Multiple sequence alignment - TraesCS7B01G156300

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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 TraesCS7B01G156300 chr7B 100.000 4806 0 0 1 4806 211371163 211375968 0.000000e+00 8876.0
1 TraesCS7B01G156300 chr7B 95.031 161 7 1 1 160 7284553 7284393 7.980000e-63 252.0
2 TraesCS7B01G156300 chr7B 91.558 154 12 1 2883 3035 155471167 155471320 1.360000e-50 211.0
3 TraesCS7B01G156300 chr7B 89.873 158 14 1 2882 3037 453623444 453623287 8.160000e-48 202.0
4 TraesCS7B01G156300 chr7A 93.981 4220 174 41 187 4353 250214171 250218363 0.000000e+00 6312.0
5 TraesCS7B01G156300 chr7A 93.750 144 7 2 2894 3035 201987013 201987156 1.050000e-51 215.0
6 TraesCS7B01G156300 chr7A 90.506 158 13 1 2882 3037 486930094 486929937 1.750000e-49 207.0
7 TraesCS7B01G156300 chr7A 92.308 39 2 1 4362 4400 250219831 250219868 2.000000e-03 54.7
8 TraesCS7B01G156300 chr7D 94.157 2567 99 13 1881 4402 235375404 235377964 0.000000e+00 3862.0
9 TraesCS7B01G156300 chr7D 95.006 1542 50 14 163 1684 235372696 235374230 0.000000e+00 2396.0
10 TraesCS7B01G156300 chr7D 94.372 231 10 3 1668 1897 235374247 235374475 7.650000e-93 351.0
11 TraesCS7B01G156300 chr7D 82.946 258 34 7 4459 4716 595720577 595720824 1.740000e-54 224.0
12 TraesCS7B01G156300 chr7D 89.873 158 14 1 2882 3037 436961949 436961792 8.160000e-48 202.0
13 TraesCS7B01G156300 chr3A 90.596 638 57 2 1050 1684 697386045 697385408 0.000000e+00 843.0
14 TraesCS7B01G156300 chr3A 89.812 638 62 2 1050 1684 697284885 697284248 0.000000e+00 815.0
15 TraesCS7B01G156300 chr3A 83.848 421 47 15 2210 2609 697283592 697283172 9.760000e-102 381.0
16 TraesCS7B01G156300 chr3A 90.265 226 22 0 3579 3804 697281577 697281352 3.640000e-76 296.0
17 TraesCS7B01G156300 chr3A 80.682 352 44 13 1868 2196 697385187 697384837 7.980000e-63 252.0
18 TraesCS7B01G156300 chr3A 81.226 261 42 4 4437 4691 123334101 123333842 2.270000e-48 204.0
19 TraesCS7B01G156300 chr3A 80.263 228 38 6 2662 2884 697384432 697384207 1.070000e-36 165.0
20 TraesCS7B01G156300 chr3A 76.221 307 51 15 4465 4757 19177613 19177315 5.010000e-30 143.0
21 TraesCS7B01G156300 chr3B 90.694 634 56 2 1054 1684 748464235 748463602 0.000000e+00 841.0
22 TraesCS7B01G156300 chr3B 90.359 612 55 3 1076 1684 748622856 748622246 0.000000e+00 800.0
23 TraesCS7B01G156300 chr3B 78.893 777 90 40 1868 2609 748622025 748621288 4.380000e-125 459.0
24 TraesCS7B01G156300 chr3B 77.493 702 95 33 3129 3804 748619024 748618360 3.540000e-96 363.0
25 TraesCS7B01G156300 chr3B 80.493 487 60 20 2139 2606 748462990 748462520 1.660000e-89 340.0
26 TraesCS7B01G156300 chr3B 82.960 223 37 1 2662 2884 748462498 748462277 2.930000e-47 200.0
27 TraesCS7B01G156300 chr3D 90.523 612 55 2 1076 1684 561451477 561450866 0.000000e+00 806.0
28 TraesCS7B01G156300 chr3D 79.794 777 84 37 1868 2609 561450645 561449907 9.290000e-137 497.0
29 TraesCS7B01G156300 chr3D 77.637 711 110 27 3129 3807 561447886 561447193 2.100000e-103 387.0
30 TraesCS7B01G156300 chr3D 95.000 160 8 0 1 160 554948763 554948604 7.980000e-63 252.0
31 TraesCS7B01G156300 chr3D 94.410 161 8 1 1 160 559109018 559108858 3.710000e-61 246.0
32 TraesCS7B01G156300 chr3D 82.787 122 21 0 2763 2884 561449820 561449699 5.090000e-20 110.0
33 TraesCS7B01G156300 chr4D 82.848 309 42 5 4459 4757 39240936 39240629 2.850000e-67 267.0
34 TraesCS7B01G156300 chr4B 95.652 161 6 1 1 160 59190242 59190402 1.720000e-64 257.0
35 TraesCS7B01G156300 chr4B 95.000 160 8 0 1 160 551074695 551074536 7.980000e-63 252.0
36 TraesCS7B01G156300 chr4B 77.291 251 45 6 4512 4756 540763630 540763386 2.330000e-28 137.0
37 TraesCS7B01G156300 chr6D 94.937 158 8 0 3 160 433355701 433355544 1.030000e-61 248.0
38 TraesCS7B01G156300 chr5D 94.410 161 8 1 1 160 465701746 465701586 3.710000e-61 246.0
39 TraesCS7B01G156300 chr1D 94.375 160 9 0 1 160 12140058 12140217 3.710000e-61 246.0
40 TraesCS7B01G156300 chr1D 94.410 161 7 2 1 160 460986891 460987050 3.710000e-61 246.0
41 TraesCS7B01G156300 chr1D 79.842 253 41 4 4459 4706 324488579 324488332 4.940000e-40 176.0
42 TraesCS7B01G156300 chr1D 82.353 204 31 5 4538 4738 327935101 327934900 6.390000e-39 172.0
43 TraesCS7B01G156300 chr2D 82.397 267 40 4 4437 4697 515573664 515573399 4.840000e-55 226.0
44 TraesCS7B01G156300 chr5B 91.558 154 12 1 2882 3034 98663177 98663330 1.360000e-50 211.0
45 TraesCS7B01G156300 chr5A 91.558 154 10 3 2883 3034 86662019 86662171 4.870000e-50 209.0
46 TraesCS7B01G156300 chr6A 79.237 236 48 1 4461 4695 16533816 16533581 3.850000e-36 163.0
47 TraesCS7B01G156300 chr6A 81.183 186 25 6 4454 4636 31038140 31037962 1.800000e-29 141.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G156300 chr7B 211371163 211375968 4805 False 8876.000000 8876 100.000000 1 4806 1 chr7B.!!$F2 4805
1 TraesCS7B01G156300 chr7A 250214171 250219868 5697 False 3183.350000 6312 93.144500 187 4400 2 chr7A.!!$F2 4213
2 TraesCS7B01G156300 chr7D 235372696 235377964 5268 False 2203.000000 3862 94.511667 163 4402 3 chr7D.!!$F2 4239
3 TraesCS7B01G156300 chr3A 697281352 697284885 3533 True 497.333333 815 87.975000 1050 3804 3 chr3A.!!$R3 2754
4 TraesCS7B01G156300 chr3A 697384207 697386045 1838 True 420.000000 843 83.847000 1050 2884 3 chr3A.!!$R4 1834
5 TraesCS7B01G156300 chr3B 748618360 748622856 4496 True 540.666667 800 82.248333 1076 3804 3 chr3B.!!$R2 2728
