Multiple sequence alignment - TraesCS2B01G160200

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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 TraesCS2B01G160200 chr2B 100.000 8718 0 0 1 8718 133710007 133701290 0.000000e+00 16100.0
1 TraesCS2B01G160200 chr2B 99.255 3357 18 5 1 3354 133758532 133755180 0.000000e+00 6054.0
2 TraesCS2B01G160200 chr2B 93.072 3392 199 15 5245 8622 133808687 133805318 0.000000e+00 4929.0
3 TraesCS2B01G160200 chr2B 78.612 2478 450 60 5274 7721 134242907 134240480 0.000000e+00 1567.0
4 TraesCS2B01G160200 chr2B 79.796 1569 262 23 5598 7137 134365949 134364407 0.000000e+00 1090.0
5 TraesCS2B01G160200 chr2B 81.925 426 53 15 4805 5208 133809186 133808763 1.080000e-88 339.0
6 TraesCS2B01G160200 chr2B 82.456 228 29 9 290 509 200904534 200904758 1.160000e-43 189.0
7 TraesCS2B01G160200 chr2B 81.548 168 27 4 18 184 789591735 789591571 1.530000e-27 135.0
8 TraesCS2B01G160200 chr2B 79.570 186 34 4 18 202 789580314 789580132 7.100000e-26 130.0
9 TraesCS2B01G160200 chr2B 79.570 186 34 4 18 202 789583313 789583131 7.100000e-26 130.0
10 TraesCS2B01G160200 chr2B 79.570 186 34 4 18 202 789600192 789600010 7.100000e-26 130.0
11 TraesCS2B01G160200 chr2B 89.474 57 4 1 8632 8688 784526221 784526275 4.370000e-08 71.3
12 TraesCS2B01G160200 chr2D 92.405 3489 215 20 5245 8718 81943380 81939927 0.000000e+00 4929.0
13 TraesCS2B01G160200 chr2D 82.506 423 51 16 4805 5205 81943880 81943459 5.010000e-92 350.0
14 TraesCS2B01G160200 chr2D 82.857 280 33 5 1022 1301 81978780 81978516 4.070000e-58 237.0
15 TraesCS2B01G160200 chr2D 92.647 136 9 1 1094 1229 82883197 82883063 2.480000e-45 195.0
16 TraesCS2B01G160200 chr2D 78.544 261 47 9 251 507 20689571 20689316 7.000000e-36 163.0
17 TraesCS2B01G160200 chr2D 93.878 49 1 1 8632 8680 598302913 598302867 1.210000e-08 73.1
18 TraesCS2B01G160200 chr2A 86.245 3148 358 30 5227 8353 82201623 82198530 0.000000e+00 3345.0
19 TraesCS2B01G160200 chr2A 93.250 2074 110 10 6554 8622 82131400 82129352 0.000000e+00 3027.0
20 TraesCS2B01G160200 chr2A 85.596 2777 336 36 4409 7164 82070640 82067907 0.000000e+00 2854.0
21 TraesCS2B01G160200 chr2A 89.290 1802 167 17 4409 6199 82158639 82156853 0.000000e+00 2235.0
22 TraesCS2B01G160200 chr2A 91.071 1456 99 14 1 1447 82120811 82119378 0.000000e+00 1940.0
23 TraesCS2B01G160200 chr2A 83.599 1067 130 23 3343 4387 82071672 82070629 0.000000e+00 959.0
24 TraesCS2B01G160200 chr2A 83.543 717 110 7 5245 5954 82132116 82131401 0.000000e+00 664.0
25 TraesCS2B01G160200 chr2A 83.029 766 77 27 3323 4071 82161004 82160275 0.000000e+00 645.0
26 TraesCS2B01G160200 chr2A 94.425 287 13 1 1046 1332 82180254 82179971 1.040000e-118 438.0
27 TraesCS2B01G160200 chr2A 89.644 309 31 1 4917 5225 82201980 82201673 8.200000e-105 392.0
28 TraesCS2B01G160200 chr2A 89.116 294 26 5 1 293 82180929 82180641 2.310000e-95 361.0
29 TraesCS2B01G160200 chr2A 86.405 331 34 9 2333 2658 82178029 82177705 1.390000e-92 351.0
30 TraesCS2B01G160200 chr2A 80.478 502 47 22 2652 3107 82117257 82116761 3.900000e-88 337.0
31 TraesCS2B01G160200 chr2A 84.857 350 35 17 2333 2671 82117742 82117400 3.900000e-88 337.0
32 TraesCS2B01G160200 chr2A 86.121 281 28 9 1849 2125 82178458 82178185 8.560000e-75 292.0
33 TraesCS2B01G160200 chr2A 85.214 257 29 7 2652 2902 82177224 82176971 1.120000e-63 255.0
34 TraesCS2B01G160200 chr2A 84.753 223 20 6 3107 3321 82176536 82176320 2.470000e-50 211.0
35 TraesCS2B01G160200 chr2A 79.412 340 37 17 8088 8402 82064184 82063853 8.870000e-50 209.0
36 TraesCS2B01G160200 chr2A 79.870 308 26 10 1015 1301 82154624 82154332 8.930000e-45 193.0
37 TraesCS2B01G160200 chr2A 84.615 169 19 6 1326 1489 82179790 82179624 2.520000e-35 161.0
38 TraesCS2B01G160200 chr2A 82.609 92 9 5 3108 3192 82116568 82116477 3.380000e-09 75.0
39 TraesCS2B01G160200 chr2A 100.000 29 0 0 2812 2840 19310338 19310310 4.000000e-03 54.7
40 TraesCS2B01G160200 chr3D 85.200 250 28 8 264 507 454000935 454000689 1.880000e-61 248.0
41 TraesCS2B01G160200 chr3D 97.059 34 1 0 4554 4587 523157382 523157415 3.400000e-04 58.4
42 TraesCS2B01G160200 chr1A 83.471 242 31 8 281 516 498534255 498534493 5.300000e-52 217.0
43 TraesCS2B01G160200 chr1A 76.327 245 44 13 3 242 579109489 579109254 1.540000e-22 119.0
44 TraesCS2B01G160200 chr5B 80.741 270 45 7 1554 1818 489375035 489375302 4.130000e-48 204.0
45 TraesCS2B01G160200 chr5B 92.982 57 4 0 8632 8688 21588518 21588462 5.610000e-12 84.2
46 TraesCS2B01G160200 chr5B 100.000 30 0 0 2812 2841 682864598 682864569 1.000000e-03 56.5
47 TraesCS2B01G160200 chr5D 82.759 232 33 5 281 507 412829410 412829181 5.340000e-47 200.0
48 TraesCS2B01G160200 chr5D 83.260 227 29 9 289 511 475685445 475685666 5.340000e-47 200.0
49 TraesCS2B01G160200 chr5D 89.855 69 7 0 2810 2878 512204715 512204647 1.210000e-13 89.8
50 TraesCS2B01G160200 chr5D 90.000 60 6 0 8632 8691 494472312 494472253 2.610000e-10 78.7
