Multiple sequence alignment - TraesCS7A01G420300

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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 TraesCS7A01G420300 chr7A 100.000 5388 0 0 2295 7682 611729893 611735280 0.000000e+00 9950.0
1 TraesCS7A01G420300 chr7A 100.000 2085 0 0 1 2085 611727599 611729683 0.000000e+00 3851.0
2 TraesCS7A01G420300 chr7A 84.785 2491 271 48 4563 7026 611916269 611918678 0.000000e+00 2401.0
3 TraesCS7A01G420300 chr7A 87.692 780 70 10 293 1061 611910745 611911509 0.000000e+00 885.0
4 TraesCS7A01G420300 chr7A 87.609 460 43 13 3921 4373 706086129 706085677 8.830000e-144 521.0
5 TraesCS7A01G420300 chr7A 87.019 416 46 7 3493 3905 706086601 706086191 5.430000e-126 462.0
6 TraesCS7A01G420300 chr7A 86.567 67 6 1 1443 1509 540005753 540005690 3.850000e-08 71.3
7 TraesCS7A01G420300 chr7A 82.716 81 10 2 1428 1507 721217287 721217210 1.380000e-07 69.4
8 TraesCS7A01G420300 chr7D 94.388 3154 111 21 4563 7682 531440340 531443461 0.000000e+00 4783.0
9 TraesCS7A01G420300 chr7D 96.928 1302 30 5 87 1380 531439017 531440316 0.000000e+00 2174.0
10 TraesCS7A01G420300 chr7D 82.899 690 73 25 3911 4566 123373054 123372376 5.170000e-161 579.0
11 TraesCS7A01G420300 chr6A 96.574 2277 64 11 2296 4562 615479287 615481559 0.000000e+00 3760.0
12 TraesCS7A01G420300 chr6A 93.673 490 10 4 1447 1919 615478579 615479064 0.000000e+00 713.0
13 TraesCS7A01G420300 chr6A 82.682 179 28 2 890 1065 452099556 452099378 1.030000e-33 156.0
14 TraesCS7A01G420300 chr6A 94.937 79 3 1 1 79 107691149 107691226 1.050000e-23 122.0
15 TraesCS7A01G420300 chr2A 96.412 2202 60 13 2370 4560 778781966 778784159 0.000000e+00 3611.0
16 TraesCS7A01G420300 chr2A 96.696 575 14 4 1512 2085 778781079 778781649 0.000000e+00 952.0
17 TraesCS7A01G420300 chr2A 85.294 204 27 3 3681 3882 139892032 139891830 2.810000e-49 207.0
18 TraesCS7A01G420300 chr2A 82.703 185 28 4 886 1066 640270368 640270552 2.220000e-35 161.0
19 TraesCS7A01G420300 chr2A 87.838 74 4 2 1434 1507 727718015 727717947 1.780000e-11 82.4
20 TraesCS7A01G420300 chr2D 92.405 2304 127 18 2298 4565 545014803 545012512 0.000000e+00 3241.0
21 TraesCS7A01G420300 chr2D 92.174 2300 123 24 2295 4562 558902558 558904832 0.000000e+00 3197.0
22 TraesCS7A01G420300 chr2D 93.708 445 23 5 1643 2085 545015296 545014855 0.000000e+00 662.0
23 TraesCS7A01G420300 chr2D 93.665 442 23 5 1643 2082 558902069 558902507 0.000000e+00 656.0
24 TraesCS7A01G420300 chr2D 74.366 1065 202 48 2339 3355 545014885 545013844 9.350000e-104 388.0
25 TraesCS7A01G420300 chr2D 73.970 1068 202 53 2336 3355 558902477 558903516 5.670000e-96 363.0
26 TraesCS7A01G420300 chr2D 94.558 147 7 1 1512 1658 558901908 558902053 7.760000e-55 226.0
27 TraesCS7A01G420300 chr2D 93.878 147 8 1 1512 1658 545015457 545015312 3.610000e-53 220.0
28 TraesCS7A01G420300 chr2D 81.768 181 30 3 889 1066 493176694 493176514 1.730000e-31 148.0
29 TraesCS7A01G420300 chr2D 78.689 183 32 6 2817 2995 31891238 31891059 1.750000e-21 115.0
30 TraesCS7A01G420300 chr5D 92.654 1824 88 13 5790 7581 395184048 395182239 0.000000e+00 2584.0
31 TraesCS7A01G420300 chr5D 92.654 1824 87 14 5790 7581 395189364 395187556 0.000000e+00 2582.0
32 TraesCS7A01G420300 chr5D 97.421 504 13 0 5794 6297 395181201 395180698 0.000000e+00 859.0
33 TraesCS7A01G420300 chr5D 97.240 471 13 0 5827 6297 395186545 395186075 0.000000e+00 798.0
34 TraesCS7A01G420300 chr5D 78.439 487 86 18 2295 2773 121177900 121177425 4.510000e-77 300.0
35 TraesCS7A01G420300 chr5A 96.332 1336 43 5 2981 4315 51751880 51750550 0.000000e+00 2191.0
36 TraesCS7A01G420300 chr5A 96.174 575 19 3 1512 2085 51753357 51752785 0.000000e+00 937.0
37 TraesCS7A01G420300 chr5A 94.912 570 19 4 2381 2944 51752432 51751867 0.000000e+00 883.0
38 TraesCS7A01G420300 chr5A 95.582 249 8 2 4316 4562 51750387 51750140 5.590000e-106 396.0
39 TraesCS7A01G420300 chr3D 93.283 1325 76 12 3248 4567 580921402 580920086 0.000000e+00 1941.0
40 TraesCS7A01G420300 chr3D 90.415 939 67 5 2337 3253 580936198 580935261 0.000000e+00 1214.0
41 TraesCS7A01G420300 chr3D 93.188 367 21 4 1720 2085 580936860 580936497 3.150000e-148 536.0
42 TraesCS7A01G420300 chr3D 73.730 925 184 49 2460 3347 580936194 580935292 2.690000e-79 307.0
43 TraesCS7A01G420300 chr3D 87.654 243 11 2 1447 1673 580937086 580936847 1.640000e-66 265.0
