Multiple sequence alignment - TraesCS7A01G227100

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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 TraesCS7A01G227100 chr7A 100.000 3051 0 0 1 3051 197302626 197299576 0.000000e+00 5635.0
1 TraesCS7A01G227100 chr7D 92.078 1641 53 24 166 1779 187196399 187197989 0.000000e+00 2239.0
2 TraesCS7A01G227100 chr7D 91.771 559 22 15 1834 2388 187198001 187198539 0.000000e+00 756.0
3 TraesCS7A01G227100 chr7B 91.081 1693 60 21 166 1801 330514199 330515857 0.000000e+00 2206.0
4 TraesCS7A01G227100 chr7B 94.045 487 20 2 1821 2307 330515844 330516321 0.000000e+00 730.0
5 TraesCS7A01G227100 chr5B 87.127 637 62 12 2407 3034 159920353 159920978 0.000000e+00 704.0
6 TraesCS7A01G227100 chr3B 88.596 570 39 10 2407 2965 46793650 46794204 0.000000e+00 669.0
7 TraesCS7A01G227100 chr6B 81.651 654 79 17 2407 3051 707141690 707141069 3.510000e-139 505.0
8 TraesCS7A01G227100 chr6B 92.442 172 11 1 1 172 547649949 547650118 8.450000e-61 244.0
9 TraesCS7A01G227100 chr6B 83.333 120 17 3 2903 3021 712323073 712323190 1.160000e-19 108.0
10 TraesCS7A01G227100 chr6B 100.000 31 0 0 1742 1772 225868150 225868180 1.180000e-04 58.4
11 TraesCS7A01G227100 chr3A 84.483 348 36 13 2709 3051 37831124 37830790 8.160000e-86 327.0
12 TraesCS7A01G227100 chr3A 92.982 171 10 1 1 171 680145 680313 6.530000e-62 248.0
13 TraesCS7A01G227100 chr1A 95.906 171 5 1 1 171 349185998 349186166 3.000000e-70 276.0
14 TraesCS7A01G227100 chr1B 93.220 177 10 1 1 177 596157380 596157206 3.020000e-65 259.0
15 TraesCS7A01G227100 chr1B 93.023 172 10 1 1 172 198088063 198088232 1.820000e-62 250.0
16 TraesCS7A01G227100 chr6D 93.567 171 9 1 1 171 131986186 131986018 1.400000e-63 254.0
17 TraesCS7A01G227100 chr6D 100.000 31 0 0 1742 1772 126871617 126871647 1.180000e-04 58.4
18 TraesCS7A01G227100 chr2A 93.103 174 10 1 1 174 651596739 651596568 1.400000e-63 254.0
19 TraesCS7A01G227100 chr2A 92.982 171 10 1 1 171 164886896 164887064 6.530000e-62 248.0
20 TraesCS7A01G227100 chr2A 92.529 174 11 1 1 174 572450141 572449970 6.530000e-62 248.0
21 TraesCS7A01G227100 chr3D 88.889 144 15 1 2893 3036 27941544 27941686 3.130000e-40 176.0
22 TraesCS7A01G227100 chr6A 100.000 31 0 0 1742 1772 152060980 152060950 1.180000e-04 58.4


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 TraesCS7A01G227100 chr7A 197299576 197302626 3050 True 5635.0 5635 100.0000 1 3051 1 chr7A.!!$R1 3050
1 TraesCS7A01G227100 chr7D 187196399 187198539 2140 False 1497.5 2239 91.9245 166 2388 2 chr7D.!!$F1 2222
2 TraesCS7A01G227100 chr7B 330514199 330516321 2122 False 1468.0 2206 92.5630 166 2307 2 chr7B.!!$F1 2141
3 TraesCS7A01G227100 chr5B 159920353 159920978 625 False 704.0 704 87.1270 2407 3034 1 chr5B.!!$F1 627
4 TraesCS7A01G227100 chr3B 46793650 46794204 554 False 669.0 669 88.5960 2407 2965 1 chr3B.!!$F1 558
5 TraesCS7A01G227100 chr6B 707141069 707141690 621 True 505.0 505 81.6510 2407 3051 1 chr6B.!!$R1 644

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
463 464 0.238289 CACGCGTTTGCATTCTCCTT 59.762 50.0 10.22 0.0 42.97 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2086 2148 0.313672 GTTGAAAACCATGCGCTCCA 59.686 50.0 9.73 0.0 42.21 3.86 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
38 39 4.698201 AGGTTTAAATTGGTTTGGGTGG 57.302 40.909 0.00 0.00 0.00 4.61
39 40 4.299485 AGGTTTAAATTGGTTTGGGTGGA 58.701 39.130 0.00 0.00 0.00 4.02
40 41 4.722279 AGGTTTAAATTGGTTTGGGTGGAA 59.278 37.500 0.00 0.00 0.00 3.53
41 42 5.191921 AGGTTTAAATTGGTTTGGGTGGAAA 59.808 36.000 0.00 0.00 0.00 3.13
42 43 5.886474 GGTTTAAATTGGTTTGGGTGGAAAA 59.114 36.000 0.00 0.00 0.00 2.29
43 44 6.377429 GGTTTAAATTGGTTTGGGTGGAAAAA 59.623 34.615 0.00 0.00 0.00 1.94
62 63 5.682234 AAAAATAGAGGGCCTGATTTTGG 57.318 39.130 25.46 0.00 33.07 3.28
63 64 4.337264 AAATAGAGGGCCTGATTTTGGT 57.663 40.909 12.95 0.00 0.00 3.67
64 65 4.337264 AATAGAGGGCCTGATTTTGGTT 57.663 40.909 12.95 0.00 0.00 3.67
65 66 1.928868 AGAGGGCCTGATTTTGGTTG 58.071 50.000 12.95 0.00 0.00 3.77
66 67 0.897621 GAGGGCCTGATTTTGGTTGG 59.102 55.000 12.95 0.00 0.00 3.77
67 68 0.545071 AGGGCCTGATTTTGGTTGGG 60.545 55.000 4.50 0.00 0.00 4.12
68 69 0.835971 GGGCCTGATTTTGGTTGGGT 60.836 55.000 0.84 0.00 0.00 4.51
69 70 1.055849 GGCCTGATTTTGGTTGGGTT 58.944 50.000 0.00 0.00 0.00 4.11
70 71 1.270785 GGCCTGATTTTGGTTGGGTTG 60.271 52.381 0.00 0.00 0.00 3.77
71 72 1.691434 GCCTGATTTTGGTTGGGTTGA 59.309 47.619 0.00 0.00 0.00 3.18
72 73 2.103941 GCCTGATTTTGGTTGGGTTGAA 59.896 45.455 0.00 0.00 0.00 2.69
73 74 3.432890 GCCTGATTTTGGTTGGGTTGAAA 60.433 43.478 0.00 0.00 0.00 2.69
74 75 4.775236 CCTGATTTTGGTTGGGTTGAAAA 58.225 39.130 0.00 0.00 0.00 2.29
75 76 5.375773 CCTGATTTTGGTTGGGTTGAAAAT 58.624 37.500 0.00 0.00 32.10 1.82
76 77 5.239087 CCTGATTTTGGTTGGGTTGAAAATG 59.761 40.000 0.00 0.00 30.11 2.32