51 TraesCS2B01G160200 chr5D 89.796 49 5 0 2256 2304 457399448 457399496 7.310000e-06 63.9
52 TraesCS2B01G160200 chr5D 100.000 31 0 0 4557 4587 410399113 410399143 3.400000e-04 58.4
53 TraesCS2B01G160200 chr5D 100.000 31 0 0 4557 4587 450670130 450670100 3.400000e-04 58.4
54 TraesCS2B01G160200 chr6A 79.435 248 45 5 264 507 155053573 155053328 4.180000e-38 171.0
55 TraesCS2B01G160200 chr6A 92.982 57 2 1 8632 8688 573510873 573510819 2.020000e-11 82.4
56 TraesCS2B01G160200 chr7A 82.119 151 27 0 1678 1828 706368002 706367852 7.100000e-26 130.0
57 TraesCS2B01G160200 chr7A 94.872 39 2 0 569 607 200507784 200507822 2.630000e-05 62.1
58 TraesCS2B01G160200 chr4A 81.529 157 26 3 27 182 722935743 722935897 9.190000e-25 126.0
59 TraesCS2B01G160200 chr4A 76.000 175 38 4 2248 2418 176546200 176546374 4.340000e-13 87.9
60 TraesCS2B01G160200 chr4A 100.000 32 0 0 4556 4587 471931246 471931277 9.450000e-05 60.2
61 TraesCS2B01G160200 chr5A 92.308 65 5 0 2810 2874 640604631 640604567 9.320000e-15 93.5
62 TraesCS2B01G160200 chrUn 88.889 72 6 2 544 614 425570682 425570752 4.340000e-13 87.9
63 TraesCS2B01G160200 chrUn 97.500 40 1 0 568 607 196711320 196711359 1.570000e-07 69.4
64 TraesCS2B01G160200 chr1D 88.000 75 4 2 4558 4628 317183780 317183853 5.610000e-12 84.2
65 TraesCS2B01G160200 chr1D 100.000 30 0 0 2812 2841 446087377 446087348 1.000000e-03 56.5
66 TraesCS2B01G160200 chr4B 91.803 61 1 3 4557 4616 466018127 466018184 2.020000e-11 82.4
67 TraesCS2B01G160200 chr6D 91.228 57 3 1 8632 8688 428926028 428925974 9.390000e-10 76.8
68 TraesCS2B01G160200 chr6D 92.157 51 2 2 8631 8680 4725093 4725044 4.370000e-08 71.3
69 TraesCS2B01G160200 chr7D 88.333 60 7 0 8632 8691 63453563 63453504 1.210000e-08 73.1
70 TraesCS2B01G160200 chr7B 77.869 122 24 3 2250 2368 589705463 589705342 1.210000e-08 73.1
71 TraesCS2B01G160200 chr7B 85.484 62 6 3 2811 2870 104011409 104011349 2.630000e-05 62.1
72 TraesCS2B01G160200 chr7B 94.872 39 2 0 569 607 337021474 337021512 2.630000e-05 62.1
73 TraesCS2B01G160200 chr4D 88.333 60 3 2 4556 4612 103235078 103235020 1.570000e-07 69.4
74 TraesCS2B01G160200 chr3A 97.059 34 0 1 2810 2843 506462056 506462024 1.000000e-03 56.5


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 TraesCS2B01G160200 chr2B 133701290 133710007 8717 True 16100.000000 16100 100.000000 1 8718 1 chr2B.!!$R1 8717
1 TraesCS2B01G160200 chr2B 133755180 133758532 3352 True 6054.000000 6054 99.255000 1 3354 1 chr2B.!!$R2 3353
2 TraesCS2B01G160200 chr2B 133805318 133809186 3868 True 2634.000000 4929 87.498500 4805 8622 2 chr2B.!!$R7 3817
3 TraesCS2B01G160200 chr2B 134240480 134242907 2427 True 1567.000000 1567 78.612000 5274 7721 1 chr2B.!!$R3 2447
4 TraesCS2B01G160200 chr2B 134364407 134365949 1542 True 1090.000000 1090 79.796000 5598 7137 1 chr2B.!!$R4 1539
5 TraesCS2B01G160200 chr2D 81939927 81943880 3953 True 2639.500000 4929 87.455500 4805 8718 2 chr2D.!!$R5 3913
6 TraesCS2B01G160200 chr2A 82198530 82201980 3450 True 1868.500000 3345 87.944500 4917 8353 2 chr2A.!!$R7 3436
7 TraesCS2B01G160200 chr2A 82129352 82132116 2764 True 1845.500000 3027 88.396500 5245 8622 2 chr2A.!!$R4 3377
8 TraesCS2B01G160200 chr2A 82063853 82071672 7819 True 1340.666667 2854 82.869000 3343 8402 3 chr2A.!!$R2 5059
9 TraesCS2B01G160200 chr2A 82154332 82161004 6672 True 1024.333333 2235 84.063000 1015 6199 3 chr2A.!!$R5 5184
10 TraesCS2B01G160200 chr2A 82116477 82120811 4334 True 672.250000 1940 84.753750 1 3192 4 chr2A.!!$R3 3191
11 TraesCS2B01G160200 chr2A 82176320 82180929 4609 True 295.571429 438 87.235571 1 3321 7 chr2A.!!$R6 3320

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
317 688 5.104259 AGACTTGTCTGGAGTCAAACTTT 57.896 39.13 2.11 0.00 44.65 2.66 F
1131 1509 0.438445 TGAATCGCTTCGTTCGCTTG 59.562 50.00 0.00 0.00 33.86 4.01 F
1790 3243 5.013079 AGTGAGGGACATGACTGTGAAAATA 59.987 40.00 0.00 0.00 35.14 1.40 F
3571 5858 0.107081 ACGACCATTGTTTGACCCGA 59.893 50.00 0.00 0.00 0.00 5.14 F
3803 6092 0.033503 TCACATACCCCTCTCAGCGA 60.034 55.00 0.00 0.00 0.00 4.93 F
4215 7868 0.035458 GTCTGGGTGAGGTCAGGTTG 59.965 60.00 0.00 0.00 0.00 3.77 F
4219 7872 0.035458 GGGTGAGGTCAGGTTGTCAG 59.965 60.00 0.00 0.00 0.00 3.51 F
5736 9497 0.041238 TAGAGGTCAGTGGGGAGTGG 59.959 60.00 0.00 0.00 0.00 4.00 F
6365 10156 0.107361 TCAGATGCTGGCAGTGGATG 60.107 55.00 17.16 10.51 31.51 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1933 3388 0.961753 GGAAAAGTGGAGGCCAACTG 59.038 55.000 5.01 0.00 34.18 3.16 R
2312 3842 3.998341 TGCTCGTGGACCTATTAAACAAC 59.002 43.478 0.00 0.00 0.00 3.32 R
3769 6058 0.178973 TGTGAGTGGAGGACCGAGAA 60.179 55.000 0.00 0.00 39.42 2.87 R
4373 8032 0.103337 AGAAAAACTCCCCTCCCCCT 60.103 55.000 0.00 0.00 0.00 4.79 R
5219 8914 0.113776 TCCCTCCGTTGTACAGAGGT 59.886 55.000 21.82 0.00 40.41 3.85 R
5364 9107 0.458260 AAAACTCGGCGCCAAAGTTT 59.542 45.000 34.42 34.42 43.22 2.66 R
6055 9837 1.069775 ACCGGGGAAGGTAACAACAT 58.930 50.000 6.32 0.00 43.89 2.71 R
