Multiple sequence alignment - TraesCS2A01G151900

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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 TraesCS2A01G151900 chr2A 100.000 3818 0 0 1 3818 100113056 100116873 0.000000e+00 7051.0
1 TraesCS2A01G151900 chr2A 92.074 2435 120 29 878 3279 99794252 99791858 0.000000e+00 3360.0
2 TraesCS2A01G151900 chr2B 93.802 2501 108 16 816 3293 152156749 152159225 0.000000e+00 3716.0
3 TraesCS2A01G151900 chr2B 95.054 1678 68 6 1049 2714 151909156 151907482 0.000000e+00 2625.0
4 TraesCS2A01G151900 chr2B 85.414 857 66 29 1 816 152155878 152156716 0.000000e+00 835.0
5 TraesCS2A01G151900 chr2B 80.260 461 59 24 3374 3818 152159212 152159656 6.150000e-83 318.0
6 TraesCS2A01G151900 chr2B 85.985 264 27 6 3558 3818 687015862 687016118 1.350000e-69 274.0
7 TraesCS2A01G151900 chr2D 93.777 2314 105 14 1004 3293 100311219 100313517 0.000000e+00 3439.0
8 TraesCS2A01G151900 chr2D 95.579 1606 65 2 1112 2714 100191635 100190033 0.000000e+00 2567.0
9 TraesCS2A01G151900 chr2D 88.290 854 50 30 1 823 100309789 100310623 0.000000e+00 977.0
10 TraesCS2A01G151900 chr2D 85.016 307 29 6 3512 3818 100313680 100313969 2.880000e-76 296.0
11 TraesCS2A01G151900 chr2D 96.622 148 4 1 816 963 100310657 100310803 1.060000e-60 244.0
12 TraesCS2A01G151900 chr2D 93.478 92 4 2 3295 3385 643762833 643762743 6.650000e-28 135.0
13 TraesCS2A01G151900 chr7B 87.571 354 32 10 1924 2274 28627320 28627664 2.140000e-107 399.0
14 TraesCS2A01G151900 chr7B 85.824 261 27 6 3561 3818 31305129 31304876 6.290000e-68 268.0
15 TraesCS2A01G151900 chr7B 85.606 264 28 6 3558 3818 566887272 566887528 6.290000e-68 268.0
16 TraesCS2A01G151900 chr7B 90.291 103 6 4 3297 3395 508189395 508189497 8.610000e-27 132.0
17 TraesCS2A01G151900 chr6A 85.824 261 27 6 3561 3818 532689969 532689716 6.290000e-68 268.0
18 TraesCS2A01G151900 chr3A 85.824 261 27 6 3561 3818 699929613 699929360 6.290000e-68 268.0
19 TraesCS2A01G151900 chr1B 85.824 261 27 6 3561 3818 560668923 560668670 6.290000e-68 268.0
20 TraesCS2A01G151900 chr1B 85.441 261 28 6 3561 3818 617535258 617535005 2.920000e-66 263.0
21 TraesCS2A01G151900 chr7A 91.803 122 10 0 1928 2049 83722624 83722745 1.820000e-38 171.0
22 TraesCS2A01G151900 chr7A 92.473 93 5 2 3299 3389 54150294 54150386 8.610000e-27 132.0
23 TraesCS2A01G151900 chr7A 86.441 59 4 4 2370 2428 680597711 680597765 1.150000e-05 62.1
24 TraesCS2A01G151900 chr7D 82.927 205 17 6 1922 2121 589335590 589335781 6.560000e-38 169.0
25 TraesCS2A01G151900 chr7D 81.633 196 28 7 2131 2319 589315347 589315153 5.110000e-34 156.0
26 TraesCS2A01G151900 chr5D 95.455 88 3 1 3300 3386 202429518 202429431 5.140000e-29 139.0
27 TraesCS2A01G151900 chrUn 91.753 97 7 1 3295 3390 267184032 267184128 2.390000e-27 134.0
28 TraesCS2A01G151900 chr3B 91.753 97 7 1 3295 3390 45277090 45276994 2.390000e-27 134.0
29 TraesCS2A01G151900 chr1D 94.318 88 4 1 3300 3386 12312555 12312468 2.390000e-27 134.0
30 TraesCS2A01G151900 chr6D 91.667 96 7 1 3295 3389 464266273 464266178 8.610000e-27 132.0
31 TraesCS2A01G151900 chr6D 90.816 98 6 3 3295 3390 445729149 445729245 1.110000e-25 128.0


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 TraesCS2A01G151900 chr2A 100113056 100116873 3817 False 7051 7051 100.00000 1 3818 1 chr2A.!!$F1 3817
1 TraesCS2A01G151900 chr2A 99791858 99794252 2394 True 3360 3360 92.07400 878 3279 1 chr2A.!!$R1 2401
2 TraesCS2A01G151900 chr2B 151907482 151909156 1674 True 2625 2625 95.05400 1049 2714 1 chr2B.!!$R1 1665
3 TraesCS2A01G151900 chr2B 152155878 152159656 3778 False 1623 3716 86.49200 1 3818 3 chr2B.!!$F2 3817
4 TraesCS2A01G151900 chr2D 100190033 100191635 1602 True 2567 2567 95.57900 1112 2714 1 chr2D.!!$R1 1602
5 TraesCS2A01G151900 chr2D 100309789 100313969 4180 False 1239 3439 90.92625 1 3818 4 chr2D.!!$F1 3817

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
114 116 0.603707 CGCCACTATGATGCCCGATT 60.604 55.0 0.0 0.0 0.0 3.34 F
