Multiple sequence alignment - TraesCS5B01G211500

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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 TraesCS5B01G211500 chr5B 100.000 2601 0 0 367 2967 382314749 382317349 0.000000e+00 4804.0
1 TraesCS5B01G211500 chr5B 85.675 363 44 7 1927 2283 9285660 9285300 2.790000e-100 375.0
2 TraesCS5B01G211500 chr5B 100.000 102 0 0 1 102 382314383 382314484 3.900000e-44 189.0
3 TraesCS5B01G211500 chr5B 94.444 90 5 0 783 872 215001843 215001932 3.990000e-29 139.0
4 TraesCS5B01G211500 chr5A 84.938 1766 123 48 888 2596 427584980 427583301 0.000000e+00 1655.0
5 TraesCS5B01G211500 chr5A 84.576 389 42 6 1913 2284 643581347 643581734 1.300000e-98 370.0
6 TraesCS5B01G211500 chr5D 88.413 1027 63 21 881 1891 328924092 328925078 0.000000e+00 1186.0
7 TraesCS5B01G211500 chr5D 89.125 423 34 7 367 786 207800304 207800717 1.580000e-142 516.0
8 TraesCS5B01G211500 chr5D 85.139 323 21 5 571 872 155159421 155159737 3.720000e-79 305.0
9 TraesCS5B01G211500 chr5D 84.161 322 24 10 572 872 156479732 156479417 1.350000e-73 287.0
10 TraesCS5B01G211500 chr5D 84.385 301 21 9 593 872 495331137 495331432 3.770000e-69 272.0
11 TraesCS5B01G211500 chr5D 97.059 102 3 0 1 102 187345686 187345787 3.930000e-39 172.0
12 TraesCS5B01G211500 chr5D 95.349 43 2 0 2302 2344 512229318 512229360 5.310000e-08 69.4
13 TraesCS5B01G211500 chr5D 80.851 94 4 3 2301 2380 354536559 354536466 8.880000e-06 62.1
14 TraesCS5B01G211500 chr7B 86.705 519 67 1 2381 2899 411337071 411336555 2.560000e-160 575.0
15 TraesCS5B01G211500 chr7B 86.742 528 39 16 367 872 317220198 317220716 2.580000e-155 558.0
16 TraesCS5B01G211500 chr7B 86.364 308 33 8 1927 2228 603345778 603345474 7.930000e-86 327.0
17 TraesCS5B01G211500 chr7B 92.308 52 3 1 2301 2351 411337321 411337270 4.100000e-09 73.1
18 TraesCS5B01G211500 chr2D 83.953 592 93 2 2377 2967 353354402 353354992 1.540000e-157 566.0
19 TraesCS5B01G211500 chr2D 89.074 421 32 9 369 786 275260424 275260015 7.340000e-141 510.0
20 TraesCS5B01G211500 chr2D 83.439 471 77 1 2498 2967 353861894 353862364 1.260000e-118 436.0
21 TraesCS5B01G211500 chr2D 84.848 396 14 11 519 874 152827385 152826996 1.010000e-94 357.0
22 TraesCS5B01G211500 chr2D 83.418 392 44 7 1913 2284 49894414 49894804 7.870000e-91 344.0
23 TraesCS5B01G211500 chr3A 90.000 420 36 3 367 786 324710622 324710209 3.370000e-149 538.0
24 TraesCS5B01G211500 chrUn 89.835 423 31 7 367 786 109480427 109480014 1.570000e-147 532.0
25 TraesCS5B01G211500 chrUn 89.125 423 34 7 367 786 91962343 91961930 1.580000e-142 516.0
26 TraesCS5B01G211500 chrUn 82.183 449 78 2 2381 2828 450918258 450917811 4.640000e-103 385.0
27 TraesCS5B01G211500 chrUn 80.244 410 57 17 390 786 161338777 161338379 1.350000e-73 287.0
28 TraesCS5B01G211500 chrUn 84.615 195 17 8 593 786 190594374 190594556 6.530000e-42 182.0
29 TraesCS5B01G211500 chrUn 97.059 102 3 0 1 102 106207143 106207244 3.930000e-39 172.0
30 TraesCS5B01G211500 chrUn 90.152 132 8 1 655 786 14864341 14864467 1.830000e-37 167.0
31 TraesCS5B01G211500 chrUn 96.078 102 4 0 1 102 106793559 106793660 1.830000e-37 167.0
32 TraesCS5B01G211500 chrUn 73.065 323 62 18 570 873 107207600 107207284 1.130000e-14 91.6
33 TraesCS5B01G211500 chrUn 90.000 60 6 0 813 872 116610985 116610926 8.820000e-11 78.7
34 TraesCS5B01G211500 chrUn 97.619 42 1 0 831 872 118083175 118083216 4.100000e-09 73.1
35 TraesCS5B01G211500 chrUn 97.619 42 1 0 831 872 148569537 148569578 4.100000e-09 73.1
36 TraesCS5B01G211500 chrUn 97.619 42 0 1 836 876 26069053 26069012 1.480000e-08 71.3
37 TraesCS5B01G211500 chrUn 97.561 41 1 0 836 876 106561485 106561445 1.480000e-08 71.3
38 TraesCS5B01G211500 chrUn 100.000 37 0 0 836 872 92051609 92051645 5.310000e-08 69.4
39 TraesCS5B01G211500 chrUn 95.349 43 1 1 835 877 91923424 91923383 1.910000e-07 67.6
40 TraesCS5B01G211500 chrUn 86.667 60 8 0 813 872 137271735 137271676 1.910000e-07 67.6
41 TraesCS5B01G211500 chrUn 86.667 60 8 0 813 872 137484342 137484401 1.910000e-07 67.6
42 TraesCS5B01G211500 chrUn 85.484 62 9 0 811 872 145709587 145709526 6.860000e-07 65.8
43 TraesCS5B01G211500 chrUn 85.246 61 7 2 813 872 109606367 109606426 8.880000e-06 62.1
44 TraesCS5B01G211500 chr3D 89.835 423 31 7 367 786 242632257 242632670 1.570000e-147 532.0
45 TraesCS5B01G211500 chr3D 87.855 387 28 6 1916 2284 372625402 372625017 1.260000e-118 436.0
46 TraesCS5B01G211500 chr3D 80.671 507 95 3 2381 2886 366808417 366807913 9.970000e-105 390.0
47 TraesCS5B01G211500 chr3D 80.183 545 54 31 367 873 251187617 251188145 2.810000e-95 359.0
48 TraesCS5B01G211500 chr3D 85.759 323 19 10 571 872 243755299 243755615 1.720000e-82 316.0
