Multiple sequence alignment - TraesCS5B01G081900

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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 TraesCS5B01G081900 chr5B 100.000 3335 0 0 1 3335 102608418 102605084 0.000000e+00 6159.0
1 TraesCS5B01G081900 chr5D 92.110 2294 106 37 433 2675 95882869 95880600 0.000000e+00 3164.0
2 TraesCS5B01G081900 chr5D 92.418 699 28 6 2637 3335 95880528 95879855 0.000000e+00 974.0
3 TraesCS5B01G081900 chr5D 97.590 166 4 0 29 194 25039979 25040144 5.450000e-73 285.0
4 TraesCS5B01G081900 chr5D 95.028 181 8 1 26 205 321902082 321901902 1.960000e-72 283.0
5 TraesCS5B01G081900 chr5D 96.450 169 6 0 30 198 274578176 274578008 2.530000e-71 279.0
6 TraesCS5B01G081900 chr5D 85.217 230 22 7 2647 2874 554920867 554920648 3.350000e-55 226.0
7 TraesCS5B01G081900 chr5D 89.552 134 14 0 219 352 95883356 95883223 1.590000e-38 171.0
8 TraesCS5B01G081900 chr5A 93.219 1917 70 28 347 2210 90929544 90927635 0.000000e+00 2765.0
9 TraesCS5B01G081900 chr5A 93.000 700 27 10 2637 3335 90927160 90926482 0.000000e+00 1002.0
10 TraesCS5B01G081900 chr5A 82.195 483 29 22 2195 2663 90927617 90927178 2.450000e-96 363.0
11 TraesCS5B01G081900 chr5A 93.855 179 8 3 30 207 452111600 452111776 1.970000e-67 267.0
12 TraesCS5B01G081900 chr5A 89.130 138 7 5 191 322 90930517 90930382 7.400000e-37 165.0
13 TraesCS5B01G081900 chr2D 94.652 187 8 2 21 207 24312365 24312181 4.210000e-74 289.0
14 TraesCS5B01G081900 chr2D 96.450 169 6 0 27 195 161907019 161906851 2.530000e-71 279.0
15 TraesCS5B01G081900 chr6A 93.923 181 11 0 30 210 24071896 24072076 1.180000e-69 274.0
16 TraesCS5B01G081900 chr4D 94.886 176 8 1 30 205 13359916 13360090 1.180000e-69 274.0
17 TraesCS5B01G081900 chr4A 93.923 181 10 1 17 196 195972607 195972427 4.240000e-69 272.0
18 TraesCS5B01G081900 chr4A 81.609 261 31 9 2650 2909 613865707 613865951 2.030000e-47 200.0
19 TraesCS5B01G081900 chr4A 76.308 325 56 15 1237 1560 613861926 613862230 1.600000e-33 154.0
20 TraesCS5B01G081900 chr7A 80.163 368 52 4 1733 2098 697984003 697983655 4.270000e-64 255.0
21 TraesCS5B01G081900 chr1B 87.342 158 18 2 1336 1493 73042689 73042844 2.640000e-41 180.0
22 TraesCS5B01G081900 chr1A 95.833 48 1 1 3053 3099 558086784 558086831 3.570000e-10 76.8


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 TraesCS5B01G081900 chr5B 102605084 102608418 3334 True 6159.000000 6159 100.000 1 3335 1 chr5B.!!$R1 3334
1 TraesCS5B01G081900 chr5D 95879855 95883356 3501 True 1436.333333 3164 91.360 219 3335 3 chr5D.!!$R4 3116
2 TraesCS5B01G081900 chr5A 90926482 90930517 4035 True 1073.750000 2765 89.386 191 3335 4 chr5A.!!$R1 3144

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
657 1511 0.179 CCTACAATGCGCCTCCTCTT 59.821 55.0 4.18 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2455 3425 1.541588 GTCTTCAACAATGGCTGGTCC 59.458 52.381 0.0 0.0 0.0 4.46 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
24 25 7.749539 AGTTTCAAACTTCGGTAAACAAATG 57.250 32.000 0.00 0.00 39.04 2.32
25 26 6.754675 AGTTTCAAACTTCGGTAAACAAATGG 59.245 34.615 0.00 0.00 39.04 3.16
26 27 6.452494 TTCAAACTTCGGTAAACAAATGGA 57.548 33.333 0.00 0.00 0.00 3.41
27 28 6.452494 TCAAACTTCGGTAAACAAATGGAA 57.548 33.333 0.00 0.00 0.00 3.53
28 29 6.500041 TCAAACTTCGGTAAACAAATGGAAG 58.500 36.000 0.00 0.00 37.49 3.46
29 30 6.095720 TCAAACTTCGGTAAACAAATGGAAGT 59.904 34.615 0.00 0.00 44.13 3.01
30 31 7.282675 TCAAACTTCGGTAAACAAATGGAAGTA 59.717 33.333 4.85 0.00 42.15 2.24
31 32 6.549912 ACTTCGGTAAACAAATGGAAGTAC 57.450 37.500 2.68 0.00 41.45 2.73
32 33 6.293698 ACTTCGGTAAACAAATGGAAGTACT 58.706 36.000 2.68 0.00 41.45 2.73
33 34 6.426025 ACTTCGGTAAACAAATGGAAGTACTC 59.574 38.462 0.00 0.00 41.45 2.59
34 35 6.105397 TCGGTAAACAAATGGAAGTACTCT 57.895 37.500 0.00 0.00 0.00 3.24
35 36 6.161381 TCGGTAAACAAATGGAAGTACTCTC 58.839 40.000 0.00 0.00 0.00 3.20
36 37 6.014840 TCGGTAAACAAATGGAAGTACTCTCT 60.015 38.462 0.00 0.00 0.00 3.10
37 38 6.310711 CGGTAAACAAATGGAAGTACTCTCTC 59.689 42.308 0.00 0.00 0.00 3.20
