Multiple sequence alignment - TraesCS7A01G482700

Loading Multiple Alignment...

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 TraesCS7A01G482700 chr7A 100.000 4857 0 0 1 4857 674683983 674679127 0.000000e+00 8970.0
1 TraesCS7A01G482700 chr7A 100.000 452 0 0 4887 5338 674679097 674678646 0.000000e+00 835.0
2 TraesCS7A01G482700 chr7A 88.768 552 54 5 3827 4371 675875357 675875907 0.000000e+00 669.0
3 TraesCS7A01G482700 chr7A 88.768 552 54 5 3827 4371 675913232 675913782 0.000000e+00 669.0
4 TraesCS7A01G482700 chr7A 87.665 454 43 6 3224 3671 677616110 677616556 2.850000e-142 516.0
5 TraesCS7A01G482700 chr7A 91.133 203 15 2 29 229 674527322 674527121 6.810000e-69 272.0
6 TraesCS7A01G482700 chr7A 90.291 206 15 4 29 229 674738398 674738193 1.140000e-66 265.0
7 TraesCS7A01G482700 chr7A 90.291 206 15 4 29 229 674753132 674752927 1.140000e-66 265.0
8 TraesCS7A01G482700 chr7A 90.547 201 16 2 29 227 674523053 674522854 4.100000e-66 263.0
9 TraesCS7A01G482700 chr7A 91.667 192 11 2 42 228 674506793 674506602 1.470000e-65 261.0
10 TraesCS7A01G482700 chr7D 89.141 2118 170 25 849 2949 586118886 586120960 0.000000e+00 2582.0
11 TraesCS7A01G482700 chr7D 93.131 1616 101 6 242 1850 582603623 582602011 0.000000e+00 2361.0
12 TraesCS7A01G482700 chr7D 89.704 1855 161 14 1940 3787 584592808 584590977 0.000000e+00 2340.0
13 TraesCS7A01G482700 chr7D 92.934 1585 100 7 242 1817 582680394 582678813 0.000000e+00 2296.0
14 TraesCS7A01G482700 chr7D 94.689 1205 56 5 1939 3143 582601602 582600406 0.000000e+00 1864.0
15 TraesCS7A01G482700 chr7D 94.680 1203 55 5 1943 3143 582678813 582677618 0.000000e+00 1858.0
16 TraesCS7A01G482700 chr7D 90.889 1350 104 12 510 1843 584276845 584278191 0.000000e+00 1794.0
17 TraesCS7A01G482700 chr7D 90.752 1276 101 9 29 1295 583035862 583034595 0.000000e+00 1687.0
18 TraesCS7A01G482700 chr7D 93.167 1039 50 7 2582 3613 583033765 583032741 0.000000e+00 1506.0
19 TraesCS7A01G482700 chr7D 92.885 1026 55 6 3832 4857 582676724 582675717 0.000000e+00 1474.0
20 TraesCS7A01G482700 chr7D 92.788 1026 56 6 3832 4857 582599512 582598505 0.000000e+00 1469.0
21 TraesCS7A01G482700 chr7D 90.177 1018 63 10 3835 4851 583032686 583031705 0.000000e+00 1291.0
22 TraesCS7A01G482700 chr7D 89.112 1047 97 8 508 1541 584603986 584602944 0.000000e+00 1286.0
23 TraesCS7A01G482700 chr7D 90.432 972 71 8 515 1468 584218003 584217036 0.000000e+00 1260.0
24 TraesCS7A01G482700 chr7D 86.842 1064 90 19 849 1905 586105929 586106949 0.000000e+00 1144.0
25 TraesCS7A01G482700 chr7D 86.692 1067 93 18 849 1908 586112661 586113685 0.000000e+00 1138.0
26 TraesCS7A01G482700 chr7D 87.802 828 56 22 1091 1908 586023761 586024553 0.000000e+00 928.0
27 TraesCS7A01G482700 chr7D 94.492 581 30 2 3147 3725 582600102 582599522 0.000000e+00 894.0
28 TraesCS7A01G482700 chr7D 94.655 580 26 4 1287 1861 583034547 583033968 0.000000e+00 894.0
29 TraesCS7A01G482700 chr7D 94.320 581 31 2 3147 3725 582677314 582676734 0.000000e+00 889.0
30 TraesCS7A01G482700 chr7D 93.706 286 14 1 5057 5338 582598303 582598018 4.940000e-115 425.0
31 TraesCS7A01G482700 chr7D 93.706 286 14 1 5057 5338 582675503 582675218 4.940000e-115 425.0
32 TraesCS7A01G482700 chr7D 92.958 284 18 2 5057 5338 583031494 583031211 3.850000e-111 412.0
33 TraesCS7A01G482700 chr7D 87.037 324 38 4 522 842 586023064 586023386 3.930000e-96 363.0
34 TraesCS7A01G482700 chr7D 92.891 211 13 1 29 237 582745273 582745063 6.720000e-79 305.0
35 TraesCS7A01G482700 chr7D 92.105 190 13 1 42 229 582545938 582545749 3.170000e-67 267.0
36 TraesCS7A01G482700 chr7D 91.367 139 5 3 4887 5025 582675636 582675505 3.280000e-42 183.0
37 TraesCS7A01G482700 chr7D 90.076 131 11 1 101 229 582662729 582662599 9.190000e-38 169.0
38 TraesCS7A01G482700 chr7D 88.550 131 13 1 101 229 582557554 582557424 1.990000e-34 158.0
39 TraesCS7A01G482700 chr7D 86.047 129 18 0 3648 3776 584279886 584280014 7.210000e-29 139.0
40 TraesCS7A01G482700 chr7D 95.122 82 2 1 150 229 582748406 582748325 1.560000e-25 128.0
41 TraesCS7A01G482700 chr7D 81.102 127 24 0 80 206 582562073 582561947 9.460000e-18 102.0
42 TraesCS7A01G482700 chr7D 81.102 127 24 0 80 206 582667399 582667273 9.460000e-18 102.0
43 TraesCS7A01G482700 chr7D 100.000 29 0 0 4590 4618 565623877 565623849 3.000000e-03 54.7
