Multiple sequence alignment - TraesCS1D01G232200

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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 TraesCS1D01G232200 chr1D 100.000 3101 0 0 1 3101 320581386 320584486 0.000000e+00 5727
1 TraesCS1D01G232200 chr1D 87.054 224 23 3 157 374 320409205 320409428 6.640000e-62 248
2 TraesCS1D01G232200 chr1B 90.206 2430 120 51 265 2636 433597231 433599600 0.000000e+00 3061
3 TraesCS1D01G232200 chr1B 94.318 176 5 4 2903 3078 433599618 433599788 6.590000e-67 265
4 TraesCS1D01G232200 chr1A 93.058 2103 89 31 665 2731 402279078 402276997 0.000000e+00 3022
5 TraesCS1D01G232200 chr1A 84.449 463 56 10 168 619 402281762 402281305 2.840000e-120 442
6 TraesCS1D01G232200 chr1A 91.456 316 12 9 2792 3101 402276926 402276620 1.330000e-113 420
7 TraesCS1D01G232200 chr1A 95.775 142 6 0 1 142 535112290 535112149 2.410000e-56 230
8 TraesCS1D01G232200 chr1A 95.683 139 6 0 4 142 402796346 402796208 1.120000e-54 224
9 TraesCS1D01G232200 chr1A 85.581 215 24 2 165 377 402282152 402281943 5.210000e-53 219
10 TraesCS1D01G232200 chr4D 95.775 142 6 0 1 142 260801391 260801250 2.410000e-56 230
11 TraesCS1D01G232200 chr4B 95.070 142 7 0 1 142 409052128 409051987 1.120000e-54 224
12 TraesCS1D01G232200 chr3D 95.070 142 7 0 1 142 97309310 97309169 1.120000e-54 224
13 TraesCS1D01G232200 chr3D 95.070 142 7 0 1 142 476053513 476053654 1.120000e-54 224
14 TraesCS1D01G232200 chr2B 95.070 142 7 0 1 142 519203464 519203605 1.120000e-54 224
15 TraesCS1D01G232200 chr5D 95.070 142 6 1 1 142 84564285 84564425 4.020000e-54 222
16 TraesCS1D01G232200 chr3B 95.070 142 6 1 1 142 479773337 479773197 4.020000e-54 222


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 TraesCS1D01G232200 chr1D 320581386 320584486 3100 False 5727.00 5727 100.000 1 3101 1 chr1D.!!$F2 3100
1 TraesCS1D01G232200 chr1B 433597231 433599788 2557 False 1663.00 3061 92.262 265 3078 2 chr1B.!!$F1 2813
2 TraesCS1D01G232200 chr1A 402276620 402282152 5532 True 1025.75 3022 88.636 165 3101 4 chr1A.!!$R3 2936

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
525 939 0.381801 CACCGCACATGGCCTTATTC 59.618 55.0 3.32 0.0 40.31 1.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2177 4826 0.033228 GAGCCTGCGAGATATGCTGT 59.967 55.0 0.0 0.0 31.23 4.4 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
54 55 9.674824 CTGAATATGATAAGTTTGATTCCTTGC 57.325 33.333 0.00 0.00 0.00 4.01
55 56 9.187996 TGAATATGATAAGTTTGATTCCTTGCA 57.812 29.630 0.00 0.00 0.00 4.08
56 57 9.674824 GAATATGATAAGTTTGATTCCTTGCAG 57.325 33.333 0.00 0.00 0.00 4.41
57 58 8.757982 ATATGATAAGTTTGATTCCTTGCAGT 57.242 30.769 0.00 0.00 0.00 4.40
58 59 9.851686 ATATGATAAGTTTGATTCCTTGCAGTA 57.148 29.630 0.00 0.00 0.00 2.74
59 60 7.615582 TGATAAGTTTGATTCCTTGCAGTAG 57.384 36.000 0.00 0.00 0.00 2.57
60 61 6.599244 TGATAAGTTTGATTCCTTGCAGTAGG 59.401 38.462 0.00 0.00 36.59 3.18
61 62 4.373156 AGTTTGATTCCTTGCAGTAGGT 57.627 40.909 4.36 0.00 36.63 3.08
62 63 4.729868 AGTTTGATTCCTTGCAGTAGGTT 58.270 39.130 4.36 0.00 36.63 3.50
63 64 5.140454 AGTTTGATTCCTTGCAGTAGGTTT 58.860 37.500 4.36 0.00 36.63 3.27
64 65 5.010012 AGTTTGATTCCTTGCAGTAGGTTTG 59.990 40.000 4.36 0.00 36.63 2.93
65 66 2.819608 TGATTCCTTGCAGTAGGTTTGC 59.180 45.455 4.36 0.00 41.86 3.68
66 67 1.234821 TTCCTTGCAGTAGGTTTGCG 58.765 50.000 4.36 0.00 44.40 4.85
67 68 0.394938 TCCTTGCAGTAGGTTTGCGA 59.605 50.000 4.36 0.00 44.40 5.10
68 69 0.517316 CCTTGCAGTAGGTTTGCGAC 59.483 55.000 0.00 0.00 44.40 5.19
69 70 1.225855 CTTGCAGTAGGTTTGCGACA 58.774 50.000 0.00 0.00 44.40 4.35
70 71 1.806542 CTTGCAGTAGGTTTGCGACAT 59.193 47.619 0.00 0.00 44.40 3.06
71 72 1.890876 TGCAGTAGGTTTGCGACATT 58.109 45.000 0.00 0.00 44.40 2.71
72 73 1.535028 TGCAGTAGGTTTGCGACATTG 59.465 47.619 0.00 0.00 44.40 2.82
73 74 1.804151 GCAGTAGGTTTGCGACATTGA 59.196 47.619 0.00 0.00 0.00 2.57
74 75 2.159653 GCAGTAGGTTTGCGACATTGAG 60.160 50.000 0.00 0.00 0.00 3.02
75 76 3.325870 CAGTAGGTTTGCGACATTGAGA 58.674 45.455 0.00 0.00 0.00 3.27
76 77 3.935203 CAGTAGGTTTGCGACATTGAGAT 59.065 43.478 0.00 0.00 0.00 2.75