38 39 6.594547 GGTAAACAAATGGAAGTACTCTCTCC 59.405 42.308 5.28 5.28 0.00 3.71
39 40 4.457834 ACAAATGGAAGTACTCTCTCCG 57.542 45.455 7.44 0.00 0.00 4.63
40 41 3.833070 ACAAATGGAAGTACTCTCTCCGT 59.167 43.478 7.44 4.60 0.00 4.69
41 42 4.283722 ACAAATGGAAGTACTCTCTCCGTT 59.716 41.667 12.07 12.07 0.00 4.44
42 43 4.722361 AATGGAAGTACTCTCTCCGTTC 57.278 45.455 12.07 0.00 0.00 3.95
43 44 2.444421 TGGAAGTACTCTCTCCGTTCC 58.556 52.381 7.44 3.77 35.09 3.62
44 45 2.041350 TGGAAGTACTCTCTCCGTTCCT 59.959 50.000 7.44 0.00 35.48 3.36
45 46 3.265221 TGGAAGTACTCTCTCCGTTCCTA 59.735 47.826 7.44 0.00 35.48 2.94
46 47 4.263639 TGGAAGTACTCTCTCCGTTCCTAA 60.264 45.833 7.44 0.00 35.48 2.69
47 48 4.704057 GGAAGTACTCTCTCCGTTCCTAAA 59.296 45.833 0.00 0.00 32.33 1.85
48 49 5.360429 GGAAGTACTCTCTCCGTTCCTAAAT 59.640 44.000 0.00 0.00 32.33 1.40
49 50 6.545298 GGAAGTACTCTCTCCGTTCCTAAATA 59.455 42.308 0.00 0.00 32.33 1.40
50 51 7.231115 GGAAGTACTCTCTCCGTTCCTAAATAT 59.769 40.741 0.00 0.00 32.33 1.28
51 52 8.536340 AAGTACTCTCTCCGTTCCTAAATATT 57.464 34.615 0.00 0.00 0.00 1.28
52 53 8.536340 AGTACTCTCTCCGTTCCTAAATATTT 57.464 34.615 5.89 5.89 0.00 1.40
53 54 8.414778 AGTACTCTCTCCGTTCCTAAATATTTG 58.585 37.037 11.05 1.40 0.00 2.32
54 55 7.184067 ACTCTCTCCGTTCCTAAATATTTGT 57.816 36.000 11.05 0.00 0.00 2.83
55 56 7.266400 ACTCTCTCCGTTCCTAAATATTTGTC 58.734 38.462 11.05 0.00 0.00 3.18
56 57 7.124448 ACTCTCTCCGTTCCTAAATATTTGTCT 59.876 37.037 11.05 0.00 0.00 3.41
57 58 7.848128 TCTCTCCGTTCCTAAATATTTGTCTT 58.152 34.615 11.05 0.00 0.00 3.01
58 59 8.319146 TCTCTCCGTTCCTAAATATTTGTCTTT 58.681 33.333 11.05 0.00 0.00 2.52
59 60 8.488651 TCTCCGTTCCTAAATATTTGTCTTTC 57.511 34.615 11.05 0.00 0.00 2.62
60 61 8.319146 TCTCCGTTCCTAAATATTTGTCTTTCT 58.681 33.333 11.05 0.00 0.00 2.52
61 62 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
62 63 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
63 64 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
76 77 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
77 78 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
78 79 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
79 80 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
80 81 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
81 82 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
82 83 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
83 84 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
84 85 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
86 87 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
87 88 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
88 89 7.375834 AGATTTCAACAAGTGACTACATACGA 58.624 34.615 0.00 0.00 35.39 3.43
89 90 7.870954 AGATTTCAACAAGTGACTACATACGAA 59.129 33.333 0.00 0.00 35.39 3.85
90 91 7.402811 TTTCAACAAGTGACTACATACGAAG 57.597 36.000 0.00 0.00 35.39 3.79
91 92 4.921515 TCAACAAGTGACTACATACGAAGC 59.078 41.667 0.00 0.00 0.00 3.86
92 93 4.514781 ACAAGTGACTACATACGAAGCA 57.485 40.909 0.00 0.00 0.00 3.91
93 94 4.878439 ACAAGTGACTACATACGAAGCAA 58.122 39.130 0.00 0.00 0.00 3.91
94 95 4.923871 ACAAGTGACTACATACGAAGCAAG 59.076 41.667 0.00 0.00 0.00 4.01
95 96 5.161358 CAAGTGACTACATACGAAGCAAGA 58.839 41.667 0.00 0.00 0.00 3.02
96 97 5.584253 AGTGACTACATACGAAGCAAGAT 57.416 39.130 0.00 0.00 0.00 2.40
97 98 5.344066 AGTGACTACATACGAAGCAAGATG 58.656 41.667 0.00 0.00 0.00 2.90
98 99 5.125578 AGTGACTACATACGAAGCAAGATGA 59.874 40.000 0.00 0.00 0.00 2.92
99 100 5.805486 GTGACTACATACGAAGCAAGATGAA 59.195 40.000 0.00 0.00 0.00 2.57
100 101 6.477033 GTGACTACATACGAAGCAAGATGAAT 59.523 38.462 0.00 0.00 0.00 2.57
101 102 6.476706 TGACTACATACGAAGCAAGATGAATG 59.523 38.462 0.00 0.00 0.00 2.67
102 103 6.573434 ACTACATACGAAGCAAGATGAATGA 58.427 36.000 0.00 0.00 0.00 2.57
103 104 7.041721 ACTACATACGAAGCAAGATGAATGAA 58.958 34.615 0.00 0.00 0.00 2.57
104 105 6.932356 ACATACGAAGCAAGATGAATGAAT 57.068 33.333 0.00 0.00 0.00 2.57
105 106 6.952743 ACATACGAAGCAAGATGAATGAATC 58.047 36.000 0.00 0.00 0.00 2.52
106 107 6.765036 ACATACGAAGCAAGATGAATGAATCT 59.235 34.615 0.00 0.00 38.59 2.40
