Multiple sequence alignment - TraesCS7D01G451700

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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 TraesCS7D01G451700 chr7D 100.000 5436 0 0 1 5436 571477950 571483385 0.000000e+00 10039
1 TraesCS7D01G451700 chr7D 84.598 3097 245 115 612 3614 571977628 571974670 0.000000e+00 2863
2 TraesCS7D01G451700 chr7D 95.108 511 21 2 3942 4449 571974067 571973558 0.000000e+00 802
3 TraesCS7D01G451700 chr7D 80.620 387 31 21 232 611 571978248 571977899 5.400000e-65 259
4 TraesCS7D01G451700 chr7A 95.158 2664 71 22 2178 4806 660496470 660499110 0.000000e+00 4152
5 TraesCS7D01G451700 chr7A 87.167 2174 95 70 97 2137 660494353 660496475 0.000000e+00 2300
6 TraesCS7D01G451700 chr7A 86.796 1492 100 46 2166 3617 661280127 661278693 0.000000e+00 1574
7 TraesCS7D01G451700 chr7A 81.506 1979 147 90 228 2124 661281986 661280145 0.000000e+00 1424
8 TraesCS7D01G451700 chr7A 93.127 582 32 6 3870 4450 661278120 661277546 0.000000e+00 846
9 TraesCS7D01G451700 chr7A 91.755 376 17 6 4807 5181 660499666 660500028 1.350000e-140 510
10 TraesCS7D01G451700 chr7A 89.015 264 10 3 5175 5436 660500265 660500511 5.290000e-80 309
11 TraesCS7D01G451700 chr7A 94.340 106 4 1 3766 3871 661278431 661278328 1.570000e-35 161
12 TraesCS7D01G451700 chr7B 94.739 2680 74 26 2164 4806 627612185 627614834 0.000000e+00 4106
13 TraesCS7D01G451700 chr7B 91.139 2054 61 49 193 2152 627610179 627612205 0.000000e+00 2673
14 TraesCS7D01G451700 chr7B 85.607 1605 126 50 2180 3726 628735379 628733822 0.000000e+00 1587
15 TraesCS7D01G451700 chr7B 82.120 1991 139 108 239 2124 628737278 628735400 0.000000e+00 1504
16 TraesCS7D01G451700 chr7B 91.796 646 32 5 4807 5436 627615389 627616029 0.000000e+00 880
17 TraesCS7D01G451700 chr7B 92.650 585 32 7 3870 4450 628733415 628732838 0.000000e+00 832
18 TraesCS7D01G451700 chr7B 91.176 102 5 3 3766 3867 628733695 628733598 9.500000e-28 135
19 TraesCS7D01G451700 chr2A 86.400 125 11 6 1007 1126 708058378 708058501 1.230000e-26 132


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 TraesCS7D01G451700 chr7D 571477950 571483385 5435 False 10039.00 10039 100.000000 1 5436 1 chr7D.!!$F1 5435
1 TraesCS7D01G451700 chr7D 571973558 571978248 4690 True 1308.00 2863 86.775333 232 4449 3 chr7D.!!$R1 4217
2 TraesCS7D01G451700 chr7A 660494353 660500511 6158 False 1817.75 4152 90.773750 97 5436 4 chr7A.!!$F1 5339
3 TraesCS7D01G451700 chr7A 661277546 661281986 4440 True 1001.25 1574 88.942250 228 4450 4 chr7A.!!$R1 4222
4 TraesCS7D01G451700 chr7B 627610179 627616029 5850 False 2553.00 4106 92.558000 193 5436 3 chr7B.!!$F1 5243
5 TraesCS7D01G451700 chr7B 628732838 628737278 4440 True 1014.50 1587 87.888250 239 4450 4 chr7B.!!$R1 4211

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
162 164 0.034186 TTTCCCCATCTCGCTGCATT 60.034 50.0 0.00 0.0 0.00 3.56 F
880 1258 0.034337 GTTGGTTCCACTGCCGTCTA 59.966 55.0 0.00 0.0 0.00 2.59 F
1829 2337 0.182537 TAAGGTGGCTGTGTGCAACT 59.817 50.0 0.00 0.0 44.85 3.16 F
2146 2699 0.185901 CTGGAGGGAGGGAGAGAGAG 59.814 65.0 0.00 0.0 0.00 3.20 F
2147 2700 0.253868 TGGAGGGAGGGAGAGAGAGA 60.254 60.0 0.00 0.0 0.00 3.10 F
4121 5093 0.329261 TGCCTTTGACCATCCTGGAG 59.671 55.0 1.52 0.0 40.96 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2131 2684 1.010793 TCTCTCTCTCTCTCCCTCCCT 59.989 57.143 0.00 0.00 0.00 4.20 R
2133 2686 2.370189 CTCTCTCTCTCTCTCTCCCTCC 59.630 59.091 0.00 0.00 0.00 4.30 R
3502 4110 0.749454 GATGAGTTGGCATTCCGGCT 60.749 55.000 0.00 0.00 41.89 5.52 R
4121 5093 1.010462 GGTTTTGCACCGTCGACAC 60.010 57.895 17.16 3.02 35.12 3.67 R
4186 5158 1.524621 GGCCGATGATGACAGGTGG 60.525 63.158 0.00 0.00 0.00 4.61 R
5013 6550 1.282157 CAGGAAAGTACCCCCTTGGAG 59.718 57.143 0.00 0.00 38.00 3.86 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 5.568620 ACTATCATCCTAACCATCCAACC 57.431 43.478 0.00 0.00 0.00 3.77
25 26 4.975147 ACTATCATCCTAACCATCCAACCA 59.025 41.667 0.00 0.00 0.00 3.67
26 27 3.644966 TCATCCTAACCATCCAACCAC 57.355 47.619 0.00 0.00 0.00 4.16