44 TraesCS7A01G482700 chr7B 89.505 1858 172 12 1940 3791 652400845 652399005 0.000000e+00 2329.0
45 TraesCS7A01G482700 chr7B 89.176 1857 187 11 1938 3788 652973826 652971978 0.000000e+00 2303.0
46 TraesCS7A01G482700 chr7B 89.045 1853 171 17 1942 3788 652439028 652437202 0.000000e+00 2268.0
47 TraesCS7A01G482700 chr7B 88.340 1578 121 19 2183 3752 652173502 652171980 0.000000e+00 1836.0
48 TraesCS7A01G482700 chr7B 91.536 1146 85 11 720 1860 652175107 652173969 0.000000e+00 1568.0
49 TraesCS7A01G482700 chr7B 90.617 1119 90 11 1945 3055 708675342 708674231 0.000000e+00 1471.0
50 TraesCS7A01G482700 chr7B 89.478 1169 104 16 784 1940 652061227 652060066 0.000000e+00 1459.0
51 TraesCS7A01G482700 chr7B 92.542 1019 69 5 1932 2946 656302386 656303401 0.000000e+00 1454.0
52 TraesCS7A01G482700 chr7B 90.423 898 68 12 911 1792 708676398 708675503 0.000000e+00 1166.0
53 TraesCS7A01G482700 chr7B 89.609 818 70 6 510 1318 652255945 652255134 0.000000e+00 1026.0
54 TraesCS7A01G482700 chr7B 89.571 815 73 6 508 1310 652402244 652401430 0.000000e+00 1024.0
55 TraesCS7A01G482700 chr7B 90.303 660 55 7 2766 3423 652056220 652055568 0.000000e+00 856.0
56 TraesCS7A01G482700 chr7B 84.901 808 78 19 3827 4603 652053371 652052577 0.000000e+00 776.0
57 TraesCS7A01G482700 chr7B 88.536 567 52 8 3816 4371 651872430 651871866 0.000000e+00 675.0
58 TraesCS7A01G482700 chr7B 87.020 547 60 6 3839 4375 656303930 656304475 1.640000e-169 606.0
59 TraesCS7A01G482700 chr7B 90.423 449 42 1 3224 3671 656303398 656303846 1.660000e-164 590.0
60 TraesCS7A01G482700 chr7B 86.201 558 56 14 3827 4371 652437205 652436656 7.700000e-163 584.0
61 TraesCS7A01G482700 chr7B 86.139 505 64 5 286 789 652062609 652062110 1.690000e-149 540.0
62 TraesCS7A01G482700 chr7B 91.935 124 7 2 109 229 650301419 650301296 2.560000e-38 171.0
63 TraesCS7A01G482700 chr7B 90.323 124 9 2 109 229 650295272 650295149 5.530000e-35 159.0
64 TraesCS7A01G482700 chr7B 90.323 124 9 2 109 229 650318191 650318068 5.530000e-35 159.0
65 TraesCS7A01G482700 chr7B 89.516 124 10 2 109 229 650362463 650362340 2.570000e-33 154.0
66 TraesCS7A01G482700 chr2D 89.095 1293 111 13 510 1792 107838585 107837313 0.000000e+00 1580.0
67 TraesCS7A01G482700 chr2D 91.127 1127 90 7 1936 3055 107837257 107836134 0.000000e+00 1519.0
68 TraesCS7A01G482700 chr2D 87.971 557 58 7 3827 4375 107821546 107820991 0.000000e+00 649.0
69 TraesCS7A01G482700 chr2D 81.522 92 15 2 422 512 203520370 203520460 2.060000e-09 75.0
70 TraesCS7A01G482700 chr2D 80.435 92 12 5 422 510 630542087 630541999 1.240000e-06 65.8
71 TraesCS7A01G482700 chr5A 94.326 282 16 0 5057 5338 109366735 109367016 2.950000e-117 433.0
72 TraesCS7A01G482700 chr3B 93.571 280 18 0 5059 5338 448221300 448221021 8.270000e-113 418.0
73 TraesCS7A01G482700 chr5D 93.571 280 16 2 5059 5338 275992880 275993157 2.970000e-112 416.0
74 TraesCS7A01G482700 chr5D 90.598 234 22 0 4620 4853 453209797 453210030 1.440000e-80 311.0
75 TraesCS7A01G482700 chr5D 88.235 238 28 0 4620 4857 560192508 560192745 8.750000e-73 285.0
76 TraesCS7A01G482700 chr5D 90.580 138 3 3 4889 5023 516539918 516540048 1.980000e-39 174.0
77 TraesCS7A01G482700 chr5B 93.502 277 18 0 5057 5333 68488053 68488329 3.850000e-111 412.0
78 TraesCS7A01G482700 chr5B 86.624 157 10 4 4889 5041 590494510 590494361 4.280000e-36 163.0
79 TraesCS7A01G482700 chr5B 77.848 158 31 2 356 513 518235970 518235817 1.580000e-15 95.3
80 TraesCS7A01G482700 chr6A 84.026 457 41 15 4889 5338 419894475 419894906 1.380000e-110 411.0
81 TraesCS7A01G482700 chr6A 88.017 242 28 1 4617 4857 608392739 608392980 8.750000e-73 285.0
82 TraesCS7A01G482700 chr6A 94.118 34 2 0 311 344 61885613 61885646 1.000000e-02 52.8
83 TraesCS7A01G482700 chr3D 92.553 282 21 0 5057 5338 612851322 612851041 6.440000e-109 405.0
84 TraesCS7A01G482700 chr3D 87.149 249 30 2 4610 4857 7509828 7509581 1.130000e-71 281.0
85 TraesCS7A01G482700 chr1B 92.199 282 22 0 5057 5338 168754989 168754708 3.000000e-107 399.0
86 TraesCS7A01G482700 chr1B 88.235 238 28 0 4620 4857 400138109 400137872 8.750000e-73 285.0
87 TraesCS7A01G482700 chr1B 89.437 142 5 4 4887 5025 540188659 540188793 2.560000e-38 171.0