49 TraesCS5B01G211500 chr3D 78.355 462 59 23 438 873 236531908 236532354 8.160000e-66 261.0
50 TraesCS5B01G211500 chr4D 89.362 423 33 9 367 786 209760316 209760729 3.390000e-144 521.0
51 TraesCS5B01G211500 chr4D 86.364 418 27 11 1892 2284 244612350 244611938 2.110000e-116 429.0
52 TraesCS5B01G211500 chr4D 86.701 391 33 6 1913 2285 430818044 430817655 1.650000e-112 416.0
53 TraesCS5B01G211500 chr4D 81.400 457 45 21 440 873 232857958 232857519 1.320000e-88 337.0
54 TraesCS5B01G211500 chr4D 86.687 323 16 10 571 872 175120195 175120511 1.700000e-87 333.0
55 TraesCS5B01G211500 chr4D 86.687 323 16 10 571 872 175178757 175179073 1.700000e-87 333.0
56 TraesCS5B01G211500 chr4D 80.995 442 37 15 472 872 209411580 209411145 1.030000e-79 307.0
57 TraesCS5B01G211500 chr4D 80.769 416 34 13 498 872 209500405 209499995 1.740000e-72 283.0
58 TraesCS5B01G211500 chr1D 89.311 421 33 7 367 784 7812238 7811827 4.380000e-143 518.0
59 TraesCS5B01G211500 chr1D 84.872 390 38 12 1914 2284 53937353 53936966 1.000000e-99 374.0
60 TraesCS5B01G211500 chr1D 85.404 322 20 11 572 872 151860235 151860550 2.870000e-80 309.0
61 TraesCS5B01G211500 chr1D 96.078 102 4 0 1 102 38302482 38302381 1.830000e-37 167.0
62 TraesCS5B01G211500 chr1D 96.078 102 4 0 1 102 152393414 152393313 1.830000e-37 167.0
63 TraesCS5B01G211500 chr1D 96.078 102 4 0 1 102 152495494 152495393 1.830000e-37 167.0
64 TraesCS5B01G211500 chr1B 80.717 586 104 8 2381 2960 474842657 474842075 5.830000e-122 448.0
65 TraesCS5B01G211500 chr1B 84.715 386 44 9 1913 2285 555623833 555623450 3.610000e-99 372.0
66 TraesCS5B01G211500 chr1B 84.514 381 48 7 1913 2284 632161111 632161489 1.680000e-97 366.0
67 TraesCS5B01G211500 chr1B 82.306 373 51 14 1926 2292 583979139 583978776 2.870000e-80 309.0
68 TraesCS5B01G211500 chr1B 85.093 322 21 12 572 872 263631460 263631775 1.340000e-78 303.0
69 TraesCS5B01G211500 chr4B 88.041 393 25 7 1913 2284 252980536 252980145 2.100000e-121 446.0
70 TraesCS5B01G211500 chr4B 89.474 304 29 3 1917 2218 12091319 12091621 6.000000e-102 381.0
71 TraesCS5B01G211500 chr7A 79.732 597 112 8 2374 2967 28172182 28172772 9.830000e-115 424.0
72 TraesCS5B01G211500 chr7A 84.735 321 21 11 573 872 376061300 376060987 2.240000e-76 296.0
73 TraesCS5B01G211500 chr7D 85.714 413 33 10 1892 2284 630308322 630307916 2.130000e-111 412.0
74 TraesCS5B01G211500 chr7D 81.028 506 94 2 2381 2886 535899918 535900421 4.610000e-108 401.0
75 TraesCS5B01G211500 chr6D 86.329 395 28 9 498 872 326029333 326029721 9.900000e-110 407.0
76 TraesCS5B01G211500 chr6D 88.997 309 31 3 1913 2218 3319239 3319547 2.160000e-101 379.0
77 TraesCS5B01G211500 chr6D 87.043 301 13 9 595 874 437244115 437243820 1.720000e-82 316.0
78 TraesCS5B01G211500 chr6D 78.369 564 51 30 367 872 212441281 212441831 1.730000e-77 300.0
79 TraesCS5B01G211500 chr6D 82.540 378 31 17 518 873 219819393 219819757 1.730000e-77 300.0
80 TraesCS5B01G211500 chr6D 83.113 302 23 11 593 872 219476577 219476872 1.770000e-62 250.0
81 TraesCS5B01G211500 chr6D 76.980 404 40 29 498 872 219816826 219817205 6.530000e-42 182.0
82 TraesCS5B01G211500 chr6D 96.078 102 4 0 1 102 205013091 205013192 1.830000e-37 167.0
83 TraesCS5B01G211500 chr6D 96.078 102 4 0 1 102 212776396 212776295 1.830000e-37 167.0
84 TraesCS5B01G211500 chr6D 96.078 102 4 0 1 102 256704057 256704158 1.830000e-37 167.0
85 TraesCS5B01G211500 chr6D 95.161 62 3 0 811 872 146681300 146681361 6.770000e-17 99.0
86 TraesCS5B01G211500 chr6D 95.161 62 3 0 811 872 146688579 146688640 6.770000e-17 99.0
87 TraesCS5B01G211500 chr6D 74.809 262 43 15 632 874 191887016 191887273 2.430000e-16 97.1
88 TraesCS5B01G211500 chr6D 86.364 88 12 0 785 872 193317350 193317437 2.430000e-16 97.1
89 TraesCS5B01G211500 chr6D 86.364 88 12 0 785 872 206709186 206709099 2.430000e-16 97.1
90 TraesCS5B01G211500 chr2B 80.695 518 98 2 2381 2897 166863015 166862499 4.610000e-108 401.0
91 TraesCS5B01G211500 chr6B 88.350 309 33 3 1913 2218 146818926 146819234 4.670000e-98 368.0
92 TraesCS5B01G211500 chr6B 84.576 389 38 10 1913 2283 664538647 664539031 1.680000e-97 366.0
93 TraesCS5B01G211500 chr6B 100.000 29 0 0 2352 2380 675609247 675609219 1.000000e-03 54.7
94 TraesCS5B01G211500 chr4A 84.021 388 40 8 1913 2285 647562979 647563359 1.310000e-93 353.0
95 TraesCS5B01G211500 chr4A 80.798 401 33 24 497 872 359223937 359224318 1.050000e-69 274.0
96 TraesCS5B01G211500 chr4A 82.609 322 19 16 572 872 273944826 273945131 1.770000e-62 250.0


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 TraesCS5B01G211500 chr5B 382314383 382317349 2966 False 2496.50 4804 100.0000 1 2967 2 chr5B.!!$F2 2966