27 28 2.916269 TCATCCTAACCATCCAACCACA 59.084 45.455 0.00 0.00 0.00 4.17
28 29 3.527253 TCATCCTAACCATCCAACCACAT 59.473 43.478 0.00 0.00 0.00 3.21
29 30 4.724293 TCATCCTAACCATCCAACCACATA 59.276 41.667 0.00 0.00 0.00 2.29
30 31 5.372363 TCATCCTAACCATCCAACCACATAT 59.628 40.000 0.00 0.00 0.00 1.78
31 32 5.725551 TCCTAACCATCCAACCACATATT 57.274 39.130 0.00 0.00 0.00 1.28
32 33 5.445069 TCCTAACCATCCAACCACATATTG 58.555 41.667 0.00 0.00 0.00 1.90
33 34 5.044476 TCCTAACCATCCAACCACATATTGT 60.044 40.000 0.00 0.00 0.00 2.71
34 35 5.656416 CCTAACCATCCAACCACATATTGTT 59.344 40.000 0.00 0.00 0.00 2.83
35 36 5.659440 AACCATCCAACCACATATTGTTC 57.341 39.130 0.00 0.00 0.00 3.18
36 37 4.671831 ACCATCCAACCACATATTGTTCA 58.328 39.130 0.00 0.00 0.00 3.18
37 38 4.462483 ACCATCCAACCACATATTGTTCAC 59.538 41.667 0.00 0.00 0.00 3.18
38 39 4.438608 CCATCCAACCACATATTGTTCACG 60.439 45.833 0.00 0.00 0.00 4.35
39 40 2.486203 TCCAACCACATATTGTTCACGC 59.514 45.455 0.00 0.00 0.00 5.34
40 41 2.227626 CCAACCACATATTGTTCACGCA 59.772 45.455 0.00 0.00 0.00 5.24
41 42 3.233578 CAACCACATATTGTTCACGCAC 58.766 45.455 0.00 0.00 0.00 5.34
42 43 1.463056 ACCACATATTGTTCACGCACG 59.537 47.619 0.00 0.00 0.00 5.34
43 44 1.202020 CCACATATTGTTCACGCACGG 60.202 52.381 0.00 0.00 0.00 4.94
44 45 1.463056 CACATATTGTTCACGCACGGT 59.537 47.619 0.00 0.00 0.00 4.83
45 46 2.095969 CACATATTGTTCACGCACGGTT 60.096 45.455 0.00 0.00 0.00 4.44
46 47 3.123790 CACATATTGTTCACGCACGGTTA 59.876 43.478 0.00 0.00 0.00 2.85
47 48 3.936453 ACATATTGTTCACGCACGGTTAT 59.064 39.130 0.00 0.00 0.00 1.89
48 49 4.393680 ACATATTGTTCACGCACGGTTATT 59.606 37.500 0.00 0.00 0.00 1.40
49 50 5.581479 ACATATTGTTCACGCACGGTTATTA 59.419 36.000 0.00 0.00 0.00 0.98
50 51 6.092396 ACATATTGTTCACGCACGGTTATTAA 59.908 34.615 0.00 0.00 0.00 1.40
51 52 3.791993 TGTTCACGCACGGTTATTAAC 57.208 42.857 0.00 0.00 0.00 2.01
52 53 2.155347 TGTTCACGCACGGTTATTAACG 59.845 45.455 0.64 0.00 0.00 3.18
53 54 2.344504 TCACGCACGGTTATTAACGA 57.655 45.000 0.00 0.00 0.00 3.85
54 55 2.252747 TCACGCACGGTTATTAACGAG 58.747 47.619 0.00 0.00 0.00 4.18
55 56 1.987770 CACGCACGGTTATTAACGAGT 59.012 47.619 0.00 1.34 0.00 4.18
56 57 2.409378 CACGCACGGTTATTAACGAGTT 59.591 45.455 0.00 0.00 0.00 3.01
57 58 3.607641 CACGCACGGTTATTAACGAGTTA 59.392 43.478 0.00 0.00 0.00 2.24
58 59 4.266029 CACGCACGGTTATTAACGAGTTAT 59.734 41.667 0.00 0.00 0.00 1.89
59 60 5.455201 CACGCACGGTTATTAACGAGTTATA 59.545 40.000 0.00 0.00 0.00 0.98
60 61 6.142798 CACGCACGGTTATTAACGAGTTATAT 59.857 38.462 0.00 0.00 0.00 0.86
61 62 6.142798 ACGCACGGTTATTAACGAGTTATATG 59.857 38.462 0.00 0.00 0.00 1.78
62 63 6.360414 CGCACGGTTATTAACGAGTTATATGA 59.640 38.462 0.00 0.00 0.00 2.15
63 64 7.061441 CGCACGGTTATTAACGAGTTATATGAT 59.939 37.037 0.00 0.00 0.00 2.45
64 65 8.160342 GCACGGTTATTAACGAGTTATATGATG 58.840 37.037 0.00 0.00 0.00 3.07
65 66 8.644619 CACGGTTATTAACGAGTTATATGATGG 58.355 37.037 0.00 0.00 0.00 3.51
66 67 8.579006 ACGGTTATTAACGAGTTATATGATGGA 58.421 33.333 0.00 0.00 0.00 3.41
67 68 9.073368 CGGTTATTAACGAGTTATATGATGGAG 57.927 37.037 0.00 0.00 0.00 3.86
68 69 9.924650 GGTTATTAACGAGTTATATGATGGAGT 57.075 33.333 0.00 0.00 0.00 3.85
72 73 8.642908 TTAACGAGTTATATGATGGAGTGTTG 57.357 34.615 0.00 0.00 0.00 3.33
73 74 5.601662 ACGAGTTATATGATGGAGTGTTGG 58.398 41.667 0.00 0.00 0.00 3.77
74 75 5.128827 ACGAGTTATATGATGGAGTGTTGGT 59.871 40.000 0.00 0.00 0.00 3.67
75 76 5.692204 CGAGTTATATGATGGAGTGTTGGTC 59.308 44.000 0.00 0.00 0.00 4.02
76 77 5.601662 AGTTATATGATGGAGTGTTGGTCG 58.398 41.667 0.00 0.00 0.00 4.79
77 78 5.362717 AGTTATATGATGGAGTGTTGGTCGA 59.637 40.000 0.00 0.00 0.00 4.20
78 79 4.963318 ATATGATGGAGTGTTGGTCGAT 57.037 40.909 0.00 0.00 0.00 3.59
79 80 2.385013 TGATGGAGTGTTGGTCGATG 57.615 50.000 0.00 0.00 0.00 3.84
80 81 1.899142 TGATGGAGTGTTGGTCGATGA 59.101 47.619 0.00 0.00 0.00 2.92
81 82 2.271800 GATGGAGTGTTGGTCGATGAC 58.728 52.381 0.00 0.00 0.00 3.06
82 83 1.044611 TGGAGTGTTGGTCGATGACA 58.955 50.000 0.00 0.00 33.68 3.58
83 84 1.623311 TGGAGTGTTGGTCGATGACAT 59.377 47.619 0.00 0.00 33.68 3.06