88 TraesCS7A01G482700 chr4A 82.869 467 47 14 4889 5338 737490104 737490554 6.480000e-104 388.0
89 TraesCS7A01G482700 chr2A 90.071 282 20 4 2945 3224 13833276 13833551 5.080000e-95 359.0
90 TraesCS7A01G482700 chr1D 88.235 238 28 0 4620 4857 28474718 28474481 8.750000e-73 285.0
91 TraesCS7A01G482700 chr1D 90.071 141 3 4 4887 5023 20556491 20556624 7.110000e-39 172.0
92 TraesCS7A01G482700 chr6B 91.241 137 5 2 4887 5023 127723740 127723611 4.250000e-41 180.0
93 TraesCS7A01G482700 chr6B 88.194 144 9 7 4887 5029 608239509 608239645 1.190000e-36 165.0


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 TraesCS7A01G482700 chr7A 674678646 674683983 5337 True 4902.500000 8970 100.000000 1 5338 2 chr7A.!!$R6 5337
1 TraesCS7A01G482700 chr7A 675875357 675875907 550 False 669.000000 669 88.768000 3827 4371 1 chr7A.!!$F1 544
2 TraesCS7A01G482700 chr7A 675913232 675913782 550 False 669.000000 669 88.768000 3827 4371 1 chr7A.!!$F2 544
3 TraesCS7A01G482700 chr7D 586118886 586120960 2074 False 2582.000000 2582 89.141000 849 2949 1 chr7D.!!$F3 2100
4 TraesCS7A01G482700 chr7D 584590977 584592808 1831 True 2340.000000 2340 89.704000 1940 3787 1 chr7D.!!$R8 1847
5 TraesCS7A01G482700 chr7D 582598018 582603623 5605 True 1402.600000 2361 93.761200 242 5338 5 chr7D.!!$R10 5096
6 TraesCS7A01G482700 chr7D 584602944 584603986 1042 True 1286.000000 1286 89.112000 508 1541 1 chr7D.!!$R9 1033
7 TraesCS7A01G482700 chr7D 584217036 584218003 967 True 1260.000000 1260 90.432000 515 1468 1 chr7D.!!$R7 953
8 TraesCS7A01G482700 chr7D 582675218 582680394 5176 True 1187.500000 2296 93.315333 242 5338 6 chr7D.!!$R11 5096
9 TraesCS7A01G482700 chr7D 583031211 583035862 4651 True 1158.000000 1687 92.341800 29 5338 5 chr7D.!!$R13 5309
10 TraesCS7A01G482700 chr7D 586105929 586106949 1020 False 1144.000000 1144 86.842000 849 1905 1 chr7D.!!$F1 1056
11 TraesCS7A01G482700 chr7D 586112661 586113685 1024 False 1138.000000 1138 86.692000 849 1908 1 chr7D.!!$F2 1059
12 TraesCS7A01G482700 chr7D 584276845 584280014 3169 False 966.500000 1794 88.468000 510 3776 2 chr7D.!!$F4 3266
13 TraesCS7A01G482700 chr7D 586023064 586024553 1489 False 645.500000 928 87.419500 522 1908 2 chr7D.!!$F5 1386
14 TraesCS7A01G482700 chr7D 582745063 582748406 3343 True 216.500000 305 94.006500 29 237 2 chr7D.!!$R12 208
15 TraesCS7A01G482700 chr7B 652971978 652973826 1848 True 2303.000000 2303 89.176000 1938 3788 1 chr7B.!!$R7 1850
16 TraesCS7A01G482700 chr7B 652171980 652175107 3127 True 1702.000000 1836 89.938000 720 3752 2 chr7B.!!$R9 3032
17 TraesCS7A01G482700 chr7B 652399005 652402244 3239 True 1676.500000 2329 89.538000 508 3791 2 chr7B.!!$R10 3283
18 TraesCS7A01G482700 chr7B 652436656 652439028 2372 True 1426.000000 2268 87.623000 1942 4371 2 chr7B.!!$R11 2429
19 TraesCS7A01G482700 chr7B 708674231 708676398 2167 True 1318.500000 1471 90.520000 911 3055 2 chr7B.!!$R12 2144
20 TraesCS7A01G482700 chr7B 652255134 652255945 811 True 1026.000000 1026 89.609000 510 1318 1 chr7B.!!$R6 808
21 TraesCS7A01G482700 chr7B 652052577 652062609 10032 True 907.750000 1459 87.705250 286 4603 4 chr7B.!!$R8 4317
22 TraesCS7A01G482700 chr7B 656302386 656304475 2089 False 883.333333 1454 89.995000 1932 4375 3 chr7B.!!$F1 2443
23 TraesCS7A01G482700 chr7B 651871866 651872430 564 True 675.000000 675 88.536000 3816 4371 1 chr7B.!!$R5 555
24 TraesCS7A01G482700 chr2D 107836134 107838585 2451 True 1549.500000 1580 90.111000 510 3055 2 chr2D.!!$R3 2545
25 TraesCS7A01G482700 chr2D 107820991 107821546 555 True 649.000000 649 87.971000 3827 4375 1 chr2D.!!$R1 548

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
376 379 0.103208 TTTCACGCGCAATTTTGGGT 59.897 45.0 5.73 0.0 42.44 4.51 F
474 477 0.250553 GGTGACCCAAACGGACATGA 60.251 55.0 0.00 0.0 38.60 3.07 F
500 503 0.469144 AAAATGAGTGGCCCGGTTGT 60.469 50.0 0.00 0.0 0.00 3.32 F
1231 2314 0.806868 CATTCTTGCATCGCCTGTGT 59.193 50.0 0.00 0.0 0.00 3.72 F
3238 9575 0.179000 CACCCTTAAGCCTCGCATCT 59.821 55.0 0.00 0.0 0.00 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1750 3078 0.675522 TAAGCTAACTTGGCACGCCC 60.676 55.000 5.42 0.0 36.57 6.13 R
2213 6286 0.768221 AGTGGTTCTGCTTGGGAGGA 60.768 55.000 0.00 0.0 0.00 3.71 R
2787 8035 2.387757 TCCCAATAAATGCTTGAGGGC 58.612 47.619 0.00 0.0 34.80 5.19 R