107 108 7.928167 ACATACGAAGCAAGATGAATGAATCTA 59.072 33.333 0.00 0.00 35.83 1.98
108 109 6.595772 ACGAAGCAAGATGAATGAATCTAC 57.404 37.500 0.00 0.00 35.83 2.59
109 110 6.108687 ACGAAGCAAGATGAATGAATCTACA 58.891 36.000 0.00 0.00 35.83 2.74
110 111 6.036517 ACGAAGCAAGATGAATGAATCTACAC 59.963 38.462 0.00 0.00 35.83 2.90
111 112 6.257411 CGAAGCAAGATGAATGAATCTACACT 59.743 38.462 0.00 0.00 35.83 3.55
112 113 7.516470 CGAAGCAAGATGAATGAATCTACACTC 60.516 40.741 0.00 0.00 35.83 3.51
113 114 6.054295 AGCAAGATGAATGAATCTACACTCC 58.946 40.000 0.00 0.00 35.83 3.85
114 115 5.819379 GCAAGATGAATGAATCTACACTCCA 59.181 40.000 0.00 0.00 35.83 3.86
115 116 6.317140 GCAAGATGAATGAATCTACACTCCAA 59.683 38.462 0.00 0.00 35.83 3.53
116 117 7.148188 GCAAGATGAATGAATCTACACTCCAAA 60.148 37.037 0.00 0.00 35.83 3.28
117 118 8.733458 CAAGATGAATGAATCTACACTCCAAAA 58.267 33.333 0.00 0.00 35.83 2.44
118 119 9.471702 AAGATGAATGAATCTACACTCCAAAAT 57.528 29.630 0.00 0.00 35.83 1.82
122 123 9.685276 TGAATGAATCTACACTCCAAAATATGT 57.315 29.630 0.00 0.00 0.00 2.29
124 125 9.911788 AATGAATCTACACTCCAAAATATGTCT 57.088 29.630 0.00 0.00 0.00 3.41
146 147 9.511272 TGTCTATATACATTCGTATGTGGTAGT 57.489 33.333 16.91 2.71 44.56 2.73
147 148 9.985318 GTCTATATACATTCGTATGTGGTAGTC 57.015 37.037 16.91 9.92 44.56 2.59
148 149 9.170734 TCTATATACATTCGTATGTGGTAGTCC 57.829 37.037 16.91 0.00 44.56 3.85
149 150 7.770366 ATATACATTCGTATGTGGTAGTCCA 57.230 36.000 16.91 0.00 44.56 4.02
150 151 6.665992 ATACATTCGTATGTGGTAGTCCAT 57.334 37.500 16.91 0.00 44.56 3.41
151 152 5.353394 ACATTCGTATGTGGTAGTCCATT 57.647 39.130 6.89 0.00 46.20 3.16
152 153 5.741011 ACATTCGTATGTGGTAGTCCATTT 58.259 37.500 6.89 0.00 46.20 2.32
153 154 5.584649 ACATTCGTATGTGGTAGTCCATTTG 59.415 40.000 6.89 0.00 46.20 2.32
154 155 5.408880 TTCGTATGTGGTAGTCCATTTGA 57.591 39.130 0.00 0.00 46.20 2.69
155 156 5.408880 TCGTATGTGGTAGTCCATTTGAA 57.591 39.130 0.00 0.00 46.20 2.69
156 157 5.795972 TCGTATGTGGTAGTCCATTTGAAA 58.204 37.500 0.00 0.00 46.20 2.69
157 158 6.411376 TCGTATGTGGTAGTCCATTTGAAAT 58.589 36.000 0.00 0.00 46.20 2.17
158 159 6.537301 TCGTATGTGGTAGTCCATTTGAAATC 59.463 38.462 0.00 0.00 46.20 2.17
159 160 6.538742 CGTATGTGGTAGTCCATTTGAAATCT 59.461 38.462 0.00 0.00 46.20 2.40
160 161 7.254455 CGTATGTGGTAGTCCATTTGAAATCTC 60.254 40.741 0.00 0.00 46.20 2.75
161 162 6.126863 TGTGGTAGTCCATTTGAAATCTCT 57.873 37.500 0.00 0.00 46.20 3.10
162 163 7.252612 TGTGGTAGTCCATTTGAAATCTCTA 57.747 36.000 0.00 0.00 46.20 2.43
163 164 7.685481 TGTGGTAGTCCATTTGAAATCTCTAA 58.315 34.615 0.00 0.00 46.20 2.10
164 165 8.160765 TGTGGTAGTCCATTTGAAATCTCTAAA 58.839 33.333 0.00 0.00 46.20 1.85
165 166 9.010029 GTGGTAGTCCATTTGAAATCTCTAAAA 57.990 33.333 0.00 0.00 46.20 1.52
166 167 9.581289 TGGTAGTCCATTTGAAATCTCTAAAAA 57.419 29.630 0.00 0.00 39.03 1.94
170 171 9.354673 AGTCCATTTGAAATCTCTAAAAAGACA 57.645 29.630 0.00 0.00 0.00 3.41
171 172 9.965824 GTCCATTTGAAATCTCTAAAAAGACAA 57.034 29.630 0.00 0.00 0.00 3.18
188 189 7.625828 AAAGACAAATATTTAGGAACGGAGG 57.374 36.000 0.00 0.00 0.00 4.30
189 190 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
190 191 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
191 192 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
192 193 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
193 194 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
194 195 6.416631 AATATTTAGGAACGGAGGGAGTAC 57.583 41.667 0.00 0.00 0.00 2.73
205 206 5.623169 ACGGAGGGAGTACAAATAAAAACA 58.377 37.500 0.00 0.00 0.00 2.83
250 256 1.838112 ATGAGCTGAAATTTGGGCGA 58.162 45.000 0.00 0.00 0.00 5.54
251 257 0.881118 TGAGCTGAAATTTGGGCGAC 59.119 50.000 0.00 0.00 0.00 5.19
524 1366 1.004610 CGAAAGCTGCACACATATCCG 60.005 52.381 1.02 0.00 0.00 4.18
527 1369 0.528466 AGCTGCACACATATCCGTCG 60.528 55.000 1.02 0.00 0.00 5.12
593 1439 1.491999 GCTCGATCTGCATGCATCG 59.508 57.895 29.13 29.13 37.83 3.84
603 1457 1.633852 GCATGCATCGCCTAGCTAGC 61.634 60.000 15.74 6.62 0.00 3.42
653 1507 1.090052 GTCACCTACAATGCGCCTCC 61.090 60.000 4.18 0.00 0.00 4.30