6778 10572 0.392461 GCGACCAATGTCCTGCCTTA 60.392 55.000 0.00 0.00 38.32 2.69 R
8284 15239 5.643348 TCATTTATGTCACTGTCCACATGAC 59.357 40.000 0.00 11.97 44.72 3.06 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
317 688 5.104259 AGACTTGTCTGGAGTCAAACTTT 57.896 39.130 2.11 0.00 44.65 2.66
1131 1509 0.438445 TGAATCGCTTCGTTCGCTTG 59.562 50.000 0.00 0.00 33.86 4.01
1790 3243 5.013079 AGTGAGGGACATGACTGTGAAAATA 59.987 40.000 0.00 0.00 35.14 1.40
1933 3388 6.148150 TCCGTGTACAATGAAGTATCCAAAAC 59.852 38.462 0.00 0.00 0.00 2.43
2312 3842 8.084684 TCATCTCATACAATGTCTTAAGATCCG 58.915 37.037 8.75 0.87 0.00 4.18
2674 4707 7.493367 TGCAAATGCTTCAATAATGATGATGA 58.507 30.769 6.97 0.00 42.66 2.92
2686 4719 4.849813 ATGATGATGAGGTCCTCAACAA 57.150 40.909 29.37 17.93 44.12 2.83
3383 5669 4.088762 CATGGTGTGCGCGGTGTC 62.089 66.667 8.83 0.00 0.00 3.67
3404 5690 0.108186 GGCATGGACGACATCAGTCA 60.108 55.000 0.00 0.00 45.23 3.41
3407 5693 3.457234 GCATGGACGACATCAGTCAATA 58.543 45.455 0.00 0.00 45.23 1.90
3418 5704 9.078990 ACGACATCAGTCAATAAAGAGGATATA 57.921 33.333 0.00 0.00 45.23 0.86
3464 5751 3.681835 GCCAGTCACGTCGTCCCT 61.682 66.667 0.00 0.00 0.00 4.20
3468 5755 2.733593 GTCACGTCGTCCCTGCAC 60.734 66.667 0.00 0.00 0.00 4.57
3472 5759 2.815211 CGTCGTCCCTGCACATGG 60.815 66.667 0.00 0.00 0.00 3.66
3497 5784 3.461773 GCCACTCGAGCCTAGGCA 61.462 66.667 34.70 14.36 44.59 4.75
3516 5803 2.584143 CAACCGGATACCGCGTCC 60.584 66.667 9.46 4.51 46.86 4.79
3522 5809 1.520787 GGATACCGCGTCCACTTGG 60.521 63.158 4.92 0.00 35.76 3.61
3523 5810 1.520787 GATACCGCGTCCACTTGGG 60.521 63.158 4.92 0.00 35.41 4.12
3560 5847 0.251121 TCCATTGGCACACGACCATT 60.251 50.000 0.00 0.00 39.29 3.16
3564 5851 1.107114 TTGGCACACGACCATTGTTT 58.893 45.000 0.00 0.00 39.29 2.83
3571 5858 0.107081 ACGACCATTGTTTGACCCGA 59.893 50.000 0.00 0.00 0.00 5.14
3717 6006 5.308237 ACCATAAGCAGGAGTAGGGAATTAG 59.692 44.000 0.00 0.00 0.00 1.73
3721 6010 2.037902 GCAGGAGTAGGGAATTAGCTCC 59.962 54.545 0.00 0.00 44.37 4.70
3743 6032 2.252012 ATAGAGGGCCCGAACCTGGA 62.252 60.000 18.44 0.00 38.79 3.86
3746 6035 1.307517 AGGGCCCGAACCTGGATAA 60.308 57.895 18.44 0.00 36.85 1.75
3765 6054 5.163814 GGATAAATCGCTTGTCTCATATGCC 60.164 44.000 0.00 0.00 0.00 4.40
3769 6058 1.473965 CGCTTGTCTCATATGCCACCT 60.474 52.381 0.00 0.00 0.00 4.00
3778 6067 0.759346 ATATGCCACCTTCTCGGTCC 59.241 55.000 0.00 0.00 44.93 4.46
3779 6068 0.325296 TATGCCACCTTCTCGGTCCT 60.325 55.000 0.00 0.00 44.93 3.85
3781 6070 3.020237 GCCACCTTCTCGGTCCTCC 62.020 68.421 0.00 0.00 44.93 4.30
3786 6075 0.612174 CCTTCTCGGTCCTCCACTCA 60.612 60.000 0.00 0.00 0.00 3.41
3795 6084 0.716591 TCCTCCACTCACATACCCCT 59.283 55.000 0.00 0.00 0.00 4.79
3796 6085 1.123928 CCTCCACTCACATACCCCTC 58.876 60.000 0.00 0.00 0.00 4.30
3797 6086 1.343478 CCTCCACTCACATACCCCTCT 60.343 57.143 0.00 0.00 0.00 3.69
3799 6088 1.361197 TCCACTCACATACCCCTCTCA 59.639 52.381 0.00 0.00 0.00 3.27
3800 6089 1.759445 CCACTCACATACCCCTCTCAG 59.241 57.143 0.00 0.00 0.00 3.35
3803 6092 0.033503 TCACATACCCCTCTCAGCGA 60.034 55.000 0.00 0.00 0.00 4.93
3804 6093 1.043816 CACATACCCCTCTCAGCGAT 58.956 55.000 0.00 0.00 0.00 4.58
3805 6094 2.158519 TCACATACCCCTCTCAGCGATA 60.159 50.000 0.00 0.00 0.00 2.92
3806 6095 2.029828 CACATACCCCTCTCAGCGATAC 60.030 54.545 0.00 0.00 0.00 2.24
3807 6096 2.158445 ACATACCCCTCTCAGCGATACT 60.158 50.000 0.00 0.00 0.00 2.12
3808 6097 3.074094 ACATACCCCTCTCAGCGATACTA 59.926 47.826 0.00 0.00 0.00 1.82
3810 6099 1.249407 CCCCTCTCAGCGATACTACC 58.751 60.000 0.00 0.00 0.00 3.18
3813 6102 2.693591 CCCTCTCAGCGATACTACCAAA 59.306 50.000 0.00 0.00 0.00 3.28
3814 6103 3.243569 CCCTCTCAGCGATACTACCAAAG 60.244 52.174 0.00 0.00 0.00 2.77
3816 6105 4.498345 CCTCTCAGCGATACTACCAAAGTC 60.498 50.000 0.00 0.00 39.80 3.01
3817 6106 4.014406 TCTCAGCGATACTACCAAAGTCA 58.986 43.478 0.00 0.00 39.80 3.41
3818 6107 4.096532 TCTCAGCGATACTACCAAAGTCAG 59.903 45.833 0.00 0.00 39.80 3.51
3819 6108 2.860735 CAGCGATACTACCAAAGTCAGC 59.139 50.000 0.00 0.00 39.80 4.26
3820 6109 1.852895 GCGATACTACCAAAGTCAGCG 59.147 52.381 0.00 0.00 39.80 5.18
3821 6110 2.479049 GCGATACTACCAAAGTCAGCGA 60.479 50.000 0.00 0.00 39.80 4.93
3823 6112 4.556104 GCGATACTACCAAAGTCAGCGATA 60.556 45.833 0.00 0.00 39.80 2.92
3824 6113 4.910456 CGATACTACCAAAGTCAGCGATAC 59.090 45.833 0.00 0.00 39.80 2.24
3825 6114 5.277876 CGATACTACCAAAGTCAGCGATACT 60.278 44.000 0.00 0.00 39.80 2.12
3828 6117 3.521947 ACCAAAGTCAGCGATACTACC 57.478 47.619 0.00 0.00 0.00 3.18
3829 6118 2.829720 ACCAAAGTCAGCGATACTACCA 59.170 45.455 0.00 0.00 0.00 3.25
3830 6119 3.259876 ACCAAAGTCAGCGATACTACCAA 59.740 43.478 0.00 0.00 0.00 3.67
3831 6120 4.250464 CCAAAGTCAGCGATACTACCAAA 58.750 43.478 0.00 0.00 0.00 3.28
3844 6146 2.696707 ACTACCAAAGTCAGAACACCGA 59.303 45.455 0.00 0.00 30.33 4.69
3847 6149 2.285083 CCAAAGTCAGAACACCGACAA 58.715 47.619 0.00 0.00 34.48 3.18