3406 9744 1.136828 TTGGTGTAGGCAGTGAAGGT 58.863 50.000 0.00 0.0 0.00 3.50 R
4629 13755 0.036010 AAACCGAGACTGATGCCCTG 60.036 55.000 0.00 0.0 0.00 4.45 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
17 18 3.027292 TTCGGCCTCGCACAAAAC 58.973 55.556 0.00 0.00 36.13 2.43
18 19 1.820056 TTCGGCCTCGCACAAAACA 60.820 52.632 0.00 0.00 36.13 2.83
19 20 1.781025 TTCGGCCTCGCACAAAACAG 61.781 55.000 0.00 0.00 36.13 3.16
20 21 2.644992 GGCCTCGCACAAAACAGG 59.355 61.111 0.00 0.00 0.00 4.00
21 22 2.193536 GGCCTCGCACAAAACAGGT 61.194 57.895 0.00 0.00 0.00 4.00
22 23 1.733526 GCCTCGCACAAAACAGGTT 59.266 52.632 0.00 0.00 0.00 3.50
23 24 0.594796 GCCTCGCACAAAACAGGTTG 60.595 55.000 0.00 0.00 34.52 3.77
24 25 0.738389 CCTCGCACAAAACAGGTTGT 59.262 50.000 0.00 0.00 42.48 3.32
25 26 1.944024 CCTCGCACAAAACAGGTTGTA 59.056 47.619 0.00 0.00 39.73 2.41
26 27 2.356382 CCTCGCACAAAACAGGTTGTAA 59.644 45.455 0.00 0.00 39.73 2.41
27 28 3.359654 CTCGCACAAAACAGGTTGTAAC 58.640 45.455 0.00 0.00 39.73 2.50
35 36 7.317390 CACAAAACAGGTTGTAACTTTAGGTT 58.683 34.615 0.00 0.00 39.73 3.50
38 39 4.722220 ACAGGTTGTAACTTTAGGTTCCC 58.278 43.478 0.00 0.00 39.17 3.97
40 41 3.647590 AGGTTGTAACTTTAGGTTCCCGA 59.352 43.478 0.00 0.00 39.17 5.14
48 49 5.750352 ACTTTAGGTTCCCGATGTTTAGA 57.250 39.130 0.00 0.00 0.00 2.10
69 70 9.528018 TTTAGAAAATGTGTGGAATTCTTTGTC 57.472 29.630 5.23 0.00 32.87 3.18
129 130 1.269166 CGAGCTGAATGTACGTGTCC 58.731 55.000 0.00 0.00 0.00 4.02
140 141 2.220615 TACGTGTCCATCCGTGCCAG 62.221 60.000 0.00 0.00 37.91 4.85
145 146 2.821366 CCATCCGTGCCAGTGAGC 60.821 66.667 0.00 0.00 0.00 4.26
220 223 5.780793 ACCATACAACTCCTATATGTCTCCC 59.219 44.000 0.00 0.00 0.00 4.30
238 241 1.145156 CGTGACCCTTCCACACACA 59.855 57.895 0.00 0.00 34.36 3.72
246 249 3.790416 TTCCACACACAGCCAGGCC 62.790 63.158 8.22 0.00 0.00 5.19
284 287 2.805671 CCGCATTAATTATGACCGCTGA 59.194 45.455 0.00 0.00 36.26 4.26
376 379 0.103208 TTTCACGCGCAATTTTGGGT 59.897 45.000 5.73 0.00 42.44 4.51
379 382 2.255172 ACGCGCAATTTTGGGTCGA 61.255 52.632 21.23 0.00 42.44 4.20
395 398 2.030401 CGAAAATGGGTCCGCGTGA 61.030 57.895 4.92 0.00 0.00 4.35
397 400 0.808755 GAAAATGGGTCCGCGTGAAT 59.191 50.000 4.92 0.00 0.00 2.57
418 421 1.301423 CGAAGTGGACGGTTTTTGGA 58.699 50.000 0.00 0.00 0.00 3.53
457 460 0.741915 ACATTGTTTTTGTCCGCGGT 59.258 45.000 27.15 0.00 0.00 5.68
474 477 0.250553 GGTGACCCAAACGGACATGA 60.251 55.000 0.00 0.00 38.60 3.07
490 493 4.466828 GACATGAACGGACAAAATGAGTG 58.533 43.478 0.00 0.00 0.00 3.51
500 503 0.469144 AAAATGAGTGGCCCGGTTGT 60.469 50.000 0.00 0.00 0.00 3.32
602 608 4.447054 GCAGGAGTGTGATTCGATATTCAG 59.553 45.833 0.00 0.00 0.00 3.02
678 689 6.017440 GCAACTTGGTGTCATGTTTACTTAGA 60.017 38.462 0.00 0.00 38.63 2.10
750 762 5.239359 TGCTCATCAAATGCTGACAATAC 57.761 39.130 0.00 0.00 36.69 1.89
758 770 7.098074 TCAAATGCTGACAATACATAATGCA 57.902 32.000 0.00 0.00 0.00 3.96
792 1692 9.152595 TGAAACTTTGGTTGTAAATAAAACACC 57.847 29.630 0.00 0.00 35.63 4.16
812 1713 7.548196 ACACCGAATACAAATATGTTACAGG 57.452 36.000 0.00 0.00 41.05 4.00
953 2011 2.229792 GATTGTCCACCAAACTGCTCA 58.770 47.619 0.00 0.00 36.44 4.26
1081 2146 5.011227 ACGGGTATGTATGTGCACATGTATA 59.989 40.000 36.72 28.87 39.46 1.47
1126 2193 1.143073 TCCGTATCTCTCCTAGCAGCA 59.857 52.381 0.00 0.00 0.00 4.41
1157 2233 1.689273 TGGCGTTAAATTGGCTGGTTT 59.311 42.857 0.00 0.00 0.00 3.27
1231 2314 0.806868 CATTCTTGCATCGCCTGTGT 59.193 50.000 0.00 0.00 0.00 3.72
1468 2620 1.066303 CTAGCACTCCGATCCAGTCAC 59.934 57.143 0.00 0.00 0.00 3.67
1495 2647 2.607750 ATCCTCCCAGTGTGGCGT 60.608 61.111 0.00 0.00 35.79 5.68
1504 2656 1.153823 AGTGTGGCGTGCGTATCTC 60.154 57.895 0.00 0.00 0.00 2.75
1627 2952 7.323052 ACAATTAAAGGAGAAGAGAGAAGGT 57.677 36.000 0.00 0.00 0.00 3.50
1687 3012 3.430790 GCCATTGCTCAATTAGGGGAAAC 60.431 47.826 0.00 0.00 33.53 2.78
1702 3027 4.340097 AGGGGAAACGTAACCTTTCTTTTG 59.660 41.667 10.09 0.00 0.00 2.44
1750 3078 3.585748 TTTCTTGAAAACTGCTCGACG 57.414 42.857 0.00 0.00 0.00 5.12
2053 5973 9.466497 AATATGATGTTCGGAGCCATAAATAAT 57.534 29.630 0.00 0.00 0.00 1.28
2071 5991 9.847224 ATAAATAATTCTGAACCTACCAACGAT 57.153 29.630 0.00 0.00 0.00 3.73
2108 6028 9.620660 ATTCATAACTTCAAACCATAAAACGAC 57.379 29.630 0.00 0.00 0.00 4.34
