210083 3530 True 6521.000000 6521 100.0000 1 3531 1 chr7D.!!$R1 3530
1 TraesCS7D01G037800 chr7D 19327500 19330077 2577 True 1505.500000 2111 87.3320 311 2949 2 chr7D.!!$R4 2638
2 TraesCS7D01G037800 chr7D 156824772 156825316 544 True 797.000000 797 93.2480 2991 3529 1 chr7D.!!$R2 538
3 TraesCS7D01G037800 chr7D 19283019 19283966 947 True 372.900000 669 94.4635 197 728 2 chr7D.!!$R3 531
4 TraesCS7D01G037800 chr7A 19704127 19706836 2709 True 1161.766667 2693 90.7710 316 2992 3 chr7A.!!$R1 2676
5 TraesCS7D01G037800 chr4A 713727932 713730706 2774 False 1325.933333 2641 94.1000 196 2992 3 chr4A.!!$F2 2796
6 TraesCS7D01G037800 chr2A 668222122 668222672 550 True 767.000000 767 92.0430 2988 3531 1 chr2A.!!$R3 543
7 TraesCS7D01G037800 chr2A 580856434 580856975 541 True 730.000000 730 91.1930 2996 3531 1 chr2A.!!$R2 535
8 TraesCS7D01G037800 chr2A 21921538 21922069 531 True 652.000000 652 88.8060 2998 3531 1 chr2A.!!$R1 533
9 TraesCS7D01G037800 chr3D 122691282 122691787 505 False 686.000000 686 91.3560 2995 3495 1 chr3D.!!$F1 500
10 TraesCS7D01G037800 chr6A 579005936 579006820 884 False 664.000000 664 80.5620 1698 2569 1 chr6A.!!$F1 871
11 TraesCS7D01G037800 chr6A 212217280 212217820 540 True 643.000000 643 88.3210 2993 3531 1 chr6A.!!$R1 538
12 TraesCS7D01G037800 chr2D 155825179 155825683 504 False 649.000000 649 89.9010 3029 3531 1 chr2D.!!$F1 502
13 TraesCS7D01G037800 chr6B 653072736 653073562 826 False 628.000000 628 80.5290 1688 2512 1 chr6B.!!$F1 824
14 TraesCS7D01G037800 chr2B 167507001 167507530 529 False 610.000000 610 87.6870 2995 3521 1 chr2B.!!$F1 526

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
69 70 0.034059 GCGAGGGAGACATATGTGGG 59.966 60.0 14.43 0.0 0.00 4.61 F
70 71 0.034059 CGAGGGAGACATATGTGGGC 59.966 60.0 14.43 0.0 0.00 5.36 F
73 74 0.109342 GGGAGACATATGTGGGCCAG 59.891 60.0 14.43 0.0 0.00 4.85 F
82 83 0.251341 ATGTGGGCCAGTCTTCCAAC 60.251 55.0 6.40 0.0 31.73 3.77 F
89 90 0.321564 CCAGTCTTCCAACGATGCCA 60.322 55.0 0.00 0.0 0.00 4.92 F
112 113 0.390603 TATCAACGTTGTGAGGGCGG 60.391 55.0 26.47 0.0 0.00 6.13 F
1764 2266 0.753867 GGAGCTAAGTAGACAGCCCC 59.246 60.0 0.00 0.0 38.61 5.80 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1127 1621 2.525368 TCAGAGTACAGCAGCAGGTAA 58.475 47.619 0.00 0.00 0.00 2.85 R
1614 2112 2.611292 GCAGGCAGTATGATGAGTGAAC 59.389 50.000 0.00 0.00 39.69 3.18 R
2176 2684 3.117888 ACTCCAGCTTTTCTTTCTCCACA 60.118 43.478 0.00 0.00 0.00 4.17 R
2197 2705 6.289064 CCCATACACAGGTAGATTAAAGGAC 58.711 44.000 0.00 0.00 31.88 3.85 R
2275 2783 7.383687 TGGTCTCGAATAGTTTGATGTTAGTT 58.616 34.615 0.00 0.00 0.00 2.24 R
2290 2798 2.780010 AGGATCCCAATTGGTCTCGAAT 59.220 45.455 22.91 6.58 34.77 3.34 R
3025 3627 0.911045 TCTTCCAGATGCAGAGGCCA 60.911 55.000 5.01 0.00 40.13 5.36 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
22 23 3.261643 AGGAGAATGGGGATTTGTTTTGC 59.738 43.478 0.00 0.00 0.00 3.68
23 24 3.599343 GAGAATGGGGATTTGTTTTGCC 58.401 45.455 0.00 0.00 0.00 4.52
24 25 3.250617 AGAATGGGGATTTGTTTTGCCT 58.749 40.909 0.00 0.00 0.00 4.75
25 26 3.008266 AGAATGGGGATTTGTTTTGCCTG 59.992 43.478 0.00 0.00 0.00 4.85
26 27 1.799933 TGGGGATTTGTTTTGCCTGT 58.200 45.000 0.00 0.00 0.00 4.00
27 28 2.964209 TGGGGATTTGTTTTGCCTGTA 58.036 42.857 0.00 0.00 0.00 2.74
28 29 2.896685 TGGGGATTTGTTTTGCCTGTAG 59.103 45.455 0.00 0.00 0.00 2.74
29 30 3.161866 GGGGATTTGTTTTGCCTGTAGA 58.838 45.455 0.00 0.00 0.00 2.59
30 31 3.193479 GGGGATTTGTTTTGCCTGTAGAG 59.807 47.826 0.00 0.00 0.00 2.43
31 32 3.826729 GGGATTTGTTTTGCCTGTAGAGT 59.173 43.478 0.00 0.00 0.00 3.24
32 33 5.007682 GGGATTTGTTTTGCCTGTAGAGTA 58.992 41.667 0.00 0.00 0.00 2.59
33 34 5.123979 GGGATTTGTTTTGCCTGTAGAGTAG 59.876 44.000 0.00 0.00 0.00 2.57
34 35 5.938125 GGATTTGTTTTGCCTGTAGAGTAGA 59.062 40.000 0.00 0.00 0.00 2.59
35 36 6.599638 GGATTTGTTTTGCCTGTAGAGTAGAT 59.400 38.462 0.00 0.00 0.00 1.98