6 TraesCS7B01G156300 chr3B 748462277 748464235 1958 True 460.333333 841 84.715667 1054 2884 3 chr3B.!!$R1 1830
7 TraesCS7B01G156300 chr3D 561447193 561451477 4284 True 450.000000 806 82.685250 1076 3807 4 chr3D.!!$R3 2731

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
152 153 0.323957 GAGGCACGGACCCTAACTTT 59.676 55.0 0.00 0.00 31.41 2.66 F
985 1030 0.604578 TCGTCGGAAAATCGAGGGTT 59.395 50.0 7.02 0.00 42.85 4.11 F
2273 3554 0.818296 AGTTCTGGACCTCGATTCCG 59.182 55.0 8.33 4.47 35.70 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1167 1215 0.179089 CAAGGCTGGAGAGATCCACG 60.179 60.0 0.00 0.00 35.63 4.94 R
2844 4185 2.962421 GCTAGCACCTGACTTCTATCCT 59.038 50.0 10.63 0.00 0.00 3.24 R
4220 8004 0.249784 ACGATCAGCATGCTAGGCAG 60.250 55.0 22.19 13.23 43.65 4.85 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
21 22 4.724279 AGGACACAAACCCTAACAAGAT 57.276 40.909 0.00 0.00 0.00 2.40
22 23 5.061721 AGGACACAAACCCTAACAAGATT 57.938 39.130 0.00 0.00 0.00 2.40
23 24 4.827284 AGGACACAAACCCTAACAAGATTG 59.173 41.667 0.00 0.00 0.00 2.67
24 25 4.825085 GGACACAAACCCTAACAAGATTGA 59.175 41.667 0.00 0.00 0.00 2.57
25 26 5.300792 GGACACAAACCCTAACAAGATTGAA 59.699 40.000 0.00 0.00 0.00 2.69
26 27 6.183360 GGACACAAACCCTAACAAGATTGAAA 60.183 38.462 0.00 0.00 0.00 2.69
27 28 7.176589 ACACAAACCCTAACAAGATTGAAAA 57.823 32.000 0.00 0.00 0.00 2.29
28 29 7.616313 ACACAAACCCTAACAAGATTGAAAAA 58.384 30.769 0.00 0.00 0.00 1.94
73 74 2.440980 GCCCTTGCCAGGATCCAC 60.441 66.667 15.82 3.31 44.19 4.02
74 75 2.276740 CCCTTGCCAGGATCCACC 59.723 66.667 15.82 1.73 44.19 4.61
75 76 2.124570 CCTTGCCAGGATCCACCG 60.125 66.667 15.82 1.33 44.19 4.94
76 77 2.825836 CTTGCCAGGATCCACCGC 60.826 66.667 15.82 12.41 44.74 5.68
77 78 4.776322 TTGCCAGGATCCACCGCG 62.776 66.667 15.82 0.00 44.74 6.46
81 82 4.473520 CAGGATCCACCGCGCCTT 62.474 66.667 15.82 0.00 44.74 4.35
82 83 4.162690 AGGATCCACCGCGCCTTC 62.163 66.667 15.82 0.00 44.74 3.46
83 84 4.467084 GGATCCACCGCGCCTTCA 62.467 66.667 6.95 0.00 0.00 3.02
84 85 2.203070 GATCCACCGCGCCTTCAT 60.203 61.111 0.00 0.00 0.00 2.57
85 86 2.514592 ATCCACCGCGCCTTCATG 60.515 61.111 0.00 0.00 0.00 3.07
86 87 4.776322 TCCACCGCGCCTTCATGG 62.776 66.667 0.00 2.51 39.35 3.66
105 106 4.162690 CCTAGGGCCACCGCAGAC 62.163 72.222 6.18 0.00 43.47 3.51
106 107 4.514577 CTAGGGCCACCGCAGACG 62.515 72.222 6.18 0.00 43.47 4.18
147 148 2.439701 CGAGAGGCACGGACCCTA 60.440 66.667 0.00 0.00 31.41 3.53
148 149 2.050350 CGAGAGGCACGGACCCTAA 61.050 63.158 0.00 0.00 31.41 2.69
149 150 1.516423 GAGAGGCACGGACCCTAAC 59.484 63.158 0.00 0.00 31.41 2.34
150 151 0.971447 GAGAGGCACGGACCCTAACT 60.971 60.000 0.00 0.00 31.41 2.24
151 152 0.544595 AGAGGCACGGACCCTAACTT 60.545 55.000 0.00 0.00 31.41 2.66
152 153 0.323957 GAGGCACGGACCCTAACTTT 59.676 55.000 0.00 0.00 31.41 2.66
153 154 0.769247 AGGCACGGACCCTAACTTTT 59.231 50.000 0.00 0.00 0.00 2.27
154 155 1.144298 AGGCACGGACCCTAACTTTTT 59.856 47.619 0.00 0.00 0.00 1.94
340 347 2.072298 GAGCACGTTTTCTCATGAGCT 58.928 47.619 18.36 9.66 32.88 4.09
434 443 8.918202 TTACTCAAATTCCTTTTAGAAGCTCA 57.082 30.769 0.00 0.00 0.00 4.26
467 476 1.139058 GTATCGGGCCTTGATCTGTGT 59.861 52.381 13.29 0.00 0.00 3.72
528 537 0.640262 CATGTCGACGGTGTTCATCG 59.360 55.000 11.62 3.85 37.20 3.84
738 749 7.576098 GCCGATTAATTTCCTCTTTTGTTGGTA 60.576 37.037 0.00 0.00 0.00 3.25
739 750 8.301002 CCGATTAATTTCCTCTTTTGTTGGTAA 58.699 33.333 0.00 0.00 0.00 2.85
740 751 9.341899 CGATTAATTTCCTCTTTTGTTGGTAAG 57.658 33.333 0.00 0.00 0.00 2.34
741 752 9.639601 GATTAATTTCCTCTTTTGTTGGTAAGG 57.360 33.333 0.00 0.00 0.00 2.69
788 805 5.334105 CGAACTGTTCTAGGGTGTTGATTTG 60.334 44.000 17.60 0.00 0.00 2.32
794 811 7.038659 TGTTCTAGGGTGTTGATTTGTTTTTG 58.961 34.615 0.00 0.00 0.00 2.44
795 812 6.155475 TCTAGGGTGTTGATTTGTTTTTGG 57.845 37.500 0.00 0.00 0.00 3.28
847 864 9.496873 AGCAATCAGAATCAAAATCAAAATCAA 57.503 25.926 0.00 0.00 0.00 2.57
894 939 8.574251 TTGCTTCTTTCTGCCATACTAATTAA 57.426 30.769 0.00 0.00 0.00 1.40
944 989 4.787293 TTCCGCGCGCAAGATCGA 62.787 61.111 32.61 11.85 43.02 3.59
985 1030 0.604578 TCGTCGGAAAATCGAGGGTT 59.395 50.000 7.02 0.00 42.85 4.11
1022 1067 3.411351 CAACGTCAAGTCCGCCGG 61.411 66.667 0.00 0.00 0.00 6.13
1038 1083 4.586235 GGTGGTGCTGGTGCCAGT 62.586 66.667 18.32 0.00 45.24 4.00
1039 1084 3.289834 GTGGTGCTGGTGCCAGTG 61.290 66.667 18.32 0.00 45.24 3.66
1043 1088 4.289101 TGCTGGTGCCAGTGCCAT 62.289 61.111 18.32 0.00 45.24 4.40
1045 1090 2.753043 CTGGTGCCAGTGCCATCC 60.753 66.667 9.96 0.00 39.10 3.51
1046 1091 4.365111 TGGTGCCAGTGCCATCCC 62.365 66.667 0.00 0.00 36.33 3.85
1047 1092 4.052518 GGTGCCAGTGCCATCCCT 62.053 66.667 0.00 0.00 36.33 4.20
1048 1093 2.753043 GTGCCAGTGCCATCCCTG 60.753 66.667 0.00 0.00 36.33 4.45
1188 1236 1.148048 GGATCTCTCCAGCCTTGGC 59.852 63.158 2.97 2.97 44.63 4.52
1810 1923 8.846943 AGATGATATGCCAACGTTCATATTAA 57.153 30.769 18.35 12.76 36.38 1.40
2090 3179 4.436584 GCTTCATTCTGAATGTCTTGACGG 60.437 45.833 25.08 11.39 39.87 4.79
2094 3184 4.811555 TTCTGAATGTCTTGACGGTTTG 57.188 40.909 0.00 0.00 0.00 2.93
2273 3554 0.818296 AGTTCTGGACCTCGATTCCG 59.182 55.000 8.33 4.47 35.70 4.30
2287 3568 2.622436 GATTCCGAAGCTGTTACTGCT 58.378 47.619 10.93 10.93 40.24 4.24
2377 3697 6.757897 TTTGTTTGATCTGAACTGAACTGT 57.242 33.333 11.88 0.00 0.00 3.55
2610 3945 7.953158 TCTATGCTTAAGCTAAAGTATGCTG 57.047 36.000 26.90 7.43 42.66 4.41
2635 3970 1.078159 ACCCCAAATTAGTCCAACCCC 59.922 52.381 0.00 0.00 0.00 4.95