654 1508 1.221840 CACCTACAATGCGCCTCCT 59.778 57.895 4.18 0.00 0.00 3.69
655 1509 0.811616 CACCTACAATGCGCCTCCTC 60.812 60.000 4.18 0.00 0.00 3.71
657 1511 0.179000 CCTACAATGCGCCTCCTCTT 59.821 55.000 4.18 0.00 0.00 2.85
709 1568 2.413796 CGCCTCTTTTGTACGCACATAA 59.586 45.455 0.00 0.00 33.76 1.90
711 1570 4.156182 GCCTCTTTTGTACGCACATAAAC 58.844 43.478 0.00 0.00 33.76 2.01
712 1571 4.319911 GCCTCTTTTGTACGCACATAAACA 60.320 41.667 0.00 0.00 33.76 2.83
713 1572 5.382303 CCTCTTTTGTACGCACATAAACAG 58.618 41.667 0.00 0.00 33.76 3.16
715 1574 3.546002 TTTGTACGCACATAAACAGGC 57.454 42.857 0.00 0.00 33.76 4.85
716 1575 2.171341 TGTACGCACATAAACAGGCA 57.829 45.000 0.00 0.00 0.00 4.75
718 1577 2.482336 TGTACGCACATAAACAGGCAAG 59.518 45.455 0.00 0.00 0.00 4.01
719 1578 0.240945 ACGCACATAAACAGGCAAGC 59.759 50.000 0.00 0.00 0.00 4.01
720 1579 0.240678 CGCACATAAACAGGCAAGCA 59.759 50.000 0.00 0.00 0.00 3.91
721 1580 1.335780 CGCACATAAACAGGCAAGCAA 60.336 47.619 0.00 0.00 0.00 3.91
722 1581 2.061028 GCACATAAACAGGCAAGCAAC 58.939 47.619 0.00 0.00 0.00 4.17
909 1796 0.512952 CTTGCAGTTACGGTGTCAGC 59.487 55.000 0.00 0.00 0.00 4.26
944 1831 2.511600 GGCCCGGATCAACTCACG 60.512 66.667 0.73 0.00 0.00 4.35
949 1836 1.626654 CCGGATCAACTCACGCACAC 61.627 60.000 0.00 0.00 0.00 3.82
950 1837 0.667487 CGGATCAACTCACGCACACT 60.667 55.000 0.00 0.00 0.00 3.55
951 1838 1.071605 GGATCAACTCACGCACACTC 58.928 55.000 0.00 0.00 0.00 3.51
1000 1894 4.382114 CAACCATCGCGCACGCAA 62.382 61.111 16.04 0.00 42.06 4.85
1013 1907 2.350388 CGCACGCAACATAAAAACTCCT 60.350 45.455 0.00 0.00 0.00 3.69
1015 1909 3.821841 CACGCAACATAAAAACTCCTCC 58.178 45.455 0.00 0.00 0.00 4.30
1016 1910 3.252215 CACGCAACATAAAAACTCCTCCA 59.748 43.478 0.00 0.00 0.00 3.86
1017 1911 3.502211 ACGCAACATAAAAACTCCTCCAG 59.498 43.478 0.00 0.00 0.00 3.86
1042 1936 1.869754 CGAGCTACACAACACAGCACT 60.870 52.381 0.00 0.00 37.78 4.40
1063 1972 0.530744 CATTGCTCATTGCTGTGCCT 59.469 50.000 0.00 0.00 40.37 4.75
1597 2512 3.441290 CCTCGTCGGCTCCTTCGT 61.441 66.667 0.00 0.00 0.00 3.85
2163 3082 1.981495 AGAAACTCTTGGGAGGGTCTG 59.019 52.381 0.00 0.00 43.46 3.51
2217 3173 6.412362 AGTAAACTGGGATAGCTCTACATG 57.588 41.667 0.00 0.00 0.00 3.21
2358 3319 9.382275 GAAATAAATAACCAGTGGATTTTGCAT 57.618 29.630 18.40 0.60 0.00 3.96
2440 3410 2.351706 TGAAAACTGCCGGGTAAAGT 57.648 45.000 2.18 0.00 0.00 2.66
2453 3423 3.733727 CGGGTAAAGTTTGTTTCACATGC 59.266 43.478 0.00 0.00 0.00 4.06
2454 3424 4.499019 CGGGTAAAGTTTGTTTCACATGCT 60.499 41.667 0.00 0.00 0.00 3.79
2455 3425 4.744631 GGGTAAAGTTTGTTTCACATGCTG 59.255 41.667 0.00 0.00 0.00 4.41
2456 3426 4.744631 GGTAAAGTTTGTTTCACATGCTGG 59.255 41.667 0.00 0.00 0.00 4.85
2457 3427 4.734398 AAAGTTTGTTTCACATGCTGGA 57.266 36.364 0.00 0.00 0.00 3.86
2458 3428 3.715628 AGTTTGTTTCACATGCTGGAC 57.284 42.857 0.00 0.00 0.00 4.02
2459 3429 2.362077 AGTTTGTTTCACATGCTGGACC 59.638 45.455 0.00 0.00 0.00 4.46
2460 3430 2.064434 TTGTTTCACATGCTGGACCA 57.936 45.000 0.00 0.00 0.00 4.02
2461 3431 1.608055 TGTTTCACATGCTGGACCAG 58.392 50.000 17.83 17.83 34.12 4.00
2515 3485 2.268167 ATCTCAAGCTCTGCCCTGGC 62.268 60.000 0.00 0.00 42.35 4.85
2556 3526 7.323656 GGTTTGAATTTCTGTGTTCGAACATAG 59.676 37.037 35.79 35.79 44.74 2.23
2582 3552 3.659183 ACTGCCAGATAAGGAGCATTT 57.341 42.857 0.00 0.00 34.16 2.32
2640 3610 4.513198 TTTTGGCCAGTAATGCTACAAC 57.487 40.909 5.11 0.00 0.00 3.32
2705 3785 2.044492 AGTGATTAGGGGACAGTGGAGA 59.956 50.000 0.00 0.00 0.00 3.71
2707 3787 2.043227 GATTAGGGGACAGTGGAGAGG 58.957 57.143 0.00 0.00 0.00 3.69
2714 3794 0.687354 GACAGTGGAGAGGGCAGAAA 59.313 55.000 0.00 0.00 0.00 2.52
2735 3815 3.104843 AGAAGAGAGTGCAGTGTGAAC 57.895 47.619 0.00 0.00 0.00 3.18
2796 3876 6.712095 TCAGACAAAAACACTGAAGCTATCAT 59.288 34.615 0.00 0.00 37.66 2.45
2814 3894 6.424509 GCTATCATTTCAGTTGATCAGGAGAG 59.575 42.308 0.00 0.00 35.50 3.20
2821 3902 0.391661 TTGATCAGGAGAGCAACCGC 60.392 55.000 0.00 0.00 44.52 5.68
2822 3903 1.219124 GATCAGGAGAGCAACCGCA 59.781 57.895 0.00 0.00 42.27 5.69