44 TraesCS7A01G420300 chr4A 88.023 1219 96 26 3350 4560 691704331 691703155 0.000000e+00 1397.0
45 TraesCS7A01G420300 chr4A 84.000 1075 109 24 2295 3343 691705697 691704660 0.000000e+00 974.0
46 TraesCS7A01G420300 chr4A 88.740 373 29 9 1720 2085 691706114 691705748 1.970000e-120 444.0
47 TraesCS7A01G420300 chr4A 92.727 110 5 2 1564 1673 691706207 691706101 1.030000e-33 156.0
48 TraesCS7A01G420300 chr1D 93.367 588 27 6 3975 4561 488618859 488618283 0.000000e+00 859.0
49 TraesCS7A01G420300 chr1D 93.019 573 35 4 3026 3598 488619855 488619288 0.000000e+00 832.0
50 TraesCS7A01G420300 chr1D 90.164 61 3 1 1447 1507 114686301 114686358 8.270000e-10 76.8
51 TraesCS7A01G420300 chr1D 91.379 58 2 1 1443 1500 467315234 467315180 8.270000e-10 76.8
52 TraesCS7A01G420300 chr4D 82.328 696 78 23 3911 4574 23958262 23957580 5.200000e-156 562.0
53 TraesCS7A01G420300 chr6B 79.710 690 99 25 394 1065 512213961 512214627 1.950000e-125 460.0
54 TraesCS7A01G420300 chr6B 82.258 186 28 4 883 1065 512234870 512235053 1.030000e-33 156.0
55 TraesCS7A01G420300 chr6B 98.611 72 1 0 1 72 354953033 354952962 2.250000e-25 128.0
56 TraesCS7A01G420300 chr6D 79.710 690 97 28 390 1065 315193820 315193160 7.030000e-125 459.0
57 TraesCS7A01G420300 chr6D 82.682 179 28 2 890 1065 315178216 315178038 1.030000e-33 156.0
58 TraesCS7A01G420300 chr2B 79.487 429 65 19 2346 2766 718974385 718974798 4.540000e-72 283.0
59 TraesCS7A01G420300 chr2B 82.873 181 28 3 889 1066 581470659 581470479 7.980000e-35 159.0
60 TraesCS7A01G420300 chr2B 77.070 157 32 3 2796 2950 40308134 40308288 3.820000e-13 87.9
61 TraesCS7A01G420300 chr5B 98.611 72 1 0 1 72 508800880 508800809 2.250000e-25 128.0
62 TraesCS7A01G420300 chr5B 98.592 71 1 0 1 71 487340553 487340623 8.090000e-25 126.0
63 TraesCS7A01G420300 chr5B 94.805 77 3 1 1 77 584186681 584186756 1.350000e-22 119.0
64 TraesCS7A01G420300 chr1B 98.611 72 1 0 1 72 427757475 427757404 2.250000e-25 128.0
65 TraesCS7A01G420300 chr1B 89.231 65 4 1 1443 1507 161582791 161582730 2.300000e-10 78.7
66 TraesCS7A01G420300 chrUn 98.592 71 1 0 1 71 222067242 222067312 8.090000e-25 126.0
67 TraesCS7A01G420300 chr3B 98.592 71 1 0 1 71 750160262 750160332 8.090000e-25 126.0
68 TraesCS7A01G420300 chr3A 80.000 175 30 5 3565 3735 739134566 739134739 2.910000e-24 124.0
69 TraesCS7A01G420300 chr3A 85.507 69 7 1 1440 1508 741164275 741164210 1.380000e-07 69.4
70 TraesCS7A01G420300 chr1A 98.571 70 1 0 1 70 235839432 235839501 2.910000e-24 124.0
71 TraesCS7A01G420300 chr1A 87.879 66 5 1 1447 1512 39398086 39398148 2.970000e-09 75.0


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 TraesCS7A01G420300 chr7A 611727599 611735280 7681 False 6900.50 9950 100.00000 1 7682 2 chr7A.!!$F3 7681
1 TraesCS7A01G420300 chr7A 611916269 611918678 2409 False 2401.00 2401 84.78500 4563 7026 1 chr7A.!!$F2 2463
2 TraesCS7A01G420300 chr7A 611910745 611911509 764 False 885.00 885 87.69200 293 1061 1 chr7A.!!$F1 768
3 TraesCS7A01G420300 chr7A 706085677 706086601 924 True 491.50 521 87.31400 3493 4373 2 chr7A.!!$R3 880
4 TraesCS7A01G420300 chr7D 531439017 531443461 4444 False 3478.50 4783 95.65800 87 7682 2 chr7D.!!$F1 7595
5 TraesCS7A01G420300 chr7D 123372376 123373054 678 True 579.00 579 82.89900 3911 4566 1 chr7D.!!$R1 655
6 TraesCS7A01G420300 chr6A 615478579 615481559 2980 False 2236.50 3760 95.12350 1447 4562 2 chr6A.!!$F2 3115
7 TraesCS7A01G420300 chr2A 778781079 778784159 3080 False 2281.50 3611 96.55400 1512 4560 2 chr2A.!!$F2 3048
8 TraesCS7A01G420300 chr2D 545012512 545015457 2945 True 1127.75 3241 88.58925 1512 4565 4 chr2D.!!$R3 3053
9 TraesCS7A01G420300 chr2D 558901908 558904832 2924 False 1110.50 3197 88.59175 1512 4562 4 chr2D.!!$F1 3050
10 TraesCS7A01G420300 chr5D 395180698 395189364 8666 True 1705.75 2584 94.99225 5790 7581 4 chr5D.!!$R2 1791
11 TraesCS7A01G420300 chr5A 51750140 51753357 3217 True 1101.75 2191 95.75000 1512 4562 4 chr5A.!!$R1 3050
12 TraesCS7A01G420300 chr3D 580920086 580921402 1316 True 1941.00 1941 93.28300 3248 4567 1 chr3D.!!$R1 1319
13 TraesCS7A01G420300 chr3D 580935261 580937086 1825 True 580.50 1214 86.24675 1447 3347 4 chr3D.!!$R2 1900
14 TraesCS7A01G420300 chr4A 691703155 691706207 3052 True 742.75 1397 88.37250 1564 4560 4 chr4A.!!$R1 2996
15 TraesCS7A01G420300 chr1D 488618283 488619855 1572 True 845.50 859 93.19300 3026 4561 2 chr1D.!!$R2 1535