2809 4150 9.696917 ACAAATGACTTATTGATTCAAAAGGAC 57.303 29.630 17.68 13.65 0.00 3.85
2844 4185 9.842775 AAACTGCATTCTGAGAATATCATCTAA 57.157 29.630 7.46 0.00 37.28 2.10
2887 4228 3.398318 TCCCTGCCTGTCTAATACTCA 57.602 47.619 0.00 0.00 0.00 3.41
2888 4229 3.719871 TCCCTGCCTGTCTAATACTCAA 58.280 45.455 0.00 0.00 0.00 3.02
2901 4242 8.692710 TGTCTAATACTCAATCCGTTCACTATT 58.307 33.333 0.00 0.00 0.00 1.73
2913 4254 9.490379 AATCCGTTCACTATTATAAGATGTTCC 57.510 33.333 0.00 0.00 0.00 3.62
2976 4320 5.647658 TGTGTTTGTTCACTCATTTCAGTCT 59.352 36.000 0.00 0.00 38.90 3.24
3079 6829 8.129211 GTGTATGGACAATAGCTTATCAAAACC 58.871 37.037 0.00 0.00 37.31 3.27
3086 6836 8.588290 ACAATAGCTTATCAAAACCACCATAA 57.412 30.769 0.00 0.00 0.00 1.90
3101 6851 5.484998 ACCACCATAAAAATTCATGAAGGCT 59.515 36.000 14.54 0.00 0.00 4.58
3243 6993 0.895100 TGGGATTTGTGGAGCTGTGC 60.895 55.000 0.00 0.00 0.00 4.57
3425 7177 7.500227 AGGTCACAACATTATCATCATTACTGG 59.500 37.037 0.00 0.00 0.00 4.00
3450 7202 1.764571 TTCTGCTTACCACCGGCTGT 61.765 55.000 0.00 0.35 0.00 4.40
3469 7221 1.546029 GTCAATTCAGAACCCCCTTGC 59.454 52.381 0.00 0.00 0.00 4.01
3568 7345 5.687285 CAGTTAGAATCACTGTTTGCAAACC 59.313 40.000 33.33 19.02 37.47 3.27
3574 7351 5.806654 ATCACTGTTTGCAAACCCTTAAT 57.193 34.783 33.33 19.60 38.11 1.40
3896 7673 1.283736 GTCGGTTTGTTCGTGTCTGT 58.716 50.000 0.00 0.00 0.00 3.41
4004 7781 9.280174 TGGTTTCTTCTGTGTTTTTACCTATAG 57.720 33.333 0.00 0.00 0.00 1.31
4006 7783 8.780249 GTTTCTTCTGTGTTTTTACCTATAGCA 58.220 33.333 0.00 0.00 0.00 3.49
4007 7784 8.911918 TTCTTCTGTGTTTTTACCTATAGCAA 57.088 30.769 0.00 0.00 0.00 3.91
4019 7796 5.847111 ACCTATAGCAATGTAGTGTCGAA 57.153 39.130 0.00 0.00 0.00 3.71
4048 7825 4.546829 TGCGGAAACAGGACTTATAAGT 57.453 40.909 18.05 18.05 43.16 2.24
4049 7826 5.664294 TGCGGAAACAGGACTTATAAGTA 57.336 39.130 18.03 0.00 39.88 2.24
4050 7827 5.413499 TGCGGAAACAGGACTTATAAGTAC 58.587 41.667 18.73 18.73 39.88 2.73
4066 7843 9.334693 CTTATAAGTACGTAGTTTTCAGTTCGT 57.665 33.333 20.15 0.00 37.78 3.85
4088 7865 5.236478 CGTGTCTCTTCAGGTTTAATGTTGT 59.764 40.000 0.00 0.00 0.00 3.32
4090 7867 5.465390 TGTCTCTTCAGGTTTAATGTTGTCG 59.535 40.000 0.00 0.00 0.00 4.35
4117 7894 2.805194 ACTACAGAACTTAGGGCGTCT 58.195 47.619 0.00 0.00 0.00 4.18
4220 8004 1.728490 CGCAGCCCTCTTATTTGCCC 61.728 60.000 0.00 0.00 0.00 5.36
4235 8019 2.913501 CCCTGCCTAGCATGCTGA 59.086 61.111 30.42 12.92 38.13 4.26
4238 8022 0.949588 CCTGCCTAGCATGCTGATCG 60.950 60.000 30.42 14.60 38.13 3.69
4239 8023 0.249784 CTGCCTAGCATGCTGATCGT 60.250 55.000 30.42 5.16 38.13 3.73
4240 8024 0.249615 TGCCTAGCATGCTGATCGTC 60.250 55.000 30.42 12.79 31.71 4.20
4349 8146 3.261677 GGTACACCCCAGCCCCAA 61.262 66.667 0.00 0.00 0.00 4.12
4359 9601 1.251251 CCAGCCCCAAGAGAAAACAG 58.749 55.000 0.00 0.00 0.00 3.16
4402 9657 6.507023 ACACTTGCTAAATCCTTCTTTGTTG 58.493 36.000 0.00 0.00 0.00 3.33
4403 9658 6.096846 ACACTTGCTAAATCCTTCTTTGTTGT 59.903 34.615 0.00 0.00 0.00 3.32
4404 9659 6.418819 CACTTGCTAAATCCTTCTTTGTTGTG 59.581 38.462 0.00 0.00 0.00 3.33
4405 9660 5.452078 TGCTAAATCCTTCTTTGTTGTGG 57.548 39.130 0.00 0.00 0.00 4.17
4406 9661 5.136828 TGCTAAATCCTTCTTTGTTGTGGA 58.863 37.500 0.00 0.00 0.00 4.02
4407 9662 5.596361 TGCTAAATCCTTCTTTGTTGTGGAA 59.404 36.000 0.00 0.00 0.00 3.53
4408 9663 6.097554 TGCTAAATCCTTCTTTGTTGTGGAAA 59.902 34.615 0.00 0.00 0.00 3.13
4409 9664 6.642540 GCTAAATCCTTCTTTGTTGTGGAAAG 59.357 38.462 0.00 0.00 0.00 2.62
4410 9665 6.544928 AAATCCTTCTTTGTTGTGGAAAGT 57.455 33.333 0.00 0.00 33.04 2.66
4411 9666 6.544928 AATCCTTCTTTGTTGTGGAAAGTT 57.455 33.333 0.00 0.00 33.04 2.66
4412 9667 5.576447 TCCTTCTTTGTTGTGGAAAGTTC 57.424 39.130 0.00 0.00 33.04 3.01
4424 9679 4.748548 TGTGGAAAGTTCCTTATGGACCAC 60.749 45.833 19.69 19.69 46.42 4.16
4425 9680 4.028993 GGAAAGTTCCTTATGGACCACA 57.971 45.455 0.00 0.00 43.06 4.17
4426 9681 4.010349 GGAAAGTTCCTTATGGACCACAG 58.990 47.826 0.00 0.00 43.06 3.66
4427 9682 4.506802 GGAAAGTTCCTTATGGACCACAGT 60.507 45.833 0.00 0.00 43.06 3.55
4428 9683 4.724279 AAGTTCCTTATGGACCACAGTT 57.276 40.909 0.00 0.00 43.06 3.16
4429 9684 4.021102 AGTTCCTTATGGACCACAGTTG 57.979 45.455 0.00 0.00 43.06 3.16
4430 9685 2.488153 GTTCCTTATGGACCACAGTTGC 59.512 50.000 0.00 0.00 43.06 4.17
4431 9686 1.985159 TCCTTATGGACCACAGTTGCT 59.015 47.619 0.00 0.00 37.46 3.91
4432 9687 3.178046 TCCTTATGGACCACAGTTGCTA 58.822 45.455 0.00 0.00 37.46 3.49
4433 9688 3.585289 TCCTTATGGACCACAGTTGCTAA 59.415 43.478 0.00 0.00 37.46 3.09
4434 9689 4.042311 TCCTTATGGACCACAGTTGCTAAA 59.958 41.667 0.00 0.00 37.46 1.85
4435 9690 4.764823 CCTTATGGACCACAGTTGCTAAAA 59.235 41.667 0.00 0.00 34.57 1.52
4436 9691 5.418840 CCTTATGGACCACAGTTGCTAAAAT 59.581 40.000 0.00 0.00 34.57 1.82
4437 9692 6.601613 CCTTATGGACCACAGTTGCTAAAATA 59.398 38.462 0.00 0.00 34.57 1.40
4438 9693 7.285401 CCTTATGGACCACAGTTGCTAAAATAT 59.715 37.037 0.00 0.00 34.57 1.28
4439 9694 9.337396 CTTATGGACCACAGTTGCTAAAATATA 57.663 33.333 0.00 0.00 0.00 0.86
4440 9695 6.995511 TGGACCACAGTTGCTAAAATATAC 57.004 37.500 0.00 0.00 0.00 1.47
4441 9696 5.883673 TGGACCACAGTTGCTAAAATATACC 59.116 40.000 0.00 0.00 0.00 2.73
4442 9697 6.120220 GGACCACAGTTGCTAAAATATACCT 58.880 40.000 0.00 0.00 0.00 3.08
4443 9698 6.038271 GGACCACAGTTGCTAAAATATACCTG 59.962 42.308 0.00 0.00 0.00 4.00
4444 9699 5.885912 ACCACAGTTGCTAAAATATACCTGG 59.114 40.000 0.00 0.00 0.00 4.45