77 78 5.128919 TGATTTTGGTTGGGTTGAAAATGG 58.871 37.500 0.00 0.00 30.11 3.16
78 79 2.629336 TTGGTTGGGTTGAAAATGGC 57.371 45.000 0.00 0.00 0.00 4.40
79 80 1.500474 TGGTTGGGTTGAAAATGGCA 58.500 45.000 0.00 0.00 0.00 4.92
80 81 2.053244 TGGTTGGGTTGAAAATGGCAT 58.947 42.857 0.00 0.00 0.00 4.40
81 82 2.441001 TGGTTGGGTTGAAAATGGCATT 59.559 40.909 6.96 6.96 0.00 3.56
82 83 3.648067 TGGTTGGGTTGAAAATGGCATTA 59.352 39.130 14.05 0.00 0.00 1.90
83 84 4.103153 TGGTTGGGTTGAAAATGGCATTAA 59.897 37.500 14.05 1.13 0.00 1.40
84 85 5.066593 GGTTGGGTTGAAAATGGCATTAAA 58.933 37.500 14.05 6.02 0.00 1.52
85 86 5.049060 GGTTGGGTTGAAAATGGCATTAAAC 60.049 40.000 14.05 16.63 0.00 2.01
86 87 4.310769 TGGGTTGAAAATGGCATTAAACG 58.689 39.130 14.05 0.00 0.00 3.60
87 88 3.682377 GGGTTGAAAATGGCATTAAACGG 59.318 43.478 14.05 0.00 0.00 4.44
88 89 4.561105 GGTTGAAAATGGCATTAAACGGA 58.439 39.130 14.05 0.00 0.00 4.69
89 90 5.175127 GGTTGAAAATGGCATTAAACGGAT 58.825 37.500 14.05 0.00 0.00 4.18
90 91 6.334202 GGTTGAAAATGGCATTAAACGGATA 58.666 36.000 14.05 0.00 0.00 2.59
91 92 6.983890 GGTTGAAAATGGCATTAAACGGATAT 59.016 34.615 14.05 0.00 0.00 1.63
92 93 7.042791 GGTTGAAAATGGCATTAAACGGATATG 60.043 37.037 14.05 0.00 0.00 1.78
93 94 6.511416 TGAAAATGGCATTAAACGGATATGG 58.489 36.000 14.05 0.00 0.00 2.74
94 95 6.097554 TGAAAATGGCATTAAACGGATATGGT 59.902 34.615 14.05 0.00 0.00 3.55
95 96 6.478512 AAATGGCATTAAACGGATATGGTT 57.521 33.333 14.05 0.00 0.00 3.67
96 97 5.705609 ATGGCATTAAACGGATATGGTTC 57.294 39.130 0.00 0.00 0.00 3.62
97 98 4.527944 TGGCATTAAACGGATATGGTTCA 58.472 39.130 0.00 0.00 0.00 3.18
98 99 4.950475 TGGCATTAAACGGATATGGTTCAA 59.050 37.500 0.00 0.00 0.00 2.69
99 100 5.067153 TGGCATTAAACGGATATGGTTCAAG 59.933 40.000 0.00 0.00 0.00 3.02
100 101 5.067283 GGCATTAAACGGATATGGTTCAAGT 59.933 40.000 0.00 0.00 0.00 3.16
101 102 5.971202 GCATTAAACGGATATGGTTCAAGTG 59.029 40.000 0.00 0.00 0.00 3.16
102 103 6.404293 GCATTAAACGGATATGGTTCAAGTGT 60.404 38.462 0.00 0.00 0.00 3.55
103 104 6.489127 TTAAACGGATATGGTTCAAGTGTG 57.511 37.500 0.00 0.00 0.00 3.82
104 105 2.985896 ACGGATATGGTTCAAGTGTGG 58.014 47.619 0.00 0.00 0.00 4.17
105 106 2.304761 ACGGATATGGTTCAAGTGTGGT 59.695 45.455 0.00 0.00 0.00 4.16
106 107 3.244770 ACGGATATGGTTCAAGTGTGGTT 60.245 43.478 0.00 0.00 0.00 3.67
107 108 3.756434 CGGATATGGTTCAAGTGTGGTTT 59.244 43.478 0.00 0.00 0.00 3.27
108 109 4.217550 CGGATATGGTTCAAGTGTGGTTTT 59.782 41.667 0.00 0.00 0.00 2.43
109 110 5.469479 GGATATGGTTCAAGTGTGGTTTTG 58.531 41.667 0.00 0.00 0.00 2.44
110 111 5.242838 GGATATGGTTCAAGTGTGGTTTTGA 59.757 40.000 0.00 0.00 0.00 2.69
111 112 4.654091 ATGGTTCAAGTGTGGTTTTGAG 57.346 40.909 0.00 0.00 35.01 3.02
112 113 3.691575 TGGTTCAAGTGTGGTTTTGAGA 58.308 40.909 0.00 0.00 35.01 3.27
113 114 3.694072 TGGTTCAAGTGTGGTTTTGAGAG 59.306 43.478 0.00 0.00 35.01 3.20
114 115 3.945285 GGTTCAAGTGTGGTTTTGAGAGA 59.055 43.478 0.00 0.00 35.01 3.10
115 116 4.580580 GGTTCAAGTGTGGTTTTGAGAGAT 59.419 41.667 0.00 0.00 35.01 2.75
116 117 5.763204 GGTTCAAGTGTGGTTTTGAGAGATA 59.237 40.000 0.00 0.00 35.01 1.98
117 118 6.293462 GGTTCAAGTGTGGTTTTGAGAGATAC 60.293 42.308 0.00 0.00 35.01 2.24
118 119 5.924356 TCAAGTGTGGTTTTGAGAGATACA 58.076 37.500 0.00 0.00 0.00 2.29
119 120 6.533730 TCAAGTGTGGTTTTGAGAGATACAT 58.466 36.000 0.00 0.00 0.00 2.29
120 121 6.427853 TCAAGTGTGGTTTTGAGAGATACATG 59.572 38.462 0.00 0.00 0.00 3.21
121 122 5.869579 AGTGTGGTTTTGAGAGATACATGT 58.130 37.500 2.69 2.69 0.00 3.21
122 123 7.004555 AGTGTGGTTTTGAGAGATACATGTA 57.995 36.000 8.27 8.27 0.00 2.29
123 124 6.874134 AGTGTGGTTTTGAGAGATACATGTAC 59.126 38.462 7.96 2.64 0.00 2.90
124 125 5.867174 TGTGGTTTTGAGAGATACATGTACG 59.133 40.000 7.96 0.00 0.00 3.67
125 126 5.291128 GTGGTTTTGAGAGATACATGTACGG 59.709 44.000 7.96 0.00 0.00 4.02
126 127 4.809426 GGTTTTGAGAGATACATGTACGGG 59.191 45.833 7.96 0.00 0.00 5.28
127 128 5.416947 GTTTTGAGAGATACATGTACGGGT 58.583 41.667 7.96 0.00 0.00 5.28
128 129 6.406177 GGTTTTGAGAGATACATGTACGGGTA 60.406 42.308 7.96 0.00 0.00 3.69
129 130 6.971726 TTTGAGAGATACATGTACGGGTAT 57.028 37.500 7.96 8.49 33.10 2.73
130 131 5.959618 TGAGAGATACATGTACGGGTATG 57.040 43.478 7.96 2.30 30.68 2.39
131 132 4.765339 TGAGAGATACATGTACGGGTATGG 59.235 45.833 7.96 0.00 30.68 2.74
132 133 4.737578 AGAGATACATGTACGGGTATGGT 58.262 43.478 7.96 2.34 30.68 3.55
133 134 5.145564 AGAGATACATGTACGGGTATGGTT 58.854 41.667 7.96 0.00 30.68 3.67
134 135 5.243283 AGAGATACATGTACGGGTATGGTTC 59.757 44.000 7.96 0.00 30.68 3.62
135 136 4.897076 AGATACATGTACGGGTATGGTTCA 59.103 41.667 7.96 0.00 30.68 3.18
136 137 3.985019 ACATGTACGGGTATGGTTCAA 57.015 42.857 0.00 0.00 0.00 2.69
137 138 3.869065 ACATGTACGGGTATGGTTCAAG 58.131 45.455 0.00 0.00 0.00 3.02
138 139 3.262405 ACATGTACGGGTATGGTTCAAGT 59.738 43.478 0.00 0.00 0.00 3.16