1053 1522 0.036010 CCTCCGAGCACACCAAATCT 60.036 55.0 0.0 0.0 0.0 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1629 2113 3.488721 GCAGCTTGCTCTCATAAATGGTG 60.489 47.826 0.0 0.0 40.96 4.17 R
2902 3392 0.249120 TAGATGGTTGCGAGGGTGTG 59.751 55.000 0.0 0.0 0.00 3.82 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
75 77 2.939103 GCCGTCTGCAAATAAGAGATGT 59.061 45.455 0.00 0.00 40.77 3.06
114 116 0.603707 CGCCACTATGATGCCCGATT 60.604 55.000 0.00 0.00 0.00 3.34
115 117 1.609208 GCCACTATGATGCCCGATTT 58.391 50.000 0.00 0.00 0.00 2.17
150 155 2.284190 GCTCCTCAATAGGCAAGACAC 58.716 52.381 0.00 0.00 43.31 3.67
151 156 2.911484 CTCCTCAATAGGCAAGACACC 58.089 52.381 0.00 0.00 43.31 4.16
152 157 2.503356 CTCCTCAATAGGCAAGACACCT 59.497 50.000 0.00 0.00 43.31 4.00
153 158 2.912956 TCCTCAATAGGCAAGACACCTT 59.087 45.455 0.00 0.00 43.31 3.50
154 159 3.055094 TCCTCAATAGGCAAGACACCTTC 60.055 47.826 0.00 0.00 43.31 3.46
155 160 3.307691 CCTCAATAGGCAAGACACCTTCA 60.308 47.826 0.00 0.00 38.81 3.02
192 203 1.125633 GTACGGGGAAATAGGCCAGA 58.874 55.000 5.01 0.00 0.00 3.86
215 226 4.148348 ACGAATTTTCTATATGACGCTCGC 59.852 41.667 0.00 0.00 0.00 5.03
241 252 5.700373 GCATTGGGTTGTTGTTATTTCACAT 59.300 36.000 0.00 0.00 0.00 3.21
268 279 2.734606 CAACCAACGAGCAATCGAACTA 59.265 45.455 4.44 0.00 36.85 2.24
300 311 7.121315 GCCCATTTAGTCAAGTTATGTTTCTCT 59.879 37.037 0.00 0.00 0.00 3.10
338 349 5.803237 AGGAACTTTCTAGAAGGTTTCGA 57.197 39.130 27.67 2.89 39.87 3.71
577 618 8.950208 TTGTTCCCACTTTCGAAAATTATTTT 57.050 26.923 12.41 2.23 35.12 1.82
670 713 6.959671 TTTCGATTTCCCATAAATTTGTGC 57.040 33.333 9.28 0.00 0.00 4.57
675 718 7.330700 TCGATTTCCCATAAATTTGTGCTTTTC 59.669 33.333 9.28 2.44 0.00 2.29
676 719 7.117523 CGATTTCCCATAAATTTGTGCTTTTCA 59.882 33.333 9.28 0.00 0.00 2.69
793 845 2.618442 TACTTCGGTCCGTGGTTTTT 57.382 45.000 11.88 0.00 0.00 1.94
808 860 2.093537 TTTTTGTCCGGCCCATGCAC 62.094 55.000 0.00 0.00 40.13 4.57
919 1013 0.984995 AACCCCTTTCTTCCTCTCCG 59.015 55.000 0.00 0.00 0.00 4.63
1053 1522 0.036010 CCTCCGAGCACACCAAATCT 60.036 55.000 0.00 0.00 0.00 2.40
1728 2212 1.299468 CTATGTCCGGACGCTCTGC 60.299 63.158 28.70 4.45 0.00 4.26
2028 2512 6.294675 GGTTTGAGAATGACATTGATGTTGGA 60.295 38.462 5.14 0.00 41.95 3.53
2031 2515 5.878669 TGAGAATGACATTGATGTTGGAGAG 59.121 40.000 5.14 0.00 41.95 3.20
2190 2674 2.780924 AAGTGGGGGCTTGGTCCA 60.781 61.111 0.00 0.00 0.00 4.02
2199 2683 1.968540 GCTTGGTCCAGTGGCACTC 60.969 63.158 19.13 7.18 0.00 3.51
2217 2701 5.647225 GGCACTCAAGAAGAAGAAGATGATT 59.353 40.000 0.00 0.00 0.00 2.57
2280 2764 2.435586 CCAGCTGAGTGGCTTCGG 60.436 66.667 17.39 0.00 41.00 4.30
2362 2846 1.338200 CCGAGAAGGTGAAGGTGGAAG 60.338 57.143 0.00 0.00 34.51 3.46
2363 2847 1.338200 CGAGAAGGTGAAGGTGGAAGG 60.338 57.143 0.00 0.00 0.00 3.46
2403 2887 3.056179 GTGAGGAGGTCAAGGAGAAGAAG 60.056 52.174 0.00 0.00 36.74 2.85
2404 2888 3.181417 TGAGGAGGTCAAGGAGAAGAAGA 60.181 47.826 0.00 0.00 29.64 2.87
2405 2889 3.835395 GAGGAGGTCAAGGAGAAGAAGAA 59.165 47.826 0.00 0.00 0.00 2.52
2517 3001 6.239458 GGGAGAAGAGTGAGAAGAAGAAGAAA 60.239 42.308 0.00 0.00 0.00 2.52
2642 3129 5.559148 AAGAAGAAGAAGAGCAAGGAAGA 57.441 39.130 0.00 0.00 0.00 2.87
2662 3149 0.460109 CGGTGATGATGTCGCTCCAA 60.460 55.000 0.00 0.00 37.50 3.53
2763 3250 4.236935 CAGAGAGTGAAGTTGAGAAGAGC 58.763 47.826 0.00 0.00 0.00 4.09
2826 3316 2.159085 GGCGACACAATAGGTAGAGCTT 60.159 50.000 0.00 0.00 0.00 3.74
2846 3336 3.688694 TGTAGTTTACATCGGCTGGTT 57.311 42.857 0.00 0.00 32.89 3.67
2854 3344 7.502696 AGTTTACATCGGCTGGTTATGTTATA 58.497 34.615 3.88 0.00 35.54 0.98
2871 3361 5.019470 TGTTATATGGTTGCAATTGTGGGA 58.981 37.500 0.59 0.00 0.00 4.37
2872 3362 5.481824 TGTTATATGGTTGCAATTGTGGGAA 59.518 36.000 0.59 0.00 0.00 3.97
2902 3392 5.354842 ACTACCTGTTCTATTTACCCTGC 57.645 43.478 0.00 0.00 0.00 4.85
2905 3395 3.329520 ACCTGTTCTATTTACCCTGCACA 59.670 43.478 0.00 0.00 0.00 4.57
2908 3398 3.014623 GTTCTATTTACCCTGCACACCC 58.985 50.000 0.00 0.00 0.00 4.61
2910 3400 2.504175 TCTATTTACCCTGCACACCCTC 59.496 50.000 0.00 0.00 0.00 4.30