4445 9700 5.221048 CCACAGTTGCTAAAATATACCTGGC 60.221 44.000 0.00 0.00 0.00 4.85
4446 9701 4.887655 ACAGTTGCTAAAATATACCTGGCC 59.112 41.667 0.00 0.00 0.00 5.36
4447 9702 4.887071 CAGTTGCTAAAATATACCTGGCCA 59.113 41.667 4.71 4.71 0.00 5.36
4448 9703 4.887655 AGTTGCTAAAATATACCTGGCCAC 59.112 41.667 0.00 0.00 0.00 5.01
4449 9704 4.511786 TGCTAAAATATACCTGGCCACA 57.488 40.909 0.00 0.00 0.00 4.17
4450 9705 5.060427 TGCTAAAATATACCTGGCCACAT 57.940 39.130 0.00 0.00 0.00 3.21
4451 9706 4.826733 TGCTAAAATATACCTGGCCACATG 59.173 41.667 0.00 0.00 0.00 3.21
4452 9707 4.827284 GCTAAAATATACCTGGCCACATGT 59.173 41.667 0.00 1.57 0.00 3.21
4453 9708 5.048713 GCTAAAATATACCTGGCCACATGTC 60.049 44.000 0.00 0.00 0.00 3.06
4454 9709 2.839486 ATATACCTGGCCACATGTCG 57.161 50.000 0.00 0.00 0.00 4.35
4455 9710 0.756294 TATACCTGGCCACATGTCGG 59.244 55.000 0.00 2.29 0.00 4.79
4456 9711 1.983119 ATACCTGGCCACATGTCGGG 61.983 60.000 0.00 1.37 0.00 5.14
4483 9738 2.799176 GGCCTACCAAAGCCTGATG 58.201 57.895 0.00 0.00 46.14 3.07
4484 9739 1.387295 GGCCTACCAAAGCCTGATGC 61.387 60.000 0.00 0.00 46.14 3.91
4485 9740 0.680921 GCCTACCAAAGCCTGATGCA 60.681 55.000 0.00 0.00 44.83 3.96
4486 9741 1.838112 CCTACCAAAGCCTGATGCAA 58.162 50.000 0.00 0.00 44.83 4.08
4487 9742 2.170166 CCTACCAAAGCCTGATGCAAA 58.830 47.619 0.00 0.00 44.83 3.68
4488 9743 2.562298 CCTACCAAAGCCTGATGCAAAA 59.438 45.455 0.00 0.00 44.83 2.44
4489 9744 3.006752 CCTACCAAAGCCTGATGCAAAAA 59.993 43.478 0.00 0.00 44.83 1.94
4536 9791 2.278026 GCTGTCGGGCCTAAAAATTG 57.722 50.000 0.84 0.00 0.00 2.32
4537 9792 1.135112 GCTGTCGGGCCTAAAAATTGG 60.135 52.381 0.84 0.00 0.00 3.16
4538 9793 1.476488 CTGTCGGGCCTAAAAATTGGG 59.524 52.381 0.84 0.00 0.00 4.12
4545 9800 0.459899 CCTAAAAATTGGGCCCGAGC 59.540 55.000 19.13 0.00 38.76 5.03
4555 9810 4.321966 GCCCGAGCCTAGCCCATC 62.322 72.222 0.00 0.00 0.00 3.51
4556 9811 2.844362 CCCGAGCCTAGCCCATCA 60.844 66.667 0.00 0.00 0.00 3.07
4557 9812 2.423446 CCGAGCCTAGCCCATCAC 59.577 66.667 0.00 0.00 0.00 3.06
4558 9813 2.028190 CGAGCCTAGCCCATCACG 59.972 66.667 0.00 0.00 0.00 4.35
4559 9814 2.280457 GAGCCTAGCCCATCACGC 60.280 66.667 0.00 0.00 0.00 5.34
4560 9815 2.765807 AGCCTAGCCCATCACGCT 60.766 61.111 0.00 0.00 40.45 5.07
4561 9816 1.457643 AGCCTAGCCCATCACGCTA 60.458 57.895 0.00 0.00 37.79 4.26
4562 9817 1.048724 AGCCTAGCCCATCACGCTAA 61.049 55.000 0.00 0.00 38.32 3.09
4563 9818 0.179056 GCCTAGCCCATCACGCTAAA 60.179 55.000 0.00 0.00 38.32 1.85
4564 9819 1.745827 GCCTAGCCCATCACGCTAAAA 60.746 52.381 0.00 0.00 38.32 1.52
4565 9820 2.213499 CCTAGCCCATCACGCTAAAAG 58.787 52.381 0.00 0.00 38.32 2.27
4566 9821 1.599542 CTAGCCCATCACGCTAAAAGC 59.400 52.381 0.00 0.00 38.32 3.51
4567 9822 0.035056 AGCCCATCACGCTAAAAGCT 60.035 50.000 0.00 0.00 39.60 3.74
4568 9823 0.378610 GCCCATCACGCTAAAAGCTC 59.621 55.000 0.00 0.00 39.60 4.09
4569 9824 0.652592 CCCATCACGCTAAAAGCTCG 59.347 55.000 0.00 0.00 39.60 5.03
4570 9825 0.026803 CCATCACGCTAAAAGCTCGC 59.973 55.000 0.00 0.00 39.60 5.03
4571 9826 0.026803 CATCACGCTAAAAGCTCGCC 59.973 55.000 0.00 0.00 39.60 5.54
4572 9827 0.391130 ATCACGCTAAAAGCTCGCCA 60.391 50.000 0.00 0.00 39.60 5.69
4573 9828 0.601576 TCACGCTAAAAGCTCGCCAA 60.602 50.000 0.00 0.00 39.60 4.52
4574 9829 0.179215 CACGCTAAAAGCTCGCCAAG 60.179 55.000 0.00 0.00 39.60 3.61
4604 9859 2.987125 GGCTGGGCCTCTTCGTTA 59.013 61.111 4.53 0.00 46.69 3.18
4605 9860 1.298667 GGCTGGGCCTCTTCGTTAA 59.701 57.895 4.53 0.00 46.69 2.01
4606 9861 1.025113 GGCTGGGCCTCTTCGTTAAC 61.025 60.000 4.53 0.00 46.69 2.01
4607 9862 1.359459 GCTGGGCCTCTTCGTTAACG 61.359 60.000 21.85 21.85 41.45 3.18
4608 9863 1.359459 CTGGGCCTCTTCGTTAACGC 61.359 60.000 22.96 7.70 39.60 4.84
4609 9864 2.450345 GGGCCTCTTCGTTAACGCG 61.450 63.158 22.96 15.60 39.60 6.01
4610 9865 1.735559 GGCCTCTTCGTTAACGCGT 60.736 57.895 22.96 5.58 39.60 6.01
4611 9866 1.414897 GCCTCTTCGTTAACGCGTG 59.585 57.895 22.96 15.36 39.60 5.34
4612 9867 1.005294 GCCTCTTCGTTAACGCGTGA 61.005 55.000 22.96 17.34 39.60 4.35
4613 9868 1.411394 CCTCTTCGTTAACGCGTGAA 58.589 50.000 22.96 9.45 39.60 3.18
4614 9869 1.990563 CCTCTTCGTTAACGCGTGAAT 59.009 47.619 22.96 0.00 39.60 2.57
4615 9870 3.173599 CCTCTTCGTTAACGCGTGAATA 58.826 45.455 22.96 0.56 39.60 1.75
4616 9871 3.001365 CCTCTTCGTTAACGCGTGAATAC 60.001 47.826 22.96 7.88 39.60 1.89
4627 9882 2.380081 GTGAATACGACGGGCTTGG 58.620 57.895 0.00 0.00 0.00 3.61
4628 9883 1.087771 GTGAATACGACGGGCTTGGG 61.088 60.000 0.00 0.00 0.00 4.12
4629 9884 2.124860 AATACGACGGGCTTGGGC 60.125 61.111 0.00 0.00 37.82 5.36
4656 9911 4.617875 CCGTCGGGCTTGAAATCT 57.382 55.556 2.34 0.00 0.00 2.40
4657 9912 3.752796 CCGTCGGGCTTGAAATCTA 57.247 52.632 2.34 0.00 0.00 1.98
4658 9913 2.240493 CCGTCGGGCTTGAAATCTAT 57.760 50.000 2.34 0.00 0.00 1.98
4659 9914 1.867233 CCGTCGGGCTTGAAATCTATG 59.133 52.381 2.34 0.00 0.00 2.23
4660 9915 1.261619 CGTCGGGCTTGAAATCTATGC 59.738 52.381 0.00 0.00 0.00 3.14
4661 9916 1.604278 GTCGGGCTTGAAATCTATGCC 59.396 52.381 0.00 0.00 42.56 4.40
4662 9917 1.490490 TCGGGCTTGAAATCTATGCCT 59.510 47.619 0.00 0.00 42.84 4.75
4663 9918 1.605710 CGGGCTTGAAATCTATGCCTG 59.394 52.381 0.00 0.00 42.84 4.85
4664 9919 2.936202 GGGCTTGAAATCTATGCCTGA 58.064 47.619 0.00 0.00 42.84 3.86
4665 9920 2.883386 GGGCTTGAAATCTATGCCTGAG 59.117 50.000 0.00 0.00 42.84 3.35
4666 9921 2.292845 GGCTTGAAATCTATGCCTGAGC 59.707 50.000 0.00 0.00 40.36 4.26