84 85 2.002586 GGAGTGTTGGTCGATGACATG 58.997 52.381 0.00 0.00 33.68 3.21
85 86 2.002586 GAGTGTTGGTCGATGACATGG 58.997 52.381 0.00 0.00 33.68 3.66
86 87 1.623311 AGTGTTGGTCGATGACATGGA 59.377 47.619 0.00 0.00 33.68 3.41
87 88 1.732259 GTGTTGGTCGATGACATGGAC 59.268 52.381 19.19 19.19 37.29 4.02
88 89 1.346068 TGTTGGTCGATGACATGGACA 59.654 47.619 25.87 13.28 39.43 4.02
89 90 2.002586 GTTGGTCGATGACATGGACAG 58.997 52.381 25.87 0.31 39.43 3.51
90 91 1.266178 TGGTCGATGACATGGACAGT 58.734 50.000 25.87 0.00 39.43 3.55
91 92 1.623311 TGGTCGATGACATGGACAGTT 59.377 47.619 25.87 0.00 39.43 3.16
92 93 2.829120 TGGTCGATGACATGGACAGTTA 59.171 45.455 25.87 10.86 39.43 2.24
93 94 3.119137 TGGTCGATGACATGGACAGTTAG 60.119 47.826 25.87 0.00 39.43 2.34
94 95 3.119101 GGTCGATGACATGGACAGTTAGT 60.119 47.826 25.87 0.00 39.43 2.24
95 96 4.097437 GGTCGATGACATGGACAGTTAGTA 59.903 45.833 25.87 0.00 39.43 1.82
96 97 5.393787 GGTCGATGACATGGACAGTTAGTAA 60.394 44.000 25.87 0.00 39.43 2.24
97 98 6.097356 GTCGATGACATGGACAGTTAGTAAA 58.903 40.000 21.61 0.00 37.84 2.01
98 99 6.588756 GTCGATGACATGGACAGTTAGTAAAA 59.411 38.462 21.61 0.00 37.84 1.52
99 100 7.277981 GTCGATGACATGGACAGTTAGTAAAAT 59.722 37.037 21.61 0.00 37.84 1.82
100 101 8.471609 TCGATGACATGGACAGTTAGTAAAATA 58.528 33.333 0.00 0.00 0.00 1.40
101 102 9.261180 CGATGACATGGACAGTTAGTAAAATAT 57.739 33.333 0.00 0.00 0.00 1.28
104 105 9.378551 TGACATGGACAGTTAGTAAAATATCAC 57.621 33.333 0.00 0.00 0.00 3.06
105 106 9.378551 GACATGGACAGTTAGTAAAATATCACA 57.621 33.333 0.00 0.00 0.00 3.58
106 107 9.162764 ACATGGACAGTTAGTAAAATATCACAC 57.837 33.333 0.00 0.00 0.00 3.82
107 108 9.161629 CATGGACAGTTAGTAAAATATCACACA 57.838 33.333 0.00 0.00 0.00 3.72
141 143 6.731467 AGATGCTCTAAACCAAATCCCTAAA 58.269 36.000 0.00 0.00 0.00 1.85
142 144 7.182060 AGATGCTCTAAACCAAATCCCTAAAA 58.818 34.615 0.00 0.00 0.00 1.52
145 147 8.201242 TGCTCTAAACCAAATCCCTAAAATTT 57.799 30.769 0.00 0.00 0.00 1.82
149 151 5.772393 AACCAAATCCCTAAAATTTCCCC 57.228 39.130 0.00 0.00 0.00 4.81
150 152 4.769050 ACCAAATCCCTAAAATTTCCCCA 58.231 39.130 0.00 0.00 0.00 4.96
162 164 0.034186 TTTCCCCATCTCGCTGCATT 60.034 50.000 0.00 0.00 0.00 3.56
163 165 0.034186 TTCCCCATCTCGCTGCATTT 60.034 50.000 0.00 0.00 0.00 2.32
164 166 0.749091 TCCCCATCTCGCTGCATTTG 60.749 55.000 0.00 0.00 0.00 2.32
165 167 1.033746 CCCCATCTCGCTGCATTTGT 61.034 55.000 0.00 0.00 0.00 2.83
166 168 0.099968 CCCATCTCGCTGCATTTGTG 59.900 55.000 0.00 0.00 0.00 3.33
167 169 1.089112 CCATCTCGCTGCATTTGTGA 58.911 50.000 0.00 0.00 0.00 3.58
168 170 1.469703 CCATCTCGCTGCATTTGTGAA 59.530 47.619 0.00 0.00 0.00 3.18
169 171 2.512885 CATCTCGCTGCATTTGTGAAC 58.487 47.619 0.00 0.00 0.00 3.18
188 190 1.425267 CTGTGAACACACGCACGGAA 61.425 55.000 3.39 0.00 42.56 4.30
189 191 1.011574 GTGAACACACGCACGGAAC 60.012 57.895 0.00 0.00 0.00 3.62
321 330 1.269778 CCGCAAAGCCGAGAGATATGA 60.270 52.381 0.00 0.00 0.00 2.15
322 331 2.611473 CCGCAAAGCCGAGAGATATGAT 60.611 50.000 0.00 0.00 0.00 2.45
323 332 3.367395 CCGCAAAGCCGAGAGATATGATA 60.367 47.826 0.00 0.00 0.00 2.15
324 333 4.428209 CGCAAAGCCGAGAGATATGATAT 58.572 43.478 0.00 0.00 0.00 1.63
325 334 4.267214 CGCAAAGCCGAGAGATATGATATG 59.733 45.833 0.00 0.00 0.00 1.78
682 1002 0.259356 AGTAGAGCCGTAGCCTTCCT 59.741 55.000 0.00 0.00 41.25 3.36
683 1003 0.669619 GTAGAGCCGTAGCCTTCCTC 59.330 60.000 0.00 0.00 41.25 3.71
684 1004 0.467659 TAGAGCCGTAGCCTTCCTCC 60.468 60.000 0.00 0.00 41.25 4.30
687 1007 3.537874 CCGTAGCCTTCCTCCCCG 61.538 72.222 0.00 0.00 0.00 5.73
693 1030 3.157949 CCTTCCTCCCCGCTCTCC 61.158 72.222 0.00 0.00 0.00 3.71
844 1217 4.790962 CATCGGTGGCTGGCTGCT 62.791 66.667 16.14 0.00 42.39 4.24
877 1255 1.822186 GTGTTGGTTCCACTGCCGT 60.822 57.895 0.00 0.00 0.00 5.68
879 1257 1.227853 GTTGGTTCCACTGCCGTCT 60.228 57.895 0.00 0.00 0.00 4.18
880 1258 0.034337 GTTGGTTCCACTGCCGTCTA 59.966 55.000 0.00 0.00 0.00 2.59
1102 1491 1.207593 CTGGCAAAGAAACTCGGCG 59.792 57.895 0.00 0.00 0.00 6.46
1103 1492 2.187599 CTGGCAAAGAAACTCGGCGG 62.188 60.000 7.21 0.00 0.00 6.13