2163 6083 7.641411 CGATGTGATACAAATTTTAGAAGCAGG 59.359 37.037 0.00 0.00 0.00 4.85
2198 6271 6.127451 TGGTGTTAGTATCACTGTATCAGGTG 60.127 42.308 10.44 0.00 35.51 4.00
2213 6286 7.857456 TGTATCAGGTGGTAACTATTTGATGT 58.143 34.615 0.00 0.00 37.61 3.06
2381 6522 2.978010 CCGGCGCCTGAGTTGTTT 60.978 61.111 26.68 0.00 0.00 2.83
2691 6833 5.448768 GCTCGCACTAGTCACTAATTCACTA 60.449 44.000 0.00 0.00 0.00 2.74
2795 8043 7.872483 ACAACACAAATAAAAATAGCCCTCAAG 59.128 33.333 0.00 0.00 0.00 3.02
2811 8059 4.381932 CCCTCAAGCATTTATTGGGAACAC 60.382 45.833 0.00 0.00 42.67 3.32
2831 8563 8.450964 GGAACACCATATTATCATTTATCCGTG 58.549 37.037 0.00 0.00 0.00 4.94
3122 9143 7.706179 GCATGACAATTAATAAGGCAAGCTAAA 59.294 33.333 13.57 0.00 0.00 1.85
3160 9492 9.929180 TGATACTATTCCTATGCATTACAGAAC 57.071 33.333 3.54 0.00 0.00 3.01
3238 9575 0.179000 CACCCTTAAGCCTCGCATCT 59.821 55.000 0.00 0.00 0.00 2.90
3241 9578 0.659957 CCTTAAGCCTCGCATCTTGC 59.340 55.000 0.00 0.00 40.69 4.01
3394 9732 2.041922 AGAGCCCAGGCATCGGTA 60.042 61.111 12.03 0.00 44.88 4.02
3406 9744 2.613474 GGCATCGGTAAACAGTGTGGTA 60.613 50.000 0.00 0.00 0.00 3.25
3456 11636 5.569355 TCTACAAAAGAATGCAAGGATCCA 58.431 37.500 15.82 0.00 0.00 3.41
3459 11639 4.590222 ACAAAAGAATGCAAGGATCCAACT 59.410 37.500 15.82 0.00 0.00 3.16
3634 11814 0.035820 CCCTAGCAACCTTTGGCGTA 60.036 55.000 0.00 0.00 34.54 4.42
3672 11852 2.283101 GCCTGACACCATGGCCAA 60.283 61.111 10.96 0.00 40.71 4.52
3754 11934 7.896811 AGGATCATATGTTTATGCTTCTACGA 58.103 34.615 1.90 0.00 36.03 3.43
3758 11938 6.873605 TCATATGTTTATGCTTCTACGATGGG 59.126 38.462 1.90 0.00 36.03 4.00
3759 11939 3.202906 TGTTTATGCTTCTACGATGGGC 58.797 45.455 0.00 0.00 0.00 5.36
3764 11944 0.179045 GCTTCTACGATGGGCCACAT 60.179 55.000 9.28 5.63 44.18 3.21
3825 12013 8.156820 ACATACATACATACATTAGGCATGTGT 58.843 33.333 1.02 0.00 46.37 3.72
3883 12073 2.094854 CCAACCTGCTTGCTCATTCTTC 60.095 50.000 0.00 0.00 0.00 2.87
3949 12155 7.390027 CCTTTAGGAAAGAACATCTCTTGAGA 58.610 38.462 2.59 2.59 44.00 3.27
4211 12456 1.889454 GATTGAATGCCGGCACCAA 59.111 52.632 34.06 34.06 0.00 3.67
4501 13351 4.388080 TCCGTACGGACACACGCG 62.388 66.667 32.61 3.53 39.76 6.01
4502 13352 4.688419 CCGTACGGACACACGCGT 62.688 66.667 30.64 5.58 36.85 6.01
4503 13353 3.161405 CGTACGGACACACGCGTC 61.161 66.667 9.86 0.00 37.37 5.19
4555 13405 4.719369 ACGTCTGTTCGGGCGCTC 62.719 66.667 7.64 0.06 34.94 5.03
4571 13421 2.883574 CGCTCGACACCTAATTAACCA 58.116 47.619 0.00 0.00 0.00 3.67
4620 13746 6.368779 AACACTAGTAGAAAACAGGGCATA 57.631 37.500 3.59 0.00 0.00 3.14
4622 13748 5.484290 ACACTAGTAGAAAACAGGGCATAGT 59.516 40.000 3.59 0.00 0.00 2.12
4623 13749 6.666546 ACACTAGTAGAAAACAGGGCATAGTA 59.333 38.462 3.59 0.00 0.00 1.82
4624 13750 7.147880 ACACTAGTAGAAAACAGGGCATAGTAG 60.148 40.741 3.59 0.00 0.00 2.57
4627 13753 7.253905 AGTAGAAAACAGGGCATAGTAGAAA 57.746 36.000 0.00 0.00 0.00 2.52
4628 13754 7.686434 AGTAGAAAACAGGGCATAGTAGAAAA 58.314 34.615 0.00 0.00 0.00 2.29
4629 13755 6.819397 AGAAAACAGGGCATAGTAGAAAAC 57.181 37.500 0.00 0.00 0.00 2.43
4630 13756 6.303839 AGAAAACAGGGCATAGTAGAAAACA 58.696 36.000 0.00 0.00 0.00 2.83
4631 13757 6.431234 AGAAAACAGGGCATAGTAGAAAACAG 59.569 38.462 0.00 0.00 0.00 3.16
4632 13758 4.222124 ACAGGGCATAGTAGAAAACAGG 57.778 45.455 0.00 0.00 0.00 4.00
4633 13759 3.054361 ACAGGGCATAGTAGAAAACAGGG 60.054 47.826 0.00 0.00 0.00 4.45
4634 13760 2.092375 AGGGCATAGTAGAAAACAGGGC 60.092 50.000 0.00 0.00 0.00 5.19
4635 13761 2.356741 GGGCATAGTAGAAAACAGGGCA 60.357 50.000 0.00 0.00 0.00 5.36
4636 13762 3.555966 GGCATAGTAGAAAACAGGGCAT 58.444 45.455 0.00 0.00 0.00 4.40
4637 13763 3.565902 GGCATAGTAGAAAACAGGGCATC 59.434 47.826 0.00 0.00 0.00 3.91
4638 13764 4.199310 GCATAGTAGAAAACAGGGCATCA 58.801 43.478 0.00 0.00 0.00 3.07
4639 13765 4.274459 GCATAGTAGAAAACAGGGCATCAG 59.726 45.833 0.00 0.00 0.00 2.90
4640 13766 5.431765 CATAGTAGAAAACAGGGCATCAGT 58.568 41.667 0.00 0.00 0.00 3.41
4641 13767 3.944087 AGTAGAAAACAGGGCATCAGTC 58.056 45.455 0.00 0.00 0.00 3.51
4642 13768 3.584848 AGTAGAAAACAGGGCATCAGTCT 59.415 43.478 0.00 0.00 0.00 3.24
4643 13769 3.064900 AGAAAACAGGGCATCAGTCTC 57.935 47.619 0.00 0.00 0.00 3.36
4644 13770 1.734465 GAAAACAGGGCATCAGTCTCG 59.266 52.381 0.00 0.00 0.00 4.04
