Multiple sequence alignment - TraesCS7B01G150100

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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 TraesCS7B01G150100 chr7B 100.000 3433 0 0 1 3433 199281370 199284802 0.000000e+00 6340
1 TraesCS7B01G150100 chr7B 96.850 127 4 0 1 127 699358549 699358423 2.680000e-51 213
2 TraesCS7B01G150100 chr7B 96.800 125 4 0 1 125 244389634 244389510 3.470000e-50 209
3 TraesCS7B01G150100 chr7D 93.226 1801 66 22 126 1908 227565119 227566881 0.000000e+00 2599
4 TraesCS7B01G150100 chr7D 93.152 1066 55 10 1901 2952 227566920 227567981 0.000000e+00 1548
5 TraesCS7B01G150100 chr7D 93.309 269 15 1 3168 3433 227568038 227568306 8.930000e-106 394
6 TraesCS7B01G150100 chr7D 97.600 125 3 0 1 125 633526502 633526378 7.460000e-52 215
7 TraesCS7B01G150100 chr7A 94.232 1491 52 22 425 1892 239755361 239756840 0.000000e+00 2246
8 TraesCS7B01G150100 chr7A 93.554 1086 49 11 1935 3004 239756965 239758045 0.000000e+00 1598
9 TraesCS7B01G150100 chr7A 95.865 266 11 0 3168 3433 239758047 239758312 6.810000e-117 431
10 TraesCS7B01G150100 chr7A 87.023 262 16 7 165 426 239754943 239755186 2.610000e-71 279
11 TraesCS7B01G150100 chr7A 96.825 126 4 0 1 126 5002895 5002770 9.650000e-51 211
12 TraesCS7B01G150100 chr5D 77.311 833 123 50 1061 1872 384471270 384472057 6.810000e-117 431
13 TraesCS7B01G150100 chr5D 95.882 170 7 0 2999 3168 198477383 198477552 3.370000e-70 276
14 TraesCS7B01G150100 chr5D 93.370 181 8 3 2991 3167 365042729 365042909 7.310000e-67 265
15 TraesCS7B01G150100 chr5D 96.850 127 4 0 1 127 469435476 469435350 2.680000e-51 213
16 TraesCS7B01G150100 chr5D 96.063 127 5 0 1 127 550610808 550610934 1.250000e-49 207
17 TraesCS7B01G150100 chr5B 77.792 788 108 47 1097 1872 461292421 461293153 1.140000e-114 424
18 TraesCS7B01G150100 chr5A 76.971 799 122 48 1097 1872 485375614 485376373 1.920000e-107 399
19 TraesCS7B01G150100 chr3B 97.561 164 4 0 3004 3167 523154373 523154210 7.250000e-72 281
20 TraesCS7B01G150100 chr6B 96.407 167 6 0 3004 3170 95349575 95349409 3.370000e-70 276
21 TraesCS7B01G150100 chr2B 94.828 174 9 0 3002 3175 391519161 391518988 4.370000e-69 272
22 TraesCS7B01G150100 chr2B 94.828 174 7 2 2997 3168 243786505 243786678 1.570000e-68 270
23 TraesCS7B01G150100 chr1D 93.370 181 8 3 2991 3167 383864682 383864862 7.310000e-67 265
24 TraesCS7B01G150100 chr1D 92.021 188 11 3 2984 3167 59324652 59324839 9.450000e-66 261
25 TraesCS7B01G150100 chr1D 92.021 188 11 3 2984 3167 474700654 474700467 9.450000e-66 261
26 TraesCS7B01G150100 chr3D 96.124 129 5 0 1 129 7589058 7588930 9.650000e-51 211
27 TraesCS7B01G150100 chr3D 95.385 130 6 0 1 130 430361194 430361065 1.250000e-49 207
28 TraesCS7B01G150100 chr4D 95.385 130 6 0 1 130 2116495 2116624 1.250000e-49 207


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 TraesCS7B01G150100 chr7B 199281370 199284802 3432 False 6340.000000 6340 100.0000 1 3433 1 chr7B.!!$F1 3432
1 TraesCS7B01G150100 chr7D 227565119 227568306 3187 False 1513.666667 2599 93.2290 126 3433 3 chr7D.!!$F1 3307
2 TraesCS7B01G150100 chr7A 239754943 239758312 3369 False 1138.500000 2246 92.6685 165 3433 4 chr7A.!!$F1 3268
3 TraesCS7B01G150100 chr5D 384471270 384472057 787 False 431.000000 431 77.3110 1061 1872 1 chr5D.!!$F3 811
4 TraesCS7B01G150100 chr5B 461292421 461293153 732 False 424.000000 424 77.7920 1097 1872 1 chr5B.!!$F1 775
5 TraesCS7B01G150100 chr5A 485375614 485376373 759 False 399.000000 399 76.9710 1097 1872 1 chr5A.!!$F1 775

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
44 45 0.325933 TTGGCTGTGTGCATCTAGCT 59.674 50.0 15.51 0.0 45.94 3.32 F
440 619 0.514691 GCCTTCGTTGCTCTCTTGTG 59.485 55.0 0.00 0.0 0.00 3.33 F
2165 2483 0.527565 CAGGTAACAATGGTGCTGGC 59.472 55.0 0.00 0.0 41.41 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1755 1988 0.331954 TGAAGACGGAGGAGTAGGCT 59.668 55.0 0.00 0.00 0.0 4.58 R
2408 2726 1.014044 TAAGGAACAAGAGCGCTGCG 61.014 55.0 18.48 19.17 0.0 5.18 R
3154 3512 0.106619 ACGAATCTACTCCCTCCGCT 60.107 55.0 0.00 0.00 0.0 5.52 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 7.885009 TGCTTTTAGGGTACTTTGTACTTTT 57.115 32.000 7.64 0.00 0.00 2.27
25 26 8.296211 TGCTTTTAGGGTACTTTGTACTTTTT 57.704 30.769 7.64 0.00 0.00 1.94
42 43 3.921119 TTTTTGGCTGTGTGCATCTAG 57.079 42.857 0.00 0.00 45.15 2.43
43 44 1.167851 TTTGGCTGTGTGCATCTAGC 58.832 50.000 9.68 9.68 45.15 3.42
44 45 0.325933 TTGGCTGTGTGCATCTAGCT 59.674 50.000 15.51 0.00 45.94 3.32
45 46 1.194218 TGGCTGTGTGCATCTAGCTA 58.806 50.000 15.51 9.22 45.94 3.32
46 47 1.764723 TGGCTGTGTGCATCTAGCTAT 59.235 47.619 15.51 0.00 45.94 2.97