1104 1493 2.126850 GCAAAGAAACTCGGCGGC 60.127 61.111 7.21 0.00 0.00 6.53
1264 1679 3.788797 GCTTAATTACACCAGCATGCGTC 60.789 47.826 13.01 0.00 32.17 5.19
1403 1851 7.702348 GGCTGCTGATTCGTAATTATTCTTTTT 59.298 33.333 0.00 0.00 0.00 1.94
1488 1962 3.495377 CGGAACTAACAACGATTTGGTCA 59.505 43.478 0.00 0.00 37.00 4.02
1575 2067 6.830873 AAAGAAGAAATCACATCCCAGAAG 57.169 37.500 0.00 0.00 0.00 2.85
1781 2289 0.806868 CTTTCCGCTCATGCATGTGT 59.193 50.000 25.43 0.00 39.64 3.72
1782 2290 2.009051 CTTTCCGCTCATGCATGTGTA 58.991 47.619 25.43 10.75 39.64 2.90
1783 2291 1.368641 TTCCGCTCATGCATGTGTAC 58.631 50.000 25.43 12.56 39.64 2.90
1824 2332 2.489329 CCAAATCTAAGGTGGCTGTGTG 59.511 50.000 0.00 0.00 0.00 3.82
1825 2333 1.826385 AATCTAAGGTGGCTGTGTGC 58.174 50.000 0.00 0.00 41.94 4.57
1826 2334 0.692476 ATCTAAGGTGGCTGTGTGCA 59.308 50.000 0.00 0.00 45.15 4.57
1827 2335 0.472044 TCTAAGGTGGCTGTGTGCAA 59.528 50.000 0.00 0.00 45.15 4.08
1828 2336 0.593128 CTAAGGTGGCTGTGTGCAAC 59.407 55.000 0.00 0.00 44.75 4.17
1829 2337 0.182537 TAAGGTGGCTGTGTGCAACT 59.817 50.000 0.00 0.00 44.85 3.16
1830 2338 1.386525 AAGGTGGCTGTGTGCAACTG 61.387 55.000 0.00 0.00 44.85 3.16
1831 2339 2.120909 GGTGGCTGTGTGCAACTGT 61.121 57.895 0.00 0.00 44.85 3.55
1915 2431 6.128200 CCACGACAATTTCAATCTCATCAAGA 60.128 38.462 0.00 0.00 38.72 3.02
2115 2662 0.894141 CAGAGTGAGACCACCTCCAG 59.106 60.000 0.00 0.00 44.22 3.86
2130 2683 5.395768 CCACCTCCAGATTAACTAGAACTGG 60.396 48.000 0.00 0.00 46.33 4.00
2136 2689 6.155475 CAGATTAACTAGAACTGGAGGGAG 57.845 45.833 0.00 0.00 0.00 4.30
2137 2690 5.069781 CAGATTAACTAGAACTGGAGGGAGG 59.930 48.000 0.00 0.00 0.00 4.30
2139 2692 1.394532 ACTAGAACTGGAGGGAGGGA 58.605 55.000 0.00 0.00 0.00 4.20
2140 2693 1.289530 ACTAGAACTGGAGGGAGGGAG 59.710 57.143 0.00 0.00 0.00 4.30
2141 2694 1.571457 CTAGAACTGGAGGGAGGGAGA 59.429 57.143 0.00 0.00 0.00 3.71
2143 2696 0.336737 GAACTGGAGGGAGGGAGAGA 59.663 60.000 0.00 0.00 0.00 3.10
2144 2697 0.338120 AACTGGAGGGAGGGAGAGAG 59.662 60.000 0.00 0.00 0.00 3.20
2145 2698 0.553862 ACTGGAGGGAGGGAGAGAGA 60.554 60.000 0.00 0.00 0.00 3.10
2146 2699 0.185901 CTGGAGGGAGGGAGAGAGAG 59.814 65.000 0.00 0.00 0.00 3.20
2147 2700 0.253868 TGGAGGGAGGGAGAGAGAGA 60.254 60.000 0.00 0.00 0.00 3.10
2148 2701 0.478507 GGAGGGAGGGAGAGAGAGAG 59.521 65.000 0.00 0.00 0.00 3.20
2149 2702 1.518367 GAGGGAGGGAGAGAGAGAGA 58.482 60.000 0.00 0.00 0.00 3.10
2150 2703 1.421646 GAGGGAGGGAGAGAGAGAGAG 59.578 61.905 0.00 0.00 0.00 3.20
2151 2704 1.010793 AGGGAGGGAGAGAGAGAGAGA 59.989 57.143 0.00 0.00 0.00 3.10
2152 2705 1.421646 GGGAGGGAGAGAGAGAGAGAG 59.578 61.905 0.00 0.00 0.00 3.20
2153 2706 2.408565 GGAGGGAGAGAGAGAGAGAGA 58.591 57.143 0.00 0.00 0.00 3.10
2154 2707 2.370189 GGAGGGAGAGAGAGAGAGAGAG 59.630 59.091 0.00 0.00 0.00 3.20
2155 2708 3.309296 GAGGGAGAGAGAGAGAGAGAGA 58.691 54.545 0.00 0.00 0.00 3.10
2156 2709 3.312890 AGGGAGAGAGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
2157 2710 3.051803 AGGGAGAGAGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
2158 2711 3.323403 GGGAGAGAGAGAGAGAGAGAGAG 59.677 56.522 0.00 0.00 0.00 3.20
2159 2712 4.219115 GGAGAGAGAGAGAGAGAGAGAGA 58.781 52.174 0.00 0.00 0.00 3.10
2160 2713 4.280677 GGAGAGAGAGAGAGAGAGAGAGAG 59.719 54.167 0.00 0.00 0.00 3.20
2161 2714 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
2162 2715 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2201 2757 6.002704 AGAGAGATCAAATTCTTGCACAGTT 58.997 36.000 0.00 0.00 32.14 3.16
2336 2897 1.299648 CATCCTTGTCGCCTTCCCA 59.700 57.895 0.00 0.00 0.00 4.37
2919 3509 7.124599 TCCCTGATTGTATTCAGAAATTGCATT 59.875 33.333 3.10 0.00 44.88 3.56
3357 3963 5.057149 GCACACAAACTATATGTCTAGGGG 58.943 45.833 0.00 0.00 0.00 4.79
3555 4163 4.049186 GTGCAGTGGATAATGTAGTACCG 58.951 47.826 0.00 0.00 0.00 4.02
3579 4189 3.566742 CAGCCAGCTCATTATACATGCAA 59.433 43.478 0.00 0.00 0.00 4.08
3600 4210 4.153673 AGCCCTCTCAATTCAAGATCTG 57.846 45.455 0.00 0.00 0.00 2.90
3607 4217 4.408270 TCTCAATTCAAGATCTGGCTAGCT 59.592 41.667 15.72 0.00 0.00 3.32