2911 3401 0.035439 ATTTACCCTGCACACCCTCG 60.035 55.000 0.00 0.00 0.00 4.63
2912 3402 2.741486 TTTACCCTGCACACCCTCGC 62.741 60.000 0.00 0.00 0.00 5.03
2914 3404 4.641645 CCCTGCACACCCTCGCAA 62.642 66.667 0.00 0.00 37.76 4.85
2916 3406 3.357079 CTGCACACCCTCGCAACC 61.357 66.667 0.00 0.00 37.76 3.77
2917 3407 4.182433 TGCACACCCTCGCAACCA 62.182 61.111 0.00 0.00 34.59 3.67
2918 3408 2.672996 GCACACCCTCGCAACCAT 60.673 61.111 0.00 0.00 0.00 3.55
2919 3409 2.690778 GCACACCCTCGCAACCATC 61.691 63.158 0.00 0.00 0.00 3.51
2920 3410 1.003355 CACACCCTCGCAACCATCT 60.003 57.895 0.00 0.00 0.00 2.90
2921 3411 0.249120 CACACCCTCGCAACCATCTA 59.751 55.000 0.00 0.00 0.00 1.98
2967 3466 2.161609 GGTTACTGCCATTCAACCGAAG 59.838 50.000 0.00 0.00 33.74 3.79
3007 3506 9.759473 AGAGAGATTTCCCATTAAATTTCTTGA 57.241 29.630 0.00 0.00 39.24 3.02
3028 3527 4.805192 TGAACAATGAAGCTTGTTTTGCTC 59.195 37.500 2.10 6.40 46.50 4.26
3081 3580 4.222145 TGCTCCCGTCTCATTTTAGTAGTT 59.778 41.667 0.00 0.00 0.00 2.24
3082 3581 5.176592 GCTCCCGTCTCATTTTAGTAGTTT 58.823 41.667 0.00 0.00 0.00 2.66
3089 3589 9.719279 CCGTCTCATTTTAGTAGTTTACTCTAG 57.281 37.037 0.00 0.00 40.14 2.43
3126 3626 3.813724 TGCTAATCTCATCAATCTGCTGC 59.186 43.478 0.00 0.00 0.00 5.25
3142 3643 1.601430 GCTGCTTGCTGATACTTAGCC 59.399 52.381 3.71 0.00 40.42 3.93
3145 3646 2.131183 GCTTGCTGATACTTAGCCGAG 58.869 52.381 0.00 0.00 40.42 4.63
3184 3686 6.260936 GTCCTAATATTTCCACCACACTGATG 59.739 42.308 0.00 0.00 0.00 3.07
3185 3687 6.069673 TCCTAATATTTCCACCACACTGATGT 60.070 38.462 0.00 0.00 40.80 3.06
3208 3710 5.049818 GTGATACAGTGATAGCATGCTTTCC 60.050 44.000 28.02 19.37 0.00 3.13
3223 3725 9.388506 AGCATGCTTTCCTATGTTGATATATAC 57.611 33.333 16.30 0.00 0.00 1.47
3232 3737 9.657419 TCCTATGTTGATATATACATGTTGCAG 57.343 33.333 2.30 1.71 36.46 4.41
3245 3750 1.251251 GTTGCAGCCATCCAGAAACT 58.749 50.000 0.00 0.00 0.00 2.66
3246 3751 1.068055 GTTGCAGCCATCCAGAAACTG 60.068 52.381 0.00 0.00 0.00 3.16
3264 3769 1.267806 CTGGTGATTGTTCTGTGCACC 59.732 52.381 15.69 0.00 46.97 5.01
3272 3777 1.300931 TTCTGTGCACCGAGTCTGC 60.301 57.895 15.69 0.00 35.03 4.26
3280 3785 1.661112 GCACCGAGTCTGCAATTCTAC 59.339 52.381 0.00 0.00 34.56 2.59
3286 3791 2.600867 GAGTCTGCAATTCTACGAGTGC 59.399 50.000 0.00 0.00 37.51 4.40
3287 3792 2.232452 AGTCTGCAATTCTACGAGTGCT 59.768 45.455 0.00 0.00 37.87 4.40
3293 3798 7.271653 GTCTGCAATTCTACGAGTGCTATATAC 59.728 40.741 0.00 0.00 37.87 1.47
3294 3799 6.387465 TGCAATTCTACGAGTGCTATATACC 58.613 40.000 0.00 0.00 37.87 2.73
3298 3803 7.762588 ATTCTACGAGTGCTATATACCTGTT 57.237 36.000 0.00 0.00 0.00 3.16
3299 3804 6.798315 TCTACGAGTGCTATATACCTGTTC 57.202 41.667 0.00 0.00 0.00 3.18
3300 3805 4.850347 ACGAGTGCTATATACCTGTTCC 57.150 45.455 0.00 0.00 0.00 3.62
3301 3806 4.212716 ACGAGTGCTATATACCTGTTCCA 58.787 43.478 0.00 0.00 0.00 3.53
3302 3807 4.647853 ACGAGTGCTATATACCTGTTCCAA 59.352 41.667 0.00 0.00 0.00 3.53
3303 3808 5.128171 ACGAGTGCTATATACCTGTTCCAAA 59.872 40.000 0.00 0.00 0.00 3.28
3304 3809 6.046593 CGAGTGCTATATACCTGTTCCAAAA 58.953 40.000 0.00 0.00 0.00 2.44
3305 3810 6.706270 CGAGTGCTATATACCTGTTCCAAAAT 59.294 38.462 0.00 0.00 0.00 1.82
3306 3811 7.870954 CGAGTGCTATATACCTGTTCCAAAATA 59.129 37.037 0.00 0.00 0.00 1.40
3307 3812 9.555727 GAGTGCTATATACCTGTTCCAAAATAA 57.444 33.333 0.00 0.00 0.00 1.40
3308 3813 9.561069 AGTGCTATATACCTGTTCCAAAATAAG 57.439 33.333 0.00 0.00 0.00 1.73
3309 3814 8.784043 GTGCTATATACCTGTTCCAAAATAAGG 58.216 37.037 0.00 0.00 0.00 2.69
3310 3815 8.499406 TGCTATATACCTGTTCCAAAATAAGGT 58.501 33.333 0.00 0.00 0.00 3.50
3311 3816 9.000486 GCTATATACCTGTTCCAAAATAAGGTC 58.000 37.037 0.00 0.00 0.00 3.85
3314 3819 5.319043 ACCTGTTCCAAAATAAGGTCTCA 57.681 39.130 0.00 0.00 0.00 3.27
3315 3820 5.701224 ACCTGTTCCAAAATAAGGTCTCAA 58.299 37.500 0.00 0.00 0.00 3.02
3316 3821 5.535030 ACCTGTTCCAAAATAAGGTCTCAAC 59.465 40.000 0.00 0.00 0.00 3.18
3317 3822 5.770162 CCTGTTCCAAAATAAGGTCTCAACT 59.230 40.000 0.00 0.00 0.00 3.16
3318 3823 6.265422 CCTGTTCCAAAATAAGGTCTCAACTT 59.735 38.462 0.00 0.00 0.00 2.66