16 TraesCS7A01G420300 chr4D 23957580 23958262 682 True 562.00 562 82.32800 3911 4574 1 chr4D.!!$R1 663
17 TraesCS7A01G420300 chr6B 512213961 512214627 666 False 460.00 460 79.71000 394 1065 1 chr6B.!!$F1 671
18 TraesCS7A01G420300 chr6D 315193160 315193820 660 True 459.00 459 79.71000 390 1065 1 chr6D.!!$R2 675

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
109 110 0.319555 TAACTGCACTGTCGACCTGC 60.320 55.0 22.32 22.32 0.00 4.85 F
1330 1361 0.982673 CGTCTTTGCCTACGACTTCG 59.017 55.0 0.00 0.00 41.55 3.79 F
1433 1464 0.179032 TCCCACTGCGCTTTCAAAGA 60.179 50.0 9.73 0.00 0.00 2.52 F
2333 2527 0.249398 ATGGTCAGTTGTAGTCGGGC 59.751 55.0 0.00 0.00 0.00 6.13 F
2523 2735 0.608856 TGTCGGACATGCAATTGCCT 60.609 50.0 26.94 15.36 41.18 4.75 F
3213 3447 0.679505 AGTTGCAAGCCTAGTGTCGA 59.320 50.0 0.00 0.00 0.00 4.20 F
4685 5515 1.535833 TCGGACTCTGGACTCAAGAC 58.464 55.0 0.00 0.00 0.00 3.01 F
5424 6260 0.756903 GTACCCGGCAGATGTACCAT 59.243 55.0 0.00 0.00 30.94 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1379 1410 1.144093 TCCTGGTGACCGAATTTGGTT 59.856 47.619 18.77 2.76 44.01 3.67 R
3148 3382 0.178992 CATGTCCACACACCCAACCT 60.179 55.000 0.00 0.00 34.48 3.50 R
3213 3447 1.266867 GGAGGGGGCATTTGCATGTT 61.267 55.000 4.74 0.00 44.36 2.71 R
3410 3971 1.279840 GTCACTTGGCACGCAACTC 59.720 57.895 0.00 0.00 0.00 3.01 R
3525 4088 3.306166 CAGTAGTGTTTTATCGGGAAGCG 59.694 47.826 0.00 0.00 0.00 4.68 R
4923 5759 1.219773 ATGGGCATGACAGAGGTGAT 58.780 50.000 0.00 0.00 0.00 3.06 R
6308 7149 0.036388 GCCTTCCACACCGAGAATCA 60.036 55.000 0.00 0.00 33.17 2.57 R
7290 8138 0.036306 CTAAGCGGAACCCACCAGTT 59.964 55.000 0.00 0.00 0.00 3.16 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 4.008074 CATTGTATCCTAGCCGGTTGAT 57.992 45.455 1.90 0.00 0.00 2.57
22 23 3.469008 TTGTATCCTAGCCGGTTGATG 57.531 47.619 1.90 0.00 0.00 3.07
34 35 4.654091 CCGGTTGATGGCTTCATTAATT 57.346 40.909 3.72 0.00 33.34 1.40
36 37 4.805192 CCGGTTGATGGCTTCATTAATTTG 59.195 41.667 3.72 0.00 33.34 2.32
38 39 6.098679 CGGTTGATGGCTTCATTAATTTGAA 58.901 36.000 3.72 0.00 33.34 2.69
46 47 4.672409 CTTCATTAATTTGAAGTCGGGCC 58.328 43.478 10.51 0.00 44.90 5.80
48 49 4.340617 TCATTAATTTGAAGTCGGGCCTT 58.659 39.130 0.84 0.00 0.00 4.35
49 50 4.770010 TCATTAATTTGAAGTCGGGCCTTT 59.230 37.500 0.84 0.00 0.00 3.11
50 51 4.513198 TTAATTTGAAGTCGGGCCTTTG 57.487 40.909 0.84 0.00 0.00 2.77
51 52 1.995376 ATTTGAAGTCGGGCCTTTGT 58.005 45.000 0.84 0.00 0.00 2.83
52 53 1.028905 TTTGAAGTCGGGCCTTTGTG 58.971 50.000 0.84 0.00 0.00 3.33
53 54 1.452145 TTGAAGTCGGGCCTTTGTGC 61.452 55.000 0.84 0.00 0.00 4.57
67 68 6.429791 GCCTTTGTGCCTTTTCTTTAAAAA 57.570 33.333 0.00 0.00 34.26 1.94
109 110 0.319555 TAACTGCACTGTCGACCTGC 60.320 55.000 22.32 22.32 0.00 4.85
239 240 7.329746 AGCTAGGGCATTCCAGTTTATAATA 57.670 36.000 0.00 0.00 41.70 0.98
342 343 7.121315 AGCATTATCATCATCAATCACCATCTG 59.879 37.037 0.00 0.00 0.00 2.90
446 452 1.104577 GCCGGAGATCGAGAAGGACT 61.105 60.000 5.05 0.00 42.43 3.85
754 766 1.277557 GAGAACACAGTCATCCAGGCT 59.722 52.381 0.00 0.00 0.00 4.58
1209 1232 4.191544 TGATGGAGTAGGAAAAGCAATCG 58.808 43.478 0.00 0.00 0.00 3.34
1220 1243 5.884792 AGGAAAAGCAATCGATGAAGATTCT 59.115 36.000 0.00 0.00 38.66 2.40
1286 1309 7.223777 GGACCGAGAACAAAATTTTGAAATGAA 59.776 33.333 32.20 0.00 40.55 2.57
1330 1361 0.982673 CGTCTTTGCCTACGACTTCG 59.017 55.000 0.00 0.00 41.55 3.79
1368 1399 2.161855 CACCAAGCTAGCATTTGACCA 58.838 47.619 18.83 0.00 0.00 4.02
1378 1409 7.037438 AGCTAGCATTTGACCAAAAATGTATG 58.963 34.615 18.83 0.00 45.37 2.39
1379 1410 7.035004 GCTAGCATTTGACCAAAAATGTATGA 58.965 34.615 10.63 0.00 45.37 2.15
1381 1412 7.656707 AGCATTTGACCAAAAATGTATGAAC 57.343 32.000 10.40 0.00 45.37 3.18
1382 1413 6.650390 AGCATTTGACCAAAAATGTATGAACC 59.350 34.615 10.40 0.00 45.37 3.62
1383 1414 6.426328 GCATTTGACCAAAAATGTATGAACCA 59.574 34.615 10.40 0.00 45.37 3.67
1384 1415 7.041508 GCATTTGACCAAAAATGTATGAACCAA 60.042 33.333 10.40 0.00 45.37 3.67
1387 1418 8.970859 TTGACCAAAAATGTATGAACCAAATT 57.029 26.923 0.00 0.00 0.00 1.82
1388 1419 8.600449 TGACCAAAAATGTATGAACCAAATTC 57.400 30.769 0.00 0.00 37.88 2.17
1389 1420 7.383572 TGACCAAAAATGTATGAACCAAATTCG 59.616 33.333 0.00 0.00 40.56 3.34
1390 1421 6.648725 ACCAAAAATGTATGAACCAAATTCGG 59.351 34.615 0.00 0.00 40.56 4.30