47 48 2.141517 GGCTGTGTGCATCTAGCTATG 58.858 52.381 15.51 0.00 45.94 2.23
55 56 2.383368 CATCTAGCTATGCAGAGGCC 57.617 55.000 10.92 0.00 40.13 5.19
56 57 0.894141 ATCTAGCTATGCAGAGGCCG 59.106 55.000 10.92 0.48 40.13 6.13
57 58 1.181741 TCTAGCTATGCAGAGGCCGG 61.182 60.000 10.92 0.00 40.13 6.13
58 59 2.164865 CTAGCTATGCAGAGGCCGGG 62.165 65.000 10.92 0.00 40.13 5.73
60 61 3.554342 CTATGCAGAGGCCGGGCT 61.554 66.667 33.40 33.40 40.13 5.19
61 62 3.089874 TATGCAGAGGCCGGGCTT 61.090 61.111 33.28 18.37 40.13 4.35
62 63 2.615227 CTATGCAGAGGCCGGGCTTT 62.615 60.000 33.28 24.87 40.13 3.51
63 64 2.608970 TATGCAGAGGCCGGGCTTTC 62.609 60.000 33.28 20.57 40.13 2.62
64 65 4.416738 GCAGAGGCCGGGCTTTCT 62.417 66.667 33.28 22.65 0.00 2.52
65 66 2.352805 CAGAGGCCGGGCTTTCTT 59.647 61.111 33.28 15.22 0.00 2.52
66 67 1.303643 CAGAGGCCGGGCTTTCTTT 60.304 57.895 33.28 8.77 0.00 2.52
67 68 1.002011 AGAGGCCGGGCTTTCTTTC 60.002 57.895 33.28 18.19 0.00 2.62
68 69 2.359975 AGGCCGGGCTTTCTTTCG 60.360 61.111 27.45 0.00 0.00 3.46
69 70 2.359478 GGCCGGGCTTTCTTTCGA 60.359 61.111 22.87 0.00 0.00 3.71
70 71 1.749258 GGCCGGGCTTTCTTTCGAT 60.749 57.895 22.87 0.00 0.00 3.59
71 72 1.429423 GCCGGGCTTTCTTTCGATG 59.571 57.895 12.87 0.00 0.00 3.84
72 73 1.429423 CCGGGCTTTCTTTCGATGC 59.571 57.895 0.00 0.00 0.00 3.91
73 74 1.060937 CGGGCTTTCTTTCGATGCG 59.939 57.895 0.00 0.00 0.00 4.73
74 75 1.358725 CGGGCTTTCTTTCGATGCGA 61.359 55.000 0.00 0.00 0.00 5.10
75 76 1.017387 GGGCTTTCTTTCGATGCGAT 58.983 50.000 0.00 0.00 35.23 4.58
76 77 1.401905 GGGCTTTCTTTCGATGCGATT 59.598 47.619 0.00 0.00 35.23 3.34
77 78 2.444351 GGCTTTCTTTCGATGCGATTG 58.556 47.619 0.00 0.00 35.23 2.67
78 79 2.159517 GGCTTTCTTTCGATGCGATTGT 60.160 45.455 0.00 0.00 35.23 2.71
79 80 3.063452 GGCTTTCTTTCGATGCGATTGTA 59.937 43.478 0.00 0.00 35.23 2.41
80 81 4.260784 GGCTTTCTTTCGATGCGATTGTAT 60.261 41.667 0.00 0.00 35.23 2.29
81 82 4.900747 GCTTTCTTTCGATGCGATTGTATC 59.099 41.667 1.04 1.04 35.23 2.24
82 83 5.502382 GCTTTCTTTCGATGCGATTGTATCA 60.502 40.000 11.14 0.00 37.08 2.15
83 84 5.389642 TTCTTTCGATGCGATTGTATCAC 57.610 39.130 11.14 0.00 37.08 3.06
84 85 3.802139 TCTTTCGATGCGATTGTATCACC 59.198 43.478 11.14 0.00 37.08 4.02
85 86 3.452755 TTCGATGCGATTGTATCACCT 57.547 42.857 11.14 0.00 37.08 4.00
86 87 3.013276 TCGATGCGATTGTATCACCTC 57.987 47.619 11.14 0.00 37.08 3.85
87 88 1.716050 CGATGCGATTGTATCACCTCG 59.284 52.381 11.14 0.00 37.08 4.63
88 89 2.604614 CGATGCGATTGTATCACCTCGA 60.605 50.000 11.14 0.00 37.08 4.04
89 90 3.579709 GATGCGATTGTATCACCTCGAT 58.420 45.455 6.18 0.00 37.20 3.59
90 91 4.671766 CGATGCGATTGTATCACCTCGATA 60.672 45.833 11.14 0.00 37.08 2.92
91 92 4.783764 TGCGATTGTATCACCTCGATAT 57.216 40.909 0.00 0.00 38.85 1.63
92 93 5.890424 TGCGATTGTATCACCTCGATATA 57.110 39.130 0.00 0.00 38.85 0.86
93 94 6.451064 TGCGATTGTATCACCTCGATATAT 57.549 37.500 0.00 0.00 38.85 0.86
94 95 6.495706 TGCGATTGTATCACCTCGATATATC 58.504 40.000 2.34 2.34 38.85 1.63
95 96 6.318900 TGCGATTGTATCACCTCGATATATCT 59.681 38.462 10.93 0.00 38.85 1.98
96 97 7.497909 TGCGATTGTATCACCTCGATATATCTA 59.502 37.037 10.93 0.00 38.85 1.98
97 98 8.508062 GCGATTGTATCACCTCGATATATCTAT 58.492 37.037 10.93 0.00 38.85 1.98
150 151 6.154706 ACGAACTGGTACTTTCAAGGATCTAT 59.845 38.462 0.00 0.00 0.00 1.98
152 153 7.549488 CGAACTGGTACTTTCAAGGATCTATTT 59.451 37.037 0.00 0.00 0.00 1.40
153 154 8.567285 AACTGGTACTTTCAAGGATCTATTTG 57.433 34.615 0.00 0.00 0.00 2.32
154 155 6.599638 ACTGGTACTTTCAAGGATCTATTTGC 59.400 38.462 0.00 0.00 0.00 3.68
155 156 6.480763 TGGTACTTTCAAGGATCTATTTGCA 58.519 36.000 0.00 0.00 0.00 4.08
156 157 7.118723 TGGTACTTTCAAGGATCTATTTGCAT 58.881 34.615 0.00 0.00 0.00 3.96
157 158 7.283127 TGGTACTTTCAAGGATCTATTTGCATC 59.717 37.037 0.00 0.00 0.00 3.91
174 178 3.631227 TGCATCATGAGTTTGTGACACAA 59.369 39.130 17.02 17.02 36.11 3.33
253 257 5.533154 TGGTTATTCTTGTTGTAACACCCAG 59.467 40.000 0.00 0.00 38.92 4.45
305 309 4.261867 GGGTAAGACGGCATTTTTGTTCTT 60.262 41.667 0.00 0.00 0.00 2.52
317 321 6.565247 GCATTTTTGTTCTTTGGATCTGCAAG 60.565 38.462 0.00 0.00 0.00 4.01
427 606 4.497006 GGATGTGAGAAATTGATGCCTTCG 60.497 45.833 0.00 0.00 0.00 3.79
440 619 0.514691 GCCTTCGTTGCTCTCTTGTG 59.485 55.000 0.00 0.00 0.00 3.33
441 620 1.151668 CCTTCGTTGCTCTCTTGTGG 58.848 55.000 0.00 0.00 0.00 4.17
482 661 3.005791 AGCCAAGTTTGCAGTTTACATCC 59.994 43.478 1.33 0.00 0.00 3.51
518 701 3.929610 GTCAGAGAACACCATAGAGTTGC 59.070 47.826 0.00 0.00 0.00 4.17
546 730 7.255381 CCAAAATGGGATAGTTGAATGCTCTAG 60.255 40.741 0.00 0.00 32.67 2.43
557 741 7.164122 AGTTGAATGCTCTAGTTTGAGAATGA 58.836 34.615 0.00 0.00 32.88 2.57
691 875 3.435275 AGGACACTGACTCAATGCTCTA 58.565 45.455 0.00 0.00 0.00 2.43