3608 4218 5.600069 TCTCAATTCAAGATCTGGCTAGCTA 59.400 40.000 15.72 7.83 0.00 3.32
3609 4219 5.851720 TCAATTCAAGATCTGGCTAGCTAG 58.148 41.667 21.31 21.31 0.00 3.42
3643 4255 7.227049 AGCTATAGAGAGTAGAATTCAAGCC 57.773 40.000 8.44 0.00 0.00 4.35
3645 4257 6.015010 GCTATAGAGAGTAGAATTCAAGCCCA 60.015 42.308 8.44 0.00 0.00 5.36
3652 4277 8.829373 AGAGTAGAATTCAAGCCCAAAATAAT 57.171 30.769 8.44 0.00 0.00 1.28
3719 4366 5.359576 TGCAAGATGTCTAAAAACTGGTGTT 59.640 36.000 0.00 0.00 38.16 3.32
4121 5093 0.329261 TGCCTTTGACCATCCTGGAG 59.671 55.000 1.52 0.00 40.96 3.86
4186 5158 2.696125 TCCAATGGCCCCTCCTCC 60.696 66.667 0.00 0.00 35.26 4.30
4195 5167 2.122729 CCCTCCTCCCACCTGTCA 59.877 66.667 0.00 0.00 0.00 3.58
4198 5170 0.618680 CCTCCTCCCACCTGTCATCA 60.619 60.000 0.00 0.00 0.00 3.07
4251 5223 2.520260 GCCCATGGCTGGTGATCC 60.520 66.667 6.09 0.00 46.69 3.36
4421 5393 4.153655 CACAGATGTGGAACTCACTCAATG 59.846 45.833 5.02 0.00 46.20 2.82
4460 5433 6.378280 GGGATATTATTGCTACCAATCAAGGG 59.622 42.308 0.00 0.00 41.68 3.95
4617 5591 6.353516 GGGTCAGAGGAGAGAGCTGATATATA 60.354 46.154 0.00 0.00 40.40 0.86
4734 5714 9.912634 AATATATCGAAGCATAAATTTTGTGGG 57.087 29.630 7.82 0.00 0.00 4.61
4795 5775 6.554334 TTCTTGTGTATTAGTTTGGTCTGC 57.446 37.500 0.00 0.00 0.00 4.26
4810 6346 3.505680 TGGTCTGCGCAAATGATTTAAGT 59.494 39.130 13.05 0.00 0.00 2.24
4909 6446 5.877012 CACAAGCCCACCAGCTAATATATAG 59.123 44.000 0.00 0.00 44.11 1.31
4977 6514 7.837863 ACTTTGATTTGCATTCATGATTCTCT 58.162 30.769 0.00 0.00 0.00 3.10
4986 6523 5.698545 GCATTCATGATTCTCTACCACTACC 59.301 44.000 0.00 0.00 0.00 3.18
5013 6550 6.747659 AACTAATCATTGTGCACGAAAAAC 57.252 33.333 11.67 0.00 0.00 2.43
5052 6589 8.909423 TTTCCTGGGAAATCCTTATTGTAATT 57.091 30.769 10.38 0.00 38.95 1.40
5054 6591 6.838612 TCCTGGGAAATCCTTATTGTAATTGG 59.161 38.462 0.00 0.00 36.20 3.16
5060 6597 9.136323 GGAAATCCTTATTGTAATTGGTCTGAT 57.864 33.333 0.00 0.00 0.00 2.90
5126 6664 4.012374 CCTAACCAATGAACTCATGCAGT 58.988 43.478 0.00 0.00 36.56 4.40
5155 6693 8.262601 ACCTGTACTTATCATGAACCATATGA 57.737 34.615 3.65 0.00 38.76 2.15
5232 7013 4.021916 GAGTAGCTGGTAGGTGGTTCTTA 58.978 47.826 0.00 0.00 0.00 2.10
5334 7115 4.108699 AGCTCAGATCTTGTCTCTTTCG 57.891 45.455 0.00 0.00 34.00 3.46
5414 7209 0.031178 CCTCTGCACAGTGTTTTGCC 59.969 55.000 1.61 0.00 38.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.617784 TGGTTGGATGGTTAGGATGATAGTAA 59.382 38.462 0.00 0.00 0.00 2.24
1 2 6.042781 GTGGTTGGATGGTTAGGATGATAGTA 59.957 42.308 0.00 0.00 0.00 1.82
3 4 5.163205 TGTGGTTGGATGGTTAGGATGATAG 60.163 44.000 0.00 0.00 0.00 2.08
4 5 4.724293 TGTGGTTGGATGGTTAGGATGATA 59.276 41.667 0.00 0.00 0.00 2.15
5 6 3.527253 TGTGGTTGGATGGTTAGGATGAT 59.473 43.478 0.00 0.00 0.00 2.45
6 7 2.916269 TGTGGTTGGATGGTTAGGATGA 59.084 45.455 0.00 0.00 0.00 2.92
7 8 3.364460 TGTGGTTGGATGGTTAGGATG 57.636 47.619 0.00 0.00 0.00 3.51
8 9 5.930209 ATATGTGGTTGGATGGTTAGGAT 57.070 39.130 0.00 0.00 0.00 3.24
9 10 5.044476 ACAATATGTGGTTGGATGGTTAGGA 60.044 40.000 0.00 0.00 0.00 2.94
11 12 6.376864 TGAACAATATGTGGTTGGATGGTTAG 59.623 38.462 0.00 0.00 0.00 2.34
12 13 6.151985 GTGAACAATATGTGGTTGGATGGTTA 59.848 38.462 0.00 0.00 0.00 2.85
14 15 4.462483 GTGAACAATATGTGGTTGGATGGT 59.538 41.667 0.00 0.00 0.00 3.55
15 16 4.438608 CGTGAACAATATGTGGTTGGATGG 60.439 45.833 0.00 0.00 0.00 3.51
16 17 4.661125 CGTGAACAATATGTGGTTGGATG 58.339 43.478 0.00 0.00 0.00 3.51
17 18 3.128589 GCGTGAACAATATGTGGTTGGAT 59.871 43.478 0.00 0.00 0.00 3.41
18 19 2.486203 GCGTGAACAATATGTGGTTGGA 59.514 45.455 0.00 0.00 0.00 3.53
19 20 2.227626 TGCGTGAACAATATGTGGTTGG 59.772 45.455 0.00 0.00 0.00 3.77
20 21 3.233578 GTGCGTGAACAATATGTGGTTG 58.766 45.455 0.00 0.00 0.00 3.77
21 22 2.095969 CGTGCGTGAACAATATGTGGTT 60.096 45.455 0.00 0.00 0.00 3.67
22 23 1.463056 CGTGCGTGAACAATATGTGGT 59.537 47.619 0.00 0.00 0.00 4.16
23 24 1.202020 CCGTGCGTGAACAATATGTGG 60.202 52.381 0.00 0.00 0.00 4.17
24 25 1.463056 ACCGTGCGTGAACAATATGTG 59.537 47.619 0.00 0.00 0.00 3.21
25 26 1.803334 ACCGTGCGTGAACAATATGT 58.197 45.000 0.00 0.00 0.00 2.29