1 TraesCS5B01G211500 chr5A 427583301 427584980 1679 True 1655.00 1655 84.9380 888 2596 1 chr5A.!!$R1 1708
2 TraesCS5B01G211500 chr5D 328924092 328925078 986 False 1186.00 1186 88.4130 881 1891 1 chr5D.!!$F4 1010
3 TraesCS5B01G211500 chr7B 317220198 317220716 518 False 558.00 558 86.7420 367 872 1 chr7B.!!$F1 505
4 TraesCS5B01G211500 chr7B 411336555 411337321 766 True 324.05 575 89.5065 2301 2899 2 chr7B.!!$R2 598
5 TraesCS5B01G211500 chr2D 353354402 353354992 590 False 566.00 566 83.9530 2377 2967 1 chr2D.!!$F2 590
6 TraesCS5B01G211500 chr3D 366807913 366808417 504 True 390.00 390 80.6710 2381 2886 1 chr3D.!!$R1 505
7 TraesCS5B01G211500 chr3D 251187617 251188145 528 False 359.00 359 80.1830 367 873 1 chr3D.!!$F4 506
8 TraesCS5B01G211500 chr1B 474842075 474842657 582 True 448.00 448 80.7170 2381 2960 1 chr1B.!!$R1 579
9 TraesCS5B01G211500 chr7A 28172182 28172772 590 False 424.00 424 79.7320 2374 2967 1 chr7A.!!$F1 593
10 TraesCS5B01G211500 chr7D 535899918 535900421 503 False 401.00 401 81.0280 2381 2886 1 chr7D.!!$F1 505
11 TraesCS5B01G211500 chr6D 212441281 212441831 550 False 300.00 300 78.3690 367 872 1 chr6D.!!$F7 505
12 TraesCS5B01G211500 chr6D 219816826 219819757 2931 False 241.00 300 79.7600 498 873 2 chr6D.!!$F11 375
13 TraesCS5B01G211500 chr2B 166862499 166863015 516 True 401.00 401 80.6950 2381 2897 1 chr2B.!!$R1 516

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
40 41 0.105246 ACTAGGAGGAGATGGGGCAG 60.105 60.0 0.0 0.0 0.0 4.85 F
41 42 0.105246 CTAGGAGGAGATGGGGCAGT 60.105 60.0 0.0 0.0 0.0 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1755 4426 0.247460 CCTGGCTGATTCTGTGACGA 59.753 55.0 0.0 0.0 0.0 4.20 R
2039 4711 0.532115 GCGCAACCCTCATTCCAAAT 59.468 50.0 0.3 0.0 0.0 2.32 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
25 26 8.883954 GCTAAACCAATACTAACCCTAACTAG 57.116 38.462 0.00 0.00 0.00 2.57
26 27 7.930325 GCTAAACCAATACTAACCCTAACTAGG 59.070 40.741 0.00 0.00 43.25 3.02
27 28 9.205513 CTAAACCAATACTAACCCTAACTAGGA 57.794 37.037 4.23 0.00 46.63 2.94
28 29 7.672122 AACCAATACTAACCCTAACTAGGAG 57.328 40.000 4.23 0.00 46.63 3.69
29 30 6.141790 ACCAATACTAACCCTAACTAGGAGG 58.858 44.000 4.23 6.07 46.63 4.30
30 31 6.068021 ACCAATACTAACCCTAACTAGGAGGA 60.068 42.308 13.27 0.00 46.63 3.71
31 32 6.494146 CCAATACTAACCCTAACTAGGAGGAG 59.506 46.154 13.27 6.58 46.63 3.69
32 33 7.296098 CAATACTAACCCTAACTAGGAGGAGA 58.704 42.308 13.27 0.00 46.63 3.71
33 34 7.666586 ATACTAACCCTAACTAGGAGGAGAT 57.333 40.000 13.27 3.47 46.63 2.75
34 35 5.707495 ACTAACCCTAACTAGGAGGAGATG 58.293 45.833 13.27 1.24 46.63 2.90
35 36 3.621682 ACCCTAACTAGGAGGAGATGG 57.378 52.381 13.27 0.93 46.63 3.51
36 37 2.180308 ACCCTAACTAGGAGGAGATGGG 59.820 54.545 13.27 0.00 46.63 4.00
37 38 2.493687 CCCTAACTAGGAGGAGATGGGG 60.494 59.091 13.27 0.00 46.63 4.96
38 39 2.252714 CTAACTAGGAGGAGATGGGGC 58.747 57.143 0.00 0.00 0.00 5.80
39 40 0.343372 AACTAGGAGGAGATGGGGCA 59.657 55.000 0.00 0.00 0.00 5.36
40 41 0.105246 ACTAGGAGGAGATGGGGCAG 60.105 60.000 0.00 0.00 0.00 4.85
41 42 0.105246 CTAGGAGGAGATGGGGCAGT 60.105 60.000 0.00 0.00 0.00 4.40
42 43 1.148027 CTAGGAGGAGATGGGGCAGTA 59.852 57.143 0.00 0.00 0.00 2.74
43 44 0.570218 AGGAGGAGATGGGGCAGTAT 59.430 55.000 0.00 0.00 0.00 2.12
44 45 1.795786 AGGAGGAGATGGGGCAGTATA 59.204 52.381 0.00 0.00 0.00 1.47
45 46 2.388563 AGGAGGAGATGGGGCAGTATAT 59.611 50.000 0.00 0.00 0.00 0.86
46 47 3.602922 AGGAGGAGATGGGGCAGTATATA 59.397 47.826 0.00 0.00 0.00 0.86
47 48 4.236346 AGGAGGAGATGGGGCAGTATATAT 59.764 45.833 0.00 0.00 0.00 0.86
48 49 5.440072 AGGAGGAGATGGGGCAGTATATATA 59.560 44.000 0.00 0.00 0.00 0.86
49 50 5.777732 GGAGGAGATGGGGCAGTATATATAG 59.222 48.000 0.00 0.00 0.00 1.31
50 51 6.362737 AGGAGATGGGGCAGTATATATAGT 57.637 41.667 0.00 0.00 0.00 2.12
51 52 6.377912 AGGAGATGGGGCAGTATATATAGTC 58.622 44.000 0.00 0.00 0.00 2.59
52 53 6.163139 AGGAGATGGGGCAGTATATATAGTCT 59.837 42.308 0.00 0.00 0.00 3.24
53 54 7.353863 AGGAGATGGGGCAGTATATATAGTCTA 59.646 40.741 0.00 0.00 0.00 2.59
54 55 8.005388 GGAGATGGGGCAGTATATATAGTCTAA 58.995 40.741 0.00 0.00 0.00 2.10
55 56 9.073475 GAGATGGGGCAGTATATATAGTCTAAG 57.927 40.741 0.00 0.00 0.00 2.18
56 57 8.007742 AGATGGGGCAGTATATATAGTCTAAGG 58.992 40.741 0.00 0.00 0.00 2.69
57 58 6.441222 TGGGGCAGTATATATAGTCTAAGGG 58.559 44.000 0.00 0.00 0.00 3.95
58 59 6.221029 TGGGGCAGTATATATAGTCTAAGGGA 59.779 42.308 0.00 0.00 0.00 4.20
59 60 7.091030 TGGGGCAGTATATATAGTCTAAGGGAT 60.091 40.741 0.00 0.00 0.00 3.85
60 61 7.233757 GGGGCAGTATATATAGTCTAAGGGATG 59.766 44.444 0.00 0.00 0.00 3.51
