Multiple sequence alignment - TraesCS2D01G320400

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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 TraesCS2D01G320400 chr2D 100.000 3871 0 0 1 3871 411698179 411702049 0.000000e+00 7149.0
1 TraesCS2D01G320400 chr2D 97.033 3236 70 6 327 3553 411412540 411415758 0.000000e+00 5421.0
2 TraesCS2D01G320400 chr2D 85.986 421 54 2 1527 1947 411965340 411965755 2.740000e-121 446.0
3 TraesCS2D01G320400 chr2D 98.039 204 4 0 3665 3868 411415755 411415958 4.760000e-94 355.0
4 TraesCS2D01G320400 chr2D 97.059 34 1 0 1128 1161 411694144 411694177 1.500000e-04 58.4
5 TraesCS2D01G320400 chr2A 97.274 3082 74 6 184 3257 579073613 579076692 0.000000e+00 5217.0
6 TraesCS2D01G320400 chr2A 87.677 1412 165 7 1527 2935 579461019 579462424 0.000000e+00 1635.0
7 TraesCS2D01G320400 chr2A 89.189 259 8 5 3201 3459 579076686 579076924 4.860000e-79 305.0
8 TraesCS2D01G320400 chr2A 96.939 98 3 0 95 192 579073539 579073442 8.600000e-37 165.0
9 TraesCS2D01G320400 chr2A 79.412 136 16 6 910 1038 579460707 579460837 6.890000e-13 86.1
10 TraesCS2D01G320400 chr1D 96.610 118 4 0 3551 3668 69193899 69194016 3.050000e-46 196.0
11 TraesCS2D01G320400 chr1D 92.857 126 9 0 3551 3676 85844748 85844623 2.380000e-42 183.0
12 TraesCS2D01G320400 chrUn 96.581 117 4 0 3551 3667 97740067 97740183 1.100000e-45 195.0
13 TraesCS2D01G320400 chr6D 94.309 123 7 0 3551 3673 231695112 231695234 5.110000e-44 189.0
14 TraesCS2D01G320400 chr6D 94.118 119 7 0 3550 3668 85585035 85585153 8.540000e-42 182.0
15 TraesCS2D01G320400 chr4A 94.915 118 6 0 3551 3668 590604068 590603951 6.600000e-43 185.0
16 TraesCS2D01G320400 chr3D 94.068 118 7 0 3551 3668 310684001 310683884 3.070000e-41 180.0
17 TraesCS2D01G320400 chr7D 92.000 125 8 1 3551 3673 164733936 164733812 1.430000e-39 174.0
18 TraesCS2D01G320400 chr2B 91.935 124 10 0 3550 3673 148871845 148871968 1.430000e-39 174.0


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 TraesCS2D01G320400 chr2D 411698179 411702049 3870 False 7149.00 7149 100.0000 1 3871 1 chr2D.!!$F2 3870
1 TraesCS2D01G320400 chr2D 411412540 411415958 3418 False 2888.00 5421 97.5360 327 3868 2 chr2D.!!$F4 3541
2 TraesCS2D01G320400 chr2A 579073613 579076924 3311 False 2761.00 5217 93.2315 184 3459 2 chr2A.!!$F1 3275
3 TraesCS2D01G320400 chr2A 579460707 579462424 1717 False 860.55 1635 83.5445 910 2935 2 chr2A.!!$F2 2025

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
724 725 0.108520 TGCGTACAGAAATCGACCCC 60.109 55.0 0.00 0.0 0.00 4.95 F
1669 1686 0.461961 GACAGAGGCGCATTACTCCT 59.538 55.0 10.83 0.0 35.67 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2460 2478 0.327924 AAATGATCCCACACCTGCGA 59.672 50.0 0.00 0.0 0.00 5.10 R
3644 3717 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.0 5.23 0.0 44.66 2.12 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
19 20 2.589798 AATCCGTCGATAAAAGCCGA 57.410 45.000 0.00 0.00 0.00 5.54
20 21 2.589798 ATCCGTCGATAAAAGCCGAA 57.410 45.000 0.00 0.00 36.50 4.30
21 22 1.632422 TCCGTCGATAAAAGCCGAAC 58.368 50.000 0.00 0.00 36.50 3.95
22 23 0.648958 CCGTCGATAAAAGCCGAACC 59.351 55.000 0.00 0.00 36.50 3.62
23 24 1.352114 CGTCGATAAAAGCCGAACCA 58.648 50.000 0.00 0.00 36.50 3.67
24 25 1.060122 CGTCGATAAAAGCCGAACCAC 59.940 52.381 0.00 0.00 36.50 4.16
25 26 2.070783 GTCGATAAAAGCCGAACCACA 58.929 47.619 0.00 0.00 36.50 4.17
26 27 2.070783 TCGATAAAAGCCGAACCACAC 58.929 47.619 0.00 0.00 0.00 3.82
27 28 1.801771 CGATAAAAGCCGAACCACACA 59.198 47.619 0.00 0.00 0.00 3.72
28 29 2.418628 CGATAAAAGCCGAACCACACAT 59.581 45.455 0.00 0.00 0.00 3.21
29 30 3.727673 CGATAAAAGCCGAACCACACATG 60.728 47.826 0.00 0.00 0.00 3.21
39 40 2.343506 CCACACATGGCTTGAAGCA 58.656 52.632 19.89 5.65 44.75 3.91
40 41 0.675083 CCACACATGGCTTGAAGCAA 59.325 50.000 19.89 8.40 44.75 3.91
41 42 1.336517 CCACACATGGCTTGAAGCAAG 60.337 52.381 19.89 10.09 44.75 4.01
42 43 1.610038 CACACATGGCTTGAAGCAAGA 59.390 47.619 19.89 2.25 44.75 3.02