36 37 6.801539 TTTGTTTTGCCTGTAGAGTAGATG 57.198 37.500 0.00 0.00 0.00 2.90
37 38 4.832248 TGTTTTGCCTGTAGAGTAGATGG 58.168 43.478 0.00 0.00 0.00 3.51
38 39 4.530553 TGTTTTGCCTGTAGAGTAGATGGA 59.469 41.667 0.00 0.00 0.00 3.41
39 40 5.189736 TGTTTTGCCTGTAGAGTAGATGGAT 59.810 40.000 0.00 0.00 0.00 3.41
40 41 6.382859 TGTTTTGCCTGTAGAGTAGATGGATA 59.617 38.462 0.00 0.00 0.00 2.59
41 42 6.656632 TTTGCCTGTAGAGTAGATGGATAG 57.343 41.667 0.00 0.00 0.00 2.08
42 43 5.584551 TGCCTGTAGAGTAGATGGATAGA 57.415 43.478 0.00 0.00 0.00 1.98
43 44 5.565509 TGCCTGTAGAGTAGATGGATAGAG 58.434 45.833 0.00 0.00 0.00 2.43
44 45 5.073827 TGCCTGTAGAGTAGATGGATAGAGT 59.926 44.000 0.00 0.00 0.00 3.24
45 46 6.007703 GCCTGTAGAGTAGATGGATAGAGTT 58.992 44.000 0.00 0.00 0.00 3.01
46 47 6.072175 GCCTGTAGAGTAGATGGATAGAGTTG 60.072 46.154 0.00 0.00 0.00 3.16
47 48 6.072175 CCTGTAGAGTAGATGGATAGAGTTGC 60.072 46.154 0.00 0.00 0.00 4.17
48 49 6.365520 TGTAGAGTAGATGGATAGAGTTGCA 58.634 40.000 0.00 0.00 0.00 4.08
49 50 7.007116 TGTAGAGTAGATGGATAGAGTTGCAT 58.993 38.462 0.00 0.00 0.00 3.96
50 51 6.343716 AGAGTAGATGGATAGAGTTGCATG 57.656 41.667 0.00 0.00 0.00 4.06
51 52 4.892433 AGTAGATGGATAGAGTTGCATGC 58.108 43.478 11.82 11.82 0.00 4.06
52 53 2.763933 AGATGGATAGAGTTGCATGCG 58.236 47.619 14.09 0.00 0.00 4.73
53 54 2.366590 AGATGGATAGAGTTGCATGCGA 59.633 45.455 14.09 8.74 0.00 5.10
54 55 2.229675 TGGATAGAGTTGCATGCGAG 57.770 50.000 14.09 0.00 0.00 5.03
55 56 1.202568 TGGATAGAGTTGCATGCGAGG 60.203 52.381 14.09 0.00 0.00 4.63
56 57 1.506493 GATAGAGTTGCATGCGAGGG 58.494 55.000 14.09 0.00 0.00 4.30
57 58 1.069204 GATAGAGTTGCATGCGAGGGA 59.931 52.381 14.09 0.00 0.00 4.20
58 59 0.461548 TAGAGTTGCATGCGAGGGAG 59.538 55.000 14.09 0.00 0.00 4.30
59 60 1.219124 GAGTTGCATGCGAGGGAGA 59.781 57.895 14.09 0.00 0.00 3.71
60 61 1.078848 AGTTGCATGCGAGGGAGAC 60.079 57.895 14.09 0.00 0.00 3.36
61 62 1.375908 GTTGCATGCGAGGGAGACA 60.376 57.895 14.09 0.00 0.00 3.41
62 63 0.745845 GTTGCATGCGAGGGAGACAT 60.746 55.000 14.09 0.00 0.00 3.06
63 64 0.829990 TTGCATGCGAGGGAGACATA 59.170 50.000 14.09 0.00 0.00 2.29
64 65 1.051008 TGCATGCGAGGGAGACATAT 58.949 50.000 14.09 0.00 0.00 1.78
65 66 1.270465 TGCATGCGAGGGAGACATATG 60.270 52.381 14.09 0.00 0.00 1.78
66 67 1.270518 GCATGCGAGGGAGACATATGT 60.271 52.381 8.43 8.43 0.00 2.29
67 68 2.410939 CATGCGAGGGAGACATATGTG 58.589 52.381 14.43 0.00 0.00 3.21
68 69 0.752658 TGCGAGGGAGACATATGTGG 59.247 55.000 14.43 0.00 0.00 4.17
69 70 0.034059 GCGAGGGAGACATATGTGGG 59.966 60.000 14.43 0.00 0.00 4.61
70 71 0.034059 CGAGGGAGACATATGTGGGC 59.966 60.000 14.43 0.00 0.00 5.36
71 72 0.398318 GAGGGAGACATATGTGGGCC 59.602 60.000 14.43 11.00 0.00 5.80
72 73 0.327480 AGGGAGACATATGTGGGCCA 60.327 55.000 14.43 0.00 0.00 5.36
73 74 0.109342 GGGAGACATATGTGGGCCAG 59.891 60.000 14.43 0.00 0.00 4.85
74 75 0.839946 GGAGACATATGTGGGCCAGT 59.160 55.000 14.43 0.00 0.00 4.00
75 76 1.202698 GGAGACATATGTGGGCCAGTC 60.203 57.143 14.43 10.95 0.00 3.51
76 77 1.765314 GAGACATATGTGGGCCAGTCT 59.235 52.381 21.37 21.37 38.89 3.24
77 78 2.171448 GAGACATATGTGGGCCAGTCTT 59.829 50.000 21.92 9.64 36.56 3.01
78 79 2.171448 AGACATATGTGGGCCAGTCTTC 59.829 50.000 14.43 2.02 32.88 2.87
79 80 1.212935 ACATATGTGGGCCAGTCTTCC 59.787 52.381 6.40 0.00 0.00 3.46
80 81 1.212688 CATATGTGGGCCAGTCTTCCA 59.787 52.381 6.40 0.00 0.00 3.53
81 82 1.367346 TATGTGGGCCAGTCTTCCAA 58.633 50.000 6.40 0.00 31.73 3.53
82 83 0.251341 ATGTGGGCCAGTCTTCCAAC 60.251 55.000 6.40 0.00 31.73 3.77
83 84 1.966451 GTGGGCCAGTCTTCCAACG 60.966 63.158 6.40 0.00 31.73 4.10
84 85 2.144078 TGGGCCAGTCTTCCAACGA 61.144 57.895 0.00 0.00 0.00 3.85
85 86 1.299976 GGGCCAGTCTTCCAACGAT 59.700 57.895 4.39 0.00 0.00 3.73
86 87 1.026718 GGGCCAGTCTTCCAACGATG 61.027 60.000 4.39 0.00 0.00 3.84
87 88 1.648467 GGCCAGTCTTCCAACGATGC 61.648 60.000 0.00 0.00 0.00 3.91
88 89 1.648467 GCCAGTCTTCCAACGATGCC 61.648 60.000 0.00 0.00 0.00 4.40