61 62 8.005388 GGGCAGTATATATAGTCTAAGGGATGA 58.995 40.741 0.00 0.00 0.00 2.92
62 63 9.422681 GGCAGTATATATAGTCTAAGGGATGAA 57.577 37.037 0.00 0.00 0.00 2.57
66 67 9.369672 GTATATATAGTCTAAGGGATGAAGGGG 57.630 40.741 0.00 0.00 0.00 4.79
67 68 2.972153 AGTCTAAGGGATGAAGGGGT 57.028 50.000 0.00 0.00 0.00 4.95
68 69 5.698369 ATAGTCTAAGGGATGAAGGGGTA 57.302 43.478 0.00 0.00 0.00 3.69
69 70 3.655384 AGTCTAAGGGATGAAGGGGTAC 58.345 50.000 0.00 0.00 0.00 3.34
70 71 3.013648 AGTCTAAGGGATGAAGGGGTACA 59.986 47.826 0.00 0.00 0.00 2.90
71 72 3.974642 GTCTAAGGGATGAAGGGGTACAT 59.025 47.826 0.00 0.00 0.00 2.29
72 73 3.973973 TCTAAGGGATGAAGGGGTACATG 59.026 47.826 0.00 0.00 0.00 3.21
73 74 1.522900 AGGGATGAAGGGGTACATGG 58.477 55.000 0.00 0.00 0.00 3.66
74 75 0.478507 GGGATGAAGGGGTACATGGG 59.521 60.000 0.00 0.00 0.00 4.00
75 76 0.178990 GGATGAAGGGGTACATGGGC 60.179 60.000 0.00 0.00 0.00 5.36
76 77 0.178990 GATGAAGGGGTACATGGGCC 60.179 60.000 0.00 0.00 0.00 5.80
77 78 0.627469 ATGAAGGGGTACATGGGCCT 60.627 55.000 4.53 0.00 0.00 5.19
78 79 1.279025 TGAAGGGGTACATGGGCCTC 61.279 60.000 4.53 0.00 0.00 4.70
79 80 2.325393 GAAGGGGTACATGGGCCTCG 62.325 65.000 4.53 0.00 0.00 4.63
80 81 3.873812 GGGGTACATGGGCCTCGG 61.874 72.222 4.53 0.00 0.00 4.63
81 82 4.564110 GGGTACATGGGCCTCGGC 62.564 72.222 4.53 0.00 41.06 5.54
453 515 2.110967 CAGCTTCTGTGATGGGGCG 61.111 63.158 0.00 0.00 0.00 6.13
454 516 2.268920 GCTTCTGTGATGGGGCGA 59.731 61.111 0.00 0.00 0.00 5.54
462 524 1.029947 GTGATGGGGCGACGGATTTT 61.030 55.000 0.00 0.00 0.00 1.82
469 531 2.812178 CGACGGATTTTCGGGCGT 60.812 61.111 2.52 0.00 42.34 5.68
474 536 1.974875 GGATTTTCGGGCGTTGGGT 60.975 57.895 0.00 0.00 0.00 4.51
645 3269 4.757692 TCTTCTTCCTTCTCCTTCCTTCT 58.242 43.478 0.00 0.00 0.00 2.85
750 3374 6.653020 TGAAGTAGCATCCATGTCTTACATT 58.347 36.000 0.00 0.00 36.53 2.71
751 3375 7.791029 TGAAGTAGCATCCATGTCTTACATTA 58.209 34.615 0.00 0.00 36.53 1.90
752 3376 7.710907 TGAAGTAGCATCCATGTCTTACATTAC 59.289 37.037 0.00 0.00 36.53 1.89
753 3377 7.124573 AGTAGCATCCATGTCTTACATTACA 57.875 36.000 0.00 0.00 36.53 2.41
754 3378 7.739825 AGTAGCATCCATGTCTTACATTACAT 58.260 34.615 0.00 0.00 36.53 2.29
827 3472 1.228552 GCACTTGGGGCTTGAGGAA 60.229 57.895 0.00 0.00 0.00 3.36
833 3478 2.270434 TGGGGCTTGAGGAATAGTCT 57.730 50.000 0.00 0.00 0.00 3.24
878 3523 3.153024 TGCTCCGCATCAGTTAACC 57.847 52.632 0.88 0.00 31.71 2.85
879 3524 0.739462 TGCTCCGCATCAGTTAACCG 60.739 55.000 0.88 0.00 31.71 4.44
882 3527 2.545113 GCTCCGCATCAGTTAACCGATA 60.545 50.000 4.01 0.00 0.00 2.92
885 3530 3.119065 TCCGCATCAGTTAACCGATACAA 60.119 43.478 4.01 0.00 0.00 2.41
897 3542 5.934935 AACCGATACAATTTTGACGTTCT 57.065 34.783 0.00 0.00 0.00 3.01
900 3545 5.120208 ACCGATACAATTTTGACGTTCTCAG 59.880 40.000 0.00 0.00 0.00 3.35
946 3591 5.110009 CGCGATTGTTACGAATTTACGATTG 59.890 40.000 0.00 0.00 37.03 2.67
947 3592 5.109261 GCGATTGTTACGAATTTACGATTGC 60.109 40.000 0.00 0.00 36.45 3.56
951 3596 6.809297 TGTTACGAATTTACGATTGCGATA 57.191 33.333 0.00 0.00 41.64 2.92
965 3610 2.086094 TGCGATAGTGTCCGTTACAGA 58.914 47.619 0.00 0.00 39.29 3.41
975 3620 6.518493 AGTGTCCGTTACAGATTCAACTTTA 58.482 36.000 0.00 0.00 39.29 1.85
978 3623 6.309494 TGTCCGTTACAGATTCAACTTTATCG 59.691 38.462 0.00 0.00 33.01 2.92
988 3633 3.250744 TCAACTTTATCGTCTCCTTGCG 58.749 45.455 0.00 0.00 0.00 4.85
1000 3661 0.800012 TCCTTGCGGCAAAACGTATC 59.200 50.000 17.13 0.00 35.98 2.24
1001 3662 0.802494 CCTTGCGGCAAAACGTATCT 59.198 50.000 17.13 0.00 35.98 1.98
1003 3664 2.612212 CCTTGCGGCAAAACGTATCTAT 59.388 45.455 17.13 0.00 35.98 1.98
1006 3667 5.636121 CCTTGCGGCAAAACGTATCTATATA 59.364 40.000 17.13 0.00 35.98 0.86
1033 3694 1.070445 GATCTCCGGCCATGGTCTG 59.930 63.158 15.80 8.33 0.00 3.51
1048 3709 1.229400 TCTGGACCCTGGTACCCAC 60.229 63.158 10.07 0.00 0.00 4.61
1072 3733 1.580132 CGTATTCAACGCAAGCGCC 60.580 57.895 15.09 0.00 46.10 6.53
1094 3756 3.999663 CACCTAAGAGCACCTGAAAAGAG 59.000 47.826 0.00 0.00 0.00 2.85
1099 3761 5.489792 AAGAGCACCTGAAAAGAGTCATA 57.510 39.130 0.00 0.00 0.00 2.15
1112 3774 3.834610 AGAGTCATACTTGGAAACGACG 58.165 45.455 0.00 0.00 0.00 5.12
1162 3824 2.923655 AGCATACATCAACGAAGACACG 59.076 45.455 0.00 0.00 39.31 4.49
1167 3829 1.067846 CATCAACGAAGACACGGAGGA 60.068 52.381 0.00 0.00 37.61 3.71
1186 3848 2.830923 GGAGATGATGATCAGGGACGAT 59.169 50.000 0.09 0.00 0.00 3.73
1260 3931 4.697756 CGAGGAAGCCGGGCACAA 62.698 66.667 23.09 0.00 0.00 3.33
1466 4137 1.896183 CACCGCATGGACACCAACA 60.896 57.895 0.00 0.00 36.95 3.33
1582 4253 1.338107 AGGACACCACGTCTTCATCA 58.662 50.000 0.00 0.00 44.70 3.07
1663 4334 1.581954 GCGGAGGATGATCGACGAT 59.418 57.895 10.78 10.78 0.00 3.73