3850 6152 2.065993 AGTCAGAACACCGACAATCG 57.934 50.000 0.00 0.00 40.07 3.34
3873 6175 4.460683 GTACATGGGCGGCGGACA 62.461 66.667 9.78 0.00 0.00 4.02
3874 6176 3.707458 TACATGGGCGGCGGACAA 61.707 61.111 9.78 0.00 0.00 3.18
3885 6187 2.983592 CGGACAAGGGTGTTGGGC 60.984 66.667 0.00 0.00 38.41 5.36
3908 6210 0.036671 GGATTCGTCGTCCAAAGGGT 60.037 55.000 0.00 0.00 35.76 4.34
3914 6216 1.614226 TCGTCCAAAGGGTAGGGGG 60.614 63.158 0.00 0.00 34.93 5.40
3923 6225 3.712907 GGTAGGGGGCAGCGACAA 61.713 66.667 0.00 0.00 0.00 3.18
3935 6237 0.108585 AGCGACAACAATGTGGGACT 59.891 50.000 0.00 0.00 40.74 3.85
3939 6241 2.427506 GACAACAATGTGGGACTCCTC 58.572 52.381 0.00 0.00 40.74 3.71
4014 6316 2.088104 TGGAGTGTTGAGTGGAGAGT 57.912 50.000 0.00 0.00 0.00 3.24
4019 6321 1.412710 GTGTTGAGTGGAGAGTGGACA 59.587 52.381 0.00 0.00 0.00 4.02
4041 6343 2.997315 CTGTGGAGGTGGAGCGGA 60.997 66.667 0.00 0.00 0.00 5.54
4071 6373 0.621571 ATAGGAGGACAAGCAGGGCA 60.622 55.000 0.00 0.00 0.00 5.36
4077 6379 0.322816 GGACAAGCAGGGCAATGAGA 60.323 55.000 0.00 0.00 0.00 3.27
4084 6386 1.202734 GCAGGGCAATGAGATAGAGCA 60.203 52.381 0.00 0.00 0.00 4.26
4085 6387 2.552591 GCAGGGCAATGAGATAGAGCAT 60.553 50.000 0.00 0.00 0.00 3.79
4126 6428 1.375523 GCGATGTTCGAGGTGGGTT 60.376 57.895 0.32 0.00 43.74 4.11
4131 6433 0.256464 TGTTCGAGGTGGGTTTGGTT 59.744 50.000 0.00 0.00 0.00 3.67
4140 6442 2.569354 GGGTTTGGTTGCGGCATCA 61.569 57.895 2.28 2.71 0.00 3.07
4156 6458 3.866582 CAGGGTCCGGATGAGGGC 61.867 72.222 7.81 0.00 34.51 5.19
4158 6460 3.407967 GGGTCCGGATGAGGGCAA 61.408 66.667 7.81 0.00 37.71 4.52
4163 6465 0.909610 TCCGGATGAGGGCAAAGAGT 60.910 55.000 0.00 0.00 0.00 3.24
4165 6467 0.250234 CGGATGAGGGCAAAGAGTGA 59.750 55.000 0.00 0.00 0.00 3.41
4166 6468 1.134280 CGGATGAGGGCAAAGAGTGAT 60.134 52.381 0.00 0.00 0.00 3.06
4168 6470 2.295885 GATGAGGGCAAAGAGTGATGG 58.704 52.381 0.00 0.00 0.00 3.51
4171 6473 0.622665 AGGGCAAAGAGTGATGGGAG 59.377 55.000 0.00 0.00 0.00 4.30
4172 6474 1.034292 GGGCAAAGAGTGATGGGAGC 61.034 60.000 0.00 0.00 0.00 4.70
4173 6475 1.034292 GGCAAAGAGTGATGGGAGCC 61.034 60.000 0.00 0.00 0.00 4.70
4178 6480 1.997874 GAGTGATGGGAGCCAGGGT 60.998 63.158 0.00 0.00 36.75 4.34
4179 6481 2.262774 GAGTGATGGGAGCCAGGGTG 62.263 65.000 0.00 0.00 36.75 4.61
4214 7867 1.128188 GGTCTGGGTGAGGTCAGGTT 61.128 60.000 0.00 0.00 0.00 3.50
4215 7868 0.035458 GTCTGGGTGAGGTCAGGTTG 59.965 60.000 0.00 0.00 0.00 3.77
4219 7872 0.035458 GGGTGAGGTCAGGTTGTCAG 59.965 60.000 0.00 0.00 0.00 3.51
4247 7900 0.389948 GGCAGATTGTCCGAACGTCT 60.390 55.000 0.00 0.00 0.00 4.18
4260 7916 1.750206 GAACGTCTCTTACTCCCCTCC 59.250 57.143 0.00 0.00 0.00 4.30
4271 7927 0.698238 CTCCCCTCCATTTGACACCA 59.302 55.000 0.00 0.00 0.00 4.17
4299 7958 2.965562 AGGGAAGATAGTAGGCAGTCC 58.034 52.381 0.00 0.00 0.00 3.85
4307 7966 1.920610 AGTAGGCAGTCCGTACTTGT 58.079 50.000 0.00 0.00 37.47 3.16
4313 7972 2.159407 GGCAGTCCGTACTTGTCTAGTC 60.159 54.545 0.00 0.00 38.33 2.59
4314 7973 2.159407 GCAGTCCGTACTTGTCTAGTCC 60.159 54.545 0.00 0.00 38.33 3.85
4352 8011 0.392595 GAGGCCCAGTTTTCTACGGG 60.393 60.000 0.00 0.00 41.30 5.28
4364 8023 0.107066 TCTACGGGCAGTACGATCCA 60.107 55.000 0.00 0.00 34.93 3.41
4373 8032 4.219944 GGGCAGTACGATCCAGACATATTA 59.780 45.833 0.00 0.00 0.00 0.98
4382 8041 2.158004 TCCAGACATATTAGGGGGAGGG 60.158 54.545 0.00 0.00 0.00 4.30
4384 8043 2.158004 CAGACATATTAGGGGGAGGGGA 60.158 54.545 0.00 0.00 0.00 4.81
4385 8044 2.114506 AGACATATTAGGGGGAGGGGAG 59.885 54.545 0.00 0.00 0.00 4.30
4386 8045 1.880610 ACATATTAGGGGGAGGGGAGT 59.119 52.381 0.00 0.00 0.00 3.85
4387 8046 2.255649 ACATATTAGGGGGAGGGGAGTT 59.744 50.000 0.00 0.00 0.00 3.01
4388 8047 3.312918 ACATATTAGGGGGAGGGGAGTTT 60.313 47.826 0.00 0.00 0.00 2.66
4389 8048 2.395766 ATTAGGGGGAGGGGAGTTTT 57.604 50.000 0.00 0.00 0.00 2.43
4390 8049 2.159022 TTAGGGGGAGGGGAGTTTTT 57.841 50.000 0.00 0.00 0.00 1.94
4391 8050 1.677490 TAGGGGGAGGGGAGTTTTTC 58.323 55.000 0.00 0.00 0.00 2.29
4392 8051 0.103337 AGGGGGAGGGGAGTTTTTCT 60.103 55.000 0.00 0.00 0.00 2.52
4393 8052 0.331954 GGGGGAGGGGAGTTTTTCTC 59.668 60.000 0.00 0.00 42.07 2.87
4394 8053 1.073098 GGGGAGGGGAGTTTTTCTCA 58.927 55.000 0.00 0.00 44.40 3.27
4395 8054 1.427753 GGGGAGGGGAGTTTTTCTCAA 59.572 52.381 0.00 0.00 44.40 3.02
4396 8055 2.158370 GGGGAGGGGAGTTTTTCTCAAA 60.158 50.000 0.00 0.00 44.40 2.69
4397 8056 3.572642 GGGAGGGGAGTTTTTCTCAAAA 58.427 45.455 0.00 0.00 44.40 2.44
4398 8057 3.964688 GGGAGGGGAGTTTTTCTCAAAAA 59.035 43.478 0.00 0.00 44.40 1.94
4463 8122 6.061231 CCTCTATGGCCGAAATAAAAAGAC 57.939 41.667 0.00 0.00 0.00 3.01
4464 8123 5.588648 CCTCTATGGCCGAAATAAAAAGACA 59.411 40.000 0.00 0.00 0.00 3.41
4465 8124 6.431198 TCTATGGCCGAAATAAAAAGACAC 57.569 37.500 0.00 0.00 0.00 3.67
4470 8129 5.751028 TGGCCGAAATAAAAAGACACAAAAG 59.249 36.000 0.00 0.00 0.00 2.27
4471 8130 5.980715 GGCCGAAATAAAAAGACACAAAAGA 59.019 36.000 0.00 0.00 0.00 2.52
4472 8131 6.477360 GGCCGAAATAAAAAGACACAAAAGAA 59.523 34.615 0.00 0.00 0.00 2.52