89 90 0.321564 CCAGTCTTCCAACGATGCCA 60.322 55.000 0.00 0.00 0.00 4.92
90 91 1.522668 CAGTCTTCCAACGATGCCAA 58.477 50.000 0.00 0.00 0.00 4.52
91 92 1.879380 CAGTCTTCCAACGATGCCAAA 59.121 47.619 0.00 0.00 0.00 3.28
92 93 2.489329 CAGTCTTCCAACGATGCCAAAT 59.511 45.455 0.00 0.00 0.00 2.32
93 94 3.057315 CAGTCTTCCAACGATGCCAAATT 60.057 43.478 0.00 0.00 0.00 1.82
94 95 4.155826 CAGTCTTCCAACGATGCCAAATTA 59.844 41.667 0.00 0.00 0.00 1.40
95 96 4.949856 AGTCTTCCAACGATGCCAAATTAT 59.050 37.500 0.00 0.00 0.00 1.28
96 97 5.066505 AGTCTTCCAACGATGCCAAATTATC 59.933 40.000 0.00 0.00 0.00 1.75
97 98 4.946772 TCTTCCAACGATGCCAAATTATCA 59.053 37.500 0.00 0.00 0.00 2.15
98 99 5.417266 TCTTCCAACGATGCCAAATTATCAA 59.583 36.000 0.00 0.00 0.00 2.57
99 100 4.992688 TCCAACGATGCCAAATTATCAAC 58.007 39.130 0.00 0.00 0.00 3.18
100 101 3.790820 CCAACGATGCCAAATTATCAACG 59.209 43.478 0.00 0.00 33.27 4.10
101 102 4.411327 CAACGATGCCAAATTATCAACGT 58.589 39.130 0.00 0.00 40.10 3.99
102 103 4.695217 ACGATGCCAAATTATCAACGTT 57.305 36.364 0.00 0.00 36.14 3.99
103 104 4.411327 ACGATGCCAAATTATCAACGTTG 58.589 39.130 22.35 22.35 36.14 4.10
104 105 4.083003 ACGATGCCAAATTATCAACGTTGT 60.083 37.500 26.47 16.50 36.14 3.32
105 106 4.262743 CGATGCCAAATTATCAACGTTGTG 59.737 41.667 26.47 16.24 0.00 3.33
106 107 4.837896 TGCCAAATTATCAACGTTGTGA 57.162 36.364 26.47 10.40 0.00 3.58
107 108 4.793071 TGCCAAATTATCAACGTTGTGAG 58.207 39.130 26.47 11.74 0.00 3.51
108 109 4.165779 GCCAAATTATCAACGTTGTGAGG 58.834 43.478 26.47 18.91 0.00 3.86
109 110 4.732784 CCAAATTATCAACGTTGTGAGGG 58.267 43.478 26.47 15.80 0.00 4.30
110 111 4.165779 CAAATTATCAACGTTGTGAGGGC 58.834 43.478 26.47 0.00 0.00 5.19
111 112 1.434555 TTATCAACGTTGTGAGGGCG 58.565 50.000 26.47 0.00 0.00 6.13
112 113 0.390603 TATCAACGTTGTGAGGGCGG 60.391 55.000 26.47 0.00 0.00 6.13
113 114 2.391724 ATCAACGTTGTGAGGGCGGT 62.392 55.000 26.47 0.00 0.00 5.68
114 115 2.590575 AACGTTGTGAGGGCGGTG 60.591 61.111 0.00 0.00 0.00 4.94
149 150 8.757164 TTTTGTCTGCCATCTATGTATATACG 57.243 34.615 8.33 0.00 0.00 3.06
150 151 7.462571 TTGTCTGCCATCTATGTATATACGT 57.537 36.000 12.18 12.18 0.00 3.57
151 152 6.852664 TGTCTGCCATCTATGTATATACGTG 58.147 40.000 16.41 7.72 0.00 4.49
152 153 6.127730 TGTCTGCCATCTATGTATATACGTGG 60.128 42.308 16.41 13.79 0.00 4.94
153 154 5.006153 TGCCATCTATGTATATACGTGGC 57.994 43.478 24.20 24.20 38.99 5.01
154 155 4.464597 TGCCATCTATGTATATACGTGGCA 59.535 41.667 26.96 26.96 44.99 4.92
155 156 4.804139 GCCATCTATGTATATACGTGGCAC 59.196 45.833 25.10 7.79 38.46 5.01
156 157 5.623596 GCCATCTATGTATATACGTGGCACA 60.624 44.000 25.10 0.00 38.46 4.57
175 176 8.213518 TGGCACACATTTTTAAAAATTTAGCA 57.786 26.923 20.92 11.34 36.52 3.49
176 177 8.125448 TGGCACACATTTTTAAAAATTTAGCAC 58.875 29.630 20.92 15.27 36.52 4.40
177 178 8.341903 GGCACACATTTTTAAAAATTTAGCACT 58.658 29.630 20.92 0.00 36.52 4.40
178 179 9.157259 GCACACATTTTTAAAAATTTAGCACTG 57.843 29.630 20.92 12.59 36.52 3.66
179 180 9.649024 CACACATTTTTAAAAATTTAGCACTGG 57.351 29.630 20.92 10.65 36.52 4.00
180 181 9.606631 ACACATTTTTAAAAATTTAGCACTGGA 57.393 25.926 20.92 0.00 36.52 3.86
181 182 9.862585 CACATTTTTAAAAATTTAGCACTGGAC 57.137 29.630 20.92 0.00 36.52 4.02
182 183 9.606631 ACATTTTTAAAAATTTAGCACTGGACA 57.393 25.926 20.92 0.00 36.52 4.02
183 184 9.862585 CATTTTTAAAAATTTAGCACTGGACAC 57.137 29.630 20.92 0.00 36.52 3.67
184 185 9.606631 ATTTTTAAAAATTTAGCACTGGACACA 57.393 25.926 18.40 0.00 35.16 3.72
185 186 9.606631 TTTTTAAAAATTTAGCACTGGACACAT 57.393 25.926 9.31 0.00 0.00 3.21
187 188 9.906660 TTTAAAAATTTAGCACTGGACACATAG 57.093 29.630 0.00 0.00 0.00 2.23
188 189 7.524717 AAAAATTTAGCACTGGACACATAGT 57.475 32.000 0.00 0.00 0.00 2.12
189 190 6.500684 AAATTTAGCACTGGACACATAGTG 57.499 37.500 0.00 0.00 45.40 2.74
190 191 3.610040 TTAGCACTGGACACATAGTGG 57.390 47.619 0.00 0.00 43.41 4.00
191 192 1.644509 AGCACTGGACACATAGTGGA 58.355 50.000 0.00 0.00 43.41 4.02