2823 3904 0.179062 GATCAGGAGAGCAACCGCAT 60.179 55.000 0.00 0.00 42.27 4.73
2824 3905 1.069204 GATCAGGAGAGCAACCGCATA 59.931 52.381 0.00 0.00 42.27 3.14
2825 3906 1.123077 TCAGGAGAGCAACCGCATAT 58.877 50.000 0.00 0.00 42.27 1.78
2826 3907 1.202568 TCAGGAGAGCAACCGCATATG 60.203 52.381 0.00 0.00 42.27 1.78
2827 3908 0.833287 AGGAGAGCAACCGCATATGT 59.167 50.000 4.29 0.00 42.27 2.29
2909 3990 1.994779 GGCAACAAATCGAAAGCATGG 59.005 47.619 0.00 0.00 0.00 3.66
2942 4023 7.291411 AGCGGTTACAGAAAGATCAGTATAT 57.709 36.000 0.00 0.00 29.02 0.86
2972 4053 3.618690 AGAATCACCTGGTTGAGCTAC 57.381 47.619 0.00 0.00 0.00 3.58
3111 4192 6.975197 GCTTACATTCCTTTCATTTTCCTAGC 59.025 38.462 0.00 0.00 0.00 3.42
3233 4314 4.890088 CTGGGTTAGCTTTGTACAGTGTA 58.110 43.478 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 6.452494 TCCATTTGTTTACCGAAGTTTGAA 57.548 33.333 0.00 0.00 0.00 2.69
4 5 6.095720 ACTTCCATTTGTTTACCGAAGTTTGA 59.904 34.615 0.00 0.00 37.29 2.69
6 7 6.459670 ACTTCCATTTGTTTACCGAAGTTT 57.540 33.333 0.00 0.00 37.29 2.66
7 8 6.769341 AGTACTTCCATTTGTTTACCGAAGTT 59.231 34.615 5.67 0.00 40.19 2.66
8 9 6.293698 AGTACTTCCATTTGTTTACCGAAGT 58.706 36.000 0.00 0.00 41.88 3.01
9 10 6.649557 AGAGTACTTCCATTTGTTTACCGAAG 59.350 38.462 0.00 0.00 34.32 3.79
10 11 6.527423 AGAGTACTTCCATTTGTTTACCGAA 58.473 36.000 0.00 0.00 0.00 4.30
11 12 6.014840 AGAGAGTACTTCCATTTGTTTACCGA 60.015 38.462 0.00 0.00 0.00 4.69
12 13 6.164176 AGAGAGTACTTCCATTTGTTTACCG 58.836 40.000 0.00 0.00 0.00 4.02
13 14 6.594547 GGAGAGAGTACTTCCATTTGTTTACC 59.405 42.308 7.14 0.00 0.00 2.85
14 15 6.310711 CGGAGAGAGTACTTCCATTTGTTTAC 59.689 42.308 11.71 0.00 0.00 2.01
15 16 6.014840 ACGGAGAGAGTACTTCCATTTGTTTA 60.015 38.462 11.71 0.00 0.00 2.01
16 17 5.221661 ACGGAGAGAGTACTTCCATTTGTTT 60.222 40.000 11.71 0.00 0.00 2.83
17 18 4.283722 ACGGAGAGAGTACTTCCATTTGTT 59.716 41.667 11.71 0.00 0.00 2.83
18 19 3.833070 ACGGAGAGAGTACTTCCATTTGT 59.167 43.478 11.71 0.17 0.00 2.83
19 20 4.457834 ACGGAGAGAGTACTTCCATTTG 57.542 45.455 11.71 0.00 0.00 2.32
20 21 4.081586 GGAACGGAGAGAGTACTTCCATTT 60.082 45.833 11.71 4.76 0.00 2.32
21 22 3.447944 GGAACGGAGAGAGTACTTCCATT 59.552 47.826 11.71 3.36 0.00 3.16
22 23 3.025262 GGAACGGAGAGAGTACTTCCAT 58.975 50.000 11.71 1.08 0.00 3.41
23 24 2.041350 AGGAACGGAGAGAGTACTTCCA 59.959 50.000 11.71 0.00 0.00 3.53
24 25 2.725637 AGGAACGGAGAGAGTACTTCC 58.274 52.381 0.00 0.00 0.00 3.46
25 26 5.893897 TTTAGGAACGGAGAGAGTACTTC 57.106 43.478 0.00 0.00 0.00 3.01
26 27 8.536340 AATATTTAGGAACGGAGAGAGTACTT 57.464 34.615 0.00 0.00 0.00 2.24
27 28 8.414778 CAAATATTTAGGAACGGAGAGAGTACT 58.585 37.037 0.00 0.00 0.00 2.73
28 29 8.196103 ACAAATATTTAGGAACGGAGAGAGTAC 58.804 37.037 0.00 0.00 0.00 2.73
29 30 8.302515 ACAAATATTTAGGAACGGAGAGAGTA 57.697 34.615 0.00 0.00 0.00 2.59
30 31 7.124448 AGACAAATATTTAGGAACGGAGAGAGT 59.876 37.037 0.00 0.00 0.00 3.24
31 32 7.493367 AGACAAATATTTAGGAACGGAGAGAG 58.507 38.462 0.00 0.00 0.00 3.20
32 33 7.419711 AGACAAATATTTAGGAACGGAGAGA 57.580 36.000 0.00 0.00 0.00 3.10
33 34 8.494016 AAAGACAAATATTTAGGAACGGAGAG 57.506 34.615 0.00 0.00 0.00 3.20
34 35 8.319146 AGAAAGACAAATATTTAGGAACGGAGA 58.681 33.333 0.00 0.00 0.00 3.71
35 36 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
36 37 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
37 38 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
50 51 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
51 52 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
52 53 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
53 54 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
54 55 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
55 56 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
56 57 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
57 58 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
58 59 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
59 60 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
60 61 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
61 62 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