692 876 3.446873 AGGACACTGACTCAATGCTCTAG 59.553 47.826 0.00 0.00 0.00 2.43
695 879 3.829026 ACACTGACTCAATGCTCTAGTGA 59.171 43.478 0.00 0.00 37.91 3.41
697 881 5.042593 CACTGACTCAATGCTCTAGTGATC 58.957 45.833 0.00 0.00 36.96 2.92
700 884 6.127111 ACTGACTCAATGCTCTAGTGATCATT 60.127 38.462 0.00 0.00 38.94 2.57
701 885 7.069208 ACTGACTCAATGCTCTAGTGATCATTA 59.931 37.037 0.00 0.00 37.05 1.90
705 896 9.872721 ACTCAATGCTCTAGTGATCATTATATG 57.127 33.333 0.00 0.00 37.05 1.78
708 899 9.433153 CAATGCTCTAGTGATCATTATATGTGT 57.567 33.333 0.00 0.00 37.05 3.72
733 924 9.010029 GTAAAATGAGGATTGGTTTAGACTGAA 57.990 33.333 0.00 0.00 0.00 3.02
905 1097 3.423539 AGCAATCTCACCAAGCAACTA 57.576 42.857 0.00 0.00 0.00 2.24
947 1140 6.841119 TGCACGCCATTATATATTTGATGAC 58.159 36.000 0.00 0.00 0.00 3.06
990 1183 6.774656 ACAAGTGACAAGGAAATCAAGAAGAT 59.225 34.615 0.00 0.00 39.09 2.40
1562 1773 7.084486 CACGTAGCATCATTATGAAGTAGCTA 58.916 38.462 13.76 13.76 34.84 3.32
1567 1786 7.110810 AGCATCATTATGAAGTAGCTATGCAT 58.889 34.615 3.79 3.79 39.63 3.96
1568 1787 7.280428 AGCATCATTATGAAGTAGCTATGCATC 59.720 37.037 0.19 0.00 39.63 3.91
1569 1788 7.466996 GCATCATTATGAAGTAGCTATGCATCC 60.467 40.741 0.19 0.00 37.67 3.51
1570 1789 7.008021 TCATTATGAAGTAGCTATGCATCCA 57.992 36.000 0.19 0.00 0.00 3.41
1571 1790 7.627311 TCATTATGAAGTAGCTATGCATCCAT 58.373 34.615 0.19 0.00 35.44 3.41
1572 1791 7.551617 TCATTATGAAGTAGCTATGCATCCATG 59.448 37.037 0.19 7.63 32.85 3.66
1573 1792 4.694760 TGAAGTAGCTATGCATCCATGT 57.305 40.909 0.19 0.00 32.85 3.21
1574 1793 5.039920 TGAAGTAGCTATGCATCCATGTT 57.960 39.130 0.19 0.00 32.85 2.71
1575 1794 4.818005 TGAAGTAGCTATGCATCCATGTTG 59.182 41.667 0.19 0.00 32.85 3.33
1576 1795 4.428294 AGTAGCTATGCATCCATGTTGT 57.572 40.909 0.19 0.00 32.85 3.32
1577 1796 5.551305 AGTAGCTATGCATCCATGTTGTA 57.449 39.130 0.19 0.00 32.85 2.41
1578 1797 5.300752 AGTAGCTATGCATCCATGTTGTAC 58.699 41.667 0.19 0.00 32.85 2.90
1603 1822 3.985279 GTGTATGCTCTGACACGTAAACA 59.015 43.478 0.00 0.00 36.88 2.83
1606 1825 2.206750 TGCTCTGACACGTAAACAACC 58.793 47.619 0.00 0.00 0.00 3.77
1610 1829 3.799366 TCTGACACGTAAACAACCATGT 58.201 40.909 0.00 0.00 43.14 3.21
1755 1988 4.961511 GACACGTGCAGCCCGACA 62.962 66.667 17.22 0.00 0.00 4.35
1818 2051 2.434185 TACGCCTACGACGACGGT 60.434 61.111 12.58 1.91 43.93 4.83
1860 2093 1.428219 CGTCGACTACACCATCGCT 59.572 57.895 14.70 0.00 38.24 4.93
1893 2126 1.134098 CCAGCCGGGTAATCAATCACT 60.134 52.381 5.47 0.00 0.00 3.41
2117 2435 4.235762 ACGACAGGCAACAGCGGT 62.236 61.111 0.00 0.00 41.41 5.68
2165 2483 0.527565 CAGGTAACAATGGTGCTGGC 59.472 55.000 0.00 0.00 41.41 4.85
2359 2677 1.843376 CCTACCAGCCGGGGATGAT 60.843 63.158 2.18 0.00 42.91 2.45
2362 2680 2.613576 TACCAGCCGGGGATGATCCA 62.614 60.000 14.36 0.00 42.91 3.41
2367 2685 2.737180 CGGGGATGATCCAGTCGG 59.263 66.667 14.36 0.00 38.64 4.79
2408 2726 2.170607 TCAGCTATGGTTTCTGCTACCC 59.829 50.000 0.00 0.00 34.66 3.69
2424 2742 3.793144 CCGCAGCGCTCTTGTTCC 61.793 66.667 7.13 0.00 0.00 3.62
2504 2822 2.795470 GCTTTCGAATACGTGAGGGATC 59.205 50.000 0.00 0.00 40.69 3.36
2526 2844 2.548920 GGATGATCTTAGGCGTGGAAGG 60.549 54.545 0.00 0.00 0.00 3.46
2633 2963 6.551601 ACCCTCCTGTATTCAGTAACTAGATG 59.448 42.308 0.00 0.00 39.82 2.90
2651 2981 3.265737 AGATGGTACTGGTGGTGCAAATA 59.734 43.478 0.00 0.00 32.05 1.40
2778 3120 7.547722 TGCTCTGTTTTTACGATTCATAGCTTA 59.452 33.333 0.00 0.00 32.28 3.09
2899 3243 6.378661 TTTCTCATCCCAAGAAATCTGAGA 57.621 37.500 0.00 0.00 37.72 3.27
3004 3362 8.210265 TGCATAACTGGAATGTCATGACTTATA 58.790 33.333 25.55 6.73 0.00 0.98
3005 3363 8.499162 GCATAACTGGAATGTCATGACTTATAC 58.501 37.037 25.55 13.17 0.00 1.47
3006 3364 9.770097 CATAACTGGAATGTCATGACTTATACT 57.230 33.333 25.55 5.45 0.00 2.12
3007 3365 9.988815 ATAACTGGAATGTCATGACTTATACTC 57.011 33.333 25.55 13.48 0.00 2.59
3008 3366 6.821388 ACTGGAATGTCATGACTTATACTCC 58.179 40.000 25.55 20.77 0.00 3.85
3009 3367 6.174720 TGGAATGTCATGACTTATACTCCC 57.825 41.667 25.55 14.73 0.00 4.30
3010 3368 5.905331 TGGAATGTCATGACTTATACTCCCT 59.095 40.000 25.55 2.95 0.00 4.20
3011 3369 6.042093 TGGAATGTCATGACTTATACTCCCTC 59.958 42.308 25.55 11.25 0.00 4.30
3012 3370 6.426646 AATGTCATGACTTATACTCCCTCC 57.573 41.667 25.55 0.00 0.00 4.30
3013 3371 3.889538 TGTCATGACTTATACTCCCTCCG 59.110 47.826 25.55 0.00 0.00 4.63
3014 3372 3.890147 GTCATGACTTATACTCCCTCCGT 59.110 47.826 18.83 0.00 0.00 4.69
3015 3373 4.341520 GTCATGACTTATACTCCCTCCGTT 59.658 45.833 18.83 0.00 0.00 4.44
3016 3374 4.583489 TCATGACTTATACTCCCTCCGTTC 59.417 45.833 0.00 0.00 0.00 3.95
3017 3375 3.294214 TGACTTATACTCCCTCCGTTCC 58.706 50.000 0.00 0.00 0.00 3.62