1756 4427 4.760757 GCGATTGGCCTAGGAGTC 57.239 61.111 14.75 3.05 34.80 3.36
1800 4471 4.033817 GCATCTAGTCAACAACAGAGCATC 59.966 45.833 0.00 0.00 0.00 3.91
1821 4492 6.644592 GCATCTATAGTCAACAACAGATCCTC 59.355 42.308 0.00 0.00 0.00 3.71
1827 4498 4.780021 AGTCAACAACAGATCCTCCAGTAT 59.220 41.667 0.00 0.00 0.00 2.12
1828 4499 4.872691 GTCAACAACAGATCCTCCAGTATG 59.127 45.833 0.00 0.00 0.00 2.39
1893 4564 7.974675 ACTCAATTATTTGACATACAACTCGG 58.025 34.615 0.00 0.00 36.94 4.63
1894 4565 7.822334 ACTCAATTATTTGACATACAACTCGGA 59.178 33.333 0.00 0.00 36.94 4.55
1895 4566 8.731275 TCAATTATTTGACATACAACTCGGAT 57.269 30.769 0.00 0.00 36.94 4.18
1896 4567 9.825109 TCAATTATTTGACATACAACTCGGATA 57.175 29.630 0.00 0.00 36.94 2.59
1900 4571 5.984233 TTGACATACAACTCGGATATTGC 57.016 39.130 2.90 0.00 33.18 3.56
1901 4572 4.377021 TGACATACAACTCGGATATTGCC 58.623 43.478 2.90 0.00 0.00 4.52
1902 4573 4.100963 TGACATACAACTCGGATATTGCCT 59.899 41.667 2.90 0.00 0.00 4.75
1903 4574 5.036117 ACATACAACTCGGATATTGCCTT 57.964 39.130 2.90 0.00 0.00 4.35
1904 4575 5.437060 ACATACAACTCGGATATTGCCTTT 58.563 37.500 2.90 0.00 0.00 3.11
1905 4576 5.296780 ACATACAACTCGGATATTGCCTTTG 59.703 40.000 2.90 0.00 0.00 2.77
1906 4577 3.016736 ACAACTCGGATATTGCCTTTGG 58.983 45.455 2.90 0.00 0.00 3.28
1907 4578 3.278574 CAACTCGGATATTGCCTTTGGA 58.721 45.455 0.00 0.00 0.00 3.53
1908 4579 3.644966 ACTCGGATATTGCCTTTGGAA 57.355 42.857 0.00 0.00 0.00 3.53
1909 4580 3.545703 ACTCGGATATTGCCTTTGGAAG 58.454 45.455 0.00 0.00 0.00 3.46
1910 4581 2.291741 CTCGGATATTGCCTTTGGAAGC 59.708 50.000 0.00 0.00 0.00 3.86
1911 4582 1.338020 CGGATATTGCCTTTGGAAGCC 59.662 52.381 0.00 0.00 0.00 4.35
2008 4680 5.372343 ACAGATTACATGGAGGCATAACA 57.628 39.130 0.00 0.00 0.00 2.41
2015 4687 2.877097 TGGAGGCATAACACACATGT 57.123 45.000 0.00 0.00 42.46 3.21
2037 4709 5.702670 TGTGTGTCAATTTTCAAGGCAAAAA 59.297 32.000 0.00 0.00 0.00 1.94
2108 4780 9.778741 TTAACACATGATACTATTCATCCTTCC 57.221 33.333 0.00 0.00 34.09 3.46
2109 4781 7.379059 ACACATGATACTATTCATCCTTCCA 57.621 36.000 0.00 0.00 34.09 3.53
2110 4782 7.448420 ACACATGATACTATTCATCCTTCCAG 58.552 38.462 0.00 0.00 34.09 3.86
2111 4783 6.877855 CACATGATACTATTCATCCTTCCAGG 59.122 42.308 0.00 0.00 34.09 4.45
2112 4784 5.489792 TGATACTATTCATCCTTCCAGGC 57.510 43.478 0.00 0.00 34.61 4.85
2113 4785 4.907269 TGATACTATTCATCCTTCCAGGCA 59.093 41.667 0.00 0.00 34.61 4.75
2114 4786 5.549228 TGATACTATTCATCCTTCCAGGCAT 59.451 40.000 0.00 0.00 34.61 4.40
2115 4787 4.096190 ACTATTCATCCTTCCAGGCATG 57.904 45.455 0.00 0.00 34.61 4.06
2116 4788 3.718434 ACTATTCATCCTTCCAGGCATGA 59.282 43.478 0.00 0.00 34.61 3.07
2117 4789 3.675348 ATTCATCCTTCCAGGCATGAA 57.325 42.857 0.00 14.65 41.52 2.57
2118 4790 3.675348 TTCATCCTTCCAGGCATGAAT 57.325 42.857 0.00 0.00 37.18 2.57
2119 4791 3.675348 TCATCCTTCCAGGCATGAATT 57.325 42.857 0.00 0.00 34.61 2.17
2120 4792 3.985127 TCATCCTTCCAGGCATGAATTT 58.015 40.909 0.00 0.00 34.61 1.82
2121 4793 3.702548 TCATCCTTCCAGGCATGAATTTG 59.297 43.478 0.00 0.00 34.61 2.32
2122 4794 3.173953 TCCTTCCAGGCATGAATTTGT 57.826 42.857 0.00 0.00 34.61 2.83
2123 4795 3.091545 TCCTTCCAGGCATGAATTTGTC 58.908 45.455 0.00 0.00 34.61 3.18
2124 4796 3.094572 CCTTCCAGGCATGAATTTGTCT 58.905 45.455 0.00 0.00 29.77 3.41
2125 4797 3.512724 CCTTCCAGGCATGAATTTGTCTT 59.487 43.478 0.00 0.00 26.21 3.01
2126 4798 4.020839 CCTTCCAGGCATGAATTTGTCTTT 60.021 41.667 0.00 0.00 26.21 2.52
2127 4799 5.511888 CCTTCCAGGCATGAATTTGTCTTTT 60.512 40.000 0.00 0.00 26.21 2.27
2161 4833 6.742718 GTCACATTTCAACGTATTTCATCCTG 59.257 38.462 0.00 0.00 0.00 3.86
2205 4877 5.590530 AACATCCTTGTTTACTTGCACAA 57.409 34.783 0.00 0.00 43.57 3.33
2206 4878 5.789643 ACATCCTTGTTTACTTGCACAAT 57.210 34.783 0.00 0.00 32.50 2.71
2207 4879 6.160576 ACATCCTTGTTTACTTGCACAATT 57.839 33.333 0.00 0.00 32.50 2.32
2208 4880 6.581712 ACATCCTTGTTTACTTGCACAATTT 58.418 32.000 0.00 0.00 32.50 1.82
2277 4964 3.502572 GCCGAGAGCCAAACATCC 58.497 61.111 0.00 0.00 34.35 3.51
2292 4979 5.520288 CCAAACATCCGTTCTCACTACTATG 59.480 44.000 0.00 0.00 32.91 2.23
2299 4986 4.106197 CGTTCTCACTACTATGCCAACTC 58.894 47.826 0.00 0.00 0.00 3.01
2389 5246 0.740868 CAACGAGCGTCACCATCCAT 60.741 55.000 0.00 0.00 0.00 3.41
2419 5278 1.600413 CGAAAAGAAGGTGGCAAGTGC 60.600 52.381 0.00 0.00 41.14 4.40
2424 5283 1.152483 AAGGTGGCAAGTGCATGGT 60.152 52.632 5.52 0.00 44.36 3.55
2436 5295 1.380302 GCATGGTGGGACTTGGTCT 59.620 57.895 0.00 0.00 32.47 3.85
2455 5314 1.216178 GTCCGCTAAAGCCACCGTA 59.784 57.895 0.00 0.00 37.91 4.02
2586 5445 1.133761 TGCTCCCAGTAGAGTAGCGAT 60.134 52.381 0.00 0.00 36.20 4.58
2590 5449 3.362706 TCCCAGTAGAGTAGCGATGTTT 58.637 45.455 0.00 0.00 0.00 2.83