4667 9922 2.292845 GCTTGAAATCTATGCCTGAGCC 59.707 50.000 0.00 0.00 38.69 4.70
4668 9923 2.645838 TGAAATCTATGCCTGAGCCC 57.354 50.000 0.00 0.00 38.69 5.19
4669 9924 1.202687 TGAAATCTATGCCTGAGCCCG 60.203 52.381 0.00 0.00 38.69 6.13
4670 9925 0.109342 AAATCTATGCCTGAGCCCGG 59.891 55.000 0.00 0.00 38.69 5.73
4690 9945 4.003788 CGTGGACAAGGTCGGGCT 62.004 66.667 0.00 0.00 32.65 5.19
4691 9946 2.358737 GTGGACAAGGTCGGGCTG 60.359 66.667 0.00 0.00 32.65 4.85
4692 9947 3.636231 TGGACAAGGTCGGGCTGG 61.636 66.667 0.00 0.00 32.65 4.85
4693 9948 4.410400 GGACAAGGTCGGGCTGGG 62.410 72.222 0.00 0.00 32.65 4.45
4708 9963 4.678743 GGGCTGGGTCGGGCTTTT 62.679 66.667 0.50 0.00 35.52 2.27
4709 9964 2.600470 GGCTGGGTCGGGCTTTTT 60.600 61.111 0.00 0.00 32.26 1.94
4710 9965 2.636412 GGCTGGGTCGGGCTTTTTC 61.636 63.158 0.00 0.00 32.26 2.29
4711 9966 2.978018 GCTGGGTCGGGCTTTTTCG 61.978 63.158 0.00 0.00 0.00 3.46
4712 9967 2.281900 TGGGTCGGGCTTTTTCGG 60.282 61.111 0.00 0.00 0.00 4.30
4713 9968 3.060000 GGGTCGGGCTTTTTCGGG 61.060 66.667 0.00 0.00 0.00 5.14
4714 9969 3.744719 GGTCGGGCTTTTTCGGGC 61.745 66.667 0.00 0.00 0.00 6.13
4715 9970 3.744719 GTCGGGCTTTTTCGGGCC 61.745 66.667 0.00 0.00 46.89 5.80
4716 9971 3.961414 TCGGGCTTTTTCGGGCCT 61.961 61.111 0.84 0.00 46.80 5.19
4717 9972 3.747976 CGGGCTTTTTCGGGCCTG 61.748 66.667 4.71 4.71 46.80 4.85
4718 9973 3.381983 GGGCTTTTTCGGGCCTGG 61.382 66.667 12.87 0.00 46.80 4.45
4719 9974 2.600470 GGCTTTTTCGGGCCTGGT 60.600 61.111 12.87 0.00 44.48 4.00
4720 9975 2.636412 GGCTTTTTCGGGCCTGGTC 61.636 63.158 12.87 0.00 44.48 4.02
4721 9976 2.978018 GCTTTTTCGGGCCTGGTCG 61.978 63.158 12.87 1.48 0.00 4.79
4722 9977 2.281900 TTTTTCGGGCCTGGTCGG 60.282 61.111 12.87 0.00 0.00 4.79
4723 9978 3.853698 TTTTTCGGGCCTGGTCGGG 62.854 63.158 12.87 0.00 0.00 5.14
4747 10002 4.828296 GGGCCAGGCTGTCCATGG 62.828 72.222 17.48 4.97 35.23 3.66
4753 10008 4.052518 GGCTGTCCATGGCCAGGT 62.053 66.667 23.57 0.00 46.84 4.00
4754 10009 2.439156 GCTGTCCATGGCCAGGTC 60.439 66.667 23.57 13.10 0.00 3.85
4755 10010 2.976490 GCTGTCCATGGCCAGGTCT 61.976 63.158 23.57 0.00 0.00 3.85
4756 10011 1.626356 GCTGTCCATGGCCAGGTCTA 61.626 60.000 23.57 0.00 0.00 2.59
4757 10012 1.135094 CTGTCCATGGCCAGGTCTAT 58.865 55.000 15.23 0.00 0.00 1.98
4758 10013 0.839277 TGTCCATGGCCAGGTCTATG 59.161 55.000 17.55 5.65 0.00 2.23
4759 10014 0.536006 GTCCATGGCCAGGTCTATGC 60.536 60.000 17.55 0.00 0.00 3.14
4760 10015 0.987613 TCCATGGCCAGGTCTATGCA 60.988 55.000 17.55 0.00 0.00 3.96
4761 10016 0.536687 CCATGGCCAGGTCTATGCAG 60.537 60.000 17.55 0.00 0.00 4.41
4762 10017 1.150081 ATGGCCAGGTCTATGCAGC 59.850 57.895 13.05 0.00 0.00 5.25
4763 10018 1.351080 ATGGCCAGGTCTATGCAGCT 61.351 55.000 13.05 0.00 0.00 4.24
4764 10019 0.690744 TGGCCAGGTCTATGCAGCTA 60.691 55.000 0.00 0.00 0.00 3.32
4765 10020 0.469917 GGCCAGGTCTATGCAGCTAA 59.530 55.000 0.00 0.00 0.00 3.09
4766 10021 1.134098 GGCCAGGTCTATGCAGCTAAA 60.134 52.381 0.00 0.00 0.00 1.85
4767 10022 2.487986 GGCCAGGTCTATGCAGCTAAAT 60.488 50.000 0.00 0.00 0.00 1.40
4768 10023 2.810852 GCCAGGTCTATGCAGCTAAATC 59.189 50.000 0.00 0.00 0.00 2.17
4769 10024 3.406764 CCAGGTCTATGCAGCTAAATCC 58.593 50.000 0.00 0.00 0.00 3.01
4770 10025 3.072184 CCAGGTCTATGCAGCTAAATCCT 59.928 47.826 0.00 0.00 0.00 3.24
4771 10026 4.445448 CCAGGTCTATGCAGCTAAATCCTT 60.445 45.833 0.00 0.00 0.00 3.36
4772 10027 4.754114 CAGGTCTATGCAGCTAAATCCTTC 59.246 45.833 0.00 0.00 0.00 3.46
4773 10028 4.068599 GGTCTATGCAGCTAAATCCTTCC 58.931 47.826 0.00 0.00 0.00 3.46
4774 10029 4.202409 GGTCTATGCAGCTAAATCCTTCCT 60.202 45.833 0.00 0.00 0.00 3.36
4775 10030 5.372373 GTCTATGCAGCTAAATCCTTCCTT 58.628 41.667 0.00 0.00 0.00 3.36
4776 10031 6.464465 GGTCTATGCAGCTAAATCCTTCCTTA 60.464 42.308 0.00 0.00 0.00 2.69
4777 10032 7.164803 GTCTATGCAGCTAAATCCTTCCTTAT 58.835 38.462 0.00 0.00 0.00 1.73
4778 10033 7.663493 GTCTATGCAGCTAAATCCTTCCTTATT 59.337 37.037 0.00 0.00 0.00 1.40
4779 10034 6.890979 ATGCAGCTAAATCCTTCCTTATTC 57.109 37.500 0.00 0.00 0.00 1.75
4780 10035 6.006275 TGCAGCTAAATCCTTCCTTATTCT 57.994 37.500 0.00 0.00 0.00 2.40
4781 10036 6.058183 TGCAGCTAAATCCTTCCTTATTCTC 58.942 40.000 0.00 0.00 0.00 2.87
4782 10037 6.126652 TGCAGCTAAATCCTTCCTTATTCTCT 60.127 38.462 0.00 0.00 0.00 3.10
4783 10038 6.770303 GCAGCTAAATCCTTCCTTATTCTCTT 59.230 38.462 0.00 0.00 0.00 2.85
4784 10039 7.284261 GCAGCTAAATCCTTCCTTATTCTCTTT 59.716 37.037 0.00 0.00 0.00 2.52
4785 10040 9.183368 CAGCTAAATCCTTCCTTATTCTCTTTT 57.817 33.333 0.00 0.00 0.00 2.27
4786 10041 9.402320 AGCTAAATCCTTCCTTATTCTCTTTTC 57.598 33.333 0.00 0.00 0.00 2.29
4787 10042 9.402320 GCTAAATCCTTCCTTATTCTCTTTTCT 57.598 33.333 0.00 0.00 0.00 2.52
4792 10047 8.996651 TCCTTCCTTATTCTCTTTTCTTTTGT 57.003 30.769 0.00 0.00 0.00 2.83
4793 10048 8.850156 TCCTTCCTTATTCTCTTTTCTTTTGTG 58.150 33.333 0.00 0.00 0.00 3.33
4794 10049 8.633561 CCTTCCTTATTCTCTTTTCTTTTGTGT 58.366 33.333 0.00 0.00 0.00 3.72
4795 10050 9.670719 CTTCCTTATTCTCTTTTCTTTTGTGTC 57.329 33.333 0.00 0.00 0.00 3.67
4796 10051 8.980481 TCCTTATTCTCTTTTCTTTTGTGTCT 57.020 30.769 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.724279 ATCTTGTTAGGGTTTGTGTCCT 57.276 40.909 0.00 0.00 37.18 3.85
1 2 4.825085 TCAATCTTGTTAGGGTTTGTGTCC 59.175 41.667 0.00 0.00 0.00 4.02
2 3 6.385649 TTCAATCTTGTTAGGGTTTGTGTC 57.614 37.500 0.00 0.00 0.00 3.67
3 4 6.783708 TTTCAATCTTGTTAGGGTTTGTGT 57.216 33.333 0.00 0.00 0.00 3.72