62 63 7.541091 TCGTATGTAGTCACTTGTTGAAATCTC 59.459 37.037 0.00 0.00 35.39 2.75
63 64 7.375834 TCGTATGTAGTCACTTGTTGAAATCT 58.624 34.615 0.00 0.00 35.39 2.40
64 65 7.576750 TCGTATGTAGTCACTTGTTGAAATC 57.423 36.000 0.00 0.00 35.39 2.17
65 66 7.360101 GCTTCGTATGTAGTCACTTGTTGAAAT 60.360 37.037 0.00 0.00 35.39 2.17
66 67 6.073980 GCTTCGTATGTAGTCACTTGTTGAAA 60.074 38.462 0.00 0.00 35.39 2.69
67 68 5.404366 GCTTCGTATGTAGTCACTTGTTGAA 59.596 40.000 0.00 0.00 35.39 2.69
68 69 4.921515 GCTTCGTATGTAGTCACTTGTTGA 59.078 41.667 0.00 0.00 0.00 3.18
69 70 4.684242 TGCTTCGTATGTAGTCACTTGTTG 59.316 41.667 0.00 0.00 0.00 3.33
70 71 4.878439 TGCTTCGTATGTAGTCACTTGTT 58.122 39.130 0.00 0.00 0.00 2.83
71 72 4.514781 TGCTTCGTATGTAGTCACTTGT 57.485 40.909 0.00 0.00 0.00 3.16
72 73 5.161358 TCTTGCTTCGTATGTAGTCACTTG 58.839 41.667 0.00 0.00 0.00 3.16
73 74 5.386958 TCTTGCTTCGTATGTAGTCACTT 57.613 39.130 0.00 0.00 0.00 3.16
74 75 5.125578 TCATCTTGCTTCGTATGTAGTCACT 59.874 40.000 0.00 0.00 0.00 3.41
75 76 5.340803 TCATCTTGCTTCGTATGTAGTCAC 58.659 41.667 0.00 0.00 0.00 3.67
76 77 5.576447 TCATCTTGCTTCGTATGTAGTCA 57.424 39.130 0.00 0.00 0.00 3.41
77 78 6.697455 TCATTCATCTTGCTTCGTATGTAGTC 59.303 38.462 0.00 0.00 0.00 2.59
78 79 6.573434 TCATTCATCTTGCTTCGTATGTAGT 58.427 36.000 0.00 0.00 0.00 2.73
79 80 7.468922 TTCATTCATCTTGCTTCGTATGTAG 57.531 36.000 0.00 0.00 0.00 2.74
80 81 7.928167 AGATTCATTCATCTTGCTTCGTATGTA 59.072 33.333 0.00 0.00 28.19 2.29
81 82 6.765036 AGATTCATTCATCTTGCTTCGTATGT 59.235 34.615 0.00 0.00 28.19 2.29
82 83 7.187244 AGATTCATTCATCTTGCTTCGTATG 57.813 36.000 0.00 0.00 28.19 2.39
83 84 7.928167 TGTAGATTCATTCATCTTGCTTCGTAT 59.072 33.333 0.00 0.00 35.08 3.06
84 85 7.222805 GTGTAGATTCATTCATCTTGCTTCGTA 59.777 37.037 0.00 0.00 35.08 3.43
85 86 6.036517 GTGTAGATTCATTCATCTTGCTTCGT 59.963 38.462 0.00 0.00 35.08 3.85
86 87 6.257411 AGTGTAGATTCATTCATCTTGCTTCG 59.743 38.462 0.00 0.00 35.08 3.79
87 88 7.254727 GGAGTGTAGATTCATTCATCTTGCTTC 60.255 40.741 0.00 0.00 35.08 3.86
88 89 6.541641 GGAGTGTAGATTCATTCATCTTGCTT 59.458 38.462 0.00 0.00 35.08 3.91
89 90 6.054295 GGAGTGTAGATTCATTCATCTTGCT 58.946 40.000 0.00 0.00 35.08 3.91
90 91 5.819379 TGGAGTGTAGATTCATTCATCTTGC 59.181 40.000 0.00 0.00 35.08 4.01
91 92 7.854557 TTGGAGTGTAGATTCATTCATCTTG 57.145 36.000 0.00 0.00 35.08 3.02
92 93 8.868522 TTTTGGAGTGTAGATTCATTCATCTT 57.131 30.769 0.00 0.00 35.08 2.40
96 97 9.685276 ACATATTTTGGAGTGTAGATTCATTCA 57.315 29.630 0.00 0.00 0.00 2.57
98 99 9.911788 AGACATATTTTGGAGTGTAGATTCATT 57.088 29.630 0.00 0.00 0.00 2.57
120 121 9.511272 ACTACCACATACGAATGTATATAGACA 57.489 33.333 2.07 2.07 44.70 3.41
121 122 9.985318 GACTACCACATACGAATGTATATAGAC 57.015 37.037 0.00 0.00 44.70 2.59
122 123 9.170734 GGACTACCACATACGAATGTATATAGA 57.829 37.037 0.00 0.00 44.70 1.98
123 124 8.953313 TGGACTACCACATACGAATGTATATAG 58.047 37.037 0.00 0.00 44.70 1.31
124 125 8.866970 TGGACTACCACATACGAATGTATATA 57.133 34.615 0.00 0.00 44.70 0.86
125 126 7.770366 TGGACTACCACATACGAATGTATAT 57.230 36.000 0.00 0.00 44.70 0.86
144 145 9.354673 TGTCTTTTTAGAGATTTCAAATGGACT 57.645 29.630 0.00 0.00 0.00 3.85
145 146 9.965824 TTGTCTTTTTAGAGATTTCAAATGGAC 57.034 29.630 0.00 0.00 0.00 4.02
162 163 8.520351 CCTCCGTTCCTAAATATTTGTCTTTTT 58.480 33.333 11.05 0.00 0.00 1.94
163 164 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
164 165 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
165 166 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
166 167 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
167 168 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
168 169 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
169 170 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
170 171 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
171 172 5.901276 TGTACTCCCTCCGTTCCTAAATATT 59.099 40.000 0.00 0.00 0.00 1.28
172 173 5.461327 TGTACTCCCTCCGTTCCTAAATAT 58.539 41.667 0.00 0.00 0.00 1.28
173 174 4.870636 TGTACTCCCTCCGTTCCTAAATA 58.129 43.478 0.00 0.00 0.00 1.40