77 78 3.935203 AGTAGGTTTGCGACATTGAGATG 59.065 43.478 0.00 0.00 39.25 2.90
78 79 2.086869 AGGTTTGCGACATTGAGATGG 58.913 47.619 0.00 0.00 37.60 3.51
79 80 1.812571 GGTTTGCGACATTGAGATGGT 59.187 47.619 0.00 0.00 37.60 3.55
80 81 3.006940 GGTTTGCGACATTGAGATGGTA 58.993 45.455 0.00 0.00 37.60 3.25
81 82 3.438781 GGTTTGCGACATTGAGATGGTAA 59.561 43.478 0.00 0.00 37.60 2.85
82 83 4.096382 GGTTTGCGACATTGAGATGGTAAT 59.904 41.667 0.00 0.00 37.60 1.89
83 84 5.295787 GGTTTGCGACATTGAGATGGTAATA 59.704 40.000 0.00 0.00 37.60 0.98
84 85 6.017109 GGTTTGCGACATTGAGATGGTAATAT 60.017 38.462 0.00 0.00 37.60 1.28
85 86 6.544038 TTGCGACATTGAGATGGTAATATG 57.456 37.500 0.00 0.00 37.60 1.78
86 87 5.610398 TGCGACATTGAGATGGTAATATGT 58.390 37.500 0.00 0.00 37.60 2.29
87 88 5.466393 TGCGACATTGAGATGGTAATATGTG 59.534 40.000 0.00 0.00 37.60 3.21
88 89 5.106948 GCGACATTGAGATGGTAATATGTGG 60.107 44.000 0.00 0.00 37.60 4.17
89 90 5.409520 CGACATTGAGATGGTAATATGTGGG 59.590 44.000 0.00 0.00 37.60 4.61
90 91 6.514012 ACATTGAGATGGTAATATGTGGGA 57.486 37.500 0.00 0.00 37.60 4.37
91 92 6.537355 ACATTGAGATGGTAATATGTGGGAG 58.463 40.000 0.00 0.00 37.60 4.30
92 93 5.567037 TTGAGATGGTAATATGTGGGAGG 57.433 43.478 0.00 0.00 0.00 4.30
93 94 4.566837 TGAGATGGTAATATGTGGGAGGT 58.433 43.478 0.00 0.00 0.00 3.85
94 95 5.722290 TGAGATGGTAATATGTGGGAGGTA 58.278 41.667 0.00 0.00 0.00 3.08
95 96 5.542635 TGAGATGGTAATATGTGGGAGGTAC 59.457 44.000 0.00 0.00 0.00 3.34
97 98 6.871035 AGATGGTAATATGTGGGAGGTACTA 58.129 40.000 0.00 0.00 41.55 1.82
98 99 6.954684 AGATGGTAATATGTGGGAGGTACTAG 59.045 42.308 0.00 0.00 41.55 2.57
99 100 6.034442 TGGTAATATGTGGGAGGTACTAGT 57.966 41.667 0.00 0.00 41.55 2.57
100 101 5.836898 TGGTAATATGTGGGAGGTACTAGTG 59.163 44.000 5.39 0.00 41.55 2.74
101 102 6.073314 GGTAATATGTGGGAGGTACTAGTGA 58.927 44.000 5.39 0.00 41.55 3.41
102 103 6.552350 GGTAATATGTGGGAGGTACTAGTGAA 59.448 42.308 5.39 0.00 41.55 3.18
103 104 7.234988 GGTAATATGTGGGAGGTACTAGTGAAT 59.765 40.741 5.39 0.00 41.55 2.57
104 105 6.672266 ATATGTGGGAGGTACTAGTGAATG 57.328 41.667 5.39 0.00 41.55 2.67
105 106 4.055710 TGTGGGAGGTACTAGTGAATGA 57.944 45.455 5.39 0.00 41.55 2.57
106 107 4.620723 TGTGGGAGGTACTAGTGAATGAT 58.379 43.478 5.39 0.00 41.55 2.45
107 108 5.030147 TGTGGGAGGTACTAGTGAATGATT 58.970 41.667 5.39 0.00 41.55 2.57
108 109 5.104941 TGTGGGAGGTACTAGTGAATGATTG 60.105 44.000 5.39 0.00 41.55 2.67
109 110 5.030147 TGGGAGGTACTAGTGAATGATTGT 58.970 41.667 5.39 0.00 41.55 2.71
110 111 5.487488 TGGGAGGTACTAGTGAATGATTGTT 59.513 40.000 5.39 0.00 41.55 2.83
111 112 5.817816 GGGAGGTACTAGTGAATGATTGTTG 59.182 44.000 5.39 0.00 41.55 3.33
112 113 6.407202 GGAGGTACTAGTGAATGATTGTTGT 58.593 40.000 5.39 0.00 41.55 3.32
113 114 6.879458 GGAGGTACTAGTGAATGATTGTTGTT 59.121 38.462 5.39 0.00 41.55 2.83
114 115 7.390718 GGAGGTACTAGTGAATGATTGTTGTTT 59.609 37.037 5.39 0.00 41.55 2.83
115 116 9.431887 GAGGTACTAGTGAATGATTGTTGTTTA 57.568 33.333 5.39 0.00 41.55 2.01
116 117 9.436957 AGGTACTAGTGAATGATTGTTGTTTAG 57.563 33.333 5.39 0.00 36.02 1.85
117 118 9.216117 GGTACTAGTGAATGATTGTTGTTTAGT 57.784 33.333 5.39 0.00 0.00 2.24
152 153 9.567776 TGATGTTAAGGTTTGTATATATGTGGG 57.432 33.333 0.00 0.00 0.00 4.61
153 154 9.787435 GATGTTAAGGTTTGTATATATGTGGGA 57.213 33.333 0.00 0.00 0.00 4.37
155 156 9.567776 TGTTAAGGTTTGTATATATGTGGGATG 57.432 33.333 0.00 0.00 0.00 3.51
156 157 9.569122 GTTAAGGTTTGTATATATGTGGGATGT 57.431 33.333 0.00 0.00 0.00 3.06
161 162 9.832445 GGTTTGTATATATGTGGGATGTATAGG 57.168 37.037 0.00 0.00 0.00 2.57
173 174 6.202188 GTGGGATGTATAGGTGAACAATTACG 59.798 42.308 0.00 0.00 0.00 3.18
180 181 9.316730 TGTATAGGTGAACAATTACGGATTTAC 57.683 33.333 0.00 0.00 0.00 2.01
182 183 5.812286 AGGTGAACAATTACGGATTTACCT 58.188 37.500 0.00 0.00 36.31 3.08
194 195 4.073549 CGGATTTACCTGGTTTGGTTACA 58.926 43.478 3.84 0.00 41.22 2.41
195 196 4.083164 CGGATTTACCTGGTTTGGTTACAC 60.083 45.833 3.84 0.00 41.22 2.90
197 198 3.834489 TTACCTGGTTTGGTTACACGA 57.166 42.857 3.84 0.00 41.22 4.35
206 207 4.999311 GGTTTGGTTACACGAAGGATTAGT 59.001 41.667 0.00 0.00 32.87 2.24