3018 3376 2.627221 GACTTATACTCCCTCCGTTCCC 59.373 54.545 0.00 0.00 0.00 3.97
3019 3377 2.023695 ACTTATACTCCCTCCGTTCCCA 60.024 50.000 0.00 0.00 0.00 4.37
3020 3378 2.852714 TATACTCCCTCCGTTCCCAA 57.147 50.000 0.00 0.00 0.00 4.12
3021 3379 1.961133 ATACTCCCTCCGTTCCCAAA 58.039 50.000 0.00 0.00 0.00 3.28
3022 3380 1.961133 TACTCCCTCCGTTCCCAAAT 58.039 50.000 0.00 0.00 0.00 2.32
3023 3381 1.961133 ACTCCCTCCGTTCCCAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3024 3382 2.488836 ACTCCCTCCGTTCCCAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
3025 3383 2.850568 ACTCCCTCCGTTCCCAAATATT 59.149 45.455 0.00 0.00 0.00 1.28
3026 3384 3.268595 ACTCCCTCCGTTCCCAAATATTT 59.731 43.478 0.00 0.00 0.00 1.40
3027 3385 3.626930 TCCCTCCGTTCCCAAATATTTG 58.373 45.455 19.40 19.40 37.90 2.32
3028 3386 3.010808 TCCCTCCGTTCCCAAATATTTGT 59.989 43.478 23.24 0.00 36.45 2.83
3029 3387 3.380320 CCCTCCGTTCCCAAATATTTGTC 59.620 47.826 23.24 11.68 36.45 3.18
3030 3388 4.270008 CCTCCGTTCCCAAATATTTGTCT 58.730 43.478 23.24 0.00 36.45 3.41
3031 3389 4.705023 CCTCCGTTCCCAAATATTTGTCTT 59.295 41.667 23.24 0.00 36.45 3.01
3032 3390 5.185056 CCTCCGTTCCCAAATATTTGTCTTT 59.815 40.000 23.24 0.00 36.45 2.52
3033 3391 6.262193 TCCGTTCCCAAATATTTGTCTTTC 57.738 37.500 23.24 10.84 36.45 2.62
3034 3392 6.007703 TCCGTTCCCAAATATTTGTCTTTCT 58.992 36.000 23.24 0.00 36.45 2.52
3035 3393 7.169591 TCCGTTCCCAAATATTTGTCTTTCTA 58.830 34.615 23.24 5.03 36.45 2.10
3036 3394 7.335924 TCCGTTCCCAAATATTTGTCTTTCTAG 59.664 37.037 23.24 8.23 36.45 2.43
3037 3395 7.415206 CCGTTCCCAAATATTTGTCTTTCTAGG 60.415 40.741 23.24 15.51 36.45 3.02
3038 3396 7.258441 GTTCCCAAATATTTGTCTTTCTAGGC 58.742 38.462 23.24 3.57 36.45 3.93
3039 3397 6.489603 TCCCAAATATTTGTCTTTCTAGGCA 58.510 36.000 23.24 5.94 36.45 4.75
3040 3398 7.125391 TCCCAAATATTTGTCTTTCTAGGCAT 58.875 34.615 23.24 0.00 35.56 4.40
3041 3399 7.619302 TCCCAAATATTTGTCTTTCTAGGCATT 59.381 33.333 23.24 0.00 35.56 3.56
3042 3400 8.260114 CCCAAATATTTGTCTTTCTAGGCATTT 58.740 33.333 23.24 0.00 35.56 2.32
3043 3401 9.305925 CCAAATATTTGTCTTTCTAGGCATTTC 57.694 33.333 23.24 0.00 35.56 2.17
3044 3402 9.859427 CAAATATTTGTCTTTCTAGGCATTTCA 57.141 29.630 18.32 0.00 35.56 2.69
3048 3406 8.767478 ATTTGTCTTTCTAGGCATTTCAAATG 57.233 30.769 5.68 5.68 35.56 2.32
3049 3407 6.271488 TGTCTTTCTAGGCATTTCAAATGG 57.729 37.500 12.14 0.00 29.10 3.16
3050 3408 6.009589 TGTCTTTCTAGGCATTTCAAATGGA 58.990 36.000 12.14 0.00 29.10 3.41
3051 3409 6.071952 TGTCTTTCTAGGCATTTCAAATGGAC 60.072 38.462 12.14 8.23 29.10 4.02
3052 3410 6.009589 TCTTTCTAGGCATTTCAAATGGACA 58.990 36.000 12.14 0.00 0.00 4.02
3053 3411 5.643379 TTCTAGGCATTTCAAATGGACAC 57.357 39.130 12.14 0.00 0.00 3.67
3054 3412 4.661222 TCTAGGCATTTCAAATGGACACA 58.339 39.130 12.14 0.00 0.00 3.72
3055 3413 5.076182 TCTAGGCATTTCAAATGGACACAA 58.924 37.500 12.14 0.00 0.00 3.33
3056 3414 3.993920 AGGCATTTCAAATGGACACAAC 58.006 40.909 12.14 0.00 0.00 3.32
3057 3415 3.387374 AGGCATTTCAAATGGACACAACA 59.613 39.130 12.14 0.00 0.00 3.33
3058 3416 4.040706 AGGCATTTCAAATGGACACAACAT 59.959 37.500 12.14 0.00 0.00 2.71
3059 3417 5.245751 AGGCATTTCAAATGGACACAACATA 59.754 36.000 12.14 0.00 0.00 2.29
3060 3418 5.348451 GGCATTTCAAATGGACACAACATAC 59.652 40.000 12.14 0.00 0.00 2.39
3061 3419 5.060816 GCATTTCAAATGGACACAACATACG 59.939 40.000 12.14 0.00 0.00 3.06
3062 3420 6.377780 CATTTCAAATGGACACAACATACGA 58.622 36.000 1.73 0.00 0.00 3.43
3063 3421 6.378710 TTTCAAATGGACACAACATACGAA 57.621 33.333 0.00 0.00 0.00 3.85
3064 3422 6.567687 TTCAAATGGACACAACATACGAAT 57.432 33.333 0.00 0.00 0.00 3.34
3065 3423 5.937187 TCAAATGGACACAACATACGAATG 58.063 37.500 0.00 0.00 39.17 2.67
3067 3425 6.651225 TCAAATGGACACAACATACGAATGTA 59.349 34.615 0.00 0.00 45.79 2.29
3068 3426 7.335673 TCAAATGGACACAACATACGAATGTAT 59.664 33.333 0.00 0.00 45.79 2.29
3107 3465 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
3108 3466 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
3109 3467 5.412594 GTGTAGATTCACTCATTTTGCTCCA 59.587 40.000 0.00 0.00 35.68 3.86
3110 3468 6.094603 GTGTAGATTCACTCATTTTGCTCCAT 59.905 38.462 0.00 0.00 35.68 3.41
3111 3469 7.280876 GTGTAGATTCACTCATTTTGCTCCATA 59.719 37.037 0.00 0.00 35.68 2.74
3112 3470 7.994911 TGTAGATTCACTCATTTTGCTCCATAT 59.005 33.333 0.00 0.00 0.00 1.78
3113 3471 7.273320 AGATTCACTCATTTTGCTCCATATG 57.727 36.000 0.00 0.00 0.00 1.78
3114 3472 6.832384 AGATTCACTCATTTTGCTCCATATGT 59.168 34.615 1.24 0.00 0.00 2.29
3115 3473 5.823209 TCACTCATTTTGCTCCATATGTG 57.177 39.130 1.24 0.00 0.00 3.21
3117 3475 4.400251 CACTCATTTTGCTCCATATGTGGT 59.600 41.667 8.51 0.00 46.16 4.16
3118 3476 4.641989 ACTCATTTTGCTCCATATGTGGTC 59.358 41.667 8.51 2.80 46.16 4.02