139 140 4.467082 ACATGTACGGGTATGGTTCAAGTA 59.533 41.667 0.00 0.00 0.00 2.24
140 141 5.129815 ACATGTACGGGTATGGTTCAAGTAT 59.870 40.000 0.00 0.00 0.00 2.12
141 142 5.013568 TGTACGGGTATGGTTCAAGTATG 57.986 43.478 0.00 0.00 0.00 2.39
142 143 3.553828 ACGGGTATGGTTCAAGTATGG 57.446 47.619 0.00 0.00 0.00 2.74
143 144 2.841881 ACGGGTATGGTTCAAGTATGGT 59.158 45.455 0.00 0.00 0.00 3.55
144 145 3.264964 ACGGGTATGGTTCAAGTATGGTT 59.735 43.478 0.00 0.00 0.00 3.67
145 146 4.263594 ACGGGTATGGTTCAAGTATGGTTT 60.264 41.667 0.00 0.00 0.00 3.27
146 147 5.045724 ACGGGTATGGTTCAAGTATGGTTTA 60.046 40.000 0.00 0.00 0.00 2.01
147 148 5.881443 CGGGTATGGTTCAAGTATGGTTTAA 59.119 40.000 0.00 0.00 0.00 1.52
148 149 6.037830 CGGGTATGGTTCAAGTATGGTTTAAG 59.962 42.308 0.00 0.00 0.00 1.85
149 150 6.888088 GGGTATGGTTCAAGTATGGTTTAAGT 59.112 38.462 0.00 0.00 0.00 2.24
150 151 8.048514 GGGTATGGTTCAAGTATGGTTTAAGTA 58.951 37.037 0.00 0.00 0.00 2.24
151 152 9.623000 GGTATGGTTCAAGTATGGTTTAAGTAT 57.377 33.333 0.00 0.00 0.00 2.12
154 155 9.747898 ATGGTTCAAGTATGGTTTAAGTATGAA 57.252 29.630 0.00 0.00 0.00 2.57
155 156 9.575868 TGGTTCAAGTATGGTTTAAGTATGAAA 57.424 29.630 0.00 0.00 0.00 2.69
156 157 9.836076 GGTTCAAGTATGGTTTAAGTATGAAAC 57.164 33.333 0.00 0.00 38.79 2.78
175 176 8.937634 ATGAAACCATTCTCAGATTTAATTGC 57.062 30.769 0.00 0.00 36.48 3.56
250 251 8.492673 TTCTTAATACTGTAGGTGCAAAGATG 57.507 34.615 0.00 0.00 0.00 2.90
267 268 4.630644 AGATGGACTGCAAGAAGAAAGA 57.369 40.909 0.00 0.00 37.43 2.52
279 280 8.163768 CTGCAAGAAGAAAGAAGTCTCTCTTCA 61.164 40.741 21.00 5.61 45.60 3.02
322 323 9.261035 TCTCTAAGTTCAGAAATCATCCTTACT 57.739 33.333 0.00 0.00 0.00 2.24
393 394 3.685550 CGGGGATATTCAAGTTGGCTCTT 60.686 47.826 2.34 0.00 0.00 2.85
394 395 4.444306 CGGGGATATTCAAGTTGGCTCTTA 60.444 45.833 2.34 0.00 0.00 2.10
395 396 5.066593 GGGGATATTCAAGTTGGCTCTTAG 58.933 45.833 2.34 0.00 0.00 2.18
396 397 5.066593 GGGATATTCAAGTTGGCTCTTAGG 58.933 45.833 2.34 0.00 0.00 2.69
397 398 5.398012 GGGATATTCAAGTTGGCTCTTAGGT 60.398 44.000 2.34 0.00 0.00 3.08
398 399 5.760743 GGATATTCAAGTTGGCTCTTAGGTC 59.239 44.000 2.34 0.00 0.00 3.85
399 400 4.917906 ATTCAAGTTGGCTCTTAGGTCT 57.082 40.909 2.34 0.00 0.00 3.85
400 401 7.202011 GGATATTCAAGTTGGCTCTTAGGTCTA 60.202 40.741 2.34 0.00 0.00 2.59
401 402 6.567602 ATTCAAGTTGGCTCTTAGGTCTAT 57.432 37.500 2.34 0.00 0.00 1.98
402 403 7.676683 ATTCAAGTTGGCTCTTAGGTCTATA 57.323 36.000 2.34 0.00 0.00 1.31
403 404 7.676683 TTCAAGTTGGCTCTTAGGTCTATAT 57.323 36.000 2.34 0.00 0.00 0.86
404 405 8.777578 TTCAAGTTGGCTCTTAGGTCTATATA 57.222 34.615 2.34 0.00 0.00 0.86
405 406 8.179509 TCAAGTTGGCTCTTAGGTCTATATAC 57.820 38.462 2.34 0.00 0.00 1.47
406 407 8.005388 TCAAGTTGGCTCTTAGGTCTATATACT 58.995 37.037 2.34 0.00 0.00 2.12
407 408 8.301002 CAAGTTGGCTCTTAGGTCTATATACTC 58.699 40.741 0.00 0.00 0.00 2.59
408 409 6.949463 AGTTGGCTCTTAGGTCTATATACTCC 59.051 42.308 0.00 0.00 0.00 3.85
409 410 5.828871 TGGCTCTTAGGTCTATATACTCCC 58.171 45.833 0.00 0.00 0.00 4.30
410 411 4.883006 GGCTCTTAGGTCTATATACTCCCG 59.117 50.000 0.00 0.00 0.00 5.14
411 412 4.336153 GCTCTTAGGTCTATATACTCCCGC 59.664 50.000 0.00 0.00 0.00 6.13
412 413 5.747342 CTCTTAGGTCTATATACTCCCGCT 58.253 45.833 0.00 0.00 0.00 5.52
413 414 6.137104 TCTTAGGTCTATATACTCCCGCTT 57.863 41.667 0.00 0.00 0.00 4.68
414 415 7.262990 TCTTAGGTCTATATACTCCCGCTTA 57.737 40.000 0.00 0.00 0.00 3.09
415 416 7.870027 TCTTAGGTCTATATACTCCCGCTTAT 58.130 38.462 0.00 0.00 0.00 1.73
416 417 8.334734 TCTTAGGTCTATATACTCCCGCTTATT 58.665 37.037 0.00 0.00 0.00 1.40
450 451 1.599518 TGCAAAGATTCCCACGCGT 60.600 52.632 5.58 5.58 0.00 6.01
463 464 0.238289 CACGCGTTTGCATTCTCCTT 59.762 50.000 10.22 0.00 42.97 3.36
482 483 9.567776 TTCTCCTTTGTATTTCAGATTGTGTTA 57.432 29.630 0.00 0.00 0.00 2.41
484 485 8.918202 TCCTTTGTATTTCAGATTGTGTTAGT 57.082 30.769 0.00 0.00 0.00 2.24
508 509 7.672239 AGTTTTAAGATTAACATGGCCCACTTA 59.328 33.333 0.00 0.00 0.00 2.24
580 605 0.753479 AACACCACCGTTGCATGGAA 60.753 50.000 11.04 0.00 39.46 3.53
621 646 6.707440 TGAGAAAGAAAACATTTGTGCCTA 57.293 33.333 0.00 0.00 0.00 3.93
629 654 5.886960 AAACATTTGTGCCTACTCATCTC 57.113 39.130 0.00 0.00 0.00 2.75
669 694 8.301002 GGATAGAAGTTACCTACATTGAGCTAG 58.699 40.741 0.00 0.00 0.00 3.42
672 697 5.878406 AGTTACCTACATTGAGCTAGCAT 57.122 39.130 18.83 1.44 0.00 3.79
685 710 6.178607 TGAGCTAGCATCAGATTTTCCATA 57.821 37.500 18.83 0.00 0.00 2.74
1208 1244 1.448540 CGCCAGGGTGACTAAGCAG 60.449 63.158 0.00 0.00 0.00 4.24
1243 1287 1.081892 CCGATCAAGCAGTGACCAAG 58.918 55.000 0.00 0.00 39.72 3.61
1263 1312 1.945394 GCAATCGGCATCAATCTGACT 59.055 47.619 0.00 0.00 43.97 3.41
1267 1316 0.745486 CGGCATCAATCTGACTGGCA 60.745 55.000 0.00 0.00 33.49 4.92
1272 1321 4.110482 GCATCAATCTGACTGGCAATTTC 58.890 43.478 0.00 0.00 0.00 2.17
1285 1338 1.806542 GCAATTTCTTCTCCGTGCAGA 59.193 47.619 0.00 0.00 32.29 4.26