220 221 4.362677 AGGATTAGTGTTGAAGCTAGGGA 58.637 43.478 0.00 0.00 0.00 4.20
224 225 2.183679 AGTGTTGAAGCTAGGGAGGAG 58.816 52.381 0.00 0.00 0.00 3.69
232 233 1.705450 CTAGGGAGGAGGGAGGGGA 60.705 68.421 0.00 0.00 0.00 4.81
233 234 2.019272 TAGGGAGGAGGGAGGGGAC 61.019 68.421 0.00 0.00 0.00 4.46
253 254 2.495669 ACCCACCCATTTGAAATTAGCG 59.504 45.455 0.00 0.00 0.00 4.26
282 285 4.749598 GGGTGTTATTTGGAAGCTTTTGTG 59.250 41.667 0.00 0.00 0.00 3.33
326 329 6.019801 CGTAGGTTCAGAATTATCGTTTGAGG 60.020 42.308 0.00 0.00 0.00 3.86
374 769 8.834749 TGTAATAGCGTGTGCCATTATATTAA 57.165 30.769 0.00 0.00 44.31 1.40
452 848 5.562890 GCCCTTTGAGATAAATGTTATCCGC 60.563 44.000 4.71 0.00 0.00 5.54
525 939 0.381801 CACCGCACATGGCCTTATTC 59.618 55.000 3.32 0.00 40.31 1.75
586 1002 3.129287 TCGTACCTGAAACCCTTCGATAC 59.871 47.826 0.00 0.00 33.94 2.24
588 1004 3.329929 ACCTGAAACCCTTCGATACAC 57.670 47.619 0.00 0.00 33.94 2.90
847 3450 1.342496 GCATCATCTCATCCGTCTCCA 59.658 52.381 0.00 0.00 0.00 3.86
1071 3697 3.394836 GACGGCAAGGAGGAGGCT 61.395 66.667 0.00 0.00 0.00 4.58
1140 3769 2.516460 CTGCTGCAGATCCTGGGC 60.516 66.667 24.88 0.00 32.44 5.36
1506 4144 1.859427 GACCCAGCGACGACACACTA 61.859 60.000 0.00 0.00 0.00 2.74
1510 4148 2.257371 GCGACGACACACTAGCCA 59.743 61.111 0.00 0.00 0.00 4.75
2115 4759 3.947132 CTGACCGCCTGCTCCAGTG 62.947 68.421 0.00 0.00 0.00 3.66
2139 4788 2.512286 CGGCGACATGACAGGCAT 60.512 61.111 0.00 0.00 37.85 4.40
2140 4789 1.227234 CGGCGACATGACAGGCATA 60.227 57.895 0.00 0.00 34.82 3.14
2142 4791 0.179073 GGCGACATGACAGGCATACT 60.179 55.000 0.00 0.00 34.82 2.12
2143 4792 1.068588 GGCGACATGACAGGCATACTA 59.931 52.381 0.00 0.00 34.82 1.82
2145 4794 2.034685 GCGACATGACAGGCATACTAGA 59.965 50.000 0.00 0.00 34.82 2.43
2146 4795 3.855154 GCGACATGACAGGCATACTAGAG 60.855 52.174 0.00 0.00 34.82 2.43
2161 4810 1.135915 CTAGAGACGCTCTGCCATTGT 59.864 52.381 16.48 0.00 41.37 2.71
2164 4813 0.035317 AGACGCTCTGCCATTGTTGA 59.965 50.000 0.00 0.00 0.00 3.18
2177 4826 3.427368 CCATTGTTGAATCGATCGCCAAA 60.427 43.478 11.09 0.00 0.00 3.28
2185 4834 2.238942 TCGATCGCCAAACAGCATAT 57.761 45.000 11.09 0.00 0.00 1.78
2198 4847 1.047002 AGCATATCTCGCAGGCTCTT 58.953 50.000 0.00 0.00 0.00 2.85
2203 4852 1.323412 ATCTCGCAGGCTCTTACGAT 58.677 50.000 0.00 0.00 33.53 3.73
2206 4855 2.290916 TCTCGCAGGCTCTTACGATAAG 59.709 50.000 0.00 0.00 33.53 1.73
2283 4932 9.381033 CATCTGTTCTCTTGTATCTTTTCATCT 57.619 33.333 0.00 0.00 0.00 2.90
2367 5019 5.953183 ACATAATTACATTGGCGCCATATG 58.047 37.500 32.10 32.10 0.00 1.78
2415 5067 0.107897 ACAATCCGCGTCCTATGCAA 60.108 50.000 4.92 0.00 0.00 4.08
2417 5069 0.178068 AATCCGCGTCCTATGCAACT 59.822 50.000 4.92 0.00 0.00 3.16
2426 5078 5.047847 GCGTCCTATGCAACTTATGTTCTA 58.952 41.667 0.00 0.00 33.52 2.10
2438 5090 7.691050 GCAACTTATGTTCTACAATTACCGAAC 59.309 37.037 0.00 0.00 37.02 3.95
2439 5091 7.515957 ACTTATGTTCTACAATTACCGAACG 57.484 36.000 0.00 0.00 38.78 3.95
2477 5129 0.108585 CCACACCACACTGCTAGGTT 59.891 55.000 0.00 0.00 32.15 3.50
2478 5130 1.346395 CCACACCACACTGCTAGGTTA 59.654 52.381 0.00 0.00 32.15 2.85
2479 5131 2.224426 CCACACCACACTGCTAGGTTAA 60.224 50.000 0.00 0.00 32.15 2.01
2537 5189 3.435275 GCTTTTGAATCCTCCCCTTTCT 58.565 45.455 0.00 0.00 0.00 2.52
2555 5207 8.166726 CCCCTTTCTGATTATTATCTTAAGCCT 58.833 37.037 0.00 0.00 0.00 4.58
2574 5226 1.197721 CTCAACTTGCAAGTTAGGGCG 59.802 52.381 37.19 26.31 46.89 6.13
2608 5260 1.276138 TCCATGCGTGTCAGAGATTGT 59.724 47.619 4.96 0.00 0.00 2.71
2701 5356 1.956636 TGGCAATTGGCACTGATCCTC 60.957 52.381 29.00 0.00 46.12 3.71
2731 5386 1.773856 TTGCGTGGGATTCCTCACCA 61.774 55.000 14.80 11.86 0.00 4.17
2732 5387 1.450312 GCGTGGGATTCCTCACCAG 60.450 63.158 14.80 6.73 34.39 4.00
2733 5388 1.899437 GCGTGGGATTCCTCACCAGA 61.899 60.000 14.80 0.00 34.39 3.86
2734 5389 0.613260 CGTGGGATTCCTCACCAGAA 59.387 55.000 14.80 0.00 34.39 3.02
2735 5390 1.406069 CGTGGGATTCCTCACCAGAAG 60.406 57.143 14.80 2.21 34.39 2.85
2736 5391 0.620556 TGGGATTCCTCACCAGAAGC 59.379 55.000 2.01 0.00 0.00 3.86
2737 5392 0.620556 GGGATTCCTCACCAGAAGCA 59.379 55.000 2.01 0.00 31.28 3.91