3119 3477 4.598022 TCATTTTGCTCCATATGTGGTCA 58.402 39.130 8.51 5.37 46.16 4.02
3120 3478 4.398988 TCATTTTGCTCCATATGTGGTCAC 59.601 41.667 8.51 0.25 46.16 3.67
3121 3479 3.719268 TTTGCTCCATATGTGGTCACT 57.281 42.857 8.51 0.00 46.16 3.41
3122 3480 3.719268 TTGCTCCATATGTGGTCACTT 57.281 42.857 8.51 0.00 46.16 3.16
3123 3481 2.989909 TGCTCCATATGTGGTCACTTG 58.010 47.619 8.51 0.00 46.16 3.16
3124 3482 2.305635 TGCTCCATATGTGGTCACTTGT 59.694 45.455 8.51 0.00 46.16 3.16
3125 3483 3.244875 TGCTCCATATGTGGTCACTTGTT 60.245 43.478 8.51 0.00 46.16 2.83
3126 3484 3.127548 GCTCCATATGTGGTCACTTGTTG 59.872 47.826 8.51 0.40 46.16 3.33
3127 3485 4.578871 CTCCATATGTGGTCACTTGTTGA 58.421 43.478 8.51 0.00 46.16 3.18
3128 3486 4.979335 TCCATATGTGGTCACTTGTTGAA 58.021 39.130 8.51 0.00 46.16 2.69
3129 3487 5.380900 TCCATATGTGGTCACTTGTTGAAA 58.619 37.500 8.51 0.00 46.16 2.69
3130 3488 6.009589 TCCATATGTGGTCACTTGTTGAAAT 58.990 36.000 8.51 0.00 46.16 2.17
3131 3489 6.150976 TCCATATGTGGTCACTTGTTGAAATC 59.849 38.462 8.51 0.00 46.16 2.17
3132 3490 6.151648 CCATATGTGGTCACTTGTTGAAATCT 59.848 38.462 0.00 0.00 40.83 2.40
3133 3491 5.695851 ATGTGGTCACTTGTTGAAATCTC 57.304 39.130 2.66 0.00 35.39 2.75
3134 3492 4.780815 TGTGGTCACTTGTTGAAATCTCT 58.219 39.130 2.66 0.00 35.39 3.10
3135 3493 5.924356 TGTGGTCACTTGTTGAAATCTCTA 58.076 37.500 2.66 0.00 35.39 2.43
3136 3494 5.991606 TGTGGTCACTTGTTGAAATCTCTAG 59.008 40.000 2.66 0.00 35.39 2.43
3137 3495 6.183360 TGTGGTCACTTGTTGAAATCTCTAGA 60.183 38.462 2.66 0.00 35.39 2.43
3138 3496 6.706270 GTGGTCACTTGTTGAAATCTCTAGAA 59.294 38.462 0.00 0.00 35.39 2.10
3139 3497 7.226720 GTGGTCACTTGTTGAAATCTCTAGAAA 59.773 37.037 0.00 0.00 35.39 2.52
3140 3498 7.442364 TGGTCACTTGTTGAAATCTCTAGAAAG 59.558 37.037 0.00 0.00 35.39 2.62
3141 3499 7.657761 GGTCACTTGTTGAAATCTCTAGAAAGA 59.342 37.037 0.00 0.00 35.39 2.52
3142 3500 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
3143 3501 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
3144 3502 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
3145 3503 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
3157 3515 8.873215 TCTAGAAAGACAAATATTTAGGAGCG 57.127 34.615 0.00 0.00 0.00 5.03
3158 3516 6.927294 AGAAAGACAAATATTTAGGAGCGG 57.073 37.500 0.00 0.00 0.00 5.52
3159 3517 6.650120 AGAAAGACAAATATTTAGGAGCGGA 58.350 36.000 0.00 0.00 0.00 5.54
3160 3518 6.763610 AGAAAGACAAATATTTAGGAGCGGAG 59.236 38.462 0.00 0.00 0.00 4.63
3161 3519 4.962155 AGACAAATATTTAGGAGCGGAGG 58.038 43.478 0.00 0.00 0.00 4.30
3162 3520 4.065789 GACAAATATTTAGGAGCGGAGGG 58.934 47.826 0.00 0.00 0.00 4.30
3163 3521 3.714798 ACAAATATTTAGGAGCGGAGGGA 59.285 43.478 0.00 0.00 0.00 4.20
3164 3522 4.202367 ACAAATATTTAGGAGCGGAGGGAG 60.202 45.833 0.00 0.00 0.00 4.30
3165 3523 2.769602 TATTTAGGAGCGGAGGGAGT 57.230 50.000 0.00 0.00 0.00 3.85
3166 3524 2.769602 ATTTAGGAGCGGAGGGAGTA 57.230 50.000 0.00 0.00 0.00 2.59
3226 3587 2.602257 TGCCTACGAATGGATCACTG 57.398 50.000 0.00 0.00 0.00 3.66
3376 3737 1.303561 GTCACAGGATTGCTGGCCA 60.304 57.895 4.71 4.71 0.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.885009 AAAAGTACAAAGTACCCTAAAAGCA 57.115 32.000 3.85 0.00 0.00 3.91
22 23 2.030007 GCTAGATGCACACAGCCAAAAA 60.030 45.455 0.00 0.00 44.83 1.94
23 24 1.541147 GCTAGATGCACACAGCCAAAA 59.459 47.619 0.00 0.00 44.83 2.44
24 25 1.167851 GCTAGATGCACACAGCCAAA 58.832 50.000 0.00 0.00 44.83 3.28
25 26 0.325933 AGCTAGATGCACACAGCCAA 59.674 50.000 10.69 0.00 45.94 4.52
26 27 1.194218 TAGCTAGATGCACACAGCCA 58.806 50.000 10.69 0.00 45.94 4.75
27 28 2.141517 CATAGCTAGATGCACACAGCC 58.858 52.381 10.69 0.00 45.94 4.85
36 37 1.403914 CGGCCTCTGCATAGCTAGATG 60.404 57.143 0.00 0.00 40.13 2.90
37 38 0.894141 CGGCCTCTGCATAGCTAGAT 59.106 55.000 0.00 0.00 40.13 1.98
38 39 1.181741 CCGGCCTCTGCATAGCTAGA 61.182 60.000 0.00 0.00 40.13 2.43
39 40 1.291588 CCGGCCTCTGCATAGCTAG 59.708 63.158 0.00 0.00 40.13 3.42
40 41 2.210013 CCCGGCCTCTGCATAGCTA 61.210 63.158 0.00 0.00 40.13 3.32
41 42 3.554342 CCCGGCCTCTGCATAGCT 61.554 66.667 0.00 0.00 40.13 3.32
43 44 2.615227 AAAGCCCGGCCTCTGCATAG 62.615 60.000 5.55 0.00 40.13 2.23
44 45 2.608970 GAAAGCCCGGCCTCTGCATA 62.609 60.000 5.55 0.00 40.13 3.14
45 46 4.052518 AAAGCCCGGCCTCTGCAT 62.053 61.111 5.55 0.00 40.13 3.96
46 47 4.722700 GAAAGCCCGGCCTCTGCA 62.723 66.667 5.55 0.00 40.13 4.41
47 48 3.927481 AAGAAAGCCCGGCCTCTGC 62.927 63.158 5.55 0.00 0.00 4.26
48 49 1.303643 AAAGAAAGCCCGGCCTCTG 60.304 57.895 5.55 0.00 0.00 3.35
49 50 1.002011 GAAAGAAAGCCCGGCCTCT 60.002 57.895 5.55 5.76 0.00 3.69
50 51 2.399356 CGAAAGAAAGCCCGGCCTC 61.399 63.158 5.55 3.17 0.00 4.70
51 52 2.359975 CGAAAGAAAGCCCGGCCT 60.360 61.111 5.55 0.00 0.00 5.19