51 52 4.788690 GGCTTGAAGCAAGACTTTTAGAC 58.211 43.478 19.89 0.00 45.28 2.59
52 53 4.517075 GGCTTGAAGCAAGACTTTTAGACT 59.483 41.667 19.89 0.00 45.28 3.24
53 54 5.701290 GGCTTGAAGCAAGACTTTTAGACTA 59.299 40.000 19.89 0.00 45.28 2.59
54 55 6.347806 GGCTTGAAGCAAGACTTTTAGACTAC 60.348 42.308 19.89 0.00 45.28 2.73
55 56 6.202954 GCTTGAAGCAAGACTTTTAGACTACA 59.797 38.462 13.09 0.00 43.42 2.74
56 57 7.095017 GCTTGAAGCAAGACTTTTAGACTACAT 60.095 37.037 13.09 0.00 43.42 2.29
57 58 7.891183 TGAAGCAAGACTTTTAGACTACATC 57.109 36.000 0.00 0.00 39.29 3.06
58 59 7.441836 TGAAGCAAGACTTTTAGACTACATCA 58.558 34.615 0.00 0.00 39.29 3.07
59 60 7.931407 TGAAGCAAGACTTTTAGACTACATCAA 59.069 33.333 0.00 0.00 39.29 2.57
60 61 8.677148 AAGCAAGACTTTTAGACTACATCAAA 57.323 30.769 0.00 0.00 33.71 2.69
61 62 8.677148 AGCAAGACTTTTAGACTACATCAAAA 57.323 30.769 0.00 0.00 0.00 2.44
62 63 9.289782 AGCAAGACTTTTAGACTACATCAAAAT 57.710 29.630 0.00 0.00 0.00 1.82
63 64 9.899226 GCAAGACTTTTAGACTACATCAAAATT 57.101 29.630 0.00 0.00 0.00 1.82
73 74 8.786826 AGACTACATCAAAATTATTGAACGGA 57.213 30.769 7.01 0.46 31.55 4.69
74 75 9.226606 AGACTACATCAAAATTATTGAACGGAA 57.773 29.630 7.01 0.00 31.55 4.30
75 76 9.490663 GACTACATCAAAATTATTGAACGGAAG 57.509 33.333 7.01 6.66 31.55 3.46
76 77 7.968405 ACTACATCAAAATTATTGAACGGAAGC 59.032 33.333 7.01 0.00 31.55 3.86
77 78 6.686630 ACATCAAAATTATTGAACGGAAGCA 58.313 32.000 7.01 0.00 31.55 3.91
78 79 6.586082 ACATCAAAATTATTGAACGGAAGCAC 59.414 34.615 7.01 0.00 31.55 4.40
79 80 5.150683 TCAAAATTATTGAACGGAAGCACG 58.849 37.500 0.00 0.00 40.31 5.34
95 96 3.923827 GCACGTTGCAAAAAGATTGTT 57.076 38.095 0.00 0.00 44.26 2.83
96 97 3.596319 GCACGTTGCAAAAAGATTGTTG 58.404 40.909 0.00 0.00 44.26 3.33
104 105 5.013861 GCAAAAAGATTGTTGCTGATGTG 57.986 39.130 12.27 0.00 45.34 3.21
105 106 4.746115 GCAAAAAGATTGTTGCTGATGTGA 59.254 37.500 12.27 0.00 45.34 3.58
106 107 5.107607 GCAAAAAGATTGTTGCTGATGTGAG 60.108 40.000 12.27 0.00 45.34 3.51
107 108 3.844577 AAGATTGTTGCTGATGTGAGC 57.155 42.857 0.00 0.00 39.62 4.26
108 109 1.736126 AGATTGTTGCTGATGTGAGCG 59.264 47.619 0.00 0.00 42.32 5.03
109 110 0.806868 ATTGTTGCTGATGTGAGCGG 59.193 50.000 0.00 0.00 42.32 5.52
110 111 0.534877 TTGTTGCTGATGTGAGCGGT 60.535 50.000 0.00 0.00 42.32 5.68
111 112 1.229975 TGTTGCTGATGTGAGCGGTG 61.230 55.000 0.00 0.00 42.32 4.94
112 113 0.950555 GTTGCTGATGTGAGCGGTGA 60.951 55.000 0.00 0.00 42.32 4.02
113 114 0.671472 TTGCTGATGTGAGCGGTGAG 60.671 55.000 0.00 0.00 42.32 3.51
124 125 4.758251 CGGTGAGCCCATGCACGA 62.758 66.667 0.00 0.00 41.13 4.35
125 126 2.821366 GGTGAGCCCATGCACGAG 60.821 66.667 0.00 0.00 41.13 4.18
126 127 2.265739 GTGAGCCCATGCACGAGA 59.734 61.111 0.00 0.00 41.13 4.04
127 128 1.375908 GTGAGCCCATGCACGAGAA 60.376 57.895 0.00 0.00 41.13 2.87
128 129 1.078918 TGAGCCCATGCACGAGAAG 60.079 57.895 0.00 0.00 41.13 2.85
129 130 1.219124 GAGCCCATGCACGAGAAGA 59.781 57.895 0.00 0.00 41.13 2.87
130 131 0.391661 GAGCCCATGCACGAGAAGAA 60.392 55.000 0.00 0.00 41.13 2.52
131 132 0.254178 AGCCCATGCACGAGAAGAAT 59.746 50.000 0.00 0.00 41.13 2.40
132 133 0.379669 GCCCATGCACGAGAAGAATG 59.620 55.000 0.00 0.00 37.47 2.67
133 134 2.013563 GCCCATGCACGAGAAGAATGA 61.014 52.381 0.00 0.00 37.47 2.57
134 135 2.358957 CCCATGCACGAGAAGAATGAA 58.641 47.619 0.00 0.00 0.00 2.57
135 136 2.096496 CCCATGCACGAGAAGAATGAAC 59.904 50.000 0.00 0.00 0.00 3.18
136 137 2.222886 CCATGCACGAGAAGAATGAACG 60.223 50.000 0.00 0.00 0.00 3.95
137 138 1.428448 TGCACGAGAAGAATGAACGG 58.572 50.000 0.00 0.00 0.00 4.44
138 139 1.000394 TGCACGAGAAGAATGAACGGA 60.000 47.619 0.00 0.00 0.00 4.69
139 140 2.066262 GCACGAGAAGAATGAACGGAA 58.934 47.619 0.00 0.00 0.00 4.30
140 141 2.092838 GCACGAGAAGAATGAACGGAAG 59.907 50.000 0.00 0.00 0.00 3.46
141 142 2.092838 CACGAGAAGAATGAACGGAAGC 59.907 50.000 0.00 0.00 0.00 3.86
142 143 2.288825 ACGAGAAGAATGAACGGAAGCA 60.289 45.455 0.00 0.00 0.00 3.91
143 144 2.092838 CGAGAAGAATGAACGGAAGCAC 59.907 50.000 0.00 0.00 0.00 4.40