2738 5393 1.004745 GGGATTCCTCACCAGAAGCAA 59.995 52.381 2.01 0.00 31.28 3.91
2739 5394 2.357569 GGGATTCCTCACCAGAAGCAAT 60.358 50.000 2.01 0.00 31.28 3.56
2741 5396 4.526970 GGATTCCTCACCAGAAGCAATAA 58.473 43.478 0.00 0.00 31.28 1.40
2743 5398 4.365514 TTCCTCACCAGAAGCAATAACA 57.634 40.909 0.00 0.00 0.00 2.41
2744 5399 4.365514 TCCTCACCAGAAGCAATAACAA 57.634 40.909 0.00 0.00 0.00 2.83
2745 5400 4.724399 TCCTCACCAGAAGCAATAACAAA 58.276 39.130 0.00 0.00 0.00 2.83
2746 5401 5.136828 TCCTCACCAGAAGCAATAACAAAA 58.863 37.500 0.00 0.00 0.00 2.44
2747 5402 5.774690 TCCTCACCAGAAGCAATAACAAAAT 59.225 36.000 0.00 0.00 0.00 1.82
2748 5403 6.945435 TCCTCACCAGAAGCAATAACAAAATA 59.055 34.615 0.00 0.00 0.00 1.40
2749 5404 7.450014 TCCTCACCAGAAGCAATAACAAAATAA 59.550 33.333 0.00 0.00 0.00 1.40
2750 5405 7.756722 CCTCACCAGAAGCAATAACAAAATAAG 59.243 37.037 0.00 0.00 0.00 1.73
2751 5406 7.090173 TCACCAGAAGCAATAACAAAATAAGC 58.910 34.615 0.00 0.00 0.00 3.09
2752 5407 7.039784 TCACCAGAAGCAATAACAAAATAAGCT 60.040 33.333 0.00 0.00 0.00 3.74
2753 5408 7.274250 CACCAGAAGCAATAACAAAATAAGCTC 59.726 37.037 0.00 0.00 0.00 4.09
2754 5409 6.753744 CCAGAAGCAATAACAAAATAAGCTCC 59.246 38.462 0.00 0.00 0.00 4.70
2755 5410 6.753744 CAGAAGCAATAACAAAATAAGCTCCC 59.246 38.462 0.00 0.00 0.00 4.30
2756 5411 5.598416 AGCAATAACAAAATAAGCTCCCC 57.402 39.130 0.00 0.00 0.00 4.81
2757 5412 4.097892 AGCAATAACAAAATAAGCTCCCCG 59.902 41.667 0.00 0.00 0.00 5.73
2758 5413 4.142249 GCAATAACAAAATAAGCTCCCCGT 60.142 41.667 0.00 0.00 0.00 5.28
2759 5414 5.578776 CAATAACAAAATAAGCTCCCCGTC 58.421 41.667 0.00 0.00 0.00 4.79
2760 5415 2.124277 ACAAAATAAGCTCCCCGTCC 57.876 50.000 0.00 0.00 0.00 4.79
2761 5416 1.353022 ACAAAATAAGCTCCCCGTCCA 59.647 47.619 0.00 0.00 0.00 4.02
2762 5417 2.025321 ACAAAATAAGCTCCCCGTCCAT 60.025 45.455 0.00 0.00 0.00 3.41
2763 5418 2.348411 AAATAAGCTCCCCGTCCATG 57.652 50.000 0.00 0.00 0.00 3.66
2764 5419 0.474184 AATAAGCTCCCCGTCCATGG 59.526 55.000 4.97 4.97 0.00 3.66
2765 5420 2.056906 ATAAGCTCCCCGTCCATGGC 62.057 60.000 6.96 0.96 0.00 4.40
2786 5441 1.242076 GTCACTGCTTCCATGCAACT 58.758 50.000 0.00 0.00 42.83 3.16
2815 5506 5.796424 ATATTCATTCCCTTTGCCATCAC 57.204 39.130 0.00 0.00 0.00 3.06
2816 5507 1.462616 TCATTCCCTTTGCCATCACG 58.537 50.000 0.00 0.00 0.00 4.35
2841 5532 4.832608 GCGACATCCACCCCCGTC 62.833 72.222 0.00 0.00 0.00 4.79
2842 5533 4.157120 CGACATCCACCCCCGTCC 62.157 72.222 0.00 0.00 0.00 4.79
2843 5534 4.157120 GACATCCACCCCCGTCCG 62.157 72.222 0.00 0.00 0.00 4.79
2844 5535 4.707768 ACATCCACCCCCGTCCGA 62.708 66.667 0.00 0.00 0.00 4.55
2853 5544 2.117865 ACCCCCGTCCGATTGTTTATA 58.882 47.619 0.00 0.00 0.00 0.98
2854 5545 2.504996 ACCCCCGTCCGATTGTTTATAA 59.495 45.455 0.00 0.00 0.00 0.98
2863 5554 3.869246 CCGATTGTTTATAAGTGGCGAGT 59.131 43.478 0.00 0.00 0.00 4.18
2991 5682 1.087771 CGGCCCTTCGTTATCCACAC 61.088 60.000 0.00 0.00 0.00 3.82
2993 5684 1.369625 GCCCTTCGTTATCCACACAG 58.630 55.000 0.00 0.00 0.00 3.66
2994 5685 1.066430 GCCCTTCGTTATCCACACAGA 60.066 52.381 0.00 0.00 0.00 3.41
2996 5687 3.873910 CCCTTCGTTATCCACACAGATT 58.126 45.455 0.00 0.00 0.00 2.40
2997 5688 4.261801 CCCTTCGTTATCCACACAGATTT 58.738 43.478 0.00 0.00 0.00 2.17
2998 5689 4.094887 CCCTTCGTTATCCACACAGATTTG 59.905 45.833 0.00 0.00 0.00 2.32
2999 5690 4.437390 CCTTCGTTATCCACACAGATTTGC 60.437 45.833 0.00 0.00 0.00 3.68
3000 5691 3.006940 TCGTTATCCACACAGATTTGCC 58.993 45.455 0.00 0.00 0.00 4.52
3002 5693 2.747446 GTTATCCACACAGATTTGCCGT 59.253 45.455 0.00 0.00 0.00 5.68
3049 5742 3.564225 TGCTTCTCCGAGGTTTCTTTTTC 59.436 43.478 0.00 0.00 0.00 2.29
3050 5743 3.815962 GCTTCTCCGAGGTTTCTTTTTCT 59.184 43.478 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 9.674824 GCAAGGAATCAAACTTATCATATTCAG 57.325 33.333 0.00 0.00 0.00 3.02
29 30 9.187996 TGCAAGGAATCAAACTTATCATATTCA 57.812 29.630 0.00 0.00 0.00 2.57
30 31 9.674824 CTGCAAGGAATCAAACTTATCATATTC 57.325 33.333 0.00 0.00 0.00 1.75
31 32 9.193806 ACTGCAAGGAATCAAACTTATCATATT 57.806 29.630 0.00 0.00 39.30 1.28
32 33 8.757982 ACTGCAAGGAATCAAACTTATCATAT 57.242 30.769 0.00 0.00 39.30 1.78