52 53 2.359478 TCGAAAGAAAGCCCGGCC 60.359 61.111 5.55 0.00 37.03 6.13
59 60 6.994389 GGTGATACAATCGCATCGAAAGAAAG 60.994 42.308 0.00 0.00 39.99 2.62
60 61 5.220586 GGTGATACAATCGCATCGAAAGAAA 60.221 40.000 0.00 0.00 39.99 2.52
61 62 4.270084 GGTGATACAATCGCATCGAAAGAA 59.730 41.667 0.00 0.00 39.99 2.52
62 63 3.802139 GGTGATACAATCGCATCGAAAGA 59.198 43.478 0.00 0.00 39.99 2.52
63 64 3.804325 AGGTGATACAATCGCATCGAAAG 59.196 43.478 0.00 0.00 39.99 2.62
64 65 3.792401 AGGTGATACAATCGCATCGAAA 58.208 40.909 0.00 0.00 39.99 3.46
65 66 3.381045 GAGGTGATACAATCGCATCGAA 58.619 45.455 0.00 0.00 40.16 3.71
66 67 3.013276 GAGGTGATACAATCGCATCGA 57.987 47.619 3.16 0.00 40.16 3.59
68 69 3.013276 TCGAGGTGATACAATCGCATC 57.987 47.619 5.32 5.32 44.48 3.91
69 70 3.667497 ATCGAGGTGATACAATCGCAT 57.333 42.857 0.00 0.00 41.46 4.73
70 71 4.783764 ATATCGAGGTGATACAATCGCA 57.216 40.909 0.00 0.00 42.24 5.10
71 72 6.730175 AGATATATCGAGGTGATACAATCGC 58.270 40.000 7.08 0.00 42.24 4.58
121 122 5.648960 TCCTTGAAAGTACCAGTTCGTTTTT 59.351 36.000 0.00 0.00 0.00 1.94
122 123 5.187687 TCCTTGAAAGTACCAGTTCGTTTT 58.812 37.500 0.00 0.00 0.00 2.43
123 124 4.773013 TCCTTGAAAGTACCAGTTCGTTT 58.227 39.130 0.00 0.00 0.00 3.60
124 125 4.411256 TCCTTGAAAGTACCAGTTCGTT 57.589 40.909 0.00 0.00 0.00 3.85
140 141 6.879276 ACTCATGATGCAAATAGATCCTTG 57.121 37.500 0.00 0.00 0.00 3.61
150 151 4.097589 TGTGTCACAAACTCATGATGCAAA 59.902 37.500 2.31 0.00 0.00 3.68
152 153 3.212685 TGTGTCACAAACTCATGATGCA 58.787 40.909 2.31 0.00 0.00 3.96
153 154 3.902261 TGTGTCACAAACTCATGATGC 57.098 42.857 2.31 0.00 0.00 3.91
305 309 0.991146 TGCTACCCTTGCAGATCCAA 59.009 50.000 0.00 0.00 35.31 3.53
317 321 1.147153 GAGATGCCAGGTGCTACCC 59.853 63.158 2.18 0.00 39.75 3.69
427 606 3.996480 AGAAGTACCACAAGAGAGCAAC 58.004 45.455 0.00 0.00 0.00 4.17
440 619 2.088950 TTGCGGCAGTAAGAAGTACC 57.911 50.000 1.67 0.00 32.58 3.34
441 620 2.159693 GCTTTGCGGCAGTAAGAAGTAC 60.160 50.000 16.46 0.00 0.00 2.73
482 661 2.089980 CTCTGACATTGCTTTCAGGGG 58.910 52.381 3.69 0.00 39.86 4.79
518 701 4.362279 CATTCAACTATCCCATTTTGGCG 58.638 43.478 0.00 0.00 35.79 5.69
546 730 5.982890 TTTGAAGGGGATCATTCTCAAAC 57.017 39.130 0.00 0.00 35.02 2.93
705 896 8.237267 CAGTCTAAACCAATCCTCATTTTACAC 58.763 37.037 0.00 0.00 0.00 2.90
708 899 9.581289 TTTCAGTCTAAACCAATCCTCATTTTA 57.419 29.630 0.00 0.00 0.00 1.52
782 974 4.073293 TGCTGCTAGGAGCCTATAAAAC 57.927 45.455 30.47 3.47 41.51 2.43
905 1097 3.037549 TGCAGGGTTCAAAAATGGAGTT 58.962 40.909 0.00 0.00 0.00 3.01
947 1140 1.068402 TGTTGCATGCAATCCTGTTCG 60.068 47.619 33.94 0.00 38.28 3.95
990 1183 0.615331 GTGCCTCCATGGTCTTGAGA 59.385 55.000 12.58 0.00 38.35 3.27
1033 1226 2.435372 ACCAACAGAACAAGGAGCAA 57.565 45.000 0.00 0.00 0.00 3.91
1547 1749 7.336176 ACATGGATGCATAGCTACTTCATAATG 59.664 37.037 0.00 9.52 0.00 1.90
1549 1751 6.772605 ACATGGATGCATAGCTACTTCATAA 58.227 36.000 0.00 0.00 0.00 1.90
1557 1768 5.289083 TGTACAACATGGATGCATAGCTA 57.711 39.130 0.00 0.00 0.00 3.32
1562 1773 4.081406 ACACTTGTACAACATGGATGCAT 58.919 39.130 15.99 0.00 0.00 3.96
1567 1786 4.905429 AGCATACACTTGTACAACATGGA 58.095 39.130 15.99 10.19 32.72 3.41
1568 1787 4.937620 AGAGCATACACTTGTACAACATGG 59.062 41.667 15.99 5.75 32.72 3.66
1569 1788 5.639082 TCAGAGCATACACTTGTACAACATG 59.361 40.000 3.59 8.74 32.72 3.21
1570 1789 5.639506 GTCAGAGCATACACTTGTACAACAT 59.360 40.000 3.59 0.00 32.72 2.71
1571 1790 4.988540 GTCAGAGCATACACTTGTACAACA 59.011 41.667 3.59 0.00 32.72 3.33
1572 1791 4.988540 TGTCAGAGCATACACTTGTACAAC 59.011 41.667 3.59 0.00 32.72 3.32
1573 1792 4.988540 GTGTCAGAGCATACACTTGTACAA 59.011 41.667 8.28 8.28 42.17 2.41
1574 1793 4.556233 GTGTCAGAGCATACACTTGTACA 58.444 43.478 0.00 0.00 42.17 2.90
1575 1794 3.608506 CGTGTCAGAGCATACACTTGTAC 59.391 47.826 0.00 0.00 43.04 2.90
1576 1795 3.254903 ACGTGTCAGAGCATACACTTGTA 59.745 43.478 0.00 0.00 43.04 2.41
1577 1796 2.035961 ACGTGTCAGAGCATACACTTGT 59.964 45.455 0.00 0.00 43.04 3.16
1578 1797 2.677199 ACGTGTCAGAGCATACACTTG 58.323 47.619 0.00 0.00 43.04 3.16
1603 1822 1.413445 ACATGCTGCAACAACATGGTT 59.587 42.857 6.36 0.00 40.81 3.67
1606 1825 1.670674 GGGACATGCTGCAACAACATG 60.671 52.381 6.36 13.94 41.82 3.21
1610 1829 0.675083 CTTGGGACATGCTGCAACAA 59.325 50.000 6.36 6.66 39.30 2.83
1755 1988 0.331954 TGAAGACGGAGGAGTAGGCT 59.668 55.000 0.00 0.00 0.00 4.58
1818 2051 1.194121 TGCAGGTGAAGAGGCTGCTA 61.194 55.000 0.00 0.00 41.16 3.49
1860 2093 2.606587 GGCTGGAGGGAGGCAGAAA 61.607 63.158 0.00 0.00 38.40 2.52
1893 2126 4.064388 TCAGAAGCACATTTCATGTCGAA 58.936 39.130 0.00 0.00 42.70 3.71
1932 2250 3.003275 TCATGTTGAAGTTTGGCTCGTTC 59.997 43.478 0.00 0.00 0.00 3.95