4645 13771 0.036010 AAACAGGGCATCAGTCTCGG 60.036 55.000 0.00 0.00 0.00 4.63
4646 13772 1.194781 AACAGGGCATCAGTCTCGGT 61.195 55.000 0.00 0.00 0.00 4.69
4647 13773 1.194781 ACAGGGCATCAGTCTCGGTT 61.195 55.000 0.00 0.00 0.00 4.44
4648 13774 0.036010 CAGGGCATCAGTCTCGGTTT 60.036 55.000 0.00 0.00 0.00 3.27
4649 13775 0.693049 AGGGCATCAGTCTCGGTTTT 59.307 50.000 0.00 0.00 0.00 2.43
4662 13788 3.778629 TCTCGGTTTTAGAGGGCCTTTAT 59.221 43.478 7.89 0.00 36.45 1.40
4693 13819 3.202097 TGCAACTGAGACAAAACGATCA 58.798 40.909 0.00 0.00 0.00 2.92
4694 13820 3.814842 TGCAACTGAGACAAAACGATCAT 59.185 39.130 0.00 0.00 0.00 2.45
4803 13929 1.275573 AGGACCTTTAGTCTCGGTTGC 59.724 52.381 0.00 0.00 45.54 4.17
4815 13941 4.783667 GGTTGCTAACACCGACCA 57.216 55.556 0.00 0.00 36.85 4.02
4835 13961 2.552315 CAGGACTAAAATGCAACCACGT 59.448 45.455 0.00 0.00 0.00 4.49
4853 13979 3.715097 GTCAGCAGCTCCCAGGCT 61.715 66.667 0.00 0.00 44.10 4.58
4923 14100 1.001406 CTCTCTTTCTCCGTGCTTGGT 59.999 52.381 0.00 0.00 0.00 3.67
4924 14101 1.151668 CTCTTTCTCCGTGCTTGGTG 58.848 55.000 0.00 0.00 0.00 4.17
4928 14105 1.165907 TTCTCCGTGCTTGGTGCTTG 61.166 55.000 0.00 0.00 43.37 4.01
5010 14187 9.927668 AAGGAACAATTAATTACACAAGATTGG 57.072 29.630 0.00 0.00 0.00 3.16
5087 14264 2.492484 GACCTCTCTTTCTCCGTGCTTA 59.508 50.000 0.00 0.00 0.00 3.09
5232 14414 4.039488 TGTTTAGGTATGACGTGGTCAAGT 59.961 41.667 0.00 0.00 45.96 3.16
5237 14420 4.158025 AGGTATGACGTGGTCAAGTAAGAG 59.842 45.833 0.00 0.00 45.96 2.85
5242 14425 1.616865 CGTGGTCAAGTAAGAGTCCCA 59.383 52.381 0.00 0.00 0.00 4.37
5333 14516 9.250246 CTAATTTAAAGAAGGGGGTCAATACAA 57.750 33.333 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.203084 TGTTTTGTGCGAGGCCGA 60.203 55.556 0.00 0.00 38.22 5.54
2 3 2.252260 CTGTTTTGTGCGAGGCCG 59.748 61.111 0.00 0.00 39.16 6.13
3 4 1.734388 AACCTGTTTTGTGCGAGGCC 61.734 55.000 0.00 0.00 0.00 5.19
4 5 0.594796 CAACCTGTTTTGTGCGAGGC 60.595 55.000 0.00 0.00 0.00 4.70
5 6 0.738389 ACAACCTGTTTTGTGCGAGG 59.262 50.000 0.00 0.00 38.31 4.63
6 7 3.064820 AGTTACAACCTGTTTTGTGCGAG 59.935 43.478 0.00 0.00 40.04 5.03
7 8 3.011119 AGTTACAACCTGTTTTGTGCGA 58.989 40.909 0.00 0.00 40.04 5.10
8 9 3.414549 AGTTACAACCTGTTTTGTGCG 57.585 42.857 0.00 0.00 40.04 5.34
9 10 5.746721 CCTAAAGTTACAACCTGTTTTGTGC 59.253 40.000 0.00 0.00 40.04 4.57
12 13 6.976349 GGAACCTAAAGTTACAACCTGTTTTG 59.024 38.462 0.00 0.00 39.36 2.44
14 15 6.704289 GGAACCTAAAGTTACAACCTGTTT 57.296 37.500 0.00 0.00 39.36 2.83
35 36 4.457603 CCACACATTTTCTAAACATCGGGA 59.542 41.667 0.00 0.00 0.00 5.14
38 39 8.023128 AGAATTCCACACATTTTCTAAACATCG 58.977 33.333 0.65 0.00 0.00 3.84
48 49 5.288804 CCGACAAAGAATTCCACACATTTT 58.711 37.500 0.65 0.00 0.00 1.82
66 67 1.152860 ACCATTGGTTGTGCCGACA 60.153 52.632 1.37 0.00 41.21 4.35
111 112 2.363788 TGGACACGTACATTCAGCTC 57.636 50.000 0.00 0.00 0.00 4.09
119 120 1.080366 GCACGGATGGACACGTACA 60.080 57.895 0.00 0.00 42.04 2.90
129 130 2.821366 GGCTCACTGGCACGGATG 60.821 66.667 0.00 0.00 41.37 3.51
140 141 6.583562 ACTCTGGTTTATTATAGTGGCTCAC 58.416 40.000 0.00 0.00 34.10 3.51
179 180 6.009589 TGTATGGTTTTGATTCCATGTGTCT 58.990 36.000 6.91 0.00 43.28 3.41
180 181 6.266168 TGTATGGTTTTGATTCCATGTGTC 57.734 37.500 6.91 0.00 43.28 3.67
220 223 0.880278 CTGTGTGTGGAAGGGTCACG 60.880 60.000 0.00 0.00 37.91 4.35
337 340 4.373116 AATCGGTGTGGACGCGCT 62.373 61.111 5.73 0.00 0.00 5.92
348 351 1.295357 TGCGCGTGAAATGAATCGGT 61.295 50.000 8.43 0.00 0.00 4.69
376 379 2.030401 CACGCGGACCCATTTTCGA 61.030 57.895 12.47 0.00 0.00 3.71
379 382 0.525761 CATTCACGCGGACCCATTTT 59.474 50.000 12.47 0.00 0.00 1.82
395 398 1.314730 AAAACCGTCCACTTCGCATT 58.685 45.000 0.00 0.00 0.00 3.56
397 400 0.378962 CAAAAACCGTCCACTTCGCA 59.621 50.000 0.00 0.00 0.00 5.10
404 407 1.689273 CCCATTTCCAAAAACCGTCCA 59.311 47.619 0.00 0.00 0.00 4.02
418 421 3.732892 CAACGCGCCGACCCATTT 61.733 61.111 5.73 0.00 0.00 2.32
457 460 1.600023 GTTCATGTCCGTTTGGGTCA 58.400 50.000 0.00 0.00 38.23 4.02
474 477 0.958822 GGCCACTCATTTTGTCCGTT 59.041 50.000 0.00 0.00 0.00 4.44
490 493 2.033602 AGCAACTACAACCGGGCC 59.966 61.111 6.32 0.00 0.00 5.80
500 503 3.703001 AAGCAAGGCTAAGAGCAACTA 57.297 42.857 0.21 0.00 44.75 2.24
602 608 5.347907 CACTAATACAGTCGTTTCCACTTCC 59.652 44.000 0.00 0.00 34.26 3.46