33 34 9.330063 CTACTGCAAGGAATCAAACTTATCATA 57.670 33.333 0.00 0.00 39.30 2.15
34 35 7.284034 CCTACTGCAAGGAATCAAACTTATCAT 59.716 37.037 0.00 0.00 39.15 2.45
35 36 6.599244 CCTACTGCAAGGAATCAAACTTATCA 59.401 38.462 0.00 0.00 39.15 2.15
36 37 6.599638 ACCTACTGCAAGGAATCAAACTTATC 59.400 38.462 11.52 0.00 39.15 1.75
37 38 6.485171 ACCTACTGCAAGGAATCAAACTTAT 58.515 36.000 11.52 0.00 39.15 1.73
38 39 5.876357 ACCTACTGCAAGGAATCAAACTTA 58.124 37.500 11.52 0.00 39.15 2.24
39 40 4.729868 ACCTACTGCAAGGAATCAAACTT 58.270 39.130 11.52 0.00 39.15 2.66
40 41 4.373156 ACCTACTGCAAGGAATCAAACT 57.627 40.909 11.52 0.00 39.15 2.66
41 42 5.222631 CAAACCTACTGCAAGGAATCAAAC 58.777 41.667 11.52 0.00 39.15 2.93
42 43 4.261994 GCAAACCTACTGCAAGGAATCAAA 60.262 41.667 11.52 0.00 39.15 2.69
43 44 3.255642 GCAAACCTACTGCAAGGAATCAA 59.744 43.478 11.52 0.00 39.15 2.57
44 45 2.819608 GCAAACCTACTGCAAGGAATCA 59.180 45.455 11.52 0.00 39.15 2.57
45 46 2.159517 CGCAAACCTACTGCAAGGAATC 60.160 50.000 11.52 0.00 39.91 2.52
46 47 1.812571 CGCAAACCTACTGCAAGGAAT 59.187 47.619 11.52 0.00 39.91 3.01
47 48 1.202710 TCGCAAACCTACTGCAAGGAA 60.203 47.619 11.52 0.00 39.91 3.36
48 49 0.394938 TCGCAAACCTACTGCAAGGA 59.605 50.000 11.52 0.00 39.91 3.36
49 50 0.517316 GTCGCAAACCTACTGCAAGG 59.483 55.000 2.71 2.71 39.91 3.61
50 51 1.225855 TGTCGCAAACCTACTGCAAG 58.774 50.000 0.00 0.00 39.91 4.01
51 52 1.890876 ATGTCGCAAACCTACTGCAA 58.109 45.000 0.00 0.00 39.91 4.08
52 53 1.535028 CAATGTCGCAAACCTACTGCA 59.465 47.619 0.00 0.00 39.91 4.41
53 54 1.804151 TCAATGTCGCAAACCTACTGC 59.196 47.619 0.00 0.00 36.41 4.40
54 55 3.325870 TCTCAATGTCGCAAACCTACTG 58.674 45.455 0.00 0.00 0.00 2.74
55 56 3.678056 TCTCAATGTCGCAAACCTACT 57.322 42.857 0.00 0.00 0.00 2.57
56 57 3.063997 CCATCTCAATGTCGCAAACCTAC 59.936 47.826 0.00 0.00 0.00 3.18
57 58 3.270027 CCATCTCAATGTCGCAAACCTA 58.730 45.455 0.00 0.00 0.00 3.08
58 59 2.086869 CCATCTCAATGTCGCAAACCT 58.913 47.619 0.00 0.00 0.00 3.50
59 60 1.812571 ACCATCTCAATGTCGCAAACC 59.187 47.619 0.00 0.00 0.00 3.27
60 61 4.678509 TTACCATCTCAATGTCGCAAAC 57.321 40.909 0.00 0.00 0.00 2.93
61 62 6.542005 ACATATTACCATCTCAATGTCGCAAA 59.458 34.615 0.00 0.00 0.00 3.68
62 63 6.018016 CACATATTACCATCTCAATGTCGCAA 60.018 38.462 0.00 0.00 0.00 4.85
63 64 5.466393 CACATATTACCATCTCAATGTCGCA 59.534 40.000 0.00 0.00 0.00 5.10
64 65 5.106948 CCACATATTACCATCTCAATGTCGC 60.107 44.000 0.00 0.00 0.00 5.19
65 66 5.409520 CCCACATATTACCATCTCAATGTCG 59.590 44.000 0.00 0.00 0.00 4.35
66 67 6.533730 TCCCACATATTACCATCTCAATGTC 58.466 40.000 0.00 0.00 0.00 3.06
67 68 6.466326 CCTCCCACATATTACCATCTCAATGT 60.466 42.308 0.00 0.00 0.00 2.71
68 69 5.942236 CCTCCCACATATTACCATCTCAATG 59.058 44.000 0.00 0.00 0.00 2.82
69 70 5.612688 ACCTCCCACATATTACCATCTCAAT 59.387 40.000 0.00 0.00 0.00 2.57
70 71 4.975147 ACCTCCCACATATTACCATCTCAA 59.025 41.667 0.00 0.00 0.00 3.02
71 72 4.566837 ACCTCCCACATATTACCATCTCA 58.433 43.478 0.00 0.00 0.00 3.27
72 73 5.780793 AGTACCTCCCACATATTACCATCTC 59.219 44.000 0.00 0.00 0.00 2.75
73 74 5.727630 AGTACCTCCCACATATTACCATCT 58.272 41.667 0.00 0.00 0.00 2.90
74 75 6.724905 ACTAGTACCTCCCACATATTACCATC 59.275 42.308 0.00 0.00 0.00 3.51
75 76 6.497259 CACTAGTACCTCCCACATATTACCAT 59.503 42.308 0.00 0.00 0.00 3.55
76 77 5.836898 CACTAGTACCTCCCACATATTACCA 59.163 44.000 0.00 0.00 0.00 3.25
77 78 6.073314 TCACTAGTACCTCCCACATATTACC 58.927 44.000 0.00 0.00 0.00 2.85
78 79 7.592885 TTCACTAGTACCTCCCACATATTAC 57.407 40.000 0.00 0.00 0.00 1.89
79 80 8.008332 TCATTCACTAGTACCTCCCACATATTA 58.992 37.037 0.00 0.00 0.00 0.98
80 81 6.844388 TCATTCACTAGTACCTCCCACATATT 59.156 38.462 0.00 0.00 0.00 1.28
81 82 6.382087 TCATTCACTAGTACCTCCCACATAT 58.618 40.000 0.00 0.00 0.00 1.78
82 83 5.773091 TCATTCACTAGTACCTCCCACATA 58.227 41.667 0.00 0.00 0.00 2.29
83 84 4.620723 TCATTCACTAGTACCTCCCACAT 58.379 43.478 0.00 0.00 0.00 3.21
84 85 4.055710 TCATTCACTAGTACCTCCCACA 57.944 45.455 0.00 0.00 0.00 4.17
85 86 5.104900 ACAATCATTCACTAGTACCTCCCAC 60.105 44.000 0.00 0.00 0.00 4.61
86 87 5.030147 ACAATCATTCACTAGTACCTCCCA 58.970 41.667 0.00 0.00 0.00 4.37