1391 1422 6.648725 CCAAAAATGTATGAACCAAATTCGGT 59.351 34.615 0.00 0.00 42.71 4.69
1394 1425 5.560966 ATGTATGAACCAAATTCGGTCAC 57.439 39.130 0.00 0.00 38.76 3.67
1396 1427 2.350057 TGAACCAAATTCGGTCACCA 57.650 45.000 0.00 0.00 38.76 4.17
1397 1428 2.226330 TGAACCAAATTCGGTCACCAG 58.774 47.619 0.00 0.00 38.76 4.00
1398 1429 1.539827 GAACCAAATTCGGTCACCAGG 59.460 52.381 0.00 0.00 38.76 4.45
1399 1430 0.768622 ACCAAATTCGGTCACCAGGA 59.231 50.000 0.00 0.00 32.11 3.86
1400 1431 1.165270 CCAAATTCGGTCACCAGGAC 58.835 55.000 0.00 0.00 46.20 3.85
1407 1438 3.626924 GTCACCAGGACCGCACCT 61.627 66.667 0.00 0.00 40.83 4.00
1408 1439 3.311110 TCACCAGGACCGCACCTC 61.311 66.667 0.00 0.00 38.32 3.85
1428 1459 1.869690 GAGTTCCCACTGCGCTTTC 59.130 57.895 9.73 0.00 31.22 2.62
1433 1464 0.179032 TCCCACTGCGCTTTCAAAGA 60.179 50.000 9.73 0.00 0.00 2.52
1435 1466 1.066908 CCCACTGCGCTTTCAAAGAAA 59.933 47.619 9.73 0.00 0.00 2.52
1436 1467 2.288395 CCCACTGCGCTTTCAAAGAAAT 60.288 45.455 9.73 0.00 0.00 2.17
1438 1469 4.545610 CCACTGCGCTTTCAAAGAAATAA 58.454 39.130 9.73 0.00 0.00 1.40
1439 1470 5.163513 CCACTGCGCTTTCAAAGAAATAAT 58.836 37.500 9.73 0.00 0.00 1.28
1441 1472 5.061311 CACTGCGCTTTCAAAGAAATAATGG 59.939 40.000 9.73 0.00 0.00 3.16
1442 1473 5.048083 ACTGCGCTTTCAAAGAAATAATGGA 60.048 36.000 9.73 0.00 0.00 3.41
1443 1474 5.964758 TGCGCTTTCAAAGAAATAATGGAT 58.035 33.333 9.73 0.00 0.00 3.41
1444 1475 5.806502 TGCGCTTTCAAAGAAATAATGGATG 59.193 36.000 9.73 0.00 0.00 3.51
1445 1476 6.035843 GCGCTTTCAAAGAAATAATGGATGA 58.964 36.000 0.00 0.00 0.00 2.92
1910 2057 3.242252 CGTTTGCATCATGTACACGCATA 60.242 43.478 1.34 0.00 30.47 3.14
1948 2095 1.800586 CATACGCCTGCATCATGTACC 59.199 52.381 0.00 0.00 0.00 3.34
2325 2472 7.706179 CACTTACAAAATGAAATGGTCAGTTGT 59.294 33.333 10.97 10.97 43.55 3.32
2333 2527 0.249398 ATGGTCAGTTGTAGTCGGGC 59.751 55.000 0.00 0.00 0.00 6.13
2523 2735 0.608856 TGTCGGACATGCAATTGCCT 60.609 50.000 26.94 15.36 41.18 4.75
2833 3048 4.650734 TGGAAGACATGCAGTTGTATTCA 58.349 39.130 22.49 10.90 45.28 2.57
3051 3285 4.580167 ACAAATGTGTAGACATGCAGTTGT 59.420 37.500 12.57 12.57 42.30 3.32
3148 3382 6.063404 ACCTACAAAATAAAAGGTCGGTTGA 58.937 36.000 0.00 0.00 37.87 3.18
3213 3447 0.679505 AGTTGCAAGCCTAGTGTCGA 59.320 50.000 0.00 0.00 0.00 4.20
3383 3944 5.179182 CCCATGGCTGATTTACAAAACAAAC 59.821 40.000 6.09 0.00 0.00 2.93
3410 3971 1.676635 CAGTCAGGTGTGGGCATGG 60.677 63.158 0.00 0.00 0.00 3.66
3525 4088 2.103941 TGAAAAACATGCAACTTCCCCC 59.896 45.455 0.00 0.00 0.00 5.40
3834 4404 9.616634 GGATAAATGAACATGCTACATACAATG 57.383 33.333 0.00 0.00 0.00 2.82
3909 4526 4.807834 ACGAATACAATGTCTGCTGATGAG 59.192 41.667 0.00 0.00 0.00 2.90
3925 4542 6.086222 GCTGATGAGAAAAATAAGCGTGAAA 58.914 36.000 0.00 0.00 0.00 2.69
4189 4821 2.801679 CACAAATTTGCACGAATTGGCT 59.198 40.909 18.12 0.00 30.06 4.75
4419 5247 5.941058 TCTATTTTCAATCGTAGCCCAACAA 59.059 36.000 0.00 0.00 0.00 2.83
4600 5430 4.020543 TGTTTCCTACTTTGGTTGCAAGT 58.979 39.130 0.00 0.00 38.13 3.16
4641 5471 5.588246 ACATGTATCACGTTGCATATTTCCA 59.412 36.000 0.00 0.00 0.00 3.53
4685 5515 1.535833 TCGGACTCTGGACTCAAGAC 58.464 55.000 0.00 0.00 0.00 3.01
4790 5620 3.330267 CTGTACTTGCTTTGGACTCTCC 58.670 50.000 0.00 0.00 36.96 3.71
4828 5658 2.649531 TTCAGGTTTTGGTGGTCGAT 57.350 45.000 0.00 0.00 0.00 3.59
4846 5676 5.111989 GTCGATTACAAACTAACCTACCCC 58.888 45.833 0.00 0.00 0.00 4.95
4953 5789 6.836242 TCTGTCATGCCCATTACATAACATA 58.164 36.000 0.00 0.00 25.52 2.29
4959 5795 8.358895 TCATGCCCATTACATAACATAACATTG 58.641 33.333 0.00 0.00 0.00 2.82
4961 5797 6.097412 TGCCCATTACATAACATAACATTGCA 59.903 34.615 0.00 0.00 0.00 4.08
5233 6069 4.111198 TCAGTAACTTTTCGTACGCAACA 58.889 39.130 11.24 0.00 0.00 3.33
5424 6260 0.756903 GTACCCGGCAGATGTACCAT 59.243 55.000 0.00 0.00 30.94 3.55
5555 6394 3.149981 GCTCTTGTTACAGGCCTTCTTT 58.850 45.455 0.00 0.00 0.00 2.52
5680 6519 3.074412 ACAAAGGTGAGGAAAGCATACG 58.926 45.455 0.00 0.00 0.00 3.06
5735 6574 2.991866 GGTTCTGTTCTAACGTGTAGCC 59.008 50.000 0.00 0.00 0.00 3.93
5740 6581 7.253422 GTTCTGTTCTAACGTGTAGCCTATAA 58.747 38.462 0.00 0.00 0.00 0.98
5849 6690 2.037251 GGATGGCATACACTGGATACGT 59.963 50.000 4.39 0.00 42.51 3.57
5901 6742 2.039418 CCCCTGATGTTCCGTCAGATA 58.961 52.381 13.64 0.00 46.87 1.98
6084 6925 1.072505 CCTGGTTGGTGGTACGCTT 59.927 57.895 0.00 0.00 39.78 4.68
6102 6943 1.605710 CTTGTGAAGCAGTTGGTCCTG 59.394 52.381 0.00 0.00 35.49 3.86