750 762 7.148705 CCAAAGTTTCACATCAACTGCATTATG 60.149 37.037 0.00 0.00 34.59 1.90
758 770 5.659440 ACAACCAAAGTTTCACATCAACT 57.341 34.783 0.00 0.00 35.94 3.16
792 1692 7.715265 AGAGCCTGTAACATATTTGTATTCG 57.285 36.000 0.00 0.00 34.06 3.34
802 1702 3.981071 AGCACAAGAGCCTGTAACATA 57.019 42.857 0.00 0.00 34.23 2.29
812 1713 1.597742 TCCAACAGAAGCACAAGAGC 58.402 50.000 0.00 0.00 0.00 4.09
920 1978 4.389077 GGTGGACAATCAAGTAAGAAGTCG 59.611 45.833 0.00 0.00 31.39 4.18
928 1986 3.568007 GCAGTTTGGTGGACAATCAAGTA 59.432 43.478 0.00 0.00 39.21 2.24
932 1990 2.229792 GAGCAGTTTGGTGGACAATCA 58.770 47.619 0.00 0.00 39.21 2.57
936 1994 0.546122 AGTGAGCAGTTTGGTGGACA 59.454 50.000 0.00 0.00 0.00 4.02
953 2011 9.874205 TTTTGAATGTTGAAGAAAAGAATGAGT 57.126 25.926 0.00 0.00 0.00 3.41
997 2062 2.226437 TCTTTTCTGAAGGCGTCATTGC 59.774 45.455 3.00 0.00 35.07 3.56
1081 2146 8.691661 ACAATTCACTTATACTTCCACTGTTT 57.308 30.769 0.00 0.00 0.00 2.83
1126 2193 6.312672 GCCAATTTAACGCCAAAATGACTTAT 59.687 34.615 0.29 0.00 0.00 1.73
1213 2296 1.538047 AACACAGGCGATGCAAGAAT 58.462 45.000 0.00 0.00 0.00 2.40
1231 2314 5.530915 GCATGCAGGGTATTGAACATACTAA 59.469 40.000 14.21 0.00 0.00 2.24
1468 2620 1.202734 ACTGGGAGGATCATTGCATCG 60.203 52.381 0.00 0.00 36.25 3.84
1504 2656 8.655935 AGCCAGGAAGGGATAATTTATATTTG 57.344 34.615 0.00 0.00 38.09 2.32
1687 3012 8.818057 CCATAGATAGACAAAAGAAAGGTTACG 58.182 37.037 0.00 0.00 0.00 3.18
1702 3027 4.654262 TCCCTTGGTTGTCCATAGATAGAC 59.346 45.833 0.00 0.00 43.91 2.59
1750 3078 0.675522 TAAGCTAACTTGGCACGCCC 60.676 55.000 5.42 0.00 36.57 6.13
2053 5973 6.839124 TTACTATCGTTGGTAGGTTCAGAA 57.161 37.500 0.00 0.00 0.00 3.02
2108 6028 2.461695 AGCCATATAGGATCTGTCCCG 58.538 52.381 0.00 0.00 46.34 5.14
2163 6083 5.517770 GTGATACTAACACCATTGTACGGTC 59.482 44.000 0.00 0.00 33.55 4.79
2198 6271 5.367945 TGGGAGGACATCAAATAGTTACC 57.632 43.478 0.00 0.00 0.00 2.85
2213 6286 0.768221 AGTGGTTCTGCTTGGGAGGA 60.768 55.000 0.00 0.00 0.00 3.71
2787 8035 2.387757 TCCCAATAAATGCTTGAGGGC 58.612 47.619 0.00 0.00 34.80 5.19
2831 8563 7.916977 TCAATTAGCACATGCAATCTAAATGTC 59.083 33.333 6.64 0.00 45.16 3.06
3238 9575 7.619302 AGGTCATAAGGATCCAAAAATTAGCAA 59.381 33.333 15.82 0.00 0.00 3.91
3241 9578 7.068593 TGCAGGTCATAAGGATCCAAAAATTAG 59.931 37.037 15.82 0.00 0.00 1.73
3394 9732 3.926058 AGTGAAGGTACCACACTGTTT 57.074 42.857 30.38 15.60 42.18 2.83
3406 9744 1.136828 TTGGTGTAGGCAGTGAAGGT 58.863 50.000 0.00 0.00 0.00 3.50
3456 11636 2.447047 AGGAAAATGTGGTGGAGGAGTT 59.553 45.455 0.00 0.00 0.00 3.01
3459 11639 3.230134 CAAAGGAAAATGTGGTGGAGGA 58.770 45.455 0.00 0.00 0.00 3.71
3597 11777 5.595952 GCTAGGGGAGACAAATTTGAATGAT 59.404 40.000 24.64 1.23 0.00 2.45
3634 11814 0.039618 CTAACTGGCCCACCACCAAT 59.960 55.000 0.00 0.00 42.67 3.16
3650 11830 1.078497 CCATGGTGTCAGGCGCTAA 60.078 57.895 7.64 0.00 0.00 3.09
3672 11852 1.755783 GGCAAAGCTAGGCCTGCAT 60.756 57.895 17.99 7.34 46.74 3.96
3812 12000 8.831715 TGACAGTATATAACACATGCCTAATG 57.168 34.615 0.00 0.00 42.48 1.90
3813 12001 8.870116 TCTGACAGTATATAACACATGCCTAAT 58.130 33.333 1.59 0.00 0.00 1.73
3814 12002 8.141909 GTCTGACAGTATATAACACATGCCTAA 58.858 37.037 2.24 0.00 0.00 2.69
3825 12013 9.688091 AGTGAGAAGAAGTCTGACAGTATATAA 57.312 33.333 10.88 0.00 42.51 0.98
3905 12095 1.999024 GGCGCCATTGGTTGTATTTTG 59.001 47.619 24.80 0.00 0.00 2.44
3949 12155 2.094182 ACGATGACAATTAGGAGCACGT 60.094 45.455 0.00 0.00 0.00 4.49
4211 12456 5.121811 CACAGTCCTCTATAATTGCTGCTT 58.878 41.667 0.00 0.00 0.00 3.91
4486 13336 3.161405 GACGCGTGTGTCCGTACG 61.161 66.667 20.70 8.69 42.79 3.67
4492 13342 3.370131 CGTATGGACGCGTGTGTC 58.630 61.111 20.70 0.38 43.21 3.67
4501 13351 2.918230 CTTCCCGGCACCGTATGGAC 62.918 65.000 8.33 0.00 39.21 4.02
4502 13352 2.684294 TTCCCGGCACCGTATGGA 60.684 61.111 8.33 4.91 39.21 3.41
4503 13353 2.203015 CTTCCCGGCACCGTATGG 60.203 66.667 8.49 0.00 42.84 2.74
4553 13403 8.975439 GTATTACATGGTTAATTAGGTGTCGAG 58.025 37.037 0.00 0.00 0.00 4.04
4555 13405 7.095940 CCGTATTACATGGTTAATTAGGTGTCG 60.096 40.741 0.00 0.00 0.00 4.35
4620 13746 3.584848 AGACTGATGCCCTGTTTTCTACT 59.415 43.478 0.00 0.00 0.00 2.57
4622 13748 3.368427 CGAGACTGATGCCCTGTTTTCTA 60.368 47.826 0.00 0.00 0.00 2.10
4623 13749 2.613977 CGAGACTGATGCCCTGTTTTCT 60.614 50.000 0.00 0.00 0.00 2.52