87 88 5.615925 ACAATCATTCACTAGTACCTCCC 57.384 43.478 0.00 0.00 0.00 4.30
88 89 6.407202 ACAACAATCATTCACTAGTACCTCC 58.593 40.000 0.00 0.00 0.00 4.30
89 90 7.907214 AACAACAATCATTCACTAGTACCTC 57.093 36.000 0.00 0.00 0.00 3.85
90 91 9.436957 CTAAACAACAATCATTCACTAGTACCT 57.563 33.333 0.00 0.00 0.00 3.08
91 92 9.216117 ACTAAACAACAATCATTCACTAGTACC 57.784 33.333 0.00 0.00 0.00 3.34
126 127 9.567776 CCCACATATATACAAACCTTAACATCA 57.432 33.333 0.00 0.00 0.00 3.07
127 128 9.787435 TCCCACATATATACAAACCTTAACATC 57.213 33.333 0.00 0.00 0.00 3.06
129 130 9.567776 CATCCCACATATATACAAACCTTAACA 57.432 33.333 0.00 0.00 0.00 2.41
130 131 9.569122 ACATCCCACATATATACAAACCTTAAC 57.431 33.333 0.00 0.00 0.00 2.01
135 136 9.832445 CCTATACATCCCACATATATACAAACC 57.168 37.037 0.00 0.00 0.00 3.27
138 139 9.777008 TCACCTATACATCCCACATATATACAA 57.223 33.333 0.00 0.00 0.00 2.41
139 140 9.777008 TTCACCTATACATCCCACATATATACA 57.223 33.333 0.00 0.00 0.00 2.29
141 142 9.777008 TGTTCACCTATACATCCCACATATATA 57.223 33.333 0.00 0.00 0.00 0.86
142 143 8.679344 TGTTCACCTATACATCCCACATATAT 57.321 34.615 0.00 0.00 0.00 0.86
143 144 8.499288 TTGTTCACCTATACATCCCACATATA 57.501 34.615 0.00 0.00 0.00 0.86
144 145 7.387265 TTGTTCACCTATACATCCCACATAT 57.613 36.000 0.00 0.00 0.00 1.78
145 146 6.816616 TTGTTCACCTATACATCCCACATA 57.183 37.500 0.00 0.00 0.00 2.29
146 147 5.708736 TTGTTCACCTATACATCCCACAT 57.291 39.130 0.00 0.00 0.00 3.21
147 148 5.708736 ATTGTTCACCTATACATCCCACA 57.291 39.130 0.00 0.00 0.00 4.17
148 149 6.202188 CGTAATTGTTCACCTATACATCCCAC 59.798 42.308 0.00 0.00 0.00 4.61
149 150 6.285224 CGTAATTGTTCACCTATACATCCCA 58.715 40.000 0.00 0.00 0.00 4.37
150 151 5.699458 CCGTAATTGTTCACCTATACATCCC 59.301 44.000 0.00 0.00 0.00 3.85
151 152 6.518493 TCCGTAATTGTTCACCTATACATCC 58.482 40.000 0.00 0.00 0.00 3.51
152 153 8.603242 AATCCGTAATTGTTCACCTATACATC 57.397 34.615 0.00 0.00 0.00 3.06
153 154 8.974060 AAATCCGTAATTGTTCACCTATACAT 57.026 30.769 0.00 0.00 0.00 2.29
154 155 9.316730 GTAAATCCGTAATTGTTCACCTATACA 57.683 33.333 0.00 0.00 0.00 2.29
155 156 8.768019 GGTAAATCCGTAATTGTTCACCTATAC 58.232 37.037 0.00 0.00 0.00 1.47
156 157 8.707449 AGGTAAATCCGTAATTGTTCACCTATA 58.293 33.333 0.00 0.00 41.99 1.31
157 158 7.497909 CAGGTAAATCCGTAATTGTTCACCTAT 59.502 37.037 0.00 0.00 41.99 2.57
158 159 6.819649 CAGGTAAATCCGTAATTGTTCACCTA 59.180 38.462 0.00 0.00 41.99 3.08
159 160 5.646360 CAGGTAAATCCGTAATTGTTCACCT 59.354 40.000 0.00 0.00 41.99 4.00
160 161 5.163693 CCAGGTAAATCCGTAATTGTTCACC 60.164 44.000 0.00 0.00 41.99 4.02
161 162 5.413523 ACCAGGTAAATCCGTAATTGTTCAC 59.586 40.000 0.00 0.00 41.99 3.18
162 163 5.562635 ACCAGGTAAATCCGTAATTGTTCA 58.437 37.500 0.00 0.00 41.99 3.18
163 164 6.505044 AACCAGGTAAATCCGTAATTGTTC 57.495 37.500 0.00 0.00 41.99 3.18
173 174 4.083164 CGTGTAACCAAACCAGGTAAATCC 60.083 45.833 0.00 0.00 42.25 3.01
180 181 1.877443 CCTTCGTGTAACCAAACCAGG 59.123 52.381 0.00 0.00 0.00 4.45
182 183 3.495434 ATCCTTCGTGTAACCAAACCA 57.505 42.857 0.00 0.00 0.00 3.67
194 195 4.273148 AGCTTCAACACTAATCCTTCGT 57.727 40.909 0.00 0.00 0.00 3.85
195 196 4.806247 CCTAGCTTCAACACTAATCCTTCG 59.194 45.833 0.00 0.00 0.00 3.79
197 198 4.783227 TCCCTAGCTTCAACACTAATCCTT 59.217 41.667 0.00 0.00 0.00 3.36
206 207 1.573108 CCTCCTCCCTAGCTTCAACA 58.427 55.000 0.00 0.00 0.00 3.33
207 208 0.833949 CCCTCCTCCCTAGCTTCAAC 59.166 60.000 0.00 0.00 0.00 3.18
213 214 2.202899 CCCTCCCTCCTCCCTAGC 59.797 72.222 0.00 0.00 0.00 3.42
232 233 2.495669 CGCTAATTTCAAATGGGTGGGT 59.504 45.455 0.00 0.00 0.00 4.51
233 234 2.738321 GCGCTAATTTCAAATGGGTGGG 60.738 50.000 0.00 0.00 0.00 4.61
234 235 2.539476 GCGCTAATTTCAAATGGGTGG 58.461 47.619 0.00 0.00 0.00 4.61
235 236 2.184448 CGCGCTAATTTCAAATGGGTG 58.816 47.619 5.56 0.00 0.00 4.61
236 237 1.134175 CCGCGCTAATTTCAAATGGGT 59.866 47.619 5.56 0.00 0.00 4.51
237 238 1.535860 CCCGCGCTAATTTCAAATGGG 60.536 52.381 5.56 0.00 0.00 4.00
238 239 1.535860 CCCCGCGCTAATTTCAAATGG 60.536 52.381 5.56 0.00 0.00 3.16
262 265 6.254589 CGTTTCACAAAAGCTTCCAAATAACA 59.745 34.615 0.00 0.00 0.00 2.41