6255 7096 3.763360 TCTACAAGGCATTTGATGTTGGG 59.237 43.478 7.14 0.00 39.21 4.12
6308 7149 5.074804 TGCACTCATATACCGTAGTATGGT 58.925 41.667 18.10 18.10 39.58 3.55
6504 7345 3.331150 CTTTGCCATTGACATGTGCATT 58.669 40.909 1.15 0.00 36.82 3.56
6513 7354 3.760738 TGACATGTGCATTGGGAGTTTA 58.239 40.909 1.15 0.00 0.00 2.01
6591 7432 0.953727 TTGCATCCGGCTTGATATGC 59.046 50.000 14.81 14.81 45.15 3.14
6735 7576 6.811253 ATCTTTGGATTTTACGTTGTGCTA 57.189 33.333 0.00 0.00 0.00 3.49
6783 7624 5.471797 TGTGGAGTACATTTTATGGTGTGTG 59.528 40.000 0.00 0.00 33.42 3.82
6785 7626 5.471797 TGGAGTACATTTTATGGTGTGTGTG 59.528 40.000 0.00 0.00 33.60 3.82
6786 7627 5.472137 GGAGTACATTTTATGGTGTGTGTGT 59.528 40.000 0.00 0.00 33.60 3.72
6787 7628 6.312399 AGTACATTTTATGGTGTGTGTGTG 57.688 37.500 0.00 0.00 33.60 3.82
6788 7629 5.825679 AGTACATTTTATGGTGTGTGTGTGT 59.174 36.000 0.00 0.00 33.60 3.72
6789 7630 4.930963 ACATTTTATGGTGTGTGTGTGTG 58.069 39.130 0.00 0.00 33.60 3.82
6790 7631 4.400884 ACATTTTATGGTGTGTGTGTGTGT 59.599 37.500 0.00 0.00 33.60 3.72
6791 7632 4.362932 TTTTATGGTGTGTGTGTGTGTG 57.637 40.909 0.00 0.00 0.00 3.82
6792 7633 2.700722 TATGGTGTGTGTGTGTGTGT 57.299 45.000 0.00 0.00 0.00 3.72
6793 7634 1.093972 ATGGTGTGTGTGTGTGTGTG 58.906 50.000 0.00 0.00 0.00 3.82
6794 7635 0.250510 TGGTGTGTGTGTGTGTGTGT 60.251 50.000 0.00 0.00 0.00 3.72
6795 7636 0.167908 GGTGTGTGTGTGTGTGTGTG 59.832 55.000 0.00 0.00 0.00 3.82
6796 7637 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
6797 7638 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
6798 7639 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
6799 7640 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
6827 7668 6.263842 TGATTCCATGGCATTAGATCTTTGTC 59.736 38.462 6.96 1.47 0.00 3.18
7046 7894 5.873164 CACATGGTTACACTACTAGGGAAAC 59.127 44.000 0.00 0.00 0.00 2.78
7097 7945 3.370231 TGGAGACTGCGCGCTACA 61.370 61.111 33.29 16.48 0.00 2.74
7151 7999 6.151312 CCCATGCTACAGGTAGTACATAGTAG 59.849 46.154 15.90 15.90 35.65 2.57
7153 8001 7.308649 CCATGCTACAGGTAGTACATAGTAGTG 60.309 44.444 18.90 13.44 35.65 2.74
7156 8004 3.881688 ACAGGTAGTACATAGTAGTGGCG 59.118 47.826 2.06 0.00 0.00 5.69
7157 8005 3.881688 CAGGTAGTACATAGTAGTGGCGT 59.118 47.826 2.06 0.00 0.00 5.68
7205 8053 0.030399 GTGGTCCCCATAGTACCCCT 60.030 60.000 0.00 0.00 35.28 4.79
7225 8073 2.034066 GGCAGGCCACAGTAGCAA 59.966 61.111 5.01 0.00 35.81 3.91
7227 8075 1.600636 GCAGGCCACAGTAGCAACA 60.601 57.895 5.01 0.00 0.00 3.33
7276 8124 8.004585 GCTAATCTAATAGCAATAACGTCGTT 57.995 34.615 15.97 15.97 46.06 3.85
7284 8132 3.121261 AGCAATAACGTCGTTTGTGTACG 60.121 43.478 16.98 0.00 42.68 3.67
7285 8133 3.713555 CAATAACGTCGTTTGTGTACGG 58.286 45.455 16.98 0.00 41.67 4.02
7286 8134 1.764851 TAACGTCGTTTGTGTACGGG 58.235 50.000 16.98 0.00 41.67 5.28
7287 8135 0.179113 AACGTCGTTTGTGTACGGGT 60.179 50.000 4.40 0.00 41.67 5.28
7288 8136 0.179113 ACGTCGTTTGTGTACGGGTT 60.179 50.000 0.00 0.00 41.67 4.11
7289 8137 0.503961 CGTCGTTTGTGTACGGGTTC 59.496 55.000 0.00 0.00 41.67 3.62
7290 8138 1.569708 GTCGTTTGTGTACGGGTTCA 58.430 50.000 0.00 0.00 41.67 3.18
7291 8139 1.932511 GTCGTTTGTGTACGGGTTCAA 59.067 47.619 0.00 0.00 41.67 2.69
7301 8173 1.152839 CGGGTTCAACTGGTGGGTT 60.153 57.895 0.00 0.00 0.00 4.11
7313 8185 1.003718 GTGGGTTCCGCTTAGCAGT 60.004 57.895 4.70 0.00 0.00 4.40
7339 8211 2.805194 GGGTACATACGCCCTCTCTAT 58.195 52.381 0.00 0.00 41.63 1.98
7399 8271 1.687123 CGCTACTACTAAGGGTGCCAT 59.313 52.381 0.00 0.00 0.00 4.40
7416 8288 2.694628 GCCATCCAAAATATCAGCCACA 59.305 45.455 0.00 0.00 0.00 4.17
7426 8302 0.259938 ATCAGCCACATTTCCCCCTC 59.740 55.000 0.00 0.00 0.00 4.30
7442 8318 1.694525 CTCCTCCCTTCCCCTTCCC 60.695 68.421 0.00 0.00 0.00 3.97
7454 8330 0.186143 CCCTTCCCTTTCCCATAGCC 59.814 60.000 0.00 0.00 0.00 3.93
7481 8357 6.150140 GCTTTCCTCTCTCATTTGCTTTCTTA 59.850 38.462 0.00 0.00 0.00 2.10
7504 8380 2.849318 CTCTTCCTTCAATTCTCCCCCT 59.151 50.000 0.00 0.00 0.00 4.79
7505 8381 2.846827 TCTTCCTTCAATTCTCCCCCTC 59.153 50.000 0.00 0.00 0.00 4.30
7507 8383 1.082879 TCCTTCAATTCTCCCCCTCCT 59.917 52.381 0.00 0.00 0.00 3.69
7508 8384 1.492599 CCTTCAATTCTCCCCCTCCTC 59.507 57.143 0.00 0.00 0.00 3.71
7587 8466 3.513515 TGCTTTCTTCTCCCTCTCTCTTC 59.486 47.826 0.00 0.00 0.00 2.87
7598 8477 2.499693 CCTCTCTCTTCCTTCTTCCCAC 59.500 54.545 0.00 0.00 0.00 4.61