4473 8132 7.010645 GGCCGAAATAAAAAGACACAAAAGAAA 59.989 33.333 0.00 0.00 0.00 2.52
4474 8133 8.384365 GCCGAAATAAAAAGACACAAAAGAAAA 58.616 29.630 0.00 0.00 0.00 2.29
4487 8146 7.886338 ACACAAAAGAAAAGTTATCCAGATCC 58.114 34.615 0.00 0.00 0.00 3.36
4552 8211 3.166560 AGGGGTACATATACTCGGACC 57.833 52.381 0.00 0.00 31.81 4.46
4595 8254 6.537301 CCTAAATATAAGACGTTGAACTGCCA 59.463 38.462 0.00 0.00 0.00 4.92
4720 8381 8.125733 AGAGGTATGCACTAGATATTTCCCTAT 58.874 37.037 0.00 0.00 0.00 2.57
4802 8463 2.235016 TGCAAGCTTAACGGTCCAAAT 58.765 42.857 0.00 0.00 0.00 2.32
4838 8501 4.878397 GCTGTTATGACCTACTGAAAGCAT 59.122 41.667 0.00 0.00 37.60 3.79
5064 8753 2.472695 TGTTTTCGTGATCCTCTGGG 57.527 50.000 0.00 0.00 0.00 4.45
5102 8797 8.511604 TGTCTGATATGATGCTTCTATCGATA 57.488 34.615 4.78 4.78 0.00 2.92
5219 8914 0.824109 CAATCCTACTGACGGCTCCA 59.176 55.000 0.00 0.00 0.00 3.86
5227 8922 0.965866 CTGACGGCTCCACCTCTGTA 60.966 60.000 0.00 0.00 35.61 2.74
5297 9040 1.200716 CTTGTGCCAGTGCTATTGGTG 59.799 52.381 4.13 0.00 38.02 4.17
5357 9100 2.965831 AGCGGATAGTATTCTTGGCAGA 59.034 45.455 0.00 0.00 0.00 4.26
5364 9107 7.361713 CGGATAGTATTCTTGGCAGAAAACAAA 60.362 37.037 4.01 0.00 42.53 2.83
5367 9110 7.770801 AGTATTCTTGGCAGAAAACAAAAAC 57.229 32.000 4.01 0.00 42.53 2.43
5382 9125 0.458260 AAAACTTTGGCGCCGAGTTT 59.542 45.000 35.88 35.88 43.35 2.66
5459 9202 6.769822 ACTTAGATCCATTCATGAACATGTCC 59.230 38.462 11.07 0.00 39.72 4.02
5460 9203 4.467769 AGATCCATTCATGAACATGTCCC 58.532 43.478 11.07 0.00 39.72 4.46
5534 9277 0.764890 AGGTTCCAGCAGCAGTGTTA 59.235 50.000 0.00 0.00 0.00 2.41
5535 9278 1.142870 AGGTTCCAGCAGCAGTGTTAA 59.857 47.619 0.00 0.00 0.00 2.01
5537 9280 2.494059 GTTCCAGCAGCAGTGTTAAGA 58.506 47.619 0.00 0.00 0.00 2.10
5607 9362 1.093159 GAACCTGGCAGCATCTCTTG 58.907 55.000 9.56 0.00 0.00 3.02
5687 9442 2.092211 CGAGTTCTTTTCGTTCATCCCG 59.908 50.000 0.00 0.00 33.57 5.14
5733 9494 2.436173 GGATTTAGAGGTCAGTGGGGAG 59.564 54.545 0.00 0.00 0.00 4.30
5734 9495 2.715763 TTTAGAGGTCAGTGGGGAGT 57.284 50.000 0.00 0.00 0.00 3.85
5735 9496 1.938585 TTAGAGGTCAGTGGGGAGTG 58.061 55.000 0.00 0.00 0.00 3.51
5736 9497 0.041238 TAGAGGTCAGTGGGGAGTGG 59.959 60.000 0.00 0.00 0.00 4.00
5737 9498 1.229209 GAGGTCAGTGGGGAGTGGA 60.229 63.158 0.00 0.00 0.00 4.02
5738 9499 1.536662 AGGTCAGTGGGGAGTGGAC 60.537 63.158 0.00 0.00 0.00 4.02
5775 9536 5.799213 ACTATGCATATGCCCTAGAGAAAC 58.201 41.667 27.97 2.56 41.18 2.78
5846 9607 4.156455 TGCCATGGATTCTCTAAACTCC 57.844 45.455 18.40 0.00 0.00 3.85
5847 9608 3.523157 TGCCATGGATTCTCTAAACTCCA 59.477 43.478 18.40 0.00 41.76 3.86
5979 9761 4.079844 TGGCCAGAATAATCAGGATGTTGA 60.080 41.667 0.00 0.00 34.23 3.18
6012 9794 6.879400 AGTCCAAAGGATACAACTATCAGAC 58.121 40.000 0.00 0.00 41.41 3.51
6014 9796 6.758886 GTCCAAAGGATACAACTATCAGACTG 59.241 42.308 0.00 0.00 41.41 3.51
6047 9829 1.098869 TCACCGCTGAACTTGCAAAA 58.901 45.000 0.00 0.00 0.00 2.44
6055 9837 2.951642 CTGAACTTGCAAAAGACCTCCA 59.048 45.455 0.00 0.00 0.00 3.86
6126 9908 2.099921 GCTGATAGCAGACCGAGAAGAA 59.900 50.000 13.26 0.00 45.17 2.52
6199 9981 9.534565 TCAATTTCTGAATAGAGAAGATAACCG 57.465 33.333 0.00 0.00 33.50 4.44
6281 10072 5.514136 CCCACTTCAAGACACCAATAACCTA 60.514 44.000 0.00 0.00 0.00 3.08
6284 10075 6.710744 CACTTCAAGACACCAATAACCTACTT 59.289 38.462 0.00 0.00 0.00 2.24
6365 10156 0.107361 TCAGATGCTGGCAGTGGATG 60.107 55.000 17.16 10.51 31.51 3.51
6369 10160 1.820519 GATGCTGGCAGTGGATGAAAA 59.179 47.619 17.16 0.00 0.00 2.29
6402 10193 2.435586 CCAAGGAGCAGCTGTCGG 60.436 66.667 16.64 3.34 0.00 4.79
6437 10228 3.129502 CCTGCACTGGCCATGTCG 61.130 66.667 5.51 0.00 40.13 4.35
6456 10247 6.801539 TGTCGATAATTGAAAGTCTTGCTT 57.198 33.333 0.00 0.00 39.52 3.91
6494 10288 4.545610 ACTGTGTGGAAATTAACAATGCG 58.454 39.130 0.00 0.00 0.00 4.73
6620 10414 0.181114 TGCTGCAAAGACTCACAGGT 59.819 50.000 0.00 0.00 0.00 4.00
6647 10441 3.260632 GTGGGGAAATTGGCATAACACTT 59.739 43.478 0.00 0.00 0.00 3.16
6741 10535 3.557054 CCAGGAATCGAGAAAGTTGGTGA 60.557 47.826 0.00 0.00 0.00 4.02
6857 10651 7.578310 TCTCAATGAAGAAAATCCCATGATC 57.422 36.000 0.00 0.00 0.00 2.92
7860 14728 4.181578 CGGACACGTGGATTTAGATTTCT 58.818 43.478 21.57 0.00 34.81 2.52
8033 14966 1.812324 CGTTTGCAGTGGGAACAGGTA 60.812 52.381 0.00 0.00 44.46 3.08
8284 15239 8.338259 ACAAATCTTGCTATTAATAAGTCTGCG 58.662 33.333 0.00 0.00 0.00 5.18
8451 15415 6.083630 TGTTGCAATACGAGACTAAAAATGC 58.916 36.000 0.59 0.00 0.00 3.56
8523 15487 3.064271 GTCGAGACTCGCTCAAGAAGTAT 59.936 47.826 20.11 0.00 44.15 2.12
8539 15503 5.105752 AGAAGTATCGAATTCAGTGCAGAC 58.894 41.667 6.22 0.00 0.00 3.51
8625 15590 5.623169 AGTCACGGATGGTAAACCTAAAAA 58.377 37.500 0.02 0.00 36.82 1.94
8709 15795 1.967319 AACAACAGAATCCGCACAGT 58.033 45.000 0.00 0.00 0.00 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1131 1509 2.352915 CTCTCGATCAGCGCGACC 60.353 66.667 12.10 0.00 40.61 4.79
1548 2516 1.060729 TGAGGGGTTCGGTTGAATCA 58.939 50.000 0.00 0.00 36.92 2.57