282 285 1.796617 CGGGTGATCTACGTCCGTTTC 60.797 57.143 0.00 0.00 36.38 2.78
326 329 8.833231 ACAATCACATAGGTGCATAATAGTAC 57.167 34.615 1.79 0.00 44.87 2.73
394 789 3.062234 GCTTCACATAAGCTACGTGGAAC 59.938 47.826 1.81 0.00 40.01 3.62
396 791 2.734175 CGCTTCACATAAGCTACGTGGA 60.734 50.000 1.81 1.52 40.94 4.02
398 793 1.005975 GCGCTTCACATAAGCTACGTG 60.006 52.381 0.00 4.18 40.94 4.49
428 823 5.562890 GCGGATAACATTTATCTCAAAGGGC 60.563 44.000 6.02 0.00 0.00 5.19
452 848 3.963665 TCTCAAAACAAATCTTGCCACG 58.036 40.909 0.00 0.00 0.00 4.94
498 912 1.507630 CATGTGCGGTGTTGGATGG 59.492 57.895 0.00 0.00 0.00 3.51
525 939 3.703001 TCTAGAAAAAGGACCAGGCTG 57.297 47.619 7.75 7.75 0.00 4.85
563 979 1.542915 TCGAAGGGTTTCAGGTACGAG 59.457 52.381 0.00 0.00 32.67 4.18
566 982 4.179298 GTGTATCGAAGGGTTTCAGGTAC 58.821 47.826 0.00 0.00 32.67 3.34
573 989 1.403249 CCGACGTGTATCGAAGGGTTT 60.403 52.381 0.00 0.00 45.13 3.27
577 993 1.667724 ACTACCGACGTGTATCGAAGG 59.332 52.381 0.00 0.00 45.13 3.46
586 1002 1.372499 CCCACACACTACCGACGTG 60.372 63.158 0.00 0.00 38.32 4.49
588 1004 1.372499 CACCCACACACTACCGACG 60.372 63.158 0.00 0.00 0.00 5.12
653 1641 0.972883 ACAGAGCCTTGTCTCTCACC 59.027 55.000 0.00 0.00 41.22 4.02
1342 3971 2.835895 GGAGGGCTCGAGGAGGAC 60.836 72.222 15.58 0.00 0.00 3.85
1416 4045 1.535202 GGGCTCGAGGGATGAGGAT 60.535 63.158 15.58 0.00 33.99 3.24
1499 4137 4.373116 CCGCGGTGGCTAGTGTGT 62.373 66.667 19.50 0.00 36.88 3.72
2124 4773 2.034685 TCTAGTATGCCTGTCATGTCGC 59.965 50.000 0.00 0.00 36.63 5.19
2139 4788 2.350057 ATGGCAGAGCGTCTCTAGTA 57.650 50.000 8.70 0.66 38.99 1.82
2140 4789 1.135915 CAATGGCAGAGCGTCTCTAGT 59.864 52.381 8.70 0.00 38.99 2.57
2142 4791 1.186200 ACAATGGCAGAGCGTCTCTA 58.814 50.000 8.70 0.00 38.99 2.43
2143 4792 0.322975 AACAATGGCAGAGCGTCTCT 59.677 50.000 3.88 3.88 42.11 3.10
2145 4794 0.035317 TCAACAATGGCAGAGCGTCT 59.965 50.000 0.00 0.00 0.00 4.18
2146 4795 0.874390 TTCAACAATGGCAGAGCGTC 59.126 50.000 0.00 0.00 0.00 5.19
2161 4810 1.130373 GCTGTTTGGCGATCGATTCAA 59.870 47.619 21.57 16.02 0.00 2.69
2164 4813 1.382522 ATGCTGTTTGGCGATCGATT 58.617 45.000 21.57 0.00 34.52 3.34
2177 4826 0.033228 GAGCCTGCGAGATATGCTGT 59.967 55.000 0.00 0.00 31.23 4.40
2185 4834 4.313819 TCGTAAGAGCCTGCGAGA 57.686 55.556 0.00 0.00 45.01 4.04
2203 4852 1.518325 CCATGCACACACCGAACTTA 58.482 50.000 0.00 0.00 0.00 2.24
2206 4855 2.255252 GCCATGCACACACCGAAC 59.745 61.111 0.00 0.00 0.00 3.95
2283 4932 4.442052 GCATCAGCCAGAGTTACTACATCA 60.442 45.833 0.00 0.00 33.58 3.07
2367 5019 8.332996 TCAGAACTCGTCAGGGTATAATATAC 57.667 38.462 1.89 1.89 0.00 1.47
2415 5067 6.035327 GCGTTCGGTAATTGTAGAACATAAGT 59.965 38.462 16.39 0.00 42.01 2.24
2417 5069 5.291614 GGCGTTCGGTAATTGTAGAACATAA 59.708 40.000 16.39 0.00 42.01 1.90
2426 5078 1.729284 AATCGGCGTTCGGTAATTGT 58.271 45.000 6.85 0.00 39.77 2.71
2438 5090 1.012234 GCAAAGAGCGTAATCGGCG 60.012 57.895 0.00 0.00 37.56 6.46
2439 5091 4.976619 GCAAAGAGCGTAATCGGC 57.023 55.556 0.00 0.00 37.56 5.54
2477 5129 6.399013 AGGATGATCAACCCTACCCTAATTA 58.601 40.000 17.78 0.00 0.00 1.40
2478 5130 5.235534 AGGATGATCAACCCTACCCTAATT 58.764 41.667 17.78 0.00 0.00 1.40
2479 5131 4.844348 AGGATGATCAACCCTACCCTAAT 58.156 43.478 17.78 0.00 0.00 1.73
2537 5189 8.840321 GCAAGTTGAGGCTTAAGATAATAATCA 58.160 33.333 7.16 0.00 34.28 2.57
2574 5226 2.152830 GCATGGATCCTCTTGATGCTC 58.847 52.381 21.12 0.42 42.00 4.26
2701 5356 2.176546 CACGCAACGCAATCCCAG 59.823 61.111 0.00 0.00 0.00 4.45
2707 5362 2.622011 GGAATCCCACGCAACGCAA 61.622 57.895 0.00 0.00 0.00 4.85
2708 5363 3.053291 GGAATCCCACGCAACGCA 61.053 61.111 0.00 0.00 0.00 5.24
2709 5364 2.746277 AGGAATCCCACGCAACGC 60.746 61.111 0.00 0.00 33.88 4.84
2710 5365 1.375396 TGAGGAATCCCACGCAACG 60.375 57.895 0.00 0.00 33.88 4.10
2711 5366 1.305930 GGTGAGGAATCCCACGCAAC 61.306 60.000 12.51 0.00 35.59 4.17
2731 5386 6.127338 GGGGAGCTTATTTTGTTATTGCTTCT 60.127 38.462 0.00 0.00 0.00 2.85
2732 5387 6.042777 GGGGAGCTTATTTTGTTATTGCTTC 58.957 40.000 0.00 0.00 0.00 3.86
2733 5388 5.394115 CGGGGAGCTTATTTTGTTATTGCTT 60.394 40.000 0.00 0.00 0.00 3.91