174 175 3.716431 TGTACTCCCTCCGTTCCTAAAT 58.284 45.455 0.00 0.00 0.00 1.40
175 176 3.173953 TGTACTCCCTCCGTTCCTAAA 57.826 47.619 0.00 0.00 0.00 1.85
176 177 2.905415 TGTACTCCCTCCGTTCCTAA 57.095 50.000 0.00 0.00 0.00 2.69
177 178 2.905415 TTGTACTCCCTCCGTTCCTA 57.095 50.000 0.00 0.00 0.00 2.94
178 179 2.019807 TTTGTACTCCCTCCGTTCCT 57.980 50.000 0.00 0.00 0.00 3.36
179 180 4.476628 TTATTTGTACTCCCTCCGTTCC 57.523 45.455 0.00 0.00 0.00 3.62
180 181 6.205270 TGTTTTTATTTGTACTCCCTCCGTTC 59.795 38.462 0.00 0.00 0.00 3.95
181 182 6.063404 TGTTTTTATTTGTACTCCCTCCGTT 58.937 36.000 0.00 0.00 0.00 4.44
182 183 5.623169 TGTTTTTATTTGTACTCCCTCCGT 58.377 37.500 0.00 0.00 0.00 4.69
183 184 6.373216 TCATGTTTTTATTTGTACTCCCTCCG 59.627 38.462 0.00 0.00 0.00 4.63
184 185 7.696992 TCATGTTTTTATTTGTACTCCCTCC 57.303 36.000 0.00 0.00 0.00 4.30
250 256 8.747538 AAAATTAAGATTATTCACTAGCCGGT 57.252 30.769 1.90 0.00 0.00 5.28
251 257 9.665264 GAAAAATTAAGATTATTCACTAGCCGG 57.335 33.333 0.00 0.00 0.00 6.13
337 343 2.875933 TGTCTCGGTCAAGCGAAAATTT 59.124 40.909 5.76 0.00 0.00 1.82
338 344 2.480419 CTGTCTCGGTCAAGCGAAAATT 59.520 45.455 5.76 0.00 0.00 1.82
389 1220 0.651031 CGCTCAGCATCATGTGTCTG 59.349 55.000 0.00 3.63 34.99 3.51
390 1221 3.061093 CGCTCAGCATCATGTGTCT 57.939 52.632 0.00 0.00 0.00 3.41
524 1366 2.672961 TCACATCCCACTCAATCGAC 57.327 50.000 0.00 0.00 0.00 4.20
527 1369 2.646930 TGCATCACATCCCACTCAATC 58.353 47.619 0.00 0.00 0.00 2.67
604 1458 2.820037 GTCGGGTGCAAGCTAGCC 60.820 66.667 12.13 0.00 0.00 3.93
605 1459 3.188786 CGTCGGGTGCAAGCTAGC 61.189 66.667 6.62 6.62 0.00 3.42
627 1481 1.985334 CATTGTAGGTGACGTGCGTA 58.015 50.000 0.00 0.00 0.00 4.42
662 1516 4.370364 GTGTTTGCCACAAGAGAAGAAA 57.630 40.909 0.00 0.00 43.92 2.52
673 1532 2.309501 GGCGCATTGTGTTTGCCAC 61.310 57.895 10.83 0.00 45.06 5.01
709 1568 1.733526 GTTCCGTTGCTTGCCTGTT 59.266 52.632 0.00 0.00 0.00 3.16
711 1570 2.252260 CGTTCCGTTGCTTGCCTG 59.748 61.111 0.00 0.00 0.00 4.85
712 1571 2.951475 TTCCGTTCCGTTGCTTGCCT 62.951 55.000 0.00 0.00 0.00 4.75
713 1572 2.548295 TTCCGTTCCGTTGCTTGCC 61.548 57.895 0.00 0.00 0.00 4.52
715 1574 1.083015 CGTTCCGTTCCGTTGCTTG 60.083 57.895 0.00 0.00 0.00 4.01
716 1575 2.248835 CCGTTCCGTTCCGTTGCTT 61.249 57.895 0.00 0.00 0.00 3.91
718 1577 3.719144 CCCGTTCCGTTCCGTTGC 61.719 66.667 0.00 0.00 0.00 4.17
719 1578 1.562575 CTTCCCGTTCCGTTCCGTTG 61.563 60.000 0.00 0.00 0.00 4.10
720 1579 1.301165 CTTCCCGTTCCGTTCCGTT 60.301 57.895 0.00 0.00 0.00 4.44
721 1580 2.341176 CTTCCCGTTCCGTTCCGT 59.659 61.111 0.00 0.00 0.00 4.69
722 1581 2.433664 CCTTCCCGTTCCGTTCCG 60.434 66.667 0.00 0.00 0.00 4.30
732 1591 0.237498 GCGTGTTTCTTTCCTTCCCG 59.763 55.000 0.00 0.00 0.00 5.14
734 1593 0.385598 GCGCGTGTTTCTTTCCTTCC 60.386 55.000 8.43 0.00 0.00 3.46
735 1594 0.586802 AGCGCGTGTTTCTTTCCTTC 59.413 50.000 8.43 0.00 0.00 3.46
909 1796 4.016706 AACCACCGGCGGAAGGAG 62.017 66.667 35.79 21.23 0.00 3.69
944 1831 0.907230 AAGGAGGAGGAGGAGTGTGC 60.907 60.000 0.00 0.00 0.00 4.57
949 1836 0.105709 GGAGGAAGGAGGAGGAGGAG 60.106 65.000 0.00 0.00 0.00 3.69
950 1837 0.556380 AGGAGGAAGGAGGAGGAGGA 60.556 60.000 0.00 0.00 0.00 3.71
951 1838 0.105709 GAGGAGGAAGGAGGAGGAGG 60.106 65.000 0.00 0.00 0.00 4.30
993 1887 3.234386 GAGGAGTTTTTATGTTGCGTGC 58.766 45.455 0.00 0.00 0.00 5.34
994 1888 3.252215 TGGAGGAGTTTTTATGTTGCGTG 59.748 43.478 0.00 0.00 0.00 5.34
997 1891 3.255642 TGCTGGAGGAGTTTTTATGTTGC 59.744 43.478 0.00 0.00 0.00 4.17
1000 1894 4.327680 GAGTGCTGGAGGAGTTTTTATGT 58.672 43.478 0.00 0.00 0.00 2.29
1013 1907 0.893727 TGTGTAGCTCGAGTGCTGGA 60.894 55.000 15.13 0.00 43.87 3.86
1015 1909 1.063806 GTTGTGTAGCTCGAGTGCTG 58.936 55.000 15.13 0.00 43.87 4.41
1016 1910 0.673985 TGTTGTGTAGCTCGAGTGCT 59.326 50.000 15.13 9.46 46.11 4.40
1017 1911 0.784778 GTGTTGTGTAGCTCGAGTGC 59.215 55.000 15.13 0.56 0.00 4.40
1063 1972 1.528542 CGGGGCGATAGAGAGGTCA 60.529 63.158 0.00 0.00 39.76 4.02
1271 2186 2.413765 GACGAGGAGGATGACGCC 59.586 66.667 0.00 0.00 39.70 5.68
1277 2192 1.524165 CGACGAGGACGAGGAGGAT 60.524 63.158 0.00 0.00 42.66 3.24