7631 8510 4.163078 CCCTCCACTTCATTGACTCACTAT 59.837 45.833 0.00 0.00 0.00 2.12
7638 8517 7.195646 CACTTCATTGACTCACTATCTCTCTC 58.804 42.308 0.00 0.00 0.00 3.20
7650 8529 2.223803 TCTCTCTCTCCCACTCCAAC 57.776 55.000 0.00 0.00 0.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.469008 TCAACCGGCTAGGATACAATG 57.531 47.619 0.00 0.00 45.00 2.82
2 3 2.104111 CCATCAACCGGCTAGGATACAA 59.896 50.000 0.00 0.00 45.00 2.41
3 4 1.691976 CCATCAACCGGCTAGGATACA 59.308 52.381 0.00 0.00 45.00 2.29
4 5 1.608283 GCCATCAACCGGCTAGGATAC 60.608 57.143 0.00 0.00 46.56 2.24
13 14 4.654091 AATTAATGAAGCCATCAACCGG 57.346 40.909 0.00 0.00 42.54 5.28
14 15 5.649557 TCAAATTAATGAAGCCATCAACCG 58.350 37.500 0.00 0.00 42.54 4.44
15 16 7.529880 CTTCAAATTAATGAAGCCATCAACC 57.470 36.000 6.89 0.00 46.88 3.77
25 26 4.340617 AGGCCCGACTTCAAATTAATGAA 58.659 39.130 0.00 0.00 37.70 2.57
26 27 3.963129 AGGCCCGACTTCAAATTAATGA 58.037 40.909 0.00 0.00 0.00 2.57
27 28 4.718940 AAGGCCCGACTTCAAATTAATG 57.281 40.909 0.00 0.00 0.00 1.90
28 29 4.526650 ACAAAGGCCCGACTTCAAATTAAT 59.473 37.500 0.00 0.00 0.00 1.40
29 30 3.892588 ACAAAGGCCCGACTTCAAATTAA 59.107 39.130 0.00 0.00 0.00 1.40
32 33 1.613437 CACAAAGGCCCGACTTCAAAT 59.387 47.619 0.00 0.00 0.00 2.32
33 34 1.028905 CACAAAGGCCCGACTTCAAA 58.971 50.000 0.00 0.00 0.00 2.69
34 35 1.452145 GCACAAAGGCCCGACTTCAA 61.452 55.000 0.00 0.00 0.00 2.69
36 37 2.954611 GCACAAAGGCCCGACTTC 59.045 61.111 0.00 0.00 0.00 3.01
70 71 9.868277 GCAGTTAGCTAGATATCTAATTCACAT 57.132 33.333 13.41 0.00 41.15 3.21
71 72 8.860088 TGCAGTTAGCTAGATATCTAATTCACA 58.140 33.333 13.41 2.97 45.94 3.58
72 73 9.134734 GTGCAGTTAGCTAGATATCTAATTCAC 57.865 37.037 13.41 8.33 45.94 3.18
73 74 9.083422 AGTGCAGTTAGCTAGATATCTAATTCA 57.917 33.333 13.41 0.00 45.94 2.57
74 75 9.352784 CAGTGCAGTTAGCTAGATATCTAATTC 57.647 37.037 13.41 6.16 45.94 2.17
75 76 8.865090 ACAGTGCAGTTAGCTAGATATCTAATT 58.135 33.333 13.41 7.27 45.94 1.40
76 77 8.415950 ACAGTGCAGTTAGCTAGATATCTAAT 57.584 34.615 13.41 7.89 45.94 1.73
78 79 6.147985 CGACAGTGCAGTTAGCTAGATATCTA 59.852 42.308 11.94 11.94 45.94 1.98
80 81 5.049336 TCGACAGTGCAGTTAGCTAGATATC 60.049 44.000 0.00 0.00 45.94 1.63
81 82 4.822350 TCGACAGTGCAGTTAGCTAGATAT 59.178 41.667 0.00 0.00 45.94 1.63
82 83 4.035324 GTCGACAGTGCAGTTAGCTAGATA 59.965 45.833 11.55 0.00 45.94 1.98
109 110 0.111704 CCGATGAACGCGCGAAATAG 60.112 55.000 39.36 23.45 41.07 1.73
342 343 0.818445 TCCTATCTCGTGGAGCGGAC 60.818 60.000 0.00 0.00 41.72 4.79
754 766 0.323302 TGTAGCAGGAATCGGCACAA 59.677 50.000 0.00 0.00 36.54 3.33
1170 1193 4.335416 CCATCATATGGCTCCGGTAAATT 58.665 43.478 0.00 0.00 44.70 1.82
1203 1226 7.649705 TGTTACTCTAGAATCTTCATCGATTGC 59.350 37.037 0.00 0.00 33.96 3.56
1220 1243 8.687292 AATACCTCACGTATCATGTTACTCTA 57.313 34.615 11.25 0.00 36.61 2.43
1286 1309 2.928801 TATAGGCGCACATGGTCATT 57.071 45.000 10.83 0.00 0.00 2.57
1290 1313 3.119602 CGTACTATATAGGCGCACATGGT 60.120 47.826 10.83 6.86 0.00 3.55
1330 1361 1.464997 GTGTCGCCTTCATGGAAGTTC 59.535 52.381 5.37 0.00 37.92 3.01
1368 1399 7.383843 GTGACCGAATTTGGTTCATACATTTTT 59.616 33.333 18.77 0.00 44.01 1.94
1378 1409 1.539827 CCTGGTGACCGAATTTGGTTC 59.460 52.381 18.77 14.01 44.01 3.62
1379 1410 1.144093 TCCTGGTGACCGAATTTGGTT 59.856 47.619 18.77 2.76 44.01 3.67
1381 1412 1.165270 GTCCTGGTGACCGAATTTGG 58.835 55.000 10.45 10.45 38.09 3.28
1390 1421 3.591254 GAGGTGCGGTCCTGGTGAC 62.591 68.421 0.00 0.00 43.67 3.67
1391 1422 3.311110 GAGGTGCGGTCCTGGTGA 61.311 66.667 0.00 0.00 38.02 4.02
1396 1427 4.680537 ACTCGGAGGTGCGGTCCT 62.681 66.667 10.23 0.00 40.97 3.85
1397 1428 3.644399 GAACTCGGAGGTGCGGTCC 62.644 68.421 10.23 0.00 0.00 4.46
1398 1429 2.126031 GAACTCGGAGGTGCGGTC 60.126 66.667 10.23 0.00 0.00 4.79
1399 1430 3.692406 GGAACTCGGAGGTGCGGT 61.692 66.667 10.23 0.00 0.00 5.68
1400 1431 4.452733 GGGAACTCGGAGGTGCGG 62.453 72.222 8.52 0.00 0.00 5.69
1401 1432 3.691342 TGGGAACTCGGAGGTGCG 61.691 66.667 8.52 0.00 0.00 5.34
1402 1433 2.047179 GTGGGAACTCGGAGGTGC 60.047 66.667 5.94 5.94 0.00 5.01
1403 1434 1.293498 CAGTGGGAACTCGGAGGTG 59.707 63.158 10.23 0.00 0.00 4.00
1404 1435 2.584391 GCAGTGGGAACTCGGAGGT 61.584 63.158 10.23 1.51 0.00 3.85
1405 1436 2.266055 GCAGTGGGAACTCGGAGG 59.734 66.667 10.23 0.00 0.00 4.30
1407 1438 4.373116 GCGCAGTGGGAACTCGGA 62.373 66.667 12.03 0.00 0.00 4.55