2734 5389 4.097892 CGGGGAGCTTATTTTGTTATTGCT 59.902 41.667 0.00 0.00 0.00 3.91
2735 5390 4.142249 ACGGGGAGCTTATTTTGTTATTGC 60.142 41.667 0.00 0.00 0.00 3.56
2736 5391 5.449999 GGACGGGGAGCTTATTTTGTTATTG 60.450 44.000 0.00 0.00 0.00 1.90
2737 5392 4.643334 GGACGGGGAGCTTATTTTGTTATT 59.357 41.667 0.00 0.00 0.00 1.40
2738 5393 4.204799 GGACGGGGAGCTTATTTTGTTAT 58.795 43.478 0.00 0.00 0.00 1.89
2739 5394 3.009253 TGGACGGGGAGCTTATTTTGTTA 59.991 43.478 0.00 0.00 0.00 2.41
2741 5396 1.353022 TGGACGGGGAGCTTATTTTGT 59.647 47.619 0.00 0.00 0.00 2.83
2743 5398 2.654863 CATGGACGGGGAGCTTATTTT 58.345 47.619 0.00 0.00 0.00 1.82
2744 5399 1.133792 CCATGGACGGGGAGCTTATTT 60.134 52.381 5.56 0.00 0.00 1.40
2745 5400 0.474184 CCATGGACGGGGAGCTTATT 59.526 55.000 5.56 0.00 0.00 1.40
2746 5401 2.056906 GCCATGGACGGGGAGCTTAT 62.057 60.000 18.40 0.00 0.00 1.73
2747 5402 2.742116 GCCATGGACGGGGAGCTTA 61.742 63.158 18.40 0.00 0.00 3.09
2748 5403 4.115199 GCCATGGACGGGGAGCTT 62.115 66.667 18.40 0.00 0.00 3.74
2757 5412 3.127533 GCAGTGACGGCCATGGAC 61.128 66.667 18.40 13.35 0.00 4.02
2758 5413 2.803155 GAAGCAGTGACGGCCATGGA 62.803 60.000 18.40 0.00 0.00 3.41
2759 5414 2.360350 AAGCAGTGACGGCCATGG 60.360 61.111 7.63 7.63 0.00 3.66
2760 5415 2.401766 GGAAGCAGTGACGGCCATG 61.402 63.158 2.24 0.00 0.00 3.66
2761 5416 2.045926 GGAAGCAGTGACGGCCAT 60.046 61.111 2.24 0.00 0.00 4.40
2762 5417 2.894257 ATGGAAGCAGTGACGGCCA 61.894 57.895 2.24 0.00 0.00 5.36
2763 5418 2.045926 ATGGAAGCAGTGACGGCC 60.046 61.111 3.62 0.00 0.00 6.13
2764 5419 3.044059 GCATGGAAGCAGTGACGGC 62.044 63.158 0.00 0.00 0.00 5.68
2765 5420 1.236616 TTGCATGGAAGCAGTGACGG 61.237 55.000 0.00 0.00 46.54 4.79
2766 5421 0.110056 GTTGCATGGAAGCAGTGACG 60.110 55.000 0.00 0.00 46.54 4.35
2767 5422 1.242076 AGTTGCATGGAAGCAGTGAC 58.758 50.000 0.00 0.00 46.54 3.67
2768 5423 2.857186 TAGTTGCATGGAAGCAGTGA 57.143 45.000 0.00 0.00 46.54 3.41
2769 5424 2.816087 ACTTAGTTGCATGGAAGCAGTG 59.184 45.455 0.00 0.00 46.54 3.66
2770 5425 3.146104 ACTTAGTTGCATGGAAGCAGT 57.854 42.857 0.00 0.00 46.54 4.40
2786 5441 8.830915 TGGCAAAGGGAATGAATATTAACTTA 57.169 30.769 0.00 0.00 0.00 2.24
2828 5519 2.742116 AATCGGACGGGGGTGGATG 61.742 63.158 0.00 0.00 0.00 3.51
2835 5526 3.558418 CACTTATAAACAATCGGACGGGG 59.442 47.826 0.00 0.00 0.00 5.73
2838 5529 3.302221 CGCCACTTATAAACAATCGGACG 60.302 47.826 0.00 0.00 0.00 4.79
2839 5530 3.866910 TCGCCACTTATAAACAATCGGAC 59.133 43.478 0.00 0.00 0.00 4.79
2840 5531 4.116961 CTCGCCACTTATAAACAATCGGA 58.883 43.478 0.00 0.00 0.00 4.55
2841 5532 3.869246 ACTCGCCACTTATAAACAATCGG 59.131 43.478 0.00 0.00 0.00 4.18
2842 5533 5.291128 AGAACTCGCCACTTATAAACAATCG 59.709 40.000 0.00 0.00 0.00 3.34
2843 5534 6.238130 GGAGAACTCGCCACTTATAAACAATC 60.238 42.308 0.00 0.00 35.76 2.67
2844 5535 5.585047 GGAGAACTCGCCACTTATAAACAAT 59.415 40.000 0.00 0.00 35.76 2.71
2853 5544 1.179814 AGTCGGAGAACTCGCCACTT 61.180 55.000 0.29 0.00 39.69 3.16
2854 5545 1.587933 GAGTCGGAGAACTCGCCACT 61.588 60.000 0.29 3.01 39.69 4.00
2881 5572 3.052909 ATCTGCCTGCCGCTTGGAT 62.053 57.895 7.09 0.00 38.78 3.41
2901 5592 0.531090 CGAACCAACAGGTCACCGAA 60.531 55.000 0.00 0.00 33.53 4.30
2991 5682 1.202222 GCAATCTCCACGGCAAATCTG 60.202 52.381 0.00 0.00 0.00 2.90
2993 5684 0.810648 TGCAATCTCCACGGCAAATC 59.189 50.000 0.00 0.00 32.54 2.17
2994 5685 0.813184 CTGCAATCTCCACGGCAAAT 59.187 50.000 0.00 0.00 35.59 2.32
2996 5687 0.035152 ATCTGCAATCTCCACGGCAA 60.035 50.000 0.00 0.00 35.59 4.52
2997 5688 0.829990 TATCTGCAATCTCCACGGCA 59.170 50.000 0.00 0.00 34.66 5.69
2998 5689 2.175878 ATATCTGCAATCTCCACGGC 57.824 50.000 0.00 0.00 0.00 5.68
2999 5690 4.129380 TCAAATATCTGCAATCTCCACGG 58.871 43.478 0.00 0.00 0.00 4.94
3000 5691 5.686834 CATCAAATATCTGCAATCTCCACG 58.313 41.667 0.00 0.00 0.00 4.94
3002 5693 4.214758 CGCATCAAATATCTGCAATCTCCA 59.785 41.667 0.00 0.00 35.64 3.86
3050 5743 9.620660 GCAATAAGGATTTACTCGAAAGAAAAA 57.379 29.630 0.00 0.00 41.32 1.94
3066 5759 7.290061 TGCCTGATTAAGTAAGCAATAAGGAT 58.710 34.615 2.42 0.00 35.48 3.24


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

AutoCloner maintained by Alex Coulton.