2604 5463 2.347452 CGATGTTTAGAACGACGCCATT 59.653 45.455 0.00 0.00 0.00 3.16
2636 5495 0.531200 CTCCGAACCTAGGCTTTCGT 59.469 55.000 24.77 0.00 42.45 3.85
2637 5496 0.971386 TCCGAACCTAGGCTTTCGTT 59.029 50.000 24.77 6.75 42.45 3.85
2642 5501 2.075979 ACCTAGGCTTTCGTTCGAAC 57.924 50.000 18.47 18.47 0.00 3.95
2659 5518 2.035632 GAACACCACAACCAATCCCAA 58.964 47.619 0.00 0.00 0.00 4.12
2668 5527 1.078214 CCAATCCCAAGAGCGAGCA 60.078 57.895 0.00 0.00 0.00 4.26
2672 5531 0.543277 ATCCCAAGAGCGAGCAATGA 59.457 50.000 0.00 0.00 0.00 2.57
2692 5551 0.185901 AGATGCCAACACACCTTGGT 59.814 50.000 0.15 0.00 42.57 3.67
2720 5579 0.107831 CAAGAAGGGGAACGACACCA 59.892 55.000 8.16 0.00 46.31 4.17
2792 5651 1.996786 GATTGCCGCACACCTCCATG 61.997 60.000 0.00 0.00 0.00 3.66
2899 5760 1.174078 TCTACCCAAGACACGCACGA 61.174 55.000 0.00 0.00 0.00 4.35
2912 5773 1.595382 GCACGAAGGAGCACACAGT 60.595 57.895 0.00 0.00 32.99 3.55
2942 5804 1.918293 ATCCCCACGGCTGAGAACA 60.918 57.895 0.00 0.00 0.00 3.18
2945 5807 2.029073 CCACGGCTGAGAACACGT 59.971 61.111 0.00 0.00 40.60 4.49
2950 5812 2.355837 GCTGAGAACACGTCGGCA 60.356 61.111 0.00 0.00 44.46 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.205513 CTCCTAGTTAGGGTTAGTATTGGTTTA 57.794 37.037 5.40 0.00 43.79 2.01
3 4 7.126879 CCTCCTAGTTAGGGTTAGTATTGGTTT 59.873 40.741 5.40 0.00 43.79 3.27
5 6 6.068021 TCCTCCTAGTTAGGGTTAGTATTGGT 60.068 42.308 5.40 0.00 43.79 3.67
6 7 6.379579 TCCTCCTAGTTAGGGTTAGTATTGG 58.620 44.000 5.40 0.00 43.79 3.16
7 8 7.296098 TCTCCTCCTAGTTAGGGTTAGTATTG 58.704 42.308 5.40 0.00 43.79 1.90
8 9 7.477345 TCTCCTCCTAGTTAGGGTTAGTATT 57.523 40.000 5.40 0.00 43.79 1.89
9 10 7.471890 CATCTCCTCCTAGTTAGGGTTAGTAT 58.528 42.308 5.40 0.00 43.79 2.12
10 11 6.183361 CCATCTCCTCCTAGTTAGGGTTAGTA 60.183 46.154 5.40 0.00 43.79 1.82
11 12 5.400421 CCATCTCCTCCTAGTTAGGGTTAGT 60.400 48.000 5.40 0.00 43.79 2.24
12 13 5.081032 CCATCTCCTCCTAGTTAGGGTTAG 58.919 50.000 5.40 1.51 43.79 2.34
13 14 4.140758 CCCATCTCCTCCTAGTTAGGGTTA 60.141 50.000 5.40 0.00 43.79 2.85
14 15 3.375430 CCCATCTCCTCCTAGTTAGGGTT 60.375 52.174 5.40 0.00 43.79 4.11
15 16 2.180308 CCCATCTCCTCCTAGTTAGGGT 59.820 54.545 5.40 0.00 43.79 4.34
16 17 2.493687 CCCCATCTCCTCCTAGTTAGGG 60.494 59.091 5.40 0.00 43.79 3.53
17 18 2.896039 CCCCATCTCCTCCTAGTTAGG 58.104 57.143 0.00 0.00 45.02 2.69
18 19 2.252714 GCCCCATCTCCTCCTAGTTAG 58.747 57.143 0.00 0.00 0.00 2.34
19 20 1.578703 TGCCCCATCTCCTCCTAGTTA 59.421 52.381 0.00 0.00 0.00 2.24
20 21 0.343372 TGCCCCATCTCCTCCTAGTT 59.657 55.000 0.00 0.00 0.00 2.24
21 22 0.105246 CTGCCCCATCTCCTCCTAGT 60.105 60.000 0.00 0.00 0.00 2.57
22 23 0.105246 ACTGCCCCATCTCCTCCTAG 60.105 60.000 0.00 0.00 0.00 3.02
23 24 1.241485 TACTGCCCCATCTCCTCCTA 58.759 55.000 0.00 0.00 0.00 2.94
24 25 0.570218 ATACTGCCCCATCTCCTCCT 59.430 55.000 0.00 0.00 0.00 3.69
25 26 2.327325 TATACTGCCCCATCTCCTCC 57.673 55.000 0.00 0.00 0.00 4.30
26 27 6.377912 ACTATATATACTGCCCCATCTCCTC 58.622 44.000 0.00 0.00 0.00 3.71
27 28 6.163139 AGACTATATATACTGCCCCATCTCCT 59.837 42.308 0.00 0.00 0.00 3.69
28 29 6.377912 AGACTATATATACTGCCCCATCTCC 58.622 44.000 0.00 0.00 0.00 3.71
29 30 8.998277 TTAGACTATATATACTGCCCCATCTC 57.002 38.462 0.00 0.00 0.00 2.75
30 31 8.007742 CCTTAGACTATATATACTGCCCCATCT 58.992 40.741 0.00 0.00 0.00 2.90
31 32 7.233757 CCCTTAGACTATATATACTGCCCCATC 59.766 44.444 0.00 0.00 0.00 3.51
32 33 7.076446 CCCTTAGACTATATATACTGCCCCAT 58.924 42.308 0.00 0.00 0.00 4.00
33 34 6.221029 TCCCTTAGACTATATATACTGCCCCA 59.779 42.308 0.00 0.00 0.00 4.96
34 35 6.680540 TCCCTTAGACTATATATACTGCCCC 58.319 44.000 0.00 0.00 0.00 5.80
35 36 8.005388 TCATCCCTTAGACTATATATACTGCCC 58.995 40.741 0.00 0.00 0.00 5.36
36 37 8.998277 TCATCCCTTAGACTATATATACTGCC 57.002 38.462 0.00 0.00 0.00 4.85
40 41 9.369672 CCCCTTCATCCCTTAGACTATATATAC 57.630 40.741 0.00 0.00 0.00 1.47
41 42 9.092920 ACCCCTTCATCCCTTAGACTATATATA 57.907 37.037 0.00 0.00 0.00 0.86
42 43 7.967551 ACCCCTTCATCCCTTAGACTATATAT 58.032 38.462 0.00 0.00 0.00 0.86
43 44 7.372060 ACCCCTTCATCCCTTAGACTATATA 57.628 40.000 0.00 0.00 0.00 0.86
44 45 6.248080 ACCCCTTCATCCCTTAGACTATAT 57.752 41.667 0.00 0.00 0.00 0.86
45 46 5.698369 ACCCCTTCATCCCTTAGACTATA 57.302 43.478 0.00 0.00 0.00 1.31
46 47 4.578149 ACCCCTTCATCCCTTAGACTAT 57.422 45.455 0.00 0.00 0.00 2.12
47 48 4.233521 TGTACCCCTTCATCCCTTAGACTA 59.766 45.833 0.00 0.00 0.00 2.59
48 49 2.972153 ACCCCTTCATCCCTTAGACT 57.028 50.000 0.00 0.00 0.00 3.24
49 50 3.381335 TGTACCCCTTCATCCCTTAGAC 58.619 50.000 0.00 0.00 0.00 2.59
50 51 3.788116 TGTACCCCTTCATCCCTTAGA 57.212 47.619 0.00 0.00 0.00 2.10
51 52 3.073062 CCATGTACCCCTTCATCCCTTAG 59.927 52.174 0.00 0.00 0.00 2.18