26 27 2.892373 AACCGTGCGTGAACAATATG 57.108 45.000 0.00 0.00 0.00 1.78
27 28 6.480285 GTTAATAACCGTGCGTGAACAATAT 58.520 36.000 0.00 0.00 0.00 1.28
28 29 5.444350 CGTTAATAACCGTGCGTGAACAATA 60.444 40.000 0.00 0.00 0.00 1.90
29 30 4.667161 CGTTAATAACCGTGCGTGAACAAT 60.667 41.667 0.00 0.00 0.00 2.71
30 31 3.362791 CGTTAATAACCGTGCGTGAACAA 60.363 43.478 0.00 0.00 0.00 2.83
31 32 2.155347 CGTTAATAACCGTGCGTGAACA 59.845 45.455 0.00 0.00 0.00 3.18
32 33 2.408032 TCGTTAATAACCGTGCGTGAAC 59.592 45.455 0.00 0.00 0.00 3.18
33 34 2.662637 CTCGTTAATAACCGTGCGTGAA 59.337 45.455 0.00 0.00 0.00 3.18
34 35 2.252747 CTCGTTAATAACCGTGCGTGA 58.747 47.619 0.00 0.00 0.00 4.35
35 36 1.987770 ACTCGTTAATAACCGTGCGTG 59.012 47.619 0.00 0.00 0.00 5.34
36 37 2.352503 ACTCGTTAATAACCGTGCGT 57.647 45.000 0.00 0.00 0.00 5.24
37 38 6.360414 TCATATAACTCGTTAATAACCGTGCG 59.640 38.462 0.00 0.00 0.00 5.34
38 39 7.627585 TCATATAACTCGTTAATAACCGTGC 57.372 36.000 0.00 0.00 0.00 5.34
39 40 8.644619 CCATCATATAACTCGTTAATAACCGTG 58.355 37.037 0.00 0.00 0.00 4.94
40 41 8.579006 TCCATCATATAACTCGTTAATAACCGT 58.421 33.333 0.00 0.00 0.00 4.83
41 42 8.975410 TCCATCATATAACTCGTTAATAACCG 57.025 34.615 0.00 0.00 0.00 4.44
42 43 9.924650 ACTCCATCATATAACTCGTTAATAACC 57.075 33.333 0.00 0.00 0.00 2.85
46 47 9.261180 CAACACTCCATCATATAACTCGTTAAT 57.739 33.333 0.00 0.00 0.00 1.40
47 48 7.709182 CCAACACTCCATCATATAACTCGTTAA 59.291 37.037 0.00 0.00 0.00 2.01
48 49 7.147794 ACCAACACTCCATCATATAACTCGTTA 60.148 37.037 0.00 0.00 0.00 3.18
49 50 6.049149 CCAACACTCCATCATATAACTCGTT 58.951 40.000 0.00 0.00 0.00 3.85
50 51 5.128827 ACCAACACTCCATCATATAACTCGT 59.871 40.000 0.00 0.00 0.00 4.18
51 52 5.601662 ACCAACACTCCATCATATAACTCG 58.398 41.667 0.00 0.00 0.00 4.18
52 53 5.692204 CGACCAACACTCCATCATATAACTC 59.308 44.000 0.00 0.00 0.00 3.01
53 54 5.362717 TCGACCAACACTCCATCATATAACT 59.637 40.000 0.00 0.00 0.00 2.24
54 55 5.597806 TCGACCAACACTCCATCATATAAC 58.402 41.667 0.00 0.00 0.00 1.89
55 56 5.862678 TCGACCAACACTCCATCATATAA 57.137 39.130 0.00 0.00 0.00 0.98
56 57 5.538433 TCATCGACCAACACTCCATCATATA 59.462 40.000 0.00 0.00 0.00 0.86
57 58 4.344968 TCATCGACCAACACTCCATCATAT 59.655 41.667 0.00 0.00 0.00 1.78
58 59 3.704061 TCATCGACCAACACTCCATCATA 59.296 43.478 0.00 0.00 0.00 2.15
59 60 2.501316 TCATCGACCAACACTCCATCAT 59.499 45.455 0.00 0.00 0.00 2.45
60 61 1.899142 TCATCGACCAACACTCCATCA 59.101 47.619 0.00 0.00 0.00 3.07
61 62 2.271800 GTCATCGACCAACACTCCATC 58.728 52.381 0.00 0.00 0.00 3.51
62 63 1.623311 TGTCATCGACCAACACTCCAT 59.377 47.619 0.00 0.00 0.00 3.41
63 64 1.044611 TGTCATCGACCAACACTCCA 58.955 50.000 0.00 0.00 0.00 3.86
64 65 2.002586 CATGTCATCGACCAACACTCC 58.997 52.381 0.00 0.00 0.00 3.85
65 66 2.002586 CCATGTCATCGACCAACACTC 58.997 52.381 0.00 0.00 0.00 3.51
66 67 1.623311 TCCATGTCATCGACCAACACT 59.377 47.619 0.00 0.00 0.00 3.55
67 68 1.732259 GTCCATGTCATCGACCAACAC 59.268 52.381 0.00 0.00 0.00 3.32
68 69 1.346068 TGTCCATGTCATCGACCAACA 59.654 47.619 7.95 0.00 0.00 3.33
69 70 2.002586 CTGTCCATGTCATCGACCAAC 58.997 52.381 7.95 0.00 0.00 3.77
70 71 1.623311 ACTGTCCATGTCATCGACCAA 59.377 47.619 7.95 0.00 0.00 3.67
71 72 1.266178 ACTGTCCATGTCATCGACCA 58.734 50.000 7.95 0.00 0.00 4.02
72 73 2.386661 AACTGTCCATGTCATCGACC 57.613 50.000 7.95 0.00 0.00 4.79
73 74 4.111375 ACTAACTGTCCATGTCATCGAC 57.889 45.455 3.80 3.80 0.00 4.20
74 75 5.907866 TTACTAACTGTCCATGTCATCGA 57.092 39.130 0.00 0.00 0.00 3.59
75 76 6.961359 TTTTACTAACTGTCCATGTCATCG 57.039 37.500 0.00 0.00 0.00 3.84
78 79 9.378551 GTGATATTTTACTAACTGTCCATGTCA 57.621 33.333 0.00 0.00 0.00 3.58
79 80 9.378551 TGTGATATTTTACTAACTGTCCATGTC 57.621 33.333 0.00 0.00 0.00 3.06
80 81 9.162764 GTGTGATATTTTACTAACTGTCCATGT 57.837 33.333 0.00 0.00 0.00 3.21
81 82 9.161629 TGTGTGATATTTTACTAACTGTCCATG 57.838 33.333 0.00 0.00 0.00 3.66
82 83 9.733556 TTGTGTGATATTTTACTAACTGTCCAT 57.266 29.630 0.00 0.00 0.00 3.41
83 84 9.562408 TTTGTGTGATATTTTACTAACTGTCCA 57.438 29.630 0.00 0.00 0.00 4.02
84 85 9.821662 GTTTGTGTGATATTTTACTAACTGTCC 57.178 33.333 0.00 0.00 0.00 4.02