1399 1452 2.282674 TGCGTGGTACGTCCTCCT 60.283 61.111 0.00 0.00 44.73 3.69
1400 1453 2.267681 CTGCGTGGTACGTCCTCCTC 62.268 65.000 0.00 0.00 44.73 3.71
1401 1454 3.061260 GCGTGGTACGTCCTCCTCC 62.061 68.421 0.00 0.00 44.73 4.30
1427 1480 2.674033 TGCACCACAGCAGCCATC 60.674 61.111 0.00 0.00 40.11 3.51
1443 1496 1.136252 CCATCGTTGAGTTGTTCGCTG 60.136 52.381 0.00 0.00 0.00 5.18
1790 1852 1.079621 TACGTCCCACTCCCACCAT 59.920 57.895 0.00 0.00 0.00 3.55
1791 1853 0.335705 TACGTCCCACTCCCACCATA 59.664 55.000 0.00 0.00 0.00 2.74
1792 1854 1.262640 ACGTCCCACTCCCACCATAC 61.263 60.000 0.00 0.00 0.00 2.39
1793 1855 1.261938 CGTCCCACTCCCACCATACA 61.262 60.000 0.00 0.00 0.00 2.29
1794 1856 0.252197 GTCCCACTCCCACCATACAC 59.748 60.000 0.00 0.00 0.00 2.90
1795 1857 0.912487 TCCCACTCCCACCATACACC 60.912 60.000 0.00 0.00 0.00 4.16
1796 1858 1.607612 CCACTCCCACCATACACCC 59.392 63.158 0.00 0.00 0.00 4.61
1797 1859 1.607612 CACTCCCACCATACACCCC 59.392 63.158 0.00 0.00 0.00 4.95
1798 1860 1.993391 ACTCCCACCATACACCCCG 60.993 63.158 0.00 0.00 0.00 5.73
1799 1861 1.993391 CTCCCACCATACACCCCGT 60.993 63.158 0.00 0.00 0.00 5.28
1800 1862 1.539372 TCCCACCATACACCCCGTT 60.539 57.895 0.00 0.00 0.00 4.44
1801 1863 1.135068 TCCCACCATACACCCCGTTT 61.135 55.000 0.00 0.00 0.00 3.60
1802 1864 0.251430 CCCACCATACACCCCGTTTT 60.251 55.000 0.00 0.00 0.00 2.43
1803 1865 1.170442 CCACCATACACCCCGTTTTC 58.830 55.000 0.00 0.00 0.00 2.29
1804 1866 1.271707 CCACCATACACCCCGTTTTCT 60.272 52.381 0.00 0.00 0.00 2.52
1805 1867 2.510613 CACCATACACCCCGTTTTCTT 58.489 47.619 0.00 0.00 0.00 2.52
1806 1868 2.888414 CACCATACACCCCGTTTTCTTT 59.112 45.455 0.00 0.00 0.00 2.52
1807 1869 3.319689 CACCATACACCCCGTTTTCTTTT 59.680 43.478 0.00 0.00 0.00 2.27
1808 1870 3.962063 ACCATACACCCCGTTTTCTTTTT 59.038 39.130 0.00 0.00 0.00 1.94
2086 2148 0.843309 TGAGAGGAGATCGAGGAGCT 59.157 55.000 0.00 0.00 0.00 4.09
2104 2166 0.597568 CTGGAGCGCATGGTTTTCAA 59.402 50.000 11.47 0.00 0.00 2.69
2105 2167 0.313672 TGGAGCGCATGGTTTTCAAC 59.686 50.000 11.47 0.00 0.00 3.18
2106 2168 0.598065 GGAGCGCATGGTTTTCAACT 59.402 50.000 11.47 0.00 0.00 3.16
2107 2169 1.000274 GGAGCGCATGGTTTTCAACTT 60.000 47.619 11.47 0.00 0.00 2.66
2108 2170 2.545742 GGAGCGCATGGTTTTCAACTTT 60.546 45.455 11.47 0.00 0.00 2.66
2109 2171 3.123050 GAGCGCATGGTTTTCAACTTTT 58.877 40.909 11.47 0.00 0.00 2.27
2110 2172 3.123050 AGCGCATGGTTTTCAACTTTTC 58.877 40.909 11.47 0.00 0.00 2.29
2111 2173 2.863137 GCGCATGGTTTTCAACTTTTCA 59.137 40.909 0.30 0.00 0.00 2.69
2124 2186 9.650539 TTTTCAACTTTTCATTCATGTTTCTGA 57.349 25.926 0.00 0.00 0.00 3.27
2125 2191 9.650539 TTTCAACTTTTCATTCATGTTTCTGAA 57.349 25.926 0.00 0.00 39.35 3.02
2131 2197 9.992910 CTTTTCATTCATGTTTCTGAATCGATA 57.007 29.630 0.00 0.00 42.52 2.92
2245 2311 8.964150 CAACCTTTGTAATGTGTAAAGCTTAAC 58.036 33.333 0.00 0.00 31.71 2.01
2272 2338 1.887854 CCACTGTTGTGAATGCATCCA 59.112 47.619 0.00 0.00 46.55 3.41
2291 2357 8.819845 TGCATCCATATGATCTGTATAAACTCT 58.180 33.333 3.65 0.00 34.84 3.24
2305 2371 7.933396 TGTATAAACTCTTTGCATGATGATGG 58.067 34.615 0.00 0.00 0.00 3.51
2306 2372 7.557358 TGTATAAACTCTTTGCATGATGATGGT 59.443 33.333 0.00 0.00 0.00 3.55
2315 2381 2.684630 GCATGATGATGGTGTGGAGGAA 60.685 50.000 0.00 0.00 0.00 3.36
2339 2405 5.046014 AGTTGCCTCTGACAATCTCTGTTAT 60.046 40.000 0.00 0.00 38.84 1.89
2340 2406 5.426689 TGCCTCTGACAATCTCTGTTATT 57.573 39.130 0.00 0.00 38.84 1.40
2344 2411 6.818644 GCCTCTGACAATCTCTGTTATTTGTA 59.181 38.462 0.00 0.00 38.84 2.41
2358 2425 5.806502 TGTTATTTGTACGGGACAGTTATCG 59.193 40.000 0.00 0.00 39.88 2.92
2382 2449 6.237019 CGCGTGATCAAGTTAACATTTCATTG 60.237 38.462 8.61 2.66 0.00 2.82
2388 2455 9.415544 GATCAAGTTAACATTTCATTGAGCTTT 57.584 29.630 8.61 0.00 32.08 3.51
2389 2456 9.768662 ATCAAGTTAACATTTCATTGAGCTTTT 57.231 25.926 8.61 0.00 30.90 2.27
2390 2457 9.598517 TCAAGTTAACATTTCATTGAGCTTTTT 57.401 25.926 8.61 0.00 0.00 1.94
2445 2512 8.954950 ATTCATTGAACAAATTTGGTACACAA 57.045 26.923 21.74 15.55 39.29 3.33
2471 2538 3.698040 ACATACGTAGACACCCTTACAGG 59.302 47.826 0.08 0.00 34.30 4.00
2494 2561 6.271159 AGGAAAACAGAGAGACATAAGACCTT 59.729 38.462 0.00 0.00 0.00 3.50
2528 2595 7.579339 GCACAAAGGATCCCAAATCAAGAAATA 60.579 37.037 8.55 0.00 0.00 1.40
2554 2621 5.711506 TGTAACAGCACAATCAATGGAGATT 59.288 36.000 0.00 0.00 38.72 2.40
2573 2640 2.045708 CATGCGCCTTGCCTAACCA 61.046 57.895 4.18 0.00 45.60 3.67
2598 2665 0.389817 TCCAAACAGACTCCATCGCG 60.390 55.000 0.00 0.00 0.00 5.87
2649 2725 1.841302 GCCACCACACCTGGATCAGA 61.841 60.000 0.00 0.00 40.55 3.27
2654 2730 2.711009 ACCACACCTGGATCAGAAAGAA 59.289 45.455 0.00 0.00 40.55 2.52
2659 2735 2.289694 ACCTGGATCAGAAAGAACACCG 60.290 50.000 0.00 0.00 32.44 4.94
2665 2741 0.934496 CAGAAAGAACACCGTCGCAA 59.066 50.000 0.00 0.00 0.00 4.85