52 53 3.053077 CCATGTACCCCTTCATCCCTTA 58.947 50.000 0.00 0.00 0.00 2.69
53 54 1.852965 CCATGTACCCCTTCATCCCTT 59.147 52.381 0.00 0.00 0.00 3.95
54 55 1.522900 CCATGTACCCCTTCATCCCT 58.477 55.000 0.00 0.00 0.00 4.20
55 56 0.478507 CCCATGTACCCCTTCATCCC 59.521 60.000 0.00 0.00 0.00 3.85
56 57 0.178990 GCCCATGTACCCCTTCATCC 60.179 60.000 0.00 0.00 0.00 3.51
57 58 0.178990 GGCCCATGTACCCCTTCATC 60.179 60.000 0.00 0.00 0.00 2.92
58 59 0.627469 AGGCCCATGTACCCCTTCAT 60.627 55.000 0.00 0.00 0.00 2.57
59 60 1.230149 AGGCCCATGTACCCCTTCA 60.230 57.895 0.00 0.00 0.00 3.02
60 61 1.532238 GAGGCCCATGTACCCCTTC 59.468 63.158 0.00 0.00 0.00 3.46
61 62 2.375345 CGAGGCCCATGTACCCCTT 61.375 63.158 0.00 0.00 0.00 3.95
62 63 2.768344 CGAGGCCCATGTACCCCT 60.768 66.667 0.00 0.00 0.00 4.79
63 64 3.873812 CCGAGGCCCATGTACCCC 61.874 72.222 0.00 0.00 0.00 4.95
64 65 4.564110 GCCGAGGCCCATGTACCC 62.564 72.222 0.00 0.00 34.56 3.69
382 383 3.515286 GGACATCCGGCGTCTCGA 61.515 66.667 19.40 0.00 33.73 4.04
453 515 1.133869 CAACGCCCGAAAATCCGTC 59.866 57.895 0.00 0.00 32.89 4.79
454 516 2.329614 CCAACGCCCGAAAATCCGT 61.330 57.895 0.00 0.00 35.14 4.69
645 3269 4.680237 CCAAGTGTGCGCGGGAGA 62.680 66.667 8.83 0.00 0.00 3.71
663 3287 1.377856 GAGAGCCCAAGGACCAAGC 60.378 63.158 0.00 0.00 0.00 4.01
710 3334 2.933878 TTCAAGCGCGGACCTTGTGT 62.934 55.000 19.74 0.00 40.35 3.72
750 3374 3.541632 GAATCTTCCCTTTCCGCATGTA 58.458 45.455 0.00 0.00 0.00 2.29
751 3375 2.369394 GAATCTTCCCTTTCCGCATGT 58.631 47.619 0.00 0.00 0.00 3.21
752 3376 1.331756 CGAATCTTCCCTTTCCGCATG 59.668 52.381 0.00 0.00 0.00 4.06
753 3377 1.668419 CGAATCTTCCCTTTCCGCAT 58.332 50.000 0.00 0.00 0.00 4.73
754 3378 0.392461 CCGAATCTTCCCTTTCCGCA 60.392 55.000 0.00 0.00 0.00 5.69
827 3472 6.382087 TCATCCCCATGTACACTAAGACTAT 58.618 40.000 0.00 0.00 0.00 2.12
833 3478 3.964688 ACGATCATCCCCATGTACACTAA 59.035 43.478 0.00 0.00 0.00 2.24
873 3518 7.171167 TGAGAACGTCAAAATTGTATCGGTTAA 59.829 33.333 0.00 0.00 29.64 2.01
874 3519 6.645827 TGAGAACGTCAAAATTGTATCGGTTA 59.354 34.615 0.00 0.00 29.64 2.85
875 3520 5.467399 TGAGAACGTCAAAATTGTATCGGTT 59.533 36.000 0.00 0.00 29.64 4.44
876 3521 4.992319 TGAGAACGTCAAAATTGTATCGGT 59.008 37.500 0.00 6.03 29.64 4.69
877 3522 5.524511 TGAGAACGTCAAAATTGTATCGG 57.475 39.130 0.00 0.00 29.64 4.18
878 3523 5.015733 GCTGAGAACGTCAAAATTGTATCG 58.984 41.667 0.00 1.04 33.60 2.92
879 3524 5.927030 TGCTGAGAACGTCAAAATTGTATC 58.073 37.500 0.00 0.00 33.60 2.24
882 3527 3.876914 TCTGCTGAGAACGTCAAAATTGT 59.123 39.130 0.00 0.00 33.60 2.71
885 3530 4.614535 GCAATCTGCTGAGAACGTCAAAAT 60.615 41.667 0.00 0.00 40.96 1.82
900 3545 1.429423 GTGCCGGTTAGCAATCTGC 59.571 57.895 1.90 0.00 46.19 4.26
915 3560 1.058284 GTAACAATCGCGGACGTGC 59.942 57.895 6.13 0.00 41.18 5.34
920 3565 3.000872 CGTAAATTCGTAACAATCGCGGA 60.001 43.478 6.13 0.00 0.00 5.54
923 3568 5.109261 GCAATCGTAAATTCGTAACAATCGC 60.109 40.000 0.00 0.00 0.00 4.58
946 3591 2.838386 TCTGTAACGGACACTATCGC 57.162 50.000 0.00 0.00 33.31 4.58
947 3592 4.916870 TGAATCTGTAACGGACACTATCG 58.083 43.478 0.00 0.00 33.31 2.92
951 3596 4.602340 AGTTGAATCTGTAACGGACACT 57.398 40.909 0.00 0.00 33.31 3.55
965 3610 4.330074 CGCAAGGAGACGATAAAGTTGAAT 59.670 41.667 0.00 0.00 0.00 2.57
988 3633 5.473039 ACCGGTATATAGATACGTTTTGCC 58.527 41.667 4.49 0.00 39.16 4.52
1000 3661 5.487153 CGGAGATCTCAACCGGTATATAG 57.513 47.826 23.85 3.03 42.48 1.31
1041 3702 1.745087 TGAATACGTCGAGGTGGGTAC 59.255 52.381 20.44 8.05 0.00 3.34
1064 3725 2.754995 GCTCTTAGGTGGCGCTTGC 61.755 63.158 7.64 0.00 38.11 4.01
1072 3733 3.999663 CTCTTTTCAGGTGCTCTTAGGTG 59.000 47.826 0.00 0.00 0.00 4.00
1094 3756 1.392510 GCCGTCGTTTCCAAGTATGAC 59.607 52.381 0.00 0.00 0.00 3.06
1099 3761 1.952635 GTCGCCGTCGTTTCCAAGT 60.953 57.895 0.00 0.00 36.96 3.16
1112 3774 1.200484 AGAAGAAGAGAGTTCGTCGCC 59.800 52.381 0.00 0.00 36.98 5.54
1145 3807 2.094906 CCTCCGTGTCTTCGTTGATGTA 60.095 50.000 0.00 0.00 0.00 2.29
1162 3824 2.566724 GTCCCTGATCATCATCTCCTCC 59.433 54.545 0.00 0.00 0.00 4.30
1167 3829 4.462132 CAGTATCGTCCCTGATCATCATCT 59.538 45.833 0.00 0.00 0.00 2.90
1186 3848 3.592814 CGGAGATCGGCCGCAGTA 61.593 66.667 23.51 2.57 42.55 2.74
1260 3931 1.384989 CCTGACCACCGACGATAGCT 61.385 60.000 0.00 0.00 42.67 3.32
1507 4178 1.736645 CCACGAGATGGCGTTCGTT 60.737 57.895 12.15 0.10 46.87 3.85
1582 4253 1.237285 GCACCTTGAGGAACATGCGT 61.237 55.000 3.59 0.00 38.94 5.24
1684 4355 1.930251 CAGAGTCAGTGGGGAAGAGA 58.070 55.000 0.00 0.00 0.00 3.10
1755 4426 0.247460 CCTGGCTGATTCTGTGACGA 59.753 55.000 0.00 0.00 0.00 4.20
1756 4427 0.742281 CCCTGGCTGATTCTGTGACG 60.742 60.000 0.00 0.00 0.00 4.35