3319 3824 7.201911 CCTGTTCCAAAATAAGGTCTCAACTTT 60.202 37.037 0.00 0.00 0.00 2.66
3320 3825 7.488322 TGTTCCAAAATAAGGTCTCAACTTTG 58.512 34.615 0.00 0.00 0.00 2.77
3321 3826 7.123547 TGTTCCAAAATAAGGTCTCAACTTTGT 59.876 33.333 0.00 0.00 0.00 2.83
3322 3827 8.626526 GTTCCAAAATAAGGTCTCAACTTTGTA 58.373 33.333 0.00 0.00 0.00 2.41
3323 3828 8.161699 TCCAAAATAAGGTCTCAACTTTGTAC 57.838 34.615 0.00 0.00 0.00 2.90
3324 3829 7.996644 TCCAAAATAAGGTCTCAACTTTGTACT 59.003 33.333 0.00 0.00 0.00 2.73
3325 3830 9.280174 CCAAAATAAGGTCTCAACTTTGTACTA 57.720 33.333 0.00 0.00 0.00 1.82
3331 3836 8.803397 AAGGTCTCAACTTTGTACTAACTTTT 57.197 30.769 0.00 0.00 0.00 2.27
3332 3837 8.209917 AGGTCTCAACTTTGTACTAACTTTTG 57.790 34.615 0.00 0.00 0.00 2.44
3333 3838 7.827729 AGGTCTCAACTTTGTACTAACTTTTGT 59.172 33.333 0.00 0.00 0.00 2.83
3334 3839 9.101655 GGTCTCAACTTTGTACTAACTTTTGTA 57.898 33.333 0.00 0.00 0.00 2.41
3335 3840 9.911980 GTCTCAACTTTGTACTAACTTTTGTAC 57.088 33.333 6.73 6.73 39.00 2.90
3336 3841 9.656040 TCTCAACTTTGTACTAACTTTTGTACA 57.344 29.630 10.97 10.97 43.82 2.90
3359 3864 7.971455 ACAAAGTTGTACTAAAGTTGAGACAC 58.029 34.615 0.00 0.00 40.16 3.67
3360 3865 7.822822 ACAAAGTTGTACTAAAGTTGAGACACT 59.177 33.333 0.00 0.00 40.16 3.55
3361 3866 8.665685 CAAAGTTGTACTAAAGTTGAGACACTT 58.334 33.333 0.00 0.00 38.74 3.16
3362 3867 9.880157 AAAGTTGTACTAAAGTTGAGACACTTA 57.120 29.630 0.00 0.00 35.87 2.24
3369 3874 8.166422 ACTAAAGTTGAGACACTTATTTTGGG 57.834 34.615 0.00 0.00 35.87 4.12
3370 3875 7.996644 ACTAAAGTTGAGACACTTATTTTGGGA 59.003 33.333 0.00 0.00 35.87 4.37
3371 3876 7.839680 AAAGTTGAGACACTTATTTTGGGAT 57.160 32.000 0.00 0.00 35.87 3.85
3372 3877 6.824305 AGTTGAGACACTTATTTTGGGATG 57.176 37.500 0.00 0.00 0.00 3.51
3373 3878 5.711976 AGTTGAGACACTTATTTTGGGATGG 59.288 40.000 0.00 0.00 0.00 3.51
3374 3879 5.512942 TGAGACACTTATTTTGGGATGGA 57.487 39.130 0.00 0.00 0.00 3.41
3375 3880 5.500234 TGAGACACTTATTTTGGGATGGAG 58.500 41.667 0.00 0.00 0.00 3.86
3376 3881 4.860022 AGACACTTATTTTGGGATGGAGG 58.140 43.478 0.00 0.00 0.00 4.30
3377 3882 3.954258 GACACTTATTTTGGGATGGAGGG 59.046 47.826 0.00 0.00 0.00 4.30
3378 3883 3.596046 ACACTTATTTTGGGATGGAGGGA 59.404 43.478 0.00 0.00 0.00 4.20
3379 3884 4.045334 ACACTTATTTTGGGATGGAGGGAA 59.955 41.667 0.00 0.00 0.00 3.97
3380 3885 5.211201 CACTTATTTTGGGATGGAGGGAAT 58.789 41.667 0.00 0.00 0.00 3.01
3381 3886 6.068498 ACACTTATTTTGGGATGGAGGGAATA 60.068 38.462 0.00 0.00 0.00 1.75
3382 3887 7.012607 CACTTATTTTGGGATGGAGGGAATAT 58.987 38.462 0.00 0.00 0.00 1.28
3383 3888 8.170061 CACTTATTTTGGGATGGAGGGAATATA 58.830 37.037 0.00 0.00 0.00 0.86
3384 3889 8.915438 ACTTATTTTGGGATGGAGGGAATATAT 58.085 33.333 0.00 0.00 0.00 0.86
3385 3890 9.193806 CTTATTTTGGGATGGAGGGAATATATG 57.806 37.037 0.00 0.00 0.00 1.78
3386 3891 6.544327 TTTTGGGATGGAGGGAATATATGT 57.456 37.500 0.00 0.00 0.00 2.29
3387 3892 6.544327 TTTGGGATGGAGGGAATATATGTT 57.456 37.500 0.00 0.00 0.00 2.71
3388 3893 6.544327 TTGGGATGGAGGGAATATATGTTT 57.456 37.500 0.00 0.00 0.00 2.83
3389 3894 7.655819 TTGGGATGGAGGGAATATATGTTTA 57.344 36.000 0.00 0.00 0.00 2.01
3414 3919 7.741027 TTATGGTAGGACTAGAAGATGTACG 57.259 40.000 0.00 0.00 0.00 3.67
3418 3923 7.966812 TGGTAGGACTAGAAGATGTACGTATA 58.033 38.462 0.00 0.00 0.00 1.47
3420 3925 9.447157 GGTAGGACTAGAAGATGTACGTATATT 57.553 37.037 6.26 0.00 0.00 1.28
3429 3934 7.438459 AGAAGATGTACGTATATTTGTTCCTGC 59.562 37.037 6.26 0.00 0.00 4.85
3437 3942 5.163561 CGTATATTTGTTCCTGCCATGGTTT 60.164 40.000 14.67 0.00 0.00 3.27
3486 3992 2.866156 CAAGTGGTATATCTGTGGTGCG 59.134 50.000 0.00 0.00 0.00 5.34
3505 4011 1.059692 CGTAACAGCGCAGTTCATCAG 59.940 52.381 22.09 6.44 33.07 2.90
3509 4015 2.430465 ACAGCGCAGTTCATCAGATTT 58.570 42.857 11.47 0.00 0.00 2.17
3513 4060 3.064545 AGCGCAGTTCATCAGATTTTAGC 59.935 43.478 11.47 0.00 0.00 3.09
3519 4066 6.252869 GCAGTTCATCAGATTTTAGCATGTTG 59.747 38.462 0.00 0.00 0.00 3.33
3527 4074 6.700960 TCAGATTTTAGCATGTTGTTTGGTTG 59.299 34.615 0.00 0.00 0.00 3.77