2668 2744 1.062880 GAAAGAACACCGTCGCAAACA 59.937 47.619 0.00 0.00 0.00 2.83
2671 2747 1.673920 AGAACACCGTCGCAAACAAAT 59.326 42.857 0.00 0.00 0.00 2.32
2675 2751 1.262950 CACCGTCGCAAACAAATCTGA 59.737 47.619 0.00 0.00 0.00 3.27
2748 2824 3.499737 GCACGTCGGCCAAGGATG 61.500 66.667 2.24 0.00 0.00 3.51
2849 2930 1.561542 ACATCCCGCTTCAAATCCTCT 59.438 47.619 0.00 0.00 0.00 3.69
2861 2942 5.426689 TCAAATCCTCTGCACACTCTATT 57.573 39.130 0.00 0.00 0.00 1.73
2862 2943 5.809001 TCAAATCCTCTGCACACTCTATTT 58.191 37.500 0.00 0.00 0.00 1.40
2863 2944 6.946340 TCAAATCCTCTGCACACTCTATTTA 58.054 36.000 0.00 0.00 0.00 1.40
2864 2945 7.568349 TCAAATCCTCTGCACACTCTATTTAT 58.432 34.615 0.00 0.00 0.00 1.40
2866 2947 5.282055 TCCTCTGCACACTCTATTTATGG 57.718 43.478 0.00 0.00 0.00 2.74
2867 2948 4.716784 TCCTCTGCACACTCTATTTATGGT 59.283 41.667 0.00 0.00 0.00 3.55
2868 2949 5.189736 TCCTCTGCACACTCTATTTATGGTT 59.810 40.000 0.00 0.00 0.00 3.67
2869 2950 5.295292 CCTCTGCACACTCTATTTATGGTTG 59.705 44.000 0.00 0.00 0.00 3.77
2872 2953 4.629634 TGCACACTCTATTTATGGTTGTCG 59.370 41.667 0.00 0.00 0.00 4.35
2873 2954 4.494199 GCACACTCTATTTATGGTTGTCGC 60.494 45.833 0.00 0.00 0.00 5.19
2874 2955 4.034048 CACACTCTATTTATGGTTGTCGCC 59.966 45.833 0.00 0.00 0.00 5.54
2875 2956 3.245284 CACTCTATTTATGGTTGTCGCCG 59.755 47.826 0.00 0.00 0.00 6.46
2876 2957 3.118884 ACTCTATTTATGGTTGTCGCCGT 60.119 43.478 0.00 0.00 0.00 5.68
2877 2958 3.450578 TCTATTTATGGTTGTCGCCGTC 58.549 45.455 0.00 0.00 0.00 4.79
2878 2959 2.102070 ATTTATGGTTGTCGCCGTCA 57.898 45.000 0.00 0.00 0.00 4.35
2957 3038 0.892063 GCCTGACGAGAAGAAGAGGT 59.108 55.000 0.00 0.00 0.00 3.85
2969 3052 5.346270 AGAAGAAGAGGTTACCTGATTCCT 58.654 41.667 9.39 2.64 31.76 3.36
2984 3067 5.473066 TGATTCCTAGCATCATCGATTGA 57.527 39.130 0.00 0.00 39.12 2.57
2997 3081 3.603158 TCGATTGAAAGAATGTCGGGA 57.397 42.857 0.00 0.00 33.46 5.14
2999 3083 5.270893 TCGATTGAAAGAATGTCGGGATA 57.729 39.130 0.00 0.00 33.46 2.59
3028 3112 5.721000 TGAAACAGGGCCAATTTATTCTGAT 59.279 36.000 6.18 0.00 0.00 2.90
3034 3118 2.223782 GCCAATTTATTCTGATGCGGCA 60.224 45.455 4.58 4.58 36.99 5.69
3036 3120 3.985279 CCAATTTATTCTGATGCGGCATG 59.015 43.478 21.98 7.11 0.00 4.06
3037 3121 2.780065 TTTATTCTGATGCGGCATGC 57.220 45.000 21.98 9.90 46.70 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 8.544622 CCACCCAAACCAATTTAAACCTAATAT 58.455 33.333 0.00 0.00 0.00 1.28
13 14 7.733501 TCCACCCAAACCAATTTAAACCTAATA 59.266 33.333 0.00 0.00 0.00 0.98
14 15 6.559157 TCCACCCAAACCAATTTAAACCTAAT 59.441 34.615 0.00 0.00 0.00 1.73
15 16 5.903589 TCCACCCAAACCAATTTAAACCTAA 59.096 36.000 0.00 0.00 0.00 2.69
16 17 5.464984 TCCACCCAAACCAATTTAAACCTA 58.535 37.500 0.00 0.00 0.00 3.08
17 18 4.299485 TCCACCCAAACCAATTTAAACCT 58.701 39.130 0.00 0.00 0.00 3.50
18 19 4.691326 TCCACCCAAACCAATTTAAACC 57.309 40.909 0.00 0.00 0.00 3.27
19 20 7.392494 TTTTTCCACCCAAACCAATTTAAAC 57.608 32.000 0.00 0.00 0.00 2.01
40 41 5.093677 ACCAAAATCAGGCCCTCTATTTTT 58.906 37.500 0.00 0.00 31.05 1.94
41 42 4.687976 ACCAAAATCAGGCCCTCTATTTT 58.312 39.130 0.00 4.13 33.07 1.82
42 43 4.337264 ACCAAAATCAGGCCCTCTATTT 57.663 40.909 0.00 0.00 0.00 1.40
43 44 4.026052 CAACCAAAATCAGGCCCTCTATT 58.974 43.478 0.00 0.00 0.00 1.73
44 45 3.628257 CCAACCAAAATCAGGCCCTCTAT 60.628 47.826 0.00 0.00 0.00 1.98
45 46 2.291540 CCAACCAAAATCAGGCCCTCTA 60.292 50.000 0.00 0.00 0.00 2.43
46 47 1.550869 CCAACCAAAATCAGGCCCTCT 60.551 52.381 0.00 0.00 0.00 3.69
47 48 0.897621 CCAACCAAAATCAGGCCCTC 59.102 55.000 0.00 0.00 0.00 4.30
48 49 0.545071 CCCAACCAAAATCAGGCCCT 60.545 55.000 0.00 0.00 0.00 5.19
49 50 0.835971 ACCCAACCAAAATCAGGCCC 60.836 55.000 0.00 0.00 0.00 5.80
50 51 1.055849 AACCCAACCAAAATCAGGCC 58.944 50.000 0.00 0.00 0.00 5.19
51 52 1.691434 TCAACCCAACCAAAATCAGGC 59.309 47.619 0.00 0.00 0.00 4.85
52 53 4.414337 TTTCAACCCAACCAAAATCAGG 57.586 40.909 0.00 0.00 0.00 3.86
53 54 5.239087 CCATTTTCAACCCAACCAAAATCAG 59.761 40.000 0.00 0.00 0.00 2.90
54 55 5.128919 CCATTTTCAACCCAACCAAAATCA 58.871 37.500 0.00 0.00 0.00 2.57
55 56 4.023279 GCCATTTTCAACCCAACCAAAATC 60.023 41.667 0.00 0.00 0.00 2.17
56 57 3.888323 GCCATTTTCAACCCAACCAAAAT 59.112 39.130 0.00 0.00 0.00 1.82
57 58 3.282885 GCCATTTTCAACCCAACCAAAA 58.717 40.909 0.00 0.00 0.00 2.44
58 59 2.239654 TGCCATTTTCAACCCAACCAAA 59.760 40.909 0.00 0.00 0.00 3.28
59 60 1.839994 TGCCATTTTCAACCCAACCAA 59.160 42.857 0.00 0.00 0.00 3.67
60 61 1.500474 TGCCATTTTCAACCCAACCA 58.500 45.000 0.00 0.00 0.00 3.67
61 62 2.857186 ATGCCATTTTCAACCCAACC 57.143 45.000 0.00 0.00 0.00 3.77
62 63 5.333721 CGTTTAATGCCATTTTCAACCCAAC 60.334 40.000 0.00 0.00 0.00 3.77
63 64 4.752101 CGTTTAATGCCATTTTCAACCCAA 59.248 37.500 0.00 0.00 0.00 4.12
64 65 4.310769 CGTTTAATGCCATTTTCAACCCA 58.689 39.130 0.00 0.00 0.00 4.51
65 66 3.682377 CCGTTTAATGCCATTTTCAACCC 59.318 43.478 0.00 0.00 0.00 4.11