1661 2576 4.101448 CGGGAGGTGAAGCCCAGG 62.101 72.222 0.00 0.00 44.94 4.45
1739 2654 4.980805 TTGCAGACGACGGTGGCC 62.981 66.667 0.00 0.00 0.00 5.36
2006 2921 2.484947 GCTGATGATGATCTCCAGCACA 60.485 50.000 23.99 3.80 44.74 4.57
2134 3053 5.157940 TCCCAAGAGTTTCTCAGAATCAG 57.842 43.478 0.00 0.00 32.06 2.90
2163 3082 2.231478 TGTTTCTCTGGACCGTCTGATC 59.769 50.000 0.00 0.00 0.00 2.92
2242 3199 6.885735 ACAGAAAAAGGAAACAAACGAATG 57.114 33.333 0.00 0.00 0.00 2.67
2321 3282 6.915349 TGGTTATTTATTTCAGTTTGACGGG 58.085 36.000 0.00 0.00 0.00 5.28
2377 3338 3.490348 CTGAACCCACCCATATCATTCC 58.510 50.000 0.00 0.00 0.00 3.01
2429 3399 2.734670 GTGAAACAAACTTTACCCGGC 58.265 47.619 0.00 0.00 36.32 6.13
2454 3424 5.590917 TGTCTTCAACAATGGCTGGTCCA 62.591 47.826 0.00 0.00 40.48 4.02
2455 3425 1.541588 GTCTTCAACAATGGCTGGTCC 59.458 52.381 0.00 0.00 0.00 4.46
2456 3426 2.229792 TGTCTTCAACAATGGCTGGTC 58.770 47.619 0.00 0.00 34.03 4.02
2457 3427 2.363306 TGTCTTCAACAATGGCTGGT 57.637 45.000 0.00 0.00 34.03 4.00
2458 3428 3.947910 AATGTCTTCAACAATGGCTGG 57.052 42.857 0.00 0.00 42.37 4.85
2459 3429 6.446781 AGATAATGTCTTCAACAATGGCTG 57.553 37.500 0.00 0.00 42.37 4.85
2460 3430 7.341805 ACTAGATAATGTCTTCAACAATGGCT 58.658 34.615 0.00 0.00 42.37 4.75
2461 3431 7.559590 ACTAGATAATGTCTTCAACAATGGC 57.440 36.000 0.00 0.00 42.37 4.40
2515 3485 3.588955 TCAAACCTGACAGATGTGATCG 58.411 45.455 3.32 0.00 0.00 3.69
2573 3543 8.408601 CAGTAATGCTGTAATTTAAATGCTCCT 58.591 33.333 0.39 0.00 40.27 3.69
2582 3552 7.461182 AAACTGGCAGTAATGCTGTAATTTA 57.539 32.000 22.37 0.00 46.64 1.40
2623 3593 3.343617 TGAAGTTGTAGCATTACTGGCC 58.656 45.455 0.00 0.00 0.00 5.36
2636 3606 6.701400 GGAACTGCATTTTATGTTGAAGTTGT 59.299 34.615 1.13 0.00 0.00 3.32
2640 3610 8.028354 TGTATGGAACTGCATTTTATGTTGAAG 58.972 33.333 0.00 0.00 0.00 3.02
2705 3785 2.551938 GCACTCTCTTCTTTTCTGCCCT 60.552 50.000 0.00 0.00 0.00 5.19
2707 3787 2.483491 CTGCACTCTCTTCTTTTCTGCC 59.517 50.000 0.00 0.00 0.00 4.85
2714 3794 3.133721 AGTTCACACTGCACTCTCTTCTT 59.866 43.478 0.00 0.00 0.00 2.52
2735 3815 3.691609 GGAAAATGGTCCTCTGTTGCTAG 59.308 47.826 0.00 0.00 34.56 3.42
2796 3876 4.067896 GTTGCTCTCCTGATCAACTGAAA 58.932 43.478 0.00 0.00 42.62 2.69
2814 3894 4.221342 CAACATATGACATATGCGGTTGC 58.779 43.478 27.93 0.00 45.05 4.17
2821 3902 8.833493 TCTTGAAAGAGCAACATATGACATATG 58.167 33.333 26.86 26.86 46.26 1.78
2822 3903 8.834465 GTCTTGAAAGAGCAACATATGACATAT 58.166 33.333 10.38 1.87 35.32 1.78
2823 3904 7.823799 TGTCTTGAAAGAGCAACATATGACATA 59.176 33.333 10.38 0.00 35.32 2.29
2824 3905 6.656270 TGTCTTGAAAGAGCAACATATGACAT 59.344 34.615 10.38 0.00 35.32 3.06
2825 3906 5.997129 TGTCTTGAAAGAGCAACATATGACA 59.003 36.000 10.38 0.00 35.32 3.58
2826 3907 6.402983 CCTGTCTTGAAAGAGCAACATATGAC 60.403 42.308 10.38 0.00 35.32 3.06
2827 3908 5.645067 CCTGTCTTGAAAGAGCAACATATGA 59.355 40.000 10.38 0.00 35.32 2.15
2870 3951 2.412455 GCCAAATCATGCATCGAGATCG 60.412 50.000 0.00 0.00 41.45 3.69
2871 3952 2.551032 TGCCAAATCATGCATCGAGATC 59.449 45.455 0.00 0.00 31.31 2.75
2872 3953 2.578786 TGCCAAATCATGCATCGAGAT 58.421 42.857 0.00 0.00 31.31 2.75
2873 3954 2.041251 TGCCAAATCATGCATCGAGA 57.959 45.000 0.00 0.00 31.31 4.04
2909 3990 3.488090 GTAACCGCTCCGCACAGC 61.488 66.667 0.00 0.00 35.90 4.40
2916 3997 3.190874 CTGATCTTTCTGTAACCGCTCC 58.809 50.000 0.00 0.00 0.00 4.70
2917 3998 3.851098 ACTGATCTTTCTGTAACCGCTC 58.149 45.455 0.00 0.00 32.82 5.03
3072 4153 9.686683 AAGGAATGTAAGCAATGATTAGTAGTT 57.313 29.630 0.00 0.00 0.00 2.24
3111 4192 2.354805 GGAGTAGGCCAGTGGTTGTAAG 60.355 54.545 11.74 0.00 0.00 2.34
3177 4258 6.620877 AGGTCCATGTGTACAGATTTCTTA 57.379 37.500 2.09 0.00 0.00 2.10
3178 4259 5.505181 AGGTCCATGTGTACAGATTTCTT 57.495 39.130 2.09 0.00 0.00 2.52
3179 4260 5.394224 CGTAGGTCCATGTGTACAGATTTCT 60.394 44.000 2.09 1.86 0.00 2.52
3233 4314 2.799126 TCCACGTTTGATAGCCCATT 57.201 45.000 0.00 0.00 0.00 3.16
3309 4390 2.066262 TCGTGAAATGTTCTTCTCGGC 58.934 47.619 7.64 0.00 40.75 5.54


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

AutoCloner maintained by Alex Coulton.