1549 2517 2.084546 CTTGAGGGGTTCGGTTGAATC 58.915 52.381 0.00 0.00 36.29 2.52
1790 3243 4.070009 GACCGGTCACCTCTTAAATTGTT 58.930 43.478 29.75 0.00 0.00 2.83
1905 3360 5.105106 TGGATACTTCATTGTACACGGACAT 60.105 40.000 0.00 0.00 37.61 3.06
1933 3388 0.961753 GGAAAAGTGGAGGCCAACTG 59.038 55.000 5.01 0.00 34.18 3.16
2312 3842 3.998341 TGCTCGTGGACCTATTAAACAAC 59.002 43.478 0.00 0.00 0.00 3.32
2674 4707 7.418025 GCAATACTAGTATCTTGTTGAGGACCT 60.418 40.741 15.72 0.00 0.00 3.85
2686 4719 5.893500 TCAGCTAGGGCAATACTAGTATCT 58.106 41.667 15.72 10.72 40.01 1.98
3383 5669 1.884464 CTGATGTCGTCCATGCCGG 60.884 63.158 0.00 0.00 32.56 6.13
3407 5693 7.729431 GTGGTACCCTAGTTCTATATCCTCTTT 59.271 40.741 10.07 0.00 0.00 2.52
3418 5704 1.078989 AGCTGGTGGTACCCTAGTTCT 59.921 52.381 10.07 0.00 37.50 3.01
3464 5751 0.178995 TGGCTGACTTTCCATGTGCA 60.179 50.000 0.00 0.00 0.00 4.57
3468 5755 1.081892 CGAGTGGCTGACTTTCCATG 58.918 55.000 0.00 0.00 33.83 3.66
3472 5759 1.016653 GGCTCGAGTGGCTGACTTTC 61.017 60.000 15.13 0.00 33.83 2.62
3516 5803 1.168714 GTTGCCTTAGCTCCCAAGTG 58.831 55.000 0.00 0.00 40.80 3.16
3522 5809 2.620585 GGATCAATGTTGCCTTAGCTCC 59.379 50.000 0.00 0.00 40.80 4.70
3523 5810 3.282021 TGGATCAATGTTGCCTTAGCTC 58.718 45.455 0.00 0.00 40.80 4.09
3526 5813 4.738541 GCCAATGGATCAATGTTGCCTTAG 60.739 45.833 2.05 0.00 0.00 2.18
3560 5847 0.466372 TTGTGCCATCGGGTCAAACA 60.466 50.000 0.00 0.00 36.17 2.83
3564 5851 1.602323 GGTTTGTGCCATCGGGTCA 60.602 57.895 0.00 0.00 36.17 4.02
3571 5858 2.390225 TAAAGGTGGGTTTGTGCCAT 57.610 45.000 0.00 0.00 0.00 4.40
3686 5975 2.290323 ACTCCTGCTTATGGTGGTTGTC 60.290 50.000 0.00 0.00 0.00 3.18
3687 5976 1.705186 ACTCCTGCTTATGGTGGTTGT 59.295 47.619 0.00 0.00 0.00 3.32
3725 6014 2.252012 ATCCAGGTTCGGGCCCTCTA 62.252 60.000 22.43 1.45 0.00 2.43
3726 6015 2.252012 TATCCAGGTTCGGGCCCTCT 62.252 60.000 22.43 9.13 0.00 3.69
3743 6032 5.180117 GTGGCATATGAGACAAGCGATTTAT 59.820 40.000 6.97 0.00 0.00 1.40
3746 6035 2.874701 GTGGCATATGAGACAAGCGATT 59.125 45.455 6.97 0.00 0.00 3.34
3769 6058 0.178973 TGTGAGTGGAGGACCGAGAA 60.179 55.000 0.00 0.00 39.42 2.87
3778 6067 2.035632 GAGAGGGGTATGTGAGTGGAG 58.964 57.143 0.00 0.00 0.00 3.86
3779 6068 1.361197 TGAGAGGGGTATGTGAGTGGA 59.639 52.381 0.00 0.00 0.00 4.02
3781 6070 1.137872 GCTGAGAGGGGTATGTGAGTG 59.862 57.143 0.00 0.00 0.00 3.51
3786 6075 2.158445 AGTATCGCTGAGAGGGGTATGT 60.158 50.000 0.00 0.00 0.00 2.29
3795 6084 4.014406 TGACTTTGGTAGTATCGCTGAGA 58.986 43.478 0.00 0.00 37.17 3.27
3796 6085 4.355437 CTGACTTTGGTAGTATCGCTGAG 58.645 47.826 0.00 0.00 37.17 3.35
3797 6086 3.428999 GCTGACTTTGGTAGTATCGCTGA 60.429 47.826 0.00 0.00 37.17 4.26
3799 6088 2.479730 CGCTGACTTTGGTAGTATCGCT 60.480 50.000 0.00 0.00 37.17 4.93
3800 6089 1.852895 CGCTGACTTTGGTAGTATCGC 59.147 52.381 0.00 0.00 37.17 4.58
3803 6092 6.016443 GGTAGTATCGCTGACTTTGGTAGTAT 60.016 42.308 0.00 0.00 37.17 2.12
3804 6093 5.297776 GGTAGTATCGCTGACTTTGGTAGTA 59.702 44.000 0.00 0.00 37.17 1.82
3805 6094 4.097589 GGTAGTATCGCTGACTTTGGTAGT 59.902 45.833 0.00 0.00 40.71 2.73
3806 6095 4.097437 TGGTAGTATCGCTGACTTTGGTAG 59.903 45.833 0.00 0.00 0.00 3.18
3807 6096 4.018490 TGGTAGTATCGCTGACTTTGGTA 58.982 43.478 0.00 0.00 0.00 3.25
3808 6097 2.829720 TGGTAGTATCGCTGACTTTGGT 59.170 45.455 0.00 0.00 0.00 3.67
3810 6099 4.929808 ACTTTGGTAGTATCGCTGACTTTG 59.070 41.667 0.00 0.00 34.56 2.77
3813 6102 3.762288 TGACTTTGGTAGTATCGCTGACT 59.238 43.478 0.00 0.00 37.17 3.41
3814 6103 4.106029 TGACTTTGGTAGTATCGCTGAC 57.894 45.455 0.00 0.00 37.17 3.51
3816 6105 4.371855 TCTGACTTTGGTAGTATCGCTG 57.628 45.455 0.00 0.00 37.17 5.18
3817 6106 4.219944 TGTTCTGACTTTGGTAGTATCGCT 59.780 41.667 0.00 0.00 37.17 4.93
3818 6107 4.326548 GTGTTCTGACTTTGGTAGTATCGC 59.673 45.833 0.00 0.00 37.17 4.58
3819 6108 4.863131 GGTGTTCTGACTTTGGTAGTATCG 59.137 45.833 0.00 0.00 37.17 2.92
3820 6109 4.863131 CGGTGTTCTGACTTTGGTAGTATC 59.137 45.833 0.00 0.00 37.17 2.24
3821 6110 4.525487 TCGGTGTTCTGACTTTGGTAGTAT 59.475 41.667 0.00 0.00 37.17 2.12
3823 6112 2.696707 TCGGTGTTCTGACTTTGGTAGT 59.303 45.455 0.00 0.00 40.71 2.73
3824 6113 3.057734 GTCGGTGTTCTGACTTTGGTAG 58.942 50.000 0.62 0.00 44.14 3.18
3825 6114 2.431419 TGTCGGTGTTCTGACTTTGGTA 59.569 45.455 8.34 0.00 46.71 3.25
3828 6117 3.362986 CGATTGTCGGTGTTCTGACTTTG 60.363 47.826 8.34 0.00 46.71 2.77
3829 6118 2.800544 CGATTGTCGGTGTTCTGACTTT 59.199 45.455 8.34 0.00 46.71 2.66
3830 6119 2.404215 CGATTGTCGGTGTTCTGACTT 58.596 47.619 8.34 0.00 46.71 3.01
3831 6120 2.065993 CGATTGTCGGTGTTCTGACT 57.934 50.000 8.34 0.00 46.71 3.41
3844 6146 0.254747 CCATGTACACCCCCGATTGT 59.745 55.000 0.00 0.00 0.00 2.71
3847 6149 2.752807 GCCCATGTACACCCCCGAT 61.753 63.158 0.00 0.00 0.00 4.18
3850 6152 4.499633 CCGCCCATGTACACCCCC 62.500 72.222 0.00 0.00 0.00 5.40
3868 6170 2.983592 GCCCAACACCCTTGTCCG 60.984 66.667 0.00 0.00 33.55 4.79
3885 6187 2.510064 TTTGGACGACGAATCCGGGG 62.510 60.000 0.00 0.00 39.30 5.73