192 193 1.977854 AGCACTGGACACATAGTGGAA 59.022 47.619 0.00 0.00 43.41 3.53
193 194 2.027745 AGCACTGGACACATAGTGGAAG 60.028 50.000 0.00 0.00 43.41 3.46
194 195 2.936993 GCACTGGACACATAGTGGAAGG 60.937 54.545 0.00 0.00 43.41 3.46
195 196 1.279271 ACTGGACACATAGTGGAAGGC 59.721 52.381 1.93 0.00 37.94 4.35
247 653 5.048713 CCAGTTTTTCTGACCAGATTGTACC 60.049 44.000 0.01 0.00 46.27 3.34
334 741 1.112113 GATTCACCGCAGACCTCCTA 58.888 55.000 0.00 0.00 0.00 2.94
665 1137 7.195646 TCGATGAAATGTATGGAAATTTGAGC 58.804 34.615 0.00 0.00 0.00 4.26
680 1152 2.957402 TGAGCTGGAGAAATGGTGTT 57.043 45.000 0.00 0.00 0.00 3.32
1127 1621 3.329520 TGGTATTGCCTACAACCTTGACT 59.670 43.478 0.00 0.00 38.99 3.41
1137 1631 1.537202 CAACCTTGACTTACCTGCTGC 59.463 52.381 0.00 0.00 0.00 5.25
1154 1648 2.746362 GCTGCTGTACTCTGAATTTGCT 59.254 45.455 0.00 0.00 0.00 3.91
1155 1649 3.190118 GCTGCTGTACTCTGAATTTGCTT 59.810 43.478 0.00 0.00 0.00 3.91
1156 1650 4.720090 CTGCTGTACTCTGAATTTGCTTG 58.280 43.478 0.00 0.00 0.00 4.01
1157 1651 3.503363 TGCTGTACTCTGAATTTGCTTGG 59.497 43.478 0.00 0.00 0.00 3.61
1158 1652 3.671702 GCTGTACTCTGAATTTGCTTGGC 60.672 47.826 0.00 0.00 0.00 4.52
1159 1653 3.485394 TGTACTCTGAATTTGCTTGGCA 58.515 40.909 0.00 0.00 36.47 4.92
1160 1654 3.503363 TGTACTCTGAATTTGCTTGGCAG 59.497 43.478 0.00 0.00 40.61 4.85
1161 1655 2.867624 ACTCTGAATTTGCTTGGCAGA 58.132 42.857 0.00 0.00 40.61 4.26
1162 1656 3.428532 ACTCTGAATTTGCTTGGCAGAT 58.571 40.909 0.00 0.00 40.61 2.90
1163 1657 3.830755 ACTCTGAATTTGCTTGGCAGATT 59.169 39.130 7.78 7.78 44.15 2.40
1164 1658 4.282703 ACTCTGAATTTGCTTGGCAGATTT 59.717 37.500 9.11 0.00 42.11 2.17
1165 1659 5.217978 TCTGAATTTGCTTGGCAGATTTT 57.782 34.783 9.11 0.00 42.11 1.82
1166 1660 6.015180 ACTCTGAATTTGCTTGGCAGATTTTA 60.015 34.615 9.11 3.04 42.11 1.52
1167 1661 6.938507 TCTGAATTTGCTTGGCAGATTTTAT 58.061 32.000 9.11 0.00 42.11 1.40
1168 1662 7.388437 TCTGAATTTGCTTGGCAGATTTTATT 58.612 30.769 9.11 0.00 42.11 1.40
1169 1663 7.879160 TCTGAATTTGCTTGGCAGATTTTATTT 59.121 29.630 9.11 0.00 42.11 1.40
1170 1664 8.393671 TGAATTTGCTTGGCAGATTTTATTTT 57.606 26.923 9.11 0.00 42.11 1.82
1171 1665 9.499479 TGAATTTGCTTGGCAGATTTTATTTTA 57.501 25.926 9.11 0.00 42.11 1.52
1177 1671 9.499479 TGCTTGGCAGATTTTATTTTATTTTGA 57.501 25.926 0.00 0.00 33.32 2.69
1383 1878 4.818546 CACTCTTCTTTGTCTCCAATGTGT 59.181 41.667 0.00 0.00 0.00 3.72
1614 2112 1.874019 CGCCGGAGTGTTCATCTCG 60.874 63.158 5.05 0.00 33.26 4.04
1764 2266 0.753867 GGAGCTAAGTAGACAGCCCC 59.246 60.000 0.00 0.00 38.61 5.80
1784 2286 8.030692 CAGCCCCAAATAATATCAATGTGTATG 58.969 37.037 0.00 0.00 0.00 2.39
2102 2608 2.301870 TCTTGTTGAGGAGGTACGCAAT 59.698 45.455 0.00 0.00 0.00 3.56
2176 2684 1.194781 ACTGATCACGACAGGGCCTT 61.195 55.000 1.32 0.00 39.38 4.35
2197 2705 3.480470 TGTGGAGAAAGAAAAGCTGGAG 58.520 45.455 0.00 0.00 0.00 3.86
2275 2783 3.084039 CCAGAGCCAGCAGTTTGAATTA 58.916 45.455 0.00 0.00 0.00 1.40
2334 2842 2.227089 GACGACTCGGAGGGCAATGT 62.227 60.000 10.23 0.00 0.00 2.71
2467 2975 4.181578 AGAAGTTTGCATATAACGTCGCT 58.818 39.130 9.15 0.00 38.48 4.93
2480 2988 1.082756 GTCGCTTTGCACCTTGTCG 60.083 57.895 0.00 0.00 0.00 4.35
2537 3046 4.092091 CACTGAAAAGAAGATGAGGCGTAC 59.908 45.833 0.00 0.00 0.00 3.67
2560 3075 3.058016 ACGATCTGTGGTCTTGCAATTTG 60.058 43.478 0.00 0.00 0.00 2.32
2765 3282 1.281656 GGCACGCACACTTAACCAC 59.718 57.895 0.00 0.00 0.00 4.16
2770 3287 1.138266 ACGCACACTTAACCACTGACT 59.862 47.619 0.00 0.00 0.00 3.41
2775 3299 3.576982 CACACTTAACCACTGACTAGGGA 59.423 47.826 0.00 0.00 0.00 4.20
2857 3401 6.876257 GGTGTGCATGGAAATATTTTTAACCA 59.124 34.615 8.36 8.36 0.00 3.67
2858 3402 7.552330 GGTGTGCATGGAAATATTTTTAACCAT 59.448 33.333 11.53 11.53 38.44 3.55
2992 3593 7.564793 ACATATGTAATGCTACAAGGAGTCAA 58.435 34.615 6.56 0.00 41.36 3.18
2993 3594 8.213679 ACATATGTAATGCTACAAGGAGTCAAT 58.786 33.333 6.56 0.00 41.36 2.57
2994 3595 9.060347 CATATGTAATGCTACAAGGAGTCAATT 57.940 33.333 0.00 0.00 41.36 2.32