66 67 4.561105 TCCGTTTAATGCCATTTTCAACC 58.439 39.130 0.00 0.00 0.00 3.77
67 68 7.042791 CCATATCCGTTTAATGCCATTTTCAAC 60.043 37.037 0.00 0.00 0.00 3.18
68 69 6.983307 CCATATCCGTTTAATGCCATTTTCAA 59.017 34.615 0.00 0.00 0.00 2.69
69 70 6.097554 ACCATATCCGTTTAATGCCATTTTCA 59.902 34.615 0.00 0.00 0.00 2.69
70 71 6.512297 ACCATATCCGTTTAATGCCATTTTC 58.488 36.000 0.00 0.00 0.00 2.29
71 72 6.478512 ACCATATCCGTTTAATGCCATTTT 57.521 33.333 0.00 0.00 0.00 1.82
72 73 6.097554 TGAACCATATCCGTTTAATGCCATTT 59.902 34.615 0.00 0.00 0.00 2.32
73 74 5.596361 TGAACCATATCCGTTTAATGCCATT 59.404 36.000 0.00 0.00 0.00 3.16
74 75 5.136828 TGAACCATATCCGTTTAATGCCAT 58.863 37.500 0.00 0.00 0.00 4.40
75 76 4.527944 TGAACCATATCCGTTTAATGCCA 58.472 39.130 0.00 0.00 0.00 4.92
76 77 5.067283 ACTTGAACCATATCCGTTTAATGCC 59.933 40.000 0.00 0.00 0.00 4.40
77 78 5.971202 CACTTGAACCATATCCGTTTAATGC 59.029 40.000 0.00 0.00 0.00 3.56
78 79 6.966632 CACACTTGAACCATATCCGTTTAATG 59.033 38.462 0.00 0.00 0.00 1.90
79 80 6.094881 CCACACTTGAACCATATCCGTTTAAT 59.905 38.462 0.00 0.00 0.00 1.40
80 81 5.413213 CCACACTTGAACCATATCCGTTTAA 59.587 40.000 0.00 0.00 0.00 1.52
81 82 4.938832 CCACACTTGAACCATATCCGTTTA 59.061 41.667 0.00 0.00 0.00 2.01
82 83 3.756434 CCACACTTGAACCATATCCGTTT 59.244 43.478 0.00 0.00 0.00 3.60
83 84 3.244770 ACCACACTTGAACCATATCCGTT 60.245 43.478 0.00 0.00 0.00 4.44
84 85 2.304761 ACCACACTTGAACCATATCCGT 59.695 45.455 0.00 0.00 0.00 4.69
85 86 2.985896 ACCACACTTGAACCATATCCG 58.014 47.619 0.00 0.00 0.00 4.18
86 87 5.242838 TCAAAACCACACTTGAACCATATCC 59.757 40.000 0.00 0.00 0.00 2.59
87 88 6.206634 TCTCAAAACCACACTTGAACCATATC 59.793 38.462 0.00 0.00 31.41 1.63
88 89 6.068010 TCTCAAAACCACACTTGAACCATAT 58.932 36.000 0.00 0.00 31.41 1.78
89 90 5.441500 TCTCAAAACCACACTTGAACCATA 58.558 37.500 0.00 0.00 31.41 2.74
90 91 4.277476 TCTCAAAACCACACTTGAACCAT 58.723 39.130 0.00 0.00 31.41 3.55
91 92 3.691575 TCTCAAAACCACACTTGAACCA 58.308 40.909 0.00 0.00 31.41 3.67
92 93 3.945285 TCTCTCAAAACCACACTTGAACC 59.055 43.478 0.00 0.00 31.41 3.62
93 94 5.757850 ATCTCTCAAAACCACACTTGAAC 57.242 39.130 0.00 0.00 31.41 3.18
94 95 6.353323 TGTATCTCTCAAAACCACACTTGAA 58.647 36.000 0.00 0.00 31.41 2.69
95 96 5.924356 TGTATCTCTCAAAACCACACTTGA 58.076 37.500 0.00 0.00 0.00 3.02
96 97 6.205464 ACATGTATCTCTCAAAACCACACTTG 59.795 38.462 0.00 0.00 0.00 3.16
97 98 6.299141 ACATGTATCTCTCAAAACCACACTT 58.701 36.000 0.00 0.00 0.00 3.16
98 99 5.869579 ACATGTATCTCTCAAAACCACACT 58.130 37.500 0.00 0.00 0.00 3.55
99 100 6.183360 CGTACATGTATCTCTCAAAACCACAC 60.183 42.308 9.18 0.00 0.00 3.82
100 101 5.867174 CGTACATGTATCTCTCAAAACCACA 59.133 40.000 9.18 0.00 0.00 4.17
101 102 5.291128 CCGTACATGTATCTCTCAAAACCAC 59.709 44.000 9.18 0.00 0.00 4.16
102 103 5.416083 CCGTACATGTATCTCTCAAAACCA 58.584 41.667 9.18 0.00 0.00 3.67
103 104 4.809426 CCCGTACATGTATCTCTCAAAACC 59.191 45.833 9.18 0.00 0.00 3.27
104 105 5.416947 ACCCGTACATGTATCTCTCAAAAC 58.583 41.667 9.18 0.00 0.00 2.43
105 106 5.670792 ACCCGTACATGTATCTCTCAAAA 57.329 39.130 9.18 0.00 0.00 2.44
106 107 6.239204 CCATACCCGTACATGTATCTCTCAAA 60.239 42.308 9.18 0.00 0.00 2.69
107 108 5.243060 CCATACCCGTACATGTATCTCTCAA 59.757 44.000 9.18 0.00 0.00 3.02
108 109 4.765339 CCATACCCGTACATGTATCTCTCA 59.235 45.833 9.18 0.00 0.00 3.27
109 110 4.765856 ACCATACCCGTACATGTATCTCTC 59.234 45.833 9.18 0.00 0.00 3.20
110 111 4.737578 ACCATACCCGTACATGTATCTCT 58.262 43.478 9.18 0.00 0.00 3.10
111 112 5.010314 TGAACCATACCCGTACATGTATCTC 59.990 44.000 9.18 0.00 0.00 2.75
112 113 4.897076 TGAACCATACCCGTACATGTATCT 59.103 41.667 9.18 0.00 0.00 1.98
113 114 5.204409 TGAACCATACCCGTACATGTATC 57.796 43.478 9.18 2.36 0.00 2.24
114 115 5.129815 ACTTGAACCATACCCGTACATGTAT 59.870 40.000 9.18 0.00 0.00 2.29
115 116 4.467082 ACTTGAACCATACCCGTACATGTA 59.533 41.667 0.08 0.08 0.00 2.29
116 117 3.262405 ACTTGAACCATACCCGTACATGT 59.738 43.478 2.69 2.69 0.00 3.21
117 118 3.869065 ACTTGAACCATACCCGTACATG 58.131 45.455 0.00 0.00 0.00 3.21
118 119 5.454187 CCATACTTGAACCATACCCGTACAT 60.454 44.000 0.00 0.00 0.00 2.29
119 120 4.141892 CCATACTTGAACCATACCCGTACA 60.142 45.833 0.00 0.00 0.00 2.90
120 121 4.141869 ACCATACTTGAACCATACCCGTAC 60.142 45.833 0.00 0.00 0.00 3.67
121 122 4.032310 ACCATACTTGAACCATACCCGTA 58.968 43.478 0.00 0.00 0.00 4.02
122 123 2.841881 ACCATACTTGAACCATACCCGT 59.158 45.455 0.00 0.00 0.00 5.28
123 124 3.553828 ACCATACTTGAACCATACCCG 57.446 47.619 0.00 0.00 0.00 5.28
124 125 6.888088 ACTTAAACCATACTTGAACCATACCC 59.112 38.462 0.00 0.00 0.00 3.69
125 126 7.933215 ACTTAAACCATACTTGAACCATACC 57.067 36.000 0.00 0.00 0.00 2.73
128 129 9.747898 TTCATACTTAAACCATACTTGAACCAT 57.252 29.630 0.00 0.00 0.00 3.55
129 130 9.575868 TTTCATACTTAAACCATACTTGAACCA 57.424 29.630 0.00 0.00 0.00 3.67
130 131 9.836076 GTTTCATACTTAAACCATACTTGAACC 57.164 33.333 0.00 0.00 31.94 3.62