1937 2255 6.658816 TGTACATATCATGTTGAAGTTTGGCT 59.341 34.615 0.00 0.00 41.63 4.75
2015 2333 2.106511 AGGCATGTTCAACCTGTAGTGT 59.893 45.455 0.00 0.00 30.82 3.55
2016 2334 2.485426 CAGGCATGTTCAACCTGTAGTG 59.515 50.000 13.58 0.00 44.91 2.74
2017 2335 2.783135 CAGGCATGTTCAACCTGTAGT 58.217 47.619 13.58 0.00 44.91 2.73
2100 2418 4.235762 ACCGCTGTTGCCTGTCGT 62.236 61.111 0.00 0.00 35.36 4.34
2408 2726 1.014044 TAAGGAACAAGAGCGCTGCG 61.014 55.000 18.48 19.17 0.00 5.18
2418 2736 8.689061 CATGGAGAATGATCATTTAAGGAACAA 58.311 33.333 21.57 3.87 38.72 2.83
2424 2742 7.866393 GCCTTTCATGGAGAATGATCATTTAAG 59.134 37.037 21.57 13.34 44.84 1.85
2504 2822 0.673985 TCCACGCCTAAGATCATCCG 59.326 55.000 0.00 0.00 0.00 4.18
2520 2838 0.898320 CGAGCCTCTTCTTCCTTCCA 59.102 55.000 0.00 0.00 0.00 3.53
2526 2844 1.203523 TCTGCTTCGAGCCTCTTCTTC 59.796 52.381 4.73 0.00 41.51 2.87
2633 2963 2.365582 CCTATTTGCACCACCAGTACC 58.634 52.381 0.00 0.00 0.00 3.34
2651 2981 3.990245 AGCCAATATTTACATCTCCCCCT 59.010 43.478 0.00 0.00 0.00 4.79
2778 3120 5.221461 CCCGACAGTGCTATAAAGTTCCTAT 60.221 44.000 0.00 0.00 0.00 2.57
2788 3130 5.538813 AGATTTATCACCCGACAGTGCTATA 59.461 40.000 0.00 0.00 37.68 1.31
2789 3131 4.345257 AGATTTATCACCCGACAGTGCTAT 59.655 41.667 0.00 0.00 37.68 2.97
3004 3362 1.961133 TATTTGGGAACGGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
3005 3363 3.577805 AATATTTGGGAACGGAGGGAG 57.422 47.619 0.00 0.00 0.00 4.30
3006 3364 3.010808 ACAAATATTTGGGAACGGAGGGA 59.989 43.478 27.43 0.00 42.34 4.20
3007 3365 3.361786 ACAAATATTTGGGAACGGAGGG 58.638 45.455 27.43 3.22 42.34 4.30
3008 3366 4.270008 AGACAAATATTTGGGAACGGAGG 58.730 43.478 27.43 3.68 42.34 4.30
3009 3367 5.897377 AAGACAAATATTTGGGAACGGAG 57.103 39.130 27.43 4.34 42.34 4.63
3010 3368 6.007703 AGAAAGACAAATATTTGGGAACGGA 58.992 36.000 27.43 0.00 42.34 4.69
3011 3369 6.267496 AGAAAGACAAATATTTGGGAACGG 57.733 37.500 27.43 5.66 42.34 4.44
3012 3370 7.472543 CCTAGAAAGACAAATATTTGGGAACG 58.527 38.462 27.43 6.31 42.34 3.95
3013 3371 7.093945 TGCCTAGAAAGACAAATATTTGGGAAC 60.094 37.037 27.43 16.80 42.34 3.62
3014 3372 6.951198 TGCCTAGAAAGACAAATATTTGGGAA 59.049 34.615 27.43 11.57 42.34 3.97
3015 3373 6.489603 TGCCTAGAAAGACAAATATTTGGGA 58.510 36.000 27.43 8.88 42.34 4.37
3016 3374 6.773976 TGCCTAGAAAGACAAATATTTGGG 57.226 37.500 27.43 18.18 42.34 4.12
3017 3375 9.305925 GAAATGCCTAGAAAGACAAATATTTGG 57.694 33.333 27.43 12.85 42.34 3.28
3018 3376 9.859427 TGAAATGCCTAGAAAGACAAATATTTG 57.141 29.630 23.60 23.60 43.62 2.32
3022 3380 9.859427 CATTTGAAATGCCTAGAAAGACAAATA 57.141 29.630 4.82 0.00 34.96 1.40
3023 3381 7.820872 CCATTTGAAATGCCTAGAAAGACAAAT 59.179 33.333 12.26 0.00 36.38 2.32
3024 3382 7.015098 TCCATTTGAAATGCCTAGAAAGACAAA 59.985 33.333 12.26 0.00 0.00 2.83
3025 3383 6.493115 TCCATTTGAAATGCCTAGAAAGACAA 59.507 34.615 12.26 0.00 0.00 3.18
3026 3384 6.009589 TCCATTTGAAATGCCTAGAAAGACA 58.990 36.000 12.26 0.00 0.00 3.41
3027 3385 6.071952 TGTCCATTTGAAATGCCTAGAAAGAC 60.072 38.462 12.26 11.27 0.00 3.01
3028 3386 6.009589 TGTCCATTTGAAATGCCTAGAAAGA 58.990 36.000 12.26 0.00 0.00 2.52
3029 3387 6.095377 GTGTCCATTTGAAATGCCTAGAAAG 58.905 40.000 12.26 0.00 0.00 2.62
3030 3388 5.538053 TGTGTCCATTTGAAATGCCTAGAAA 59.462 36.000 12.26 0.00 0.00 2.52
3031 3389 5.076182 TGTGTCCATTTGAAATGCCTAGAA 58.924 37.500 12.26 0.00 0.00 2.10
3032 3390 4.661222 TGTGTCCATTTGAAATGCCTAGA 58.339 39.130 12.26 1.83 0.00 2.43
3033 3391 5.163513 GTTGTGTCCATTTGAAATGCCTAG 58.836 41.667 12.26 0.00 0.00 3.02
3034 3392 4.586421 TGTTGTGTCCATTTGAAATGCCTA 59.414 37.500 12.26 0.00 0.00 3.93
3035 3393 3.387374 TGTTGTGTCCATTTGAAATGCCT 59.613 39.130 12.26 0.00 0.00 4.75
3036 3394 3.726607 TGTTGTGTCCATTTGAAATGCC 58.273 40.909 12.26 5.75 0.00 4.40
3037 3395 5.060816 CGTATGTTGTGTCCATTTGAAATGC 59.939 40.000 12.26 0.87 0.00 3.56
3038 3396 6.377780 TCGTATGTTGTGTCCATTTGAAATG 58.622 36.000 10.84 10.84 0.00 2.32
3039 3397 6.567687 TCGTATGTTGTGTCCATTTGAAAT 57.432 33.333 0.00 0.00 0.00 2.17
3040 3398 6.378710 TTCGTATGTTGTGTCCATTTGAAA 57.621 33.333 0.00 0.00 0.00 2.69
3041 3399 6.016693 ACATTCGTATGTTGTGTCCATTTGAA 60.017 34.615 1.31 0.00 42.29 2.69
3042 3400 5.471797 ACATTCGTATGTTGTGTCCATTTGA 59.528 36.000 1.31 0.00 42.29 2.69
3043 3401 5.698832 ACATTCGTATGTTGTGTCCATTTG 58.301 37.500 1.31 0.00 42.29 2.32
3044 3402 5.957842 ACATTCGTATGTTGTGTCCATTT 57.042 34.783 1.31 0.00 42.29 2.32
3045 3403 7.015226 CATACATTCGTATGTTGTGTCCATT 57.985 36.000 13.12 0.00 46.70 3.16
3046 3404 6.603237 CATACATTCGTATGTTGTGTCCAT 57.397 37.500 13.12 0.00 46.70 3.41
3085 3443 5.412594 TGGAGCAAAATGAGTGAATCTACAC 59.587 40.000 0.00 0.00 40.60 2.90