2995 3596 7.944729 ATGTAATGCTACAAGGAGTCAATTT 57.055 32.000 0.00 0.00 41.36 1.82
2996 3597 7.759489 TGTAATGCTACAAGGAGTCAATTTT 57.241 32.000 0.00 0.00 35.03 1.82
2997 3598 8.177119 TGTAATGCTACAAGGAGTCAATTTTT 57.823 30.769 0.00 0.00 35.03 1.94
3025 3627 2.310052 CAGAAAAGGAGGATGACCCCTT 59.690 50.000 0.00 0.00 43.56 3.95
3276 3888 1.869754 GCACTCACATGTGTCGTCACT 60.870 52.381 24.63 0.18 44.14 3.41
3373 3985 0.176219 TGACACCAAACGACGACCTT 59.824 50.000 0.00 0.00 0.00 3.50
3465 4077 4.284550 ACCACCCACAAGCGCCAT 62.285 61.111 2.29 0.00 0.00 4.40
3474 4086 4.039092 AAGCGCCATCCAGCCACT 62.039 61.111 2.29 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.261643 AGGCAAAACAAATCCCCATTCTC 59.738 43.478 0.00 0.00 0.00 2.87
4 5 3.244526 ACAGGCAAAACAAATCCCCATTC 60.245 43.478 0.00 0.00 0.00 2.67
6 7 2.337849 ACAGGCAAAACAAATCCCCAT 58.662 42.857 0.00 0.00 0.00 4.00
8 9 3.161866 TCTACAGGCAAAACAAATCCCC 58.838 45.455 0.00 0.00 0.00 4.81
9 10 3.826729 ACTCTACAGGCAAAACAAATCCC 59.173 43.478 0.00 0.00 0.00 3.85
10 11 5.938125 TCTACTCTACAGGCAAAACAAATCC 59.062 40.000 0.00 0.00 0.00 3.01
11 12 7.414540 CCATCTACTCTACAGGCAAAACAAATC 60.415 40.741 0.00 0.00 0.00 2.17
12 13 6.375455 CCATCTACTCTACAGGCAAAACAAAT 59.625 38.462 0.00 0.00 0.00 2.32
16 17 5.086104 TCCATCTACTCTACAGGCAAAAC 57.914 43.478 0.00 0.00 0.00 2.43
19 20 5.953571 TCTATCCATCTACTCTACAGGCAA 58.046 41.667 0.00 0.00 0.00 4.52
20 21 5.073827 ACTCTATCCATCTACTCTACAGGCA 59.926 44.000 0.00 0.00 0.00 4.75
21 22 5.566469 ACTCTATCCATCTACTCTACAGGC 58.434 45.833 0.00 0.00 0.00 4.85
22 23 6.072175 GCAACTCTATCCATCTACTCTACAGG 60.072 46.154 0.00 0.00 0.00 4.00
23 24 6.488344 TGCAACTCTATCCATCTACTCTACAG 59.512 42.308 0.00 0.00 0.00 2.74
24 25 6.365520 TGCAACTCTATCCATCTACTCTACA 58.634 40.000 0.00 0.00 0.00 2.74
25 26 6.885952 TGCAACTCTATCCATCTACTCTAC 57.114 41.667 0.00 0.00 0.00 2.59
26 27 6.071672 GCATGCAACTCTATCCATCTACTCTA 60.072 42.308 14.21 0.00 0.00 2.43
27 28 5.279406 GCATGCAACTCTATCCATCTACTCT 60.279 44.000 14.21 0.00 0.00 3.24
28 29 4.928615 GCATGCAACTCTATCCATCTACTC 59.071 45.833 14.21 0.00 0.00 2.59
29 30 4.560311 CGCATGCAACTCTATCCATCTACT 60.560 45.833 19.57 0.00 0.00 2.57
30 31 3.677121 CGCATGCAACTCTATCCATCTAC 59.323 47.826 19.57 0.00 0.00 2.59
31 32 3.573967 TCGCATGCAACTCTATCCATCTA 59.426 43.478 19.57 0.00 0.00 1.98
32 33 2.366590 TCGCATGCAACTCTATCCATCT 59.633 45.455 19.57 0.00 0.00 2.90
33 34 2.735663 CTCGCATGCAACTCTATCCATC 59.264 50.000 19.57 0.00 0.00 3.51
34 35 2.549563 CCTCGCATGCAACTCTATCCAT 60.550 50.000 19.57 0.00 0.00 3.41
35 36 1.202568 CCTCGCATGCAACTCTATCCA 60.203 52.381 19.57 0.00 0.00 3.41
36 37 1.506493 CCTCGCATGCAACTCTATCC 58.494 55.000 19.57 0.00 0.00 2.59
37 38 1.069204 TCCCTCGCATGCAACTCTATC 59.931 52.381 19.57 0.00 0.00 2.08
38 39 1.069823 CTCCCTCGCATGCAACTCTAT 59.930 52.381 19.57 0.00 0.00 1.98
39 40 0.461548 CTCCCTCGCATGCAACTCTA 59.538 55.000 19.57 0.00 0.00 2.43
40 41 1.220206 CTCCCTCGCATGCAACTCT 59.780 57.895 19.57 0.00 0.00 3.24
41 42 1.086634 GTCTCCCTCGCATGCAACTC 61.087 60.000 19.57 0.00 0.00 3.01
42 43 1.078848 GTCTCCCTCGCATGCAACT 60.079 57.895 19.57 0.00 0.00 3.16
43 44 0.745845 ATGTCTCCCTCGCATGCAAC 60.746 55.000 19.57 4.27 0.00 4.17
44 45 0.829990 TATGTCTCCCTCGCATGCAA 59.170 50.000 19.57 0.00 0.00 4.08
45 46 1.051008 ATATGTCTCCCTCGCATGCA 58.949 50.000 19.57 4.02 0.00 3.96
46 47 1.270518 ACATATGTCTCCCTCGCATGC 60.271 52.381 7.91 7.91 0.00 4.06
47 48 2.410939 CACATATGTCTCCCTCGCATG 58.589 52.381 5.07 0.00 0.00 4.06
48 49 1.345741 CCACATATGTCTCCCTCGCAT 59.654 52.381 5.07 0.00 0.00 4.73
49 50 0.752658 CCACATATGTCTCCCTCGCA 59.247 55.000 5.07 0.00 0.00 5.10
50 51 0.034059 CCCACATATGTCTCCCTCGC 59.966 60.000 5.07 0.00 0.00 5.03
51 52 0.034059 GCCCACATATGTCTCCCTCG 59.966 60.000 5.07 0.00 0.00 4.63
52 53 0.398318 GGCCCACATATGTCTCCCTC 59.602 60.000 5.07 0.00 0.00 4.30
53 54 0.327480 TGGCCCACATATGTCTCCCT 60.327 55.000 5.07 0.00 0.00 4.20