150 151 8.755977 AGCAATTAAATCTGAGAATGGTTTCAT 58.244 29.630 0.00 0.00 34.08 2.57
151 152 8.125978 AGCAATTAAATCTGAGAATGGTTTCA 57.874 30.769 0.00 0.00 34.08 2.69
154 155 8.636213 CCATAGCAATTAAATCTGAGAATGGTT 58.364 33.333 0.00 0.00 0.00 3.67
155 156 8.000709 TCCATAGCAATTAAATCTGAGAATGGT 58.999 33.333 3.32 0.00 0.00 3.55
156 157 8.400184 TCCATAGCAATTAAATCTGAGAATGG 57.600 34.615 0.00 0.00 0.00 3.16
237 238 1.350684 TGCAGTCCATCTTTGCACCTA 59.649 47.619 0.00 0.00 42.41 3.08
250 251 4.384940 AGACTTCTTTCTTCTTGCAGTCC 58.615 43.478 0.00 0.00 31.35 3.85
279 280 6.728632 ACTTAGAGAAGTCTCCTCTCCAAATT 59.271 38.462 4.67 0.00 42.50 1.82
343 344 9.080097 ACTGTACTATAGTTTTCTTCTCAGTGT 57.920 33.333 11.40 0.00 31.56 3.55
364 365 5.424757 CAACTTGAATATCCCCGAACTGTA 58.575 41.667 0.00 0.00 0.00 2.74
371 372 2.158755 AGAGCCAACTTGAATATCCCCG 60.159 50.000 0.00 0.00 0.00 5.73
393 394 7.712639 CGTAATAAGCGGGAGTATATAGACCTA 59.287 40.741 0.00 0.00 0.00 3.08
394 395 6.541641 CGTAATAAGCGGGAGTATATAGACCT 59.458 42.308 0.00 0.00 0.00 3.85
395 396 6.540189 TCGTAATAAGCGGGAGTATATAGACC 59.460 42.308 0.00 0.00 0.00 3.85
396 397 7.405769 GTCGTAATAAGCGGGAGTATATAGAC 58.594 42.308 0.00 0.00 0.00 2.59
397 398 6.540189 GGTCGTAATAAGCGGGAGTATATAGA 59.460 42.308 0.00 0.00 0.00 1.98
398 399 6.510799 CGGTCGTAATAAGCGGGAGTATATAG 60.511 46.154 0.00 0.00 34.20 1.31
399 400 5.294306 CGGTCGTAATAAGCGGGAGTATATA 59.706 44.000 0.00 0.00 34.20 0.86
400 401 4.095483 CGGTCGTAATAAGCGGGAGTATAT 59.905 45.833 0.00 0.00 34.20 0.86
401 402 3.436704 CGGTCGTAATAAGCGGGAGTATA 59.563 47.826 0.00 0.00 34.20 1.47
402 403 2.227388 CGGTCGTAATAAGCGGGAGTAT 59.773 50.000 0.00 0.00 34.20 2.12
403 404 1.603802 CGGTCGTAATAAGCGGGAGTA 59.396 52.381 0.00 0.00 34.20 2.59
404 405 0.383231 CGGTCGTAATAAGCGGGAGT 59.617 55.000 0.00 0.00 34.20 3.85
405 406 0.383231 ACGGTCGTAATAAGCGGGAG 59.617 55.000 0.00 0.00 41.64 4.30
406 407 0.817013 AACGGTCGTAATAAGCGGGA 59.183 50.000 0.00 0.00 41.64 5.14
407 408 0.925466 CAACGGTCGTAATAAGCGGG 59.075 55.000 0.00 0.00 41.64 6.13
408 409 0.925466 CCAACGGTCGTAATAAGCGG 59.075 55.000 0.00 0.00 41.64 5.52
409 410 0.925466 CCCAACGGTCGTAATAAGCG 59.075 55.000 0.00 0.00 42.91 4.68
410 411 0.654160 GCCCAACGGTCGTAATAAGC 59.346 55.000 0.00 0.00 0.00 3.09
411 412 1.931172 CTGCCCAACGGTCGTAATAAG 59.069 52.381 0.00 0.00 0.00 1.73
412 413 1.275856 ACTGCCCAACGGTCGTAATAA 59.724 47.619 0.00 0.00 29.10 1.40
413 414 0.896923 ACTGCCCAACGGTCGTAATA 59.103 50.000 0.00 0.00 29.10 0.98
414 415 0.672401 CACTGCCCAACGGTCGTAAT 60.672 55.000 0.00 0.00 34.87 1.89
415 416 1.301087 CACTGCCCAACGGTCGTAA 60.301 57.895 0.00 0.00 34.87 3.18
416 417 2.340809 CACTGCCCAACGGTCGTA 59.659 61.111 0.00 0.00 34.87 3.43
450 451 7.523293 TCTGAAATACAAAGGAGAATGCAAA 57.477 32.000 0.00 0.00 0.00 3.68
482 483 6.016555 AGTGGGCCATGTTAATCTTAAAACT 58.983 36.000 10.70 0.00 0.00 2.66
484 485 6.926630 AAGTGGGCCATGTTAATCTTAAAA 57.073 33.333 10.70 0.00 0.00 1.52
553 555 2.288152 GCAACGGTGGTGTTCATTCATT 60.288 45.455 0.90 0.00 0.00 2.57
621 646 4.384978 CCACCAAATCCAGATGAGATGAGT 60.385 45.833 0.00 0.00 0.00 3.41
629 654 5.688807 ACTTCTATCCACCAAATCCAGATG 58.311 41.667 0.00 0.00 0.00 2.90
669 694 4.380531 TCGAGGTATGGAAAATCTGATGC 58.619 43.478 0.00 0.00 0.00 3.91
672 697 5.186992 TGTCTTCGAGGTATGGAAAATCTGA 59.813 40.000 0.00 0.00 0.00 3.27
685 710 3.070159 CCACATATCCATGTCTTCGAGGT 59.930 47.826 0.00 0.00 43.73 3.85
991 1027 1.434696 CCATCGCCATTGTTGCTCC 59.565 57.895 0.00 0.00 0.00 4.70
1243 1287 1.945394 AGTCAGATTGATGCCGATTGC 59.055 47.619 0.00 0.00 41.77 3.56
1263 1312 0.881118 GCACGGAGAAGAAATTGCCA 59.119 50.000 0.00 0.00 0.00 4.92
1267 1316 3.007398 AGTCTCTGCACGGAGAAGAAATT 59.993 43.478 10.71 0.00 42.95 1.82
1272 1321 1.730772 CGAAGTCTCTGCACGGAGAAG 60.731 57.143 10.71 0.52 42.95 2.85
1399 1452 1.610673 GTGGTGCAGAGGAGGAGGA 60.611 63.158 0.00 0.00 0.00 3.71
1400 1453 1.915266 TGTGGTGCAGAGGAGGAGG 60.915 63.158 0.00 0.00 0.00 4.30
1401 1454 3.797331 TGTGGTGCAGAGGAGGAG 58.203 61.111 0.00 0.00 0.00 3.69
1427 1480 1.455786 CTACCAGCGAACAACTCAACG 59.544 52.381 0.00 0.00 0.00 4.10
1443 1496 4.337274 GCCACAACCCATGTTATTACTACC 59.663 45.833 0.00 0.00 41.46 3.18
1511 1573 1.151450 CTTCACCCAGTTGCCCAGT 59.849 57.895 0.00 0.00 0.00 4.00
1781 1843 1.559065 AACGGGGTGTATGGTGGGAG 61.559 60.000 0.00 0.00 0.00 4.30
1807 1869 4.339814 GGGGTGTATGGATATTCGCAAAAA 59.660 41.667 0.00 0.00 0.00 1.94
1808 1870 3.886505 GGGGTGTATGGATATTCGCAAAA 59.113 43.478 0.00 0.00 0.00 2.44
1809 1871 3.482436 GGGGTGTATGGATATTCGCAAA 58.518 45.455 0.00 0.00 0.00 3.68
1810 1872 2.549134 CGGGGTGTATGGATATTCGCAA 60.549 50.000 0.00 0.00 0.00 4.85
1811 1873 1.001520 CGGGGTGTATGGATATTCGCA 59.998 52.381 0.00 0.00 0.00 5.10
1812 1874 1.001633 ACGGGGTGTATGGATATTCGC 59.998 52.381 0.00 0.00 0.00 4.70