4624 13750 1.734465 CGAGACTGATGCCCTGTTTTC 59.266 52.381 0.00 0.00 0.00 2.29
4627 13753 1.194781 ACCGAGACTGATGCCCTGTT 61.195 55.000 0.00 0.00 0.00 3.16
4628 13754 1.194781 AACCGAGACTGATGCCCTGT 61.195 55.000 0.00 0.00 0.00 4.00
4629 13755 0.036010 AAACCGAGACTGATGCCCTG 60.036 55.000 0.00 0.00 0.00 4.45
4630 13756 0.693049 AAAACCGAGACTGATGCCCT 59.307 50.000 0.00 0.00 0.00 5.19
4631 13757 2.093658 TCTAAAACCGAGACTGATGCCC 60.094 50.000 0.00 0.00 0.00 5.36
4632 13758 3.190874 CTCTAAAACCGAGACTGATGCC 58.809 50.000 0.00 0.00 0.00 4.40
4633 13759 3.190874 CCTCTAAAACCGAGACTGATGC 58.809 50.000 0.00 0.00 0.00 3.91
4634 13760 3.786635 CCCTCTAAAACCGAGACTGATG 58.213 50.000 0.00 0.00 0.00 3.07
4635 13761 2.168728 GCCCTCTAAAACCGAGACTGAT 59.831 50.000 0.00 0.00 0.00 2.90
4636 13762 1.549170 GCCCTCTAAAACCGAGACTGA 59.451 52.381 0.00 0.00 0.00 3.41
4637 13763 1.405661 GGCCCTCTAAAACCGAGACTG 60.406 57.143 0.00 0.00 0.00 3.51
4638 13764 0.903236 GGCCCTCTAAAACCGAGACT 59.097 55.000 0.00 0.00 0.00 3.24
4639 13765 0.903236 AGGCCCTCTAAAACCGAGAC 59.097 55.000 0.00 0.00 0.00 3.36
4640 13766 1.652947 AAGGCCCTCTAAAACCGAGA 58.347 50.000 0.00 0.00 0.00 4.04
4641 13767 2.491675 AAAGGCCCTCTAAAACCGAG 57.508 50.000 0.00 0.00 0.00 4.63
4642 13768 4.520179 GAATAAAGGCCCTCTAAAACCGA 58.480 43.478 0.00 0.00 0.00 4.69
4643 13769 3.630769 GGAATAAAGGCCCTCTAAAACCG 59.369 47.826 0.00 0.00 0.00 4.44
4644 13770 3.958798 GGGAATAAAGGCCCTCTAAAACC 59.041 47.826 0.00 0.00 41.31 3.27
4645 13771 4.606210 TGGGAATAAAGGCCCTCTAAAAC 58.394 43.478 0.00 0.00 44.96 2.43
4646 13772 4.293901 ACTGGGAATAAAGGCCCTCTAAAA 59.706 41.667 0.00 0.00 44.96 1.52
4647 13773 3.856206 ACTGGGAATAAAGGCCCTCTAAA 59.144 43.478 0.00 0.00 44.96 1.85
4648 13774 3.470868 ACTGGGAATAAAGGCCCTCTAA 58.529 45.455 0.00 0.00 44.96 2.10
4649 13775 3.145559 ACTGGGAATAAAGGCCCTCTA 57.854 47.619 0.00 0.00 44.96 2.43
4693 13819 9.350951 GGACTAAAAGTAATGGGCATTAGTAAT 57.649 33.333 0.00 0.00 36.27 1.89
4694 13820 7.776500 GGGACTAAAAGTAATGGGCATTAGTAA 59.224 37.037 0.00 0.00 36.27 2.24
4803 13929 3.947910 TTTAGTCCTGGTCGGTGTTAG 57.052 47.619 0.00 0.00 0.00 2.34
4815 13941 2.552315 CACGTGGTTGCATTTTAGTCCT 59.448 45.455 7.95 0.00 0.00 3.85
4835 13961 4.025858 GCCTGGGAGCTGCTGACA 62.026 66.667 7.01 4.68 0.00 3.58
4923 14100 1.310216 TAGCTAGCGTCGACCAAGCA 61.310 55.000 24.71 13.27 35.63 3.91
4924 14101 0.866483 GTAGCTAGCGTCGACCAAGC 60.866 60.000 18.68 18.68 0.00 4.01
4928 14105 1.293924 TGTAGTAGCTAGCGTCGACC 58.706 55.000 10.58 2.76 0.00 4.79
5035 14212 9.913310 CTCTCTCTCTCTCTCTCTCTCTATATA 57.087 40.741 0.00 0.00 0.00 0.86
5036 14213 8.619281 TCTCTCTCTCTCTCTCTCTCTCTATAT 58.381 40.741 0.00 0.00 0.00 0.86
5037 14214 7.990055 TCTCTCTCTCTCTCTCTCTCTCTATA 58.010 42.308 0.00 0.00 0.00 1.31
5038 14215 6.857848 TCTCTCTCTCTCTCTCTCTCTCTAT 58.142 44.000 0.00 0.00 0.00 1.98
5039 14216 6.267492 TCTCTCTCTCTCTCTCTCTCTCTA 57.733 45.833 0.00 0.00 0.00 2.43
5040 14217 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
5041 14218 5.362430 ACTTCTCTCTCTCTCTCTCTCTCTC 59.638 48.000 0.00 0.00 0.00 3.20
5042 14219 5.128499 CACTTCTCTCTCTCTCTCTCTCTCT 59.872 48.000 0.00 0.00 0.00 3.10
5043 14220 5.127845 TCACTTCTCTCTCTCTCTCTCTCTC 59.872 48.000 0.00 0.00 0.00 3.20
5044 14221 5.026121 TCACTTCTCTCTCTCTCTCTCTCT 58.974 45.833 0.00 0.00 0.00 3.10
5045 14222 5.112686 GTCACTTCTCTCTCTCTCTCTCTC 58.887 50.000 0.00 0.00 0.00 3.20
5046 14223 4.080863 GGTCACTTCTCTCTCTCTCTCTCT 60.081 50.000 0.00 0.00 0.00 3.10
5047 14224 4.080863 AGGTCACTTCTCTCTCTCTCTCTC 60.081 50.000 0.00 0.00 0.00 3.20
5048 14225 3.846588 AGGTCACTTCTCTCTCTCTCTCT 59.153 47.826 0.00 0.00 0.00 3.10
5049 14226 4.080863 AGAGGTCACTTCTCTCTCTCTCTC 60.081 50.000 0.00 0.00 36.99 3.20
5050 14227 3.846588 AGAGGTCACTTCTCTCTCTCTCT 59.153 47.826 0.00 0.00 36.99 3.10
5051 14228 4.222124 AGAGGTCACTTCTCTCTCTCTC 57.778 50.000 0.00 0.00 36.99 3.20
5103 14280 8.699130 TGTTGTAGCATGGGATAGATATATGAG 58.301 37.037 0.00 0.00 0.00 2.90
5232 14414 3.803340 AGAGGAATTGGTGGGACTCTTA 58.197 45.455 0.00 0.00 31.76 2.10
5237 14420 2.879103 TCAAGAGGAATTGGTGGGAC 57.121 50.000 0.00 0.00 0.00 4.46


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

AutoCloner maintained by Alex Coulton.