56 57 2.440980 GTGGATCCTGGCAAGGGC 60.441 66.667 14.23 0.00 44.62 5.19
57 58 2.276740 GGTGGATCCTGGCAAGGG 59.723 66.667 14.23 0.00 44.62 3.95
58 59 2.124570 CGGTGGATCCTGGCAAGG 60.125 66.667 14.23 0.00 46.06 3.61
59 60 2.825836 GCGGTGGATCCTGGCAAG 60.826 66.667 14.23 0.00 0.00 4.01
60 61 4.776322 CGCGGTGGATCCTGGCAA 62.776 66.667 14.23 0.00 0.00 4.52
64 65 4.473520 AAGGCGCGGTGGATCCTG 62.474 66.667 14.23 4.04 0.00 3.86
65 66 4.162690 GAAGGCGCGGTGGATCCT 62.163 66.667 14.23 0.51 0.00 3.24
66 67 3.757248 ATGAAGGCGCGGTGGATCC 62.757 63.158 8.83 4.20 0.00 3.36
67 68 2.203070 ATGAAGGCGCGGTGGATC 60.203 61.111 8.83 0.00 0.00 3.36
68 69 2.514592 CATGAAGGCGCGGTGGAT 60.515 61.111 8.83 0.00 0.00 3.41
69 70 4.776322 CCATGAAGGCGCGGTGGA 62.776 66.667 8.83 0.00 31.59 4.02
88 89 4.162690 GTCTGCGGTGGCCCTAGG 62.163 72.222 0.06 0.06 38.85 3.02
89 90 4.514577 CGTCTGCGGTGGCCCTAG 62.515 72.222 0.00 0.00 38.85 3.02
100 101 4.803426 CAGGTCCGCCTCGTCTGC 62.803 72.222 0.00 0.00 44.97 4.26
101 102 4.803426 GCAGGTCCGCCTCGTCTG 62.803 72.222 0.00 0.00 44.97 3.51
130 131 2.050350 TTAGGGTCCGTGCCTCTCG 61.050 63.158 0.00 0.00 0.00 4.04
131 132 0.971447 AGTTAGGGTCCGTGCCTCTC 60.971 60.000 0.00 0.00 0.00 3.20
132 133 0.544595 AAGTTAGGGTCCGTGCCTCT 60.545 55.000 0.00 0.00 0.00 3.69
133 134 0.323957 AAAGTTAGGGTCCGTGCCTC 59.676 55.000 0.00 0.00 0.00 4.70
134 135 0.769247 AAAAGTTAGGGTCCGTGCCT 59.231 50.000 0.00 0.00 0.00 4.75
135 136 1.612676 AAAAAGTTAGGGTCCGTGCC 58.387 50.000 0.00 0.00 0.00 5.01
253 254 7.664731 TGGGCAAATAACAAATCAACATTCATT 59.335 29.630 0.00 0.00 0.00 2.57
340 347 6.351711 CATGAGGATGGAGTTATCTTTGTCA 58.648 40.000 0.00 0.00 0.00 3.58
434 443 5.445964 AGGCCCGATACTAATTCAATTTGT 58.554 37.500 0.00 2.70 33.10 2.83
467 476 3.266510 GTGCACCATCACCTGAATCTA 57.733 47.619 5.22 0.00 0.00 1.98
528 537 7.875554 AGAGGAGAACTTTCTTTACAAGATGAC 59.124 37.037 0.00 0.00 37.73 3.06
549 558 3.637229 GTGACGATGAATAAGGGAGAGGA 59.363 47.826 0.00 0.00 0.00 3.71
595 604 1.057851 AACGAGTGGGAGTGGGGAAA 61.058 55.000 0.00 0.00 0.00 3.13
738 749 2.986728 TCAAGCTAGGGTTTCCTTCCTT 59.013 45.455 0.00 0.00 41.56 3.36
739 750 2.306219 GTCAAGCTAGGGTTTCCTTCCT 59.694 50.000 0.00 0.00 41.56 3.36
740 751 2.712709 GTCAAGCTAGGGTTTCCTTCC 58.287 52.381 0.00 0.00 41.56 3.46
741 752 2.347731 CGTCAAGCTAGGGTTTCCTTC 58.652 52.381 0.00 0.00 41.56 3.46
795 812 4.041840 GCCACAGCAAGGAAAGAATCCC 62.042 54.545 0.00 0.00 44.00 3.85
894 939 3.721087 AATCGGACCAAGGAACAGAAT 57.279 42.857 0.00 0.00 0.00 2.40
958 1003 3.066342 TCGATTTTCCGACGAGATTAGCT 59.934 43.478 0.00 0.00 33.14 3.32
985 1030 2.291475 TGGGCATATTGGCTTCAGTTGA 60.291 45.455 0.94 0.00 43.20 3.18
997 1042 2.365582 GGACTTGACGTTGGGCATATT 58.634 47.619 0.00 0.00 0.00 1.28
1029 1074 4.365111 GGGATGGCACTGGCACCA 62.365 66.667 19.08 0.00 41.84 4.17
1074 1122 4.577677 TGCAGCTTGGCGAACCCA 62.578 61.111 0.00 0.00 43.51 4.51
1167 1215 0.179089 CAAGGCTGGAGAGATCCACG 60.179 60.000 0.00 0.00 35.63 4.94
1323 1371 1.294659 GGTCCTGCGAGTCAAGCTTG 61.295 60.000 20.81 20.81 35.28 4.01
1827 1940 5.067674 TCCCGTAACAGTACATTTACGCTAT 59.932 40.000 23.49 0.00 45.90 2.97
1830 1944 3.510719 TCCCGTAACAGTACATTTACGC 58.489 45.455 23.49 0.96 45.90 4.42
2090 3179 9.587772 TTATCTCTAGACACTAAGAATGCAAAC 57.412 33.333 0.00 0.00 0.00 2.93
2287 3568 7.106439 TGGACAAAGCTGAAATAAACAGAAA 57.894 32.000 0.00 0.00 37.54 2.52
2610 3945 5.595542 GGGTTGGACTAATTTGGGGTAATAC 59.404 44.000 0.00 0.00 0.00 1.89
2635 3970 4.818546 AGATCCAGTTGTTTCACACAAGAG 59.181 41.667 0.00 0.00 46.49 2.85
2809 4150 7.615582 TCTCAGAATGCAGTTTAGGTTATTG 57.384 36.000 0.00 0.00 34.76 1.90
2844 4185 2.962421 GCTAGCACCTGACTTCTATCCT 59.038 50.000 10.63 0.00 0.00 3.24
2887 4228 9.490379 GGAACATCTTATAATAGTGAACGGATT 57.510 33.333 0.00 0.00 0.00 3.01
2888 4229 8.647796 TGGAACATCTTATAATAGTGAACGGAT 58.352 33.333 0.00 0.00 0.00 4.18
2937 4281 3.619233 AACACACTAAAATGCGTCCAC 57.381 42.857 0.00 0.00 0.00 4.02
2976 4320 8.490311 TGGATATTTCAACATGGACTACATACA 58.510 33.333 0.00 0.00 37.84 2.29
3060 4404 6.509418 TGGTGGTTTTGATAAGCTATTGTC 57.491 37.500 0.00 0.00 0.00 3.18
3079 6829 6.183360 GCAAGCCTTCATGAATTTTTATGGTG 60.183 38.462 8.96 1.87 0.00 4.17
3086 6836 4.612264 ACTGCAAGCCTTCATGAATTTT 57.388 36.364 8.96 1.23 37.60 1.82
3101 6851 1.506309 CTGTGCGCCTACAACTGCAA 61.506 55.000 4.18 0.00 39.34 4.08
3425 7177 1.263217 CGGTGGTAAGCAGAACAACAC 59.737 52.381 0.00 0.00 0.00 3.32
3450 7202 1.428912 AGCAAGGGGGTTCTGAATTGA 59.571 47.619 5.18 0.00 0.00 2.57
3469 7221 8.572855 AGATCATCAGAAAAGGGAAACTAAAG 57.427 34.615 0.00 0.00 0.00 1.85
3550 7327 3.733443 AGGGTTTGCAAACAGTGATTC 57.267 42.857 35.95 20.42 40.63 2.52
3556 7333 4.237349 ACGATTAAGGGTTTGCAAACAG 57.763 40.909 35.95 20.39 40.63 3.16
3568 7345 5.622770 AGTAGCCAAACAAACGATTAAGG 57.377 39.130 0.00 0.00 0.00 2.69
3574 7351 0.863144 GCGAGTAGCCAAACAAACGA 59.137 50.000 0.00 0.00 40.81 3.85
3643 7420 2.438975 TCGTCCGCCGTCAGGTAT 60.439 61.111 0.00 0.00 40.50 2.73
3751 7528 4.115199 ATCGCCCTGCCCTTGGAC 62.115 66.667 0.00 0.00 0.00 4.02
3884 7661 1.948834 TCGACCTTACAGACACGAACA 59.051 47.619 0.00 0.00 0.00 3.18
3896 7673 3.281240 GGACGCCACTCGACCTTA 58.719 61.111 0.00 0.00 46.78 2.69
3988 7765 8.941977 CACTACATTGCTATAGGTAAAAACACA 58.058 33.333 1.04 0.00 0.00 3.72
4004 7781 6.021468 GCATAACATTTTCGACACTACATTGC 60.021 38.462 0.00 0.00 0.00 3.56
4006 7783 6.247903 CGCATAACATTTTCGACACTACATT 58.752 36.000 0.00 0.00 0.00 2.71