1813 1875 3.064207 CAACGGGGTGTATGGATATTCG 58.936 50.000 0.00 0.00 0.00 3.34
1814 1876 4.081322 ACAACGGGGTGTATGGATATTC 57.919 45.455 0.00 0.00 0.00 1.75
1815 1877 4.080243 TCAACAACGGGGTGTATGGATATT 60.080 41.667 0.00 0.00 0.00 1.28
1816 1878 3.456644 TCAACAACGGGGTGTATGGATAT 59.543 43.478 0.00 0.00 0.00 1.63
1817 1879 2.838813 TCAACAACGGGGTGTATGGATA 59.161 45.455 0.00 0.00 0.00 2.59
1818 1880 1.631388 TCAACAACGGGGTGTATGGAT 59.369 47.619 0.00 0.00 0.00 3.41
1819 1881 1.057471 TCAACAACGGGGTGTATGGA 58.943 50.000 0.00 0.00 0.00 3.41
1820 1882 1.898902 TTCAACAACGGGGTGTATGG 58.101 50.000 0.00 0.00 0.00 2.74
1821 1883 3.078097 TCATTCAACAACGGGGTGTATG 58.922 45.455 7.40 7.40 0.00 2.39
1822 1884 3.426787 TCATTCAACAACGGGGTGTAT 57.573 42.857 0.00 0.00 0.00 2.29
1825 1887 3.444703 TTTTCATTCAACAACGGGGTG 57.555 42.857 0.00 0.00 0.00 4.61
1884 1946 4.580551 GCCGCCCTGCAATGCATC 62.581 66.667 8.91 0.07 38.13 3.91
2086 2148 0.313672 GTTGAAAACCATGCGCTCCA 59.686 50.000 9.73 0.00 42.21 3.86
2124 2186 5.380043 AGGCAATCAACCAATCTATCGATT 58.620 37.500 1.71 0.00 40.43 3.34
2125 2191 4.978099 AGGCAATCAACCAATCTATCGAT 58.022 39.130 2.16 2.16 0.00 3.59
2131 2197 1.551883 GGCAAGGCAATCAACCAATCT 59.448 47.619 0.00 0.00 0.00 2.40
2245 2311 0.602638 TTCACAACAGTGGCCGCTAG 60.603 55.000 20.73 15.69 34.04 3.42
2291 2357 2.756207 CTCCACACCATCATCATGCAAA 59.244 45.455 0.00 0.00 0.00 3.68
2315 2381 2.636893 ACAGAGATTGTCAGAGGCAACT 59.363 45.455 0.00 0.00 44.86 3.16
2339 2405 2.609350 GCGATAACTGTCCCGTACAAA 58.391 47.619 0.00 0.00 37.74 2.83
2340 2406 1.467883 CGCGATAACTGTCCCGTACAA 60.468 52.381 0.00 0.00 37.74 2.41
2344 2411 1.153901 CACGCGATAACTGTCCCGT 60.154 57.895 15.93 0.00 33.31 5.28
2358 2425 6.801377 TCAATGAAATGTTAACTTGATCACGC 59.199 34.615 7.22 0.00 0.00 5.34
2361 2428 8.114331 AGCTCAATGAAATGTTAACTTGATCA 57.886 30.769 7.22 9.37 0.00 2.92
2398 2465 9.177608 TGAATACATAGTGCTGCTTCTATTTTT 57.822 29.630 12.53 8.42 0.00 1.94
2399 2466 8.737168 TGAATACATAGTGCTGCTTCTATTTT 57.263 30.769 12.53 8.65 0.00 1.82
2400 2467 8.915057 ATGAATACATAGTGCTGCTTCTATTT 57.085 30.769 12.53 10.30 34.71 1.40
2401 2468 8.781196 CAATGAATACATAGTGCTGCTTCTATT 58.219 33.333 12.53 8.79 35.50 1.73
2402 2469 8.152898 TCAATGAATACATAGTGCTGCTTCTAT 58.847 33.333 0.00 6.65 35.50 1.98
2403 2470 7.500141 TCAATGAATACATAGTGCTGCTTCTA 58.500 34.615 0.00 4.50 35.50 2.10
2404 2471 6.351711 TCAATGAATACATAGTGCTGCTTCT 58.648 36.000 0.00 2.21 35.50 2.85
2405 2472 6.609237 TCAATGAATACATAGTGCTGCTTC 57.391 37.500 0.00 0.00 35.50 3.86
2417 2484 9.469807 GTGTACCAAATTTGTTCAATGAATACA 57.530 29.630 16.73 7.93 0.00 2.29
2445 2512 7.408756 TGTAAGGGTGTCTACGTATGTATTT 57.591 36.000 0.00 0.00 0.00 1.40
2447 2514 6.630444 CTGTAAGGGTGTCTACGTATGTAT 57.370 41.667 0.00 0.00 0.00 2.29
2471 2538 9.145865 CTTAAGGTCTTATGTCTCTCTGTTTTC 57.854 37.037 0.00 0.00 0.00 2.29
2494 2561 4.671831 TGGGATCCTTTGTGCAAATCTTA 58.328 39.130 12.58 0.00 0.00 2.10
2528 2595 5.711506 TCTCCATTGATTGTGCTGTTACATT 59.288 36.000 0.00 0.00 0.00 2.71
2554 2621 1.748879 GGTTAGGCAAGGCGCATGA 60.749 57.895 10.83 0.00 45.17 3.07
2573 2640 2.248248 TGGAGTCTGTTTGGAGACGAT 58.752 47.619 0.00 0.00 46.04 3.73
2598 2665 2.744709 TTCGGCAAAGCTACGGCC 60.745 61.111 12.00 12.00 44.27 6.13
2649 2725 1.088306 TGTTTGCGACGGTGTTCTTT 58.912 45.000 0.00 0.00 0.00 2.52
2654 2730 1.002900 CAGATTTGTTTGCGACGGTGT 60.003 47.619 0.00 0.00 0.00 4.16
2659 2735 6.509317 TCAAAAATCAGATTTGTTTGCGAC 57.491 33.333 9.24 0.00 38.57 5.19
2665 2741 5.452078 TCGGCTCAAAAATCAGATTTGTT 57.548 34.783 9.24 3.84 38.57 2.83
2668 2744 5.902613 TCATCGGCTCAAAAATCAGATTT 57.097 34.783 2.20 2.20 0.00 2.17
2671 2747 4.378356 CGTTTCATCGGCTCAAAAATCAGA 60.378 41.667 0.00 0.00 0.00 3.27
2675 2751 3.365969 GGTCGTTTCATCGGCTCAAAAAT 60.366 43.478 0.00 0.00 35.67 1.82
2706 2782 3.384014 GACTCGGCTCTGTCGTCGG 62.384 68.421 0.00 0.00 30.45 4.79
2733 2809 1.144057 GATCATCCTTGGCCGACGT 59.856 57.895 0.00 0.00 0.00 4.34
2748 2824 0.683973 ATCAGGCGGACATGAGGATC 59.316 55.000 0.00 0.00 0.00 3.36
2849 2930 4.629634 CGACAACCATAAATAGAGTGTGCA 59.370 41.667 0.00 0.00 0.00 4.57
2861 2942 0.671163 GGTGACGGCGACAACCATAA 60.671 55.000 16.62 0.00 0.00 1.90
2862 2943 1.079681 GGTGACGGCGACAACCATA 60.080 57.895 16.62 0.00 0.00 2.74
2863 2944 2.358247 GGTGACGGCGACAACCAT 60.358 61.111 16.62 0.00 0.00 3.55
2875 2956 2.747686 ACCCATGGTGACGGTGAC 59.252 61.111 11.73 0.00 32.98 3.67
2957 3038 4.832823 TCGATGATGCTAGGAATCAGGTAA 59.167 41.667 0.00 0.00 37.46 2.85
2969 3052 6.074142 CGACATTCTTTCAATCGATGATGCTA 60.074 38.462 0.00 0.00 38.03 3.49
2984 3067 3.973973 TCATCCCTATCCCGACATTCTTT 59.026 43.478 0.00 0.00 0.00 2.52
2997 3081 1.607225 TGGCCCTGTTTCATCCCTAT 58.393 50.000 0.00 0.00 0.00 2.57
2999 3083 0.712380 ATTGGCCCTGTTTCATCCCT 59.288 50.000 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.