1408 1439 3.883744 AAGCGCAGTGGGAACTCGG 62.884 63.158 11.47 0.00 0.00 4.63
1428 1459 8.503458 AGACAGACTCATCCATTATTTCTTTG 57.497 34.615 0.00 0.00 0.00 2.77
1433 1464 7.566879 AGACCTAGACAGACTCATCCATTATTT 59.433 37.037 0.00 0.00 0.00 1.40
1435 1466 6.619464 AGACCTAGACAGACTCATCCATTAT 58.381 40.000 0.00 0.00 0.00 1.28
1436 1467 6.019656 AGACCTAGACAGACTCATCCATTA 57.980 41.667 0.00 0.00 0.00 1.90
1438 1469 4.079500 TGAGACCTAGACAGACTCATCCAT 60.080 45.833 0.00 0.00 33.43 3.41
1439 1470 3.267031 TGAGACCTAGACAGACTCATCCA 59.733 47.826 0.00 0.00 33.43 3.41
1441 1472 4.523083 ACTGAGACCTAGACAGACTCATC 58.477 47.826 0.00 0.00 35.82 2.92
1442 1473 4.523083 GACTGAGACCTAGACAGACTCAT 58.477 47.826 0.00 0.00 35.82 2.90
1443 1474 3.617775 CGACTGAGACCTAGACAGACTCA 60.618 52.174 0.00 0.00 35.42 3.41
1444 1475 2.933906 CGACTGAGACCTAGACAGACTC 59.066 54.545 0.00 0.00 35.85 3.36
1445 1476 2.568062 TCGACTGAGACCTAGACAGACT 59.432 50.000 0.00 0.00 35.85 3.24
1479 1510 1.199327 TCAGCCGACTTAGACTTCGTG 59.801 52.381 0.00 0.00 33.23 4.35
1480 1511 1.199558 GTCAGCCGACTTAGACTTCGT 59.800 52.381 0.00 0.00 39.22 3.85
1910 2057 1.317613 TGTTTTTGATGCAGGAGCGT 58.682 45.000 0.00 0.00 46.23 5.07
1948 2095 1.485838 GAGATCGACCGTGCATGCAG 61.486 60.000 23.41 13.42 0.00 4.41
2325 2472 0.736636 CATGTCTACACGCCCGACTA 59.263 55.000 0.00 0.00 0.00 2.59
2333 2527 3.575630 ACTACAACTGCATGTCTACACG 58.424 45.455 0.00 0.00 34.75 4.49
2990 3205 2.644060 AAGAGGGGTAGGTAGTTGCT 57.356 50.000 0.00 0.00 0.00 3.91
3051 3285 2.730382 TGCAAGTATCACCCTCGACTA 58.270 47.619 0.00 0.00 0.00 2.59
3148 3382 0.178992 CATGTCCACACACCCAACCT 60.179 55.000 0.00 0.00 34.48 3.50
3213 3447 1.266867 GGAGGGGGCATTTGCATGTT 61.267 55.000 4.74 0.00 44.36 2.71
3334 3571 2.350458 GGGCGGTTGCATGTCCAAT 61.350 57.895 0.00 0.00 45.35 3.16
3363 3923 3.799420 GCGTTTGTTTTGTAAATCAGCCA 59.201 39.130 0.00 0.00 0.00 4.75
3410 3971 1.279840 GTCACTTGGCACGCAACTC 59.720 57.895 0.00 0.00 0.00 3.01
3525 4088 3.306166 CAGTAGTGTTTTATCGGGAAGCG 59.694 47.826 0.00 0.00 0.00 4.68
3834 4404 9.634163 TTATTTTTAGCCTCGAAGGAAAAATTC 57.366 29.630 19.24 0.00 37.98 2.17
3883 4454 5.066968 TCAGCAGACATTGTATTCGTGTA 57.933 39.130 0.00 0.00 0.00 2.90
4419 5247 5.334491 CGGCCTGTTTCTTTTTGTTTTTGTT 60.334 36.000 0.00 0.00 0.00 2.83
4515 5345 7.164230 ACTGATTTCTATCGAAGTCTCAGTT 57.836 36.000 12.31 3.25 39.51 3.16
4685 5515 6.923012 TGTATTGAAACAAATGGACCATGAG 58.077 36.000 8.02 6.31 0.00 2.90
4790 5620 9.439500 AACCTGAATACATTTTGGAAAATCATG 57.561 29.630 0.00 0.00 36.52 3.07
4828 5658 4.041938 CCACTGGGGTAGGTTAGTTTGTAA 59.958 45.833 0.00 0.00 0.00 2.41
4846 5676 3.348236 GCAGTTGCTGTCCCACTG 58.652 61.111 0.00 0.00 38.21 3.66
4923 5759 1.219773 ATGGGCATGACAGAGGTGAT 58.780 50.000 0.00 0.00 0.00 3.06
4959 5795 7.574496 TGTTTTAGTGAATCAATTGCAATTGC 58.426 30.769 36.52 26.30 44.15 3.56
5533 6372 1.699634 AGAAGGCCTGTAACAAGAGCA 59.300 47.619 5.69 0.00 0.00 4.26
5555 6394 7.933577 CCATCTCCAATTATTAGAGCTACACAA 59.066 37.037 0.00 0.00 0.00 3.33
5680 6519 6.877611 TGAGGGAATTGAAGTACTGAAAAC 57.122 37.500 0.00 0.00 0.00 2.43
5740 6581 7.235399 ACCATCCCTATTTGTCACTGAATTTTT 59.765 33.333 0.00 0.00 0.00 1.94
5755 6596 3.983410 AGTGAAGCCATACCATCCCTATT 59.017 43.478 0.00 0.00 0.00 1.73
5763 6604 3.398318 TCCTCTAGTGAAGCCATACCA 57.602 47.619 0.00 0.00 0.00 3.25
5849 6690 3.068590 TGATGAGATGATGCTAAGCACGA 59.931 43.478 0.00 0.00 43.04 4.35
5901 6742 7.655521 TGCTACTATCACATAGTACCACTTT 57.344 36.000 0.09 0.00 43.93 2.66
6084 6925 0.836606 TCAGGACCAACTGCTTCACA 59.163 50.000 0.00 0.00 38.36 3.58
6102 6943 1.672363 TGCATCAATTCGGCAGACATC 59.328 47.619 0.00 0.00 32.95 3.06
6150 6991 1.572415 AGCATGGATCTTGGGGATGTT 59.428 47.619 0.00 0.00 34.33 2.71
6255 7096 3.217626 CTTCCAATAGCCATCTGGGTTC 58.782 50.000 6.20 0.00 44.81 3.62
6308 7149 0.036388 GCCTTCCACACCGAGAATCA 60.036 55.000 0.00 0.00 33.17 2.57
6428 7269 3.880047 TCGGTAGTGGAACATACTTGG 57.120 47.619 0.00 0.00 44.52 3.61
6504 7345 5.067273 CACACAAATACCACTAAACTCCCA 58.933 41.667 0.00 0.00 0.00 4.37
6513 7354 3.650942 TCTTCTCCCACACAAATACCACT 59.349 43.478 0.00 0.00 0.00 4.00
6591 7432 0.918983 ATACCCATATGCCATCCCCG 59.081 55.000 0.00 0.00 0.00 5.73
6735 7576 2.362077 GTTCAAACCATGGAGCACTTGT 59.638 45.455 21.47 0.00 0.00 3.16
6783 7624 2.933260 TCATACACACACACACACACAC 59.067 45.455 0.00 0.00 0.00 3.82
6785 7626 4.319477 GGAATCATACACACACACACACAC 60.319 45.833 0.00 0.00 0.00 3.82