54 55 0.109342 CTGGCCCACATATGTCTCCC 59.891 60.000 5.07 6.80 0.00 4.30
55 56 0.839946 ACTGGCCCACATATGTCTCC 59.160 55.000 5.07 7.88 0.00 3.71
56 57 1.765314 AGACTGGCCCACATATGTCTC 59.235 52.381 5.07 0.00 29.09 3.36
57 58 1.885049 AGACTGGCCCACATATGTCT 58.115 50.000 5.07 0.00 29.98 3.41
58 59 2.565841 GAAGACTGGCCCACATATGTC 58.434 52.381 5.07 0.00 0.00 3.06
59 60 1.212935 GGAAGACTGGCCCACATATGT 59.787 52.381 1.41 1.41 0.00 2.29
60 61 1.212688 TGGAAGACTGGCCCACATATG 59.787 52.381 0.00 0.00 0.00 1.78
61 62 1.595311 TGGAAGACTGGCCCACATAT 58.405 50.000 0.00 0.00 0.00 1.78
62 63 1.004277 GTTGGAAGACTGGCCCACATA 59.996 52.381 0.00 0.00 0.00 2.29
63 64 0.251341 GTTGGAAGACTGGCCCACAT 60.251 55.000 0.00 0.00 0.00 3.21
64 65 1.150536 GTTGGAAGACTGGCCCACA 59.849 57.895 0.00 0.00 0.00 4.17
65 66 1.966451 CGTTGGAAGACTGGCCCAC 60.966 63.158 0.00 0.00 0.00 4.61
66 67 1.488705 ATCGTTGGAAGACTGGCCCA 61.489 55.000 0.00 0.00 0.00 5.36
67 68 1.026718 CATCGTTGGAAGACTGGCCC 61.027 60.000 0.00 0.00 0.00 5.80
68 69 1.648467 GCATCGTTGGAAGACTGGCC 61.648 60.000 0.00 0.00 0.00 5.36
69 70 1.648467 GGCATCGTTGGAAGACTGGC 61.648 60.000 0.00 0.00 0.00 4.85
70 71 0.321564 TGGCATCGTTGGAAGACTGG 60.322 55.000 0.00 0.00 0.00 4.00
71 72 1.522668 TTGGCATCGTTGGAAGACTG 58.477 50.000 0.00 0.00 0.00 3.51
72 73 2.270352 TTTGGCATCGTTGGAAGACT 57.730 45.000 0.00 0.00 0.00 3.24
73 74 3.575965 AATTTGGCATCGTTGGAAGAC 57.424 42.857 0.00 0.00 0.00 3.01
74 75 4.946772 TGATAATTTGGCATCGTTGGAAGA 59.053 37.500 0.00 0.00 0.00 2.87
75 76 5.247507 TGATAATTTGGCATCGTTGGAAG 57.752 39.130 0.00 0.00 0.00 3.46
76 77 5.406649 GTTGATAATTTGGCATCGTTGGAA 58.593 37.500 0.00 0.00 0.00 3.53
77 78 4.438065 CGTTGATAATTTGGCATCGTTGGA 60.438 41.667 0.00 0.00 0.00 3.53
78 79 3.790820 CGTTGATAATTTGGCATCGTTGG 59.209 43.478 0.00 0.00 0.00 3.77
79 80 4.411327 ACGTTGATAATTTGGCATCGTTG 58.589 39.130 0.00 0.00 35.26 4.10
80 81 4.695217 ACGTTGATAATTTGGCATCGTT 57.305 36.364 0.00 0.00 35.26 3.85
81 82 4.083003 ACAACGTTGATAATTTGGCATCGT 60.083 37.500 33.66 3.12 38.96 3.73
82 83 4.262743 CACAACGTTGATAATTTGGCATCG 59.737 41.667 33.66 2.37 0.00 3.84
83 84 5.398169 TCACAACGTTGATAATTTGGCATC 58.602 37.500 33.66 0.00 0.00 3.91
84 85 5.384063 TCACAACGTTGATAATTTGGCAT 57.616 34.783 33.66 4.50 0.00 4.40
85 86 4.320861 CCTCACAACGTTGATAATTTGGCA 60.321 41.667 33.66 5.56 0.00 4.92
86 87 4.165779 CCTCACAACGTTGATAATTTGGC 58.834 43.478 33.66 0.00 0.00 4.52
87 88 4.732784 CCCTCACAACGTTGATAATTTGG 58.267 43.478 33.66 21.38 0.00 3.28
88 89 4.165779 GCCCTCACAACGTTGATAATTTG 58.834 43.478 33.66 19.81 0.00 2.32
89 90 3.119990 CGCCCTCACAACGTTGATAATTT 60.120 43.478 33.66 8.21 0.00 1.82
90 91 2.418628 CGCCCTCACAACGTTGATAATT 59.581 45.455 33.66 9.00 0.00 1.40
91 92 2.006888 CGCCCTCACAACGTTGATAAT 58.993 47.619 33.66 9.41 0.00 1.28
92 93 1.434555 CGCCCTCACAACGTTGATAA 58.565 50.000 33.66 16.71 0.00 1.75
93 94 0.390603 CCGCCCTCACAACGTTGATA 60.391 55.000 33.66 19.09 0.00 2.15
94 95 1.671054 CCGCCCTCACAACGTTGAT 60.671 57.895 33.66 15.57 0.00 2.57
95 96 2.280524 CCGCCCTCACAACGTTGA 60.281 61.111 33.66 12.64 0.00 3.18
96 97 2.590575 ACCGCCCTCACAACGTTG 60.591 61.111 26.20 26.20 0.00 4.10
97 98 2.590575 CACCGCCCTCACAACGTT 60.591 61.111 0.00 0.00 0.00 3.99
123 124 9.203421 CGTATATACATAGATGGCAGACAAAAA 57.797 33.333 13.22 0.00 0.00 1.94
124 125 8.364894 ACGTATATACATAGATGGCAGACAAAA 58.635 33.333 13.22 0.00 0.00 2.44
125 126 7.812669 CACGTATATACATAGATGGCAGACAAA 59.187 37.037 13.22 0.00 0.00 2.83
126 127 7.312899 CACGTATATACATAGATGGCAGACAA 58.687 38.462 13.22 0.00 0.00 3.18
127 128 6.127730 CCACGTATATACATAGATGGCAGACA 60.128 42.308 13.22 0.00 0.00 3.41
128 129 6.266323 CCACGTATATACATAGATGGCAGAC 58.734 44.000 13.22 0.00 0.00 3.51
129 130 5.163550 GCCACGTATATACATAGATGGCAGA 60.164 44.000 23.66 0.00 42.95 4.26
130 131 5.043903 GCCACGTATATACATAGATGGCAG 58.956 45.833 23.66 6.45 42.95 4.85