144 145 2.416893 GAGAAGAATGAACGGAAGCACC 59.583 50.000 0.00 0.00 0.00 5.01
156 157 3.762293 AGCACCGCTTGATTTGCA 58.238 50.000 0.00 0.00 33.89 4.08
157 158 1.286880 AGCACCGCTTGATTTGCAC 59.713 52.632 0.00 0.00 33.89 4.57
158 159 1.174712 AGCACCGCTTGATTTGCACT 61.175 50.000 0.00 0.00 33.89 4.40
159 160 0.318955 GCACCGCTTGATTTGCACTT 60.319 50.000 0.00 0.00 34.97 3.16
160 161 1.068610 GCACCGCTTGATTTGCACTTA 60.069 47.619 0.00 0.00 34.97 2.24
161 162 2.855180 CACCGCTTGATTTGCACTTAG 58.145 47.619 0.00 0.00 0.00 2.18
162 163 2.483877 CACCGCTTGATTTGCACTTAGA 59.516 45.455 0.00 0.00 0.00 2.10
163 164 3.058293 CACCGCTTGATTTGCACTTAGAA 60.058 43.478 0.00 0.00 0.00 2.10
164 165 3.568007 ACCGCTTGATTTGCACTTAGAAA 59.432 39.130 0.00 0.00 0.00 2.52
165 166 4.037446 ACCGCTTGATTTGCACTTAGAAAA 59.963 37.500 0.00 0.00 0.00 2.29
166 167 4.981674 CCGCTTGATTTGCACTTAGAAAAA 59.018 37.500 0.00 0.00 0.00 1.94
167 168 5.107875 CCGCTTGATTTGCACTTAGAAAAAC 60.108 40.000 0.00 0.00 0.00 2.43
168 169 5.386323 CGCTTGATTTGCACTTAGAAAAACG 60.386 40.000 0.00 0.00 0.00 3.60
169 170 5.107875 GCTTGATTTGCACTTAGAAAAACGG 60.108 40.000 0.00 0.00 0.00 4.44
170 171 5.759506 TGATTTGCACTTAGAAAAACGGA 57.240 34.783 0.00 0.00 0.00 4.69
171 172 6.137794 TGATTTGCACTTAGAAAAACGGAA 57.862 33.333 0.00 0.00 0.00 4.30
172 173 6.565234 TGATTTGCACTTAGAAAAACGGAAA 58.435 32.000 0.00 0.00 0.00 3.13
173 174 7.036220 TGATTTGCACTTAGAAAAACGGAAAA 58.964 30.769 0.00 0.00 0.00 2.29
174 175 6.635166 TTTGCACTTAGAAAAACGGAAAAC 57.365 33.333 0.00 0.00 0.00 2.43
175 176 5.312120 TGCACTTAGAAAAACGGAAAACA 57.688 34.783 0.00 0.00 0.00 2.83
176 177 5.336744 TGCACTTAGAAAAACGGAAAACAG 58.663 37.500 0.00 0.00 0.00 3.16
177 178 5.106078 TGCACTTAGAAAAACGGAAAACAGT 60.106 36.000 0.00 0.00 0.00 3.55
178 179 6.093771 TGCACTTAGAAAAACGGAAAACAGTA 59.906 34.615 0.00 0.00 0.00 2.74
179 180 6.412943 GCACTTAGAAAAACGGAAAACAGTAC 59.587 38.462 0.00 0.00 0.00 2.73
180 181 7.465989 CACTTAGAAAAACGGAAAACAGTACA 58.534 34.615 0.00 0.00 0.00 2.90
181 182 7.964011 CACTTAGAAAAACGGAAAACAGTACAA 59.036 33.333 0.00 0.00 0.00 2.41
182 183 7.964559 ACTTAGAAAAACGGAAAACAGTACAAC 59.035 33.333 0.00 0.00 0.00 3.32
183 184 6.505044 AGAAAAACGGAAAACAGTACAACT 57.495 33.333 0.00 0.00 0.00 3.16
184 185 6.916440 AGAAAAACGGAAAACAGTACAACTT 58.084 32.000 0.00 0.00 0.00 2.66
185 186 6.804783 AGAAAAACGGAAAACAGTACAACTTG 59.195 34.615 0.00 0.00 0.00 3.16
186 187 3.685836 ACGGAAAACAGTACAACTTGC 57.314 42.857 0.00 0.00 0.00 4.01
187 188 2.031191 ACGGAAAACAGTACAACTTGCG 59.969 45.455 0.00 2.70 36.95 4.85
188 189 2.601266 CGGAAAACAGTACAACTTGCGG 60.601 50.000 0.00 0.00 0.00 5.69
189 190 2.381589 GAAAACAGTACAACTTGCGGC 58.618 47.619 0.00 0.00 0.00 6.53
308 309 0.240945 CTGCAGTTTCCGCGGATTTT 59.759 50.000 31.56 14.45 38.03 1.82
444 445 2.725312 GGCGAGAGATGGGTCAGCA 61.725 63.158 0.00 0.00 0.00 4.41
515 516 2.037381 GTCGTCTTCCTTTTCTCCCAGT 59.963 50.000 0.00 0.00 0.00 4.00
712 713 0.315886 TCCTTTTCGAGCTGCGTACA 59.684 50.000 0.00 0.00 41.80 2.90
724 725 0.108520 TGCGTACAGAAATCGACCCC 60.109 55.000 0.00 0.00 0.00 4.95
732 733 4.202245 CAGAAATCGACCCCTTTCTGTA 57.798 45.455 22.50 0.00 46.82 2.74
752 753 3.819564 ATTCATTTCGGACGGAGATCA 57.180 42.857 0.00 0.00 0.00 2.92
837 840 2.909006 TGCTCTCCAATTTCTGACTCCT 59.091 45.455 0.00 0.00 0.00 3.69
1082 1096 9.482627 ACACAATATTCTCGGCAAAAATAAAAA 57.517 25.926 0.00 0.00 0.00 1.94
1333 1348 2.270352 TCTTGACCGGCTCAATGTTT 57.730 45.000 16.44 0.00 38.26 2.83
1594 1611 5.128033 TGACACCATATCCATTGGACATT 57.872 39.130 7.76 0.00 37.69 2.71
1669 1686 0.461961 GACAGAGGCGCATTACTCCT 59.538 55.000 10.83 0.00 35.67 3.69
2460 2478 2.582436 CGGTGTCGGCCTATGGTT 59.418 61.111 0.00 0.00 0.00 3.67
2725 2743 4.681978 GTGCCGCGACAACCCTCT 62.682 66.667 8.23 0.00 0.00 3.69
2877 2895 6.441088 AGAAGAACTTCCCATAGTGTCTTT 57.559 37.500 10.41 0.00 40.33 2.52
3010 3028 7.090173 GGCAGCATTTTGTTTTATCAGTAAGA 58.910 34.615 0.00 0.00 0.00 2.10