3533 4080 4.701765 AGCATGTTGTTTGGTTGCAATTA 58.298 34.783 0.59 0.00 35.79 1.40
3535 4082 5.179742 AGCATGTTGTTTGGTTGCAATTATG 59.820 36.000 0.59 0.00 35.79 1.90
3550 4097 4.953579 GCAATTATGGGGGAGTTTGAACTA 59.046 41.667 0.00 0.00 39.88 2.24
3562 4109 4.781934 AGTTTGAACTACCTGTCTTGCTT 58.218 39.130 0.00 0.00 37.52 3.91
3563 4110 4.576463 AGTTTGAACTACCTGTCTTGCTTG 59.424 41.667 0.00 0.00 37.52 4.01
3564 4111 2.494059 TGAACTACCTGTCTTGCTTGC 58.506 47.619 0.00 0.00 0.00 4.01
3567 4114 1.974236 ACTACCTGTCTTGCTTGCTCT 59.026 47.619 0.00 0.00 0.00 4.09
3568 4115 2.289320 ACTACCTGTCTTGCTTGCTCTG 60.289 50.000 0.00 0.00 0.00 3.35
3569 4116 0.471617 ACCTGTCTTGCTTGCTCTGT 59.528 50.000 0.00 0.00 0.00 3.41
3570 4117 1.694150 ACCTGTCTTGCTTGCTCTGTA 59.306 47.619 0.00 0.00 0.00 2.74
3571 4118 2.072298 CCTGTCTTGCTTGCTCTGTAC 58.928 52.381 0.00 0.00 0.00 2.90
3572 4119 2.072298 CTGTCTTGCTTGCTCTGTACC 58.928 52.381 0.00 0.00 0.00 3.34
3573 4120 1.270839 TGTCTTGCTTGCTCTGTACCC 60.271 52.381 0.00 0.00 0.00 3.69
3574 4121 1.055849 TCTTGCTTGCTCTGTACCCA 58.944 50.000 0.00 0.00 0.00 4.51
3578 4125 1.098050 GCTTGCTCTGTACCCATTGG 58.902 55.000 0.00 0.00 37.80 3.16
3589 4136 3.520317 TGTACCCATTGGAACCGTCTATT 59.480 43.478 3.62 0.00 34.81 1.73
3594 4141 4.142469 CCCATTGGAACCGTCTATTGTTTC 60.142 45.833 3.62 0.00 0.00 2.78
3595 4142 4.700213 CCATTGGAACCGTCTATTGTTTCT 59.300 41.667 0.00 0.00 0.00 2.52
3680 4229 5.344128 GCATTGCTGTATCTGTTTTCAGTTG 59.656 40.000 0.16 0.00 46.98 3.16
3700 4249 6.921857 CAGTTGATGAAGTGAAAATTGCTCTT 59.078 34.615 0.00 0.00 34.81 2.85
3708 4257 6.749923 AGTGAAAATTGCTCTTATCTCACC 57.250 37.500 0.00 0.00 33.94 4.02
3725 4274 3.012518 TCACCTTAGTAGTCCGCTGTAC 58.987 50.000 0.00 0.00 0.00 2.90
3727 4276 3.015327 ACCTTAGTAGTCCGCTGTACTG 58.985 50.000 0.00 0.00 31.79 2.74
3732 4281 4.803098 AGTAGTCCGCTGTACTGAAATT 57.197 40.909 3.61 0.00 0.00 1.82
3733 4282 5.148651 AGTAGTCCGCTGTACTGAAATTT 57.851 39.130 3.61 0.00 0.00 1.82
3757 4306 2.537401 GCTTGCCAATCTTCAATCTGC 58.463 47.619 0.00 0.00 0.00 4.26
3758 4307 2.165845 GCTTGCCAATCTTCAATCTGCT 59.834 45.455 0.00 0.00 0.00 4.24
3759 4308 3.379372 GCTTGCCAATCTTCAATCTGCTA 59.621 43.478 0.00 0.00 0.00 3.49
3760 4309 4.037684 GCTTGCCAATCTTCAATCTGCTAT 59.962 41.667 0.00 0.00 0.00 2.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 57 5.122239 TCAAACATCTCTTATTTGCAGACGG 59.878 40.000 0.00 0.00 34.09 4.79
75 77 2.021723 GCCACAACACCCTCTGTCAAA 61.022 52.381 0.00 0.00 30.29 2.69
150 155 5.008316 ACTTGTTTTTACTAGCGGTTGAAGG 59.992 40.000 2.41 0.00 0.00 3.46
151 156 6.056428 ACTTGTTTTTACTAGCGGTTGAAG 57.944 37.500 2.41 0.00 0.00 3.02
152 157 6.292274 CGTACTTGTTTTTACTAGCGGTTGAA 60.292 38.462 2.41 0.00 0.00 2.69
153 158 5.175491 CGTACTTGTTTTTACTAGCGGTTGA 59.825 40.000 2.41 0.00 0.00 3.18
154 159 5.368374 CGTACTTGTTTTTACTAGCGGTTG 58.632 41.667 0.00 0.00 0.00 3.77
155 160 4.448732 CCGTACTTGTTTTTACTAGCGGTT 59.551 41.667 0.00 0.00 0.00 4.44
192 203 4.148348 GCGAGCGTCATATAGAAAATTCGT 59.852 41.667 0.00 0.00 0.00 3.85
215 226 5.177327 GTGAAATAACAACAACCCAATGCAG 59.823 40.000 0.00 0.00 0.00 4.41
241 252 0.394938 TTGCTCGTTGGTTGGCTCTA 59.605 50.000 0.00 0.00 0.00 2.43
268 279 2.846827 ACTTGACTAAATGGGCTAGCCT 59.153 45.455 32.18 15.88 36.10 4.58
463 484 6.155827 AGTGCGAGCATTTTATTTAAAGCAA 58.844 32.000 0.00 0.00 32.54 3.91
465 486 6.528072 AGAAGTGCGAGCATTTTATTTAAAGC 59.472 34.615 7.24 0.00 0.00 3.51
466 487 9.554724 TTAGAAGTGCGAGCATTTTATTTAAAG 57.445 29.630 7.24 0.00 0.00 1.85
536 576 5.056480 GGGAACAAATTGGAAACCTGAAAG 58.944 41.667 0.00 0.00 0.00 2.62
537 577 4.471386 TGGGAACAAATTGGAAACCTGAAA 59.529 37.500 0.00 0.00 37.44 2.69
538 578 4.033709 TGGGAACAAATTGGAAACCTGAA 58.966 39.130 0.00 0.00 37.44 3.02
793 845 3.993614 GATGTGCATGGGCCGGACA 62.994 63.158 11.00 5.49 40.13 4.02
828 922 4.035102 GGGCTTCGAGTTGGGCCT 62.035 66.667 4.53 0.00 43.62 5.19
1053 1522 7.505585 TCCTTGGATTTGCTCTTCTTTTTCTTA 59.494 33.333 0.00 0.00 0.00 2.10
1629 2113 3.488721 GCAGCTTGCTCTCATAAATGGTG 60.489 47.826 0.00 0.00 40.96 4.17