131 132 4.464597 TGCCACGTATATACATAGATGGCA 59.535 41.667 25.59 25.59 46.75 4.92
132 133 4.804139 GTGCCACGTATATACATAGATGGC 59.196 45.833 22.71 22.71 43.34 4.40
133 134 5.805486 GTGTGCCACGTATATACATAGATGG 59.195 44.000 13.22 11.63 0.00 3.51
134 135 6.386654 TGTGTGCCACGTATATACATAGATG 58.613 40.000 13.22 3.16 37.14 2.90
135 136 6.584185 TGTGTGCCACGTATATACATAGAT 57.416 37.500 13.22 0.00 37.14 1.98
136 137 6.584185 ATGTGTGCCACGTATATACATAGA 57.416 37.500 13.22 0.00 37.14 1.98
137 138 7.652300 AAATGTGTGCCACGTATATACATAG 57.348 36.000 13.22 1.77 37.14 2.23
138 139 8.439993 AAAAATGTGTGCCACGTATATACATA 57.560 30.769 13.22 2.40 37.14 2.29
139 140 6.935741 AAAATGTGTGCCACGTATATACAT 57.064 33.333 13.22 0.00 37.14 2.29
140 141 6.745159 AAAAATGTGTGCCACGTATATACA 57.255 33.333 13.22 0.00 37.14 2.29
141 142 9.557338 TTTTAAAAATGTGTGCCACGTATATAC 57.443 29.630 2.53 2.53 37.14 1.47
143 144 9.646427 ATTTTTAAAAATGTGTGCCACGTATAT 57.354 25.926 22.30 0.00 37.24 0.86
144 145 9.477484 AATTTTTAAAAATGTGTGCCACGTATA 57.523 25.926 23.34 0.00 38.53 1.47
145 146 7.954788 ATTTTTAAAAATGTGTGCCACGTAT 57.045 28.000 22.30 0.00 37.24 3.06
146 147 7.772332 AATTTTTAAAAATGTGTGCCACGTA 57.228 28.000 23.34 0.00 38.53 3.57
147 148 6.670077 AATTTTTAAAAATGTGTGCCACGT 57.330 29.167 23.34 4.54 38.53 4.49
148 149 7.320087 GCTAAATTTTTAAAAATGTGTGCCACG 59.680 33.333 23.34 8.62 38.53 4.94
149 150 8.125448 TGCTAAATTTTTAAAAATGTGTGCCAC 58.875 29.630 23.34 10.67 38.53 5.01
150 151 8.125448 GTGCTAAATTTTTAAAAATGTGTGCCA 58.875 29.630 23.34 14.13 38.53 4.92
151 152 8.341903 AGTGCTAAATTTTTAAAAATGTGTGCC 58.658 29.630 23.34 17.99 38.53 5.01
152 153 9.157259 CAGTGCTAAATTTTTAAAAATGTGTGC 57.843 29.630 23.34 23.07 38.53 4.57
153 154 9.649024 CCAGTGCTAAATTTTTAAAAATGTGTG 57.351 29.630 23.34 16.43 38.53 3.82
154 155 9.606631 TCCAGTGCTAAATTTTTAAAAATGTGT 57.393 25.926 23.34 15.21 38.53 3.72
155 156 9.862585 GTCCAGTGCTAAATTTTTAAAAATGTG 57.137 29.630 23.34 17.11 38.53 3.21
156 157 9.606631 TGTCCAGTGCTAAATTTTTAAAAATGT 57.393 25.926 23.34 20.66 38.53 2.71
157 158 9.862585 GTGTCCAGTGCTAAATTTTTAAAAATG 57.137 29.630 23.34 13.88 38.53 2.32
158 159 9.606631 TGTGTCCAGTGCTAAATTTTTAAAAAT 57.393 25.926 18.40 18.40 40.15 1.82
159 160 9.606631 ATGTGTCCAGTGCTAAATTTTTAAAAA 57.393 25.926 15.38 15.38 0.00 1.94
161 162 9.906660 CTATGTGTCCAGTGCTAAATTTTTAAA 57.093 29.630 0.00 0.00 0.00 1.52
162 163 9.073475 ACTATGTGTCCAGTGCTAAATTTTTAA 57.927 29.630 0.00 0.00 0.00 1.52
163 164 8.511321 CACTATGTGTCCAGTGCTAAATTTTTA 58.489 33.333 0.00 0.00 36.09 1.52
164 165 7.370383 CACTATGTGTCCAGTGCTAAATTTTT 58.630 34.615 0.00 0.00 36.09 1.94
165 166 6.071952 CCACTATGTGTCCAGTGCTAAATTTT 60.072 38.462 0.00 0.00 40.69 1.82
166 167 5.415701 CCACTATGTGTCCAGTGCTAAATTT 59.584 40.000 0.00 0.00 40.69 1.82
167 168 4.943705 CCACTATGTGTCCAGTGCTAAATT 59.056 41.667 0.00 0.00 40.69 1.82
168 169 4.225042 TCCACTATGTGTCCAGTGCTAAAT 59.775 41.667 0.00 0.00 40.69 1.40
169 170 3.580895 TCCACTATGTGTCCAGTGCTAAA 59.419 43.478 0.00 0.00 40.69 1.85
170 171 3.169908 TCCACTATGTGTCCAGTGCTAA 58.830 45.455 0.00 0.00 40.69 3.09
171 172 2.815158 TCCACTATGTGTCCAGTGCTA 58.185 47.619 0.00 0.00 40.69 3.49
172 173 1.644509 TCCACTATGTGTCCAGTGCT 58.355 50.000 0.00 0.00 40.69 4.40
173 174 2.350522 CTTCCACTATGTGTCCAGTGC 58.649 52.381 0.00 0.00 40.69 4.40
174 175 2.936993 GCCTTCCACTATGTGTCCAGTG 60.937 54.545 0.00 0.00 41.51 3.66
175 176 1.279271 GCCTTCCACTATGTGTCCAGT 59.721 52.381 0.00 0.00 0.00 4.00
176 177 1.407437 GGCCTTCCACTATGTGTCCAG 60.407 57.143 0.00 0.00 0.00 3.86
177 178 0.618458 GGCCTTCCACTATGTGTCCA 59.382 55.000 0.00 0.00 0.00 4.02
178 179 0.912486 AGGCCTTCCACTATGTGTCC 59.088 55.000 0.00 0.00 33.74 4.02
179 180 2.789409 AAGGCCTTCCACTATGTGTC 57.211 50.000 13.78 0.00 33.74 3.67
180 181 4.650972 TTTAAGGCCTTCCACTATGTGT 57.349 40.909 24.49 0.00 33.74 3.72
181 182 5.975693 TTTTTAAGGCCTTCCACTATGTG 57.024 39.130 24.49 0.00 33.74 3.21