3011 3029 7.062255 GGCAGCATTTTGTTTTATCAGTAAGAC 59.938 37.037 0.00 0.00 0.00 3.01
3361 3434 7.781056 ACAGTAACACAAACAAGATCCAAAAT 58.219 30.769 0.00 0.00 0.00 1.82
3390 3463 4.642429 TCTCCAAGCTAAAGTTCTGAACC 58.358 43.478 16.48 1.58 0.00 3.62
3498 3571 6.094186 GTGAAAAGTTCTCAGTTCCTTCAAGT 59.906 38.462 0.00 0.00 0.00 3.16
3522 3595 3.741344 AGAGTCGGACGTTTTCAGAAATG 59.259 43.478 1.89 0.00 37.69 2.32
3529 3602 3.222603 ACGTTTTCAGAAATGCTCCCTT 58.777 40.909 0.00 0.00 35.59 3.95
3559 3632 9.628500 AAACAAATATAATTCAGTACTCCCTCC 57.372 33.333 0.00 0.00 0.00 4.30
3560 3633 8.331931 ACAAATATAATTCAGTACTCCCTCCA 57.668 34.615 0.00 0.00 0.00 3.86
3561 3634 8.949421 ACAAATATAATTCAGTACTCCCTCCAT 58.051 33.333 0.00 0.00 0.00 3.41
3562 3635 9.442047 CAAATATAATTCAGTACTCCCTCCATC 57.558 37.037 0.00 0.00 0.00 3.51
3563 3636 7.741554 ATATAATTCAGTACTCCCTCCATCC 57.258 40.000 0.00 0.00 0.00 3.51
3564 3637 1.776662 TTCAGTACTCCCTCCATCCG 58.223 55.000 0.00 0.00 0.00 4.18
3565 3638 0.106167 TCAGTACTCCCTCCATCCGG 60.106 60.000 0.00 0.00 0.00 5.14
3566 3639 0.106167 CAGTACTCCCTCCATCCGGA 60.106 60.000 6.61 6.61 39.79 5.14
3567 3640 0.635009 AGTACTCCCTCCATCCGGAA 59.365 55.000 9.01 0.00 42.21 4.30
3568 3641 1.007963 AGTACTCCCTCCATCCGGAAA 59.992 52.381 9.01 0.00 42.21 3.13
3569 3642 2.047830 GTACTCCCTCCATCCGGAAAT 58.952 52.381 9.01 0.00 42.21 2.17
3570 3643 2.489528 ACTCCCTCCATCCGGAAATA 57.510 50.000 9.01 0.00 42.21 1.40
3571 3644 2.047830 ACTCCCTCCATCCGGAAATAC 58.952 52.381 9.01 0.00 42.21 1.89
3572 3645 2.330216 CTCCCTCCATCCGGAAATACT 58.670 52.381 9.01 0.00 42.21 2.12
3573 3646 2.706190 CTCCCTCCATCCGGAAATACTT 59.294 50.000 9.01 0.00 42.21 2.24
3574 3647 2.438021 TCCCTCCATCCGGAAATACTTG 59.562 50.000 9.01 0.00 42.21 3.16
3575 3648 2.172717 CCCTCCATCCGGAAATACTTGT 59.827 50.000 9.01 0.00 42.21 3.16
3576 3649 3.467803 CCTCCATCCGGAAATACTTGTC 58.532 50.000 9.01 0.00 42.21 3.18
3577 3650 3.123804 CTCCATCCGGAAATACTTGTCG 58.876 50.000 9.01 0.00 42.21 4.35
3578 3651 2.761767 TCCATCCGGAAATACTTGTCGA 59.238 45.455 9.01 0.00 38.83 4.20
3579 3652 3.196039 TCCATCCGGAAATACTTGTCGAA 59.804 43.478 9.01 0.00 38.83 3.71
3580 3653 3.936453 CCATCCGGAAATACTTGTCGAAA 59.064 43.478 9.01 0.00 0.00 3.46
3581 3654 4.393680 CCATCCGGAAATACTTGTCGAAAA 59.606 41.667 9.01 0.00 0.00 2.29
3582 3655 5.106475 CCATCCGGAAATACTTGTCGAAAAA 60.106 40.000 9.01 0.00 0.00 1.94
3637 3710 9.781425 AAGATATGTCTAGATACATCCATTCCT 57.219 33.333 4.30 0.00 40.52 3.36
3638 3711 9.781425 AGATATGTCTAGATACATCCATTCCTT 57.219 33.333 4.30 0.00 40.52 3.36
3643 3716 8.988060 TGTCTAGATACATCCATTCCTTTAACA 58.012 33.333 0.00 0.00 0.00 2.41
3644 3717 9.832445 GTCTAGATACATCCATTCCTTTAACAA 57.168 33.333 0.00 0.00 0.00 2.83
3646 3719 9.838339 CTAGATACATCCATTCCTTTAACAAGT 57.162 33.333 0.00 0.00 0.00 3.16
3652 3725 8.749354 ACATCCATTCCTTTAACAAGTATTTCC 58.251 33.333 0.00 0.00 0.00 3.13
3653 3726 7.385778 TCCATTCCTTTAACAAGTATTTCCG 57.614 36.000 0.00 0.00 0.00 4.30
3654 3727 6.376018 TCCATTCCTTTAACAAGTATTTCCGG 59.624 38.462 0.00 0.00 0.00 5.14
3655 3728 6.376018 CCATTCCTTTAACAAGTATTTCCGGA 59.624 38.462 0.00 0.00 0.00 5.14
3656 3729 6.806388 TTCCTTTAACAAGTATTTCCGGAC 57.194 37.500 1.83 0.00 0.00 4.79
3657 3730 4.931002 TCCTTTAACAAGTATTTCCGGACG 59.069 41.667 1.83 0.00 0.00 4.79
3658 3731 4.093850 CCTTTAACAAGTATTTCCGGACGG 59.906 45.833 1.83 3.96 0.00 4.79
3659 3732 4.533919 TTAACAAGTATTTCCGGACGGA 57.466 40.909 1.83 9.76 43.52 4.69
3660 3733 2.667473 ACAAGTATTTCCGGACGGAG 57.333 50.000 13.64 3.15 46.06 4.63
3661 3734 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
3662 3735 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
3663 3736 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
3816 3889 7.642669 AGTTGTCATGAAGAACTGTAAATGTG 58.357 34.615 16.85 0.00 0.00 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.589798 TCGGCTTTTATCGACGGATT 57.410 45.000 0.00 0.00 34.00 3.01
2 3 1.632422 GTTCGGCTTTTATCGACGGA 58.368 50.000 0.00 0.00 34.99 4.69