2028 2512 3.515562 AGTCATGAGAACAACCTCCTCT 58.484 45.455 0.00 0.00 32.32 3.69
2031 2515 4.537135 TGTAGTCATGAGAACAACCTCC 57.463 45.455 7.44 0.00 32.32 4.30
2181 2665 1.968540 GAGTGCCACTGGACCAAGC 60.969 63.158 0.00 0.00 0.00 4.01
2190 2674 3.389329 TCTTCTTCTTCTTGAGTGCCACT 59.611 43.478 0.00 0.00 0.00 4.00
2199 2683 6.183360 CCTCAGCAATCATCTTCTTCTTCTTG 60.183 42.308 0.00 0.00 0.00 3.02
2217 2701 0.326522 TATCAAGGAGGCCCTCAGCA 60.327 55.000 13.90 0.00 43.48 4.41
2280 2764 2.290323 ACCAGTAGGAAGCACCACATTC 60.290 50.000 2.96 0.00 42.04 2.67
2362 2846 0.962356 CTTGGCACCACATCCTGTCC 60.962 60.000 0.00 0.00 0.00 4.02
2363 2847 0.250901 ACTTGGCACCACATCCTGTC 60.251 55.000 0.00 0.00 0.00 3.51
2403 2887 5.799213 TCCTCATCAGTCTTCCTCTTTTTC 58.201 41.667 0.00 0.00 0.00 2.29
2404 2888 5.832539 TCCTCATCAGTCTTCCTCTTTTT 57.167 39.130 0.00 0.00 0.00 1.94
2405 2889 5.486775 TCATCCTCATCAGTCTTCCTCTTTT 59.513 40.000 0.00 0.00 0.00 2.27
2642 3129 1.141881 GGAGCGACATCATCACCGT 59.858 57.895 0.00 0.00 0.00 4.83
2662 3149 2.365617 TCTTCTCAACTTCCACGCTCTT 59.634 45.455 0.00 0.00 0.00 2.85
2667 3154 1.063806 CGCTCTTCTCAACTTCCACG 58.936 55.000 0.00 0.00 0.00 4.94
2763 3250 7.920738 TCTTTTTCTTCTCCTTTTTCTTCTCG 58.079 34.615 0.00 0.00 0.00 4.04
2809 3299 6.607004 AACTACAAGCTCTACCTATTGTGT 57.393 37.500 0.00 0.00 36.59 3.72
2826 3316 3.688694 AACCAGCCGATGTAAACTACA 57.311 42.857 0.00 0.00 43.80 2.74
2846 3336 6.836007 TCCCACAATTGCAACCATATAACATA 59.164 34.615 0.00 0.00 0.00 2.29
2854 3344 2.705127 ACTTTCCCACAATTGCAACCAT 59.295 40.909 0.00 0.00 0.00 3.55
2890 3380 2.741878 CGAGGGTGTGCAGGGTAAATAG 60.742 54.545 0.00 0.00 0.00 1.73
2902 3392 0.249120 TAGATGGTTGCGAGGGTGTG 59.751 55.000 0.00 0.00 0.00 3.82
2905 3395 1.204146 ACATAGATGGTTGCGAGGGT 58.796 50.000 0.00 0.00 0.00 4.34
2908 3398 2.408050 GCCTACATAGATGGTTGCGAG 58.592 52.381 0.00 0.00 0.00 5.03
2910 3400 1.070758 AGGCCTACATAGATGGTTGCG 59.929 52.381 1.29 0.00 0.00 4.85
2911 3401 2.938956 AGGCCTACATAGATGGTTGC 57.061 50.000 1.29 0.00 0.00 4.17
2912 3402 5.869579 ACATTAGGCCTACATAGATGGTTG 58.130 41.667 20.48 3.20 0.00 3.77
2914 3404 6.323737 AGTACATTAGGCCTACATAGATGGT 58.676 40.000 20.48 11.52 0.00 3.55
2916 3406 8.346300 CGATAGTACATTAGGCCTACATAGATG 58.654 40.741 13.46 15.42 0.00 2.90
2917 3407 8.453238 CGATAGTACATTAGGCCTACATAGAT 57.547 38.462 13.46 0.00 0.00 1.98
2918 3408 7.860918 CGATAGTACATTAGGCCTACATAGA 57.139 40.000 13.46 0.00 0.00 1.98
2967 3466 7.604545 GGGAAATCTCTCTAATTACCATAGCAC 59.395 40.741 0.00 0.00 0.00 4.40
3022 3521 7.011763 GCATCAACTGATAACAGATAGAGCAAA 59.988 37.037 7.05 0.00 46.03 3.68
3081 3580 7.883311 AGCAAGCCTAAAATTTCACTAGAGTAA 59.117 33.333 0.00 0.00 0.00 2.24
3082 3581 7.394816 AGCAAGCCTAAAATTTCACTAGAGTA 58.605 34.615 0.00 0.00 0.00 2.59
3089 3589 7.538575 TGAGATTAGCAAGCCTAAAATTTCAC 58.461 34.615 0.00 0.00 39.36 3.18
3098 3598 6.228995 CAGATTGATGAGATTAGCAAGCCTA 58.771 40.000 0.00 0.00 33.24 3.93
3099 3599 5.064558 CAGATTGATGAGATTAGCAAGCCT 58.935 41.667 0.00 0.00 33.24 4.58
3126 3626 2.101582 ACCTCGGCTAAGTATCAGCAAG 59.898 50.000 0.00 0.00 40.95 4.01
3142 3643 3.354467 AGGACTGGTAAACTCTACCTCG 58.646 50.000 2.81 0.00 38.39 4.63
3145 3646 9.761504 GAAATATTAGGACTGGTAAACTCTACC 57.238 37.037 0.00 0.00 38.07 3.18
3184 3686 5.049818 GGAAAGCATGCTATCACTGTATCAC 60.050 44.000 23.00 0.25 0.00 3.06
3185 3687 5.059161 GGAAAGCATGCTATCACTGTATCA 58.941 41.667 23.00 0.00 0.00 2.15
3186 3688 5.303971 AGGAAAGCATGCTATCACTGTATC 58.696 41.667 23.00 8.01 0.00 2.24
3187 3689 5.301835 AGGAAAGCATGCTATCACTGTAT 57.698 39.130 23.00 0.00 0.00 2.29
3188 3690 4.760530 AGGAAAGCATGCTATCACTGTA 57.239 40.909 23.00 0.00 0.00 2.74
3189 3691 3.641434 AGGAAAGCATGCTATCACTGT 57.359 42.857 23.00 0.00 0.00 3.55
3190 3692 5.061853 ACATAGGAAAGCATGCTATCACTG 58.938 41.667 23.00 16.08 40.36 3.66
3191 3693 5.301835 ACATAGGAAAGCATGCTATCACT 57.698 39.130 23.00 18.25 40.36 3.41
3208 3710 8.393366 GGCTGCAACATGTATATATCAACATAG 58.607 37.037 0.00 0.00 34.61 2.23
3223 3725 1.179152 TTCTGGATGGCTGCAACATG 58.821 50.000 8.17 0.00 0.00 3.21