271 678 0.902516 GAGAGGAGCAGGGAGTGTGT 60.903 60.000 0.00 0.00 0.00 3.72
334 741 2.435693 GGCTCCGGCTATGACACCT 61.436 63.158 0.00 0.00 38.73 4.00
665 1137 2.171003 GGGGAAACACCATTTCTCCAG 58.829 52.381 12.49 0.00 45.99 3.86
680 1152 0.334676 CCATGCTACCAAAGGGGGAA 59.665 55.000 0.00 0.00 42.91 3.97
1127 1621 2.525368 TCAGAGTACAGCAGCAGGTAA 58.475 47.619 0.00 0.00 0.00 2.85
1137 1631 3.503363 TGCCAAGCAAATTCAGAGTACAG 59.497 43.478 0.00 0.00 34.76 2.74
1170 1664 9.823647 TCTACCAAGCAATTTTGTTTCAAAATA 57.176 25.926 17.01 3.13 28.73 1.40
1171 1665 8.729805 TCTACCAAGCAATTTTGTTTCAAAAT 57.270 26.923 12.69 12.69 28.73 1.82
1172 1666 8.729805 ATCTACCAAGCAATTTTGTTTCAAAA 57.270 26.923 9.52 9.52 28.73 2.44
1173 1667 8.729805 AATCTACCAAGCAATTTTGTTTCAAA 57.270 26.923 0.00 0.00 28.73 2.69
1174 1668 8.729805 AAATCTACCAAGCAATTTTGTTTCAA 57.270 26.923 0.00 0.00 28.73 2.69
1175 1669 8.729805 AAAATCTACCAAGCAATTTTGTTTCA 57.270 26.923 0.00 0.00 31.86 2.69
1177 1671 9.830975 AGTAAAATCTACCAAGCAATTTTGTTT 57.169 25.926 0.00 0.00 34.25 2.83
1178 1672 9.260002 CAGTAAAATCTACCAAGCAATTTTGTT 57.740 29.630 0.00 0.00 34.25 2.83
1179 1673 7.384932 GCAGTAAAATCTACCAAGCAATTTTGT 59.615 33.333 0.00 0.00 34.25 2.83
1180 1674 7.384660 TGCAGTAAAATCTACCAAGCAATTTTG 59.615 33.333 0.00 0.00 34.25 2.44
1181 1675 7.441017 TGCAGTAAAATCTACCAAGCAATTTT 58.559 30.769 0.00 0.00 35.90 1.82
1182 1676 6.991938 TGCAGTAAAATCTACCAAGCAATTT 58.008 32.000 0.00 0.00 0.00 1.82
1183 1677 6.209391 ACTGCAGTAAAATCTACCAAGCAATT 59.791 34.615 20.16 0.00 0.00 2.32
1184 1678 5.711976 ACTGCAGTAAAATCTACCAAGCAAT 59.288 36.000 20.16 0.00 0.00 3.56
1185 1679 5.070001 ACTGCAGTAAAATCTACCAAGCAA 58.930 37.500 20.16 0.00 0.00 3.91
1186 1680 4.651778 ACTGCAGTAAAATCTACCAAGCA 58.348 39.130 20.16 0.00 0.00 3.91
1187 1681 5.875359 ACTACTGCAGTAAAATCTACCAAGC 59.125 40.000 25.95 0.00 34.98 4.01
1188 1682 7.907214 AACTACTGCAGTAAAATCTACCAAG 57.093 36.000 25.95 14.47 36.04 3.61
1614 2112 2.611292 GCAGGCAGTATGATGAGTGAAC 59.389 50.000 0.00 0.00 39.69 3.18
2176 2684 3.117888 ACTCCAGCTTTTCTTTCTCCACA 60.118 43.478 0.00 0.00 0.00 4.17
2197 2705 6.289064 CCCATACACAGGTAGATTAAAGGAC 58.711 44.000 0.00 0.00 31.88 3.85
2275 2783 7.383687 TGGTCTCGAATAGTTTGATGTTAGTT 58.616 34.615 0.00 0.00 0.00 2.24
2290 2798 2.780010 AGGATCCCAATTGGTCTCGAAT 59.220 45.455 22.91 6.58 34.77 3.34
2334 2842 1.140652 TCTGGACACTGTCATGCACAA 59.859 47.619 11.34 0.00 33.31 3.33
2467 2975 0.756294 TCTCCTCGACAAGGTGCAAA 59.244 50.000 0.00 0.00 46.32 3.68
2480 2988 3.020984 CAGAGTACTGGGTCTTCTCCTC 58.979 54.545 0.00 0.00 40.14 3.71
2537 3046 1.511850 TTGCAAGACCACAGATCGTG 58.488 50.000 0.00 9.75 45.92 4.35
2560 3075 4.323553 AGGAGGCGACTGATAAATACAC 57.676 45.455 0.00 0.00 44.43 2.90
2752 3269 3.326747 CCTAGTCAGTGGTTAAGTGTGC 58.673 50.000 0.00 0.00 0.00 4.57
2765 3282 2.817258 CCTTAGCTCGATCCCTAGTCAG 59.183 54.545 0.00 0.00 0.00 3.51
2826 3361 2.721274 TTTCCATGCACACCGAATTG 57.279 45.000 0.00 0.00 0.00 2.32
2884 3428 8.587111 CGATTAAGCTTTAATTTTCTTTGGAGC 58.413 33.333 3.20 0.00 0.00 4.70
2998 3599 5.316987 GGTCATCCTCCTTTTCTGAAGAAA 58.683 41.667 1.31 1.31 41.77 2.52
2999 3600 4.263506 GGGTCATCCTCCTTTTCTGAAGAA 60.264 45.833 0.00 0.00 0.00 2.52
3000 3601 3.264450 GGGTCATCCTCCTTTTCTGAAGA 59.736 47.826 0.00 0.00 0.00 2.87
3001 3602 3.615155 GGGTCATCCTCCTTTTCTGAAG 58.385 50.000 0.00 0.00 0.00 3.02
3002 3603 2.308866 GGGGTCATCCTCCTTTTCTGAA 59.691 50.000 0.00 0.00 35.33 3.02
3003 3604 1.916181 GGGGTCATCCTCCTTTTCTGA 59.084 52.381 0.00 0.00 35.33 3.27
3004 3605 1.918957 AGGGGTCATCCTCCTTTTCTG 59.081 52.381 0.00 0.00 33.94 3.02
3025 3627 0.911045 TCTTCCAGATGCAGAGGCCA 60.911 55.000 5.01 0.00 40.13 5.36
3276 3888 1.133181 TGGACCAGTGGAAGATGGCA 61.133 55.000 18.40 0.00 40.45 4.92
3373 3985 1.874231 GAGATGGACTCGCGTAGATGA 59.126 52.381 5.77 0.00 35.84 2.92
3446 4058 4.947147 GGCGCTTGTGGGTGGTGA 62.947 66.667 7.64 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.