8 9 3.427503 CCATGTGTGGTTCGGCTTTTATC 60.428 47.826 0.00 0.00 40.83 1.75
9 10 2.491693 CCATGTGTGGTTCGGCTTTTAT 59.508 45.455 0.00 0.00 40.83 1.40
10 11 1.883275 CCATGTGTGGTTCGGCTTTTA 59.117 47.619 0.00 0.00 40.83 1.52
11 12 0.673437 CCATGTGTGGTTCGGCTTTT 59.327 50.000 0.00 0.00 40.83 2.27
12 13 2.340427 CCATGTGTGGTTCGGCTTT 58.660 52.632 0.00 0.00 40.83 3.51
13 14 4.079446 CCATGTGTGGTTCGGCTT 57.921 55.556 0.00 0.00 40.83 4.35
22 23 1.610038 TCTTGCTTCAAGCCATGTGTG 59.390 47.619 7.01 0.00 41.51 3.82
23 24 1.610522 GTCTTGCTTCAAGCCATGTGT 59.389 47.619 7.01 0.00 41.51 3.72
24 25 1.884579 AGTCTTGCTTCAAGCCATGTG 59.115 47.619 7.01 0.00 41.51 3.21
25 26 2.283145 AGTCTTGCTTCAAGCCATGT 57.717 45.000 7.01 0.00 41.51 3.21
26 27 3.655276 AAAGTCTTGCTTCAAGCCATG 57.345 42.857 7.01 0.00 41.51 3.66
27 28 5.048434 GTCTAAAAGTCTTGCTTCAAGCCAT 60.048 40.000 7.01 0.00 41.51 4.40
28 29 4.275936 GTCTAAAAGTCTTGCTTCAAGCCA 59.724 41.667 7.01 0.00 41.51 4.75
29 30 4.517075 AGTCTAAAAGTCTTGCTTCAAGCC 59.483 41.667 7.01 0.00 41.51 4.35
30 31 5.681337 AGTCTAAAAGTCTTGCTTCAAGC 57.319 39.130 1.04 1.04 40.84 4.01
31 32 7.715265 TGTAGTCTAAAAGTCTTGCTTCAAG 57.285 36.000 0.37 0.37 42.25 3.02
32 33 7.931407 TGATGTAGTCTAAAAGTCTTGCTTCAA 59.069 33.333 0.00 0.00 36.17 2.69
33 34 7.441836 TGATGTAGTCTAAAAGTCTTGCTTCA 58.558 34.615 0.00 0.00 36.17 3.02
34 35 7.891183 TGATGTAGTCTAAAAGTCTTGCTTC 57.109 36.000 0.00 0.00 36.17 3.86
35 36 8.677148 TTTGATGTAGTCTAAAAGTCTTGCTT 57.323 30.769 0.00 0.00 39.52 3.91
36 37 8.677148 TTTTGATGTAGTCTAAAAGTCTTGCT 57.323 30.769 0.00 0.00 30.41 3.91
37 38 9.899226 AATTTTGATGTAGTCTAAAAGTCTTGC 57.101 29.630 0.00 0.00 35.68 4.01
47 48 9.878667 TCCGTTCAATAATTTTGATGTAGTCTA 57.121 29.630 4.59 0.00 0.00 2.59
48 49 8.786826 TCCGTTCAATAATTTTGATGTAGTCT 57.213 30.769 4.59 0.00 0.00 3.24
49 50 9.490663 CTTCCGTTCAATAATTTTGATGTAGTC 57.509 33.333 4.59 0.00 0.00 2.59
50 51 7.968405 GCTTCCGTTCAATAATTTTGATGTAGT 59.032 33.333 4.59 0.00 0.00 2.73
51 52 7.967854 TGCTTCCGTTCAATAATTTTGATGTAG 59.032 33.333 4.59 0.00 0.00 2.74
52 53 7.753132 GTGCTTCCGTTCAATAATTTTGATGTA 59.247 33.333 4.59 0.00 0.00 2.29
53 54 6.586082 GTGCTTCCGTTCAATAATTTTGATGT 59.414 34.615 4.59 0.00 0.00 3.06
54 55 6.237279 CGTGCTTCCGTTCAATAATTTTGATG 60.237 38.462 4.59 2.26 0.00 3.07
55 56 5.799936 CGTGCTTCCGTTCAATAATTTTGAT 59.200 36.000 4.59 0.00 0.00 2.57
56 57 5.150683 CGTGCTTCCGTTCAATAATTTTGA 58.849 37.500 0.00 0.00 0.00 2.69
57 58 4.915085 ACGTGCTTCCGTTCAATAATTTTG 59.085 37.500 0.00 0.00 37.96 2.44
58 59 5.116069 ACGTGCTTCCGTTCAATAATTTT 57.884 34.783 0.00 0.00 37.96 1.82
59 60 4.759516 ACGTGCTTCCGTTCAATAATTT 57.240 36.364 0.00 0.00 37.96 1.82
69 70 0.171455 TTTTTGCAACGTGCTTCCGT 59.829 45.000 0.00 0.00 45.31 4.69
70 71 0.845768 CTTTTTGCAACGTGCTTCCG 59.154 50.000 0.00 0.00 45.31 4.30
71 72 2.202295 TCTTTTTGCAACGTGCTTCC 57.798 45.000 0.00 0.00 45.31 3.46
72 73 3.551485 ACAATCTTTTTGCAACGTGCTTC 59.449 39.130 0.00 0.00 45.31 3.86
73 74 3.520569 ACAATCTTTTTGCAACGTGCTT 58.479 36.364 0.00 0.00 45.31 3.91
74 75 3.163630 ACAATCTTTTTGCAACGTGCT 57.836 38.095 0.00 0.00 45.31 4.40
75 76 3.596319 CAACAATCTTTTTGCAACGTGC 58.404 40.909 0.00 0.00 45.29 5.34
76 77 3.596319 GCAACAATCTTTTTGCAACGTG 58.404 40.909 0.00 0.00 46.13 4.49
77 78 3.923827 GCAACAATCTTTTTGCAACGT 57.076 38.095 0.00 0.00 46.13 3.99
83 84 5.107607 GCTCACATCAGCAACAATCTTTTTG 60.108 40.000 0.00 0.00 39.43 2.44
84 85 4.986659 GCTCACATCAGCAACAATCTTTTT 59.013 37.500 0.00 0.00 39.43 1.94
85 86 4.553323 GCTCACATCAGCAACAATCTTTT 58.447 39.130 0.00 0.00 39.43 2.27
86 87 3.365666 CGCTCACATCAGCAACAATCTTT 60.366 43.478 0.00 0.00 39.62 2.52
87 88 2.161012 CGCTCACATCAGCAACAATCTT 59.839 45.455 0.00 0.00 39.62 2.40
88 89 1.736126 CGCTCACATCAGCAACAATCT 59.264 47.619 0.00 0.00 39.62 2.40
89 90 1.202110 CCGCTCACATCAGCAACAATC 60.202 52.381 0.00 0.00 39.62 2.67
90 91 0.806868 CCGCTCACATCAGCAACAAT 59.193 50.000 0.00 0.00 39.62 2.71
91 92 0.534877 ACCGCTCACATCAGCAACAA 60.535 50.000 0.00 0.00 39.62 2.83