3086 3444 5.559770 TGGAGCAAAATGAGTGAATCTACA 58.440 37.500 0.00 0.00 0.00 2.74
3087 3445 6.690194 ATGGAGCAAAATGAGTGAATCTAC 57.310 37.500 0.00 0.00 0.00 2.59
3088 3446 7.994911 ACATATGGAGCAAAATGAGTGAATCTA 59.005 33.333 7.80 0.00 0.00 1.98
3089 3447 6.832384 ACATATGGAGCAAAATGAGTGAATCT 59.168 34.615 7.80 0.00 0.00 2.40
3090 3448 6.916387 CACATATGGAGCAAAATGAGTGAATC 59.084 38.462 7.80 0.00 0.00 2.52
3091 3449 6.802608 CACATATGGAGCAAAATGAGTGAAT 58.197 36.000 7.80 0.00 0.00 2.57
3092 3450 6.198650 CACATATGGAGCAAAATGAGTGAA 57.801 37.500 7.80 0.00 0.00 3.18
3093 3451 5.823209 CACATATGGAGCAAAATGAGTGA 57.177 39.130 7.80 0.00 0.00 3.41
3108 3466 7.120285 AGAGATTTCAACAAGTGACCACATATG 59.880 37.037 0.00 0.00 35.39 1.78
3109 3467 7.170965 AGAGATTTCAACAAGTGACCACATAT 58.829 34.615 2.78 0.00 35.39 1.78
3110 3468 6.533730 AGAGATTTCAACAAGTGACCACATA 58.466 36.000 2.78 0.00 35.39 2.29
3111 3469 5.380043 AGAGATTTCAACAAGTGACCACAT 58.620 37.500 2.78 0.00 35.39 3.21
3112 3470 4.780815 AGAGATTTCAACAAGTGACCACA 58.219 39.130 2.78 0.00 35.39 4.17
3113 3471 6.223852 TCTAGAGATTTCAACAAGTGACCAC 58.776 40.000 0.00 0.00 35.39 4.16
3114 3472 6.419484 TCTAGAGATTTCAACAAGTGACCA 57.581 37.500 0.00 0.00 35.39 4.02
3115 3473 7.657761 TCTTTCTAGAGATTTCAACAAGTGACC 59.342 37.037 0.00 0.00 35.39 4.02
3116 3474 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
3117 3475 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
3118 3476 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
3119 3477 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
3131 3489 8.973378 CGCTCCTAAATATTTGTCTTTCTAGAG 58.027 37.037 11.05 4.94 0.00 2.43
3132 3490 7.926555 CCGCTCCTAAATATTTGTCTTTCTAGA 59.073 37.037 11.05 0.00 0.00 2.43
3133 3491 7.926555 TCCGCTCCTAAATATTTGTCTTTCTAG 59.073 37.037 11.05 0.00 0.00 2.43
3134 3492 7.788026 TCCGCTCCTAAATATTTGTCTTTCTA 58.212 34.615 11.05 0.00 0.00 2.10
3135 3493 6.650120 TCCGCTCCTAAATATTTGTCTTTCT 58.350 36.000 11.05 0.00 0.00 2.52
3136 3494 6.017852 CCTCCGCTCCTAAATATTTGTCTTTC 60.018 42.308 11.05 0.00 0.00 2.62
3137 3495 5.823045 CCTCCGCTCCTAAATATTTGTCTTT 59.177 40.000 11.05 0.00 0.00 2.52
3138 3496 5.368989 CCTCCGCTCCTAAATATTTGTCTT 58.631 41.667 11.05 0.00 0.00 3.01
3139 3497 4.202367 CCCTCCGCTCCTAAATATTTGTCT 60.202 45.833 11.05 0.00 0.00 3.41
3140 3498 4.065789 CCCTCCGCTCCTAAATATTTGTC 58.934 47.826 11.05 0.00 0.00 3.18
3141 3499 3.714798 TCCCTCCGCTCCTAAATATTTGT 59.285 43.478 11.05 0.00 0.00 2.83
3142 3500 4.202367 ACTCCCTCCGCTCCTAAATATTTG 60.202 45.833 11.05 1.40 0.00 2.32
3143 3501 3.974642 ACTCCCTCCGCTCCTAAATATTT 59.025 43.478 5.89 5.89 0.00 1.40
3144 3502 3.588569 ACTCCCTCCGCTCCTAAATATT 58.411 45.455 0.00 0.00 0.00 1.28
3145 3503 3.261818 ACTCCCTCCGCTCCTAAATAT 57.738 47.619 0.00 0.00 0.00 1.28
3146 3504 2.769602 ACTCCCTCCGCTCCTAAATA 57.230 50.000 0.00 0.00 0.00 1.40
3147 3505 2.177233 TCTACTCCCTCCGCTCCTAAAT 59.823 50.000 0.00 0.00 0.00 1.40
3148 3506 1.567649 TCTACTCCCTCCGCTCCTAAA 59.432 52.381 0.00 0.00 0.00 1.85
3149 3507 1.219773 TCTACTCCCTCCGCTCCTAA 58.780 55.000 0.00 0.00 0.00 2.69
3150 3508 1.447099 ATCTACTCCCTCCGCTCCTA 58.553 55.000 0.00 0.00 0.00 2.94
3151 3509 0.558712 AATCTACTCCCTCCGCTCCT 59.441 55.000 0.00 0.00 0.00 3.69
3152 3510 0.963225 GAATCTACTCCCTCCGCTCC 59.037 60.000 0.00 0.00 0.00 4.70
3153 3511 0.594110 CGAATCTACTCCCTCCGCTC 59.406 60.000 0.00 0.00 0.00 5.03
3154 3512 0.106619 ACGAATCTACTCCCTCCGCT 60.107 55.000 0.00 0.00 0.00 5.52
3155 3513 1.266446 GTACGAATCTACTCCCTCCGC 59.734 57.143 0.00 0.00 0.00 5.54
3156 3514 2.569059 TGTACGAATCTACTCCCTCCG 58.431 52.381 0.00 0.00 0.00 4.63
3157 3515 4.023021 GTCATGTACGAATCTACTCCCTCC 60.023 50.000 0.00 0.00 0.00 4.30
3158 3516 4.822896 AGTCATGTACGAATCTACTCCCTC 59.177 45.833 0.00 0.00 0.00 4.30
3159 3517 4.794334 AGTCATGTACGAATCTACTCCCT 58.206 43.478 0.00 0.00 0.00 4.20
3160 3518 5.067413 TCAAGTCATGTACGAATCTACTCCC 59.933 44.000 0.00 0.00 0.00 4.30
3161 3519 6.132791 TCAAGTCATGTACGAATCTACTCC 57.867 41.667 0.00 0.00 0.00 3.85
3162 3520 6.197468 GCTTCAAGTCATGTACGAATCTACTC 59.803 42.308 0.00 0.00 0.00 2.59
3163 3521 6.037098 GCTTCAAGTCATGTACGAATCTACT 58.963 40.000 0.00 0.00 0.00 2.57
3164 3522 5.805486 TGCTTCAAGTCATGTACGAATCTAC 59.195 40.000 0.00 0.00 0.00 2.59
3165 3523 5.805486 GTGCTTCAAGTCATGTACGAATCTA 59.195 40.000 0.00 0.00 0.00 1.98
3166 3524 4.627467 GTGCTTCAAGTCATGTACGAATCT 59.373 41.667 0.00 0.00 0.00 2.40
3226 3587 8.110860 TCTCTGAAATTCCTGTGTTATTTTCC 57.889 34.615 0.00 0.00 0.00 3.13
3331 3692 7.492669 CGCTATTCCATAGGAAATACAGTATGG 59.507 40.741 2.16 0.00 45.41 2.74
3376 3737 0.471591 TGGTTGCTGGATTTTGGCCT 60.472 50.000 3.32 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.