1800 4471 6.097554 ACTGGAGGATCTGTTGTTGACTATAG 59.902 42.308 0.00 0.00 33.73 1.31
1821 4492 5.623956 TGGTGTTATCCTAACCATACTGG 57.376 43.478 0.00 0.00 45.02 4.00
1827 4498 6.445786 ACTCCTATTTGGTGTTATCCTAACCA 59.554 38.462 0.00 0.00 42.19 3.67
1828 4499 6.896883 ACTCCTATTTGGTGTTATCCTAACC 58.103 40.000 0.00 0.00 39.28 2.85
1829 4500 8.702819 ACTACTCCTATTTGGTGTTATCCTAAC 58.297 37.037 0.00 0.00 42.05 2.34
1830 4501 8.849543 ACTACTCCTATTTGGTGTTATCCTAA 57.150 34.615 0.00 0.00 42.05 2.69
1831 4502 8.701895 CAACTACTCCTATTTGGTGTTATCCTA 58.298 37.037 0.00 0.00 42.05 2.94
1832 4503 7.402071 TCAACTACTCCTATTTGGTGTTATCCT 59.598 37.037 0.00 0.00 42.05 3.24
1833 4504 7.562135 TCAACTACTCCTATTTGGTGTTATCC 58.438 38.462 0.00 0.00 42.05 2.59
1836 4507 9.263446 AGTATCAACTACTCCTATTTGGTGTTA 57.737 33.333 0.00 0.00 42.05 2.41
1837 4508 8.147244 AGTATCAACTACTCCTATTTGGTGTT 57.853 34.615 0.00 0.00 42.05 3.32
1838 4509 7.735326 AGTATCAACTACTCCTATTTGGTGT 57.265 36.000 0.00 0.00 43.98 4.16
1891 4562 2.781945 GCTTCCAAAGGCAATATCCG 57.218 50.000 0.00 0.00 0.00 4.18
1900 4571 2.103042 CGAGCTCGGCTTCCAAAGG 61.103 63.158 28.40 0.00 39.88 3.11
1901 4572 3.479370 CGAGCTCGGCTTCCAAAG 58.521 61.111 28.40 0.00 39.88 2.77
1911 4582 4.286910 TGAAATTTTCAAAACCGAGCTCG 58.713 39.130 29.06 29.06 36.59 5.03
1983 4655 7.445402 GTGTTATGCCTCCATGTAATCTGTATT 59.555 37.037 0.00 0.00 32.85 1.89
1984 4656 6.936900 GTGTTATGCCTCCATGTAATCTGTAT 59.063 38.462 0.00 0.00 32.85 2.29
1993 4665 2.877097 TGTGTGTTATGCCTCCATGT 57.123 45.000 0.00 0.00 32.85 3.21
2037 4709 2.612721 GCGCAACCCTCATTCCAAATTT 60.613 45.455 0.30 0.00 0.00 1.82
2039 4711 0.532115 GCGCAACCCTCATTCCAAAT 59.468 50.000 0.30 0.00 0.00 2.32
2040 4712 0.825425 TGCGCAACCCTCATTCCAAA 60.825 50.000 8.16 0.00 0.00 3.28
2044 4716 2.147436 TTTTTGCGCAACCCTCATTC 57.853 45.000 24.99 0.00 0.00 2.67
2067 4739 8.578308 TCATGTGTTAAAAAGCTTCAGATTTG 57.422 30.769 0.00 0.00 33.52 2.32
2105 4777 5.549742 AAAAGACAAATTCATGCCTGGAA 57.450 34.783 0.00 0.00 0.00 3.53
2106 4778 5.549742 AAAAAGACAAATTCATGCCTGGA 57.450 34.783 0.00 0.00 0.00 3.86
2125 4797 7.932335 ACGTTGAAATGTGACCTATACAAAAA 58.068 30.769 0.00 0.00 0.00 1.94
2126 4798 7.499321 ACGTTGAAATGTGACCTATACAAAA 57.501 32.000 0.00 0.00 0.00 2.44
2127 4799 8.780846 ATACGTTGAAATGTGACCTATACAAA 57.219 30.769 0.00 0.00 0.00 2.83
2133 4805 7.065324 GGATGAAATACGTTGAAATGTGACCTA 59.935 37.037 0.00 0.00 0.00 3.08
2250 4936 3.136750 CTCTCGGCCTCCATGGAG 58.863 66.667 31.69 31.69 41.63 3.86
2274 4961 3.296854 TGGCATAGTAGTGAGAACGGAT 58.703 45.455 0.00 0.00 0.00 4.18
2277 4964 4.106197 GAGTTGGCATAGTAGTGAGAACG 58.894 47.826 0.00 0.00 0.00 3.95
2389 5246 2.224769 ACCTTCTTTTCGGCATCAAGGA 60.225 45.455 9.48 0.00 35.37 3.36
2419 5278 0.401738 ACAGACCAAGTCCCACCATG 59.598 55.000 0.00 0.00 32.18 3.66
2436 5295 1.534336 TACGGTGGCTTTAGCGGACA 61.534 55.000 11.13 0.00 45.06 4.02
2441 5300 1.669265 GTCCAATACGGTGGCTTTAGC 59.331 52.381 0.00 0.00 38.68 3.09
2455 5314 2.114670 CATCGCCGGCAAGTCCAAT 61.115 57.895 28.98 4.54 34.01 3.16
2574 5433 5.676310 GTCGTTCTAAACATCGCTACTCTAC 59.324 44.000 0.00 0.00 0.00 2.59
2586 5445 1.195900 GCAATGGCGTCGTTCTAAACA 59.804 47.619 0.00 0.00 0.00 2.83
2636 5495 1.950909 GGATTGGTTGTGGTGTTCGAA 59.049 47.619 0.00 0.00 0.00 3.71
2637 5496 1.600023 GGATTGGTTGTGGTGTTCGA 58.400 50.000 0.00 0.00 0.00 3.71
2642 5501 1.888512 CTCTTGGGATTGGTTGTGGTG 59.111 52.381 0.00 0.00 0.00 4.17
2659 5518 1.297664 GCATCTTCATTGCTCGCTCT 58.702 50.000 0.00 0.00 37.14 4.09
2668 5527 2.880443 AGGTGTGTTGGCATCTTCATT 58.120 42.857 0.00 0.00 0.00 2.57
2672 5531 1.331214 CCAAGGTGTGTTGGCATCTT 58.669 50.000 0.00 0.00 40.70 2.40
2692 5551 0.549902 TCCCCTTCTTGGAGGCATCA 60.550 55.000 0.00 0.00 38.35 3.07
2705 5564 1.227734 CGTTGGTGTCGTTCCCCTT 60.228 57.895 0.00 0.00 0.00 3.95
2736 5595 1.662044 GTACTCGGTCGGTGTTGGT 59.338 57.895 0.00 0.00 0.00 3.67
2792 5651 2.438434 CCAATCCGGTGGTGAGGC 60.438 66.667 0.00 0.00 33.63 4.70
2823 5682 3.041940 CGGCGGTGTGGTCAACTC 61.042 66.667 0.00 0.00 0.00 3.01
2844 5703 0.037697 ATGTTTGCGGAGTGCTACGA 60.038 50.000 8.14 0.00 46.63 3.43
2847 5706 1.651987 GCTATGTTTGCGGAGTGCTA 58.348 50.000 0.00 0.00 46.63 3.49
2882 5741 0.319211 CTTCGTGCGTGTCTTGGGTA 60.319 55.000 0.00 0.00 0.00 3.69
2899 5760 1.069765 CGTGGACTGTGTGCTCCTT 59.930 57.895 0.00 0.00 0.00 3.36
2912 5773 0.251916 GTGGGGATGATGTTCGTGGA 59.748 55.000 0.00 0.00 0.00 4.02
2942 5804 3.000819 TTGGAGGGATGCCGACGT 61.001 61.111 0.00 0.00 0.00 4.34
2945 5807 3.797353 GGCTTGGAGGGATGCCGA 61.797 66.667 0.00 0.00 35.79 5.54


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

AutoCloner maintained by Alex Coulton.