92 93 1.071299 ACCGCTCACATCAGCAACA 59.929 52.632 0.00 0.00 39.62 3.33
93 94 0.950555 TCACCGCTCACATCAGCAAC 60.951 55.000 0.00 0.00 39.62 4.17
94 95 0.671472 CTCACCGCTCACATCAGCAA 60.671 55.000 0.00 0.00 39.62 3.91
95 96 1.079612 CTCACCGCTCACATCAGCA 60.080 57.895 0.00 0.00 39.62 4.41
96 97 2.459442 GCTCACCGCTCACATCAGC 61.459 63.158 0.00 0.00 35.90 4.26
97 98 1.812922 GGCTCACCGCTCACATCAG 60.813 63.158 0.00 0.00 39.13 2.90
98 99 2.265739 GGCTCACCGCTCACATCA 59.734 61.111 0.00 0.00 39.13 3.07
99 100 2.512515 GGGCTCACCGCTCACATC 60.513 66.667 0.00 0.00 39.60 3.06
100 101 3.321648 TGGGCTCACCGCTCACAT 61.322 61.111 0.00 0.00 46.33 3.21
104 105 4.783621 TGCATGGGCTCACCGCTC 62.784 66.667 10.92 0.00 44.64 5.03
107 108 4.758251 TCGTGCATGGGCTCACCG 62.758 66.667 5.98 0.00 44.64 4.94
108 109 2.803155 TTCTCGTGCATGGGCTCACC 62.803 60.000 5.98 0.00 41.91 4.02
109 110 1.364626 CTTCTCGTGCATGGGCTCAC 61.365 60.000 5.98 0.00 41.91 3.51
110 111 1.078918 CTTCTCGTGCATGGGCTCA 60.079 57.895 5.98 0.00 41.91 4.26
111 112 0.391661 TTCTTCTCGTGCATGGGCTC 60.392 55.000 5.98 0.00 41.91 4.70
112 113 0.254178 ATTCTTCTCGTGCATGGGCT 59.746 50.000 5.98 0.00 41.91 5.19
113 114 0.379669 CATTCTTCTCGTGCATGGGC 59.620 55.000 5.98 0.00 41.68 5.36
114 115 2.028420 TCATTCTTCTCGTGCATGGG 57.972 50.000 5.98 1.74 0.00 4.00
115 116 2.222886 CGTTCATTCTTCTCGTGCATGG 60.223 50.000 5.98 0.00 0.00 3.66
116 117 2.222886 CCGTTCATTCTTCTCGTGCATG 60.223 50.000 0.00 0.00 0.00 4.06
117 118 2.002586 CCGTTCATTCTTCTCGTGCAT 58.997 47.619 0.00 0.00 0.00 3.96
118 119 1.000394 TCCGTTCATTCTTCTCGTGCA 60.000 47.619 0.00 0.00 0.00 4.57
119 120 1.710013 TCCGTTCATTCTTCTCGTGC 58.290 50.000 0.00 0.00 0.00 5.34
120 121 2.092838 GCTTCCGTTCATTCTTCTCGTG 59.907 50.000 0.00 0.00 0.00 4.35
121 122 2.288825 TGCTTCCGTTCATTCTTCTCGT 60.289 45.455 0.00 0.00 0.00 4.18
122 123 2.092838 GTGCTTCCGTTCATTCTTCTCG 59.907 50.000 0.00 0.00 0.00 4.04
123 124 2.416893 GGTGCTTCCGTTCATTCTTCTC 59.583 50.000 0.00 0.00 0.00 2.87
124 125 2.427506 GGTGCTTCCGTTCATTCTTCT 58.572 47.619 0.00 0.00 0.00 2.85
125 126 2.902065 GGTGCTTCCGTTCATTCTTC 57.098 50.000 0.00 0.00 0.00 2.87
136 137 0.733909 GCAAATCAAGCGGTGCTTCC 60.734 55.000 0.16 0.00 46.77 3.46
137 138 0.039256 TGCAAATCAAGCGGTGCTTC 60.039 50.000 0.16 0.00 46.77 3.86
139 140 1.174712 AGTGCAAATCAAGCGGTGCT 61.175 50.000 0.00 0.00 42.56 4.40
140 141 0.318955 AAGTGCAAATCAAGCGGTGC 60.319 50.000 0.00 0.00 37.51 5.01
141 142 2.483877 TCTAAGTGCAAATCAAGCGGTG 59.516 45.455 0.00 0.00 33.85 4.94
142 143 2.778299 TCTAAGTGCAAATCAAGCGGT 58.222 42.857 0.00 0.00 33.85 5.68
143 144 3.829886 TTCTAAGTGCAAATCAAGCGG 57.170 42.857 0.00 0.00 33.85 5.52
144 145 5.386323 CGTTTTTCTAAGTGCAAATCAAGCG 60.386 40.000 0.00 0.00 33.85 4.68
145 146 5.107875 CCGTTTTTCTAAGTGCAAATCAAGC 60.108 40.000 0.00 0.00 0.00 4.01
146 147 6.205784 TCCGTTTTTCTAAGTGCAAATCAAG 58.794 36.000 0.00 0.00 0.00 3.02
147 148 6.137794 TCCGTTTTTCTAAGTGCAAATCAA 57.862 33.333 0.00 0.00 0.00 2.57
148 149 5.759506 TCCGTTTTTCTAAGTGCAAATCA 57.240 34.783 0.00 0.00 0.00 2.57
149 150 7.009723 TGTTTTCCGTTTTTCTAAGTGCAAATC 59.990 33.333 0.00 0.00 0.00 2.17
150 151 6.814146 TGTTTTCCGTTTTTCTAAGTGCAAAT 59.186 30.769 0.00 0.00 0.00 2.32
151 152 6.157211 TGTTTTCCGTTTTTCTAAGTGCAAA 58.843 32.000 0.00 0.00 0.00 3.68
152 153 5.710984 TGTTTTCCGTTTTTCTAAGTGCAA 58.289 33.333 0.00 0.00 0.00 4.08
153 154 5.106078 ACTGTTTTCCGTTTTTCTAAGTGCA 60.106 36.000 0.00 0.00 0.00 4.57
154 155 5.337554 ACTGTTTTCCGTTTTTCTAAGTGC 58.662 37.500 0.00 0.00 0.00 4.40
155 156 7.465989 TGTACTGTTTTCCGTTTTTCTAAGTG 58.534 34.615 0.00 0.00 0.00 3.16
156 157 7.614124 TGTACTGTTTTCCGTTTTTCTAAGT 57.386 32.000 0.00 0.00 0.00 2.24
157 158 8.179615 AGTTGTACTGTTTTCCGTTTTTCTAAG 58.820 33.333 0.00 0.00 0.00 2.18
158 159 8.042944 AGTTGTACTGTTTTCCGTTTTTCTAA 57.957 30.769 0.00 0.00 0.00 2.10
159 160 7.614124 AGTTGTACTGTTTTCCGTTTTTCTA 57.386 32.000 0.00 0.00 0.00 2.10
160 161 6.505044 AGTTGTACTGTTTTCCGTTTTTCT 57.495 33.333 0.00 0.00 0.00 2.52