4007 7784 5.220586 CCGCATAACATTTTCGACACTACAT 60.221 40.000 0.00 0.00 0.00 2.29
4019 7796 4.079253 AGTCCTGTTTCCGCATAACATTT 58.921 39.130 0.00 0.00 35.18 2.32
4048 7825 5.008019 AGAGACACGAACTGAAAACTACGTA 59.992 40.000 0.00 0.00 32.89 3.57
4049 7826 4.037858 AGACACGAACTGAAAACTACGT 57.962 40.909 0.00 0.00 34.40 3.57
4050 7827 4.288531 AGAGACACGAACTGAAAACTACG 58.711 43.478 0.00 0.00 0.00 3.51
4066 7843 5.465390 CGACAACATTAAACCTGAAGAGACA 59.535 40.000 0.00 0.00 0.00 3.41
4088 7865 5.227908 CCTAAGTTCTGTAGTTCAAAGCGA 58.772 41.667 0.00 0.00 0.00 4.93
4090 7867 4.154375 GCCCTAAGTTCTGTAGTTCAAAGC 59.846 45.833 0.00 0.00 0.00 3.51
4117 7894 2.405594 GCCGTGTCACGCAAACAA 59.594 55.556 20.01 0.00 40.91 2.83
4210 7994 2.057137 TGCTAGGCAGGGCAAATAAG 57.943 50.000 0.00 0.00 35.40 1.73
4220 8004 0.249784 ACGATCAGCATGCTAGGCAG 60.250 55.000 22.19 13.23 43.65 4.85
4344 8141 5.221742 ACTCTACTTCTGTTTTCTCTTGGGG 60.222 44.000 0.00 0.00 0.00 4.96
4349 8146 5.071370 TCGGACTCTACTTCTGTTTTCTCT 58.929 41.667 0.00 0.00 0.00 3.10
4359 9601 7.621633 GCAAGTGTAAATTTCGGACTCTACTTC 60.622 40.741 0.00 0.00 0.00 3.01
4411 9666 1.985159 AGCAACTGTGGTCCATAAGGA 59.015 47.619 0.00 0.00 43.21 3.36
4412 9667 2.496899 AGCAACTGTGGTCCATAAGG 57.503 50.000 0.00 0.00 0.00 2.69
4413 9668 5.957842 TTTTAGCAACTGTGGTCCATAAG 57.042 39.130 0.00 0.00 36.66 1.73
4414 9669 9.116067 GTATATTTTAGCAACTGTGGTCCATAA 57.884 33.333 0.00 0.00 36.66 1.90
4415 9670 7.717875 GGTATATTTTAGCAACTGTGGTCCATA 59.282 37.037 0.00 0.00 36.66 2.74
4416 9671 6.546034 GGTATATTTTAGCAACTGTGGTCCAT 59.454 38.462 0.00 0.00 36.66 3.41
4417 9672 5.883673 GGTATATTTTAGCAACTGTGGTCCA 59.116 40.000 0.00 0.00 36.66 4.02
4418 9673 6.038271 CAGGTATATTTTAGCAACTGTGGTCC 59.962 42.308 0.00 0.00 36.66 4.46
4419 9674 6.038271 CCAGGTATATTTTAGCAACTGTGGTC 59.962 42.308 0.00 0.00 36.66 4.02
4420 9675 5.885912 CCAGGTATATTTTAGCAACTGTGGT 59.114 40.000 0.00 0.00 39.33 4.16
4421 9676 5.221048 GCCAGGTATATTTTAGCAACTGTGG 60.221 44.000 0.00 0.00 0.00 4.17
4422 9677 5.221048 GGCCAGGTATATTTTAGCAACTGTG 60.221 44.000 0.00 0.00 0.00 3.66
4423 9678 4.887655 GGCCAGGTATATTTTAGCAACTGT 59.112 41.667 0.00 0.00 0.00 3.55
4424 9679 4.887071 TGGCCAGGTATATTTTAGCAACTG 59.113 41.667 0.00 0.00 0.00 3.16
4425 9680 4.887655 GTGGCCAGGTATATTTTAGCAACT 59.112 41.667 5.11 0.00 0.00 3.16
4426 9681 4.642885 TGTGGCCAGGTATATTTTAGCAAC 59.357 41.667 5.11 0.00 0.00 4.17
4427 9682 4.861196 TGTGGCCAGGTATATTTTAGCAA 58.139 39.130 5.11 0.00 0.00 3.91
4428 9683 4.511786 TGTGGCCAGGTATATTTTAGCA 57.488 40.909 5.11 0.00 0.00 3.49
4429 9684 4.827284 ACATGTGGCCAGGTATATTTTAGC 59.173 41.667 5.11 0.00 32.99 3.09
4430 9685 5.179368 CGACATGTGGCCAGGTATATTTTAG 59.821 44.000 5.11 0.00 35.36 1.85
4431 9686 5.060506 CGACATGTGGCCAGGTATATTTTA 58.939 41.667 5.11 0.00 35.36 1.52
4432 9687 3.882888 CGACATGTGGCCAGGTATATTTT 59.117 43.478 5.11 0.00 35.36 1.82
4433 9688 3.476552 CGACATGTGGCCAGGTATATTT 58.523 45.455 5.11 0.00 35.36 1.40
4434 9689 2.224523 CCGACATGTGGCCAGGTATATT 60.225 50.000 5.11 0.00 35.36 1.28
4435 9690 1.347707 CCGACATGTGGCCAGGTATAT 59.652 52.381 5.11 0.00 35.36 0.86
4436 9691 0.756294 CCGACATGTGGCCAGGTATA 59.244 55.000 5.11 0.00 35.36 1.47
4437 9692 1.526887 CCGACATGTGGCCAGGTAT 59.473 57.895 5.11 0.00 35.36 2.73
4438 9693 2.665089 CCCGACATGTGGCCAGGTA 61.665 63.158 5.11 0.00 35.36 3.08
4439 9694 4.033776 CCCGACATGTGGCCAGGT 62.034 66.667 5.11 4.66 38.52 4.00
4461 9716 2.755876 GGCTTTGGTAGGCCCAGC 60.756 66.667 0.00 0.00 46.31 4.85
4467 9722 1.838112 TTGCATCAGGCTTTGGTAGG 58.162 50.000 0.00 0.00 45.15 3.18
4468 9723 3.940209 TTTTGCATCAGGCTTTGGTAG 57.060 42.857 0.00 0.00 45.15 3.18
4517 9772 1.135112 CCAATTTTTAGGCCCGACAGC 60.135 52.381 0.00 0.00 0.00 4.40
4518 9773 1.476488 CCCAATTTTTAGGCCCGACAG 59.524 52.381 0.00 0.00 0.00 3.51
4519 9774 1.551452 CCCAATTTTTAGGCCCGACA 58.449 50.000 0.00 0.00 0.00 4.35
4520 9775 0.174845 GCCCAATTTTTAGGCCCGAC 59.825 55.000 0.00 0.00 41.00 4.79
4521 9776 2.585876 GCCCAATTTTTAGGCCCGA 58.414 52.632 0.00 0.00 41.00 5.14
4525 9780 0.459899 CTCGGGCCCAATTTTTAGGC 59.540 55.000 24.92 0.00 46.37 3.93
4526 9781 0.459899 GCTCGGGCCCAATTTTTAGG 59.540 55.000 24.92 1.11 0.00 2.69
4538 9793 4.321966 GATGGGCTAGGCTCGGGC 62.322 72.222 16.80 0.00 37.82 6.13
4539 9794 2.844362 TGATGGGCTAGGCTCGGG 60.844 66.667 16.80 0.00 0.00 5.14
4540 9795 2.423446 GTGATGGGCTAGGCTCGG 59.577 66.667 16.80 0.00 0.00 4.63
4541 9796 2.028190 CGTGATGGGCTAGGCTCG 59.972 66.667 16.80 9.53 0.00 5.03
4542 9797 1.464376 TAGCGTGATGGGCTAGGCTC 61.464 60.000 16.80 7.42 41.80 4.70
4543 9798 1.048724 TTAGCGTGATGGGCTAGGCT 61.049 55.000 16.80 3.71 43.30 4.58
4544 9799 0.179056 TTTAGCGTGATGGGCTAGGC 60.179 55.000 8.00 8.00 43.30 3.93
4545 9800 2.213499 CTTTTAGCGTGATGGGCTAGG 58.787 52.381 0.00 0.00 43.30 3.02
4546 9801 1.599542 GCTTTTAGCGTGATGGGCTAG 59.400 52.381 0.00 0.00 43.30 3.42
4547 9802 1.663695 GCTTTTAGCGTGATGGGCTA 58.336 50.000 0.00 0.00 41.80 3.93
4548 9803 2.482326 GCTTTTAGCGTGATGGGCT 58.518 52.632 0.00 0.00 44.35 5.19
4588 9843 1.359459 CGTTAACGAAGAGGCCCAGC 61.359 60.000 23.35 0.00 43.02 4.85
4589 9844 1.359459 GCGTTAACGAAGAGGCCCAG 61.359 60.000 31.03 0.00 43.02 4.45
4590 9845 1.375013 GCGTTAACGAAGAGGCCCA 60.375 57.895 31.03 0.00 43.02 5.36
4591 9846 2.450345 CGCGTTAACGAAGAGGCCC 61.450 63.158 31.03 9.81 43.02 5.80
4592 9847 1.735559 ACGCGTTAACGAAGAGGCC 60.736 57.895 31.03 10.53 43.02 5.19