3888 6190 1.082117 CCCTTTGGACGACGAATCCG 61.082 60.000 0.00 0.00 39.30 4.18
3898 6200 2.211468 CTGCCCCCTACCCTTTGGAC 62.211 65.000 0.00 0.00 34.81 4.02
3908 6210 1.847798 ATTGTTGTCGCTGCCCCCTA 61.848 55.000 0.00 0.00 0.00 3.53
3914 6216 1.081242 CCCACATTGTTGTCGCTGC 60.081 57.895 0.00 0.00 32.34 5.25
3923 6225 1.983224 CGGAGGAGTCCCACATTGT 59.017 57.895 5.25 0.00 40.20 2.71
3939 6241 1.153509 GTCGGTATTGTCCACCCGG 60.154 63.158 0.00 0.00 40.78 5.73
3957 6259 1.168714 CCGCTTCCCTTCCTCTTTTG 58.831 55.000 0.00 0.00 0.00 2.44
3958 6260 0.609406 GCCGCTTCCCTTCCTCTTTT 60.609 55.000 0.00 0.00 0.00 2.27
4000 6302 1.688735 CTGTCCACTCTCCACTCAACA 59.311 52.381 0.00 0.00 0.00 3.33
4001 6303 1.964223 TCTGTCCACTCTCCACTCAAC 59.036 52.381 0.00 0.00 0.00 3.18
4002 6304 1.964223 GTCTGTCCACTCTCCACTCAA 59.036 52.381 0.00 0.00 0.00 3.02
4003 6305 1.145945 AGTCTGTCCACTCTCCACTCA 59.854 52.381 0.00 0.00 0.00 3.41
4004 6306 1.816224 GAGTCTGTCCACTCTCCACTC 59.184 57.143 0.00 0.00 39.91 3.51
4005 6307 1.917872 GAGTCTGTCCACTCTCCACT 58.082 55.000 0.00 0.00 39.91 4.00
4014 6316 0.188587 ACCTCCACAGAGTCTGTCCA 59.811 55.000 23.08 11.22 43.43 4.02
4019 6321 0.902516 GCTCCACCTCCACAGAGTCT 60.903 60.000 0.00 0.00 38.58 3.24
4041 6343 1.604023 CCTCCTATCGCTAGGCCGT 60.604 63.158 7.49 0.00 43.82 5.68
4071 6373 3.306641 GCCTTCGGATGCTCTATCTCATT 60.307 47.826 0.00 0.00 36.03 2.57
4077 6379 2.175202 CTAGGCCTTCGGATGCTCTAT 58.825 52.381 12.58 0.00 0.00 1.98
4084 6386 1.756950 TCGTGCTAGGCCTTCGGAT 60.757 57.895 12.58 0.00 0.00 4.18
4085 6387 2.361992 TCGTGCTAGGCCTTCGGA 60.362 61.111 12.58 0.00 0.00 4.55
4093 6395 2.369257 ATCGCATGGGTCGTGCTAGG 62.369 60.000 9.86 0.00 43.41 3.02
4101 6403 1.154205 CCTCGAACATCGCATGGGTC 61.154 60.000 9.86 0.00 40.21 4.46
4126 6428 2.676121 CCCTGATGCCGCAACCAA 60.676 61.111 0.00 0.00 0.00 3.67
4140 6442 3.943137 TTGCCCTCATCCGGACCCT 62.943 63.158 6.12 0.00 0.00 4.34
4156 6458 1.681166 CCTGGCTCCCATCACTCTTTG 60.681 57.143 0.00 0.00 30.82 2.77
4158 6460 1.277580 CCCTGGCTCCCATCACTCTT 61.278 60.000 0.00 0.00 30.82 2.85
4163 6465 3.016971 CCACCCTGGCTCCCATCA 61.017 66.667 0.00 0.00 30.82 3.07
4165 6467 4.701437 ACCCACCCTGGCTCCCAT 62.701 66.667 0.00 0.00 35.79 4.00
4199 7852 0.692756 TGACAACCTGACCTCACCCA 60.693 55.000 0.00 0.00 0.00 4.51
4247 7900 3.263425 GTGTCAAATGGAGGGGAGTAAGA 59.737 47.826 0.00 0.00 0.00 2.10
4260 7916 3.338249 CCTACTCTGGTGGTGTCAAATG 58.662 50.000 0.00 0.00 0.00 2.32
4271 7927 4.448054 GCCTACTATCTTCCCTACTCTGGT 60.448 50.000 0.00 0.00 0.00 4.00
4307 7966 2.679082 GGCTCCCATACTTGGACTAGA 58.321 52.381 0.00 0.00 46.92 2.43
4313 7972 0.748005 CAACGGGCTCCCATACTTGG 60.748 60.000 5.70 0.00 43.23 3.61
4314 7973 0.748005 CCAACGGGCTCCCATACTTG 60.748 60.000 5.70 1.09 35.37 3.16
4329 7988 2.160205 GTAGAAAACTGGGCCTCCAAC 58.840 52.381 4.53 0.00 43.51 3.77
4339 7998 1.990563 CGTACTGCCCGTAGAAAACTG 59.009 52.381 0.00 0.00 0.00 3.16
4352 8011 5.403246 CCTAATATGTCTGGATCGTACTGC 58.597 45.833 0.00 0.00 0.00 4.40
4364 8023 2.114506 CTCCCCTCCCCCTAATATGTCT 59.885 54.545 0.00 0.00 0.00 3.41
4373 8032 0.103337 AGAAAAACTCCCCTCCCCCT 60.103 55.000 0.00 0.00 0.00 4.79
4401 8060 4.308128 CCCTACTCTCCTCCCCTATTTTT 58.692 47.826 0.00 0.00 0.00 1.94
4402 8061 3.376555 CCCCTACTCTCCTCCCCTATTTT 60.377 52.174 0.00 0.00 0.00 1.82
4403 8062 2.182536 CCCCTACTCTCCTCCCCTATTT 59.817 54.545 0.00 0.00 0.00 1.40
4404 8063 1.796415 CCCCTACTCTCCTCCCCTATT 59.204 57.143 0.00 0.00 0.00 1.73
4405 8064 1.058878 TCCCCTACTCTCCTCCCCTAT 60.059 57.143 0.00 0.00 0.00 2.57
4406 8065 0.353096 TCCCCTACTCTCCTCCCCTA 59.647 60.000 0.00 0.00 0.00 3.53
4407 8066 0.557907 TTCCCCTACTCTCCTCCCCT 60.558 60.000 0.00 0.00 0.00 4.79
4408 8067 0.398806 GTTCCCCTACTCTCCTCCCC 60.399 65.000 0.00 0.00 0.00 4.81
4409 8068 0.398806 GGTTCCCCTACTCTCCTCCC 60.399 65.000 0.00 0.00 0.00 4.30
4410 8069 0.637743 AGGTTCCCCTACTCTCCTCC 59.362 60.000 0.00 0.00 40.19 4.30
4411 8070 1.007359 ACAGGTTCCCCTACTCTCCTC 59.993 57.143 0.00 0.00 39.89 3.71
4412 8071 1.094269 ACAGGTTCCCCTACTCTCCT 58.906 55.000 0.00 0.00 39.89 3.69
4413 8072 1.555533 CAACAGGTTCCCCTACTCTCC 59.444 57.143 0.00 0.00 39.89 3.71
4414 8073 2.258109 ACAACAGGTTCCCCTACTCTC 58.742 52.381 0.00 0.00 39.89 3.20
4415 8074 2.417719 ACAACAGGTTCCCCTACTCT 57.582 50.000 0.00 0.00 39.89 3.24
4441 8100 6.093495 TGTGTCTTTTTATTTCGGCCATAGAG 59.907 38.462 2.24 0.00 0.00 2.43
4457 8116 9.586435 CTGGATAACTTTTCTTTTGTGTCTTTT 57.414 29.630 0.00 0.00 0.00 2.27
4461 8120 8.023706 GGATCTGGATAACTTTTCTTTTGTGTC 58.976 37.037 0.00 0.00 0.00 3.67
4462 8121 7.725844 AGGATCTGGATAACTTTTCTTTTGTGT 59.274 33.333 0.00 0.00 0.00 3.72
4463 8122 8.115490 AGGATCTGGATAACTTTTCTTTTGTG 57.885 34.615 0.00 0.00 0.00 3.33
4464 8123 9.981460 ATAGGATCTGGATAACTTTTCTTTTGT 57.019 29.630 0.00 0.00 0.00 2.83
4470 8129 8.831550 GTGTTCATAGGATCTGGATAACTTTTC 58.168 37.037 0.00 0.00 0.00 2.29