161 162 6.453265 GCAAGTTGTACTGTTTTCCGTTTTTC 60.453 38.462 4.48 0.00 0.00 2.29
162 163 5.346551 GCAAGTTGTACTGTTTTCCGTTTTT 59.653 36.000 4.48 0.00 0.00 1.94
163 164 4.860352 GCAAGTTGTACTGTTTTCCGTTTT 59.140 37.500 4.48 0.00 0.00 2.43
164 165 4.417506 GCAAGTTGTACTGTTTTCCGTTT 58.582 39.130 4.48 0.00 0.00 3.60
165 166 3.486209 CGCAAGTTGTACTGTTTTCCGTT 60.486 43.478 4.48 0.00 0.00 4.44
166 167 2.031191 CGCAAGTTGTACTGTTTTCCGT 59.969 45.455 4.48 0.00 0.00 4.69
167 168 2.601266 CCGCAAGTTGTACTGTTTTCCG 60.601 50.000 4.48 0.00 0.00 4.30
168 169 2.857104 GCCGCAAGTTGTACTGTTTTCC 60.857 50.000 4.48 0.00 0.00 3.13
169 170 2.223386 TGCCGCAAGTTGTACTGTTTTC 60.223 45.455 4.48 0.00 0.00 2.29
170 171 1.746220 TGCCGCAAGTTGTACTGTTTT 59.254 42.857 4.48 0.00 0.00 2.43
171 172 1.064952 GTGCCGCAAGTTGTACTGTTT 59.935 47.619 4.48 0.00 0.00 2.83
172 173 0.661020 GTGCCGCAAGTTGTACTGTT 59.339 50.000 4.48 0.00 0.00 3.16
173 174 1.495584 CGTGCCGCAAGTTGTACTGT 61.496 55.000 4.48 0.00 0.00 3.55
174 175 1.204062 CGTGCCGCAAGTTGTACTG 59.796 57.895 4.48 0.00 0.00 2.74
175 176 0.944311 CTCGTGCCGCAAGTTGTACT 60.944 55.000 4.48 0.00 0.00 2.73
176 177 1.219522 ACTCGTGCCGCAAGTTGTAC 61.220 55.000 4.48 0.00 0.00 2.90
177 178 1.068417 ACTCGTGCCGCAAGTTGTA 59.932 52.632 4.48 0.00 0.00 2.41
178 179 2.203015 ACTCGTGCCGCAAGTTGT 60.203 55.556 4.48 4.42 0.00 3.32
179 180 2.249309 CACTCGTGCCGCAAGTTG 59.751 61.111 6.19 0.00 0.00 3.16
180 181 2.972505 CCACTCGTGCCGCAAGTT 60.973 61.111 6.19 0.00 0.00 2.66
181 182 4.235762 ACCACTCGTGCCGCAAGT 62.236 61.111 6.19 0.00 0.00 3.16
182 183 3.414700 GACCACTCGTGCCGCAAG 61.415 66.667 0.00 0.00 0.00 4.01
183 184 4.228567 TGACCACTCGTGCCGCAA 62.229 61.111 0.00 0.00 0.00 4.85
184 185 4.662961 CTGACCACTCGTGCCGCA 62.663 66.667 0.00 0.00 0.00 5.69
187 188 4.314440 TGGCTGACCACTCGTGCC 62.314 66.667 0.00 0.00 42.67 5.01
188 189 2.154798 TACTGGCTGACCACTCGTGC 62.155 60.000 0.00 0.00 42.67 5.34
189 190 0.317160 TTACTGGCTGACCACTCGTG 59.683 55.000 0.00 0.00 42.67 4.35
205 206 5.813157 GGACAGGATAGAGCTTCTGTTTTAC 59.187 44.000 0.00 0.00 40.13 2.01
206 207 5.394224 CGGACAGGATAGAGCTTCTGTTTTA 60.394 44.000 0.00 0.00 40.13 1.52
261 262 2.046009 TTGTGCAGAACCGGCCTGTA 62.046 55.000 21.11 16.10 34.29 2.74
268 269 0.655733 ACGAAACTTGTGCAGAACCG 59.344 50.000 0.00 0.00 0.00 4.44
502 503 0.674895 CGCCAGACTGGGAGAAAAGG 60.675 60.000 23.09 0.00 38.19 3.11
708 709 4.203654 AGAAAGGGGTCGATTTCTGTAC 57.796 45.455 10.21 0.00 42.62 2.90
712 713 5.045869 TGAATACAGAAAGGGGTCGATTTCT 60.046 40.000 6.02 6.02 44.53 2.52
721 722 4.335594 GTCCGAAATGAATACAGAAAGGGG 59.664 45.833 0.00 0.00 0.00 4.79
724 725 4.868171 TCCGTCCGAAATGAATACAGAAAG 59.132 41.667 0.00 0.00 0.00 2.62
732 733 3.722147 CTGATCTCCGTCCGAAATGAAT 58.278 45.455 0.00 0.00 0.00 2.57
752 753 1.754226 GACCGAGAAAGAGATGGAGCT 59.246 52.381 0.00 0.00 0.00 4.09
758 759 1.555533 GGGGTTGACCGAGAAAGAGAT 59.444 52.381 0.00 0.00 41.60 2.75
1082 1096 5.308825 ACTGCTTGCTATGTGTAAAGAGTT 58.691 37.500 0.00 0.00 0.00 3.01
1124 1138 7.759886 TCTGTAGTCTCGAAGATACAATTTTGG 59.240 37.037 5.20 0.00 35.99 3.28
1333 1348 1.960763 ATGTTCTTGCAGCGTCGCA 60.961 52.632 21.09 0.00 41.03 5.10
1669 1686 4.607325 ATCATCATCGCCGCGGCA 62.607 61.111 45.26 33.00 42.06 5.69
2086 2104 1.152756 AGGTGCCGCCAAGAAACTT 60.153 52.632 0.00 0.00 40.61 2.66
2460 2478 0.327924 AAATGATCCCACACCTGCGA 59.672 50.000 0.00 0.00 0.00 5.10
3010 3028 3.366052 AAAAGGAGCATATGTTCCCGT 57.634 42.857 29.04 17.89 45.27 5.28
3011 3029 3.443681 ACAAAAAGGAGCATATGTTCCCG 59.556 43.478 29.04 17.30 45.27 5.14
3361 3434 5.885912 AGAACTTTAGCTTGGAGAACAACAA 59.114 36.000 0.00 0.00 34.76 2.83
3390 3463 5.630061 TGTCGCTTGTTGATTATGTTCATG 58.370 37.500 0.00 0.00 0.00 3.07
3498 3571 4.572985 TTCTGAAAACGTCCGACTCTAA 57.427 40.909 0.00 0.00 0.00 2.10
3546 3619 0.106167 CCGGATGGAGGGAGTACTGA 60.106 60.000 0.00 0.00 37.49 3.41
3548 3621 2.329111 TCCGGATGGAGGGAGTACT 58.671 57.895 0.00 0.00 40.17 2.73