4593 9848 1.005294 TCACGCGTTAACGAAGAGGC 61.005 55.000 31.03 11.23 43.02 4.70
4594 9849 1.411394 TTCACGCGTTAACGAAGAGG 58.589 50.000 31.03 18.66 43.02 3.69
4595 9850 3.300128 CGTATTCACGCGTTAACGAAGAG 60.300 47.826 31.03 20.28 42.05 2.85
4596 9851 2.589407 CGTATTCACGCGTTAACGAAGA 59.411 45.455 31.03 20.16 42.05 2.87
4597 9852 2.922912 CGTATTCACGCGTTAACGAAG 58.077 47.619 31.03 23.73 42.05 3.79
4609 9864 1.087771 CCCAAGCCCGTCGTATTCAC 61.088 60.000 0.00 0.00 0.00 3.18
4610 9865 1.219664 CCCAAGCCCGTCGTATTCA 59.780 57.895 0.00 0.00 0.00 2.57
4611 9866 2.178235 GCCCAAGCCCGTCGTATTC 61.178 63.158 0.00 0.00 0.00 1.75
4612 9867 2.124860 GCCCAAGCCCGTCGTATT 60.125 61.111 0.00 0.00 0.00 1.89
4639 9894 1.867233 CATAGATTTCAAGCCCGACGG 59.133 52.381 6.99 6.99 0.00 4.79
4640 9895 1.261619 GCATAGATTTCAAGCCCGACG 59.738 52.381 0.00 0.00 0.00 5.12
4641 9896 1.604278 GGCATAGATTTCAAGCCCGAC 59.396 52.381 0.00 0.00 39.42 4.79
4642 9897 1.490490 AGGCATAGATTTCAAGCCCGA 59.510 47.619 0.00 0.00 46.35 5.14
4643 9898 1.605710 CAGGCATAGATTTCAAGCCCG 59.394 52.381 0.00 0.00 46.35 6.13
4644 9899 2.883386 CTCAGGCATAGATTTCAAGCCC 59.117 50.000 0.00 0.00 46.35 5.19
4645 9900 2.292845 GCTCAGGCATAGATTTCAAGCC 59.707 50.000 0.00 0.00 45.54 4.35
4646 9901 2.292845 GGCTCAGGCATAGATTTCAAGC 59.707 50.000 0.00 0.00 40.87 4.01
4647 9902 2.883386 GGGCTCAGGCATAGATTTCAAG 59.117 50.000 0.00 0.00 40.87 3.02
4648 9903 2.746142 CGGGCTCAGGCATAGATTTCAA 60.746 50.000 0.00 0.00 40.87 2.69
4649 9904 1.202687 CGGGCTCAGGCATAGATTTCA 60.203 52.381 0.00 0.00 40.87 2.69
4650 9905 1.517242 CGGGCTCAGGCATAGATTTC 58.483 55.000 0.00 0.00 40.87 2.17
4651 9906 0.109342 CCGGGCTCAGGCATAGATTT 59.891 55.000 0.00 0.00 40.87 2.17
4652 9907 1.757306 CCGGGCTCAGGCATAGATT 59.243 57.895 0.00 0.00 40.87 2.40
4653 9908 3.476386 CCGGGCTCAGGCATAGAT 58.524 61.111 0.00 0.00 40.87 1.98
4673 9928 4.003788 AGCCCGACCTTGTCCACG 62.004 66.667 0.00 0.00 0.00 4.94
4674 9929 2.358737 CAGCCCGACCTTGTCCAC 60.359 66.667 0.00 0.00 0.00 4.02
4675 9930 3.636231 CCAGCCCGACCTTGTCCA 61.636 66.667 0.00 0.00 0.00 4.02
4676 9931 4.410400 CCCAGCCCGACCTTGTCC 62.410 72.222 0.00 0.00 0.00 4.02
4691 9946 4.678743 AAAAGCCCGACCCAGCCC 62.679 66.667 0.00 0.00 0.00 5.19
4692 9947 2.600470 AAAAAGCCCGACCCAGCC 60.600 61.111 0.00 0.00 0.00 4.85
4693 9948 2.962569 GAAAAAGCCCGACCCAGC 59.037 61.111 0.00 0.00 0.00 4.85
4694 9949 2.332654 CCGAAAAAGCCCGACCCAG 61.333 63.158 0.00 0.00 0.00 4.45
4695 9950 2.281900 CCGAAAAAGCCCGACCCA 60.282 61.111 0.00 0.00 0.00 4.51
4696 9951 3.060000 CCCGAAAAAGCCCGACCC 61.060 66.667 0.00 0.00 0.00 4.46
4697 9952 3.744719 GCCCGAAAAAGCCCGACC 61.745 66.667 0.00 0.00 0.00 4.79
4698 9953 3.744719 GGCCCGAAAAAGCCCGAC 61.745 66.667 0.00 0.00 43.76 4.79
4703 9958 2.962569 GACCAGGCCCGAAAAAGC 59.037 61.111 0.00 0.00 0.00 3.51
4704 9959 2.332654 CCGACCAGGCCCGAAAAAG 61.333 63.158 0.00 0.00 0.00 2.27
4705 9960 2.281900 CCGACCAGGCCCGAAAAA 60.282 61.111 0.00 0.00 0.00 1.94
4706 9961 4.338710 CCCGACCAGGCCCGAAAA 62.339 66.667 0.00 0.00 39.21 2.29
4739 9994 0.839277 CATAGACCTGGCCATGGACA 59.161 55.000 22.03 22.03 0.00 4.02
4740 9995 0.536006 GCATAGACCTGGCCATGGAC 60.536 60.000 23.24 15.32 0.00 4.02
4741 9996 0.987613 TGCATAGACCTGGCCATGGA 60.988 55.000 23.24 9.76 0.00 3.41
4742 9997 0.536687 CTGCATAGACCTGGCCATGG 60.537 60.000 5.51 13.05 0.00 3.66
4743 9998 1.170919 GCTGCATAGACCTGGCCATG 61.171 60.000 5.51 6.06 0.00 3.66
4744 9999 1.150081 GCTGCATAGACCTGGCCAT 59.850 57.895 5.51 0.00 0.00 4.40
4745 10000 0.690744 TAGCTGCATAGACCTGGCCA 60.691 55.000 4.71 4.71 0.00 5.36
4746 10001 0.469917 TTAGCTGCATAGACCTGGCC 59.530 55.000 1.02 0.00 0.00 5.36
4747 10002 2.332063 TTTAGCTGCATAGACCTGGC 57.668 50.000 1.02 0.00 0.00 4.85
4748 10003 3.072184 AGGATTTAGCTGCATAGACCTGG 59.928 47.826 1.02 0.00 0.00 4.45
4749 10004 4.348863 AGGATTTAGCTGCATAGACCTG 57.651 45.455 1.02 0.00 0.00 4.00
4750 10005 4.202409 GGAAGGATTTAGCTGCATAGACCT 60.202 45.833 1.02 2.15 0.00 3.85
4751 10006 4.068599 GGAAGGATTTAGCTGCATAGACC 58.931 47.826 1.02 0.00 0.00 3.85
4752 10007 4.967036 AGGAAGGATTTAGCTGCATAGAC 58.033 43.478 1.02 0.00 0.00 2.59
4753 10008 5.636903 AAGGAAGGATTTAGCTGCATAGA 57.363 39.130 1.02 0.00 0.00 1.98
4754 10009 7.882271 AGAATAAGGAAGGATTTAGCTGCATAG 59.118 37.037 1.02 0.00 0.00 2.23
4755 10010 7.749666 AGAATAAGGAAGGATTTAGCTGCATA 58.250 34.615 1.02 0.00 0.00 3.14
4756 10011 6.608922 AGAATAAGGAAGGATTTAGCTGCAT 58.391 36.000 1.02 0.00 0.00 3.96
4757 10012 6.006275 AGAATAAGGAAGGATTTAGCTGCA 57.994 37.500 1.02 0.00 0.00 4.41
4758 10013 6.295249 AGAGAATAAGGAAGGATTTAGCTGC 58.705 40.000 0.00 0.00 0.00 5.25
4759 10014 8.744568 AAAGAGAATAAGGAAGGATTTAGCTG 57.255 34.615 0.00 0.00 0.00 4.24
4760 10015 9.402320 GAAAAGAGAATAAGGAAGGATTTAGCT 57.598 33.333 0.00 0.00 0.00 3.32
4761 10016 9.402320 AGAAAAGAGAATAAGGAAGGATTTAGC 57.598 33.333 0.00 0.00 0.00 3.09
4766 10021 9.593565 ACAAAAGAAAAGAGAATAAGGAAGGAT 57.406 29.630 0.00 0.00 0.00 3.24
4767 10022 8.850156 CACAAAAGAAAAGAGAATAAGGAAGGA 58.150 33.333 0.00 0.00 0.00 3.36
4768 10023 8.633561 ACACAAAAGAAAAGAGAATAAGGAAGG 58.366 33.333 0.00 0.00 0.00 3.46
4769 10024 9.670719 GACACAAAAGAAAAGAGAATAAGGAAG 57.329 33.333 0.00 0.00 0.00 3.46
4770 10025 9.408648 AGACACAAAAGAAAAGAGAATAAGGAA 57.591 29.630 0.00 0.00 0.00 3.36
4771 10026 8.980481 AGACACAAAAGAAAAGAGAATAAGGA 57.020 30.769 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.