3225 3727 0.961019 GTTTCTGGATGGCTGCAACA 59.039 50.000 0.50 0.00 0.00 3.33
3226 3728 1.068055 CAGTTTCTGGATGGCTGCAAC 60.068 52.381 0.50 0.00 0.00 4.17
3245 3750 1.317613 GGTGCACAGAACAATCACCA 58.682 50.000 20.43 0.00 44.79 4.17
3246 3751 0.238289 CGGTGCACAGAACAATCACC 59.762 55.000 20.43 0.00 42.67 4.02
3252 3757 0.249447 CAGACTCGGTGCACAGAACA 60.249 55.000 20.21 0.00 0.00 3.18
3264 3769 2.848887 CACTCGTAGAATTGCAGACTCG 59.151 50.000 0.00 0.00 34.09 4.18
3272 3777 7.594714 ACAGGTATATAGCACTCGTAGAATTG 58.405 38.462 14.11 2.07 34.09 2.32
3280 3785 4.848562 TGGAACAGGTATATAGCACTCG 57.151 45.455 14.11 2.63 0.00 4.18
3293 3798 5.770162 AGTTGAGACCTTATTTTGGAACAGG 59.230 40.000 0.00 0.00 42.39 4.00
3294 3799 6.884280 AGTTGAGACCTTATTTTGGAACAG 57.116 37.500 0.00 0.00 42.39 3.16
3298 3803 7.996644 AGTACAAAGTTGAGACCTTATTTTGGA 59.003 33.333 0.00 0.00 0.00 3.53
3299 3804 8.166422 AGTACAAAGTTGAGACCTTATTTTGG 57.834 34.615 0.00 0.00 0.00 3.28
3305 3810 9.895138 AAAAGTTAGTACAAAGTTGAGACCTTA 57.105 29.630 0.00 0.00 0.00 2.69
3306 3811 8.674607 CAAAAGTTAGTACAAAGTTGAGACCTT 58.325 33.333 0.00 0.00 0.00 3.50
3307 3812 7.827729 ACAAAAGTTAGTACAAAGTTGAGACCT 59.172 33.333 0.00 0.00 0.00 3.85
3308 3813 7.982224 ACAAAAGTTAGTACAAAGTTGAGACC 58.018 34.615 0.00 0.00 0.00 3.85
3309 3814 9.911980 GTACAAAAGTTAGTACAAAGTTGAGAC 57.088 33.333 11.59 0.00 40.16 3.36
3310 3815 9.656040 TGTACAAAAGTTAGTACAAAGTTGAGA 57.344 29.630 15.14 0.00 45.30 3.27
3333 3838 9.090692 GTGTCTCAACTTTAGTACAACTTTGTA 57.909 33.333 0.00 0.00 42.35 2.41
3334 3839 7.822822 AGTGTCTCAACTTTAGTACAACTTTGT 59.177 33.333 0.00 0.00 44.86 2.83
3335 3840 8.197988 AGTGTCTCAACTTTAGTACAACTTTG 57.802 34.615 0.00 0.00 0.00 2.77
3336 3841 8.788325 AAGTGTCTCAACTTTAGTACAACTTT 57.212 30.769 0.00 0.00 37.05 2.66
3343 3848 9.280174 CCCAAAATAAGTGTCTCAACTTTAGTA 57.720 33.333 0.00 0.00 40.77 1.82
3344 3849 7.996644 TCCCAAAATAAGTGTCTCAACTTTAGT 59.003 33.333 0.00 0.00 40.77 2.24
3345 3850 8.391075 TCCCAAAATAAGTGTCTCAACTTTAG 57.609 34.615 0.00 0.00 40.77 1.85
3346 3851 8.792633 CATCCCAAAATAAGTGTCTCAACTTTA 58.207 33.333 0.00 0.00 40.77 1.85
3347 3852 7.255942 CCATCCCAAAATAAGTGTCTCAACTTT 60.256 37.037 0.00 0.00 40.77 2.66
3348 3853 6.209391 CCATCCCAAAATAAGTGTCTCAACTT 59.791 38.462 0.00 0.00 42.89 2.66
3349 3854 5.711976 CCATCCCAAAATAAGTGTCTCAACT 59.288 40.000 0.00 0.00 0.00 3.16
3350 3855 5.710099 TCCATCCCAAAATAAGTGTCTCAAC 59.290 40.000 0.00 0.00 0.00 3.18
3351 3856 5.886609 TCCATCCCAAAATAAGTGTCTCAA 58.113 37.500 0.00 0.00 0.00 3.02
3352 3857 5.500234 CTCCATCCCAAAATAAGTGTCTCA 58.500 41.667 0.00 0.00 0.00 3.27
3353 3858 4.884164 CCTCCATCCCAAAATAAGTGTCTC 59.116 45.833 0.00 0.00 0.00 3.36
3354 3859 4.325344 CCCTCCATCCCAAAATAAGTGTCT 60.325 45.833 0.00 0.00 0.00 3.41
3355 3860 3.954258 CCCTCCATCCCAAAATAAGTGTC 59.046 47.826 0.00 0.00 0.00 3.67
3356 3861 3.596046 TCCCTCCATCCCAAAATAAGTGT 59.404 43.478 0.00 0.00 0.00 3.55
3357 3862 4.249638 TCCCTCCATCCCAAAATAAGTG 57.750 45.455 0.00 0.00 0.00 3.16
3358 3863 4.965283 TTCCCTCCATCCCAAAATAAGT 57.035 40.909 0.00 0.00 0.00 2.24
3359 3864 9.193806 CATATATTCCCTCCATCCCAAAATAAG 57.806 37.037 0.00 0.00 0.00 1.73
3360 3865 8.687180 ACATATATTCCCTCCATCCCAAAATAA 58.313 33.333 0.00 0.00 0.00 1.40
3361 3866 8.243403 ACATATATTCCCTCCATCCCAAAATA 57.757 34.615 0.00 0.00 0.00 1.40
3362 3867 7.119819 ACATATATTCCCTCCATCCCAAAAT 57.880 36.000 0.00 0.00 0.00 1.82
3363 3868 6.544327 ACATATATTCCCTCCATCCCAAAA 57.456 37.500 0.00 0.00 0.00 2.44
3364 3869 6.544327 AACATATATTCCCTCCATCCCAAA 57.456 37.500 0.00 0.00 0.00 3.28
3365 3870 6.544327 AAACATATATTCCCTCCATCCCAA 57.456 37.500 0.00 0.00 0.00 4.12
3366 3871 7.845537 ATAAACATATATTCCCTCCATCCCA 57.154 36.000 0.00 0.00 0.00 4.37
3388 3893 9.445878 CGTACATCTTCTAGTCCTACCATAATA 57.554 37.037 0.00 0.00 0.00 0.98
3389 3894 7.943447 ACGTACATCTTCTAGTCCTACCATAAT 59.057 37.037 0.00 0.00 0.00 1.28
3402 3907 9.961265 CAGGAACAAATATACGTACATCTTCTA 57.039 33.333 0.00 0.00 0.00 2.10