3557 3630 2.761767 TCGACAAGTATTTCCGGATGGA 59.238 45.455 4.15 0.00 44.61 3.41
3558 3631 3.173668 TCGACAAGTATTTCCGGATGG 57.826 47.619 4.15 0.00 0.00 3.51
3559 3632 5.539582 TTTTCGACAAGTATTTCCGGATG 57.460 39.130 4.15 0.97 0.00 3.51
3611 3684 9.781425 AGGAATGGATGTATCTAGACATATCTT 57.219 33.333 7.57 0.00 40.18 2.40
3612 3685 9.781425 AAGGAATGGATGTATCTAGACATATCT 57.219 33.333 7.57 0.00 40.18 1.98
3617 3690 8.988060 TGTTAAAGGAATGGATGTATCTAGACA 58.012 33.333 0.00 0.00 0.00 3.41
3618 3691 9.832445 TTGTTAAAGGAATGGATGTATCTAGAC 57.168 33.333 0.00 0.00 0.00 2.59
3620 3693 9.838339 ACTTGTTAAAGGAATGGATGTATCTAG 57.162 33.333 0.00 0.00 37.76 2.43
3626 3699 8.749354 GGAAATACTTGTTAAAGGAATGGATGT 58.251 33.333 0.00 0.00 37.76 3.06
3627 3700 7.915397 CGGAAATACTTGTTAAAGGAATGGATG 59.085 37.037 0.00 0.00 37.76 3.51
3628 3701 7.068226 CCGGAAATACTTGTTAAAGGAATGGAT 59.932 37.037 0.00 0.00 37.76 3.41
3629 3702 6.376018 CCGGAAATACTTGTTAAAGGAATGGA 59.624 38.462 0.00 0.00 37.76 3.41
3630 3703 6.376018 TCCGGAAATACTTGTTAAAGGAATGG 59.624 38.462 0.00 0.00 37.76 3.16
3631 3704 7.248437 GTCCGGAAATACTTGTTAAAGGAATG 58.752 38.462 5.23 0.00 37.76 2.67
3632 3705 6.093082 CGTCCGGAAATACTTGTTAAAGGAAT 59.907 38.462 5.23 0.00 37.76 3.01
3633 3706 5.409214 CGTCCGGAAATACTTGTTAAAGGAA 59.591 40.000 5.23 0.00 37.76 3.36
3634 3707 4.931002 CGTCCGGAAATACTTGTTAAAGGA 59.069 41.667 5.23 0.00 37.76 3.36
3635 3708 4.093850 CCGTCCGGAAATACTTGTTAAAGG 59.906 45.833 5.23 0.00 36.04 3.11
3636 3709 4.931002 TCCGTCCGGAAATACTTGTTAAAG 59.069 41.667 5.23 0.00 42.05 1.85
3637 3710 4.892433 TCCGTCCGGAAATACTTGTTAAA 58.108 39.130 5.23 0.00 42.05 1.52
3638 3711 4.497300 CTCCGTCCGGAAATACTTGTTAA 58.503 43.478 5.23 0.00 44.66 2.01
3639 3712 3.119029 CCTCCGTCCGGAAATACTTGTTA 60.119 47.826 5.23 0.00 44.66 2.41
3640 3713 2.354403 CCTCCGTCCGGAAATACTTGTT 60.354 50.000 5.23 0.00 44.66 2.83
3641 3714 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
3642 3715 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
3643 3716 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
3644 3717 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
3645 3718 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
3646 3719 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
3647 3720 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
3648 3721 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
3649 3722 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
3650 3723 2.273449 GTACTCCCTCCGTCCGGA 59.727 66.667 0.00 0.00 42.90 5.14
3651 3724 3.207669 CGTACTCCCTCCGTCCGG 61.208 72.222 0.00 0.00 0.00 5.14
3652 3725 1.589716 AAACGTACTCCCTCCGTCCG 61.590 60.000 0.00 0.00 32.95 4.79
3653 3726 0.605083 AAAACGTACTCCCTCCGTCC 59.395 55.000 0.00 0.00 32.95 4.79
3654 3727 2.159324 CCTAAAACGTACTCCCTCCGTC 60.159 54.545 0.00 0.00 32.95 4.79
3655 3728 1.821136 CCTAAAACGTACTCCCTCCGT 59.179 52.381 0.00 0.00 36.17 4.69
3656 3729 1.821136 ACCTAAAACGTACTCCCTCCG 59.179 52.381 0.00 0.00 0.00 4.63
3657 3730 2.827921 TGACCTAAAACGTACTCCCTCC 59.172 50.000 0.00 0.00 0.00 4.30
3658 3731 3.509184 AGTGACCTAAAACGTACTCCCTC 59.491 47.826 0.00 0.00 0.00 4.30
3659 3732 3.504375 AGTGACCTAAAACGTACTCCCT 58.496 45.455 0.00 0.00 0.00 4.20
3660 3733 3.949842 AGTGACCTAAAACGTACTCCC 57.050 47.619 0.00 0.00 0.00 4.30
3661 3734 5.163673 CCTCTAGTGACCTAAAACGTACTCC 60.164 48.000 0.00 0.00 0.00 3.85
3662 3735 5.414144 ACCTCTAGTGACCTAAAACGTACTC 59.586 44.000 0.00 0.00 0.00 2.59
3663 3736 5.320277 ACCTCTAGTGACCTAAAACGTACT 58.680 41.667 0.00 0.00 0.00 2.73
3706 3779 4.262164 GGATTTTGTCCATGTGAAGCTTGT 60.262 41.667 2.10 0.00 46.96 3.16
3734 3807 3.496870 GGCGGGAAGGTCTCATATTGATT 60.497 47.826 0.00 0.00 0.00 2.57
3816 3889 7.807977 TTGCATAAGAAACAGGGATATCTTC 57.192 36.000 2.05 0.00 34.24 2.87
3823 3896 7.531857 TGTTTAATTGCATAAGAAACAGGGA 57.468 32.000 10.79 0.00 33.83 4.20


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

AutoCloner maintained by Alex Coulton.