141 143 0.034186 TGCAGCGAGATGGGGAAATT 60.034 50.000 0.00 0.00 0.00 1.82
142 144 0.184451 ATGCAGCGAGATGGGGAAAT 59.816 50.000 0.00 0.00 0.00 2.17
145 147 0.749091 CAAATGCAGCGAGATGGGGA 60.749 55.000 0.00 0.00 0.00 4.81
149 151 2.161012 AGTTCACAAATGCAGCGAGATG 59.839 45.455 0.00 0.00 0.00 2.90
150 152 2.161012 CAGTTCACAAATGCAGCGAGAT 59.839 45.455 0.00 0.00 0.00 2.75
162 164 1.129624 GCGTGTGTTCACAGTTCACAA 59.870 47.619 5.85 0.00 44.02 3.33
163 165 0.724549 GCGTGTGTTCACAGTTCACA 59.275 50.000 5.85 0.00 44.02 3.58
164 166 0.724549 TGCGTGTGTTCACAGTTCAC 59.275 50.000 5.85 0.00 44.02 3.18
165 167 0.724549 GTGCGTGTGTTCACAGTTCA 59.275 50.000 5.85 2.48 44.02 3.18
166 168 0.315059 CGTGCGTGTGTTCACAGTTC 60.315 55.000 5.85 0.06 44.02 3.01
167 169 1.701545 CCGTGCGTGTGTTCACAGTT 61.702 55.000 5.85 0.00 44.02 3.16
168 170 2.171079 CCGTGCGTGTGTTCACAGT 61.171 57.895 5.85 0.00 44.02 3.55
169 171 1.425267 TTCCGTGCGTGTGTTCACAG 61.425 55.000 5.85 2.69 44.02 3.66
189 191 0.570734 CAAGCCTGCGTACGTATTCG 59.429 55.000 17.90 0.00 43.34 3.34
190 192 0.300789 GCAAGCCTGCGTACGTATTC 59.699 55.000 17.90 6.99 39.20 1.75
191 193 2.380081 GCAAGCCTGCGTACGTATT 58.620 52.632 17.90 0.60 39.20 1.89
321 330 2.154798 ATCACGTAGCGGGCGCATAT 62.155 55.000 10.83 0.00 44.88 1.78
322 331 2.358193 AATCACGTAGCGGGCGCATA 62.358 55.000 10.83 0.00 44.88 3.14
323 332 2.358193 TAATCACGTAGCGGGCGCAT 62.358 55.000 10.83 0.00 44.88 4.73
324 333 2.947118 CTAATCACGTAGCGGGCGCA 62.947 60.000 10.83 0.00 44.88 6.09
325 334 2.278989 TAATCACGTAGCGGGCGC 60.279 61.111 0.00 0.00 42.33 6.53
357 369 1.388837 GGGCGGGGCATTTAATTCGT 61.389 55.000 0.00 0.00 0.00 3.85
580 611 1.072965 CACCCAGCTGGAGACTTTTCT 59.927 52.381 34.91 3.52 37.39 2.52
682 1002 3.758133 GAGATGGGGAGAGCGGGGA 62.758 68.421 0.00 0.00 0.00 4.81
683 1003 3.237741 GAGATGGGGAGAGCGGGG 61.238 72.222 0.00 0.00 0.00 5.73
684 1004 3.237741 GGAGATGGGGAGAGCGGG 61.238 72.222 0.00 0.00 0.00 6.13
687 1007 1.330655 TTCACGGAGATGGGGAGAGC 61.331 60.000 0.00 0.00 0.00 4.09
693 1030 1.303309 GATGCTTTCACGGAGATGGG 58.697 55.000 0.00 0.00 0.00 4.00
844 1217 0.752743 AACACAAGAAGCAGCAGCCA 60.753 50.000 0.00 0.00 43.56 4.75
1133 1525 4.271816 AGCCGTAGATGCTCGCCG 62.272 66.667 0.00 0.00 32.41 6.46
1264 1679 6.915544 AATCACACAAGCATATAGACACAG 57.084 37.500 0.00 0.00 0.00 3.66
1363 1808 2.685380 AGCCAGACGGGAGAAGGG 60.685 66.667 0.00 0.00 40.01 3.95
1403 1851 5.739959 TGGGATGTCATCGACTTCAAATTA 58.260 37.500 6.74 0.00 38.11 1.40
1421 1869 6.069088 TGCGATATATTAAGGGGATTTGGGAT 60.069 38.462 0.00 0.00 0.00 3.85
1488 1962 7.661847 AGAACTGAAGATTGTCCGTTTAGAAAT 59.338 33.333 0.00 0.00 0.00 2.17
1575 2067 7.096640 GCATATGCACACGGACAAATAATTAAC 60.097 37.037 22.84 0.00 41.59 2.01
1781 2289 5.012664 TGGATGCAACTGAAGGAAACTAGTA 59.987 40.000 0.00 0.00 42.68 1.82
1782 2290 4.202461 TGGATGCAACTGAAGGAAACTAGT 60.202 41.667 0.00 0.00 42.68 2.57
1783 2291 4.326826 TGGATGCAACTGAAGGAAACTAG 58.673 43.478 0.00 0.00 42.68 2.57
2115 2662 4.345547 CCCTCCCTCCAGTTCTAGTTAATC 59.654 50.000 0.00 0.00 0.00 1.75
2130 2683 1.421646 CTCTCTCTCTCTCCCTCCCTC 59.578 61.905 0.00 0.00 0.00 4.30
2131 2684 1.010793 TCTCTCTCTCTCTCCCTCCCT 59.989 57.143 0.00 0.00 0.00 4.20
2133 2686 2.370189 CTCTCTCTCTCTCTCTCCCTCC 59.630 59.091 0.00 0.00 0.00 4.30
2134 2687 3.309296 TCTCTCTCTCTCTCTCTCCCTC 58.691 54.545 0.00 0.00 0.00 4.30
2135 2688 3.051803 TCTCTCTCTCTCTCTCTCTCCCT 60.052 52.174 0.00 0.00 0.00 4.20
2136 2689 3.309296 TCTCTCTCTCTCTCTCTCTCCC 58.691 54.545 0.00 0.00 0.00 4.30
2137 2690 4.219115 TCTCTCTCTCTCTCTCTCTCTCC 58.781 52.174 0.00 0.00 0.00 3.71