3410 3915 5.049680 CCATGGCAGGAACAAATATACGTAC 60.050 44.000 0.00 0.00 0.00 3.67
3411 3916 5.060506 CCATGGCAGGAACAAATATACGTA 58.939 41.667 0.00 0.00 0.00 3.57
3412 3917 3.882888 CCATGGCAGGAACAAATATACGT 59.117 43.478 0.00 0.00 0.00 3.57
3413 3918 3.882888 ACCATGGCAGGAACAAATATACG 59.117 43.478 13.04 0.00 0.00 3.06
3414 3919 5.852282 AACCATGGCAGGAACAAATATAC 57.148 39.130 13.04 0.00 0.00 1.47
3418 3923 4.136051 CAAAAACCATGGCAGGAACAAAT 58.864 39.130 13.04 0.00 0.00 2.32
3420 3925 2.768527 TCAAAAACCATGGCAGGAACAA 59.231 40.909 13.04 0.00 0.00 2.83
3437 3942 9.638239 GCTACACAGGAAAATCAATATTTCAAA 57.362 29.630 0.00 0.00 38.29 2.69
3462 3968 3.623060 CACCACAGATATACCACTTGTGC 59.377 47.826 0.00 0.00 0.00 4.57
3486 3992 2.337583 TCTGATGAACTGCGCTGTTAC 58.662 47.619 29.22 22.37 0.00 2.50
3494 4000 5.888105 ACATGCTAAAATCTGATGAACTGC 58.112 37.500 0.00 0.00 0.00 4.40
3495 4001 7.310664 ACAACATGCTAAAATCTGATGAACTG 58.689 34.615 0.00 0.00 0.00 3.16
3505 4011 5.236047 TGCAACCAAACAACATGCTAAAATC 59.764 36.000 0.00 0.00 37.86 2.17
3509 4015 3.808466 TGCAACCAAACAACATGCTAA 57.192 38.095 0.00 0.00 37.86 3.09
3513 4060 5.106634 CCCATAATTGCAACCAAACAACATG 60.107 40.000 0.00 0.00 34.05 3.21
3519 4066 2.569404 TCCCCCATAATTGCAACCAAAC 59.431 45.455 0.00 0.00 34.05 2.93
3527 4074 3.769300 AGTTCAAACTCCCCCATAATTGC 59.231 43.478 0.00 0.00 32.86 3.56
3533 4080 2.308866 CAGGTAGTTCAAACTCCCCCAT 59.691 50.000 0.00 0.00 35.78 4.00
3535 4082 1.703513 ACAGGTAGTTCAAACTCCCCC 59.296 52.381 0.00 0.00 35.78 5.40
3550 4097 0.471617 ACAGAGCAAGCAAGACAGGT 59.528 50.000 0.00 0.00 0.00 4.00
3562 4109 1.004277 GGTTCCAATGGGTACAGAGCA 59.996 52.381 0.00 0.00 36.26 4.26
3563 4110 1.751437 GGTTCCAATGGGTACAGAGC 58.249 55.000 0.00 0.00 36.26 4.09
3564 4111 1.278127 ACGGTTCCAATGGGTACAGAG 59.722 52.381 3.05 0.00 36.26 3.35
3567 4114 1.354101 AGACGGTTCCAATGGGTACA 58.646 50.000 0.00 0.00 36.26 2.90
3568 4115 3.832615 ATAGACGGTTCCAATGGGTAC 57.167 47.619 0.00 0.00 33.96 3.34
3569 4116 3.520317 ACAATAGACGGTTCCAATGGGTA 59.480 43.478 0.00 0.00 34.93 3.69
3570 4117 2.307686 ACAATAGACGGTTCCAATGGGT 59.692 45.455 0.00 0.00 34.93 4.51
3571 4118 2.999331 ACAATAGACGGTTCCAATGGG 58.001 47.619 0.00 0.00 0.00 4.00
3572 4119 4.700213 AGAAACAATAGACGGTTCCAATGG 59.300 41.667 0.00 0.00 0.00 3.16
3573 4120 5.880054 AGAAACAATAGACGGTTCCAATG 57.120 39.130 0.00 0.00 0.00 2.82
3574 4121 7.166167 ACTAAGAAACAATAGACGGTTCCAAT 58.834 34.615 0.00 0.00 0.00 3.16
3578 4125 6.396450 AGGACTAAGAAACAATAGACGGTTC 58.604 40.000 0.00 0.00 0.00 3.62
3589 4136 9.750783 ACTCTACTACATTAGGACTAAGAAACA 57.249 33.333 0.00 0.00 0.00 2.83
3612 4159 8.422566 AGTGGCAGTAACCTAATAAAGATACTC 58.577 37.037 0.00 0.00 30.01 2.59
3613 4160 8.320338 AGTGGCAGTAACCTAATAAAGATACT 57.680 34.615 0.00 0.00 31.59 2.12
3614 4161 8.202137 TGAGTGGCAGTAACCTAATAAAGATAC 58.798 37.037 0.00 0.00 0.00 2.24
3616 4163 7.195374 TGAGTGGCAGTAACCTAATAAAGAT 57.805 36.000 0.00 0.00 0.00 2.40
3617 4164 6.614694 TGAGTGGCAGTAACCTAATAAAGA 57.385 37.500 0.00 0.00 0.00 2.52
3618 4165 6.879458 AGTTGAGTGGCAGTAACCTAATAAAG 59.121 38.462 0.00 0.00 0.00 1.85
3619 4166 6.653320 CAGTTGAGTGGCAGTAACCTAATAAA 59.347 38.462 0.00 0.00 0.00 1.40
3631 4178 2.486982 CCTCATTTCAGTTGAGTGGCAG 59.513 50.000 0.00 0.00 39.16 4.85
3664 4213 8.087982 TCACTTCATCAACTGAAAACAGATAC 57.912 34.615 0.00 0.00 43.20 2.24
3680 4229 8.671921 TGAGATAAGAGCAATTTTCACTTCATC 58.328 33.333 0.00 0.00 0.00 2.92
3692 4241 7.014808 GGACTACTAAGGTGAGATAAGAGCAAT 59.985 40.741 0.00 0.00 0.00 3.56
3700 4249 4.135306 CAGCGGACTACTAAGGTGAGATA 58.865 47.826 0.00 0.00 34.41 1.98
3708 4257 4.959596 TTCAGTACAGCGGACTACTAAG 57.040 45.455 0.00 0.00 0.00 2.18
3757 4306 6.920758 GGTTAACACTATCAGCAGACAGATAG 59.079 42.308 8.10 7.66 44.10 2.08
3758 4307 6.607600 AGGTTAACACTATCAGCAGACAGATA 59.392 38.462 8.10 0.00 0.00 1.98
3759 4308 5.423610 AGGTTAACACTATCAGCAGACAGAT 59.576 40.000 8.10 0.00 0.00 2.90
3760 4309 4.772624 AGGTTAACACTATCAGCAGACAGA 59.227 41.667 8.10 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.