6786 7627 3.812609 GGAATCATACACACACACACACA 59.187 43.478 0.00 0.00 0.00 3.72
6787 7628 3.812609 TGGAATCATACACACACACACAC 59.187 43.478 0.00 0.00 0.00 3.82
6788 7629 4.078639 TGGAATCATACACACACACACA 57.921 40.909 0.00 0.00 0.00 3.72
6789 7630 4.142622 CCATGGAATCATACACACACACAC 60.143 45.833 5.56 0.00 31.33 3.82
6790 7631 4.009002 CCATGGAATCATACACACACACA 58.991 43.478 5.56 0.00 31.33 3.72
6791 7632 3.181497 GCCATGGAATCATACACACACAC 60.181 47.826 18.40 0.00 31.33 3.82
6792 7633 3.016031 GCCATGGAATCATACACACACA 58.984 45.455 18.40 0.00 31.33 3.72
6793 7634 3.016031 TGCCATGGAATCATACACACAC 58.984 45.455 18.40 0.00 31.33 3.82
6794 7635 3.362870 TGCCATGGAATCATACACACA 57.637 42.857 18.40 0.00 31.33 3.72
6795 7636 4.924305 AATGCCATGGAATCATACACAC 57.076 40.909 18.40 0.00 31.33 3.82
6796 7637 5.939447 TCTAATGCCATGGAATCATACACA 58.061 37.500 18.40 0.00 31.33 3.72
6797 7638 6.883217 AGATCTAATGCCATGGAATCATACAC 59.117 38.462 18.40 1.90 31.33 2.90
6798 7639 7.024345 AGATCTAATGCCATGGAATCATACA 57.976 36.000 18.40 1.51 31.33 2.29
6799 7640 7.934855 AAGATCTAATGCCATGGAATCATAC 57.065 36.000 18.40 2.43 31.33 2.39
6827 7668 0.989164 TGTAAGAATCAACGCTCGCG 59.011 50.000 10.06 10.06 46.03 5.87
6918 7759 7.195839 AGCTGAAAAATTTACAGTCAGAGAC 57.804 36.000 19.37 0.00 38.37 3.36
7046 7894 5.900123 ACTACTAAGCATATGCCTATAGGGG 59.100 44.000 23.96 18.89 43.38 4.79
7097 7945 3.431766 CCCCGCACTGCTACTAATTAACT 60.432 47.826 0.00 0.00 0.00 2.24
7129 7977 6.715718 CCACTACTATGTACTACCTGTAGCAT 59.284 42.308 4.25 4.02 36.66 3.79
7130 7978 6.060136 CCACTACTATGTACTACCTGTAGCA 58.940 44.000 4.25 0.00 36.66 3.49
7151 7999 2.279517 CCGCTCTATCCACGCCAC 60.280 66.667 0.00 0.00 0.00 5.01
7153 8001 4.971125 GGCCGCTCTATCCACGCC 62.971 72.222 0.00 0.00 0.00 5.68
7156 8004 4.301027 CGGGGCCGCTCTATCCAC 62.301 72.222 18.79 0.00 0.00 4.02
7157 8005 4.853142 ACGGGGCCGCTCTATCCA 62.853 66.667 18.79 0.00 44.19 3.41
7205 8053 2.367202 GCTACTGTGGCCTGCCCTA 61.367 63.158 3.32 0.00 34.56 3.53
7248 8096 9.504710 CGACGTTATTGCTATTAGATTAGCTAT 57.495 33.333 0.00 5.57 44.03 2.97
7269 8117 0.179113 AACCCGTACACAAACGACGT 60.179 50.000 0.00 0.00 45.68 4.34
7276 8124 1.209990 ACCAGTTGAACCCGTACACAA 59.790 47.619 0.00 0.00 0.00 3.33
7284 8132 0.826256 GGAACCCACCAGTTGAACCC 60.826 60.000 0.00 0.00 0.00 4.11
7285 8133 1.170290 CGGAACCCACCAGTTGAACC 61.170 60.000 0.00 0.00 0.00 3.62
7286 8134 1.792118 GCGGAACCCACCAGTTGAAC 61.792 60.000 0.00 0.00 0.00 3.18
7287 8135 1.527380 GCGGAACCCACCAGTTGAA 60.527 57.895 0.00 0.00 0.00 2.69
7288 8136 1.990160 AAGCGGAACCCACCAGTTGA 61.990 55.000 0.00 0.00 0.00 3.18
7289 8137 0.250553 TAAGCGGAACCCACCAGTTG 60.251 55.000 0.00 0.00 0.00 3.16
7290 8138 0.036306 CTAAGCGGAACCCACCAGTT 59.964 55.000 0.00 0.00 0.00 3.16
7291 8139 1.677552 CTAAGCGGAACCCACCAGT 59.322 57.895 0.00 0.00 0.00 4.00
7313 8185 2.332514 GCGTATGTACCCGCGCTA 59.667 61.111 5.56 0.00 45.48 4.26
7333 8205 6.214208 TCCGCCATAGTTAGTACCTATAGAGA 59.786 42.308 0.00 0.00 0.00 3.10
7339 8211 4.581824 CACTTCCGCCATAGTTAGTACCTA 59.418 45.833 0.00 0.00 0.00 3.08
7356 8228 3.692370 ATAACCCGCCCGCACTTCC 62.692 63.158 0.00 0.00 0.00 3.46
7399 8271 4.405358 GGGAAATGTGGCTGATATTTTGGA 59.595 41.667 0.00 0.00 0.00 3.53
7416 8288 0.627768 GGAAGGGAGGAGGGGGAAAT 60.628 60.000 0.00 0.00 0.00 2.17
7426 8302 0.851332 AAAGGGAAGGGGAAGGGAGG 60.851 60.000 0.00 0.00 0.00 4.30
7442 8318 2.027385 GGAAAGCAGGCTATGGGAAAG 58.973 52.381 0.00 0.00 0.00 2.62
7454 8330 3.345414 AGCAAATGAGAGAGGAAAGCAG 58.655 45.455 0.00 0.00 0.00 4.24
7481 8357 3.461458 GGGGGAGAATTGAAGGAAGAGAT 59.539 47.826 0.00 0.00 0.00 2.75
7504 8380 1.621072 GCAAAGGAGAGAGAGGGAGGA 60.621 57.143 0.00 0.00 0.00 3.71
7505 8381 0.829990 GCAAAGGAGAGAGAGGGAGG 59.170 60.000 0.00 0.00 0.00 4.30
7507 8383 0.618968 GGGCAAAGGAGAGAGAGGGA 60.619 60.000 0.00 0.00 0.00 4.20
7508 8384 1.631071 GGGGCAAAGGAGAGAGAGGG 61.631 65.000 0.00 0.00 0.00 4.30
7587 8466 2.363683 GCAAGAGATGTGGGAAGAAGG 58.636 52.381 0.00 0.00 0.00 3.46
7598 8477 0.622665 AAGTGGAGGGGCAAGAGATG 59.377 55.000 0.00 0.00 0.00 2.90
7631 8510 1.429299 TGTTGGAGTGGGAGAGAGAGA 59.571 52.381 0.00 0.00 0.00 3.10
7638 8517 4.466370 TGAGTATAACTGTTGGAGTGGGAG 59.534 45.833 2.69 0.00 34.02 4.30
7650 8529 4.770010 GGGGAGGAGAGATGAGTATAACTG 59.230 50.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.