2139 2692 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2140 2693 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2141 2694 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2143 2696 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2144 2697 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2145 2698 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2146 2699 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2147 2700 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2148 2701 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2149 2702 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2150 2703 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2151 2704 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2152 2705 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2153 2706 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2154 2707 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2155 2708 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2156 2709 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2157 2710 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2158 2711 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2159 2712 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2160 2713 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2161 2714 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
2162 2715 5.538053 TGATCTCTCTCTCTCTCTCTCTCTC 59.462 48.000 0.00 0.00 0.00 3.20
2336 2897 6.794493 TGAGAATATCCTTCTGTTATGGGGAT 59.206 38.462 0.00 0.00 39.68 3.85
2681 3244 6.881602 GCAGAGAAAATATCCACTAATAGGGG 59.118 42.308 1.14 1.14 41.27 4.79
2919 3509 1.675310 CACTCCTTGCCGCCAATGA 60.675 57.895 0.00 0.00 0.00 2.57
3284 3875 7.601130 GCATTTTCCATACATGTGATGCATTAT 59.399 33.333 9.11 0.00 35.19 1.28
3285 3876 6.924612 GCATTTTCCATACATGTGATGCATTA 59.075 34.615 9.11 0.00 35.19 1.90
3286 3877 5.756347 GCATTTTCCATACATGTGATGCATT 59.244 36.000 9.11 0.00 35.19 3.56
3305 3896 1.002069 TGGTGGGATCTCCTGCATTT 58.998 50.000 0.00 0.00 36.20 2.32
3307 3898 1.002069 TTTGGTGGGATCTCCTGCAT 58.998 50.000 0.00 0.00 36.20 3.96
3501 4109 1.033746 ATGAGTTGGCATTCCGGCTG 61.034 55.000 0.00 0.00 41.89 4.85
3502 4110 0.749454 GATGAGTTGGCATTCCGGCT 60.749 55.000 0.00 0.00 41.89 5.52
3555 4163 2.260844 TGTATAATGAGCTGGCTGGC 57.739 50.000 0.00 0.00 0.00 4.85
3579 4189 3.117963 CCAGATCTTGAATTGAGAGGGCT 60.118 47.826 0.00 0.00 0.00 5.19
3613 4223 9.661563 TGAATTCTACTCTCTATAGCTAGTAGC 57.338 37.037 23.47 14.62 40.69 3.58
3616 4226 9.010029 GCTTGAATTCTACTCTCTATAGCTAGT 57.990 37.037 7.05 10.50 0.00 2.57
3617 4227 8.458843 GGCTTGAATTCTACTCTCTATAGCTAG 58.541 40.741 7.05 0.00 0.00 3.42
3643 4255 9.883142 TCACAAATTAAGGGCTAATTATTTTGG 57.117 29.630 18.08 12.29 38.94 3.28
3652 4277 9.930158 ACCTAATTATCACAAATTAAGGGCTAA 57.070 29.630 0.00 0.00 32.41 3.09
3957 4921 6.294176 CCAGTCCTCCTGTTTAACATGAAAAG 60.294 42.308 0.00 0.00 39.74 2.27
4121 5093 1.010462 GGTTTTGCACCGTCGACAC 60.010 57.895 17.16 3.02 35.12 3.67
4186 5158 1.524621 GGCCGATGATGACAGGTGG 60.525 63.158 0.00 0.00 0.00 4.61
4191 5163 3.933515 TCGAGGCCGATGATGACA 58.066 55.556 0.00 0.00 40.30 3.58
4245 5217 2.894387 GCTGCTGCTCCGGATCAC 60.894 66.667 3.57 2.68 36.03 3.06
4251 5223 3.506096 CCATGTGCTGCTGCTCCG 61.506 66.667 17.00 7.08 40.48 4.63
4421 5393 9.114952 GCAATAATATCCCTAGCTAGAAAATCC 57.885 37.037 22.70 0.00 0.00 3.01
4763 5743 3.915437 AATACACAAGAAAGCCCAACG 57.085 42.857 0.00 0.00 0.00 4.10
4795 5775 9.820229 TTACTAACTGAACTTAAATCATTTGCG 57.180 29.630 0.00 0.00 0.00 4.85
4810 6346 7.114095 AGGTGGTTTTCAAGTTACTAACTGAA 58.886 34.615 2.07 6.12 41.91 3.02
4977 6514 6.097270 ACAATGATTAGTTAGCGGTAGTGGTA 59.903 38.462 0.00 0.00 0.00 3.25
4986 6523 3.305897 TCGTGCACAATGATTAGTTAGCG 59.694 43.478 18.64 0.00 0.00 4.26
5013 6550 1.282157 CAGGAAAGTACCCCCTTGGAG 59.718 57.143 0.00 0.00 38.00 3.86
5079 6617 4.277423 TGGCAACTGCATCATCATCAATAG 59.723 41.667 3.76 0.00 44.36 1.73
5126 6664 6.774673 TGGTTCATGATAAGTACAGGTTCAA 58.225 36.000 0.00 0.00 0.00 2.69
5155 6693 6.874134 GTGTACCACTGAAGTACTGATTCATT 59.126 38.462 0.00 0.00 40.61 2.57
5232 7013 5.079689 TCATGCTGTTGATGAATTGCAAT 57.920 34.783 5.99 5.99 34.07 3.56
5285 7066 1.440893 CTGAGATCTGGAGCCCACG 59.559 63.158 0.00 0.00 0.00 4.94
5414 7209 1.698165 CCGGCATACGTATACAGCAG 58.302 55.000 7.96 8.47 42.24 4.24


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

AutoCloner maintained by Alex Coulton.