4471 8130 8.552296 AGTGTTCATAGGATCTGGATAACTTTT 58.448 33.333 0.00 0.00 0.00 2.27
4472 8131 8.095452 AGTGTTCATAGGATCTGGATAACTTT 57.905 34.615 0.00 0.00 0.00 2.66
4473 8132 7.682787 AGTGTTCATAGGATCTGGATAACTT 57.317 36.000 0.00 0.00 0.00 2.66
4474 8133 7.682787 AAGTGTTCATAGGATCTGGATAACT 57.317 36.000 0.00 0.00 0.00 2.24
4478 8137 5.398353 CCCAAAGTGTTCATAGGATCTGGAT 60.398 44.000 0.00 0.00 0.00 3.41
4512 8171 7.519927 ACCCCTTTGTGAGTTTGTATACTTTA 58.480 34.615 4.17 0.00 0.00 1.85
4513 8172 6.370453 ACCCCTTTGTGAGTTTGTATACTTT 58.630 36.000 4.17 0.00 0.00 2.66
4595 8254 9.931210 CTCTGTTTCTAAACATAAGACGTTTTT 57.069 29.630 8.62 0.00 46.71 1.94
4681 8342 6.265649 AGTGCATACCTCTATTTCGAGTGTAT 59.734 38.462 0.00 0.00 32.51 2.29
4695 8356 6.613153 AGGGAAATATCTAGTGCATACCTC 57.387 41.667 0.00 0.00 0.00 3.85
4720 8381 9.243105 ACCAGTAGAAAAGTTACGGTACTATTA 57.757 33.333 0.00 0.00 31.20 0.98
4802 8463 2.843401 TAACAGCGCTGGGTTCTTAA 57.157 45.000 38.27 13.27 34.19 1.85
4926 8613 2.945668 GGGTGAACATCCTGAAGTATGC 59.054 50.000 0.00 0.00 0.00 3.14
5102 8797 5.825679 TCGGCCAGTTGCAAATATTATTACT 59.174 36.000 0.00 0.00 43.89 2.24
5177 8872 1.302832 CAAGGGGCTCCACAGTGAC 60.303 63.158 4.79 0.00 34.83 3.67
5183 8878 2.991540 GCAACCAAGGGGCTCCAC 60.992 66.667 4.79 0.00 37.90 4.02
5219 8914 0.113776 TCCCTCCGTTGTACAGAGGT 59.886 55.000 21.82 0.00 40.41 3.85
5227 8922 3.643398 GGCCTATCCCTCCGTTGT 58.357 61.111 0.00 0.00 0.00 3.32
5297 9040 2.311124 ACCGTAGCCTGCTTATTGTC 57.689 50.000 0.00 0.00 0.00 3.18
5357 9100 1.395262 CGGCGCCAAAGTTTTTGTTTT 59.605 42.857 28.98 0.00 0.00 2.43
5364 9107 0.458260 AAAACTCGGCGCCAAAGTTT 59.542 45.000 34.42 34.42 43.22 2.66
5367 9110 2.629639 ATAAAAACTCGGCGCCAAAG 57.370 45.000 28.98 24.48 0.00 2.77
5459 9202 6.481313 CACACACTTGGACTATCATGATAAGG 59.519 42.308 16.08 8.40 0.00 2.69
5460 9203 6.018425 GCACACACTTGGACTATCATGATAAG 60.018 42.308 16.08 13.74 0.00 1.73
5534 9277 3.015327 CAAGCTTGCTAGGCAGATTCTT 58.985 45.455 14.65 0.00 40.61 2.52
5535 9278 2.238144 TCAAGCTTGCTAGGCAGATTCT 59.762 45.455 21.99 0.00 40.61 2.40
5537 9280 2.641305 CTCAAGCTTGCTAGGCAGATT 58.359 47.619 21.99 0.00 40.61 2.40
5569 9312 3.895232 TCTCTTGGTCATCCTTGTAGC 57.105 47.619 0.00 0.00 34.23 3.58
5570 9313 4.223923 AGGTTCTCTTGGTCATCCTTGTAG 59.776 45.833 0.00 0.00 34.23 2.74
5607 9362 6.460676 CCAAGCACCATCCAATAGAAGATTTC 60.461 42.308 0.00 0.00 0.00 2.17
5687 9442 3.319198 TGGACAAGGGACCTCCGC 61.319 66.667 0.00 0.00 41.52 5.54
5733 9494 4.715527 AGTACAGATTTACGGAGTCCAC 57.284 45.455 10.49 0.00 43.93 4.02
5734 9495 5.221185 GCATAGTACAGATTTACGGAGTCCA 60.221 44.000 10.49 0.00 43.93 4.02
5735 9496 5.221130 GCATAGTACAGATTTACGGAGTCC 58.779 45.833 0.00 0.00 43.93 3.85
5736 9497 5.828747 TGCATAGTACAGATTTACGGAGTC 58.171 41.667 0.00 0.00 43.93 3.36
5738 9499 7.009631 GCATATGCATAGTACAGATTTACGGAG 59.990 40.741 22.84 0.00 41.59 4.63
5741 9502 6.036083 GGGCATATGCATAGTACAGATTTACG 59.964 42.308 28.07 0.00 44.36 3.18
5775 9536 1.443194 GCACACCTTCTTGCATGCG 60.443 57.895 14.09 0.00 38.68 4.73
5846 9607 7.308649 CCATAGAGCTGATTCTTGGATGAATTG 60.309 40.741 0.00 0.00 36.86 2.32
5847 9608 6.715718 CCATAGAGCTGATTCTTGGATGAATT 59.284 38.462 0.00 0.00 36.86 2.17
6012 9794 1.153647 TGACCTTCGCGGCATACAG 60.154 57.895 6.13 0.00 35.61 2.74
6014 9796 2.171725 GGTGACCTTCGCGGCATAC 61.172 63.158 6.13 0.00 35.61 2.39
6047 9829 3.009143 GGAAGGTAACAACATGGAGGTCT 59.991 47.826 0.00 0.00 41.41 3.85
6055 9837 1.069775 ACCGGGGAAGGTAACAACAT 58.930 50.000 6.32 0.00 43.89 2.71
6187 9969 2.431057 TCTTGCTCCCGGTTATCTTCTC 59.569 50.000 0.00 0.00 0.00 2.87
6199 9981 3.878778 ACTGTATGATGTTCTTGCTCCC 58.121 45.455 0.00 0.00 0.00 4.30
6281 10072 5.329035 AGCATGTTTGTGTTTCTTCAAGT 57.671 34.783 0.00 0.00 0.00 3.16
6284 10075 3.625313 TCGAGCATGTTTGTGTTTCTTCA 59.375 39.130 0.00 0.00 0.00 3.02
6369 10160 6.213195 TGCTCCTTGGGAATTGAACATAATTT 59.787 34.615 0.00 0.00 30.78 1.82
6402 10193 1.767681 AGGGAGAAGATCATGGTCTGC 59.232 52.381 9.83 7.73 0.00 4.26
6437 10228 6.583806 CACACCAAGCAAGACTTTCAATTATC 59.416 38.462 0.00 0.00 36.04 1.75
6456 10247 3.213506 CACAGTTTTCCTGATCACACCA 58.786 45.455 0.00 0.00 44.49 4.17
6485 10279 2.772077 TGAGGTTAGCCGCATTGTTA 57.228 45.000 0.00 0.00 39.68 2.41
6494 10288 2.413310 TTTTCGGGATGAGGTTAGCC 57.587 50.000 0.00 0.00 0.00 3.93
6620 10414 2.630889 TGCCAATTTCCCCACCAATA 57.369 45.000 0.00 0.00 0.00 1.90
6647 10441 6.053005 GGGATGTTTTGATATCTTGTACCGA 58.947 40.000 3.98 0.00 0.00 4.69
6741 10535 1.584724 ATGTTCCTGAGGATTCCGGT 58.415 50.000 0.04 0.00 0.00 5.28
6778 10572 0.392461 GCGACCAATGTCCTGCCTTA 60.392 55.000 0.00 0.00 38.32 2.69
7817 14684 6.747280 GTCCGTTATTGTACTGTAACGTACAT 59.253 38.462 26.37 0.02 46.35 2.29
8284 15239 5.643348 TCATTTATGTCACTGTCCACATGAC 59.357 40.000 0.00 11.97 44.72 3.06
8539 15503 3.624861 ACAAACTTGCAGAGTCTTCAGTG 59.375 43.478 0.00 0.00 37.72 3.66
8625 15590 1.688627 GGGACGGAGGGAGTACAATCT 60.689 57.143 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.